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

Citations (SAM, SAM-T99, HMMs)

Sequence numbers correspond to the following labels:

    • T0404
    • gi|88192703|pdb|2CZ4|A_22:118 Chain A, Crystal Structure Of A Putative Pii-Like Signaling Protein (Ttha0516) From Thermus Thermophilus Hb8 [Taxonomy]
    • gi|88192704|pdb|2CZ4|B Chain B, Crystal Structure Of A Putative Pii-Like Signaling Protein (Ttha0516) From Thermus Thermophilus Hb8 [Taxonomy]
    • gi|88192705|pdb|2CZ4|C Chain C, Crystal Structure Of A Putative Pii-Like Signaling Protein (Ttha0516) From Thermus Thermophilus Hb8 [Taxonomy] 
              10        20        30           40        50        60  
              |         |         |            |         |         |  
   1 MSKRANKLVIVTEKVLLKKVAKIIEEAGATGYTVV.D.T.GGKGSRNVRSTGKPNTSDTDSNVKF
   2 --KPAKKLVIITEKLLLKKIAKIIDEAGATGYTVL.E.T.GGKGSRNMRSSGQPSVSDTTSNIKF
   3 --KPAKKLVIVTEKILLKKIANIIEESGATGYTVL.E.T.GGKGSRNVRSTGQPNVSDTQANIKF
   4 --KPAKKLVIVTEKLLLKKIAQIIDEAGATGYTVV.D.A.GGKGSRNVRSSGQPSVSDTFSNIKI
   5 --KPAKKLVIVTEKILLKKVAKIIEECGASGYTVM.D.T.GGKGSRNVRSSGQPHVSETDSNVKF
   6 ---RANKLVIVTEKVLLKKVAKIIEEAGATGYTVV.D.T.GGKGSRNVRSTGKPNTSDTDSNVKF
   7 -TQKACKLIIVTEKVLQNKITQIIDAAGATGYTVV.S.A.GGRGSRNVRSSGQPNVSDTYSNIKI
   8 -TQQAIKLVIVTEKLLLKKIAKIIDGVGATGYTVV.P.A.GGKGSRNVRSSGQPNVSDTSSNVKI
   9 -TQKASKLVIVTEKVLLKKVAKIIDKAGATGYTVV.A.A.GGKGSRGVRSSGQPSVNDTFTNVKF
  10 --KPANKLVIVTEKILLKKIAKIIDESGAKGYTVM.N.T.GGKGSRNVRSSGQPNTSDIEANIKF
  11 -TQKASKLVIVTEKVLLKKVAKIIDKAGATGYTVV.A.A.GGKGSRGVRSSGQPTVGDAFSNVKF
  12 -TQKASKLVIVTEKVLLKKVAKIIDEAGATGYTVV.A.A.GGKGSRGVRSSGQPTVGDTFSNVKF
  13 -LVPLKLVTIVAESLLEKRLVEEVKRLGAKGYTIT.P.A.RGEGSRGIRSVDWEGQNIRLE----
  14 -LVPLKLVTIVAESLLEKRLVEEVKRLGAKGYTIT.P.A.RGEGSRGIRSVDWEGQNIRLE----
  15 -TQKACKLVIVTEKLLLKKIGKIIDEAGATGYTVV.A.A.GGKGSRGVRSSGQPIVGDTFSNVKF
  16 -LVPLKLVTIVAESLLEKRLVEEVKRLGAKGYTIT.P.A.RGEGSRGIRSVDWEGQNIRLE----
  17 --TTVRLVTIIAEPVLKDRLIHEIHALGAHGYTIS.E.V.HGEGTRGIHASQWQGGNIKIE----
  18 --HNRTLLTVICEAALEHKLEADLKTLGAPGWTLS.D.A.RGSGSRGVRSAGWETDGNIRLEV--
  19 -LYTMKKVEVIIEGEYLEFVTELLERAGVPGYTIVhN.L.SGKGSHGFHEGHLLFNEEE---VLV
  20 --TTVRLVTIIAEPVLKDRLIHEIHALGAHGYTIS.E.V.HGEGTRGIHASQWQGGNIKIE----
  21 -LYQMKKVEIIVRGEDLDFVLDLLEKAGVKGYTIIhN.L.SGKGSHGFHEGHLLFNEED---VLD
  22 --HNRTLLTVICEAALEKRLLADLETLGAPGWTIS.D.A.RGRGHRGVRSAGWDTEGNIRLE---
  23 -LHPLKKLEFILEGAHKEFVTDLLDRAGVKGYTIVgN.L.SGKGSHGLYGGHLMFNEDD---VLI
  24 NTHPCKLVVIIAEEALEGPLAKDVMALGAHGYTVS.D.V.RGCGSHGMRSGVWDADSSIR-----
  25 --TTVKLVTIISEAILEERILHDLRKLGARGYTVG.E.V.RGEGTRGVHASEWEGKSLRIE----
  26 --TTVKLVTIIAEAVLEDRLLHDLRHLGARGYTVG.T.V.RGEGTRGIHASEWEGKSLRIE----
  27 --HTRKLLTVITEAALESTLVRDLDRLNAHGYTIT.D.A.RGKGSRGVRDAGWEANSNIRIE---
  28 -LSPLKKLEIIVGGEHQEFATDILDRAGVKGYTIInN.L.SGKGRHGFHEGHLMFNEDD---VLI
  29 -TQQASKLVIVTEKLLLKQIAKIIDEAGATGYTVV.D.A.GGKGSRNVRSSGQTTVSDTYSNIKF
  30 -LSPLKKIEIILEGAHQEFATDLLDRAGVTGYTIVgN.L.SGKGRHGFHEGHLMFNEDA---VLI
  31 ---------IVGEEILSKKLIKLIKAAGATGYTVN.A.A.GGEGSRNVRSTGDPVVSHTLSNVKI
  32 -TFEMKLVVIITEDELEPRLTKEIMALGARGYTVS.R.V.QGEGWHGARKSEWEGENVRIE----
  33 --ETRTLLTVITEANLEPTLLRTLTREGLRGYTIT.D.A.RGRGDHGERNASWSESGNIRLEA--
  34 ---IRTLLTVITEANLEPTLLRTLTREGLRGYTIT.D.A.RGRGDHGERNASWSESGNIRLEA--
  35 -LYTVKKVEIVVGGEHLKFVKTLLDDVRVSGYTIIpN.V.SGKGHSGFHEGHLMFNDVN---TLV
  36 -LEKAKLITIIADEALQDRLVAELKSANVKGYTIS.E.A.KGEGINHSHLSSWEGKNIRLE----
  37 --IELAKVIVITEAHYEQEMLTSFQKLGIKGFTCM.N.C.WGQGHHQVYDEPFMDHSQTRIEM--
  38 --NEGILFTIICEAFLQDRLVHLLQTIGVSGYTII.P.A.QGAGSHGKRMGDIAGYNTN-----I
  39 --NEGILFTIICEAFLQDRLIHLLQTIGVSGYTII.P.A.QGAGSHGRRIGDIAGYNTN-----I
  40 --KQGILVTIIGEAVLQNRLVNLLQTIGVSGYTII.P.A.QGAGSHGKRMGDVAGYNTN-----V
  41 ---QGILVTVICEAVLQHRIVQLLDTVGASGYTII.P.A.QGAGSYGQRMGDIEGFNTN-----I
  42 -THKAKRVEITIEAVMESRLTQALIGAGVTGFTVL.PvL.GGSGRSGQWSRE---GQVTRAGGMV
  43 ----RKKLIAIVETPHLKRLIDLFRQCGVTGFTVL.EgR.EGSGLG----GDWTREDVLDATEMK
  44 --FAKKQIQIICERPILKRVQRHLAANGVTGFTVF.PaL.SGSGSEGEWDREGMIGDAGQ---MV
  45 -TVTRKRIEILADKALQRRVTDAIDRIGITGWTIV.PvT.SGKGREGVWREESVMGTD-----KV
  46 -LYNVKLLTITCEILAQENIIEILKKHEITGYTTY.E.V.DGNGARGLRGQGLKTEKNVKVE---
  47 -TFPKKRIEIVVEAPLLRRLTSRLDEAGATGWSVV.PiL.AGHGRDGDWTAEGQISSASQ---ML
  48 -THIAKRVEIVIEAPLERRLTEALTAAGVTGYTVL.P.VlGGSGRSGQWSRDGQI----GRAGMV
  49 ---PAKLVSIVTEAAVETLLLREIEAMGIDGYTIA.D.V.RGRGTGGRRSGSWDASASIRVDV--
  50 -FEQRKKIEILIEAVKLDSVIYQLEEIGVPGYTVVgN.I.SGKGANGVLDHNCKAKVFEN----T
  51 --KPAVLVVIIGETVLQDRMIKLLQELGVTGYTLS.Q.A.QGAGRHGNRQGDMVGYNTN-----I
  52 ------RCELIIERMAAPRAFRILEDAGLTGYTVL.PaI.SGFGGATRWNRDTDMSASS---DMV
  53 -----KKIEVITNSLELPKVLEILEKYGVSGYTVIeT.V.TGQGHRGKVIDDLETHILT----NG
  54 -------LDLICSERELERVVHLIDTAGAPGYSVVrH.V.TGRGPHGSVSESMEFSGLG---ANV
  55 -----KRLDLIVSERELESVIKALDEAGAPGYSVIrP.V.TGRGPDTYVTEGMDFSGLGA---NA
  56 -----KRLDLIVSERELDSVIEALDKAGAPGYSVIrP.V.TGRGPDTYVTEGMDFSGLGA---NA


            70        80        90        100       110
            |         |         |          |         |
   1 EVLTENREMAEKIADQVAIKFFTDYAGIIYICEA.EVLYGRTFCGPDGC
   2 EVLTENQEMALEISDKIAVQFFNDYAGIAYICDA.EVLYAHKFCGPEGC
   3 EVLTPDRDMAENIADQVAVKFFLDFAGMIYICDA.EVLYGHSFCGPDGC
   4 EVLTETREMAIQISDEVAAQFFDDYSGIAYLCDA.EVLSAHKFCGPDGC
   5 EILTPDRIMAQNIAKQVADQFFLNFAGMIYLCDA.EVLYGQSFCGPEGC
   6 EVLTENREMAEKIADQVAIKFFTDYAGIIYICEA.EVLYGRTFCGPDGC
   7 EVLTIDRELALKIADEVAEQFFDNYSGISYISDA.EVLHAHQF------
   8 EVLTASREMALKISDEVAAQFFDDYSGITYICDA.EVLYAHKF------
   9 EILTPNRDMAVNISDEVAAQFFDDYSGIAYICDV.--------------
  10 EILTETREMAEEIADRVAVKYFNDYAGIIYICSA.EVLYGHTFCGPEGC
  11 EVLTPNRDMAVKISDEVAAQFFDDYSGIAYICDV.--------------
  12 EVLTPNRDMAVKISDLVAAQFFDDYSGIAYICDV.--------------
  13 --TIVSEEVALRILQRLQEEYFPHYAVIAYVENV.WVVRGEKY------
  14 --TIVSEEVALRILQRLQEEYFPHYAVIAYVENV.WVVRGEKY------
  15 EVLTPSRDMAVKISDDVATKFFDDYSGIAYICDV.--------------
  16 --TIVSEEVALRILQRLQEEYFPHYAVIAYVENV.WVVRGEKY------
  17 --TLVSPEVADRIMDAMADHYFPNYAVIAYVSDV.QVVRGEKF------
  18 ---ICSRDVAERIAEHLQARYYANFAMVCYLSEV.EVLRPEKF------
  19 MVISVMSEEKVGIFLEGLRPFLNKHSGVVFVSDV.QVSRLEKF------
  20 --TLVSPEVADHILEAMADHYFPNYAVIAYVTDV.QVMRGEKF------
  21 MVISVMPEEKVEAILEGLTPFFNKHSGVVFVSDV.QVSRLEKF------
  22 --IICNRELAERIAEHLQVRYYDHFAMVCYLAQV.EVLRGEKF------
  23 MIIAAVPQSLVDPLLDGFQPFFDAHSGVIFVSDI.QVGRPVKF------
  24 MEILCDADTSLAITRHVEDAYFRNYAMVTYVADV.GVLRPEKF------
  25 --TLVKPEVAEQILQHLAHTYFPHFAVIAYMTDV.QVVRGDKFHG----
  26 --TLVNAEVAEKILQHLATAYFPHFAVIAYAMDV.QVVRGAKFKGGGG-
  27 --IVCDAETATAIASYLREHYYDDYAMILFMSNI.DVLRSEKF------
  28 MIIVAVPKELVNPILEGLAPFYNEHSGVVFISDI.QVTRLVKF------
  29 EVLTPNRDMAVKISDEVAAQFFDDYSGIAYLCDVmEVLHA---------
  30 MIIVAVPAELVEPILEGFSPFFGTHTGVMFISDI.QVSRLVKF------
  31 EVLTGTRELADKIVHEIEAKYYADYSIITYIYQV.EALRDHKF------
  32 --TIVPETVANSILAHLAERYLPHFATVVYVQTV.NILRVEKF------
  33 ---ICSREQAERLLAHLQSRYYPDYAMIAFLQPV.EIVRPEKF------
  34 ---ICSREQAERLLAHLQSRYYPDYAMVAFLQPV.EIVRPEKF------
  35 MVITVVPETWVETILAGLAPLFERYSGVVFVSDV.QVSRREYFG-----
  36 --SLVSEGKALKIFQIISEKYLEKYPMVIFMNDV.DVIRKERF------
  37 ---ITTDEIADSIVDFCRQPRFETHAITVYLESV.RVRDPDKF------
  38 EVKTIVTPEKSDQLLDALDHFEISHALIAFRQKV.DGL-----------
  39 EIKTIVTSEKSDQLLDELNQFETNRALIAFRQKV.DGL-----------
  40 EIKSIVTPDESEQLFEKLEQFQTTHALIAFRQKV.EG------------
  41 QVKTIVSLEASDQILEDLQQYRESHALIAFRQQV.DGL-----------
  42 SVVCIIREERLDDLLDAAFAVVERHIGVVAITDC.EVLRAERF------
  43 VVLSVMKPETAEKVFELAEPFFARYPGIIYAHDV.EVVRGERF------
  44 KVLVVLDAEELDHVLTDIFDVVSPQMGVITISDV.SVVRPDRF------
  45 LVLTIAAEDKAMALAEELAPMLTHLGFVLSMWDV.QVIRGERF------
  46 --VIMREEKLQDIVEEISRTLFANYAIVLYVSDV.GVLRPEKF------
  47 MLISIVDAARLDTVLEAVFALVSHQIGFVAVSDI.AVVRPERF------
  48 TVVCLIKPDRLDGLLDAIFAVVKKHIGVVSVTDA.HVLRAERF------
  49 ---VCAPVRAEALALRVKERFAPGYALFIFICDA.W-------------
  50 YIFTVCTAAQATKVLEYLDEVLHYFSGACFISDV.QVLN----------
  51 EIKTVVSQEVSEAIFSGLVEYQANHALIAFRQNV.EAL-----------
  52 VIVSIGAQDRIDAALTEIERLLSNHIGVLSVGEV.RVLRPGRF------
  53 YVMSICTEAQEQALVEAIQPVIKKYGGVCIVSD-.--------------
  54 HVIVFCESEALETLRQGLRPILEYYGGVGFVSQ-.--------------
  55 HVIVFCEIEVLEKLRVSINPILNYYGGVAYVA--.--------------
  56 HVIVFCEIEVLDKLRVTINPILNYYGGVAYVA--.--------------