Query gi|254780520|ref|YP_003064933.1| flagellar basal body rod modification protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 131 No_of_seqs 110 out of 613 Neff 5.5 Searched_HMMs 39220 Date Sun May 29 22:51:43 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780520.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 PRK06009 flgD flagellar basal 100.0 2.2E-38 5.7E-43 241.2 16.3 120 11-130 16-135 (135) 2 PRK09618 flgD flagellar basal 100.0 1.5E-35 3.9E-40 224.8 15.7 118 14-131 19-143 (146) 3 PRK11911 flgD flagellar basal 100.0 2.8E-35 7.1E-40 223.3 16.0 128 3-130 4-140 (140) 4 PRK12812 flgD flagellar basal 100.0 3.8E-32 9.7E-37 205.2 13.0 76 17-92 38-116 (259) 5 PRK12634 flgD flagellar basal 100.0 1.4E-31 3.6E-36 202.0 14.5 82 13-94 17-101 (221) 6 PRK06792 flgD flagellar basal 100.0 1.3E-31 3.3E-36 202.2 13.8 114 18-131 46-165 (190) 7 COG1843 FlgD Flagellar hook ca 100.0 1.9E-31 4.8E-36 201.2 13.0 90 16-105 22-114 (222) 8 PRK12813 flgD flagellar basal 100.0 2.4E-30 6.2E-35 194.8 14.4 75 18-92 25-102 (223) 9 pfam03963 FlgD Flagellar hook 100.0 2.2E-30 5.6E-35 195.1 14.0 80 18-97 21-103 (140) 10 PRK12633 flgD flagellar basal 100.0 2.1E-30 5.4E-35 195.2 12.6 82 16-97 19-103 (230) 11 PRK06655 flgD flagellar basal 100.0 3.9E-30 9.9E-35 193.7 12.6 80 18-97 26-108 (225) 12 PRK05842 flgD flagellar basal 100.0 3.1E-30 7.9E-35 194.2 11.4 66 11-76 15-80 (269) 13 PRK09619 flgD flagellar basal 100.0 3.1E-29 7.8E-34 188.5 12.8 78 19-96 26-106 (220) 14 TIGR02004 PTS-IIBC-malX PTS sy 66.6 4.1 0.0001 20.5 2.1 29 29-57 259-291 (540) 15 pfam11562 EDC3_LSm Enhancer of 33.1 37 0.00095 15.0 3.8 24 82-105 2-29 (84) 16 KOG2830 consensus 31.6 16 0.00041 17.1 0.4 39 22-69 29-67 (324) 17 COG1873 Protein implicated in 29.5 43 0.0011 14.6 6.4 52 80-131 6-72 (87) 18 pfam10842 DUF2642 Protein of u 24.6 48 0.0012 14.3 1.9 24 82-105 16-41 (66) 19 cd00213 S-100 S-100: S-100 dom 22.3 59 0.0015 13.8 2.8 25 14-38 18-42 (88) 20 pfam10748 DUF2531 Protein of u 22.0 46 0.0012 14.4 1.3 20 38-57 18-37 (133) 21 pfam05239 PRC PRC-barrel domai 21.7 60 0.0015 13.7 4.2 38 81-118 5-44 (77) No 1 >PRK06009 flgD flagellar basal body rod modification protein; Reviewed Probab=100.00 E-value=2.2e-38 Score=241.20 Aligned_cols=120 Identities=44% Similarity=0.690 Sum_probs=112.9 Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEE Q ss_conf 55555667733338899999999983299899988978999999999999999999999999999999764553226146 Q gi|254780520|r 11 QQEFSKSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELLKSNNLAQASSYIGKNI 90 (131) Q Consensus 11 ~~~~~~~~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~~~~~~~~a~sliGk~V 90 (131) ...++....+..||+|+|||||++||+||||++|||++||++|||||++|||+.++|+.|+.++.++++.+|++||||+| T Consensus 16 ~~~s~s~~~~~~l~~d~Fl~Ll~aQl~nQDP~~P~d~~e~~~QlAqfs~lEq~~~~n~~l~~ll~~~~l~qA~~lIGktV 95 (135) T PRK06009 16 ASSSTSAANKATVNYDSFLQLLVAQMKNQDPTQPMDSTQYMSQLATFSQVEQSVQTNSKLDTLLASSSLSQAEGLIGRTV 95 (135) T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCEEE T ss_conf 66665554313269999999999998348989999879999999999999999999999999999888887887628079 Q ss_pred ECCCCEEEEEEEEEEECCCCEEEEEECCEEEECCCCEEEE Q ss_conf 6389718999978886279669999789789623105860 Q gi|254780520|r 91 TNADGSISGVVNAIQVSSTGLTAITVDNTEIPITTGIRIS 130 (131) Q Consensus 91 ~~~~~~~~G~v~~V~~~~~g~~~~~v~~~~v~~~~v~~V~ 130 (131) +..||.++|+|++|++.++|.+....+|++|++..+++|+ T Consensus 96 t~~Dg~vtG~V~sV~~~~dg~~a~l~dG~~v~~~~gv~is 135 (135) T PRK06009 96 TSADGSITGVVKSVTIYSDGIIATLEDGKKVLLGPGVTIS 135 (135) T ss_pred ECCCCEEEEEEEEEEEECCCEEEEEECCCEEEECCCCEEC T ss_conf 7079748999999999389449998389889837871619 No 2 >PRK09618 flgD flagellar basal body rod modification protein; Provisional Probab=100.00 E-value=1.5e-35 Score=224.85 Aligned_cols=118 Identities=34% Similarity=0.541 Sum_probs=104.7 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHCCCEE Q ss_conf 55667733338899999999983299899988978999999999999999999999999999---999764553226146 Q gi|254780520|r 14 FSKSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELLK---SNNLAQASSYIGKNI 90 (131) Q Consensus 14 ~~~~~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~~---~~~~~~a~sliGk~V 90 (131) ..+..++++||||+|||||+|||+||||++|||++|||+|||||++|||+.+||++++.++. +.++.+|++||||+| T Consensus 19 ~~~~~~~~~L~kd~FLkLL~aQLqnQDP~~PmD~~efiaQmAqfS~lEq~~~mn~~l~~l~~~~~~~~~~~a~slIGk~V 98 (146) T PRK09618 19 AQRRSNKSNLGKDDFLKLLITQLQNQDPTNPMEDKEFIAQMAQFSSLEQMTNMNKSMQQFVKLQSSFTLLKYLEWIGKEV 98 (146) T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEE T ss_conf 34567633369899999999997248989998778999999999999999999999999999887899999985559878 Q ss_pred ECCC--C-EEEEEEEEEEECCCCEEEEEE-CCEEEECCCCEEEEC Q ss_conf 6389--7-189999788862796699997-897896231058609 Q gi|254780520|r 91 TNAD--G-SISGVVNAIQVSSTGLTAITV-DNTEIPITTGIRISN 131 (131) Q Consensus 91 ~~~~--~-~~~G~v~~V~~~~~g~~~~~v-~~~~v~~~~v~~V~d 131 (131) ++.+ | .++|.|.+|+...+|.+.+.+ +|+.|++..|+.|++ T Consensus 99 ~~~~~dg~~~sG~V~sv~~~~~g~v~~~ldnG~~i~~~~V~~V~~ 143 (146) T PRK09618 99 EWEHGDGEIVKGTVTSVKTGINGQVMVELDDGKWYVASNVTSVGL 143 (146) T ss_pred EEECCCCCEEEEEEEEEEECCCCEEEEEECCCCEECHHHCEEECC T ss_conf 997389988877899999865984999976994985798747334 No 3 >PRK11911 flgD flagellar basal body rod modification protein; Provisional Probab=100.00 E-value=2.8e-35 Score=223.33 Aligned_cols=128 Identities=34% Similarity=0.551 Sum_probs=107.8 Q ss_pred CCCCCCCCCCCC--CCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH Q ss_conf 455557665555--56677333388999999999832998999889789999999999999999999999999---9999 Q gi|254780520|r 3 INTEVNPTQQEF--SKSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQEL---LKSN 77 (131) Q Consensus 3 v~t~~~~~~~~~--~~~~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~---~~~~ 77 (131) |++..+|.+... .....+++||||+|||||++||+||||++|||++|||+|||||++|||+.+||+.++.+ +++. T Consensus 4 vs~~~~~~~~~~~a~t~~~~~~L~kd~FLkLl~~Ql~nQDP~~Pmd~~e~iaQlAqfs~lEq~~~mn~~l~~l~~~~~s~ 83 (140) T PRK11911 4 ISSLSGASQDTNNAVTSSVSKTLGKDDFMKLFLTSLQYQDPSSPLDTNEMMSQMAQLSLMEQVANMTTAVDKLSEQAQNS 83 (140) T ss_pred CCCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 35454667666777667512103988999999999614898999877999999999999999999999999999999889 Q ss_pred HHHHHHHHCCCEEECCC--C-EEEEEEEEEEECCCCEEEEEECC-EEEECCCCEEEE Q ss_conf 97645532261466389--7-18999978886279669999789-789623105860 Q gi|254780520|r 78 NLAQASSYIGKNITNAD--G-SISGVVNAIQVSSTGLTAITVDN-TEIPITTGIRIS 130 (131) Q Consensus 78 ~~~~a~sliGk~V~~~~--~-~~~G~v~~V~~~~~g~~~~~v~~-~~v~~~~v~~V~ 130 (131) ++.+|++||||+|++.+ | .++|+|++|++.++|......|| +.++++.|.+|+ T Consensus 84 ~l~qas~lIGK~V~~~d~dG~~~sG~V~sV~~~~~g~~l~l~dg~~~v~~~~V~~V~ 140 (140) T PRK11911 84 ALQSAVNFIGKDIKGVSLNGEVISGKVESVQQTTNGVMLKLKDNDSLVPMTYVTEIN 140 (140) T ss_pred HHHHHHHHCCCEEEEECCCCCEEEEEEEEEEEECCCEEEEEECCCEEEEHHHEEECC T ss_conf 999887333846788769998877888999982895699995399898857717549 No 4 >PRK12812 flgD flagellar basal body rod modification protein; Reviewed Probab=100.00 E-value=3.8e-32 Score=205.24 Aligned_cols=76 Identities=37% Similarity=0.567 Sum_probs=69.3 Q ss_pred CCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHCCCEEEC Q ss_conf 67733338899999999983299899988978999999999999999999999999999---99976455322614663 Q gi|254780520|r 17 SKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELLK---SNNLAQASSYIGKNITN 92 (131) Q Consensus 17 ~~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~~---~~~~~~a~sliGk~V~~ 92 (131) +..+++|+||+|||||++|||||||++|||++||++|||||++|||+.++|++|+.|.. ..+.++|++||||.|.+ T Consensus 38 ~np~s~LdkDaFLkLL~TQLqNQDPlnPMDn~eftaQLAQfSsvEqi~~lN~tL~sL~~~~~s~q~lqA~slIGK~V~v 116 (259) T PRK12812 38 SNPNSQLDKDAFLKLLLIELQHQDPTDPMDSDKMLTQTSQLAALEMQENTNTTMQKLVEQMQSSMSTSALSALGKMATV 116 (259) T ss_pred CCCHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEE T ss_conf 8860244288999999999731799998667999999998888999999999999999998778999998740847996 No 5 >PRK12634 flgD flagellar basal body rod modification protein; Reviewed Probab=99.98 E-value=1.4e-31 Score=201.99 Aligned_cols=82 Identities=30% Similarity=0.549 Sum_probs=72.8 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHCCCE Q ss_conf 5556677333388999999999832998999889789999999999999999999999999---9999976455322614 Q gi|254780520|r 13 EFSKSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQEL---LKSNNLAQASSYIGKN 89 (131) Q Consensus 13 ~~~~~~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~---~~~~~~~~a~sliGk~ 89 (131) .+...+.+.+||++|||+||+||||||||++|||++||++||||||+|||+.++|++|+.+ +.+.+..++++||||+ T Consensus 17 ~~~~~~~~~~Lg~~dFL~LL~tQLqNQDPl~PmD~~ef~aQLAQfS~vE~~~~~n~~l~~l~~~~~s~q~l~a~slIGk~ 96 (221) T PRK12634 17 SSKVAKKEEALGQADFLKLMTEQLQHQDPLKPMENSAFLGQLAQFSTVQGIGDLNTKVSNFSDSMNSDQVLKGAALVGHN 96 (221) T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCE T ss_conf 78888752101889999999999852899998866889999998999999999999999999999888998888631967 Q ss_pred EECCC Q ss_conf 66389 Q gi|254780520|r 90 ITNAD 94 (131) Q Consensus 90 V~~~~ 94 (131) |.+.+ T Consensus 97 V~v~~ 101 (221) T PRK12634 97 VLVPS 101 (221) T ss_pred EEECC T ss_conf 99738 No 6 >PRK06792 flgD flagellar basal body rod modification protein; Validated Probab=99.98 E-value=1.3e-31 Score=202.18 Aligned_cols=114 Identities=27% Similarity=0.482 Sum_probs=104.7 Q ss_pred CCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHCCCEEECC- Q ss_conf 77333388999999999832998999889789999999999999999999999999---99999764553226146638- Q gi|254780520|r 18 KSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQEL---LKSNNLAQASSYIGKNITNA- 93 (131) Q Consensus 18 ~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~---~~~~~~~~a~sliGk~V~~~- 93 (131) +....||||||||||++||+||||++|||+++||+|||||++||||++|+++++.| +++..+.++..+|||+|... T Consensus 46 ktpGvLgKDdFLKLLltQLqnQDPlnPMD~~qmmaQmAQfSsLEQmqNMtkaVdkL~~t~~~taldggmkflgkyv~g~~ 125 (190) T PRK06792 46 KTPGVMGKDDFLKLFLASFQHQDPFNAMDMNQMMNQTAQLSLMEQVQNMTKAVDKLQSTMYSTALDGGMKFLGKYVRGVS 125 (190) T ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 68873678899999999960179999657899999999998999999999999999999988776405888877750667 Q ss_pred --CCEEEEEEEEEEECCCCEEEEEECCEEEECCCCEEEEC Q ss_conf --97189999788862796699997897896231058609 Q gi|254780520|r 94 --DGSISGVVNAIQVSSTGLTAITVDNTEIPITTGIRISN 131 (131) Q Consensus 94 --~~~~~G~v~~V~~~~~g~~~~~v~~~~v~~~~v~~V~d 131 (131) +..++|.|++|++.+++.+.++++++.|+++.|.+||| T Consensus 126 ~~g~~v~g~v~~vrla~nn~vqlvv~~kvv~~r~v~~vsd 165 (190) T PRK06792 126 NDGKQVTGQVETVRLAENNDVQLVVDNKVVSLRFVERVSD 165 (190) T ss_pred CCCCEEEEEEEEEEECCCCCEEEEECCEEEEEEEEHHCCC T ss_conf 9887776556678731478158997686887630023266 No 7 >COG1843 FlgD Flagellar hook capping protein [Cell motility and secretion] Probab=99.97 E-value=1.9e-31 Score=201.25 Aligned_cols=90 Identities=47% Similarity=0.664 Sum_probs=78.0 Q ss_pred CCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHCCCEEEC Q ss_conf 6677333388999999999832998999889789999999999999999999999999999997---6455322614663 Q gi|254780520|r 16 KSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELLKSNNL---AQASSYIGKNITN 92 (131) Q Consensus 16 ~~~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~~~~~~---~~a~sliGk~V~~ 92 (131) ....+..|+||+|||||+||||||||++|||++|||+|||||++|||+.+||+.|+++..+... .+|++||||.|.+ T Consensus 22 ~~~~~~~l~kd~FLkLLiaQLknQDPtnPmd~~q~isQmAQfS~vEq~~nmn~~l~~l~~~~~~~~~l~a~~lIGk~V~v 101 (222) T COG1843 22 STSSNASLGKDDFLKLLIAQLKNQDPTNPMDNTEFISQLAQFSQVEQMENMNTTLESLSSQMTSSQTLQASNLIGKTVMV 101 (222) T ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEE T ss_conf 46665442688899999999742799998760479999998988999999999999999876420456777405857996 Q ss_pred CCCEEEEEEEEEE Q ss_conf 8971899997888 Q gi|254780520|r 93 ADGSISGVVNAIQ 105 (131) Q Consensus 93 ~~~~~~G~v~~V~ 105 (131) +++.+++....+. T Consensus 102 ~~~~~~~~~~~~~ 114 (222) T COG1843 102 ADGKVTLVDGTVK 114 (222) T ss_pred ECCCEEEEEEEEE T ss_conf 0671365200478 No 8 >PRK12813 flgD flagellar basal body rod modification protein; Reviewed Probab=99.97 E-value=2.4e-30 Score=194.83 Aligned_cols=75 Identities=40% Similarity=0.562 Sum_probs=67.2 Q ss_pred CCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHCCCEEEC Q ss_conf 7733338899999999983299899988978999999999999999999999999999---99976455322614663 Q gi|254780520|r 18 KSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELLK---SNNLAQASSYIGKNITN 92 (131) Q Consensus 18 ~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~~---~~~~~~a~sliGk~V~~ 92 (131) ......++|+|||||+|||||||||+|||++||++|||||++|||+.++|++|+.|.. +.+..++++||||+|.+ T Consensus 25 ~~~~~~d~d~FLkLL~tQLqNQDPl~PmDn~ef~sQLAQfS~vEq~~~~n~~l~~l~~~~~s~~~~qa~~lIGk~V~~ 102 (223) T PRK12813 25 DSALTSDFETFLRMLTTQLQNQDPLNPMDSSDYAAQLATFSGVEQQVKTNDLLTGLGASLGSMGLSQLAGWIGREARA 102 (223) T ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEE T ss_conf 432200499999999999851899999887899999998998999999999999999998878999999755977997 No 9 >pfam03963 FlgD Flagellar hook capping protein. FlgD is known to be absolutely required for hook assembly, yet it has not been detected in the mature flagellum. It appears to act as a hook-capping protein to enable assembly of hook protein subunits. Probab=99.97 E-value=2.2e-30 Score=195.07 Aligned_cols=80 Identities=44% Similarity=0.620 Sum_probs=72.2 Q ss_pred CCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHCCCEEECCC Q ss_conf 77333388999999999832998999889789999999999999999999999999999---997645532261466389 Q gi|254780520|r 18 KSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELLKS---NNLAQASSYIGKNITNAD 94 (131) Q Consensus 18 ~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~~~---~~~~~a~sliGk~V~~~~ 94 (131) .+...+|+|+|||||+|||+||||++|||++||++|||||++|||+.++|+.|+.+... .+..++++||||+|.+.+ T Consensus 21 ~~~~~l~~d~FLkLLvaQLqnQDPl~P~D~~ef~sQlAQfS~vEq~~~~n~~l~~l~~~~~~~~~~~a~~lIGk~V~~~~ 100 (140) T pfam03963 21 TSSSELDKDDFLKLLTAQLQNQDPLNPMDNTEFIAQLAQFSTVEQIQNLNTTLESLAASMQSSQALQASSLIGKTVLVPG 100 (140) T ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECC T ss_conf 66442589999999999984489999976699999999999999999999999999999999999999986499899628 Q ss_pred CEE Q ss_conf 718 Q gi|254780520|r 95 GSI 97 (131) Q Consensus 95 ~~~ 97 (131) ..+ T Consensus 101 ~~~ 103 (140) T pfam03963 101 NTV 103 (140) T ss_pred CEE T ss_conf 614 No 10 >PRK12633 flgD flagellar basal body rod modification protein; Provisional Probab=99.97 E-value=2.1e-30 Score=195.18 Aligned_cols=82 Identities=33% Similarity=0.440 Sum_probs=72.4 Q ss_pred CCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHCCCEEEC Q ss_conf 66773333889999999998329989998897899999999999999999999999999---999976455322614663 Q gi|254780520|r 16 KSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELL---KSNNLAQASSYIGKNITN 92 (131) Q Consensus 16 ~~~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~---~~~~~~~a~sliGk~V~~ 92 (131) .+.+.....||+|||||+||||||||++|||++||++|||||++|||+.+||++|+.+. ...+..++++||||+|.+ T Consensus 19 ~~~~~~~~~qd~FLkLL~tQLqNQDPl~PmDn~ef~aQLAQfStvE~~~~~n~~l~~l~~~~~~~q~l~a~slIGk~V~~ 98 (230) T PRK12633 19 GSNSAAQGIQDQFLTLLVTQLRNQDPLNPMENAELTSQLAQISTVEGINNLKNTMLAISGQIDVSQSMDAVSMIGKGVLM 98 (230) T ss_pred CCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEE T ss_conf 78852156799999999999841899998777899999999999999999999999999999999999998743967997 Q ss_pred CCCEE Q ss_conf 89718 Q gi|254780520|r 93 ADGSI 97 (131) Q Consensus 93 ~~~~~ 97 (131) +++.+ T Consensus 99 ~g~~~ 103 (230) T PRK12633 99 PGDKV 103 (230) T ss_pred CCCEE T ss_conf 26567 No 11 >PRK06655 flgD flagellar basal body rod modification protein; Reviewed Probab=99.97 E-value=3.9e-30 Score=193.67 Aligned_cols=80 Identities=38% Similarity=0.517 Sum_probs=70.8 Q ss_pred CCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHCCCEEECCC Q ss_conf 773333889999999998329989998897899999999999999999999999999---99997645532261466389 Q gi|254780520|r 18 KSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELL---KSNNLAQASSYIGKNITNAD 94 (131) Q Consensus 18 ~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~---~~~~~~~a~sliGk~V~~~~ 94 (131) .+...+.||+|||||+||||||||++|||++||++|||||++|||+.++|++|+.+. .+.+..+|++||||+|.+.+ T Consensus 26 ~~~~~~~qd~FL~LL~tQLqNQDPl~PmDn~~f~aQLAQfSsvE~~~~~n~~l~~l~~~~~~~q~l~a~slIGk~V~v~g 105 (225) T PRK06655 26 GSSAADLQDDFLTLLVAQLKNQDPLNPMDNSQMTSQLAQFSTVSGIEKLNTTLGSLASQMTSSQALQASSLVGRGVLVPG 105 (225) T ss_pred CCCHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEC T ss_conf 88778889999999999985189999887799999999999999999999999999999988899888764163589866 Q ss_pred CEE Q ss_conf 718 Q gi|254780520|r 95 GSI 97 (131) Q Consensus 95 ~~~ 97 (131) +.+ T Consensus 106 ~~~ 108 (225) T PRK06655 106 DTV 108 (225) T ss_pred CEE T ss_conf 557 No 12 >PRK05842 flgD flagellar basal body rod modification protein; Reviewed Probab=99.97 E-value=3.1e-30 Score=194.22 Aligned_cols=66 Identities=32% Similarity=0.529 Sum_probs=58.1 Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 555556677333388999999999832998999889789999999999999999999999999999 Q gi|254780520|r 11 QQEFSKSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQELLKS 76 (131) Q Consensus 11 ~~~~~~~~~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~~~~ 76 (131) ....-......+||||+|||||++|||||||++|||++||++||||||+|||+.++|++|+++... T Consensus 15 ~~~~~~~~~~~~LdkDaFLkLLvtQLqnQDPlnPMDn~e~iaQLAQfStvEq~~~~n~tl~~~s~~ 80 (269) T PRK05842 15 ERKKEQPTIANGLDKDAFMKLFLEQLKNQDPTAPMETDKIITQTAQLTQVEMQEENKKTMQEVASA 80 (269) T ss_pred HHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 877543556455588899999999973279999866799999999898899888776789999987 No 13 >PRK09619 flgD flagellar basal body rod modification protein; Reviewed Probab=99.96 E-value=3.1e-29 Score=188.49 Aligned_cols=78 Identities=23% Similarity=0.397 Sum_probs=69.7 Q ss_pred CCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHCCCEEECCCC Q ss_conf 7333388999999999832998999889789999999999999999999999999---9999976455322614663897 Q gi|254780520|r 19 SKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQEL---LKSNNLAQASSYIGKNITNADG 95 (131) Q Consensus 19 ~~~~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~l~~~---~~~~~~~~a~sliGk~V~~~~~ 95 (131) ..++..||+|||||+|||+|||||+|||++||++||||||+||++.+||++++.+ +.+.+..++++||||+|.+.+. T Consensus 26 ~g~~~~qddFL~LL~aQLqNQDPl~PmDn~ef~aQLAQFStvE~i~~ln~~l~~l~~~~~s~q~lqaaslVGk~V~v~g~ 105 (220) T PRK09619 26 PGAEQLNNQFMTLLVAQIQNQDPLNPADGTEFVSQLAQLSQVQSTENMAKLMKSNTVLMDNMQTLATANLVGQQVMVESH 105 (220) T ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCC T ss_conf 74146799999999999852899998877899999998988999999999999999998878999999754987996476 Q ss_pred E Q ss_conf 1 Q gi|254780520|r 96 S 96 (131) Q Consensus 96 ~ 96 (131) . T Consensus 106 ~ 106 (220) T PRK09619 106 E 106 (220) T ss_pred E T ss_conf 3 No 14 >TIGR02004 PTS-IIBC-malX PTS system, maltose and glucose-specific IIBC component; InterPro: IPR011301 This entry represents a family of PTS enzyme II fused B and C components including and most closely related to the MalX maltose and glucose-specific transporter of Escherichia coli .. Probab=66.62 E-value=4.1 Score=20.49 Aligned_cols=29 Identities=14% Similarity=0.307 Sum_probs=25.6 Q ss_pred HHHHHHHHCCCCCCC--CCCHHHHHHH--HHHH Q ss_conf 999999832998999--8897899999--9999 Q gi|254780520|r 29 LKLLITQIKHQDPTE--PMKASEQVAQ--LAVF 57 (131) Q Consensus 29 LkLL~aQL~nQDP~~--P~d~~e~isQ--lAqf 57 (131) |+|+=+||++-+|.. -.|-|.|+|| |+.| T Consensus 259 LNiFYaeL~c~~~~~s~~p~aTaFLSQGKMptf 291 (540) T TIGR02004 259 LNIFYAELDCAAAISSAVPEATAFLSQGKMPTF 291 (540) T ss_pred HHHHHHHHCCCCCCCCCCCCHHHHHCCCCHHHH T ss_conf 777887631367766665330424125504355 No 15 >pfam11562 EDC3_LSm Enhancer of mRNA-decapping protein 3- N terminal. EDC3 functions in mRNA decapping. This family represents the N-terminal LSm domain of EDC3. This LSm domain mediates DCP1 binding and P-body localisation. The LSm domain adopts a divergent Sm fold that has a disrupted beta4-strand and lacks the usual N-terminal alpha-helix. Probab=33.13 E-value=37 Score=14.97 Aligned_cols=24 Identities=21% Similarity=0.533 Sum_probs=17.0 Q ss_pred HHHHCCCEEEC---CC-CEEEEEEEEEE Q ss_conf 55322614663---89-71899997888 Q gi|254780520|r 82 ASSYIGKNITN---AD-GSISGVVNAIQ 105 (131) Q Consensus 82 a~sliGk~V~~---~~-~~~~G~v~~V~ 105 (131) +..|||+.|.. .+ |.+-|.+.+|. T Consensus 2 a~~~iG~~VSi~C~d~lGvyQG~I~~vd 29 (84) T pfam11562 2 ADDWIGSSVSINCGDTLGVYQGKIKQVD 29 (84) T ss_pred CCCCCCCEEEEEECCCCCEEEEEEEEEC T ss_conf 6232131799985798537888999862 No 16 >KOG2830 consensus Probab=31.57 E-value=16 Score=17.09 Aligned_cols=39 Identities=33% Similarity=0.461 Sum_probs=26.0 Q ss_pred CCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 338899999999983299899988978999999999999999999999 Q gi|254780520|r 22 TLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNST 69 (131) Q Consensus 22 ~l~~d~FLkLL~aQL~nQDP~~P~d~~e~isQlAqfs~leq~~~~~~~ 69 (131) ..+++-|++.. -|+++ -++|+.|||-||+-|.+..+.++ T Consensus 29 ~~~~~~~~~~i-~q~~~--------~t~m~~ql~lFSsNE~iedIsT~ 67 (324) T KOG2830 29 EVATEPVLKRI-KQLKV--------ATEMVNQLALFSSNETIEDISTN 67 (324) T ss_pred HHHHHHHHHHH-HHHHH--------HHHHHHHHHHHCCCCHHHHCCCC T ss_conf 12146466689-98888--------99988777751253224330235 No 17 >COG1873 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only] Probab=29.48 E-value=43 Score=14.61 Aligned_cols=52 Identities=23% Similarity=0.392 Sum_probs=33.2 Q ss_pred HHHHHHCCCEEECCCCEEEEEEEEEEECCC-C-EEEEEEC-------------CEEEECCCCEEEEC Q ss_conf 645532261466389718999978886279-6-6999978-------------97896231058609 Q gi|254780520|r 80 AQASSYIGKNITNADGSISGVVNAIQVSST-G-LTAITVD-------------NTEIPITTGIRISN 131 (131) Q Consensus 80 ~~a~sliGk~V~~~~~~~~G~v~~V~~~~~-g-~~~~~v~-------------~~~v~~~~v~~V~d 131 (131) ...++|.||+|...+|..-|.|.-+.+... | ...+.+. .-.+|.+.|..|+| T Consensus 6 ~~~s~l~gk~V~~~~G~~vG~V~dv~ld~~~g~i~~l~v~~~~~~l~~~~k~~~v~IP~~~V~aIGd 72 (87) T COG1873 6 MRLSELLGKEVITNDGKYVGTVSDVVLDIKEGKITGLLVIPTNKGLFLFGKGKEVIVPYEYVKAIGD 72 (87) T ss_pred HEHHHHCCCEEECCCCEEEEEEEEEEEECCCCCEEEEEEECCCCCCCCCCCCCEEEEEHHHEEEECC T ss_conf 1487742968984788499999738998468938999995688520005779689975457578557 No 18 >pfam10842 DUF2642 Protein of unknown function (DUF2642). This family of proteins with unknown function appear to be restricted to Bacillus spp. Probab=24.57 E-value=48 Score=14.30 Aligned_cols=24 Identities=25% Similarity=0.531 Sum_probs=17.9 Q ss_pred HHHHCCCEEEC--CCCEEEEEEEEEE Q ss_conf 55322614663--8971899997888 Q gi|254780520|r 82 ASSYIGKNITN--ADGSISGVVNAIQ 105 (131) Q Consensus 82 a~sliGk~V~~--~~~~~~G~v~~V~ 105 (131) ..++|||.|.. .-|+..|.+..|+ T Consensus 16 lqs~iG~~vvVeT~rgsvrG~L~dVk 41 (66) T pfam10842 16 LQSLIGRRVVVQTVRGSVRGRLRDVK 41 (66) T ss_pred HHHHHCCEEEEEEECCCEEEEEEEEC T ss_conf 99874837999983251687896107 No 19 >cd00213 S-100 S-100: S-100 domain, which represents the largest family within the superfamily of proteins carrying the Ca-binding EF-hand motif. Note that this S-100 hierarchy contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. Intracellularly, S100 proteins act as Ca-signaling or Ca-buffering proteins. The most unusual characteristic of certain S100 proteins is their occurrence in extracellular space, where they act in a cytokine-like manner through RAGE, the receptor for advanced glycation products. Structural data suggest that many S100 members exist within cells as homo- or heterodimers and even oligomers; oligomerization contributes to their functional diversification. Upon binding calcium, most S100 proteins change conformation to a more open structure exposing a hydrophobic cleft. This hydrophobic surface represents th Probab=22.31 E-value=59 Score=13.82 Aligned_cols=25 Identities=28% Similarity=0.361 Sum_probs=20.3 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHCC Q ss_conf 5566773333889999999998329 Q gi|254780520|r 14 FSKSKSKKTLGQDAFLKLLITQIKH 38 (131) Q Consensus 14 ~~~~~~~~~l~~d~FLkLL~aQL~n 38 (131) +.+...+.+|.+.+|-.||-.||.+ T Consensus 18 a~~~g~~~~Lsk~Elk~Ll~~El~~ 42 (88) T cd00213 18 SGKEGDKDTLSKKELKELLETELPN 42 (88) T ss_pred HCCCCCCCCCCHHHHHHHHHHHHHH T ss_conf 5548973527799999999999889 No 20 >pfam10748 DUF2531 Protein of unknown function (DUF2531). This family of proteins with unknown function appears to be restricted to Enterobacteriaceae. Probab=21.95 E-value=46 Score=14.42 Aligned_cols=20 Identities=25% Similarity=0.506 Sum_probs=14.3 Q ss_pred CCCCCCCCCHHHHHHHHHHH Q ss_conf 99899988978999999999 Q gi|254780520|r 38 HQDPTEPMKASEQVAQLAVF 57 (131) Q Consensus 38 nQDP~~P~d~~e~isQlAqf 57 (131) .-|||.|..+.=-++|+.|. T Consensus 18 mRDPF~Pped~C~~~~l~qW 37 (133) T pfam10748 18 MRDPFKPPEDRCRIAELSQW 37 (133) T ss_pred CCCCCCCCHHHHHHHHHHHH T ss_conf 57889995234323024354 No 21 >pfam05239 PRC PRC-barrel domain. The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain. Probab=21.70 E-value=60 Score=13.75 Aligned_cols=38 Identities=26% Similarity=0.359 Sum_probs=26.8 Q ss_pred HHHHHCCCEEECCCCEEEEEEEEEEECC-CCEE-EEEECC Q ss_conf 4553226146638971899997888627-9669-999789 Q gi|254780520|r 81 QASSYIGKNITNADGSISGVVNAIQVSS-TGLT-AITVDN 118 (131) Q Consensus 81 ~a~sliGk~V~~~~~~~~G~v~~V~~~~-~g~~-~~~v~~ 118 (131) .++.|+|++|...+|..-|.|..+-+.. .|.+ .+.++. T Consensus 5 ~~~~l~G~~V~~~~G~~lG~V~Dv~id~~~g~i~~i~~~~ 44 (77) T pfam05239 5 YASDLIGLEVYTEDGEKLGKVKDVVIDEGEGDVLYLVVSV 44 (77) T ss_pred EEEEEECCEEECCCCCEEEEEEEEEEECCCCCEEEEEECC T ss_conf 9789748887999999998999999978999599999876 Done!