Query gi|254780126|ref|YP_003064539.1| hypothetical protein CLIBASIA_00025 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 216 No_of_seqs 117 out of 177 Neff 5.9 Searched_HMMs 13730 Date Sun May 22 19:53:58 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780126.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 d1je5a_ b.40.4.7 (A:) gp2.5 {B 100.0 1.7E-36 1.3E-40 241.8 16.2 163 4-179 7-187 (197) 2 d1xbra_ b.2.5.4 (A:) T domain 37.3 6.6 0.00048 16.3 1.5 36 4-43 24-59 (184) 3 d1h6fa_ b.2.5.4 (A:) T-box pro 25.8 5.9 0.00043 16.6 -0.3 36 4-43 24-59 (184) 4 d2fyma2 d.54.1.1 (A:1-139) Eno 23.8 14 0.00098 14.4 1.2 52 119-181 10-63 (139) 5 d1w6ta2 d.54.1.1 (A:1-137) Eno 19.4 19 0.0014 13.5 1.2 53 119-182 11-65 (137) 6 d2qn6b1 d.58.51.1 (B:176-264) 15.4 27 0.002 12.5 5.0 29 28-58 48-77 (89) 7 d1pdza2 d.54.1.1 (A:1-139) Eno 10.3 39 0.0028 11.6 1.4 53 119-183 9-63 (139) 8 d2ge7a1 d.254.1.2 (A:8-114) Co 10.0 40 0.0029 11.5 3.1 22 29-51 72-93 (107) 9 d2giba1 d.254.1.2 (A:270-366) 9.2 43 0.0031 11.3 3.0 17 28-44 61-77 (97) 10 d1zvpa1 d.58.18.9 (A:2-67) Hyp 8.0 34 0.0025 12.0 -0.3 36 4-45 25-60 (66) No 1 >d1je5a_ b.40.4.7 (A:) gp2.5 {Bacteriophage T7 [TaxId: 10760]} Probab=100.00 E-value=1.7e-36 Score=241.78 Aligned_cols=163 Identities=12% Similarity=0.188 Sum_probs=125.8 Q ss_pred EEEEEEE-ECCCCCCCCCCCCCCC--CCCCEEEEEEEECCCCHHH---HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC Q ss_conf 6776899-8331278641123678--8662479999963787899---99999999999875420002210013444434 Q gi|254780126|r 4 LTVKGRL-SYPALDTKVRMKLPDG--SSVEHYGCDIVFPKADTKQ---INAVEACLKTAVTEIFPNVSPDAFLSAVRSKS 77 (216) Q Consensus 4 vt~kgr~-sYp~L~~P~~~~~~~g--~~~~kYs~~llipK~d~~~---~~~i~~AI~~a~~~~~~~k~~~~~~~~~k~~~ 77 (216) .|+.|++ +||||++||+.|...+ .++.+|||+|+||++|+++ +.+|+++++++.+....... ....... T Consensus 7 ttp~G~a~~Y~~L~kPDt~f~~~~~~~~~g~Ykv~L~v~k~d~~a~~~i~~i~~~~e~a~~~~~~~~~-----~~~~k~~ 81 (197) T d1je5a_ 7 TSALGTAEPYAYIAKPDYGNEERGFGNPRGVYKVDLTIPNKDPRCQRMVDEIVKCHEEAYAAAVEEYE-----ANPPAVA 81 (197) T ss_dssp ECCSEEECSSCEEEEEECCC---CCSCCSCEEEEEEEEETTSHHHHHHHHHHHHHHHHHHHHHHHHHH-----TSCC--- T ss_pred CCCCCCEECCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHC-----CCCCCCC T ss_conf 27983234154337898554333467889618999997264177999999999999999999998753-----4565443 Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCC------------CCCCEEECCCCCCCCCCCCCCCCCCEEEEEE Q ss_conf 4665210175455555454456542277389930377------------7788368578747347677401540799999 Q gi|254780126|r 78 ESRGVLRDGDAKIASSHKPENYTQTYTDSVYISAKNK------------YVQPLLVDRQAQPVSDPREVFYPGCWVIAKL 145 (216) Q Consensus 78 ~~k~plrDGD~~~~~~~~~~~~~e~~~g~~~i~a~~k------------~~kP~ivD~~~~~i~d~~~~iySGs~~kv~~ 145 (216) ..+.|+++++.+.+ +.+++.|.|++++++| .++|.|||++++||++. ..|||||++||++ T Consensus 82 ~~K~~~~p~~~~~~-------~~~~~~G~~~fk~K~Ka~~~~~kt~~~~~~~P~i~Ds~~~~l~~~-~~i~~Gs~~~v~~ 153 (197) T d1je5a_ 82 RGKKPLKPYEGDMP-------FFDNGDGTTTFKFKCYASFQDKKTKETKHINLVVVDSKGKKMEDV-PIIGGGSKLKVKY 153 (197) T ss_dssp ----CCCCCBCCCS-------EEECSSSEEEEEEEEESEEECTTTCCEEECCCCEECTTSCBCSSC-CCCCTTCEEEEEE T ss_pred CCCCCCCCCCCCCC-------CCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCEEECCCCCCCCCC-CCCCCCCEEEEEE T ss_conf 11135687644577-------753668858999998765024567875544873798989998887-6123686899999 Q ss_pred EEEEEECCCCCCEEEEEEECEEEEEECCCCCCCC Q ss_conf 9998640788531169997407997248755566 Q gi|254780126|r 146 NIGAYELDPYKTKGFSCTLTGVQFFKHDERWGAS 179 (216) Q Consensus 146 ~~~pY~~~~~~gkGVs~~L~~VQ~i~dgE~~GG~ 179 (216) .++||.++++.|+||+|+|++||+|+++|++||. T Consensus 154 ~~~py~~~~~~g~Gvsl~L~~VQvi~~~e~~gg~ 187 (197) T d1je5a_ 154 SLVPYKWNTAVGASVKLQLESVMLVELATFGGGE 187 (197) T ss_dssp EEEEECCCSSCCBEEEEEEEEEEEEECCC----- T ss_pred EEEEEEECCCCCEEEEEEEEEEEEEEECCCCCCC T ss_conf 9855450798863899984469998812677877 No 2 >d1xbra_ b.2.5.4 (A:) T domain from Brachyury transcription factor {African clawed frog (Xenopus laevis) [TaxId: 8355]} Probab=37.33 E-value=6.6 Score=16.33 Aligned_cols=36 Identities=33% Similarity=0.426 Sum_probs=24.8 Q ss_pred EEEEEEEECCCCCCCCCCCCCCCCCCCEEEEEEEECCCCH Q ss_conf 6776899833127864112367886624799999637878 Q gi|254780126|r 4 LTVKGRLSYPALDTKVRMKLPDGSSVEHYGCDIVFPKADT 43 (216) Q Consensus 4 vt~kgr~sYp~L~~P~~~~~~~g~~~~kYs~~llipK~d~ 43 (216) ||..||-.||.|. ++..+-+ -..+|.+.|-|..-|. T Consensus 24 ITk~GRrmFP~l~--~~vsGLd--p~~~Y~v~l~~~~~D~ 59 (184) T d1xbra_ 24 VTKNGRRMFPVLK--VSMSGLD--PNAMYTVLLDFVAADN 59 (184) T ss_dssp CBTTCEECSSCCE--EEEECSC--TTSEEEEEEEEEESSS T ss_pred EECCCCCCCCCEE--EEEECCC--CCCCEEEEEEEEECCC T ss_conf 9158734587249--9997889--5744799999998557 No 3 >d1h6fa_ b.2.5.4 (A:) T-box protein 3, tbx3 {Human (Homo sapiens) [TaxId: 9606]} Probab=25.80 E-value=5.9 Score=16.61 Aligned_cols=36 Identities=28% Similarity=0.302 Sum_probs=24.4 Q ss_pred EEEEEEEECCCCCCCCCCCCCCCCCCCEEEEEEEECCCCH Q ss_conf 6776899833127864112367886624799999637878 Q gi|254780126|r 4 LTVKGRLSYPALDTKVRMKLPDGSSVEHYGCDIVFPKADT 43 (216) Q Consensus 4 vt~kgr~sYp~L~~P~~~~~~~g~~~~kYs~~llipK~d~ 43 (216) ||..||-.||.|. ++..+=+. ..+|++.|-|..-|. T Consensus 24 vTk~GRrmFP~l~--~~vsGLdp--~~~Y~v~l~~~~~D~ 59 (184) T d1h6fa_ 24 ITKSGRRMFPPFK--VRCSGLDK--KAKYILLMDIIAADD 59 (184) T ss_dssp CCTTCBCCSSCCE--EEEESCCS--SSEEEEEEEEEEEEE T ss_pred EECCCCCCCCEEE--EEEECCCC--CCCEEEEEEEEECCC T ss_conf 9269821076169--99934697--764689999998747 No 4 >d2fyma2 d.54.1.1 (A:1-139) Enolase {Escherichia coli [TaxId: 562]} Probab=23.83 E-value=14 Score=14.40 Aligned_cols=52 Identities=15% Similarity=0.197 Sum_probs=35.6 Q ss_pred EEECCCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCCCEEEEEEECEEEEEECCC--CCCCCCC Q ss_conf 36857874734767740154079999999986407885311699974079972487--5556666 Q gi|254780126|r 119 LLVDRQAQPVSDPREVFYPGCWVIAKLNIGAYELDPYKTKGFSCTLTGVQFFKHDE--RWGASPK 181 (216) Q Consensus 119 ~ivD~~~~~i~d~~~~iySGs~~kv~~~~~pY~~~~~~gkGVs~~L~~VQ~i~dgE--~~GG~~~ 181 (216) +|+|+.|+|..+.+-....|+..|+++ + -|.|.+..-..-++|++ +++|.+. T Consensus 10 ~IlDSRG~PTvevev~~~~g~~g~a~~--------P---sGaStG~~Ea~elrD~~~~~~~Gkgv 63 (139) T d2fyma2 10 EIIDSRGNPTVEAEVHLEGGFVGMAAA--------P---SGASTGSREALELRDGDKSRFLGKGV 63 (139) T ss_dssp EEECTTSCEEEEEEEEETTSCEEEEEC--------C---CCCSSCSSSCCCCCCCCTTSGGGTCC T ss_pred EEECCCCCEEEEEEEEECCCCEEEEEC--------C---CCCCCCCCCCCCCCCCCHHHHCCCCC T ss_conf 998699985899999978998767877--------7---56676534220046777244316542 No 5 >d1w6ta2 d.54.1.1 (A:1-137) Enolase {Streptococcus pneumoniae [TaxId: 1313]} Probab=19.38 E-value=19 Score=13.49 Aligned_cols=53 Identities=13% Similarity=0.222 Sum_probs=34.6 Q ss_pred EEECCCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCCCEEEEEEECEEEEEECCCC--CCCCCCC Q ss_conf 368578747347677401540799999999864078853116999740799724875--5566665 Q gi|254780126|r 119 LLVDRQAQPVSDPREVFYPGCWVIAKLNIGAYELDPYKTKGFSCTLTGVQFFKHDER--WGASPKS 182 (216) Q Consensus 119 ~ivD~~~~~i~d~~~~iySGs~~kv~~~~~pY~~~~~~gkGVs~~L~~VQ~i~dgE~--~GG~~~~ 182 (216) +|+|+.|+|..+.+-...+|+..|+++ + -|.|.+-.-.+-++|+++ +.|.+.. T Consensus 11 ~IlDSRG~PTvevev~~~~g~~gra~~--------P---SGAStG~~Ea~elrD~~~~~~~Gkgv~ 65 (137) T d1w6ta2 11 EVLDSRGNPTLEVEVYTESGAFGRGMV--------P---SGASTGEHEAVELRDGDKSRYGGLGTQ 65 (137) T ss_dssp EEECTTSCEEEEEEEEETTCCEEEEEC--------C---CC---CCSSCCCCCCCCTTSGGGTCCH T ss_pred EEECCCCCEEEEEEEEECCCCCCEEEC--------C---CCCCCCCCCCEECCCCCCCCCCCCCHH T ss_conf 998699998999999988986413546--------7---677765440010367764020687578 No 6 >d2qn6b1 d.58.51.1 (B:176-264) eIF-2-alpha, C-terminal domain {Sulfolobus solfataricus [TaxId: 2287]} Probab=15.36 E-value=27 Score=12.51 Aligned_cols=29 Identities=17% Similarity=0.346 Sum_probs=20.0 Q ss_pred CCCEEEEEEEECCCCHHHH-HHHHHHHHHHHH Q ss_conf 6624799999637878999-999999999987 Q gi|254780126|r 28 SVEHYGCDIVFPKADTKQI-NAVEACLKTAVT 58 (216) Q Consensus 28 ~~~kYs~~llipK~d~~~~-~~i~~AI~~a~~ 58 (216) +.|+|.+++.-| |.++. ..+++|++.+.+ T Consensus 48 gaP~Yri~v~a~--D~k~ae~~l~~a~~~i~~ 77 (89) T d2qn6b1 48 GAPRYRVDVVGT--NPKEASEALNQIISNLIK 77 (89) T ss_dssp STTEEEEEEEES--CHHHHHHHHHHHHHHHHH T ss_pred CCCEEEEEEEEC--CHHHHHHHHHHHHHHHHH T ss_conf 698089999807--899999999999999999 No 7 >d1pdza2 d.54.1.1 (A:1-139) Enolase {European lobster (Homarus vulgaris) [TaxId: 6707]} Probab=10.28 E-value=39 Score=11.56 Aligned_cols=53 Identities=11% Similarity=0.263 Sum_probs=31.5 Q ss_pred EEECCCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCCCEEEEEEECEEEEEECCC--CCCCCCCCC Q ss_conf 36857874734767740154079999999986407885311699974079972487--555666655 Q gi|254780126|r 119 LLVDRQAQPVSDPREVFYPGCWVIAKLNIGAYELDPYKTKGFSCTLTGVQFFKHDE--RWGASPKSD 183 (216) Q Consensus 119 ~ivD~~~~~i~d~~~~iySGs~~kv~~~~~pY~~~~~~gkGVs~~L~~VQ~i~dgE--~~GG~~~~~ 183 (216) +|+|+.|+|..+. +++..+...|+++ + -|-|.+-.-..-++|++ ++.|.+... T Consensus 9 ~IlDSRG~PTVev-~v~~~~~~~ra~~--------P---SGAStG~~EA~elrD~~~~~~~Gkgv~~ 63 (139) T d1pdza2 9 TIFDSRGNPTVEV-DLYTSKGLFRAAV--------P---SGASTGVHEALEMRDGDKSKYHGKSVFN 63 (139) T ss_dssp EEECTTSCEEEEE-EEEETTEEEEEEC--------C---CCBSSCSSSCBCCCCCCTTSGGGTCCHH T ss_pred EEECCCCCCEEEE-EEEECCCEEEEEC--------C---CCCCCCCHHHEECCCCCCCCCCCCCCCC T ss_conf 9984899847999-9997997677764--------5---6768750331221468853101644321 No 8 >d2ge7a1 d.254.1.2 (A:8-114) Coronavirus nucleocapsid protein {Avian infectious bronchitis virus [TaxId: 11120]} Probab=9.98 E-value=40 Score=11.49 Aligned_cols=22 Identities=14% Similarity=0.274 Sum_probs=14.2 Q ss_pred CCEEEEEEEECCCCHHHHHHHHH Q ss_conf 62479999963787899999999 Q gi|254780126|r 29 VEHYGCDIVFPKADTKQINAVEA 51 (216) Q Consensus 29 ~~kYs~~llipK~d~~~~~~i~~ 51 (216) +-.|+-.+.+||+|+. ...+.+ T Consensus 72 ~lty~~~~~vpk~dP~-~~~~~k 93 (107) T d2ge7a1 72 HLKFEFTTVVPRDDPQ-FDNYVK 93 (107) T ss_dssp EEEEEEEEEEETTSTT-HHHHHH T ss_pred EEEEEEEEEECCCCCC-HHHHHH T ss_conf 9999888980798988-899999 No 9 >d2giba1 d.254.1.2 (A:270-366) Coronavirus nucleocapsid protein {SARS coronavirus [TaxId: 227859]} Probab=9.16 E-value=43 Score=11.30 Aligned_cols=17 Identities=18% Similarity=0.196 Sum_probs=13.7 Q ss_pred CCCEEEEEEEECCCCHH Q ss_conf 66247999996378789 Q gi|254780126|r 28 SVEHYGCDIVFPKADTK 44 (216) Q Consensus 28 ~~~kYs~~llipK~d~~ 44 (216) -+-.|+-.+.+||+|+. T Consensus 61 ~~lty~~~~~vpk~dP~ 77 (97) T d2giba1 61 TWLTYHGAIKLDDKDPQ 77 (97) T ss_dssp EEEEEEEEEEECTTSTT T ss_pred EEEEEEEEEEECCCCCC T ss_conf 69999888980798946 No 10 >d1zvpa1 d.58.18.9 (A:2-67) Hypothetical protein VC0802 {Vibrio cholerae [TaxId: 666]} Probab=8.01 E-value=34 Score=11.96 Aligned_cols=36 Identities=19% Similarity=0.089 Sum_probs=0.0 Q ss_pred EEEEEEEECCCCCCCCCCCCCCCCCCCEEEEEEEECCCCHHH Q ss_conf 677689983312786411236788662479999963787899 Q gi|254780126|r 4 LTVKGRLSYPALDTKVRMKLPDGSSVEHYGCDIVFPKADTKQ 45 (216) Q Consensus 4 vt~kgr~sYp~L~~P~~~~~~~g~~~~kYs~~llipK~d~~~ 45 (216) +|+..+..=|.-..|.-.|.+..+ ++|||+++++.. T Consensus 25 ~t~~~~~~~~~~l~pia~F~E~EG------lTlIl~~~~A~~ 60 (66) T d1zvpa1 25 CTVNGALSDYLSLEPIATFREPEG------LTLVLEAEKAQQ 60 (66) T ss_dssp EEECSCGGGGGGGCCSEEEEETTE------EEEEEEHHHHHH T ss_pred EEECCCCCCCCCCCEEEEEEECCC------EEEEEEHHHHHH T ss_conf 998885456557862499995783------599989999988 Done!