Query gi|254781213|ref|YP_003065626.1| head-to-tail joining protein, putative [Candidatus Liberibacter asiaticus str. psy62] Match_columns 556 No_of_seqs 167 out of 535 Neff 7.6 Searched_HMMs 13730 Date Wed Jun 1 12:06:41 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781213.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 d1vgya1 c.56.5.4 (A:2-180,A:29 38.4 5.4 0.00039 15.6 1.2 56 253-308 77-132 (262) 2 d1yt3a2 a.60.8.3 (A:295-375) R 32.1 11 0.00077 13.8 3.9 30 479-508 16-45 (81) 3 d2p06a1 a.204.1.3 (A:1-84) Hyp 17.2 20 0.0015 11.9 4.9 27 50-76 7-36 (84) 4 d1dvka_ a.72.1.1 (A:) Function 16.1 22 0.0016 11.7 4.3 38 99-140 81-118 (169) 5 d1x4pa1 a.217.1.1 (A:8-60) Arg 13.1 24 0.0018 11.4 0.5 29 183-211 4-32 (53) 6 g1q7l.1 c.56.5.4 (A:,B:) Amino 12.8 26 0.0019 11.2 1.2 28 265-292 96-123 (280) 7 d1uala_ c.116.1.4 (A:) tRNA(m1 12.4 13 0.00091 13.3 -1.2 42 120-174 12-53 (252) 8 d1sb0a_ a.12.1.1 (A:) Kix doma 10.1 32 0.0024 10.6 5.4 62 44-120 4-66 (87) 9 d2diia1 a.240.1.1 (A:8-55) TFI 9.0 35 0.0026 10.3 1.9 15 119-133 19-33 (48) 10 d2cqqa1 a.4.1.3 (A:8-66) DnaJ 8.8 30 0.0022 10.8 -0.3 25 261-287 26-50 (59) No 1 >d1vgya1 c.56.5.4 (A:2-180,A:294-376) Succinyl-diaminopimelate desuccinylase, catalytic domain {Neisseria meningitidis [TaxId: 487]} Probab=38.37 E-value=5.4 Score=15.65 Aligned_cols=56 Identities=13% Similarity=-0.009 Sum_probs=32.7 Q ss_pred CCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEECC Q ss_conf 65874555114148721020269975889999999999999999975198689327 Q gi|254781213|r 253 ATFPYIVGRYRVRADEIYGRSPAMEALPTIRRLNETVNELAQFGRLSLHPPTIAVS 308 (556) Q Consensus 253 ~e~P~~~~Rw~~~~ge~YGrgp~~~aL~D~k~Ln~l~~~~l~~~~~~~~p~~~v~~ 308 (556) ..|++-++.....+|-.||||-+..--+-.-+|..+............+..++... T Consensus 77 ~~w~~~p~~~~~~dg~iyGrGa~D~Kg~~a~~l~a~~~l~~~~~~~~~~~~l~~~~ 132 (262) T d1vgya1 77 EKWDSPPFEPAERDGRLYGRGAADMKTSIACFVTACERFVAKHPNHQGSIALLITS 132 (262) T ss_dssp GGSSSCTTSCEEETTEEESTTTTTTHHHHHHHHHHHHHHHHHCTTCSSEEEEEEES T ss_pred CCCCCCCCCCEEECCCEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEEEE T ss_conf 34334666629981745750441466347999999999997364678875999996 No 2 >d1yt3a2 a.60.8.3 (A:295-375) Ribonuclease D {Escherichia coli [TaxId: 562]} Probab=32.13 E-value=11 Score=13.76 Aligned_cols=30 Identities=7% Similarity=0.034 Sum_probs=21.9 Q ss_pred HHHHHHHHHHHCCCCHHHCCCHHHHHHHHH Q ss_conf 899999999970998546199899999999 Q gi|254781213|r 479 TDRVSRFSLWATNTPAVLIRDTAEVEDIRQ 508 (556) Q Consensus 479 ~d~~~~~~a~~~Gvp~~~~r~~eev~~~rq 508 (556) ...+++..|+.+|||++++-+..++.++-. T Consensus 16 lk~~v~~~Ae~~~IapelLaskkdle~ll~ 45 (81) T d1yt3a2 16 IKSLITDVSETHKISAELLASRRQINQLLN 45 (81) T ss_dssp HHHHHHHHHHHHTCCHHHHCCHHHHHHHHH T ss_pred HHHHHHHHHHHCCCCHHHHCCHHHHHHHHH T ss_conf 999999999883999999438999999999 No 3 >d2p06a1 a.204.1.3 (A:1-84) Hypothetical protein AF0060 {Archaeoglobus fulgidus [TaxId: 2234]} Probab=17.17 E-value=20 Score=11.92 Aligned_cols=27 Identities=11% Similarity=0.385 Sum_probs=18.0 Q ss_pred HHHHHHHHHHHHHHHCCCCC---CCCEEEE Q ss_conf 79999999999876418878---8760111 Q gi|254781213|r 50 GSEACIKLSSLLSSLITPPG---QKWHGLA 76 (556) Q Consensus 50 ~~~a~~~lAs~L~~~ltPp~---~~WF~l~ 76 (556) +-.-++...++.|--..-|+ +|||.+. T Consensus 7 aekflremhakymkrvsrpgntprpwfdfs 36 (84) T d2p06a1 7 AEKFLREMHAKYMKRVSRPGNTPRPWFDFS 36 (84) T ss_dssp HHHHHHHHHHHHHHHHTSTTCCSCHHHHSC T ss_pred HHHHHHHHHHHHHHHCCCCCCCCCCCCCCC T ss_conf 999999999999987069999999754552 No 4 >d1dvka_ a.72.1.1 (A:) Functional domain of the splicing factor Prp18 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Probab=16.07 E-value=22 Score=11.75 Aligned_cols=38 Identities=8% Similarity=0.103 Sum_probs=23.9 Q ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHEEC Q ss_conf 999999999987502314738899999999875410332221 Q gi|254781213|r 99 WCDQVTDTLFGFRERSRSGFVGCLQSFYTSVVEFGTGCFYME 140 (556) Q Consensus 99 ~L~~v~~~i~~~~~~~~snf~~~~~e~~~dL~~~Gta~l~i~ 140 (556) -|..+..+|+. ......|...+.+|++|. +|||+.=|+ T Consensus 81 il~~L~~Iv~~---~~~~r~y~~A~d~Yl~La-IGNA~WPIG 118 (169) T d1dvka_ 81 LLISLATVLYH---LQQPKEINLAVQSYMKLS-IGNVAWPIG 118 (169) T ss_dssp HHHHHHHHHHH---HTSGGGHHHHHHHHHHHH-HTBCCCCSC T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHHHHHH-CCCCCCCCC T ss_conf 99999999999---986500889999999987-057887633 No 5 >d1x4pa1 a.217.1.1 (A:8-60) Arginine/serine-rich-splicing factor 14 {Human (Homo sapiens) [TaxId: 9606]} Probab=13.07 E-value=24 Score=11.40 Aligned_cols=29 Identities=28% Similarity=0.368 Sum_probs=15.7 Q ss_pred HHHHHHHCCCCCCCHHHHHHHCCCCCCCE Q ss_conf 77866631522357256654103555715 Q gi|254781213|r 183 VDQIVSKWGDKVLSSKMKSALARNENERF 211 (556) Q Consensus 183 ~~ql~~~fg~~~l~~~~~~~~~~~~~~~~ 211 (556) ..|++...-...+|.+-+...+++|.-+| T Consensus 4 IeqlV~~ii~G~LspkeR~~~k~~P~yWF 32 (53) T d1x4pa1 4 IDQLVKRVIEGSLSPKERTLLKEDPAYWF 32 (53) T ss_dssp HHHHHHHHHHTCSCHHHHHHHHHSGGGCT T ss_pred HHHHHHHHHCCCCCHHHHHHHHCCCCEEE T ss_conf 99999999837788888888643987388 No 6 >g1q7l.1 c.56.5.4 (A:,B:) Aminoacylase-1, catalytic domain {Human (Homo sapiens) [TaxId: 9606]} Probab=12.79 E-value=26 Score=11.17 Aligned_cols=28 Identities=18% Similarity=0.115 Sum_probs=21.2 Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 4872102026997588999999999999 Q gi|254781213|r 265 RADEIYGRSPAMEALPTIRRLNETVNEL 292 (556) Q Consensus 265 ~~ge~YGrgp~~~aL~D~k~Ln~l~~~~ 292 (556) .+|-+||||-+.+--+-.-.|..+.... T Consensus 96 ~dg~iyGRGa~D~K~~~~~~l~a~~~l~ 123 (280) T g1q7l.1 96 SEGYIYARGAQDMKCVSIQYLEAVRRLK 123 (280) T ss_dssp TTSEEECTTTTTTHHHHHHHHHHHHHHH T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHH T ss_conf 2342125665555403789999999999 No 7 >d1uala_ c.116.1.4 (A:) tRNA(m1G37)-methyltransferase TrmD {Haemophilus influenzae [TaxId: 727]} Probab=12.37 E-value=13 Score=13.27 Aligned_cols=42 Identities=10% Similarity=-0.011 Sum_probs=18.4 Q ss_pred HHHHHHHHHHHHHHHHHHEECCCCCCCCCCCCEEEEEEEHHHEEEEECCCCCEEE Q ss_conf 8999999998754103322216766654446605888655446661089888715 Q gi|254781213|r 120 GCLQSFYTSVVEFGTGCFYMEADVDEKGLEEGIRYISVPLSNVYMSVNHQNVVDS 174 (556) Q Consensus 120 ~~~~e~~~dL~~~Gta~l~i~~d~~~~~~~~~~rf~~~pl~~~~i~~d~~G~vd~ 174 (556) .++++.+++..+.|-|+- ++.+.+.++.+-+|. .|.+++||. T Consensus 12 Pe~f~~~l~~sIigrA~~-----------~~lv~i~~~nlRdfs--~dkhr~VDD 53 (252) T d1uala_ 12 PEMFKAITEFGVTGRAVK-----------HNLLKVECWNPRDFT--FDKHKTVDD 53 (252) T ss_dssp GGGGHHHHSSHHHHHHHH-----------TTSEEEEEECGGGGC--CSTTCCCEE T ss_pred HHHHHHHHHCCHHHHHHH-----------CCCEEEEEECHHHHC--CCCCCCCCC T ss_conf 464011222438999998-----------796699998816617--898867277 No 8 >d1sb0a_ a.12.1.1 (A:) Kix domain of CBP (creb binding protein) {Mouse (Mus musculus) [TaxId: 10090]} Probab=10.07 E-value=32 Score=10.60 Aligned_cols=62 Identities=16% Similarity=0.272 Sum_probs=35.7 Q ss_pred CCCCCHHHHH-HHHHHHHHHHHCCCCCCCCEEEEECCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHH Q ss_conf 7525427999-9999999876418878876011108114444202322334899999999999999875023147388 Q gi|254781213|r 44 RMWDTTGSEA-CIKLSSLLSSLITPPGQKWHGLAESFSAYQAFLYKEDARSKKVREWCDQVTDTLFGFRERSRSGFVG 120 (556) Q Consensus 44 ~i~dst~~~a-~~~lAs~L~~~ltPp~~~WF~l~~~~~~~~~~~~~~~~~~~ev~~~L~~v~~~i~~~~~~~~snf~~ 120 (556) +-|-++-+.. -+.|.-+|.+++||+..|-- + -+..-.....+...||.-+|.- +.+++.+|. T Consensus 4 ~~wh~~Vt~~lRnhlV~KLv~aIfP~pdp~a--------~------~D~RM~~L~~YarkvE~~~ye~-a~sr~EYY~ 66 (87) T d1sb0a_ 4 KGWHEHVTQDLRSHLVHKLVQAIFPTPDPAA--------L------KDRRMENLVAYAKKVEGDMYES-ANSRDEYYH 66 (87) T ss_dssp STTGGGCCHHHHHHHHHHHHHHHSCCSCGGG--------G------GSHHHHHHHHHHHHHHHHHHHH-CSSHHHHHH T ss_pred HHHHHHCCHHHHHHHHHHHHHHHCCCCCHHH--------H------HHHHHHHHHHHHHHHHHHHHHH-HCCHHHHHH T ss_conf 1788882499999999999987569998577--------7------0788999999999999999998-736999999 No 9 >d2diia1 a.240.1.1 (A:8-55) TFIIH basal transcription factor complex p62 subunit, BTF2 {Human (Homo sapiens) [TaxId: 9606]} Probab=9.02 E-value=35 Score=10.34 Aligned_cols=15 Identities=20% Similarity=0.157 Sum_probs=12.3 Q ss_pred HHHHHHHHHHHHHHH Q ss_conf 889999999987541 Q gi|254781213|r 119 VGCLQSFYTSVVEFG 133 (556) Q Consensus 119 ~~~~~e~~~dL~~~G 133 (556) ...+++.|+||++.| T Consensus 19 np~L~qLYkdLVvs~ 33 (48) T d2diia1 19 DPVLFQLYKDLVVSQ 33 (48) T ss_dssp CHHHHHHHHHHHTTT T ss_pred CHHHHHHHHHHHHHC T ss_conf 989999999999953 No 10 >d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Probab=8.78 E-value=30 Score=10.85 Aligned_cols=25 Identities=28% Similarity=0.508 Sum_probs=0.0 Q ss_pred EEEECCCCCCCHHHHHHHHHHHHHHHH Q ss_conf 114148721020269975889999999 Q gi|254781213|r 261 RYRVRADEIYGRSPAMEALPTIRRLNE 287 (556) Q Consensus 261 Rw~~~~ge~YGrgp~~~aL~D~k~Ln~ 287 (556) ||.+++..+ ||++ .+++--.|.|.. T Consensus 26 RW~~IA~~v-gkt~-~ev~~~~k~l~e 50 (59) T d2cqqa1 26 RWEKIAHEL-GRSV-TDVTTKAKQLKD 50 (59) T ss_dssp HHHHHHHHH-TSCH-HHHHHHHHHHHH T ss_pred HHHHHHHHH-CCCH-HHHHHHHHHHHH T ss_conf 999999998-9799-999999999998 Done!