(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:

    • T0437 SfR90 , Shigella flexneri, 99 residues
    • gi|168177035|pdb|2JZ5|A_3:82 Chain A, Nmr Solution Structure Of Protein Vpa0419 From Vibrio Parahaemolyticus. Northeast Structural Genomics Target Vpr68 [Taxonomy] 
              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 MKDVVDKCSTKGCAIDIGTVIDNDNCTSKFSRFFATREEAESFMTKLKELAAAASSADEGASVAY
   2 --RCSAEETAACCCIDVGTIMDNTDCTASYSCVFDNRVEAEAMLKTLTEKARAV--ESEPCLIEH
   3 --RCSAEETAACCCVDVGTVMDNTDCTASYSCVFENRAEAEAMLKMLTEKARAV--ESEPCLIEH
   4 ---CSAEETAACCCVDVGTVMDNTDCTASYSCVFDNRAEAEAMLKTLTEKARAV--ESEPCLIEH
   5 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFATRAEAEGTLAALTEKARSV--ESEPCQITP
   6 ---CSAEETAACCCVDVGTVMDNTDCTASYSCVFDNRAEAEAMLKTLTEKARAV--ESDPCLIEH
   7 --RCSAEETAACCCVDVGTVMDNTDRTASYSCVFASRHEAEAMLKTLTDKARAV--ESDPCLIEH
   8 --RCSAEETAACCCVDVGTVMDNTDRTASYSCVFASRHEAEAMLKTLTDKARAV--ESDPCLIEH
   9 --RCSAEETAACCCVDVGTVLDNKDCTASYQHVFASHEEAESMLKQLTEKAKSV--ESEPCAIDH
  10 --KCSAQETAACCCVDVGTVMDNTDCTASYSQVFTNQQDAEKMLAALTEKARGV--ESDPCDISS
  11 -VKCKAEESLTCSCVDVGTIIDGSDCTVEVHQFYSTEADANAALERLTKKARDI--ESDPCEIKS
  12 --KCNPEEAKACCCVDVGTIIDGSDCTVEFEQVYASQAQAEEALAYLTEKAKAA--ESDPCEITS
  13 -VKCKAEESLTCSCVDVGTIIDGSDCSVEVHQFYSTEADANAALERLTKKARDT--ESDPCEIKS
  14 -VKCKAEESLTCSCVDVGTIIDGSDCSVEVHQVYSTEADANAALERLTKKARDI--ESDPCEIKS
  15 -VKCKAEESLTCSCVDVGTIIDGSDCSVEVHQFYSTEADANAALERLTKKARNT--ESDPCEIKS
  16 -TKCSADETPVCCCIDVGTIIDNTDCVASYSRVFENRADAEATLAALTAKAREV--ESEPCQITP
  17 -KDVVDKCSTKGCAIDIGTVIDNDNCTSKFSRFFATREEAESFMTKLKELAAAASSADEGASVAY
  18 -KDVVDKCSTKGCAIDIGTVIDNDNCTSKFSRFFATREEAESFMTKLKELAAATSSADEGASVAY
  19 -VKCKAEESLTCSCVDVGTIIDGSDCSVEVHQVYSTEADANAALERLTKKARNI--ESDPCEIKS
  20 -VKCKAEESLTCSCVDVGTIIDGSDCSVEVHQFYSTEADANAVLERLTKKARNT--ESDPCEIKS
  21 -KDVVDKCSTKGCAIDIGTVIDNDNCTSKFSRFFATREEAESFMTKLKELAAATSSADEGVSVAY
  22 -SKCSADETPVCCCMDVGTIMDNTDCTASYSRVFSKRADAEETLSALTKRARDV--ESDPCEIKS
  23 -QDVVDKCSTKGCAIDIGTVIDNDNCTSKFSRFFATREEAESFMTKLKELAAAASSADEGASVAY
  24 -VKCKAEESLTCSCVDVGTIIDGSDCSVEVHQFYSTEADANAALERLMKKARNT--ESDPCEIKS
  25 -VKCKAEESLTCSCVDVGTIIDGSDCSVEVHQVYSTEADANAALERLTKKARNT--ESDPCEIKS
  26 -KRCSTRETAACCCVDVGTILDNGDRTASYSQVFPHQDHAEAMLSHLTDKARAV--ESDPCLIES
  27 -KDVVDKCSTKGCAIDIGTVIDNDNCTSKFSRFFATREEAESFMTKLKELAAAASSADEGASVAY
  28 --RCSAEETAACCCIDVGTIMDNTDCTASYSCVFGNRADAEAMLKSLTEKARAV--ESEPCLIEH
  29 -VKCKAEESLTCSCVDVGTIIDGSDCSVEVHQFYSTEADANVALERLTKKARNI--ESDPCEIKS
  30 --SDKPVECVGCNTFDVGSIIDNSERDAKFEKVYETQAEAEQALVKLTQKARDT--ESEPCEITS
  31 --KYKAEESLTCSCVDVGTIIDGSDCSVEVHQVYSTEADANAALERLIKKARDT--ESDPCEIKS
  32 --KCKADEVQACCCVEIGTIIDGKDCTVDVDYHYDNKGLAQKALDYFTEKARAA--ESEPCRIKS
  33 -KDVVDKCSTKGCAIDIGTVIDNDNCTSKFLRFFATREEAESFMTKLKELAAAASSADEGASVAY
  34 -KNDKPVECVGCNTFDVGSILDNSDLKADFDKVYPTRAEAEAALAKLTQKARDT--ETEPCQIQS
  35 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFANRAEAEQTLAALTEKSRSV--ESEPCKISP
  36 --SDKPIECVGCNTFDVGSIIDNSERDAKFEKVYATQEQAEAVLAKLVQKARDT--ETDSCEISS
  37 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFANRAEAEQTLAALTEKARSV--ESEPCKITP
  38 -NKCSAEETAACCCVDVGTIMDNTDCTASYSNVFGDRSDAEATLAALTEKARAV--ESEPCEIAS
  39 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFANRAEAEQTLAALTEKSRSV--ESEPCKISP
  40 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFANRAEAEQTLAALTEKARSV--ESEPCKITP
  41 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFANRAEAEQTLAALTEKARSV--ESEPCKISP
  42 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFATRAEAEETLAALTEKARSV--ESEPCQITP
  43 -KDVVDKCSTKGCAIDIGTVIDNDNCTSKLSRFFATREEAESFMTKLKELAATASSADEGASVAY
  44 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFATRAEAEETLAALTEKARSV--ESEPCQITP
  45 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFANRAEAEQTLAALTEKARSV--ESEPCKISP
  46 -SKCSADETPVCCCMDVGTIMDNSDCTASYSRVFANRAEAEQTLAALTEKARSV--ESEPCKISP
  47 -KDVVDKCSTKGCAIDIGTVIDNDNCTSKFSRFFATREEAESFMTKLKELAAATSSADEGASVAY
  48 -VKCKAEESLTCSCVDVGTIIDGSDCSVEVHQFYSTEADANVALERLTKKARDT--ESDPCEIKS
  49 ---------------DVGTIVDNTDCTASYSRVFANRAEAEQTLAALSEKARNV--ESEPCQINP
  50 --SDKPIECVGCNTFDVGSILNNDELEAKIEKVFAGKEEAEQGLAALTAKARDI--ESEPCKISS
  51 --EESQVCEACGCAGEIGFIIKEGDEVADVTIFAETKDALESELAKYIELAKSVCAGVEYNVSEL
  52 --KCTPEETKACCCADVGTIIDNSELSVDFSQVYENETTAQEALAYLTEKARKA--ETESCDIRS
  53 -KNDKPIECEGCNTFDVGSILDNSETVATIQRTYESENEAKAALEKFTQKARDV--ESEPCEISS
  54 ---ENEVCEACGCAGEIGFIIREGDDVAEVSLFGSDKAHLEGKLAEYISLAKQVCANVEYEVAPV
  55 --------SSSCCSIDVGTIIDNSDCAVNFTQLYTTKEEAEDALAFLTSKARST--ESERCEITS
  56 ---NNDVCEACGCAGEIGFIIKEGDEVAEVTVYGNSKALIEAELAKYVELAKQVSSNVEFEASEM
  57 --EQNQVCEACGCAGEMGFIIKEGDDVADVTIFAETKAALEAELAKYIEMATAVCAGVEYNVSEL
  58 ---ENEVCEACGCAGEIGFIIREGDDVAEVSLFGSDKAHLEGKLAEYISLAKQVCANVEYEVAPV
  59 --KCSTNETAACCCVDVGTIIDNEDCKASFSRAFAERQQAESMLARLTEKARAV--ESDPCQIDA
  60 ---NNDVCEACGCAGEIGFIIKEGDDVAEVTVYGNSKALIEAEFAKYVELAKQVSSNVEYEASEM
  61 -KDVVDKCSTKGCAIDVGTIIDNEDCVYRAEKVFPNREEAESTVAAVRERAAAAAPASEPPQVDY
  62 --EQNQVCETCGCAGEMGFIIKEGDDVADVTIFAETKAVLETELAKYIEMATAVCPAVEYNVSEL
  63 --TEKPIECVGCNTFDMKSLFDNRDCSQVIEYIYDSEEQAQEALAFFTQKARDV--ESEPCEIQS
  64 ---NNDVCEACGCAGEIGFIIKEGDDVAEVTVYGNSKALIETEFAKYVELAKQVSSNVEFEASEL
  65 --TEKPIECVGCNTFDMKSLFDNRDCSQVIEYIYDSEEQAQEALAFFTQKARDV--ESEPCEIQS
  66 --TEKPIECVGCNTFDVKSLFDNRDCSQVIEYIYDSEEQAQEALAFFTQKARDV--ESEPCEIQS
  67 ---------------DVGTIMDNSDCTASYSRVFENRAQAEETLAALTEKARGV--ESEPCQITS
  68 ---KNQVCEACGCAGEIGFIIKEGDEVADVTVFAQTKTELESELQKYIELAKSVCADVEYNVSEI
  69 --TEKPIECVGCNTFDMKSLFDNRDCSQVIEYIYDSEEQAQEALAFFTQKARDV--ESEPCEIQS
  70 ----QADCCGGICKPSSTSMFDNADSTIELALVYPTQADAEQGLATLTAKAREV--ESDPCDISS
  71 ---ETQVCEACGCAGEIGFIIKEGDDVADVTIYAGSKELLQAEFAKYLELAKAVNENVEYNTTDL
  72 ---------------DVGTIMDNSDCTASYSRVFANRAEAEQTLAALTEKARSV--ESEPCKITP
  73 --EEPTVCDACGVAGEMGFIIKEGDDVAEVQLFSDSKAQLEVELQKYVELAQAVCKNVEFEVSPL
  74 ---------------DVGTIMDNSDCTASYSRVFATRAEAEETLAALTEKARSV--ESEPCQITP
  75 --TEKPIECVGCNTFDMKSLFDNRDCSQVIEYIYDSEEQAQEALAFFIQKARDV--ESEPCEIQS
  76 --TEKPIECVGCNTFDMKSLFDNRDCSQVIEYVYDSEEQAQEALAFFTQKARDV--ESEPCEIQS
  77 --TEKPIECIGCNTFDMKSLFDNRDCSQVIEYIYDSEEQAQEALAFFTQKARDV--ESEPCEIQS
  78 ---------------DVGTIMDNSDCTASYSRVFASRAEAEQTLAALTEKARSV--ESEPCKITP
  79 ---------------DVGTIMDNSDCTASYSRVFANRAEAEQTLAALTEKARSV--ESEPCKISP
  80 --TEKPIECVGCNTFDMKSLFDNRDCSQVIEYIYDSEEQAQEALAFFTQKARDV--ESEPCEIQS
  81 -----QACDACGVSAEMGFIIKEGDDVAEVSIFAQSKVALENEFNNYLALAKEVNANFEYQVSEL
  82 --TEKPIECVGCNTFDMKSLFDNRDCSQVIEYIYDSEGQAQEALAFFTQKARDV--ESEPCEIQS
  83 --TEKPIECVGCHIFDMKSLFDNRDCSQVIEYIYDSEEQAQEALAFFTQKARDV--ESEPCEIQS
  84 --EEYQVCEACGVSGELGFIIKENDDTADVQIFAQGKDALEVELANYLALAKEVNANYKVETTPV
  85 ---ENEVCEACGCAGEIGFIIREGDDVAEVSLFGSDKAHLEGKLAEYISLAKQVYANVEYEVAPV
  86 --EEYQVCDACGVSAEMGFIIKENDDTADVKVFANGKDALEIELSNYLALAKEVNANYKVETTPV
  87 --EQNVPCEACGCSAEMGFVIKEGDDVAEVSIFADNKVLLESEFSNYLALAKEVCADV-----EH
  88 ---------------EIGFIIKEGDEVADVTIFAETKDALESELAKYIELAKSVCAGVEYNVSEL
  89 --ELNETCDSCGCFAEIGTIIGEGDDLMELVIEAATEADARAKLAAYEALAKQV---TAEAMISS
  90 ----FQPCDACGVSAEVGFIIKEGDDVAEVSIFAQGKVALENEFNNYLALAKEVNANFEYQASEL
  91 ---QKVAEAHNMCRIKGDSMLDNSAREVVFEAEYDTEKQALNARDYFIQKARDI--ENDPANIES
  92 --ELNETCDSCGCFAEIGTIIGEGDDVMELVIEAAAEADARAKLAAYEALAKQV---TAEATSSS
  93 --QQKAAEAHNMCRLKGDSMLDNADRQIAFEAVYESEELAQQAVEFFAQKAKSV--ETEPCEIQS
  94 --QQKAAEAHNMCKLKGDSMLDNSDRQIAFEAVYDSEEQAQQAVEFFTEKAKSV--ETEACVIQH
  95 ----TDVCEACGSFVELGSVINADDTVFVLPFKGSSLDGVNKMAKKYIDAAKKR---FESVIIST
  96 ------------------SLFDNRDCSQVIEYIYDSEEQAQEALAFFTQKARDV--ESEPCEIQS
  97 ----DDICEACGSFVELGSVISDDDTVLVLPFTGKESVAVTALAIKYIDAAKTR---FDSVVVTE
  98 --------------------------------------------KTLTDKARAV--ESDPCLIEH
  99 -------------------------------------------LERLTKKARDT--ESDPCEIKS
 100 -----DTCNDCGSYADIGAVIDEFDTVLTLVREG---DKAQSELQALAEAAKQR-----FEGVES
 101 ----NDTCTDCGSFVDIGAVIDEQDTVLELSFAG---AEAEVEATKMLERAQARFSQT-----QG
 102 -----------------------------------------------------------------
 103 ---------------------------------------------------------------TT
 104 -----DIKDCCGAFAEIGSIIHPDDTELSFPISFDSQLAVDEKRSELEAYVEEQ--FDEAV--TI


         70        80        90         
         |         |         |         
   1 KIKDLEGQVELDAAFTFSCQAEMIIFELSLRSLA
   2 KLEETDGGVRLTVDFTFACQAETMIFQLGLR---
   3 KLEETEGGVRLTIDFTFACQAETMIFQLGLR---
   4 KLEEAEGGVRLTIDFTFACQAETMIFQLGLR---
   5 TFTEESEGVRLDIDFVFACEAETLIFQLGLR---
   6 KLEESEGGVRLTVDFTFACQAETMIFQLGLR---
   7 KLEDVEGGVRLTIDFTFACQAETMIFQLGLR---
   8 KLEDVEGGVRLTIDFTFACQAETMIFQLGLR---
   9 SITNVEGGVELSANFTFSCEAESLIFQLGLR---
  10 SIKPVDGGVELVADFTFACQAETFIFQLGLR---
  11 EIVAVENGVQLNASFTFSCQAEAMIFELAN----
  12 DISAVEQGALLKAQFVFSCQAEAMIFQLSTR---
  13 EIVAVENGVQLNASFTFSCQAEAMIFELAN----
  14 EIVAVENGVQLNASFTFSCQAEAMIFELAN----
  15 EIVAVENGVQLNASFTFSCQAEAMIFELAN----
  16 RFTEEADGVRLDIDFVFACQAETVIFQLGLR---
  17 KIKDLEGQVELDAAFTFSCQAEMIIFELSLRSLA
  18 KIKDLEGQVELDAAFTFSCQAEMIIFELSLRSLA
  19 EIVAVENGVQLNASFTFSCQAEAMIFELAN----
  20 EIVAVENGVQLNASFTFSCQAEAMIFELAN----
  21 KIKDLEGQVELDAAFTFSCQAEMIIFELSLRSLA
  22 TLTEVEGGVKLDIDFIFACEAETLIFQLGLR---
  23 KIKDLEGQVELDAAFTFSCQAEMIIFELSLRSLA
  24 EIVAVENGVQLNASFTFSCQAEAMIFELAN----
  25 EIVAVENGVQLNASFTFSCQAEAMIFELAN----
  26 QFHQTPAGIQLACRFTFSCQAETMIFQLGLR---
  27 KIKDLEGLVELDAAFTFSCQAEMIIFELSLRSLA
  28 KFEEKDGGVCLTIDFTFACQAETMIFQLGLR---
  29 EIVAVENSVQLNASFTFSCQAEAMIFELAN----
  30 EIKAVEGGFLLDANFRFSCQAEVVIFQLGTR---
  31 EIVAVENGVQLNVSFTFSCQAEAMIFELAN----
  32 EIIESAHGAQLKAQFTFSCQAEAMIFQLSTR---
  33 KIKDLEGQVELDAAFTFSCQAEMIIFELSLRSLA
  34 EINEAEGGFRLKAGFVFSCQAEAVIFQLGTRS--
  35 TFTEESDGVRLDIDFTFACEAEMLIFQLGLR---
  36 NILPVEAGFLLTANFDFSCQAEVVIFQLGTR---
  37 TFTEESDGVRLDIDFTFACEAEMLIFQLGLR---
  38 TLEDVDGGVKLDIDFTFSCQVETMIFQLGLR---
  39 TFTEESDGVRLDIDFTFACEAEMLIFQLGLR---
  40 TFTEESDGVRLDIDFTFACEAEMLIFQLGLR---
  41 TFTEESDGVRLDIDFTFACEAEMLIFQLGLR---
  42 TFTEESEGVRLDIDFVFACEAETLIFQLGLR---
  43 KIKDLEGQVELDAAFTFSCQAEMIIFELSLRSL-
  44 TFTEESEGVRLDIDFVFACEAETLIFQLGLR---
  45 TFTEESDGVRLDIDFTFACEAEMLIFQLGLR---
  46 TFTEESDGVRLDVDFTFACEAEMLIFQLGLR---
  47 KIRDLEGQVELDAAFTFSCQAEMIIFELSLRS--
  48 EIVAVENGVQLNASFTFSCQAEAMILN-------
  49 TFTDVDGGVQLDIDFVFSCEAESLIFQLGLR---
  50 EITPVDGGYKLTASFEFSCQAEVVIFQLGTRS--
  51 ----TEESKELTARFKFEVSAEKLIFELKTRSLA
  52 EIKEVNGNYQLNATFTFSCQAETLIFQLSIR---
  53 EITPIESGFELVAHFKFSCQAEVVIFQLGTR---
  54 ----ADNATELHARFKFEVSAEKLIFELKTRALA
  55 EIISTENGFQLTACFKFSYQVESMIFELGMR---
  56 ----TEDSTELHARFKFEVSAEKIIFELKTRSLA
  57 ----TEESKELTARFKFEVSAEKLIFELKTRSLA
  58 ----ADNATELHARFKFEVSAEKLIFELKTRALA
  59 RIDPQDNGFVLDADFTFCCQAETLIFQLGLR---
  60 ----TEESTELHARFKFEVSAEKIIFELKTRSLA
  61 TIVAAGDAVKLDLSIAFSCQAEKIIFELSLRNL-
  62 ----TEESRELTARFKFEVSAEKLIFELKTRSLA
  63 EITKVDDGYLLKANFTFCCQAELVIFQMR-----
  64 ----TEESTELNARFKFEVSAEKIIFELKTRSLA
  65 EITKVDDGYLLKANFTFCCQAELVIFQMR-----
  66 EITKVDDGYLLKANFTFCCQAELVIFQMR-----
  67 TFTEEAEGVRLDIDFVFACEAETLIFQLGLR---
  68 ----TEESNQATARFKFEVSAEKLIFELKTRSLA
  69 EITKLDDGYLLKADFTFCCQAELVIFQMR-----
  70 QISQTEDGFLLQAKFLFSCQAEAVIFQMKLR---
  71 ----TDDSTELTARFKFEVSAEKLIFELKSRSL-
  72 TFTEESDGVRLDIDFTFACEAEMLIFQLGLR---
  73 ----EESSKELTARFKFEVSAEKLIFELKTRSLA
  74 TFTEESDGVRLDIDFVFACEAETLIFQLGLR---
  75 EITKVDDGYLLKADFTFCCQAELVIFQMR-----
  76 EITKVDDGYLLKADFTFCCQAELVIFQMR-----
  77 EITKVDDGYLLKADFTFCCQAELVIFQMR-----
  78 TFTEESDGVRLDIDFTFACEAEMLIFQLGLR---
  79 TFTEESDGVRLDIDFTFACEAEMLIFQLGLR---
  80 EITKVDDGYLLKADFTFCCQAELVIFQMR-----
  81 ----TEESTELTARIKFECSAEKLIFELKSRSLA
  82 EITKVDDGYLLKADFTFCCQAELVIFQMR-----
  83 EITKVDDGYLLKADFTFCCQAELVIFQMR-----
  84 ----DENSTELTARIQFECSAEKLIFELRSRSLA
  85 ----ADNATELHARFKFEVSAEKLIFELKTRALA
  86 ----NADSTELTARIQFECSAEKLIFELRSRSLA
  87 SIVITEDEKELHARLKFSCSAEKLIYELKTRSL-
  88 ----TEESKELTARFKFEVSAEKLIFELKTRSLA
  89 ELSQGASGVILKARLQFTCTAEKLIFELRARS--
  90 ----TEESTELTAHIKFECSAEKLIFELKSRSLA
  91 QITDISNGFRLKMRIVFGCQAEVVLFQMAIR---
  92 ELSQGANGVILKARLQFTCTAEKLIFEMRARS--
  93 EITQIAEGFLMKMWITFSCQAEVILFQMAV----
  94 SISPIEDGFLMQMRIEFSCQAEVVLFQMAV----
  95 EETQKEEIFHIEVTFTFECTAEKLIFEMGL----
  96 EITKVDDGYLLKADFTFCCQAELVIFQMR-----
  97 QEITADDLVTLEVTFNFDCTAEKLIFEMGL----
  98 KLEDVEGGVRLTIDFTFACQAETMIFQLGLR---
  99 EIVAVENGVQLNASFTFSCQAEAMIFELAN----
 100 DIKAVEGA--LELRLTFGYSAEKMIFQL------
 101 NIVQDEAGVTLK--LVFDVSVEKMIFQL------
 102 EITKVDDGYLLKADFTFCCQAELVIFQMR-----
 103 EITKVDDGYLLKADFTFCCQAELVIFQMR-----
 104 NFTAQDEHTYL-VTLSFTCTAEKMIFEMNLRHL-