Query gi|254780292|ref|YP_003064705.1| 50S ribosomal protein L13 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 155 No_of_seqs 111 out of 1699 Neff 4.9 Searched_HMMs 13730 Date Wed Jun 1 02:11:12 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780292.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 d2zjrg1 c.21.1.1 (G:30-171) Ri 100.0 0 0 385.9 11.3 142 3-147 1-142 (142) 2 d2j01n1 c.21.1.1 (N:1-139) Rib 100.0 0 0 388.8 6.9 139 2-143 1-139 (139) 3 d2gych1 c.21.1.1 (H:1-140) Rib 100.0 0 0 398.5 -7.4 140 2-142 1-140 (140) 4 d1j3aa_ c.21.1.1 (A:) Ribosoma 100.0 2.5E-44 0 278.2 9.2 122 17-151 2-124 (142) 5 d1vqoj1 c.21.1.1 (J:4-145) Rib 100.0 1.7E-42 0 267.5 7.9 121 11-149 2-123 (142) 6 d2bgwa2 c.52.1.20 (A:16-148) X 28.6 17 0.0013 15.5 2.5 37 16-57 5-41 (133) 7 d1tula_ b.85.5.1 (A:) Tlp20, b 18.5 23 0.0017 14.7 1.5 15 48-62 57-71 (102) 8 d1tzaa_ b.1.23.1 (A:) ApaG {Sh 18.0 28 0.0021 14.3 1.9 14 12-25 45-58 (132) 9 d1xq4a_ b.1.23.1 (A:) ApaG {Bo 17.7 25 0.0018 14.6 1.5 15 12-26 46-60 (123) 10 d1xvsa_ b.1.23.1 (A:) ApaG {Vi 16.8 31 0.0023 14.0 1.8 14 12-25 47-60 (124) No 1 >d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus radiodurans [TaxId: 1299]} Probab=100.00 E-value=0 Score=385.90 Aligned_cols=142 Identities=45% Similarity=0.811 Sum_probs=137.1 Q ss_pred EEEECCHHHCCEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCCC Q ss_conf 11326843602006999789874576799999998465652103455668889997510100156012113333115755 Q gi|254780292|r 3 PTFFQKSSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGYP 82 (155) Q Consensus 3 kT~~~k~~~~~r~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~htgyp 82 (155) |||+++. ++|+||||||+||+||||||.||++|+|||||+|+|++||||+||||||+++.+||+||.+|+|++||||| T Consensus 1 kt~~~k~--~~r~W~viDA~~~~lGRlAs~iAk~L~GK~kp~y~p~~d~Gd~ViViNa~ki~~tG~K~~~k~y~~htg~p 78 (142) T d2zjrg1 1 KTYIPKN--DEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDDKVYTRYTGYQ 78 (142) T ss_dssp CCCCCCC--SCCCEEEEECTTSBHHHHHHHHHHHHHCSSCSSCCSSSCCCCEEEEECCTTCBCSSCSSSSCEEEECCSSC T ss_pred CCCCCCC--CCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEECCCCCCEEEECCCCEEEECCCCHHHHEEHHHCCCC T ss_conf 9627877--77658999799995688999999998557665255235678779974873358727535531000110344 Q ss_pred CCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEHHHC Q ss_conf 76336302000012487999999997308998547899962701078999713208547616652 Q gi|254780292|r 83 GGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKM 147 (155) Q Consensus 83 GG~k~~~~~~~~~~~~P~~il~~aV~gMLPkn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~~~~ 147 (155) ||+++.++.+++ +++|++||++||+||||+|++|+.+|+||+||+|++|||+||+|+.|+++++ T Consensus 79 gg~k~~~~~~~~-~r~P~~ii~~aV~gMLPkn~lgr~~lkrLkvy~G~~hp~~~q~P~~l~~~~l 142 (142) T d2zjrg1 79 GGLKTETAREAL-SKHPERVIEHAVFGMLPKGRQGRAMHTRLKVYAGETHPHSAQKPQVLKTQPL 142 (142) T ss_dssp SSCCEEEESTTT-TSCHHHHHHHHHGGGSCCSHHHHHHHTTCEECSCSTGGGGSCCSCCCCCCCC T ss_pred CCCCCCCHHHHH-CCCHHHHHHHHHHHCCCCCHHHHHHHHCCEEECCCCCCCCCCCCCEECCCCC T ss_conf 554422288875-1166789999997248998659999858868698999810159806504359 No 2 >d2j01n1 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus thermophilus [TaxId: 274]} Probab=100.00 E-value=0 Score=388.83 Aligned_cols=139 Identities=46% Similarity=0.891 Sum_probs=135.3 Q ss_pred CEEEECCHHHCCEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCC Q ss_conf 51132684360200699978987457679999999846565210345566888999751010015601211333311575 Q gi|254780292|r 2 IPTFFQKSSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGY 81 (155) Q Consensus 2 ~kT~~~k~~~~~r~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~htgy 81 (155) ||||+|+ +++|+||||||+||+||||||.||++|+|||||+|||++||||+||||||++|++||+||.++.|++|||| T Consensus 1 mkt~~p~--~~~r~W~viDA~~~~lGRLAs~iA~~L~GK~kp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~hsgy 78 (139) T d2j01n1 1 MKTYVPK--QVEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIYTRYSGY 78 (139) T ss_dssp CCCCCCC--CCCCCCCEECCTTSBTTHHHHHHHHHHTTSSSSSCCTTTCCCCCCEECSCSCCBCSSCCSSSSBCCCCCCS T ss_pred CCCCCCC--CCCCEEEEEECCCCCHHHHHHHHHHHHHCCCHHEEEECCCCCCEEEEECHHHEEEECCCCCEEEEEEECCC T ss_conf 9865755--35521899969999558889999999854440014032478746999343685650653011245542133 Q ss_pred CCCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCHHHCCCEEEE Q ss_conf 57633630200001248799999999730899854789996270107899971320854761 Q gi|254780292|r 82 PGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMD 143 (155) Q Consensus 82 pGG~k~~~~~~~~~~~~P~~il~~aV~gMLPkn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~ 143 (155) |||+++.+++++. .++|++||++||+||||+|++|+.+|+||+||+|++|||+||+|+.|| T Consensus 79 pGg~k~~~~~~~~-~k~P~~il~~aV~gMLPkn~lg~~~l~rLkvy~g~~hp~~aq~p~~l~ 139 (139) T d2j01n1 79 PGGLKKIPLEKML-ATHPERVLEHAVKGMLPKGPLGRRLFKRLKVYAGPDHPHQAQRPEKLE 139 (139) T ss_dssp SSCCCCCBHHHHH-HSSCSHHHHHHHHTTSCSSHHHHHHHTTCEECSSSCCTTCSCCCCCC- T ss_pred CCCCCCCCHHHHC-CCCHHHHHHHHHHHCCCCCHHHHHHHHCCEEECCCCCCCCCCCCEECC T ss_conf 6864533377741-447789999999854889765999985887969899985568987088 No 3 >d2gych1 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escherichia coli [TaxId: 562]} Probab=100.00 E-value=0 Score=398.50 Aligned_cols=140 Identities=44% Similarity=0.823 Sum_probs=137.4 Q ss_pred CEEEECCHHHCCEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCC Q ss_conf 51132684360200699978987457679999999846565210345566888999751010015601211333311575 Q gi|254780292|r 2 IPTFFQKSSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGY 81 (155) Q Consensus 2 ~kT~~~k~~~~~r~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~htgy 81 (155) ||||++++++++|+||||||+||+||||||.||++|+|||||+|||++||||+||||||++|.+||+||.++.||+|||| T Consensus 1 Mkt~~~k~~~~~r~W~viDA~~~~lGRlAs~iA~~L~GK~kp~y~p~~d~Gd~VvViNaeki~~tG~K~~~k~y~~~sgy 80 (140) T d2gych1 1 MKTFTAKPETVKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDKVYYHHTGH 80 (140) T ss_dssp CCCCCSSSCCTTCCCCCCCCSSSCSHHHHSSSSSSSTTCSSSCCCSSSCCCCCCCCSCSSSCCCCSSCSTTCCCCCCCSS T ss_pred CCCCCCCHHHHCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEECHHHCCCCCHHHHHHHHCCCCC T ss_conf 97625885671763799969999568889999999985468754101477767999963363056724654312003337 Q ss_pred CCCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCHHHCCCEEE Q ss_conf 5763363020000124879999999973089985478999627010789997132085476 Q gi|254780292|r 82 PGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFM 142 (155) Q Consensus 82 pGG~k~~~~~~~~~~~~P~~il~~aV~gMLPkn~lgr~~lkrL~vy~g~~Hph~aq~P~~l 142 (155) |||+++.++.+++ .++|++||++||+||||+|++|+.+|+||+||+|++|||+||+|+.| T Consensus 81 pgg~k~~~~~~~~-~k~P~~il~~aV~gMLPkn~lgr~~lkrLkvy~g~~hph~aQ~P~~l 140 (140) T d2gych1 81 IGGIKQATFEEMI-ARRPERVIEIAVKGMLPKGPLGRAMFRKLKVYAGNEHNHAAQQPQVL 140 (140) T ss_dssp CSSCCCCCCHHHH-TTCSSSSTTTSSSSCSCSSSTTSSTTTSSCCCCCCTTTTTSCCCCCC T ss_pred CCCCCCCCHHHHH-HHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEECCCCCCCCCCCCCCC T ss_conf 9885311389997-65788999999971089975599998587896989998444488449 No 4 >d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Probab=100.00 E-value=2.5e-44 Score=278.16 Aligned_cols=122 Identities=25% Similarity=0.380 Sum_probs=115.8 Q ss_pred EEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCCCCCCEEEECCCCCCC Q ss_conf 99978987457679999999846565210345566888999751010015601211333311575576336302000012 Q gi|254780292|r 17 ILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGYPGGIKKTTAKEILAG 96 (155) Q Consensus 17 ~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~htgypGG~k~~~~~~~~~~ 96 (155) -||||+|++||||||.||++| ||||+||||||++|++||+||.++.||+|+|||||++..++.+++ + T Consensus 2 ~vIDA~g~~lGRLAs~vAk~L------------~~Gd~ViVvNaeki~~tG~K~~~k~~~~~~~~~g~~~~~~~~~~~-~ 68 (142) T d1j3aa_ 2 RIINADGLILGRLASRVAKML------------LEGEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNPRRGPFY-P 68 (142) T ss_dssp EEEECTTBBHHHHHHHHHHHH------------HTTCCEEEECGGGCEEESCHHHHHHHHHHHC-------------C-C T ss_pred EEEECCCCCHHHHHHHHHHHH------------HCCCEEEEEECHHHEECCCCHHHHHHHHHHCCCCCCCCCCHHHHC-C T ss_conf 799689982278999999999------------579949999650414417504555565411135534575233311-2 Q ss_pred CCHHHHHHHHHHHCCC-CCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEHHHCCCCC Q ss_conf 4879999999973089-985478999627010789997132085476166528131 Q gi|254780292|r 97 ASPTNILKKAIARMLP-RGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKMNPKN 151 (155) Q Consensus 97 ~~P~~il~~aV~gMLP-kn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~~~~~~kn 151 (155) ++|++||++||+|||| +|++|+.+|+||+||+|++|||++|+|+.++.+++++.+ T Consensus 69 ~~P~~il~~aVrGMLP~k~~lgr~~~krLkvy~G~~h~~~~q~~~~~~~a~~~~~~ 124 (142) T d1j3aa_ 69 KRSDEIVRRTIRGMLPWKTDRGRKAFRRLKVYVGIPKEFQDKQLETIVEAHVSRLS 124 (142) T ss_dssp CSHHHHHHHHHHTTTTTTSHHHHHHHTTEEECSSCCGGGTTSCCBCCGGGBGGGSS T ss_pred CCHHHHHHHHHHCCCCCCCHHHHHHHHCCEEECCCCCCHHHCCCCCCCHHHHHHHC T ss_conf 38489999999702678886799998387783599997233587436678876424 No 5 >d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon Haloarcula marismortui [TaxId: 2238]} Probab=100.00 E-value=1.7e-42 Score=267.49 Aligned_cols=121 Identities=23% Similarity=0.388 Sum_probs=110.0 Q ss_pred HCCEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEC Q ss_conf 60200699978987457679999999846565210345566888999751010015601211333311575576336302 Q gi|254780292|r 11 EVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGYPGGIKKTTA 90 (155) Q Consensus 11 ~~~r~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~htgypGG~k~~~~ 90 (155) +++ +|.||||+|++||||||.||+.|+ +||+||||||++|.+||+||.++.||+|++||||.+.. T Consensus 2 ~~~-k~ivIDA~~~~lGRLAs~vAk~l~------------~Gd~ViVvNaeki~itG~k~~~k~~y~~~~~~g~~kg~-- 66 (142) T d1vqoj1 2 EFD-ADVIVDARDCIMGRVASQVAEQAL------------DGETVAVVNAERAVITGREEQIVEKYEKRVDIGNDNGY-- 66 (142) T ss_dssp CCC-CSEEEECTTBBHHHHHHHHHHHHH------------TTCCEEEECGGGCEEESCHHHHHHHHHHHHHCCCSSCC-- T ss_pred CCC-CEEEEECCCCCHHHHHHHHHHHHC------------CCCEEEEEECHHHCCCCCCHHHHHEEEEEECCCCCCCE-- T ss_conf 866-339997999855888999999863------------89879999771420247512200003566337885435-- Q ss_pred CCCCCCCCHHHHHHHHHHHCCC-CCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEHHHCCC Q ss_conf 0000124879999999973089-9854789996270107899971320854761665281 Q gi|254780292|r 91 KEILAGASPTNILKKAIARMLP-RGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKMNP 149 (155) Q Consensus 91 ~~~~~~~~P~~il~~aV~gMLP-kn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~~~~~~ 149 (155) +.+++|++||++||+|||| ++.+|+.+|+||+||.|++|||++|+|+...+..+.. T Consensus 67 ---~~~r~P~~il~raVrGMLP~k~~~gr~~~krLkvy~G~~h~~~~q~~~~~~~~~~~~ 123 (142) T d1vqoj1 67 ---FYPKRPDGIFKRTIRGMLPHKKQRGREAFESVRVYLGNPYDEDGEVLDGTSLDRLSN 123 (142) T ss_dssp ---CCCCSHHHHHHHHHHTTTTTTSHHHHHHHTTEEECSSCCSSSCCBCCTTCBCCTTTC T ss_pred ---EHHCCHHHHHHHHHHCCCCCCCHHHHHHHHCCEEECCCCCCCCCCCCCHHHHHCCCC T ss_conf ---501288899999981747889904788972758948999964457677456522489 No 6 >d2bgwa2 c.52.1.20 (A:16-148) XPF endonuclease {Aeropyrum pernix [TaxId: 56636]} Probab=28.60 E-value=17 Score=15.49 Aligned_cols=37 Identities=19% Similarity=0.138 Sum_probs=26.4 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEE Q ss_conf 699978987457679999999846565210345566888999 Q gi|254780292|r 16 WILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVI 57 (155) Q Consensus 16 W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvV 57 (155) =.+||...+. |.+...|..+.-+.-.-+.++|||++. T Consensus 5 ~IiiD~RE~~-----s~~~~~l~~~gi~~~~~~L~~GDy~i~ 41 (133) T d2bgwa2 5 RVYVDVREER-----SPVPSILESLGVQVIPKQLPMGDYLVS 41 (133) T ss_dssp EEEEETTTTT-----SSHHHHHHHTTCEEEEECCSSSSEEEE T ss_pred EEEEECCCCC-----CHHHHHHHHCCCEEEEEECCCCCEEEE T ss_conf 9999899996-----045699997899899997687679996 No 7 >d1tula_ b.85.5.1 (A:) Tlp20, baculovirus telokin-like protein {AcMNPV (Autographa californica nuclear polyhedrosis virus) [TaxId: 46015]} Probab=18.46 E-value=23 Score=14.75 Aligned_cols=15 Identities=20% Similarity=0.233 Sum_probs=11.6 Q ss_pred CCCCCCEEEEECCCC Q ss_conf 556688899975101 Q gi|254780292|r 48 SADDGDHVVIINASK 62 (155) Q Consensus 48 ~~d~GD~VvViNa~k 62 (155) .+.||||+|+-|.-+ T Consensus 57 ~v~cGdY~v~~N~~~ 71 (102) T d1tula_ 57 TVSCGNYGVLCNLVQ 71 (102) T ss_dssp EEESSSEEEEEECCS T ss_pred EEEECCEEEEEECCC T ss_conf 998078899997213 No 8 >d1tzaa_ b.1.23.1 (A:) ApaG {Shewanella oneidensis [TaxId: 70863]} Probab=17.96 E-value=28 Score=14.25 Aligned_cols=14 Identities=36% Similarity=0.812 Sum_probs=12.0 Q ss_pred CCEEEEEEECCCCC Q ss_conf 02006999789874 Q gi|254780292|r 12 VEKKWILVDAKGLI 25 (155) Q Consensus 12 ~~r~W~iiDA~~~~ 25 (155) ..|.|.|.|+.|+. T Consensus 45 lsR~W~I~d~~G~~ 58 (132) T d1tzaa_ 45 ETRHWIITDANGKT 58 (132) T ss_dssp EEEEEEEEETTSCE T ss_pred EEEEEEEECCCCCE T ss_conf 93289999899999 No 9 >d1xq4a_ b.1.23.1 (A:) ApaG {Bordetella pertussis [TaxId: 520]} Probab=17.73 E-value=25 Score=14.60 Aligned_cols=15 Identities=20% Similarity=0.725 Sum_probs=12.3 Q ss_pred CCEEEEEEECCCCCH Q ss_conf 020069997898745 Q gi|254780292|r 12 VEKKWILVDAKGLIV 26 (155) Q Consensus 12 ~~r~W~iiDA~~~~l 26 (155) +.|.|.|.|+.|... T Consensus 46 ~sR~W~I~d~~g~~~ 60 (123) T d1xq4a_ 46 ISRHWIITDGEERVQ 60 (123) T ss_dssp EEEEEEEECTTSCEE T ss_pred EEEEEEEEECCCCEE T ss_conf 840679993998779 No 10 >d1xvsa_ b.1.23.1 (A:) ApaG {Vibrio cholerae [TaxId: 666]} Probab=16.82 E-value=31 Score=14.03 Aligned_cols=14 Identities=29% Similarity=0.885 Sum_probs=11.8 Q ss_pred CCEEEEEEECCCCC Q ss_conf 02006999789874 Q gi|254780292|r 12 VEKKWILVDAKGLI 25 (155) Q Consensus 12 ~~r~W~iiDA~~~~ 25 (155) +.|.|.|.|+.|.. T Consensus 47 lsR~W~I~d~~g~~ 60 (124) T d1xvsa_ 47 MSRRWLITDADGKQ 60 (124) T ss_dssp EEEEEEEEETTCCE T ss_pred EEEEEEEEECCCCE T ss_conf 91188999599978 Done!