Query gi|254780440|ref|YP_003064853.1| transcription elongation factor GreA [Candidatus Liberibacter asiaticus str. psy62] Match_columns 158 No_of_seqs 135 out of 2199 Neff 6.5 Searched_HMMs 23785 Date Mon May 30 10:56:16 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780440.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1grj_A GREA protein; transcrip 100.0 0 0 331.9 16.1 157 2-158 1-158 (158) 2 2f23_A Anti-cleavage anti-GREA 100.0 0 0 322.3 19.2 153 1-156 1-155 (156) 3 2p4v_A Transcription elongatio 100.0 0 0 323.5 18.1 156 2-158 1-156 (158) 4 3bmb_A Regulator of nucleoside 100.0 2.3E-29 9.6E-34 206.5 12.9 124 1-157 1-126 (136) 5 2pn0_A Prokaryotic transcripti 100.0 8.2E-30 3.5E-34 209.3 5.0 114 36-157 15-129 (141) 6 3gty_X Trigger factor, TF; cha 94.1 0.21 8.9E-06 28.5 7.5 92 56-156 131-226 (433) 7 1w26_A Trigger factor, TF; cha 82.0 2.6 0.00011 21.5 5.5 78 58-143 136-215 (432) 8 1wle_A Seryl-tRNA synthetase; 81.8 2.9 0.00012 21.3 7.5 79 10-90 77-165 (501) 9 1ses_A Seryl-tRNA synthetase; 68.4 6.2 0.00026 19.1 4.4 74 10-90 35-113 (421) 10 2dq0_A Seryl-tRNA synthetase; 67.7 6.7 0.00028 18.9 8.6 92 10-105 38-135 (455) 11 3cgm_A SLYD, peptidyl-prolyl C 65.8 7.2 0.0003 18.7 4.3 25 122-146 36-60 (158) 12 1t11_A Trigger factor, TF; hel 62.6 8.3 0.00035 18.3 5.4 92 57-157 138-245 (392) 13 2yxy_A Hypothetical conserved 57.9 10 0.00042 17.8 8.4 64 2-96 7-72 (115) 14 1o9g_A RRNA methyltransferase; 56.3 3.6 0.00015 20.6 1.4 85 6-105 99-184 (250) 15 1hxv_A Trigger factor; FKBP fo 45.7 5.5 0.00023 19.5 1.0 23 122-144 66-88 (113) 16 1cz4_A VCP-like ATPase; double 44.6 16 0.00068 16.5 5.8 71 85-155 78-155 (185) 17 3lss_A Seryl-tRNA synthetase; 43.1 17 0.00072 16.3 9.4 79 10-90 44-153 (484) 18 2kw8_A LPXTG-SITE transpeptida 42.7 17 0.00073 16.3 4.1 28 131-158 87-114 (158) 19 2dq3_A Seryl-tRNA synthetase; 41.5 18 0.00076 16.2 6.9 79 10-90 37-117 (425) 20 2kfw_A FKBP-type peptidyl-prol 41.3 18 0.00076 16.2 5.3 26 121-146 40-65 (196) 21 2w1j_A Putative sortase, sorta 39.7 19 0.00081 16.0 4.4 29 130-158 127-155 (212) 22 2gpj_A Siderophore-interacting 39.6 19 0.00081 16.0 3.8 64 85-148 38-106 (252) 23 2k8i_A SLYD, peptidyl-prolyl C 39.1 20 0.00083 15.9 4.4 22 124-145 43-64 (171) 24 1tvc_A Methane monooxygenase c 37.8 15 0.00064 16.6 2.2 62 87-148 45-110 (250) 25 1t2w_A Sortase; transpeptidase 34.8 23 0.00097 15.5 3.9 27 131-157 73-99 (145) 26 3fn5_A Sortase A; sortase-fold 32.5 25 0.0011 15.3 4.1 28 130-157 96-123 (187) 27 2rkh_A Putative APHA-like tran 31.1 26 0.0011 15.1 3.2 65 4-74 77-142 (180) 28 2w1k_A Putative sortase; pilus 30.5 27 0.0011 15.1 4.1 31 128-158 123-153 (252) 29 1nul_A XPRT, xanthine-guanine 30.0 27 0.0011 15.0 2.5 22 1-22 1-22 (152) 30 1hmj_A RPB5, protein (subunit 29.1 28 0.0012 14.9 3.2 27 118-145 35-61 (78) 31 2qcp_X Cation efflux system pr 25.4 28 0.0012 14.9 1.9 29 128-156 49-77 (80) 32 1eik_A RNA polymerase subunit 25.3 29 0.0012 14.8 2.0 27 119-146 38-64 (77) 33 3hu3_A Transitional endoplasmi 25.0 34 0.0014 14.4 4.1 62 77-143 42-104 (489) 34 1ix5_A FKBP; ppiase, isomerase 24.5 30 0.0013 14.8 1.9 25 122-146 54-78 (151) 35 3nja_A Probable ggdef family p 24.3 29 0.0012 14.8 1.8 27 88-115 80-106 (125) 36 2vb2_X Copper protein, cation 24.3 30 0.0013 14.7 1.9 38 119-156 48-85 (88) 37 2rcz_A Tight junction protein 24.1 35 0.0015 14.3 3.7 46 89-140 1-47 (81) 38 1dm9_A Hypothetical 15.5 KD pr 23.6 36 0.0015 14.3 3.2 28 82-111 45-72 (133) 39 2k6p_A Uncharacterized protein 22.0 37 0.0016 14.2 2.0 25 82-108 37-61 (92) 40 2jv2_A Putative uncharacterize 21.8 39 0.0016 14.0 4.8 34 123-156 30-65 (83) 41 3g66_A Sortase C; pilus, trans 21.7 39 0.0016 14.0 4.1 29 130-158 126-154 (212) 42 3i0u_A Phosphothreonine lyase 21.4 40 0.0017 14.0 3.1 51 44-97 140-192 (218) 43 3enu_A Nitrollin, putative unc 21.1 40 0.0017 14.0 2.3 41 84-130 17-57 (114) 44 1uit_A Human discs large 5 pro 20.8 41 0.0017 13.9 4.1 48 90-141 21-68 (117) 45 2waq_H DNA-directed RNA polyme 20.6 40 0.0017 14.0 1.9 28 118-146 43-70 (84) 46 2pia_A Phthalate dioxygenase r 20.5 41 0.0017 13.9 1.9 61 86-148 39-105 (321) No 1 >1grj_A GREA protein; transcript elongation factor, transcript cleavage factor, transcription regulation; 2.20A {Escherichia coli} SCOP: a.2.1.1 d.26.1.2 Probab=100.00 E-value=0 Score=331.89 Aligned_cols=157 Identities=45% Similarity=0.815 Sum_probs=153.3 Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 98431488999999999999987248999999999975176222430489998876879999999974444210472101 Q gi|254780440|r 2 VDKIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTM 81 (158) Q Consensus 2 ~~k~~lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~ 81 (158) |+++|||++||++|++||++|++++||++++.+++|+++|||||||+|++||++|+++++||++|+.+|++|+|++++.. T Consensus 1 m~~i~lT~~g~~~L~~EL~~L~~~~r~e~~~~i~~A~~~GDl~Enaey~aAk~~~~~~e~ri~~l~~~l~~a~ivd~~~~ 80 (158) T 1grj_A 1 MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKM 80 (158) T ss_dssp -CCEEEEHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHTTCCGGGCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECGGGS T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHCCEEEECCCCC T ss_conf 98527799999999999999986301778988999886578222646899999999999999999976413499757668 Q ss_pred CC-CCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCCCCEEEEECCCCEEEEEEEEEEEC Q ss_conf 33-211136579995347652359999631013345881501317899872888887899982897199999998979 Q gi|254780440|r 82 SG-DRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISVNAPGGEKTYEILQVLWI 158 (158) Q Consensus 82 ~~-~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~yi 158 (158) +. ++|.|||+|++.|.+++++.+|+||||+|+||+.++||+.||||+||||+++||+|+|.+|+|...|+|++|+|| T Consensus 81 ~~~~~V~~Gs~V~l~d~~~~~~~~~~ivg~~ead~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~I~~I~y~ 158 (158) T 1grj_A 81 PNNGRVIFGATVTVLNLDSDEEQTYRIVGDDEADFKQNLISVNSPIARGLIGKEEDDVVVIKTPGGEVEFEVIKVEYL 158 (158) T ss_dssp CCCSBCCTTCEEEEEETTTTEEEEEEEECTTTCBGGGTEEESSSHHHHHHTTCBTTCEECC------CCEEEEEEECC T ss_pred CCCCEEEEEEEEEEEECCCCEEEEEEEECCHHHHCCCCEECCCCHHHHHHHCCCCCCEEEEECCCCCEEEEEEEEEEC T ss_conf 999979951399999868854899998680553176883347787899983898999899983997489999999989 No 2 >2f23_A Anti-cleavage anti-GREA transcription factor GFH1; anti-GREA GFH1 thermus thermophilus; 1.60A {Thermus thermophilus HB27} SCOP: a.2.1.1 d.26.1.2 PDB: 2eul_A 2etn_A Probab=100.00 E-value=0 Score=322.33 Aligned_cols=153 Identities=27% Similarity=0.520 Sum_probs=148.0 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 99843148899999999999998724899999999997517622243048999887687999999997444421047210 Q gi|254780440|r 1 MVDKIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDIST 80 (158) Q Consensus 1 M~~k~~lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~ 80 (158) |++++|||++||++|++||++|+. +||++++.+++||++||+||||+|||||++|+++++||++|++.|++|+|+++. T Consensus 1 M~~~i~lT~~g~~~L~~EL~~l~~-~~~e~~~~i~~a~~~gDl~ENaeY~aAke~q~~~e~rI~~Le~~L~~A~iie~~- 78 (156) T 2f23_A 1 MAREVKLTKAGYERLMQQLERERE-RLQEATKILQELMESSDDYDDSGLEAAKQEKARIEARIDSLEDILSRAVILEEG- 78 (156) T ss_dssp --CCEEECHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHTCSCCSCSHHHHHHHHHHHHHHHHHHHHHHHHHHEEECCTT- T ss_pred CCCCCCCCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC- T ss_conf 997520299999999999999887-778899999999973786421769999999999999999999999861305678- Q ss_pred CCCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCC--EECCCCHHHHHHCCCCCCCEEEEECCCCEEEEEEEEEE Q ss_conf 13321113657999534765235999963101334588--15013178998728888878999828971999999989 Q gi|254780440|r 81 MSGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSG--LVSISSPIARALIGKELGDIISVNAPGGEKTYEILQVL 156 (158) Q Consensus 81 ~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~--~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~ 156 (158) +.++|+|||+|+++|.++|++.+|+||||+|+||..+ +||+.||||+||||+++||+|+|.+|+|.+.|+|++|+ T Consensus 79 -~~d~V~~Gs~V~l~d~~~g~~~~~~lVg~~ead~~~~~~~IS~~SPlG~ALlG~k~Gd~v~v~~P~G~~~~~I~~Ie 155 (156) T 2f23_A 79 -SGEVIGLGSVVELEDPLSGERLSVQVVSPAEANVLDTPMKISDASPMGKALLGHRVGDVLSLDTPKGKREFRVVAIH 155 (156) T ss_dssp -CSCCCCTTCEEEEECTTTCCEEEEEEECGGGCBTTSSSEEEETTSHHHHHHTTCCTTCEEEEEETTEEEEEEEEEEE T ss_pred -CCCEEEECCEEEEEECCCCCEEEEEEECCHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCEEEEEEEEE T ss_conf -76589966689998758998899999781342802498775678989999708999999999839987899999987 No 3 >2p4v_A Transcription elongation factor GREB; transcript cleavage, GRE-factors, RNA polymerase; 2.60A {Escherichia coli} Probab=100.00 E-value=0 Score=323.53 Aligned_cols=156 Identities=33% Similarity=0.542 Sum_probs=152.4 Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 98431488999999999999987248999999999975176222430489998876879999999974444210472101 Q gi|254780440|r 2 VDKIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTM 81 (158) Q Consensus 2 ~~k~~lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~ 81 (158) |.++|||++||++|++||++|++++||+++++|++|+++|||+|||+|++||++|+++++||++|+.+|++|+|++++.. T Consensus 1 M~~~~lT~~g~~~L~~eL~~L~~~~r~~~~~~i~~A~~~gDl~ENaey~~ake~q~~~~~ri~~L~~~L~~a~ii~~~~~ 80 (158) T 2p4v_A 1 MKTPLVTREGYEKLKQELNYLWREERPEVTKKVTWAASLGDRSENADYQYNKKRLREIDRRVRYLTKCMENLKIVDYSPQ 80 (158) T ss_dssp CCCCEECHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHSCTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCEECCCCSS T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC T ss_conf 99764589999999999999987022889999999986699000666799999999899999999999986314787546 Q ss_pred CCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCCCCEEEEECCCCEEEEEEEEEEEC Q ss_conf 33211136579995347652359999631013345881501317899872888887899982897199999998979 Q gi|254780440|r 82 SGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISVNAPGGEKTYEILQVLWI 158 (158) Q Consensus 82 ~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~yi 158 (158) +.+.|.|||+|++.+ +++++.+|+||||+|+|+..|+||+.||||+||||+++||+|+|++|+|...|+|++|+|| T Consensus 81 ~~~~v~~gs~V~~~~-~~~~~~~~~iVg~~ead~~~~~IS~~SPlG~ALlGkk~Gd~V~v~~p~G~~~~~I~~I~y~ 156 (158) T 2p4v_A 81 QEGKVFFGAWVEIEN-DDGVTHRFRIVGYDEIFGRKDYISIDSPMARALLKKEVGDLAVVNTPAGEASWYVNAIEYV 156 (158) T ss_dssp SCSSCSSSCEEEEEC-TTCCCEEEEBCCSTTCCSSSCCBCTTSHHHHHSTTCCTTCEEEEECSSCEEEEEEEEEECC T ss_pred CCCCCCCCEEEEEEE-CCCCEEEEEEECHHHHHCCCCEECCCCHHHHHHHCCCCCCEEEEEECCCCEEEEEEEEEEC T ss_conf 666435865999972-5886489998550654156885757898999970899999899980898789999999924 No 4 >3bmb_A Regulator of nucleoside diphosphate kinase; RNA polymerase, elongation factor, anti-GRE factor, RNA binding protein; 1.91A {Escherichia coli} Probab=99.96 E-value=2.3e-29 Score=206.49 Aligned_cols=124 Identities=22% Similarity=0.348 Sum_probs=109.5 Q ss_pred CCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 9984-314889999999999999872489999999999751762224304899988768799999999744442104721 Q gi|254780440|r 1 MVDK-IPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDIS 79 (158) Q Consensus 1 M~~k-~~lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~ 79 (158) |+.+ |++|...+++|+ ||.||++|++++. +.+|+..|++|+|++++ T Consensus 1 m~rP~i~~~~~D~~rL~-------------------------~l~e~~~~~~~~~--------~~~L~~~L~~A~Iv~~~ 47 (136) T 3bmb_A 1 MSRPTIIINDLDAERID-------------------------ILLEQPAYAGLPI--------ADALNAELDRAQMCSPE 47 (136) T ss_dssp -CCCCCEEEHHHHHHHH-------------------------HHHHSGGGTTCHH--------HHHHHHHHHTCEEECGG T ss_pred CCCCCEEEEHHHHHHHH-------------------------HHHHCHHCCCCHH--------HHHHHHHHCCCEEECCC T ss_conf 99997763288999999-------------------------9985422247578--------99999987678998964 Q ss_pred CCCCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCCCCEEEEECCCCE-EEEEEEEEEE Q ss_conf 01332111365799953476523599996310133458815013178998728888878999828971-9999999897 Q gi|254780440|r 80 TMSGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISVNAPGGE-KTYEILQVLW 157 (158) Q Consensus 80 ~~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~-~~~~Il~I~y 157 (158) .++.++|+|||+|+++|.+++++++|+||||+|+|+..++||+.||||+||||+++||+|.|++|+|. ..|+|++|+| T Consensus 48 ~~~~~~V~~Gs~V~~~~~~~~~~~~~~lV~~~ead~~~~~IS~~SPlG~ALlG~~~Gd~v~~~~p~G~~~~~~I~~I~y 126 (136) T 3bmb_A 48 EMPHDVVTMNSRVKFRNLSDGEVRVRTLVYPAKMTDSNTQLSVMAPVGAALLGLRVGDSIHWELPGGVATHLEVLELEY 126 (136) T ss_dssp GCCTTBCCTTCEEEEEETTTCCEEEEEEECGGGCCCTTTEEETTSHHHHHHTTCBTTCEEEEEETTTEEEEEEEEEEEE T ss_pred CCCCCEEEECCEEEEEECCCCCEEEEEEECHHHHCCCCCEEEECCHHHHHHHCCCCCCEEEEECCCCCEEEEEEEEEEE T ss_conf 4899989848799999888997799999895781466626886199999972998899999998999889999999986 No 5 >2pn0_A Prokaryotic transcription elongation factor GREA/GREB; structural genomics, APC6349, PSI-2, protein structure initiative; HET: MSE; 1.70A {Nitrosomonas europaea} Probab=99.96 E-value=8.2e-30 Score=209.33 Aligned_cols=114 Identities=26% Similarity=0.360 Sum_probs=103.2 Q ss_pred HHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCC Q ss_conf 99751762224304899988768799999999744442104721013321113657999534765235999963101334 Q gi|254780440|r 36 EARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADV 115 (158) Q Consensus 36 ~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~ 115 (158) +++-++||.||+.|+++++ +.+|+.+|++|+||++++.+.++|.|||+|+++|.+++++.+|+||||+|+|+ T Consensus 15 D~~rL~~l~e~~~~~~~~~--------~~eLe~~L~~A~Iv~~~~~~~~~V~~Gs~V~~~~~~~~~~~~~~iV~~~ead~ 86 (141) T 2pn0_A 15 DAERLEILLETLSQNAFPG--------RDDLEAELARAEVVDPEEIPPTVVTMNSTVRFRVESSAEEFCLTLVYPKDVDT 86 (141) T ss_dssp HHHHHHHHHHHTTTCCCTT--------HHHHHHHHHTCEEECGGGSCTTBCCTTCEEEEEETTTCCEEEEEEECGGGCCS T ss_pred HHHHHHHHHHCCCCCCCHH--------HHHHHHHHCCCEEECCCCCCCCEEEECCEEEEEECCCCCEEEEEEECHHHCCC T ss_conf 9999999985412127577--------99999987587998975589998985879999976883389999969257067 Q ss_pred CCCEECCCCHHHHHHCCCCCCCEEEEECCCC-EEEEEEEEEEE Q ss_conf 5881501317899872888887899982897-19999999897 Q gi|254780440|r 116 QSGLVSISSPIARALIGKELGDIISVNAPGG-EKTYEILQVLW 157 (158) Q Consensus 116 ~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G-~~~~~Il~I~y 157 (158) ..++||+.||||+||||+++||+|+|++|+| .+.|+|++|.| T Consensus 87 ~~~~IS~~SPlG~ALlG~~~Gd~v~v~~P~G~~~~~~I~~I~y 129 (141) T 2pn0_A 87 SGEKISILAPVGSALLGLAQGDEIEWPKPGGGVLRVRIVEVTY 129 (141) T ss_dssp SSCEEETTSTTHHHHTTCBTTCEEEEECTTSSEEEEEEEEEEC T ss_pred CCCEEECCCHHHHHHHCCCCCCEEEEECCCCCEEEEEEEEEEE T ss_conf 6885632799999972899999999987999889999999986 No 6 >3gty_X Trigger factor, TF; chaperone-client complex, cell cycle, cell division, chaperone, isomerase, rotamase, ribonucleoprotein; 3.40A {Thermotoga maritima} PDB: 3gu0_A Probab=94.13 E-value=0.21 Score=28.46 Aligned_cols=92 Identities=21% Similarity=0.307 Sum_probs=47.9 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCC Q ss_conf 76879999999974444210472101332111365799953476523599996310133458815013178998728888 Q gi|254780440|r 56 QNLNEGRMAELENIITRAEVIDISTMSGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKEL 135 (158) Q Consensus 56 q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~ 135 (158) -..++..|..|....+....++.....+|.|.+.-.+.-.+.+.+....+.++. |.-+ .-|+-.+|+|+++ T Consensus 131 de~vd~~i~~l~~~~a~~~~~e~~a~~gD~v~id~~~~~~~~~~~~~~~~~~~l--------~~~~-~~~f~e~liG~k~ 201 (433) T 3gty_X 131 EKYVERRIEDLRESHALLEPKEGPAEAGDLVRVNMEVYNEEGKKLTSREYEYVI--------SEDE-DRPFVKDLVGKKK 201 (433) T ss_dssp HHHHHHHHHHHHHHTCCEEECCSCCCTTSEEEEEEEEECTTSCEEEEEEEEEEC--------CSSC-CCTTHHHHTTCCT T ss_pred HHHHHHHHHHHHHHHCCCCCCCHHHHCCCEEEEEEECCCCCCCCCCCCCEEEEC--------CCHH-HHHHHHHHCCCCC T ss_conf 899999999988750323554223324884788641145656666654304541--------4302-3313666326667 Q ss_pred CCEEEEEC--CCCE--EEEEEEEEE Q ss_conf 87899982--8971--999999989 Q gi|254780440|r 136 GDIISVNA--PGGE--KTYEILQVL 156 (158) Q Consensus 136 Gd~V~v~~--p~G~--~~~~Il~I~ 156 (158) ||.+++.. ++.+ ..++|.+|. T Consensus 202 Ge~~~~~~~~agk~~~f~v~I~~Ik 226 (433) T 3gty_X 202 GDVVEIEREYEGKKYTYKLEVEEVY 226 (433) T ss_dssp TCEEEEEEEETTEEEEEEEEEEEEE T ss_pred CCEEECCCCCCCCEEEEEEEEEEEE T ss_conf 8423213346897368999998643 No 7 >1w26_A Trigger factor, TF; chaperone, protein folding, ribosome associated protein, nascent chain, cell division, isomerase; 2.7A {Escherichia coli} SCOP: a.223.1.1 d.241.2.1 d.26.1.1 PDB: 2vrh_A 1w2b_5 Probab=81.99 E-value=2.6 Score=21.51 Aligned_cols=78 Identities=10% Similarity=0.103 Sum_probs=39.0 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEEC--CCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCC Q ss_conf 8799999999744442104721013321113657999534--76523599996310133458815013178998728888 Q gi|254780440|r 58 LNEGRMAELENIITRAEVIDISTMSGDRIAFGATVSLVEK--NSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKEL 135 (158) Q Consensus 58 ~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~V~l~d~--~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~ 135 (158) .++..|..|..+-+....++ ..+..|..|++... .+|.... -....+.....|.-++.-.+-.+|+|+++ T Consensus 136 ~vd~~i~~l~~~~~~~~~~~------~~~~~gD~v~id~~~~~dg~~~~--~~~~~~~~~~lg~~~~~~~f~~~l~G~k~ 207 (432) T 1w26_A 136 DVDGMLDTLRKQQATWKEKD------GAVEAEDRVTIDFTGSVDGEEFE--GGKASDFVLAMGQGRMIPGFEDGIKGHKA 207 (432) T ss_dssp HHHHHHHHHHHHTCEECCCS------SCCCTTCEEEECEEEESSSCBCS--SCCCSSEEEETTSCCSCTTHHHHSSSCCS T ss_pred HHHHHHHHHHHHHCCCCCCC------CCCCCCCEEEEEEEEEECCCCCC--CCCCCCEEEEECCCCCCCCHHHHHHHCCC T ss_conf 99999999976412213333------45678998999999976686466--77766559994798766306888753247 Q ss_pred CCEEEEEC Q ss_conf 87899982 Q gi|254780440|r 136 GDIISVNA 143 (158) Q Consensus 136 Gd~V~v~~ 143 (158) ||++++.+ T Consensus 208 Gd~~~~~~ 215 (432) T 1w26_A 208 GEEFTIDV 215 (432) T ss_dssp SCEEEEEE T ss_pred CCEEEEEE T ss_conf 87699987 No 8 >1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus} Probab=81.82 E-value=2.9 Score=21.26 Aligned_cols=79 Identities=13% Similarity=0.268 Sum_probs=47.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC---CCCCHHHHHHHHHHHHHHHH-------HHHHHHHHHHCCCCC Q ss_conf 99999999999998724899999999997517622---24304899988768799999-------999744442104721 Q gi|254780440|r 10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLS---ENAEYQAAKELQNLNEGRMA-------ELENIITRAEVIDIS 79 (158) Q Consensus 10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~---ENaeY~aAke~q~~~~~ri~-------~L~~~L~~A~iv~~~ 79 (158) +-+..|+.+++.|+. +|..+.++|+.....|+-. ++++-..-+++-..+..+|. +++..|... ...-. T Consensus 77 ~e~r~l~~e~e~Lr~-erN~~sk~I~~l~~~~~~~~~~~~~e~e~L~~~~k~lk~~i~~le~~~~~l~~~l~~~-ll~iP 154 (501) T 1wle_A 77 QELRQLREQIRSLEE-EKEAVTEAVRALVVNQDNSQVQQDPQYQSLRARGREIRKQLTLLYPKEAQLEEQFYLR-ALRLP 154 (501) T ss_dssp HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCTTGGGCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HTTSC T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCC T ss_conf 999999999999999-9999999999998567751000368999999999999999999999999999999999-97489 Q ss_pred CCCCCCCCCCC Q ss_conf 01332111365 Q gi|254780440|r 80 TMSGDRIAFGA 90 (158) Q Consensus 80 ~~~~~~V~~Gs 90 (158) .++.+.|.+|. T Consensus 155 Ni~~~~VP~G~ 165 (501) T 1wle_A 155 NQTHPDVPVGD 165 (501) T ss_dssp CCCCTTCCCSS T ss_pred CCCCCCCCCCC T ss_conf 98885579898 No 9 >1ses_A Seryl-tRNA synthetase; ligase(synthetase); HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A Probab=68.39 E-value=6.2 Score=19.12 Aligned_cols=74 Identities=19% Similarity=0.213 Sum_probs=37.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC-----HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC Q ss_conf 999999999999987248999999999975176222430-----489998876879999999974444210472101332 Q gi|254780440|r 10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAE-----YQAAKELQNLNEGRMAELENIITRAEVIDISTMSGD 84 (158) Q Consensus 10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENae-----Y~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~ 84 (158) +-+.+++.+++.|+. +|-.++++|+.+.. ++++ -..-+++...++....+++..|.. ....-..++.+ T Consensus 35 ~~~r~l~~~~e~l~~-~rN~lSK~I~k~k~-----~~~~~l~~~~~~lk~~i~~le~~~~~~~~~l~~-~ll~IPNlp~~ 107 (421) T 1ses_A 35 REVQELKKRLQEVQT-ERNQVAKRVPKAPP-----EEKEALIARGKALGEEAKRLEEALREKEARLEA-LLLQVPLPPWP 107 (421) T ss_dssp HHHHHHHHHHHHHHH-HHHHHHHHSSSSCH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHTTCCCCCCT T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHCC-----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCC T ss_conf 999999999999999-99999999753251-----548999999999999999988679999887766-53022212322 Q ss_pred CCCCCC Q ss_conf 111365 Q gi|254780440|r 85 RIAFGA 90 (158) Q Consensus 85 ~V~~Gs 90 (158) .|..|. T Consensus 108 ~VP~G~ 113 (421) T 1ses_A 108 GAPVGG 113 (421) T ss_dssp TSCSSS T ss_pred CCCCCC T ss_conf 111245 No 10 >2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A Probab=67.70 E-value=6.7 Score=18.93 Aligned_cols=92 Identities=16% Similarity=0.236 Sum_probs=51.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC Q ss_conf 9999999999999872489999999999751762224--30489998876879999999974444210472101332111 Q gi|254780440|r 10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSEN--AEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIA 87 (158) Q Consensus 10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~EN--aeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~ 87 (158) +-+.+++.+++.|+. +|-.+.++|..+...|+-.+. ++-..-+++...++..+.+++..+... ...-..++.+.|. T Consensus 38 ~~~r~l~~e~e~Lr~-~rN~lSK~Ig~~kk~~~~~~~l~~~~~~lk~~ik~le~~l~~l~~~l~~l-ll~iPNl~~~~VP 115 (455) T 2dq0_A 38 TEWRTKLKEINRLRH-ERNKIAVEIGKRRKKGEPVDELLAKSREIVKRIGELENEVEELKKKIDYY-LWRLPNITHPSVP 115 (455) T ss_dssp HHHHHHHHHHHHHHH-HHHHHHHHHHHHHTSCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HTTSCCCCCTTSC T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCCCC T ss_conf 999999999999999-99999999999986799789999999999999999999999999999999-9727677786668 Q ss_pred CCCE----EEEEECCCCCEEEE Q ss_conf 3657----99953476523599 Q gi|254780440|r 88 FGAT----VSLVEKNSGDKKNY 105 (158) Q Consensus 88 ~Gs~----V~l~d~~~~~~~~~ 105 (158) .|.. |.++ ..|+...| T Consensus 116 ~G~de~dN~~ir--~~G~~~~f 135 (455) T 2dq0_A 116 VGKDENDNVPIR--FWGKARVW 135 (455) T ss_dssp CCSSGGGCEEEE--EESCEEEE T ss_pred CCCCCCCCEEEE--EECCCCCC T ss_conf 788866664678--50575565 No 11 >3cgm_A SLYD, peptidyl-prolyl CIS-trans isomerase; chaperone function, two domain P rotamase; 2.41A {Thermus thermophilus} PDB: 3cgn_A 3luo_A* Probab=65.84 E-value=7.2 Score=18.72 Aligned_cols=25 Identities=24% Similarity=0.470 Sum_probs=20.0 Q ss_pred CCCHHHHHHCCCCCCCEEEEECCCC Q ss_conf 1317899872888887899982897 Q gi|254780440|r 122 ISSPIARALIGKELGDIISVNAPGG 146 (158) Q Consensus 122 ~~SPlG~ALlG~~~Gd~V~v~~p~G 146 (158) +.--|=.||+|.++||..++.+|.. T Consensus 36 ~~pglE~aL~Gm~~Ge~~~v~l~pe 60 (158) T 3cgm_A 36 LIPGLEEALEGREEGEAFQAHVPAE 60 (158) T ss_dssp SCHHHHHHHTTCBTTCEEEEEECGG T ss_pred CCHHHHHHHCCCCCCCCCEEEECHH T ss_conf 1088999755785885323874767 No 12 >1t11_A Trigger factor, TF; helix-turn-helix, four-helix-bundle, ppiase, chaperone; 2.50A {Vibrio cholerae} SCOP: a.223.1.1 d.241.2.1 d.26.1.1 PDB: 1l1p_A Probab=62.58 E-value=8.3 Score=18.32 Aligned_cols=92 Identities=17% Similarity=0.237 Sum_probs=44.9 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEE--CCCCCEEEEEE-ECHHHCCCCCCEECCCCHHHHHHCCC Q ss_conf 6879999999974444210472101332111365799953--47652359999-63101334588150131789987288 Q gi|254780440|r 57 NLNEGRMAELENIITRAEVIDISTMSGDRIAFGATVSLVE--KNSGDKKNYQI-VGDQEADVQSGLVSISSPIARALIGK 133 (158) Q Consensus 57 ~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~V~l~d--~~~~~~~~~~l-Vg~~e~d~~~~~IS~~SPlG~ALlG~ 133 (158) ..++..|..|..+.+....++.....+|.|.+.-..++.+ ...+....+.+ +|.. ++.-.+-.+|+|+ T Consensus 138 e~id~~i~~l~~~~a~~~~~~~~~~~gd~v~vd~~~~~dg~~~~~~~~~~~~~~lg~~---------~~~~~~~~~l~G~ 208 (392) T 1t11_A 138 ADVAEMLETLRKQQATWKEVDEAAENGKRVSIDFVGSIDGVEFEGGKAENFPLEMGAG---------RMIPGFEDGIVGK 208 (392) T ss_dssp THHHHHHHHHHHHHCEEEECSCCCCTTCEEEEEEEEESSSSCCTTCEEEEEEEETTSC---------CBSTTSGGGTTTC T ss_pred HHHHHHHHHHHHHHCCCCCCCHHHCCCCEEEEEEEEEECCEECCCCCCCCEEEEECCC---------CCCCCHHHHHCCC T ss_conf 7999999999875136633654432588899988997888654587656638995688---------6662045552177 Q ss_pred CCCCE--EEEECCC--------C-E--EEEEEEEEEE Q ss_conf 88878--9998289--------7-1--9999999897 Q gi|254780440|r 134 ELGDI--ISVNAPG--------G-E--KTYEILQVLW 157 (158) Q Consensus 134 ~~Gd~--V~v~~p~--------G-~--~~~~Il~I~y 157 (158) ++||+ +.+..|. | . ..++|.+|.. T Consensus 209 k~ge~~~~~~~~p~d~~~~~~agk~~~f~v~V~~I~~ 245 (392) T 1t11_A 209 TKGMEFVIDVTFPEDYHAENLKGKAAKFAIKVNKVEA 245 (392) T ss_dssp CSSCCCCEEEECCTTCSCTTTSSCEEEECCCEEEEEE T ss_pred CCCCCEEEEEECCCCCCCCCCCCCCHHHEEHHHEEEC T ss_conf 6787416888657632332103530211000000101 No 13 >2yxy_A Hypothetical conserved protein, GK0453; alpha and beta proteins (A+B) class, structural genomics, unknown function, NPPSFA; 2.20A {Geobacillus kaustophilus HTA426} Probab=57.95 E-value=10 Score=17.81 Aligned_cols=64 Identities=20% Similarity=0.299 Sum_probs=41.1 Q ss_pred CCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 98431--4889999999999999872489999999999751762224304899988768799999999744442104721 Q gi|254780440|r 2 VDKIP--VTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDIS 79 (158) Q Consensus 2 ~~k~~--lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~ 79 (158) .+|-| ||+ ..|+.|+..|+...| .|..+|..+| .+.+++|+. ++.|-.+|++ T Consensus 7 ~ekrySeMs~---~EL~~EI~~L~eKar--------KAEq~G~~nE----------~~V~erK~~-----mA~sYLvD~~ 60 (115) T 2yxy_A 7 EQKRYSEMTK---EELQQEIAMLTEKAR--------KAEQMGMVNE----------YAVYERKIA-----MAKAYMLNPA 60 (115) T ss_dssp CCCCGGGCCH---HHHHHHHHHHHHHHH--------HHHHHTCHHH----------HHHHHHHHH-----HHHHTTSCGG T ss_pred CCCHHHHCCH---HHHHHHHHHHHHHHH--------HHHHCCCHHH----------HHHHHHHHH-----HHHHHCCCHH T ss_conf 6220756499---999999999999999--------9998067159----------999999999-----9999726763 Q ss_pred CCCCCCCCCCCEEEEEE Q ss_conf 01332111365799953 Q gi|254780440|r 80 TMSGDRIAFGATVSLVE 96 (158) Q Consensus 80 ~~~~~~V~~Gs~V~l~d 96 (158) .+.+|.+-.+.+ T Consensus 61 -----~f~~G~~Y~l~~ 72 (115) T 2yxy_A 61 -----DFHPGEIYEIEG 72 (115) T ss_dssp -----GCCTTCEEEETT T ss_pred -----HCCCCCEEEECC T ss_conf -----354686788458 No 14 >1o9g_A RRNA methyltransferase; antibiotic resistance, Se-MAD; 1.5A {Streptomyces viridochromogenes} SCOP: c.66.1.29 PDB: 1o9h_A Probab=56.31 E-value=3.6 Score=20.64 Aligned_cols=85 Identities=20% Similarity=0.259 Sum_probs=49.5 Q ss_pred CCCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC Q ss_conf 1488999999999999987-248999999999975176222430489998876879999999974444210472101332 Q gi|254780440|r 6 PVTSKGFDKIQQELRWRQQ-EERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGD 84 (158) Q Consensus 6 ~lT~~g~~~L~~El~~l~~-~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~ 84 (158) .+|++|+++-++||..+-. -.+|.-++... +|.+-.+.+.+.-..+-..+++|-|.+|.....- T Consensus 99 LLt~~GL~~R~~eL~e~~~~f~kps~~~a~~---------------sA~Rl~~~l~a~gg~~p~~~~~ADvfdp~~l~~~ 163 (250) T 1o9g_A 99 LLSPAGLTARELERREQSERFGKPSYLEAAQ---------------AARRLRERLTAEGGALPCAIRTADVFDPRALSAV 163 (250) T ss_dssp TTSHHHHHHHHHHHHHHHHHHCCHHHHHHHH---------------HHHHHHHHHHHTTSSCCEEEEECCTTCGGGHHHH T ss_pred HCCHHHHHHHHHHHHHHHHHHCCCHHHHHHH---------------HHHHHHHHHHCCCCCCCCHHHEECCCCCCHHHHH T ss_conf 1131016788999999999848824789998---------------8899999986037998612100113586136676 Q ss_pred CCCCCCEEEEEECCCCCEEEE Q ss_conf 111365799953476523599 Q gi|254780440|r 85 RIAFGATVSLVEKNSGDKKNY 105 (158) Q Consensus 85 ~V~~Gs~V~l~d~~~~~~~~~ 105 (158) ..+++.-|.+.|+.-|+..++ T Consensus 164 ~~g~~pDiVvTDlPYGe~t~W 184 (250) T 1o9g_A 164 LAGSAPDVVLTDLPYGERTHW 184 (250) T ss_dssp HTTCCCSEEEEECCGGGSSSS T ss_pred HCCCCCCEEEECCCCCCEEEE T ss_conf 426888878843787740121 No 15 >1hxv_A Trigger factor; FKBP fold, ppiase, chaperone; NMR {Mycoplasma genitalium} SCOP: d.26.1.1 Probab=45.68 E-value=5.5 Score=19.47 Aligned_cols=23 Identities=9% Similarity=0.120 Sum_probs=19.0 Q ss_pred CCCHHHHHHCCCCCCCEEEEECC Q ss_conf 13178998728888878999828 Q gi|254780440|r 122 ISSPIARALIGKELGDIISVNAP 144 (158) Q Consensus 122 ~~SPlG~ALlG~~~Gd~V~v~~p 144 (158) +..-+-.+|+|.++||+.++.+. T Consensus 66 ~~~gf~e~LiG~k~Ge~k~~~v~ 88 (113) T 1hxv_A 66 FIKGFETGLIAMKVNQKKTLALT 88 (113) T ss_dssp SCTTHHHHHHTSCSSEEEEECCC T ss_pred CCCCHHHHHCCCCCCCEEEEEEE T ss_conf 65117888488878998999987 No 16 >1cz4_A VCP-like ATPase; double-PSI beta-barrel, beta-CLAM, substrate recognition DOM hydrolase; NMR {Thermoplasma acidophilum} SCOP: b.52.2.3 d.31.1.1 PDB: 1cz5_A Probab=44.60 E-value=16 Score=16.47 Aligned_cols=71 Identities=18% Similarity=0.138 Sum_probs=32.6 Q ss_pred CCCCCCEEEEEECCCCCEEEEEEECHHHCCCCC-CEECCCCHHHHHHCCCC--CCCEEEEEC----CCCEEEEEEEEE Q ss_conf 111365799953476523599996310133458-81501317899872888--887899982----897199999998 Q gi|254780440|r 85 RIAFGATVSLVEKNSGDKKNYQIVGDQEADVQS-GLVSISSPIARALIGKE--LGDIISVNA----PGGEKTYEILQV 155 (158) Q Consensus 85 ~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~-~~IS~~SPlG~ALlG~~--~Gd~V~v~~----p~G~~~~~Il~I 155 (158) .|++|-.|++.-.+-......+|......+... ..-....-|...|.|+- .||.|.+.. +.+...|+|++. T Consensus 78 gv~igd~V~V~k~~~~~A~~V~laP~~~~~~~~~~~~~~~~~l~~~l~~rpv~~Gd~v~v~~~~~~g~~~v~f~Vv~t 155 (185) T 1cz4_A 78 GASIGDKVKVRKVRTEIAKKVTLAPIIRKDQRLKFGEGIEEYVQRALIRRPMLEQDNISVPGLTLAGQTGLLFKVVKT 155 (185) T ss_dssp TCCTTCEEEEEEECCCBCSEEEEEEECSTTCCSCCCSSHHHHHHHHHTTCEECTTCEECCSSCCCSSCCCCEEEEEEE T ss_pred CCCCCCEEEEEECCCCCCCEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCEEEECCCCCCCCCEEEEEEEEE T ss_conf 867998799998567765489990245445522344117999999867996207999997123678885178999998 No 17 >3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, serrs, translation, ATP-binding, nucleotide-binding, structural genomics; HET: ATP; 1.95A {Trypanosoma brucei} PDB: 3lsq_A* Probab=43.09 E-value=17 Score=16.33 Aligned_cols=79 Identities=14% Similarity=0.129 Sum_probs=45.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC----C----------C----------CCHHHHHHHHHHHHHHHHH Q ss_conf 99999999999998724899999999997517622----2----------4----------3048999887687999999 Q gi|254780440|r 10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLS----E----------N----------AEYQAAKELQNLNEGRMAE 65 (158) Q Consensus 10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~----E----------N----------aeY~aAke~q~~~~~ri~~ 65 (158) +-+.+++.+++.|+. +|-.+.++|..+...|+-. + + .+-..-+++-..+..+|.. T Consensus 44 ~~rR~l~~e~e~Lr~-erN~iSK~Ig~~kk~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~~~k~Lk~~i~~ 122 (484) T 3lss_A 44 KKWRRTQFLTEASKK-LINICSKAVGAKKKAKEADGDTSEIPPQVKEAYENGTLKGEQVEQLCVLQLKQLSKDLSDQVAG 122 (484) T ss_dssp HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHTTCC----------------------------CHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999-9869999999998468754104454444433221000000012244699999999999999999 Q ss_pred H-------HHHHHHHHCCCCCCCCCCCCCCCC Q ss_conf 9-------974444210472101332111365 Q gi|254780440|r 66 L-------ENIITRAEVIDISTMSGDRIAFGA 90 (158) Q Consensus 66 L-------~~~L~~A~iv~~~~~~~~~V~~Gs 90 (158) | +..+... ...-..++.+.|.+|. T Consensus 123 le~~l~ele~~l~~l-ll~IPNiph~~VP~G~ 153 (484) T 3lss_A 123 LAKEAQQLEEERDKL-MLNVGNILHESVPIAQ 153 (484) T ss_dssp HHHHHHHHHHHHHHH-HTTCCCCCCTTSCCCS T ss_pred HHHHHHHHHHHHHHH-HHHCCCCCCCCCCCCC T ss_conf 999999999999999-9728997786578887 No 18 >2kw8_A LPXTG-SITE transpeptidase family protein; sortase, SRTA, protein binding; NMR {Bacillus anthracis} Probab=42.74 E-value=17 Score=16.29 Aligned_cols=28 Identities=21% Similarity=0.202 Sum_probs=23.7 Q ss_pred CCCCCCCEEEEECCCCEEEEEEEEEEEC Q ss_conf 2888887899982897199999998979 Q gi|254780440|r 131 IGKELGDIISVNAPGGEKTYEILQVLWI 158 (158) Q Consensus 131 lG~~~Gd~V~v~~p~G~~~~~Il~I~yi 158 (158) --.+.||.|.+..+++.+.|+|.++..+ T Consensus 87 ~~l~~gd~i~l~~~~~~~~Y~V~~~~~v 114 (158) T 2kw8_A 87 ASLKKGDKIYLYDNENEYEYAVTGVSEV 114 (158) T ss_dssp GGCCTTCEEEEECSSEEEEEEEEEEEEE T ss_pred HHCCCCCEEEEEECCEEEEEEEEEEEEE T ss_conf 6576999899997997999999999999 No 19 >2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 3.00A {Aquifex aeolicus VF5} Probab=41.49 E-value=18 Score=16.17 Aligned_cols=79 Identities=18% Similarity=0.236 Sum_probs=48.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC Q ss_conf 9999999999999872489999999999751762224--30489998876879999999974444210472101332111 Q gi|254780440|r 10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSEN--AEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIA 87 (158) Q Consensus 10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~EN--aeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~ 87 (158) +-+.+|+.+++.|+. +|-.++++|..+...|.-.+. .+-..-+++...++.....++..+... ...-..++.+.|. T Consensus 37 ~~~r~l~~e~e~Lr~-erN~iSKeIg~~kk~~~~~~~l~~~~~~lk~~i~~le~~~~~i~~~l~~~-ll~IPNi~~~~VP 114 (425) T 2dq3_A 37 KRRREIIKRLEALRS-ERNKLSKEIGKLKREGKDTTEIQNRVKELKEEIDRLEEELRKVEEELKNT-LLWIPNLPHPSVP 114 (425) T ss_dssp HHHHHHHHHHHHHHH-HHHHHHHHTTGGGSSCSCTTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHH-HHTSCCCCCTTSC T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCCCC T ss_conf 999999999999999-99999999999986798899999999999999999999999999999999-9727898788889 Q ss_pred CCC Q ss_conf 365 Q gi|254780440|r 88 FGA 90 (158) Q Consensus 88 ~Gs 90 (158) .|. T Consensus 115 ~G~ 117 (425) T 2dq3_A 115 VGE 117 (425) T ss_dssp CCS T ss_pred CCC T ss_conf 998 No 20 >2kfw_A FKBP-type peptidyl-prolyl CIS-trans isomerase SLYD; protein, cobalt, copper, cytoplasm, metal- binding, nickel, rotamase, zinc; NMR {Escherichia coli} Probab=41.34 E-value=18 Score=16.15 Aligned_cols=26 Identities=35% Similarity=0.461 Sum_probs=19.9 Q ss_pred CCCCHHHHHHCCCCCCCEEEEECCCC Q ss_conf 01317899872888887899982897 Q gi|254780440|r 121 SISSPIARALIGKELGDIISVNAPGG 146 (158) Q Consensus 121 S~~SPlG~ALlG~~~Gd~V~v~~p~G 146 (158) .+..-|=.||+|+++||.+++.+|.. T Consensus 40 ~lipglE~aL~Gm~~Ge~~~v~l~pe 65 (196) T 2kfw_A 40 SLISGLETALEGHEVGDKFDVAVGAN 65 (196) T ss_dssp SSCHHHHHHHSSSCTTCEEEEECSTT T ss_pred CCCHHHHHHHCCCCCCCCEEEEECHH T ss_conf 83678999751564896169997768 No 21 >2w1j_A Putative sortase, sortase C-1; pilus, pneumococcus, pathogenicity, transferase; 1.24A {Streptococcus pneumoniae} Probab=39.72 E-value=19 Score=16.00 Aligned_cols=29 Identities=28% Similarity=0.261 Sum_probs=24.1 Q ss_pred HCCCCCCCEEEEECCCCEEEEEEEEEEEC Q ss_conf 72888887899982897199999998979 Q gi|254780440|r 130 LIGKELGDIISVNAPGGEKTYEILQVLWI 158 (158) Q Consensus 130 LlG~~~Gd~V~v~~p~G~~~~~Il~I~yi 158 (158) |-..+.||.|.+.+.++...|+|.++..+ T Consensus 127 L~~l~~GD~i~i~~~~~~~~Y~V~~~~vV 155 (212) T 2w1j_A 127 LTKLKVGDKFYVHNIKEVMAYQVDQVKVI 155 (212) T ss_dssp GGGCCTTCEEEEECSSCEEEEEEEEEEEE T ss_pred HHHCCCCCEEEEEECCEEEEEEEEEEEEE T ss_conf 76676799899998578999999689995 No 22 >2gpj_A Siderophore-interacting protein; structural genomics, joint for structural genomics, JCSG; HET: FAD; 2.20A {Shewanella putrefaciens cn-32} Probab=39.57 E-value=19 Score=15.98 Aligned_cols=64 Identities=17% Similarity=0.352 Sum_probs=40.3 Q ss_pred CCCCCCEEEEEECCCCC---EEEEEEECHHHCCCCCCE--ECCCCHHHHHHCCCCCCCEEEEECCCCEE Q ss_conf 11136579995347652---359999631013345881--50131789987288888789998289719 Q gi|254780440|r 85 RIAFGATVSLVEKNSGD---KKNYQIVGDQEADVQSGL--VSISSPIARALIGKELGDIISVNAPGGEK 148 (158) Q Consensus 85 ~V~~Gs~V~l~d~~~~~---~~~~~lVg~~e~d~~~~~--IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~ 148 (158) ....|-.|.|...+.+. ...|+|.........-.. .....|...-+-..++||.|.+.-|.|.. T Consensus 38 ~~~pGq~v~l~~p~~g~~~~~R~YTi~~~~~~~~~~~~~~~~~~G~~s~w~~~l~~GD~v~v~gP~G~f 106 (252) T 2gpj_A 38 ADQESAYIKLLFPQAGERPLMRTYTIRQQRDDEIDVDFVLHDTDGPASSWAKTAQVGELIQIGGPGLKK 106 (252) T ss_dssp SCCTTCEEEEEECCTTSCCEEEEEECCEEETTEEEEEEECCSSCCHHHHHHHHCCTTCEEEEEEEECCC T ss_pred CCCCCCEEEEEECCCCCCEEEEEEEECCCCCCCEEEEEEEECCCCCHHHHHHHCCCCCEEEEECCCCCC T ss_conf 999896699995689985233464323788876189999971798369999867999836885477776 No 23 >2k8i_A SLYD, peptidyl-prolyl CIS-trans isomerase; ppiase, chaperone, rotamase; NMR {Escherichia coli} Probab=39.07 E-value=20 Score=15.93 Aligned_cols=22 Identities=36% Similarity=0.490 Sum_probs=11.6 Q ss_pred CHHHHHHCCCCCCCEEEEECCC Q ss_conf 1789987288888789998289 Q gi|254780440|r 124 SPIARALIGKELGDIISVNAPG 145 (158) Q Consensus 124 SPlG~ALlG~~~Gd~V~v~~p~ 145 (158) --|=.||+|+++|+..++.+|. T Consensus 43 pglE~aL~Gm~~Ge~~~v~l~p 64 (171) T 2k8i_A 43 SGLETALEGHEVGDKFDVAVGA 64 (171) T ss_dssp SHHHHHHTTCCTTCEEEEEEET T ss_pred HHHHHHHCCCCCCCEEEEEECH T ss_conf 6899962657699506999774 No 24 >1tvc_A Methane monooxygenase component C, methane monooxygenase; FAD-binding, NADH-binding, oxidoreductase; HET: FDA; NMR {Methylococcus capsulatus} SCOP: b.43.4.2 c.25.1.2 Probab=37.79 E-value=15 Score=16.62 Aligned_cols=62 Identities=16% Similarity=0.199 Sum_probs=39.7 Q ss_pred CCCCEEEEEECCCCCEEEEEEECHH-HCCCCCCEECC--CCHHHHHHCC-CCCCCEEEEECCCCEE Q ss_conf 1365799953476523599996310-13345881501--3178998728-8888789998289719 Q gi|254780440|r 87 AFGATVSLVEKNSGDKKNYQIVGDQ-EADVQSGLVSI--SSPIARALIG-KELGDIISVNAPGGEK 148 (158) Q Consensus 87 ~~Gs~V~l~d~~~~~~~~~~lVg~~-e~d~~~~~IS~--~SPlG~ALlG-~~~Gd~V~v~~p~G~~ 148 (158) ..|-.|.+.-.+.+..+.|+|+... +.+.-.=.|.. ..+....|.. .++||.|.+.-|.|.. T Consensus 45 ~pGQ~v~l~~~g~~~~R~YSias~p~~~~~i~l~Ik~~~~G~~S~~l~~~l~~G~~v~i~gP~G~~ 110 (250) T 1tvc_A 45 EPGQFMDLTIPGTDVSRSYSPANLPNPEGRLEFLIRVLPEGRFSDYLRNDARVGQVLSVKGPLGVF 110 (250) T ss_dssp CSCCEEEECTTSCSSSEEECCBCCSSSSCCEEEEECCCTTSSSHHHHHHHSSSSSEEEEEEEECCC T ss_pred CCCCEEEEEECCCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCHHHHHCCCCCCEEEEECCCCCC T ss_conf 999159999899570377674688899988999999779997321265467899889995378875 No 25 >1t2w_A Sortase; transpeptidase, beta barrel, hydrolase; 1.80A {Staphylococcus aureus} SCOP: b.100.1.1 PDB: 1t2o_A 1ija_A 2kid_A* 1t2p_A Probab=34.78 E-value=23 Score=15.50 Aligned_cols=27 Identities=7% Similarity=0.196 Sum_probs=20.8 Q ss_pred CCCCCCCEEEEECCCCEEEEEEEEEEE Q ss_conf 288888789998289719999999897 Q gi|254780440|r 131 IGKELGDIISVNAPGGEKTYEILQVLW 157 (158) Q Consensus 131 lG~~~Gd~V~v~~p~G~~~~~Il~I~y 157 (158) --.+.||.|.+...++.+.|+|.++.. T Consensus 73 ~~l~~gd~i~~~~~~~~~~Y~V~~~~i 99 (145) T 1t2w_A 73 KAAKKGSMVYFKVGNETRKYKMTSIRD 99 (145) T ss_dssp GGCCTTCEEEEEETTEEEEEEEEEEEE T ss_pred HHCCCCCEEEEECCCEEEEEEEEEEEE T ss_conf 335589899997699399999999999 No 26 >3fn5_A Sortase A; sortase-fold, hydrolase; HET: EPE; 1.50A {Streptococcus pyogenes serotype M1} PDB: 3fn6_A 3fn7_A Probab=32.51 E-value=25 Score=15.27 Aligned_cols=28 Identities=21% Similarity=0.084 Sum_probs=23.5 Q ss_pred HCCCCCCCEEEEECCCCEEEEEEEEEEE Q ss_conf 7288888789998289719999999897 Q gi|254780440|r 130 LIGKELGDIISVNAPGGEKTYEILQVLW 157 (158) Q Consensus 130 LlG~~~Gd~V~v~~p~G~~~~~Il~I~y 157 (158) |-..+.||.|.+..+++.+.|+|.++.. T Consensus 96 L~~l~~Gd~i~l~~~~~~y~Y~V~~~~i 123 (187) T 3fn5_A 96 LERAQNGMSIYLTDKEKIYEYIIKDVFT 123 (187) T ss_dssp GGGCCTTCEEEEECSSEEEEEEEEEEEE T ss_pred HHHCCCCCEEEEEECCEEEEEEEEEEEE T ss_conf 8776468889999699499999999999 No 27 >2rkh_A Putative APHA-like transcription factor; ZP_00208345.1, structural genomics, joint center for structural genomics, JCSG; 2.00A {Magnetospirillum magnetotacticum ms-1} Probab=31.11 E-value=26 Score=15.12 Aligned_cols=65 Identities=12% Similarity=0.105 Sum_probs=33.4 Q ss_pred CCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 431-48899999999999998724899999999997517622243048999887687999999997444421 Q gi|254780440|r 4 KIP-VTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAE 74 (158) Q Consensus 4 k~~-lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~ 74 (158) |+| ||++|.+.|.+=|..-.....+-........-.+.++-. ..+....++.++..++..+++.. T Consensus 77 kvY~IT~~Gr~~l~~wl~~~~~~~~~~~~~~~~lkl~f~~~l~------~~~~~~~L~~~~~~~~~~l~~~~ 142 (180) T 2rkh_A 77 AMLAISAAGRRELHSLLTARLRPGSDLSKLVVALKMRFLGLME------AEERAHQIDLLIEGVDSELARLA 142 (180) T ss_dssp CEEEECHHHHHHHHHHHSCCCCSSSCTHHHHHHHHHHTGGGSC------HHHHHHHHHHHHHHHHHHHHHHH T ss_pred EEEEECHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCC------HHHHHHHHHHHHHHHHHHHHHHH T ss_conf 5888566899999999874255653220478999888874099------99999999999999998899999 No 28 >2w1k_A Putative sortase; pilus, pneumococcus, pathogenicity, transferase; HET: MES; 2.14A {Streptococcus pneumoniae} Probab=30.52 E-value=27 Score=15.06 Aligned_cols=31 Identities=19% Similarity=0.253 Sum_probs=25.1 Q ss_pred HHHCCCCCCCEEEEECCCCEEEEEEEEEEEC Q ss_conf 9872888887899982897199999998979 Q gi|254780440|r 128 RALIGKELGDIISVNAPGGEKTYEILQVLWI 158 (158) Q Consensus 128 ~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~yi 158 (158) .-|--.+.||.|.+...++...|+|.++..+ T Consensus 123 ~~L~~l~~GD~i~i~~~~~~~~Y~V~~~~vV 153 (252) T 2w1k_A 123 RHLDQLKVGDALYYDNGQEIVEYQMMDTEII 153 (252) T ss_dssp TTGGGCCTTCEEEEECSSEEEEEEEEEEEEE T ss_pred CCHHHCCCCCEEEEEECCEEEEEEEEEEEEE T ss_conf 2265576798899997998999999689998 No 29 >1nul_A XPRT, xanthine-guanine phosphoribosyltransferase; purine salvage enzyme; 1.80A {Escherichia coli} SCOP: c.61.1.1 PDB: 1a96_A* 1a95_A 1a98_A 1a97_A* Probab=29.97 E-value=27 Score=15.03 Aligned_cols=22 Identities=27% Similarity=0.175 Sum_probs=18.9 Q ss_pred CCCCCCCCHHHHHHHHHHHHHH Q ss_conf 9984314889999999999999 Q gi|254780440|r 1 MVDKIPVTSKGFDKIQQELRWR 22 (158) Q Consensus 1 M~~k~~lT~~g~~~L~~El~~l 22 (158) |++|+|+|-+-+++.-.+|.+- T Consensus 1 M~eK~~~sw~~i~~~~~~La~~ 22 (152) T 1nul_A 1 MSEKYIVTWDMLQIHARKLASR 22 (152) T ss_dssp --CEEECCHHHHHHHHHHHHHH T ss_pred CCCCEEECHHHHHHHHHHHHHH T ss_conf 9976881799999999999999 No 30 >1hmj_A RPB5, protein (subunit H); RNA polymerase, archaea; NMR {Methanocaldococcus jannaschii} SCOP: d.78.1.1 Probab=29.15 E-value=28 Score=14.91 Aligned_cols=27 Identities=19% Similarity=0.393 Sum_probs=23.0 Q ss_pred CEECCCCHHHHHHCCCCCCCEEEEECCC Q ss_conf 8150131789987288888789998289 Q gi|254780440|r 118 GLVSISSPIARALIGKELGDIISVNAPG 145 (158) Q Consensus 118 ~~IS~~SPlG~ALlG~~~Gd~V~v~~p~ 145 (158) =+|+..-|+++.+ |.+.||.+.+.-++ T Consensus 35 P~I~~~DPva~~~-g~~~GdiikI~R~S 61 (78) T 1hmj_A 35 PKIYEDDPVIQEI-GAKEGDVVRVIRKS 61 (78) T ss_pred CEECCCCHHHHHH-CCCCCCEEEEEECC T ss_conf 9213619978973-89999489999748 No 31 >2qcp_X Cation efflux system protein CUSF; silver-binding, copper-binding, beta barrel, OB-fold, metalloprotein, metal resistance, metal-binding; 1.00A {Escherichia coli str} PDB: 1zeq_X 3e6z_X Probab=25.37 E-value=28 Score=14.95 Aligned_cols=29 Identities=10% Similarity=0.068 Sum_probs=21.4 Q ss_pred HHHCCCCCCCEEEEECCCCEEEEEEEEEE Q ss_conf 98728888878999828971999999989 Q gi|254780440|r 128 RALIGKELGDIISVNAPGGEKTYEILQVL 156 (158) Q Consensus 128 ~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~ 156 (158) ..|-+.++||.|.+.+-...-.|.|.+|+ T Consensus 49 ~~l~~l~~Gd~V~F~~~~~~~~~~i~~i~ 77 (80) T 2qcp_X 49 TKMSEIKTGDKVAFNFVQQGNLSLLQDIK 77 (80) T ss_dssp CEECCCCTTCEEEEEEEEETTEEEEEEEE T ss_pred HHHHCCCCCCEEEEEEEECCCEEEEEEEE T ss_conf 78736999999999999809939999999 No 32 >1eik_A RNA polymerase subunit RPB5; RPBH, OCSP, NESG, protein structure initiative, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: d.78.1.1 Probab=25.26 E-value=29 Score=14.81 Aligned_cols=27 Identities=26% Similarity=0.557 Sum_probs=22.7 Q ss_pred EECCCCHHHHHHCCCCCCCEEEEECCCC Q ss_conf 1501317899872888887899982897 Q gi|254780440|r 119 LVSISSPIARALIGKELGDIISVNAPGG 146 (158) Q Consensus 119 ~IS~~SPlG~ALlG~~~Gd~V~v~~p~G 146 (158) +|+..-|+++.+ |.+.||.|.+.-++. T Consensus 38 ~I~~~DPva~~~-g~k~GdvikI~R~s~ 64 (77) T 1eik_A 38 KIKTTDPVAKAI-GAKRGDIVKIIRKSP 64 (77) T ss_dssp CCBTTSHHHHGG-GCCTTCEEEEEEEET T ss_pred EECCCCHHHHHH-CCCCCCEEEEEECCC T ss_conf 414629725400-787885899996589 No 33 >3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: ATG; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Probab=24.97 E-value=34 Score=14.44 Aligned_cols=62 Identities=19% Similarity=0.242 Sum_probs=31.1 Q ss_pred CCCCCCCCCCCCCCEEEEEECCCCCEEEEEEECH-HHCCCCCCEECCCCHHHHHHCCCCCCCEEEEEC Q ss_conf 7210133211136579995347652359999631-013345881501317899872888887899982 Q gi|254780440|r 77 DISTMSGDRIAFGATVSLVEKNSGDKKNYQIVGD-QEADVQSGLVSISSPIARALIGKELGDIISVNA 143 (158) Q Consensus 77 ~~~~~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~-~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~ 143 (158) .+..+..=.+..|..|.|.. ...+..++.+ ...+...+.|. .+.+-+..+|-+.||.|.+.- T Consensus 42 ~~~~m~~L~l~~gd~V~i~g----~~~~~a~~~~~~~~~~~~~~i~-l~~~~r~n~gv~~gd~V~v~~ 104 (489) T 3hu3_A 42 SQPKMDELQLFRGDTVLLKG----KKRREAVCIVLSDDTCSDEKIR-MNRVVRNNLRVRLGDVISIQP 104 (489) T ss_dssp CHHHHHHHTCCTTCEEEEEC----STTCEEEEEEEECTTSCTTEEE-CCHHHHHHTTCCTTCEEEEEE T ss_pred CHHHHHHCCCCCCCEEEEEC----CCCCEEEEEECCCCCCCCCEEE-ECHHHHHHCCCCCCCEEEEEE T ss_conf 99999874999999999982----7885499997576778899799-778999535878999799998 No 34 >1ix5_A FKBP; ppiase, isomerase; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.26.1.1 Probab=24.49 E-value=30 Score=14.78 Aligned_cols=25 Identities=24% Similarity=0.412 Sum_probs=21.2 Q ss_pred CCCHHHHHHCCCCCCCEEEEECCCC Q ss_conf 1317899872888887899982897 Q gi|254780440|r 122 ISSPIARALIGKELGDIISVNAPGG 146 (158) Q Consensus 122 ~~SPlG~ALlG~~~Gd~V~v~~p~G 146 (158) ...-+-.||+|.++|+..++.+|.. T Consensus 54 ~~pglE~al~gm~~Ge~~~v~l~p~ 78 (151) T 1ix5_A 54 LIQGFEEAVLDMEVGDEKTVKIPAE 78 (151) T ss_dssp SCHHHHHHHHTCCTTCCCEEEECTT T ss_pred CCHHHHHHHCCCCCCCEEEEEECHH T ss_conf 6655999847746996799976989 No 35 >3nja_A Probable ggdef family protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 2.37A {Chromobacterium violaceum} Probab=24.29 E-value=29 Score=14.84 Aligned_cols=27 Identities=11% Similarity=0.201 Sum_probs=12.3 Q ss_pred CCCEEEEEECCCCCEEEEEEECHHHCCC Q ss_conf 3657999534765235999963101334 Q gi|254780440|r 88 FGATVSLVEKNSGDKKNYQIVGDQEADV 115 (158) Q Consensus 88 ~Gs~V~l~d~~~~~~~~~~lVg~~e~d~ 115 (158) +-....+.. .+|+...+...|....|. T Consensus 80 ~~~e~Ri~~-~dG~~~wv~~~~~~~~d~ 106 (125) T 3nja_A 80 FDVEYRIVR-PDGQVRELLERNHIQRQA 106 (125) T ss_dssp EEEEEEEEC-TTSCEEEEEEEEEEEECT T ss_pred EEEEEEEEC-CCCCEEEEEEEEEEEECC T ss_conf 049999975-898789999999999999 No 36 >2vb2_X Copper protein, cation efflux system protein CUSF; cation PI, periplasm, metal-binding, metal transport, copper tolerance, copper transport; 1.70A {Escherichia coli} PDB: 2vb3_X Probab=24.29 E-value=30 Score=14.74 Aligned_cols=38 Identities=8% Similarity=0.036 Sum_probs=24.6 Q ss_pred EECCCCHHHHHHCCCCCCCEEEEECCCCEEEEEEEEEE Q ss_conf 15013178998728888878999828971999999989 Q gi|254780440|r 119 LVSISSPIARALIGKELGDIISVNAPGGEKTYEILQVL 156 (158) Q Consensus 119 ~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~ 156 (158) ...+.-.=..-|-+.++||.|.+.+-...-.|.|.+|+ T Consensus 48 TM~F~v~~~~~l~~l~~Gd~V~f~~~~~~~~~~I~~i~ 85 (88) T 2vb2_X 48 TMRFTITPQTKMSEIKTGDKVAFNFVQQGNLSLLQDIK 85 (88) T ss_dssp EEEEECCTTCEECCCCTTCEEEEEEEEETTEEEEEEEE T ss_pred EEEEECCCHHHHHCCCCCCEEEEEEEECCCEEEEEEEE T ss_conf 88878789547634999999999999819919999999 No 37 >2rcz_A Tight junction protein ZO-1; PDZ, domain-swapping, cell junction, membrane, phosphorylation, SH3 domain, protein bindin; 1.70A {Homo sapiens} PDB: 2jwe_A 2osg_A Probab=24.13 E-value=35 Score=14.34 Aligned_cols=46 Identities=24% Similarity=0.366 Sum_probs=29.5 Q ss_pred CCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCC-CCCCCEEE Q ss_conf 65799953476523599996310133458815013178998728-88887899 Q gi|254780440|r 89 GATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIG-KELGDIIS 140 (158) Q Consensus 89 Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG-~~~Gd~V~ 140 (158) |++|++.-.+.++..-|++-++ ..-..|...||-.+ .| -++||.+. T Consensus 1 G~~V~l~~~~~~~~~G~~~~~~----i~I~~v~~~g~A~~--~G~L~~GD~Il 47 (81) T 2rcz_A 1 GSKVTLVKSRKNEEYGLRLASH----IFVKEISQDSLAAR--DGNIQEGDVVL 47 (81) T ss_dssp CEEEEEECCSTTCCCCEEEEEE----EEEEEECTTSHHHH--HSSCCTTCEEE T ss_pred CCEEEEEECCCCCCCCEEECCC----EEEEEECCCCHHHH--CCCCCCCCEEE T ss_conf 9189999899899873896898----89999899997998--69998999999 No 38 >1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region; heat shock proteins, protein-RNA interactions, ribosome, structural genomics; 2.00A {Escherichia coli} SCOP: d.66.1.3 PDB: 3bbu_A Probab=23.59 E-value=36 Score=14.27 Aligned_cols=28 Identities=14% Similarity=0.255 Sum_probs=18.1 Q ss_pred CCCCCCCCCEEEEEECCCCCEEEEEEECHH Q ss_conf 332111365799953476523599996310 Q gi|254780440|r 82 SGDRIAFGATVSLVEKNSGDKKNYQIVGDQ 111 (158) Q Consensus 82 ~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~ 111 (158) |.-.|..|..|++.. . +...++.+++-. T Consensus 45 ~s~~v~~gD~i~i~~-~-~~~~~i~V~~l~ 72 (133) T 1dm9_A 45 PSKIVELNATLTLRQ-G-NDERTVIVKAIT 72 (133) T ss_dssp TTCBCCTTCEEEEEE-T-TEEEEEEECEEE T ss_pred CCCCCCCCCEEEEEE-C-CCEEEEEEEECC T ss_conf 666688999899986-8-926799999767 No 39 >2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori} Probab=22.01 E-value=37 Score=14.17 Aligned_cols=25 Identities=24% Similarity=0.357 Sum_probs=16.7 Q ss_pred CCCCCCCCCEEEEEECCCCCEEEEEEE Q ss_conf 332111365799953476523599996 Q gi|254780440|r 82 SGDRIAFGATVSLVEKNSGDKKNYQIV 108 (158) Q Consensus 82 ~~~~V~~Gs~V~l~d~~~~~~~~~~lV 108 (158) |...|..|..|++... .+...+.++ T Consensus 37 ~s~~V~~Gd~i~i~~~--~~~~~~~v~ 61 (92) T 2k6p_A 37 ASKEVKAGDTISLHYL--KGIEEYTIL 61 (92) T ss_dssp TTCBCCTTCEEEECCS--SCCEEEEEC T ss_pred ECCEECCCCEEEEEEC--CCCEEEEEE T ss_conf 2368279999999838--970799999 No 40 >2jv2_A Putative uncharacterized protein PH1500; AAA ATPase NC-domain-like, unknown function; NMR {Pyrococcus horikoshii} Probab=21.79 E-value=39 Score=14.05 Aligned_cols=34 Identities=29% Similarity=0.491 Sum_probs=27.5 Q ss_pred CCHHHHHHCCCC--CCCEEEEECCCCEEEEEEEEEE Q ss_conf 317899872888--8878999828971999999989 Q gi|254780440|r 123 SSPIARALIGKE--LGDIISVNAPGGEKTYEILQVL 156 (158) Q Consensus 123 ~SPlG~ALlG~~--~Gd~V~v~~p~G~~~~~Il~I~ 156 (158) ..-+.+.|.|+- .||.|.+.+-++...|.|.+.+ T Consensus 30 ~eyvk~~L~grpv~~GD~I~V~~lg~~l~F~Vv~t~ 65 (83) T 2jv2_A 30 VDVIRIKLQGKTVRTGDVIGISILGKEVKFKVVQAY 65 (83) T ss_dssp HHHHHHHHTTSEECTTCEEEEEETTEEEEEEEEEEE T ss_pred HHHHHHHHCCCCCCCCCEEEEEECCCEEEEEEEEEE T ss_conf 999999867997447999999856966889999863 No 41 >3g66_A Sortase C; pilus, transferase; HET: MES; 1.70A {Streptococcus pneumoniae} PDB: 3g69_A* Probab=21.71 E-value=39 Score=14.04 Aligned_cols=29 Identities=21% Similarity=0.272 Sum_probs=24.2 Q ss_pred HCCCCCCCEEEEECCCCEEEEEEEEEEEC Q ss_conf 72888887899982897199999998979 Q gi|254780440|r 130 LIGKELGDIISVNAPGGEKTYEILQVLWI 158 (158) Q Consensus 130 LlG~~~Gd~V~v~~p~G~~~~~Il~I~yi 158 (158) |--.+.||.|.+...++.+.|+|.+++.+ T Consensus 126 L~~l~~Gd~i~i~~~~~~~~Y~V~~~~iV 154 (212) T 3g66_A 126 LDKMKKGDIFYLHVLDQVLAYQVDQIVTV 154 (212) T ss_dssp GGGCCTTCEEEEEETTEEEEEEEEEEEEE T ss_pred HHCCCCCCEEEEEECCCEEEEEEEEEEEE T ss_conf 54388898899983993999999999998 No 42 >3i0u_A Phosphothreonine lyase OSPF; APO-structure, type III effector, plasmid, secreted, virulence, structural genomics; 2.70A {Shigella flexneri} Probab=21.42 E-value=40 Score=14.00 Aligned_cols=51 Identities=18% Similarity=0.150 Sum_probs=30.6 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCE--EEEEEC Q ss_conf 224304899988768799999999744442104721013321113657--999534 Q gi|254780440|r 44 SENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIAFGAT--VSLVEK 97 (158) Q Consensus 44 ~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~--V~l~d~ 97 (158) +||..|-+. .+...-.=|..|+.+|..+-|. |+..|.+-|..+.| +.++|. T Consensus 140 ~~ds~Ysa~--~l~k~r~fi~~lE~~L~~aGi~-pg~~P~SDV~p~~W~yaSYRNE 192 (218) T 3i0u_A 140 QECSQYSAL--LLHKIRQFIMCLESNLLRSKIA-PGEYPASDVRPEDWKYVSYRNE 192 (218) T ss_dssp SSTTCCCHH--HHHHHHHHHHHHHHHHHHTTCC-BCCCCTTCBCCTTCSSEEEEES T ss_pred CCCCCCCHH--HHHHHHHHHHHHHHHHHHCCCC-CCCCCCCCCCCCCCCEEEEHHH T ss_conf 555645799--9987999999999999973788-8989855468244541231102 No 43 >3enu_A Nitrollin, putative uncharacterized protein; betagamma crystallin, structural protein; 1.86A {Nitrosospira multiformis} PDB: 3ent_A Probab=21.09 E-value=40 Score=13.96 Aligned_cols=41 Identities=12% Similarity=0.144 Sum_probs=27.2 Q ss_pred CCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHH Q ss_conf 21113657999534765235999963101334588150131789987 Q gi|254780440|r 84 DRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARAL 130 (158) Q Consensus 84 ~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~AL 130 (158) ..-.-|+||.+.+..+=+-...+|+||.+.- |..-|.|+.+ T Consensus 17 ~~~~~GCW~~F~~~rNFQGD~L~L~GPA~~~------~m~~~~~~~~ 57 (114) T 3enu_A 17 ELENRGCWVKFFDKKNFQGDSLFLSGPATLP------RLIGPFGYDW 57 (114) T ss_dssp HHHHHCCEEEEESSGGGCSCEEEEESSEEES------SSEETTTEEC T ss_pred HHHHCCCEEEEECCCCCCCCEEEEECCHHHH------HCCCCHHHHH T ss_conf 5660872577631676567468987746632------2026024565 No 44 >1uit_A Human discs large 5 protein; PDZ domain, HDLG5, maguk family, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: b.36.1.1 Probab=20.78 E-value=41 Score=13.92 Aligned_cols=48 Identities=21% Similarity=0.290 Sum_probs=31.4 Q ss_pred CEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCCCCEEEE Q ss_conf 5799953476523599996310133458815013178998728888878999 Q gi|254780440|r 90 ATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISV 141 (158) Q Consensus 90 s~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v 141 (158) -.|++.. .+...=|+|+|..+.-..-..|...||-.++ |-++||.+.- T Consensus 21 ~~v~l~k--~~~~lG~~i~gg~~~gi~V~~v~~gs~A~~~--gL~~GD~Il~ 68 (117) T 1uit_A 21 RHVKVQK--GSEPLGISIVSGEKGGIYVSKVTVGSIAHQA--GLEYGDQLLE 68 (117) T ss_dssp EEEEEEC--SSCCCCEEEEECTTSCEEEEEECTTSHHHHH--TCCTTCEECE T ss_pred EEEEEEE--CCCEECEEEECCCCCCEEEEEECCCCHHHHC--CCCCCCEEEE T ss_conf 8999985--9971167998469899999998999968987--9999999999 No 45 >2waq_H DNA-directed RNA polymerase RPO5 subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_H 2pmz_H 3hkz_H Probab=20.62 E-value=40 Score=13.99 Aligned_cols=28 Identities=29% Similarity=0.485 Sum_probs=22.6 Q ss_pred CEECCCCHHHHHHCCCCCCCEEEEECCCC Q ss_conf 81501317899872888887899982897 Q gi|254780440|r 118 GLVSISSPIARALIGKELGDIISVNAPGG 146 (158) Q Consensus 118 ~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G 146 (158) =+|+..-|+++.+ |.+.||.|.+.-++. T Consensus 43 P~I~~~DPva~~~-g~k~GdvvkI~R~s~ 70 (84) T 2waq_H 43 PWIRASDPVARSI-NAKPGDIIRIIRKSQ 70 (84) T ss_dssp CCCCSSSHHHHHH-TCCTTSCEEEEEEET T ss_pred CEECCCCHHHHHH-CCCCCCEEEEEECCC T ss_conf 8004619867862-898897899997588 No 46 >2pia_A Phthalate dioxygenase reductase; HET: FMN; 2.00A {Burkholderia cepacia} SCOP: b.43.4.2 c.25.1.2 d.15.4.2 Probab=20.50 E-value=41 Score=13.91 Aligned_cols=61 Identities=18% Similarity=0.382 Sum_probs=37.6 Q ss_pred CCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCC----CHHH-HHHC-CCCCCCEEEEECCCCEE Q ss_conf 11365799953476523599996310133458815013----1789-9872-88888789998289719 Q gi|254780440|r 86 IAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSIS----SPIA-RALI-GKELGDIISVNAPGGEK 148 (158) Q Consensus 86 V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~----SPlG-~ALl-G~~~Gd~V~v~~p~G~~ 148 (158) -..|-.|+|.- ..+..+.|+|.++...+ ..-.|++- .... .+|+ ..++||.|.+.-|.|.. T Consensus 39 ~~pGQ~v~l~~-~~~~~R~YSi~s~p~~~-~~~~i~Vk~~~~G~~~~~~l~~~l~~Gd~v~v~~P~G~f 105 (321) T 2pia_A 39 FEAGANLTVAV-PNGSRRTYSLCNDSQER-NRYVIAVKRDSNGRGGSISFIDDTSEGDAVEVSLPRNEF 105 (321) T ss_dssp CCTTCEEEEEC-TTSCEEEEECCSCTTCC-SEEEEEEECCTTSCSHHHHHHHSCCTTCEEEECCCBCCS T ss_pred CCCCCEEEEEE-CCCCEEEEEECCCCCCC-CEEEEEEEEECCCCCCHHHHHHHCCCCCEEEEECCCCCC T ss_conf 89995599991-89988998837579999-989999999749983227777526799838981265477 Done!