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Date: Tue, 29 Aug 2000 22:49:23 -0700
From: UCSC Computational Biology <farmer@cse.ucsc.edu>
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Subject: T0127(target 99 alignment)
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The following is the Target99 alignment in the formats you requested.

Citation:  
  K. Karplus, C. Barrett, and R. Hughey,
  Hidden Markov Models for Detecting Remote Protein Homologies,
  Bioinformatics, 1998, vol. 14, no. 10, pp. 846-856. 
  http://www.cse.ucsc.edu/resesarch/compbio/HMM-apps
--------------------------------------------------------

For questions or problems, please see the SAM-T99 FAQ at

http://www.cse.ucsc.edu/research/compbio/HMM-apps/sam-t99-faq.html

or email us at sam-info@cse.ucsc.edu


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>T0127
MTTAVARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKST
AVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVG
ALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGL
SIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKA
FLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARA
LAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVEETLP


>gi|2851559|sp|P48101|CHLI_CYAPA_3:344   MAGNESIUM-CHELATASE SUBUNIT CHLI (MG-PROTOPORPHYRIN IX CHELATASE)
gi|7484257|pir||T06902 probable protoporphyrin IX magnesium chelatase (EC 4.99.1.-) - Cyanophora paradoxa cyanelle
gi|1016158|gb|AAA81245.1| (U30821) ChlI [Cyanophora paradoxa]
mk--------------NNNRPIFPFTAIVGQEEMKLALLLNIVDPKIGGV
MIMGDRGTGKSTTIRALADLLPEIDIVANDPFNSHPTDIELMSDNVRqlk
eNGeeiSLIQKKVPMIDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLA
QANRGILYVDEVNLLDDHLVDILLDSAASGWNTVEREGISIRHPARFVLV
GSGNPEEGELRPQLLDRFGMHAEIRTVKDPTLRVQIVEERSEFDRSPEDF
LQEYKLQQEVLRQRIINAQQQLNNVQLNYEIKVKISQVCSELDVDGLRGD
IVTNRAAKALAAFEGRDEVTVDDVLRIITLCLRHRLRKDPLEEIDSGQKV
EKVFQRIF-snl
>gi|3334149|sp|O22436|CHLI_TOBAC_79:417   MAGNESIUM-CHELATASE SUBUNIT CHLI PRECURSOR (MG-PROTOPORPHYRIN IX CHELATASE)
gi|7489192|pir||T01790 protoporphyrin IX magnesium chelatase (EC 4.99.1.-) chlI - common tobacco
gi|2323329|gb|AAB97153.1| (AF014053) Mg protoporphyrin chelatase subunit [Nicotiana tabacum]
avfslfpssgqsqgrkfyggirvpvkkgrsqfhvaisnvateinllknrv
---------RNLLEESQRPVYPFAAIVGQDEMKLCLLLNVIDPKIGGVMI
MGDRGTGKSTTVRSLVDLLPEIKVISGDPFNSDPDDQEVMSAEVRDKlrs
gqqlPISRTKINMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKA
NRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGISISHPARFILIGS
GNPEEGELRPQLLDRFGMHAQVGTVRDAELRVKIVEERARFDKNPKEFRE
SYKAEQEKLQNQIDSARNALSAVTIDHDLRVKISKVCAELNVDGLRGDIV
TNRAARALAALKGRDKVTPEDIATVIPNCLRHRLRKDPLESIDSGVLV--
-------vekfyevfa
>gi|3334145|sp|Q39516|CHLI_GUITH_4:349   MAGNESIUM-CHELATASE SUBUNIT CHLI (MG-PROTOPORPHYRIN IX CHELATASE)
gi|541529|pir||S37138 protoporphyrin IX magnesium chelatase (EC 4.99.1.-) - Cryptomonas sp
gi|3602975|gb|AAC35636.1| (AF041468) putative Mg chelatase [Guillardia theta]
mti----------NITKTKERPVFPFTAIVGQEEMKLALTLNVIDPKIGG
VIIMGDRGTGKSTTIRAITDILPEIPIVENDPFNSHPQDFDLMSDEVRsr
iekgeSIPSVMKKVSMIDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLL
AKANRGILYVDEVNLLDDHLVDILLDSAASGWNTVEREGISIRHPARFVL
VGSGNPEEGELRPQLLDRFGMHSEIRTVRDPELRVKIVEQRSEFDKNPSA
CLETYKNQQTEFKQRIIQAQKVLPTVELDYDLRIRISKICGELDVDGLRG
DIVTNRAAKAHAAFNGKQTVTVDDIKAVITMCLRHRLRKDPLETIDSGSK
VQKVFEDIF-adlm
>gi|117238|sp|P16127|CHLI_ARATH_85:423   MAGNESIUM-CHELATASE SUBUNIT CHLI PRECURSOR (PROTEIN CS/CH-42) (MG-PROTOPORPHYRIN IX CHELATASE)
gi|81656|pir||S12785 protein ch-42 precursor, chloroplast - Arabidopsis thaliana
gi|1020100|emb|CAA62754.1| (X91411) protoporphyrin-IX Mg-chetalase [Arabidopsis thaliana]
gi|2832653|emb|CAA16728.1| (AL021710) protein ch-42 precursor, chloroplast [Arabidopsis thaliana]
gi|4490290|emb|CAB38561.1| (X51799) chloroplast protein [Arabidopsis thaliana]
gi|7268641|emb|CAB78850.1| (AL161548) protein ch-42 precursor, chloroplast [Arabidopsis thaliana]
gi|228771|prf||1811226A ccsA gene [Euglena gracilis]
gklfgsklnagiqirpkknrsryhvsvmnvateinsteqvvgkfdskksa
-----------------RPVYPFAAIVGQDEMKLCLLLNVIDPKIGGVMI
MGDRGTGKSTTVRSLVDLLPEINVVAGDPYNSDPIDPEFMGVEVRervek
geQVPVIATKINMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKA
NRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGISISHPARFILIGS
GNPEEGELRPQLLDRFGMHAQVGTVRDADLRVKIVEERARFDSNPKDFRD
TYKTEQDKLQDQISTARANLSSVQIDRELKVKISRVCSELNVDGLRGDIV
TNRAAKALAALKGKDRVTPDDVATVIPNCLRHRLRKDPLESIDSGVLVSE
KFAEIF-s
>gi|399250|sp|P31205|CHLI_EUGGR_6:346   MAGNESIUM-CHELATASE SUBUNIT CHLI (MG-PROTOPORPHYRIN IX CHELATASE)
gi|419715|pir||S34494 ccsA protein - Euglena gracilis chloroplast
gi|12570|emb|CAA46470.1| (X65484) ccs protein [Euglena gracilis]
gi|295952|emb|CAA50075.1| (X70810) ccsA [Euglena gracilis]
mnkkt---------------NERPVFPFTSIVGQEEMKLSLILNVIDPKI
GGVMIMGDRGTGKSTIVRALVDLLPPIDVIENDPYNSDPYDTELMSDDVL
ekikkneKVSIIQVKTPMVDLPLGGTEDRVCGTIDIEKAISEGKKAFEPG
LLAQANRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGVSICHPARF
ILVGSGNPEEGELRPQLLDRFGMHAQIKTLKEPALRVKIVQQRELFEKSP
KEFKEKYKEEQNKLMEKIINARKKLKNIIIKYELLEKISQICSELNVDGL
RGDMVTSRAAKALVAFEDRTEVTPKDIFTVITLCLRHRLRKDPLESIDSG
YKVQETFKKVF-ny
>gi|2506284|sp|P51634|CHLI_SYNY3_12:351   MAGNESIUM-CHELATASE SUBUNIT CHLI (MG-PROTOPORPHYRIN IX CHELATASE)
gi|7470817|pir||S75252 protoporphyrin IX magnesium chelatase chain chlI-related protein - Synechocystis sp. (strain PCC 6803)
gi|1652243|dbj|BAA17166.1| (D90904) Mg-protoporhyrin IX [Synechocystis sp.]
mtatlaapskt----------------RRVVFPFTAIVGQDEMKLALLLN
VIDPKIGGVMIMGDRGTGKSTTIRALADLLPEIEVVANDPFNSSPSDPEM
MSEEVRirvdsqePLSIVKKKVTMVDLPLGATEDRVCGTIDIEKALSEGV
KAFEPGLLAKANRGILYVDEVNLLDDHLVDVLLDSAAGGWNTVEREGISI
RHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVREPELRVKIVEQRT
EFDQNPHPFCDQYQTEQEALQAKIVNAQNLLPQVTIDYDYRVKVSEVCAE
LDVDGLRGDIVTNRAAKALAAFEGRTEVTVDDISRVIVLCLRHRLRKDPL
ESIDSGSKVEKVFKRVF-gvvdea
>gi|3334150|sp|P93162|CHLI_SOYBN_80:416   MAGNESIUM-CHELATASE SUBUNIT CHLI PRECURSOR (MG-PROTOPORPHYRIN IX CHELATASE)
gi|2129847|pir||JC4312 chlorophyll magnesium chelatase (EC 4.99.1.-) - soybean chloroplast
gi|1732469|dbj|BAA08291.1| (D45857) Mg chelatase subunit (46 kD) [Glycine max]
lsltsgqnygrkfyggigihgikgraqlsvtnvatevnsveqaqsiaske
---------------SQRPVYPFSAIVGQDEMKLCLLLNVIDPKIGGVMI
MGDRGTGKSTTVRSLVDLLPEIKVVAGDPYNSDPQDPEFMGVEVRervlQ
GeelSVVLTKINMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKA
NRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGISISHPARFILIGS
GNPEEGELRPQLLDRFGMHAQVGTVRDAELRVKIVEERGRFDKNPKEFRD
SYKAEQEKLQQQITSARSVLSSVQIDQDLKVKISKVCAELNVDGLRGDIV
TNRAAKALAALKGRDNVSAEDIATVIPNCLRHRLRKDPLESIDSGLLVTE
KF-----yevfs
>gi|1705817|sp|P51394|CHLI_PORPU_13:351   MAGNESIUM-CHELATASE SUBUNIT CHLI (MG-PROTOPORPHYRIN IX CHELATASE)
gi|2147641|pir||S73315 protoporphyrin IX magnesium chelatase (EC 4.99.1.-) chlI - red alga (Porphyra purpurea) chloroplast
gi|1276860|gb|AAC08280.1| (U38804) magnesium chelatase subunit [Porphyra purpurea]
mnlsikenketv-----------------RPVFPFTAIVGQEEMKLALML
NVIDPKIGGVMIMGDRGTGKSTTIRAIADLLPKIEIVKDDLFNSHPSDVD
LMSDENKhalqngiNIDKAYIKVPMVDLPLGATEDRVCGTIDIEKALTEG
VKTFEPGLLAKANRGILYVDEVNLLDDHLVDILLDSAASGWNTVEREGIS
VRHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELRVQIVEQR
TNFDQDPKKCIENCAKDQIKLKQQIADAQLLLSTITIDYDLRVKISQVCG
ELDVDGLRGDIVTNRAAKAYAAFNGQQTVNSSDISKVITLCLRHRLRKDP
LESMDSGEKVEKVFNKVF-nleei
>gi|1345781|sp|P49469|CHLI_ODOSI_12:349   MAGNESIUM-CHELATASE SUBUNIT CHLI (MG-PROTOPORPHYRIN IX CHELATASE)
gi|7484333|pir||S78304 protoporphyrin IX magnesium chelatase (EC 4.99.1.-) chlI - Odontella sinensis chloroplast
gi|1185194|emb|CAA91677.1| (Z67753) chlI [Odontella sinensis]
mvtqdlkkfst------------------PVFPFTAIVGQEEMKLALQLN
VIDPKIGGVMIMGDRGTGKSTTIRAIADLLPEIEVVKDDPFNSHKSDLDL
MGNEIKlaiqNGeslETELIKIPMVDLPLGATEDRVCGTIDIEKALTEGV
KAFEPGLLAKANRGILYVDEVNLLDDHLVDILLDSAASGWNTVEREGISI
RHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPILRVKVVEERT
SFDQTPMVWIENYEKQQQELRDRIVLAQKVLPTVELDYDLRVKISEVCSQ
LDVDGLRGDIVTNRAAKAHAAYHGRDKVTVEDIAKIITLCLRHRLRKDPL
ETIDSGNKVSKVFNEIF-eiee
>gi|9758940|dbj|BAB09321.1|_84:418   (AB016870) magnesium chelatase subunit of protochlorophyllide reductase [Arabidopsis thaliana]
pgsnfaeklsgriqfnpkknrsryhvsvmnvateinsveqakkidskesa
-----------------RPVYPFAAIVGQDEMKLCLLLNVIDPKIGGVMI
MGDRGTGKSTTVRSLVDLLPEITVVSGDPYNSDPRDPECMGKEVRekvqk
geELSVIETKINMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKA
NRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGISISHPARFILIGS
GNPEEGELRPQLLDRFGMHAQVGTVRDAELRVKIVEERARFDSNPKEFRE
TYQEEQLKLQEQITTARSNLSAVQIDQDLKVKISKVCAELDVDGLRGDMV
INRAARALAALQGRDQVTAEDVGIVIPNCLRHRLRKDPLESMDSGILVTE
KF-----yevft
>gi|114861|sp|P26239|BCHI_RHOCA_1:350   MAGNESIUM-CHELATASE 38 KDA SUBUNIT (MG-PROTOPORPHYRIN IX CHELATASE)
gi|46121|emb|CAA77538.1| (Z11165) 350 aa (38 kD) Mg chelatase subunit [Rhodobacter capsulatus]
MTTAVARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLV
FGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVI
RKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYI
DECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGD
LRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDM
DIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARA
LAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVEETLP
>gi|7259517|gb|AAF43818.1|AF166114_30_8:350   (AF166114) magnesium chelatase subunit of protochlorophyllide reductase [Mesostigma viride]
mstidli---------KNVTKREERPVYPFTAIVGQEEMKLALILNVIDP
DIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVTNDPFNSDPRDPDLMSDE
VRekinnkqEVPTIKTKIKIVDLPLGATEDRVCGTIDIERALNEGVKAFE
PGLLAKANRGILYVDEVNLLDDHLVDILLDSAASGWNTVEREGISVRHPA
KFILVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPDLRVKIVEERSSFDE
NPQVFRKAYEQSQEDVKSQIIQARKNLANVQMDRELRIKVSQICSELDVD
GLRGDLVINRAAKALAAFEGRDKVLPKDILKIITLCLRHRLRKDPLESID
SGSKVESKF-----yevfglleen
>gi|5880715|gb|AAD54808.1|AF137379_31_10:347   (AF137379) magnesium chelatase subunit of protochlorophyllide reductase [Nephroselmis olivacea]
mnatittse---------------QARPVFPFTAIVGQEEMKLALLLNVI
DPKIGGVMIMGDRGTGKSTTVRALVDLLPEIEVVENDPFNSHPYDPELMS
DEVRekvhrgeSIRTTTTKIPMVDLPLGATEDRVCGTIDIEKALTEGVKA
FEPGLLAKANRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGISICH
PARFILVGSGNPEEGELRPQLLDRFGMHAQIGTVREPELRVKIVEQRATF
DENPKEFRQSYETSQASLTSQLTEARARLRQVQTDYSLRVKISQVCSELN
VDGLRGDIVTNRAAKALAALEGRTSVSVEDIGRIITLCLRHRLRKDPLES
IDSGEKVQEVFS----ivfgtnpl
>gi|1144565|gb|AAC44138.1|_12:351   (U35144) Mg-Protoporhyrin IX [Synechocystis sp.]
mtatlaapskt----------------RRVVFPFTAIVGQDEMKLALLLN
VIDPKIGGVMIMGDRGTGKSTTIRALADLLPEIEVVANDPFNSSPSDPEM
MSEEVRirvdsqePLSIVKKKVTMVDLPLGATEDRVCGTIDIEKALSEGV
KAFEPGLLAKANRGILYVDEVNLLDDHLVDVLLDSTAGGWNTVEREGISI
RHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVREPELRVKIVEQRT
EFDQNPHPFCDQYQTEQEALQAKIVNAQNLLPQVTIDYDYRVKVSEVCAE
LDVDGLRGDIVTNRAAKPWPLLEGRTEVTVDDISRVIVLCLRHRLRKDPL
ESIDSGSKVEKVFKRVF-gvvdea
>gi|7524912|ref|NP_045914.1|_11:351   Mg-protoporhyrin IX
gi|3023488|sp|P56304|CHLI_CHLVU MAGNESIUM-CHELATASE SUBUNIT CHLI (MG-PROTOPORPHYRIN IX CHELATASE)
gi|7521334|pir||T07342 probable protoporphyrin IX magnesium chelatase (EC 4.99.1.-) - Chlorella vulgaris chloroplast
gi|2224506|dbj|BAA57990.1| (AB001684) Mg-protoporhyrin IX [Chlorella vulgaris]
mntvvensle---------------QARPVFPFTAIVGQEEMKLALILNV
IDPKIGGVMIMGDRGTGKSTTVRALVDLLPEIQVVADDPFNSDPKDPELM
SQEVRGRlqrketvPITTKKISMVDLPLGATEDRVCGTIDIEKALTEGVK
AFEPGLLAKANRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGISIS
HPARFILVGSGNPEEGELRPQLLDRFGMHAQIGTVKEPNLRVQIVEQRAN
FDAAPLEFRETYQDSQAQLGNQILEARNLLPQIQLEYDYRVKISQICSEL
DVDGLRGDLVTNRASKAIASFEGRTEVTPEDIFRVIPLCLRHRLRKDPLE
SIDSGDKVRDIFKRVF-gye
>gi|79528|pir||S04401_242:591   spheroidene monooxygenase - Rhodobacter capsulatus
gi|45997|emb|CAA36532.1| (X52291) crtA gene product (AA 1-591) [Rhodobacter capsulatus]
gi|227038|prf||1613414A crtA gene [Rhodobacter capsulatus]
dtphgkairaareegwfteelyarfrllgdrgkldgqgparqqslgkgnc
MTTAVARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLV
FGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVI
RKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYI
DECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGD
LRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDM
DIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARA
LAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVEETLP
>gi|2129099|pir||G64413_8:341   protoporphyrin IX magnesium chelatase (EC 4.99.1.-) homolog - Methanococcus jannaschii
gi|1591585|gb|AAB98913.1| (U67534) magnesium-chelatase subunit (chlI) [Methanococcus jannaschii]
mmimqyi--------------------YPFTAIVGQEKMKKALILNAINP
KIGGVLIRGEKGTAKSTAVRALADLLPEIEIVEGCPFNCDPNGNLCDICK
EKkkrgELKTTKKKMKVVNLPIGATEDRVIGTLDIEKAIKEGIKALEPGI
LAEANRNILYIDEVNLLDDHIIDVLLDAAAMGWNIIEREGVKIKHPSRFI
LVGTMNPEEGELRPQILDRFGLMVDVEGLNDVKDRVEVIKRVEEFNENPE
AFYKKFEEEQNKLRERIIKARELLNKVEISDDLLEFISKVCIELGIQTNR
ADITVVRTAKALAAYNGRTYVTIDDVKEAMELALPHRMRRKPFEPPqLNK
EKLEQMINEFK-qqnnkdneekeehkdddvkknmmk
>gi|3334129|sp|O50312|BCHI_CHLVI_3:339   MAGNESIUM-CHELATASE 38 KDA SUBUNIT (MG-PROTOPORPHYRIN IX CHELATASE)
gi|7469230|pir||T17192 probable protoporphyrin IX magnesium chelatase (EC 4.99.1.-), 38 K chain - Chlorobium vibrioforme
gi|2661854|emb|CAB06299.1| (Z83933) Mg-protoporphyrin IX chelatase, 38 kDa subunit [Chlorobium vibrioforme]
ma--------------------FPFTSIVGQEEMKLSLILNIIDPRIGGV
LVMGHRGTGKSTTVRALAEVLPLIDRVKGDIYNRTVEQYIEMESGVKgap
vlkasDVKTEKIPVPVVDLPLGATEDRVCGTIDIEKALTSGVKAFEPGLF
AQANRGFLYIDEVNLLDDHLVDVLLDVAASGKNVVEREGISIRHPARFVL
VGSGNPEEGELRPQLLDRFGLHARIITINDVAKRVEIVKLRREYDENPEA
FLKKVVRQQQKLQKEIVAAQKLLPKVSMDDSVLTDIARLCMALGIDGHRG
ELTITRTAHAFAALQGDTNVTMEHVRKIAGLCLRHRLRKDPLETVDAGEK
IDRELAKVL-geaevaa
>gi|7522126|pir||T31460_17:352   probable magnesium chelatase (EC 4.99.1.-) chain I bchI - Heliobacillus mobilis
gi|3820558|gb|AAC84031.1| (AF080002) Mg chelatase subunit I BchI [Heliobacillus mobilis]
mtevqnnqrdrqrqqi----------------KVPTYPFTAIIGQEEMKL
ALILNVIDPRIGGVMIMGDRGTGKSTTVRALAELLPEVPSVADCTFGCNP
HKTTEMCPSCRervaageDLPTVYRNTKVVDLPLGATEDRVCGTIDIQKA
LAEGVKAFEPGLLAQANRGFLYVDEVNLLDDHLVDVLLDSAASGVNVVER
EGISIRHPARFVLVGSGNPEEGELRPQLLDRFGLHAQIRTLRDAQKRVDI
IRSRSEFDNSPELFIDKFEAPQKELQAKVIKAQELLTDVTISDDVLLKIA
QLCIELEIDGHRGELVLARAAKALAAFEGRTEVIDEDVRRIAVLGLRHRL
RKDPLATMDNGRRVQEKV-----veilgaekaga
>gi|2621632|gb|AAB85062.1|_6:335   (AE000838) magnesium chelatase subunit ChlI [Methanobacterium thermoautotrophicum]
mknli--------------------FPFTAIVGQEKVKKALILNAINPGI
GGVLIKGDKGTGKTTAVRALADLLPSLRTVKGCPFNCDPDEPEGACDMCR
GGdvDVEYRKMRVVELPLGATEDRVVGSLDISKALTEGIKALEPGILAEA
NRNILYVDEINLLDDHLVDVLLDAAAYGVNTVEREGISLQHPSRFILVGT
MNPAEGELRPQLSDRIGIHINVETVTDIKQRVLIMKRRDEFEDDPEGFVE
RFAESQSSLRDRIMAARKLLPAVTIDDDLLELIARVCVDAGVDGHRSDIA
IVRTSKAIAAFNGRRRVREEDVEDAIVLVLGERIPGRSYNRENTRREMQR
AREEM--erereseedqgnsdsssggegsggsegeesgqesgassrgeas
gsgasas
>gi|7482808|pir||E69173_6:335   protoporphyrin IX magnesium chelatase (EC 4.99.1.-) ChlI - Methanobacterium thermoautotrophicum (strain Delta H)
mknli--------------------FPFTAIVGQEKVKKALILNAINPGI
GGVLIKGDKGTGKTTAVRALADLLPSLRTVKGCPFNCDPDEPEGACDMCR
GGdvDVEYRKMRVVELPLGATEDRVVGSLDISKALTEGIKALEPGILAEA
NRNILYVDEINLLDDHLVDVLLDAAAYGVNTVEREGISLQHPSRFILVGT
MNPAEGELRPQLSDRIGIHINVETVTDIKQRVLIMKRRDEFEDDPEGFVE
RFAESQSSLRDRIMAARKLLPAVTIDDDLLELIARVCVDAGVDGHRSDIA
IVRTSKAIAAFNGRRRVREEDVEDAIVLVLGERIPGRSYNRENTRREMQR
AREEM--erereseedqgnsdsssggegsggsegeesgqesgassrgevq
vrgfsfp
>gi|2493686|sp|Q32742|CHLI_OLILU_10:333   MAGNESIUM-CHELATASE SUBUNIT CHLI (MG-PROTOPORPHYRIN IX CHELATASE)
gi|421739|pir||S32166 ccsA protein - golden alga (Olisthodiscus luteus) chloroplast
gi|288236|emb|CAA79971.1| (Z21959) plastid protein [Heterosigma akashiwo]
mteekkinp------------------PIFPFTAIVGQEEMKLALQLNVI
DPKIGGVMIMGDRGTGKSTTIRAIADLLPEIEVVKDNQFNTAPSEDL---
----NEEIVKIKTPMIDLPLGATEDRVCGTIDIEKALTDGVKAFEPGLLA
KANRGILYVDEVNLLDDHLVDILLDSAASGLNTVEREGISIRHAARFVLV
GSGNPEEGELRPQLLDRFGMHAVIKTVKDPKLRVRVVEERTLFDLNPEEW
INKYREQQEALKTRIIAAQNLISSVTISDDFKLKISQVCSELDVDGLRGD
IVTNRAAKAYAAFNNRTEVEIGDIEKVITLCLRHRLRKDPLETIDSGDKV
QKLFEEIF-d
>gi|3913144|sp|O30819|BCHI_RHOSH_1:334   MAGNESIUM-CHELATASE 38 KDA SUBUNIT (MG-PROTOPORPHYRIN IX CHELATASE)
gi|2407303|gb|AAB97156.1| (AF017642) magnesium chelatase subunit BchI [Rhodobacter sphaeroides]
----------------MKKPFPFSAIVGQEQMKQAMVLTAIDPGIGGVLV
FGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVSSTTMI
ERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYI
DEVNLLEDHIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGE
LRPQLLDRFGLSVEVRSPRDVETRVEVITRRDAYDADHDAFMEKWGAEDM
QLRGRILGARAALPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARA
QAAFEGAEAVGRSHLRSVATMALSHRLRRDPLDEAGSVSRVERCVAEVLP
>gi|6690719|gb|AAF24287.1|_1:334   (AF195122) BchI [Rhodobacter sphaeroides]
----------------MKKPFPFSAIVGQEQMKQAMVLTAIDPGIGGVLV
FGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVSSTTMI
ERPTPVVDLPLGVTEDRVVGALDIQRALTRGEKAFEPGLLARANRGYLYI
DEVNLLEDHIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGE
LRPQLLDRFGLSVEVRSPRDVETRVEVITRRDAYDADHDAFMEKWGAEDM
QLRGRILGARAALPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARA
QAAFEGAEAVGRSHLRSVATMALSHRLRRDPLDEAGSVSRVERCVAEVLP
>gi|6466371|gb|AAF12953.1|AF022186_76_18:353   (AF022186) unknown; magnesium chelatase subunit [Cyanidium caldarium]
mtstadvfdkkdqfnfv--------------------FPFTAIVGQEEMK
ISLLLNVVDPKIGGVMIMGDRGTGKTTTIRALVDILPDILVVKDDPYNSH
PHDVDLMSSEVQalvlnrmNIETCYTKVPLVDLPLGATEDRVCGSIDIEK
ALSEGKKSFEPGLLAKANRGLLYVDEINLLDDHLVDVLLDCSASGWNLVE
REGISVKHPSKFVLIGSGNPEEGELRPQLLDRFGLHAEIKTVKDPELRVK
IVEERTEFDKDPVAYIRKFSKSQDELREKIINAQNLLPKVEMPRELKFNI
SKICGILDIDGLRGDIVTNRASKAYAAIQQRNVVEIGDIQKVIVSCLRHR
LRKDPLEIIESGEKIQKAFTNIF-
>gi|3334148|sp|Q44498|CHLI_ANAVA_1:315   MAGNESIUM-CHELATASE SUBUNIT CHLI (MG-PROTOPORPHYRIN IX CHELATASE)
gi|1339842|dbj|BAA08404.1| (D49426) magnesium chelatase subunit [Anabaena variabilis]
-----------------------------------------DPKIGGVMI
MGDRGTGKSTTIRALADLLPEIPVVANDPFNSDPSDPDLMSDEVRqksgt
gaEIPIEFKKVQMVDLPLGATEDRVCGTIDIEKALSEGVKAFEPGLLAKA
NRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGISIRHPARFVLVGS
GNPEEGELRPQLLDRFGMHAEIHTVKEPALRVQIVEQRSEFDQNPPTFLE
KYNPEQTALQKKIVEAQKLLPEVKLDYDLRVKISEVCSELDVDGLRGDIV
TNRAAKALTAYEGRTEVTVDDIRRVITLCLRHRLRKDPLESIDSGYKVEK
VFARIF-gvelleddssqkngagqiktgvr
>gi|4490587|emb|CAB38737.1|_1:334   (AJ010302) mg protoporphyrin IX chelatase subunit [Rhodobacter sphaeroides]
----------------MKKPFPFSAIVGQEQMKQAMVLTAIDPGIGGVLV
FGARGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVSSTTMI
ERPTPVVDLPLGVTEDRVVGALDIQRALTRGEKAFEPGLLARANRGYLYI
DEVNLLEDHIVDLLLDVAQSGENVVEREGLSIRHAARFVLVGSGNPEEGE
LRPQLLDRFGLSVEVRSPRDVETRVEVITRRDAYDADHDAFMEKWGAEDM
QLRGRILGARAALPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARA
QAAFEGAEAVGRSHLRSVATMALSHRLRRDPLDEAGSVSRVERCVAEVLP
>gi|2130043|pir||S64722_8:322   protoporphyrin IX magnesium chelatase (EC 4.99.1.-) Xantha-h - barley (fragment)
gi|847873|gb|AAA99720.1| (U26545) Mg-chelatase subunit [Hordeum vulgare]
eqaelhl----------------------------------VLLLNVIDP
KIGGVMIMGDRGTGKSTTVRSLVDLLPDISVVVGDPFNSDPYDPEVMGPE
VRDRllkgeslPVTTTKITMVDLPLGATEDRVCGTIDIDKALTEGVKAFE
PGLLAKANRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGISISHPA
RFILIGSGNPEEGELRPQLLDRFGMHAQVGTVRDAELRVKIVEERARFDR
DPKTFRQSYLEEQDKLQEQITSARSNLGSVQLDHDLRVKISQVCSELNVD
GLRGDIVTNRAyAKALAALKGKDVVTVEDISTVIPTVLRHRLRKDPLESI
DSGLLV---------vekfyevfg
>gi|7482807|pir||A69159_6:323   protoporphyrin IX magnesium chelatase (EC 4.99.1.-) ChlI - Methanobacterium thermoautotrophicum (strain Delta H)
gi|2621518|gb|AAB84957.1| (AE000829) magnesium chelatase subunit ChlI [Methanobacterium thermoautotrophicum]
mdnhy--------------------FPFTAIVGQELLKKALILNAINPSI
GGVLIRGDKGTGKSTAVRSLRDVLPDRKMVEGCRFGCDPDGAEICMECRR
kleeqgSLPSRQVRMEVVDLPVSATEDMVVGSLDIKRALRDGIKALEPGI
LARANGNILYIDEVNLLDDYIVNVLLDAAAMGVNIIEREGISIQHPSRFI
LAGTMNPEEGDLRPQILDRFGLSVDVEAIKDPDERIEVIKRAMKFQEDPE
SFHSRFRRKQEELREKIIRARSLLEMVELDDETLGLIVEIAAALGIRTHR
ADIITARTARALAAFNGRRRVTGDDVMEAALLAMKHRLRQLPF-------
-----------qrqqelsqeiiedimngefeddseidrerrlrrdlkipd
lkgslqgqsss
>gi|4586899|dbj|BAA76531.1|_4:338   (AB017350) magnesium chelatase [Acidiphilium rubrum]
mal--------------------YPFTAIVGQTEMIRAMLIATVEPTLGG
VLAFGDRGTGKSTAVRALAALLPTMRAVAGCRYHCDPAARSALCPECRNR
raagrlASERVRIPVVDLPLGATEDRVVGALDLERALADGVKAFEPGLLA
RAHRGFLYIDEINLLEDHLVDLLLDVAASGENVVEREGLSLRHPARFVLI
GSGNPEEGELRPQLLDRFGLCVEVKTPTDLDQRIEVVRRRDAFEHDQAGF
TRRFAADEAALRRQLVTAMKLLPLVSVPEAILRLAAKLCIELGTDGLRGE
LTLLRAARAEAALEGDTVVTESHLRAVAPAALRHRLRRDPLDESLAGARV
ERAMAALF-sqaaiar
>gi|2231293|gb|AAC60228.1|_328:640   (U66710) CDC47-2p [Xenopus laevis]
pmlrtgfrqvvqgllsetyleshrlvkmnktdddelgtqelseeelrqit
----------DEDFYEKLAASIAPEIYGHEDVKKALLLLLVGGvdhsprg
mkirGNINVCLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAV
MKDPV-----------------------------------TGEMTLEGGA
LVLADQGVCCIDEFDKMMDSDRTAIHEVMEQQTISIAKAGIMTTLNARCS
ILAAANPAYGrynpkktveqniQLPAALLSRFDLLWLIQDKPDRDNDLRL
AQHITYVHQHSKQPPSQFqPMDMKLMRRYITMCKSK--QPAIPESLADYL
TAAYVEMrkeartnkdmTFTSARTLLSILRLSTALARLRLEDVVDKEDVN
EAMRLTEMSK------------------------dslqgdkghasrtqrp
advifstiremvpqkgarsvkyseaeqrcvskgf
>gi|2506833|sp|P49736|MCM2_HUMAN_451:807   DNA REPLICATION LICENSING FACTOR MCM2 (NUCLEAR PROTEIN BM28) (KIAA0030)
gi|1232077|dbj|BAA12177.1| (D83987) huMCM2 [Homo sapiens]
deieltgiyhnnydgslntangfpvfatvilanhvakkdnkvavgeltde
DVKMITSLSKDQQIGEKIFASIAPSIYGHEDIKRGLALALFGGepknpgg
khkvrGDINVLLCGDPGTAKSQFLKYIEKVSSRAIFTTGQGASAVGLTAY
VQRHPV-----------------------------------SREWTLEAG
ALVLADRGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARC
TVIAAANPIGGrydpsltfsenvDLTEPIISRFDILCVVRDTVDPVQDEM
LARFVVGSHvrHHPSNKEEEGlangsaaepampntygvePLPQEVLKKYI
IYAKERV-HPKLNQMDQDKVAKMYSDLrkesmatgsIPITVRHIESMIRM
AEAHARIHLRDYVIEDDVNMAIRVMLESFIDTQKFSVMRSMRK-------
---tfarylsfrrdnnelllfilkqlvaeqvtyqrnrfgaqqdtievpek
dlv
>gi|434753|dbj|BAA04642.1|_470:826   (D21063) KIAA0030 [Homo sapiens]
deieltgiyhnnydgslntangfpvfatvilanhvakkdnkvavgeltde
DVKMITSLSKDQQIGEKIFASIAPSIYGHEDIKRGLALALFGGepknpgg
khkvrGDINVLLCGDPGTAKSQFLKYIEKVSSRAIFTTGQGASAVGLTAY
VQRHPV-----------------------------------SREWTLEAG
ALVLADRGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARC
TVIAAANPIGGrydpsltfsenvDLTEPIISRFDILCVVRDTVDPVQDEM
LARFVVGSHvrHHPSNKEEEGlangsaaepampntygvePLPQEVLKKYI
IYAKERV-HPKLNQMDQDKVAKMYSDLrkesmatgsIPITVRHIESMIRM
AEAHARIHLRDYVIEDDVNMAIRVMLESFIDTQKFSVMRSMRK-------
---tfarylsfrrdnnelllfilkqlvaeqvtyqrnrfgaqqdtievpek
dlv
>gi|6678826|ref|NP_032590.1|_460:816   mini chromosome maintenance deficient 2 (S. cerevisiae)
gi|2851575|sp|P97310|MCM2_MOUSE DNA REPLICATION LICENSING FACTOR MCM2
gi|7428556|pir||T10067 replication licensing factor MCM2 - mouse
gi|2381485|dbj|BAA22148.1| (D86725) mMCM2 [Mus musculus]
deieltgiyhnnydgslntangfpvfatiilanhvakkdnkvavgeltde
DVKMITGLSKDQQIGEKIFASIAPSIYGHEDIKRGLALALFGGepknpgg
khkvrGDINVLLCGDPGTAKSQFLKYIEKVSSRAIFTTGQGASAVGLTAY
VQRHPV-----------------------------------SREWTLEAG
ALVLADRGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARC
TVIAAANPIGGrydpsltfsenvDLTEPIISRFDVLCVVRDTVDPVQDEM
LARFVVGSHvrHHPSNKKDEGltnggtlepampntygvePLPQEVLKKYI
IYAKERV-RPKLNQMDQDKVARMYSDLrkesmatgsIPITVRHIESMIRM
AEAHARMHLRDYVMEDDVNMAIRVMMESFIDTQKFSVMRSMRK-------
---tfarylsfrrdnndlllfilkqlvaeqvtyqrnrfgaqqdtieipek
dlm
>gi|2183319|gb|AAC16250.1|_460:816   (AF004105) BM28 homolog [Mus musculus]
deieltgiyhnnydgslntangfpvfatiilanhvakkdnkvavgeltde
DVKMITGLSKDQQIGEKIFASIAPSIYGHEDIKRGLALALFGGepknpgg
khkvrGDINVLLCGDPGTAKSQFLKYIEKVSSRAIFTTGQGASAVGLTAY
VQRHPV-----------------------------------SREWTLEAG
ALVLADRGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARC
TVIAAANPIGGrydpsltfsenvDLTEPIISRFDVLCVVRDTVDPVQDEM
LARFVVGSHvrHHPSNKKDEGltnggtlepampntygvePLPQEVLKKYI
IYAKERV-RPKLNQMDQDKVARMYSDLrkesmatgsIPITVRHIESMIRM
AEAHARMHLRDYVMEDDVNMAIRVMMESFIDTQKFSVMRSMRK-------
---tfaryisfrrdnndlllfilkqlvaeqvtyqrnrfgaqqdtieipek
dlm
>gi|2497828|sp|Q91876|MCM7_XENLA_328:640   DNA REPLICATION LICENSING FACTOR MCM7 (CDC47 HOMOLOG) (X.MCM7)
gi|1469526|gb|AAB17253.1| (U51234) XMCM7 [Xenopus laevis]
pmlrtgfrqvvqgllsetylechrlvkmnkteddelgteelseeelrqit
----------EEDFYEKLAASIAPEIYGHEDVKKALLLLLVGGvdnsprg
mkirGNINICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAV
MKDPV-----------------------------------TGEMTLEGGA
LVLADQGVCCIDEFDKMMDTDRTAIHEVMEQQTISIAKAGIMTTLNARCS
ILAAANPAYGrynpkktveqniQLPAALLSRFDVLWLIQDKPDRDNDLRL
AQHITYVHQHSKQPPSQFqPLDMKLMRRYITMCKRK--QPAIPEALADYL
TAAYVEMrkeartnkdmTFTSARTLLSVLRLSTALARLRLEDVVEKEDVN
EAMRLMEMSK------------------------dsllgdkghtsrtqrp
advifstiremvpekgarsvkyseaeqrcvskgf
>gi|2231177|gb|AAC60227.1|_328:640   (U44051) CDC47p [Xenopus laevis]
pmlrtgfrqlvqgllsetylechrlvkmnkseddelgteelseeelrqit
----------EEDFYEKLAASIAPEIYGHEDVKKALLLLLVGGvdnsprg
mkirGNINICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAV
MKDPV-----------------------------------TGEMTLEGGA
LVLADQGVCCIDEFDKMMDTDRTAIHEVMEQQTISIAKAGIMTTLNARCS
ILAAANPAYGrynpkktveqniQLPAALLSRFDVLWLIQDKPDRDNDLRL
AQHITYVHQHSKQPPSQFqPLDMKLMRRYITMCKRK--QPAIPEALADYL
TAAYVEMrkeartnkdmTFTSARTLLSVLRLSTALARLRLEDVVEKEDVN
EAMRLMEMSK------------------------dsllgdkghtsrtqrp
advifstiremvpekgarsvkyseaeqrcvskgf
>gi|3913218|sp|O22437|CHLD_PEA_77:421   MAGNESIUM-CHELATASE SUBUNIT CHLD PRECURSOR (MG-PROTOPORPHYRIN IX CHELATASE) (MG-CHELATASE SUBUNIT D)
gi|7488839|pir||T06249 protoporphyrin IX magnesium chelatase (EC 4.99.1.-) D chain - garden pea
gi|2318117|gb|AAB72194.1| (AF014399) Mg-chelatase subunit D [Pisum sativum]
psftsqpflslhstfppkrtvpklraqsengavlqaseekldasnygrqy
--------------------FPLAAVIGQDAIKTALLLGATDPRIGGIAI
SGRRGTAKTIMARGMHAILPPIEVVQGSIANADPSCPEEWEDGLYkrvey
dsdgNVKTHIIKSPFVQIPLGVTEDRLIGSVDVEESVKTGTTVFQPGLLA
EAHRGVLYVDEINLLDEGISNLLLNVLTEGVNIVEREGISFRHPCRPLLI
ATYNPDEGSVREHLLDRIAINLSADLPMSFENRVEAVGIATEFQDNCGQV
FKMVDEDTDNAKTQIILAREYLKDVTISKEQLKYLVIEALRGGVQGHRAE
LYAARVAKCLAALEGREKVYVDDLKKAVELVILPRSIITdtppeqqnqPP
PPPPPPQNQESNEEQ---neeeeqeeeeeddndeeneqqqdqlpeefifd
aegglvdekllffaqqaq
>gi|6117893|emb|CAB59466.1|_4:322   (AL132644) putative chelatase [Streptomyces coelicolor A3(2)]
mst-------------------PFPFTAVVGQDDLRLALLLNAVSPAVGG
VLVRGEKGTAKSTAVRALSALMPEVDVVSGCRFSCDPDSPDPACPDGPhe
PGAFASRPARMVELPVGASEDRLVGALDIERALAEGVKAFEPGLLADAHR
GILYVDEVNLLHDHLVDLLLDAAAMGASYVEREGVSVRHASKFLLVGTMN
PEEGELRPQLLDRFGLTVEVAASREPDQRVEVVRRRLAYDDDPAGFAARW
ADEEAAVRARIVGARELLPSVRLGDGALRQIAATCAAFEVDGMRADIVMA
RTATALAAWAGRTEVLAEDVRQAALLALPHRRRRNPFDAPG---------
-----ldedkldetleefggqdgdgpdgdddpdpgpgggpggqpepddap
qgdgd
>gi|516760|dbj|BAA05839.1|_153:465   (D28480) hMCM2 [Homo sapiens]
gi|1094423|prf||2106167A nuclear protein MCM2 [Homo sapiens]
pilrtgfrqvvqgllsetyleahrivkmnkseddesgageltreelrqia
----------EEDFYEKLAASIAPEIYGHEDVKKALLLLLVGGvdqsprg
mkirGNINICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAV
LRDSV-----------------------------------SGELTLEGGA
LVLADQGVCCIDEFDKMAEADRTAIHEVMEQQTISIAKAGILTTLNARCS
ILAAANPAYGrynprrsleqniQLPAALLSRFDLLWLIQDRPDRDNDLRL
AQHITYVHQHSRQPPSQFePLDMKLMRRYIAMCREK--QPMVPESLADYI
TAAYVEMrreawaskdaTYTSARTLLAILRLSTALARLRMVDVVEKEDVN
EAIRLMEMSK------------------------dsllgdkgqtartqrp
advifatvrelvsggrsvrfseaeqrcvsrgftp
>gi|2135743|pir||S62607_227:539   minichromosome maintenance protein, 85K - human (fragment)
gi|755746|emb|CAA52803.1| (X74796) p85Mcm protein [Homo sapiens]
gi|1098113|prf||2115257B p85Mcm Protein [Homo sapiens]
pilrtgfrqvvqgllsetyleahrivkmnkseddesgageltreelrqia
----------EEDFYEKLAASIAPEIYGHEDVKKALLLLLVGGvdqsprg
mkirGNINICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAV
LRDSV-----------------------------------SGELTLEGGA
LVLADQGVCCIDEFDKMAEADRTAIHEVMEQQTISIAKAGILTTLNARCS
ILAAANPAYGrynprrsleqniQLPAALLSRFDLLWLIQDRPDRDNDLRL
AQHITYVHQHSRQPPSQFePLDMKLMRRYIAMCREK--QPMVPESLADYI
TAAYVEMrreawaskdaTYTSARTLLAILRLSTALARLRMVDVVEKEDVN
EAIRLMEMSK------------------------dsllgdkgqtartqrp
advifatvrelvsggrsvrfseaeqrcvsrgftp
>gi|1168813|sp|P38132|CC47_YEAST_407:724   CELL DIVISION CONTROL PROTEIN 47
gi|608169|gb|AAA86309.1| (U14730) Cdc47p [Saccharomyces cerevisiae]
papytgfkalkaglltetyleaqfvrqhkkkfasfsltsdveervmelit
----------SGDVYNRLAKSIAPEIYGNLDVKKALLLLLVGGvdkrvgd
gmkirGDINVCLMGDPGVAKSQLLKAICKISPRGVYTTGKGSSGVGLTAA
VMKDPV-----------------------------------TDEMILEGG
ALVLADNGICCIDEFDKMDESDRTAIHEVMEQQTISISKAGINTTLNART
SILAAANPLYGrynprlspldniNLPAALLSRFDILFLMLDIPSRDDDEK
LAEHVTYVHmHNKQPDLDFTPVEPSKMREYIAYAKTK--RPVMSEAVNDY
VVQAYIRLrqdskremdskfsfGQATPRTLLGIIRLSQALAKLRLADMVD
IDDVEEALRLVRVSK------------------------eslyqetnksk
edespttkiftiikkmlqetgkntlsyenivktvrlrgf
>gi|2231169|gb|AAC60223.1|_445:798   (U44047) MCM2p [Xenopus laevis]
deieltgiyhnnydgslntangfpvfatvilanhitkkddkvavgeltde
DVKAIVALSKDERIGERIFASIAPSIYGHEDIKRGLALALFGGeaknpgg
khkvrGDINVLLCGDPGTAKSQFLKYVEKVASRAVFTTGQGASAVGLTAY
VQRHPV-----------------------------------TKEWTLEAG
ALVLADRGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARC
TVIAASNPIGGrydpsltfsenvDLTEPIVSRFDILCVVRDTVDPVQDEM
LARFVVSSHikhhpssKDIANGDAAEfalpntfgveALPQEVLKKYIMYA
KEKI-RPKLNQMDQDKVAKMYSDLrkesmatgsIPITVRHIESMIRMAEA
HARMHLRDYVVEDDVNMAIRVMLESFIDTQKFSVMRSMRK----------
tfarylafrrdnnelllfvlkqliaeqvtyqrnrygaqqdtievpekdlv
>gi|3913240|sp|O24133|CHLD_TOBAC_80:425   MAGNESIUM-CHELATASE SUBUNIT CHLD PRECURSOR (MG-PROTOPORPHYRIN IX CHELATASE) (MG-CHELATASE SUBUNIT D)
gi|7489191|pir||T02925 protoporphyrin IX magnesium chelatase (EC 4.99.1.-) chain chlD - common tobacco
gi|2239151|emb|CAA71128.1| (Y10022) CHLD magnesium chelatase subunit [Nicotiana tabacum]
pilsstylrpkrlkfrlrisatatidspngavavvepekqpekisfgrqy
--------------------FPLAAVIGQDAIKTALLLGAIDREIGGIAI
CGKRGTAKTLMARGLHAILPPIEVVVGSMANADPNCPDEWEDGLAdraey
gsdgNIKTQIVKSPFVQIPLGVTEDRLIGSVDVEESVKSGTTVFQPGLLA
EAHRGVLYVDEINLLDEGISNLLLNVLTEGVNIVEREGISFRHPCKPLLI
ATYNPEEGAVREHLLDRIAINLSADLPMSFDDRVAAVDIATRFQECSNEV
FKMVDEETDSAKTQIILAREYLKDVTISRDQLKYLVMEAIRGGCQGHRAE
LYAARVAKCLAAIDGREKVGVDELKKAVELVILPRSTIVenppdqqnqqP
PPPPPPPQNQDSSEEQ---neeeekeeedqedekdreneqqqpqvpdefi
fdaegglvdekllffaqqa
>gi|7428562|pir||E69314_151:507   replication licensing factor MCM-type homolog AF0517 - Archaeoglobus fulgidus
gi|2650102|gb|AAB90715.1| (AE001068) cell division control protein 21 (cdc21) [Archaeoglobus fulgidus]
pgdrviingivrakprglgqrkmthmdlyiegnsvevlqqeyeefeitek
DRELIMQLAASDDIYEKIVKSIAPSIYGHEDVKLAIALQLFGGvpkklpd
gteirGDIHILLVGDPGVAKSQLLKYVHRIAPRSVYTTGKGTTTAGLTAT
AVRDEV-----------------------------------DGRWTLEAG
ALVLADKGIALVDEIDKMRKEDTSALHEALEQQTISVAKAGINAILKARC
ALLGAANPKYGrfekftpvpeqiEMSPTLLSRFDLIFVLKDEPDEEKDKR
LVEHILYSHqlgemtekaKNVAAEYDEEfirqrserivpEIDPDLLRKYI
AYARKTV-YPVLTDEAKEKIKEFYLSLrsrvkenspVPITARQLESIVRL
AEASARVRLSDRVEPEDVDRVIEIMMRSLREIAVDPETGEMDI-------
---dlaysgtsktqrdrimilkkiieqleeehergvpeelileeaekegi
drt
>gi|2134129|pir||I51589_284:656   P1 homolog - African clawed frog (fragment)
gi|868012|dbj|BAA07268.1| (D38074) xRlf beta subunit (p100 protein) [Xenopus laevis]
vqivgiyrclpskqggftsgtfrtillanniklmskeiaptfsaddvaki
---KKFCKAHSKDIFEHLSKSLAPSIHGHEYIKKAILCMLLGGnekvlen
gtrirGDINVLLIGDPSVAKSQLLRYVLHTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIQARLNARC
SVLAAANPVYGrydqyrtpmeniGLQDSLLSRFDLLFIVLDKMDADNDQE
IADHVLRMHRYrtpgeqdgyalplgcsveifatddpnasdvtdqelqiye
khdnllhgPRKNKSKI-VSMQFIRKYIHVAKLI--KPVLTSEAADYISQE
YAKIrnhdqinndsartMPVTARALETMIRLSTAHAKVRMSKTIERQDAE
TALELVQFAYFKKV--------------------lakekkktdkdlhden
lsqdtlsqesvrkssrragkiadsqddsmdpysf
>gi|1708953|sp|P49739|MCM3_XENLA_285:657   DNA REPLICATION LICENSING FACTOR MCM3 (X.MCM3) (P1 HOMOLOG) (P100)
gi|2134104|pir||I51685 replication licensing factor MCM3 - African clawed frog
gi|829621|gb|AAA80227.1| (U26057) MCM3 [Xenopus laevis]
vqivgiyrclpskqggftsgtfrtillanniklmskeiaptfsaddvaki
---KKFCKAHSKDIFEHLSKSLAPSIHGHEYIKKAILCMLLGGnekvlen
gtrirGDINVLLIGDPSVAKSQLLRYVLHTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIQARLNARC
SVLAAANPVYGrydqyrtpmeniGLQDSLLSRFDLLFIVLDKMDADNDQE
IADHVLRMHRYrtpgeqdgyalplgcsveifatddpnasdvtdqelqiye
khdnllhgPRKNKSKI-VSMQFIRKYIHVAKLI--KPVLTSEAADYISQE
YAKIrnhdqinngsartMPVTARALETMIRLSTAHAKVRMSKTIERQDAE
TALELVQFAYFKKV--------------------lakekkktdkdlhden
lsqdtlsqesvrkssrragkiadsqddpmdpysf
>gi|2506836|sp|P33993|MCM7_HUMAN_329:641   DNA REPLICATION LICENSING FACTOR MCM7 (CDC47 HOMOLOG) (P1.1-MCM3)
gi|2134885|pir||S70583 replication licensing factor MCM7 - human
gi|1255617|dbj|BAA09534.1| (D55716) P1cdc47 [Homo sapiens]
pilrtgfrqvvqgllsetyleahrivkmnkseddesgageltreelrqia
----------EEDFYEKLAASIAPEIYGHEDVKKALLLLLVGGvdqsprg
mkirGNINICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAV
LRDSV-----------------------------------SGELTLEGGA
LVLADQGVCCIDEFDKMAEADRTAIHEVMEQQTISIAKAGILTTLNARCS
ILAAANPAYGrynprrsleqniQLPAALLSRFDLLWLIQDRPDRDNDLRL
AQHITYVHQHSRQPPSQFePLDMKLMRRYIAMCREK--QPMVPESLADYI
TAAYVEMrreawaskdaTYTSARTLLAILRLSTALARLRMVDVVEKEDVN
EAIRLMEMSK------------------------dsllgdkgqtartqrp
advifatvrelvsggrsvrfseaeqrcvsrgftp
>gi|6664313|gb|AAF22895.1|AC006932_12_83:427   (AC006932) T27G7.20 [Arabidopsis thaliana]
lslpkrnriascrftvrasanatvespngvpastsdtdtetdttsygrqf
--------------------FPLAAVVGQEGIKTALLLGAVDREIGGIAI
SGRRGTAKTVMARGLHEILPPIEVVVGSISNADPACPDEWEDDLDeriey
nadnTIKTEIVKSPFIQIPLGVTEDRLIGSVDVEESVKRGTTVFQPGLLA
EAHRGVLYVDEINLLDEGISNLLLNVLTDGVNIVEREGISFRHPCKPLLI
ATYNPEEGAVREHLLDRVAINLSADLPMSFEDRVAAVGIATQFQERCNEV
FRMVNEETETAKTQIILAREYLKDVKISREQLKYLVLEAVRGGVQGHRAE
LYAARVAKCLAAIEGREKVTIDDLRKAVELVILPRSSLDetppeqqnqPP
PPPPPPQNSESGEEE---neeeqeeeeevsgcsthyslvehtfkdesnee
neneqqqdqipeefifda
>gi|2497818|sp|P55861|MCM2_XENLA_445:798   DNA REPLICATION LICENSING FACTOR MCM2 (X.MCM2)
gi|2134113|pir||JC5085 replication licensing factor MCM2 - African clawed frog
gi|1753193|dbj|BAA09948.1| (D63919) xMCM2 [Xenopus laevis]
deieltgiyhnnydgslntangfpvfatvilanhitkkddkvavreltde
DVKAIVALSKDERIGERIFASIAPSIYGHEDIKRGLALALFGGeaknpgg
khkvrGDINVLLCGDPGTAKSQFLKYVEKVASRAVFTTGQGASAVGLTAY
VQRHPV-----------------------------------TKEWTLEAG
ALVFADRGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARC
TVIAASNPIGGrydpsltfsenvDLTEPIVSRFDILCVVRDTVDPVQDEM
LARFVVSSHikhhpssKDIANGDAAEfalpntfgveALPQEVLKKYIMYA
KEKI-RPKLNQMDQDKVAKIYSDLrkesmatgsIPITVRHIESMIRMAEA
HARMHLRDYVVEDDVNMAIRVMLESFIDTQKFSVMRSMRK----------
tfarylafrrdnnelllfvlkqliaeqvtyqrnrygaqqdtievpekdlv
>gi|2497827|sp|Q61881|MCM7_MOUSE_329:641   DNA REPLICATION LICENSING FACTOR MCM7 (CDC47 HOMOLOG)
gi|2137202|pir||JC4580 replication licensing factor MCM7 - mouse
gi|1136747|dbj|BAA05084.1| (D26091) mCDC47 [Mus musculus]
gi|1586562|prf||2204259A protein CDC47 [Mus musculus]
pvlrtgfqqmaqgllsetyleahwivkmtksdddvsgagelsseelkqia
----------EEDFYEKLAASIAPEIYGHEDVKKALLLLLVGGvdqspqg
mkirGNIHICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAV
LRDSV-----------------------------------SGELTLEGGA
LVLADQGVCCIDEFDKMAEADRTAIHEVMEQQTISIAKAGILTTLNARCS
ILAAANPAYGrynprrsleqnvQLPAALLSRFDLLWLIQDRPDRDNDLRL
AQHITYVHQHSRQPPAQFePLDMKLMRRYIAMCHER--QPTVPESLADYI
TAAYVEMrrearaskdaTYTSARTLLAILRLSTALARLRMVDIVEKEDVN
EAIRLMEMSK------------------------dsllgekgqtartqrp
advifatirelvsrgrsvhfseaeqrcisrgftp
>gi|3913253|sp|P72772|CHLD_SYNY3_11:361   MAGNESIUM-CHELATASE SUBUNIT CHLD (MG-PROTOPORPHYRIN IX CHELATASE) (MG-CHELATASE SUBUNIT D)
gi|7470816|pir||S74635 protoporphyrin IX magnesium chelatase (EC 4.99.1.-) chain I - Synechocystis sp. (strain PCC 6803)
gi|1651860|dbj|BAA16787.1| (D90900) Mg chelatase subunit [Synechocystis sp.]
mttltpfipl-------------------NFPITAIVGQEAIKLALLLGA
IDPGLGGIVIAGRRGTAKSVMARAIHTLLPPIEIIKGNRYQCDPKNPGSW
DDDTLekfadvpldQLETQVIPAPFIQIPLGVTEDRLLGSVDVEKSVKQG
EAVFQPGLLAQAHRGVLYIDELNLLDDQIANQLLTVLTEGKNQIEREGMS
FQHPCQPLLIATYNPEEGPLRRHLLDRIAIALSADGILGLDQRVAAVDQV
LAYADSPISFIDQYDAELDDLKTTIILAREWLKEVSLTPEQVSYLVEEAI
RGGLQGHRGELFAMRVAKAIAALDGRSDVQADDLRQAVELVIVPRSVLMD
NPPPpeqapppppppqnqDEGKDEQEDQQD---dkeddkdnepeaeqdpp
sipeefifdpegvsldpsvlyfaqmaqkqgksg
>gi|7490211|pir||T39991_344:678   cell division control protein 47 homolog - fission yeast (Schizosaccharomyces pombe)
gi|3236468|gb|AAC23693.1| (AF070481) minichromosome maintenance protein Mcm7p [Schizosaccharomyces pombe]
gi|3378510|emb|CAA20099.1| (AL031158) minichromosome maintenance protein mcm7p [Schizosaccharomyces pombe]
isgiflptpytgframraglltdtylechyvsqiiknytniektpqseaa
----IAELNQGGNVYEKLAKSIAPEIYGHEDVKKALLLLLVGGvtkelgd
gmrirGDINICLTGDPGVAKSQLLKYISKVAPRGVYTTGRGSSGVGLTAA
VMRDPV-----------------------------------TDEMVLEGG
ALVLADNGICCIDEFDKMDESDRTAIHEVMEQQTISISKAGITTTLNART
SILAAANPLYGrynpkvapihniNLPAALLSRFDILFLILDTPSRETDEH
LAQHVTYVHmHNEQPKMDFEPLDPNMIRHYISSARQY--RPVVPKDVCDY
VTGAYVQLrqnqkrdeanerqfAHTTPRTLLAILRMGQALARLRFSNRVE
IGDVDEALRLMSVSKSSLYDDLDPSS-------------hdttitskiyk
iirdmlnsipdvegnersltlrairervlakgftedhli
>gi|3894099|emb|CAA10166.1|_155:542   (AJ012750) MCM3 protein [Pisum sativum]
pgdrvaivgiykalpgkskgsvngvfrtvliannvallnkeanapiyste
DLKNIKKIAERDDTFDLLGNSLAPSIHGHSWIKKAVILLMLSGveknlkn
gthlrGDINMMMVGDPSVAKSQLLRAIMNIAPLAISTTGRGSSGVGLTAA
VTSDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMNDQDRVAIHEVMEQQTVTIAKAGIHASLNARC
SVVAAANPIYGtydrsltptkniGLPDSLLSRFDLLFIVLDQMDPDIDRQ
ISEHVLRMHRFrsaidggeaahdgsarygkkeeadtessvfvkynrmlhg
kkTDRGRKRDTLTIKFLKKYIHYAKHRI-QPDLTDEASDQIATAYAELrn
ansnaktggtLPITARTLETIIRLSTAHAKLKLSRKVTKSDVDAALKILN
FAIYHKELTEMDEREEEREKERER---eqerkrkadaenngpdrgskskr
dstseamelddtsaappavgltperie
>gi|5813829|gb|AAD52031.1|AF083555_1_52:420   (AF083555) magnesium-chelatase subunit CHLD precursor [Arabidopsis thaliana]
lslpkrnriascrftvrasanatvespngvpastsdtetetdttsygrqf
--------------------FPLAAVVGQEGIKTALLLGAVDREIGGIAI
SGRRGTAKTVMARGLHEILPPIEVVVGSISNADPACPNEWEDDLDeriey
nadnTIKTEIVKSPFIQIPLGVTEDRLIGSVDVEESVKRGTTVFQPGLLA
EAHRGVLYVDEINLLDEGISNLLLNVLTDGVNIVEREGISFRHPCKPLLI
ATYNPEESAVREHLLDR--VAINLDLPMSFEDRVAAVGIATQFQERCNEV
FSMVNEETETAKTQIILAREYLKDVKISREQLKYLVLEAVRGGVQGHRAE
LYAARVAKCLAAIEGRKKVTIDDLRKAVELVILPRSSLDetppeqqnqPP
PPPpppqnsesgedeneeeqeeeedeSNEENENEQQQDQIPeefifdaeg
glvdekllffaqqaqkrrgkagraknvifsedrgryikpml
>gi|1477448|emb|CAA65418.1|_11:361   (X96599) magnesium chelatase [Synechocystis sp.]
mttltpfipl-------------------NFPITAIVGQEAIKLALLLGA
IDPGLGGIVIAGRRGTAKSVMARAIHTLLPPIEIIKGNRYQCDPKNPGSW
DDDTLekfadvpldQLETQVIPAPFIQIPLGVTEDRLLGSVDVEKSVKQG
EAVFQPGLLAQAHRGVLYIDELNLLDDQIANQLLTVLTEGKNQIEREGMS
FQHPCQPLLIATYNPEEGPLRRHLLDRIAIALSADGILGLDQRVAAVDQV
LAYADSPISFIDQYDAELDDLKTTIILAREWLKEVSLTPEQVSYLVEEAI
RGGLQGHRGELFAMRVAKAIPALDGRSDVQADDLRQAVELVIVPRSVLMD
NPPPpeqapppppppqnqDEGKDEQEDQQD---dkeddkdnepeaeqdpp
sipeefifdpegvsldpsvlyfaqmaqkqgksg
>gi|4903288|gb|AAD32857.1|AF124743_1_319:641   (AF124743) DNA replication factor MCM7 [Drosophila melanogaster]
gi|7295030|gb|AAF50357.1| (AE003554) Mcm7 gene product [Drosophila melanogaster]
dhivvsgvflplmrtgfaqmiqgllsetflqahriicinkndeisdkdae
LTPEELEELAQDDFYERLATSLAPEIYGHLDVKKALLLLLVGGvdkrpdg
mkirGNINICLMGDPGVAKSQLLGYISRLAVRSQYTTGRGSSGVGLTAAV
MKDPL-----------------------------------TGEMTLEGGA
LVLADQGVCCIDEFDKMADQDRTAIHEVMEQQTISIAKAGIMTTLNARVS
ILAAANPAFGrynprrtveqniQLPAALLSRFDLLWLIQDKPDRDNDLRL
AKHITYVHSHSKQPPTRVkALDMNLMRRYINLCKRK--NPTIPDELTDYI
VGAYVELrrearnqkdmTFTSARNLLGILRLSTALARLRLSDSVEKDDVA
EALRLLEMSK------------------------dslnqihehqkghvpn
tsdrifaivrelagsgkavkisdimdrcttkgfk
>gi|7509440|pir||T26498_435:777   hypothetical protein Y17G7B.5 - Caenorhabditis elegans
gi|3947600|emb|CAA19452.1| (AL023828) similar to MCM2/3/5 family~cDNA EST EMBL:T02370 comes from this gene~cDNA EST yk244e4.5 comes from this gene~cDNA EST yk407d8.3 comes from this gene~cDNA EST yk153f3.3 comes from this gene~cDNA EST yk153f3.5 comes from this gene~cDNA EST yk2>
gdeievtgvytnnfdgslnykqgfpvfntlihanhitnkdkmasdqltde
DIKAIRELSQDPNISQRVFSSIAPSIYGHDDVKRAIALALFRGeaknpga
khrlrGDINVLLCGDPGTAKSQFLRYAAHIAPRSVLTTGQGASAVGLTAY
VQRHPV-----------------------------------TREWTLEAG
AMVLADKGVCLIDEFDKMSDQDRTSIHEAMEQQSISISKAGIVTSLHARC
TVIAASNPIGGrynptrtfaenvDLTEPILSRFDVLCVIRDSVDSVEDER
LAKFVVGNHRTHHPDAKKIvkegdeleedqmdertgvrLIPQDLLRKYII
YAREKC-HPTLPEQHSEKFSNIFAQMrkesmatgsVAITVRHVESMIRLS
EAHAKLHLRSYVNDEDCAAAIRVMLESFV---------------------
--ntqkasimrmmkktfsrhltenrsanelllfilkqlirqqmhyatara
aa
>gi|7496477|pir||T19446_285:658   hypothetical protein C25D7.6 - Caenorhabditis elegans
gi|3874445|emb|CAB02770.1| (Z81039) predicted using Genefinder~Similarity to Xenopus DNA replication licensing factor MCM3 (SW:P49739)~cDNA EST EMBL:M75844 comes from this gene; cDNA EST EMBL:M89318 comes from this gene~cDNA EST yk3b3.3 comes from this gene; cDNA EST yk3b3.5 com>
kpgdrvriigvfrvlpnkqngvssgsfrsiiiinhiqmlskevipnfepq
DVKDVRKISKSRNPFELLARSLAPSICGHEETKKALLCLLLGGmekilnn
gsrlrGDINVLLIGDPSVAKSQLLRYVLRMAPRAITTTGRGSSGVGLTAA
VTTDPD-----------------------------------SGERRLEAG
AMVLADRGVVCIDEFDKMSDIDRTAIHEVMEQGRVTISKAGIHAKLNARC
SVLAAANPVYGrynpfkspmeniGMQDSLLSRFDLIFVLLDEHDADKDAN
VAEHVLKLHTYRTQGEADGtvlpmgggvetistinmetkkasssiyeent
qwagiqdtkILTMDFMRKYIHLARSV--QPKLTDEATEYISEVYADIrsf
ditktdqertMPVTARQLETLIRLSTAIAKARFSKKVEREDTEKAYNLLH
FACFKEKPKAR----------------qeyekkkrapridgdddedqsdn
edmatseepqsssvptaatprrgvrrr
>gi|1552242|dbj|BAA07267.1|_291:683   (D38073) hRlf beta subunit (p102 protein) [Homo sapiens]
yrclpgkkggytsgtfrtvliacnvkqmskdaqpsfsaediakikkfskt
---------RSKDIFDQLAKSLAPSIHGHDYVKKAILCLLLGGverdlen
gshirGDINILLIGDPSVAKSQLLRYVLCTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIHARLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFIMLDQMDPEQDRE
ISDHVLRMHRYRAPGEQDGdamplgsavdilatddpnfsqedqqdtqiye
khdnllhgtkkkkekMVSAAFMKKYIHVAKII--KPVLTQESATYIAEEY
SRLrsqdsmssdtartSPVTARTLETLIRLATAHAKARMSKTVDLQDAEE
AVELVQYAYFKKVLEKEKkrkkrsedeSETEDEEEKSQE---dqeqkrkr
rktrqpdakdgdsydpydfsdteeempqvhtpktadsqetke
>gi|2506834|sp|P25206|MCM3_MOUSE_291:661   DNA REPLICATION LICENSING FACTOR MCM3 (DNA POLYMERASE ALPHA HOLOENZYME-ASSOCIATED PROTEIN P1) (P1-MCM3)
yrclpgkkgcytsgtfrtvliacnvkqmskdiqpafsaddiakikkfskt
---------RSKDVFEQLARSLAPSIHGHDYVKKAILCLLLGGverelen
gshirGDINILLIGDPSVAKSQLLRYVLCTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIHARLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFIMLDQMDPEQDRE
ISDHVLRMHQYRAPGEQDGdalplgssvdilatddpdftqddqqdtriye
khdsllhgtkkkkekMVSAAFMKKYIHVAKII--KPTLTQESAAYIAEEY
SRLrsqdsmssdtartSPVTARTLETLIRLATAHAKARMSKTVDLQDAEE
AVELVQYAYFKKVLEKE----------------kkrkkasedesdledee
eksqedteqkrkrrkthakdgesydpydfseae
>gi|110779|pir||S17100_274:644   P1.m protein - mouse (fragment)
gi|53551|emb|CAA44079.1| (X62154) P1.m protein [Mus musculus]
yrclpgkkgcytsgtfrtvliacnvkqmskdiqpafsaddiakikkfskt
---------RSKDVFEQLARSLAPSIHGHDYVKKAILCLLLGGverelen
gshirGDINILLIGDPSVAKSQLLRYVLCTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIHARLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFIMLDQMDPEQDRE
ISDHVLRMHQYRAPGEQDGdalplgssvdilatddpdftqddqqdtriye
khdsllhgtkkkkekMVSAAFMKKYIHVAKII--KPTLTQESAAYIAEEY
SRLrsqdsmssdtartSPVTARTLETLIRLATAHAKARMSKTVDLQDAEE
AVELVQYAYFKKVLEKE----------------kkrkkasedesdledee
eksqedteqkrkrrkthakdgesydpydfseae
>gi|6631095|ref|NP_002379.2|_291:683   minichromosome maintenance deficient (S. cerevisiae) 3
gi|5824000|emb|CAA44078.2| (X62153) P1.h protein [Homo sapiens]
gi|6969149|emb|CAB75298.1| (AL034343) dJ108C2.1 (minichromosome maintenance deficient (S. cerevisiae) 3 (DNA replication licensing factor, DNA polymerase alpha holoenzyme-associated protein P1, RLF beta subunit)) [Homo sapiens]
yrclpgkkggytsgtfrtvliacnvkqmskdaqpsfsaediakikkfskt
---------RSKDIFDQLAKSLAPSIHGHDYVKKAILCLLLGGverdlen
gshirGDINILLIGDPSVAKSQLLRYVLCTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIHARLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFIMLDQMDPEQDRE
ISDHVLRMHRYRAPGEQDGdamplgsavdilatddpnfsqedqqdtqiye
khdnllhgtkkkkekMVSAAFMKKYIHVAKII--KPVLTQESATYIAEEY
SRLrsqdsmssdtartSPVTARTLETLIRLATAHAKARMSKTVDLQDAEE
AVELVQYAYFKKVLEKEKkrkkrsedeSETEDEEEKSQE---dqeqkrkr
rktrqpdakdgdsydpydfsdteeempqvhtpktadsqetke
>gi|7428557|pir||S22804_274:644   replication licensing factor MCM3 - mouse (fragment)
yrclpgkkgcytsgtfrtvliacnvkqmskdiqpafsaddiakikkfskt
---------RSKDVFEQLARSLAPSIHGHDYVKKAIICLLLGGverelen
gshirGDINILLIGDPSVAKSQLLRYVLCTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIHARLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFIMLDQMDPEQDRE
ISDHVLRMHQYRAPGEQDGdalplgssvdilatddpdftqddqqdtriye
khdsllhgtkkkkekMVSAAFMKKYIHVAKII--KPTLTQESAAYIAEEY
SRLrsqdsmssdtartSPVTARTLETLIRLATAHAKARMSKTVDLQDAEE
AVELVQYAYFKKVLEKE----------------kkrkkasedesdledee
eksqedteqkrkrrkthakdgesydpydfseae
>gi|1877407|emb|CAA72333.1|_292:662   (Y11594) B24 protein [Triturus carnifex]
yrrlpskqggftsgtfrtimlannvkqmskemaptfsaddvakikkfcrt
---------HSKDIFEHLSKSLAPSIHGHEYIKKAILCMLLGGnekilen
gtrirGDINVLLIGDPSVAKSQLLRYVLHTGPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLDVG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIQARLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFIVLDQMDADNDRE
ISDHVLRMHRYRAQGELDGhalplgcsvevfttddpnaqneaeqelqiye
khdnllhgprtkrdkVVSMQFIRKYIHVAKLV--KPVLSQEAADYIAEEY
SKIrshdqmnnerartMPVTARALETMIRLSTAHAKLRMSKTIDIQDAEV
ALELVQFAYFKKVLEKE----------------kkkvvadsvngddssqv
vpsqesvrkpsrreskdeddamedtmdpysfsg
>gi|4903292|gb|AAD32859.1|AF124745_1_282:664   (AF124745) DNA replication factor MCM3 [Drosophila melanogaster]
gi|7290573|gb|AAF46023.1| (AE003434) Mcm3 gene product [Drosophila melanogaster]
vqivgsyrclpgkrggytsgtfrtvllannisllskesnldisredimlc
-----KKLAKNNDIFELLSKSLAPSIHGHAYVKQAILCLLLGGvekilpn
gtrlrGDINVLLIGDPSVAKSQLLRYVLNTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDIDRTAIHEVMEQGRVTISKAGIHASLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFVMLDVIDSDVDQM
ISDHVVRMHryRNPKEADGEPlsmgssyadslsfvssseekkdtevyeky
dallhgksrqrhekILSVEFMRKYIHIAKCM--KPKLGEQACEAIANEYS
RLrsqeavetdvartQPITARTLETLIRLSTAHARARMSKSVTIDDAHAA
IELVQFAYFKKVLDKDRPSKRRRNS-------gsdaeddngeassqrsps
rrskrtrtatvgadsdeedieppqpdagdltr
>gi|2134027|pir||I51022_292:659   replication licensing factor MCM3 - eastern newt (fragment)
gi|467691|emb|CAA55125.1| (X78322) B24 protein [Notophthalmus viridescens]
lpskqggftsgtfrtimlannvkqmskemaptfsaddvakikkfcrahtn
------------DIFQHLSKSLAPSIHGHEYIKKAILCMLLGGnekvlen
gtrirGDINVLLIGDPSVAKSQLLRYVLHTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLDMG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIQARLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFIVLDQMDADSDRE
ISDHVLRMHRYRAQGERDGhalplgcnvevfatddpnaqneaeeelqiye
khdnllhgprakrekVVSMQFIRKYIHVAKLV--KPVLSQEAADYIAEEY
SKIrshdqmnnerartMPVTARALETMIRLSTAHAKLRMSKTIDIQDAEV
ALELIQFAYFQKVLEKE----------------kkkvvgdginednssqv
vpsqesvrksskrgskdegdemedtmdpysfse
>gi|7428560|pir||T03920_331:657   replication licensing factor MCM7 - Caenorhabditis elegans
gi|2291237|gb|AAB65356.1| (AF016427) Contains similarity to Pfam domain: PF00493 (MCM), Score=834.6, E-value=1.1e-247, N=1 [Caenorhabditis elegans]
gnvvhvsgvflpimqsgfrptgglvadtyleahyinnlddnptfngvqsa
---ELEVLRRKGDNYETLAASIAPEIFGHVDVKKCLLMALVGGndnssng
mkirGCINVLMMGDPGVAKSQLLGYVNRLAPRSQYTTGRGSSGVGLTAAV
MKDPV-----------------------------------TGEMSLEGGA
LVLADGGICCIDEFDKMMDHDRTAIHEVMEQQTISIAKAGIMTTLNARTA
IIAAANPAYGrynpnrsieqnvDLPAALLSRFDLILLMQDKADRENDKIL
AEHITYVHQHgcHPNREKKDLISLETLREYISLCKTY--TPTVDPALRER
IVEAYVEMrrdaryssdpTFVSPRMILGIVRMATARAKLRLSTIVDESDV
EEALRLMQFAKDSLRPE------------------qnkiekrmapvdaaf
avlrelyhadnapiaisnaiqrcarkgisevalkk
>gi|3953611|dbj|BAA34733.1|_317:639   (AB010109) MCM7 [Drosophila melanogaster]
dhivvsgvflplmrtgfaqmiqgllsetflqahriicinkndeisdkdae
LTPEELEELAQDDFYERLATSLAPEIYGHLDVKKALLLLLVGGvdkrpdg
mkirGNINICLMGDPGVAKSQLLGYISRLAVRSQYTTGRGSSGVGLTAAV
MKDPL-----------------------------------TGEMTLEGGA
LVLADQGVCCIDEFDKMADQDRTAIHEVMEQQTISIAKAGIMTTLNARVS
ILAAANPAFGrynprrtveqniELPAALLSRFDLLWLIQDKPDRDNDLRL
AKHITYVHSHSKQPPTRVkALDMNLMRRYINLCKRK--NPTIPDELTDYI
VGAYVELrrearnqkdmTFTSARNLLGILRLSTALAWLRLSDTVEKDDVA
EALRLLEMSK------------------------dslnqihehqkghvpn
ttdrifaivrelagsgkavkishiidrsttkgfk
>gi|464325|sp|P25205|MCM3_HUMAN_291:683   DNA REPLICATION LICENSING FACTOR MCM3 (DNA POLYMERASE ALPHA HOLOENZYME-ASSOCIATED PROTEIN P1) (RLF BETA SUBUNIT) (P102 PROTEIN) (P1-MCM3)
gi|2135007|pir||S62594 replication licensing factor MCM3 - human
yrcvpgkkggytsgtfrtvliacnvkqmskdaqpsfsaediakikkfskt
---------RSKDIFEQLAKSLAPSIHGHDYVKKAILCLLLGGverdlen
gshirGDINILLIGDPSVAKSQLLRYVLCTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAKAGIHARLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFIMLDQMDPEQDRE
ISDHVLRIHGYRAPGEQDGdamplgsavdilatddpnfsqedqqdtqiye
khdnllhgtkkkkekMVSAAFMKKYIHVAKII--KPVLTQESATYIAEEY
SRLrsqdsmssdtartSPVTARTLETLIRLATAHAKARMSKTVDLQDAEE
AVELVQYAYFKKVLEKEKkrkkrsedeSETEDEEEKSQE---dqeqkrkr
rktrqpdakdgdsydpydfsdteeempqvhtpktadsqetke
>gi|5725518|gb|AAD48086.1|AF073330_1_277:640   (AF073330) replication origin activator 2 [Zea mays]
pgdrvsivgvykalpgkskgsvsgvfrtvliannvsllnkeanapvytre
DLKRMKEISRRNDTFDLLGNSLAPSIYGHLWIKKAVVLLMLGGveknlkn
gthlrGDINMMMVGDPSVAKSQLLRAVMNIAPLAISTTGRGSSGVGLTAA
VTSDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMNDQDRVAIHEVMEQQTVTIAKAGIHASLNARC
SVIAAANPIYGtydrsltptkniGLPDSLLSRFDLLFIVLDQMDPEIDRQ
ISEHVARMHryctdDGGARSLDKEgyaeeddgdanaaifvkydrmlhgqd
rrrgkkskqdRLTVKFLKKYIHYAKNLI-QPRLTDEASDHIATSYAELrd
gsanaksgggtLPITARTLETIIRLSTAHAKMKLRHEVLKSDVEAALQVL
----------------------------nfaiyhkeltemeereqremem
kqqadhdagatggtvdghgssgndpmdv
>gi|5725520|gb|AAD48087.1|AF073331_1_277:640   (AF073331) replication origin activator 3 [Zea mays]
pgdrvsivgvykalpgkskgsvsgvfrtvliannvsllnkeanapvytre
DLKRMKEISRRNDTFDLLGNSLAPSIYGHLWIKKAVVLLMLGGveknlkn
gthlrGDINMMMVGDPSVAKSQLLRAVMNIAPLAISTTGRGSSGVGLTAA
VTSDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMNDQDRVAIHEVMEQQTVTIAKAGIHASLNARC
SVIAAANPIYGtydrsltptkniGLPDSLLSRFDLLFIVLDQMDPEIDRQ
ISEHVARMHryctdDGGARSLDKEgyaeeddgdanaaifvkydrmlhgqd
rrrgkkskqdRLTVKFLKKYIHYAKNLI-QPRLTDEASDHIATSYAELrd
gsanaksgggtLPITARTLETIIRLSTAHAKMKLRHEVLKSDVEAALQVL
----------------------------nfaiyhkeltemeereqremem
kqqadhdagatggtvdghgssgndpmdv
>gi|3953607|dbj|BAA34731.1|_282:664   (AB010107) MCM3 [Drosophila melanogaster]
vqivgsyrclpgkrggytsgtfrtvllannisqlskesnldisredimlc
-----KKLAKNNDIFELLSKSLAPSIHGHAYVKQAILCLLLGGvekilpn
gtrlrGDINVLLIGDPSVAKSQLLRYVLNTAPRAIPTTGRGSSGVGLTAA
VTTDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDIDRTAIHEVMEQGRVTISKAGIHASLNARC
SVLAAANPVYGrydqyktpmeniGLQDSLLSRFDLLFVMLDVIDSDVDQM
ISDHVVRMHryRNPKEADGEPlsmgssyadslsfvssseekkdtevyeky
dallhgksrlrhekILSVEFMRKYIHIAKCM--KPKLGEQACEAIANEYS
RLrsqeadetdvartQPITARTLETLIRLSTAHARARMSKSVTIDDAHAA
IELVQFAYFKKVLDKDRPSKRRRNS-------gsdaeddngeassqrsps
rrskrtrtatvgadsdeedieppqpdagdltr
>gi|6319679|ref|NP_009761.1|_407:724   MCM3 protein homolog (S. cerevisiae); Cdc47p
gi|419857|pir||S34027 replication licensing factor MCM7 - yeast (Saccharomyces cerevisiae)
gi|311678|emb|CAA79689.1| (Z21487) unknown [Saccharomyces cerevisiae]
gi|536577|emb|CAA85166.1| (Z36071) ORF YBR202w [Saccharomyces cerevisiae]
papytgfkalkaglltetyleaqfvrqhkkkfasfsltsdveervmelit
----------SGDVYNRLAKSIAPEIYGNLDVKKALLLLLVGGvdkrvgd
gmkirGDINVCLMGDPGVAKSQLLKAICKISPRGVYTTGKGSSGVGLTAA
VMKDPV-----------------------------------TDEMILEGG
ALVLADNGICCIDEFDKMDESDRTAIHEVMEQQTISISKAVINTNPGART
SILAAANPLYGrinprlspldniNLPAALLSRFDILFLMLDIPSRDDDEK
LAEHVTYVHmHNKQPDLDFTPVEPSKMREYIAYAKTK--RPVMSEAVNDY
VVQAYIRLrqdskremdskfsfGQATPRTLLGIIRLSQALAKLRLADMVD
IDDVEEALRLVRVSK------------------------eslyqetnksk
edespttkiftiikkmlqetgkntlsyenivktvrlrgf
>gi|4544386|gb|AAD22296.1|AC007047_5_318:646   (AC007047) putative CDC21 protein [Arabidopsis thaliana]
mtvrvgpahrtvksvfktyidclhikkasklrmsaedpmdvdnslrrvde
DLRKFQELSKQPDIYERLSRSLAPNIWELDDVKKGLLCQLFGGnalnlas
ganfrGDINILLVGDPGTSKSQLLQYIHKLSPRGIYTSGRGSSAVGLTAY
VAKDPE-----------------------------------TGETVLESG
ALVLSDRGICCIDEFDKMSDSARSMLHEVMEQQTVSIAKAGIIASLNART
SVLACANPSGSrynprlsvieniHLPPTLLSRFDLIYLILDKPDEQTDRR
LAKHIVALHFENAESAQEEAIDITTLTTYVSYARKNI-HPKLSDEAAEEL
TRGYVELrkagkfagsskkvITATPRQIESLIRLSEALARMRFSEWVEKH
DVDEAFRLLRVAMQQ----------------------satdhatgtidmd
lintgvsasermrrdtfassirdialekitmemlllq
>gi|3036819|emb|CAA03887.1|_272:630   (AJ000058) MCM3 homolog [Arabidopsis thaliana]
pgdrvsvfgiykalpgkskgsvngvfrtilianniallnkeanapiytkq
DLDNIKNIARRDDAFDLLARSLAPSIYGHAWIKKAVVLLMLGGveknlkn
gthlrGDINMMMVGDPSVAKSQLLRAIMNIAPLAISTTGRGSSGVGLTAA
VTSDQE-----------------------------------TGERRLEAG
AMVLADKGIVCIDEFDKMNDQDRVAIHEVMEQQTVTIAKAGIHASLNARC
SVVAAANPIYGtydrsltptkniGLPDSLLSRFDLLFIVLDQMDAGIDSM
ISEHVLRMHRYKNDRSEAGpdgslpyarednaesemfvkynqtlhgkkkr
gqthdkTLTIKFLKKYIHYAKHRI-TPKLTDEASERIAEAYADLrnagsd
tktggtLPITARTLETIIRLATAHAKMKLSSEVTKADAEAALKLM-----
-----------------------nfaiyhqeltemddreqeerqreqaeq
ertpsgrrgnqrrnnedgaendt
>gi|2497820|sp|Q43704|MCM3_MAIZE_109:472   DNA REPLICATION LICENSING FACTOR MCM3 HOMOLOG (REPLICATION ORIGIN ACTIVATOR) (ROA PROTEIN)
gi|1076823|pir||S52247 replication licensing factor MCM3 - maize (fragment)
gi|609290|emb|CAA82556.1| (Z29368) ROA protein [Zea mays]
pgdrvsivgvykalpgkskgsvsgvfrtvliannvsllnkeanapvytre
DLKRMKEISRRNDTFDLLGNSLAPSIYGHLWIKKAVVLLMLGGveknlkn
gthlrGDINMMMVGDPSVAKSQLLRAVMNIAPLAISTTGRGSSGVGLTAA
VTSDQE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMNDQDRVAIHEVMEQQTVTIAKAGIHASLNARC
SVIAAANPIYGtydrsltptkniGLPDSLLSRFRLLFIVLDQMDPEIDRQ
ISEHVARMHryctdDGGARSLDKEgyaeeddgdanaaifikydrmlhgqd
rrrgkkskqdRLTVKFLKKYIHYAKNLI-QPRLTDEASDHIATSYAELrd
gsanaksgggtLPITARTLESIIRLSTAHAKMKLRHEVLKSDVEAALQVL
----------------------------nfaiyhkeltemeereqkemem
kqqaehdagatggtvdghgssgndpmdv
>gi|5726482|gb|AAD48445.1|AF164200_1_327:666   (AF164200) putative DNA replication protein CDC47 [Trypanosoma brucei]
tycpdpstgqgheafrastmvktlfralrielerrsyqeaaddlkiqvdn
----VKQHPDKEVVIEKLTRSVAPEIWGMEDVKKALLCLLVGGssiangi
rirSDTNICLMGDPGVAKSQLLKWIASVAPRSIFTTGKGSSGVGLTAAVT
RDTY-----------------------------------TGEVMLEGGAL
VLSDRGICCIDEFDKMDDSDRTALHEVMEQQMVSIAKAGIITSLNARTSI
LAAANPKYGrwrrnltpsenvNLPPALLSRFDVLWLLLDESNRERDAELS
MHVTYVHlhgvapgtvsDNGFYGLSSDYFGKDFLQAYVGEAKKI--HPIV
DSSAAKVISDIYCEMraqsvrhtNVVTARTLLSIIRLSQACARLRFSDRV
VEADVREAGRLLDCSKISLQERVDTGGRRMV---------ttsdaaifst
ikelarsrgsidlaevrpalmikgideshlqrclntyadv
>gi|5852125|emb|CAB55370.1|_330:655   (AL117260) DNA replication licensing factor (CDC47 homolog) [Leishmania major]
qgheafrastmvktlykaihielekrsyqeaaedmraqvedirdypdrea
-------------VIEKLTRSIAPEIWGMEDVKKALLCQLVGGssiangi
rirSDINILFMGDPGVAKSQLLKWIASVAPRSVFTTGKGSSGVGLTAAVT
HDTH-----------------------------------TGEVMLEGGAL
VLSDKGVCCIDEFDKMDDSDRTALHEVMEQQMVSIAKAGIITSLNARTSI
LAAANPKFGrwkrnatptenvNLPPALLSRFDLLWLLLDESSRERDAELS
MHVTHVHlhgvapgtvaDDGVRGTTTEYFGRDFLRAYVGEVKRI--HPYV
DPGAAKAISDIYCEMraqsarhsNVVTARTLLSLIRLSQACARLRFSERV
LEEDVREAGRLLDCSKASLQDRPATD--------------mhrvvttsda
sifsvirdiargrssvdlseirpalmmkgigeshlqrclr
>gi|6016533|sp|P30666|MCM3_SCHPO_293:686   MINICHROMOSOME MAINTENANCE PROTEIN 3 HOMOLOG
gi|7490536|pir||T41059 essential nuclear protein mcm3p - fission yeast (Schizosaccharomyces pombe)
gi|3139137|gb|AAC32263.1| (AF063864) essential nuclear protein Mcm3p [Schizosaccharomyces pombe]
gi|3560156|emb|CAA20668.1| (AL031525) minichromosome maintenance protein 3 homolog [Schizosaccharomyces pombe]
vgqyrsmgsktsgntsatfrtvllannvvllgnkpglgnvgggalditda
DIRNINKLARKKNVFELLSTSLAPSIYGYEYVKQAILLLLLGGteknltn
gthirGDINILMVGDPSTAKSQLLRFVLNTAPLAIATTGRGSSGVGLTAA
VTTDKE-----------------------------------TGERRLEAG
AMVLADRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTIAKAGIHTSLNARC
SVIAAANPIYGqydirkdphqniALPDSMLSRFDLLFIVTDDIDDKKDRA
LSEHVLRMHRYlppgvepgtpvrdslnsvlnvgatnaagvstenveqeve
tpvwetfssllhaNARTKKKELLNINFVRKYIQYAKSRI-HPILNQATAE
YITNIYCGLrnddlqgnqrrtSPLTARTLETLIRLSTAHAKARLSSVVEV
KDAKAAEKILRYALFREVVKPKRKKHKKQR--------leageefdsedd
nsddmdieeseeemdtnmvidsgsrrvtrsqnatsqsq
>gi|1565223|emb|CAA69609.1|_41:383   (Y08301) MCM2-related protein [Arabidopsis thaliana]
nnfdlslntkngfpvfatvveanyvtkkqdlfsaykltqeDKTQIEELSK
DPRIVERIIKSIAPSIYGHEDIKTALALAMFGGqeknikgkhrlrGDINV
LLLGDPGTAKSQFLKYVEKTGQRAVYTTGKGASAVGLTAAVHKDPV----
-------------------------------TREWTLEGGALVLADRGIC
LIDEFDKMNDQDRVSIHEAMEQQSISISKAGIVTSLQARCSVIAAANPVG
GrydssksfaqnvELTDPILSRFDILCVVKDVVDPVTDEMLAEFVVNSHf
ksqpkggkmedSDPEDGIQGSsgstdpeVLPQNLLKKYLTYSKLYV-FPK
LGELDAKKLETVYANLrresmngqgVSIATRHLESMIRMSEAHARMHLRQ
YVTEEDVNMAIRVLLDSFI-----------------------stqkfgvq
rtlresfkryitykkdfnslllvllkelvknalkfeeiisgs
>gi|7428561|pir||T01507_313:645   replication licensing factor MCM7 - Arabidopsis thaliana
gi|2104530|gb|AAC78698.1| (AF001308) PROLIFERA [Arabidopsis thaliana]
gi|2104548|gb|AAB57797.1| (AF001535) AGAA.2, PROLIFERA [Arabidopsis thaliana]
gi|7268590|emb|CAB80699.1| (AL161493) PROLIFERA [Arabidopsis thaliana]
dvvefsgiflpipytgfkalraglvadtyleatsvthfkkkyeeyefqkd
EEEQIARLAEDGDIYNKLSRSLAPEIYGHEDIKKALLLLLVGAphrqlkd
gmkirGDVHICLMGDPGVAKSQLLKHIINVAPRGVYTTGKGSSGVGLTAA
VMRDQV-----------------------------------TNEMVLEGG
ALVLADMGICAIDEFDKMDESDRTAIHEVMEQQTVSIAKAGITTSLNART
AVLAAANPAWGrydlrrtpaeniNLPPALLSRFDLLWLILDRADMDSDLE
LAKHVLHVHqteESPALGFEP--LEPNILRAYISAARRL--SPYVPAELE
EYIATAYSSIrqeeaksntphSYTTVRTLLSILRISAALARLRFSESVAQ
SDVDEALRLMQMSKISLYADDR----------------qkagldaisdty
siirdeaarskkthvsyanalnwisrkgyseaqlkecl
>gi|1172633|sp|P43299|PROL_ARATH_313:645   PROLIFERA PROTEIN
gi|675491|gb|AAC37429.1| (L39954) contains MCM2/3/5 family signature; PROSITE; PS00847; disruption leads to early lethal phenotype; similar to MCM2/3/5 family, most similar to YBR1441 [Arabidopsis thaliana]
dvvefsgiflpipytgfkalraglvadtyleatsvthfkkkyeeyefqkd
EEEQIARLAEDGDIYNKLSRSLAPEIYGHEDIKKALLLLLVGAphrqlkd
gmkirGDVHICLMGDPGVAKSQLLKHIINVAPRGVYTTGKGSSGVGLTAA
VMRDQV-----------------------------------TNEMVLEGG
ALVLADMGICAIDEFDKMDESDRTAIHEVMEQQTVSIAKAGITTSLNART
AVLAAANPAWGrydlrrtpaeniNLPPALLSRFDLLWLILDRADMDSDLE
LAKHVLHVHqteESPALGFEP--LEPNILRAYISAARRL--SPYVPAELE
EYIATAYSSIrqeeaksntphSYTTVRTLLSILRISAALARLRFSESVAQ
SDVDEALRLMQMSKISLYADDR----------------qkagldaisdty
siirdeaarskkthvsyanalnwisrkgyseaqlkecl
>gi|3913221|sp|O07345|CHLD_SYNP7_11:333   MAGNESIUM-CHELATASE SUBUNIT CHLD (MG-PROTOPORPHYRIN IX CHELATASE) (MG-CHELATASE SUBUNIT D)
gi|2159935|dbj|BAA20346.1| (AB003135) magnesium-chelatase subunit [Synechococcus sp.]
miaaapspta--------------------FPLPAVVGQGPIKLALILAA
VDPGLGGVAIAGRRGTAKSVMARALHALLPPIEIL-ENSFNADPNRAGDW
DALTQqrqaNGeelPTRVIPAPFCQVPLGITEDRLLGSVDVAQSIKRGET
VFQPGLLAEAHRGVLYVDEINLLDDQIANLLLTAISEGRNRIEREGISIE
HACRPLLIATYNPEEGPLRLHLLDRIAMPLSADAILEIEERVQAVDQALR
YANDPAKVLEAYAEETESLRTQILLAREWLPDVTITPEQIGYLVREAIRG
QVQGHRAELFAVRVARAAAALEGRTEVNADDLRLAVQLVIVPRATVLDSP
PPPE-------------eppaappppppsqeqqgedeqneqepdepdepe
ndsddqqpdtpppipke
>gi|6226497|sp|O05809|YS50_MYCTU_1:290   HYPOTHETICAL 67.0 KDA PROTEIN RV2850C
gi|7479073|pir||E70589 protoporphyrin IX magnesium chelatase (EC 4.99.1.-) - Mycobacterium tuberculosis (strain H37RV)
gi|2078009|emb|CAB08456.1| (Z95207) hypothetical protein Rv2850c [Mycobacterium tuberculosis]
-----------------MKPYPFSAIVGHDRLRLALLLCAVRPEIGGALI
RGEKGTAKSTAVRGLAALLSVATGS-------------------------
-TETGLVELPLGATEDRVVGSLDLQRVMRDGEHAFSPGLLARAHGGVLYV
DEVNLLHDHLVDILLDAAAMGRVHVERDGISHSHEARFVLIGTMNPEEGE
LRPQLLDRFGLTVDVQASRDIDVRVQVIRRRMAYEADPDAFVARYADADA
ELAHRIAAARATVDDVVLGDNELRRIAALCAAFDVDGMRADLVVARTAAA
HAAWRGVRTVEEQDIRAAAELALPHRRRRDPFD-----------------
dhgidrdqldealalasvdpepepdppgggqsanepasqpnsrskstepg
>gi|2231173|gb|AAC60225.1|_443:774   (U44049) cdc21p [Xenopus laevis]
pirvnprvrnvksvykthidvihyrktdskrlhgidedteqkmfteerva
---VLKELAAKPDIYERLAAALAPSIYEHEDIKKGILLQLFGGtrkdfsh
tgrgkfrAEVNILLCGDPGTSKSQLLQYVYNLVPRGQYTSGKGSSAVGLT
AYVMKDPE-----------------------------------TRQLVLQ
TGALVLSDNGICCIDEFDKMNESTRSVLHEVMEQQTLSIAKAGIICQLNA
RTSVLAAANPVESqwnpkkttieniQLPHTLLSRFDLIFLMLDPQDETYD
RRLAHHLVVLYYQSEEQLKEEHLDMAVLKDYIAYARTYV-NPRLGEEASQ
ALIEAYVDMrkigsgrgmVSAYPRQLESLIRLSEAHAKVRFSSKVETIDV
EEAKRLHREALKQSATDPRTG--------------ivdisilttgmsata
rkrkeelaqvlkkliqskgktpafkyqqlfedlrg
>gi|1184107|gb|AAA91232.1|_448:779   (U46131) DNA replication initiator protein [Xenopus laevis]
pirvnprvrnvksvykthidvihyrktdskrlhgidedteqklfteerva
---MLKELAAKPDIYERLAAALAPSIYEHEDIKKGILLQLFGGtrkdfsh
tgrgkfrAEVNILLCGDPGTSKSQLLQYVFNLVPRGQYTSGKGSSAVGLT
AYVMKDPE-----------------------------------TRQLVLQ
TGALVLSDNGICCIDEFDKMNESTRSVLHEVMEQQTLSIAKAGIICQLNA
RTSVLAAANPVESqwnpkkttieniQLPHTLLSRFDLIFLMLDPQDEAYD
RRLAHHLVALYYQSEEQMKEEHLDMAVLKDYIAYARTYV-NPRLSEEASQ
ALIEAYVSMrkigsgrgmVSAYPRQLESLIRLSEAHAKVRFSNKVETIDV
EEAKRLHREALKQSATDPRTG--------------ivdisilttgmsata
rkrkeelaqvlkkliqskgktpalkyqqlfedlrg
>gi|6015702|emb|CAB57529.1|_278:595   (Y18930) minichromosome maintenance (MCM) protein [Sulfolobus solfataricus]
gdrvkvtgildikqdspvkrgsravfdiymkvssievsqkvldeviisee
DEKKIKDLAKDPWIRDRIISSIAPSIYGHWELKEALALALFGGvpkvled
trirGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAV
VREKG-----------------------------------TGEYYLEAGA
LVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAA
VIAAGNPKFGryiserpvsdniNLPPTILSRFDLIFILKDQPGEQDRELA
NYILDVH----SGKSTKNIIDIDTLRKYIAYARKYV-TPKITSEAKNLIT
DFFVEMrkkssetpdspILITPRQLEALIRISEAYAKMALKAEVTREDAE
RAINIMRL--------------------------flesvgvdmesgkidi
dtimtgkpksarekmmkiieiidslavssecakv
>gi|7304207|gb|AAF59242.1|_447:783   (AE003841) dpa gene product [Drosophila melanogaster]
yratplktgglsssvksvykthvdvvhfrkvdnkrlyedeegkdhifppe
RVELLQLLAKKPDIYDRLARAIAPSIYENDDIKKGILLQLFGGtkkkhat
lgrqnfrSEIHLLLCGDPGTSKSQMLQYVFNLVPRSQYTSGRGSSAVGLT
AYVTKDPE-----------------------------------TRQLVLQ
TGALVLADNGVCCIDEFDKMNDSTRSVLHEVMEQQTLSIAKAGIICQLNA
RTSILAAANPAESqwnkrkniidnvQLPHTLLSRFDLIFLVLDPQDEIFD
KRLASHLVSLYYVTRHEEEDTMFDMSVLRDYIAYAREHL-SPTLSDEAQQ
RLIQAYVDMrkvgagrgqISAYPRQLESLIRLSEAHAKVRLSNQVELLDV
EEAWRLHREALKQSATDPLSGKI------------dvgilttglstaark
kradlvaaikenlkkkgkvltvpyqklfsdikegs
>gi|2497821|sp|Q26454|MCM4_DROME_447:783   DNA REPLICATION LICENSING FACTOR MCM4 (DISC PROLIFERATION ABNORMAL PROTEIN)
gi|2133664|pir||S59872 replication licensing factor MCM4 - fruit fly (Drosophila melanogaster)
gi|1245870|gb|AAB35644.1| (S80255) replication factors MCM=dpa [Drosophila, Peptide, 866 aa] [Drosophila sp.]
yratplktgglsssvksvykthvdvvhfrkvdnkrlyeeeegkdhifppe
RVELLQLLAKKPDIYDRLARAIAPSIYENDDIKKGILLQLFGGtkkkhat
lgrqnfrSEIHLLLCGDPGTSKSQMLQYVFNLVPRSQYTSGRGSSAVGLT
AYVTKDPE-----------------------------------TRQLVLQ
TGALVLADNGVCCIDEFDKMNDSTRSVLHEVMEQQTLSIAKAGIICQLNA
RTSILAAANPAESqwnkrkniidnvQLPHTLLSRFDLIFLVLDPQDEIFD
KRLASHLVSLYYVTRHEEEDTMFDMSVLRDYIAYAREHL-SPTLSDEAQQ
RLIQAYVDMrkvgagrgqISAYPRQLESLIRLSEAHAKVRLSNQVELLDV
EEAWRLHREALKQSATDPLSGKI------------dvgilttglstaark
kradlvaaikenlkkkgkvltvpyqklfsdikegs
>gi|6563302|gb|AAF17244.1|AF203971_1_526:861   (AF203971) minichromosome maintenance protein 2 homolog [Entamoeba histolytica]
dingnvcpnyetglnrnfgfpvfctvievntiekrsgdvisttitheeeq
---EIRRLANNPQIFQIIINSIAPAIYGHDASKAAIALALFGGeqrvlvd
kgnhrtrGDINVLLLGDPGTAKSQLLKYSQKLAPRAVFTTGRGSTAVGLT
AAVKKDSM-----------------------------------NGEWALE
GGALVLADEGVCLIDEFDKMDDQDRTSIHEAMEQQSISISKAGIVTSLKA
RCSVIAAANPKTGkynpnknlnqnvNLTEPIISRFDLIMIVRDVVDYVKV
YKLAQFVVESHsiNHPEASQKREsiapivnktnIISHVLLKKYIAYARQN
CHPKWSGTVGSQMIQQAYIEMrkccdkyhtGQVTARQIEAINRLSEAHAK
IHLRGVVTTEDVKIALKITLKSFI-----------------------scq
kteqakqlqqvclifyyfn
>gi|6225079|sp|Q9ZGE6|BCHD_HELMO_2:354   MAGNESIUM-CHELATASE 67 KDA SUBUNIT (MG-PROTOPORPHYRIN IX CHELATASE) (MG-CHELATASE SUBUNIT D)
gi|7522124|pir||T31461 probable magnesium chelatase (EC 4.99.1.-) chain D bchD - Heliobacillus mobilis
gi|3820559|gb|AAC84032.1| (AF080002) Mg chelatase subunit D BchD [Heliobacillus mobilis]
m----------------KVNTLPLAAITGQEAVKLALTLAAVDPGLKGVA
IAGRRGTGKTVLARGLRHLLPPIDQLEGCPCHCNPAEPHSWCNRCRerft
eesglsdsEVPVVQRNAPFSEVPLGATEDRLLGAIDVEQSLAGGVRAWQP
GLLGEANRGVLYIDQLNLLDDGLVNSLFDAM-SGTCRLEREGISVQYPSN
FVLIGTYDPDEGGLRGHLADRIAMHVSSGVIVDLEQRLEIMRRQELFSEA
PEDFFDLYNDEQEQTLRRIEKARTVLPQVTISEAQTLYLIGQSLKRGVPG
HRADLFSVRLAKAHAAWQGRTAVEPIDLAVAVEFVIKPRQTVDlpdeeeq
mqppppppPPPPPPEPDKPDD-------petppdeapkdeqtlqlpeeff
fdaeevpmedellslqnkvqrqarggah
>gi|421076|pir||S30663_180:509   hypothetical protein f516 - Escherichia coli
gi|148173|gb|AAA67569.1| (M87049) similar to Mg chelatase subunit of Rhodobacter capsulata [Escherichia coli]
pgaissateaiksgrkiivakdnedevglingegcliadhlqavcafleg
--KHALEXPKPTDAVSRALQHDLSDVIGQEQGKRGLEITAAGG--HNLLL
IGPPGTGKTMLASRINGLLPDLSNE-----EALESAAILSLVNAESVQKQ
WRQRPFRSPHHSASLTAMVG----------GGAIPGPGEISLAHNGVLFL
DELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAMNPSPtG
hyqgnhnrctpeqtlrylnRLSGPFLDRFDLSLEIPLPPPGILSKTVVP-
----GESSATVKQRVMAARERQFKRQNKLNAWLDSPEIRQFCKLESEDAM
WLEgtlihLGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYRAID
RLLI---------------------hlqkllt
>gi|140868|sp|P22787|YIFB_ECOLI_187:509   HYPOTHETICAL 56.2 KDA PROTEIN IN PSSR-ILVL INTERGENIC REGION (ORF III) [CONTAINS: ORF I]
gi|95968|pir||JQ0872 hypothetical 56.2K protein (ilvG-rrnC intergenic region) - Escherichia coli
gi|147774|gb|AAA24609.1| (M37337) ORF III [Escherichia coli]
gi|1790201|gb|AAC77486.1| (AE000453) putative 2-component regulator [Escherichia coli]
teaiksgrkiivakdnedevglingegcliadhlqavcaflegkhalerp
---------KPTDAVSRALQHDLSDVIGQEQGKRGLEITAAGG--HNLLL
IGPPGTGKTMLASRINGLLPDLSNE-----EALESAAILSLVNAESVQKQ
WRQRPFRSPHHSASLTAMVG----------GGAIPGPGEISLAHNGVLFL
DELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAMNPSPtG
hyqgnhnrctpeqtlrylnRLSGPFLDRFDLSLEIPLPPPGILSKTVVP-
----GESSATVKQRVMAARERQFKRQNKLNAWLDSPEIRQFCKLESEDAM
WLEgtlihLGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYRAID
RLLI---------------------hlqkllt
>gi|7438484|pir||B72775_280:602   probable DNA replication licensing factor mcm APE0188 - Aeropyrum pernix (strain K1)
gi|5103579|dbj|BAA79100.1| (AP000058) 699aa long hypothetical DNA replication licensing factor mcm [Aeropyrum pernix]
kvrpgdrvkivgvvglqsfsssstlyslymeansilleekileevsitre
DEEKILQLSRDPWIKEKIIASIAPTIYGHWDLKEAIALLLFGGvpkqrpd
gtrtrGDIHVLFVGDPGVAKSQLLQSTAQVAPRVVYTTGKGSTAAGLTAA
VLRDPR-----------------------------------TGEYFLEAG
ALVLADGGIAVIDEFDKMSKEDRGVIHEAMEQQTVSIAKAGIKATLSARA
SLLAAGNPKFGyydpsrsfvdnvDLPAPIISRFDLIFVVRDVIERSRDEM
LASYVLETHTNVELFKPE--IDPDLLRKYIAFARKHV-KPRLTPQAKKLL
KDFYVEMrssalhhssqegakpVPITTRQLEALIRLTEAHARMSLKQEAT
EEDAIAAIRIM----------------------------tsvlqsigldl
etgeidigiimtgasfrsrkimsevldliksiveeergg
>gi|38729|emb|CAA32837.1|_189:474   (X14716) pot. nifA protein (AA 1-573) [Azorhizobium caulinodans]
driwdgtarfrfdedvrfltmvanlvgqtvrlhklvasdrdrliaqthrl
EKALREEKSGAEPEVAEAANGSAMGIVGDSPLVKRLIATAQVVARSNstV
LLRGESGTGKELFARAIHELSPRKGKP-----------------------
--FVKVNCAALPESVLESELFG---HEKGAFTGALNMRQGRFELAHGGTL
FLDEIGEITPAFQAKLLRVLQEGEF--ERVGGNRTLKVDVRLVCATNKNL
eeavskGEFRADLYYRI-HVVPLILPPLRERPGDIPKLAKNFLDRFNKEN
KL--------------------HMMLSAPAIDVLRRCY---FPGNVRELE
NCIRRT---ATLAHDAVITPHDFACDSGQCLSAMLWKGSAPKP-------
--------vmphvppaptpltplspaplataapaaaspapaadslpvtcp
gteacpav
>gi|38726|emb|CAA30816.1|_229:514   (X08014) nifA protein (AA 1-613) [Azorhizobium caulinodans]
driwdgtarfrfdedvrfltmvanlvgqtvrlhklvasdrdrliaqthrl
EKALREEKSGAEPEVAEAANGSAMGIVGDSPLVKRLIATAQVVARSNstV
LLRGESGTGKELFARAIHELSPRKGKP-----------------------
--FVKVNCAALPESVLESELFG---HEKGAFTGALNMRQGRFELAHGGTL
FLDEIGEITPAFQAKLLRVLQEGEF--ERVGGNRTLKVDVRLVCATNKNL
eeavskGEFRADLYYRI-HVVPLILPPLRERPGDIPKLAKNFLDRFNKEN
KL--------------------HMMLSAPAIDVLRRCY---FPGNVRELE
NCIRRT---ATLAHDAVITPHDFACDSGQCLSAMLWKGSAPKP-------
--------vmphvppaptpltplspaplataapaaaspapaadslpvtcp
gteacpav
>gi|266622|sp|P09133|NIFA_AZOCA_231:516   NIF-SPECIFIC REGULATORY PROTEIN
gi|94505|pir||S06977 nif-specific regulatory protein - Azorhizobium caulinodans
gi|38728|emb|CAA32836.1| (X14716) nifAprotein (AA 1-615) [Azorhizobium caulinodans]
driwdgtarfrfdedvrfltmvanlvgqtvrlhklvasdrdrliaqthrl
EKALREEKSGAEPEVAEAANGSAMGIVGDSPLVKRLIATAQVVARSNstV
LLRGESGTGKELFARAIHELSPRKGKP-----------------------
--FVKVNCAALPESVLESELFG---HEKGAFTGALNMRQGRFELAHGGTL
FLDEIGEITPAFQAKLLRVLQEGEF--ERVGGNRTLKVDVRLVCATNKNL
eeavskGEFRADLYYRI-HVVPLILPPLRERPGDIPKLAKNFLDRFNKEN
KL--------------------HMMLSAPAIDVLRRCY---FPGNVRELE
NCIRRT---ATLAHDAVITPHDFACDSGQCLSAMLWKGSAPKP-------
--------vmphvppaptpltplspaplataapaaaspapaadslpvtcp
gteacpav
>gi|6325276|ref|NP_015344.1|_505:847   Involved in initiation of DNA replication; Cdc54p
gi|1168816|sp|P30665|CC54_YEAST CELL DIVISION CONTROL PROTEIN 54
gi|1084526|pir||S56050 replication licensing factor MCM4 - yeast (Saccharomyces cerevisiae)
gi|608171|gb|AAA86310.1| (U14731) Cdc54p [Saccharomyces cerevisiae]
gi|887597|emb|CAA90164.1| (Z49919) unknown [Saccharomyces cerevisiae]
gi|1314093|emb|CAA95015.1| (Z71255) Cdc54p [Saccharomyces cerevisiae]
slyktyvdvvhvkkvsdkrldvdtstieqelmqnkvdhneveevrqitdq
DLAKIREVAAREDLYSLLARSIAPSIYELEDVKKGILLQLFGGtnktftk
ggryrGDINILLCGDPSTSKSQILQYVHKITPRGVYTSGKGSSAVGLTAY
ITRDVD-----------------------------------TKQLVLESG
ALVLSDGGVCCIDEFDKMSDSTRSVLHEVMEQQTISIAKAGIITTLNARS
SILASANPIGSrynpnlpvteniDLPPPLLSRFDLVYLVLDKVDEKNDRE
LAKHLTNLYleDKPEHISQDDVLPVEFLTMYISYAKEHI-HPIITEAAKT
ELVRAYVGMrkmgddsrsdekrITATTRQLESMIRLAEAHAKMKLKNVVE
LEDVQEAVRLIRSAIKDYATDPKTGKIDM----------nlvqtgksviq
rklqedlsreimnvlkdqasdsmsfnelikqinehsqdr
>gi|7442970|pir||F72606_4:300   probable methanol dehydrogenase regulator APE1317 - Aeropyrum pernix (strain K1)
gi|5104994|dbj|BAA80308.1| (AP000061) 306aa long hypothetical methanol dehydrogenase regulator [Aeropyrum pernix]
mek-------------VFARISEEVSKVIVGKEREIRLVLAALA--ARGH
VLLEGVPGVAKTTMARAIARATGLRFSRIQFTPDMLPSDVIGTMVYDqRT
GEFVFRRGPVFAN-------------------------------------
VVLADEVNRANPRTQSAFLEAMQEGQV--TVWGETHRLPSPFIVLATMNP
IElegvYPLPEAQLDRFMARVVVGHPSLEELVEIMEK---------YRSI
TEFPVEPVARPEDIVAAQEAVWKVHVDKNIKLYIARIVEEThkhpgvsLG
GSPRAALSIMMLARGLALLDGLGYVTPDHVKEAARAALPHRLILTTEAKL
-EGLKPESVVEDVL-ssvetp
>gi|466148|sp|P34647|MCM6_CAEEL_333:687   DNA REPLICATION LICENSING FACTOR MCM6 HOMOLOG
gi|3879078|emb|CAA82357.1| (Z29095) similar to Mcm2 and Mcm3: yeast ARS related proteins~cDNA EST yk105h8.5 comes from this gene; cDNA EST EMBL:M89289 comes from this gene~cDNA EST yk105h8.3 comes from this gene; cDNA EST yk155d10.3 comes from this gene~cDNA EST yk155d10.5 comes>
gi|3881705|emb|CAA80191.1| (Z22181) similar to Mcm2 and Mcm3: yeast ARS related proteins~cDNA EST yk105h8.5 comes from this gene; cDNA EST EMBL:M89289 comes from this gene~cDNA EST yk105h8.3 comes from this gene; cDNA EST yk155d10.3 comes from this gene~cDNA EST yk155d10.5 comes>
lkalgvrdltykmaflachiqqteslvggdasgaveetdyldlwskmste
DRATLKKMSDDKKIEKNIVDSLFPNIYGNHEVKLGVLLMLLGGvakksrd
egtslrGDINVCLVGDPSTAKSQVLKAVEEFSPRAIYTSGKASSAAGLTA
AVVKDEE-----------------------------------SFEFVIEA
GALMLADNGVCCIDEFDKMDLKDQVAIHEAMEQQTISITKAGVKATLNAR
ASILAAANPVNGrydrsrplkynvQMSAPIMSRFDLFFVLVDECNEVTDY
AIARRILDNHRAISEHTERDsVYKIDDIKKYIAFARCF--KPKISDKAAE
TLVREYKKLrmsdsnnaatssWRITVRQLESLVRLSEALARLHCGKEVLV
EHVEKAAELLNKSIVRVEQPDIAlddddfdNNIMVVEADKEN---qrgdd
smdhdgekenapkidiaklkisfkeykqlsdvlvlhmrsdednqg
>gi|4758706|ref|NP_004517.1|_449:759   minichromosome maintenance deficient (S. cerevisiae) 2 (mitotin)
gi|7428555|pir||S42228 replication licensing factor MCM2 - human
gi|468704|emb|CAA47749.1| (X67334) polypeptide BM28 [Homo sapiens]
deieltgiyhnnydgslntangfpvfatvilanhvakkdnkvavgeltde
DVKMITSLSKDQQIGEKIFASIAPSIYGHEDIKRGPALALFGGepknpgg
khkvrGDINVLLCGDPGTAKSQFLKYIEKVSSRAIFTTGQGASAVAVTAY
VQRHPV-----------------------------------SREWTLEAG
ALVLADRGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARC
TVIAAANPIGGrydpsltfsenvDLTEPIISRFDILCVVRDTVDPVQDEM
LARFVVGSHvrHHPSNKEEEGlangsaaepampntygvePLPQEVLKKYI
IYAKERV-HPKLNQMDQDKVAKMYSDLrkesmatgsIPITVRHIESM---
--------------------------------------------------
---shgggprahpsaglcdrrrrqhghprdagelhrhtevqrhrsmrktf
ary
>gi|7520962|pir||E71104_268:1026   probable cell division control protein - Pyrococcus horikoshii
gi|3257012|dbj|BAA29695.1| (AP000003) 1108aa long hypothetical cell division control protein [Pyrococcus horikoshii]
gdrvivvgilrviqekrekvptfkkvievnhiepiskeleeleispedeq
---KIRELAKRKDIVSAIVDSIAPAIYGYKEVKKGIALALFGGvsrtlpd
gtrlrGDIHVLLVGDPGVAK-------------cvdydtevllgdgrkrk
igeiveeaikkaekegklgrvddgfyapinlelyaldvrtlkvrkvkadi
awkrttpekmlrirtkrgreirvtpthpfftleegriktkkayelkvgek
iatpreeapeaeifwdevveieeykpnnswvydlqvpehhnfiangifvh
nsqllryvanlapraiytsgksssaaglcvapdtlintdngrveigkfve
ewmkevgeiseegisyapcfrkvetfkdgkivespirrvwklrapkklvr
iktengrsialtretklltindgelswveagevkvgtyvgtvksekdvip
gagktirdvsklynmemevkdyltreevrkaiekleeimnpmnikipgvq
esyeellrklettndervrnetlillsdvsdahelakekiekikeivnse
vhwekvtevgevdgveyvYDLTVEGSHNFVANGFIVHNTAA---------
--------------------VVRDEFTGGWVLEAGALVLADGGYALIDEL
DKMSDRDRSVIHEALEQQTISLSKAGITATLNARTTVIAAANPKHGrfnr
mkrvseqiDLPPTLLSRFDLIFVLMDEPDEKVDSEIARHILKV----RRG
ESEVvtpKIPHELLRKYIAYARKNI-HPVISEEAMEEIEKYYVKMrrsak
kssgdeikpIPITARQLEALIRLSEAHARMRLSPIVTREDAREAIKLMEY
TLKQIAVDE-----------------agqldvtilevgqsarklskveri
ldiveklertsekgakiddileeaak
>gi|7442961|pir||B71126_8:291   hypothetical protein PH0776 - Pyrococcus horikoshii
gi|3257185|dbj|BAA29868.1| (AP000003) 314aa long hypothetical protein [Pyrococcus horikoshii]
mdvqkka---------------QMVIEEVKKAIVGKDNVLKLVLATIL--
ADGHILIEDLPGLAKTLMAKSFAKALGLEFKRVQFTPDLLPSDILGVNVF
NQKTlEFEFKKGPVFTN---------------------------------
----ILLADEINRAPPKTQSALLEAMQERQV--TIEGVTYKLPKPFIVIA
TQNPIEqegtYPLPEAQLDRFLVRLRMGYPSKDEEKEILRRRIERK----
---QDEVEIETVLSPKDVLKMQREVEDVYVSDAIIEYITSLVWATredkr
dieIGVSPRGSLALLKLSRAYAAIEGRDYVIPDDVKAVAIPALSHRIILK
RELW----------------ytrvsqesviekilervpvpkfe
>gi|7442969|pir||C75037_8:305   methanol dehydrogenase regulatory protein (moxr-3) PAB0848 - Pyrococcus abyssi (strain Orsay)
gi|5458705|emb|CAB50192.1| (AJ248287) methanol dehydrogenase regulatory protein (moxR-3) [Pyrococcus abyssi]
mnvqvka---------------QKVLEEVKKAIVGKDNVLKLMLASML--
ADGHILIEDLPGLAKTLMAKSFAKALGLEFRRVQFTPDLLPSDILGVNVF
NQKTlEFEFKKGPVFTN---------------------------------
----ILLADEINRAPPKTQSALLEAMQERQV--TIEGNTYQLPRPFIVIA
TQNPIEqegtYPLPEAQLDRFLVRLRVGYPSKEEEKEILKRRIERK----
---MDDVEINTVLSPEDILRMQREIEEVYVSDAIIEYITSLVWATredkr
eieVGVSPRGSLALLKLSRAYAAIEGRDYVIPDDVKAVAVPALSHRIILK
RELWY-MRIRQEDIIKKIL-ekvpvpkfe
>gi|7442964|pir||E70792_40:338   probable regulatory protein - Mycobacterium tuberculosis (strain H37RV)
gi|2960116|emb|CAA18014.1| (AL022121) moxR2 [Mycobacterium tuberculosis]
mtqsasnpqapptqtpgaelpgyppqaggaptaapsgph--PHRAEAESA
RDALLALRAEVAKAVVGQDGVISGLVIALL--CRGHVLLEGVPGVAKTLI
VRAMSAALQLEFKRVQFTPDLMPGDVTGSLVYDaRTAEFVFRPGPVFTN-
------------------------------------LLLADEINRTPPKT
QAALLEAMEERQV--SVEGEPKPLPNPFIVAATQNPIEyegtYQLPEAQL
DRFLLKLNVTLPARDSEIAILDR-----HAHGFDPRDLSAINPVAGPAEL
AAGREAVRHVLVANEVLGYIVDIVGATrsspalqLGVSPRGATALLGTAR
SWAWLSGRDYVTPDDVKAMARPTLRHRVMLRPEAEL--------------
-egatpdgvldgilasvpvpr
>gi|7442963|pir||G71146_5:305   hypothetical protein PH0385 - Pyrococcus horikoshii
gi|3256777|dbj|BAA29460.1| (AP000002) 312aa long hypothetical protein [Pyrococcus horikoshii]
mvem---------DGRKFLKLLKEEVHKAVVGKDDVIELLAIALL--AEG
HVMIEGVPGVAKTTIAKSFAQVLGLKFSRIQLTPDLLPADILGTVYYDQs
DGLWKIKKGPIFAN------------------------------------
-VVLADEINRAQPKTQSALLEAMQERQV--TIEGRTFPLEKPFMVIATKN
PIEfegvYNLPEAQVDRFMLNIKIGYPTREEEVEMLRK---------KDR
GELGEVGRIFSREQIVRMINEVKRVKTSEEVLHYLYEIVNETrkderliV
GASPRASEHLLYASKAKAFLEGRDYVIPDDVKFLAVPVLAHRLLIKAEHE
I-EGIKGEDIVREIL-ervevpi
>gi|7442966|pir||D72767_6:313   hypothetical protein APE0127 - Aeropyrum pernix (strain K1)
gi|5103517|dbj|BAA79038.1| (AP000058) 314aa long hypothetical protein [Aeropyrum pernix]
mervt----QAELGWSLEVLARVKREVARFVIGKEREVKLALATMI--AK
GHLLVEGVPGVAKTTLAKALAGAFGLRFSRIQFTPDTLPSDVIGTHVYV-
GNGFVFRRGPVFAN------------------------------------
-VVLADEVNRANPRTQSAFLEAMQEGQV--TVWGETHRLPSPFIVLATMN
PIElegvYPLPEAQLDRFMARIRLGYPTRVEEIKIIEK---------GDE
VEDLNVEPAASPEDLKRLQDTARRIYVDRKLVEYIADIVRETrrieeveI
GASPRAGIHILKLSRALALMSGRDFATPDDVKEAARAALPHRLKLRKVYI
SkhSSEGLVEDVLKKVPPp
>gi|7442971|pir||H72289_1:298   hypothetical protein TM1132 - Thermotoga maritima (strain MSB8)
gi|4981679|gb|AAD36208.1|AE001771_1 (AE001771) moxR protein, putative [Thermotoga maritima]
-------------MIERVINNIEKVIKGKREAIEVVVAALL--AKGHVLM
EDVPGVGKTMLARALALSLGVDFRRVQFTPDLLPTDLTGLYIYDRKKeDF
VFKKGPVFTD-------------------------------------VLL
ADEINRATPRTQSALLEAMAEGQV--TVDGVTHRLSERFFVIATQNPIEY
EgtfpLPEAQLDRFMICVKMGYPDEEAEIQMLTS--------QEKEHPIS
QLEPVMNPDELSELQKKVRNVFVSDEVKKYIVDIASATrnhpsllLGMSP
RGSIALMHFSMALAFMDGRDFTLPDDVKRAAVYVIPHRVIQSAESKL-KR
EKKEDIVREIL-drvkvvk
>gi|7442960|pir||F71139_17:306   hypothetical protein PH0329 - Pyrococcus horikoshii
gi|3256720|dbj|BAA29403.1| (AP000002) 317aa long hypothetical protein [Pyrococcus horikoshii]
mrgevkkiieaigdif--------------------------IGHEDVIR
KVLAVALVN--GNILFEDYPGLGKTLLAKAFAKILGLKFKRIQFTPDLLP
ADIIGTKVWKpEKGAFEVVKGPIFTN------------------------
-------------ILLADEINRAPPKTQSALLEAMEERQV--TIEGETFK
LERPFFIIATQNPLElegtYPLPEAQLDRFLVRLNIGYPRNEEDELEILK
ARLRW----GKDDPTSDISPIISREDFIRMQEEVeRGVIIHDDILRYIVR
LVRRIrederieAGPSPRGGLALMKLAKANAFIEGRSYVIPDDVKYFAVE
ALAHRIVLKPEYSL-ERGIAEEIIREVL-eevpvpkdiry
>gi|9911015|sp|P57015|YIFB_SALTY_189:499   HYPOTHETICAL 55.0 KDA PROTEIN IN PSSR-ILVL INTERGENIC REGION
gi|6960294|gb|AAF33484.1| (AF233324) 85% identity to E. coli hypothetical protein (YIFB) (SP:P22787); contains similarity to Pfam family PF01078 (Magnesium chelatase, subunit ChlI), score=351.8, E=7.6e-102, N=1 [Salmonella typhimurium LT2]
atenaaevgliskegcfiadhlqtvcaflegkhalerplaqdmasptata
---------------------DLRDVIGQEQGKRGLEITAAGG--HNLLL
IGPPGTGKTMLASRLSGILPPLSNE-----EALESAAILSLVNADTVQKR
WQQRPFRSPHHSASLTAMVG----------GGAIPAPGEISLAHNGILFL
DELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLIAAMNPSPtG
hyqgnhnrctpeqtlrylnRLSGPFLDRFDLSLEIPLPPPGILSQHASK-
----GESSATVKKRVIAAHERQYRRQKKLNARLEGR--------EIQKYC
VLHhddarwledtlvhLGLSIRAWQRLLKVARTIADIELADQISRQHLQE
AVSYRAIDRLLI---------------------hlqklla
>gi|7442968|pir||D75008_10:302   methanol dehydrogenase regulatory protein (moxr-2) PAB1296 - Pyrococcus abyssi (strain Orsay)
gi|5459020|emb|CAB50506.1| (AJ248288) methanol dehydrogenase regulatory protein (moxR-2) [Pyrococcus abyssi]
mnghefltl-----------------LKKEIHKAVVGKDDVIELLAIALL
--SEGHVIIEGIPGVAKTTIAKNFAQALGLKFSRIQLTPDLFPADIIGTV
YYDQlDGNWKIKKGPIFAN-------------------------------
------VILADEINRAQPKTQSALLEAMQERQV--TIEGRTYKLERPFLL
IATKNPLEfegvYNLPEAQLDRFMLQIKVGYPSKEEELEMLKR-------
--KDKGLFSEAKRVFSRDQIIKMIELARRVRISDEVLEYLYEIINLTrvd
krllVGASPRAAEHLLYASKAKAFLEGRDYVIPDDIKSLAVPVLAHRLLV
KAEYEV-EGITGERVVREIL-nkvevpv
>gi|7514367|pir||D75056_268:1030   cell division control protein. PAB2373 - Pyrococcus abyssi (strain Orsay)
gi|5458858|emb|CAB50345.1| (AJ248287) CELL DIVISION CONTROL PROTEIN. [Pyrococcus abyssi]
gdrvvvvgilrvvqekrekvptfkkvievnyiepvskeieeleitpeeeq
---KIRELAKRKDIVDAIVDSIAPAIYGYREVKKGIALALFGGvprtlpd
gtrlrGDIHVLLVGDPGVAK-------------cvdyetevvlgngerkk
igeiveraieeaekngklgrvddgfyapidievysldletlkvrkarani
awkrtapkkmmlvktrggkrirvtpthpffvleegkvamrkardleegnk
iatieglsvswdevaeileyepkdpwvydlqvpgyhnflangifvhnsql
lryianlapraiytsgksssaaglcvapetliitengtkeigevverwmk
elgeieyddgisyspafekvaslnggkvkmlpvrrvwklrspgkmikirs
esgkqitvtpetklltiidgslewvearklkkgnyvavvnkersivpigd
flakllkfygvelnlneaverdqarklletlkskglsdvtieipeklrrf
ikcdrvryvdlvemlssmegelkeevmlllsdvgdiheviqerlkeigki
lesdasweriaeveevvrdghvYDLTVEGSHSFIANGFVVHNTAA-----
------------------------VVRDEFTGGWVLEAGALVLADGGYAL
IDELDKMNDKDRSVIHEALEQQTISLSKAGITATLNARTTVIAAANPKQG
rfnrmkriseqiNLPPTLMSRFDLIFVLVDEPDEKIDSEIARHILRV---
-RRGESEVvtpKIPHDLLRKYIAYARKNV-HPVISEEAMEEIEKYYVKMr
ksvkksseeeikpIPITARQLEALIRLSEAHARMRLSPIVTREDAREAIK
LMEYTLRQIAVDE-----------------tgqidvtilevgqsarklsk
verildiieklegtsekgakiddileeakk
>gi|7473154|pir||D75460_18:317   MoxR-related protein - Deinococcus radiodurans (strain R1)
gi|6458637|gb|AAF10492.1|AE001944_3 (AE001944) MoxR-related protein [Deinococcus radiodurans]
mtaptptapgltpapqt-----------QPFAAEIIANVARVLVGKEDVT
RLALAAILAG--GHVLLEDAPGTGKTVLARALAASLGLDFRRVQFTPDLL
PSDVTGVSVFRpATGTFEFVPGPIFTG-----------------------
--------------ILLADEINRATPKTQSALLEAMGEGQV--SESGVTH
RLPQPFVVIATQNPVEhegtYRLPEAQLDRFLLRLSVGYPSLEQEVEMLA
RLQERH--------PLQDLRAVAAPADLLAAQAQVQQVTVSSDVRRYLAA
LAARSrqhpqvtLGGGPRASLALQGVAQALAWTQGRTFVTPDDVQQAAPG
VLAHRLSLGIEARM-QGLSAADVVREVL-aaepvpvekgpgerdmgergt
gergpserntaevrga
>gi|6165390|emb|CAB59865.1|_464:919   (AL132763) possible DNA replication licensing factor MCM4 [Leishmania major]
gakkgcfangnatgtglhvstptlataknaegdlssavlmdtarldmfhs
-------LAHRPDIYDVLLHSFARTIWGHDDVKRGILAQLFGGtaktfvf
serigsgaaattssnsavfrSELNVLLCGDPGVAKSQLLTQVHEIAPRGV
YTSGKGSSSVGLTAFVVQDSD-----------------------------
------TGELVLEPGALVLSDRGLCCIDEFDKMNEATRSVLHEVMEQQTL
SIAKAGIIAQLNARTSILAAANPKDSqwnaqlnvvenlQIEPTLLSRFDL
IFLLLDCHDSVEDRRLAAHVLSLYmdtsRSARTPRAVNsgsgaagrrvpp
qggcsdddsgeegeatqwrstaragqptaapddatgtasthvdaatglpv
evqmelhgevflqgppdapYMPASILSEYIALARETI-FPKLTEASHKML
ARCYVELrqargssctVSATLRQLESMIRLSEARAKMRYGSEVSVEDVVE
AKRIISAALKKAATDPTTglinldmfhaadpgkntveGNMRRLEELLKR-
--rylaqgrhtvsvaelrsvfneqqsgaarpvapaqfveflallsggdvv
qs
>gi|6682244|gb|AAF23296.1|AC016661_21_341:706   (AC016661) putative minichromosome maintenance (MCM) protein [Arabidopsis thaliana]
gfyylfieavsvkntkrqsafensedssssaqtadvgdlysfsqrdlefi
---VKFKEEYGSDTFRRILHSVCPSIYGHEIVKAGITLSLFGGvrkhsmd
rnkvpvrGDIHVIIVGDPGLGKSQLLQAAAAISPRGIYVCGNATTRAGLT
VAVVKDSM-----------------------------------TNDYAFE
AGAMVLADGGLCCIDEFDKMTTEHQ-ALLEAMEQQCVSVAKAGLVASLSA
RTSVIAAANPVGGhynraktvnenlKMSAALLSRFDLVFILLDKPDELLD
KQVSEHIMSHHRMlgmqtcmqkgilYFQDCGWTLRKMTTFLRFLANCLGN
IfpmHGILMSKDAGEIIQKFYLKLrdhntsadsTPITARQLESLVRLAQA
RARVDLREEITVQDAMDVVEIMKESLYDKLIDEHGvvdfgrSGGMSQQKE
AKRFL-saldkqselqqkdcfsvsemysladriglrvpdidtflenlnia
gyllkk
>gi|7799213|emb|CAB90929.1|_22:322   (AL355774) putative regulatory protein [Streptomyces coelicolor A3(2)]
mdpttdnagqsaapgnaraal---------------EALRAEIAKAVVGQ
DAAVTGLVVALL--CRGHVLLEGVPGVAKTLLVRTLAAATELDTKRVQFT
PDLMPSDVTGSLVYDaRTTEFSFQPGPVFTN-------------------
------------------LLLADEINRTPPKTQSSLLEAMEERQV--TVD
GTPRLLPEPFLVAATQNPVEYEgtypLPEAQLDRFLLKLTVPLPTRQDEI
DVLTRHAAGF--NPRDLRAAG-VRPVASAADLEAARAEAAKTTVSPEITA
YVVDICRATrespsltLGVSPRGATALLSTARAWAWLTGRDYVTPDDVKA
LALPTLRHRVQLRPEAEM-EGVTADSVINAIL-ahvpvpr
>gi|7442967|pir||B75012_6:300   methanol dehydrogenase regulatory protein (moxr-1) PAB1276 - Pyrococcus abyssi (strain Orsay)
gi|5459050|emb|CAB50536.1| (AJ248288) methanol dehydrogenase regulatory protein (moxR-1) [Pyrococcus abyssi]
mneri---------------EEVINSIGEVFIGKVEVVRKVFAAALVN--
GNVLFEDHPGLGKTLLAKAFAKVLGLNYRRIQFTPDLLPADIIGTKVWRp
EKGVFEIMKGPIFTN-----------------------------------
--VLLADEINRAPPKTQSALLEAMEERQV--TIEGETFRLEQPFFVIATQ
NPLEFEgtypLPEAQLDRFLVRLSVGYPGSEDEEMEILKARLRW----GK
DDPTVDLKPVLSKEEFLEMQRRVeHEVKVHDDILRYIVRIVRRIrederv
eAGPSPRGALALMKLSKANAFIEGRDFVIPDDVKAFVIDALSHRIVLKPE
YSLERGLERE--------iveeavnevpvpkdley
>gi|7448581|pir||S75721_176:508   hypothetical protein slr0904 - Synechocystis sp. (strain PCC 6803)
gi|1001214|dbj|BAA10456.1| (D64003) hypothetical protein [Synechocystis sp.]
ataqkmglagivvpsgnaleasvvqglkvygfdhikevvdflgapekftp
----VNAQDAKQQWNTSLPCLDLKDVKGQSHGRRALEIAAAGG--HNLIF
VGPPGSGKTMLARRLPGILPPLQFEEALEVSQVHSVAGLLKERG----QL
IRQRPFRSPHHSASGPSLVG----------GGSFPRPGEISLAHRGVLFL
DELTEFKRNVLEFLRQPLEDGHVTISRTKQTIMFPAQFTLIASTNPCPCg
yfgdpiqacscsprqremywsKLSGPLMDRIDLQVAVNRLKPEEMTSQ--
----GQGESSEPVRQRVAKARAMAIARFSKDAKI--SCNAEmqagqlrqf
chlDENCRQLLEGAIKKLGLSARAMDRILKVSRTIADLGRSEHIQASHLA
EAIQYRTLDRF-----------------------t
>gi|7428884|pir||S74593_3:301   MorR protein - Synechocystis sp. (strain PCC 6803)
gi|1651818|dbj|BAA16745.1| (D90900) MorR protein [Synechocystis sp.]
mt-----------RPLFNELRGHLEAFLVGQPHLIQELLVALLAG--GHV
IIEGVPGTGKTLLVKLLAQSIQSQFRRVQLTPDMLPSDMVGVNVFDFNQq
AFSLKQGPVFTE-------------------------------------I
LLADEINRTPPKTQSALLEAMEEQQV--TLDGHTYALPPLFWVVATQNPL
EFEgtypLPEAQLDRFLFKLVVDYPPPAAAKQMLVNFQQGF---HAQRQD
LEQLTAIATVEEILASRRSVEDIAVDEKLLDYLLALVEKTryhpdilIGA
SPRASLRWLQAAKADAWLNGQEYLLPDNLKTVAPPLLRHRLILRPEAQLD
GIGIDE--------vitaileqtpvpr
>gi|7448585|pir||F70326_169:490   conserved hypothetical protein aq_291 - Aquifex aeolicus
gi|2982994|gb|AAC06607.1| (AE000682) hypothetical protein [Aquifex aeolicus]
lavlislkekgfkkfiipkqnageaslikgvevytfenlkevveflrgnl
---KREPISHRKHQVIEIFEGDLKDVKGQELAKRALEICAA--GFHHLLF
VGSAGAGKSMLATRIKSIAPPMEEEEILEVSKIYSVAGMLEESL------
ITERPFQAPHHTSSEVSLIG----------GGNPPKPGLISLAHRGYLFL
DEMAEFPRRFIESLRQPMENGKVQVSRAGSNVVFPAEFTLLGAMNPCPCg
nyknpfkvctcsereiknynkKISEPIKDRIDLKVWVYPLKEEELVNL--
----PEGESSEKVRERVIRAFRIQKERGKFNSRLS-NEEVKKYCLDMLSR
EAKELlkeavknLNLSARSYFKLLKVARTIADLEESERIEDYHISECLQF
-----------------------------rd
>gi|7380706|emb|CAB85297.1|_177:494   (AL162758) putative chelatase [Neisseria meningitidis]
wqgmqakrafvlpeenagqaavmrgitvygarslgevaahlngieplaqt
------ECQVPQMPFEHGGQPDLCDVKGQHTARLALEIAAAGG--HSLLM
MGPPGTGKSMLSQRLPGILPPLTED-------ELVEVWALRSLLPNHqQQ
LDSNRPFRSPHHSASAAAMVG----------GGSDPRPGEISLAHHGVLF
LDELPEFDRKVLEVLREPLENGEIHISRAARQAVYPAKFQLVAAMNPCPC
gylghpvkpcrctpesvaryrsKISGPLLDRIDLTIEVPSLSAAELMQQ-
-----EAGESSASVLERVIAARDKQYARQGKVNAALSVSELDSQAR--IQ
KEAQEAlgglmekLSLSARSFHRIMRVARTLADLAGDEEVGRSHVMKAIG
F-----------------------------rral
>gi|7448586|pir||G72368_192:496   comM protein - Thermotoga maritima (strain MSB8)
gi|4981025|gb|AAD35598.1|AE001727_10 (AE001727) comM protein [Thermotoga maritima]
eneeeakcvkeldiyaveslrecveflrgdrtlkrieysgientnleyei
---------------------DFSDVRDHEMVKRAVEIAVA--GFHNILM
VGNPGSGKTMIAKRIPTIFPPMSEE------------EILETSKVysasG
YPGIVKLRPFRAPHHTASTVSIIG----------GGTNPRPGEISLAHNG
VLFLDELPEFKRDVLEALRQPLEEGIVTVARAKFTVTYPARFMLVGAMNP
CPCgnlgdpkqpcvcsprdimryrkKISGPLLDRMDLVINVPKLSFEEMM
KK------PEGEKSSSIRERVMKAREIQKRRFRDTHISC-NSQMShrmlr
rfvqlDEKSEDLLKRYVERYGLSGRKIDKVLKISRTIADLEGSNGVEMSH
LAEALQY-----------------------------rfres
>gi|7428887|pir||H70321_12:294   conserved hypothetical protein aq_240 - Aquifex aeolicus
gi|2982960|gb|AAC06575.1| (AE000680) hypothetical protein [Aquifex aeolicus]
mdinliisevs-----------------------KVIKGKEEVIKNSLVC
LLSG--GHLLIEDVPGTGKTTLALALARVLGLSFSRIQFTSDLLPSDITG
VSVFNQKTrEFEFKKGPIFSN-----------------------------
--------VVLADEINRGTPKVQSALLEAMAEKQV--SVDGNTYKLPEPF
FVIATQNPIEyygtYPLPEAQLDRFTMKISMGYPSEEDEVQIVQGINPME
--------KVSSLNVLSSPEEVIRTVNEVKEIYVSPEVARFIVNIGNEVr
nhpsviLGVSTRGLIHLANASRALAYFRERDFVVPEDVLDLLKYVIPHRI
KVR------EGVKAEAVLKEVI-srvpip
>gi|7428886|pir||C69791_1:307   methanol dehydrogenase regulation homolog yeaC - Bacillus subtilis
gi|1708641|gb|AAB62308.1| (U51115) YeaC [Bacillus subtilis]
gi|2632946|emb|CAB12452.1| (Z99107) similar to methanol dehydrogenase regulation [Bacillus subtilis]
----MAYQERPASFAGESSEHINRVMVGKRDIAILSLAALL--AKGHVLL
EDVPGVGKTMMVRALAKSIGADFKRIQFTPDLLPSDVTGVSIYNAkTMEF
EYRPGPIMGN-------------------------------------IVL
ADEINRTSPKTQSALLEAMEEGSV--TVDGHTMQLADPFFVMATQNPVEY
EgtypLPEAQLDRFLFKLRMGYPSFNEELDVLSL--------QEKSHPIE
TLEPVIAKEDFIFLQREVQNVRADDSIKEYIVEIVQKTrqhpsvqLGVSP
RGSIALMKAAQAYALLHHRDYVIPDDIQYLAPFTLPHRMMLHPEAKF-EG
IQAEAIVREIM-savkvpvqrsavr
>gi|2497831|sp|Q58884|YE89_METJA_271:604   HYPOTHETICAL MCM-TYPE PROTEIN MJ1489
gi|2127802|pir||H64485 replication licensing factor MCM-type homolog MJ1489 - Methanococcus jannaschii
gi|1592127|gb|AAB99502.1| (U67590) cell division control protein 47 (cdc47) [Methanococcus jannaschii]
spgiyagrvkitgipikvkkskklpiydihvkalhcevldgevkikltns
DIENIKKIAKRKDVVNILADRLIPEIKGHSAIKKAVLLQQIKGvkkpgkr
ADIHILLITDPGIGKTVILRKIA---------------------------
-------EIPGNLYGSVTTATGVGLTAAVVREKTeIGEDTWVIKPGLLVK
AHKGTACIDELTV-NKELQSYVLEAMESQTIHISKGGINAKLPAECAILA
ACNPRWGrfnpevsvaeqiNIPAPLLSRFDLIFPIRDVSDKDKDKDIAEY
IVDLHrayldekinrEMGLDYLEVDgvKIDKEFIIKYIYYARQK--KPII
SEKAKELFVNYYVEMrkkHQITARQLEAAIRIAEAHAKAKLKDVVDEEDA
KEAINIITECLKEIAYDPETG--------------ifdvdkilgvskker
dklttvyeiikelsekselvehediaeeakkkgik
>gi|7225627|gb|AAF40844.1|_177:494   (AE002396) competence protein ComM [Neisseria meningitidis MC58]
wqgmqakrafvlpeenagqaavmrgitvygarslgevaahlngieplaqt
------ECQVPQMPFEHGGQPDLCDVKGQHTARLALEIAAAGG--HSLLM
MGPPGTGKSMLSQRLPGILPPLTED-------ELVEVWALRSLLPNHqQQ
LDSNRPFRSPHHSASAAAMVG----------GGSDPRPGEISLAHHGVLF
LDELPEFDRKVLEVLREPLENGEIHISRAARQAVYPAKFQLVAAMNPCPC
gylghpvkpcrctpesvaryrsKISGPLLDRIDLTIEVPSLSAAELMQQ-
-----EAGESSASVLERVIAARDKQYARQGKVNAALSVSELDTSAR--IQ
KEAQEAlggllekLSLSARSFHRIMRVARTLADLAGDEEVGRSHVMKAIG
F-----------------------------rral
>gi|7428883|pir||B69553_12:311   methanol dehydrogenase regulatory protein (moxR) homolog - Archaeoglobus fulgidus
gi|2650675|gb|AAB91247.1| (AE001108) methanol dehydrogenase regulatory protein (moxR) [Archaeoglobus fulgidus]
mpncgmteist-------------ICSRIVKAVCDVYVGDKNLVEKMLAA
AL--TNGNILFEDYPGLGKTLLAKVFARVIGADYRRVQFTPDLLPSDIIG
VKIWR-GDRFEFVKGPIFTN------------------------------
-------VLLADEINRSPPKTQAALLEAMEEKQI--TVEGETFSLSMPFF
VLATQNPIEqegtYPLPEAQMDRFMLRMRPGYPESIEEEMEILRRRISW-
---RKDDPTEDVEPVVSLETFRRIQDAVEAVYVDKSILKYISELVRATre
helveLGSSPRGGLALLKLARALAVMDGRDFVIPDDVKRVAVEALAHRVI
LKFEYAV-EGLRAEEVVEEIL-nsvrvpkyeaqes
>gi|9654425|gb|AAF93210.1|_175:501   (AE004095) ComM-related protein [Vibrio cholerae]
aalaanqverclvvphsngdqaalvgverhksaqsllevcadlcgqqtls
------LFQSSPSVQQVSQTRDLQDIIGQQQGKRALEIAAA--GNHNLLF
LGPPGTGKTMLASRLCDLLPEMSDEEaMETASIASLTQQEINQHN-----
-WKLRPFRAPHHSSSMAALVG----------GGTIPRPGEISLAHNGLLF
LDEMPEFERKVLDSLREPLESGEIVISRAQGKTRFPARFQLVGALNPSPt
GyyegsqaranpqsilrylsRLSGPLLDRFDMSIEIPALPKGTLANGGDR
-----GESTAAVRQRVWVARERMLARSGKVNALLQSREIEQYCP--LLKA
DAEFlesalhrLGLSIRAYHRIIKVARTIADLQGEAQIARPHLAEALGYR
AMDRLLKQ--------------------lsaqnv
>gi|1176314|sp|P45049|COMM_HAEIN_178:505   COMPETENCE PROTEIN COMM
gi|1074922|pir||I64183 conserved hypothetical protein HI1117 - Haemophilus influenzae (strain Rd KW20)
gi|1574671|gb|AAC22771.1| (U32791) competence protein (comM) [Haemophilus influenzae Rd]
aaqkskreliiakqnaneaslvsdqntyfaqtlldvvqflngqeklplat
-----EIVKESAVNFSGKNTLDLTDIIGQQHAKRALTIAAA--GQHNLLF
LGPPGTGKTMLASRLTGLLPEMTDlEAIETASVTSLVQNELNFHN-----
-WKQRPFRAPHHSASMPALVG----------GGTIPKPGEISLATNGVLF
LDELPEFERKVLDALRQPLESGEIIISRANAKIQFPARFQLVAAMNPSPt
GhytgthnrtspqqimrylnRLSGPFLDRFDLSIEVPLLPqgslqntgdr
getsaqVREKVLKVRE---------IQMERAGKINAYLNSKEIER-----
-DCKLNDKDAFFLEKALNKL-GLSVRAYHRILKVSRTIADLQGEQQIFQP
HLAEALGYRAMVRLLQK--------------------lsnm
>gi|7428882|pir||S75782_16:290   methanol dehydrogenase regulatory protein - Synechocystis sp. (strain PCC 6803)
gi|1001272|dbj|BAA10517.1| (D64003) MoxR [Synechocystis sp.]
mreqisvltqnlsqt-------------------------IVGKDEAIRL
VLVALLSG--GHALLEDVPGVGKTLLAKSLARSINGKFQRVQCTPDLLPT
DITGTNIWNPsSREFEFLPGPAFAN-------------------------
------------ILLADEINRATPRTQAALLEVMEEKQV--TVDGETRLV
PHPFFVIATQNPIEYQgtfpLPEAQLDRFALSLSLGYPSEAEELKMLQRQ
QNPE------AIAVGDLESCISLEEVEALQKAVRQVKLTEDLQQYLLRLV
RASrtdedvtLGVSPRGTTALQRATQAFAFLEERDYAIDDDVKFVAPHVL
AHRLIPASGKDP---------------kailqrlldsvpi
>gi|5748653|emb|CAB53157.1|_220:481   (X07567) nifA1 [Rhodobacter capsulatus]
dadvrvltmvaslleqalrfrrriardreraledtrrmlqtvteqrgpaa
-------------------PVSLDGIVGSSPAIAEVVAQIKRVasTRMPV
LLRGESGTGKELFARAVHAQSPRAKGP-----------------------
--FIRVNCAALSETLLESELFG---HEKGAFTGATALKKGRFELADGGTL
FLDEIGEISPAFQSKLLRVLQEGEF--ERVGGAKTIKVDTRIVAATNRDL
edavarGQFRADLYFRI-CVVPIVLPPLRNRKSDIKPLAQLFLDRFNKQN
AT--------------------NVKFAADAFDQICRCQ---FPGNVRELE
NCVNRA---AALSDGAIVLAEELACRQGACLSAELFRL------------
--------qdgtspigglavgrvitptvrvsapppepapapepapeappr
eevplrtk
>gi|2689662|gb|AAB91397.1|_223:484   (AF033203) NifAII protein [Rhodobacter capsulatus]
dadvrvltmvaslleqalrfrrriardreraledtrrmlqtvteqrgpaa
-------------------PVSLDGIVGSSPAIAEVVAQIKRVasTRMPV
LLRGESGTGKELFARAVHAQSPRAKGP-----------------------
--FIRVNCAALSETLLESELFG---HEKGAFTGATALKKGRFELADGGTL
FLDEIGEISPAFQSKLLRVLQEGEF--ERVGGAKTIKVDTRIVAATNRDL
edavarGQFRADLYFRI-CVVPIVLPPLRNRKSDIKPLAQLFLDRFNKQN
AT--------------------NVKFAADAFDQICRCQ---FPGNVRELE
NCVNRA---AALSDGAIVLAEELACRQGACLSAELFRL------------
--------qdgtspigglavgrvitptvrvsapppepapapepapeappr
eevplrtk
>gi|4091967|gb|AAC99364.1|_208:480   (AF072689) transcriptional activator NifA [Gluconacetobacter diazotrophicus]
ggigrrsmdvcllsmvaglmgqmvrlhrlgaagpgkpaarqrprpagaag
-----------------CRWRRYMGIVGDSPALRAVLQkveiVAR--SDV
TVLLRGESGTGKELFAQAIHQASPRHRKP---------------------
----FVKLNCAALPESVLESELFG---HEKGAFTGAIGQRKGRFELADGG
TLFMDEIGEISPSFQAKLLRVLQEGEF--ERVGGTRTLKVDVRVVTATNR
NLeeavskGRFRADLYYRL-SVIPIFLPPLRDRPTDIPMLANEFLRRFNE
TNRT--------------------SLTIASDGMDVLTTCY---FPGNVRE
LENCIRRT---ATLAPGQTIGAADFACRSDGCLSSIFWRPAAPAPGPGR-
----------hpavsdvagdtgaatelpvlpaprsssqsspqssaapdpa
kcpssavcsa
>gi|9657565|gb|AAF96088.1|_6:293   (AE004357) MoxR-related protein [Vibrio cholerae]
msfqs--------------FQTLQHYLNQQVIGQTDFINQLLIALL--AD
GHILVEGPPGLAKTRAVKSLADCIEGDFHRIQFTPDLLPADLTGSDVYRp
ETGEFVFQSGPIFNA-----------------------------------
--LVLADEINRAPAKVQAAMLEAMAEKQI--SAGRKTYRLPELFLVMATQ
NPIEqegtYPLPEAQLDRFLLHLEVNYPNAEDELAILRL-----NRGEAK
GQQAI-NKPLLTQQQVFSARQEVLNVHMAEAIENYLVRLVMATrhpanyd
aklaqwltMGVSPRATIALDRCARAHAWLQGRDFVTPDDVQVMAFSVLRH
RLLL---------------------syqaqaegihpnkiishllslvgsa
>gi|1223606|emb|CAA65298.1|_10:309   (X96434) moxR [Borrelia burgdorferi]
gi|2689172|emb|CAA06007.1| (AJ003222) moxR [Borrelia burgdorferi]
mksgfqids------EVENALHLINKFRREVATRVLGQKEMIDAILMGLL
--TDGHVLLEGVPGLAKTLAIQTVSDVLDLEFKRIQFTPDLLPSDLTGNM
VYKsATGTFKVRKGPVFSN-------------------------------
------VILADEINRAPAKVQSALLEAMGERQV--TLGDETHRLPDPFFV
LATQNPIEqegtYNLPESQLDRFLLKVNVHYPSVQDEVRLLKIFSVDG--
----RLENIKVAKVMNAYSLADIKRTVGRVKVDDKIMLICYFISASRerd
kktypfakyieFGASPRASLSLLKCARVNALYEGRIFVLPEDVKAVAYSV
LRHRITPSYEAE----------------veemsiddiirmllsavalp
>gi|9106145|gb|AAF83989.1|AE003951_14_191:500   (AE003951) competence related protein [Xylella fastidiosa]
sngaeaaiagcceaytartllevcaglcgktlllaaqrfevkadvlhdip
---------------------DISDVRGQEEARRVLEIAAAGG--HHLLL
IGSPGCGKTLLASRLPGLLPPASEQEALESASIASVSGHDLNLT-----H
WRRRPYRAPHHSASAVALIG----------GGGQARPGEISLAHNGVLFM
DELPEWQRKTLEALREPMESGVVTIARATRSVDYPARFQLVAAMNPCPCg
wagdssgrcqcgvdairryrrRISGPLLDRIDLQLEIPRLAPQLLR----
------PSTPRGEHSVTVRRRVTDARTLQYNRQAGLNAHLGqaaterhcc
lDVIDQQLLERAIEQLQLSARSMQRILRVARTIADLDGSTLITSMHLHEA
IGYRRFDR------------------------tafgia
>gi|7481246|pir||T34964_8:305   probable regulatory protein - Streptomyces coelicolor
gi|5689966|emb|CAB52003.1| (AL109663) putative regulatory protein [Streptomyces coelicolor A3(2)]
mgedlta-------------VVERVRGSVEDVIEGKPEVVRLSLTVLL--
AEGHLLIEDVPGVGKTMLAKALARSIDCSVRRIQFTPDLLPSDITGVSIW
DQQRrDFEFKPGAIFAQ---------------------------------
----VVIGDEINRASPKTQSALLESMEERQV--TIDGQTYELPSPFMVVA
TQNPVEmegtYPLPEAQRDRFMARVSIGYPSPEAELQMLDVHGGAS----
----PLDDLQPVAHAHDILKLIEAVRGVHVADPVRRYAVDLVAATrthpd
lrLGASPRATLHLLRAAKASAALSGRDYALPDDVQALAVAVLAHRLLPTA
QAQL-NRRTAEQVVQEIL-qrtavpaepqqqtgfgvgrgtpaygqqpprr
v
>gi|7428885|pir||H70121_17:317   methanol dehydrogenase regulator (moxR) homolog - Lyme disease spirochete
gi|2688061|gb|AAC66559.1| (AE001128) methanol dehydrogenase regulator (moxR) [Borrelia burgdorferi]
miltrsimksgfqids------EVENALHLINKFRREVATRVLGQKEMID
AILMGLL--TDGHVLLEGVPGLAKTLAIQTVSDVLDLEFKRIQFTPDLLP
SDLTGNMVYKsATGTFKVRKGPVFSN------------------------
-------------VILADEINRAPAKVQSALLEAMGERQV--TLGDETHR
LPDPFFVLATQNPIEqegtYNLPESQLDRFLLKVNVHYPSVQDEVRLLKI
FSVDG------RLENIKVAKVMNAYSLADIKRTVGRVKVDDKIMLYIVTL
ISASrerdkktypfakyieFGASPRASLSLLKCARVNALYEGRIFVLPED
VKAVAYSVLRHRITPSYEAE----------------veemsiddiirmll
savalp
>gi|1352500|sp|P09828|NIFA_RHILE_177:439   NIF-SPECIFIC REGULATORY PROTEIN
gi|78039|pir||C25878 nif-specific regulatory protein - Rhizobium leguminosarum plasmid pRL6JI
gi|46202|emb|CAA28723.1| (X05049) nifA gene product (AA1-519) [Rhizobium leguminosarum]
amiavligltcqrdrelcsdggsvaeeqqagqipkikpkphptqldkidw
-------------------------IVGESPALKRVLATTKIVAATNsaV
LLRGESGTGKECFARAIHALSIRKSKA-----------------------
--FIKLNCAALSETVLESELFG---HEKGAFTGALLQRAGRFELANGGTL
LLDEIGDVSPQFQAKLLRVLQEGEF--ERLGGTKTLKVDVRVICATNKNL
evavlrGEFRADLYYRI-NVVPIILPPLRQRDGDISLLAQVF--------
----------LEQFNNANDR--NCDFGPSAIDILSKCA---FPGNVRELD
NCVQRT---ATLASSNTITSSDFACQQDQCSSALLRKADGDGIGN-----
--------damnglnsrdtmsgglcahagtpsgaaatieaaglterdrli
kameragw
>gi|3913146|sp|O50313|BCHD_CHLVI_4:288   MAGNESIUM-CHELATASE 67 KDA SUBUNIT (MG-PROTOPORPHYRIN IX CHELATASE) (MG-CHELATASE SUBUNIT D)
gi|7469231|pir||T17193 probable protoporphyrin IX magnesium chelatase (EC 4.99.1.-), 67 K chain - Chlorobium vibrioforme
gi|2661855|emb|CAB06300.1| (Z83933) Mg-protoporphyrin IX chelatase, 67 kDa subunit [Chlorobium vibrioforme]
mia----------------------FTDIVGMDLAKQALMLLAVDPSLGG
VVIPSTVGSGKSTLARAFADILPEG-------------------------
------TPFVELPLNVTEDRLIGGVDLEATLASGQRVVQHGVLSKAHKGV
LYVDSLSLLDSSAVSHIMDAMSRGAVIVEREGLSEVHPADFMLVGTYDPS
DGEVRMGLLDRIGIIVPFTPVNDYRARKQIVSLVMGT-----RNEEDTQD
ELRMLRGIIGAAREQLHHVSITNEQIKGLIQTAISLGVEGNRVDIFAIRA
ALANAALGQRTEVDDEDLKLAVKLVLVPRATRMPEREPSEEEMQQE----
---eppppeeqpeqegedenappdetdsdadeeqeetpdmieelmmdaie
tdl
>gi|5834569|emb|CAB55276.1|_176:546   (AL035461) dJ967N21.5 (novel MCM2/3/5 family member) [Homo sapiens]
spltvtmdwqsikiqelmsddqreagriprtiecelvhdlvdscvpgdtv
---------------------TITGIVKVSNAEEGLALALFGGsqkyadd
knripirGDPHILVVGDPGLGKSQMLQAACNVAPRGVYVCGNTTTTSGLT
VTLSKDSS-----------------------------------SGDFALE
AGALVLGDQGICGIDEFDKMGNQHQ-ALLEAMEQQSISLAKAGVVCSLPA
RTSIIAAANPVGGhynkaktvsenlKMGSALLSRFDLVFILLDTPNEHHD
HLLSEHVIAI----RAGKQRTissatvarmnsqdsntsvlevvsekplse
rlkvvpgetidPIPHQLLRKYIGYARQYV-YPRLSTEAARVLQDFYLELr
kqsqrlnsSPITTRQLESLIRLTEARARLELREEATKEDAEDIVEIMKYS
MLGTYSDEFGnldfersqhGSGMSNRSTAKRFI-salnnvaertynnifq
fhqlrqiakelniqvadfenfigslndqgyllkk
>gi|7481255|pir||T35917_28:302   probable regulatory protein - Streptomyces coelicolor
gi|4160330|emb|CAA22801.1| (AL035212) putative regulatory protein [Streptomyces coelicolor A3(2)]
mtttstnrlrtaeqvgeqagavlreig-----------------------
RAVVGKPDALEHVMLAVLAG--GHVLVEDLPGLGKTLLARSFATTLGLDF
RRIQFTPDLLPSDVTGTPLYDqRSGEMVFHPGPVFTH-------------
------------------------LLLADEINRTPPKTQAALLEAMAESQ
V--TVDGETRPLADPFLVIATANPVEYEgtysLPEAQLDRFQLRVRMGYL
AAREELAMLRARIDRA-------APEAVLERLAGPDDVVAWRAVVERVEI
DDDLLEYAVALVGATrdhpqisIGASPRGGLALVQLARARAVLDGRDYVV
PEDVKGLAVPALAHRVSLRPELW----------------vremstddvlr
eivdsvgtpttrrtaaass
>gi|9368608|emb|CAB98184.1|_25:323   (AJ276161) putative regulatory protein [Streptomyces sparsogenes]
mavrlennqpaattaspeavalla------------QCFHALGDNIERVV
KGKRDTVELALVCLF--SEGHLLIEDVPGTGKTTLARCLAASLEADWHRV
QFTPDLLPSDITGVTVYRQNTgTFEFLPGPVFAN----------------
---------------------IVLGDEINRASPKTQSAMLEVMEERQV--
TADGSTHPVPRPFMVIATQNSVDmggtYPLPEAQLDRFLMQVTLGYPDHA
SEVAVLSGAASQT--------SIEQLPTIATGRHIAEFIQVARQIQVAPQ
LYDYLVRVVAATrslpevrLGASPRGSVALLRAVRVRAASQGRTYALPED
VKALAGPVLAHRLILTPEAEL-SGRCGADVIAEAL-atvpvpqagapv
>gi|7473141|pir||C75370_196:513   Mg(2+) chelatase family protein - Deinococcus radiodurans (strain R1)
gi|6459421|gb|AAF11212.1|AE002008_7 (AE002008) Mg(2+) chelatase family protein [Deinococcus radiodurans]
llaaghdleallpagnaqeaaliedvsvfgaatlreavahlsgaarlplt
--------QPETPEDDAALFPDLGDLKGQTAARRALEVALAGG--HNLLM
VGSPGSGKTMLARRAPGLLPPLTRA-----EALEVTRIHSAAGLLtSRGK
FSRHAPFRAPHHTVSDAGLIG----------GGSIPKPGEVSLAHRGLLF
LDEFPEFSRKALETLRQPLEDGRVTISRARATVEYPARFQLLAAMNPCPC
ghygdpekpctctpnertryaaRLSGPLLDRLDLIVKVPRLTVDELTRA-
----------PEPETSAPVRERIAAARERMLARQGGRNSDLAGQALREHA
PLAAGPlafaqaaarqLGLTGRGYDRVLRLARTVADLAGSDEIREAHLAE
AVTY-----------------------------rprela
>gi|7444072|pir||C70320_219:420   transcription regulator NifA family - Aquifex aeolicus
gi|2982929|gb|AAC06546.1| (AE000678) transcriptional regulator (NifA family) [Aquifex aeolicus]
rksleeekraletelkrvyeklhvegivgrskeilnvleivhrvaptnat
-----------------------------------------------VLL
RGESGVGKEVFARAIHFLSPRADKP-------------------------
FVAINCGAIPGELLEAELFG---YEKGAFTGAYSTKKGKFELANGGTLFL
DEIGELPLHLQVKLLRAIQEKEI--ERIGGTRPIKVDVRIIAATNRDLes
mvreGKFREDLYYRL-NVVPIFIPPLRERKEDIPVLVHYFLEKFSKEYNK
--------------------EVSITQEVMDAFMKYE---WKGNVRELQNV
LER-----------------------------------------------
------mvildtdgvlseedlppeirdvkkesriynqtlngetiwdlekq
liekal
>gi|3820513|gb|AAD09866.1|_209:461   (AF061751) transcriptional regulator PhnR [Burkholderia sp. RP007]
lgrqvlmkeiecaacgadhctlvgkpaeewedvedyasyftpeqapktst
--------RREEPTAARNGGVILPGLVGRSAgfrqACELIARAAG--TDV
TVLLLGETGVGKERFARALHQLNRRRDQP---------------------
----FVAVNCAAIPHELIESDLFG---VEKGAYTGATASRPGKFERADGG
TLFLDEIGEMPLAAQAKLLRALQEGEI--ERLGDERVRKVNVRVVAATNI
DLtqavkdGRFRADLFYRL-CVFPIHIPPLRERLADLQPLIDTLVERFSV
VHNKP-------------------VLGVSDMALRLLKRYT---WPGNIRE
LENMLERAMILAPEDG----------------------------------
----------wieavhlstplesaragssgigrtgalesasvanpshqsl
vehvlnsgls
>gi|7442965|pir||B70874_54:336   probable moxR protein - Mycobacterium tuberculosis (strain H37RV)
gi|2791413|emb|CAA16007.1| (AL021184) moxR [Mycobacterium tuberculosis]
aggfpagaggyqtpgghsaspaheappggaeglaaevhtleraifevkri
-------------------------IVGQDQLVERMLVGLL--SKGHVLL
EGVPGVAKTLAVETFARVVGGTFSRIQFTPDLVPTDIIGTRIYRQGReEF
DTELGPVVAN-------------------------------------FLL
ADEINRAPAKVQSALLEVMQERHV--SIGGRTFPMPSPFLVMATQNPIEh
egvYPLPEAQRDRFLFKINVGYPSPEEEREIIYRMGVTP----------P
QAKQILSTGDLLRLQEIAANNFVHHALVDYVVRVVFATrkpeqlgmndvk
swvaFGASPRASLGIIAAARSLALVRGRDYVIPQDVIEVIPDVLRHRLVL
TYDALADEI------------speivinrvlqtvalpqvnavpqqghsvp
pvmqaaaaasgr
>gi|7448582|pir||F71895_182:506   hypothetical protein jhp0728 - Helicobacter pylori (strain J99)
gi|4155292|gb|AAD06309.1| (AE001504) putative [Helicobacter pylori J99]
akiiapkaneelfslipnlqcffvehfkealeilqtpeikadthtkklpf
---KTIELNDKEYYFSDTYALDFKEVKGQAVAKEAALIASA--GFHNLIL
EGSPGCGKSMIINRMRYILPPLSLN-------EILEATKLRILSEQDSAY
YPLRSFRNPHQSASKSSILGS--------SSLREPKPGEIALAHNGMLFF
DELPHFKKDILEALREPLENNKLVISRVHSKIEYETSFLFVGAQNPCLCg
nllsatkacrcqdreitqyknRLSEPFLDRIDLFVQMeegnykdtpsHSW
TSKEMHELVLLAFKQQ-----KLRKQSAFNGKLNEEQIER------FCPL
NTEAQKLLKQAV-ERFNLSMRSVNKAKKVARTIADLNACENIEKSHMLKA
LSFRKIS-------------------------
>gi|7448583|pir||H64618_182:506   sigma-54 interacting protein - Helicobacter pylori (strain 26695)
gi|2313921|gb|AAD07840.1| (AE000591) sigma-54 interacting protein [Helicobacter pylori 26695]
akiiapkaneelfslipnlqcffvghfkealeilqnpetkadthtkklpf
---KTIELNDKEYYFSDAYALDFKEVKGQAVAKEAALIASA--GFHNLIL
EGSPGCGKSMIINRMRYILPPLSLN-------EILEATKLRILSEQDSAY
YPLRSFRNPHQSASKSSILGS--------SSLREPKPGEIALAHNGMLFF
DELPHFKKDILEALREPLENNKLVVSRVHSKIEYETSFLFVGAQNPCLCg
nllsatkacrcqdreitqyknRLSEPFLDRIDLFVQMeegnykdtpsHSW
TSKEMHELVLLAFKQQ-----KLRKQSVFNGKLNEEQIER------FCPL
NAEAKKLLEQAV-ERFNLSMRSINKVKKVARTIADLNACEDIEKSHMLKA
LSFRKIS-------------------------
>gi|7442962|pir||B70947_11:293   probable moxR3 protein - Mycobacterium tuberculosis (strain H37RV)
gi|2827574|emb|CAA16629.1| (AL021646) moxR3 [Mycobacterium tuberculosis]
mimpaattta-------------HCEAVLDEIERVVVGKRSALTLILTAV
L--ARGHVLIEDLPGLGKTLIARSFAAALGLDFTRVQFTPDLLPADLLGS
TIYDMqSGRFEFRAGPIFTN------------------------------
-------LLLADEINRTPPKTQAALLEAMAEGQV--SIDGQTHKLAMPFI
VLATDNPIEYEgtypLPEAQLDRFAIRLELRYLSERDETSMLRRRLERGS
ADPT-------VNQVVDCHDLLAMRESVEQVTVHEDVLHYVVSLANATrh
hpqvaVGASPRAELDLVQLSRARALLLGRDYVIPEDVKELATAAVAHRIT
LRPE------------------mwvrkiagadvvsellrrlpvprisgt
>gi|7677020|emb|CAB89596.1|_522:905   (AL354513) possible putative minichromosome maintenance protein [Leishmania major]
mrgdgegeadgelmlgttaqlggvgptaitalpsgarvsfssgfdtwsae
ETGRFYEVARHPQWFARLTASVAPSIFGMELVKQALLLSIVGGnrdkngg
etrSSIHVLLVGDPGLGKSQLLRAACAVAPRSAFVCAHTSSSCGLTMTLT
RDPV-----------------------------------SGETTFEAGAV
VHGDGGITCLDEIDKGVQEHK-ALLEVMEQETVSLAKAGMIFSMPVRTSI
LAAGNPIGGrfdvrkslaanvNLSPALLSRFDIIACLRNPhgSSGNAQQA
LTDHVLQWHrrapaggdggegcngGGRGRGHGAGPLPLPLVQRFLLFCRS
QC-QPTLCREACDVLQTHYLAQrqhlpqpqygfehgatascagsaaghls
dsgsvsgplpraamgleATVTPRYLQALIRVAEARAKLELRHVVTREDAE
YAVQLLQSCLHSFDGLAASGS-------------aaigatagsadvgagr
rpttlnqrdavlqrlklaiveensgvnlfteqai
>gi|1160605|gb|AAA93042.1|_71:395   (L46864) ORF detected by DNA translation; putative [Helicobacter pylori]
akviapkaneelfslipnlqcffvehfkealeilqnpeikadthtkklpf
---KTIELNDKEYYFSDAYALDFKEVKGQAVAKEAALIASA--GFHNLIL
EGSPGCGKSMIINRMRYILPPLSLN-------EILEATKLRILSEQDSAY
YPLRSFRNPHQSASKSSILGS--------SSLKEPKPGEIAVAHNGMLFF
DELPHFKKEILEALREPLENNKLVVSRVHSKIEYETSFLFVGAQNPCLCg
nllsatkacrcqdreitqyknRLSEPFLDRIDLFVQMeegnykdtpsHSW
TSKEMHQLVLLAFKQQ-----KLRKQSVFNGKLNEEQIER------FCPL
NAEAKKLLEQAV-ERFNLSMRSVNKVKKVARTIADLNACENIEKSHMLKA
LSFRKIS-------------------------
>gi|2497829|sp|Q57809|Y363_METJA_339:684   HYPOTHETICAL MCM-TYPE PROTEIN MJ0363
gi|2127803|pir||C64345 replication licensing factor MCM-type homolog MJ0363 - Methanococcus jannaschii
gi|1591071|gb|AAB98345.1| (U67489) cell division control protein 21 (cdc21) [Methanococcus jannaschii]
avysgyvkivgvpivkenkngsvgelyihafyiekddedieeiaknlnek
DLELINRIAKDKNVIQKLSDYAFREVTGYDMIKRAVLLQLVSSgtnidmr
TSIHILMISDPGVGKSTLMESLIQKFPFVKKVYAVTSSGP----------
-----------------------GLVGSVVREKAEFGDSWVLKAGVLTEA
DGGVVCIDEFSR-NKEVYDYLLGVMEQQKIEINKAGVIdAVLPARVAILA
ACNPRFGrfnpdltvweqiNLPKELLDRFDLIFVIKDKIDKKKDEDIADF
SIDNYNSKVRERKGKssgkkfvingvELNDELLLKYVLYARQI--EPEIS
DEARKIIKEYYVSVrkmseakgtFGISARQLGSIIRLAVAHAKLRLSEVV
KAVDAEEAIRLVDTCLKQIAYDPESGSIDIDK--------iagtpkskrd
kvekvlniikeisnsrddglapeeeiyeraeraglsekev
>gi|134961|sp|P26047|STC_CLOBE_13:251   SIGNAL-TRANSDUCTION AND TRANSCRIPTIONAL-CONTROL PROTEIN
kdiqnvynlvnk-------------YINRTAKYTFDDIIGQSEAMKRLKE
QIK--SISNspstVLIQGESGTGKELIAQSIHNNSNRRSKS---------
----------------FVAINCGAIPKSLIESELFG---YEEGAFTGAKR
GGcPGKFELANEGTLFLDEIGEMPLDMQVNLLRVLQEGCI--TRIGGNKC
VDVDVRIIAATNKNLkkeiedGNFREDLYYRL-SVIPIYVPPLRERNGDI
GILIEH-------------------------------FLKIKADKLGKLI
PEIRKTymrsfnvygWPGNVRELENCIE----------------------
--------------------------------nivnmngntsfnfenrti
kkdvncysdvsleydmcsleelekraisicin
>gi|2589001|dbj|BAA23276.1|_36:346   (AB004097) ORF4 [Hyphomicrobium methylovorum]
mnrpvvgreqdaaesdrmdlkdwraralefegevg---------------
--------RAIVGQERAIRLLVIAVF--ARGHVLLEGDVGVGKTTLLRAV
AHALGGSYERVEGTIDLMPSDMIYYTFLNEDGKPRVEPGPVLRHGSDLS-
-------------------------------VFFFNEINRARPQVHSLLL
RLMAERSI--TAFNTEHFFP-HVLVFADRNRIEreetFELPAAARDRFLM
EVSIGSPTDDESRRALLFETRFH--DVDQLIGALKEGVIDYRQINALAKI
IQSSVVVSPAIEKYTLDLWKAVrdpaaanvsipgvdmtrlvaGGASPRGM
SYLIRAARVSAWLAGREMVVPEDIRDIFYECMAHRIFLSPVYELRREELV
RSLIDQIF-asvpap
>gi|6968460|emb|CAB73280.1|_115:394   (AL139077) signal-transduction regulatory protein [Campylobacter jejuni]
acenkydfiimtgnatlsraieavrlgvkdfltkpfdvdtlveaikraki
IREKTADKKSKKNEKKEENKDFFSTSPNLEKTLNLSQKAAK--TDASVMF
FGESGVGKEVFSRYIHTHSKRSNKP-------------------------
FIAINMAAIPANLIESELFG---FEKGAFTDANATKIGLFEMANEGTLFL
DEIGEMPYEIQAKLLRALQEKEI--TRLGSTKSIKIDVRIISATNANLde
kiknGEFRSDLYYRL-NTVPINIPPLRERKEEILGIAQKVLEDTCKEYDF
K-------------------EKQLSQEAKNALLEYD---FPGNIRELISV
VQRA---CILSENDEISSEDLFLEARSIKKDVKNLEKE------------
------licevllsvdydkdqasqilgmdikilnekikkyqikdk
>gi|9106890|gb|AAF84619.1|AE004002_9_31:293   (AE004002) methanol dehydrogenase regulatory protein [Xylella fastidiosa]
mptsstqgmltdtlrlsldeaqnqvntlll--------------------
-------GKEQEVRLAFVALLSG--GHLLLEDLPGLGKTTLAHALASSLG
LTFRRVQFTSDLLPADVLGISVYNTQTqQFEFHPGPVFTH----------
---------------------------VLLADEINRAPPRTQSALLEAMA
EQQV--TLDGITRSLSDPFFVIATQNPVDlygtFPLPDSQLDRFLLRLSL
GYPNAEAERTLLSGMDRRE--------LLTHTLPRLTEADVILLRKTVLG
VHVSDALIEYVQALLLRSrqqsgvrVGLSPRAGIALLRAAKAYALLSGRE
HVLPEDIQELFVSVAGHRL-----------------------vpeaetss
tgaalaqtllytvpvd
>gi|5701907|emb|CAB52211.1|_236:461   (AJ005663) sigma 54-dependent transcriptional activator [Pseudomonas stutzeri]
vgkpaeewddaeeftqyfkadpmieelyvlqsqvsslrsslekqqgqyyg
--------------------------IGQSAsynkVCKMIDKAAL--GKV
SVLLLGETGVGKEVIARSVHLRSERAEQP---------------------
----FIAVNCPAIPPDLIEAELFG---VEKGAYTGANQSRPGRFERAHGG
TIFLDEVVELTPRAQATLLRVLQEGEL--ERVGDNRTRSVNVRVTAATNE
SLaeavesGKFRADLYYRL-NVFPVKIPPLRERLEDLPLLEEHFLKKFHK
EYNKR-------------------TLGLSDKALALCLNYR---WPGNIRE
LENVIER-------------------------------------------
----------gviltdnnesisqdslfavfpancsekgyesvdveghlvq
egasskvggw
>gi|7448584|pir||F70110_174:500   conserved hypothetical protein BB0086 - Lyme disease spirochete
gi|2687966|gb|AAC66471.1| (AE001121) conserved hypothetical protein [Borrelia burgdorferi]
lakekeikfaivpfenleeaslidglniwgvkdlketikiieqlnsnilp
--PRTNTKPQSIIEKDYIIDYDFKNIKGQQRAKRAIEIAIAGG--HNIML
FGPPGSGKTLSIKCAQSILPPLTNK-----ELIETNRIWSISGKLIDRKI
IKQRPFRNPHHTASKEGIIG----------GGPNPLPGEVSLAHNGILFL
DEALEFKKSILQSLREPIEDKSISISRASSKlFKYPANFQLMLAMNLCPC
gnlgkkntdcfcsqqeisnywkKLGAAMLDRIDIRVPTRAINNEKLLSE-
------TSESSSEIKQRIIKARNIQNIRYENFANINKNSDLNSDHIEKFC
ELSAILkndliyilnkLNISSRATHSILKIARTISDLKEEKNISREALLE
AIE------------------------------hrkngenmlek
>gi|3642638|gb|AAC36510.1|_1:192   (U89403) MCM2 [Mus musculus]
-----------------IFASIAPSIYGHEDIKRGLALALFGGepkdpgg
khkvrGDINVLSCGDPGTAKSQFLKYIEKVSSRAIFTTGQGASAVGLTAY
VQRHPV-----------------------------------SREWTLEAG
ALVLADRGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARC
TVIAAANPIGGrydpsltfsenvNLTEPIISRFDVLCVVRDTVD------
--------------------------------------------------
--------------------------------------------------
------------------------
>gi|5932360|gb|AAD56913.1|AF180145_5_166:496   (AF180145) hypothetical protein; zm12orf3 [Zymomonas mobilis]
maspgalpaaihaascqsglicaealgaeaawsgldeiiaapdlllliqh
LKGKVALPQPKADIVEIAFNGPdLASVKGQEQARRALEIAAAGG--HNML
MCGSPGAGKSLLAACLPGILPPLSNREALEVSMIASVSGMLPQGG-----
LIQQRPFRAPHHSASMAALIG----------GGQHIKPGEVTLAHLGVLF
LDELPEFKRPVLDSLRQPLENGEVSIARAHAHIRFPARVQLIAAMNPCRC
ghlddaalacsrapkcaaeyqnKISGPLLDRIDIHIDMPLSGRMTYASR-
-------RQSSATVKARVMAARHIQSQRYQDYKDGTIRCNAEadgaliek
ltpmDDAARKILMTAVEKMHLSARAYYRLLKVARTIADLDRAETLNQIHI
SEALSY-----------------------------rhrqpva
>gi|541165|pir||A48291_85:302   ornithine decarboxylase inhibitor - Escherichia coli
gi|290420|gb|AAA23450.1| (L13078) antizyme [Escherichia coli]
alqlqsmkkeirhlhqalstswqwghiltnspammdickdtakialsqas
-----------------------------------------------VLI
SGESGTGKELIARAIHYNSRRAKGP-------------------------
FIKVNCAALPESLLESELFG---HEKGAFTGAQTLRQGLFERANEGTLLL
DEIGEMPLVLQAKLLRILQEREF--ERIGGHQTIKVDIRIIAATNRDLqa
mvkeGTFREDLFYRL-NVIHLILPPLRDRREDISLLANHFLQKFSSENQR
D-------------------IIDIDPMAMSLLTAWS---WPGNIRELSNV
IERA---VVMNSGPIIFSEDL-----------------------------
------ppqirqpvcnagevktapvgernlkeeikrvekriimevleqqe
gnrtrt
>gi|1168553|sp|Q06065|ATOC_ECOLI_169:386   ACETOACETATE METABOLISM REGULATORY PROTEIN ATOC (ORNITHINE/ARGININE DECARBOXYLASE INHIBITOR) (ORNITHINE DECARBOXYLASE ANTIZYME)
gi|7444090|pir||B64992 acetoacetate metabolism regulatory protein atoC - Escherichia coli
gi|619917|gb|AAA60332.1| (U17902) NtrC/NifA-like protein regulator [Escherichia coli]
gi|1736875|dbj|BAA16016.1| (D90851) Acetoacetate metabolism regulatory protein AtoC (Ornithine / Arginine decarboxylase inhibitor) (Ornithine decarboxylase antizyme). [Escherichia coli]
gi|1788550|gb|AAC75280.1| (AE000311) response regulator of ato, ornithine decarboxylase antizyme (sensor ATOS) [Escherichia coli]
alqlqsmkkeirhlhqalstswqwghiltnspammdickdtakialsqas
-----------------------------------------------VLI
SGESGTGKELIARAIHYNSRRAKGP-------------------------
FIKVNCAALPESLLESELFG---HEKGAFTGAQTLRQGLFERANEGTLLL
DEIGEMPLVLQAKLLRILQEREF--ERIGGHQTIKVDIRIIAATNRDLqa
mvkeGTFREDLFYRL-NVIHLILPPLRDRREDISLLANHFLQKFSSENQR
D-------------------IIDIDPMAMSLLTAWS---WPGNIRELSNV
IERA---VVMNSGPIIFSEDL-----------------------------
------ppqirqpvcnagevktapvgernlkeeikrvekriimevleqqe
gnrtrt
>gi|6967683|emb|CAB72673.1|_182:497   (AL139074) hypothetical protein Cj0190c [Campylobacter jejuni]
vpksiaqkasmipnlevyglenlneaieffkeknyenfrfshnhplfanp
-----LQIENEIFLQNMDFKLDFKDIKGQEKAKRACMIAAL--GMHNILF
EGSPGSGKSMCAKRLVYIMPPQSLS------EILMQNAYMSLDSKDCEF-
TKIRAFRHPHHTSTRASIFG---------GGTKNARIGEVALANGGVLFF
DEFPHFNKQIIESLREPLEDHKIHISRVNSKITYETKFSFIAAQNPCPCg
nlfsknlscvcseneikkyknHISAPIMDRIDLYVAMdeiskddkTSISS
KEMSEKILQAFIFS---KKRGQKEF-------------------NGKLKD
EDLSRFCVLEKDAkdtldlaisrYNLSLRSLNKILKVSRSIADLEQSLNI
SKTHILEALSF-----------------------------rarn
>gi|5851788|dbj|BAA84117.1|_124:346   (AB031996) regulator protein [Ralstonia sp. KN1]
evlalyqpdpvietilelqsevehlralqrstdkpadlvgsspefraawg
----------------------------------LLQRAAGSS--VTVLL
LGETGVGKERFAQALHGVSARADKP-------------------------
FIAVNCAAIPDELIEAELFG---VEKGAFTGAHQSRPGRFERAHGGTLFL
DELGELSASAQSKLLRVLQEGEV--ERVGGSEPRKVDVRLVAATNVDLad
avkqGTFRKDLYYRL-NVYPVTIPPLRERLDDIRLLVERF----------
-------VARYGARHGKK--IVGITDRALAELRRYD---WPGNVRELENV
IERGVILASNGG--------------------------------------
------qisadhlflptsappgmdtaprlgvkgtlpelreaavhglldhm
aeqqla
>gi|7444095|pir||D70315_120:402   transcription regulator NtrC family - Aquifex aeolicus
gi|2982890|gb|AAC06509.1| (AE000676) transcriptional regulator (NtrC family) [Aquifex aeolicus]
nspdsvvivitghgsvdtavkaikkgayeflekpfsverflltikhafee
-------------YSKKAPPQEEIEFVGEHPkileIKRLIPKIAK--SKA
PVLITGESGTGKEIVARLIHRYSGRKGA----------------------
----FVDLNCASIPQELAESELFG---HEKGAFTGALTRKKGKLELADQG
TLFLDEVGELDQRVQAKLLRVLETGSF--TRLGGNQKIEVDIRVISATNK
NLeeeikkGNFREDLYYRL-SVFQIYLPPLRERGKDVILLAEYFLKKFAK
EYKKN-------------------CFELSEETKEYLMKQE---WKGNVRE
LKNLIERAVILC---EGEVIKPEDL----GLKEKSWRDLSYLLKIKELKE
AKKEFEKIF-ieeklreydydlkrtaeeigidlsnlyrkikslnirvkss
>gi|5052046|gb|AAD38416.1|_120:340   (AF155934) NifA [Alcaligenes faecalis]
lqdhqqsaaalaqpsrgngsapsdaaqgdigiighcapmqdlfskirkva
------------------------------------------PTDSNVLI
QGESGTGKELVARALHNLSRRAKAP-------------------------
MISVNCAAIPETLIESELFG---HEKGAFTGASAGRAGLVEAADGGTLFL
DEIGELPLEAQARLLRVLQEGEI--RRVGSVQSQKVDVRLIAATHRDLkt
laktGQFREDLYYRL-HVIALKLPPLRERGNDVLEIAKAFLARQGERMSS
D-------------------EMRFSRDAEQAIRHYS---WPGNVRELENA
IERA---AILSESPEIDAE-------------------------------
------llgidieldelddefeedslggirgiaggneptedlsledyfqh
fvlehq
>gi|9657348|gb|AAF95888.1|_137:384   (AE004340) nitrogen regulation protein NR(I) [Vibrio cholerae]
sdldaavnayqqgafeylpkpfdvdetltlveraiahgqeqrktshrpse
-------------------NYSAPEIIGEAPAMQEVFRAIGRLsrSSISV
LINGESGTGKELVAHALHRHSPRAQKP-----------------------
--FIALNMAAIPKDLIESELFG---HEKGAFTGANTVRQGRFEQANGGTL
FLDEIGDMPLDIQTRLLRVLADGQF--YRVGGHVAIKVDVRIVAATHQNL
eklvhqGKFREDLFHRL-NVIRIHIPSLRERRQDIEKLTKHFLALAAKEL
GVE-------------------MKTLNPRTVDILTKLD---WPGNVRQLE
NMCRWL---TVMASGSEVLPSDL---------------------------
--------psellserkashfdndiswqkqletwaksalasgetellaya
lpeferil
>gi|3845554|dbj|BAA34177.1|_242:458   (AB006480) activator of transcription; member of NtrC family of transcriptional activators with significant homology to XylR and DmpR [Comamonas testosteroni]
dgeqiardydpdsmlvrldelqsqvealrtglgpcdsqgpllghsrafqa
-------------------------------ALELLSKAAP--TQVTVLL
TGETGVGKERFARALHAMSPRADKP-------------------------
FVAVNCAALPADLIESELFG---AEKGAFTGATATRIGRFERAHGGTLML
DELGELPLAAQAKLLRVLQSGEV--ERLGGHRSTQVDVRVIAATNVDLek
aveqGRFRRDLLYRL-NVYPIRIPALRERVDDIELLAMHLLQKYSALHGK
P-------------------APGFSDRALTALRGHS---WPGNVRELENL
VER-----------------------------------------------
------gliltpagepidvaclfpqwsdngqstiddqghlaqacgtngdl
htasvy
>gi|6505655|dbj|BAA87867.1|_259:475   (AB024741) positive regulator of phenol-degradative genes [Comamonas testosteroni]
dgeqiardydpdsmlvrldelqsqvealrtglapcdsqgpllghsrafqa
-------------------------------ALELLSKAAP--TQVTVLL
TGETGVGKERFARALHAMSPRADKP-------------------------
FVAVNCAALPADLIESELFG---AEKGAFTGATATRIGRFERAHGGTLML
DELGELPLAAQAKLLRVLQSGEV--ERLGGHRSTQVDVRVIAATNVDLek
aveqGRFRRDLLYRL-NVYPIRIPALRERVDDIELLAMHLLQKYSALHGK
P-------------------APGFSDRALTALRGHS---WPGNVRELENL
VER-----------------------------------------------
------gliltpagepidvaclfpqwsdngqstiddqghlaqacgadgdl
htagvy
>gi|7482630|pir||H69181_122:441   hypothetical protein MTH616 - Methanobacterium thermoautotrophicum (strain Delta H)
gi|2621697|gb|AAB85122.1| (AE000843) conserved protein [Methanobacterium thermoautotrophicum]
delcaptgggflfpsvtytikkqgqkqaeklmrenpyigmapvsynsyfe
IMGRQLEGRFPINIPQEVIDKAFRDVVGNESAKKTLIEGAIGG--KGLFI
YGPPGTGKTFITSRMSDLLPPVVIPRYVEFSEQVIQFYDPDFHRMcpeqp
eDPRWVKIYAPFVFTGSELTSDKLESRYDPNKGVY------ETSPIIKAN
GGVLLIDDLGRQKEDHNALLNRlivPLENKKDMIYVKGSPIVVHTHFIPA
FSTNLDITIMDEAHLRRAPLHVQLEKPTVDEIVEVFRRNLESM-------
-----------------------GEDYDPEVLERFAQVYRPIgeggegMQ
PTFAHARDLAQIAQAVRIRKGEDRITVQTMEEALQQHVLIALQRKLTPML
FERIIRKK-------t
>gi|1731060|sp|P54529|YQIR_BACSU_362:597   PUTATIVE SIGMA L-DEPENDENT TRANSCRIPTIONAL REGULATOR IN MMGE-BFMBAA INTERGENIC REGION
gi|7475923|pir||H69961 transcription regulator sigma-L-dependent homolog yqiR - Bacillus subtilis
gi|1303937|dbj|BAA12593.1| (D84432) YqiR [Bacillus subtilis]
gi|2634844|emb|CAB14341.1| (Z99116) similar to transcriptional regulator (sigma-L-dependent) [Bacillus subtilis]
nekevivnvapvivdgilkgsvgvihdvseikmltaelnrarqiirtlea
-------------------KYTFDDIIGKSEQMLVALEQAKLGAKTPatI
LLRGESGTGKELFAHAIHNESDRKYNK-----------------------
--FIRVNCAALSENLLESELFG---YEDGAFSGAKRGGkKGLFEEANNGS
IFLDEIGELTQNMQAKLLRVLQEKEI--VRVGGTKAIPVNVRVIAATNVN
IekamadGTFREDLYYRI-NRYPISIPPLRQRLEDIEALSVRLIQKINRD
YGRN-------------------VKGLSQQALRALSAYH---WPGNVREL
ENVLGRAM------------------------------------------
---------iflnphmewiekdhlpvfeleqkendtdqgtgfdfpdiege
klsvavekf
>gi|3445531|gb|AAC32451.1|_249:472   (AF026065) positive phenol-degradative gene regulator; PoxR [Ralstonia sp. E2]
eaelalyqpdpvidtilalqseveqlralqrandqpadlvggspgfraaw
---------------------------------NLLQRAAGSS--VTVLL
LGETGVGKERFAQALHGVSARAGKP-------------------------
FVAVNCAAIPDELIESELFG---VEKGAFTGAHQSRAGRFERAHGGTLFL
DELGELSASAQSKLLRVLQEGEV--ERVGGNEARKVDVRLVAATNVDLae
avrqGTFRKDLYYRL-NVYPVTIPPLRERLDDIRLLAERF----------
-------TARYGARHGKK--ILGITDRALAELRRYD---WPGNVRELENV
IERGVILAANGG--------------------------------------
------qisaeqlflpgaeappavdttprlgeqgalpglreaavhglldy
maengl
>gi|7428238|pir||E71156_27:891   endopeptidase La homolog (EC 3.4.21.-) - Pyrococcus horikoshii
gi|3256855|dbj|BAA29538.1| (AP000002) 1127aa long hypothetical ATP-dependent protease La [Pyrococcus horikoshii]
mlsgesemdeermdlgiefetteeip-----------------VPERLID
QVIGQDHAVEVIKTAAK--QRRHVLLIGEPGTGKSMLGQAMAELLPTeel
edilvfpnpedenmpriktvpagqgrkiveeyrrkakeqegvrfyllffv
ffivamavflshgdpntlllgvfvilvalmvtanmrfktqamvpkllvdn
sgrkrapfvdatgahagallgdvrhdpfqcfsgeeviivekgkdrkvvkl
refvedalkepsgegmdgdikvtykdlrgedvriltkdgfvkllyvnkre
gkqklrkivnldkdywlavtpdhkvftseglkeageitekdeiirvplvi
ldgpkiastygedgkfddyirwkkyyektgngykraakelnikestlrww
tqgakpnslkmieeleklnllpltsedsrlekvaiilgalfsdgnidrnf
ntlsfisserkaierfvetlkelfgefnyeirdnheslgksilfrtwdrr
iirffvalgapvgnktkvklelpwwiklkpslflafmdglysgdgsvprf
aryeegikfngtfeiaqltddvekklpffeeiawylsffgikakvrvdkt
gdkykvrlifsqsidnvlnflefipislspakrekflrevesylaavpes
slagrieelrehfnrikkgerrSFIETWEVVNVTYNVTTETGNLLANGLF
VKNSGGLGTP---------------------AHLRVEPGMIHRAHKGVLF
IDEIATLSLKMQQSLLTAMQEKKFPITGQSElssgamvrTEPVPCDFILV
AAGNLDTiEKMHPALRSRIrgygyEVYMRTTMPDTPENRRKLVQFVAQE-
-----------------------VKKDGRIPHFTRDAVEEIVREAQRRag
rkghLTLRLRDLGGVVRAAGDIAVRKGKKYVTREDVLEALKLAKPLEKQL
ADWYI----------------erkkeyqvirveggeigrvnglaiigeqs
givlpieaivapaaskeegki
>gi|7473153|pir||B75496_33:312   moxR protein - Deinococcus radiodurans (strain R1)
gi|6458321|gb|AAF10200.1|AE001920_3 (AE001920) moxR protein [Deinococcus radiodurans]
matapttfsvsspngsaasqvmhraleqldqv------------------
-------ILGKPTQLRLAVACLL--ARGHLLIEDQPGVGKTTLAQALART
LGLGFRRVQFTSDLLPADLLGVSIWDAaSSTFRYQPGPIFSE--------
-----------------------------LLLADEINRATPRTQGALLEA
MEERQV--SEGGVTRPLPDPFFVIATQNPAAfvgtSPLPEAQLDRFLMTV
TLGYPDARAERTLLET--------GGRGQSVRELPAVLDAPLLLRAQAEV
DAVHAAPALLDYLQLLARATreqpaiaSGLSPRALLALLAAARAWAYLAG
RDMVLPEDVQAVFPALASHRLVLRdPAARPGDVIRR---------lldet
pip
>gi|2828193|sp|P30621|MOXR_METEX_4:321   MOXR PROTEIN (MXAR PROTEIN)
gi|1771259|emb|CAA69191.1| (Y07864) mxaR [Methylobacterium extorquens]
mntLRPGDAMLTDWRDAAARFEREIAKAVVGQDRAIRLLTIAIF--ARGH
VMLEGDVGVGKTTLLRAVARGLGGAYERVEGTVDMMPTDLIYHTYLGEDG
RPRVEPGPVLRRAEDLS--------------------------------V
FFFNEINRARPQVHALLLRIMAERSV--SAFNREYRFP-NLQVFADRNRV
EreetFELPAAARDRFLMEIGMEAPRDAARRDLVFDPRFHD---TDRLTE
EVEAGVLDFERIGTIASAIQHAISAEPAIEAYVVGLWEALvrpapphpla
rhrmdrlvqGGASPRGVAFLVRAARVRAWLEGRDWLVPEDIRAVFPEVMA
HRVFLEPVYEM---------------rraeivpdliravfetvpap
>gi|2497830|sp|Q58371|Y961_METJA_321:682   HYPOTHETICAL MCM-TYPE PROTEIN MJ0961
gi|2127860|pir||A64420 replication licensing factor MCM-type homolog MJ0961 - Methanococcus jannaschii
gi|1591625|gb|AAB98963.1| (U67539) cell division control protein 54 (cdc54) [Methanococcus jannaschii]
agrvnvigrvmkreyrhnipiykiyiksnyikisesynkievkdilrnee
LIETLNELGRKKNIIDILSNYLISQIKGYELVKKAIFLQQIKGafkflpd
gtplrRDSHILLITDPGIGKSTMLRRIARLF-------------------
--------------PQNAYASVTTATGGGLTAIVTREATEIGDGWVVKPG
VFVRANEGTACIDELTV-DKNVMKYILEAMESQTIHVNKGGINVKLPARC
AVLAACNPKRGrfdrnltvieqiDIPAPLLSRFDLIFPLMDKPNRKSDEE
IAEHILNTHietatKDykilgaididgitvdekllkyyiiYARSCAYIEE
NQDLYLGEFDETKLI--MPYLTDKAKKMIKKYYLEMrklgegdnpIPITA
RQLEAIIRIAEMHAKARLSDKVEDVDAEVAISIIDDCLKQVAYDPETG--
------------tldldkiagtpksrrdkmdavlniireivslrddglap
eeeiyekamaig
>gi|7479421|pir||T34788_203:525   hypothetical protein SC2E1.20 SC2E1.20 - Streptomyces coelicolor
gi|3191996|emb|CAA19395.1| (AL023797) hypothetical protein SC2E1.20 [Streptomyces coelicolor A3(2)]
vsvlgvrslrqliavladepvpeeeqdlqgrpdplmaglrmpgtgaatgm
---------HGMGAAQHDHGHDLADVVGQESARTAVEVAAA--GRHHLFL
EGPPGAGKTMLAERLPAILPRLCRA-----ESLEVTAVHSVAGLLpPGKP
LIDVAPYCAPHHSATMQALVG---------GGPGIARPGAVSLAHRGVLF
LDETPEFSSHALDALRQPLEAGHVVIARSAGVVRFPARFLMVLAANPCPC
grfsrtdelcecpssairryqaRLSGPLLDRVDLRVEVERVTRSQLAGDG
PR-----GDSTRAVADRVRAARDRAAARLAGTPWRSNSEVPGRELRTRWR
AAAGALdeaerslerGVLTARGLDRVLRVAWTVADLVGHDRPDARDVALA
LQL-----------------------------rtgvprgvpmalgala
>gi|1709880|sp|P37344|PSPF_ECOLI_29:236   PSP OPERON TRANSCRIPTIONAL ACTIVATOR
gi|2126088|pir||JC6028 transcription activator sigma-54 - Escherichia coli
gi|1209663|gb|AAB02186.1| (U38542) PspF [Escherichia coli]
gi|1742133|dbj|BAA14872.1| (D90768) psp operon transcriptional activator. [Escherichia coli]
gi|1742142|dbj|BAA14880.1| (D90769) psp operon transcriptional activator. [Escherichia coli]
maeykdnllgeansflevleqvshlapl----------------------
----------------------DKPVLIIGERGTGKELIASRLHYLSSRW
QGP-------------------------FISLNCAALNENLLDSELFG--
-HEAGAFTGAQKRHPGRFERADGGTLFLDELATAPMMVQEKLLRVIEYGE
L--ERVGGSQPLQVNVRLVCATNADLpamvneGTFRADLLDRL-AFDVVQ
LPPLRERESDIMLMAEYF--------------------AIQMCREIKlpL
FPGFTERARETLLNYR---WPGNIRELKNVVERS----------------
------------------------------------vyrhgtsdyplddi
iidpfkrrppedaiavsettslptlpldlrefqmqq
>gi|7450653|pir||B64879_34:241   transcription activator pspF - Escherichia coli
gi|1787561|gb|AAC74385.1| (AE000228) psp operon transcriptional activator [Escherichia coli]
manfimaeykdnllgeansflevleqvshlapl-----------------
---------------------------DKPVLIIGERGTGKELIASRLHY
LSSRWQGP-------------------------FISLNCAALNENLLDSE
LFG---HEAGAFTGAQKRHPGRFERADGGTLFLDELATAPMMVQEKLLRV
IEYGEL--ERVGGSQPLQVNVRLVCATNADLpamvneGTFRADLLDRL-A
FDVVQLPPLRERESDIMLMAEYF--------------------AIQMCRE
IKlpLFPGFTERARETLLNYR---WPGNIRELKNVVERS-----------
-----------------------------------------vyrhgtsdy
plddiiidpfkrrppedaiavsettslptlpldlrefqmqq
>gi|6578851|gb|AAF18103.1|AF204400_3_152:366   (AF204400) FrgC [Myxococcus xanthus]
adfvlkpfdreeilftvrkallraqgeearqqvrptggfigrsramadvq
---------------------------------AVLAKAAA--GTATVLL
RGESGTGKELAAKAVHDASPRRDGP-------------------------
FVKLHCAALPDTLLESELFG---YEKGAFTGAATRKPGRVELAHGGTLFL
DEVGDISPAVQVKLLRVIQEREL--ERLGGTQTVKVDVRFVAATHqPLEe
rvkeGRFREDLFYRL-NVVPVWIPALRERPDDIEPLALHFLEVHAKTNGR
P-------------------PFTLMTDGLAALRAQP---WPGNVRQLQNF
LER-----------------------------------------------
------lvvlsdtqviggrevlqelarqpglapapfaatpsvsaleaptv
pvtdsa
>gi|7514291|pir||H75005_37:760   ATP-dependent proteinase la (lon) PAB1313 - Pyrococcus abyssi (strain Orsay)
gi|5459000|emb|CAB50486.1| (AJ248288) ATP-dependent protease La (lon) [Pyrococcus abyssi]
mlkfykmgikrlsgemtmgeermdlgiefetteeip--------------
---VPERLIDQVIGQDHAVEVIKTAAK--QRRHVLLIGEPGTGKSMLGQA
MAELLPTedledilvfpnpedenmpriktvpagqgrriveeykrkakeqe
nirfyllffvffivamavfmsrgdpntlllgvfvilialmvtanmrfrtq
amvpkllvdnsgrkrapfvdatgahagallgdvrhdpfqcfsgeetvvir
engevkvlrlkdfvekalekpsgegldgdvkvvyhdfrnenvevltkdgf
tkllyankrigkqklrrvvnlekdywfaltpdhkvyttdglkeageitek
delisvpitvfdcededlkkigllpltsdderlrkiatlmgilfnggsid
eglgvltlksersviekfvitlkelfgkfeyeiikeentilktrdpriik
flvglgapiegkdlkmpwwvklkpslflaflegfrahiveqlvddpnknl
pffqelswylglfgikadikveevgdkhkiifdagrLDVDKQFIETWEDV
EVTYNLTTEKgnllaNGLFVKNSGGLGTP---------------------
AHLRVEPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSE
lssgamvrTEPVPCDFILVAAGNLDTiEKMHPALRSRIrgygyEVYMRTT
MPDTVENRRKLVQFVAQE------------------------VKKDGRIP
HFTRDAVEEIIREAQRRagrkghLTLRLRDLGGVVRAAGDIAVRKGKKYV
TREDVLEALQMAKPLEKQLADWYI----------------erkkeyqvir
teggeigrvnglaiigeqsgivlpieaivapaaskeegki
>gi|7465311|pir||G71906_116:378   probable transcription regulator - Helicobacter pylori (strain J99)
gi|4155196|gb|AAD06221.1| (AE001496) putative TRANSCRIPTIONAL REGULATOR [Helicobacter pylori J99]
legkyesivitgnatlnkaidsirlgvkdffqkpfkpelllesiyrtkkv
-LEFQKKHPLEKPLKKAPKHSFLATSKALEETKRQALKVAS--TDANVML
LGESGVGKEVFAHFIHQHSQRSKHP-------------------------
FIAINMSAIPEHLLESELFG---YQKGAFTDATAPKMGLFESANKGTIFL
DEIAEMPLQLQSKLLRVVQEKEI--TRLGDNKSVKIDVRFISATNANMke
kiasKEFREDLFFRL-QIVPITIAPLRERVEEILPIAEIK----------
--------LKEVCEAYHLG-PKSFSKNAAKRLLEYS---WHGNVRELLGV
VERA---AILSEETEIQEKDLF----------------------------
------ler
>gi|7407152|gb|AAF61932.1|_180:399   (AF230804) sigma-54 activator protein Act1 [Myxococcus xanthus]
traperqavapilpsrtvlpvvdsaqeqrvlistspamrraralveriad
-------------------------------------------TDVPVLL
LGESGTGKEVIAREIHARSQRRNRP-------------------------
FIKVNCAALPGELLESELFG---HERGAFTGATAEKPGKFELADQGTIFL
DEIGEMAIRLQAKLLQVLQDEEF--FRVGGKKSVRVDSRVVVATNRDLek
eialGNFREDLFYRL-NVVAIRLPALRERREDVVPLTDHFLKKYGRGYLS
G-------------------VSELPTEVLHAFADYD---WPGNVRELENM
VRRL---CVLKDPTLVLDE-------------------------------
------lraavrapasapslptsyagddggpfgrahdegfrtpppavqvl
empsrg
>gi|8573370|gb|AAF01466.2|AF190326_1_139:362   (AF190326) FlbD [Azospirillum brasilense]
iragakeyiplppdaeliaavleavaeeshaivcqdpamlatlrladqva
------------------------------------------PSDASVLI
TGESGTGKELMARYIHRKSRRSDAP-------------------------
FVAVNCAAIPENLLESELFG---HEKGAFTGAVARRLGRFEEANGGTLLL
DELSEMHPRLQAKLLRAIQEKEI--DRIGSSQPVKVNVRLVATSNRNLen
evraGNFREDLYFRL-NVFSVAIPSLRERPADIPMIADHFLKKYAQANGL
G-------------------EKRLSDDALLMLRAHH---WRGNVRELENT
MHRA---VLLSKSETVGPDAIM----------------------------
------ltsqllapegsaqasiptnspvanpfagpggtvpqaprgygqpa
pgypts
>gi|4960040|gb|AAD34591.1|AF145956_1_240:454   (AF145956) transcriptional activator NifA [Rhodospirillum rubrum]
gdrdrlieekarlekalpkrekplkgtilenvvgrssammkisaqvrqia
------------------------------------------PSRATVLL
RGESGTGKELIAQAIHYLSPRSDKP-------------------------
FIKVNCAALPETLLESELFG---HEKGAFTGATTERKGRFEMASGGTLFL
DEIGEITVHFQAKLLRVLQEGEF--ERVGGGKTIKVDVRLVAATNKDLed
avtrGEFRADLYYRI-NVVPIFLPALRERREDVPLLAQFFLTKFNEENGR
--------------------SLRFSEGALTAMGGCN---FPGNVRELENC
VCRAATLAQDE---------------------------------------
------viqelglschndkclsaslwqrrgsgraigglapvteqndpdtt
svaweg
>gi|1708857|sp|P42425|LON2_BACSU_46:334   ATP-DEPENDENT PROTEASE LA HOMOLOG
gi|7428240|pir||G69652 endopeptidase La homolog (EC 3.4.21.-)lonB - Bacillus subtilis
gi|1142617|gb|AAA84744.1| (U18229) Lon-like protease [Bacillus subtilis]
gi|1770077|emb|CAA99539.1| (Z75208) ATP-dependent Lon protease [Bacillus subtilis]
gi|2635286|emb|CAB14781.1| (Z99118) Lon-like ATP-dependent protease [Bacillus subtilis]
mswtgialfiqlffgiiiglyfwnllknqrtqkvtidkeskkemeQLRKM
RAISLSEPLSEKVRPKSFKDIVGQEDGIKALKAALCGPNPQHVIVYGPPG
VGKTAAARLVLEEAKKHKQsPFKEQAVFVELDATTARFDERGIadpLIGS
VHDPIYQG--------------AGAMGQAGIPQPKQGAVTHAHGGVLFID
EIGELHPIQMNKMLKVLEDRKVFLDSAYYSeentqipnhihdifqNGLPA
DFRLIGATTRMPNEIPPAIRSRC-LEVFFRELEKDELKTVAKTAADKI--
----------------------------EKNISEEGLDLLTSYT-----R
NGREAVNMIQIAAGMAVTENRKDITIEDIEWVIH----------------
--------------ssqltpkheqkigvepqvgivnglavygpnsgslle
ievsvtaaqdkgsi
>gi|1731287|sp|Q10818|YS97_MYCTU_190:496   HYPOTHETICAL 52.9 KDA PROTEIN RV2897C
gi|7448587|pir||D70926 hypothetical protein Rv2897c - Mycobacterium tuberculosis (strain H37RV)
gi|1403418|emb|CAA98370.1| (Z74024) hypothetical protein Rv2897c [Mycobacterium tuberculosis]
padnlpeaslvdgidvrgvrtlgqlqswlrgstglagrittadttpesaa
---------------------DLADVVGQSQARFAVEVAAA--GAHHLML
TGPPGVGKTMLAQRLPGLLPSLSGS-----ESLEVTAIHSVAGLLSGdTP
LITRPPFVAPHHSSSVAALVG---------GGSGMARPGAVSRAHRGVLF
LDECAEISLSALEALRTPLEDGEIRLARRDGVACYPARFQLVLAANPCPC
apadpqdcicaaatkrrylgKLSGPLLDRVDLRVQMHRLRAGAFSAA---
----DGESTSQVRQRVALAREAAAQRWRPHGFRT-NAEVSGPLLRRKFRP
SSAAmlplrtaldrGLLSIRGVDRTLRVAWSLADLAGRTSPGIDEVAAAL
SF-----------------------------rqtgarr
>gi|2245641|gb|AAC05586.1|_291:529   (AF006075) regulatory protein [Bacillus subtilis]
vlcntkqhiisasmpirtsmpdwqgrhlyelkergysienavtigdggtc
---------FYLSEQKKKKAFRFNGVIGQSGrsqaMLMHLERAAA--TDA
SVCLSGETGTGKEVAARALHENSERRHGP---------------------
----FVAVNCGAIPSDLIESELFG---YAEGAFTGAKRNGyKGAFQKANQ
GTLFLDEIGEISHSMQVALLRVLQERKI--TPIGGTKEIPVDIRVIAATH
CDLrelaenGKIREDLFYRL-HVYPIELPPLRDRTEDIPDLFEYY-----
-----------------------KQKNHWPGDLPSDFCNVLKQWkWPGNI
RELFNVFER-----------------------------------------
------------lsirfpdgrlrdeslpalleaaglpassaekkaaaagv
ltfreqiqkdmm
>gi|7475879|pir||H69581_279:517   transcription activator of acetoin dehydrogenase operon acoR - Bacillus subtilis
gi|2633134|emb|CAB12639.1| (Z99108) transcriptional regulator [Bacillus subtilis]
gi|2780391|dbj|BAA24292.1| (D78509) YfjG [Bacillus subtilis]
vlcntkqhiisasmpirtsmpdwqgrhlyelkergysienavtigdggtc
---------FYLSEQKKKKAFRFNGVIGQSGrsqaMLMHLERAAA--TDA
SVCLSGETGTGKEVAARALHENSERRHGP---------------------
----FVAVNCGAIPSDLIESELFG---YAEGAFTGAKRNGyKGAFQKANQ
GTLFLDEIGEISHSMQVALLRVLQERKI--TPIGGTKEIPVDIRVIAATH
CDLrelaenGKIREDLFYRL-HVYPIELPPLRDRTEDIPDLFEYY-----
-----------------------KQKNHWPGDLPSDFCNVLKQWkWPGNI
RELFNVFER-----------------------------------------
------------lsirfpdgrlrdeslpalleaaglpassaekkpaaagv
ltfreqiqkdmm
>gi|7514624|pir||H71378_314:632   conserved hypothetical protein TP0866 - syphilis spirochete
rgqrrvyrhfyfrlagprethlilpgeqgknarcstghtlrwglpvglkt
--------------------------CGDRENIRALQIAAAGG--HHLIA
YGAPGCGKTLSLSRFALLLPDLDAR-----TALEVTRVHSIAGLLPKgae
qDPLMRRPPCRTPHSSASAEGIIG----------GAGTCLPGEISLAHGG
VLFLDEATQFKRPVLETLRTPLETGQITVSRAGKSSTYPARFQLLLAVNP
CACgnfgvqhkvctcapqaverywrKLTAPLLDRVDLRVEVLPPASHTLL
SEPACCTARLRKTvacaleaqwerqgsclcaPINGRSSTVEDWIRYRNAR
LSPENVQRWCMLTDDAAREFHRAVGKE-QLSGRGGHAVLKIARTIADIEG
VARLQVAHVQEAV-------------------------------alrtws
allphslt
>gi|7465350|pir||G64607_116:378   response regulator - Helicobacter pylori (strain 26695)
gi|2313827|gb|AAD07754.1| (AE000583) response regulator [Helicobacter pylori 26695]
legkyesivitgnatlnkaidsirlgvkdffqkpfkpelllesiyrtkkv
-LEFQKKHPLEKPLKKPHKHSFLAASKALEESKRQALKVAS--TDANVML
LGESGVGKEVFAHFIHQHSQRSKHP-------------------------
FIAINMSAIPEHLLESELFG---YQKGAFTDATAPKMGLFESANKGTIFL
DEIAEMPLQLQSKLLRVVQEKEI--TRLGDNKSVKIDVRFISATNANMke
kiaaKEFREDLFFRL-QIVPITIAPLRERVEEILPIAEIK----------
--------LKEVCDAYHLG-PKSFSKNAAKCLLEYS---WHGNVRELLGV
VERA---AILSEETEIQEKDLF----------------------------
------ler
>gi|2584725|emb|CAA70104.1|_72:306   (Y08891) sigma 54 activator [Bacillus megaterium]
skrdvvvnvapvivdgklkgsvgvihdmseiqeltnelkrarqiirtlea
-------------------KYSFADIIGQSEefqlAIEQARLAAK--TPA
TVLLRGESGTGKELFAHAIHNASSRKFNK---------------------
----FVRINCAALSESLLESELFG---YEEGAFSGAKRGGKrGVFEEANN
GSIFLDEIGELSAYMQAKLLRVLQGKEL--IRVGGTDPIPVNVRVIAATN
VNLekgmadGSIRQDLYYRL-NKIPIHIPPLRKRKEDIGALVTHLITKIN
QDYGRH-------------------VEGVTERALQSLRSYD---WPGNVR
ELENLLGRA-----------------------------------------
-----------iiymhytetmidsvhlpslegkgnkeknqvneevmfegk
tlahmmenyea
>gi|3378396|gb|AAD03979.1|_222:444   (AF079317) regulator aromatic degradative pathways [Sphingomonas aromaticivorans]
gdaacvlhakpkpewdqldnlelaatplvlpetrhdggqtvigisagfls
-------------------------------AKTMIERTASSN--ATLLL
MGETGVGKEVLAKLAHRLSMREAEP-------------------------
FIALNCAAIPEGLIESELFG---VAKGAYTGAVAARPGRFELANGGTLFL
DEISTLSPLAQSKILRAVQEGEF--ERVGDTRTIKVDVRLIAASNVELne
avreGTFRADLFYRI-STLPVRVPPLRQRREDIPVLLEHF----------
----------RLHYAMRH--GRTVSGFTPRAINALLVYDFPGNVRELERM
VERAVLLAD-----------------------------------------
------dgraidvrhlfletdglelkptmgmtndgrisavdnvgdraglv
rqmldl
>gi|7428237|pir||D69295_22:410   endopeptidase La homolog (EC 3.4.21.-) - Archaeoglobus fulgidus
gi|2650266|gb|AAB90868.1| (AE001079) ATP-dependent protease La (lon) [Archaeoglobus fulgidus]
mneevreilggldfestkdva-----------------VPERLIDQVIGQ
DHAVEAIKKAAV--QKRHVMLIGSPGTGKSMLAKAMAELLPKeeledilv
ypnpqdpnqpkirlvpagkgreiveaykeeamkkaqarnfliftlVFLVI
GYTVLTNPGNLIWGIIAAVlilmmsryfipredrNVpkllvdNSDKVTAP
FEDA-TGAHAGALFGDVRHDPFQSGGLEtpaheRVEAGAIHRAHKGVLYI
DEINTLTIESQQKLLTALQDKKFPItgqsERSSGamvrTEPVPCDFILVA
AGNLDAlMGMHPALRSRIegyGYEVYMndTMPDTPENRQKLVRFVAQE--
----------------------VVKDGKIPHFDKYAVAEIIKEARRRagr
rnhLTLRLRELGGLVRTAGDIAKSEGSDIVRLEHVLKAKKIAKTIEEQLA
DKYI----------------errkdyklfitegyevgrvnglavigesag
ivlpiiaevtpsmsksegrv
>gi|7428236|pir||H69204_38:409   endopeptidase La homolog (EC 3.4.21.-) - Methanobacterium thermoautotrophicum (strain Delta H)
gi|2621875|gb|AAB85287.1| (AE000856) ATP-dependent protease LA [Methanobacterium thermoautotrophicum]
mkttiknsrtqesvsyegnetkkgtgetlsyetskdi-------------
---EVPERLIDQIIGQEEAVETIKKAAE--QRRNVLLIGEPGVGKSMLAK
AMAELLPReqlqdilvypniedpnnpligavpagegrkivmnhknkarsq
dekknlfmmliisfilvlgfmmnqflaaiiaagiiflalqqfrprttvmv
pkllvnneg-----------------------------RQVAPFVDA-TG
AHAGALLGDVRHDPYQSGGLGtpaheRVEAGMIHKANKGVLYIDEIGTMK
MKTQQELLTAMQEKRYSITGQSETssgamvrsQAVPCDFVLVASGNLQVL
EgMHPALRSRIrgyGYEVFMkdTMPDTPENRDKLVQFVAQE---------
---------------VEKDGRIPHFSREAVEEIIREAQRRagkkdsLTLK
LRELGGLVRAAGDIAKSRGAELVETEDVIEA-------------------
-------------kklsrtleqqiadryivqkkkysvfkseggevgrvng
laiigdrsgiilp
>gi|266551|sp|P29901|MOXR_PARDE_23:317   MOXR PROTEIN
gi|94691|pir||D41377 moxR protein - Paracoccus denitrificans
mdsnisdwharfrdaeaalngv-------------------------VLG
QARTIRLLLISAL--CRGHVLLAGDVGTGKTTLLRAMARALGGPYGRVEG
TVDLLPTDLIYSTHIAEDGRPRIEPGPVLEQGEDMA--------------
------------------VFFFNEINRARPQVHALLLRLMAERSL--SAF
RREYRFP-HLQVFADRNQIErdetFELPAAARDRFLMEIAVDAPAAPEDR
VALAFEPRFH--DTTALIAEVGQGILPYRGLNGLAAGVQSGTHASPALRR
YVFDLCEALrnpasaglalegadaarlirGGVSPRGMQHLVRAARACAWL
EGREAVLPQDVRAVLAPVMAHRIFLSPAYEP---------------rrea
lvpalidaafatipvpaa
>gi|2598277|emb|CAA73688.1|_145:379   (Y13236) NtrC protein [Brucella suis]
egayeylpkshdltelinivgrafseprqkpaalpdeqgenmplvgrfaa
----------------------------MQEIYRLLARMMQ--TDLTVMV
TGESGTGKELVARALHEYGRRRKGP-------------------------
FVAINMAAIPRDLIESELFG---YEKGVFTGAQNRSSGSLWASQRGTLFL
DEIGDMPMEAQTRLLRVLQQGEY--MTVGGRTPIKTDVRIVAATNRDLrq
iiaqGLFREDLYYRL-NVVPLRLPPLRERSEDVPDLVRHF----------
----------IQTRCEEGLPEKRITNAGLEMMRRYP---WPGNVRKLENL
VRRL---AALYPQEKIAPEIIK----------------------------
------telqaxlakpdfvaaaggemeniisqaveqnmqryfasfgsdlp
ppglyx
>gi|9656195|gb|AAF94829.1|_26:233   (AE004246) psp operon transcriptional activator [Vibrio cholerae]
mqqsllgespaflavldkvsrlapi-------------------------
-------------------DRPVLVIGERGTGKELIAQRLHYLSKRWEQP
-------------------------LVSLNCSTLSEGLIDSELFG---HE
SGSFTGAKGRHQGRFERAEGGTLFLDELATAPLSVQEKLLRVIEYGQY--
ERVGGNQVLNANVRLVCATNANLpqmaqqGTFRADLLDRL-AFDVIHLPA
LRHRPEDIALLAEHF--------------------AIRMCRELQlpLFVG
FSPNALHQLQAYS---WPGNVRELKNVVERA-------------------
---------------------------------vyqhglnsqpidqlvfn
pfqssdivtdeseqvdvrhttrtdfhlpldyka
>gi|7483126|pir||D69430_64:405   conserved hypothetical protein AF1445 - Archaeoglobus fulgidus
gi|2649127|gb|AAB89804.1| (AE001004) conserved hypothetical protein [Archaeoglobus fulgidus]
ykpstiistmdyifeevrikrsnaprfvlngeevdiwdkelidyhsksvs
-----EYVREKLLEFEKRGLDPFEEIIGKEKEKEMVKTALMSG--SNILF
KGKKGYGKTTFSKAISKLLPDKILaIKGCRIHDDPTQPTCFSCKKKllee
dEVELVFVPKKWIRIAGDpmMTTRQLIGGISLQKIKE-GYELDHpevftP
GRILKAHRGIAYFDELGSIPSALQTLLHELLEERQVT-TPEGDIVPMKID
TLVIASTNPANYKgvsdIKEPLLDRM-EQIDIGPPESIEHEIAIGLRNMA
LD-----------------------------GSIIPEWHLKIIASAVRCM
rssncrysarieVEPSCRATIKAFDHVAASAMRNGRKAVMFADYGRDFan
lSLALKSRFEVDYEEELSKDEVVREVVNDAI-dtvcgeiyaaiprsifgg
mmeelseigeinvysengiekyknlwafvssi
>gi|2120407|pir||S70529_144:405   regulator protein pilR - Myxococcus xanthus
gi|950653|gb|AAB40881.1| (L39904) regulatory protein [Myxococcus xanthus]
amregaydyickpfdneelrllvqkalekrtlrqensglrarlfpgldga
--------------------------VGQSERMQAVWALVEKVasGRSTV
LVTGESGTGKELVARAIHMRGTRAARP-----------------------
--FLPFNCAALNEGTLESELFG---HVKGAFTGATTDRSGLLVAAGDGTV
MLDEVGEMPLATQVKLLRVLQERKV--KPVGSAAEIPFQARVIAATNRRL
eaevkaGRFREDLFYRL-NVITLELPPLRERSGDVSLLANYFLSRLSEEL
GRP-------------------GLRFSPETLGLLERYP---FPGNVRQLQ
NMVERA---ATLSDSDLLGPSTLPPAVRGDTDPAVRPVEGSEPG------
--------lvagfnlerhlddserrylvaamkqaggvktraaellglsfr
sfryrlak
>gi|1703054|sp|P53034|AC14_DROME_12:250   ACTIVATOR 1 40 KDA SUBUNIT (REPLICATION FACTOR C 40 KDA SUBUNIT) (A1 40 KDA SUBUNIT) (RF-C 40 KDA SUBUNIT) (RFC40)
gi|2133712|pir||S55020 replication factor C 40K chain homolog - fruit fly (Drosophila melanogaster)
gi|639708|gb|AAB60241.1| (U15967) rfc40 [Drosophila melanogaster]
gi|7292439|gb|AAF47843.1| (AE003480) RfC40 gene product [Drosophila melanogaster]
mpeepektadd-------KRSHLPWIEKYRPVKFKEIVGNEDTVARLSVF
ATQGNAPNIIIAGPPGVGKTTTIQCLARIL--------LGDSYKEAVLEL
NASNERGIDVVRNKIKMFAQ--------------QKVTLPRGRHK-----
-------IVILDEADSMTEGAQQALRRTMEIY-------------SSTTR
FALACNTSE-KIIEPIQSRC-AMLRFTKLSDAQVLAKLIEVAKWE-----
-------------------------KLNYTEDGLEAIVFTA----QGDMR
QGLNNLQ-----STAQGFGDITAENVFKVCDE---------PHPKL----
-LEEMIHHC--aandihkaykilaklwklgyspediianifrvckrinid
ehlkldfirei
>gi|4972952|gb|AAD34861.1|AF139987_4_21:265   (AF139987) replication factor C, 40kDa subunit [Mus musculus]
gi|9800515|gb|AAF99332.1|AF289664_3 (AF289664) RFC2 [Mus musculus]
mevqesgcdpsesgaqepsp-VPSKTAGHYELPWVEKYRPLKLNEIVGNE
DTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARAL--------LGP
ALKDAVLELNASNDRGIDVVRNKIKMFAQ--------------QKVTLPK
GRHK------------IIILDEADSMTDGAQQALRRTMEIY---------
----SKTTRFALACNASD-KIIEPIQSRC-AVLRYTKLTDAQVLTRLMNV
IEKE------------------------------KVPYTDDGLEAIIFTA
----QGDMRQALNNLQ-----STFSGFGYINSENVFKVCDE---------
PHPLL-----VKEMIQHC--vdanideaykilahlwhlgyspedvignif
rvcktfpmaeylklefikei
>gi|7462368|pir||D72344_2:242   DNA polymerase III, gamma and tau subunit - Thermotoga maritima (strain MSB8)
gi|4981209|gb|AAD35768.1|AE001741_1 (AE001741) DNA polymerase III, gamma and tau subunit [Thermotoga maritima]
m-----------EVLYRKYRPKTFSEVVNQDHVKKAIIGAIQKNSVAHgY
IFAGPRGTGKTTLARILAKSLNCENRKGVEPCNSCRACREIDEGTFMDVi
eldaasnRGIDEIRRIRDA--------------VGYRPMEGKYK------
------VYIIDEVHMLTKEAFNALLKTLEEP-------------PSHVVF
VLATTNLE-KVPPTIISRC-QVFEFRNIPDELIEKRLQEVAEAE------
------------------------GIEIDREALSFIAKRA----SGGLRD
ALTMLEQVWKF----SEGKIDLETVHRALGLI------------------
----------piqvvrdyvnaifsgdvkrvftvlddvyysgkdyevliqe
avedlvedle
>gi|1703053|sp|P53033|AC14_CHICK_39:276   ACTIVATOR 1 40 KD SUBUNIT (REPLICATION FACTOR C 40 KD SUBUNIT) (A1 40 KD SUBUNIT) (RF-C 40 KD SUBUNIT) (RFC40)
gi|2134397|pir||I50704 replication factor C/activator 1 subunit - chicken
gi|527669|gb|AAA20552.1| (U12438) replication factor C/activator 1 subunit [Gallus gallus]
meeeevlevvedekagpaaaekrgptdtlgsapaasgh---------YEL
PWVEKYRPLKLCEVVGNEDTVSRLEVFAKEGNVPNIIIAGPPGTGKTTSI
LCLARAL--------LGPALKDAVLELNASNDRGIDVVRNKIKMFAQ---
-----------QKVTLPKGRHK------------IIILDEADSMTDGAQQ
ALRRTMEIY-------------SKTTRFALACNASD-KIIEPIQSRC-AV
LRYTKLTDSQILARLLKIVEKE----------------------------
--DVPYTDDGLEAIIFTA----QGDMRQALNNLQ-----STYSGFGFINS
ENVFKVCDE---------PHPLL-----VKEMIQHCI-nanideaykila
hlwrlgyspedvignifrvcktfqmpeylklefikeig
>gi|549447|sp|P36219|WTSA_ERWST_50:249   PATHOGENICITY LOCUS PROBABLE REGULATORY PROTEIN WTSA
gi|486828|pir||S36185 wtsA protein - Erwinia stewartii
gi|148501|gb|AAC36805.1| (AF282857) HrpS [Pantoea stewartii subsp. stewartii]
mniennehsfrphpelgehisftkeqpidihdslaslietvapleidlv-
------------------------------------------------LE
GETGTGKDTLARKIHRLSGCSGR--------------------------L
IAVNCAAIPETLAESELFG---VNNGAYTGAVQARAGYIEEANNGILFLD
EIDSMPLSLQAKLLRVLENRGI--ERLGGTRFIPVNMRVIVATQKPLltl
veqGTFRRDLYFRL-NTLSIQLQPLRSQVEIIIPLFRHFIAKAATTMQCT
-------------------PPEITQELCEYLLSYS---WPGNIRELKTAA
KR------------------------------------------------
-----ftlglpplnvprnaerqgpqlkeilrriekslihdclvrhghsid
eaame
>gi|4506487|ref|NP_002905.1|_34:270   replication factor C (activator 1) 2 (40kD)
gi|2507300|sp|P35250|AC14_HUMAN ACTIVATOR 1 40 KDA SUBUNIT (REPLICATION FACTOR C 40 KDA SUBUNIT) (A1 40 KDA SUBUNIT) (RF-C 40 KDA SUBUNIT) (RFC40)
gi|1590811|gb|AAB09786.1| (M87338) replication factor C, 40-kDa subunit [Homo sapiens]
gi|2914760|gb|AAC04860.1| (AF045555) replication factor C subunit 2 [Homo sapiens]
meveavcggageveaqdsdpapafskapgsagh---------YELPWVEK
YRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLAR
AL--------LGPALKDAMLELNASNDRGIDVVRNKIKMFAQ--------
------QKVTLPKGRHK------------IIILDEADSMTDGAQQALRRT
MEIY-------------SKTTRFALACNASD-KIIEPIQSRC-AVLRYTK
LTDAQILTRLMNVIEKE------------------------------RVP
YTDDGLEAIIFTA----QGDMRQALNNLQ-----STFSGFGFINSENVFK
VCDE---------PHPLL-----VKEMIQHC--vnanideaykilahlwh
lgyspediignifrvcktfqmaeylklefikei
>gi|8515862|gb|AAF76214.1|AF272053_4_45:249   (AF272053) HrpS [Erwinia herbicola pv. gypsophilae]
msiknsehsfrlwteqrehisltkeqpidihdplasiintvapl------
--------------------------------------DIDLILEGETGT
GKDTLARKIHQLSCCAGK--------------------------LVAVNC
AAIPETLAESELFG---INQGAYTGAGQAKSGYVEEAHNGILFLDEIDSM
PLSLQAKMLRVLENPGV--ERLGGTRFIPVNMPVILATQTPLltlverGH
FRRDLYFRL-STVTIQLQPLRSRVDMIIPLFRHFIAGAASTLRCT-----
--------------PPDISQEHYESLLSYN---WPGNIRELKAAAER---
--------------------------------------------------
fvlglaplslpqhaerqpaqlkermrriekslihdclvrhghsiddaaqe
>gi|7468224|pir||C72127_3:254   DNA polymerase III gamma and tau - Chlamydia pneumoniae (strain CWL029)
gi|4376294|gb|AAD18193.1| (AE001589) DNA Polymerase III Gamma and Tau [Chlamydophila pneumoniae]
gi|7189650|gb|AAF38540.1| (AE002232) DNA polymerase III, gamma subunit [Chlamydophila pneumoniae AR39]
mt-------LQPYQASSRKYRPQIFREILGQSSVVAVLKNALVFNRAAHa
YLFSGIRGTGKTTLARILAKALNCVHLSEdGEPCNQCFSCKEIASGSSLd
vleiDGASHRGIEDIRQI--------------NETVLFTPVKaKFK----
------IYIIDEVHMLTKEAFNALLKTLEEP-------------PQHVKF
FFATTEIH-KIPGTILSRC-QKMHLQRIPEKTILEKLSLMAQDD------
------------------------HIEASQEALAPIARAA----QGSLRD
AESLYDYVISL----FPKSLSPDTVAQALGFASQDSLR------------
----------tldnailqrdyatalgivtdflnsgvapvtflhdltlfyr
nllltnstts
>gi|1072970|pir||S52838_178:387   dhlR protein - Xanthobacter autotrophicus
gi|763397|emb|CAA60037.1| (X86084) dhlR [Xanthobacter autotrophicus]
dqlqaelsrirgdlaraqtevaqlreegqgaggpvvhgettrriadllrr
----------------------------------------VGGSDATVLL
TGESGVGKEVFARFVHRESARSKAP-------------------------
FIKINCGALPRDLIESELFG---YEAGAFTGAQRGGkPGMIEMANTGTLF
LDEIGELPLDMQVKLLHVLQDRII--ARLGATRSIPLDIRVVAATNRDLa
kavetGAFRGDLFYRL-NVVPVVVPPLRERRDDILPLLRQA---------
-----------LASFNAQYCTAKQLSHAAARTLVAHD---WPGNIRELRN
MVER----------------------------------------------
-------lvvtvshdvidvgdlaipaaaprgaggasleeqvrrfemalie
dalrrci
>gi|8978415|dbj|BAA98252.1|_3:254   (AP002545) DNA polymerase III gamma and tau [Chlamydophila pneumoniae]
mt-------LQPYQASSRKYRPQIFREILGQSSVVAVLKNALVFNRAAHa
YLFSGIRGTGKTTLARILAKALNCVHLSEdGEPCNQCFSCKEIASGSSLd
vleiDGASHRGIEDIRQI--------------NETVLFTPVKaKFK----
------IYIIDEVHMLTKEAFNALLKTLEEP-------------PQHVKF
FFATTEIH-RIPGTILSRC-QKMHLQRIPEKTILEKLSLMAQDD------
------------------------HIEASQEALAPIARAA----QGSLRD
AESLYDYVISL----FPKSLSPDTVAQALGFASQDSLR------------
----------tldnailqrdyatalgivtdflnsgvapvtflhdltlfyr
nllltnstts
>gi|539678|pir||A42700_34:269   replication factor C - human
meveavcggageveaqdsdpapafskapgsagh---------YELPWVEK
YRPVKLNEIVGNEDTMSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLAR
ALLGALKD---------AMLELNASNDRGIDVVRNKIKMFAQ--------
------QKVTLPKGRHK------------IIILDEADSMTDGAQQALRRT
MEIY-------------SKTTRFALACNASD-KIIEPIQSRC-AVLRYTK
LTDAQILTRLMNVIEKE------------------------------RVP
YTDDGLEAIIFTA----QGDMRQALNNLQ-----STFSGFGFINSENVFK
VCDE---------PHPLL-----VKEMIQHC--vnanideaykilahlwh
lgyspediignifrvcktfqmaeylklefikei
>gi|2127883|pir||H64476_17:457   endopeptidase La homolog (EC 3.4.21.-) - Methanococcus jannaschii
gi|1592066|gb|AAB99427.1| (U67582) ATP-dependent protease LA, putative (lon) [Methanococcus jannaschii]
mfsikfktteelpeps-------------------PRLIDQVIGQEEAVK
IVLSAVK--NKRNVILLGDPGVGKSMIVKAVGEILSDfgeftpyyviakp
nlknmerpivevidgeykedskdmpkldfkapssttlllimigaillsey
llkylpqnyllaavtitalivlifgfviiltsimGASRASMPNNLNPMDL
KPVLLYE------CKKRPLvRASAYNVT--RLLG--DIKHCPLGGRPPLG
TpphkriilGAIHEAHRGILYVDEIKTMPLEVQDYILTALQDKQLPISGR
NPnssgatveTNPIPCDFILIMSGNMDDvYNLRAPLLDRIDYKIVLKNKM
DntLENRDKLLQFIVQE----------------------------IKNNN
LNPMTYDGCCEVVRIAqylagskdkLTLRLRLLANIIKMANDVAMGKDVE
ellgnfddkgeyhpetqkdksnkvYITAEHVRKVFDTGIYSMEKQVALNY
IKNFKRYKHIVPNDEPkvgviyglavlgaggigdvtkiivqilesknpgt
hllnisgdiakhsitl
>gi|2967435|dbj|BAA25162.1|_17:309   (D84670) ORF1 [Pyrococcus furiosus]
mnegehqikldelfekLLRARKIFKNKDVLRHSYTPKDLPHRHEQIETLA
QILVPVLRGeTPSNIFVYGKTGTGKTVTVKFVTEELKRISEKYNIPVDVI
YINCEIVDTHYRvlaNIvnyfkDETGIEVPMVGWPTDEVYAKLKQVIDMK
ERFV-----------------IIVLDEIDKLVKKSGDEVLYSL-------
TRINTELKRA-KVSVIGISNDLKFKeyLDPRVLSSLSEEEVVFPPYDANQ
LRDILTQRAEE----------------------------AFYPGVLDEGV
IPLCAALAAREHGDARKALDLLRVAGEIAEREGASKVTEKHVWKAQEKIE
QDMMEEVIKTLP---------------lqskvllyaivlldengdlpant
gdvyavyrelceyidlepltqrrisdl
>gi|585267|sp|P37930|HRPR_PSESY_35:272   PATHOGENICITY LOCUS PROBABLE REGULATORY PROTEIN HRPR
gi|1073078|pir||A49889 regulatory protein HrpR - Pseudomonas syringae pv. syringae
gi|437294|gb|AAA17651.1| (U03853) positive regulatory factor [Pseudomonas syringae]
mstdidndvrtrwnvtalsaghqiamhsalldmd----------------
-------------------------------LLLCGETGTGKDTLASRIH
ELSSRTGP--------------------------FVGMNCAAIPESLAES
QLFG---VVNGAFTGVCRAREGYIEPSNGGTLYLDEIDTMPLSLQAKLLR
VLESRGV--ERLGSTDFIPLDLQVIASASAPLdelveqGLFRRDLFFRL-
NVLTLQLPALRKRREQILPLFDQFTQDIAAECGRS---------------
----APTLDNGRVQILLSHD---WPGNVRELKSAANAICPRIAVAGRRAV
EARDPVTGLRMQMRVIEKMLIQD-----------------alkrhrhnfd
avleelelprrtlyhrmkelgvashidlaaes
>gi|285404|pir||B41860_112:380   tetracycline resistance element regulator RteB - Bacteroides spp
gi|248814|gb|AAB22075.1| RteB=tetracycline resistance element regulator [Bacteroides, Peptide, 440 aa]
sgidllcwmrkegkmqpfiimtdyaevntavesmklgsidyipkqlvedk
LVPLIRSILKERQAGQRRMPVFAREGSAFQKIMHRIRLVAA--TDMSVMI
FGENGTGKEHIAHLLHDKSKRAGKP-------------------------
FVAVDCGSLSKELAPSAFFG---HVKGAFTGADNAKKGYFHEAEGGTLFL
DEVGNLALETQQMLLRAIQERRY--RPVGDKADRNFNVRIIAATNEDLev
avneKRFRQDLLYRL-HDGFITVPPLRDCQEDIMPLAEFFRDMANRELEC
S-------------------VSGFSSEARKALLTHA---WPGNVRELRQK
VMGA---VLQAQEGVVMKEHLELAVTK-----------------------
------ptstvsfalrndaedkerilralkqangnrsvaaellgigrttl
ysklee
>gi|7482507|pir||H69125_125:436   hypothetical protein MTH210 - Methanobacterium thermoautotrophicum (strain Delta H)
gi|2621256|gb|AAB84716.1| (AE000808) conserved protein [Methanobacterium thermoautotrophicum]
dgfcaqvggsflfssveytltrrgvekarlvmeenpyigiapvpyeryfe
LMDKQLSNRFPIRIPDEVIEKTFRDVVGLSYAKECLVESCTIG--KGLFV
YGAPGTGKTFIISKASDLLPPLVIPRFIEFSGRVIQIYDPDFHRPcpeep
eDPRWIKIHAPFVFTGSELSLNELETTYNMNKGVY------ETSPIIKAN
GGVLLIDDLGRQRDDHEVILNRlivPLENSKDVIYIRGVPVIFHTHFIPA
FSTNLDVSIMDEAHLRRAPLHIFLRNPPVENVAEVFRRNLDEI-------
-----------------------GEEYDDEVVERIKMVYTPVadggegLQ
PSYAHARDLAQIAQAVRINMGRESVDLEVIERALDKHVLIALQRMDIDIS
---------------qvhhsirtfriitddpdnaervlrlygaltvared
gavladfedsispsq
>gi|7514776|pir||A70460_2:244   DNA polymerase III gamma subunit - Aquifex aeolicus
gi|2984127|gb|AAC07663.1| (AE000759) DNA polymerase III gamma subunit [Aquifex aeolicus]
m---------NYVPFARKYRPKFFREVIGQEAPVRILKNAIKNDRVAHaY
LFAGPRGVGKTTIARILAKALNCKNPSKGEPCGECENCREIDRGVFPdli
emdaasnrgidDVRALKEAVNYKPI--------------------KGKYK
------------VYIIDEAHMLTKEAFNALLKTLEEP-------------
PPRTVFVLCTTEYD-KILPTILSRC-QRIIFSKVRKEKVIEYLKKICEKE
------------------------------GIECEEGALEVLAHAS----
EGCMRDAASLLDQ----ASVYGEGRVTKEVVENFLGIL------------
----------------sqesvrsflklllnsevdeaikflrelsekgynl
tkfwemleeevrnail
>gi|7380298|emb|CAB84884.1|_3:258   (AL162756) DNA polymerase III tau and gamma chains [Neisseria meningitidis]
ma----------YQVLARKWRPKTFADLVGQEHVVKALQNALDEGRLHHa
YLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDL
leidaasnTGIDNIREVLEN--------------AQYAPTAGKYK-----
-------VYIIDEVHMLSKSAFNAMLKTLEEP-------------PEHVK
FILATTDPH-KVPVTVLSRC-LQFVLRNMTAQQVARHLAYVLDSE-----
-------------------------KIAYDPPALQLLGRAA----AGSMR
DALSLLDQAIAL----GSGKVAENDVRQMIGAVDKQYLYELLTGIIN---
-----------qngaallakaqemaacavgfdnalgelaillqqlaliqa
vpnalshddpd
>gi|4581632|gb|AAD24684.1|AF083877_4_50:249   (AF083877) sigma-54-dependent enhancer-binding protein HrpS [Erwinia amylovora]
mnirnsehssrpwpgrrehislteeqpidihdtlaemiktvaplkidlv-
------------------------------------------------LE
GETGTGKDTLARKIHQLSGCRGK--------------------------L
VAVNCAAIPETLAESELFG---INNGAYTGAGQARAGYVEAADNGILFLD
EIDSMPLSLQAKMLRVLENRGV--ERLGGTRFTPVNMRVIVATQTPLltl
verGSFRRDLYFRL-NTVSIQLQPLRARIEVIIPMFRSFIQKAASTLQCA
-------------------PREITQEHYECLLSYS---WPGNIRELKAAA
ER------------------------------------------------
-----fvlglppldlpchcgqerpqlkelmrrieknviydclvrhghsid
daaqe
>gi|7445292|pir||G75199_29:321   probable cell division control protein 6 PAB2265 - Pyrococcus abyssi (strain Orsay)
gi|5457555|emb|CAB49046.1| (AJ248283) cell division control protein 6, putative [Pyrococcus abyssi]
msfkstistggtsmsegeqlhldklferLLKARKIFKNKEVLRHSYTPKD
LPHRHEQIEALAQILVPVLKGeTPSNIFVYGKTGTGKTVTVKFVTEELKK
VSQKYNIPVEVIYINCEIVDTHYRvlaNIvnhfkDETGIEVPLVGWPTDE
VYAKLKQVIDMKERFV-----------------IIVLDEIDKLVKKSGDE
VLYSL-------TRINTELKRA-KVSVIGISNDLKFKeyLDPRVLSSLSE
EEVVFPPYDANQLKDILTQRAEE---------------------------
-AFYPGVLEEGVIPLCAALAAREHGDARKALDLLRVAGEIAEREGASKVT
EKHVWRAQEKIEQDMMEEVIKTLP---------------lqskvllyaiv
lldengdlpantgevysvyrelceyldlepltqrrisdl
>gi|2494198|sp|P75177|DP3X_MYCPN_3:262   DNA POLYMERASE III SUBUNIT GAMMA/TAU
gi|2146109|pir||S73550 DNA polymerase III gamma-tau chain dnaX - Mycoplasma pneumoniae (strain ATCC 29342)
gi|1673890|gb|AAB95872.1| (AE000022) Mycoplasma pneumoniae, DNA polymerase III subunit gamma and tau; similar to Swiss-Prot Accession Number P06710, from E. coli
mr-----------KVLYQKYRPTKFSDTVGQDSIKRIIVNAITQDQLPHg
YIFAGERGTGKTTFAKIIAKAINCLNWN-GDVCNQCEACQAINSNSAIDV
feidaasknginDIRELAENVFNLPF------------------KFKKK-
-----------VYILDEAHMLTPQSWSGLLKTLEEA-------------P
DYVLFIFATTEFN-KIPITILSRC-QSFFFKQITNDLIQQRLAEVAAKE-
-----------------------------SIKITTDALVKLADLA----Q
GSLRDGLSLLDQI---SNFSESKTISLADVEKTFNLLDKEQKFGFIEAVL
SGDLKQ---------sfhlidnfesqginfvhflrelfaltvdlygyvkt
gqiavvkpsdqtmaa
>gi|7429753|pir||B71233_34:326   hypothetical protein PH0124 - Pyrococcus horikoshii
gi|3256510|dbj|BAA29193.1| (AP000001) 437aa long hypothetical protein [Pyrococcus horikoshii]
metrdvyfksivssggtsmnegeqlhldqlfekLLKARKIFKNKEVLRHS
YTPKDLPHRHEQIETLAQILVPVLKGeTPSNIFVYGKTGTGKTVTVKFVT
EELKKVSHKYNIPVDVIYINCEIVDTHYRvlaNIvnhfkHETGIEVPLVG
WPTDEVYAKLKQVIDMRERFV-----------------IIVLDEIDKLVK
KSGDEVLYSL-------TRINTELKRA-KVSVIGISNDLKFKeyLDPRVL
SSLSEEEVVFPPYDANQLRDILMQRAEE----------------------
------AFYPGVLDDGVIPLCAALAAREHGDARKALDLLRVAGEIAEREG
ASKVTEKHVWKAQEKIEQDMMEEVIKTLP---------------lqskvl
lyaivlldengelpantgevysvyrdlceyldlepltqrrisdl
>gi|6598834|gb|AAF18689.1|AC010795_4_13:240   (AC010795) putative replication factor C [Arabidopsis thaliana]
masssststgdg---------YNEPWVEKYRPSKVVDIVGNEDAVSRLQV
IARDGNMPNLILSGPPGTGKTTSILALAHEL--------LGTNYKEAVLE
LNASDDRGIDVVRNKIKMFAQ--------------KKVTLPPGRHK----
--------VVILDEADSMTSGAQQALRRTIEIYSN-------------ST
RFALACNTSA-KIIEPIQSRC-ALVRFSRLSDQQILGRLLVVVAAE----
--------------------------KVPYVPEGLEAIIFTA----DGDM
RQALNNLQ-----ATFSGFSFVNQENVFKVCDQ---------PHPL----
------------hvknivrnvleskfdiacdglkqlydlgysptdiittl
friiknydmaey
>gi|7471826|pir||C75278_4:239   DNA polymerase III, tau/gamma subunit - Deinococcus radiodurans (strain R1)
gi|6460225|gb|AAF11953.1|AE002071_7 (AE002071) DNA polymerase III, tau/gamma subunit [Deinococcus radiodurans]
msa-------------IYQRARPIRWEDVVGQEHVKDVLRTALEQGRIGH
aYLFSGPRGVGKTTTARLIAMTANCtgpapkpcgecescLAVRAGSHPDV
MEIDAASNNSVD-DVRDLREKVGLAAM--------------------RGG
KK------------IYILDEAHMMSRAAFNALLKTLEEP-----------
--PEHVIFILATTEPE-KIIPTILSRC-QHYRFRRLTSEEIAGKLAGLVT
LE------------------------------GASADPDALNLIGRLA--
--DGAMRDGESLLE-----RMLAAGTAVTRPAVEEALGL-----------
------------------ppgervrgvasallvgdageaisgaaqlyrdg
faartvveglvaafgaal
>gi|7441942|pir||G70136_4:440   heat shock protein (hslU) homolog - Lyme disease spirochete
gi|2688171|gb|AAC66653.1| (AE001137) heat shock protein (hslU) [Borrelia burgdorferi]
mclRRLKMNKLEEHYIVPKDVVAELDKYIIGQDEAKKLVSIALVNRyirs
rlpkeikdevMPKNIIMIGSTGIGKTEIARRLSKLIKApfikveatkyte
vgyvgrdvesmvrdlmsiavnmvkeemystvrddalvrteerivdslfkg
ssnsenmdpneikaeekvkeklrkklragelddttieIQISSKMPFSTIE
IFTGGNFEEIDmgiGGllgnifdRKKKRELKIKKAKEIILAEELEKLVDH
ENISDIAKSKVE-------NMGIIFIDEIDKIaaknrsgndvsREGVQRD
ILPIIEGSKVN-TKYGIVDTSHILFIAAGAFNLAKpSDLIPELQGRFPIK
VELKSLSIDDLKKILKQ-----------------TKNSLIKQYVAMFKVY
DLDLKFSEEAIDRIAELTFNMnlesENLGARRLHGVME------------
------------IVLADLFFEVPGSKLKKFEINLDYVNK---kiqineqk
dlnyyii
>gi|9656373|gb|AAF94993.1|_8:268   (AE004260) Holliday junction DNA helicase RuvB [Vibrio cholerae]
mieadrlIAPISNHFKDEEVIDRAIRPKKLADYQGQDHVRDQMEIFIQAA
qmrqeALDHLLIFGPPGLGKTTLANIVANEMGVNIRTTSGPVLEKAGDLA
ALLTNLEEND----------------------------------------
--------VLFIDEIHRLSPMVEEVLYPAMEDYQLDImigegpAARSIKI
DLP-PFTLIGATTRAG-SLTSPLRDRFGIVQRLEYYKVADLQHIVQRSAQ
CL------------------------------GLSMDSEGALEVARRA--
--RGTPRIANRLLRRVRDYAEVKGDGHICAQTADRALNMLDVDHQGFDYM
DR----------------klllaimekfsggpvgidnlaaaigeekdtie
dvlepfliqqgylqrtpr
>gi|3023975|sp|Q44772|HSLU_BORBU_1:433   HEAT SHOCK PROTEIN HSLU
gi|1165279|gb|AAA85618.1| (U43739) HsLU [Borrelia burgdorferi]
----MNKLEEHYIVPKDVVAELDKYIIGQDEAKKLVSIALVNRyirsrlp
keikdevMPKNIIMIGSTGIGKTEIARRLSKLIKApfikveatkytevgy
vgrdvesmvrdlmsiavnmvkeemystvrddalvrteerivdslfkgssn
senmdpneikaeekvkeklrkklragelddttieIQISSKMPFSTIEIFT
GGNFEEIDmgiGGllgnifdRKKKRELKIKKAKEIILAEELEKLVDHENI
SDIAKSKVE-------NMGIIFIDEIDKIaaknrsgndvsREGVQRDILP
IIEGSKVN-TKYGIVDTSHILFIAAGAFNLAKpSDLIPELQGRFPIKVEL
KSLSIDDLKKILKQ-----------------TKNSLIKQYVAMFKVYDLD
LKFSEEAIDRIAELTFNMnlesENLGARRLHGVME---------------
---------IVLADLFFEVPGSKLKKFEINLDYVNK---kiqineqkdln
yyii
>gi|7476575|pir||D70717_20:363   hypothetical protein Rv0958 - Mycobacterium tuberculosis (strain H37RV)
gi|1524204|emb|CAB01992.1| (Z79700) hypothetical protein Rv0958 [Mycobacterium tuberculosis]
mspsnlprtvgelraaghrERGVKQEIRENLLTALADGDNVWPGILGFDD
tVIPQVERALIAG--HDFVLLGERGQGKTRLLRALAGLLDEWTPVIaGAE
LGEHPYTPITPESIRRaaqlgddlpvAWKHRSERYTEKLATPDTSVADLV
GDVDPIKVAE-GRSLGDPetiayGLIPRAHRGIVAVNELPDLAERIQVSM
LNVMEERDI--QVRGYTLRLPLDVLVVASANPEDytnrGRIITPIKDRFG
AEIRTHYPLELEAEMGVIVQEAHL--------------------------
----SAQVSDYLMQVLARFARYLresrsidqrSGVSARFAIAAAETVAAA
ARHRGAVLGETDPVARVVDLGTVIDVLRGKLEFESGEEGREQAVLEHL-l
rratadtasrvlggidvgslvtaveggsavttgervsakdvlaavpglp
>gi|7428239|pir||C69219_4:480   endopeptidase La-related protein - Methanobacterium thermoautotrophicum (strain Delta H)
gi|2621987|gb|AAB85390.1| (AE000865) ATP-dependent protease LA related protein [Methanobacterium thermoautotrophicum]
myvDMNREYLKDINTTEDVKIPEDPLERVIGHEDVMPMIKIAAK--QRRH
LLLVGPPGIGKSLLAQAISFHLPEpseeitvvhnperperpfveiknrke
iedeileieraegelidpqsapdavaerlgfkcihcgeyssaynsicprc
ggdkfshikarrkhigdllgmfemssgslsvpqkrvtttriidgveevvi
yervggeeikvldqralekrrqiveekprnVIVP----------------
---------LDRKTFVQA-TGASETELLG--DVRHDPYGGHPDLGsqpye
rvvPGAIHEAHEGVLFIDEIVH-IAGLQRFIFSAMQDKTF--PIVGRNpq
sagssvkvDEVPCDFIFVGACNIADLQyILPPLRSRIqgegyELLLNTTM
PDTDENRAKIAQFVAQE----IELDGK--------------------IPH
ARAAAVELLIEEARRRaravddvdnaLTLRLRDLGGVVRMAGDLAVMDGS
PYIETRHMEVAIRKAVSVEDQIIRRYKS-----YEKALEKDL-sssqrms
qhgyssenidrsym
>gi|1352305|sp|P47659|DP3X_MYCGE_2:221   DNA POLYMERASE III SUBUNIT GAMMA
gi|1361493|pir||D64246 DNA-directed DNA polymerase (EC 2.7.7.7) III gamma/tau chain - Mycoplasma genitalium
gi|3845015|gb|AAC71649.1| (U39724) DNA polymerase III, subunit gamma and tau [Mycoplasma genitalium]
m----------HQVFYQKYRPINFKQTLGQESIRKILVNAINRDKLPNgY
IFSGERGTGKTTFAKIIAKAINCLNWDQIDVCNSCDVCKSINTNSAIDIv
eidaasknginDIRELVENVFNHPF------------------TFKKK--
----------VYILDEAHMLTTQSWGGLLKTLEES-------------PP
YVLFIFTTTEFN-KIPLTILSRC-QSFFFKKITSDLILERLNDIAKKE--
----------------------------KIKIEKDALIKIADLS----QG
SLRDGLSLLD----------------------------------------
--------------qlaislivkklvllmlkkhlisliemqnllllkqfy
qei
>gi|2583049|gb|AAB82595.1|_4:238   (AF025391) DNA polymerase III holoenzyme tau subunit [Thermus thermophilus]
msa-------------LYRRFRPLTFQEVVGQEHVKEPLLKAIREGRLAQ
aYLFSGPRGVGKTTTARLLAMAVGCQGED--PPCGVCPHCQAVQRGAHPD
VveidaasnnsveDVRELRERIHLAPL------------------SAPRK
------------VFILDEAHMLSKSAFNALLKTLEEP-------------
PPHVLFVFATTEPE-RMPPTILSRT-QHFRFRRLTEEEIAFKLRRILEAV
------------------------------GREAEEEALLLLARLA----
DGALRDAESLLE-----RFLLLEGPLTRKEVERALGL-------------
----------------pprealaeiaaslargktaealglarrlygegya
prslvsgllevfregl
>gi|7110155|gb|AAF36814.1|AF175525_2_12:255   (AF175525) RuvB; Holliday junction binding protein; Holliday branch migration protein [Rhizobium etli]
mseparlispe--------KRGEDLDITLRPQSLDEFTGQAEARANLKVF
IEAAknrgeALDHVLFVGPPGLGKTTLAQIMAKELGVNFRST--------
---------------------------------------------SGPVI
AKAGDLAALltnleERDVLFIDEIHRLNPAVEEILYPAMEDYQLDLiige
gpAARSVKIDLS-KFTLVAATTRLG-LLTTPLRDRFGIPVRLTFYTVEEL
ELIVRRGARLM------------------------------NLPMTEEGA
REIARRA----RGTPRIAGRLLRRVRDFAEVARAEAVTREIADEALTRLL
VD-------------------------nvgfdqldkrylnmiavnfgggp
vgietiaaglseprdaiediiepymiq
>gi|1173331|sp|P44631|RUVB_HAEIN_15:266   HOLLIDAY JUNCTION DNA HELICASE RUVB
gi|1074207|pir||B64061 DNA-binding protein ruvB - Haemophilus influenzae (strain Rd KW20)
gi|1573279|gb|AAC21975.1| (U32716) Holliday junction DNA helicase (ruvB) [Haemophilus influenzae Rd]
mieadriisgqakv---------DEDVIDRAIRPKLLADYVGQPQVREQM
DIFIKAAklrqdALDHLLIFGPPGLGKTTLANIVANEMGVNIRTTSGPVL
EKAGDLAAMLTNLEPHD---------------------------------
---------------VLFIDEIHRLSPAIEEVLYPAMEDYQLDImigegp
AARSIKLDLP-PFTLVGATTRAG-SLTSPLRDRFGIVQRLEFYSVEDLTS
IVARSAGCL------------------------------NLELEQQAAFE
VARRS----RGTPRIANRLLRRVRDYADVRNGGIISINVAKQALSMLDVD
DAGFDYLDR----------------kllsavierfdggpvgldnlaaaig
eerdtiedvlepyliqqgflqrtpr
>gi|7769956|gb|AAF69583.1|AC019154_2_8:253   (AC019154) Replication Factor C [Leishmania major]
myagrqg--EEAKAAASHLPWVEKYRPSTLESVVAHEDILSTLRHLMDSG
NMPHLLLYGPPGTGKTTTIKACAYYLYGKARVRANVLEMNASDDRGIDVV
RQQTR------------EFASTSSIFS------MMGTGSSTGGGSGGPAA
KFKLVILDEADQMSHDAQAALRRVIEKY-------------TRNVRFCIL
CNHIN-KIIPALQSRC-TRFRFAPVKKSSMMPRLRYVAEQE---------
---------------------GVKYTTDGLAAAFRLS----HGDLRRCLN
TMQ-----ASALSANEITEESVYRVTG-----------------------
-------nptpadvtaivsdmlssdfatswvkaeesvvqkgismadltre
ihpvmma
>gi|7441948|pir||H72365_1:459   heat shock protein HslU - Thermotoga maritima (strain MSB8)
gi|4981035|gb|AAD35607.1|AE001728_8 (AE001728) heat shock protein HslU [Thermotoga maritima]
------MKSFDEMTPKEIVQELDKYIVGQYEAKKAVAIAVRNRirrqklp
eewrkevLPKNILMIGPTGVGKTEIARRLAQLSGSpflkveatrftevgy
vgknvdsmirdlveisvnmvkqekikeverqaeelveerildalvpeska
mpvvtnpfinlitggqqqqytpedrrrfrakreemreklrkgeledeeie
ieleetvspFMGIFGPGMEDLGIEITNMFSGMLPKRKKKRKMKVseaRKV
LLPLEAEKLID---MDKVVQEALDRAQ-------NRGIIFIDEIDKIagk
esavgpdvsRQGVQRDLLPIVEGTTIM-TKYGPVRTDFILFIAAGAFHVS
RpSDLIPELQGRFPIRVELSPLTEEDFVRILKE-----------------
PENAIIKQYQALLSTEGVELVFTEDGIREMARIAYQLnqrlENIGARRLY
TVAEKVLEEISFEAPDIPEKRVVVDAEYVRRRLEKIVQDEDLS-------
--------ayil
>gi|2498877|sp|Q57396|RUVB_SYNY3_42:286   HOLLIDAY JUNCTION DNA HELICASE RUVB
gi|7443648|pir||S76504 DNA-binding protein ruvB - Synechocystis sp. (PCC 6803)
gi|1001619|dbj|BAA10350.1| (D64002) Holliday junction DNA helicase RuvB [Synechocystis sp.]
gi|1256590|gb|AAA96396.1| (U38892) RuvB [Synechocystis sp.]
maikrsgnnnlspnvksdllspevipqerstspeleqqeas---------
--------LRPQRLADYIGQRDLKEVLRIAIQAAqgrqeAIDHLLLYGPP
GLGKTTLALILAEEMQVRCKITAAPALERPRDITGLLLALQPGD------
------------------------------------------ILFIDEIH
RLNRLTEELLYPAMEDFRLDITMGKGqsakvrSLKLA-HFTLVGATTKVG
-SLTSPLRDRFGLIQRLRFYEVDELQQIILRTAGIL--------------
----------------SVSISPTGAEAIAMRA----RGTPRIANRLLKRV
RDYAQVKQQPEIDPALASEALDLYQVDKRGLDWTDRL-------------
--vlqtlieqfqggptgleaiaaatgedaktieevyepyllqigylarts
rg
>gi|7467603|pir||A71649_41:305   DNA polymerase III chains gamma and tau (dnaX) RP865 - Rickettsia prowazekii
gi|3861390|emb|CAA15289.1| (AJ235273) DNA POLYMERASE III SUBUNITS GAMMA AND TAU (dnaX) [Rickettsia prowazekii]
mrrsdlrsllllhkedrlpllsamtkttsitiiivlenss--------NQ
YIPFARKYRPSNFTELQGQEVLVKILSYTILNDRLVGgYLLTGIRGIGKT
TSARIIAKAVNCSALitenTAIKTCEKCTNCVSFNNHNHPDIieidaask
tsiDDIRRIIESAEY----------------KPLQ-GKHK----------
--IFIIDEVHMLSKGAFNALLKTLEEP-------------PPHVIFIFAT
TEVQ-KVPSTIISRC-QRYDLRRLSFEEIFKLLQYITKQE----------
--------------------NLIADVEALRIIAHKS----EGSARDAVSI
LDQAASMSA-KSGNIISPQIINQMLGLVDTSFILEFIENIIS--------
------retekainlinklyygfsinletfiksvadfiaylnkvkilpny
slpiye
>gi|6014997|sp|O69688|DP3X_MYCTU_3:228   DNA POLYMERASE III SUBUNIT GAMMA/TAU
gi|7477980|pir||B70796 probable DNA POLYMERASE III SUBUNITS GAMMA - Mycobacterium tuberculosis (strain H37RV)
gi|2960145|emb|CAA18043.1| (AL022121) dnaZX [Mycobacterium tuberculosis]
ma-------------LYRKYRPASFAEVVGQEHVTAPLSVALDAGRINHa
YLFSGPRGCGKTSSARILARSLNCAQGPTANPCGVCESCVSLAPNAPGSI
dvveldaashggvddTRELRDRAFYAP--------------VQSRYR---
--------------VFIVDEAHMVTTAGFNALLKIVEEP-----------
--PEHLIFIFATTEPE-KVLPTIRSRT-HHYPFRLLPPRTMRALLARICE
QE------------------------------GVVVDDAVYPLVIRAG--
--GGSPRDTLSVLDQLLAGAA-----------------------------
------------------dthvtytralgllgvtdvaliddavdalaacd
aaalfgaiesvidgghdp
>gi|7520743|pir||JE0167_16:235   nitric-oxide reductase (EC 1.7.99.7) chain NorQ - Paracoccus halodenitrificans
gi|2852458|dbj|BAA24702.1| (AB010889) NorQ [Paracoccus halodenitrificans]
mtlstvaaqsadqei---------------------PYYDSVGNEC--AM
FEHAYA--QRLPLLLKGPTGCGKTRFVSHMAAKLGKPLFTVSCHDDLTAA
DLTGRYLLQ-----------------------------------GGETRW
VDGPLTRAvrEGGICYLDEVVEARKDVTVVLHPLTDDRRlLPLERTGELL
EAPDDFMLVASYNPGY-QhilksLKPSTRQRF-VAMTFDFPPPKVERDIV
AR-----------------------------------ESGLESERCAALV
NLAASLramkgqdleEGISTRLLVYCATLIQA------------------
--------------------------------gmpirdaaratlveplsd
dadvqeglmeavqatfg
>gi|7473554|pir||G75255_33:335   probable magnesium protoporphyrin chelatase - Deinococcus radiodurans (strain R1)
gi|6460418|gb|AAF12129.1|AE002088_6 (AE002088) magnesium protoporphyrin chelatase, putative [Deinococcus radiodurans]
mtaqttaqpkartlgellqtpeyagrkpfdgqRRLVQDEVRDNLTRKLRS
GEELFPGVVGYDDtVIPQLVNALL--ARQNFILLGLRGQAKSRILRAITE
LLDPEVPVIdGVDMPDDPLNPIGAEGQHLleahgmelPIRWLPRADRYve
KLATPDVTVADLIGDVDPIKAARLGTSLGDTrsmhfGLLPRANRGIFAVN
ELADLSPKVQVALFNILQEGDV--QIKGYPIRLELDVMLVFSANPEDyta
rGKIVTPLKDRIGSEIRTHYPTDVQLGMDITA---------QEAVKEE--
-----------------GVVVPPFIAELIEDIAFQAredgridklSGVSQ
RLPISLMELACANAERR---------------------------------
------------slvsgdapvvrvtdvyaglpaitgkmeleyegelkgad
nvakdlirkaag
>gi|3183084|sp|Q02441|NIRQ_PSEST_8:239   DENITRIFICATION REGULATORY PROTEIN NIRQ
gi|281598|pir||S27012 nirQ protein - Pseudomonas stutzeri
gi|581477|emb|CAA78998.1| (Z17423) NirQ protein [Pseudomonas stutzeri]
mrylpvn--------AIEIPTTAGTPDAPFYQPLGNEE--QLFQQAWQHG
--MPVLIKGPTGCGKTRFVQHMAHRLNLPLYTVACHDDLSAADLVGR---
-----------------------HLIG---------AQGTWWQDGPLTRA
vrEGGICYLDEVVEARQDTAVVLHPLADdRRELFIERTGEALKAPPGFML
VVSYNPGY-QnllkgMKPSTRQRF-VAMRFDYPPTAEEERIVAN------
-----------------------------EAQVDAALAAQVVKLGQALrr
leqhdleEVASTRLLIFTARMIR---------------------------
------------------------sgmtprqaclaclaeplsddpqtvaa
lmdvvyvhfg
>gi|6831516|sp|O84711|CLPX_CHLTR_68:407   ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPX
gi|7441957|pir||B71481 probable clp proteinase ATPase - Chlamydia trachomatis (serotype D, strain UW3/Cx)
gi|3329160|gb|AAC68300.1| (AE001341) CLP Protease ATPase [Chlamydia trachomatis]
dvekliagpsvyicdyciklcsgildktpapatqeiatsstssptslrvl
-------------TPKEIKRHIDSYVIGQERAKKTISVAVYNHykriral
mqdkqvsyGKSNVLLLGPTGSGKTLIAKTLAKIL----------------
---------------DVPFTIADA-TTLTEAGYVGE-DVENIVL-RLLQA
ADYDVARAERGIIYIDEIDKIgrttanvsitrdvsGEGVQQALLKIIEGT
VANIPPKGGrkhpnqeyirVNTENILFIVGGAFVNLDKiiakrlgrttig
fseetdlavtnrdhllakvetedliafGMIPEFIGRFNCVVNCEELTLDE
LVEILTE-----------------PANAIVKQYTELFEEENVKLIFEKEA
LYAIAQKAKQA-KTGARALGMILE-----------------------NLL
RDLMFEIPSDPTVEAIRIEEDTITQNKPpviiqkspeaia
>gi|7262689|gb|AAF43947.1|AC012188_24_422:679   (AC012188) Contains similarity to DNA Pol III Gamma and Tau from Chlamydia trachomatis gb|AE001306.1 and contains an AAA (ATPase) PF|00004 domain. [Arabidopsis thaliana]
ysdddlstdfgeidleaqsrldgrrwssccksqdgereeeeeggstpesi
-----------QSLSQKYKPMFFDELIGQSIVVQSLMNAVKKGRVAHvYL
FQGPRGTGKTSTARILSAALNCDVVTEeMKPCGYCKECSDYMLGKSRDLl
eldagkkngaeKVRYLLKKLLTL----------------APQSSQRYK--
----------VFVIDECHLLPSRTWLSLLKFLENP-------------LQ
KFVFVCITTDLD-NVPRTIQSRC-QKYIFNKVRDGDIVVRLRKIASDE--
----------------------------NLDVESQALDLIALNA----DG
SLRDAETMLE-----QLSLMGKRITVDLVNELVGVVSDDKLLELLELALS
S-------------dtaetvkkarelldlgadpilmmsqlaslimdiiag
aykaldekyseafl
>gi|7190113|gb|AAF38960.1|_68:406   (AE002275) ATP-dependent Clp protease, ATP-binding regulatory subunit ClpX [Chlamydia muridarum]
dvekliagpsvyicdyciklcsgildktptpaaqevstsqtapqtslkvl
-------------TPKEIKRHIDSYVVGQERAKKTISVAVYNHykriral
mqdkqvsyGKSNVLLLGPTGSGKTLIAKTLAKIL----------------
---------------DVPFTIADA-TTLTEAGYVGE-DVENIVL-RLLQA
ADYDVARAERGIIYIDEIDKIgrttanvsitrdvsGEGVQQALLKIIEGT
VANIPPKGGrkhpnqeyirVNTENILFIVGGAFVNLDKiiakrlgrttig
fseetdlavtdrdrllakvetedliafGMIPEFIGRFNCIVNCEELTLDE
LVEILTE-----------------PANAIVKQYTELFAEENVKLIFEKEA
LYAIAQKAKQA-KTGARALGMILE-----------------------NLL
RDLMFEIPSDPTVESIRIEEDTITQNK-spviiqrspeaia
>gi|1293572|gb|AAB61695.1|_48:313   (U49738) DNA polymerase III tau homolog DnaX [Caulobacter crescentus]
madhddlspdsappwdeapaerdentadifgdapapaaearpvvetp--P
EGEKGDAYTVLARKYRPRTFEDLIGQEAMVRTLANAFSTGRIAHaFMLTG
VRGVGKTTTARLLARALNYETDTVKGPSVDLTTEGYHCRSIIEgrhmdvl
elDAASRTKVDEMRELLDG-----------VRYAPVEARYK---------
---VYIIDEVHMLSTAAFNALLKTLEEP-------------PPHAKFIFA
TTEIR-KVPVTILSRC-QRFDLRRVEPDVLVKHFDRISAKE---------
---------------------GARIEMDALALIARAA----EGSVRDGLS
LLD--QAIVQTERGQTVTSTVVRDMLGLADRSQTIALYE-----------
-------hvmagktkdalegfralwgfgadpavvmldvldhchasavska
lgpdals
>gi|7484925|pir||T00615_449:705   DNA polymerase III gamma chain homolog T8K22.22 - Arabidopsis thaliana
gi|3184291|gb|AAC18938.1| (AC004136) DNA polymerase III-like protein, gamma subunit [Arabidopsis thaliana]
elstnygeldleaqsrldgrrwstsyrsqdgleavaldgeeeegstpeti
-----------RSFSQKYRPMFFEELIGQSIVVQSLMNAVKRSRIAPvYL
FQGPRGTGKTSTARIFSAALNCVATEEMKPCGYCKECNDFMSGKSKDFwe
ldgankKGADKVRYLLKNLPTIL------------PRNSSMYK-------
-----VFVIDECHLLPSKTWLSFLKFLENP-------------LQKVVFI
FITTDLE-NVPRTIQSRC-QKFLFDKLKDSDIVVRLKKIASDE-------
-----------------------NLDVDLHALDLIAMNA----DGSLRDA
ETMLE-----QLSLLGKRITTALVNELVGVVSDEKLLELLELALSS----
---------dtaetvkrarelldlgadpivlmsqlaslimdiiagtykvv
dekysnaff
>gi|3183085|sp|Q51481|NIRQ_PSEAE_6:222   DENITRIFICATION REGULATORY PROTEIN NIRQ
gi|625672|pir||JC2288 nirQ protein - Pseudomonas aeruginosa
gi|529077|dbj|BAA07123.1| (D37883) NirQ protein [Pseudomonas aeruginosa]
gi|745437|prf||2016274A nirQ gene [Pseudomonas aeruginosa]
mrdat---------------------PFYEATGHEI--EVFERAWRHG--
LPVLLKGPTGCGKTRFVQYMARRLELPLYSVACHDDLGAADLLGR-----
---------------------HLIG---------ADGTWWQDGPLTRAvr
EGGICYLDEVVEARQDTTVAIHPLADdRRELYLERTGETLQAPPSFMLVV
SYNPGY-QnllkgLKPSTRQRF-VALRFDYPAAQQEARILVG--------
---------------------------ESGCAETLAQRLVQLGQALrrle
qhdleEVASTRLLIFAARL-------------------------------
----------------------igdgmdpreacrvalaeplsddpatvaa
lmdivdlhva
>gi|6225166|sp|Q9Z760|CLPX_CHLPN_69:389   ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPX
gi|7441956|pir||F72028 clp proteinase ATPase - Chlamydia pneumoniae (strain CWL029)
gi|4377161|gb|AAD18984.1| (AE001665) CLP Protease ATPase [Chlamydophila pneumoniae]
gi|7189936|gb|AAF38799.1| (AE002259) ATP-dependent Clp protease, ATP-binding regulatory subunit ClpX [Chlamydophila pneumoniae AR39]
gi|8979220|dbj|BAA99054.1| (AP002548) CLP protease ATPase [Chlamydophila pneumoniae]
vekliagpsvyicdyciklcsgildkkpsstissapvsetpsqpsdlrvl
-------------TPKEIKKHIDEYVIGQERAKKTIAVAVYNHykriral
lhnkqvsyGKSNVLLLGPTGSGKTLIAKTLAKIL----------------
---------------DVPFTIADA-TTLTEAGYVGE-DVENIVL-RLLQA
ADYDVARAERGIIYIDEIDKIgrttanvsitrdvsGEGVQQALLKIVEGT
TANVPPKGGrkhpnqeyirVNTENILFIVGGAFVNLDKiiakrlgkttig
fsddqadlsqktrdhllakvetedliafGMIPEFVGRFNCIVNCEELSLD
ELVAILTE-----------------PTNAIVKQYMELFAEENVKLVFKKE
ALYAIAKKAKQA-KTGARALGMILE------------------------N
LLRDLMFEIP-------------------sdptveaihiqedtiaenkap
iiirrtpeaia
>gi|2498873|sp|Q49425|RUVB_MYCGE_4:212   HOLLIDAY JUNCTION DNA HELICASE RUVB
gi|1361546|pir||G64239 Holliday junction DNA helicase ruvB homolog - Mycoplasma genitalium
gi|3844943|gb|AAC71584.1| (U39717) Holliday junction DNA helicase (ruvB) [Mycoplasma genitalium]
mkl---------------QIKPPNTFDEFVGKQEIISQIQLSIKASklnk
tQLDHILLYGPPGVGKTTLARLIANELKTKLQIIQGGHLQKPSDFLNAIS
LIKKGD--------------------------------------------
----VLFIDEIHAVAPNVMELMYPVMDVFKIQVligkdfNSKIVEMKVN-
PFTLIGATTQLG-KIINPLEDRFGVILNINYYSNAEIEKMVSIYGKQM--
----------------------------KLELNSNEISAITEHS----KQ
TPRIAIRIVRR---------------------------------------
--------------ifeqkivnkkidleglfknlmiyknglqsidvqyle
vlnrqnepqgiksi
>gi|8980710|gb|AAF82285.1|AF264023_1_449:705   (AF264023) STICHEL [Arabidopsis thaliana]
elstnygeldleaqsrldgrrwstsyrsqdgleavaldgeeeegstpeti
-----------RSFSQKYRPMFFEELIGQSIVVQSLMNAVKRSRIAPvYL
FQGPRGTGKTSTARIFSAALNCVATEEMKPCGYCKECNDFMSGKSKDFwe
ldgankKGADKVRYLLKNLPTIL------------PRNSSMYK-------
-----VFVIDECHLLPSKTWLSFLKFLENP-------------LQKVVFI
FITTDLE-NVPRTIQSRC-QKFLFDKLKDSDIVVRLKKIASDE-------
-----------------------NLDVDLHALDLIAMNA----DGSLRDA
ETMLE-----QLSLLGKRITTALVNELVGVVSDEKLLELLELALSS----
---------dtaetvkrarelldlgadpivlmsqlaslimdiiagtykvv
dekysnaff
>gi|3925400|gb|AAC79448.1|_11:224   (AF083948) putative chaperone [Pseudomonas sp. G-179]
mhlrhatsqi---------------------PAYAPAGNEC--ALFETAW
T--RQLPLLLKGPTGCGKTRFVGHMAAKLGLPLATVSCHDDLAAADLTGR
YLLK-----------------------------------GGDTVWVDGPL
TRAvrDGGVCYLDEVVEARKDVAVVLHPLTDDRRIlPLERTGEQLEAPSS
FMLVVSYNPGY-QsllktLKPSTRQRF-VAIEFDFLPKAREIEVVAE---
--------------------------------ESGLDAARVEPLVELARR
LralkghdleEGVSTRLLVYC-----------------------------
---------------------------aslidagldprdavrsamieplt
deagcahrpsrtdaavir
>gi|6978961|dbj|BAA90783.1|_22:229   (AB031072) norQ [Alcaligenes faecalis]
mnpilrnvenanvsippysps---------------------------GN
EC--TLFEMAWT--RKLPLLLKGPTGCGKTRFVSHMAAKLGLPLSTVSCH
DDLAAADLTGRYLLK-----------------------------------
GGDTIWVDGPLTRAvrEGGICYLDEIVEARKDVAVVLHPLTDDRRlLPLE
RTGELLEAPDRFMLVVSYNPGY-QnllksLKPSTRQRF-VAIEFDFLPKE
QEIAVVSE-----------------------------------ESGLAAQ
KVAPLVALAHRLrglkghdleEGVSTRLLVYC------------------
--------------------------------------atlidagmsqre
aaraamiepltdepdvkaalievadamlk
>gi|3183089|sp|Q51664|NORQ_PARDE_25:224   NORQ PROTEIN
gi|881940|gb|AAA68972.1| (U28078) NorQ protein [Paracoccus denitrificans]
mnahvktqgngavdapllpaagde--------------------------
------VAVFEAAAA--NDLPVLLKGPTGCGKTRFVAHMAARLGRPLYTV
ACHDDLSAADLIGRYLLK--------------------------------
---GGETVWTDGPLTRAvrEGAICYLDEVVEARKDVTVVLHPLTDDRRIl
PIDRTGEEIEAAPGFMLVASYNPGY-QnilktLKPSTRQRF-VAMEFDFP
EPAREVEIVAR-----------------------------------ESGL
DRDRTLGLVRLAGKIrglkgqdleEGVSTR--------------------
-----------------------------------------lvvyaaslt
rrgmnldraieaamiepltddaevkrglrdlaaaifg
>gi|7484924|pir||T05555_238:494   DNA polymerase III gamma chain homolog F22K18.10 - Arabidopsis thaliana
gi|4220511|emb|CAA22984.1| (AL035356) DNA polymerase III like protein [Arabidopsis thaliana]
gi|7269330|emb|CAB79389.1| (AL161562) DNA polymerase III like protein [Arabidopsis thaliana]
snrgcgitycwsrtpryrgsnqssdveeypllpgngngesdvvtpshevl
----------SRSLSQKFRPKSFDELVGQEVVVKCLLSTILRGRITSvYL
FHGPRGTGKTSTSKIFAAALNCLSQAAhSRPCGLCSECKSYFSGRGRDVm
etdsGKLNRPSYLRSLIKSAS-----------LPPVSSRFK---------
---VFIIDECQLLCQETWGTLLNSLDNF-------------SQHSVFILV
TSELE-KLPRNVLSRS-QKYHFSKVCDADISTKLAKICIEE---------
---------------------GIDFDQGAVDFIASKS----DGSLRDAEI
MLD-----QLSLLGKRITTSLAYKLIGVVSDDELLDLLDLAMSS------
-------dtsntvirarelmrskidpmqlisqlanvimdiiagnsqesss
atrlrfl
>gi|7471165|pir||F75331_58:389   ATP-dependent Clp proteinase, ATP-binding subunit ClpX - Deinococcus radiodurans (strain R1)
gi|6459761|gb|AAF11525.1|AE002035_8 (AE002035) ATP-dependent Clp protease, ATP-binding subunit ClpX [Deinococcus radiodurans]
rcsfcgrqhpqiaqlieapgraaficnecaerafdlvkqqrkeagsefsl
---------DELPSAKEIKAYLDEFVIGQDEAKKALAVAVVSHyhrlsnp
daglQKSNILLIGPTGTGKTLLAQSLAEML--------------------
-----------EVPFAIADA-TTLTEAGYVGD-DVENVIV-RLLQAAEYD
VAAAERGIIYVDEIDKIarksegtsitrdvsGEGVQQALLKIIEGTVAQV
PPQGGrkhpqqelvqVDTRNILFIVGGAFESMSEiarartnvravgfgae
hkgeekeevrflpedlvkfGLIPEFVGRLPLVVQLQDLDEDALIRILTE-
----------------PQGAIIKQYQALFGFQGVDLTFSEEALQEVAHRA
KER-KTGARGLRAVLE------------------------KSMTDLLFEL
PRDDVKEIRFEAEYIDD---plkaleskglkksa
>gi|7529573|emb|CAB86661.1|_103:355   (AL096678) dJ122O8.3 (novel protein) [Homo sapiens]
agrvrkqeeidviqevlekhfkkklcpqslfskenvlkllgklstqistl
-------------------ECNFGHIVWTEGMRRLAMLvgrALEFG--EP
VLLVGDTGCGKTTICQVFAALANQKLYSVSCHLHMETSDFLGG-------
-----LRPVRQKPN-----------DKEEIDTSRLFEWHDGPLVQAmkED
GFFLLDEISLADDSVLERLNSVLEvEKSLVLAEKGSPedkdseielLTAG
KKFRILATMNPGGdfGKkeLSPALRNRF-TEIWCPQSTSREDLIQIISHN
LRP----GLCLGRIDPKGSDIPEVMLDFIDWLTHQEFGRKCV--------
----VSIRDILSWV------------------------------------
-------------------nfmnkmgeeaalkrpeiistvtsfvhaaclv
yidgigsgvtssgfgtall
>gi|1354182|gb|AAB01911.1|_1:139   (U49157) putative sigma-54 dependent transcriptional activator [Myxococcus xanthus]
--------------------------------------------------
--------------------------------------------------
------------------------EKGAFTGAVSVRRGKFELAHEGTLFL
DEIGDMPQAMQAKLLRVLQEGEL--ERVGGAETHKVDVRVVAATNKNLea
eiaaGRFREDLYYRI-NVVQIHSPPLRERREDLPDLIKTF----------
-------LDEACAKNGRR--PLTLSPDALAVMSAY---------------
--------------------------------------------------
------d
>gi|7467459|pir||T15020_127:370   probable porphyrin biosynthetic enzyme - Yersinia pestis plasmid pMT1
gi|2996336|gb|AAC13216.1| (AF053947) CobS homolog [Yersinia pestis]
gi|3883103|gb|AAC82763.1| (AF074611) putative porphyrin biosynthetic enzyme [Yersinia pestis]
gi|5834771|emb|CAB55270.1| (AL117211) putative porphyrin biosynthetic protein [Yersinia pestis]
kraerhsgegkvaeisahpgyagtveyktelvaahellgvtikelgtprg
-KPLQVTVNVNTPYPEFVPEAKKNYVYGDFDLIKDIFMMLEIG--IPGYL
WGHAGTGKSSLPTQLCALLNRPLIRAQHTASMEEAHVTGQILAR------
-----------------------------DGSTYFEPGLLALAmkNGWVY
LADEYDFAFPQILGVYQPVLEGEPLIIkeaTPDWRRITPHKRFAFIGTGN
TNGsGDetglyqgtniQNAANFSRFGIVSNVKYMSTKAEVNMLAE-----
----AGVIREYAEKMVKFANLVREGYEQHLISQ-----------------
PIGPRELL------------------------------------------
----------------lsakigmmrgdfsagieksfinklpstsaqaare
vvqkifg
>gi|7435748|pir||F72504_117:387   probable 26S proteinase regulatory subunit APE2012 - Aeropyrum pernix (strain K1)
gi|5105710|dbj|BAA81022.1| (AP000063) 409aa long hypothetical 26S protease regulatory subunit [Aeropyrum pernix]
leviddnrvvvksstgpnlivnvaagvdarslkpgaivalnnrgstivdv
-LPGRYDPLVKAMEVEERPKVFFKDVGGLEEQIREIYEAVVLPiknphlf
relgidPPKGVLLHGPPGTGKTLLAKAVAGETEATFIR------------
------------------------------VVGSELVNKFIGEGARLVRe
ifrlarekaPS--------ILFIDEIDAIaskrvdigtsgDREVQRTMLQ
LL-------AELDGFDPLD-NVKVIAATNRLD-LIDPAVLRpgRFDRIIE
VPLPSLRGRLEILGIHTRK-------------------------------
AKMAPDVDLEAIAKLT---EGFSGADLKAVVVEAGYNAIRRGSRVITMDD
MIKAVEKVKAALDKR---------------------gggdpfiraqqksg
ddtiatvi
>gi|3236440|gb|AAC62405.1|_1:151   (AF069390) sigma54-dependent transcriptional activator [Vibrio cholerae]
--------------------------------------------------
--------------------------------------------------
----------------ELFG---HESGSFTGAKGRHQGRFERAEGGTLFL
DELATAPLSVQEKLLRVIEYGQY--ERVGGNQVLNANVRLVCATNANLpq
maqqGTFRADLLDRL-AFDVIHLPALRHRPEDIALLAEHF----------
----------AIRMCRELQvpLFVGFSPNALHQLQAYS---CPGNV----
--------------------------------------------------
--------
>gi|2660725|gb|AAC13643.1|_333:443   (AF029734) transcriptional activator AldR [Xanthobacter autotrophicus]
gdarrartpngavmlrlerqapapvrmaavsavappaapapagpsfdaet
-----------------------------EQAMGRAIRLMNAG--VSVLI
QGETGSGKEVFVRQIHARGPRADRT-------------------------
FAAVNCAALPEGLIESELFG---YEDGAFTGARRAGfKGLFREADGGVLF
LDEIGDMPLGLQNRLLRVLQ------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-
>gi|7529573|emb|CAB86661.1|_483:737   (AL096678) dJ122O8.3 (novel protein) [Homo sapiens]
kiydrmkakeftgidnlwgihpffiprgpvlhrnniadyalsagttamna
---------------------------------QRLLRATK--LKKPILL
EGSPGVGKTSLVGALAKASGNTLVRINLSEQTDITDLFGADLPVEGGK--
-----------------------------GGEFAWRDGPLLAAlkAGHWV
VLDELNLASQSVLEGLNACFDhRGEIYVPELGMSfQVQHEKTKIFGCQNP
FRqggGRkgLPRSFLNRF-TQVFVDPLTVIDMEFI---------------
-----------------------ASTLFPAIEKNIVKKMVAFnnqidhev
tvekkwgqkggpWEFNLRDLFRWCQ------------------------L
MLVDQSPGCYDPGQhvflvyGERMRTEEDKKKVI-avfkdvfgsnsnpym
gtrlfritpydvqlgysvlsrgscvphpsrhplll
>gi|1354184|gb|AAB01912.1|_1:139   (U49158) putative sigma-54 dependent transcriptional activator [Myxococcus xanthus]
--------------------------------------------------
--------------------------------------------------
------------------------ERGAFTGATAEKPGKFELADQGTIFL
DEIGEMAIRLQAKLLQVLQDEEF--FRVGGKKSVRVDSRVVVATNRDLek
eialGNFREDLFYRL-NVVAIRLPALRERREDVVPLTDHFLKKYGRGYLS
G-------------------VSELPTEVLHAFADY---------------
--------------------------------------------------
------d
>gi|8051696|dbj|BAA96090.1|_149:398   (AB032368) FtsH [Thermus thermophilus]
pqgqnalgflwplllvglligalyyfsrngragpsdsafsftksrarvlt
----------------EAPKVTFKDVAGAEEAKEELKEiveFLKNPsrfh
emgARIPkgVLLVGPPGVGKTHLARAVAGEARVPFIT-ASGSDFVEMFVG
VGAARVRDLfETAKRHAPC-------------------------------
---------IVFIDEIDAVgrkrgsgvgggndeREQTLNQLLVEMDGFEK
-----------DTAIVVMAATNRPD-ILDPALLRpgRFDRQIAIDAPDVK
GREQILRIHARG-------------------------------KPLAEDV
DLALLAKRT---PGFVGADLENLLNEAALLAAREGRRKITMKDLEEAADR
VMM--------------------------gpakkslvlsprdrritayhe
aghalaahflehadgvhkvtivprgralg
>gi|1354168|gb|AAB01904.1|_1:140   (U49167) putative sigma-54 dependent transcriptional activator [Bacillus subtilis]
--------------------------------------------------
--------------------------------------------------
------------------------EDGAFSGANgGGKKGLFEEANNGSIF
LDEIGELTQNMQAKLLRVLQEKEI--VRVGGTKAIPVNVRVIAARNVNIe
kamadGTFREDLYYRI-NRYPISIPPLRQRLEDIEALSVRLIQKINRDYG
RN-------------------VKGLSQQALRALSAY--------------
--------------------------------------------------
-------h
>gi|4586900|dbj|BAA76532.1|_57:293   (AB017350) magnesium chelatase [Acidiphilium rubrum]
prkptrdaglaaclfaidpvglggmvirsrigpardgflsrlrgllpsat
--------------------------------------------------
--------------------------------------------------
----PVRRLPTHITDDRLLGGLDLAGTLSFGSRIVATGLLAEVDGGVVVI
PMAERLDRALVGKLAAALDRGVVSVARDGVMSERDARFGVVALDEGIGdd
EAAPGALCDRL-AFVLDETMLNDDFVWPGAR-------------------
------AIARARGRLAGIVAGDDTAIALCRTAAALGIDSLRAPILALRAA
RAAAALAGRRTIDEADAILAARLILAPRATTLPAPEPppeppsepptesq
nepdePPPEAREAQADD---qpqdepppgdaseelaervldaarsalpld
llaalamlggprraasaasg
>gi|2130623|gb|AAC45373.1|_11:207   (AF000233) NorQ [Rhodobacter sphaeroides]
mnailrdatv---------------------PFYKPVGNEC--ELFEAAS
ANG----lPLLKGATGCGKTRNVEHMAARMGRKLHTVAC-----------
---------------------HTLSAADLIGRFLLK----GGATEWVDGP
LTRAvrEGAICYLDEVVEARKDVTVVLHPLTDnRRTLMIDRTGEELVAPP
GFMLVASYNPGYqnilKRLKPSTRQRF-LSISFTFPDPVTETAVVR----
--------------------------------ESGLSEARVAPLVRLA--
---GHVRALSGM--------------------------------------
------------------dleegvstrllvyaaslmaggmtveqaleaav
iepltdepdvaqalrdli
>gi|6707014|gb|AAF25551.1|AF113168_1_8:240   (AF113168) TutH [Thauera aromatica]
mktyssa----------NGLFVPEVDPYYYVSTENQSFLDKFAKISKKHP
--VNVLVVGKQGCGKSSLVRQYAAVNRLPLATFQIGILSEPGQLFGEYAL
E-----------------------------------NGETRYKQFLFPQA
iqtPNCVIHLEEINRPeHPKALNMLFSILSdDRQVWMDELGLLQVAP-GV
VFFATLNEGS-EfvgtelLDPALRDRF-YVTTMDFLPNEVEVEVLEK---
--------------------------------KTGVKNEQAREIIAVANS
IranadlgIDVSTRKILMLGEMIAA-------------------------
-------------------------ggtlreaivtslqtdkktlesvlls
lhvnlgkvekskteyvqyiaa
>gi|7449964|pir||E72723_64:467   probable TATA-binding protein-interracing protein 49 APE0326 - Aeropyrum pernix (strain K1)
gi|5103965|dbj|BAA79281.1| (AP000059) 473aa long hypothetical TATA-binding protein-interracing protein 49 [Aeropyrum pernix]
pkaaleagvvgvsgeiraevvrgfgasrhshitglgldadgrarkigggl
--------------------------VGQEEareaagvIVEMVREGRLGG
--RGILIVGPPGTGKTALAIAIARELGEdtpfvalnagelfrgdsgklem
llqafrkaigvrvrerrevvegvvtsisvskrrtpfspypviagaritle
tkdesrtftvgpevaeqlvalgvrrgdvividletgvvrvvgrgkgrgqs
fdidvvrevelpegpvrkvkefvrtltlhdidasiaaqrvaftgllsmfe
aergvtsedrkktdel----------------------------------
------------------VKKWVGEGKAEIVAG--------VIFIDDAHL
LDMESFSFLSKAMEs---------------DLAPIIVLATNRGVakirGt
diesphGIPRDLLDRL-LIITTRPYTRDEIKEIIRIRADEE---------
---------------------EVLLSENALERLADIG---SEKSLRYAIQ
LLEPAMIVAKRRGSRRVEAEHVEEAERLFADIKRSIQLVEK---------
-------yrdlmm
>gi|6093626|sp|O88708|ORC4_MOUSE_17:234   ORIGIN RECOGNITION COMPLEX SUBUNIT 4
gi|3288544|emb|CAA76188.1| (Y16386) origin recognition complex subunit 4 [Mus musculus]
mssrktksnahaecls---QVQRILRERFCHHSPHSNLFGVQVQYKHLIE
LLKRTAIYGESNSVLIVGPRGSGKTTLLNHALKELMEIEVS------ENV
IQVHLNGLLQTNEKIALKEITRQLNLDNVVEDKVFGSFAenlsflleaLK
KGDRTSSCPV-----------IFILDEFDIFaHQKNQTLLYNLF------
----DISQSAQTPVAVIGLTCRLD------------------------IL
ELLEKRVKSR----FSHRQIHLMNSFDFPQYLKIFKEQLSLP--------
--------------------------------------------------
--------------------------aefpdkafaerwnenvhclsedst
vlevlqkhfsvnknlqslhmllmlal
>gi|6754946|ref|NP_036088.1|_17:234   origin recognition complex, subunit 4
gi|4049470|emb|CAA05896.1| (AJ003140) ORC4-related protein [Mus musculus]
mssrktksnahaecls---QVQRILRERFCHHSPHSNLFGVQVQYKHLIE
LLKRTAIYGESNSVLIVGPRGSGKTTLLNHALKELMEIEVS------ENV
IQVHLNGLLQTNEKIALKEITRQLNLDNVVEDKVFGSFAenlsflleaLQ
KGDRTSSCPV-----------IFILDEFDIFaHQKNQTLLYNLF------
----DISQSAQTPVAVIGLTCRLD------------------------IL
ELLEKRVKSR----FSHRQIHLMNSFDFPQYLKIFKEQLSLP--------
--------------------------------------------------
--------------------------aefpdkafaerwnenvhclsedst
vlevlqkhfsvnknlqslhmllmlal
>gi|7448231|pir||E70832_26:211   hypothetical protein Rv0370c - Mycobacterium tuberculosis (strain H37RV)
gi|2909491|emb|CAA17376.1| (AL021931) hypothetical protein Rv0370c [Mycobacterium tuberculosis]
mtfaspddvirrfdeqnylldtgta-------------------------
--------SAIYLAVTLG--RPLLLEGEPGVGKTTAAKTLAVVLDTTLIR
LQCYEGLTANEALYDWNYQRQLLSIRLAEARGKGISDISEADLYT-----
----EAYLVDRPILRCVRHRGptppVLLIDEIDRADDEFEALLLEFLGES
AVTVPELGTfla----ECPPIAVLTSNRSR-DLHDALRRRC-LYHWIDYP
GPDRAAAIVRR---------------------------------------
--------------------------------------------------
--------------------------------tvpgataplienatqfvc
tardldldkppgvaetidwvaalvalgvadlt
>gi|114857|sp|P26175|BCHD_RHOCA_3:266   MAGNESIUM-CHELATASE 60 KDA SUBUNIT (MG-PROTOPORPHYRIN IX CHELATASE) (MG-CHELATASE SUBUNIT D)
gi|79451|pir||S17821 protoporphyrin IX magnesium chelatase (EC 4.99.1.-) bchD - Rhodobacter capsulatus
gi|46120|emb|CAA77537.1| (Z11165) 561 aa (60 kD) Mg chelatase subunit [Rhodobacter capsulatus]
md----------------------------HERLKSALAVLTVDP-----
-----------------AAVGGLWLRSRAGPIRLAFTDTL----------
-AKLPFPMalRRLPPNVDDGALYGGLDVAETLHSGKPVLKGGLLDRPs--
-VFILPMAERCTAKLGARLAQALDlRQ-------------HALIALDEAA
EPDE-ALPHAVADRLGLFVDLSEVRSIDGPGLLPE---------------
--------TAQIERARELLPQVQMPAERVSEIVEGCRQLGISSLRAPMLA
LTAARILTALSGRTRVEAEDVLHAAELTLAHRALPLQEAPPppppppepp
epNEGENQQDEQDQIDPldgippeivveavramlpdnilqtlnmgsrlra
asggqgagqeqignrrg
>gi|1076730|pir||S52172_2:78   replication licensing factor MCM3 - barley (fragment)
gi|609019|emb|CAA82557.1| (Z29369) putative replication origin activator [Hordeum vulgare]
r-------------------------------------------GDINVL
MVGDPSVAKSQLLRAVMNIAPLAISTTGRGSSGVGLTAAVTSDQE-----
------------------------------TGERRLEAGAMVLADRGVVC
IDEFDK--------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-
>gi|7516107|pir||D72684_5:297   hypothetical protein APE0892 - Aeropyrum pernix (strain K1)
gi|5104561|dbj|BAA79876.1| (AP000060) 380aa long hypothetical protein [Aeropyrum pernix]
mrln--PERPLLSGSCTQYLDWGLPIAMDAVGPGEARRILDRYGADR---
-VLLVGPPGVGKSTVVRSYAEDSASREglefvdLSEARSLEDLDTDSTYA
FLHIYaplvraeDLAFIARRG-------------------------EGYD
WTLPSRLAYLtrpgVRGLVFIDEItNVALPEVQTILFSMVLDKRVAYNRL
------SSGVEVVAAGNSPR-DspvsqwPPPPLLDRFRLLIRVKPPDLEE
WVSWMNSVGRPW---DRRVAAVLKVKPVLMY-----------RPPEDEED
K-----------FPTPRSWsQLAWELAKTGA--HGDEAVRIAAMVVGRRA
AEEARQFLQPDP-----------------asldlstfprldererltlls
veagrlasqdvvelcrtlekvgsygahya
>gi|6539526|dbj|BAA88155.1|_2:202   (AB034755) replication factor C large subunit [Pyrococcus furiosus]
m---------PELPWVEKYRPKKLSEIVNQEEAIEKVRAWIESWlhghpp
KKKALLLAGPPGSGKTTTVYALANEYNFEVIELNASDErtYEKISRYVQA
AYTMDILGKRRK--------------------------------------
-----IIFLDEADNIEPSGAKEIAKLID---------------KAKNPII
MAANKYW-EVPKEIReka----ELVEYKRLTQRDVMNALIRILKRE----
--------------------------GITVPKEILLEIAKRS----SGDL
RAAINDLQ------------------------------------------
------------tvvvggyedatqvlayrdvektvfqalglvfgsdnakr
akmamwnldmsp
>gi|6968518|emb|CAB73339.1|_23:237   (AL139077) putative ATP/GTP-binding protein [Campylobacter jejuni]
mdwnktyaaiyrarkdylkpif----------------EIDPIALKDLVG
MESQKKALYENTLNFiqdkGANHALLWGSKGTGKSSLIKAIFNEFKEQGL
R------LVELNKEDLFALA----------------------DIIDEIRL
ENFKF-----------------ILFCDDFSFEKGDDSYKFLKPLLEGSI-
-EKA------PNNVIIYASSNRRHLlsesitdnldtqithtelhlsdaaE
ERLSLSDRFGLWLSFYQGNLEEYLKMIDFYFKDY----------------
----------------SCDKELLHAKAKEF-----ATLRASRS-------
--------------------------------------------------
grtakqfylafkenfk
>gi|1354192|gb|AAB01916.1|_3:103   (U49162) putative sigma-54 dependent transcriptional activator [Myxococcus xanthus]
ap------------------------------------------------
--------------------------------------------------
----------------------------GAFTGARVGGAeGKLAAADGGT
LFLDELAEMPPALQVLLLRVLEDGAY--SRVGESRVRRSRFRLVGATCRD
LdaavrnGTFRSDLYFRL-QGAVLRLPPLRER------------------
--------------------------------------------------
--------------------------------------------------
---------ndlpelahallrrlseeeglatssisaaltrlaahp
>gi|8927418|gb|AAF82071.1|AF232750_3_1:167   (AF232750) Rv0958-like protein [Mycobacterium avium subsp. paratuberculosis]
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-------------MLNVMEERDI--QVRGYTLRLPLDVLVVASANPEDyt
nrGRIITPLKDRFGAEIRTHYPLELSAEVGVIAQKAHL------------
------------------SAHVPDYLMQIIARFARYLresnsvdqrSGVS
ARFAIAAAETVAAAARHRGAVLGETDPVARVVDLGTVIDVLRGKLEFESG
EEGREQAVLEHL-lrratadtasrvlggidvgslvaaveggsavttgerv
sakdvlaaipslp
>gi|283071|pir||S26642_2:76   replication licensing factor MCM3 - fission yeast (Schizosaccharomyces pombe) (fragment)
gi|4989|emb|CAA78752.1| (Z15034) S.cerevisiae MCM3 homologue [Schizosaccharomyces pombe]
s-------------------------------------------------
------TAKSQLLRFVLNTAPLAIATTGRGSSGVGLTAAVTTDKE-----
------------------------------TGERRLEAGAMVLADRGVVC
IDEFDKMSDIDRVAIH----------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-
>gi|147775|gb|AAA24610.1|_1:156   (M37337) ORF I [Escherichia coli]
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-------------------------------------------MNPSPtG
hyqgnhnrctpeqtlrylnRLSGPFLDRFDLSLEIPLPPPGILSKTVVP-
----GESSATVKQRVMAARERQFKRQNKLNAWLDSPEIRQFCKLESEDAM
WLEgtlihLGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYRAID
RLLI---------------------hlqkllt
>gi|3913145|sp|O34845|BCHD_RHOSH_46:270   MAGNESIUM-CHELATASE 60 KDA SUBUNIT (MG-PROTOPORPHYRIN IX CHELATASE) (MG-CHELATASE SUBUNIT D)
gi|2407304|gb|AAB97157.1| (AF017642) magnesium chelatase subunit BchD [Rhodobacter sphaeroides]
gi|4490586|emb|CAB38736.1| (AJ010302) mg protoporphyrin IX chelatase subunit [Rhodobacter sphaeroides]
gi|6690718|gb|AAF24286.1| (AF195122) BchD [Rhodobacter sphaeroides]
mplgpwerveaaltllaidpaglkglwlrarasalrdritgalga-----
--------------------------------------------------
----------------------------------------------LPLP
VRRIHPTIGDDALFGGLDLAATLSAGTPVVQKG----------ILDEPAV
LVLAMAERTLPGLA------ARLGTALDAPRHCLIAL----DEGAerdel
LPLGLVDRLALFLDLDGLPWGETREIALD---------------------
--PERLAAARARLAAVATPPEAAATLARVAAQLGIASLRAPTLALAAARA
QAAWEGHAAVTDEDIRRAADLVFAHRAMPASEEAPpepepeppedqpddS
PPPPEQQQGEEMFPeemlveavraalpadlleqlaagraarmargatgtg
sakagnrrgrplps
>gi|8745038|emb|CAB95257.1|_26:254   (AL359776) probable katanin subunit [Leishmania major]
msrrilkplppfptselselaatil-----------REILDVDPSVRWRD
IADLENAKHLLREAVVMPvkypglfqgilrPWKGILLFGPPGTGKTLLAK
AVA-------------------------------------TECRTTFFNI
AASSVVS-----KWRGDSEKLVRmlfdlavhyaPS--------TIFIDEI
DSLmsarssdgehegSRRMKTELLTQMD---------GLSKRRGGEVVFV
LAASNVPWDLDTAMLRRLEKRILVSLPTRDARVLM---------------
-----------------FRRLLPNSFASDADYEACAALT---EGMSGADI
DVVCREAMM-----------------------------------------
---------rpvrklisqleaagndrnaharlpseplrppaatledvqas
vactrssvr
>gi|2143711|pir||I70174_19:175   dynein-like protein 4 - rat (fragment)
gi|871905|dbj|BAA05503.1| (D26495) dynein-like protein 4 [Rattus norvegicus]
kcyltltqamkmglggnp--------------------------------
------------------YGPAGTGKTESVKALGGLLGRQVLVFNCDEGI
DVKSMGRIFVGLvKCGA---------------------------------
---------------WGCFDEFNRLeeavlsavSMQIQ-TIQDALKNHRS
VCELLGKEVEINANSGIFITMNPAGkGyggrqKLPDNLKQLF-RPVAMSR
PDNDLIAEVILY-----SEGFKDAKELGRK--------------------
--------------------------------------------------
---------------------------------lvaifnlsrelltpqq
>gi|2154909|emb|CAB06063.1|_27:183   (Z83809) cytoplasmic dynein heavy chain [Mus musculus]
lvitpltdkcyltltqamkmglggng------------------------
--------------------------YGPAGTGKTESVKALGGLLGRQVL
VFNCDEGIDVKSMGRIFVGLvKCGA-------------------------
-----------------------WGCFDEFNRLeeavlsavSMQIQ-TIQ
DALKNHRTVCDLLGKEVEINANSGIFITMNPAGkGyggrqKLPDNLKQLF
-RPVAMSRPDNDLIAEVILY-----SEGFKDAKELGRK------------
--------------------------------------------------
-----------------------------------------lvaifnlsr
elltpqqhydygisa
>gi|687714|gb|AAB50020.1|_18:161   (U20552) dynein heavy chain, isotype 1B [Homo sapiens]
cyltltqamkmglggnp---------------------------------
-----------------YGPAGTGKTESVKALGGLLGRQVLVFNCDEGID
VKSMGRIFVGLvKCGA----------------------------------
--------------WGCFDEFNRLeesvlsavSMQIQ-TIQDALKNHRTV
CELLGKEVEVNSNSGIFITMNPAGkGyggrqKLPDNLKQLF-RPVAMSHP
DNELIAEVILY---------------------------------------
--------------------------------------------------
--------------------------------
>gi|1360895|pir||S58488_48:145   DNA polymerase III chain tau - Caulobacter crescentus (fragment)
gi|732515|gb|AAA82985.1| (U22036) DNA polymerase III tau subunit [Caulobacter crescentus]
madhddlspdsappwdeapaerdentadifgdapapaaearpvvetp--P
EGEKGDAYTVLARKYRPRTFEDLIGQEAMVRTLANAFSTGRIAHaFMLTG
VRGVGKTTTARLLARALNYETDTVKGPSVDLTTEGYHCRSII--------
---------------------------EGRHM------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
------------------------------------------------dv
lel
>gi|7529573|emb|CAB86661.1|_796:1033   (AL096678) dJ122O8.3 (novel protein) [Homo sapiens]
snsnpymgtrlfritpydvqlgysvlsrgscvphpsrhpllllhqsfqpl
-----------------------------ESIMKCVQMSWM------VIL
VGPASVGKTSLVQLLAHLTGHtlkimamnsamdttellggfeqvdlirpw
rrllekvegtvrallrdsllisaddaevvlrawshflltykpkclgeggk
aitmeivnkleavlllmqrlnnkinsyckaefAKLVEEFRSFGVKLTQLA
SGHSH------------------------------------GTFEWVDSM
LVQAlkSGDWLLMDNVNFCNPSVLDRLNALLEpGGVLTISERGMidgstp
TITPNPNFS-----------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------sgegdastpdnldlkvllhslglvgnsvcd
illalhtetrstvv
>gi|9757212|emb|CAC02784.1|_30:140   (AL390114) probable 26s protease regulatory subunit 6b homolog [Leishmania major]
txasactkaatxacsccxvkxdatitlln--------------SSDRPDV
TYSDVGGLDMQKQEIREAVELPlthaglyeqigidPPRGVLLYGPPGTGK
TMLVKAVARHTKASFIR------VVGSEFVQXFLGEGPRKVRDVFRLARE
NAPS----------------------------------IIFIDE------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
------------------------------------------
>gi|9366773|emb|CAB95535.1|_443:715   (AL359782) possible cell division cycle protein 48 homolog. [Trypanosoma brucei]
vleraaealsgrtaaelqamkvdevlqllereaalhrkhepfaknsvtdv
-------------------PDEYRGLVGLSDIIREVEELVVWPlqqrkll
srcgvqPQKGLVVYGPPGSGKTALLTRLARRLKSarvhvllvdglsliek
evgrtekniaslfaaaraTSPT----------------------------
-------------------------------------------ALFLDNI
DSLapprgretgevsttADRSLSTLLTEMDgiGG-------GHTGSDVPL
VFVVAAASNPE-ALDAAISRpgRLDLHITLPLPTIEALQQHIVRRLVE--
-----------------------------AVEACDEAEAITADFIANVda
yvmrwlgrsPSATVADANDFVRHI------LLRVVVEPEGVPGAKDRLLE
CFTKVLPL------------------
>gi|7514505|pir||H70329_36:167   conserved hypothetical protein aq_336 - Aquifex aeolicus
gi|2983022|gb|AAC06633.1| (AE000684) hypothetical protein [Aquifex aeolicus]
mslveqlvkelskglntrdypegffkehlafrlki---------NKLEPV
KHPHIPDINSLLGVEKQKEVLLRntaQFVKGLPANdVLLWGARGTGKSSL
VKALLGVFGKEGLR-------------------------IVQVTKHEIPE
LADLYEVLR---DKEEKF-----------------ILFFDDLTFEPHEDA
FRLLKSIMEGDV--EER------PQNVLF---------------------
--------------------------------------------------
--------------------------------------------------
---------------------------------------tqlqtgdtslr
iwkkrinfrrkhstksfl
>gi|9909913|emb|CAC04492.1|_1:91   (AL391588) possible ion chelatase subunit (fragment) [Streptomyces coelicolor]
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
----RLTAARRRVRDVDVPDHVLELCARAAERTEAVGQRGEIVAVLAARA
LAALEDADRVTPGHLRRVLPMALRHRRPEAVHGDTFDWEPDDEAR-----
lqdlfev
>gi|3290203|gb|AAC73064.1|_33:485   (AF072896) unknown [Fremyella diplosiphon]
mdlnrnrsddinlltqfkeyavlhpqlarvdm------------------
----------------LLMRAIREPaGFAHVLVYGPSGVGKTTMIRQIAR
RLNApqtedyvsndssyrngyvpqlplllietrppdsgvfnrtdyyrtal
kllnepfyerrsivdidtseawekkgrgrtsktsqfndspelrhaleeai
tkrgvravildeaqhlmkigtgsnagklldqldwiksmtnvtgvlhilig
tyellnfrnlsgqasrrgldihfprylyqneqdrldfqaallallkqvpl
dtnipelmqhwlyfyehsigclgvlkdwlirtvaaalddgnkaltlkqlh
ehtltlaqcermaieategeeklsymesrrehlwhllqigmgstdvptsa
vppetplvgseitssktesppkttstrkkpnvpapqefttttaneipvep
alkkkqtrkkttstqtleitetplsnpstdlqaitqdtqqqtdkspqkks
gtrvgqrkpKRDTVGHESP-------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------stt
>gi|1549371|gb|AAC52802.1|_24:80   (U61748) dynein heavy chain [Rattus norvegicus]
tpltdrcyltltqamkmglggnp---------------------------
-----------------------YGPAGTGKTESVKALGGLLGRQVLVFN
RDEGIDVKSMGRIFVGLvKCGA----------------------------
--------------------WGCFDEFN----------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
------------------------
>gi|6007538|gb|AAF00949.1|AF182718_10_164:243   (AF182718) VirB11 homolog [Bartonella henselae]
rkpssrsfsledlankglfsvceqvsftplnnylshlselkhidhdlvra
--------------------------YAKKDFVFFLNQAVQ--CQKNILI
AGKTGSGKTTLSKALIAKIPDDERiitIEDTPELVVPQPNYVSMIYSKDG
QGLASVGP------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
---kellesalrmrpdrillqelrdgtafyyirnvnsghpgsittvhast
ala
>gi|436175|gb|AAA28492.1|_18:83   (L25122) dynein heavy chain [Drosophila melanogaster]
cyltmtqalesrlggsp---------------------------------
-----------------FGPAGTGKTESVKALGNQLGRFVLVFNCDETFD
FQAMGRIFVGL-----------------------------------CQVG
A------------WGCFDEFNRLEERMLSA--------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-----------------csqqiqtiqealkyemdsnkesitvelvgkqvr
vspdma
>gi|7445806|pir||JC6191_33:69   ATP-binding cassette-transport protein - Mycobacterium smegmatis
gi|1477569|gb|AAB41653.1| (U50335) ORF3 [Mycobacterium smegmatis]
mstgavnlqqlklgfngvvaaditltidpgev------------------
-----------------------------VVFLGPSGCGKSTILRALAGL
LKPMGGT--ATVDGAPVT--------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------gnaaqcamvfqedallpw
rtalknvqfplklrgmrgkelkatatarleqv
>gi|9366773|emb|CAB95535.1|_203:240   (AL359782) possible cell division cycle protein 48 homolog. [Trypanosoma brucei]
datcgehhgghrnhdngfanrpgnyhslfgdrylgvalrhithrlkcspr
------------------------------------------PAVCSVLF
SGEHGVGKTYAVRRLLELVPPVVDICGCPH--------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
lverremsiaallllseqeavatvqavftpplveahhdsgnrvngaepcg
>gi|1549359|gb|AAC52796.1|_24:80   (U61742) dynein heavy chain [Rattus norvegicus]
tpltdrcyltmtqalearlggsp---------------------------
-----------------------FGPAGTGKTESVKALGHQLGRFVLVFN
CDETFDFQAMGRIFVGL---------------------------------
--CQVGA------------WGCFDEFN-----------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-----------------------
>gi|8218171|emb|CAB92602.1|_175:239   (AL356813) putative secretory protein [Streptomyces coelicolor A3(2)]
shdqlmqtierivstvnrrvdesnpmvdarlpsgervnviipplsltgat
-----------LTIRRFPRSFTLQELIGLGSLDENMLYLLAGLvqARFNI
IVSGATGTGKTTLLNALSGLIPESDR------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--iitiedsaelqlqqahvirlesrppnvegqgritirdlvrnslrmrpd
ri
>gi|7298415|gb|AAF53638.1|_1617:1818   (AE003657) CG15148 gene product [Drosophila melanogaster]
rqvcvrmvyaefeyayeflgqasklvhtrlthrcyliltqamhmglggnp
--------------------------------------------------
FGPAGTGKTECVKALGAMLGRLVLVFNCDENVDTESMSLILTGLaRCGA-
-----------------------------------------------WGC
FDEFNRLQEATLSSISMLIQpIQSALKERANSVqigerqqIQLNQHCGIF
VTLNPAGaeyGgrqKLPGNIQALF-RPIVMQQPEPGEIARVMLF------
-----------------------------VEGFTEASA--IASRIVELfe
lsgkmlsaqrhYDWGLRELKTVLMV----CGEGLRDQLTSED--------
----------------------------nnqssanfemsvvvrclrsstm
sklaphdvnrfemllrnvfpeigsspap
>gi|7473070|pir||D75631_16:57   iron ABC transporter, ATP-binding protein - Deinococcus radiodurans (strain R1)
gi|6460849|gb|AAF12553.1|AE001826_22 (AE001826) iron ABC transporter, ATP-binding protein [Deinococcus radiodurans]
mnpdaplstdhlrlg--------------------------YGQSVIVSD
MNLSIAGGKVTSi---IGPNGCGKSTLLRALARLLP--------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
----------------aqnghielygqalhtlpsraiaqklailpqgpsa
peglsveelvwfgrhp
>gi|7467506|pir||S70808_11:31   Ivi protein VI - Vibrio cholerae (fragment)
gi|1165188|gb|AAC43557.1| (U25729) IviVI [Vibrio cholerae]
islsiekgef----------------------------------------
-------VCFLGPSGCGKTTLLRAIAGL----------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
----------dlptsgti
>gi|1549349|gb|AAC50701.1|_24:51   (U61737) dynein heavy chain [Homo sapiens]
tpltdrcyltmtqalearlggsp---------------------------
-----------------------FGPAGTGKTESVKALGHQLGRFVLVFN
C-------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-----------------------detfdfqamgrifvglcqvgawgcfd
>gi|7445818|pir||S75010_36:57   ABC-type transport protein sll1001 - Synechocystis sp. (strain PCC 6803)
gi|1652125|dbj|BAA17050.1| (D90902) ABC transporter [Synechocystis sp.]
mtepliqlrgisksfgdrqildsvdldlypgealv---------------
----------------------------------VIGPSGTGKSTILRII
AGLLPP--------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-----------------------------------dsgevliktqprrgl
veddneririalvfqqsalfdsltvaenvgfflle
>gi|7445998|pir||B72369_32:119   ABC transporter, ATP-binding protein - Thermotoga maritima (strain MSB8)
gi|4980994|gb|AAD35568.1|AE001726_2 (AE001726) ABC transporter, ATP-binding protein [Thermotoga maritima]
mikvsqltvrygelkavedlslevqrgeils-------------------
------------------------------LVGPSGCGKTTVVKAILGLI
PYEGKIEIFTSRLGYCPQKDVLFDWMTVyenavlplvlRKEQPPSNIKEL
--------------FERFGLSGFEEKRPYQLS------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-----------------------------------------ggmrqklsl
lravlsgeellvldepfssvdaytrkklqiwlseivhrmks

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The following are search results using the SAM-T99 method
for a sequence query against a database. If there
are no hits associated with this output, then your
score cutoff was too conservative.

Citation:  
  K. Karplus, C. Barrett, and R. Hughey,
  Hidden Markov Models for Detecting Remote Protein Homologies,
  Bioinformatics, 1998, vol. 14, no. 10, pp. 846-856. 
  http://www.cse.ucsc.edu/resesarch/compbio/HMM-apps
--------------------------------------------------------

For questions or problems, please see the SAM-T99 FAQ at

http://www.cse.ucsc.edu/research/compbio/HMM-apps/sam-t99-faq.html

or email us at sam-info@cse.ucsc.edu

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Content-type: text/plain; charset=us-ascii
Content-Disposition: attachment; filename="t99-results-967614563.t99dbhits.txt"

The E-value is an estimate of approximately  how many
sequences would score this well by chance in the database
searched.  For SAM-T99, E-values less than about 0.01 are
roughly equivalent, as sequences that score that well have
most likely already been included in the SAM-T99 multiple
alignment.

Database: PDB (updated Fri Aug 25 07:54:20 2000)
Score method: average

Summary of Database Hits:
                  Average               Target               Template     
SeqID       Reverse     EValue    Reverse     EValue    Reverse     EValue  SeqLabel
1do2A         -71.8  5.497e-28      -71.8    1.2e-27  ---------  ---------  :  Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From Escherichia Coli
gi|7245636|pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From Escherichia Coli

1do0A        -44.68  3.298e-16  ---------  ---------     -44.68    6.5e-16  

1d2nA        -22.44  1.503e-06      -18.2    0.00013     -26.68    4.3e-08  :  Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein

2shkA         -21.1  5.739e-06  ---------  ---------      -21.1    6.3e-06  

1gky         -20.76  8.063e-06     -20.76    1.7e-05  ---------  ---------  :  Guanylate Kinase (E.C.2.7.4.8) Complex With Guanosine Monophosphate

1a5t         -19.36   3.27e-05     -22.81    2.3e-06     -15.91     0.0026  :  Crystal Structure Of The Delta Prime Subunit Of The Clamp-Loader Complex Of Escherichia Coli Dna Polymerase Iii

1nsf         -18.18  0.0001064     -18.18    0.00013  ---------  ---------  :  D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive Factor (Nsf)

5tmp         -17.46  0.0002186  ---------  ---------     -17.46    0.00035  

1d9xA        -17.25  0.0002697     -17.25    0.00035  ---------  ---------  :  Chain A, Crystal Structure Of The Dna Repair Protein Uvrb

1d9zA        -17.17  0.0002922     -17.17    0.00035  ---------  ---------  :  Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In Complex With Atp

1shkB         -16.6  0.0005166      -16.6    0.00094  ---------  ---------  :  Chain B, The Three-Dimensional Structure Of Shikimate Kinase From Erwinia Chrysanthemi

2shkB        -16.37  0.0006502     -16.37    0.00094  ---------  ---------  :  Chain B, The Three-Dimensional Structure Of Shikimate Kinase From Erwinia Chrysanthemi Complexed With Adp

1shkA        -15.91   0.001025     -16.46    0.00094     -15.37     0.0026  :  Chain A, The Three-Dimensional Structure Of Shikimate Kinase From Erwinia Chrysanthemi
gi|4139970|pdb|2SHK|A Chain A, The Three-Dimensional Structure Of Shikimate Kinase From Erwinia Chrysanthemi Complexed With Adp

1fts         -14.46   0.004391     -14.46      0.007  ---------  ---------  :  Signal Recognition Particle Receptor From E. Coli

1qhnA        -14.19   0.005752     -14.19      0.007  ---------  ---------  :  Chain A, Chloramphenicol Phosphotransferase From Streptomyces Venezuelae

1a1vA        -13.49    0.01158     -13.49      0.019  ---------  ---------  :  Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With Single Stranded Dna

1qhxA        -13.38    0.01293     -13.38      0.019  ---------  ---------  :  Chain A, Chloramphenicol Phosphotransferase In Complex With Atp From Streptomyces Venezuelae
gi|8569278|pdb|1QHY|A Chain A, Chloramphenicol Phosphotransferase From Streptomyces Venezuelae In Complex With Atpgammas And Chloramphenicol

8ohm         -13.31     0.0138     -14.44      0.007     -12.19      0.051  :  Crystal Structure Of Rna Helicase From Genotype 1b Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna

1skyE        -13.31    0.01387     -13.31      0.019  ---------  ---------  :  Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3 Sub-Complex Of F1-Atpase From The Thermophilic Bacillus Ps3

5tmpA        -12.97    0.01948  ---------  ---------     -12.97      0.051  


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>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1do2A   Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From Escherichia Coli
gi|7245636|pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From Escherichia Coli
----------SEMTPREIVSELDKHIIGQDNAKRSVAIALRNRwrrmqln
eelrhevTPKNILMIGPTGVGKTEIARRLAKLANApfikveatkftevgy
vgkevdsiirdltdaavkmvrvqaieknryraeelaeerildvlippakn
nwgqteqqqepsaarqafrkklregqlddkeieidlaaapmgVEIMAPPG
MEEMTSQLQSMFQNLGGQKQKARKLKIKDAMKLLIEEEAAKLVNPEELKQ
DAIDAVE-------QHGIVFIDEIDKIckrgessgpdvsREGVQRDLLPL
VEGCTVS-TKHGMVKTDHILFIASGAFQIAKpSDLIPELQGRLPIRVELQ
ALTTSDFERILTE-----------------PNASITVQYKALMATEGVNI
EFTDSGIKRIAEAAWQVnestENIGARRLHTVLER---------------
--------------------------------------lmeeisydasdl
sgqnitidadyvskhldalvadedlsrfil


>T0127
mttavarlqpsa--------------SGAKTRPVFPFSAIVGQEDMKLAL
LLTAVDPG--IGGVLVFGDRGTGKSTAVRALAALLP-eieavegcpvssp
nvemipDWATVLSTNVIr------KPTPVVDLPLGVSEDRVVGALDIERA
ISKGEKAFEP----------------------------------------
-------------------------------------GLLARANRGYLYI
DECNLL------------EDHIVDLLLDVAQSGeNVVERDGLSIRHPARF
VLVGSGn--PEEGDLRPQLLDRFGLSVEVLSPrdvetrvevirrrdtyda
dpkafleewrpkdmdirnQILEARERLPKVEAPNTALYDCAALCIALGSD
GLRGELTLLrSARALAALEGATAVGrdhLKRVATMALS------------
----HRLRRDPLDEAGSTARVARTVEETLP
>1do0A
SEMTPREIVSELDKHIIGQDNAKRSVAIALRNRWRRMQLNEELRHEVTPK
NILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIR
DLTDAAVKMVRVQAIEKNRYRAEELAEERILDVLIPPAKNNWGQTEQQQE
PSAARQAFRKKLREGQLDDKEIEIDlaaapmgveimappgmeemtsqlqs
mfqnlggqkqkARKLKIKDAMKLLIEEEAAKLVNPEELKQDAIDAVEQHG
IVFIDEIDKICKRGESSGPDVSREGVQRDLLPLVEGCTVSTKHGMVKTDH
ILFIASGAFQIAKPSDLIPELQGRLPIRVELQALTTSDFERILTEPNASI
TVQYKALMATEGVNIEFTDSGIKRIAEAAWQVNESTENIGARRLHTVLER
LMEEISYDASDLSGQNITIDADYVSKHLDALVADEDLSRFIL


>T0127
mttavarlqpsasgaktrpvfpfsaivgqedmklall-------------
----LTAVD---PGIG------------GVLVFGDRGTGKSTAVRALAAL
LPeieavegcpvsspnvemi-PDWATVLSTNVIRKPTPVVDL--------
-PLGvsEDRVVGALDIER-AISKGEKAFEPGLLARAnrgylyidecnlle
dhivdllldvaqsgenvverdgls-----IRHP-----ARFVLVGSGnpe
egd-LRPQ---LLDRFGLSVEVLSPRDVETRVEVIRRRDTY-DADPKAFL
EEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRgel
tllrsaralaalegatavgrdhlkrvatmalshrlrrdpldeagstarva
rtveetlp
>1d2nA   Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
mrgshhhhhhgstmdikpafgtnqEDYASYIMNGIIKWGDPVTRVLDDGE
LLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDK
MIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLV
LQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIAT
GEQLLEALELLGNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDP
EYRVRKFLALLREEGASPLDfk


>T0127
mttavarlqpsasgaktrpvfpfsaivgqedmklallltavdpgigg---
-VLVFGDRGTGKSTAVRALAALLPE--------IEAVEGCPVSSPNVEMI
PDWATVLSTNVIRKPtpvvdlplgvsedrvvgaldieraiskgekafepg
llaRANRGYLYIDECNLLEDHIVDLLLDVAQsgenvverdglsirhparf
VLVGSGNPEEgdlrpqLLDRFGLSvevlsprdvetrvevirrrdtydadp
kafleewrpkdmDIRNQILEARERLPK-----------------------
------veapntalydcaalcialgsdglrgeltllrsaralaalegata
vgrdhlkrvatmalshrlrrdpldeagstarvartveetlp
>2shkA
MTEPIFMVGARGCGKTTVGRELARALGYEFVDTDIFMQHTSGMTVADVVA
AEGWPGFRRRESEALQAVATPNRVVATGGGMVLLEQNRQFMRAHGTVVYL
FAPAEELALRLQASpqahqrptltgrpiaEEMEAVLREREALYQDVAHYV
VDATQPPAAIVCELMQTMR----lpaa


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1gky   Guanylate Kinase (E.C.2.7.4.8) Complex With Guanosine Monophosphate
xsr----------------------------------------------P
IVISGPSGTGKSTLLKKLFAEYPDsfgfsvssttrtpragevngkdynfv
svdefksmiknnefiewaqfsgnyygstvasvkqvsksgktcildidmqg
vksvkaipelnarflfiappsvedlkkrlegrgteTEESINKRLSAAQAE
LAYAETGA------------------------------------------
-------HDKVIVNDDLDKAYKELKDFIF---------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------aek


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1a5t   Crystal Structure Of The Delta Prime Subunit Of The Clamp-Loader Complex Of Escherichia Coli Dna Polymerase Iii
mrwypwlrpdfe---------------------------------KLVAS
YQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQL
MQAGTHPDYytlapekgkntlgvdavREVTEKLNEHARLGGAK-------
-------------------------VVWVTDAALLTDAAANALLKTLEEP
-------------PAETWFFLATREPE-RLLATLRSRC-RLHYLAPPPEQ
YAVTWLSR-----------------------------------EVTMSQD
ALLAALRLS----AGSPGAALALFQ-------------------------
-----------------------------gdnwqaretlcqalaysvpsg
dwysllaalnheqaparlhwlatllmdalkrhhgaaqvtnvdvpglvael
anhlspsrlqailgdvchireqlmsvtginrellitdlllriehylqpgv
vlpvphl


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1nsf   D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive Factor (Nsf)
gahmgdflasleqdikpafgt---------------------------NQ
EDYASYIMNGIIKWgdpvtrvlddgellvqqtknsdrtPLVSVLLEGPPH
SGKTALAAKIAEESNFPFIKICSPDKMIG---------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
---------------------------------------------fseta
kcqamkkifddayksqlscvvvddierlldyvpigprfsnlvlqallvll
kkappqgrklliigttsrkdvlqememlnafsttihvpniatgeqlleal
ellgnfkdkerttiaqqvkgkkvwigikkllmliemslqmdpeyrvrkfl
allreegaspldfdle


>T0127
mttavarlqpsasgaktrpvfpfsaivgqedmklallltavdpgigg---
-VLVFGDRGTGKSTAVRALAALLPEIEA----VEGCPVSSPNVEMIPDWA
T-VLSTNVIRKPTpvvdlplgvsedrvvgaldieraiskgekafepglla
ranrgylyidecnlle------------DHIVDLLLDVAQSGeNVVERDG
LSIRHPARFVL-VGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVI
RRRDTYDAdpkafleeWRPKDMDIRNQILE--------------------
-------------------arerlpkveapntalydcaalcialgsdglr
geltllrsaralaalegatavgrdhlkrvatmalshrlrrdpldeagsta
rvartveetlp
>5tmp
mRSKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFTREPGGTQLAEKL
RSLVLDIKSVGDEVITDKAEVLMFYAARVQLVETVIKPALANGTWVIGDR
HDLSTQAYQGGGRGIDQHMLATLRDAVLGDFRPDLTLYLDVTPEVGLKRA
RARGELDRIEQESFDFFNRTRARYLELAAQDKSIHTIDATQPLEAVMDAI
RTTVTHWVKE-lda


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1d9xA   Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
vegrfqlvapyepqgdqpqaiaklvdglrrgvkhqt--------------
-----------------------------------LLGATGTGKTFTISN
VIAQVNKptlviahnktlagqlyselkeffphnaveyfvsyydyyqpeay
vpqtdtyiekdakindeidklrhsatsalferrdviivasvsciyglgsp
eeyrelvvslrvgmeiernallrrlvdiqydrndidfrgtfrvrgdvvei
fpasrdehcirveffgdeieriraevdaltgkvlgerehvaifpashfvt
reekmrlaiqnieqeleerlaelraqgklleaqrleqrtrydlemmremg
fcsgienysrhlalrppgstpytlldyfpddfliivdeshvtlpqlrgmy
ngdrarkqvlvdhgfrlpsaldnrpltfeefeqkinqiiyvsatpgpyel
ehspgvveqiirptglldptidvrptkgqiddligeirervernertlvt
tltkkmaedltdylkeagikvaylhseiktlerieiirdlrlgkydvlvg
inllregldipevslvaildadkegflrsersliqtigraarnanghvim
yadtitksmeiaiqetkrrraIQEEYNRKHGIVPRTV-------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
kkeirdviratyaaeetemyeakpaaamtkqereelirtleaemkeaaka
ldferaaqlrdiifelkaeg


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1d9zA   Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In Complex With Atp
vegrfqlvapyepqgdqpqaiaklvdglrrgvkhqt--------------
-----------------------------------LLGATGTGKTFTISN
VIAQVNKptlviahnktlagqlyselkeffphnaveyfvsyydyyqpeay
vpqtdtyiekdakindeidklrhsatsalferrdviivasvsciyglgsp
eeyrelvvslrvgmeiernallrrlvdiqydrndidfrgtfrvrgdvvei
fpasrdehcirveffgdeierirevdaltgkvlgerehvaifpashfvtr
eekmrlaiqnieqeleerlaelraqgklleaqrleqrtrydlemmremgf
csgienysrhlalrppgstpytlldyfpddfliivdeshvtlpqlrgmyn
gdrarkqvlvdhgfrlpsaldnrpltfeefeqkinqiiyvsatpgpyele
hspgvveqiirptglldptidvrptkgqiddligeirervernertlvtt
ltkkmaedltdylkeagikvaylhseiktlerieiirdlrlgkydvlvgi
nllregldipevslvaildadkegflrsersliqtigraarnanghvimy
adtitksmeiaiqetkrrraIQEEYNRKHGIVPRTV--------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-------------------------------------------------k
keirdviratyaaeetemyeakpaaamtkqereelirtleaemkeaakal
dferaaqlrdiifelkaeg


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1shkB   Chain B, The Three-Dimensional Structure Of Shikimate Kinase From Erwinia Chrysanthemi
mte----------------------------------------------P
IFMVGARGCGKTTVGRELARALGYEFV-----------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
---dtdifmqhtsgmtvadvvaaegwpgfrrresealqavatpnrvvatg
ggmvlleqnrqfmrahgtvvylfapaeelalrlaaspqahqrptltgapi
aeemeavlrerealyqdvahyvvdatqppaaivcelmqtmrlpaa


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>2shkB   Chain B, The Three-Dimensional Structure Of Shikimate Kinase From Erwinia Chrysanthemi Complexed With Adp
mte----------------------------------------------P
IFMVGARGCGKTTVGRELARALGYEFV-----------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
---dtdifmqhtsgmtvadvvaaegwpgfrrresealqavatpnrvvatg
ggmvlleqnrqfmrahgtvvylfapaeelalrlaaspqahqrptltgrpi
aeemeavlrerealyqdvahyvvdatqppaaivcelmqtmrlpaa


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1shkA   Chain A, The Three-Dimensional Structure Of Shikimate Kinase From Erwinia Chrysanthemi
gi|4139970|pdb|2SHK|A Chain A, The Three-Dimensional Structure Of Shikimate Kinase From Erwinia Chrysanthemi Complexed With Adp
mte----------------------------------------------P
IFMVGARGCGKTTVGRELARALGYEFV-----------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
---dtdifmqhtsgmtvadvvaaegwpgfrrresealqavatpnrvvatg
ggmvlleqnrqfmrahgtvvylfapaeelalrlqaspqahqrptltgrpi
aeemeavlrerealyqdvahyvvdatqppaaivcelmqtmrlpaa


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1fts   Signal Recognition Particle Receptor From E. Coli
rsllktkenlgsgf-ISLFRGKKIDDDLFEELEEQLLIADVGVETTRKII
TNLTEGAsrkqlrdaealygllkeemgeilakvdeplnveGKAPfvILMV
GVNGVGKTTTIGKLAR----------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-------------------------------------------------q
feqqgksvmlaagdtfraaaveqlqvwgqrnnipviaqhtgadsasvifd
aiqaakarnidvliadtagrlqnkshlmeelkkivrvmkkldveaphevm
ltidastgqnavsqaklfheavgltgitltkldgtakggvifsvadqfgi
piryigvgeriedlrpfkaddfiealfar


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1qhnA   Chain A, Chloramphenicol Phosphotransferase From Streptomyces Venezuelae
xttrx---------------------------------------------
--IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAXPLKXQSAEGG
iefDADGGVSIGPEFRALEGAWAEGVV-----------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------axaragariiiddvflggaaaqerwrsfvgdldvlwvgvrcd
gavaegretargdrvagxaakqayvvhegveydvevdtthkesiecawai
aahvvp


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1a1vA   Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With Single Stranded Dna
mvdfipvenlettmrspvftdnssppavpqsfqvahlha-----------
-----------------------------------------PTGSGKSTK
VPAAYAAQGYkvlvlnpsvaatlgfgaymskahgvdpnirtgvrtittgs
pitystygkfladggxsggaydiiicdechstdatsilgigtvldqaeta
garlvvlatatppgsvtvphpnieevalsttgeipfygkaiplevikggr
hlifchskkkcdelaaklvalginavayyrgldvsviptsgdvvvvatda
lmtgftgdfdsvidcntxvtqtvdfsldptftietttlpqdavsrtqrrg
rtgrgkpgiyrfvapgerpsgmfdssvlcecydagxawyeltpaettvrl
raymntpglpvcqdhlefwegvftglthidahflsqtkqsgenfpylvay
qatvcaraqapppswdqmwkclirlkptlhgptpllyrLGAVQNEVTLTH
PITKYIMTCMSADLEVVTGSGSHHHHHH----------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-----------------


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1qhxA   Chain A, Chloramphenicol Phosphotransferase In Complex With Atp From Streptomyces Venezuelae
gi|8569278|pdb|1QHY|A Chain A, Chloramphenicol Phosphotransferase From Streptomyces Venezuelae In Complex With Atpgammas And Chloramphenicol
mttrm---------------------------------------------
--IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGG
iefDADGGVSIGPEFRALEGAWAEGVVA---MARAGA-------------
----RIIIDDV---------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------flggaaaqerwrsfvgdldvlwvgvrcdgavaegretargdr
vagmaakqayvvhegveydvevdtthkesiecawaiaahvvp


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>8ohm   Crystal Structure Of Rna Helicase From Genotype 1b Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
ppavpqtfqvahlha-----------------------------------
-----------------PTGSGKSTKVPAAYAAQGYkvlvlnpsvaatlg
fgvymskahgidpnirtgvraittggpitystygkfladggcsggaydii
icdechstdstsilgigtvldqaetagarlvvlatatppgsvtvphpnie
evalsntgeipfygkaipievirggrhlifchskkkcdelaaklsalgln
avayyrgldvsviptsgdvvvvatdalmtgytgdfdsvidcntcvtqtvd
fsldptftidtttvpqdavsrsqrrgrtgrgrrgiyrfvtpgerpsgmfd
ssvlcecydagcawyeltpaetsvrlraylntpGLPVCQDHLEFWESVFT
GLTHID--------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
------------ahflsqtkqagdnfpylvayqatvcaraqapppswdqm
wksltrlkptlhgptpllyrlgalqnevtlthpvtkfimacms


>T0127
mtta----VARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDPGIG
GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS
TNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG
YLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNP
EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWR
PKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLR
SARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVE
ETLP
>1skyE   Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3 Sub-Complex Of F1-Atpase From The Thermophilic Bacillus Ps3
mtrgrviqvmgpvvdvkfenghlpaiynalkiqhkarnenevdidltlev
alhlgddtvrtiamastdglirgmevidtgapisvpvgqvtlgrvfnvlg
epidlegdipadarrdpihrpapkfeelateveiletgikvvdllapyik
ggkig---------------------------------------------
----LFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVGERTREGNDLYHE
mkdSGvisKTAMVFGQMNEPPGA-----------RMRVALTGLTMAEYFR
DEQGQDGLLFIDNIFRFTQ-------------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-----------agsevsallgrmpsaigyqptlatemgqlqeritstakg
sitsiqaiyvpaddytdpapattfshldattnlerklaemgiypavdplv
stsralapeivgeehyqvarkvqqtlerykelqdiiailgmdelsdedkl
vvhrarriqfflsqnfhvaeqftgqpgsyvpvketvrgfkeilegkydhl
pedrfrlvgrieevvekakamgvev


>T0127
mttavarlqpsasgaktrpvfpfsaivgqedmklallltavdpgigg---
-VLVFGDRGTGKSTAVRALAALLPEI------------------------
--------------------------------------------------
--------------------------------------------------
--------------------------------------------------
-------eavegcpvsspnvemipdwatvlstnvirkptpvvdlplgvse
drvvgaldieraiskgekafepgllaranrgylyidecnlledhivdlll
dvaqsgenvverdglsirhparfvlvgsgnpeegdlrpqlldrfglsvev
lsprdvetrvevirrrdtydadpkafleewrpkdmdirnqilearerlpk
veapntalydcaalcialgsdglrgeltllrsaralaalegatavgrdhl
krvatmalshrlrrdpldeagstarvartveetlp
>5tmpA
mRSKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFTREPGGTQLAEKL
RSLLLDIKSVGDEVITDKAEVLMFYAARVQLVETVIKPALANGTWVIGDR
HDLSTQAYQGGGRGIDQHMLATLRDAVLGDFRPDLTLYLDVTPEVGLKRA
RARGELDRIEQESFDFFNRTRARYLELAAQDKSIHTIDATQPLEAVMDAI
RTTVTHWVK--elda

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PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1do2_A
S 11 S 2
A 12 E 3
S 13 M 4
G 14 T 5
A 15 P 6
K 16 R 7
T 17 E 8
R 18 I 9
P 19 V 10
V 20 S 11
F 21 E 12
P 22 L 13
F 23 D 14
S 24 K 15
A 25 H 16
I 26 I 17
V 27 I 18
G 28 G 19
Q 29 Q 20
E 30 D 21
D 31 N 22
M 32 A 23
K 33 K 24
L 34 R 25
A 35 S 26
L 36 V 27
L 37 A 28
L 38 I 29
T 39 A 30
A 40 L 31
V 41 R 32
D 42 N 33
P 43 R 34
G 44 T 49
I 45 P 50
G 46 K 51
G 47 N 52
V 48 I 53
L 49 L 54
V 50 M 55
F 51 I 56
G 52 G 57
D 53 P 58
R 54 T 59
G 55 G 60
T 56 V 61
G 57 G 62
K 58 K 63
S 59 T 64
T 60 E 65
A 61 I 66
V 62 A 67
R 63 R 68
A 64 R 69
L 65 L 70
A 66 A 71
A 67 K 72
L 68 L 73
L 69 A 74
P 70 N 75
E 71 A 76
I 72 V _
E 73 E _
A 74 I _
V 75 M _
E 76 A _
G 77 P _
C 78 P _
P 79 G _
V 80 M _
S 81 E _
S 82 E _
P 83 M _
N 84 T _
V 85 S _
E 86 Q _
M 87 L _
I 88 Q _
P 89 S _
D 90 M _
W 91 F _
A 92 Q _
T 93 N _
V 94 L _
L 95 G _
S 96 G _
T 97 Q _
N 98 K 210
V 99 Q 211
I 100 K 212
R 101 A 213
K 102 R 214
P 103 K 215
T 104 L 216
P 105 K 217
V 106 I 218
V 107 K 219
D 108 D 220
L 109 A 221
P 110 M 222
L 111 K 223
G 112 L 224
V 113 L 225
S 114 I 226
E 115 E 227
D 116 E 228
R 117 E 229
V 118 A 230
V 119 A 231
G 120 K 232
A 121 L 233
L 122 V 234
D 123 N 235
I 124 P 236
E 125 E 237
R 126 E 238
A 127 L 239
I 128 K 240
S 129 Q 241
K 130 D 242
G 131 A 243
E 132 I 244
K 133 D 245
A 134 A 246
F 135 V 247
E 136 E 248
N 144 Q 249
R 145 H 250
G 146 G 251
Y 147 I 252
L 148 V 253
Y 149 F 254
I 150 I 255
D 151 D 256
E 152 E 257
C 153 I 258
N 154 D 259
L 155 K 260
L 156 I 261
E 157 R 274
D 158 E 275
H 159 G 276
I 160 V 277
V 161 Q 278
D 162 R 279
L 163 D 280
L 164 L 281
L 165 L 282
D 166 P 283
V 167 L 284
A 168 V 285
Q 169 E 286
S 170 G 287
G 171 C 288
E 172 T 289
N 173 V 290
V 174 S 291
E 176 T 292
R 177 K 293
D 178 H 294
G 179 G 295
L 180 M 296
S 181 V 297
I 182 K 298
R 183 T 299
H 184 D 300
P 185 H 301
A 186 I 302
R 187 L 303
F 188 F 304
V 189 I 305
L 190 A 306
V 191 S 307
G 192 G 308
S 193 A 309
G 194 F 310
N 195 Q 311
P 196 I 312
E 197 A 313
E 198 K 314
G 199 S 316
D 200 D 317
L 201 L 318
R 202 I 319
P 203 P 320
Q 204 E 321
L 205 L 322
L 206 Q 323
D 207 G 324
R 208 R 325
F 209 L 326
G 210 P 327
L 211 I 328
S 212 R 329
V 213 V 330
E 214 E 331
V 215 L 332
L 216 Q 333
S 217 A 334
P 218 L 335
R 219 T 336
D 220 T 337
V 221 S 338
E 222 D 339
T 223 F 340
R 224 E 341
V 225 R 342
E 226 I 343
V 227 L 344
I 228 T 345
R 229 E 346
P 247 P 347
K 248 N 348
D 249 A 349
M 250 S 350
D 251 I 351
I 252 T 352
R 253 V 353
N 254 Q 354
Q 255 Y 355
I 256 K 356
L 257 A 357
E 258 L 358
A 259 M 359
R 260 A 360
E 261 T 361
R 262 E 362
L 263 G 363
P 264 V 364
K 265 N 365
V 266 I 366
E 267 E 367
A 268 F 368
P 269 T 369
N 270 D 370
T 271 S 371
A 272 G 372
L 273 I 373
Y 274 K 374
D 275 R 375
C 276 I 376
A 277 A 377
A 278 E 378
L 279 A 379
C 280 A 380
I 281 W 381
A 282 Q 382
L 283 V 383
G 284 E 388
S 285 N 389
D 286 I 390
G 287 G 391
L 288 A 392
R 289 R 393
G 290 R 394
E 291 L 395
L 292 H 396
T 293 T 397
L 294 V 398
L 295 L 399
R 296 E 400
S 297 R 401
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1do0_A
S 13 H 16
G 14 I 17
A 15 I 18
K 16 G 19
T 17 Q 20
R 18 D 21
P 19 N 22
V 20 A 23
F 21 K 24
P 22 R 25
F 23 S 26
S 24 V 27
A 25 A 28
I 26 I 29
V 27 A 30
G 28 L 31
Q 29 R 32
E 30 N 33
D 31 R 34
M 32 W 35
K 33 R 36
L 34 R 37
A 35 M 38
L 36 Q 39
L 37 L 40
L 38 N 41
T 39 E 42
A 40 E 43
V 41 L 44
D 42 R 45
P 43 H 46
G 44 E 47
I 45 P 50
G 46 K 51
G 47 N 52
V 48 I 53
L 49 L 54
V 50 M 55
F 51 I 56
G 52 G 57
D 53 P 58
R 54 T 59
G 55 G 60
T 56 V 61
G 57 G 62
K 58 K 63
S 59 T 64
T 60 E 65
A 61 I 66
V 62 A 67
R 63 R 68
A 64 R 69
L 65 L 70
A 66 A 71
A 67 K 72
L 68 L 73
L 69 A 74
P 70 N 75
D 90 P 77
W 91 F 78
A 92 I 79
T 93 K 80
V 94 V 81
L 95 E 82
S 96 A 83
T 97 T 84
N 98 K 85
V 99 F 86
I 100 T 87
K 102 K 94
P 103 E 95
T 104 V 96
P 105 D 97
V 106 S 98
V 107 I 99
D 108 I 100
L 109 R 101
P 110 D 102
L 111 L 103
G 112 T 104
V 113 D 105
S 114 A 106
E 115 A 107
D 116 V 108
R 117 K 109
V 118 M 110
V 119 V 111
G 120 R 112
A 121 V 113
L 122 Q 114
D 123 A 115
I 124 I 116
E 125 E 117
R 126 K 118
A 127 N 119
I 128 R 120
S 129 Y 121
K 130 R 122
G 131 A 123
E 132 E 124
K 133 E 125
A 134 L 126
F 135 A 127
E 136 E 128
P 137 E 129
G 138 A 243
L 139 I 244
L 140 D 245
A 141 A 246
R 142 V 247
A 143 E 248
N 144 Q 249
R 145 H 250
G 146 G 251
Y 147 I 252
L 148 V 253
Y 149 F 254
I 150 I 255
D 151 D 256
E 152 E 257
C 153 I 258
N 154 D 259
L 155 K 260
L 156 I 261
E 157 R 274
D 158 E 275
H 159 G 276
I 160 V 277
V 161 Q 278
D 162 R 279
L 163 D 280
L 164 L 281
L 165 L 282
D 166 P 283
V 167 L 284
A 168 V 285
Q 169 E 286
S 170 G 287
G 171 C 288
N 173 T 289
V 174 V 290
V 175 S 291
E 176 T 292
R 177 K 293
D 178 H 294
G 179 G 295
L 180 M 296
S 181 V 297
I 182 K 298
R 183 T 299
H 184 D 300
P 185 H 301
A 186 I 302
R 187 L 303
F 188 F 304
V 189 I 305
L 190 A 306
V 191 S 307
G 192 G 308
S 193 A 309
G 194 F 310
P 196 A 313
E 197 K 314
E 198 P 315
G 199 S 316
D 200 D 317
L 201 L 318
R 202 I 319
P 203 P 320
Q 204 E 321
L 205 L 322
L 206 Q 323
D 207 G 324
R 208 R 325
F 209 L 326
G 210 P 327
L 211 I 328
S 212 R 329
V 213 V 330
E 214 E 331
V 215 L 332
L 216 Q 333
S 217 A 334
P 218 L 335
Q 255 T 336
I 256 T 337
L 257 S 338
E 258 D 339
A 259 F 340
R 260 E 341
E 261 R 342
R 262 I 343
L 263 L 344
P 264 T 345
K 265 E 346
V 266 P 347
E 267 N 348
A 268 A 349
P 269 S 350
N 270 I 351
T 271 T 352
A 272 V 353
L 273 Q 354
Y 274 Y 355
D 275 K 356
C 276 A 357
A 277 L 358
A 278 M 359
L 279 A 360
C 280 T 361
I 281 E 362
A 282 G 363
L 283 V 364
G 284 N 365
S 285 I 366
D 286 E 367
G 287 F 368
L 288 T 369
R 289 D 370
G 290 S 371
E 291 G 372
L 292 I 373
T 293 K 374
L 294 R 375
L 295 I 376
S 297 A 377
A 298 E 378
R 299 A 379
A 300 A 380
L 301 W 381
A 302 Q 382
A 303 V 383
L 304 N 384
E 305 E 385
G 306 S 386
A 307 T 387
T 308 E 388
A 309 N 389
V 310 I 390
G 311 G 391
L 315 A 392
K 316 R 393
R 317 R 394
V 318 L 395
A 319 H 396
T 320 T 397
M 321 V 398
A 322 L 399
L 323 E 400
S 324 R 401
H 325 I 418
R 326 T 419
L 327 I 420
R 328 D 421
R 329 A 422
D 330 D 423
P 331 Y 424
L 332 V 425
D 333 S 426
E 334 K 427
A 335 H 428
G 336 L 429
S 337 D 430
T 338 A 431
A 339 L 432
R 340 V 433
V 341 A 434
A 342 D 435
R 343 E 436
T 344 D 437
V 345 L 438
E 346 S 439
E 347 R 440
T 348 F 441
L 349 I 442
P 350 L 443
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1d2n_A
L 38 V 522
T 39 T 523
A 40 R 524
V 41 V 525
D 42 L 526
P 43 E 530
G 44 L 531
I 45 L 532
G 46 V 533
G 47 S 546
V 48 V 547
L 49 L 548
V 50 L 549
F 51 E 550
G 52 G 551
D 53 P 552
R 54 P 553
G 55 H 554
T 56 S 555
G 57 G 556
K 58 K 557
S 59 T 558
T 60 A 559
A 61 L 560
V 62 A 561
R 63 A 562
A 64 K 563
L 65 I 564
A 66 A 565
A 67 E 566
L 68 E 567
L 69 S 568
P 70 N 569
P 89 P 571
D 90 F 572
W 91 I 573
A 92 K 574
T 93 I 575
V 94 C 576
L 95 S 577
S 96 P 578
T 97 D 579
N 98 K 580
V 99 M 581
I 100 I 582
R 101 G 583
K 102 F 584
P 103 S 585
T 104 E 586
P 105 T 587
V 106 A 588
V 107 K 589
D 108 C 590
L 109 Q 591
P 110 Y 601
L 111 K 602
G 112 S 603
E 115 Q 604
D 116 L 605
R 117 S 606
V 118 C 607
V 119 V 608
G 120 V 609
A 121 V 610
L 122 D 611
D 123 D 612
I 124 I 613
E 125 E 614
R 126 R 615
A 127 L 617
I 128 D 618
S 129 Y 619
K 130 V 620
G 131 P 621
E 132 I 622
K 133 G 623
A 134 P 624
F 135 R 625
E 136 F 626
P 137 S 627
G 138 N 628
L 139 L 629
L 140 V 630
A 141 L 631
R 142 Q 632
A 143 A 633
I 182 K 639
R 183 K 640
H 184 A 641
P 185 P 642
A 186 L 648
R 187 L 649
F 188 I 650
V 189 I 651
L 190 G 652
V 191 T 653
G 192 T 654
S 193 S 655
G 194 R 656
L 201 D 658
R 202 V 659
P 203 L 660
Q 204 Q 661
L 205 M 665
L 206 L 666
D 207 N 667
R 208 A 668
F 209 F 669
G 210 S 670
L 211 T 671
S 212 T 672
V 213 I 673
E 214 H 674
V 215 V 675
L 216 P 676
S 217 N 677
P 218 I 678
R 219 A 679
D 220 T 680
V 221 G 681
E 222 E 682
T 223 Q 683
R 224 L 684
V 225 L 685
E 226 E 686
V 227 A 687
I 228 L 688
R 229 E 689
R 230 L 690
R 231 L 691
D 232 G 692
T 233 N 693
Y 234 F 694
D 235 D 696
A 236 K 697
D 237 E 698
P 238 R 699
K 239 T 700
A 240 T 701
F 241 I 702
L 242 A 703
E 243 Q 704
E 244 Q 705
W 245 V 706
R 246 K 707
P 247 G 708
K 248 K 709
D 249 K 710
M 250 V 711
D 251 W 712
I 252 I 713
R 253 G 714
N 254 I 715
Q 255 K 716
I 256 K 717
L 257 L 718
E 258 L 719
A 259 M 720
R 260 L 721
E 261 I 722
R 262 E 723
L 263 M 724
P 264 S 725
K 265 L 726
V 266 Q 727
E 267 M 728
A 268 D 729
P 269 P 730
N 270 E 731
T 271 Y 732
A 272 R 733
L 273 V 734
Y 274 R 735
D 275 K 736
C 276 F 737
A 277 L 738
A 278 A 739
L 279 L 740
C 280 L 741
I 281 R 742
A 282 E 743
L 283 E 744
G 284 G 745
S 285 A 746
D 286 S 747
G 287 P 748
L 288 L 749
R 289 D 750
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 2shk_A
V 48 I 5
L 49 F 6
V 50 M 7
F 51 V 8
G 52 G 9
D 53 A 10
R 54 R 11
G 55 G 12
T 56 C 13
G 57 G 14
K 58 K 15
S 59 T 16
T 60 T 17
A 61 V 18
V 62 G 19
R 63 R 20
A 64 E 21
L 65 L 22
A 66 A 23
A 67 R 24
L 68 A 25
L 69 L 26
P 70 G 27
E 71 Y 28
I 72 M 37
E 73 Q 38
A 74 H 39
V 75 T 40
E 76 S 41
G 77 G 42
C 78 M 43
P 79 T 44
V 80 V 45
S 81 A 46
S 82 D 47
P 83 V 48
N 84 V 49
V 85 A 50
E 86 A 51
M 87 E 52
I 88 G 53
P 89 W 54
D 90 P 55
W 91 G 56
A 92 F 57
T 93 R 58
V 94 R 59
L 95 R 60
S 96 E 61
T 97 S 62
N 98 E 63
V 99 A 64
I 100 L 65
R 101 Q 66
K 102 A 67
P 103 V 68
R 142 A 69
A 143 T 70
N 144 P 71
R 145 N 72
G 146 R 73
Y 147 V 74
L 148 V 75
Y 149 A 76
I 150 T 77
D 151 G 78
E 152 G 79
C 153 G 80
N 154 M 81
L 155 V 82
L 156 L 83
E 157 L 84
D 158 E 85
H 159 Q 86
I 160 N 87
V 161 R 88
D 162 Q 89
L 163 F 90
L 164 M 91
L 165 R 92
D 166 A 93
V 167 H 94
A 168 G 95
Q 169 T 96
V 189 V 97
L 190 V 98
V 191 Y 99
G 192 L 100
S 193 F 101
G 194 A 102
N 195 P 103
P 196 A 104
E 197 E 105
E 198 E 106
L 205 L 107
L 206 A 108
D 207 L 109
R 208 R 110
F 209 L 111
G 210 Q 112
L 211 A _
S 212 S _
D 251 E 130
I 252 E 131
R 253 M 132
N 254 E 133
Q 255 A 134
I 256 V 135
L 257 L 136
E 258 R 137
A 259 E 138
R 260 R 139
E 261 E 140
R 262 A 141
L 263 L 142
P 264 Y 143
K 265 Q 144
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1gky
G 47 P 3
V 48 I 4
L 49 V 5
V 50 I 6
F 51 S 7
G 52 G 8
D 53 P 9
R 54 S 10
G 55 G 11
T 56 T 12
G 57 G 13
K 58 K 14
S 59 S 15
T 60 T 16
A 61 L 17
V 62 L 18
R 63 K 19
A 64 K 20
L 65 L 21
A 66 F 22
A 67 A 23
L 68 E 24
L 69 Y 25
P 70 P 26
E 71 D 27
I 72 T 139
E 73 E 140
A 74 E 141
V 75 S 142
E 76 I 143
G 77 N 144
C 78 K 145
P 79 R 146
V 80 L 147
S 81 S 148
S 82 A 149
P 83 A 150
N 84 Q 151
V 85 A 152
E 86 E 153
M 87 L 154
I 88 A 155
P 89 Y 156
D 90 A 157
W 91 E 158
A 92 T 159
T 93 G 160
V 94 A 161
N 144 H 162
R 145 D 163
G 146 K 164
Y 147 V 165
L 148 I 166
Y 149 V 167
I 150 N 168
D 151 D 169
E 152 D 170
C 153 L 171
N 154 D 172
L 155 K 173
L 156 A 174
E 157 Y 175
D 158 K 176
H 159 E 177
I 160 L 178
V 161 K 179
D 162 D 180
L 163 F 181
L 164 I 182
L 165 F 183
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1a5t
L 34 K 13
A 35 L 14
L 36 V 15
L 37 A 16
L 38 S 17
T 39 Y 18
A 40 Q 19
V 41 A 20
D 42 G 21
P 43 R 22
G 44 G 23
I 45 H 24
G 46 H 25
G 47 A 26
V 48 L 27
L 49 L 28
V 50 I 29
F 51 Q 30
G 52 A 31
D 53 L 32
R 54 P 33
G 55 G 34
T 56 M 35
G 57 G 36
K 58 D 37
S 59 D 38
T 60 A 39
A 61 L 40
V 62 I 41
R 63 Y 42
A 64 A 43
L 65 L 44
A 66 S 45
A 67 R 46
L 68 Y 47
L 69 L 48
P 70 L 49
E 71 C 50
I 72 Q 51
E 73 Q 52
A 74 P 53
V 75 Q 54
E 76 G 55
G 77 H 56
C 78 K 57
P 79 S 58
V 80 C 59
S 81 G 60
S 82 H 61
P 83 C 62
N 84 R 63
V 85 G 64
E 86 C 65
M 87 Q 66
I 88 L 67
P 89 M 68
D 90 Q 69
W 91 A 70
A 92 G 71
T 93 T 72
V 94 H 73
L 95 P 74
S 96 D 75
T 97 Y 76
N 98 R 94
V 99 E 95
I 100 V 96
R 101 T 97
K 102 E 98
P 103 K 99
T 104 L 100
P 105 N 101
V 106 E 102
V 107 H 103
D 108 A 104
L 109 R 105
P 110 L 106
L 111 G 107
G 112 G 108
V 113 A 109
S 114 K 110
Y 147 V 111
L 148 V 112
Y 149 W 113
I 150 V 114
D 151 T 115
E 152 D 116
C 153 A 117
N 154 A 118
L 155 L 119
L 156 L 120
E 157 T 121
D 158 D 122
H 159 A 123
I 160 A 124
V 161 A 125
D 162 N 126
L 163 A 127
L 164 L 128
L 165 L 129
D 166 K 130
V 167 T 131
A 168 L 132
Q 169 E 133
S 170 E 134
G 171 P 135
P 185 P 136
A 186 A 137
R 187 E 138
F 188 T 139
V 189 W 140
L 190 F 141
V 191 F 142
G 192 L 143
S 193 A 144
G 194 T 145
N 195 R 146
P 196 E 147
E 197 P 148
E 198 E 149
D 200 R 150
L 201 L 151
R 202 L 152
P 203 A 153
Q 204 T 154
L 205 L 155
L 206 R 156
D 207 S 157
R 208 R 158
F 209 C 159
L 211 R 160
S 212 L 161
V 213 H 162
E 214 Y 163
V 215 L 164
L 216 A 165
S 217 P 166
P 218 P 167
R 219 P 168
D 220 E 169
V 221 Q 170
E 222 Y 171
T 223 A 172
R 224 V 173
V 225 T 174
E 226 W 175
V 227 L 176
I 228 S 177
R 229 R 178
K 265 E 179
V 266 V 180
E 267 T 181
A 268 M 182
P 269 S 183
N 270 Q 184
T 271 D 185
A 272 A 186
L 273 L 187
Y 274 L 188
D 275 A 189
C 276 A 190
A 277 L 191
A 278 R 192
L 279 L 193
C 280 S 194
S 285 A 195
D 286 G 196
G 287 S 197
L 288 P 198
R 289 G 199
G 290 A 200
E 291 A 201
L 292 L 202
T 293 A 203
L 294 L 204
L 295 F 205
R 296 Q 206
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1nsf
G 28 N 495
Q 29 Q 496
E 30 E 497
D 31 D 498
M 32 Y 499
K 33 A 500
L 34 S 501
A 35 Y 502
L 36 I 503
L 37 M 504
L 38 N 505
T 39 G 506
A 40 I 507
V 41 I 508
D 42 K 509
P 43 W 510
G 44 P 535
I 45 L 536
G 46 V 537
G 47 S 538
V 48 V 539
L 49 L 540
V 50 L 541
F 51 E 542
G 52 G 543
D 53 P 544
R 54 P 545
G 55 H 546
T 56 S 547
G 57 G 548
K 58 K 549
S 59 T 550
T 60 A 551
A 61 L 552
V 62 A 553
R 63 A 554
A 64 K 555
L 65 I 556
A 66 A 557
A 67 E 558
L 68 E 559
L 69 S 560
P 70 N 561
E 71 F 562
I 72 P 563
E 73 F 564
A 74 I 565
V 75 K 566
E 76 I 567
G 77 C 568
C 78 S 569
P 79 P 570
V 80 D 571
S 81 K 572
S 82 M 573
P 83 I 574
N 84 G 575
TER
END


Sorry, can't convert pairwise alignment for target T0127 and template 5tmp to CASP AL format


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1d9x_A
V 50 L 37
F 51 L 38
G 52 G 39
D 53 A 40
R 54 T 41
G 55 G 42
T 56 T 43
G 57 G 44
K 58 K 45
S 59 T 46
T 60 F 47
A 61 T 48
V 62 I 49
R 63 S 50
A 64 N 51
L 65 V 52
A 66 I 53
A 67 A 54
L 68 Q 55
L 69 V 56
P 70 N 57
E 71 K 58
I 72 I 573
E 73 Q 574
A 74 E 575
V 75 E 576
E 76 Y 577
G 77 N 578
C 78 R 579
P 79 K 580
V 80 H 581
S 81 G 582
S 82 I 583
P 83 V 584
N 84 P 585
V 85 R 586
E 86 T 587
M 87 V 588
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1d9z_A
V 50 L 37
F 51 L 38
G 52 G 39
D 53 A 40
R 54 T 41
G 55 G 42
T 56 T 43
G 57 G 44
K 58 K 45
S 59 T 46
T 60 F 47
A 61 T 48
V 62 I 49
R 63 S 50
A 64 N 51
L 65 V 52
A 66 I 53
A 67 A 54
L 68 Q 55
L 69 V 56
P 70 N 57
E 71 K 58
I 72 I 573
E 73 Q 574
A 74 E 575
V 75 E 576
E 76 Y 577
G 77 N 578
C 78 R 579
P 79 K 580
V 80 H 581
S 81 G 582
S 82 I 583
P 83 V 584
N 84 P 585
V 85 R 586
E 86 T 587
M 87 V 588
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1shk_B
G 47 P 4
V 48 I 5
L 49 F 6
V 50 M 7
F 51 V 8
G 52 G 9
D 53 A 10
R 54 R 11
G 55 G 12
T 56 C 13
G 57 G 14
K 58 K 15
S 59 T 16
T 60 T 17
A 61 V 18
V 62 G 19
R 63 R 20
A 64 E 21
L 65 L 22
A 66 A 23
A 67 R 24
L 68 A 25
L 69 L 26
P 70 G 27
E 71 Y 28
I 72 E 29
E 73 F 30
A 74 V 31
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 2shk_B
G 47 P 4
V 48 I 5
L 49 F 6
V 50 M 7
F 51 V 8
G 52 G 9
D 53 A 10
R 54 R 11
G 55 G 12
T 56 C 13
G 57 G 14
K 58 K 15
S 59 T 16
T 60 T 17
A 61 V 18
V 62 G 19
R 63 R 20
A 64 E 21
L 65 L 22
A 66 A 23
A 67 R 24
L 68 A 25
L 69 L 26
P 70 G 27
E 71 Y 28
I 72 E 29
E 73 F 30
A 74 V 31
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1shk_A
G 47 P 4
V 48 I 5
L 49 F 6
V 50 M 7
F 51 V 8
G 52 G 9
D 53 A 10
R 54 R 11
G 55 G 12
T 56 C 13
G 57 G 14
K 58 K 15
S 59 T 16
T 60 T 17
A 61 V 18
V 62 G 19
R 63 R 20
A 64 E 21
L 65 L 22
A 66 A 23
A 67 R 24
L 68 A 25
L 69 L 26
P 70 G 27
E 71 Y 28
I 72 E 29
E 73 F 30
A 74 V 31
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1fts
V 5 F 218
A 6 R 219
R 7 G 220
L 8 K 221
Q 9 K 222
P 10 I 223
S 11 D 224
A 12 D 225
S 13 D 226
G 14 L 227
A 15 F 228
K 16 E 229
T 17 E 230
R 18 L 231
P 19 E 232
V 20 E 233
F 21 Q 234
P 22 L 235
F 23 L 236
S 24 I 237
A 25 A 238
I 26 D 239
V 27 V 240
G 28 G 241
Q 29 V 242
E 30 E 243
D 31 T 244
M 32 T 245
K 33 R 246
L 34 K 247
A 35 I 248
L 36 I 249
L 37 T 250
L 38 N 251
T 39 L 252
A 40 T 253
V 41 E 254
D 42 G 255
P 43 A 256
G 44 G 290
I 45 K 291
G 46 A 292
G 47 P 293
V 48 I 296
L 49 L 297
V 50 M 298
F 51 V 299
G 52 G 300
D 53 V 301
R 54 N 302
G 55 G 303
T 56 V 304
G 57 G 305
K 58 K 306
S 59 T 307
T 60 T 308
A 61 T 309
V 62 I 310
R 63 G 311
A 64 K 312
L 65 L 313
A 66 A 314
A 67 R 315
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1qhn_A
V 48 I 6
L 49 I 7
V 50 L 8
F 51 N 9
G 52 G 10
D 53 G 11
R 54 S 12
G 55 S 13
T 56 A 14
G 57 G 15
K 58 K 16
S 59 S 17
T 60 G 18
A 61 I 19
V 62 V 20
R 63 R 21
A 64 C 22
L 65 L 23
A 66 Q 24
A 67 S 25
L 68 V 26
L 69 L 27
P 70 P 28
E 71 E 29
I 72 P 30
E 73 W 31
A 74 L 32
V 75 A 33
E 76 F 34
G 77 G 35
C 78 V 36
P 79 D 37
V 80 S 38
S 81 L 39
S 82 I 40
P 83 E 41
N 84 A 42
V 85 X 43
E 86 P 44
M 87 L 45
I 88 K 46
P 89 X 47
D 90 Q 48
W 91 S 49
A 92 A 50
T 93 E 51
V 94 G 52
L 95 G 53
S 96 D 57
T 97 A 58
N 98 D 59
V 99 G 60
I 100 G 61
R 101 V 62
K 102 S 63
P 103 I 64
T 104 G 65
P 105 P 66
V 106 E 67
V 107 F 68
D 108 R 69
L 109 A 70
P 110 L 71
L 111 E 72
G 112 G 73
V 113 A 74
S 114 W 75
E 115 A 76
D 116 E 77
R 117 G 78
V 118 V 79
V 119 V 80
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1a1v_A
D 53 P 205
R 54 T 206
G 55 G 207
T 56 S 208
G 57 G 209
K 58 K 210
S 59 S 211
T 60 T 212
A 61 K 213
V 62 V 214
R 63 P 215
A 64 A 216
L 65 A 217
A 66 Y 218
A 67 A 219
L 68 A 220
L 69 Q 221
P 70 G 222
E 71 Y 223
I 72 L 602
E 73 G 603
A 74 A 604
V 75 V 605
E 76 Q 606
G 77 N 607
C 78 E 608
P 79 V 609
V 80 T 610
S 81 L 611
S 82 T 612
P 83 H 613
N 84 P 614
V 85 I 615
E 86 T 616
M 87 K 617
I 88 Y 618
P 89 I 619
D 90 M 620
W 91 T 621
A 92 C 622
T 93 M 623
V 94 S 624
L 95 A _
S 96 D _
T 97 L _
N 98 E _
V 99 V _
I 100 V _
R 101 T _
K 102 G _
P 103 S _
T 104 G _
P 105 S _
V 106 H _
V 107 H _
D 108 H _
L 109 H _
P 110 H _
L 111 H _
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1qhx_A
V 48 I 6
L 49 I 7
V 50 L 8
F 51 N 9
G 52 G 10
D 53 G 11
R 54 S 12
G 55 S 13
T 56 A 14
G 57 G 15
K 58 K 16
S 59 S 17
T 60 G 18
A 61 I 19
V 62 V 20
R 63 R 21
A 64 C 22
L 65 L 23
A 66 Q 24
A 67 S 25
L 68 V 26
L 69 L 27
P 70 P 28
E 71 E 29
I 72 P 30
E 73 W 31
A 74 L 32
V 75 A 33
E 76 F 34
G 77 G 35
C 78 V 36
P 79 D 37
V 80 S 38
S 81 L 39
S 82 I 40
P 83 E 41
N 84 A 42
V 85 M 43
E 86 P 44
M 87 L 45
I 88 K 46
P 89 M 47
D 90 Q 48
W 91 S 49
A 92 A 50
T 93 E 51
V 94 G 52
L 95 G 53
S 96 D 57
T 97 A 58
N 98 D 59
V 99 G 60
I 100 G 61
R 101 V 62
K 102 S 63
P 103 I 64
T 104 G 65
P 105 P 66
V 106 E 67
V 107 F 68
D 108 R 69
L 109 A 70
P 110 L 71
L 111 E 72
G 112 G 73
V 113 A 74
S 114 W 75
E 115 A 76
D 116 E 77
R 117 G 78
V 118 V 79
V 119 V 80
G 120 A 81
I 124 M 82
E 125 A 83
R 126 R 84
A 127 A 85
I 128 G 86
S 129 A 87
Y 147 R 88
L 148 I 89
Y 149 I 90
I 150 I 91
D 151 D 92
E 152 D 93
C 153 V 94
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 8ohm
D 53 P 205
R 54 T 206
G 55 G 207
T 56 S 208
G 57 G 209
K 58 K 210
S 59 S 211
T 60 T 212
A 61 K 213
V 62 V 214
R 63 P 215
A 64 A 216
L 65 A 217
A 66 Y 218
A 67 A 219
L 68 A 220
L 69 Q 221
P 70 G 222
E 71 Y 223
I 72 G 521
E 73 L 522
A 74 P 523
V 75 V 524
E 76 C 525
G 77 Q 526
C 78 D 527
P 79 H 528
V 80 L 529
S 81 E 530
S 82 F 531
P 83 W 532
N 84 E 533
V 85 S 534
E 86 V 535
M 87 F 536
I 88 T 537
P 89 G 538
D 90 L 539
W 91 T 540
A 92 H 541
T 93 I 542
V 94 D 543
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 1sky_E
V 50 L 156
F 51 F 157
G 52 G 158
D 53 G 159
R 54 A 160
G 55 G 161
T 56 V 162
G 57 G 163
K 58 K 164
S 59 T 165
T 60 V 166
A 61 L 167
V 62 I 168
R 63 Q 169
A 64 E 170
L 65 L 171
A 66 I 172
A 67 H 173
L 68 N 174
L 69 I 175
P 70 A 176
E 71 Q 177
I 72 E 178
E 73 H 179
A 74 G 180
V 75 G 181
E 76 I 182
G 77 S 183
C 78 V 184
P 79 F 185
V 80 A 186
S 81 G 187
S 82 V 188
P 83 G 189
N 84 E 190
V 85 R 191
E 86 T 192
M 87 R 193
I 88 E 194
P 89 G 195
D 90 N 196
W 91 D 197
A 92 L 198
T 93 Y 199
V 94 H 200
L 95 E 201
S 96 S 205
T 97 G 206
N 98 K 210
V 99 T 211
I 100 A 212
R 101 M 213
K 102 V 214
P 103 F 215
T 104 G 216
P 105 Q 217
V 106 M 218
V 107 N 219
D 108 E 220
L 109 P 221
P 110 P 222
L 111 G 223
G 112 A 224
I 124 R 225
E 125 M 226
R 126 R 227
A 127 V 228
I 128 A 229
S 129 L 230
K 130 T 231
G 131 G 232
E 132 L 233
K 133 T 234
A 134 M 235
F 135 A 236
E 136 E 237
P 137 Y 238
G 138 F 239
L 139 R 240
L 140 D 241
A 141 E 242
R 142 Q 243
A 143 G 244
N 144 Q 245
R 145 D 246
G 146 G 247
Y 147 L 248
L 148 L 249
Y 149 F 250
I 150 I 251
D 151 D 252
E 152 N 253
C 153 I 254
N 154 F 255
L 155 R 256
L 156 F 257
E 157 T 258
D 158 Q 259
TER
END


PFRMAT AL
TARGET T0127
AUTHOR UCSC SAM-T99 Web Server
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
MODEL 1
PARENT 5tmp_A
V 48 I 6
L 49 V 7
V 50 I 8
F 51 E 9
G 52 G 10
D 53 L 11
R 54 E 12
G 55 G 13
T 56 A 14
G 57 G 15
K 58 K 16
S 59 T 17
T 60 T 18
A 61 A 19
V 62 R 20
R 63 N 21
A 64 V 22
L 65 V 23
A 66 V 24
A 67 E 25
L 68 T 26
L 69 L 27
P 70 E 28
E 71 Q 29
I 72 L 30
TER
END

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Date: Tue, 29 Aug 2000 23:36:58 -0700
From: UCSC Computational Biology <farmer@cse.ucsc.edu>
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Subject: T0127(target 99 secondary structure prediction)
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The following is the Target99 secondary structure prediction in the formats you requested.

Citation:  
  K. Karplus, C. Barrett, and R. Hughey,
  Hidden Markov Models for Detecting Remote Protein Homologies,
  Bioinformatics, 1998, vol. 14, no. 10, pp. 846-856. 
  http://www.cse.ucsc.edu/resesarch/compbio/HMM-apps
--------------------------------------------------------

For questions or problems, please see the SAM-T99 FAQ at

http://www.cse.ucsc.edu/research/compbio/HMM-apps/sam-t99-faq.html

or email us at sam-info@cse.ucsc.edu


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Content-type: text/plain; charset=us-ascii; name='t99-results-967614563.t99secstr.fasta'
Content-Disposition: attachment; filename="t99-results-967614563.t99secstr.fasta"

>T0127
LLHHHHHHLLLLLHHHHLLLLHHHHHLLHHHHHHHHHHHHHLLLLLEEEEELLLLLLHHHHHHHHHHHLLLLLLLLLLLLLLLLLLHHHLLLLLLLLLLEEELLLLLLLLLLLLHHHHHLLLLHHHHHLLLLLLLLLLHHHHHLLLEEEEHLLLLLLHHHHHHHHHHHHHLLEEEELLLLEELLLLLEEEEEELLLLLLLLLHHHHHHLLLEEEELLLLHHHHHHHHHHHHHHHHLLHHHHHHHHHHHHHHHHHHHHHHHHHHLLLLLLHHHHHHHHHHHHHHLLLLHHHHHHHHHHHHHHHHHHLLLLLLHHHHHHHHHHHHHHHHHLLLLLLLLLHHHHHHHHHHHLL

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Content-type: text/plain; charset=us-ascii; name='t99-results-967614563.t99secstr.casp.ss'
Content-Disposition: attachment; filename="t99-results-967614563.t99secstr.casp.ss"

PFRMAT SS
TARGET T0127
AUTHOR UCSC Target99 server
METHOD This prediction was derived from the following methods
METHOD by averaging the corresponding probabilities: 
METHOD Method 0:
METHOD  TARGET T0127
METHOD  Using neural net overrep-2500-IDaa13-5-9-7-10-5-9-11-ehl2-seeded2-stride-trained.net
METHOD  This is a 4-layer network, with 
METHOD 	window	units
METHOD 	    5	    9
METHOD 	    7	   10
METHOD 	    5	    9
METHOD 	   11	    3 (1 EHL2 )
METHOD  The input amino acid frequencies were determined from
METHOD  alignment /projects/compbio/tmp/hmm-target99-beta-3995/target-align-3995.a2m
METHOD  with weighted counts, using EntropyWeight(1.4 bits/column, 10)
METHOD  The weighting was determined by the posterior distribution
METHOD  after regularizing with /projects/compbio/lib/recode3.20comp.
METHOD  Counts were regularized to probabilities using
METHOD  /projects/compbio/lib/recode3.20comp
METHOD  Total sequence weight for alignment was 174.165
METHOD 
METHOD  CHAIN 1
METHOD Method 1:
METHOD  Prediction using SAM HMM nearest-neighbor
METHOD  sequence: T0127
METHOD  model_file: /projects/compbio/tmp/sam-nn-tmp.beta.20890/model.mod
METHOD  database_files: /projects/compbio/bin/scripts/hmm-target99-dir/pcc/data/overrep-2260.verify.mixed.seq /projects/compbio/bin/scripts/hmm-target99-dir/pcc/data/overrep-2260.verify.mixed.2d
METHOD  scoring_mode: local
METHOD  null_model: reverse
METHOD  scoring_algorithm: EM
METHOD  adjust_score: 2
METHOD  date: Tue Aug 29 23:29:46 2000
METHOD Method 2:
METHOD ###begin 0
METHOD 
METHOD  Protein secondary structure prediction by universal HMM
METHOD  HMM file: /projects/compbio/bin/scripts/hmm-target99-dir/pcc/scripts/gdac.test.initreest.38state.abb.isites.gd.updated.ghmm-128reest-1-128-105-0.07gd
METHOD  Alignment file: /projects/compbio/tmp/hmm-target99-beta-3995/target-align-3995.a2m
METHOD 
METHOD  guide seq name: T0127
METHOD ###end 0
MODEL 1
M C    0.638
T C    0.508
T H    0.512
A H    0.617
V H    0.618
A H     0.62
R H    0.577
L H    0.535
Q C    0.498
P C    0.601
S C    0.648
A C     0.59
S C    0.528
G H    0.465
A H    0.509
K H    0.499
T H    0.435
R C    0.452
P C    0.547
V C    0.437
F C    0.421
P H    0.425
F H    0.425
S H    0.454
A H    0.419
I H    0.401
V C    0.439
G C    0.575
Q H    0.633
E H    0.689
D H    0.715
M H    0.742
K H     0.76
L H     0.76
A H    0.753
L H    0.751
L H    0.742
L H    0.729
T H    0.702
A H     0.67
V H     0.59
D C    0.573
P C    0.662
G C    0.623
I C    0.598
G C    0.552
G E    0.433
V E    0.697
L E    0.729
V E    0.697
F E    0.556
G C    0.551
D C    0.686
R C     0.72
G C    0.669
T C    0.628
G C    0.479
K H    0.572
S H    0.633
T H    0.686
A H    0.708
V H    0.735
R H    0.736
A H    0.733
L H     0.73
A H    0.714
A H    0.676
L H    0.608
L C    0.492
P C    0.599
E C    0.542
I C    0.504
E C    0.462
A C    0.403
V C    0.374
E C    0.429
G C    0.537
C C    0.585
P C     0.59
V C    0.564
S C    0.548
S C    0.527
P C     0.52
N C    0.466
V C    0.438
E C    0.402
M H    0.365
I H    0.361
P H    0.355
D C     0.36
W C    0.396
A C    0.423
T C    0.453
V C    0.479
L C    0.525
S C    0.574
T C    0.543
N C    0.493
V C    0.373
I E    0.408
R E    0.427
K E    0.387
P C    0.409
T C    0.438
P C    0.431
V C    0.376
V C    0.422
D C    0.492
L C    0.562
P C    0.603
L C    0.557
G C    0.509
V C    0.475
S C    0.477
E H    0.629
D H    0.627
R H      0.6
V H    0.508
V H    0.442
G C    0.449
A C    0.433
L C      0.4
D C    0.437
I H    0.601
E H    0.587
R H    0.574
A H    0.461
I H     0.43
S C    0.433
K C    0.529
G C    0.575
E C    0.503
K C    0.436
A C    0.398
F C     0.45
E C    0.509
P C    0.513
G C    0.462
L H    0.428
L H    0.492
A H    0.539
R H    0.547
A H    0.488
N C    0.455
R C    0.629
G C    0.578
Y E    0.551
L E    0.604
Y E    0.579
I E    0.451
D H    0.373
E C    0.474
C C    0.483
N C    0.466
L C    0.489
L C    0.543
E C    0.538
D H     0.75
H H    0.754
I H    0.763
V H    0.791
D H    0.793
L H    0.794
L H    0.791
L H     0.79
D H    0.773
V H     0.76
A H    0.737
Q H    0.698
S H    0.568
G C    0.598
E C     0.49
N E    0.458
V E    0.516
V E    0.499
E E    0.421
R C    0.378
D C    0.541
G C    0.613
L C    0.462
S E    0.429
I E    0.429
R C    0.402
H C    0.495
P C    0.544
A C    0.535
R C    0.468
F E     0.59
V E    0.651
L E    0.661
V E    0.627
G E    0.556
S E    0.482
G C     0.47
N C     0.64
P C    0.611
E C    0.578
E C    0.556
G C    0.608
D C    0.592
L C    0.614
R C    0.584
P H    0.647
Q H    0.672
L H    0.684
L H    0.653
D H    0.616
R H    0.568
F C     0.46
G C    0.488
L C     0.39
S E    0.454
V E    0.513
E E    0.497
V E    0.418
L C    0.511
S C    0.615
P C    0.649
R C    0.651
D H    0.486
V H    0.684
E H    0.703
T H    0.714
R H    0.734
V H    0.744
E H    0.737
V H    0.748
I H    0.746
R H    0.735
R H    0.732
R H     0.72
D H    0.701
T H    0.674
Y H    0.563
D H    0.495
A C    0.465
D C    0.531
P H      0.5
K H    0.552
A H    0.576
F H    0.558
L H    0.558
E H    0.551
E H    0.562
W H    0.551
R H    0.567
P H    0.582
K H    0.592
D H    0.674
M H    0.709
D H    0.721
I H    0.742
R H    0.778
N H    0.778
Q H    0.768
I H    0.773
L H    0.766
E H     0.76
A H    0.751
R H    0.733
E H    0.697
R H    0.649
L H    0.523
P C    0.451
K C    0.536
V C    0.541
E C    0.555
A C    0.588
P C    0.566
N H    0.727
T H    0.742
A H    0.753
L H    0.775
Y H    0.781
D H    0.779
C H    0.778
A H    0.779
A H    0.768
L H    0.746
C H    0.733
I H    0.746
A H    0.714
L H    0.627
G C    0.505
S C    0.601
D C    0.617
G C    0.581
L H    0.707
R H    0.741
G H    0.754
E H    0.776
L H    0.783
T H    0.785
L H    0.795
L H    0.808
R H     0.81
S H    0.807
A H    0.801
R H    0.798
A H    0.791
L H    0.791
A H     0.77
A H     0.75
L H    0.721
E H    0.597
G C    0.606
A C    0.604
T C    0.536
A C    0.397
V C    0.388
G C    0.503
R H    0.685
D H    0.699
H H    0.709
L H    0.755
K H    0.769
R H    0.765
V H    0.754
A H    0.741
T H    0.721
M H    0.711
A H    0.704
L H    0.696
S H    0.683
H H    0.657
R H    0.631
L H    0.583
R H    0.515
R C    0.427
D C    0.527
P C    0.546
L C    0.554
D C    0.548
E C    0.562
A C    0.578
G C    0.613
S C    0.527
T H    0.454
A H     0.53
R H     0.58
V H    0.652
A H    0.687
R H    0.683
T H    0.674
V H    0.678
E H    0.651
E H    0.575
T H    0.485
L C    0.502
P C    0.744
END

--simple mime boundary--