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 33803 Date Wed Jun 1 11:56:54 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780292.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >3bbo_L Ribosomal protein L13; 100.0 0 0 398.7 5.2 152 1-153 96-250 (250) 2 >2zjr_G 50S ribosomal protein 100.0 0 0 391.9 11.1 148 2-150 27-174 (174) 3 >3i1n_J 50S ribosomal protein 100.0 0 0 386.6 11.6 142 2-144 1-142 (142) 4 >3f1f_N 50S ribosomal protein 100.0 0 0 386.7 7.5 141 1-144 23-163 (163) 5 >2ftc_H L13MT, MRP-L13, 39S ri 100.0 0 0 360.0 9.8 131 15-146 1-131 (132) 6 >1j3a_A 50S ribosomal protein 100.0 0 0 290.7 9.8 125 17-154 2-127 (142) 7 >1vq8_J 50S ribosomal protein 100.0 1.4E-45 0 288.7 8.1 127 9-152 2-129 (145) 8 >2j01_N 50S ribosomal protein 100.0 1.4E-45 0 289.0 6.9 111 2-144 1-111 (111) 9 >2zkr_j 60S ribosomal protein 100.0 5.9E-44 0 278.3 7.8 124 13-149 3-127 (203) 10 >3jyw_M 60S ribosomal protein 100.0 2.7E-44 0 280.2 4.6 122 17-151 1-123 (141) 11 >2j01_N 50S ribosomal protein 97.3 3.9E-05 1.1E-09 50.9 -0.2 28 67-94 1-28 (29) 12 >2ziu_A MUS81 protein; helix-h 32.4 39 0.0012 15.7 2.9 53 11-63 16-70 (229) 13 >1tul_A TLP20; telokin-like pr 27.8 29 0.00085 16.5 1.5 13 49-61 64-76 (108) 14 >2e31_A FBS1, F-box only prote 20.7 60 0.0018 14.6 2.0 83 3-93 38-141 (165) No 1 >>3bbo_L Ribosomal protein L13; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (L:) Probab=100.00 E-value=0 Score=398.74 Aligned_cols=152 Identities=43% Similarity=0.752 Sum_probs=146.9 Q ss_pred CCEEEECCHHH---CCEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHH Q ss_conf 95113268436---020069997898745767999999984656521034556688899975101001560121133331 Q gi|254780292|r 1 MIPTFFQKSSE---VEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYR 77 (155) Q Consensus 1 ~~kT~~~k~~~---~~r~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~ 77 (155) ||+||+++.++ ++|+||||||+||+||||||.||++|+|||||+|||++||||+||||||++|++||+||.+|.||+ T Consensus 96 ~~~t~~~k~~~~~~~~r~W~vIDA~~~~LGRLAs~IAk~L~GKhKp~ytP~~d~Gd~VIVVNa~ki~itG~k~~~k~y~~ 175 (250) T 3bbo_L 96 WNTTWYPKSADHVPTDKKWYVVDATDLILGRMASTIAIHIRGKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQKLYRR 175 (250) T ss_dssp ----------------CCCCEECCSSCCSSTTHHHHTTTTTTTTTTCCCTTSCCSCCCEESCCSSCCCCSGGGGTCCCBC T ss_pred CCCCCCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEECCHHEEECCCHHHHHEEEE T ss_conf 15441367566666576489995899946888999999980477775066767785699835501050560333210011 Q ss_pred CCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEHHHCCCCCCC Q ss_conf 1575576336302000012487999999997308998547899962701078999713208547616652813123 Q gi|254780292|r 78 HTGYPGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKMNPKNSR 153 (155) Q Consensus 78 htgypGG~k~~~~~~~~~~~~P~~il~~aV~gMLPkn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~~~~~~kn~~ 153 (155) |||||||+++.++.+++ .++|++||++||+||||+|++|+.+|+||+||+|++|||++|+|+.+++.++++++.+ T Consensus 176 htg~pGg~k~~~~~~~~-~r~P~~Ii~~aVrgMLPkn~lgr~~lkrLkvy~g~~hp~~~qkp~~l~~~~~~~~~kr 250 (250) T 3bbo_L 176 HSGRPGGLKEETFDQLQ-KRIPERIIEHAVRGMLPKGRLGRYLFNHLKVYKGAEHPHQAQQPIDLPLRDKRIRVEK 250 (250) T ss_dssp CCSSSSCCCBCCHHHHT-TSCTTHHHHHHHHTTSCSSSSHHHHHTTCCCCSSSCCSCTTSCC-------------- T ss_pred ECCCCCCCCCCCCCCCC-CCCHHHHHHHHHHHCCCCCHHHHHHHHCCEEECCCCCCCCCCCCEECCHHHHHHHHCC T ss_conf 11333445543223224-5688899999987418998459999749789689999712359715366674443049 No 2 >>2zjr_G 50S ribosomal protein L13; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} (G:) Probab=100.00 E-value=0 Score=391.85 Aligned_cols=148 Identities=43% Similarity=0.739 Sum_probs=144.9 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 27 ~~t~~~~~~~~~r~W~viDA~~~~lGRLAs~iA~~L~GKhKp~y~P~~d~Gd~ViVINa~~v~~tG~k~~~k~y~~htg~ 106 (174) T 2zjr_G 27 FKVKTYIPKNDEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDDKVYTRYTGY 106 (174) T ss_dssp ---CCCCCCCSCCCEEEEECTTSBHHHHHHHHHHHHHCSSCSSCCSSSCCCCEEEEECCTTCBCSSCSSSSCEEEECCSS T ss_pred EEEEECCCCCCCCCEEEEECCCCCHHHHHHHHHHHHCCCCCCEEEECCCCCCEEEEECCCEEEECCCCEEEEEEEEECCC T ss_conf 11243158867655899969999468899999999726887646513457867999435336854863135676640124 Q ss_pred CCCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEHHHCCCC Q ss_conf 576336302000012487999999997308998547899962701078999713208547616652813 Q gi|254780292|r 82 PGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKMNPK 150 (155) Q Consensus 82 pGG~k~~~~~~~~~~~~P~~il~~aV~gMLPkn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~~~~~~k 150 (155) |||+++.++++++ .++|++||++||+||||+|++|+.+|+||+||+|++|||++|+|+.+++.++++| T Consensus 107 pgg~k~~~~~~~~-~r~P~~ii~~aV~gMLPkn~~gr~~l~rL~vy~g~~hp~~~qkp~~l~i~~~~~k 174 (174) T 2zjr_G 107 QGGLKTETAREAL-SKHPERVIEHAVFGMLPKGRQGRAMHTRLKVYAGETHPHSAQKPQVLKTQPLEVK 174 (174) T ss_dssp CSSCCEEEESTTT-TSCHHHHHHHHHGGGSCCSHHHHHHHTTCEECSCSTGGGGSCCSCCCCCCCC--- T ss_pred CCCCCCCCHHHHC-CCCHHHHHHHHHHHHCCCCHHHHHHHHCCEEECCCCCCHHHCCCCEECCCCCCCC T ss_conf 5543321024430-2377899999999628998669999848868589999843239817524357779 No 3 >>3i1n_J 50S ribosomal protein L13; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1p85_H 1p86_H 1vs8_J 2aw4_J 2awb_J 2gya_H 2gyc_H 1vs6_J 2i2v_J 2i2t_J* 2qao_J* 2qba_J* 2qbc_J* 2qbe_J 2qbg_J 2qbi_J* 2qbk_J* 2qov_J 2qox_J 2qoz_J* ... (J:) Probab=100.00 E-value=0 Score=386.56 Aligned_cols=142 Identities=45% Similarity=0.832 Sum_probs=139.7 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 m~t~~~~~~~~~r~W~viDA~~~~lGRlAs~iA~~L~GK~kp~y~p~~d~Gd~VvViNa~~i~~tG~k~~~k~y~~htg~ 80 (142) T 3i1n_J 1 MKTFTAKPETVKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDKVYYHHTGH 80 (142) T ss_dssp CCCCCCCTTTCCCCEEEEECSSCBTTHHHHHHHHHHHTTTSSCCCTTSCCCCEEEEECGGGCBCCTTHHHHCCCEEECSS T ss_pred CCCCCCCHHHHCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCCEECCCCEEEEEEEEEEEC T ss_conf 97625885671652899969999579999999999864788751002467757999966301213874047898864225 Q ss_pred CCCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEH Q ss_conf 576336302000012487999999997308998547899962701078999713208547616 Q gi|254780292|r 82 PGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMDI 144 (155) Q Consensus 82 pGG~k~~~~~~~~~~~~P~~il~~aV~gMLPkn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~ 144 (155) |||+++.++.+++ .++|++|+++||+||||+|++|+.+|+||+||+|++|||++|+|+.++| T Consensus 81 pgg~~~~~~~~~~-~r~P~~i~~~aVrgMLPkn~~g~~~l~rL~iy~g~~hp~~~q~p~~l~~ 142 (142) T 3i1n_J 81 IGGIKQATFEEMI-ARRPERVIEIAVKGMLPKGPLGRAMFRKLKVYAGNEHNHAAQQPQVLDI 142 (142) T ss_dssp TTCEEECCHHHHH-HSCTHHHHHHHHHHHSCSSHHHHHHHTTEECCSSSCCSCGGGCCEECCC T ss_pred CCCCCCCCHHHHH-HHHHHHHHHHHHHHHCCCCHHHHHHHHCCEEECCCCCCCCCCCCEEECC T ss_conf 9975300279998-6678899999997417998559999848789698999844569877269 No 4 >>3f1f_N 50S ribosomal protein L13; RF2, ribosome, termination, tRNA; 3.00A {Thermus thermophilus} PDB: 1vsa_H 3d5d_N 3d5b_N 3f1h_N (N:) Probab=100.00 E-value=0 Score=386.69 Aligned_cols=141 Identities=45% Similarity=0.891 Sum_probs=136.6 Q ss_pred CCEEEECCHHHCCEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCC Q ss_conf 95113268436020069997898745767999999984656521034556688899975101001560121133331157 Q gi|254780292|r 1 MIPTFFQKSSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYRHTG 80 (155) Q Consensus 1 ~~kT~~~k~~~~~r~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~htg 80 (155) ||+|+++ ++++|+||||||+||+||||||.||++|+|||||+|||++||||+||||||++|++||+||.++.||+||| T Consensus 23 ~~kt~~~--~~~~r~W~viDA~~~~lGRLAs~IAk~L~GKhKp~y~P~~d~Gd~VIVINa~ki~~tG~k~~~k~y~~htg 100 (163) T 3f1f_N 23 LVKTYVP--KQVEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIYTRYSG 100 (163) T ss_dssp --CCCCC--CCCCCCBCBBCCTTCBHHHHHHHHHHHHSCTTSTTCCTTTCCCCBCEECCGGGCBCSTTHHHHCEECCBCS T ss_pred HEEEECC--CCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCEEEEECCCCCEEEEEEEEC T ss_conf 1112168--76565379994899936888999999984456464265666698899975822798368431067899824 Q ss_pred CCCCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEH Q ss_conf 5576336302000012487999999997308998547899962701078999713208547616 Q gi|254780292|r 81 YPGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMDI 144 (155) Q Consensus 81 ypGG~k~~~~~~~~~~~~P~~il~~aV~gMLPkn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~ 144 (155) ||||+++.+++++++ ++|++||++||+||||+|++|+.+|+||+||+|++|||++|+|+.+++ T Consensus 101 ~pGg~k~~~~~~~~~-k~P~~ii~~aV~gMLPkn~lgr~~lkrL~vy~g~~hp~~~qkp~~l~i 163 (163) T 3f1f_N 101 YPGGLKKIPLEKMLA-THPERVLEHAVKGMLPKGPLGRRLFKRLKVYAGPDHPHQAQRPEKLEV 163 (163) T ss_dssp STTCBCCEEHHHHHH-SSCHHHHHHHHHTTSCSSHHHHHHHHTCEECSSSCCCCCSCCCBCC-- T ss_pred CCCCCCCCCHHHHHC-CCHHHHHHHHHHHCCCCCHHHHHHHHCCEEECCCCCCCCCCCCEEECC T ss_conf 799876372566512-388999999998637998669999858879698999855679867169 No 5 >>2ftc_H L13MT, MRP-L13, 39S ribosomal protein L13, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} (H:17-148) Probab=100.00 E-value=0 Score=360.04 Aligned_cols=131 Identities=40% Similarity=0.710 Sum_probs=128.1 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCCCCCCEEEECCCCC Q ss_conf 06999789874576799999998465652103455668889997510100156012113333115755763363020000 Q gi|254780292|r 15 KWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGYPGGIKKTTAKEIL 94 (155) Q Consensus 15 ~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~htgypGG~k~~~~~~~~ 94 (155) .||||||+||+||||||.||++|+|||||+|||++||||+||||||++|++||+||.+|.|++|||||||+++.++.+++ T Consensus 1 ~W~viDA~~~~lGRlAs~vA~~L~GKhKp~y~P~~d~Gd~ViViNa~~i~~tG~k~~~k~y~~ht~~~gg~~~~~~~~~~ 80 (132) T 2ftc_H 1 IWYLLDGKMQPPGKLAAMASIRLQGLHKPVYHALSDCGDHVVIMNTRHIAFSGNKWEQKVYSSHTGYPGGFRQVTAAQLH 80 (132) T ss_pred EEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCEEEEEEEEEEEECCHHHHHHHHHHCCCCCCCCCCCCHHHHH T ss_conf 69999489993688999999998448863157641267589996111268612155555443101123555655588875 Q ss_pred CCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEHHH Q ss_conf 1248799999999730899854789996270107899971320854761665 Q gi|254780292|r 95 AGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAK 146 (155) Q Consensus 95 ~~~~P~~il~~aV~gMLPkn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~~~ 146 (155) .++|++|+++||+||||+|++|+.+|+||+||+|++|||++|+|+.+++.+ T Consensus 81 -~r~P~~ii~~aVkgMLPkn~~gr~~l~rL~vy~g~~hp~~~q~p~~~~i~q 131 (132) T 2ftc_H 81 -LRDPVAIVKLAIYGMLPKNLHRRTMMERLHLFPDEYIPEDILKNLVEELPQ 131 (132) T ss_pred -CCCHHHHHHHHHHHHCCCCHHHHHHHHCCEECCCCCCCHHHHCCCCCCCCC T ss_conf -158379999999984799720999985857768999986772844125789 No 6 >>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly, ribosome; 1.60A {Pyrococcus horikoshii} (A:) Probab=100.00 E-value=0 Score=290.73 Aligned_cols=125 Identities=24% Similarity=0.371 Sum_probs=120.2 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~~~~lGRlAs~IAk~L~g------------Gd~VvViNa~~i~~tG~k~~~k~y~~ht~~~gg~~~~~~~~~~-~ 68 (142) T 1j3a_A 2 RIINADGLILGRLASRVAKMLLE------------GEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNPRRGPFY-P 68 (142) T ss_dssp EEEECTTBBHHHHHHHHHHHHHT------------TCCEEEECGGGCEEESCHHHHHHHHHHHC-------------C-C T ss_pred EEEECCCCCHHHHHHHHHHHHHC------------CCEEEEEECHHEEEECCCHHEEEEEECCCCCCCCCCCCHHHHC-C T ss_conf 79978998227899999999808------------9969999742418717840201234202345643663067651-4 Q ss_pred CCHHHHHHHHHHHCCC-CCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEHHHCCCCCCCC Q ss_conf 4879999999973089-985478999627010789997132085476166528131236 Q gi|254780292|r 97 ASPTNILKKAIARMLP-RGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKMNPKNSRR 154 (155) Q Consensus 97 ~~P~~il~~aV~gMLP-kn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~~~~~~kn~~~ 154 (155) ++|++|+++||+|||| +|++|+.+|+||+||+|++|||++|+|+.++++++++++.++ T Consensus 69 r~P~~ii~~aV~gMLP~k~~~gr~~l~rL~vy~g~~hp~~~~~~~~~~~~~~~~~~~rk 127 (142) T 1j3a_A 69 KRSDEIVRRTIRGMLPWKTDRGRKAFRRLKVYVGIPKEFQDKQLETIVEAHVSRLSRPK 127 (142) T ss_dssp CSHHHHHHHHHHTTTTTTSHHHHHHHTTEEECSSCCGGGTTSCCBCCGGGBGGGSSSCC T ss_pred CCHHHHHHHHHHCCCCCCCHHHHHHHHCCEEECCCCCCHHHCCCCCCCHHHHHHHCCCC T ss_conf 48899999998556888985799998388897799997221687016678876304896 No 7 >>1vq8_J 50S ribosomal protein L13P; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} (J:) Probab=100.00 E-value=1.4e-45 Score=288.71 Aligned_cols=127 Identities=22% Similarity=0.321 Sum_probs=118.6 Q ss_pred HHHCCEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCCCCCCEEE Q ss_conf 43602006999789874576799999998465652103455668889997510100156012113333115755763363 Q gi|254780292|r 9 SSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGYPGGIKKT 88 (155) Q Consensus 9 ~~~~~r~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~htgypGG~k~~ 88 (155) +.+++|+||||||+||+||||||.||+.|+ |||+||||||++|++||+||.+|.|++|||||||++.. T Consensus 2 a~~~~r~w~viDA~~~~lGRlAs~iA~~l~------------~Gd~VvVvNa~~i~~tG~k~~~k~y~~ht~~~g~~~~~ 69 (145) T 1vq8_J 2 SVAEFDADVIVDARDCIMGRVASQVAEQAL------------DGETVAVVNAERAVITGREEQIVEKYEKRVDIGNDNGY 69 (145) T ss_dssp --CCCCCSEEEECTTBBHHHHHHHHHHHHH------------TTCCEEEECGGGCEEESCHHHHHHHHHHHHHCCCSSCC T ss_pred CHHHCCCEEEEECCCCCHHHHHHHHHHHHC------------CCCEEEEEECHHHCCCCCHHHHHHHHEEEECCCCCCCE T ss_conf 633427639997999873887999999863------------89879999671312257324421110355136885425 Q ss_pred ECCCCCCCCCHHHHHHHHHHHCCC-CCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEHHHCCCCCC Q ss_conf 020000124879999999973089-9854789996270107899971320854761665281312 Q gi|254780292|r 89 TAKEILAGASPTNILKKAIARMLP-RGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKMNPKNS 152 (155) Q Consensus 89 ~~~~~~~~~~P~~il~~aV~gMLP-kn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~~~~~~kn~ 152 (155) . +.++|++||++||+|||| ++.+|+.+|+||+||+|++|||++|+|+.+++...++.+. T Consensus 70 ~-----~~r~P~~ii~~aV~gMLP~k~~~gr~~l~rL~vy~g~~hp~~~~~~~~~~~~~~~~~~~ 129 (145) T 1vq8_J 70 F-----YPKRPDGIFKRTIRGMLPHKKQRGREAFESVRVYLGNPYDEDGEVLDGTSLDRLSNIKF 129 (145) T ss_dssp C-----CCCSHHHHHHHHHHTTTTTTSHHHHHHHHTEEECSSCCSSSCCBCCTTCBCCTTSCCSE T ss_pred E-----HHCCHHHHHHHHHHCCCCCCCCHHHHHHHCCEEECCCCCCCCCCCCCHHHHHCCCCCCE T ss_conf 5-----11298899999984516789904789973757807999964456776356641489856 No 8 >>2j01_N 50S ribosomal protein L13; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} (N:1-63,N:93-140) Probab=100.00 E-value=1.4e-45 Score=289.05 Aligned_cols=111 Identities=43% Similarity=0.867 Sum_probs=105.8 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~~~--~~~~r~W~iiDA~~q~lGrlA~~ia~~L~GKhKp~y~P~~d~GD~VVViNa~~i~~t--------------- 63 (111) T 2j01_N 1 MKTYVP--KQVEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVT--------------- 63 (111) T ss_dssp CCCCCC--CCCCCCCCEECCTTSBTTHHHHHHHHHHTTSSSSSCCTTTCCCCCCEECSCSCCBCS--------------- T ss_pred CCCCCC--CCCCCEEEEEECCCCCHHHHHHHHHHHHHCCCHHCEEECCCCCCEEEEEEHHHEEEC--------------- T ss_conf 986575--535530899969999558889999999846431103113578737999500445742--------------- Q ss_pred CCCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEH Q ss_conf 576336302000012487999999997308998547899962701078999713208547616 Q gi|254780292|r 82 PGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMDI 144 (155) Q Consensus 82 pGG~k~~~~~~~~~~~~P~~il~~aV~gMLPkn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~ 144 (155) |.|++|++++|+||||||.+|+++|+||+||+|.+|||++|+++.++| T Consensus 64 ---------------R~P~~I~~r~VRGMLPK~~~G~~alkrLkvy~G~P~~~~~~~~~~ipi 111 (111) T 2j01_N 64 ---------------THPERVLEHAVKGMLPKGPLGRRLFKRLKVYAGPDHPHQAQRPEKLEV 111 (111) T ss_dssp ---------------SSCSHHHHHHHHTTSCSSHHHHHHHTTCEECSSSCCTTCSCCCCCC-- T ss_pred ---------------CCHHHHHHHHHHHHCCCCHHHHHHHHCCEEECCCCCCCCCCCCEEECC T ss_conf ---------------486899999999618997569999848789698999855689867169 No 9 >>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (j:) Probab=100.00 E-value=5.9e-44 Score=278.30 Aligned_cols=124 Identities=20% Similarity=0.297 Sum_probs=117.1 Q ss_pred CEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCCCCCCEEEECCC Q ss_conf 20069997898745767999999984656521034556688899975101001560121133331157557633630200 Q gi|254780292|r 13 EKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGYPGGIKKTTAKE 92 (155) Q Consensus 13 ~r~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki~~tG~K~~~k~y~~htgypGG~k~~~~~~ 92 (155) +++||||||+||+||||||.||+.|+ |||+||||||++|.+||++|.++.||+|+|||||++..++++ T Consensus 3 ~r~w~viDA~~~~lGRlAs~iAk~L~------------~G~~VvVvn~e~i~isG~k~~~k~~~~h~~~~g~~~~~~~g~ 70 (203) T 2zkr_j 3 EVQVLVLDGRGHLLGRLAAIVAKQVL------------LGRKVVVVRCEGINISGNFYRNKLNYLAFLRKRMNTNPSRGP 70 (203) T ss_dssp ----CEEECTTBBHHHHHHHHHHHHH------------HTCCEEEECGGGCEEESCHHHHHHHSSSSSCHHHHCCCSSCC T ss_pred CCEEEEEECCCCCHHHHHHHHHHHHC------------CCCEEEEEEHHHHEECCCHHHHHHHHHCCCCCCCCCCCCHHH T ss_conf 74499997899805888999999862------------799699988689045560776655530102589887688788 Q ss_pred CCCCCCHHHHHHHHHHHCCC-CCHHHHHHHHCCCCCCCCCCCHHHCCCEEEEHHHCCC Q ss_conf 00124879999999973089-9854789996270107899971320854761665281 Q gi|254780292|r 93 ILAGASPTNILKKAIARMLP-RGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKMNP 149 (155) Q Consensus 93 ~~~~~~P~~il~~aV~gMLP-kn~lgr~~lkrL~vy~g~~Hph~aq~P~~l~~~~~~~ 149 (155) +. .++|++|+++||+|||| ++.+|+.+|+||+||+|++|||++|+|+.+++..... T Consensus 71 ~~-~r~P~~I~~raVrgMLP~k~~rg~~~l~rL~vy~g~p~p~~~~k~~~~~~~~~~~ 127 (203) T 2zkr_j 71 YD-FRAPSRIFWRTVRGMLPHKTKRGQAALDRLKVFDGIPPPYDKKKRMVVPAALKVV 127 (203) T ss_dssp CC-CCSHHHHHHHHHHHHSCTTSHHHHHHHHTEEECSCSSCSSSSCCBCCGGGBCCSS T ss_pred HH-CCCHHHHHHHHHHCCCCCCCHHHHHHHHCCEEECCCCCCCCCCCCEECCCHHHHH T ss_conf 62-5586799999873527899836899984777825899976454332023005765 No 10 >>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_M (M:1-141) Probab=100.00 E-value=2.7e-44 Score=280.24 Aligned_cols=122 Identities=24% Similarity=0.361 Sum_probs=115.2 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 1 iviDA~~~~lGRlAs~iA~~L~------------~Gd~ViViNa~ki~ltG~k~~~k~y~~ht~~~gg~~~~~~~~~~-~ 67 (141) T 3jyw_M 1 VVIDGKGHLVGRLASVVAKQLL------------NGQKIVVVRAEELNISGEFFRNKLKYHDFLRKATAFNKTRGPFH-F 67 (141) T ss_dssp CCCCCCSSCSHHHHHHHHHHHT------------TTCCCCEECSTTSCCCCCSSHHHHSCSSSSSSTTSCCCSSSCCC-C T ss_pred CEEECCCCCHHHHHHHHHHHHC------------CCCEEEEEEEEEEEECCCCCEEEEEEEEEEECCCCCCCCHHHHH-C T ss_conf 9894899975788999999971------------89979999810079758501368999851007754441688773-1 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 68 r~P~~ii~~aV~gMLP~k~~~gr~~lkrL~vy~g~~hp~~~~~~~~~~~~~~~~~~ 123 (141) T 3jyw_M 68 RAPSRIFYKALRGMVSHKTARGKAALERLKVFEGIPPPYDKKKRVVVPQALRVLRL 123 (141) T ss_dssp SSTTTHHHHHTTSSSCSSSHHHHHHHHHCCEESSCCCCSCCSCSSSCCSSCCCCCS T ss_pred CCHHHHHHHHHHCCCCCCCHHHHHHHHCCEEECCCCCCHHCCCCEECCHHHHHHCC T ss_conf 38389999998356999990599997297897799996320798737468776133 No 11 >>2j01_N 50S ribosomal protein L13; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} (N:64-92) Probab=97.29 E-value=3.9e-05 Score=50.89 Aligned_cols=28 Identities=54% Similarity=0.981 Sum_probs=25.8 Q ss_pred CCHHHHHHHHHCCCCCCCCEEEECCCCC Q ss_conf 6012113333115755763363020000 Q gi|254780292|r 67 GKKYDQKTYYRHTGYPGGIKKTTAKEIL 94 (155) Q Consensus 67 G~K~~~k~y~~htgypGG~k~~~~~~~~ 94 (155) |+|..+|+|.++||||||+|+++++.|+ T Consensus 1 gkkl~qkiytrysgy~gglk~ip~ekml 28 (29) T 2j01_N 1 GKKLEQKIYTRYSGYPGGLKKIPLEKML 28 (29) T ss_dssp SCCSSSSBCCCCCCSSSCCCCCBHHHHH T ss_pred CCCCCEEEEEEEECCCCCCCCCCHHHHH T ss_conf 7763027999860356765555577762 No 12 >>2ziu_A MUS81 protein; helix-hairpin-helix, alternative splicing, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; 2.70A {Danio rerio} PDB: 2ziv_A 2ziw_A (A:1-229) Probab=32.43 E-value=39 Score=15.71 Aligned_cols=53 Identities=11% Similarity=0.026 Sum_probs=40.6 Q ss_pred HCCEEEEEEECCCCCHH--HHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCC Q ss_conf 60200699978987457--679999999846565210345566888999751010 Q gi|254780292|r 11 EVEKKWILVDAKGLIVG--RLASQIALRLRGKNKPTYTPSADDGDHVVIINASKV 63 (155) Q Consensus 11 ~~~r~W~iiDA~~~~lG--RlAs~iA~~L~GKhKp~y~P~~d~GD~VvViNa~ki 63 (155) ...+-=.|||-..+.-+ +..+.+...|..+.-+.---...+|||+.|.++... T Consensus 16 ~~~~~~iiVD~RE~~~~~~~~~~~~~~~l~~~gv~~~~~~L~~GDyiwv~~~~~~ 70 (229) T 2ziu_A 16 GSYDIVLCVDLCETTGGSSVRKQELVKELQRNSVTFDVRKLNVGDFLWVARERVT 70 (229) T ss_dssp TSEEEEEEECGGGSCC-----CCHHHHHHHTTTCCEECCCCSSCSEEEEEEECCC T ss_pred CCCEEEEEEECCCCCCCCCCHHHHHHHHHHHCCCEEEEEECCCCCEEEEECCCCC T ss_conf 9837999998888766664118999999997899589985686888999326654 No 13 >>1tul_A TLP20; telokin-like protein; 2.20A {Autographa californicanucleopolyhedrovirus} (A:) Probab=27.82 E-value=29 Score=16.49 Aligned_cols=13 Identities=23% Similarity=0.192 Sum_probs=10.7 Q ss_pred CCCCCEEEEECCC Q ss_conf 5668889997510 Q gi|254780292|r 49 ADDGDHVVIINAS 61 (155) Q Consensus 49 ~d~GD~VvViNa~ 61 (155) +-||||+|+.|.- T Consensus 64 v~cgdY~v~~N~~ 76 (108) T 1tul_A 64 VSCGNYGVLCNLV 76 (108) T ss_dssp EESSSEEEEEECC T ss_pred EEECCEEEEEECC T ss_conf 9827789999700 No 14 >>2e31_A FBS1, F-box only protein 2; ubiquitin, SCF, ubiquitin ligase, FBS1; 2.40A {Mus musculus} PDB: 2e32_A (A:133-297) Probab=20.69 E-value=60 Score=14.64 Aligned_cols=83 Identities=16% Similarity=0.214 Sum_probs=51.9 Q ss_pred EEEECCHHHCCEEEEEEECCCCCHHHHHHHHHHHHHCCCCCC------CCCCCCCCC----EEEEECCCCCCC------- Q ss_conf 113268436020069997898745767999999984656521------034556688----899975101001------- Q gi|254780292|r 3 PTFFQKSSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPT------YTPSADDGD----HVVIINASKVAF------- 65 (155) Q Consensus 3 kT~~~k~~~~~r~W~iiDA~~~~lGRlAs~iA~~L~GKhKp~------y~P~~d~GD----~VvViNa~ki~~------- 65 (155) ++.++.+-..-.+|-+||-...-+ ...|+-.-+|. |++..|||. .|-+.++++.++ T Consensus 38 ~~~FvtSy~~C~k~Q~IDL~~eG~-------~~elLD~~qP~I~vsdWy~~r~d~g~~Y~l~V~LL~~~~~vi~~f~~~~ 110 (165) T 2e31_A 38 KKYFASSFEWCRKAQVIDLQAEGY-------WEELLDTTQPAIVVKDWYSGRTDAGSLYELTVRLLSENEDVLAEFATGQ 110 (165) T ss_dssp CEEEECCSSCEEEEEEEETTTTTC-------CHHHHHHTCCCEEEEEEEECCTTSCEEEEEEEEEECTTCCEEEEEECCC T ss_pred CEEEEEEECCEEEEEEECHHHCCC-------CHHHHHCCCCCEEEEEEECCCCCCCCEEEEEEEEECCCCCEEEEECCCC T ss_conf 468985531488887744243374-------9878606599779986453788876158999998747996899973787 Q ss_pred ----CCCHHHHHHHHHCCCCCCCCEEEECCCC Q ss_conf ----5601211333311575576336302000 Q gi|254780292|r 66 ----SGKKYDQKTYYRHTGYPGGIKKTTAKEI 93 (155) Q Consensus 66 ----tG~K~~~k~y~~htgypGG~k~~~~~~~ 93 (155) .+++|.+-. +--++||-|.+.+.|..- T Consensus 111 ~~~~~~~~W~~vs-h~F~~y~pGvR~V~F~h~ 141 (165) T 2e31_A 111 VAVPEDGSWMEIS-HTFIDYGPGVRFVRFEHG 141 (165) T ss_dssp EECCTTCCCEEEE-EEECSCCSCCCEEEEEEE T ss_pred CCCCCCCCEEEEE-EEECCCCCCCEEEEEEEC T ss_conf 2025898579999-995898998369999867 Done!