Query gi|254780722|ref|YP_003065135.1| pilus assembly protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 187 No_of_seqs 118 out of 2435 Neff 9.5 Searched_HMMs 13730 Date Wed Jun 1 08:06:49 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780722.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 d1gpja1 a.151.1.1 (A:303-404) 26.5 14 0.001 13.5 4.9 93 9-107 6-99 (102) 2 d1xkpa1 a.243.1.3 (A:73-269) O 22.1 17 0.0013 13.0 9.2 16 64-79 45-60 (197) 3 d2imha1 d.153.1.7 (A:1-229) Hy 20.0 15 0.0011 13.4 0.8 77 22-98 54-158 (229) 4 d2ea9a1 d.110.8.1 (A:8-110) Hy 17.7 22 0.0016 12.4 3.2 24 9-32 45-68 (103) 5 d2inwa1 d.110.8.1 (A:4-120) Hy 16.9 23 0.0016 12.3 3.2 24 8-31 55-78 (117) 6 d1seda_ a.219.1.1 (A:) Hypothe 14.9 26 0.0019 12.0 4.6 15 64-78 66-80 (112) 7 d1sqga1 a.79.1.3 (A:5-144) Rib 11.6 32 0.0023 11.4 7.4 57 19-75 7-64 (140) 8 d1np3a1 a.100.1.2 (A:183-327) 11.3 33 0.0024 11.3 8.9 81 22-102 27-109 (145) 9 d2ezla_ a.4.1.2 (A:) Ibeta sub 10.0 36 0.0026 11.0 7.9 57 18-76 37-93 (99) 10 d2iuba2 f.17.3.1 (A:286-349) M 9.1 39 0.0029 10.8 1.2 40 130-170 11-50 (64) No 1 >d1gpja1 a.151.1.1 (A:303-404) Glutamyl tRNA-reductase dimerization domain {Archaeon Methanopyrus kandleri [TaxId: 2320]} Probab=26.46 E-value=14 Score=13.53 Aligned_cols=93 Identities=11% Similarity=0.095 Sum_probs=59.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHH Q ss_conf 99999999999999999995699989999999992484289999999998630388889999977534873479999999 Q gi|254780722|r 9 TAKFLDDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVI 88 (187) Q Consensus 9 ~~~~~~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l 88 (187) ..-+++++..|...+-.. .....+...-+....--..|+.+..+++..| +.++++..++.+.-.+-+......+ T Consensus 6 E~II~ee~~~F~~w~~~~-----~~~p~I~~lr~~~e~ir~~Elekal~kl~~~-~~e~vie~l~~~l~nKllH~pt~~l 79 (102) T d1gpja1 6 EKLIEEELSTVEEELEKL-----KERRLVADVAKSLHEIKDRELERALRRLKTG-DPENVLQDFAEAYTKRLINVLTSAI 79 (102) T ss_dssp HHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHSCSCC------CCTTHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHC-----CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999866-----3237999999999999999999999764789-9899999999999998887799999 Q ss_pred HHHHHCCCC-HHHHHHHHHH Q ss_conf 998742574-6899999999 Q gi|254780722|r 89 SVQSQLGGN-LSEALANLSR 107 (187) Q Consensus 89 ~~~~~~gg~-~~~~L~~la~ 107 (187) ....+.|.+ ....|+++.+ T Consensus 80 r~~~~e~~~~~~~~lr~~~~ 99 (102) T d1gpja1 80 MELPDEYRRAASRALRRASE 99 (102) T ss_dssp HSSCTTTTTHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHC T ss_conf 98887544899999999862 No 2 >d1xkpa1 a.243.1.3 (A:73-269) Outer membrane protein yopN (LcrE) {Yersinia pestis [TaxId: 632]} Probab=22.05 E-value=17 Score=13.01 Aligned_cols=16 Identities=19% Similarity=-0.037 Sum_probs=5.4 Q ss_pred CHHHHHHHHHHHCCCH Q ss_conf 8889999977534873 Q gi|254780722|r 64 SLSESISRMVRYMPLQ 79 (187) Q Consensus 64 ~~~~al~~~~~~~~~~ 79 (187) ++.+-+..+...++.| T Consensus 45 t~~ql~~~L~q~f~d~ 60 (197) T d1xkpa1 45 SLSQLKAYLEGKSEEP 60 (197) T ss_dssp CHHHHHHHHHHHCSCH T ss_pred CHHHHHHHHHHHCCCH T ss_conf 8999999998769996 No 3 >d2imha1 d.153.1.7 (A:1-229) Hypothetical protein SPO2555 {Silicibacter pomeroyi [TaxId: 89184]} Probab=20.05 E-value=15 Score=13.41 Aligned_cols=77 Identities=13% Similarity=0.095 Sum_probs=43.5 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHH----------------------------HHHHHHCCCCHHHHHHHHH Q ss_conf 999999569998999999999248428999999----------------------------9998630388889999977 Q gi|254780722|r 22 IIVRSVRAGLPVSDAVAVIVGQSSDPVRSEFRR----------------------------VIETQHLGLSLSESISRMV 73 (187) Q Consensus 22 ~l~~~l~aG~sl~~Al~~~a~~~~~~l~~e~~~----------------------------i~~~~~~G~~~~~al~~~~ 73 (187) ..-..++.|.+..+++..+.+..+++-.+.+.- +.-++-.|..+.++|.+.. T Consensus 54 ~~l~~l~~G~s~~~al~~l~~~D~~~~~RQ~~vvD~~G~~A~~TG~~~~~~~gh~~g~~~~~aGN~L~~~~Vl~aM~~aF 133 (229) T d2imha1 54 EVLQHLRDGSHPEDAVNHVTSQDSGRAYRQLAAMDLLGNAAAFTGSENQDIKGSVTFASGIASGNMLGDNSVLGAMTEAF 133 (229) T ss_dssp HHHHHHHTTCCHHHHHHHHHHTCTTGGGCEEEEEETTSCEEEEECTTSCSSCEEEEETTEEEEEESCSCTHHHHHHHHHH T ss_pred HHHHHHHCCCCHHHHHHHHHHCCCCCCCEEEEEECCCCCEEEEECCCCHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHH T ss_conf 99999986999999999997448873200388980889989988866643300401698698705678712999999999 Q ss_pred HHCCCHHHHHHHHHHHHHHHCCCCH Q ss_conf 5348734799999999987425746 Q gi|254780722|r 74 RYMPLQEVSFFSTVISVQSQLGGNL 98 (187) Q Consensus 74 ~~~~~~~~~~~~~~l~~~~~~gg~~ 98 (187) +...-+--.++..+|......||+. T Consensus 134 ~~~~g~LaeRLl~AL~AG~~aGGD~ 158 (229) T d2imha1 134 VASDLTFERRLLAALIAAEGAGSDF 158 (229) T ss_dssp HHCCSCHHHHHHHHHHHHHHTC--- T ss_pred HHCCCCHHHHHHHHHHHHHHHCCCC T ss_conf 8569999999999999998742798 No 4 >d2ea9a1 d.110.8.1 (A:8-110) Hypothetical protein YfjZ {Escherichia coli [TaxId: 562]} Probab=17.69 E-value=22 Score=12.42 Aligned_cols=24 Identities=21% Similarity=0.200 Sum_probs=20.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 999999999999999999956999 Q gi|254780722|r 9 TAKFLDDFPNALDIIVRSVRAGLP 32 (187) Q Consensus 9 ~~~~~~~l~~~l~~l~~~l~aG~s 32 (187) ..+++..||.++.+|..++.+|.- T Consensus 45 ~~~Ld~aFP~~i~qle~ml~sGeL 68 (103) T d2ea9a1 45 CPKLDVVFPHFISQIESMLTTGEL 68 (103) T ss_dssp HHHHHHHHHHHHHHHHHHHHHSSS T ss_pred HHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 989999999999999998645998 No 5 >d2inwa1 d.110.8.1 (A:4-120) Hypothetical protein YeeU {Shigella flexneri [TaxId: 623]} Probab=16.90 E-value=23 Score=12.31 Aligned_cols=24 Identities=13% Similarity=0.173 Sum_probs=20.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 999999999999999999995699 Q gi|254780722|r 8 RTAKFLDDFPNALDIIVRSVRAGL 31 (187) Q Consensus 8 R~~~~~~~l~~~l~~l~~~l~aG~ 31 (187) -..+++..||.++.+|..++.+|. T Consensus 55 ~~~~Ld~aFP~~ikqlE~ml~sGe 78 (117) T d2inwa1 55 DAYHLDQAFPLLMKQLELMLTGGE 78 (117) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTS T ss_pred HHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 999999999999999999864478 No 6 >d1seda_ a.219.1.1 (A:) Hypothetical protein YhaI {Bacillus subtilis [TaxId: 1423]} Probab=14.86 E-value=26 Score=11.99 Aligned_cols=15 Identities=0% Similarity=0.067 Sum_probs=6.0 Q ss_pred CHHHHHHHHHHHCCC Q ss_conf 888999997753487 Q gi|254780722|r 64 SLSESISRMVRYMPL 78 (187) Q Consensus 64 ~~~~al~~~~~~~~~ 78 (187) .++.-|..|+...+. T Consensus 66 ~F~~Ll~~Fag~L~~ 80 (112) T d1seda_ 66 TFDKLLALFAGQLNE 80 (112) T ss_dssp CCHHHHHHHHHHSCT T ss_pred HHHHHHHHHHHHCCC T ss_conf 399999999753565 No 7 >d1sqga1 a.79.1.3 (A:5-144) Ribosomal RNA small subunit methyltransferase B, RsmB (Sun, Fmu/Fmv), N-terminal domain {Escherichia coli [TaxId: 562]} Probab=11.62 E-value=32 Score=11.40 Aligned_cols=57 Identities=14% Similarity=0.129 Sum_probs=29.9 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHH-HCCCCHHHHHHHHHHH Q ss_conf 99999999956999899999999924842899999999986-3038888999997753 Q gi|254780722|r 19 ALDIIVRSVRAGLPVSDAVAVIVGQSSDPVRSEFRRVIETQ-HLGLSLSESISRMVRY 75 (187) Q Consensus 19 ~l~~l~~~l~aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~-~~G~~~~~al~~~~~~ 75 (187) +++.+...+..|.++.+++....+...+.-+.-+..++... +.-..++..+..+.++ T Consensus 7 A~q~L~~v~~~g~~l~~~l~~~~~~l~~~dr~~~~~lv~gvlr~~~~ld~~i~~~l~~ 64 (140) T d1sqga1 7 AAQAVEQVVEQGQSLSNILPPLQQKVSDKDKALLQELCFGVLRTLSQLDWLINKLMAR 64 (140) T ss_dssp HHHHHHHHHHHCCCHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSS T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 9999999998199899999999985988889999999999998699999999987230 No 8 >d1np3a1 a.100.1.2 (A:183-327) Class I ketol-acid reductoisomerase {Pseudomonas aeruginosa [TaxId: 287]} Probab=11.28 E-value=33 Score=11.33 Aligned_cols=81 Identities=12% Similarity=-0.093 Sum_probs=41.5 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHH--HHHHCCCHHHHHHHHHHHHHHHCCCCHH Q ss_conf 99999956999899999999924842899999999986303888899999--7753487347999999999874257468 Q gi|254780722|r 22 IIVRSVRAGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISR--MVRYMPLQEVSFFSTVISVQSQLGGNLS 99 (187) Q Consensus 22 ~l~~~l~aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~--~~~~~~~~~~~~~~~~l~~~~~~gg~~~ 99 (187) ..-.+..+|.++..|..++.++.+.+..-..+.-...+....|-..-... .+.+.-....+..........++|.-.. T Consensus 27 ~fe~lve~G~~pe~Ay~e~~he~~lI~~li~~~Gl~~m~~~iSdTAeyG~y~~~~~~~~~~~k~~mk~~l~~IqsG~fak 106 (145) T d1np3a1 27 GFETLVEAGYAPEMAYFECLHELKLIVDLMYEGGIANMNYSISNNAEYGEYVTGPEVINAESRAAMRNALKRIQDGEYAK 106 (145) T ss_dssp HHHHHHHTTCCHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHTTHHHH T ss_pred HHHHHHHCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCHHHC T ss_conf 99999983986999999999701136899999739999998530888999998778645977799999999981442411 Q ss_pred HHH Q ss_conf 999 Q gi|254780722|r 100 EAL 102 (187) Q Consensus 100 ~~L 102 (187) +.. T Consensus 107 ~~i 109 (145) T d1np3a1 107 MFI 109 (145) T ss_dssp HHH T ss_pred CCC T ss_conf 022 No 9 >d2ezla_ a.4.1.2 (A:) Ibeta subdomain of the mu end DNA-binding domain of phage mu transposase {Bacteriophage mu [TaxId: 10677]} Probab=9.99 E-value=36 Score=11.05 Aligned_cols=57 Identities=12% Similarity=0.101 Sum_probs=37.0 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHC Q ss_conf 99999999995699989999999992484289999999998630388889999977534 Q gi|254780722|r 18 NALDIIVRSVRAGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYM 76 (187) Q Consensus 18 ~~l~~l~~~l~aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~ 76 (187) +++..+..+.++|.+...|+..++.+..-..+....+.. .-.|.+..|-|-.+..+. T Consensus 37 ~~l~~V~~L~~~G~~~~~A~~~VA~~~~vs~~TL~nW~~--~V~g~~r~DWLpaLl~~~ 93 (99) T d2ezla_ 37 PAVQAADEMLNQGISTKTAFATVAGHYQVSASTLRDKYY--QVQKFAKPDWAAALVDGR 93 (99) T ss_dssp HHHHHHHHHHHTTCCHHHHHHHHHHHSSSCHHHHHHHHH--HHHTSCSTTHHHHTTSCS T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHH--HHCCCCHHHHHHHHCCCC T ss_conf 999999999986970899999999995988999999999--978998888899875674 No 10 >d2iuba2 f.17.3.1 (A:286-349) Magnesium transport protein CorA {Thermotoga maritima [TaxId: 2336]} Probab=9.07 E-value=39 Score=10.83 Aligned_cols=40 Identities=13% Similarity=0.010 Sum_probs=15.9 Q ss_pred HHHHHHHHHHHHHHHHHHCHHHHHHHHCCCHHHHHHHHHHH Q ss_conf 79999999999999999787899999508008999999999 Q gi|254780722|r 130 AWIIGSLPFCVSTLVYFTSPGYMNVLINDPRGHMLLGVAAA 170 (187) Q Consensus 130 ~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~l~~~~~ 170 (187) ..-+..+|..++.-+..++-... +..+.+.|-........ T Consensus 11 ~it~iflP~t~i~gifGMN~~~~-P~~~~~~~~~~~~~~~~ 50 (64) T d2iuba2 11 IIATIFMPLTFIAGIYGMNFEYM-PELRWKWGYPVVLAVMG 50 (64) T ss_dssp HHHHHHHHHHHHTTSCC---------------CHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHCCCCCCC-CCCCCCHHHHHHHHHHH T ss_conf 99999999999996631677889-88786279999999999 Done!