(c) 1992-2000 Regents of the University of California, Santa Cruz
Sequence Alignment and Modeling Software System
http://www.soe.ucsc.edu/research/compbio/sam.html

Citations (SAM, SAM-T99, HMMs)

Sequence numbers correspond to the following labels:

    • T0357 NESG:GR101, Archaeoglobus fulgidus, 141 res
                 10        20             30              40          5
                 |         |              |               |           
   1 ...MVKFACRAITRGRAEGEALVTKEYI....SFL.GGI...DKETG.IV.K.E.DC.EIKGESV
   2 mi.PIKLKGRTISRGCAKGEVLLSRDPI....SFL.GNV...DPKTGvVI.E.E.NH.ALEGKSI
   3 mi.PIKFKGRTISRGCAEGEVLISRDPI....SFL.GSV...DPRTGiVV.E.E.KH.SLAGKSI
   4 mv.PIKLKGRTISRGCAEGEILISRDPI....SFL.GSV...DPKTGiVV.E.E.KH.SLAGKSI
   5 ...-MKFACRAITRGRAEGEALVTKEYI....SFL.GGI...DKETG.IV.K.E.DC.EIKGESV
   6 ...-MKLKGRKIVGGKAEGEVIVSRKPL....SFL.GGV...DPETG.IVtD.A.ES.DIRGQSI
   7 mv.TIKIECRTIARGVAEGEVLLSEDAL....SFL.GNV...DPKTGvVV.D.P.GH.AIYGECI
   8 ...-MEIKCHRVSGGCAEGPALVTRERI....SFL.GNV...DPETGvVV.D.P.AH.ELYGRSI
   9 agtPIVLRGRKVVGGCVEGEALVTRDRI....SGW.GGI...DPRTGtII.E.T.RH.ELRGQSF
  10 ...-MEVDCRVISRGKGRGPVLVSTEPL....SFL.GGV...DPGTGrVI.D.Q.KH.PLHGRSI
  11 agtPIVLRGRKVVGGCVEGEALVTRDRI....SGW.GGI...DPRTGtII.E.T.RH.ELRGRSF
  12 artPIVLRGRKVVGGRIEGEALVTRDRI....SGW.GGI...DPRTGtII.E.T.RH.ELRGQSF
  13 ...-MKLKGRGIVKGVAEGELVVSRKPL....SFL.GGV...DPNTG.IItD.P.ES.DIQGEKI
  14 mkhAHLIVPRTLVAGSASGELLYAPTGL....SFW.GGV...DPRSAeVI.D.R.HH.PLSGRHL
  15 mkhAHLIVPRTLVAGSASGELLYAPTGL....SFW.GGV...DPRSAeVI.D.R.HH.PLSGRHL
  16 mkhAHLIVPRTLVAGSASGELLYAPTGL....SFW.GGV...DPRSAeVI.D.R.HH.PLSGRHL
  17 mkhAHLIVPRTLVAGSASGELLYAPTGL....SFW.GGV...DPRSAeVI.D.R.HH.PLSGRHL
  18 mkhAHLIVPRTLVAGSASGELLYAPTGL....SFW.GGV...DPRSAeVI.D.R.HH.PLSGRHL
  19 m..SSNIKCRIISKGKDSGNALVTKDPI....SFL.GGV...DPKTGiVI.D.K.KH.ELYNECI
  20 ...-MKLKGKGVGKNIVEGEVIVSKKPL....SFL.GGV...DPETGiII.D.P.DS.DIKGESI
  21 mkhAHLIVSRTLVAGSASGELLYAPTGL....SFW.GGV...DPRSAeVI.D.R.HH.PLSGRHL
  22 ...-MKLKGKGIGKVVVEGEVIVSRKPL....SFL.GGV...DPETGtIT.D.P.ES.DIKGESI
  23 eaaRKELTGDTLVPGSACARPFVLDKPL....SFW.GGY...DSGAGkIV.D.R.GH.PQAGASL
  24 dtaSRTFHCKTWVTGQTQGKAVIARERI....SFW.GGF...DPQTGrIV.D.P.YS.SLRGRDI
  25 ...-MQYHGHCLVDSAATGKLLYANVGL....SFW.AGV...DSQTGeII.D.R.HH.PLHGQSV
  26 ettGTFLMGDTLVPGSACARPFVLDKPL....SFW.GGY...DSGAGrIV.D.R.GH.PQAGASL
  27 ettGTFLTGDTLVPGSACARPFVLDKPL....SFW.GGY...DSGAGrIV.D.R.GH.PQAGASL
  28 ...-MEFRGQCLIKGAASAELQFCPVEI....SFW.GGV...NPETGqVV.D.R.HH.PLCGQSI
  29 ...-MTMTASSILPGIADGPILFSDEPL....SFW.GGV...DPATGrII.D.V.HH.PLQGRSI
  30 ...---MTADTLVAGRVCADTIVLDQPL....SFW.GGY...DSAAGrIV.D.R.GH.PQAGASL
  31 slqETTWTGTAYVQGRASAKLLASNLEL....SFW.GGV...DPQTSeVI.D.R.HH.TLSGKHL
  32 ...---MTGDTLVPGSACARPFVLDKPL....SFW.GGY...DSGAGrIV.D.R.GH.PQAGASL
  33 ...-MIIQGRGISRGIGKGPLLIGPDPI....SFL.SGV...DPETG.IVlE.P.GH.PLEGKDI
  34 ...---------MTGQTQGKAVIARERI....SFW.GGF...DPQTGrIV.D.P.YS.SLRGRDI
  35 ...-MELKGRSISKGIIEGIAIVSKKPF....SFL.GGV...DEEGN.II.D.K.DS.DLYGQSL
  36 ...-MKIYGKAIVHGAATGEILYSKVPL....SFW.GGV...EQTTGdII.D.H.HH.PLFGENI
  37 svsPVRCEPVVDVEEPVEAEVLVSSQRL....SFL.GGV...DPKTGeVV.D.P.SH.ELCGEKL
  38 mseQRIFRGIPYVTGAASATLLAADLEL....SFW.GGV...DPRTGeII.D.R.FH.PLSGRFM
  39 datMRQLTGDTLVPGSACANTVVLDKPL....SFW.GGY...DSGVGrIV.D.C.GH.PQAGASL
  40 vstTAAPEARSILAGAAEGKVIATTEAL....SFW.GGV...DPATGkVI.D.V.HH.PLHGICL
  41 ...-MQ---DLIVAAEVQGPILLCDEGL....SVW.GGV...DPLSGrII.D.A.HH.PQQGQSL
  42 ...----MAQCIVAAAASGPVLVCDEGL....SFW.GGV...DPETGrVI.D.A.HH.PQHGAAL
  43 m..SGLDPARSILQGSAEGPVIATGEAL....SFW.GGV...DPATGcVI.D.V.HH.PLHGVPL
  44 ...MKELNGRIISKGVVEGEAIISKSPI....SFL.GGV...NEE-G.IVtD.K.EN.ELFGKSI
  45 me.VLRYRSRPIVGGEAEGPAVVIDS-L....SFY.GEV...DPETG.VT.S.G.--.---GKPL
  46 akdAVERLGTFQLAGEADGLALVFSQPL....SFW.GGI...DAETGdII.D.H.SH.PGLGQNV
  47 ...-MTRKGTIVVAGRADGTALVLGEPL....SFW.GGI...DVETGtII.D.H.SH.PSLGARV
  48 idqRGWPPASTLAAGHARGAILAL-EPL....SFW.GGY...DAALGkII.E.K.SH.PAHGQSL
  49 nekPIILKGITKVEGYAEGEALVTSSFL....SHLvNAV...NSD-G.VI.RiF.GH.PLVGQSY
  50 nrdLPVLRALRSLPDKVVGEALVSNDAI....SMR.YDV...DASTGkVV.R.P.SH.DLYGQSI
  51 m..SEVFAVDRAWGPVVEGQALVMREGF....SPR.YDL...DRWSG.VI.S.RiGH.SAEGESI
  52 ...MKTFKGRVIVPGTVSAEALVSSQGFntlaSFQ.KALmfgDKKAH.CS.D.Q.NNlDLYKKEI
  53 ...--MLKPLVKGRGRVRAEVVKITSPV....SLL.GDL...DPEAG.--.-.-.--.KLAGVDV


      0        60        70         80         90            100       
     |         |         |          |          |              |       
   1 AGRILVFPGGKGSTVGSYVLL.NLRKNGVAPKAIINKKT.ETIIAVGAAMAE.....IPL.VE.V
   2 QGKVLVFPHGKGSTVGSYVMY.QLKKNGTAPAAIINLET.EPIVAVGAIISE.....IPL.VD.M
   3 KGKVLVFPHGKGSTVGSYVMY.QLKKNEAAPAAIINLET.EPIVAVGAIISE.....IPL.VD.M
   4 KGKVLVFPHGKGSTVGSYVMY.QLKKNGAAPVAIINLET.EPIVAVGAIISE.....IPL.VD.M
   5 AGRILVFPGGKGSTVGSYVLL.NLRKNGVAPKAIINKKT.ETIIAVGAAMAE.....IPL.VE.V
   6 AGKILVFPRGKGSTVGSYVIY.ALKKNNKAPKAIIVGEA.ETIVATGAIISD.....IPM.VD.G
   7 RDKILVFPHGKGSTVGSYVIY.QLKKNNVSPAAMINIDS.EPIVAVGAIISD.....IPL.VD.R
   8 AGVVLIFPGGKGSTVGSYVIY.QLRKRGMAPAAMINLKS.EPIVAVGAIISD.....IPL.VD.R
   9 ANKVLVFPGAKGSSGWSSQFH.IARIAGTAPAAMLFNEM.TTKIALGAVVSH.....APS.LT.D
  10 RGKVLLIPGGKGSTVGSYVIF.QMAKNETAPAAIICLNA.EPIIATGAIMAG.....IPM.VD.R
  11 ANKVLVFPGAKGSSGWSSQFH.IARIAGTAPAAMLFNEM.TTKIALGAVVSH.....APS.LT.D
  12 ANKVLVFPGAKGSSGWSSQFH.IARIAGTAPAAMLFNEM.TTKIALGAVVSH.....APS.LT.D
  13 TGKILAFPRGKGSTVGSYVIY.ALAKKGTGPKAIIVEEA.EAIVAVGAIIAG.....IPL.VT.G
  14 HGRLLAIPGGRGSCTGSSVLL.ELILGGRAPAAILLREP.DEILALGAIVAEel6rsLPI.AC.L
  15 HGRLLAIPGGRGSCTGSSVLL.ELILGGRAPAAILLREP.DEILALGAIVAEel6rsLPI.AC.L
  16 HGRLLAIPGGRGSCTGSSVLL.ELILGGRAPAAILLREP.DEILALGAIVAEel6rsLPI.AC.L
  17 HGRLLAIPGGRGSCTGSSVLL.ELILGGRAPAAILLREP.DEILALGAIVAEel6rsLPI.AC.L
  18 HGRLLAIPGGRGSCTGSSVLL.ELILGGRAPAAILLREP.DEILALGAIVAEel6rsLPI.AC.L
  19 TDKILVIPSGKGSTVGSYVIY.QMAKNNTAPRAIICQKA.EPIIAIGAIISK.....IPM.VD.N
  20 EGKILVFPKGRGSTVGSYVIY.ALSRNGKAPKAIIVEEA.EPIVTVGAIISG.....IPL.IA.G
  21 HGRLLAIPGGRGSCTGSSVLL.ELILGGRAPAAILLREP.DEILALGAIVAEel6rsLPI.AC.L
  22 TGKILVFPKGKGSTVGSYILY.ALSKNGKGPKAIIVEEA.EPIVTAGAIISG.....IPL.IT.N
  23 AGKVMVMPHAKGSSSSSSVLA.EAVRNGTGPVAIVLKER.DLIISIGAIVAAel6iaVPV.VC.V
  24 SDCVLILLSSKGSSGTSGMLS.LATRAGHAPAAMIQVEM.DPVTVMGCLVNN.....IPL.LQ.A
  25 NGRILAIPCSRGSCTGSIVLI.ELLLNQCAPAGLIFQQP.EQIITLGVVVAKtl6lsIPV.LV.L
  26 AGKVMVMPHAKGSSSSSSVLA.EAVRNGTGPVGIVLKER.DLIISIGAIVAAel6iaVPV.VC.V
  27 AGKVMVMPHAKGSSSSSSVLA.EAVRNGTGPVGIVLKER.DLIISIGAIVAAel6iaVPV.VC.V
  28 AGRVLAIPCGRGSCSGSTVML.KLLLNGCAPAALIFEKP.EQILTLGVLVGKvl6cpIPV.VV.L
  29 AGRVLMMPSTRGSCTGSGVLL.DLVLSGRGPAALVFSEP.EDVVTLGALIAAem6kaLPV.L-.R
  30 AGRILVMPHAKGSSSSSSVLA.EAVRNGTGPAGIVMKER.DLIISIGAIVAAel6iaVPV.VC.V
  31 QNTILAIPGGRGSCTGSGIML.ELLLNGKAPEAIIFERR.EDILTLGVMIAEev6qsIPV.LV.L
  32 AGKVMVMPHAKGSSSSSSVLA.EAVRNGTGPVGIVLKER.DLIISIGAIVAAel6iaVPV.VC.V
  33 TGSVLAFEYGKGSTVGSYILY.ALSRNGHAPAAIINQEA.ETIIVVGAIMGK.....IPM.ID.R
  34 SDCVLILLSSKGSSGTSGMLS.LATRAGHAPAAMIQVEM.DPVTVMGCLVNN.....IPL.LQ.A
  35 KGKIFVFPYGRGSTVGSYVIY.GLAKRGIL-KGIVNKEC.EPIVATGAILGG.....IPL.VD.K
  36 KDRVLVLPSTRGSCSGSLVLI.ELLVNRVAPTALVFWDS.EAIVTTGVIVARtl6lsLP-.VY.R
  37 TGRVLVLPGGRGSTVGSYVLM.EMADRGTAPAGIVVREA.EPILVVGCVLGD.....IPL.FH.R
  38 KDTILAIPGGRGSCGGSVIMM.ELILNGLGPKALIFERR.EEIITLGVMVAEel6ktAAV.VT.L
  39 AGRIMVMPHAKGSSSSSSVLA.EAVRNGTGPVGIVLKER.DLIISIGAIVAAel6iaVPV.VR.V
  40 TGGVLFMPTSRGSCTGSGVLL.DLILTGRAPSALVFCEA.EDVLTLGALVAAem6kaLPV.I-.R
  41 AGHVVMMPTSRGSCTGSGVLL.GLAFAGTAPKALVFREG.EDILTLGALVATrlfe.RPIaVL.R
  42 AGAVVMMPTSRGSCSGSGVLL.ALALNGHAPAALVFREG.EDVLTLGALVAAwmyd.RPVaVL.R
  43 TGSILMMPSSRGSCTGSGVLL.DLVLTGRGPAALVFSEP.EDVLTLGALIASem6kpLPV.LR.L
  44 ANKIFVFPSGKGSTVGSYVIY.GLAKRGLL-KGMVNFES.EPIVATGAILGK.....IPL.VD.K
  45 AGRVAAIRRSRGSTVGSYVIY.ALKENGVAPLAILMERA.EPIVIAGCVLAG.....IPL.YD.G
  46 AGRILVMPSGRGSSSSSSVLA.EAIRRGTAPAGILLERP.DPILAVGAIVAEfl6ihMPL.V-.V
  47 TGRILVMPGGRGSSSSASVFA.ESIRRGTGPLGVLLARA.DPILTVGAMVAAsl6rdCPI.V-.V
  48 AGKIMVMPRAKGSSSSSSVLA.EAIRNGTGPSGIVLRER.DLIISIGVIVANel6vsVPL.V-.V
  49 AGKIVVYDTDKFSTGGAWGLYfKAKVTNSAPKALICRTV.HPISIGGAIDAG.....IPA.VD.S
  50 SGKVLIFKNTKGGVATGWALL.NLKSRGTAPIALVCDTT.NPVFVQGAALAG.....LPI.MD.G
  51 KDRILVIPTAKGGVAGGWAFY.DLLHKGIAPKALVFGKL.NPVMVQGAVLAG.....MPI.ME.G
  52 AGKALCLPQTIGSTTGGMVIF.CAASMGRQPACMLFSEPiDSLAAAGVILAAnf6nsIPT.VD.N
  53 VGKIAALPYVKGSTVGPYVLW.GAARRGKAPLAIVAQKP.DLMLISACVLAG.....IPL.FQgV


              110                120            130        140     
               |                  |              |          |     
   1 ...RDE...KFFEA.V..K.....TGDR.VVV.N.AD.E.G.YVE.LIELEHHHHH....H
   2 ...LEK...NPYEV.L..N.....NGDL.VLV.N.GS.K.G.YIE.LFKQETIKTEnek.K
   3 ...LEK...DPYEF.L..K.....DGDT.VLV.N.GS.E.G.YIE.LLKQGEGQAK....K
   4 ...LEK...SPYES.L..K.....DGDV.VQV.N.GS.E.G.YIE.LIKPKGSKIE....E
   5 ...RDE...KFFEA.V..K.....TGDR.VVV.N.AD.E.G.YVE.LIE-------....-
   6 ...VD-...--VSK.L..K.....TGMK.VRV.D.AD.S.G.EVE.ILEDGE----....-
   7 ...LDK...DPFTI.F..K.....NGDR.VKV.D.ST.S.G.FVE.LMDR------....-
   8 ...VPE...WILD-.V..K.....DGTR.VVV.D.AR.R.E.VVV.LPDGSVKV--....-
   9 ...FDV...DPLDV.I..E.....TGDW.VRV.D.AE.R.G.VVE.VLKRSRT---....-
  10 ...PSE...DLLGL.L..E.....DSME.VEV.D.AD.E.G.KIR.F---------....-
  11 ...FDI...DPLDV.I..E.....TGDW.VRV.D.AD.R.G.VVE.VLKRSRV---....-
  12 ...FDI...DPLDV.I..E.....TGDW.VRV.D.AE.R.G.VVE.VLKRSRT---....-
  13 ...ID-...--ISK.L..K.....SGMK.VRV.D.GE.R.G.EVE.IIAQGDL---....-
  14 gerFDElaaYPWAR.L..A.....DGRLeLHR.D.AP.P.P.LET.RPAEALATDAgprl-
  15 gerFDElaaYPWAR.L..A.....DGRLeLHR.D.AP.P.P.LET.RPAEALATDAgprl-
  16 gerFDElaaYPWAR.L..A.....DGRLeLHR.D.AP.P.P.LEA.RPAEALATDAgprl-
  17 gerFDElaaYPWAR.L..A.....DGRLeLHR.D.AP.P.P.LEA.RPAEALATDAgprl-
  18 gerFDElaaYPWAR.L..A.....DGRLeLHR.D.AP.P.P.LEA.RPAEALATDAgprl-
  19 ...PDV...DIINT.I..N.....TNDE.ITV.D.AD.N.S.TIV.IN--------....-
  20 ...VD-...--ISK.L..R.....TGMK.VRI.N.PR.T.G.EVE.IIG-------....-
  21 gerFDElagYPWAR.L..A.....DGRLeLHH.D.AP.P.P.LPA.QPAEAPATDAgprl-
  22 ...VD-...--ISK.L..K.....TGMR.VRI.N.PQ.E.G.EVE.ILAEGNL---....-
  23 ...TD-...DVYDA.IvaA.....TGE-.VRI.E.AG.E.G.DGG.-ARIDLGDAArsa.-
  24 ...TGF...DPFEQ.I..Q.....DGDL.VRI.D.GE.N.G.TIT.LAPGQA----....-
  25 ...KPA...EFHS-.L..K.....DYRY.AAI.T.GP.T.L.QTG.EDPLPPPTYEapsc-
  26 ...SDE...-VYDA.IvaA.....TGD-.VRI.E.TG.E.G.DGG.-ARIHLGTDArsg.G
  27 ...SDE...-VYDA.IvaA.....TGD-.VRI.E.TG.E.G.DGG.-ARIHLGTDArsg.G
  28 ...SSS...DFSKI.C..Nrh6aiDGET.VLVsD.AL.L.P.TPK.LPADPVEGDFdls.D
  29 ...LSP...SAFDV.L..S.....GQAS.ARI.G.LD.R.I.TAG.DLSIAVQPPGtasl-
  30 ...TER...DYRAI.V..A.....ASGP.VRI.D.AS.D.G.DGG.-ARIYVGDAArsg.F
  31 ...KKE...DFRQL.L..Kl....DGQI.IYV.D.YG.H.IsTAP.ILSKHTDSARdpe.S
  32 ...SDV...-VYDA.IvaA.....TGD-.VRI.E.AG.E.G.DGGaRI--------....-
  33 ...IK-...TPLTS.L..P.....SGTI.VEV.D.GT.A.G.TLT.IPDEKVNQV-....-
  34 ...SGF...DPFEQ.I..Q.....DGDL.VRI.D.GE.N.G.TIT.LTPGQA----....-
  35 ...ID-...--IEE.I..K.....TGDR.IVV.D.GN.T.G.VVK.ILNK------....-
  36 ...VSQ...GQFED.I..E.....NQKY.LSV.R.GP.E.L.LTS.DEPLPLLEASppqv-
  37 ...PER...DLVEE.L..S.....TGDV.VKL.-.LP.G.G.KVE.V---------....-
  38 ...NPE...DFCEA.L..Gw....DGKT.VHI.R.GE.L.V.SDA.PLKADSANGAakpt-
  39 ...TD-...DVYDA.IvaA.....TGE-.VRI.E.AR.E.G.DGGaRI--------....-
  40 ...LDA...ETFSR.F..S.....RAAH.VSI.D.QN.T.I.KAD.GVSLAIAPPAtahl-
  41 ...LSA...AEYDR.L..A.....QQSH.ATI.T.AT.H.L.RAG.DLEVPLTSVAsegl-
  42 ...LSA...AEYAA.L..A.....MEPS.AEV.T.PE.R.L.TAG.ALSLTLEPLSgetl-
  43 ...APE...A-FAA.L..A.....RAKT.ARI.G.DR.A.I.EAE.GLTIPVVPPAtval-
  44 ...VN-...--IDE.I..K.....DGDI.VVV.D.GN.T.G.TVK.IKEQ------....-
  45 ...LPP...EFFER.V..R.....DGYR.VRV.H.SD.-.G.LVE.VLGPGQP---....-
  46 ...CD-...--IAG.I..A.....SGDR.IAI.RvGE.Q.G.EAV.IHKA------....-
  47 ...CD-...--IAG.I..G.....DGDV.VAI.D.ASaD.G.---.----------....-
  48 ...VDD...DVFDT.Ly.R.....CTQP.IQI.D.AP.H.E.GG-.----------....-
  49 ...FDV...DPWTV.I..Q.....TGDY.VKI.T.AP.KaG.DEG.IIKIYPKDPArra.E
  50 ...FRE...SPRSA.V..R.....TGDV.VEL.D.GI.S.G.ELK.VLRRGAGGQ-....-
  51 ...FDA...RLLQA.I..A.....SGAA.LRL.D.PA.A.K.SIA.LLG-------....-
  52 ...LGK...EFLAA.V..K.....SGSR.VQV.K.-E.N.G.EVI.IED-------....-
  53 ...LEE...GCVNIdL..E.....TGAY.DKC.-.--.-.-.---.----------....-