Query 537021.9.peg.817_1 Match_columns 148 No_of_seqs 127 out of 965 Neff 6.6 Searched_HMMs 23785 Date Wed May 25 01:28:22 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i peg_817.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3c1y_A DNA integrity scanning 98.0 2.5E-05 1E-09 53.9 7.6 82 25-109 272-374 (377) 2 1x2i_A HEF helicase/nuclease; 97.9 5.2E-05 2.2E-09 51.8 8.0 57 41-99 10-66 (75) 3 2bgw_A XPF endonuclease; hydro 97.9 3.9E-05 1.6E-09 52.6 7.0 58 40-99 157-214 (219) 4 1z00_A DNA excision repair pro 97.6 9.4E-05 3.9E-09 50.1 6.0 50 49-99 22-71 (89) 5 2a1j_B DNA excision repair pro 97.5 0.0001 4.3E-09 49.8 5.1 48 51-99 37-84 (91) 6 1kft_A UVRC, excinuclease ABC 97.4 0.00014 6E-09 48.9 4.1 40 59-98 36-75 (78) 7 2a1j_A DNA repair endonuclease 96.7 0.0012 4.8E-08 43.1 3.9 45 51-97 9-53 (63) 8 1z00_B DNA repair endonuclease 96.5 0.0018 7.8E-08 41.8 3.8 45 50-96 22-66 (84) 9 3c65_A Uvrabc system protein C 96.0 0.00086 3.6E-08 43.9 0.0 46 46-98 178-223 (226) 10 1dgs_A DNA ligase; AMP complex 96.0 0.033 1.4E-06 33.7 7.8 57 42-99 503-559 (667) 11 1kea_A Possible G-T mismatches 95.7 0.021 8.7E-07 35.0 5.8 57 38-97 74-133 (221) 12 1pu6_A 3-methyladenine DNA gly 95.6 0.016 6.6E-07 35.8 5.1 95 34-132 72-180 (218) 13 1ngn_A Methyl-CPG binding prot 95.6 0.022 9.3E-07 34.8 5.7 61 40-100 33-96 (155) 14 2owo_A DNA ligase; protein/DNA 95.5 0.032 1.3E-06 33.8 6.1 59 40-99 506-564 (671) 15 2nrt_A Uvrabc system protein C 95.3 0.0085 3.6E-07 37.5 2.9 43 51-95 173-215 (220) 16 2zj8_A DNA helicase, putative 94.9 0.039 1.6E-06 33.2 5.3 45 57-104 656-701 (720) 17 1orn_A Endonuclease III; DNA r 94.7 0.029 1.2E-06 34.0 4.3 94 36-133 70-175 (226) 18 1kg2_A A/G-specific adenine gl 94.7 0.054 2.3E-06 32.3 5.5 59 36-97 67-127 (225) 19 1kea_A Possible G-T mismatches 94.2 0.03 1.3E-06 33.9 3.4 66 39-104 36-104 (221) 20 2abk_A Endonuclease III; DNA-r 93.8 0.038 1.6E-06 33.2 3.3 89 38-132 68-169 (211) 21 1kg2_A A/G-specific adenine gl 93.6 0.12 5E-06 30.1 5.5 73 31-106 16-97 (225) 22 3fsp_A A/G-specific adenine gl 93.6 0.062 2.6E-06 31.9 4.0 50 39-88 39-90 (369) 23 3n5n_X A/G-specific adenine DN 93.6 0.15 6.3E-06 29.4 5.9 47 42-88 53-100 (287) 24 3fsp_A A/G-specific adenine gl 93.1 0.21 8.9E-06 28.4 6.1 61 35-98 75-137 (369) 25 1orn_A Endonuclease III; DNA r 93.0 0.21 8.7E-06 28.5 5.9 64 39-102 34-100 (226) 26 2abk_A Endonuclease III; DNA-r 93.0 0.1 4.4E-06 30.5 4.3 64 39-102 30-96 (211) 27 3i0w_A 8-oxoguanine-DNA-glycos 91.6 0.25 1.1E-05 28.0 4.9 90 37-131 167-271 (290) 28 1vq8_Y 50S ribosomal protein L 91.1 0.033 1.4E-06 33.7 0.0 44 59-102 27-71 (241) 29 1m3q_A 8-oxoguanine DNA glycos 89.8 0.21 8.8E-06 28.5 3.2 55 47-102 191-252 (317) 30 1b22_A DNA repair protein RAD5 89.4 0.22 9.1E-06 28.4 3.0 41 59-99 37-78 (114) 31 2h56_A DNA-3-methyladenine gly 89.3 0.7 2.9E-05 25.1 5.6 43 54-96 109-155 (233) 32 3n5n_X A/G-specific adenine DN 89.1 0.19 7.8E-06 28.8 2.5 62 34-98 84-148 (287) 33 3fhg_A Mjogg, N-glycosylase/DN 88.8 0.65 2.7E-05 25.3 5.1 64 34-97 62-135 (207) 34 1z3e_B DNA-directed RNA polyme 87.3 1.1 4.6E-05 23.8 5.5 42 59-100 19-62 (73) 35 1u9l_A Transcription elongatio 85.8 1.3 5.4E-05 23.4 5.2 40 58-97 17-57 (70) 36 3gfk_B DNA-directed RNA polyme 84.6 1.2 5.2E-05 23.5 4.7 41 60-100 27-69 (79) 37 3k4g_A DNA-directed RNA polyme 84.3 1.8 7.6E-05 22.5 5.4 40 60-99 23-64 (86) 38 3bz1_U Photosystem II 12 kDa e 84.2 0.14 6E-06 29.6 -0.3 34 63-96 17-50 (104) 39 3lda_A DNA repair protein RAD5 83.9 2.4 9.9E-05 21.7 5.9 46 53-98 90-135 (400) 40 3bz1_U Photosystem II 12 kDa e 83.2 0.67 2.8E-05 25.2 2.8 36 57-98 43-78 (104) 41 1ixr_A Holliday junction DNA h 82.7 2.4 1E-04 21.7 5.5 104 31-140 59-166 (191) 42 2edu_A Kinesin-like protein KI 82.4 1.4 6E-05 23.1 4.2 19 77-95 68-86 (98) 43 2e1f_A Werner syndrome ATP-dep 81.8 2.6 0.00011 21.4 5.4 49 70-118 48-96 (103) 44 1s5l_U Photosystem II 12 kDa e 81.7 0.31 1.3E-05 27.4 0.6 31 66-96 50-80 (134) 45 1d8b_A SGS1 RECQ helicase; fiv 81.4 2 8.4E-05 22.2 4.7 39 70-108 39-77 (81) 46 1kft_A UVRC, excinuclease ABC 81.1 0.37 1.6E-05 26.9 0.9 51 77-127 22-77 (78) 47 2ztd_A Holliday junction ATP-d 80.4 2.4 9.9E-05 21.7 4.8 103 31-139 75-183 (212) 48 1pzn_A RAD51, DNA repair and r 80.3 2.7 0.00011 21.3 5.0 47 52-98 41-87 (349) 49 2duy_A Competence protein come 79.7 1.1 4.6E-05 23.8 2.9 27 72-98 20-46 (75) 50 3fhf_A Mjogg, N-glycosylase/DN 75.3 4.4 0.00019 19.9 5.3 61 34-97 73-143 (214) 51 1coo_A RNA polymerase alpha su 73.8 4.6 0.00019 19.8 4.7 40 60-99 35-76 (98) 52 1cuk_A RUVA protein; DNA repai 73.3 3 0.00013 21.0 3.7 104 31-140 60-180 (203) 53 2rhf_A DNA helicase RECQ; HRDC 72.7 5.1 0.00021 19.5 5.0 34 70-103 38-72 (77) 54 1wud_A ATP-dependent DNA helic 72.2 4.3 0.00018 20.0 4.3 38 70-107 46-84 (89) 55 3maj_A DNA processing chain A; 68.4 5.2 0.00022 19.5 4.0 56 27-84 7-62 (382) 56 2rrd_A BLM HRDC domain, HRDC d 67.2 6.7 0.00028 18.8 5.3 41 70-110 55-96 (101) 57 2kp7_A Crossover junction endo 64.4 7.5 0.00032 18.4 4.7 54 41-99 24-78 (87) 58 2dgz_A Werner syndrome protein 61.9 3.9 0.00016 20.3 2.4 45 70-114 55-99 (113) 59 2ihm_A POL MU, DNA polymerase 61.3 4.5 0.00019 19.9 2.6 41 55-96 72-119 (360) 60 2w9m_A Polymerase X; SAXS, DNA 59.8 9.1 0.00038 17.9 4.4 19 78-96 96-114 (578) 61 2jhn_A ALKA, 3-methyladenine D 59.3 8.6 0.00036 18.1 3.7 28 69-96 196-227 (295) 62 1jms_A Terminal deoxynucleotid 59.3 5.1 0.00022 19.5 2.6 19 78-96 120-138 (381) 63 1jei_A Emerin; membrane protei 51.8 3.5 0.00015 20.6 0.7 32 34-65 3-34 (53) 64 2r4f_A 3-hydroxy-3-methylgluta 50.8 8 0.00034 18.3 2.5 51 17-67 2-68 (441) 65 1mpg_A ALKA, 3-methyladenine D 49.6 13 0.00056 16.9 6.3 62 38-100 112-187 (282) 66 1v5w_A DMC1, meiotic recombina 48.3 3.1 0.00013 21.0 0.0 54 42-98 26-79 (343) 67 2i1q_A DNA repair and recombin 46.8 15 0.00062 16.6 7.0 46 51-96 8-53 (322) 68 2fmp_A DNA polymerase beta; nu 44.6 16 0.00066 16.4 3.6 18 79-96 98-115 (335) 69 1vdd_A Recombination protein R 42.4 14 0.00058 16.7 2.6 19 78-96 11-29 (228) 70 2zkq_m 40S ribosomal protein S 40.5 14 0.00061 16.6 2.5 24 79-102 28-51 (152) 71 2bcq_A DNA polymerase lambda; 40.3 18 0.00077 15.9 3.6 19 78-96 95-113 (335) 72 2ziu_A MUS81 protein; helix-ha 38.4 19 0.00081 15.8 2.8 21 78-98 236-256 (311) 73 3e1s_A Exodeoxyribonuclease V, 38.1 6.3 0.00026 18.9 0.3 56 39-98 7-63 (574) 74 3lu0_A DNA-directed RNA polyme 37.1 5.8 0.00024 19.2 0.0 40 60-99 266-307 (329) 75 2z43_A DNA repair and recombin 34.9 6.6 0.00028 18.8 0.0 32 65-96 31-62 (324) 76 3ofp_M 30S ribosomal protein S 32.9 11 0.00044 17.5 0.8 24 79-102 16-39 (113) 77 2vqe_M 30S ribosomal protein S 32.0 15 0.00062 16.5 1.4 24 79-102 17-40 (126) 78 2a6h_A DNA-directed RNA polyme 29.0 9.5 0.0004 17.8 0.0 39 61-99 266-306 (315) 79 2dla_A 397AA long hypothetical 28.5 13 0.00056 16.8 0.7 18 59-76 11-28 (222) 80 5csm_A Chorismate mutase; chor 25.1 23 0.00095 15.4 1.3 36 86-121 139-175 (256) 81 2pcj_A ABC transporter, lipopr 23.4 35 0.0015 14.1 2.1 48 35-83 95-143 (224) 82 3bqs_A Uncharacterized protein 23.1 19 0.00078 15.9 0.6 21 77-97 2-22 (93) 83 2izo_A FEN1, flap structure-sp 20.9 39 0.0017 13.8 1.9 16 60-75 247-262 (346) No 1 >3c1y_A DNA integrity scanning protein DISA; DNA damage, DNA repair, DNA-binding, DNA binding protein; HET: DNA 2BA; 2.10A {Thermotoga maritima} PDB: 3c1z_A* 3c21_A* 3c23_A* Probab=97.96 E-value=2.5e-05 Score=53.86 Aligned_cols=82 Identities=13% Similarity=0.104 Sum_probs=63.0 Q ss_pred HHHHHHHCCHHHCCHHHHHHHHHHCCCCCC-CH--------------------HHHHHHHHHHCCCHHHHHCCCHHHHHH Q ss_conf 999998239221898999999973379989-88--------------------999999997379978985099789973 Q 537021.9.peg.8 25 LRDRFLQKGENALAYYEILELILFRLIPRK-DT--------------------KSIAKALLKRFATLGGVFGAPLHLLQE 83 (148) Q Consensus 25 ~RErll~~G~~~LsD~ELLallL~~g~~~~-~~--------------------~~lA~~lL~~fGsL~~ll~as~~eL~~ 83 (148) ..+.+-.--.+.+.|.+-++-+|++...+. ++ ..++.+|.++||+|..+++||.+||.. T Consensus 272 a~~~L~~L~~~elldl~~ia~~LGy~~~g~~~llD~~v~pRGyRiLskiprlp~~vienLV~~FgsLq~Ll~AS~EeL~e 351 (377) T 3c1y_A 272 AQNILQDFITRREPSPISISRVLGYDVQQAAQLDDVLVSARGYRLLKTVARIPLSIGYNVVRMFKTLDQISKASVEDLKK 351 (377) T ss_dssp HHHHHHHHHTTSCCCHHHHHHHTTCCCSCGGGGGGCBCCCCSHHHHHHTSCCCHHHHHHHHHHHCSHHHHTTCCHHHHTT T ss_pred HHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHH T ss_conf 99999862222446768999982999878666444565741788872389997889999999846899998589988964 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 78988999999754999999999987 Q 537021.9.peg.8 84 INRIGKRVALELKLVSVASQRILKAN 109 (148) Q Consensus 84 i~GIG~aka~~l~a~~El~rR~~~~~ 109 (148) |+|||+..|.+|+ |--+|+.... T Consensus 352 VeGIGe~RAr~Ir---eGL~Rl~e~~ 374 (377) T 3c1y_A 352 VEGIGEKRARAIS---ESISSLKHRK 374 (377) T ss_dssp STTCCHHHHHHHH---HHHHHHHHHH T ss_pred CCCCCHHHHHHHH---HHHHHHHHCC T ss_conf 5885899999999---9999987430 No 2 >1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5 Probab=97.88 E-value=5.2e-05 Score=51.76 Aligned_cols=57 Identities=32% Similarity=0.517 Sum_probs=47.5 Q ss_pred HHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 99999973379989889999999973799789850997899737898899999975499 Q 537021.9.peg.8 41 EILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 41 ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) |-...+| .|.|+..-. .|+.|+++|||+.++++|+.++|..|+|||+.+|..|...+ T Consensus 10 ~~~~~~L-~~IpgIG~~-~a~~L~~~F~s~~~i~~As~eeL~~v~GIG~~~a~~i~~~~ 66 (75) T 1x2i_A 10 ERQRLIV-EGLPHVSAT-LARRLLKHFGSVERVFTASVAELMKVEGIGEKIAKEIRRVI 66 (75) T ss_dssp HHHHHHH-TTSTTCCHH-HHHHHHHHHCSHHHHHHCCHHHHTTSTTCCHHHHHHHHHHH T ss_pred HHHHHHH-CCCCCCCHH-HHHHHHHHHCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH T ss_conf 9999998-489994299-99999999688898999789999855897999999999998 No 3 >2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A Probab=97.85 E-value=3.9e-05 Score=52.56 Aligned_cols=58 Identities=28% Similarity=0.377 Sum_probs=48.2 Q ss_pred HHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 999999973379989889999999973799789850997899737898899999975499 Q 537021.9.peg.8 40 YEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 40 ~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) .+...-+| .+.|+.+. ..|+.|+++|||+..+.+|+.++|++|+|||+.+|..|...+ T Consensus 157 ~~~~~~~L-~~Ipgi~~-~~A~~Ll~~f~Sl~~l~~as~~eL~~v~giG~~~A~~I~~~l 214 (219) T 2bgw_A 157 REWQLYIL-QSFPGIGR-RTAERILERFGSLERFFTASKAEISKVEGIGEKRAEEIKKIL 214 (219) T ss_dssp HHHHHHHH-HTSTTCCH-HHHHHHHHHHSSHHHHTTCCHHHHHHSTTCCHHHHHHHHHHH T ss_pred HHHHHHHH-HCCCCCCH-HHHHHHHHHCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHH T ss_conf 89899998-40799899-999999998699999986889999608997999999999996 No 4 >1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 Probab=97.62 E-value=9.4e-05 Score=50.13 Aligned_cols=50 Identities=20% Similarity=0.181 Sum_probs=42.1 Q ss_pred CCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 379989889999999973799789850997899737898899999975499 Q 537021.9.peg.8 49 RLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 49 ~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) ++.|+-.. ..|+.|+++|||+..+.+|++++|.+|+|||+.+|..|.-.+ T Consensus 22 ~~I~gIG~-~~a~~L~~~Fgsl~~i~~As~eeL~~i~GiG~~~A~~I~~~f 71 (89) T 1z00_A 22 TTVKSVNK-TDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVL 71 (89) T ss_dssp TTSSSCCH-HHHHHHHHHTCBHHHHHHCCHHHHHTSTTCCHHHHHHHHHHH T ss_pred CCCCCCCH-HHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH T ss_conf 58997599-999999999488899999878777268996999999999998 No 5 >2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 Probab=97.52 E-value=0.0001 Score=49.85 Aligned_cols=48 Identities=23% Similarity=0.200 Sum_probs=41.3 Q ss_pred CCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 9989889999999973799789850997899737898899999975499 Q 537021.9.peg.8 51 IPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 51 ~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) .|+ =-...|+.|+++|||+..+..|+.++|.+|+|||+.+|..|...+ T Consensus 37 I~g-IGk~~A~~L~~~F~Si~~l~~As~eeL~~i~GIG~~~A~~I~~~f 84 (91) T 2a1j_B 37 VKS-VNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVL 84 (91) T ss_dssp STT-CCHHHHHHHHHHHSSHHHHHSCCHHHHHTSSSCCSHHHHHHHHHH T ss_pred CCC-CCHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHH T ss_conf 888-599999999999588298999899975577996999999999998 No 6 >1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3 Probab=97.36 E-value=0.00014 Score=48.94 Aligned_cols=40 Identities=20% Similarity=0.246 Sum_probs=36.5 Q ss_pred HHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 9999997379978985099789973789889999997549 Q 537021.9.peg.8 59 IAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 59 lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~ 98 (148) .|+.|+++||++.++.+|+++||.+|+|||+..|..|... T Consensus 36 ~ak~Ll~~F~si~~i~~As~eeL~~v~GIg~~~A~~I~~~ 75 (78) T 1kft_A 36 RRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIFWS 75 (78) T ss_dssp HHHHHHHHHSCHHHHHHCCHHHHTTSSSTTSHHHHHHHHH T ss_pred HHHHHHHHHCCHHHHHHHCHHHHHCCCCCCHHHHHHHHHH T ss_conf 9999999929949998837999980799899999999999 No 7 >2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A* Probab=96.71 E-value=0.0012 Score=43.08 Aligned_cols=45 Identities=16% Similarity=0.193 Sum_probs=36.7 Q ss_pred CCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH Q ss_conf 99898899999999737997898509978997378988999999754 Q 537021.9.peg.8 51 IPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKL 97 (148) Q Consensus 51 ~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a 97 (148) .|+-..+. ++.|+.+|||+.++.+||.+||.+|.| |+..|..|.- T Consensus 9 IPGIg~~~-~~~Ll~~fgSi~~l~~as~eeL~~v~G-~~~~A~~i~~ 53 (63) T 2a1j_A 9 MPGVNAKN-CRSLMHHVKNIAELAALSQDELTSILG-NAANAKQLYD 53 (63) T ss_dssp STTCCHHH-HHHHHHHCSSHHHHHTCCHHHHHHHHS-CHHHHHHHHH T ss_pred CCCCCHHH-HHHHHHHCCCHHHHHHCCHHHHHHCCC-CHHHHHHHHH T ss_conf 99988999-999999867999998799999987869-8999999999 No 8 >1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A* Probab=96.50 E-value=0.0018 Score=41.76 Aligned_cols=45 Identities=16% Similarity=0.207 Sum_probs=38.3 Q ss_pred CCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH Q ss_conf 79989889999999973799789850997899737898899999975 Q 537021.9.peg.8 50 LIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELK 96 (148) Q Consensus 50 g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~ 96 (148) ..|+-..+. ++.||.+|||+..+.+||.+||..|.| |+..|..|. T Consensus 22 ~iPGIg~k~-~~~Ll~~f~sl~~i~~AS~eeL~~v~G-~~~~Ak~i~ 66 (84) T 1z00_B 22 KMPGVNAKN-CRSLMHHVKNIAELAALSQDELTSILG-NAANAKQLY 66 (84) T ss_dssp TCSSCCHHH-HHHHHHHSSCHHHHHHSCHHHHHHHHS-CHHHHHHHH T ss_pred CCCCCCHHH-HHHHHHHCCCHHHHHHCCHHHHHHCCC-CHHHHHHHH T ss_conf 389999999-999999966999998599999988759-799999999 No 9 >3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus} Probab=96.03 E-value=0.00086 Score=43.91 Aligned_cols=46 Identities=28% Similarity=0.170 Sum_probs=38.1 Q ss_pred HHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 97337998988999999997379978985099789973789889999997549 Q 537021.9.peg.8 46 ILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 46 lL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~ 98 (148) |-+-|-.+ ++.||++|||+.++..||.+||+++ |||+..|..|... T Consensus 178 I~GIG~~~------~~~Ll~~Fgs~~~i~~As~eeL~~v-gI~~~~A~~I~~~ 223 (226) T 3c65_A 178 IPGVGEKR------KKALLNYFGSVKKMKEATVEELQRA-NIPRAVAEKIYEK 223 (226) T ss_dssp ----------------------------------------------------- T ss_pred CCCCCHHH------HHHHHHHCCCHHHHHHCCHHHHHHC-CCCHHHHHHHHHH T ss_conf 68869999------9999998189999973899999876-9999999999999 No 10 >1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A* Probab=95.95 E-value=0.033 Score=33.68 Aligned_cols=57 Identities=23% Similarity=0.342 Sum_probs=47.1 Q ss_pred HHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 9999973379989889999999973799789850997899737898899999975499 Q 537021.9.peg.8 42 ILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 42 LLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) +--++...|.|+.- ...|+.|...|+++..+.+++.++|..|+|||+..|..|..=+ T Consensus 503 l~r~L~aLGIp~vG-~~~ak~L~~~f~~l~~l~~as~e~L~~I~GIG~~~A~si~~~f 559 (667) T 1dgs_A 503 LERLLYALGLPGVG-EVLARNLARRFGTMDRLLEASLEELIEVEEVGELTARAILETL 559 (667) T ss_dssp HHHHHHHTTCSSCC-HHHHHHHHHTTSBHHHHTTCCHHHHHTSTTCCHHHHHHHHHHH T ss_pred HHHHHHHCCCCCCC-HHHHHHHHHHCCCHHHHHCCCHHHHHCCCCCCHHHHHHHHHHH T ss_conf 67777750678744-8999999887599999860799998577994899999999997 No 11 >1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} SCOP: a.96.1.2 Probab=95.65 E-value=0.021 Score=34.98 Aligned_cols=57 Identities=12% Similarity=0.130 Sum_probs=25.7 Q ss_pred CHHHHHHHHHHCCCC---CCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH Q ss_conf 989999999733799---898899999999737997898509978997378988999999754 Q 537021.9.peg.8 38 AYYEILELILFRLIP---RKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKL 97 (148) Q Consensus 38 sD~ELLallL~~g~~---~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a 97 (148) +..||.+++=..|.. -...+.+|+.+.++||| ..-.+.++|.++||||+..|..++. T Consensus 74 ~~~el~~~i~~~G~~~~KA~~l~~~a~~i~~~~~g---~vp~~~~eL~~LPGVG~ktA~~vl~ 133 (221) T 1kea_A 74 PKSEIAKDIKEIGLSNQRAEQLKELARVVINDYGG---RVPRNRKAILDLPGVGKYTCAAVMC 133 (221) T ss_dssp CHHHHHHHTGGGSCHHHHHHHHHHHHHHHHHHHTT---SCCSCHHHHHTSTTCCHHHHHHHHH T ss_pred CHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCC---CCCHHHHHHHCCCCCCHHHHHHHHH T ss_conf 99999999998789999999999999999886058---7301288874489876567999999 No 12 >1pu6_A 3-methyladenine DNA glycosylase; helix-hairpin-helix, base excision repair, hydrolase; HET: KCX; 1.64A {Helicobacter pylori} SCOP: a.96.1.5 PDB: 1pu7_A* 1pu8_A* Probab=95.62 E-value=0.016 Score=35.77 Aligned_cols=95 Identities=14% Similarity=0.053 Sum_probs=67.2 Q ss_pred HHHCCHHHHHHHHHHCCCC---CCCHHHHHHHHHHHCCCHHHH-HCCCHHHHHHCCCCCHHHHHHHHHHHHHH------- Q ss_conf 2218989999999733799---898899999999737997898-50997899737898899999975499999------- Q 537021.9.peg.8 34 ENALAYYEILELILFRLIP---RKDTKSIAKALLKRFATLGGV-FGAPLHLLQEINRIGKRVALELKLVSVAS------- 102 (148) Q Consensus 34 ~~~LsD~ELLallL~~g~~---~~~~~~lA~~lL~~fGsL~~l-l~as~~eL~~i~GIG~aka~~l~a~~El~------- 102 (148) ...+++.||.+++=..|.. -...+.+|+.+.+.|+++.+. ...+.++|.+++|||+..|-.++.- .++ T Consensus 72 la~a~~~eL~~~ir~~G~~~~Ka~~l~~~a~~i~~~~~~l~~~~~~~~~~~L~~lpGIG~kTA~~il~~-~~~~~~~~vD 150 (218) T 1pu6_A 72 IAYIEFSKLAECVRPSGFYNQKAKRLIDLSGNILKDFQSFENFKQEVTREWLLDQKGIGKESADAILCY-ACAKEVMVVD 150 (218) T ss_dssp HHHSCHHHHHHHTGGGSCHHHHHHHHHHHHHHHHHHHSSHHHHHHHCCHHHHHTSTTCCHHHHHHHHHH-TTCCSCCCCC T ss_pred HHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCHHHHHHHHHH-HCCCCCCCCC T ss_conf 977999999999998799589999999999999986631037994679999984899669999999999-8799806204 Q ss_pred ---HHHHHHHHHHCCCCCCHHHHHHHHHHHHCC Q ss_conf ---999998764067788989999999998459 Q 537021.9.peg.8 103 ---QRILKANWSIKKFLTPGQPCLISVERHYPM 132 (148) Q Consensus 103 ---rR~~~~~~~~~~~l~s~~~v~~yl~~~l~~ 132 (148) +|+... + .-...+++++..+++..+.. T Consensus 151 ~~v~Rv~~R-l--g~~~~~~~~~~~~~~~~l~~ 180 (218) T 1pu6_A 151 KYSYLFLKK-L--GIEIEDYDELQHFFEKGVQE 180 (218) T ss_dssp HHHHHHHHH-T--TCCCCSHHHHHHHHHHHHHT T ss_pred HHHHHHHHH-H--CCCCCCHHHHHHHHHHHHHH T ss_conf 259999999-0--89889999999999988689 No 13 >1ngn_A Methyl-CPG binding protein MBD4; mismacth repair in methylated DNA, DNA binding protein; 2.10A {Mus musculus} SCOP: a.96.1.2 PDB: 3iho_A Probab=95.56 E-value=0.022 Score=34.78 Aligned_cols=61 Identities=13% Similarity=0.114 Sum_probs=52.4 Q ss_pred HHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC--HHHHHHHHHHHH Q ss_conf 99999997337998988999999997379978985099789973-78988--999999754999 Q 537021.9.peg.8 40 YEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG--KRVALELKLVSV 100 (148) Q Consensus 40 ~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG--~aka~~l~a~~E 100 (148) .-|++.+|..-++...|.....+|+++|.+...+..|+.++|.. |.++| ..||..|+...+ T Consensus 33 ~~LVa~ILsqqT~~~~v~~v~~~l~~~~pt~~~la~a~~~el~~~i~~lG~~~~KAk~I~~~a~ 96 (155) T 1ngn_A 33 KLLIATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTIIKFSD 96 (155) T ss_dssp HHHHHHHHHTTSCHHHHHHHHHHHHHHSCSHHHHHHSCHHHHHHHTGGGSCHHHHHHHHHHHHH T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 9999999987096999999999999988899999873499999997200268799999999971 No 14 >2owo_A DNA ligase; protein/DNA complex, ligase/DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli K12} Probab=95.45 E-value=0.032 Score=33.78 Aligned_cols=59 Identities=20% Similarity=0.184 Sum_probs=46.6 Q ss_pred HHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 999999973379989889999999973799789850997899737898899999975499 Q 537021.9.peg.8 40 YEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 40 ~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) ..|--+|-..|.+..- ...|+.|...|+++..+.+++.++|.+|+|||+..|..|..-+ T Consensus 506 ~~l~r~L~ALGI~~vG-~~~ak~La~~f~~l~~l~~as~eeL~~I~gIG~~~A~si~~ff 564 (671) T 2owo_A 506 TTFARFLYALGIREVG-EATAAGLAAYFGTLEALEAASIEELQKVPDVGIVVASHVHNFF 564 (671) T ss_dssp CCHHHHHHHTTCTTCC-HHHHHHHHHHHCSHHHHHTCCHHHHTTSTTCCHHHHHHHHHHH T ss_pred CCHHHHHHHCCCCCCC-HHHHHHHHHHCCCHHHHHCCCHHHHHCCCCCCHHHHHHHHHHH T ss_conf 9899999864377754-7789999886299999873899999644981699999999997 No 15 >2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A Probab=95.33 E-value=0.0085 Score=37.48 Aligned_cols=43 Identities=19% Similarity=0.294 Sum_probs=32.7 Q ss_pred CCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHH Q ss_conf 998988999999997379978985099789973789889999997 Q 537021.9.peg.8 51 IPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALEL 95 (148) Q Consensus 51 ~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l 95 (148) .|+-.-+ -.+.||.+|||+.++.+||.+||++++|++. .|..| T Consensus 173 I~GIG~k-~~~~Ll~~Fgs~~~I~~As~eeL~~v~g~~k-~A~~I 215 (220) T 2nrt_A 173 VPGIGPI-RKKKLIEHFGSLENIRSASLEEIARVIGSTE-IARRV 215 (220) T ss_dssp STTCCHH-HHHHHHHHHCSHHHHHTSCHHHHHHHHTCHH-HHHHH T ss_pred CCCCCHH-HHHHHHHHCCCHHHHHHCCHHHHHHCCCCHH-HHHHH T ss_conf 3796999-9999999818999997189999986869599-99999 No 16 >2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A* Probab=94.92 E-value=0.039 Score=33.19 Aligned_cols=45 Identities=20% Similarity=0.220 Sum_probs=36.7 Q ss_pred HHHHHHHHHH-CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHH Q ss_conf 9999999973-79978985099789973789889999997549999999 Q 537021.9.peg.8 57 KSIAKALLKR-FATLGGVFGAPLHLLQEINRIGKRVALELKLVSVASQR 104 (148) Q Consensus 57 ~~lA~~lL~~-fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR 104 (148) ...|+.|++. |+|+..+.++++++|.+++|+|+..|. ++.+...| T Consensus 656 ~~~ar~L~~~G~~s~~~i~~~~~~~l~~v~g~g~k~a~---~i~~~~~~ 701 (720) T 2zj8_A 656 RRRARALYNSGFRSIEDISQARPEELLKIEGIGVKTVE---AIFKFLGK 701 (720) T ss_dssp HHHHHHHHTTTCCSHHHHHTCCHHHHHTSTTCCHHHHH---HHHHHHC- T ss_pred HHHHHHHHHCCCCCHHHHHCCCHHHHHHCCCCCHHHHH---HHHHHHCH T ss_conf 99999999879999999974998898527694899999---99974450 No 17 >1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1 PDB: 1orp_A* 1p59_A* Probab=94.75 E-value=0.029 Score=34.01 Aligned_cols=94 Identities=13% Similarity=0.145 Sum_probs=60.5 Q ss_pred HCCHHHHHHHHHHCCCCC---CCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH---------HHH Q ss_conf 189899999997337998---98899999999737997898509978997378988999999754999---------999 Q 537021.9.peg.8 36 ALAYYEILELILFRLIPR---KDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVSV---------ASQ 103 (148) Q Consensus 36 ~LsD~ELLallL~~g~~~---~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~E---------l~r 103 (148) ..+..|+++++-+.|..+ .+.+..|+.+.++||| .+-.+.++|.+++|||+..|..+.+..- =.. T Consensus 70 ~a~~~el~~~i~~~g~y~~ka~~i~~~a~~i~~~~~g---~vP~~~~~L~~LpGVG~kTA~~il~~a~~~p~~~VDtnv~ 146 (226) T 1orn_A 70 AVPLEELEQDIRSIGLYRNKARNIQKLCAMLIDKYNG---EVPRDRDELMKLPGVGRKTANVVVSVAFGVPAIAVDTHVE 146 (226) T ss_dssp SSCHHHHHHHTGGGSSHHHHHHHHHHHHHHHHHHSTT---SCCSCHHHHTTSTTCCHHHHHHHHHHHHCCCCCCCCHHHH T ss_pred CCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCC---CCCCCHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCHH T ss_conf 3899899898874221999999999999999999299---7987899997487753679999999981688677885556 Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHCCC Q ss_conf 999987640677889899999999984597 Q 537021.9.peg.8 104 RILKANWSIKKFLTPGQPCLISVERHYPMK 133 (148) Q Consensus 104 R~~~~~~~~~~~l~s~~~v~~yl~~~l~~~ 133 (148) |+.. ++.--..-.++..+...++..+... T Consensus 147 RV~~-Rlg~~~~~~~~~~~~~~l~~~~p~~ 175 (226) T 1orn_A 147 RVSK-RLGFCRWDDSVLEVEKTLMKIIPKE 175 (226) T ss_dssp HHHH-HHTSSCTTCCHHHHHHHHHHHSCGG T ss_pred HHHH-HHCCCCCCCCHHHHHHHHHHHCCCC T ss_conf 8998-8286665540367899999838653 No 18 >1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A 1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A* 1kg7_A 1kqj_A Probab=94.70 E-value=0.054 Score=32.30 Aligned_cols=59 Identities=12% Similarity=0.067 Sum_probs=36.1 Q ss_pred HCCHHHHHHHHHHCCCCCC--CHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH Q ss_conf 1898999999973379989--8899999999737997898509978997378988999999754 Q 537021.9.peg.8 36 ALAYYEILELILFRLIPRK--DTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKL 97 (148) Q Consensus 36 ~LsD~ELLallL~~g~~~~--~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a 97 (148) ..+..|+.+++=..|..++ +.+.+|+.++..|+| -+-.+.++|.+++|||+..|..+++ T Consensus 67 ~a~~~el~~~i~~~gy~~ka~~l~~~a~~i~~~~~g---~~p~~~~~L~~LpGVG~kTA~~il~ 127 (225) T 1kg2_A 67 NAPLDEVLHLWTGLGYYARARNLHKAAQQVATLHGG---KFPETFEEVAALPGVGRSTAGAILS 127 (225) T ss_dssp HSCHHHHHHHHTTSCCTHHHHHHHHHHHHHHHHSTT---SCCCSHHHHHTSTTCCHHHHHHHHH T ss_pred HCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCC---CCCCHHHHHHHCCCCCHHHHHHHHH T ss_conf 228999999986167327799999999999987079---9974299997589874789999999 No 19 >1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} SCOP: a.96.1.2 Probab=94.25 E-value=0.03 Score=33.95 Aligned_cols=66 Identities=20% Similarity=0.326 Sum_probs=57.3 Q ss_pred HHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC--HHHHHHHHHHHHHHHH Q ss_conf 899999997337998988999999997379978985099789973-78988--9999997549999999 Q 537021.9.peg.8 39 YYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG--KRVALELKLVSVASQR 104 (148) Q Consensus 39 D~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG--~aka~~l~a~~El~rR 104 (148) -.-|++.+|..-|+...|.....+|+++|++...+..|+.+++.+ |+|+| ..||..|+.+...... T Consensus 36 ~~vlv~~iLsqqT~~~~v~~~~~~l~~~~pt~~~la~a~~~el~~~i~~~G~~~~KA~~l~~~a~~i~~ 104 (221) T 1kea_A 36 YVILITEILLRRTTAGHVKKIYDKFFVKYKCFEDILKTPKSEIAKDIKEIGLSNQRAEQLKELARVVIN 104 (221) T ss_dssp HHHHHHHHHTTTSCHHHHHHHHHHHHHHCCSHHHHHHSCHHHHHHHTGGGSCHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH T ss_conf 999999999821959999999999999788999998299999999999878999999999999999988 No 20 >2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1 Probab=93.83 E-value=0.038 Score=33.25 Aligned_cols=89 Identities=9% Similarity=-0.009 Sum_probs=52.8 Q ss_pred CHHHHHHHHHHCCCC---CCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHH----------HH Q ss_conf 989999999733799---89889999999973799789850997899737898899999975499999----------99 Q 537021.9.peg.8 38 AYYEILELILFRLIP---RKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVSVAS----------QR 104 (148) Q Consensus 38 sD~ELLallL~~g~~---~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~El~----------rR 104 (148) +..||.+++=+.|.. -...+.+|+.+.++||| -+--+.++|.++||||+..|.-+.+. ..+ +| T Consensus 68 ~~~~l~~~i~~~G~y~~Ka~~l~~~a~~i~~~~~g---~~p~~~~~L~~LpGVG~kTA~~il~~-a~~~~~~~VDtnv~R 143 (211) T 2abk_A 68 GVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNG---EVPEDRAALEALPGVGRKTANVVLNT-AFGWPTIAVDTHIFR 143 (211) T ss_dssp HHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHTTT---SCCSCHHHHHHSTTCCHHHHHHHHHH-HHCCCCCCCCHHHHH T ss_pred CHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCC---CCCCCHHHHHHCCCCCHHHHHHHHHH-HHCCCCCCCCCCHHH T ss_conf 99999999986217999999999999999998489---99832999871788736999999998-735886214622778 Q ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHCC Q ss_conf 9998764067788989999999998459 Q 537021.9.peg.8 105 ILKANWSIKKFLTPGQPCLISVERHYPM 132 (148) Q Consensus 105 ~~~~~~~~~~~l~s~~~v~~yl~~~l~~ 132 (148) ++.- ..- ..-.++.++...+...+.. T Consensus 144 v~~R-~g~-~~~~~~~~~~~~~~~~~p~ 169 (211) T 2abk_A 144 VCNR-TQF-APGKNVEQVEEKLLKVVPA 169 (211) T ss_dssp HHHH-HCS-SCCSSHHHHHHHHHHHSCG T ss_pred HHHH-HCC-CCCCCHHHHHHHHHHCCCC T ss_conf 9998-576-7899889999998721760 No 21 >1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A 1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A* 1kg7_A 1kqj_A Probab=93.64 E-value=0.12 Score=30.10 Aligned_cols=73 Identities=19% Similarity=0.281 Sum_probs=55.1 Q ss_pred HCCHHHC------C-HHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC-HHHHHHHHHHHHH Q ss_conf 2392218------9-899999997337998988999999997379978985099789973-78988-9999997549999 Q 537021.9.peg.8 31 QKGENAL------A-YYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG-KRVALELKLVSVA 101 (148) Q Consensus 31 ~~G~~~L------s-D~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG-~aka~~l~a~~El 101 (148) .+|-..| + -.-|++.+|..-|+...|.....+|+++|.+...+..|+.+++.+ |+|+| ..++.. +.++ T Consensus 16 ~~~~~~lPWr~~~~p~~vlV~~iLsqqT~~~~v~~~~~~l~~~~~t~~~la~a~~~el~~~i~~~gy~~ka~~---l~~~ 92 (225) T 1kg2_A 16 KYGRKTLPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLGYYARARN---LHKA 92 (225) T ss_dssp HHCCCCSGGGSSCCHHHHHHHHHHHTSSCHHHHHHHHHHHHHHCSSHHHHHHSCHHHHHHHHTTSCCTHHHHH---HHHH T ss_pred HCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHCCHHHHHHHHHCCCCHHHHHH---HHHH T ss_conf 8299879999999869999999997328599999999999998789999972289999999861673277999---9999 Q ss_pred HHHHH Q ss_conf 99999 Q 537021.9.peg.8 102 SQRIL 106 (148) Q Consensus 102 ~rR~~ 106 (148) ++.+. T Consensus 93 a~~i~ 97 (225) T 1kg2_A 93 AQQVA 97 (225) T ss_dssp HHHHH T ss_pred HHHHH T ss_conf 99999 No 22 >3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A* Probab=93.57 E-value=0.062 Score=31.89 Aligned_cols=50 Identities=14% Similarity=0.258 Sum_probs=27.7 Q ss_pred HHHH-HHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC Q ss_conf 8999-99997337998988999999997379978985099789973-78988 Q 537021.9.peg.8 39 YYEI-LELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG 88 (148) Q Consensus 39 D~EL-LallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG 88 (148) -|++ ++-+|-.-|+...|.+.-.+++++|+++..|..|+.+|+.+ ++|+| T Consensus 39 py~vlvseil~qqT~~~~v~~~~~~~~~~~pt~~~la~a~~~ev~~~~~~lG 90 (369) T 3fsp_A 39 PYKVWVSEVMLQQTRVETVIPYFEQFIDRFPTLEALADADEDEVLKAWEGLG 90 (369) T ss_dssp HHHHHHHHHHTTTSCHHHHHHHHHHHHHHCCSHHHHHTSCHHHHHHTTTTSS T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHCC T ss_conf 7999999998610878899999999999778999997789999999987468 No 23 >3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices, helix-hairpin-helix motif, iron-sulfur cluste hydrolase; 2.30A {Homo sapiens} Probab=93.57 E-value=0.15 Score=29.43 Aligned_cols=47 Identities=11% Similarity=0.208 Sum_probs=37.0 Q ss_pred HHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC Q ss_conf 999997337998988999999997379978985099789973-78988 Q 537021.9.peg.8 42 ILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG 88 (148) Q Consensus 42 LLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG 88 (148) |++-++-.-|+-..|.+.-.+++++|.++..|..|+.+++.+ +.|+| T Consensus 53 lvseimlqQT~~~~V~~~~~~~~~r~Pt~~~LA~A~~~ev~~~~~glG 100 (287) T 3n5n_X 53 WVSEVMLQQTQVATVINYYTGWMQKWPTLQDLASASLEEVNQLWAGLG 100 (287) T ss_dssp HHHHHHHHTSCHHHHHHHHHHHHHHCCSHHHHHTSCHHHHHHHHTTSS T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHCC T ss_conf 999999811869999999999999877999997679999999998563 No 24 >3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A* Probab=93.07 E-value=0.21 Score=28.45 Aligned_cols=61 Identities=8% Similarity=-0.007 Sum_probs=45.9 Q ss_pred HHCCHHHHHHHHHHCCCCC--CCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 2189899999997337998--988999999997379978985099789973789889999997549 Q 537021.9.peg.8 35 NALAYYEILELILFRLIPR--KDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 35 ~~LsD~ELLallL~~g~~~--~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~ 98 (148) ...+..|+++++=+.|..+ .+....|+.+..+||| -+-.+.++|.+++|||+..|.-|.+. T Consensus 75 a~a~~~ev~~~~~~lGyy~ra~~l~~~a~~i~~~~~g---~~P~~~~~L~~LpGVG~~TA~ail~~ 137 (369) T 3fsp_A 75 ADADEDEVLKAWEGLGYYSRVRNLHAAVKEVKTRYGG---KVPDDPDEFSRLKGVGPYTVGAVLSL 137 (369) T ss_dssp HTSCHHHHHHTTTTSSCTHHHHHHHHHHHHHHHHHTT---CCCCSHHHHHTSTTCCHHHHHHHHHH T ss_pred HCCCHHHHHHHHHHCCHHHHHHHHHHCCCCEEECCCC---CCCCCHHHHHHCCCHHHHHHHHHHHH T ss_conf 7789999999987468899999998521227600489---99987999852422588999999998 No 25 >1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1 PDB: 1orp_A* 1p59_A* Probab=92.97 E-value=0.21 Score=28.53 Aligned_cols=64 Identities=17% Similarity=0.286 Sum_probs=52.6 Q ss_pred HHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCCH--HHHHHHHHHHHHH Q ss_conf 899999997337998988999999997379978985099789973-789889--9999975499999 Q 537021.9.peg.8 39 YYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIGK--RVALELKLVSVAS 102 (148) Q Consensus 39 D~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG~--aka~~l~a~~El~ 102 (148) -.-|++.+|..-|+...|.....+++++|++...+..++.+|+.. +.|+|- .||..|+.+.+.. T Consensus 34 ~~vLVs~iLsqqT~~~~v~~~~~~l~~~~p~~~~la~a~~~el~~~i~~~g~y~~ka~~i~~~a~~i 100 (226) T 1orn_A 34 FELLIAVVLSAQCTDALVNKVTKRLFEKYRTPHDYIAVPLEELEQDIRSIGLYRNKARNIQKLCAML 100 (226) T ss_dssp HHHHHHHHHHTTSCHHHHHHHHHHHHHHCCSHHHHHSSCHHHHHHHTGGGSSHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHH T ss_conf 9999999998408599999999999871399999863899899898874221999999999999999 No 26 >2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1 Probab=92.96 E-value=0.1 Score=30.45 Aligned_cols=64 Identities=11% Similarity=0.070 Sum_probs=54.1 Q ss_pred HHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCCH--HHHHHHHHHHHHH Q ss_conf 899999997337998988999999997379978985099789973-789889--9999975499999 Q 537021.9.peg.8 39 YYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIGK--RVALELKLVSVAS 102 (148) Q Consensus 39 D~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG~--aka~~l~a~~El~ 102 (148) -.-|++.+|..-++..+|...-.+|.++|++...+..++.+++.+ |+|+|- .||..|+.+.... T Consensus 30 ~~ili~~iLsqqT~~~~v~~~~~~L~~~~~t~~~la~a~~~~l~~~i~~~G~y~~Ka~~l~~~a~~i 96 (211) T 2abk_A 30 FELLIAVLLSAQATDVSVNKATAKLYPVANTPAAMLELGVEGVKTYIKTIGLYNSKAENIIKTCRIL 96 (211) T ss_dssp HHHHHHHHHTTTSCHHHHHHHHHHHTTTCCSHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHH T ss_conf 9999999997408689999999999987589999862799999999986217999999999999999 No 27 >3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG, 8OXOG, glycosylase, cytosine, hydrolase,lyase/DNA complex; HET: 8OG; 1.73A {Clostridium acetobutylicum} PDB: 3i0x_A* 3f10_A* 3f0z_A Probab=91.57 E-value=0.25 Score=27.95 Aligned_cols=90 Identities=9% Similarity=-0.061 Sum_probs=53.8 Q ss_pred CCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCH----HHHHHCCCCCHHHHHHHHHHHHHH---------- Q ss_conf 898999999973379989889999999973799789850997----899737898899999975499999---------- Q 537021.9.peg.8 37 LAYYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPL----HLLQEINRIGKRVALELKLVSVAS---------- 102 (148) Q Consensus 37 LsD~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~----~eL~~i~GIG~aka~~l~a~~El~---------- 102 (148) +++.+|-+ ++.|.+-+-...+|+.+.+.-.++..+...+. ++|++++|||+..|-.+. .+.++ T Consensus 167 ~~~e~lr~--~g~g~Ra~yI~~~A~~i~~g~~~l~~l~~~~~~e~~~~L~~i~GIG~wtAd~il-Lf~lg~~d~fPvD~~ 243 (290) T 3i0w_A 167 FTEKDFEE--CTAGFRAKYLKDTVDRIYNGELNLEYIKSLNDNECHEELKKFMGVGPQVADCIM-LFSMQKYSAFPVDTW 243 (290) T ss_dssp CCHHHHHH--TTCGGGHHHHHHHHHHHHTTSSCHHHHHHSCHHHHHHHHTTSTTCCHHHHHHHH-HHHHCCTTCCCCCHH T ss_pred CCHHHHHH--CCHHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHH-HHHCCCCCEEEEEHH T ss_conf 99999986--275989999999999884385228887437706799999867994889999999-996799996763499 Q ss_pred -HHHHHHHHHHCCCCCCHHHHHHHHHHHHC Q ss_conf -99999876406778898999999999845 Q 537021.9.peg.8 103 -QRILKANWSIKKFLTPGQPCLISVERHYP 131 (148) Q Consensus 103 -rR~~~~~~~~~~~l~s~~~v~~yl~~~l~ 131 (148) +|....-- ...-.++.++.+++....+ T Consensus 244 i~r~~~~~y--~~~~~~~~~~~~~~~e~~g 271 (290) T 3i0w_A 244 VKKAMMSLY--VAPDVSLKKIRDFGREKFG 271 (290) T ss_dssp HHHHHHHHT--SCTTCCHHHHHHHHHHHHG T ss_pred HHHHHHHHC--CCCCCCHHHHHHHHHHHCC T ss_conf 999999965--9999999999999998632 No 28 >1vq8_Y 50S ribosomal protein L32E; 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} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ... Probab=91.07 E-value=0.033 Score=33.66 Aligned_cols=44 Identities=25% Similarity=0.303 Sum_probs=36.7 Q ss_pred HHHHHHHH-CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHH Q ss_conf 99999973-799789850997899737898899999975499999 Q 537021.9.peg.8 59 IAKALLKR-FATLGGVFGAPLHLLQEINRIGKRVALELKLVSVAS 102 (148) Q Consensus 59 lA~~lL~~-fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~El~ 102 (148) .|+.|++. |.++..++++++++|.+++|||+..|..|....+-. T Consensus 27 ~~~~l~~~g~~~~~~i~~~~~~~L~~~~g~g~k~a~~i~~~i~~~ 71 (241) T 1vq8_Y 27 KAESLREAGFESVEDVRGADQSALADVSGIGNALAARIKADVGGL 71 (241) T ss_dssp --------------------------------------------- T ss_pred HHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHC T ss_conf 999999768999999986999999746895799999999998650 No 29 >1m3q_A 8-oxoguanine DNA glycosylase; DNA repair, END product, HOGG, 8-aminoguanine, RE-ligation, hydrolase/DNA complex; HET: DRZ ANG; 1.90A {Homo sapiens} SCOP: a.96.1.3 d.129.1.2 PDB: 1m3h_A* 1n39_A* 1lwy_A* 1hu0_A* 1lwv_A* 1lww_A* 1fn7_A* 1n3a_A* 1n3c_A* 1ebm_A* 1ko9_A 2noe_A* 2noh_A* 2nol_A* 3ktu_A* 1yqk_A 2noz_A* 2nof_A* 1yqr_A* 1yql_A* ... Probab=89.78 E-value=0.21 Score=28.48 Aligned_cols=55 Identities=16% Similarity=0.094 Sum_probs=38.1 Q ss_pred HHCCCCCCCHHHHHHHHHHHCCCHH---HHHCCCH----HHHHHCCCCCHHHHHHHHHHHHHH Q ss_conf 7337998988999999997379978---9850997----899737898899999975499999 Q 537021.9.peg.8 47 LFRLIPRKDTKSIAKALLKRFATLG---GVFGAPL----HLLQEINRIGKRVALELKLVSVAS 102 (148) Q Consensus 47 L~~g~~~~~~~~lA~~lL~~fGsL~---~ll~as~----~eL~~i~GIG~aka~~l~a~~El~ 102 (148) ++.|.+......+|+.+++..++.. .+.+.+. ++|++++|||+..|-.+. .+.++ T Consensus 191 ~g~g~Ra~~i~~~a~~~~~~~~g~~~l~~l~~~~~~e~~~~L~~l~GIG~wtAd~il-Lf~lg 252 (317) T 1m3q_A 191 LGLGYRARYVSASARAILEEQGGLAWLQQLRESSYEEAHKALCILPGVGTKVADCIC-LMALD 252 (317) T ss_dssp TTCTTHHHHHHHHHHHHHHTSCSHHHHHHTTTSCHHHHHHHHTTSTTCCHHHHHHHH-HHHSC T ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHCCHHHHHHHHHHCCCCCHHHHHHHH-HHHCC T ss_conf 263689999999999998534440469988535579999999854894889999999-98579 No 30 >1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1 Probab=89.44 E-value=0.22 Score=28.39 Aligned_cols=41 Identities=27% Similarity=0.180 Sum_probs=34.3 Q ss_pred HHHHHHH-HCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 9999997-3799789850997899737898899999975499 Q 537021.9.peg.8 59 IAKALLK-RFATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 59 lA~~lL~-~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) .++.|-+ .|.++..+..+++++|..|+|||+.+|..|..+. T Consensus 37 ~i~KL~~aG~~Tv~~Ia~~t~~eL~~i~Gi~e~~A~KIi~aa 78 (114) T 1b22_A 37 DVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEA 78 (114) T ss_dssp HHHHHHTTCCSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHH T ss_pred HHHHHHHCCCCHHHHHHHCCHHHHHHCCCCCHHHHHHHHHHH T ss_conf 999999969744999984899999766698899999999999 No 31 >2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, structural genomics, PSI-2, protein structure initiative; 2.55A {Bacillus halodurans} Probab=89.32 E-value=0.7 Score=25.11 Aligned_cols=43 Identities=16% Similarity=0.137 Sum_probs=26.5 Q ss_pred CCHHHHHHHHHHHCCCHHHHHCCCHH----HHHHCCCCCHHHHHHHH Q ss_conf 98899999999737997898509978----99737898899999975 Q 537021.9.peg.8 54 KDTKSIAKALLKRFATLGGVFGAPLH----LLQEINRIGKRVALELK 96 (148) Q Consensus 54 ~~~~~lA~~lL~~fGsL~~ll~as~~----eL~~i~GIG~aka~~l~ 96 (148) .-...+|+.+...-.++..+.+.+.+ +|++|+|||+..|-.+. T Consensus 109 ~~i~~la~~~~~g~~~~~~l~~~~~~e~~~~L~~ikGIGpWTA~~il 155 (233) T 2h56_A 109 EYIRHVCEHVESGRLDFTELEGAEATTVIEKLTAIKGIGQWTAEMFM 155 (233) T ss_dssp HHHHHHHHHHHTTSSCHHHHTTSCHHHHHHHHHTSTTCCHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHH T ss_conf 99999999998177520010126888999998806884878999999 No 32 >3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices, helix-hairpin-helix motif, iron-sulfur cluste hydrolase; 2.30A {Homo sapiens} Probab=89.05 E-value=0.19 Score=28.82 Aligned_cols=62 Identities=11% Similarity=0.039 Sum_probs=43.3 Q ss_pred HHHCCHHHHHHHHHHCCCC--CCCHHHHHHHHHHHCCCHHHHHCCCHHHH-HHCCCCCHHHHHHHHHH Q ss_conf 2218989999999733799--89889999999973799789850997899-73789889999997549 Q 537021.9.peg.8 34 ENALAYYEILELILFRLIP--RKDTKSIAKALLKRFATLGGVFGAPLHLL-QEINRIGKRVALELKLV 98 (148) Q Consensus 34 ~~~LsD~ELLallL~~g~~--~~~~~~lA~~lL~~fGsL~~ll~as~~eL-~~i~GIG~aka~~l~a~ 98 (148) ....+..|+++++=+.|.. ..+-...|+.++.+||+- + --+..++ ..++|||+..|.-|.+. T Consensus 84 LA~A~~~ev~~~~~glGyy~ra~~l~~~a~~i~~~~~g~--~-p~~~~e~l~~LPGVG~kTA~aIl~~ 148 (287) T 3n5n_X 84 LASASLEEVNQLWAGLGYYSRGRRLQEGARKVVEELGGH--M-PRTAETLQQLLPGVGRYTAGAIASI 148 (287) T ss_dssp HHTSCHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHSTTC--C-CSSHHHHHHHSTTCCHHHHHHHHHH T ss_pred HHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC--C-CCCHHHHCCCCCCCCHHHHHHHHHH T ss_conf 976799999999985638999999999998888984798--8-7621544046887568999999998 No 33 >3fhg_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, ssogg, DNA damage, DNA repair, glycosidase, hydrolase; 1.90A {Sulfolobus solfataricus} Probab=88.77 E-value=0.65 Score=25.30 Aligned_cols=64 Identities=13% Similarity=-0.040 Sum_probs=37.7 Q ss_pred HHHCCHHHHHHHHHHCCCCCC-----CHHHHHHHHHHHCC-CHHHHHCCCH----HHHHHCCCCCHHHHHHHHH Q ss_conf 221898999999973379989-----88999999997379-9789850997----8997378988999999754 Q 537021.9.peg.8 34 ENALAYYEILELILFRLIPRK-----DTKSIAKALLKRFA-TLGGVFGAPL----HLLQEINRIGKRVALELKL 97 (148) Q Consensus 34 ~~~LsD~ELLallL~~g~~~~-----~~~~lA~~lL~~fG-sL~~ll~as~----~eL~~i~GIG~aka~~l~a 97 (148) ....+..||.+.+=..|.... .....|+.+.+.++ .+..+...+. ++|++++|||+..|..++. T Consensus 62 ~~~~~~~~l~~~lk~~g~~f~~~ka~~i~~~a~~i~~~~~~~~~~l~~~~~~e~~~~L~~l~GIG~ktA~~~L~ 135 (207) T 3fhg_A 62 IYYANEEEIRNILKSCKYRFYNLKAKYIIMAREKVYGRLKEEIKPLADEDQQLARERLLNIKGIGMQEASHFLR 135 (207) T ss_dssp GGTCCHHHHHHHHHHTTCTTHHHHHHHHHHHHHHHTTTHHHHHHHHHHHCHHHHHHHHTTSTTCCHHHHHHHHH T ss_pred HHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHCCHHHHHHHHHHCCCCCHHHHHHHHH T ss_conf 85499999999999837606888999999999999987378406666178799999999878872999999999 No 34 >1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} SCOP: a.60.3.1 PDB: 3ihq_B Probab=87.28 E-value=1.1 Score=23.83 Aligned_cols=42 Identities=17% Similarity=0.171 Sum_probs=34.6 Q ss_pred HHHHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH Q ss_conf 99999973--7997898509978997378988999999754999 Q 537021.9.peg.8 59 IAKALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVSV 100 (148) Q Consensus 59 lA~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~E 100 (148) -+.+.|.+ .-.++.|...+.++|.+++|+|+....+|+.... T Consensus 19 R~~N~L~~~~I~tv~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~ 62 (73) T 1z3e_B 19 RSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLE 62 (73) T ss_dssp HHHHHHHHTTCCBHHHHHTSCHHHHHTSTTCCHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHH T ss_conf 99999989489679999868999997478986605999999999 No 35 >1u9l_A Transcription elongation protein NUSA; escherichia coli NUSA, phage lambda protein N, regulation of RNA binding, transcription antitermination, X-RAY crystallography; 1.90A {Escherichia coli} SCOP: a.60.4.2 PDB: 1wcl_A Probab=85.75 E-value=1.3 Score=23.40 Aligned_cols=40 Identities=25% Similarity=0.345 Sum_probs=34.4 Q ss_pred HHHHHHHH-HCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH Q ss_conf 99999997-37997898509978997378988999999754 Q 537021.9.peg.8 58 SIAKALLK-RFATLGGVFGAPLHLLQEINRIGKRVALELKL 97 (148) Q Consensus 58 ~lA~~lL~-~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a 97 (148) .+|+-|.. .|.|+..+..++.++|..|.|+-.-.+..|+. T Consensus 17 ~iA~lLv~EGF~siEeIAy~~~~eL~~IegfDee~a~eL~~ 57 (70) T 1u9l_A 17 DFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRE 57 (70) T ss_dssp HHHHHHHHTTCCCHHHHHHSCHHHHTTSTTCCHHHHHHHHH T ss_pred HHHHHHHHHCCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH T ss_conf 99999998655979998759999997631558999999999 No 36 >3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis} Probab=84.61 E-value=1.2 Score=23.53 Aligned_cols=41 Identities=17% Similarity=0.168 Sum_probs=34.0 Q ss_pred HHHHHHHC--CCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH Q ss_conf 99999737--997898509978997378988999999754999 Q 537021.9.peg.8 60 AKALLKRF--ATLGGVFGAPLHLLQEINRIGKRVALELKLVSV 100 (148) Q Consensus 60 A~~lL~~f--GsL~~ll~as~~eL~~i~GIG~aka~~l~a~~E 100 (148) +.+.|.+. -.++.|...+.++|.+++|+|.....+|+.+.. T Consensus 27 ~~n~L~~~gI~tv~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~ 69 (79) T 3gfk_B 27 SYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLE 69 (79) T ss_dssp HHHHHHHTTCCBHHHHTTCCHHHHTTSTTCHHHHHHHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHH T ss_conf 9999989289679999868899997578986737999999999 No 37 >3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} PDB: 1lb2_B* 1xs9_D Probab=84.33 E-value=1.8 Score=22.45 Aligned_cols=40 Identities=15% Similarity=0.116 Sum_probs=32.9 Q ss_pred HHHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 9999973--799789850997899737898899999975499 Q 537021.9.peg.8 60 AKALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 60 A~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) |.+.|.+ +..++.|+..+.++|.+++|+|......|+-.. T Consensus 23 ~~N~Lk~~gI~tvgdLv~~se~dLl~i~NfG~kSl~EI~~~L 64 (86) T 3k4g_A 23 SANCLXAEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVL 64 (86) T ss_dssp HHHHHHHTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHH T ss_pred HHHHHCCCCCCCHHHHHHCCHHHHCCCCCCCHHHHHHHHHHH T ss_conf 998725543937999984899998178898772699999999 No 38 >3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3kzi_U* 3a0b_U* 3a0h_U* Probab=84.22 E-value=0.14 Score=29.57 Aligned_cols=34 Identities=6% Similarity=-0.032 Sum_probs=25.0 Q ss_pred HHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH Q ss_conf 9973799789850997899737898899999975 Q 537021.9.peg.8 63 LLKRFATLGGVFGAPLHLLQEINRIGKRVALELK 96 (148) Q Consensus 63 lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~ 96 (148) +-..+|.--.|-.|+..+|++++|||++.|..|. T Consensus 17 ~~~~~~~kidlN~As~~eL~~lpGig~~~A~~Iv 50 (104) T 3bz1_U 17 LGTAYGEKIDLNNTNIAAFIQYRGLYPTLAKLIV 50 (104) T ss_dssp TTSSBTTBEETTSSCGGGGGGSTTTTHHHHHHHH T ss_pred HHCCCCCCEECCCCCHHHHHHCCCCCHHHHHHHH T ss_conf 5304688357840899999658997999999999 No 39 >3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A* Probab=83.87 E-value=2.4 Score=21.69 Aligned_cols=46 Identities=24% Similarity=0.065 Sum_probs=36.6 Q ss_pred CCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 8988999999997379978985099789973789889999997549 Q 537021.9.peg.8 53 RKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 53 ~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~ 98 (148) +-++.++.+--=..|-++..|+.+++.+|++++||+..+|..|... T Consensus 90 gi~~~~i~kL~~aG~~t~~~i~~~~~~~L~~~~g~s~~~a~ki~~~ 135 (400) T 3lda_A 90 GITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNE 135 (400) T ss_dssp TCCHHHHHHHHHTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHH T ss_pred CCCHHHHHHHHHCCCCCHHHHHCCCHHHHHHHCCCCHHHHHHHHHH T ss_conf 9998999999986985199997179999987239999999999999 No 40 >3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3kzi_U* 3a0b_U* 3a0h_U* Probab=83.20 E-value=0.67 Score=25.24 Aligned_cols=36 Identities=19% Similarity=0.182 Sum_probs=29.0 Q ss_pred HHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 999999997379978985099789973789889999997549 Q 537021.9.peg.8 57 KSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 57 ~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~ 98 (148) ..+|+++++ +|.+. +.+||.+|+|||+.+...|+.- T Consensus 43 ~~~A~~Iv~-~gpf~-----s~~dL~~V~Gig~~~~e~ik~y 78 (104) T 3bz1_U 43 PTLAKLIVK-NAPYE-----SVEDVLNIPGLTERQKQILREN 78 (104) T ss_dssp HHHHHHHHH-SCCCS-----SGGGGGGCTTCCHHHHHHHHHH T ss_pred HHHHHHHHH-CCCCC-----CHHHHHCCCCCCHHHHHHHHHH T ss_conf 999999997-49979-----8999963899899999999986 No 41 >1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2 Probab=82.69 E-value=2.4 Score=21.68 Aligned_cols=104 Identities=17% Similarity=0.214 Sum_probs=64.4 Q ss_pred HCCHHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC--CHH-HHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 23922189899999997337998988999999997379--978-985099789973789889999997549999999999 Q 537021.9.peg.8 31 QKGENALAYYEILELILFRLIPRKDTKSIAKALLKRFA--TLG-GVFGAPLHLLQEINRIGKRVALELKLVSVASQRILK 107 (148) Q Consensus 31 ~~G~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~~fG--sL~-~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~ 107 (148) -||-.+..+.++...++. .++--. -.|-.+|..+. .|. .+.+-+...|.++||||+..|-+|. .||--++.. T Consensus 59 LyGF~~~~Er~lF~~Li~--V~GIGp-K~Al~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAerIi--lELk~K~~~ 133 (191) T 1ixr_A 59 LYGFPDEENLALFELLLS--VSGVGP-KVALALLSALPPRLLARALLEGDARLLTSASGVGRRLAERIA--LELKGKVPP 133 (191) T ss_dssp EEEESSHHHHHHHHHHHS--SSCCCH-HHHHHHHHHSCHHHHHHHHHTTCHHHHTTSTTCCHHHHHHHH--HHHTTTSCS T ss_pred EECCCCHHHHHHHHHHHC--CCCCCH-HHHHHHHHCCCHHHHHHHHHCCCHHHHHCCCCCCHHHHHHHH--HHHHHHCCC T ss_conf 771182899999999857--688377-889888725999999999983999995018884688999999--999864342 Q ss_pred HHHHHCCC-CCCHHHHHHHHHHHHCCCCEEEEEE Q ss_conf 87640677-8898999999999845978000252 Q 537021.9.peg.8 108 ANWSIKKF-LTPGQPCLISVERHYPMKNANNFAY 140 (148) Q Consensus 108 ~~~~~~~~-l~s~~~v~~yl~~~l~~~~~E~F~v 140 (148) ........ -+..+++..=|. .+|+.+.|.-.+ T Consensus 134 ~~~~~~~~~~~~~~ea~~AL~-~LGy~~~ea~~a 166 (191) T 1ixr_A 134 HLLAGEKVESEAAEEAVMALA-ALGFKEAQARAV 166 (191) T ss_dssp CC-------------------------------- T ss_pred CCCCCCCCCCCCHHHHHHHHH-HCCCCHHHHHHH T ss_conf 100112334556899999999-859999999999 No 42 >2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7 Probab=82.38 E-value=1.4 Score=23.10 Aligned_cols=19 Identities=11% Similarity=0.156 Sum_probs=9.3 Q ss_pred CHHHHHHCCCCCHHHHHHH Q ss_conf 9789973789889999997 Q 537021.9.peg.8 77 PLHLLQEINRIGKRVALEL 95 (148) Q Consensus 77 s~~eL~~i~GIG~aka~~l 95 (148) +.+||.+|+|||+.+...| T Consensus 68 sledL~~v~Gi~~k~~eki 86 (98) T 2edu_A 68 QVEDLERVEGITGKQMESF 86 (98) T ss_dssp SGGGGGGSTTCCHHHHHHH T ss_pred CHHHHHCCCCCCHHHHHHH T ss_conf 8999844899899999999 No 43 >2e1f_A Werner syndrome ATP-dependent helicase; HRDC domain, hydrolase; 2.00A {Homo sapiens} SCOP: a.60.8.1 PDB: 2e1e_A Probab=81.79 E-value=2.6 Score=21.42 Aligned_cols=49 Identities=8% Similarity=0.099 Sum_probs=34.9 Q ss_pred HHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 7898509978997378988999999754999999999987640677889 Q 537021.9.peg.8 70 LGGVFGAPLHLLQEINRIGKRVALELKLVSVASQRILKANWSIKKFLTP 118 (148) Q Consensus 70 L~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~~~~~~~~~l~s 118 (148) +....=.+.++|..|+|||+.++...--..++.+.+...+.-....+.. T Consensus 48 ia~~~P~t~~eL~~I~G~g~~k~~ryG~~l~~I~~~~~~~~~~~~~~~~ 96 (103) T 2e1f_A 48 MAKMRPTTVENVKRIDGVSEGKAAMLAPLLEVIKHFCQTNSVQTDLFSS 96 (103) T ss_dssp HHHHCCCSHHHHTTSTTCCHHHHHHTHHHHHHHHHHHHHTTCCCCCCCC T ss_pred HHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC T ss_conf 9987899999993789989999999989999999999984998765677 No 44 >1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus} Probab=81.65 E-value=0.31 Score=27.38 Aligned_cols=31 Identities=3% Similarity=-0.032 Sum_probs=25.6 Q ss_pred HCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH Q ss_conf 3799789850997899737898899999975 Q 537021.9.peg.8 66 RFATLGGVFGAPLHLLQEINRIGKRVALELK 96 (148) Q Consensus 66 ~fGsL~~ll~as~~eL~~i~GIG~aka~~l~ 96 (148) .+|.--++-.|+..+|++++|||+++|..|. T Consensus 50 ~~g~kidlN~A~~~eL~~lpGig~~~A~~Iv 80 (134) T 1s5l_U 50 AYGEKIDLNNTNIAAFIQYRGLYPTLAKLIV 80 (134) T ss_dssp TSTTSEETTTSCGGGGGGSTTCTHHHHHHHH T ss_pred CCCCEEECCCCCHHHHHHHHHHHHHHHHHHH T ss_conf 3477041640789999771034699999999 No 45 >1d8b_A SGS1 RECQ helicase; five helices, three-helical bundle flanked by two helices, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.60.8.1 Probab=81.41 E-value=2 Score=22.18 Aligned_cols=39 Identities=5% Similarity=0.124 Sum_probs=28.5 Q ss_pred HHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 789850997899737898899999975499999999998 Q 537021.9.peg.8 70 LGGVFGAPLHLLQEINRIGKRVALELKLVSVASQRILKA 108 (148) Q Consensus 70 L~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~~ 108 (148) +....=.+.++|.+|+|||+.++..-..-.....++.++ T Consensus 39 iA~~~P~t~~eL~~I~Gvg~~k~~kY~~F~~~i~~~~~~ 77 (81) T 1d8b_A 39 MAAILPMNDSAFATLGTVEDKYRRRFKYFKATIADLSKK 77 (81) T ss_dssp HHHHCCCSHHHHGGGSCCCHHHHHHGGGTHHHHHHHHHH T ss_pred HHHHCCCCHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 998689999998279999989999999999999999997 No 46 >1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3 Probab=81.08 E-value=0.37 Score=26.90 Aligned_cols=51 Identities=14% Similarity=0.058 Sum_probs=36.0 Q ss_pred CHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCC---CCC--HHHHHHHHH Q ss_conf 978997378988999999754999999999987640677---889--899999999 Q 537021.9.peg.8 77 PLHLLQEINRIGKRVALELKLVSVASQRILKANWSIKKF---LTP--GQPCLISVE 127 (148) Q Consensus 77 s~~eL~~i~GIG~aka~~l~a~~El~rR~~~~~~~~~~~---l~s--~~~v~~yl~ 127 (148) ....|..|+|||+.++..|..-+.-...+..+...+-.. +.. .+.+++||+ T Consensus 22 ~~S~L~~IpGIG~k~ak~Ll~~F~si~~i~~As~eeL~~v~GIg~~~A~~I~~~l~ 77 (78) T 1kft_A 22 NTSSLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIFWSLK 77 (78) T ss_dssp -CCGGGGCTTCSSSHHHHHHHHHSCHHHHHHCCHHHHTTSSSTTSHHHHHHHHHHT T ss_pred CCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHCHHHHHCCCCCCHHHHHHHHHHHC T ss_conf 33826569993299999999992994999883799998079989999999999966 No 47 >2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA binding, oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A Probab=80.39 E-value=2.4 Score=21.70 Aligned_cols=103 Identities=14% Similarity=0.032 Sum_probs=63.1 Q ss_pred HCCHHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC--CHH-HHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 23922189899999997337998988999999997379--978-985099789973789889999997549999999999 Q 537021.9.peg.8 31 QKGENALAYYEILELILFRLIPRKDTKSIAKALLKRFA--TLG-GVFGAPLHLLQEINRIGKRVALELKLVSVASQRILK 107 (148) Q Consensus 31 ~~G~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~~fG--sL~-~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~ 107 (148) -||-....+.++...|+. .++--. -.|-.+|..++ .|. .+.+-+...|+++||||+..|-.|. .||--++.. T Consensus 75 LyGF~~~~Er~lF~~Li~--VsGIGP-K~AL~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAeRIi--lELkdKl~~ 149 (212) T 2ztd_A 75 LYGFPDGETRDLFLTLLS--VSGVGP-RLAMAALAVHDAPALRQVLADGNVAALTRVPGIGKRGAERMV--LELRDKVGV 149 (212) T ss_dssp EEEESSHHHHHHHHHHHT--STTCCH-HHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHH--HHHTTTCC- T ss_pred EECCCCHHHHHHHHHHHH--CCCCCH-HHHHHHHHCCCHHHHHHHHHHCCHHHHHHCCCCCHHHHHHHH--HHHHHHHCC T ss_conf 656599899999999983--489774-678788854999999999980899998517782488899999--999754313 Q ss_pred HHH---HHCCCCCCHHHHHHHHHHHHCCCCEEEEE Q ss_conf 876---40677889899999999984597800025 Q 537021.9.peg.8 108 ANW---SIKKFLTPGQPCLISVERHYPMKNANNFA 139 (148) Q Consensus 108 ~~~---~~~~~l~s~~~v~~yl~~~l~~~~~E~F~ 139 (148) ... .....-+..+++..=|.. |++.+.|.-. T Consensus 150 ~~~~~~~~~~~~~~~~e~~~AL~~-LGy~~~ea~~ 183 (212) T 2ztd_A 150 AATGGALSTNGHAVRSPVVEALVG-LGFAAKQAEE 183 (212) T ss_dssp ------------CCHHHHHHHHHH-TTCCHHHHHH T ss_pred CCCCCCCCCCCCCCHHHHHHHHHH-CCCCHHHHHH T ss_conf 334554345664317899999998-5999899999 No 48 >1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerization motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11 Probab=80.31 E-value=2.7 Score=21.35 Aligned_cols=47 Identities=21% Similarity=0.196 Sum_probs=35.6 Q ss_pred CCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 98988999999997379978985099789973789889999997549 Q 537021.9.peg.8 52 PRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 52 ~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~ 98 (148) |+.+...+.+--=..|.++.+|..+++.+|.++.||+..+|..|..+ T Consensus 41 ~gv~~~~~~kL~~aG~~t~~~l~~~~~~~L~~~~gis~~~a~kii~~ 87 (349) T 1pzn_A 41 PGVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKIIQA 87 (349) T ss_dssp TTCCHHHHHHHHTTTCCSHHHHHTCCHHHHHHHHCCCHHHHHHHHHH T ss_pred CCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 99699999999986997299997089999998649899999999999 No 49 >2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} SCOP: a.60.2.7 Probab=79.71 E-value=1.1 Score=23.83 Aligned_cols=27 Identities=22% Similarity=0.150 Sum_probs=19.2 Q ss_pred HHHCCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 985099789973789889999997549 Q 537021.9.peg.8 72 GVFGAPLHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 72 ~ll~as~~eL~~i~GIG~aka~~l~a~ 98 (148) ++-.||.++|..++|||+..|..|..- T Consensus 20 diN~As~~eL~~lpGig~~~A~~Iv~~ 46 (75) T 2duy_A 20 SLNEASLEELMALPGIGPVLARRIVEG 46 (75) T ss_dssp ETTTCCHHHHTTSTTCCHHHHHHHHHT T ss_pred ECCCCCHHHHHHCCCCCHHHHHHHHHC T ss_conf 071287999977789899999999985 No 50 >3fhf_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, DNA damage, DNA repair, glycosidase, hydrolase; 2.00A {Methanocaldococcus jannaschii} PDB: 3knt_A* Probab=75.31 E-value=4.4 Score=19.94 Aligned_cols=61 Identities=21% Similarity=0.073 Sum_probs=33.0 Q ss_pred HHHCCHHHHHHHHHHCCCC--CC---CHHHHH-----HHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH Q ss_conf 2218989999999733799--89---889999-----9999737997898509978997378988999999754 Q 537021.9.peg.8 34 ENALAYYEILELILFRLIP--RK---DTKSIA-----KALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKL 97 (148) Q Consensus 34 ~~~LsD~ELLallL~~g~~--~~---~~~~lA-----~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a 97 (148) ...++..||-+++=..|.. +. ..+.+| +.+...|++-- ..+.++|+++||||+..|..++. T Consensus 73 ~~~~~~eel~~~ik~~G~~f~~~KAk~I~~~a~~~~~~~l~~~~~~~~---~~~~~~L~~l~GIG~ktA~~~L~ 143 (214) T 3fhf_A 73 FLTLPREELEEKLKNLGHRFYRKRAEYIVLARRFKNIKDIVESFENEK---VAREFLVRNIKGIGYKEASHFLR 143 (214) T ss_dssp HHHSCHHHHHHHHHHTTCTTHHHHHHHHHHHGGGCCHHHHHHHSSSHH---HHHHHHHHHSTTCCHHHHHHHHH T ss_pred HHCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC---CCHHHHHHHCCCCCHHHHHHHHH T ss_conf 986999999999999464567999999999999999988889739989---87399997488876999999999 No 51 >1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli K12} SCOP: a.60.3.1 PDB: 2jzb_A Probab=73.84 E-value=4.6 Score=19.84 Aligned_cols=40 Identities=23% Similarity=0.228 Sum_probs=31.9 Q ss_pred HHHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 9999973--799789850997899737898899999975499 Q 537021.9.peg.8 60 AKALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 60 A~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) +.+.|.+ .-.++.|...+.++|.+++|+|......|+-.. T Consensus 35 s~N~L~~~gI~tvgdLv~~se~dLl~~~n~G~KSl~EIk~~L 76 (98) T 1coo_A 35 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL 76 (98) T ss_dssp THHHHHTTTCCBHHHHHTSCHHHHTTSTTCCHHHHHHHHHHH T ss_pred HHHHHHHHCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHH T ss_conf 999873817938999985799999758897687899999999 No 52 >1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination, helicase; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A Probab=73.34 E-value=3 Score=21.03 Aligned_cols=104 Identities=15% Similarity=0.096 Sum_probs=62.3 Q ss_pred HCCHHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC--CH-HHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 23922189899999997337998988999999997379--97-8985099789973789889999997549999999999 Q 537021.9.peg.8 31 QKGENALAYYEILELILFRLIPRKDTKSIAKALLKRFA--TL-GGVFGAPLHLLQEINRIGKRVALELKLVSVASQRILK 107 (148) Q Consensus 31 ~~G~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~~fG--sL-~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~ 107 (148) -||-....+.++...++. .++--.+ .|-.+|..+. .| ..+.+-+...|.++||||+..|-+|. .||--++.. T Consensus 60 LyGF~~~~Er~lF~~Li~--VsGIGPK-~AL~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi--lELkdK~~~ 134 (203) T 1cuk_A 60 LYGFNNKQERTLFKELIK--TNGVGPK-LALAILSGMSAQQFVNAVEREEVGALVKLPGIGKKTAERLI--VEMKDRFKG 134 (203) T ss_dssp EEEESSHHHHHHHHHHHH--SSSCCHH-HHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHH--HHHHHHGGG T ss_pred EEECCCHHHHHHHHHHHC--CCCCCHH-HHHHHHHCCCHHHHHHHHHHCCHHHHHCCCCCCHHHHHHHH--HHHHHHHHH T ss_conf 886194699999999857--6885756-68888612798999999871899886069987799999999--999999876 Q ss_pred HHHHH-------------CCC-CCCHHHHHHHHHHHHCCCCEEEEEE Q ss_conf 87640-------------677-8898999999999845978000252 Q 537021.9.peg.8 108 ANWSI-------------KKF-LTPGQPCLISVERHYPMKNANNFAY 140 (148) Q Consensus 108 ~~~~~-------------~~~-l~s~~~v~~yl~~~l~~~~~E~F~v 140 (148) -.... .+. -+..+++..-|. .||+.+.|...+ T Consensus 135 ~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~AL~-~LGy~~~ea~~a 180 (203) T 1cuk_A 135 LHGDLFTPAADLVLTSPASPATDDAEQEAVARLV-ALGYKPQEASRM 180 (203) T ss_dssp CCSTTTCC-------------CCHHHHHHHHHHH-HHTCCHHHHHHH T ss_pred HCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH-HCCCCHHHHHHH T ss_conf 3012246542212357777666605899999999-879999999999 No 53 >2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase, nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans R1} Probab=72.72 E-value=5.1 Score=19.53 Aligned_cols=34 Identities=18% Similarity=0.133 Sum_probs=23.3 Q ss_pred HHHHHCCCHHHHHHCCCCCHHHHHHH-HHHHHHHH Q ss_conf 78985099789973789889999997-54999999 Q 537021.9.peg.8 70 LGGVFGAPLHLLQEINRIGKRVALEL-KLVSVASQ 103 (148) Q Consensus 70 L~~ll~as~~eL~~i~GIG~aka~~l-~a~~El~r 103 (148) +....=.+.++|.+|+|||+.|+... ..+.++.+ T Consensus 38 ia~~~P~t~~eL~~I~Gig~~k~~~yG~~il~~I~ 72 (77) T 2rhf_A 38 LAARQPRTLAELAEVPGLGEKRIEAYGERILDAIN 72 (77) T ss_dssp HHHHCCCSHHHHTTSTTTCHHHHHHHHHHHHHHHH T ss_pred HHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHH T ss_conf 99839789999807999799999999999999999 No 54 >1wud_A ATP-dependent DNA helicase RECQ; DNA-binding domain, HRDC, hydrolase; 2.20A {Escherichia coli} SCOP: a.60.8.1 Probab=72.20 E-value=4.3 Score=19.99 Aligned_cols=38 Identities=11% Similarity=0.097 Sum_probs=26.8 Q ss_pred HHHHHCCCHHHHHHCCCCCHHHHHHH-HHHHHHHHHHHH Q ss_conf 78985099789973789889999997-549999999999 Q 537021.9.peg.8 70 LGGVFGAPLHLLQEINRIGKRVALEL-KLVSVASQRILK 107 (148) Q Consensus 70 L~~ll~as~~eL~~i~GIG~aka~~l-~a~~El~rR~~~ 107 (148) +....=.+.++|.+|+|||+.++..- ..+.++.+.+.. T Consensus 46 ia~~~P~t~~eL~~I~Gvg~~k~~~yG~~iL~ii~~~~~ 84 (89) T 1wud_A 46 MAEQMPITASEMLSVNGVGMRKLERFGKPFMALIRAHVD 84 (89) T ss_dssp HHHHCCCSHHHHHTSTTCCHHHHHHHHHHHHHHHHHHHT T ss_pred HHHHCCCCHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 999788999998079998999999999999999999985 No 55 >3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein structure initiati midwest center for structural genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris} Probab=68.43 E-value=5.2 Score=19.46 Aligned_cols=56 Identities=11% Similarity=0.164 Sum_probs=42.3 Q ss_pred HHHHHCCHHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHC Q ss_conf 9998239221898999999973379989889999999973799789850997899737 Q 537021.9.peg.8 27 DRFLQKGENALAYYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEI 84 (148) Q Consensus 27 Erll~~G~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i 84 (148) ||--..|...+||.|.++.+--+-.++--.+. .++|+++|||...++.+.. ++... T Consensus 7 ~~~~~~~~~~~t~~e~l~wl~L~~~~giG~~~-~~~Ll~~fgs~~~~~~~~~-~~~~~ 62 (382) T 3maj_A 7 ERSSDQGTTVLTEAQRIDWMRLIRAENVGPRT-FRSLINHFGSARAALERLP-ELARR 62 (382) T ss_dssp ------CCCCSCHHHHHHHHHHHTSTTCCHHH-HHHHHHHHSSHHHHHHHHH-HHHHH T ss_pred CCCCCCCCCCCCHHHHHHHHHHHCCCCCCHHH-HHHHHHHHCCHHHHHHCCH-HHHHH T ss_conf 54677788889999999999998289964999-9999998399999997799-99987 No 56 >2rrd_A BLM HRDC domain, HRDC domain from bloom syndrome protein; DNA helicase, RECQ family, HRDC DOMA binding protein; NMR {Homo sapiens} Probab=67.16 E-value=6.7 Score=18.77 Aligned_cols=41 Identities=12% Similarity=0.050 Sum_probs=29.1 Q ss_pred HHHHHCCCHHHHHHCCCCCHHHHHHH-HHHHHHHHHHHHHHH Q ss_conf 78985099789973789889999997-549999999999876 Q 537021.9.peg.8 70 LGGVFGAPLHLLQEINRIGKRVALEL-KLVSVASQRILKANW 110 (148) Q Consensus 70 L~~ll~as~~eL~~i~GIG~aka~~l-~a~~El~rR~~~~~~ 110 (148) +....=.+.++|.+|+|||+.++... ..+.++.+.+..... T Consensus 55 ia~~~P~t~~eL~~I~Gv~~~k~~~yG~~il~~I~~~~e~~~ 96 (101) T 2rrd_A 55 LAESLSSDPEVLLQIDGVTEDKLEKYGAEVISVLQKYSEWTS 96 (101) T ss_dssp HHHHCCCCHHHHHTSTTCCHHHHHHTHHHHHHHHHHHHHHHS T ss_pred HHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 998685999998267787999999999999999999976108 No 57 >2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus} Probab=64.42 E-value=7.5 Score=18.44 Aligned_cols=54 Identities=17% Similarity=0.035 Sum_probs=38.4 Q ss_pred HHHHHHHHCCCCCCCHHHHHHHHHHHCC-CHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 9999997337998988999999997379-9789850997899737898899999975499 Q 537021.9.peg.8 41 EILELILFRLIPRKDTKSIAKALLKRFA-TLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 41 ELLallL~~g~~~~~~~~lA~~lL~~fG-sL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) |+....-..|.++.-+..-|.+-|..+. -+ .+..++..++|||+.-+..|.=.. T Consensus 24 e~~~~~~~k~~k~~~aY~kA~~sLk~~p~~I-----~s~~~l~~l~GIG~~i~~ki~e~L 78 (87) T 2kp7_A 24 EWRDEAASRGRHTRFVFQKALRSLQRYPLPL-----RSGKEAKILQHFGDRLCRMLDEKL 78 (87) T ss_dssp HHHHHHHHHTCTTHHHHHHHHHHHHHCCSCC-----CSHHHHHTCTTTCHHHHHHHHHHH T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHCCCCC-----CCHHHHHHCCCCCHHHHHHHHHHH T ss_conf 9999998707357999999999999789988-----889999727997789999999999 No 58 >2dgz_A Werner syndrome protein variant; HRDC domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.60.8.1 Probab=61.86 E-value=3.9 Score=20.28 Aligned_cols=45 Identities=9% Similarity=0.055 Sum_probs=32.5 Q ss_pred HHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 789850997899737898899999975499999999998764067 Q 537021.9.peg.8 70 LGGVFGAPLHLLQEINRIGKRVALELKLVSVASQRILKANWSIKK 114 (148) Q Consensus 70 L~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~~~~~~~~ 114 (148) +....=.+.++|.+|.|||..++...-..++..+++..+...... T Consensus 55 la~~~P~t~~eL~~I~G~~~~k~~~yG~~l~~I~~~~~~~~~~~~ 99 (113) T 2dgz_A 55 MAKMRPTTVENVKRIDGVSEGKAAMLAPLWEVIKHFCQTNSVQTD 99 (113) T ss_dssp HHHHCCCSHHHHHHSSSCCTTGGGGGHHHHHHHHHHHHTTTCCCC T ss_pred HHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 999789999999479998999999998999999999998389877 No 59 >2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus} Probab=61.34 E-value=4.5 Score=19.89 Aligned_cols=41 Identities=17% Similarity=0.259 Sum_probs=23.6 Q ss_pred CHHHHHHHHHHHCCCHHHHH---CC----CHHHHHHCCCCCHHHHHHHH Q ss_conf 88999999997379978985---09----97899737898899999975 Q 537021.9.peg.8 55 DTKSIAKALLKRFATLGGVF---GA----PLHLLQEINRIGKRVALELK 96 (148) Q Consensus 55 ~~~~lA~~lL~~fGsL~~ll---~a----s~~eL~~i~GIG~aka~~l~ 96 (148) ...+--.++++ -|++..+- .. ...+|++|+||||.+|..+- T Consensus 72 ~i~~kI~e~l~-tG~~~~le~l~~~~~~~~l~~l~~i~GvGpk~a~~l~ 119 (360) T 2ihm_A 72 HSTRVIQELLE-HGTCEEVKQVRCSERYQTMKLFTQVFGVGVKTANRWY 119 (360) T ss_dssp HHHHHHHHHHH-HSCCHHHHHHHHSHHHHHHHHHHTSTTCCHHHHHHHH T ss_pred HHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH T ss_conf 99999999995-3868999988622157999999757787899999999 No 60 >2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans} Probab=59.77 E-value=9.1 Score=17.91 Aligned_cols=19 Identities=21% Similarity=0.170 Sum_probs=14.0 Q ss_pred HHHHHHCCCCCHHHHHHHH Q ss_conf 7899737898899999975 Q 537021.9.peg.8 78 LHLLQEINRIGKRVALELK 96 (148) Q Consensus 78 ~~eL~~i~GIG~aka~~l~ 96 (148) ..+|++|+||||.+|.+|- T Consensus 96 ~~~l~~I~GvGpk~A~~l~ 114 (578) T 2w9m_A 96 LLDLLGVRGLGPKKIRSLW 114 (578) T ss_dssp HHHHTTSTTCCHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHH T ss_conf 9998478986899999999 No 61 >2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair, N1-methyladenine, N3-methylcytosine, hyperthermophiles, hydrolase; HET: MBO MES; 1.8A {Archaeoglobus fulgidus} PDB: 2jhj_A Probab=59.28 E-value=8.6 Score=18.08 Aligned_cols=28 Identities=18% Similarity=0.076 Sum_probs=15.6 Q ss_pred CHHHHHCCCHH----HHHHCCCCCHHHHHHHH Q ss_conf 97898509978----99737898899999975 Q 537021.9.peg.8 69 TLGGVFGAPLH----LLQEINRIGKRVALELK 96 (148) Q Consensus 69 sL~~ll~as~~----eL~~i~GIG~aka~~l~ 96 (148) ++..+-.++.+ .|++|+|||+..|-.+. T Consensus 196 ~~~~l~~~~~~e~~~~L~~i~GIGpWTA~~il 227 (295) T 2jhn_A 196 NLEELKEWGEEEAYEYLTSFKGIGRWTAELVL 227 (295) T ss_dssp SGGGGGGSCHHHHHHHHHTSTTCCHHHHHHHH T ss_pred CHHHHCCCCHHHHHHHHHHCCCCCHHHHHHHH T ss_conf 55654128858888899845994889999999 No 62 >1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A* Probab=59.25 E-value=5.1 Score=19.52 Aligned_cols=19 Identities=16% Similarity=0.263 Sum_probs=14.0 Q ss_pred HHHHHHCCCCCHHHHHHHH Q ss_conf 7899737898899999975 Q 537021.9.peg.8 78 LHLLQEINRIGKRVALELK 96 (148) Q Consensus 78 ~~eL~~i~GIG~aka~~l~ 96 (148) ..+|++|+||||.+|..+. T Consensus 120 l~~l~~I~GiGpk~a~~l~ 138 (381) T 1jms_A 120 FKLFTSVFGVGLKTAEKWF 138 (381) T ss_dssp HHHHHTSTTCCHHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHH T ss_conf 8998737787899999999 No 63 >1jei_A Emerin; membrane protein; NMR {Synthetic} SCOP: a.140.1.1 PDB: 2odc_I 2odg_C Probab=51.84 E-value=3.5 Score=20.61 Aligned_cols=32 Identities=19% Similarity=0.147 Sum_probs=27.1 Q ss_pred HHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 22189899999997337998988999999997 Q 537021.9.peg.8 34 ENALAYYEILELILFRLIPRKDTKSIAKALLK 65 (148) Q Consensus 34 ~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~ 65 (148) -..|||.||.+++=.+|++.-.+.+.-+.+-+ T Consensus 3 y~~lSd~El~~lL~~y~I~HGPvVdstr~lyE 34 (53) T 1jei_A 3 YADLSDTELTTLLRRYNIPHGPVVGSTRRLYE 34 (53) T ss_dssp TTTCCHHHHHHHHSSSCCSCCCCCSGGGHHHH T ss_pred HHHHCHHHHHHHHHHHCCCCCCCCCCHHHHHH T ss_conf 65616899999999929998880061399999 No 64 >2r4f_A 3-hydroxy-3-methylglutaryl-coenzyme A reductase; oxidoreductase, cholesterol, biocynthesis, HMG-COA, NADPH, statin, alternative splicing; HET: RIE; 1.70A {Homo sapiens} PDB: 2q1l_A* 2q6c_A* 2q6b_A* 3bgl_A* 3cct_A* 3ccw_A* 3ccz_A* 3cd0_A* 3cd5_A* 3cd7_A* 3cda_A* 3cdb_A* 1dqa_A* 1dq9_A* 1dq8_A* 1hw8_A* 1hw9_A* 1hwi_A* 1hwj_A* 1hwk_A* ... Probab=50.80 E-value=8 Score=18.26 Aligned_cols=51 Identities=31% Similarity=0.369 Sum_probs=32.8 Q ss_pred CCCCHHHHHHHHHHH------CCHHHCCHHHHHHHHHHCCCCCC----------CHHHHHHHHHHHC Q ss_conf 300165019999982------39221898999999973379989----------8899999999737 Q 537021.9.peg.8 17 DYIGHHNRLRDRFLQ------KGENALAYYEILELILFRLIPRK----------DTKSIAKALLKRF 67 (148) Q Consensus 17 ~~~ghr~R~RErll~------~G~~~LsD~ELLallL~~g~~~~----------~~~~lA~~lL~~f 67 (148) ||.-|.-||-|-+++ .|++.|||.|++..+...-.+-+ .+..+-+.+|.+. T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~d~e~~~~~~~~~~~~~~le~~~~~~~~a~~irr~~~~~~ 68 (441) T 2r4f_A 2 HHHHHEPRPNEECLQILGNAEKGAKFLSDAEIIQLVNAKHIPAYKLETLIETHERGVSIRRQLLSKK 68 (441) T ss_dssp -----CCCCHHHHHHHHHSTTTGGGSSCHHHHHHHHHTTSSCGGGHHHHSSSHHHHHHHHHHHHHHH T ss_pred CCCCCCCCCHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHH T ss_conf 8666899999999998607454677799899999997599871557876078688999999999986 No 65 >1mpg_A ALKA, 3-methyladenine DNA glycosylase II; DNA repair, base excision, methylation, hydrolase; 1.80A {Escherichia coli} SCOP: a.96.1.3 d.129.1.2 PDB: 1diz_A 1pvs_A* 3cvs_A* 3cvt_A* 3cw7_A* 3cwa_A* 3cws_A* 3cwt_A* 3cwu_A* 3d4v_A* Probab=49.60 E-value=13 Score=16.85 Aligned_cols=62 Identities=13% Similarity=0.087 Sum_probs=33.0 Q ss_pred CHHHHH-HHHHHCCCCCCCHHHHHHHHHHHCCC-------------HHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH Q ss_conf 989999-99973379989889999999973799-------------7898509978997378988999999754999 Q 537021.9.peg.8 38 AYYEIL-ELILFRLIPRKDTKSIAKALLKRFAT-------------LGGVFGAPLHLLQEINRIGKRVALELKLVSV 100 (148) Q Consensus 38 sD~ELL-allL~~g~~~~~~~~lA~~lL~~fGs-------------L~~ll~as~~eL~~i~GIG~aka~~l~a~~E 100 (148) +-+|.| -.|++.-..-.-+..+..+|...||. -..+..++.++|..+ |+...|+..|+.+.+ T Consensus 112 d~fE~lvraIlgQQvS~~aA~~i~~rL~~~~G~~~~~~~~~~~fPtp~~la~~~~~~Lr~~-Gls~~ka~~i~~lA~ 187 (282) T 1mpg_A 112 DAFEQGVRAILGQLVSVAMAAKLTARVAQLYGERLDDFPEYICFPTPQRLAAADPQALKAL-GMPLKRAEALIHLAN 187 (282) T ss_dssp CHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHCCBCSSCTTCBCCCCHHHHHTCCHHHHHHT-TSCHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHCCCHHHHHHC-CCCCHHHHHHHHHHH T ss_conf 9999999999827451999999999999986887776765457777999974999999654-886047999999999 No 66 >1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A Probab=48.25 E-value=3.1 Score=20.96 Aligned_cols=54 Identities=15% Similarity=0.144 Sum_probs=38.6 Q ss_pred HHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 999997337998988999999997379978985099789973789889999997549 Q 537021.9.peg.8 42 ILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 42 LLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~ 98 (148) .++.+-..|..-.|+.-|-. ..|.++.+|..+++.+|++++|++++++..+... T Consensus 26 ~~~~~~~~gi~~~~~~kL~~---~g~~t~~~~~~~~~~~l~~~~g~~~~~~~~~~~~ 79 (343) T 1v5w_A 26 DIDLLQKHGINVADIKKLKS---VGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEA 79 (343) T ss_dssp --------------------------------------------------------- T ss_pred CHHHHHHCCCCHHHHHHHHH---CCCCHHHHHHCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 35899868999899999998---0843699986359888887328679999999999 No 67 >2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ewa_A* 3ew9_A* 3etl_A* 2gdj_A* Probab=46.76 E-value=15 Score=16.57 Aligned_cols=46 Identities=15% Similarity=0.233 Sum_probs=36.6 Q ss_pred CCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH Q ss_conf 9989889999999973799789850997899737898899999975 Q 537021.9.peg.8 51 IPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELK 96 (148) Q Consensus 51 ~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~ 96 (148) .|+.+...+.+-.=..|.++..++.+++.||.++.|+...++..|. T Consensus 8 ~~g~~~~~~~kL~~ag~~t~~~l~~~~~~~l~~~~~~~~~~~~~i~ 53 (322) T 2i1q_A 8 LPGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMI 53 (322) T ss_dssp STTCCHHHHHHHHHHTCCSHHHHHTCCHHHHHTSTTCCHHHHHHHH T ss_pred CCCCCHHHHHHHHHCCCCCHHHHHCCCHHHHHHHHCCCHHHHHHHH T ss_conf 7998999999999869960999973999999987499999999999 No 68 >2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1bpx_A* 1bpz_A* 1mq2_A* 1mq3_A* 1bpy_A* 1tva_A* 1zjm_A* 1zjn_A* 1zqa_A* 1zqb_A* 1zqc_A* 1zqd_A* 1zqe_A* 1zqf_A* 1zqg_A* 1zqh_A* 1zqi_A* 1zqj_A* 1zqk_A* 1zql_A* ... Probab=44.58 E-value=16 Score=16.36 Aligned_cols=18 Identities=22% Similarity=0.412 Sum_probs=12.0 Q ss_pred HHHHHCCCCCHHHHHHHH Q ss_conf 899737898899999975 Q 537021.9.peg.8 79 HLLQEINRIGKRVALELK 96 (148) Q Consensus 79 ~eL~~i~GIG~aka~~l~ 96 (148) ..|++|+||||.+|..+. T Consensus 98 ~~l~~I~GvGpk~a~~l~ 115 (335) T 2fmp_A 98 NFLTRVSGIGPSAARKFV 115 (335) T ss_dssp HHHTTSTTCCHHHHHHHH T ss_pred HHHHHCCCCCHHHHHHHH T ss_conf 998745687989999999 No 69 >1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} SCOP: e.49.1.1 PDB: 2v1c_A Probab=42.39 E-value=14 Score=16.74 Aligned_cols=19 Identities=26% Similarity=0.398 Sum_probs=15.4 Q ss_pred HHHHHHCCCCCHHHHHHHH Q ss_conf 7899737898899999975 Q 537021.9.peg.8 78 LHLLQEINRIGKRVALELK 96 (148) Q Consensus 78 ~~eL~~i~GIG~aka~~l~ 96 (148) ++.|.++||||+..|..+. T Consensus 11 I~~l~kLPGIG~KsA~RlA 29 (228) T 1vdd_A 11 IRELSRLPGIGPKSAQRLA 29 (228) T ss_dssp HHHHHTSTTCCHHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHH T ss_conf 9999668999889999999 No 70 >2zkq_m 40S ribosomal protein S18E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_M 3jyv_M* Probab=40.49 E-value=14 Score=16.60 Aligned_cols=24 Identities=17% Similarity=0.191 Sum_probs=19.4 Q ss_pred HHHHHCCCCCHHHHHHHHHHHHHH Q ss_conf 899737898899999975499999 Q 537021.9.peg.8 79 HLLQEINRIGKRVALELKLVSVAS 102 (148) Q Consensus 79 ~eL~~i~GIG~aka~~l~a~~El~ 102 (148) -.|+.|.|||+..|.+|.....+. T Consensus 28 ~aLt~I~GIG~~~A~~Ic~~lgI~ 51 (152) T 2zkq_m 28 FAITAIKGVGRRYAHVVLRKADID 51 (152) T ss_dssp HHGGGSTTCCHHHHHHHHHHHTCC T ss_pred EEEECCCCCCHHHHHHHHHHHCCC T ss_conf 650021065899999999993899 No 71 >2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ... Probab=40.31 E-value=18 Score=15.94 Aligned_cols=19 Identities=26% Similarity=0.274 Sum_probs=14.1 Q ss_pred HHHHHHCCCCCHHHHHHHH Q ss_conf 7899737898899999975 Q 537021.9.peg.8 78 LHLLQEINRIGKRVALELK 96 (148) Q Consensus 78 ~~eL~~i~GIG~aka~~l~ 96 (148) ..+|++|+||||.+|..+. T Consensus 95 ~~~l~~I~GvGpk~a~~l~ 113 (335) T 2bcq_A 95 LELFSNIWGAGTKTAQMWY 113 (335) T ss_dssp HHHHHTSTTCCHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHH T ss_conf 5665118876889999999 No 72 >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 Probab=38.40 E-value=19 Score=15.80 Aligned_cols=21 Identities=14% Similarity=0.048 Sum_probs=17.5 Q ss_pred HHHHHHCCCCCHHHHHHHHHH Q ss_conf 789973789889999997549 Q 537021.9.peg.8 78 LHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 78 ~~eL~~i~GIG~aka~~l~a~ 98 (148) ...|++|||||+.+|..|... T Consensus 236 ~~~L~qIpGIs~~~A~~I~~~ 256 (311) T 2ziu_A 236 ARQLMQISGVSGDKAAAVLEH 256 (311) T ss_dssp HHHHTTBTTCCHHHHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHHH T ss_conf 999982799999999999997 No 73 >3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, hydrolase; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A* Probab=38.09 E-value=6.3 Score=18.95 Aligned_cols=56 Identities=20% Similarity=0.075 Sum_probs=41.8 Q ss_pred HHHHHHHHHHCCCCCCCHHHHHHHHHHHCC-CHHHHHCCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 899999997337998988999999997379-978985099789973789889999997549 Q 537021.9.peg.8 39 YYEILELILFRLIPRKDTKSIAKALLKRFA-TLGGVFGAPLHLLQEINRIGKRVALELKLV 98 (148) Q Consensus 39 D~ELLallL~~g~~~~~~~~lA~~lL~~fG-sL~~ll~as~~eL~~i~GIG~aka~~l~a~ 98 (148) +.++++.|-..|.+ -.+|.++.+.|| ..-.++..+|-.|+.|+|||-.+|-.|... T Consensus 7 ~~~~~~~l~~~g~~----~~~a~~i~~~~g~~~~~~i~~nPy~l~~i~gi~f~~aD~ia~~ 63 (574) T 3e1s_A 7 ERRLLAGLQGLGLT----INQAQRAVKHFGADALDRLEKDLFTLTEVEGIGFLTADKLWQA 63 (574) T ss_dssp -----------------------------------------CGGGTSSSCCHHHHHTTC-- T ss_pred HHHHHHHHHHCCCC----HHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHHHHHH T ss_conf 99999999877999----9999999999848999999849912312588995899999997 No 74 >3lu0_A DNA-directed RNA polymerase subunit alpha; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_A Probab=37.09 E-value=5.8 Score=19.17 Aligned_cols=40 Identities=23% Similarity=0.228 Sum_probs=32.0 Q ss_pred HHHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 9999973--799789850997899737898899999975499 Q 537021.9.peg.8 60 AKALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 60 A~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) |.+.|++ ...++.|+..+.+||.++++.|....-+|+... T Consensus 266 s~NcLkra~I~ti~dLv~~s~~dLl~ikNfGkKSl~EI~~kL 307 (329) T 3lu0_A 266 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL 307 (329) T ss_dssp ------------------------------------------ T ss_pred HHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCCCCHHHHHHHH T ss_conf 886575718918999764799999558997620099999999 No 75 >2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular switch, RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus P2} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A* Probab=34.91 E-value=6.6 Score=18.81 Aligned_cols=32 Identities=16% Similarity=0.058 Sum_probs=25.7 Q ss_pred HHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH Q ss_conf 73799789850997899737898899999975 Q 537021.9.peg.8 65 KRFATLGGVFGAPLHLLQEINRIGKRVALELK 96 (148) Q Consensus 65 ~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~ 96 (148) ..|.+...++.+++.+|.++.|+...+|..+. T Consensus 31 ~g~~t~~~l~~~~~~~L~~~~gls~~~a~kil 62 (324) T 2z43_A 31 AGYSSLETLAVASPQDLSVAAGIPLSTAQKII 62 (324) T ss_dssp -------------------------------- T ss_pred CCCCCHHHHHCCCHHHHHHHHCCCHHHHHHHH T ss_conf 69961999971899999987498999999999 No 76 >3ofp_M 30S ribosomal protein S13; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_M* 2wwl_M 2qal_M* 1p6g_M 1p87_M 2aw7_M 2avy_M 2i2u_M 2i2p_M* 2qan_M* 2qb9_M* 2qbb_M* 2qbd_M 2qbf_M 2qbh_M* 2qbj_M* 2qou_M* 2qow_M* 2qoy_M* 2qp0_M* ... Probab=32.94 E-value=11 Score=17.50 Aligned_cols=24 Identities=17% Similarity=0.138 Sum_probs=19.4 Q ss_pred HHHHHCCCCCHHHHHHHHHHHHHH Q ss_conf 899737898899999975499999 Q 537021.9.peg.8 79 HLLQEINRIGKRVALELKLVSVAS 102 (148) Q Consensus 79 ~eL~~i~GIG~aka~~l~a~~El~ 102 (148) -.|..|.|||+..|.+|.....+. T Consensus 16 ~ALt~I~GIG~~~A~~Ic~~lgi~ 39 (113) T 3ofp_M 16 IALTSIYGVGKTRSKAILAAAGIA 39 (113) T ss_dssp HHHTSSSSCCSSHHHHGGGTTTCC T ss_pred EEEECEECCCHHHHHHHHHHCCCC T ss_conf 550143474899999999984989 No 77 >2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.156.1.1 PDB: 1gix_P* 1hnw_M* 1hnx_M* 1hnz_M* 1hr0_M 1ibk_M* 1ibl_M* 1ibm_M 1j5e_M 1jgo_P* 1jgp_P* 1jgq_P* 1mj1_P* 1ml5_P* 1n32_M* 1n33_M* 1n34_M 1n36_M 1xmo_M* 1xmq_M* ... Probab=32.00 E-value=15 Score=16.54 Aligned_cols=24 Identities=29% Similarity=0.076 Sum_probs=17.7 Q ss_pred HHHHHCCCCCHHHHHHHHHHHHHH Q ss_conf 899737898899999975499999 Q 537021.9.peg.8 79 HLLQEINRIGKRVALELKLVSVAS 102 (148) Q Consensus 79 ~eL~~i~GIG~aka~~l~a~~El~ 102 (148) -.|..|.|||+..|.+|.....+. T Consensus 17 ~aLt~I~GIG~~~A~~Ic~~lGId 40 (126) T 2vqe_M 17 VALTYIYGIGKARAKEALEKTGIN 40 (126) T ss_dssp HHHTTSSSCCSHHHHHHTTTTTCC T ss_pred EEECCEECCCHHHHHHHHHHCCCC T ss_conf 762043483899999999985979 No 78 >2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1 d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A 2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A* 1ynn_A* 2gho_A 1hqm_A ... Probab=29.05 E-value=9.5 Score=17.79 Aligned_cols=39 Identities=26% Similarity=0.292 Sum_probs=29.7 Q ss_pred HHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 999973--799789850997899737898899999975499 Q 537021.9.peg.8 61 KALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVS 99 (148) Q Consensus 61 ~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~ 99 (148) .+.|++ ...++.|+..+.++|.+++++|+...-.|+... T Consensus 266 ~NcLk~a~I~ti~dLv~~s~~eLl~i~N~G~KSl~EI~ekL 306 (315) T 2a6h_A 266 LHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIKEAL 306 (315) T ss_dssp ----------------------------------------- T ss_pred HHHHHHCCCCCHHHHHHCCHHHHHCCCCCCCCCHHHHHHHH T ss_conf 86787859948999873999998479998510399999999 No 79 >2dla_A 397AA long hypothetical protein; helix bundle, twisted beta-sheet, replication; 2.90A {Pyrococcus horikoshii OT3} Probab=28.48 E-value=13 Score=16.83 Aligned_cols=18 Identities=39% Similarity=0.560 Sum_probs=14.4 Q ss_pred HHHHHHHHCCCHHHHHCC Q ss_conf 999999737997898509 Q 537021.9.peg.8 59 IAKALLKRFATLGGVFGA 76 (148) Q Consensus 59 lA~~lL~~fGsL~~ll~a 76 (148) -|++|++.|||+...+++ T Consensus 11 kAk~LlkeFG~in~fLe~ 28 (222) T 2dla_A 11 KAKELLKGFGSINDFMDA 28 (222) T ss_dssp HHHHHTTTTSSHHHHHHH T ss_pred HHHHHHHHHCCHHHHHHH T ss_conf 999999985059999987 No 80 >5csm_A Chorismate mutase; chorismate pyruvatemutase, allosteric protein, complex (isomerase/peptide), transition state analog; HET: TRP; 2.00A {Saccharomyces cerevisiae} SCOP: a.130.1.2 PDB: 3csm_A* 2csm_A* 4csm_A* 1csm_A* Probab=25.10 E-value=23 Score=15.36 Aligned_cols=36 Identities=11% Similarity=0.090 Sum_probs=27.7 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCHHH Q ss_conf 988999999754999999999987640677-889899 Q 537021.9.peg.8 86 RIGKRVALELKLVSVASQRILKANWSIKKF-LTPGQP 121 (148) Q Consensus 86 GIG~aka~~l~a~~El~rR~~~~~~~~~~~-l~s~~~ 121 (148) .-|.+.++-+.|...++||++..+..-... .++|+. T Consensus 139 NyGSta~cDi~cLQALSRRIHyGKFVAEaKF~~~p~~ 175 (256) T 5csm_A 139 NFGSVATRDIECLQSLSRRIHFGKFVAEAKFQSDIPL 175 (256) T ss_dssp CHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHTCHHH T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHH T ss_conf 2267999999999999888553236658787409999 No 81 >2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein LOLD; structural genomics, NPPSFA; 1.70A {Aquifex aeolicus VF5} PDB: 2pcl_A Probab=23.35 E-value=35 Score=14.11 Aligned_cols=48 Identities=23% Similarity=0.194 Sum_probs=36.6 Q ss_pred HHCCHHHHHHHH-HHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH Q ss_conf 218989999999-7337998988999999997379978985099789973 Q 537021.9.peg.8 35 NALAYYEILELI-LFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE 83 (148) Q Consensus 35 ~~LsD~ELLall-L~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~ 83 (148) ..+|=+|=+++- ...|.++......++++|+.+| |...++..+.+|.. T Consensus 95 ~~ltv~eNi~~~l~~~g~~~~~~~~~~~~~l~~~g-l~~~~~~~p~~LSG 143 (224) T 2pcj_A 95 PELTALENVIVPMLKMGKPKKEAKERGEYLLSELG-LGDKLSRKPYELSG 143 (224) T ss_dssp TTSCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTT-CTTCTTCCGGGSCH T ss_pred CCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC-CHHHHHCCCCCCCH T ss_conf 89819999967998849999999999999998779-96676189500898 No 82 >3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A Probab=23.08 E-value=19 Score=15.91 Aligned_cols=21 Identities=33% Similarity=0.400 Sum_probs=14.8 Q ss_pred CHHHHHHCCCCCHHHHHHHHH Q ss_conf 978997378988999999754 Q 537021.9.peg.8 77 PLHLLQEINRIGKRVALELKL 97 (148) Q Consensus 77 s~~eL~~i~GIG~aka~~l~a 97 (148) +..+|..+|+||++.+..+.. T Consensus 2 ~m~~L~~LPNig~~~e~~L~~ 22 (93) T 3bqs_A 2 SLANLSELPNIGKVLEQDLIK 22 (93) T ss_dssp CCSCGGGSTTCCHHHHHHHHH T ss_pred CHHHHHHCCCCCHHHHHHHHH T ss_conf 767772489999999999999 No 83 >2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-binding, excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus} Probab=20.90 E-value=39 Score=13.81 Aligned_cols=16 Identities=13% Similarity=0.395 Sum_probs=7.6 Q ss_pred HHHHHHHCCCHHHHHC Q ss_conf 9999973799789850 Q 537021.9.peg.8 60 AKALLKRFATLGGVFG 75 (148) Q Consensus 60 A~~lL~~fGsL~~ll~ 75 (148) |..|+.+|||+.+++. T Consensus 247 A~kli~~~~sle~i~~ 262 (346) T 2izo_A 247 ALKIIKKYGKIEKAME 262 (346) T ss_dssp HHHHHHHSSCC----- T ss_pred HHHHHHHHCCHHHHHH T ss_conf 9999999399999999 Done!