Query gi|254780762|ref|YP_003065175.1| recombination protein RecR [Candidatus Liberibacter asiaticus str. psy62] Match_columns 201 No_of_seqs 130 out of 1674 Neff 5.3 Searched_HMMs 33803 Date Wed Jun 1 14:08:27 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780762.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1vdd_A Recombination protein 100.0 3.3E-43 0 311.5 6.6 109 70-180 1-109 (109) 2 >1vdd_A Recombination protein 99.8 1.4E-18 4.2E-23 145.9 7.8 64 6-69 3-66 (66) 3 >1mw9_X DNA topoisomerase I; d 96.7 0.0033 9.8E-08 42.6 5.2 97 83-199 3-99 (100) 4 >1cuk_A RUVA protein; DNA repa 96.5 0.0021 6.2E-08 43.9 3.2 32 5-36 28-64 (79) 5 >2ztd_A Holliday junction ATP- 96.3 0.0029 8.5E-08 43.0 3.2 33 5-37 29-66 (75) 6 >1ixr_A Holliday junction DNA 96.1 0.0044 1.3E-07 41.7 3.0 24 14-37 106-129 (191) 7 >1gku_B Reverse gyrase, TOP-RG 95.3 0.045 1.3E-06 34.9 5.8 54 137-199 167-220 (221) 8 >3i0w_A 8-oxoguanine-DNA-glyco 94.6 0.041 1.2E-06 35.2 3.8 31 9-39 27-57 (58) 9 >2h56_A DNA-3-methyladenine gl 94.2 0.034 1E-06 35.7 2.9 34 7-40 53-86 (156) 10 >1nui_A DNA primase/helicase; 94.1 0.17 4.9E-06 31.1 6.2 86 76-171 7-94 (118) 11 >3fsp_A A/G-specific adenine g 93.9 0.049 1.4E-06 34.7 3.2 31 10-40 80-110 (110) 12 >3fhf_A Mjogg, N-glycosylase/D 93.9 0.053 1.6E-06 34.5 3.3 30 7-36 80-109 (113) 13 >2gai_A DNA topoisomerase I; z 93.3 0.15 4.5E-06 31.4 4.8 95 83-199 6-100 (100) 14 >1i7d_A DNA topoisomerase III; 93.0 0.17 5E-06 31.1 4.7 108 84-199 2-150 (152) 15 >2w9m_A Polymerase X; SAXS, DN 93.0 0.1 3E-06 32.5 3.5 58 7-64 48-106 (118) 16 >2au3_A DNA primase; zinc ribb 92.4 0.59 1.8E-05 27.4 6.8 88 80-183 18-105 (125) 17 >2abk_A Endonuclease III; DNA- 92.2 0.16 4.6E-06 31.3 3.7 31 9-39 81-111 (111) 18 >1kea_A Possible G-T mismatche 92.1 0.11 3.3E-06 32.3 2.8 29 10-38 82-110 (111) 19 >1orn_A Endonuclease III; DNA 92.1 0.14 4.2E-06 31.6 3.4 31 9-39 80-110 (110) 20 >2fcj_A Small toprim domain pr 91.8 1.2 3.4E-05 25.5 8.5 101 80-197 2-103 (119) 21 >2nrt_A Uvrabc system protein 91.7 0.22 6.5E-06 30.3 3.9 38 8-45 5-48 (64) 22 >1t6t_1 Putative protein; stru 91.5 0.91 2.7E-05 26.2 6.9 78 81-173 19-96 (118) 23 >2jhn_A ALKA, 3-methyladenine 91.5 0.18 5.5E-06 30.8 3.4 31 9-39 25-55 (55) 24 >1kg2_A A/G-specific adenine g 91.0 0.2 5.9E-06 30.6 3.2 25 15-39 23-47 (139) 25 >1z00_B DNA repair endonucleas 90.4 0.29 8.6E-06 29.5 3.5 38 10-47 13-56 (71) 26 >1z00_A DNA excision repair pr 90.2 0.26 7.6E-06 29.9 3.1 38 7-44 11-54 (89) 27 >1dd9_A DNA primase, DNAG; top 90.2 1.6 4.9E-05 24.4 7.9 106 80-199 16-126 (140) 28 >1nnq_A Rubrerythrin; structur 90.0 0.57 1.7E-05 27.5 4.8 58 23-80 32-99 (105) 29 >3bzc_A TEX; helix-turn-helix, 89.7 0.28 8.2E-06 29.6 3.0 25 14-38 9-33 (70) 30 >1x2i_A HEF helicase/nuclease; 89.1 0.47 1.4E-05 28.1 3.8 30 8-37 7-36 (49) 31 >2fmp_A DNA polymerase beta; n 88.7 0.73 2.2E-05 26.8 4.6 39 14-52 56-94 (119) 32 >1q57_A DNA primase/helicase; 88.7 0.59 1.7E-05 27.4 4.1 108 78-200 9-122 (129) 33 >2bgw_A XPF endonuclease; hydr 88.2 0.56 1.7E-05 27.6 3.7 27 9-35 8-34 (49) 34 >2edu_A Kinesin-like protein K 87.1 0.55 1.6E-05 27.6 3.1 21 15-35 40-60 (98) 35 >2duy_A Competence protein com 86.7 0.41 1.2E-05 28.5 2.3 21 14-34 26-46 (75) 36 >1ryq_A DNA-directed RNA polym 86.5 0.53 1.6E-05 27.8 2.8 56 54-109 8-66 (69) 37 >1s5l_U Photosystem II 12 kDa 86.3 0.26 7.7E-06 29.8 1.1 21 14-34 15-35 (87) 38 >1t94_A Polymerase (DNA direct 85.9 0.37 1.1E-05 28.8 1.7 28 7-34 2-31 (70) 39 >2a1j_A DNA repair endonucleas 85.6 0.64 1.9E-05 27.2 2.8 32 15-46 4-41 (63) 40 >2bcq_A DNA polymerase lambda; 85.1 0.31 9.3E-06 29.3 1.0 39 14-52 56-94 (128) 41 >2aq4_A DNA repair protein REV 85.0 0.45 1.3E-05 28.2 1.8 18 17-34 4-21 (67) 42 >1jms_A Terminal deoxynucleoti 84.9 0.76 2.2E-05 26.7 2.9 50 15-64 80-130 (154) 43 >2ihm_A POL MU, DNA polymerase 83.6 0.95 2.8E-05 26.0 3.0 35 15-49 61-95 (129) 44 >1kft_A UVRC, excinuclease ABC 83.5 0.31 9.2E-06 29.3 0.4 29 7-35 16-44 (78) 45 >1ixr_A Holliday junction DNA 83.3 1.3 3.9E-05 25.1 3.6 28 7-34 64-91 (191) 46 >3c1y_A DNA integrity scanning 82.8 1.1 3.2E-05 25.7 3.0 22 14-35 11-32 (74) 47 >3bz1_U Photosystem II 12 kDa 82.7 0.5 1.5E-05 27.9 1.2 21 15-35 33-53 (104) 48 >1kft_A UVRC, excinuclease ABC 81.9 1.1 3.2E-05 25.7 2.7 22 14-35 55-76 (78) 49 >3c1y_A DNA integrity scanning 81.6 1.2 3.5E-05 25.4 2.8 24 14-37 43-66 (74) 50 >2kp7_A Crossover junction end 81.4 1.4 4.2E-05 24.9 3.1 25 14-38 57-81 (87) 51 >1a76_A Flap endonuclease-1 pr 79.6 0.97 2.9E-05 26.0 1.8 18 17-34 18-35 (65) 52 >1rxw_A Flap structure-specifi 77.3 1.3 3.7E-05 25.2 1.8 18 17-34 17-34 (68) 53 >3fbl_A Putative uncharacteriz 77.2 1.8 5.5E-05 24.1 2.7 35 3-37 46-80 (82) 54 >1jx4_A DNA polymerase IV (fam 76.5 1.4 4E-05 25.0 1.8 26 20-45 1-33 (55) 55 >1pzn_A RAD51, DNA repair and 76.4 1.7 5.1E-05 24.3 2.3 29 17-45 37-72 (95) 56 >1exn_A 5'-exonuclease, 5'-nuc 76.3 1.4 4.1E-05 24.9 1.8 18 17-34 24-41 (80) 57 >1b22_A DNA repair protein RAD 76.2 1.4 4.1E-05 24.9 1.8 50 16-65 26-89 (114) 58 >2izo_A FEN1, flap structure-s 75.0 1.6 4.7E-05 24.6 1.8 18 17-34 18-35 (82) 59 >1b43_A Protein (FEN-1); nucle 72.5 2 5.9E-05 23.9 1.8 17 17-33 28-44 (77) 60 >1wcn_A Transcription elongati 69.7 3.1 9.3E-05 22.5 2.4 20 15-34 7-26 (70) 61 >3bqs_A Uncharacterized protei 68.9 2.6 7.6E-05 23.1 1.8 26 16-41 5-30 (93) 62 >2apo_B Ribosome biogenesis pr 67.1 1.7 5.2E-05 24.3 0.6 29 53-81 2-30 (60) 63 >1ul1_X Flap endonuclease-1; p 65.6 3.3 9.9E-05 22.4 1.8 18 17-34 31-48 (89) 64 >2exu_A Transcription initiati 65.4 1.6 4.6E-05 24.6 0.1 55 55-109 2-76 (91) 65 >3h7h_A Transcription elongati 64.9 2 5.9E-05 23.9 0.6 55 55-109 14-90 (95) 66 >2gmg_A Hypothetical protein P 58.1 6 0.00018 20.6 2.0 60 16-82 29-97 (105) 67 >1ci4_A Protein (barrier-TO-au 56.9 14 0.00043 18.1 3.8 32 17-48 20-64 (89) 68 >2i5h_A Hypothetical protein A 56.8 7.3 0.00022 20.1 2.3 34 15-48 132-165 (205) 69 >2aus_D NOP10, ribosome biogen 56.3 4.7 0.00014 21.4 1.2 28 54-81 2-29 (60) 70 >2zkq_m 40S ribosomal protein 53.3 12 0.00037 18.5 3.0 40 12-51 25-72 (88) 71 >3c65_A Uvrabc system protein 51.4 3.8 0.00011 22.0 0.1 22 143-164 173-194 (226) 72 >2w9m_A Polymerase X; SAXS, DN 50.9 16 0.00046 17.9 3.2 57 9-66 2-70 (123) 73 >2vxo_A GMP synthase [glutamin 49.7 20 0.00059 17.1 5.3 54 137-190 21-74 (229) 74 >1dgs_A DNA ligase; AMP comple 46.8 9.9 0.00029 19.2 1.6 17 19-35 85-101 (116) 75 >2vqe_M 30S ribosomal protein 45.0 14 0.00042 18.2 2.2 24 12-35 14-37 (64) 76 >1k8r_B Protein kinase BYR2; s 44.1 7.7 0.00023 19.9 0.7 42 61-102 48-93 (110) 77 >3i1m_M 30S ribosomal protein 43.3 16 0.00048 17.7 2.3 26 12-37 14-39 (63) 78 >1iv0_A Hypothetical protein; 43.2 13 0.00037 18.5 1.7 64 110-173 21-91 (98) 79 >1o98_A 2,3-bisphosphoglycerat 43.1 15 0.00043 18.1 2.0 75 89-165 19-96 (238) 80 >1d8b_A SGS1 RECQ helicase; fi 42.0 13 0.00037 18.5 1.6 23 14-36 47-69 (81) 81 >2zbk_B Type 2 DNA topoisomera 41.8 22 0.00065 16.9 2.8 40 12-51 26-73 (82) 82 >1yuz_A Nigerythrin; rubrythri 40.5 18 0.00054 17.4 2.2 56 24-79 134-196 (202) 83 >2rhf_A DNA helicase RECQ; HRD 40.1 28 0.00082 16.2 3.1 24 14-37 46-69 (77) 84 >3gfk_B DNA-directed RNA polym 40.1 21 0.00063 17.0 2.5 23 15-37 48-70 (79) 85 >2kn9_A Rubredoxin; metallopro 39.4 13 0.00039 18.3 1.4 27 56-82 26-73 (81) 86 >1lko_A Rubrerythrin all-iron( 38.4 10 0.0003 19.1 0.7 24 57-80 7-34 (43) 87 >1coo_A RNA polymerase alpha s 34.7 33 0.00098 15.7 2.8 29 9-37 46-78 (98) 88 >1nu0_A Hypothetical protein Y 34.5 22 0.00064 16.9 1.8 60 112-171 25-92 (138) 89 >2p6r_A Afuhel308 helicase; pr 33.4 22 0.00064 16.9 1.7 15 19-33 2-16 (68) 90 >1dpe_A Dipeptide-binding prot 33.3 26 0.00076 16.4 2.0 71 102-172 57-140 (185) 91 >3f2b_A DNA-directed DNA polym 32.4 24 0.0007 16.7 1.7 29 21-49 1-29 (69) 92 >6rxn_A Rubredoxin; electron t 32.2 16 0.00047 17.8 0.8 25 58-82 4-42 (45) 93 >2waq_B DNA-directed RNA polym 32.1 25 0.00075 16.4 1.8 43 56-100 5-53 (76) 94 >1zt2_A DNA primase small subu 32.0 15 0.00044 18.0 0.6 31 55-91 5-36 (94) 95 >2csb_A Topoisomerase V, TOP61 31.2 38 0.0011 15.2 5.7 35 14-50 81-115 (142) 96 >1lb2_B DNA-directed RNA polym 31.1 38 0.0011 15.2 3.1 29 9-37 32-64 (84) 97 >1wgx_A KIAA1903 protein; MYB 31.0 34 0.001 15.6 2.3 27 5-31 11-49 (73) 98 >1z3e_B DNA-directed RNA polym 31.0 39 0.0011 15.2 3.0 29 9-37 31-63 (73) 99 >2d5w_A Peptide ABC transporte 30.2 40 0.0012 15.1 3.5 71 102-172 44-138 (183) 100 >3igz_B Cofactor-independent p 29.5 41 0.0012 15.1 3.8 75 89-165 19-96 (239) 101 >1dd3_A 50S ribosomal protein 29.4 41 0.0012 15.0 2.6 45 11-55 14-66 (71) 102 >1dx8_A Rubredoxin; zinc-subst 29.0 20 0.0006 17.1 0.9 27 56-82 6-53 (70) 103 >2io8_A Bifunctional glutathio 28.5 42 0.0013 14.9 5.4 47 127-173 8-55 (136) 104 >3gr0_A Protein PRGH; type III 27.0 12 0.00037 18.5 -0.5 14 100-113 12-25 (59) 105 >1s24_A Rubredoxin 2; electron 26.6 19 0.00056 17.3 0.4 32 50-81 28-80 (87) 106 >1vr7_A Adometdc, samdc, S-ade 26.3 46 0.0014 14.7 3.5 36 143-178 92-127 (142) 107 >3ci0_K Pseudopilin GSPK; gene 25.8 12 0.00035 18.7 -0.8 14 40-53 34-47 (181) 108 >3isx_A Endoglucanase; TM1050, 24.0 51 0.0015 14.4 3.1 19 8-26 11-29 (253) 109 >1yk4_A Rubredoxin, RD; electr 23.9 34 0.00099 15.6 1.3 24 58-81 3-47 (52) 110 >1vq2_A DCMP deaminase, deoxyc 23.8 37 0.0011 15.3 1.5 31 47-77 51-81 (137) 111 >3h0g_B DNA-directed RNA polym 23.4 39 0.0012 15.2 1.5 32 56-91 6-43 (68) 112 >1vhx_A Putative holliday junc 22.8 54 0.0016 14.3 2.8 49 124-172 41-95 (150) 113 >2gnr_A Conserved hypothetical 22.5 26 0.00078 16.3 0.5 43 39-81 29-73 (145) 114 >1e8j_A Rubredoxin; iron-sulfu 22.5 48 0.0014 14.6 1.8 26 57-82 3-49 (52) 115 >3cp8_A TRNA uridine 5-carboxy 22.2 10 0.0003 19.1 -1.7 34 151-185 20-53 (58) 116 >3gi1_A LBP, laminin-binding p 21.9 56 0.0017 14.1 3.5 82 112-196 25-109 (109) 117 >1xi4_A Clathrin heavy chain; 21.8 20 0.0006 17.1 -0.2 57 102-161 1-59 (61) 118 >4rxn_A Rubredoxin; electron t 21.4 35 0.001 15.5 0.9 25 58-82 4-49 (54) 119 >3erm_A Uncharacterized conser 20.8 59 0.0017 14.0 3.5 36 11-46 37-73 (91) 120 >2v3b_B Rubredoxin 2, rubredox 20.7 34 0.001 15.6 0.8 25 58-82 4-49 (55) 121 >2zxi_A TRNA uridine 5-carboxy 20.2 11 0.00032 18.9 -1.9 34 147-180 14-47 (62) No 1 >>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} (A:67-175) Probab=100.00 E-value=3.3e-43 Score=311.48 Aligned_cols=109 Identities=42% Similarity=0.782 Sum_probs=107.1 Q ss_pred CCCCCCCCCCCCCCEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCC Q ss_conf 65410035555673699983588999997517401342101210020002681112889999985157855499994699 Q gi|254780762|r 70 DPCAICIDQQRDASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISAT 149 (201) Q Consensus 70 ~~C~iC~d~~Rd~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t 149 (201) ++|+||+|++||+++|||||++.|+|+||+||.|+|+||||||+|||++|++|++|++++|++|+ .+++||||||||| T Consensus 1 d~C~IC~d~~Rd~~~lcVVE~~~Di~~iE~s~~y~G~YhVL~g~isp~~gi~p~~l~~~~L~~r~--~~i~EvIlA~s~t 78 (109) T 1vdd_A 1 EKCDVCADPSRDQRTICVVEEPGDVIALERSGEYRGLYHVLHGVLSPMNGVGPDKLHIKPLLPRV--GQGMEVILATGTT 78 (109) T ss_dssp SSCHHHHCSSSCTTEEEEESSHHHHHHTTTTSSCCSEEEECSSCCBGGGTBCTTTSTTGGGGGGC--CTTCEEEECCCSS T ss_pred CCCCCCCCCCCCCCEEEEEECHHHHHHHHHCCHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHH--CCCCEEEEEECCC T ss_conf 77431037777752699995689989998512222104230574473448885201125667762--4776799982698 Q ss_pred CCHHHHHHHHHHHHCCCCCEEEEEECCCCCC Q ss_conf 7868999999998201798088741467488 Q gi|254780762|r 150 IEGQTTAHYIMDKLKGIDVKITRLAYGIPMG 180 (201) Q Consensus 150 ~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G 180 (201) +|||+||+||+++||++++||||||+|||+| T Consensus 79 ~EGe~Ta~yi~~~lk~~~ikvtrlA~GiP~G 109 (109) T 1vdd_A 79 VEGDATALYLQRLLEPLGAAISRIAYGVPVG 109 (109) T ss_dssp HHHHHHHHHHHHHHTTSSCEEEECCBCBCTT T ss_pred CCCHHHHHHHHHHHHHCCCEEEEECCCCCCC T ss_conf 6508999999998423496187602268778 No 2 >>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} (A:1-66) Probab=99.76 E-value=1.4e-18 Score=145.86 Aligned_cols=64 Identities=31% Similarity=0.603 Sum_probs=62.1 Q ss_pred CCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC Q ss_conf 8667999999997568999537999999997199899999999999999851828899973345 Q gi|254780762|r 6 TGKEIENLIKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNKVCLCSICGNVDTT 69 (201) Q Consensus 6 ~~~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~~~i~~C~~C~~l~~~ 69 (201) +|++|++||+.|++|||||+|||+|||||||+++++++.+|+++|.+++++|++|+.|||++|. T Consensus 3 ~p~~i~~LI~~l~~LPGIG~KsA~Rla~~lL~~~~~~~~~l~~~l~~~~~~i~~C~~C~~lses 66 (66) T 1vdd_A 3 YPPSLVSLIRELSRLPGIGPKSAQRLAFHLFEQPREDIERLASALLEAKRDLHVCPICFNITDA 66 (66) T ss_dssp CCHHHHHHHHHHHTSTTCCHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHCEECSSSCCEESS T ss_pred CCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEECCC T ss_conf 9699999999996789988999999999997299999999999999999851989877867256 No 3 >>1mw9_X DNA topoisomerase I; decatenase enzyme, toprim domain; HET: DNA; 1.67A {Escherichia coli} (X:1-32,X:89-156) Probab=96.67 E-value=0.0033 Score=42.58 Aligned_cols=97 Identities=18% Similarity=0.299 Sum_probs=71.4 Q ss_pred CEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHH Q ss_conf 36999835889999975174013421012100200026811128899999851578554999946997868999999998 Q gi|254780762|r 83 SVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYIMDK 162 (201) Q Consensus 83 ~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi~~~ 162 (201) .-+.+||+|+....|.+ |-|--+|... .+|..+. ++.|.+.+ .+.++||+||.|.-|||..+.++.+. T Consensus 3 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~------~~~~kk~-l~~Ikkl~--k~ad~IIiATD~DREGE~Ia~eI~~~ 70 (100) T 1mw9_X 3 KALVIVESPAKAKTINK---YLGSDYVVKS------SVGKEKV-VSELKQLA--EKADHIYLATDLDREGEAIAWHLREV 70 (100) T ss_dssp CEEEEESCHHHHHHHHT---TSCTTEEEEE------CCSCHHH-HHHHHHHH--HTCSEEEECCCSSHHHHHHHHHHHHH T ss_pred CEEEEECCHHHHHHHHH---HHCCCCEEEE------CCCHHHH-HHHHHHHH--HCCCEEEECCCCCCCHHHHHHHHHHH T ss_conf 83999898999999999---8299989995------4677999-99999998--45999998889873353999999999 Q ss_pred HCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC Q ss_conf 2017980887414674882066634799999983064 Q gi|254780762|r 163 LKGIDVKITRLAYGIPMGSELDYLDDGTIFEAIRSRT 199 (201) Q Consensus 163 lk~~~ikitrla~GiP~G~~ley~D~~TL~~Al~~R~ 199 (201) ++..+.++.|+-+ .-+....+.+||++-+ T Consensus 71 ~~~~~k~vkRl~f--------sslT~~~I~~A~~nlr 99 (100) T 1mw9_X 71 IGGDDARYSRVVF--------NEITKNAIRQAFNKPG 99 (100) T ss_dssp HCSCGGGEEECCC--------SSCSHHHHHHHHHSCB T ss_pred HCCCCCCEEEEEE--------CCCCHHHHHHHHHCCC T ss_conf 6689986599996--------6689999999974877 No 4 >>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination, helicase; 1.90A {Escherichia coli} (A:66-144) Probab=96.48 E-value=0.0021 Score=43.89 Aligned_cols=32 Identities=22% Similarity=0.569 Sum_probs=24.1 Q ss_pred CCCHHHHHHH-----HHHHHCCCCCHHHHHHHHHHHH Q ss_conf 6866799999-----9997568999537999999997 Q gi|254780762|r 5 ITGKEIENLI-----KILARIPGFGPRSARRATLHLV 36 (201) Q Consensus 5 ~~~~~l~~LI-----~~l~kLPGIG~KsA~R~a~~Ll 36 (201) +.++.+-+.| ..|+++||||+|+|+||++.|= T Consensus 28 ~~~~el~~aI~~~D~~~L~~ipGIG~KtAerii~eLk 64 (79) T 1cuk_A 28 MSAQQFVNAVEREEVGALVKLPGIGKKTAERLIVEMK 64 (79) T ss_dssp SCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHH T ss_conf 9999999999928999984199988999999999999 No 5 >>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 (A:80-154) Probab=96.34 E-value=0.0029 Score=42.99 Aligned_cols=33 Identities=30% Similarity=0.580 Sum_probs=25.0 Q ss_pred CCCHHHHHHH-----HHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 6866799999-----99975689995379999999971 Q gi|254780762|r 5 ITGKEIENLI-----KILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 5 ~~~~~l~~LI-----~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) +.+.+|-+.| ..|+++||||+|+|+||++.|-. T Consensus 29 ~~~~el~~aI~~~D~~~L~~ipGIG~KtA~rii~ELk~ 66 (75) T 2ztd_A 29 HDAPALRQVLADGNVAALTRVPGIGKRGAERMVLELRD 66 (75) T ss_dssp SCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHTT T ss_pred CCHHHHHHHHHCCCHHHHHCCCCCCHHHHHHHHHHHHC T ss_conf 77677778885368899850888356889999999841 No 6 >>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} (A:) Probab=96.06 E-value=0.0044 Score=41.74 Aligned_cols=24 Identities=33% Similarity=0.509 Sum_probs=21.0 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 999975689995379999999971 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) ++.|+++||||+|+|+|+..+|=. T Consensus 106 ~~~L~~ipGIG~KtA~rIi~eLk~ 129 (191) T 1ixr_A 106 ARLLTSASGVGRRLAERIALELKG 129 (191) T ss_dssp HHHHTTSTTCCHHHHHHHHHHHTT T ss_pred HHHHCCCCCCCHHHHHHHHHHHHH T ss_conf 998513888456889999999986 No 7 >>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} (B:1-29,B:235-251,B:501-675) Probab=95.33 E-value=0.045 Score=34.93 Aligned_cols=54 Identities=20% Similarity=0.273 Sum_probs=44.2 Q ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC Q ss_conf 785549999469978689999999982017980887414674882066634799999983064 Q gi|254780762|r 137 KKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMGSELDYLDDGTIFEAIRSRT 199 (201) Q Consensus 137 ~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G~~ley~D~~TL~~Al~~R~ 199 (201) .++++||+||.+.-|||.-+..|.+.++. ..++.|+=+ .-+....+.+||++.+ T Consensus 167 k~aD~IIiATD~DREGE~I~~eIl~~~~~-~~~v~R~~f--------sslT~~~I~~Af~nlk 220 (221) T 1gku_B 167 HDAEFVIVGTDPDTEGEKIAWDLKNLLSG-CGAVKRAEF--------HEVTRRAILEALESLR 220 (221) T ss_dssp HHHSEEEECCCSSHHHHHHHHHHHHHHTT-SSEEEECCC--------SBCSHHHHHHHHTSCB T ss_pred CCCCEEEEECCCCCCCCHHHHHHHHHHCC-CCHHHHHHH--------HHHHHHHHHHHHHHHH T ss_conf 46708998079887643155568877500-232348888--------8999999999999876 No 8 >>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 (A:111-127,A:196-236) Probab=94.56 E-value=0.041 Score=35.24 Aligned_cols=31 Identities=23% Similarity=0.265 Sum_probs=27.2 Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC Q ss_conf 7999999997568999537999999997199 Q gi|254780762|r 9 EIENLIKILARIPGFGPRSARRATLHLVKKK 39 (201) Q Consensus 9 ~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~ 39 (201) +-+++.+.|.++||||||||+=+.+|=+..+ T Consensus 27 ~~eea~~~L~~i~GIGpwTAdciLLF~L~RP 57 (58) T 3i0w_A 27 NDNECHEELKKFMGVGPQVADCIMLFSMQKY 57 (58) T ss_dssp CHHHHHHHHTTSTTCCHHHHHHHHHHHHCCT T ss_pred CCHHHHHHHHHCCCCHHHHHHHHHHHHCCCC T ss_conf 5446789998268812999999999864898 No 9 >>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, structural genomics, PSI-2, protein structure initiative; 2.55A {Bacillus halodurans} (A:1-49,A:127-233) Probab=94.25 E-value=0.034 Score=35.75 Aligned_cols=34 Identities=24% Similarity=0.373 Sum_probs=29.7 Q ss_pred CHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCH Q ss_conf 6679999999975689995379999999971998 Q gi|254780762|r 7 GKEIENLIKILARIPGFGPRSARRATLHLVKKKE 40 (201) Q Consensus 7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~~ 40 (201) .-.+.+.++.|.+|||||++||.=+..+-++.+. T Consensus 53 ~g~~pe~~~~LlsLPGIGpkTA~~ILlfalgrpd 86 (156) T 2h56_A 53 GAEATTVIEKLTAIKGIGQWTAEXFXXFSLGRLD 86 (156) T ss_dssp TSCHHHHHHHHHTSTTCCHHHHHHHHHHTTCCSC T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCC T ss_conf 6535578888887389787899999985168997 No 10 >>1nui_A DNA primase/helicase; zinc-biding domain, toprim fold, DNA replication, DNA- directed RNA polymerase, primosome, late protein; HET: DNA; 2.90A {Enterobacteria phage T7} (A:138-255) Probab=94.13 E-value=0.17 Score=31.12 Aligned_cols=86 Identities=13% Similarity=0.151 Sum_probs=62.9 Q ss_pred CCCCCCCCEEEEEECHHHHHHHHHHCCEE--EEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHH Q ss_conf 35555673699983588999997517401--3421012100200026811128899999851578554999946997868 Q gi|254780762|r 76 IDQQRDASVIIVVEDVADLWALERSKAVN--ALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQ 153 (201) Q Consensus 76 ~d~~Rd~~~lCVVE~~~Di~~IE~t~~y~--G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe 153 (201) .+.-|+.+.++|||-+.|..++...|.-+ ..+...|+..++ +. +..|.+. ....++||+++...--|+ T Consensus 7 ~~~~~~~~~v~i~EG~~Dals~~~~g~~~~~~~~~~~g~~~~~------~~--~~~l~~~--~~~~~~iii~~DnD~aG~ 76 (118) T 1nui_A 7 KHLWNGGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAK------KT--CAANYEY--FDQFEQIILMFDMDEAGR 76 (118) T ss_dssp GGGCCCBSCCEEESSHHHHHHHHHHHTTCSCEECCTTTTTTHH------HH--HHHTHHH--HTTBSCEEEECCSSHHHH T ss_pred EEECCCCCEEEEECCCHHHHHHHHHHCCCCCCCCCCCCHHHHH------HH--HHHHHHH--HCCCCEEEEECCCCHHHH T ss_conf 2104687669997881369999998426886543676301214------67--7888887--436775999778998999 Q ss_pred HHHHHHHHHHCCCCCEEE Q ss_conf 999999998201798088 Q gi|254780762|r 154 TTAHYIMDKLKGIDVKIT 171 (201) Q Consensus 154 ~Ta~yi~~~lk~~~ikit 171 (201) .-+..+.+.+...++.+. T Consensus 77 ~~~~~~~~~l~~~~~~~~ 94 (118) T 1nui_A 77 KAVEEAAQVLPAGKVRVA 94 (118) T ss_dssp HHHHHHHHHSCTTTEEEC T ss_pred HHHHHHHHHCCCCCEEEE T ss_conf 999999987577879995 No 11 >>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* (A:34-143) Probab=93.94 E-value=0.049 Score=34.71 Aligned_cols=31 Identities=16% Similarity=0.193 Sum_probs=26.7 Q ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHCCH Q ss_conf 9999999975689995379999999971998 Q gi|254780762|r 10 IENLIKILARIPGFGPRSARRATLHLVKKKE 40 (201) Q Consensus 10 l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~~ 40 (201) .++.++.|.+|||||||||.=++.+-+..++ T Consensus 80 ~~~~~~~L~~lpGIG~~tA~~vll~~~g~pe 110 (110) T 3fsp_A 80 VPDDPDEFSRLKGVGPYTVGAVLSLAYGVPE 110 (110) T ss_dssp CCCSHHHHHTSTTCCHHHHHHHHHHHHCCCC T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 9988999951112689999999999715887 No 12 >>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} (A:38-150) Probab=93.88 E-value=0.053 Score=34.48 Aligned_cols=30 Identities=17% Similarity=0.108 Sum_probs=25.0 Q ss_pred CHHHHHHHHHHHHCCCCCHHHHHHHHHHHH Q ss_conf 667999999997568999537999999997 Q gi|254780762|r 7 GKEIENLIKILARIPGFGPRSARRATLHLV 36 (201) Q Consensus 7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll 36 (201) ...-+++.+.|.+|||||||||.=+..|+- T Consensus 80 ~~~~~~~~~~L~~l~GIG~~tA~~~l~f~~ 109 (113) T 3fhf_A 80 ENEKVAREFLVRNIKGIGYKEASHFLRNVG 109 (113) T ss_dssp SSHHHHHHHHHHHSTTCCHHHHHHHHHHTT T ss_pred CCCCCCHHHHHHHCCCCCHHHHHHHHHHHC T ss_conf 688976399998785832999999999967 No 13 >>2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga maritima MSB8} PDB: 2gaj_A* (A:1-35,A:63-127) Probab=93.30 E-value=0.15 Score=31.39 Aligned_cols=95 Identities=22% Similarity=0.271 Sum_probs=64.2 Q ss_pred CEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHH Q ss_conf 36999835889999975174013421012100200026811128899999851578554999946997868999999998 Q gi|254780762|r 83 SVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYIMDK 162 (201) Q Consensus 83 ~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi~~~ 162 (201) ....|||+|.-+..||.. .--.|-|.. ..|-.+ -++.|.+..+ ..+||+||.|.-|||.-+..|.+. T Consensus 6 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~-------~~~kkk-~i~~Lkkl~k---~adIIiATD~DREGE~Ia~eIl~~ 72 (100) T 2gai_A 6 KKYIVVESPAKAKTIKSI--LGNEYEVFA-------SMGKEK-VVEKLKDLAK---KGELLIASDMDREGEAIAWHIARV 72 (100) T ss_dssp -CEEEESCHHHHHHHHHH--HGGGSEEEE-------CCSCHH-HHHHHHHHHH---HSCEEECCCSSHHHHHHHHHHHHH T ss_pred CEEEEECCHHHHHHHHHH--CCCCCEEEE-------ECCHHH-HHHHHHHHHC---CCCEEECCCCCCCCCHHHHHHHHH T ss_conf 579998797999999998--094989996-------146699-9999999846---898999489981520999999998 Q ss_pred HCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC Q ss_conf 2017980887414674882066634799999983064 Q gi|254780762|r 163 LKGIDVKITRLAYGIPMGSELDYLDDGTIFEAIRSRT 199 (201) Q Consensus 163 lk~~~ikitrla~GiP~G~~ley~D~~TL~~Al~~R~ 199 (201) ++. ..++.|+-+ .-+++..+.+||+|.+ T Consensus 73 ~~~-~kpvkRl~f--------sslT~~~I~~A~~nlR 100 (100) T 2gai_A 73 TNT-LGRKNRIVF--------SEITPRVIREAVKNPR 100 (100) T ss_dssp HTC-TTSSCBCCC--------SSCCHHHHHHHHHSCB T ss_pred HCC-CCCEEEEEE--------ECCCHHHHHHHHHCCH T ss_conf 588-898058997--------1079999999996816 No 14 >>1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex, single-stranded DNA, isomerase/DNA complex; HET: DNA; 2.05A {Escherichia coli} (A:1-152) Probab=92.97 E-value=0.17 Score=31.08 Aligned_cols=108 Identities=19% Similarity=0.212 Sum_probs=64.8 Q ss_pred EEEEEECHHHHHHHHHH--CCE---EEE------EEEH--HHHC-C--CCCCC--------------CHHHC------CH Q ss_conf 69998358899999751--740---134------2101--2100-2--00026--------------81112------88 Q gi|254780762|r 84 VIIVVEDVADLWALERS--KAV---NAL------YHVL--GGSL-S--PLDRI--------------GPEDI------GI 127 (201) Q Consensus 84 ~lCVVE~~~Di~~IE~t--~~y---~G~------YhVL--gG~i-s--pl~g~--------------~p~~l------~i 127 (201) +|||+|.|.-..+|.+. +.+ +|. |.|. .|++ . .-++. -|... +- T Consensus 2 kLiIaEKPs~Ak~Ia~~Lg~~~~~~~~~~~~~~~~~v~~~~GHl~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~ 81 (152) T 1i7d_A 2 RLFIAEKPSLARAIADVLPKPHRKGDGFIECGNGQVVTWCIGHLLEQAQPDAYDSRYARWNLADLPIVPEKWQLQPRPSV 81 (152) T ss_dssp EEEEESSHHHHHHHHTTSCSCCEEETTEEEETTTEEEEECSSCSEEECCHHHHCGGGGSCCSTTCSCCCSSCCEEECGGG T ss_pred EEEEECCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCEEEECCCH T ss_conf 79997788999999998487763577750159974999646625338971116631247785327878755537778627 Q ss_pred HHHHHHHC--CCCCCEEEEEECCCCCHHHHHHHHHHHHCC---CCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC Q ss_conf 99999851--578554999946997868999999998201---7980887414674882066634799999983064 Q gi|254780762|r 128 QSLIERIE--VKKIRELIFAISATIEGQTTAHYIMDKLKG---IDVKITRLAYGIPMGSELDYLDDGTIFEAIRSRT 199 (201) Q Consensus 128 ~~L~~ri~--~~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~---~~ikitrla~GiP~G~~ley~D~~TL~~Al~~R~ 199 (201) ...++.++ ..+.++||+||.+.-|||.-+..+.+.++. .+..+.|+=+ .-+....+.+||++.+ T Consensus 82 ~~~~~~lk~~~~~~d~iiiatD~DrEGE~I~~~i~~~~~~~~~~~~~v~R~~f--------ssiT~~~I~~A~~nl~ 150 (152) T 1i7d_A 82 TKQLNVIKRFLHEASEIVHAGDPDREGQLLVDEVLDYLQLAPEKRQQVQRCLI--------NDLNPQAVERAIDRLR 150 (152) T ss_dssp HHHHHHHHHHHHHCSEEEEECCSSHHHHHHHHHHHHHTTCCHHHHHTCEECCC--------SCCSHHHHHHHHTTCE T ss_pred HHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEE--------CCCCHHHHHHHHHCCC T ss_conf 89999999998559989989899813419999999985623347885389996--------1579999999997786 No 15 >>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans} (A:1-118) Probab=92.96 E-value=0.1 Score=32.55 Aligned_cols=58 Identities=16% Similarity=0.041 Sum_probs=42.2 Q ss_pred CHHHHHH-HHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 6679999-999975689995379999999971998999999999999998518288999 Q gi|254780762|r 7 GKEIENL-IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNKVCLCSICG 64 (201) Q Consensus 7 ~~~l~~L-I~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~~~i~~C~~C~ 64 (201) +.++... .+.+.++||||++.|+++.-++-.-.-..+..+-......-.....+.-.| T Consensus 48 ~~~i~~~~~~~l~~lpGIG~~~a~kI~E~l~tG~~~~le~l~~~~~~~l~~l~~i~GiG 106 (118) T 2w9m_A 48 NEETPELLAREFTGIPKVGKGIAAELSDFARSGTFAPLEAAAGQLPPGLLDLLGVRGLG 106 (118) T ss_dssp C----------CCSSTTCCHHHHHHHHHHHHHSSCHHHHHHHHHSCHHHHHHTTSTTCC T ss_pred CCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHCCCHHHHHHHHCCCCCC T ss_conf 82366754988625999878999999999984982889998702517899985789878 No 16 >>2au3_A DNA primase; zinc ribbon, toprim, RNA polymerase, DNA replication, transferase; HET: DNA; 2.00A {Aquifex aeolicus} (A:225-349) Probab=92.41 E-value=0.59 Score=27.41 Aligned_cols=88 Identities=18% Similarity=0.254 Sum_probs=65.0 Q ss_pred CCCCEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHH Q ss_conf 56736999835889999975174013421012100200026811128899999851578554999946997868999999 Q gi|254780762|r 80 RDASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYI 159 (201) Q Consensus 80 Rd~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi 159 (201) ++...++|||-..|.+++-+.+ +.......|+.+++ .. +..| ....++|+|++...-.|+.-+..+ T Consensus 18 ~~~~~v~i~EG~~dals~~~~g-~~~~~~~~g~~~~~------~~--~~~l-----~~~~~~vvi~~D~D~aG~~~a~~~ 83 (125) T 2au3_A 18 KEEGFAILVEGYFDLLRLFSEG-IRNVVAPLGTALTQ------NQ--ANLL-----SKFTKKVYILYDGDDAGRKAMKSA 83 (125) T ss_dssp HHHTCEEECSSHHHHHHHHHTT-CCSEEEESSSSCCH------HH--HHHH-----HTTCSEEEEECCSSHHHHHHHHHH T ss_pred CCCCCEEEECCCHHHHHHHHCC-CCCCCCCCCCCCCH------HH--HHHH-----HHCCCCEEEECCCCHHHHHHHHHH T ss_conf 1344103304623567887618-65533431234336------88--9887-----612772367427867777557887 Q ss_pred HHHHCCCCCEEEEEECCCCCCCCH Q ss_conf 998201798088741467488206 Q gi|254780762|r 160 MDKLKGIDVKITRLAYGIPMGSEL 183 (201) Q Consensus 160 ~~~lk~~~ikitrla~GiP~G~~l 183 (201) .+.+...++++..+- +|-|-+. T Consensus 84 ~~~l~~~~~~~~~~~--~p~~kD~ 105 (125) T 2au3_A 84 IPLLLSAGVEVYPVY--LPEGYDP 105 (125) T ss_dssp HHHHHHTTCEEEEEC--CCTTCCH T ss_pred HHHHHCCCCCEEEEE--CCCCCCH T ss_conf 765402365213665--8999884 No 17 >>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} (A:23-133) Probab=92.21 E-value=0.16 Score=31.29 Aligned_cols=31 Identities=19% Similarity=0.215 Sum_probs=24.8 Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC Q ss_conf 7999999997568999537999999997199 Q gi|254780762|r 9 EIENLIKILARIPGFGPRSARRATLHLVKKK 39 (201) Q Consensus 9 ~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~ 39 (201) ..++..+.|.+|||||||+|.=+..+-+.+| T Consensus 81 ~~~~~~~~L~~l~GIG~~tA~~vll~~~g~P 111 (111) T 2abk_A 81 EVPEDRAALEALPGVGRKTANVVLNTAFGWP 111 (111) T ss_dssp SCCSCHHHHHHSTTCCHHHHHHHHHHHHCCC T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHCCC T ss_conf 1367799999898606359999999985671 No 18 >>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} (A:29-139) Probab=92.15 E-value=0.11 Score=32.32 Aligned_cols=29 Identities=17% Similarity=0.236 Sum_probs=23.7 Q ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHC Q ss_conf 99999999756899953799999999719 Q gi|254780762|r 10 IENLIKILARIPGFGPRSARRATLHLVKK 38 (201) Q Consensus 10 l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~ 38 (201) .++.++.|.+||||||+||.=+..+-+.. T Consensus 82 ~~~~~~~L~~l~GIG~~tA~~~llf~~gr 110 (111) T 1kea_A 82 VPRNRKAILDLPGVGKYTCAAVMCLAFGK 110 (111) T ss_dssp CCSCHHHHHTSTTCCHHHHHHHHHHTTCC T ss_pred CCCHHHHHHCCCCCCHHHHHHHHHHHCCC T ss_conf 97304676508987616899999986388 No 19 >>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} (A:28-137) Probab=92.12 E-value=0.14 Score=31.60 Aligned_cols=31 Identities=19% Similarity=0.250 Sum_probs=25.5 Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC Q ss_conf 7999999997568999537999999997199 Q gi|254780762|r 9 EIENLIKILARIPGFGPRSARRATLHLVKKK 39 (201) Q Consensus 9 ~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~ 39 (201) ..++.++.|.+|||||||||.=+..+=+.+| T Consensus 80 ~~~~~~~~L~~l~GIG~~ta~~~llf~~~~P 110 (110) T 1orn_A 80 EVPRDRDELMKLPGVGRKTANVVVSVAFGVP 110 (110) T ss_dssp SCCSCHHHHTTSTTCCHHHHHHHHHHHHCCC T ss_pred CCCCCHHHHHHCCCCCHHHHHHHHHHHHCCC T ss_conf 8988899997587975258999999985788 No 20 >>2fcj_A Small toprim domain protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 1.30A {Geobacillus stearothermophilus} (A:) Probab=91.81 E-value=1.2 Score=25.47 Aligned_cols=101 Identities=10% Similarity=0.056 Sum_probs=66.5 Q ss_pred CCCCEEEEEECHHHHHHHHHHCCEEEEEEEHHH-HCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHH Q ss_conf 567369998358899999751740134210121-0020002681112889999985157855499994699786899999 Q gi|254780762|r 80 RDASVIIVVEDVADLWALERSKAVNALYHVLGG-SLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHY 158 (201) Q Consensus 80 Rd~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG-~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~y 158 (201) |..+.+-|||-..|++++.+.| |+..=-+++| .++ .+. + +++.|. ....+||+++...--|+.-+.- T Consensus 2 ~k~~~viIVEG~~D~i~l~~~G-~~n~Va~~~gta~~------~~~--l-~~l~~~--~~~~~iil~~D~D~aG~~a~~~ 69 (119) T 2fcj_A 2 RRVEKVIIVEGRSDKQKVAAVL-NEPVVIVCTNGTIS------DAR--L-EELADE--LEGYDVYLLADADEAGEKLRRQ 69 (119) T ss_dssp CCCCEEEEESSHHHHHHHHHHB-SSCCEEEECCSCCC------HHH--H-HHHHHH--TTTSEEEEECCSSHHHHHHHHH T ss_pred CCCCEEEEECCHHHHHHHHHHC-CCCEEECCCCCCCC------HHH--H-HHHHHH--CCCCEEEEEECCCCHHHHHHHH T ss_conf 7289899980889999999818-98869768986373------999--9-999997--0898489984489288999999 Q ss_pred HHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHC Q ss_conf 999820179808874146748820666347999999830 Q gi|254780762|r 159 IMDKLKGIDVKITRLAYGIPMGSELDYLDDGTIFEAIRS 197 (201) Q Consensus 159 i~~~lk~~~ikitrla~GiP~G~~ley~D~~TL~~Al~~ 197 (201) +.+.+. .+++-.+..|-. ..++.+..-+..++.+ T Consensus 70 l~~~l~--~~~~~~~~~~~~---~~~~~~~~d~~e~l~~ 103 (119) T 2fcj_A 70 FRRMFP--EAEHLYIDRAYR---EVAAAPIWHLAQVLLR 103 (119) T ss_dssp HHHHCT--TSEEECCCTTTC---STTTSCHHHHHHHHHH T ss_pred HHHHCC--CCCEEEECCCCC---CHHCCCHHHHHHHHHH T ss_conf 998678--553888546541---0202456789999997 No 21 >>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 (A:157-220) Probab=91.66 E-value=0.22 Score=30.31 Aligned_cols=38 Identities=24% Similarity=0.458 Sum_probs=29.7 Q ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHHH------HHCCHHHHHH Q ss_conf 6799999999756899953799999999------7199899999 Q gi|254780762|r 8 KEIENLIKILARIPGFGPRSARRATLHL------VKKKEQLLGP 45 (201) Q Consensus 8 ~~l~~LI~~l~kLPGIG~KsA~R~a~~L------l~~~~~~~~~ 45 (201) .+.+.++-.|..+||||+++|++++-|. .+.+.+++.+ T Consensus 5 ~~~~~~~~~L~~I~gIG~~~a~~L~~~F~s~~~i~~As~eeL~~ 48 (64) T 2nrt_A 5 REKESLRSVLDNVPGIGPIRKKKLIEHFGSLENIRSASLEEIAR 48 (64) T ss_dssp HHHHHHHHHHTTSTTCCHHHHHHHHHHHCSHHHHHTSCHHHHHH T ss_pred HHHHHHCCHHHCCCCCCHHHHHHHHHHCCCHHHHHCCCHHHHHH T ss_conf 64342015222053107999999999868999997099999986 No 22 >>1t6t_1 Putative protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG, unknown function; 1.80A {Aquifex aeolicus VF5} (1:) Probab=91.46 E-value=0.91 Score=26.15 Aligned_cols=78 Identities=14% Similarity=0.164 Sum_probs=60.6 Q ss_pred CCCEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHH Q ss_conf 67369998358899999751740134210121002000268111288999998515785549999469978689999999 Q gi|254780762|r 81 DASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYIM 160 (201) Q Consensus 81 d~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi~ 160 (201) +.+.+-|||-+.|+.++.+.| |+...-+.|+.+++ .-...+ ...++|||++.+.-.|+.-+.=+. T Consensus 19 ~~~~viIvEG~~Dalsl~~~G-~~~~va~~g~~~~~------------~~~~~l--~~~~~vii~~D~D~~G~~~~~~~~ 83 (118) T 1t6t_1 19 SREAVILVEGKNDKKALSKFS-IKNVIDLSGKRYAD------------VVDXLE--GKWEKVILLFDLDTHGERINQKXK 83 (118) T ss_dssp TTTSEEEESSHHHHHHHHTTT-CCCEEECTTSCHHH------------HHHHHT--TTCSEEEECCCSSHHHHHHHHHHH T ss_pred CCCCEEEEECHHHHHHHHHHC-CHHHHHCCCCCCHH------------HHHHHH--HCCCCEEEEECCCHHHHHHHHHHH T ss_conf 799689981459999999834-12324128875458------------999998--348926998489888999999999 Q ss_pred HHHCCCCCEEEEE Q ss_conf 9820179808874 Q gi|254780762|r 161 DKLKGIDVKITRL 173 (201) Q Consensus 161 ~~lk~~~ikitrl 173 (201) +.|.+.+..+..+ T Consensus 84 ~~l~~~g~D~~~~ 96 (118) T 1t6t_1 84 ELLSSQGFLVDEN 96 (118) T ss_dssp HHHHHTTCEEECH T ss_pred HHHHHCCCEEEHH T ss_conf 9999869944245 No 23 >>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 (A:112-130,A:199-234) Probab=91.46 E-value=0.18 Score=30.82 Aligned_cols=31 Identities=19% Similarity=0.176 Sum_probs=26.4 Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC Q ss_conf 7999999997568999537999999997199 Q gi|254780762|r 9 EIENLIKILARIPGFGPRSARRATLHLVKKK 39 (201) Q Consensus 9 ~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~ 39 (201) +-+++++.|.+++|||+.||+=+..|=|..+ T Consensus 25 ~Deevi~~Lt~IkGIG~WTAem~LmF~LgR~ 55 (55) T 2jhn_A 25 GEEEAYEYLTSFKGIGRWTAELVLSIALGKN 55 (55) T ss_dssp CHHHHHHHHHTSTTCCHHHHHHHHHHTTCCC T ss_pred CCHHHHHHHHHCCCCCHHHHHHHHHHCCCCC T ss_conf 4316788987537828999999998615989 No 24 >>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} (A:1-23,A:110-225) Probab=91.01 E-value=0.2 Score=30.58 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=18.6 Q ss_pred HHHHHCCCCCHHHHHHHHHHHHHCC Q ss_conf 9997568999537999999997199 Q gi|254780762|r 15 KILARIPGFGPRSARRATLHLVKKK 39 (201) Q Consensus 15 ~~l~kLPGIG~KsA~R~a~~Ll~~~ 39 (201) -.|.+|||||+|+|.=+..|-+..+ T Consensus 23 ~eL~~LpGIG~ktAd~Illfa~~~~ 47 (139) T 1kg2_A 23 PEVAALPGVGRSTAGAILSLSLGKH 47 (139) T ss_dssp GHHHTSTTCCHHHHHHHHHHHHCCS T ss_pred CHHHCCCCCCHHHHHHHHHHHCCCC T ss_conf 9986289872789999999844986 No 25 >>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} (B:1-71) Probab=90.36 E-value=0.29 Score=29.51 Aligned_cols=38 Identities=18% Similarity=0.306 Sum_probs=28.2 Q ss_pred HHHHHHHHHHCCCCCHHHHHHHHHH------HHHCCHHHHHHHH Q ss_conf 9999999975689995379999999------9719989999999 Q gi|254780762|r 10 IENLIKILARIPGFGPRSARRATLH------LVKKKEQLLGPLA 47 (201) Q Consensus 10 l~~LI~~l~kLPGIG~KsA~R~a~~------Ll~~~~~~~~~l~ 47 (201) =..+.+.|..+||||+|.|+++.-+ |.+.+.+++.++. T Consensus 13 ~~~~~~~L~~ipGIg~k~~~~Ll~~f~si~~i~~As~eeL~~v~ 56 (71) T 1z00_B 13 NPGPQDFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSIL 56 (71) T ss_dssp CHHHHHHHHTCSSCCHHHHHHHHHHSSCHHHHHHSCHHHHHHHH T ss_pred CCHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHCCHHHHHHCC T ss_conf 20499999808998899999999990799999878999998875 No 26 >>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} (A:) Probab=90.16 E-value=0.26 Score=29.85 Aligned_cols=38 Identities=8% Similarity=0.136 Sum_probs=29.2 Q ss_pred CHHHHHHHHHHHHCCCCCHHHHHHHHHH------HHHCCHHHHH Q ss_conf 6679999999975689995379999999------9719989999 Q gi|254780762|r 7 GKEIENLIKILARIPGFGPRSARRATLH------LVKKKEQLLG 44 (201) Q Consensus 7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~------Ll~~~~~~~~ 44 (201) ...++.++..|..+||||++.|++++-+ +.+.+.+.+. T Consensus 11 ~~~~~~~l~~L~~I~gIG~~~a~~L~~~F~s~~~i~~A~~~~L~ 54 (89) T 1z00_A 11 QDFVSRVTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLA 54 (89) T ss_dssp HHHHHHHHHHHTTSSSCCHHHHHHHHHHTCBHHHHHHCCHHHHH T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHC T ss_conf 78399999986589976999999999990994787665475100 No 27 >>1dd9_A DNA primase, DNAG; toprim, 3-helix bundle, DNA-binding protein, RNA polymerase, replication protein; HET: DNA; 1.60A {Escherichia coli} (A:146-285) Probab=90.15 E-value=1.6 Score=24.44 Aligned_cols=106 Identities=16% Similarity=0.151 Sum_probs=66.1 Q ss_pred CCCCEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHH Q ss_conf 56736999835889999975174013421012100200026811128899999851578554999946997868999999 Q gi|254780762|r 80 RDASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYI 159 (201) Q Consensus 80 Rd~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi 159 (201) +..+.+.|||-..|.+++...|.- -.-...++..++ .. +..|. ...++|++|+...-.|+.-+.-+ T Consensus 16 ~~~~~v~i~EG~~Dals~~~~g~~-~~~~~~~~~~~~------~~--~~~l~-----~~~~~i~i~~D~D~~G~~~~~~~ 81 (140) T 1dd9_A 16 AEPNRLLVVEGYMDVVALAQYGIN-YAVASLGTSTTA------DH--IQLLF-----RATNNVICCYDGDRAGRDAAWRA 81 (140) T ss_dssp SSCSCEEEESSHHHHHHHHHTTCC-CEEECCC-CCCH------HH--HHHHH-----HHCSEEEEEEESSHHHHHHHHHH T ss_pred CCCCCEEEEECHHHHHHHHHCCCC-CCCHHHHCCCHH------HH--HHHHH-----HCCCCEEEEECCCCHHHHHHHHH T ss_conf 556525999557989999871523-440133102117------89--99987-----40774578753662021678858 Q ss_pred HHHHCCCCC-----EEEEEECCCCCCCCHHHHHHHHHHHHHHCCC Q ss_conf 998201798-----0887414674882066634799999983064 Q gi|254780762|r 160 MDKLKGIDV-----KITRLAYGIPMGSELDYLDDGTIFEAIRSRT 199 (201) Q Consensus 160 ~~~lk~~~i-----kitrla~GiP~G~~ley~D~~TL~~Al~~R~ 199 (201) .+.++.... .+..+..|-=.+--+----...+.++|.++. T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~kD~nd~~~~~g~e~~~~~i~~a~ 126 (140) T 1dd9_A 82 LETALPYMTDGRQLRFMFLPDGEDPDTLVRKEGKEAFEARMEQAM 126 (140) T ss_dssp HHHHGGGCCTTCEEEEEEECTTCCHHHHHHHHHHHHHHHHHTTCE T ss_pred HHHHHHHHCCCCEEEEEEECCCCCHHHHHHHCCHHHHHHHHHCCC T ss_conf 998768735997389998058998899988517799999986288 No 28 >>1nnq_A Rubrerythrin; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics, secsg; 2.35A {Pyrococcus furiosus} (A:67-171) Probab=90.05 E-value=0.57 Score=27.54 Aligned_cols=58 Identities=21% Similarity=0.379 Sum_probs=44.5 Q ss_pred CCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH-------CCCCCCCCCCCCCC---CCCCCCCCCC Q ss_conf 9953799999999719989999999999999985-------18288999733456---5410035555 Q gi|254780762|r 23 FGPRSARRATLHLVKKKEQLLGPLAEAMANIYNK-------VCLCSICGNVDTTD---PCAICIDQQR 80 (201) Q Consensus 23 IG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~~~-------i~~C~~C~~l~~~~---~C~iC~d~~R 80 (201) =|-+.|.|.-.++....+.-...+...+..+... .-.|.+||++.+.+ .|++|.-+.- T Consensus 32 eg~~~aA~~F~~~~~vEk~H~~~~~k~~~~~~~~~~~~~~~~~~C~vCGyi~~ge~P~~CPvC~~~~~ 99 (105) T 1nnq_A 32 QGEKEAVRTTHYALEAEKIHAELYRKAKEKAEKGEDIEIKKVYICPICGYTAVDEAPEYCPVCGAPKE 99 (105) T ss_dssp TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCCSCEEECTTTCCEEESCCCSBCTTTCCBGG T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCHH T ss_conf 78799999999999999999999999998765045556778348998939289999997989989666 No 29 >>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} (A:499-568) Probab=89.75 E-value=0.28 Score=29.64 Aligned_cols=25 Identities=28% Similarity=0.371 Sum_probs=21.2 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHHC Q ss_conf 9999756899953799999999719 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHLVKK 38 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~Ll~~ 38 (201) .+.|.+|||||++.|+++.-|--+. T Consensus 9 ~~~L~~lpgig~~~A~~Ii~~R~~~ 33 (70) T 3bzc_A 9 AALLARISGLNSTLAQNIVAHRDAN 33 (70) T ss_dssp HHHHHTSTTCCHHHHHHHHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHHHHHHC T ss_conf 8888660697889999999999966 No 30 >>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} (A:1-49) Probab=89.11 E-value=0.47 Score=28.10 Aligned_cols=30 Identities=23% Similarity=0.209 Sum_probs=25.9 Q ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 679999999975689995379999999971 Q gi|254780762|r 8 KEIENLIKILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 8 ~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) ...+.+...|..+||||+++|++++-|.-. T Consensus 7 r~~~~~~~~L~~I~gVG~~~ak~Ll~~Fgs 36 (49) T 1x2i_A 7 TLAERQRLIVEGLPHVSATLARRLLKHFGS 36 (49) T ss_dssp CHHHHHHHHHTTSTTCCHHHHHHHHHHHCS T ss_pred CHHHHHHHHHCCCCCCCHHHHHHHHHHCCH T ss_conf 899999999858999789999999997062 No 31 >>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} (A:1-119) Probab=88.75 E-value=0.73 Score=26.82 Aligned_cols=39 Identities=18% Similarity=0.238 Sum_probs=31.6 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHH Q ss_conf 999975689995379999999971998999999999999 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMAN 52 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~ 52 (201) .+.+.+|||||++.|+++.-+|-.-.-+.+.++-..... T Consensus 56 ~~~~~~lpgiG~~ia~~I~e~l~tG~~~~le~l~~~~~~ 94 (119) T 2fmp_A 56 GAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTS 94 (119) T ss_dssp HHHHHTSTTCCHHHHHHHHHHHHHSSCHHHHHHHHCHHH T ss_pred HHHHHCCCCCCHHHHHHHHHHHHCCCHHHHHHHHCCCCH T ss_conf 999847999648999999999964865899998733872 No 32 >>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} (A:75-203) Probab=88.69 E-value=0.59 Score=27.44 Aligned_cols=108 Identities=13% Similarity=0.150 Sum_probs=69.6 Q ss_pred CCCCCCEEEEEECHHHHHHHHHHCCEE--EEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHH Q ss_conf 555673699983588999997517401--342101210020002681112889999985157855499994699786899 Q gi|254780762|r 78 QQRDASVIIVVEDVADLWALERSKAVN--ALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTT 155 (201) Q Consensus 78 ~~Rd~~~lCVVE~~~Di~~IE~t~~y~--G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~T 155 (201) .-++.+.++|||...|.+++-..|.-. -.+...|+..++ +. +..+... ....++||+|+...-.|+.- T Consensus 9 ~~~~~~~i~i~EG~~Dalsl~~~g~~~~~~~~~~~g~~~~~------~~--~~~~~~~--~~~~~~ivi~~D~D~aG~~~ 78 (129) T 1q57_A 9 LWNGGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAK------KT--CAANYEY--FDQFEQIILMFDMDEAGRKA 78 (129) T ss_dssp GCSSEEEEEEESSHHHHHHHTTTTTTCSCEEEESSTTTTHH------HH--HHTTHHH--HHTEEEEEEECCSSHHHHHH T ss_pred CCCCCCEEEEECCHHHHHHHHHHCCCCCEEEECCCCCCHHH------HH--HHHHHHH--HCCCCEEEEECCCCHHHHHH T ss_conf 04799989998866899999996588861561575421048------89--9998998--63698799960899899999 Q ss_pred HHHHHHHHCCCCCEEEEEECCCCCCCCHHHH----HHHHHHHHHHCCCC Q ss_conf 9999998201798088741467488206663----47999999830647 Q gi|254780762|r 156 AHYIMDKLKGIDVKITRLAYGIPMGSELDYL----DDGTIFEAIRSRTV 200 (201) Q Consensus 156 a~yi~~~lk~~~ikitrla~GiP~G~~ley~----D~~TL~~Al~~R~~ 200 (201) +..+.+.+...++.+- .|-|.+.+=. ...-+.+++++++. T Consensus 79 a~~~~~~~~~~~~~~~-----~p~~kD~nd~l~~~~~~~~~~~l~~a~~ 122 (129) T 1q57_A 79 VEEAAQVLPAGKVRVA-----VLPCKDANECHLNGHDREIMEQVWNAGP 122 (129) T ss_dssp HHHHHHHSCGGGEEEC-----CCSSSSHHHHHTTSCHHHHHHHHTTCCC T ss_pred HHHHHHHCCCCEEEEE-----ECCCCCCCHHHHHCCCHHHHHHHHHHCC T ss_conf 9999875577559998-----5665687456664231345678775213 No 33 >>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} (A:149-197) Probab=88.22 E-value=0.56 Score=27.58 Aligned_cols=27 Identities=33% Similarity=0.442 Sum_probs=22.4 Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 799999999756899953799999999 Q gi|254780762|r 9 EIENLIKILARIPGFGPRSARRATLHL 35 (201) Q Consensus 9 ~l~~LI~~l~kLPGIG~KsA~R~a~~L 35 (201) .-..+...|..+||||||.|+++.-|. T Consensus 8 ~k~~~~s~L~~IpGIG~k~~~~LL~~F 34 (49) T 2bgw_A 8 VREWQLYILQSFPGIGRRTAERILERF 34 (49) T ss_dssp HHHHHHHHHHTSTTCCHHHHHHHHHHH T ss_pred HHHHHHHHHHCCCCCCHHHHHHHHHHC T ss_conf 889888888535689978999999986 No 34 >>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Probab=87.12 E-value=0.55 Score=27.64 Aligned_cols=21 Identities=19% Similarity=0.243 Sum_probs=18.5 Q ss_pred HHHHHCCCCCHHHHHHHHHHH Q ss_conf 999756899953799999999 Q gi|254780762|r 15 KILARIPGFGPRSARRATLHL 35 (201) Q Consensus 15 ~~l~kLPGIG~KsA~R~a~~L 35 (201) +.|.+|||||++.|++++-|= T Consensus 40 ~eL~~lpgig~~~A~~Ii~~R 60 (98) T 2edu_A 40 RDLRSLQRIGPKKAQLIVGWR 60 (98) T ss_dssp HHHHHSTTCCHHHHHHHHHHH T ss_pred HHHHHCCCCCHHHHHHHHHHH T ss_conf 999757898999999999999 No 35 >>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} (A:) Probab=86.66 E-value=0.41 Score=28.48 Aligned_cols=21 Identities=38% Similarity=0.629 Sum_probs=18.6 Q ss_pred HHHHHHCCCCCHHHHHHHHHH Q ss_conf 999975689995379999999 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLH 34 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~ 34 (201) .+.|.++||||++.|++|+-| T Consensus 26 ~~~L~~lpGig~~~A~~Ii~~ 46 (75) T 2duy_A 26 LEELXALPGIGPVLARRIVEG 46 (75) T ss_dssp HHHHTTSTTCCHHHHHHHHHT T ss_pred HHHHHHCCCCCHHHHHHHHHC T ss_conf 999977789899999999986 No 36 >>1ryq_A DNA-directed RNA polymerase, subunit E''; structural genomics, zinc, PSI, protein structure initiative; 1.38A {Pyrococcus furiosus} (A:) Probab=86.55 E-value=0.53 Score=27.77 Aligned_cols=56 Identities=18% Similarity=0.350 Sum_probs=42.4 Q ss_pred HHHCCCCCCCCCCCCCCCCCCCCC--CCCCCCEEEEEECHHHHHHHHHHCC-EEEEEEE Q ss_conf 985182889997334565410035--5556736999835889999975174-0134210 Q gi|254780762|r 54 YNKVCLCSICGNVDTTDPCAICID--QQRDASVIIVVEDVADLWALERSKA-VNALYHV 109 (201) Q Consensus 54 ~~~i~~C~~C~~l~~~~~C~iC~d--~~Rd~~~lCVVE~~~Di~~IE~t~~-y~G~YhV 109 (201) ....+-|..|+.+.+.+.|++|.. .+-+.+=+.+|-+|.+=|.-...+. ..|.|-+ T Consensus 8 ~~~~rAC~~C~~i~~~~~CpnC~s~~tT~~~~G~i~i~dP~~S~vAk~l~i~~pG~YAl 66 (69) T 1ryq_A 8 GSSEKACRHCHYITSEDRCPVCGSRDLSEEWFDLVIIVDVENSEIAKKIGAKVPGKYAI 66 (69) T ss_dssp ---CEEETTTCBEESSSSCTTTCCCCEESCEEEEEEESCGGGCHHHHHHTCCSCEEEEE T ss_pred CCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHCCCCCCCEEEE T ss_conf 63033575298766888798974987787724089997767889999829998986888 No 37 >>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} (U:48-134) Probab=86.30 E-value=0.26 Score=29.82 Aligned_cols=21 Identities=19% Similarity=0.240 Sum_probs=18.2 Q ss_pred HHHHHHCCCCCHHHHHHHHHH Q ss_conf 999975689995379999999 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLH 34 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~ 34 (201) .+.|.++||||++.|+|++-+ T Consensus 15 ~~~L~~ipGig~~~A~~Iv~~ 35 (87) T 1s5l_U 15 IAAFIQYRGLYPTLAKLIVKN 35 (87) T ss_dssp GGGGGGSTTCTHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHHHHHHHC T ss_conf 999977103469999999982 No 38 >>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} (A:271-340) Probab=85.93 E-value=0.37 Score=28.80 Aligned_cols=28 Identities=14% Similarity=0.329 Sum_probs=20.5 Q ss_pred CHHHHHHHHH--HHHCCCCCHHHHHHHHHH Q ss_conf 6679999999--975689995379999999 Q gi|254780762|r 7 GKEIENLIKI--LARIPGFGPRSARRATLH 34 (201) Q Consensus 7 ~~~l~~LI~~--l~kLPGIG~KsA~R~a~~ 34 (201) |+.+.+++.. ++++||||+|+++|+.-+ T Consensus 2 ~~~~~~~l~~lpi~~i~GIG~~~~~~L~~~ 31 (70) T 1t94_A 2 RQAVMDFIKDLPIRKVSGIGKVTEKMLKAL 31 (70) T ss_dssp HHHHHHHHTTCBGGGCTTSCHHHHHHHHHT T ss_pred HHHHHHHHHHCCCCCCCCCCCCCHHHHHHH T ss_conf 789999997397140257631100454541 No 39 >>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} (A:) Probab=85.65 E-value=0.64 Score=27.18 Aligned_cols=32 Identities=22% Similarity=0.449 Sum_probs=25.4 Q ss_pred HHHHHCCCCCHHHHHHHHHH------HHHCCHHHHHHH Q ss_conf 99975689995379999999------971998999999 Q gi|254780762|r 15 KILARIPGFGPRSARRATLH------LVKKKEQLLGPL 46 (201) Q Consensus 15 ~~l~kLPGIG~KsA~R~a~~------Ll~~~~~~~~~l 46 (201) +.|..+||||++.|++++-+ |.+.+.+++.++ T Consensus 4 s~L~~IpgVG~~~a~~Ll~~f~Si~~i~~As~eeL~~i 41 (63) T 2a1j_A 4 DFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSI 41 (63) T ss_dssp HHHHTSTTCCHHHHHHHHHHCSSHHHHHTCCHHHHHHH T ss_pred HHHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHC T ss_conf 88851999899999999998078999986999999778 No 40 >>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} (A:1-128) Probab=85.10 E-value=0.31 Score=29.28 Aligned_cols=39 Identities=23% Similarity=0.296 Sum_probs=27.4 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHH Q ss_conf 999975689995379999999971998999999999999 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMAN 52 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~ 52 (201) .+.+.+|||||++.|+++.-+|-.-.-+...++-+.... T Consensus 56 ~~~~~~lpgIG~~ia~~I~E~l~tG~~~~le~l~~~~~~ 94 (128) T 2bcq_A 56 YQEACSIPGIGKRMAEKIIEILESGHLRKLDHISESVPV 94 (128) T ss_dssp HHHHHTSTTCCHHHHHHHHHHHHSSSCGGGGGCCTTHHH T ss_pred HHHHHCCCCCCHHHHHHHHHHHHCCCHHHHHHHCCCCCH T ss_conf 999827999648999999999973978888743033661 No 41 >>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A* (A:240-306) Probab=84.98 E-value=0.45 Score=28.23 Aligned_cols=18 Identities=28% Similarity=0.499 Sum_probs=15.6 Q ss_pred HHHCCCCCHHHHHHHHHH Q ss_conf 975689995379999999 Q gi|254780762|r 17 LARIPGFGPRSARRATLH 34 (201) Q Consensus 17 l~kLPGIG~KsA~R~a~~ 34 (201) ++++||||+|+++|+.-. T Consensus 4 i~~i~GVG~~t~~kL~~~ 21 (67) T 2aq4_A 4 LDDLPGVGHSTLSRLEST 21 (67) T ss_dssp GGGSTTCCHHHHHHHHHH T ss_pred CCCHHCCCHHHHHHHHHH T ss_conf 230120278999999987 No 42 >>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} (A:1-154) Probab=84.86 E-value=0.76 Score=26.69 Aligned_cols=50 Identities=10% Similarity=-0.005 Sum_probs=34.2 Q ss_pred HHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHH-HHHHCCCCCCCC Q ss_conf 99975689995379999999971998999999999999-998518288999 Q gi|254780762|r 15 KILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMAN-IYNKVCLCSICG 64 (201) Q Consensus 15 ~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~-~~~~i~~C~~C~ 64 (201) +.+.+|||||++.|+++.-+|-.-.-+.+..+-..... +-.....+.-.| T Consensus 80 ~~l~~lpgIG~~ia~~I~E~l~tG~l~~le~l~~~~~~~~~~~l~~i~GiG 130 (154) T 1jms_A 80 KDTEGIPCLGDKVKSIIEGIIEDGESSEAKAVLNDERYKSFKLFTSVFGVG 130 (154) T ss_dssp GGGTTCSSCCHHHHHHHHHHHHHSSCHHHHHHHHCHHHHHHHHHHTSTTCC T ss_pred HHHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHHCCCCC T ss_conf 998379996499999999999969889899987266530788888567879 No 43 >>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus} (A:1-129) Probab=83.62 E-value=0.95 Score=26.04 Aligned_cols=35 Identities=20% Similarity=0.172 Sum_probs=28.7 Q ss_pred HHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHH Q ss_conf 99975689995379999999971998999999999 Q gi|254780762|r 15 KILARIPGFGPRSARRATLHLVKKKEQLLGPLAEA 49 (201) Q Consensus 15 ~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~ 49 (201) +.+.+|||||++.|+++.-+|-.-.-..+..+-+. T Consensus 61 ~~~~~lpgIG~~ia~~I~E~l~tG~~~~le~l~~~ 95 (129) T 2ihm_A 61 SQLHGLPYFGEHSTRVIQELLEHGTCEEVKQVRCS 95 (129) T ss_dssp GGGTTCTTCCHHHHHHHHHHHHHSCCHHHHHHHHS T ss_pred HHHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHH T ss_conf 99835999778999999999970988999988632 No 44 >>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} (A:) Probab=83.51 E-value=0.31 Score=29.31 Aligned_cols=29 Identities=17% Similarity=0.201 Sum_probs=23.4 Q ss_pred CHHHHHHHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 66799999999756899953799999999 Q gi|254780762|r 7 GKEIENLIKILARIPGFGPRSARRATLHL 35 (201) Q Consensus 7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~L 35 (201) ..+.+.++.+|..+||||+++|++++-+. T Consensus 16 ~~~~~~~~~~L~~I~gIG~~~a~~L~~~F 44 (78) T 1kft_A 16 PRGSHMNTSSLETIEGVGPKRRQMLLKYM 44 (78) T ss_dssp -------CCGGGGCTTCSSSHHHHHHHHH T ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHC T ss_conf 57412032846569994799999999990 No 45 >>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} (A:) Probab=83.32 E-value=1.3 Score=25.06 Aligned_cols=28 Identities=25% Similarity=0.369 Sum_probs=22.4 Q ss_pred CHHHHHHHHHHHHCCCCCHHHHHHHHHH Q ss_conf 6679999999975689995379999999 Q gi|254780762|r 7 GKEIENLIKILARIPGFGPRSARRATLH 34 (201) Q Consensus 7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~ 34 (201) .+.-.++-..|.++||||||+|.++.-+ T Consensus 64 ~~~er~~F~~L~~V~GIGpk~Al~iL~~ 91 (191) T 1ixr_A 64 DEENLALFELLLSVSGVGPKVALALLSA 91 (191) T ss_dssp SHHHHHHHHHHHSSSCCCHHHHHHHHHH T ss_pred CHHHHHHHHHHHCCCCCCHHHHHHHHHC T ss_conf 2899999999857588477889999855 No 46 >>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* (A:304-377) Probab=82.83 E-value=1.1 Score=25.70 Aligned_cols=22 Identities=5% Similarity=0.052 Sum_probs=14.7 Q ss_pred HHHHHHCCCCCHHHHHHHHHHH Q ss_conf 9999756899953799999999 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHL 35 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~L 35 (201) -..|..+||||++.|++++-+. T Consensus 11 ~~~L~~I~giG~~~a~~L~~~f 32 (74) T 3c1y_A 11 YRLLKTVARIPLSIGYNVVRMF 32 (74) T ss_dssp HHHHHHTSCCCHHHHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHHHH T ss_conf 8887339999899999999985 No 47 >>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* 3a0b_U* 3a0h_U* (U:) Probab=82.74 E-value=0.5 Score=27.93 Aligned_cols=21 Identities=14% Similarity=0.157 Sum_probs=17.6 Q ss_pred HHHHHCCCCCHHHHHHHHHHH Q ss_conf 999756899953799999999 Q gi|254780762|r 15 KILARIPGFGPRSARRATLHL 35 (201) Q Consensus 15 ~~l~kLPGIG~KsA~R~a~~L 35 (201) +.|.++||||++.|++|+-|= T Consensus 33 ~~L~~ipGig~~~A~~Iv~~g 53 (104) T 3bz1_U 33 AAFIQYRGLYPTLAKLIVKNA 53 (104) T ss_dssp GGGGGSTTTTHHHHHHHHHSC T ss_pred HHHHHCCCCCHHHHHHHHHCC T ss_conf 999777586999999999708 No 48 >>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} (A:) Probab=81.86 E-value=1.1 Score=25.69 Aligned_cols=22 Identities=23% Similarity=0.463 Sum_probs=19.2 Q ss_pred HHHHHHCCCCCHHHHHHHHHHH Q ss_conf 9999756899953799999999 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHL 35 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~L 35 (201) .+.|.++||||++.|+++.-|| T Consensus 55 ~eeL~~v~gIG~~~A~~I~~~l 76 (78) T 1kft_A 55 VEEIAKVPGISQGLAEKIFWSL 76 (78) T ss_dssp HHHHTTSSSTTSHHHHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHHHH T ss_conf 9999738998999999999997 No 49 >>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* (A:304-377) Probab=81.59 E-value=1.2 Score=25.44 Aligned_cols=24 Identities=21% Similarity=0.441 Sum_probs=20.7 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 999975689995379999999971 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) .+.|..+||||++.|+.+.-|+=+ T Consensus 43 ~~~L~~v~GiG~~~A~~i~~~~~~ 66 (74) T 3c1y_A 43 VEDLKKVEGIGEKRARAISESISS 66 (74) T ss_dssp HHHHTTSTTCCHHHHHHHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHHHHHH T ss_conf 988854478469999999999999 No 50 >>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus} (A:) Probab=81.37 E-value=1.4 Score=24.88 Aligned_cols=25 Identities=24% Similarity=0.178 Sum_probs=20.1 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHHC Q ss_conf 9999756899953799999999719 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHLVKK 38 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~Ll~~ 38 (201) ...+..|||||+|.|.++--+|-.- T Consensus 57 ~~~l~~lpgiG~~ia~kI~e~l~tg 81 (87) T 2kp7_A 57 GKEAKILQHFGDRLCRMLDEKLKQH 81 (87) T ss_dssp HHHHHTCTTTCHHHHHHHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHHHHHHH T ss_conf 9998738998789999999999999 No 51 >>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanococcus jannaschii} (A:210-274) Probab=79.55 E-value=0.97 Score=25.98 Aligned_cols=18 Identities=17% Similarity=0.187 Sum_probs=14.3 Q ss_pred HHHCCCCCHHHHHHHHHH Q ss_conf 975689995379999999 Q gi|254780762|r 17 LARIPGFGPRSARRATLH 34 (201) Q Consensus 17 l~kLPGIG~KsA~R~a~~ 34 (201) +.-+||||||+|.++.-. T Consensus 18 ipGV~GIGpKtA~~li~~ 35 (65) T 1a76_A 18 PGGVKGIGFKRAYELVRS 35 (65) T ss_dssp TTTTTTCCHHHHHHHHHH T ss_pred CCCCCCEEHHHHHHHHHH T ss_conf 555685629999999997 No 52 >>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase/DNA complex; 2.00A {Archaeoglobus fulgidus} (A:221-288) Probab=77.26 E-value=1.3 Score=25.23 Aligned_cols=18 Identities=17% Similarity=0.152 Sum_probs=14.6 Q ss_pred HHHCCCCCHHHHHHHHHH Q ss_conf 975689995379999999 Q gi|254780762|r 17 LARIPGFGPRSARRATLH 34 (201) Q Consensus 17 l~kLPGIG~KsA~R~a~~ 34 (201) +.-+||||+|+|.++.-. T Consensus 17 ~pGV~GIG~ktA~~li~~ 34 (68) T 1rxw_A 17 NEGVKGVGVKKALNYIKT 34 (68) T ss_dssp BCCCTTCCHHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHH T ss_conf 589999578999999999 No 53 >>3fbl_A Putative uncharacterized protein; AFV1, archaeal virus, extremophiles, lipothrixviridae, structural protein, DNA-binding protein; 1.95A {Acidianus filamentous virus 1} (A:) Probab=77.18 E-value=1.8 Score=24.10 Aligned_cols=35 Identities=14% Similarity=0.266 Sum_probs=30.5 Q ss_pred CCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 66686679999999975689995379999999971 Q gi|254780762|r 3 KKITGKEIENLIKILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 3 ~~~~~~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) ++|..+.+++.|.+|+.-.||...+||++|-|+-. T Consensus 46 sdmiaeyinnaisafssrtgisqetaqkiadfits 80 (82) T 3fbl_A 46 SDMIAEYINNAISAFSSRTGISQETAQKIADFITS 80 (82) T ss_dssp HHHHHHHHHHHHHHHHTSTTCCHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHC T ss_conf 78999999889998760246449999999998723 No 54 >>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase/DNA complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} (A:183-237) Probab=76.52 E-value=1.4 Score=24.99 Aligned_cols=26 Identities=19% Similarity=0.250 Sum_probs=18.2 Q ss_pred CCCCCHHHHHHHHHH-------HHHCCHHHHHH Q ss_conf 689995379999999-------97199899999 Q gi|254780762|r 20 IPGFGPRSARRATLH-------LVKKKEQLLGP 45 (201) Q Consensus 20 LPGIG~KsA~R~a~~-------Ll~~~~~~~~~ 45 (201) +||||+++++|+.-+ |.+.+.+.+.. T Consensus 1 i~GIG~~t~~kL~~~GI~ti~dl~~~~~~~L~~ 33 (55) T 1jx4_A 1 VPGIGNITAEKLKKLGINKLVDTLSIEFDKLKG 33 (55) T ss_dssp STTCCHHHHHHHHTTTCCBGGGGGSSCHHHHHH T ss_pred CCCCCHHHHHHHHHHCCCCCHHCCCCCHHHHHH T ss_conf 259966799999984896823121379999998 No 55 >>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerization motif; HET: DNA; 2.85A {Pyrococcus furiosus} (A:1-95) Probab=76.41 E-value=1.7 Score=24.30 Aligned_cols=29 Identities=21% Similarity=0.384 Sum_probs=16.5 Q ss_pred HHHCCCCCHHHHHHHHHH-------HHHCCHHHHHH Q ss_conf 975689995379999999-------97199899999 Q gi|254780762|r 17 LARIPGFGPRSARRATLH-------LVKKKEQLLGP 45 (201) Q Consensus 17 l~kLPGIG~KsA~R~a~~-------Ll~~~~~~~~~ 45 (201) +..+||||++.|++++-+ |...+.+.+.+ T Consensus 37 ll~I~gIG~~~a~~L~~~~~~s~e~i~~As~e~L~~ 72 (95) T 1pzn_A 37 IEDLPGVGPATAEKLREAGYDTLEAIAVASPIELKE 72 (95) T ss_dssp SSCCTTCCHHHHHHHHTTTCCSHHHHHTCCHHHHHH T ss_pred HHHCCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHH T ss_conf 643799799999999985997199998289999997 No 56 >>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} (A:182-261) Probab=76.28 E-value=1.4 Score=24.94 Aligned_cols=18 Identities=11% Similarity=0.309 Sum_probs=14.3 Q ss_pred HHHCCCCCHHHHHHHHHH Q ss_conf 975689995379999999 Q gi|254780762|r 17 LARIPGFGPRSARRATLH 34 (201) Q Consensus 17 l~kLPGIG~KsA~R~a~~ 34 (201) +.-+||||||+|.++.-. T Consensus 24 ipGV~GIG~ktA~~Li~~ 41 (80) T 1exn_A 24 IRGVEGIGAKRGYNIIRE 41 (80) T ss_dssp BCCCTTCCHHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHH T ss_conf 899997679999999999 No 57 >>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics; HET: DNA; NMR {Homo sapiens} (A:) Probab=76.24 E-value=1.4 Score=24.95 Aligned_cols=50 Identities=8% Similarity=-0.018 Sum_probs=31.2 Q ss_pred HHHHCCCCCHHHHHHHHHH-------HHHCCHHHHHH-------HHHHHHHHHHHCCCCCCCCC Q ss_conf 9975689995379999999-------97199899999-------99999999985182889997 Q gi|254780762|r 16 ILARIPGFGPRSARRATLH-------LVKKKEQLLGP-------LAEAMANIYNKVCLCSICGN 65 (201) Q Consensus 16 ~l~kLPGIG~KsA~R~a~~-------Ll~~~~~~~~~-------l~~~l~~~~~~i~~C~~C~~ 65 (201) .+..+||||+++|+|+.-. |...+.+.+.. .+..+......+.....+.. T Consensus 26 ~l~~i~GVG~~~~~~L~~~Gi~Tv~~la~~~~~~L~~i~G~~~~~a~~i~~~ar~~~~~~~~~~ 89 (114) T 1b22_A 26 SRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVPMGFTTA 89 (114) T ss_dssp HHHHHTTCSHHHHHHHHTTCCSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHHHHHSCCC---- T ss_pred HHHHHCCCCHHHHHHHHHCCCCHHHHHHHCCHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCH T ss_conf 9997689998999999996985399998589999986206369999999999998668775509 No 58 >>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} (A:219-300) Probab=74.97 E-value=1.6 Score=24.56 Aligned_cols=18 Identities=28% Similarity=0.399 Sum_probs=14.7 Q ss_pred HHHCCCCCHHHHHHHHHH Q ss_conf 975689995379999999 Q gi|254780762|r 17 LARIPGFGPRSARRATLH 34 (201) Q Consensus 17 l~kLPGIG~KsA~R~a~~ 34 (201) +.-+||||+|+|.++.-. T Consensus 18 i~GV~GiG~ktA~~li~~ 35 (82) T 2izo_A 18 PDGIRGIGPERALKIIKK 35 (82) T ss_dssp TTCSTTCCHHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHH T ss_conf 334799448899999998 No 59 >>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication; 2.00A {Pyrococcus furiosus} (A:212-288) Probab=72.46 E-value=2 Score=23.90 Aligned_cols=17 Identities=24% Similarity=0.255 Sum_probs=13.6 Q ss_pred HHHCCCCCHHHHHHHHH Q ss_conf 97568999537999999 Q gi|254780762|r 17 LARIPGFGPRSARRATL 33 (201) Q Consensus 17 l~kLPGIG~KsA~R~a~ 33 (201) +..+||||+|+|-++.- T Consensus 28 i~GV~GiG~ktA~kli~ 44 (77) T 1b43_A 28 PGGIKGIGLKKALEIVR 44 (77) T ss_dssp TTCSTTCCHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHH T ss_conf 56589624999999999 No 60 >>1wcn_A Transcription elongation protein NUSA; RNA-binding protein, escherichia coli NUSA, transcription regulation, regulation of RNA binding; NMR {Escherichia coli} PDB: 2jzb_B (A:) Probab=69.73 E-value=3.1 Score=22.55 Aligned_cols=20 Identities=15% Similarity=0.107 Sum_probs=12.4 Q ss_pred HHHHHCCCCCHHHHHHHHHH Q ss_conf 99975689995379999999 Q gi|254780762|r 15 KILARIPGFGPRSARRATLH 34 (201) Q Consensus 15 ~~l~kLPGIG~KsA~R~a~~ 34 (201) +.|..+||||++.|+++.-. T Consensus 7 ~~L~~i~Gig~~~a~~L~~a 26 (70) T 1wcn_A 7 DDLLNLEGVDRDLAFKLAAR 26 (70) T ss_dssp HHHHSSTTCCHHHHHHHHTT T ss_pred HHHHHCCCCCHHHHHHHHHC T ss_conf 89981789899999999996 No 61 >>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A (A:) Probab=68.89 E-value=2.6 Score=23.13 Aligned_cols=26 Identities=15% Similarity=0.183 Sum_probs=19.3 Q ss_pred HHHHCCCCCHHHHHHHHHHHHHCCHH Q ss_conf 99756899953799999999719989 Q gi|254780762|r 16 ILARIPGFGPRSARRATLHLVKKKEQ 41 (201) Q Consensus 16 ~l~kLPGIG~KsA~R~a~~Ll~~~~~ 41 (201) .|+.||+|||++++.+.--=+...++ T Consensus 5 ~l~~LPNiG~~~e~~L~~iGI~tv~~ 30 (93) T 3bqs_A 5 NLSELPNIGKVLEQDLIKAGIKTPVE 30 (93) T ss_dssp CGGGSTTCCHHHHHHHHHTTCCSHHH T ss_pred HHHHCCCCCHHHHHHHHHCCCCCHHH T ss_conf 78568999999999999839998999 No 62 >>2apo_B Ribosome biogenesis protein NOP10; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} (B:) Probab=67.08 E-value=1.7 Score=24.26 Aligned_cols=29 Identities=17% Similarity=0.415 Sum_probs=24.5 Q ss_pred HHHHCCCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 99851828899973345654100355556 Q gi|254780762|r 53 IYNKVCLCSICGNVDTTDPCAICIDQQRD 81 (201) Q Consensus 53 ~~~~i~~C~~C~~l~~~~~C~iC~d~~Rd 81 (201) .+..|..|+.|+.+|-.+.|+-|-.+... T Consensus 2 Mk~~irkC~~c~~YTLk~~cP~cG~~T~~ 30 (60) T 2apo_B 2 VEXRXKKCPKCGLYTLKEICPKCGEKTVI 30 (60) T ss_dssp -CCCCEECTTTCCEESSSBCSSSCSBCBC T ss_pred CHHHHHHCCCCCCEECCCCCCCCCCCCCC T ss_conf 27666518745543256637778887576 No 63 >>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} (X:1-14,X:218-292) Probab=65.65 E-value=3.3 Score=22.36 Aligned_cols=18 Identities=28% Similarity=0.427 Sum_probs=14.3 Q ss_pred HHHCCCCCHHHHHHHHHH Q ss_conf 975689995379999999 Q gi|254780762|r 17 LARIPGFGPRSARRATLH 34 (201) Q Consensus 17 l~kLPGIG~KsA~R~a~~ 34 (201) +..+||||+|+|.++.-. T Consensus 31 ~pGV~GIG~KtA~kLI~~ 48 (89) T 1ul1_X 31 CESIRGIGPKRAVDLIQK 48 (89) T ss_dssp SCCCTTCCHHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHH T ss_conf 355788569999999998 No 64 >>2exu_A Transcription initiation protein SPT4/SPT5; helixs surrounding beta sheet; 2.23A {Saccharomyces cerevisiae} (A:1-91) Probab=65.42 E-value=1.6 Score=24.58 Aligned_cols=55 Identities=20% Similarity=0.457 Sum_probs=41.3 Q ss_pred HHCCCCCCCCCCCCC-----CCCCCCCC------------CCCCCCEEEEEECHHHHHHHHHHCC---EEEEEEE Q ss_conf 851828899973345-----65410035------------5556736999835889999975174---0134210 Q gi|254780762|r 55 NKVCLCSICGNVDTT-----DPCAICID------------QQRDASVIIVVEDVADLWALERSKA---VNALYHV 109 (201) Q Consensus 55 ~~i~~C~~C~~l~~~-----~~C~iC~d------------~~Rd~~~lCVVE~~~Di~~IE~t~~---y~G~YhV 109 (201) .+.+-|..|+.+.+. +.|+.|.+ .+-+.+=+.+|-+|.+=|.-...+. ..|.|-+ T Consensus 2 k~lrAC~~C~~I~t~~qF~~~gCpnC~~~~~~~~~~v~~~tT~~f~G~i~i~dP~~SwvAk~l~i~~~vpG~YAi 76 (91) T 2exu_A 2 SSERACMLCGIVQTTNEFNRDGCPNCQGIFEEAGVSTMECTSPSFEGLVGMCKPTKSWVAKWLSVDHSIAGMYAI 76 (91) T ss_dssp -CEEEETTTCBEEEHHHHHHHCCTTTHHHHHHHTCCSGGGEESCEEEEEEESCTTTCHHHHHTTCTTSCSEEEEE T ss_pred CCCCHHHHCCCCCCHHHHCCCCCCCCCCHHCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHCCCCCCCCEEEE T ss_conf 747155519953024253137999970011036665444567261648999676273999985788778865899 No 65 >>3h7h_A Transcription elongation factor SPT4; helices surrounding beta sheet, activator, metal-binding, nucleus, repressor, transcription regulation, zinc; 1.55A {Homo sapiens} (A:1-95) Probab=64.93 E-value=2 Score=23.89 Aligned_cols=55 Identities=24% Similarity=0.434 Sum_probs=39.2 Q ss_pred HHCCCCCCCCCCCCC-----CCCCCCC--------------CCCCCCCEEEEEECHHHHHHHHHHCC---EEEEEEE Q ss_conf 851828899973345-----6541003--------------55556736999835889999975174---0134210 Q gi|254780762|r 55 NKVCLCSICGNVDTT-----DPCAICI--------------DQQRDASVIIVVEDVADLWALERSKA---VNALYHV 109 (201) Q Consensus 55 ~~i~~C~~C~~l~~~-----~~C~iC~--------------d~~Rd~~~lCVVE~~~Di~~IE~t~~---y~G~YhV 109 (201) .+.+-|..|+.+.+. +.|++|. ..+-+.+=+.++-+|.+=|.-...+. -.|.|-| T Consensus 14 r~lrAC~~C~~I~t~~qF~~~gCpnC~~~l~~~~~~~~v~~~tT~~f~G~i~i~dP~~SwvAk~l~i~~~vpG~YAi 90 (95) T 3h7h_A 14 RHLRACLLCSLVKTIDQFEYDGCDNCDAYLQMKGNREMVYDCTSSSFDGIIAMMSPEDSWVSKWQRVSNFKPGVYAV 90 (95) T ss_dssp TTEEEETTTCBEEEHHHHHHHCCTTTHHHHCCTTCHHHHHHHEESCEEEEEEESCGGGCHHHHHTTCTTSCSEEEEE T ss_pred CCCHHHHCCCCEECHHHHHHCCCCCCHHHHCCCCCHHHHEECCCCCCCEEEEEECCCCCHHHHHHCCCCCCCCEEEE T ss_conf 22435520871304999956499870777427887536104346663337999568423899986456778974898 No 66 >>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structural genomics, PSI; NMR {Pyrococcus furiosus dsm 3638} (A:) Probab=58.06 E-value=6 Score=20.65 Aligned_cols=60 Identities=20% Similarity=0.291 Sum_probs=39.9 Q ss_pred HHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH----CCCCCCCCCCCCC-----CCCCCCCCCCCCC Q ss_conf 99756899953799999999719989999999999999985----1828899973345-----6541003555567 Q gi|254780762|r 16 ILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNK----VCLCSICGNVDTT-----DPCAICIDQQRDA 82 (201) Q Consensus 16 ~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~~~----i~~C~~C~~l~~~-----~~C~iC~d~~Rd~ 82 (201) .|++.=||+++.+++-+|. .+..+++++..-... =-.|..||+.-.+ .-|+-|.++.=+. T Consensus 29 ela~~l~i~~~~~ek~Vy~-------hLeHIaksl~r~g~~L~v~Pp~C~~CGf~F~d~~~kPsRCP~CkSe~Iee 97 (105) T 2gmg_A 29 ELARILDMRGKGSKKVILE-------DLKVISKIAKREGMVLLIKPAQCRKCGFVFKAEINIPSRCPKCKSEWIEE 97 (105) T ss_dssp HHHHSSCCCSSCCHHHHHH-------HHHHHHHHHTTTTEEEEECCCBBTTTCCBCCCCSSCCSSCSSSCCCCBCC T ss_pred HHHHHHCCCCCCCHHHHHH-------HHHHHHHHHHCCCCEEEEECHHHCCCCCEECCCCCCCCCCCCCCCCCCCC T ss_conf 9999963345440889999-------99999998860897699868312207777267789999899988726359 No 67 >>1ci4_A Protein (barrier-TO-autointegration factor (BAF) ); DNA binding protein, retroviral integration, preintegration complex; 1.90A {Homo sapiens} (A:) Probab=56.85 E-value=14 Score=18.08 Aligned_cols=32 Identities=19% Similarity=0.400 Sum_probs=23.7 Q ss_pred HHHCCCCCHHHHHHHH-------------HHHHHCCHHHHHHHHH Q ss_conf 9756899953799999-------------9997199899999999 Q gi|254780762|r 17 LARIPGFGPRSARRAT-------------LHLVKKKEQLLGPLAE 48 (201) Q Consensus 17 l~kLPGIG~KsA~R~a-------------~~Ll~~~~~~~~~l~~ 48 (201) ...|||||+.-++|+. |-+++.+++..++-.. T Consensus 20 V~~l~GIg~~lg~~L~~kGfdKAyvvLGqfLvl~kde~~F~~Wlk 64 (89) T 1ci4_A 20 VGSLAGIGEVLGKKLEERGFDKAYVVLGQFLVLKKDEDLFREWLK 64 (89) T ss_dssp GGGSTTCCHHHHHHHHHTTCCSHHHHHHHHHHTTTCHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHH T ss_conf 451688638998899984853999999999982774999999999 No 68 >>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} (A:) Probab=56.76 E-value=7.3 Score=20.10 Aligned_cols=34 Identities=18% Similarity=0.224 Sum_probs=24.4 Q ss_pred HHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHH Q ss_conf 9997568999537999999997199899999999 Q gi|254780762|r 15 KILARIPGFGPRSARRATLHLVKKKEQLLGPLAE 48 (201) Q Consensus 15 ~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~ 48 (201) ..|..+||||++.|+++.-+=-+.+=....+|.+ T Consensus 132 ~~L~~I~GiG~~~a~~Iie~Re~g~F~S~eDl~~ 165 (205) T 2i5h_A 132 HQLELLPGVGKKMMWAIIEERKKRPFESFEDIAQ 165 (205) T ss_dssp BGGGGSTTCCHHHHHHHHHHHHHSCCCSHHHHHH T ss_pred HHHHHCCCCCHHHHHHHHHHHCCCCCCCHHHHHH T ss_conf 9887444515899999999975489889999998 No 69 >>2aus_D NOP10, ribosome biogenesis protein NOP10; isomerase, structural protein, isomerase/structural protein complex; 2.10A {Pyrococcus abyssi} PDB: 3hax_C* 2hvy_C* 3hay_C* 2ey4_E 3hjw_B* 2rfk_B* 3hjy_B (D:) Probab=56.34 E-value=4.7 Score=21.37 Aligned_cols=28 Identities=18% Similarity=0.610 Sum_probs=23.5 Q ss_pred HHHCCCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 9851828899973345654100355556 Q gi|254780762|r 54 YNKVCLCSICGNVDTTDPCAICIDQQRD 81 (201) Q Consensus 54 ~~~i~~C~~C~~l~~~~~C~iC~d~~Rd 81 (201) +..+..|+.|+.+|-.+.|+.|-.+... T Consensus 2 ~~~ir~c~~c~~YTLk~~cP~cG~~t~~ 29 (60) T 2aus_D 2 RFRIRKCPKCGRYTLKETCPVCGEKTKV 29 (60) T ss_dssp --CCEECTTTCCEESSSBCTTTCSBCEE T ss_pred CHHHHHCCCCCCEECCCCCCCCCCCCCC T ss_conf 0576518625654234537677883576 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 (m:1-88) Probab=53.31 E-value=12 Score=18.54 Aligned_cols=40 Identities=18% Similarity=0.158 Sum_probs=28.3 Q ss_pred HHHHHHHHCCCCCHHHHHHHHHHHHHC--------CHHHHHHHHHHHH Q ss_conf 999999756899953799999999719--------9899999999999 Q gi|254780762|r 12 NLIKILARIPGFGPRSARRATLHLVKK--------KEQLLGPLAEAMA 51 (201) Q Consensus 12 ~LI~~l~kLPGIG~KsA~R~a~~Ll~~--------~~~~~~~l~~~l~ 51 (201) .+.-+|+.+-|||+++|.++...+=-. .++.+..+.+.|. T Consensus 25 ~i~~ALt~I~GIG~~~A~~Ic~~lgi~~~~k~~~Lt~~qi~~l~~~i~ 72 (88) T 2zkq_m 25 KIAFAITAIKGVGRRYAHVVLRKADIDLTKRAGELTEDEVERVITIMQ 72 (88) T ss_dssp BHHHHGGGSTTCCHHHHHHHHHHHTCCTTSBTTTSCHHHHHHHHHHHH T ss_pred EEEEEHHCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHH T ss_conf 873603024662899999999982999543336399999999999984 No 71 >>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus} (A:) Probab=51.35 E-value=3.8 Score=21.97 Aligned_cols=22 Identities=5% Similarity=-0.005 Sum_probs=10.1 Q ss_pred EEEECCCCCHHHHHHHHHHHHC Q ss_conf 9994699786899999999820 Q gi|254780762|r 143 IFAISATIEGQTTAHYIMDKLK 164 (201) Q Consensus 143 IlA~~~t~EGe~Ta~yi~~~lk 164 (201) .++++-.-=|..||--|.+.+. T Consensus 173 ~~~~~I~~IG~~~a~~Ll~~Fg 194 (226) T 3c65_A 173 SVLDDIPGVGEKRKKALLNYFG 194 (226) T ss_dssp ---------------------- T ss_pred CHHHHHHHHCHHHHHHHHHHCC T ss_conf 7688998747999999999858 No 72 >>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans} (A:119-241) Probab=50.95 E-value=16 Score=17.85 Aligned_cols=57 Identities=26% Similarity=0.328 Sum_probs=34.3 Q ss_pred HHHHHHHH-----HHHCCCCCHHHHHHHHHHHH--H-----CCHHHHHHHHHHHHHHHHHCCCCCCCCCC Q ss_conf 79999999-----97568999537999999997--1-----99899999999999999851828899973 Q gi|254780762|r 9 EIENLIKI-----LARIPGFGPRSARRATLHLV--K-----KKEQLLGPLAEAMANIYNKVCLCSICGNV 66 (201) Q Consensus 9 ~l~~LI~~-----l~kLPGIG~KsA~R~a~~Ll--~-----~~~~~~~~l~~~l~~~~~~i~~C~~C~~l 66 (201) ++++|-.+ ++.|||+|.|+.+++-.-|- + .+-..+..+++.+...-..+. ...||.+ T Consensus 2 tleeL~~a~~~~~i~~l~gfG~K~~~~il~gl~~~~~~~~ri~~~ea~~~a~~i~~~l~~~~-~~~~GS~ 70 (123) T 2w9m_A 2 SLERLREAAESGELAGLKGFGAKSAATILENVVFLFEARQRQSLRAGLAVAEELAGALTDLS-PAPAGDV 70 (123) T ss_dssp SHHHHHHHHHHTTTTTSTTCCHHHHHHHHHHHHHHHHHCSSEEHHHHHHHHHHHHHHTGGGC-CEECHHH T ss_pred CHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCE-EEECCCC T ss_conf 89999998760880121101388999999878788875356699999999999997544766-9975742 No 73 >>2vxo_A GMP synthase [glutamine-hydrolyzing]; proto-oncogene, phosphoprotein, GMP synthetase, guanine monophosphate synthetase, chromosomal rearrangement; HET: XMP; 2.5A {Homo sapiens} (A:218-446) Probab=49.73 E-value=20 Score=17.15 Aligned_cols=54 Identities=9% Similarity=0.151 Sum_probs=46.7 Q ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHH Q ss_conf 785549999469978689999999982017980887414674882066634799 Q gi|254780762|r 137 KKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMGSELDYLDDGT 190 (201) Q Consensus 137 ~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G~~ley~D~~T 190 (201) .+-+-|++|+|-=++.-++++.+++.....++..--.-.|.+...+++|+.... T Consensus 21 ~~~~~v~v~~SGG~DSs~ll~l~~~~~~~~~i~~v~~~~g~~~~~~~~~a~~~a 74 (229) T 2vxo_A 21 VGTSKVLVLLSGGVDSTVCTALLNRALNQEQVIAVHIDNGFMRKRESQSVEEAL 74 (229) T ss_dssp HTTCEEEEECCSSHHHHHHHHHHHHHSCGGGEEEEEEECSCCCSSTTHHHHHHH T ss_pred HCCCCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHH T ss_conf 414551366305751388999999850436437999563347865599999999 No 74 >>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} (A:427-542) Probab=46.83 E-value=9.9 Score=19.20 Aligned_cols=17 Identities=29% Similarity=0.497 Sum_probs=10.4 Q ss_pred HCCCCCHHHHHHHHHHH Q ss_conf 56899953799999999 Q gi|254780762|r 19 RIPGFGPRSARRATLHL 35 (201) Q Consensus 19 kLPGIG~KsA~R~a~~L 35 (201) .+||||+++|+.++-|. T Consensus 85 gI~giG~~~ak~L~~~f 101 (116) T 1dgs_A 85 GLPGVGEVLARNLARRF 101 (116) T ss_dssp TCSSCCHHHHHHHHHTT T ss_pred CCCCCCHHHHHHHHHHC T ss_conf 99754568999998766 No 75 >>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} (M:1-64) Probab=45.02 E-value=14 Score=18.16 Aligned_cols=24 Identities=25% Similarity=0.216 Sum_probs=20.1 Q ss_pred HHHHHHHHCCCCCHHHHHHHHHHH Q ss_conf 999999756899953799999999 Q gi|254780762|r 12 NLIKILARIPGFGPRSARRATLHL 35 (201) Q Consensus 12 ~LI~~l~kLPGIG~KsA~R~a~~L 35 (201) .+.-+|+++-|||+++|.++...+ T Consensus 14 ~i~~aLt~I~GIG~~~A~~Ic~~l 37 (64) T 2vqe_M 14 RVDVALTYIYGIGKARAKEALEKT 37 (64) T ss_dssp BHHHHHTTSSSCCSHHHHHHTTTT T ss_pred EEEEEEEEEECCCHHHHHHHHHHC T ss_conf 888873306581899999999982 No 76 >>1k8r_B Protein kinase BYR2; signal transduction, cancer, GTPase, ubiquitin fold, signaling protein; HET: GNP; 3.00A {Schizosaccharomyces pombe} (B:) Probab=44.06 E-value=7.7 Score=19.93 Aligned_cols=42 Identities=19% Similarity=0.243 Sum_probs=30.4 Q ss_pred CCCCCCCCCCCCCCCCCCCC-CCCEEEEEE--CH-HHHHHHHHHCC Q ss_conf 89997334565410035555-673699983--58-89999975174 Q gi|254780762|r 61 SICGNVDTTDPCAICIDQQR-DASVIIVVE--DV-ADLWALERSKA 102 (201) Q Consensus 61 ~~C~~l~~~~~C~iC~d~~R-d~~~lCVVE--~~-~Di~~IE~t~~ 102 (201) ..|..+++.+...||.+++| .++.|..+- .+ -|-.+|+++.. T Consensus 48 ~~~~~L~D~EL~~IC~~~~R~ER~RLIL~~k~~~~P~~~~l~~s~~ 93 (110) T 1k8r_B 48 SRIKLITEEEFKQICFNSSSPERDRLIIVPKEKPCPSFEDLRRSWE 93 (110) T ss_dssp SSEEECCCC-------------CCCEEEEESSSCCCCHHHHHHTTC T ss_pred HHEEEECHHHHHHHHCCCCCCCCCCEEEEECCCCCCCHHHHHHHHH T ss_conf 3437730887999980898321571698767899989899999999 No 77 >>3i1m_M 30S ribosomal protein S13; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_M* 3e1a_F 3e1c_F 1vs5_M 3i1o_M 3i1q_M 3i1s_M 3i1z_M 3i21_M 2qal_M* 1p6g_M 1p87_M 2aw7_M 2avy_M 2i2u_M 2i2p_M* 2qan_M* 2qb9_M* 2qbb_M* 2qbd_M ... (M:1-63) Probab=43.25 E-value=16 Score=17.75 Aligned_cols=26 Identities=15% Similarity=0.134 Sum_probs=20.9 Q ss_pred HHHHHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 99999975689995379999999971 Q gi|254780762|r 12 NLIKILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 12 ~LI~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) .+.-+|+.+-|||+++|.++...+=- T Consensus 14 ~v~~aLt~i~GIG~~~A~~Ic~~~gi 39 (63) T 3i1m_M 14 HAVIALTSIYGVGKTRSKAILAAAGI 39 (63) T ss_dssp CHHHHGGGSTTCCHHHHHHHHTTTTC T ss_pred EEEEEEECEECCCHHHHHHHHHHCCC T ss_conf 88887534457389999999999198 No 78 >>1iv0_A Hypothetical protein; rnaseh-like, YQGF, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Thermus thermophilus} (A:) Probab=43.18 E-value=13 Score=18.49 Aligned_cols=64 Identities=8% Similarity=0.133 Sum_probs=45.0 Q ss_pred HHHHCCCCCCCCHHHC--CHHHHHHHHCCCCCCEEEEEECCCCCHHHH-----HHHHHHHHCCCCCEEEEE Q ss_conf 1210020002681112--889999985157855499994699786899-----999999820179808874 Q gi|254780762|r 110 LGGSLSPLDRIGPEDI--GIQSLIERIEVKKIRELIFAISATIEGQTT-----AHYIMDKLKGIDVKITRL 173 (201) Q Consensus 110 LgG~ispl~g~~p~~l--~i~~L~~ri~~~~i~EVIlA~~~t~EGe~T-----a~yi~~~lk~~~ikitrl 173 (201) ++..-+|+.-+.-.+. .++.|.+.+++.++..|++.+.-+..|.-+ +.-..+.|+..++.|... T Consensus 21 ~~~~a~pl~~i~~~~~~~~~~~l~~li~~~~v~~iVvGlP~~~~g~~~~~~~~i~~f~~~l~~~~i~v~~~ 91 (98) T 1iv0_A 21 GVPLASGRGYLVRKTLEEDVEALLDFVRREGLGKLVVGLPLRTDLKESAQAGKVLPLVEALRARGVEVELW 91 (98) T ss_dssp CCSSCCCEEEEECCCHHHHHHHHHHHHHHHTCCEEEEECCCCCCSSSCCCSSTTHHHHHHHHHTTCEEEEE T ss_pred CCCEEECEEEEECCCCHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEE T ss_conf 99878167889867865899999999987362507816897789991889999999999986479989998 No 79 >>1o98_A 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; isomerase, alpha/beta-type structure; HET: 2PG; 1.4A {Bacillus stearothermophilus} (A:75-312) Probab=43.09 E-value=15 Score=18.08 Aligned_cols=75 Identities=17% Similarity=0.214 Sum_probs=49.0 Q ss_pred ECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEE-EEEE--CCCCCHHHHHHHHHHHHCC Q ss_conf 358899999751740134210121002000268111288999998515785549-9994--6997868999999998201 Q gi|254780762|r 89 EDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIREL-IFAI--SATIEGQTTAHYIMDKLKG 165 (201) Q Consensus 89 E~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EV-IlA~--~~t~EGe~Ta~yi~~~lk~ 165 (201) +++.=..+|+....-+|.-|.+ |++|+- |+--..=.+-.|++..++.++++| |=|+ .-.+.-..-..||+++.+. T Consensus 19 ~n~~l~~~~~~~k~~~~~lHl~-GL~SdG-GVHSh~~Hl~al~~~a~~~gv~~V~iH~f~DGRDt~P~Sa~~yi~~le~~ 96 (238) T 1o98_A 19 RNETFLAAMNHVKQHGTSLHLF-GLLSDG-GVHSHIHHLYALLRLAAKEGVKRVYIHGFLDGRDVGPQTAPQYIKELQEK 96 (238) T ss_dssp GCHHHHHHHHHHHHHTCCEEEE-EECSSC-CSSCCHHHHHHHHHHHHHTTCCCEEEEEEECSSSSCTTCHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHCCCCEEEE-EECCCC-CCCCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHH T ss_conf 4999999999998669824789-842688-65554345568899999719940578884146667832579999999986 No 80 >>1d8b_A SGS1 RECQ helicase; five helices, three-helical bundle flanked by two helices, DNA binding protein; NMR {Saccharomyces cerevisiae} (A:) Probab=41.96 E-value=13 Score=18.49 Aligned_cols=23 Identities=13% Similarity=0.056 Sum_probs=19.1 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHH Q ss_conf 99997568999537999999997 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHLV 36 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~Ll 36 (201) .+.|.++||+|++.++|+.-+|. T Consensus 47 ~~eL~~i~G~~~~k~~~yG~~l~ 69 (81) T 1d8b_A 47 DSAFATLGTVEDKYRRRFKYFKA 69 (81) T ss_dssp HHHHGGGSCCCHHHHHHGGGTHH T ss_pred HHHHHCCCCCCHHHHHHHHHHHH T ss_conf 99981799999999999999999 No 81 >>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} (B:229-310) Probab=41.79 E-value=22 Score=16.86 Aligned_cols=40 Identities=13% Similarity=0.047 Sum_probs=27.9 Q ss_pred HHHHHHHHCCCCCHHHHHHHHHHHHH--------CCHHHHHHHHHHHH Q ss_conf 99999975689995379999999971--------99899999999999 Q gi|254780762|r 12 NLIKILARIPGFGPRSARRATLHLVK--------KKEQLLGPLAEAMA 51 (201) Q Consensus 12 ~LI~~l~kLPGIG~KsA~R~a~~Ll~--------~~~~~~~~l~~~l~ 51 (201) .+.-+++.+-|||+++|+.+...+=- ..++.+..|.+++. T Consensus 26 ~i~~aLt~i~GIG~~~A~~I~~~~gi~~~~~~~~Lt~~qi~~L~~~~~ 73 (82) T 2zbk_B 26 IKEFLVNEFQSIGDTTADKILELAGLKPNKKVKNLTEEEITRLVETFK 73 (82) T ss_dssp HHHHHHTTSTTCCHHHHHHHHHHTTCCSSCBSSCCCHHHHHHHHHHHH T ss_pred HHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHCCCC T ss_conf 334551576467608777666552366334723336788876411010 No 82 >>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIRON center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} (A:) Probab=40.50 E-value=18 Score=17.39 Aligned_cols=56 Identities=23% Similarity=0.431 Sum_probs=36.1 Q ss_pred CHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----HHCCCCCCCCCCCCC---CCCCCCCCCC Q ss_conf 9537999999997199899999999999999----851828899973345---6541003555 Q gi|254780762|r 24 GPRSARRATLHLVKKKEQLLGPLAEAMANIY----NKVCLCSICGNVDTT---DPCAICIDQQ 79 (201) Q Consensus 24 G~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~----~~i~~C~~C~~l~~~---~~C~iC~d~~ 79 (201) |-..+..+.-+++.........|.+.+..+. .....|..|+++.+. +.|++|..+. T Consensus 134 ~d~~~~~~l~~~~~~E~~h~~~~~~ll~~~~~~~~~~~~~~~l~~~l~~~~~p~~cp~c~~~~ 196 (202) T 1yuz_A 134 GNSKAVHVFTRAKLAESVHAERYLAAYNDIDAPDDDKFHLCPICGYIHKGEDFEKCPICFRPK 196 (202) T ss_dssp TCHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCSCCEEECSSSCCEEESSCCSBCTTTCCBG T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCEECCCCCCCCCCCCCCH T ss_conf 879999999999999999999999999986277788077889999852199999899999876 No 83 >>2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase, nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans R1} (A:) Probab=40.14 E-value=28 Score=16.18 Aligned_cols=24 Identities=21% Similarity=0.459 Sum_probs=19.9 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 999975689995379999999971 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) ++.|.+++|+|++..+|+.-.+|. T Consensus 46 ~~eL~~i~gi~~~~~~~~G~~il~ 69 (77) T 2rhf_A 46 LAELAEVPGLGEKRIEAYGERILD 69 (77) T ss_dssp HHHHTTSTTTCHHHHHHHHHHHHH T ss_pred HHHHCCCCCCCHHHHHHHHHHHHH T ss_conf 999737999899999999999999 No 84 >>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis} (B:) Probab=40.11 E-value=21 Score=16.98 Aligned_cols=23 Identities=13% Similarity=0.290 Sum_probs=18.3 Q ss_pred HHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 99975689995379999999971 Q gi|254780762|r 15 KILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 15 ~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) +.|.++||+|+||.+.+--.|-. T Consensus 48 ~dLl~i~nlG~ksl~EI~~~L~~ 70 (79) T 3gfk_B 48 EDMMKVRNLGRKSLEEVKAKLEE 70 (79) T ss_dssp HHHTTSTTCHHHHHHHHHHHHHH T ss_pred HHHHHCCCCCHHHHHHHHHHHHH T ss_conf 99985789867369999999998 No 85 >>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle structural genomics center for infectious disease, electron transport; NMR {Mycobacterium tuberculosis} (A:) Probab=39.42 E-value=13 Score=18.34 Aligned_cols=27 Identities=26% Similarity=0.474 Sum_probs=19.5 Q ss_pred HCCCCCCCCCCCCCC---------------------CCCCCCCCCCCC Q ss_conf 518288999733456---------------------541003555567 Q gi|254780762|r 56 KVCLCSICGNVDTTD---------------------PCAICIDQQRDA 82 (201) Q Consensus 56 ~i~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~ 82 (201) .+-.|..||++-+.. .|++|..++-.. T Consensus 26 ~~~~C~~CgyiYd~~~Gd~~~~i~pGT~f~~lP~~w~CPvC~~~K~~F 73 (81) T 2kn9_A 26 KLFRCIQCGFEYDEALGWPEDGIAAGTRWDDIPDDWSCPDCGAAKSDF 73 (81) T ss_dssp CEEEETTTCCEEETTTCBTTTTBCTTCCTTTSCTTCCCTTTCCCGGGE T ss_pred CEEECCCCCEEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHC T ss_conf 859849999497766688466869899756799887795998957887 No 86 >>1lko_A Rubrerythrin all-iron(II) form; reduced form, DIIRON, four-helix bundle, rubredoxin-like, electron transport; 1.63A {Desulfovibrio vulgaris} (A:149-191) Probab=38.44 E-value=10 Score=19.10 Aligned_cols=24 Identities=25% Similarity=0.641 Sum_probs=18.4 Q ss_pred CCCCCCCCCCCCC----CCCCCCCCCCC Q ss_conf 1828899973345----65410035555 Q gi|254780762|r 57 VCLCSICGNVDTT----DPCAICIDQQR 80 (201) Q Consensus 57 i~~C~~C~~l~~~----~~C~iC~d~~R 80 (201) .=.|.+||.+-+. +.|++|.-+.- T Consensus 7 ~W~C~~CGyi~~G~~aP~~CPvC~~~~~ 34 (43) T 1lko_A 7 KWRCRNCGYVHEGTGAPELCPACAHPKA 34 (43) T ss_dssp EEEETTTCCEEEEEECCSBCTTTCCBGG T ss_pred EEECCCCCCEEECCCCCCCCCCCCCCHH T ss_conf 4788999862018999885989999669 No 87 >>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli K12} (A:) Probab=34.73 E-value=33 Score=15.66 Aligned_cols=29 Identities=24% Similarity=0.320 Sum_probs=20.5 Q ss_pred HHHHHH----HHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 799999----99975689995379999999971 Q gi|254780762|r 9 EIENLI----KILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 9 ~l~~LI----~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) ++.+|+ +.|.++||+|+||.+.+.--|-. T Consensus 46 ti~dL~~~s~~dLl~i~n~G~kSl~Ei~~~L~~ 78 (98) T 1coo_A 46 YIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 78 (98) T ss_dssp BHHHHHTSCHHHHTTSTTCCHHHHHHHHHHHHH T ss_pred CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHH T ss_conf 599998589999986779878789999999998 No 88 >>1nu0_A Hypothetical protein YQGF; structural genomics, structure 2 function project, S2F, unknown function; 1.60A {Escherichia coli} (A:) Probab=34.54 E-value=22 Score=16.90 Aligned_cols=60 Identities=15% Similarity=0.236 Sum_probs=40.2 Q ss_pred HHCCCCCCCCHHHC--CHHHHHHHHCCCCCCEEEEEECCCCCHHHH------HHHHHHHHCCCCCEEE Q ss_conf 10020002681112--889999985157855499994699786899------9999998201798088 Q gi|254780762|r 112 GSLSPLDRIGPEDI--GIQSLIERIEVKKIRELIFAISATIEGQTT------AHYIMDKLKGIDVKIT 171 (201) Q Consensus 112 G~ispl~g~~p~~l--~i~~L~~ri~~~~i~EVIlA~~~t~EGe~T------a~yi~~~lk~~~ikit 171 (201) ...+|+.-+...+. .++.|.+.+++.++++|++.+.-+..|..+ ..|...+-+..++.|. T Consensus 25 ~ia~p~~~i~~~~~~~~~~~l~~li~~~~~~~iViGlP~~~~g~~~~~a~~v~~f~~~L~~~~~l~v~ 92 (138) T 1nu0_A 25 GTARPLPAIKAQDGTPDWNIIERLLKEWQPDEIIVGLPLNXDGTEQPLTARARKFANRIHGRFGVEVK 92 (138) T ss_dssp TEEEEEEEEEEETTEECHHHHHHHHHHHCCSEEEEEEEECTTSCBCHHHHHHHHHHHHHHHHHCCCEE T ss_pred CCCCCEEEEECCCCCHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEE T ss_conf 74014078981677268999999864248738996443477787578999999999999986299969 No 89 >>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} (A:635-702) Probab=33.43 E-value=22 Score=16.92 Aligned_cols=15 Identities=33% Similarity=0.326 Sum_probs=12.0 Q ss_pred HCCCCCHHHHHHHHH Q ss_conf 568999537999999 Q gi|254780762|r 19 RIPGFGPRSARRATL 33 (201) Q Consensus 19 kLPGIG~KsA~R~a~ 33 (201) .+||||++-|+++-- T Consensus 2 ~i~gVGR~RAR~Ly~ 16 (68) T 2p6r_A 2 RIRHIGRVRARKLYN 16 (68) T ss_dssp TSTTCCHHHHHHHHT T ss_pred CCCCCCHHHHHHHHH T ss_conf 889999999999998 No 90 >>1dpe_A Dipeptide-binding protein; peptide transport, periplasmic, chemotaxis binding proteins for active transport; 2.00A {Escherichia coli} (A:242-410,A:471-486) Probab=33.33 E-value=26 Score=16.42 Aligned_cols=71 Identities=6% Similarity=-0.031 Sum_probs=46.8 Q ss_pred CEEEEEEEHHHHCCCCCC-----CCHHHCCHHHHHHHHCCCCCCE----EE----EEECCCCCHHHHHHHHHHHHCCCCC Q ss_conf 401342101210020002-----6811128899999851578554----99----9946997868999999998201798 Q gi|254780762|r 102 AVNALYHVLGGSLSPLDR-----IGPEDIGIQSLIERIEVKKIRE----LI----FAISATIEGQTTAHYIMDKLKGIDV 168 (201) Q Consensus 102 ~y~G~YhVLgG~ispl~g-----~~p~~l~i~~L~~ri~~~~i~E----VI----lA~~~t~EGe~Ta~yi~~~lk~~~i 168 (201) .|.|.+.+-.+.++|-.. ..+-..+.++=.+.+.+.+.++ -+ +..+.+.+.+..+.++++.++..++ T Consensus 57 i~~g~~~~a~~~~~~~~~~~~~~~~~~~~d~~~A~~lL~~aG~~~g~~~~~~~~~~~~~~~~~~~~ia~~l~~~l~~~Gi 136 (185) T 1dpe_A 57 VYQGAGVSAKNLIPPTMWGYNDDVQDYTYDPEKAKALLKEAGLEKGFSIDLWAMPVQRPYNPNARRMAEMIQADWAKVGV 136 (185) T ss_dssp HHTTSEEECSSSSCTTSTTCCTTCCCCCCCHHHHHHHHHHTTCTTCEEEEEECCSSCBTTBSCHHHHHHHHHHHHHTTTE T ss_pred HHCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHCC T ss_conf 73897666545449842355765332346978863123211001587510221123345777899999987777653032 Q ss_pred EEEE Q ss_conf 0887 Q gi|254780762|r 169 KITR 172 (201) Q Consensus 169 kitr 172 (201) +++- T Consensus 137 ~v~i 140 (185) T 1dpe_A 137 QAKI 140 (185) T ss_dssp EEEE T ss_pred CCEE T ss_conf 2124 No 91 >>3f2b_A DNA-directed DNA polymerase III alpha chain; DNA polymerase C; HET: DGT; 2.39A {Geobacillus kaustophilus} PDB: 3f2c_A* 3f2d_A* (A:973-1041) Probab=32.45 E-value=24 Score=16.66 Aligned_cols=29 Identities=17% Similarity=0.147 Sum_probs=19.1 Q ss_pred CCCCHHHHHHHHHHHHHCCHHHHHHHHHH Q ss_conf 89995379999999971998999999999 Q gi|254780762|r 21 PGFGPRSARRATLHLVKKKEQLLGPLAEA 49 (201) Q Consensus 21 PGIG~KsA~R~a~~Ll~~~~~~~~~l~~~ 49 (201) ||||.+.|++++-.=-+.+=..+.+|... T Consensus 1 pGig~~~a~~Iv~~R~~g~F~s~~Df~~R 29 (69) T 3f2b_A 1 PGLGTNVAQAIVRAREEGEFLSKEDLQQR 29 (69) T ss_dssp TTCCHHHHHHHHHHHHTSCCCSHHHHHHH T ss_pred CCCCHHHHHHHHHHHCCCCCCCHHHHHHH T ss_conf 89899999999998657999999999975 No 92 >>6rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.50A {Desulfovibrio desulfuricans} (A:) Probab=32.19 E-value=16 Score=17.83 Aligned_cols=25 Identities=20% Similarity=0.594 Sum_probs=17.9 Q ss_pred CCCCCCCCCCCCC--------------CCCCCCCCCCCC Q ss_conf 8288999733456--------------541003555567 Q gi|254780762|r 58 CLCSICGNVDTTD--------------PCAICIDQQRDA 82 (201) Q Consensus 58 ~~C~~C~~l~~~~--------------~C~iC~d~~Rd~ 82 (201) -.|..||.+-+.+ .|++|..++... T Consensus 4 y~C~~CgyiYd~~~Gdgt~F~~LP~~w~CP~C~a~K~~F 42 (45) T 6rxn_A 4 YVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQF 42 (45) T ss_dssp EEETTTCCEECGGGGTTCCGGGSCTTCBCTTTCCBGGGE T ss_pred EEECCCCEEECCCCCCCCCHHHCCCCCCCCCCCCCHHHC T ss_conf 590899818777447998877889877895998928875 No 93 >>2waq_B DNA-directed RNA polymerase RPO2 subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_B 2pmz_B 3hkz_B (B:1056-1131) Probab=32.09 E-value=25 Score=16.45 Aligned_cols=43 Identities=23% Similarity=0.367 Sum_probs=24.3 Q ss_pred HCCCCCCCCCCCCCC------CCCCCCCCCCCCCEEEEEECHHHHHHHHHH Q ss_conf 518288999733456------541003555567369998358899999751 Q gi|254780762|r 56 KVCLCSICGNVDTTD------PCAICIDQQRDASVIIVVEDVADLWALERS 100 (201) Q Consensus 56 ~i~~C~~C~~l~~~~------~C~iC~d~~Rd~~~lCVVE~~~Di~~IE~t 100 (201) .+..|..||.+...+ .|..|.+... -...-+-...-++.=|=+ T Consensus 5 ~~~VC~~CG~i~~~~~~~~~~~C~~C~~~~~--i~~i~iPYafKlL~qEL~ 53 (76) T 2waq_B 5 TIYVCDQCGYIGWYDKNKNKYVCPIHGDKSN--LFPVTVSYAFKLLIQELM 53 (76) T ss_dssp EEEECSSSCCCCCCCSSSSCCCCTTCSSSSC--CEEEEEEHHHHHHHHHHH T ss_pred CEEECCCCCCEEEEECCCCCEECCCCCCCCC--CCCCCCCHHHHHHHHHHH T ss_conf 3030467786688853587146763588786--220689889999999997 No 94 >>1zt2_A DNA primase small subunit; heterodimeric complex, replication, transferase; HET: DNA; 3.33A {Sulfolobus solfataricus} (A:107-142,A:273-330) Probab=32.00 E-value=15 Score=18.00 Aligned_cols=31 Identities=29% Similarity=0.701 Sum_probs=21.5 Q ss_pred HHCCCCCCCCCCCCCCCCCCCCCCCCC-CCEEEEEECH Q ss_conf 851828899973345654100355556-7369998358 Q gi|254780762|r 55 NKVCLCSICGNVDTTDPCAICIDQQRD-ASVIIVVEDV 91 (201) Q Consensus 55 ~~i~~C~~C~~l~~~~~C~iC~d~~Rd-~~~lCVVE~~ 91 (201) ..|.+|+.|||--..+.|. || -..+=-||.. T Consensus 5 ~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~ 36 (94) T 1zt2_A 5 RSIRFCPVCGNAVVSEKCE------RDNVETLEYVEMT 36 (94) T ss_dssp EEEEECTTTCCBCSSSEET------TTTEECEEEEECC T ss_pred CCCCCCCCCCCCCCCHHCC------CCCHHHHHHHHHH T ss_conf 4444345444443310102------2320022155679 No 95 >>2csb_A Topoisomerase V, TOP61; topoisomerase IB, helix-turn-helix, helix- hairpin-helix, HHH motif, three helix bundle; 2.30A {Methanopyrus kandleri} (A:181-225,A:375-471) Probab=31.17 E-value=38 Score=15.24 Aligned_cols=35 Identities=20% Similarity=0.312 Sum_probs=25.8 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHH Q ss_conf 9999756899953799999999719989999999999 Q gi|254780762|r 14 IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAM 50 (201) Q Consensus 14 I~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l 50 (201) ...|.+--|+|+|+|+|+.--+ -+++.+++|+.-+ T Consensus 81 laeltkkegvgrktaerllraf--gnpervkqlaref 115 (142) T 2csb_A 81 LAELTKKEGVGRKTAERLLRAF--GNPERVKQLAREF 115 (142) T ss_dssp HHHHHTSTTCCHHHHHHHHHHH--SSHHHHHHHHHTT T ss_pred HHHHHHHCCCCHHHHHHHHHHH--CCHHHHHHHHHHH T ss_conf 9977654064565799999970--9989999999887 No 96 >>1lb2_B DNA-directed RNA polymerase alpha chain; protein-DNA complex, gene-regulatory, gene regulation/DNA complex; HET: CMP; 3.10A {Escherichia coli} (B:) Probab=31.07 E-value=38 Score=15.23 Aligned_cols=29 Identities=24% Similarity=0.320 Sum_probs=20.3 Q ss_pred HHHHHH----HHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 799999----99975689995379999999971 Q gi|254780762|r 9 EIENLI----KILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 9 ~l~~LI----~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) ++.+|+ +.|.++||+|+||.+.+--.|-. T Consensus 32 ti~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~~ 64 (84) T 1lb2_B 32 YIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 64 (84) T ss_dssp BHHHHHTCCHHHHHHSTTCCHHHHHHHHHHHHH T ss_pred CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHH T ss_conf 699987289999974889878899999999998 No 97 >>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} (A:) Probab=31.04 E-value=34 Score=15.61 Aligned_cols=27 Identities=30% Similarity=0.462 Sum_probs=20.5 Q ss_pred CCCHHHHHHHHHHHHCCC------------CCHHHHHHH Q ss_conf 686679999999975689------------995379999 Q gi|254780762|r 5 ITGKEIENLIKILARIPG------------FGPRSARRA 31 (201) Q Consensus 5 ~~~~~l~~LI~~l~kLPG------------IG~KsA~R~ 31 (201) -.+++|++|-.+|.+||- ||-|||+-- T Consensus 11 W~e~EL~klh~a~~slpkh~~~fW~~Va~~VgtRSAeeC 49 (73) T 1wgx_A 11 WNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEEC 49 (73) T ss_dssp CCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHH T ss_pred CCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCCHHHH T ss_conf 289999999999983588777509999999835879999 No 98 >>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} (B:) Probab=31.00 E-value=39 Score=15.23 Aligned_cols=29 Identities=14% Similarity=0.331 Sum_probs=20.7 Q ss_pred HHHHHH----HHHHHCCCCCHHHHHHHHHHHHH Q ss_conf 799999----99975689995379999999971 Q gi|254780762|r 9 EIENLI----KILARIPGFGPRSARRATLHLVK 37 (201) Q Consensus 9 ~l~~LI----~~l~kLPGIG~KsA~R~a~~Ll~ 37 (201) ++.+|+ +.|.++|++|+||.+-+.-.|-. T Consensus 31 ti~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~~ 63 (73) T 1z3e_B 31 TVQELANKTEEDMMKVRNLGRKSLEEVKAKLEE 63 (73) T ss_dssp BHHHHHTSCHHHHHTSTTCCHHHHHHHHHHHHH T ss_pred CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHH T ss_conf 799998779999975889766059999999998 No 99 >>2d5w_A Peptide ABC transporter, peptide-binding protein; protein-peptide complex, peptide binding protein; 1.30A {Thermus thermophilus HB8} (A:301-475,A:543-550) Probab=30.16 E-value=40 Score=15.13 Aligned_cols=71 Identities=10% Similarity=0.181 Sum_probs=46.0 Q ss_pred CEEEEEEEHHHHCCCCCCCCHH-----HCCHHHHHHHHCCC-------------------CCCEEEEEECCCCCHHHHHH Q ss_conf 4013421012100200026811-----12889999985157-------------------85549999469978689999 Q gi|254780762|r 102 AVNALYHVLGGSLSPLDRIGPE-----DIGIQSLIERIEVK-------------------KIRELIFAISATIEGQTTAH 157 (201) Q Consensus 102 ~y~G~YhVLgG~ispl~g~~p~-----~l~i~~L~~ri~~~-------------------~i~EVIlA~~~t~EGe~Ta~ 157 (201) .|+|...+..+.++|...-.+. .-+.++-.+.+.+. .+..++...+.+.+-..++. T Consensus 44 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~d~~~A~~ll~~ag~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~a~ 123 (183) T 2d5w_A 44 FFDGLQPVAHTWIAPVNPLFNPNVKKYEFDLKKAEALLAEMGWRKGPDGILQRTVNGRTVRFEIEYVTTAGNVVRERTQQ 123 (183) T ss_dssp HHTTSSCBCSSSSCTTSTTCCTTSCCCCCCHHHHHHHHHHTTCEECTTSCEEEEETTEEEECEEEEECBTTCHHHHHHHH T ss_pred HHCCCCCCCCEEEEECCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH T ss_conf 75234421100011013334666532100189999999863875455543222211224555433333235716899999 Q ss_pred HHHHHHCCCCCEEEE Q ss_conf 999982017980887 Q gi|254780762|r 158 YIMDKLKGIDVKITR 172 (201) Q Consensus 158 yi~~~lk~~~ikitr 172 (201) +|++.|+..+|+++. T Consensus 124 ~i~~~l~~~Gi~v~v 138 (183) T 2d5w_A 124 FFAEDLKKIGIAVKI 138 (183) T ss_dssp HHHHHHHHTTCEEEE T ss_pred HHHHHHHHCCEEEEE T ss_conf 999999864858999 No 100 >>3igz_B Cofactor-independent phosphoglycerate mutase; glycolysis, cobalt, isomerase; HET: 3PG 2PG; 1.90A {Leishmania mexicana} PDB: 3igy_B* (B:88-326) Probab=29.51 E-value=41 Score=15.06 Aligned_cols=75 Identities=13% Similarity=0.122 Sum_probs=48.7 Q ss_pred ECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEE-EEEEC--CCCCHHHHHHHHHHHHCC Q ss_conf 358899999751740134210121002000268111288999998515785549-99946--997868999999998201 Q gi|254780762|r 89 EDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIREL-IFAIS--ATIEGQTTAHYIMDKLKG 165 (201) Q Consensus 89 E~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EV-IlA~~--~t~EGe~Ta~yi~~~lk~ 165 (201) +++.=..+++....-+|.-|++ |++|+- |+--..=.+-.|++..++.++++| |=|+. -.+.-..-..||+++.+. T Consensus 19 ~n~~l~~~~~~~k~~~~~lHl~-GL~SdG-GVHSh~~Hl~ali~~a~~~gv~~V~vH~f~DGRDt~P~S~~~yi~~le~~ 96 (239) T 3igz_B 19 TGEGYRYLHGAFSKEGSTLHLI-GLLSDG-GVHSRDNQIYSIIEHAVKDGAKRIRVHALYDGRDVPDGSSFRFTDELEAV 96 (239) T ss_dssp TSHHHHHHHHHHTSTTCCEEEE-EECSSC-CSSCCHHHHHHHHHHHHHTTCCEEEEEEEECSSSSCTTTHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHCCCCEEEE-EEECCC-CCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCHHHHHHHHHHHH T ss_conf 4999999999998549945789-974176-41101778999999999739984489998246665751389999999999 No 101 >>1dd3_A 50S ribosomal protein L7/L12; dimer formation, flexibility, hinge region, four-helix- bundle, five-helix- bundle, alpha-beta structure; 2.00A {Thermotoga maritima} (A:58-128) Probab=29.42 E-value=41 Score=15.05 Aligned_cols=45 Identities=13% Similarity=0.189 Sum_probs=35.4 Q ss_pred HHHHHHHHHCCCCCHHHHHHHHHHHH--------HCCHHHHHHHHHHHHHHHH Q ss_conf 99999997568999537999999997--------1998999999999999998 Q gi|254780762|r 11 ENLIKILARIPGFGPRSARRATLHLV--------KKKEQLLGPLAEAMANIYN 55 (201) Q Consensus 11 ~~LI~~l~kLPGIG~KsA~R~a~~Ll--------~~~~~~~~~l~~~l~~~~~ 55 (201) -.+|..++.++|+|-|.|..++-.+- +-+++++..+-..|..+-. T Consensus 14 i~vIK~Vr~itglgLkEAK~lVe~~P~~~~~ike~vskeeAE~iK~~Le~aGA 66 (71) T 1dd3_A 14 IQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEIKKKLEEAGA 66 (71) T ss_dssp HHHHHHHHHHHCCCHHHHHHHHTTTTSTTCEEEEEECHHHHHHHHHHHHHTTC T ss_pred HHHHHHHHHHCCCCHHHHHHHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHCCC T ss_conf 58999998855998899999997157872678538899999999999998599 No 102 >>1dx8_A Rubredoxin; zinc-substitution; NMR {Guillardia theta} (A:) Probab=29.04 E-value=20 Score=17.10 Aligned_cols=27 Identities=19% Similarity=0.530 Sum_probs=19.3 Q ss_pred HCCCCCCCCCCCCCC---------------------CCCCCCCCCCCC Q ss_conf 518288999733456---------------------541003555567 Q gi|254780762|r 56 KVCLCSICGNVDTTD---------------------PCAICIDQQRDA 82 (201) Q Consensus 56 ~i~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~ 82 (201) ..-.|..|+.+-+.. .|++|..++.+. T Consensus 6 ~~y~C~~CgyiYd~~~Gd~~~gI~pGT~F~~LPddw~CP~Cga~K~~F 53 (70) T 1dx8_A 6 GKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQF 53 (70) T ss_dssp SCEEETTTCCEECTTTCCTTTTCCSSCCGGGSCTTCBCTTTCCBGGGE T ss_pred CEEECCCCCCEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHH T ss_conf 707829999087844478456879899968988987893998968981 No 103 >>2io8_A Bifunctional glutathionylspermidine synthetase/amidase; ligase, hydrolase; HET: ADP; 2.10A {Escherichia coli} (A:359-494) Probab=28.54 E-value=42 Score=14.95 Aligned_cols=47 Identities=15% Similarity=0.125 Sum_probs=37.0 Q ss_pred HHHHHHHHCC-CCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEE Q ss_conf 8999998515-7855499994699786899999999820179808874 Q gi|254780762|r 127 IQSLIERIEV-KKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRL 173 (201) Q Consensus 127 i~~L~~ri~~-~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~~~ikitrl 173 (201) -++|+++-+. ..-.-|=+|...+.|-..|+.|+++..+..+..+.-+ T Consensus 8 ~e~L~~~wk~~~~~~~vh~~~~~~~ED~~T~~yL~~~a~~AG~~t~~~ 55 (136) T 2io8_A 8 INELAGAWKHSRARPFVHIMQDKDIEENYHAQFMEQALHQAGFETRIL 55 (136) T ss_dssp HHHHHHHHHTSCCCSEEEEEECSCHHHHHHHHHHHHHHHHTTCEEEEE T ss_pred HHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEE T ss_conf 999999998628997799996898224889999999999879966886 No 104 >>3gr0_A Protein PRGH; type III secretion system, inner membrane protein, cell membrane, membrane, transmembrane, virulence; 2.30A {Salmonella typhimurium} (A:1-59) Probab=26.96 E-value=12 Score=18.52 Aligned_cols=14 Identities=21% Similarity=0.283 Sum_probs=11.9 Q ss_pred HCCEEEEEEEHHHH Q ss_conf 17401342101210 Q gi|254780762|r 100 SKAVNALYHVLGGS 113 (201) Q Consensus 100 t~~y~G~YhVLgG~ 113 (201) .|-++|+||||+|. T Consensus 12 Lgd~q~rf~iLpg~ 25 (59) T 3gr0_A 12 LGQEKERFQVLPGR 25 (59) T ss_dssp CGGGTTTCEEEECT T ss_pred HCCCCCCCEEEECC T ss_conf 66999883586579 No 105 >>1s24_A Rubredoxin 2; electron transport; NMR {Pseudomonas oleovorans} (A:) Probab=26.62 E-value=19 Score=17.29 Aligned_cols=32 Identities=19% Similarity=0.404 Sum_probs=21.2 Q ss_pred HHHHHHHCCCCCCCCCCCCCC---------------------CCCCCCCCCCC Q ss_conf 999998518288999733456---------------------54100355556 Q gi|254780762|r 50 MANIYNKVCLCSICGNVDTTD---------------------PCAICIDQQRD 81 (201) Q Consensus 50 l~~~~~~i~~C~~C~~l~~~~---------------------~C~iC~d~~Rd 81 (201) ........-.|..||.+-+.. .|++|...+.+ T Consensus 28 ~~~~~~~~~~C~~CgyiYdp~~Gd~~~~i~pGT~f~~lP~~w~CP~C~~~K~~ 80 (87) T 1s24_A 28 QGGKAYLKWICITCGHIYDEALGDEAEGFTPGTRFEDIPDDWCCPDCGATKED 80 (87) T ss_dssp ----CCCEEEETTTTEEEETTSCCTTTTCCSCCCGGGCCTTCCCSSSCCCGGG T ss_pred CCCCCCCEEECCCCCCEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHH T ss_conf 36777644889999918765657745686989986678888768599895889 No 106 >>1vr7_A Adometdc, samdc, S-adenosylmethionine decarboxylase proenzyme; TM0655, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.20A {Thermotoga maritima} (A:) Probab=26.28 E-value=46 Score=14.69 Aligned_cols=36 Identities=14% Similarity=0.182 Sum_probs=31.5 Q ss_pred EEEECCCCCHHHHHHHHHHHHCCCCCEEEEEECCCC Q ss_conf 999469978689999999982017980887414674 Q gi|254780762|r 143 IFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIP 178 (201) Q Consensus 143 IlA~~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP 178 (201) |+--+++.+.+....||++.|+...++++.+-||.+ T Consensus 92 iftCg~~~~p~~a~~~l~~~l~~~~~~~~~~~RG~~ 127 (142) T 1vr7_A 92 LFTCGEDVDPWKAFEHLKKALKAKRVHVVEHERGRY 127 (142) T ss_dssp EEEESTTCCHHHHHHHHHHHHTCSEEEEEEEEEEEH T ss_pred EECCCCCCCHHHHHHHHHHHHCCCEEEEEEEECCCC T ss_conf 984799999999999999972998699999989997 No 107 >>3ci0_K Pseudopilin GSPK; general secretory pathway, pseudopilus, type 4 pilin biogenesis, methylation, protein transport; 2.20A {Escherichia coli} (K:76-256) Probab=25.82 E-value=12 Score=18.66 Aligned_cols=14 Identities=14% Similarity=0.069 Sum_probs=5.3 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 89999999999999 Q gi|254780762|r 40 EQLLGPLAEAMANI 53 (201) Q Consensus 40 ~~~~~~l~~~l~~~ 53 (201) ......+++++.+. T Consensus 34 ~~~a~~~~~~~~d~ 47 (181) T 3ci0_K 34 AYRAELIAESLWEF 47 (181) T ss_dssp HHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHH T ss_conf 67899999999998 No 108 >>3isx_A Endoglucanase; TM1050, structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2, hydrolase; HET: MSE; 1.40A {Thermotoga maritima} (A:1-74,A:165-343) Probab=24.05 E-value=51 Score=14.42 Aligned_cols=19 Identities=26% Similarity=0.324 Sum_probs=10.0 Q ss_pred HHHHHHHHHHHHCCCCCHH Q ss_conf 6799999999756899953 Q gi|254780762|r 8 KEIENLIKILARIPGFGPR 26 (201) Q Consensus 8 ~~l~~LI~~l~kLPGIG~K 26 (201) +.+-++...|-+.|.+++. T Consensus 11 ~~~~~~~~~l~~~~s~s~~ 29 (253) T 3isx_A 11 HHXKELIRKLTEAFGPSGR 29 (253) T ss_dssp SCCHHHHHHHHHSCCBTTC T ss_pred HHHHHHHHHHHCCCCCCCC T ss_conf 9999999999739995963 No 109 >>1yk4_A Rubredoxin, RD; electron transport; 0.69A {Pyrococcus abyssi} PDB: 2pya_A 1yk5_A 1bq8_A 1bq9_A* 1brf_A 1caa_A 1cad_A 1vcx_A 1zrp_A 1iu5_A 1iu6_A 1rwd_A 1qcv_A 2pve_A 2pvx_A 2rdv_A 1rdv_A 1rb9_A* 2qkz_A 2ql0_A ... (A:) Probab=23.94 E-value=34 Score=15.63 Aligned_cols=24 Identities=29% Similarity=0.790 Sum_probs=16.4 Q ss_pred CCCCCCCCCCCCC---------------------CCCCCCCCCCC Q ss_conf 8288999733456---------------------54100355556 Q gi|254780762|r 58 CLCSICGNVDTTD---------------------PCAICIDQQRD 81 (201) Q Consensus 58 ~~C~~C~~l~~~~---------------------~C~iC~d~~Rd 81 (201) -.|..||.+-+.+ .|++|..++-+ T Consensus 3 y~C~~CgyvYd~~~Gd~~~~i~pGT~F~~lP~dw~CP~C~a~K~~ 47 (52) T 1yk4_A 3 LSCKICGYIYDEDEGDPDNGISPGTKFEDLPDDWVCPLCGAPKSE 47 (52) T ss_dssp EEESSSSCEEETTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGG T ss_pred CCCCCCCEEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHH T ss_conf 586999948786657846687999997898998899399895899 No 110 >>1vq2_A DCMP deaminase, deoxycytidylate deaminase; hydrolase; HET: DDN; 2.20A {Enterobacteria phage T4} (A:1-45,A:102-193) Probab=23.75 E-value=37 Score=15.32 Aligned_cols=31 Identities=16% Similarity=0.110 Sum_probs=25.0 Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC Q ss_conf 9999999985182889997334565410035 Q gi|254780762|r 47 AEAMANIYNKVCLCSICGNVDTTDPCAICID 77 (201) Q Consensus 47 ~~~l~~~~~~i~~C~~C~~l~~~~~C~iC~d 77 (201) .++|..+..+-...+.|-.++..++|+.|.. T Consensus 51 i~Ai~~a~~~~~~l~g~tlYvTlEPC~mCa~ 81 (137) T 1vq2_A 51 LNAILFAAENGSSIEGATMYVTLSPCPDCAK 81 (137) T ss_dssp HHHHHHHHHHTCCCTTCEEEEEECCCHHHHH T ss_pred HHHHHHHHHHCCCCCCCEEEECCCCCHHHHH T ss_conf 9999998861689877568706799678999 No 111 >>3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} (B:1143-1210) Probab=23.41 E-value=39 Score=15.20 Aligned_cols=32 Identities=25% Similarity=0.535 Sum_probs=20.6 Q ss_pred HCCCCCCCCCCCC------CCCCCCCCCCCCCCCEEEEEECH Q ss_conf 5182889997334------56541003555567369998358 Q gi|254780762|r 56 KVCLCSICGNVDT------TDPCAICIDQQRDASVIIVVEDV 91 (201) Q Consensus 56 ~i~~C~~C~~l~~------~~~C~iC~d~~Rd~~~lCVVE~~ 91 (201) .+..|..||.+.. ...|.+|.+.. .+.-|+-| T Consensus 6 ~~~VC~~CG~~~~~~~~~~~~~C~~C~~~~----~i~~i~iP 43 (68) T 3h0g_B 6 RVIVCDICGLIAIASYKKDSYECRSCQNRT----RFSQVYLP 43 (68) T ss_dssp EEEEESSSCCBCCCCSSSCCCCCTTTCCSS----CEEEEECC T ss_pred CEEECCCCCCEEEECCCCCCEECCCCCCCC----CCCCCCCC T ss_conf 135036778765402446855656023898----26615898 No 112 >>1vhx_A Putative holliday junction resolvase; structural genomics, hydrolase; 1.96A {Bacillus subtilis} (A:) Probab=22.77 E-value=54 Score=14.25 Aligned_cols=49 Identities=16% Similarity=0.265 Sum_probs=37.6 Q ss_pred HCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHH------HHHHHHCCCCCEEEE Q ss_conf 1288999998515785549999469978689999------999982017980887 Q gi|254780762|r 124 DIGIQSLIERIEVKKIRELIFAISATIEGQTTAH------YIMDKLKGIDVKITR 172 (201) Q Consensus 124 ~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~------yi~~~lk~~~ikitr 172 (201) +..++.|.+.+++.+++.|++....+..|..+.. |+....+..++.|+- T Consensus 41 ~~~~~~L~~ii~~~~~~~iviG~p~~~~g~~~~~~~~~~~~~~~l~~~~~i~v~~ 95 (150) T 1vhx_A 41 DYGLSRLSELIKDYTIDKIVLGFPKNXNGTVGPRGEASQTFAKVLETTYNVPVVL 95 (150) T ss_dssp BCCHHHHHHHHTTSEEEEEEEECCCCBTTBCCHHHHHHHHHHHHHHHHHCSCEEE T ss_pred HHHHHHHHHHHHHHCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEE T ss_conf 2689999999976343628851642347762178899999999735577832798 No 113 >>2gnr_A Conserved hypothetical protein; 13815350, structural genomics, PSI, protein structure initiative; 1.80A {Sulfolobus solfataricus P2} (A:) Probab=22.54 E-value=26 Score=16.33 Aligned_cols=43 Identities=14% Similarity=0.209 Sum_probs=33.4 Q ss_pred CHHHHHHHHHHHHHHHHHCCCCCCCCCCCC--CCCCCCCCCCCCC Q ss_conf 989999999999999985182889997334--5654100355556 Q gi|254780762|r 39 KEQLLGPLAEAMANIYNKVCLCSICGNVDT--TDPCAICIDQQRD 81 (201) Q Consensus 39 ~~~~~~~l~~~l~~~~~~i~~C~~C~~l~~--~~~C~iC~d~~Rd 81 (201) .......|-+++.+=+-...+|..||.+.- ...|+-|....-+ T Consensus 29 ~~~~~~~f~~~~~~~rl~~~rC~~CG~~~~Ppr~~C~~Cg~~~~~ 73 (145) T 2gnr_A 29 VGPAGEQFFNGLKQNKIIGSKCSKCGRIFVPARSYCEHCFVKIEN 73 (145) T ss_dssp SHHHHHHHHHHHHTTCCEEEECTTTCCEEESCCSEETTTTEECCE T ss_pred CCCHHHHHHHHHHCCCEEEEEECCCCCEEECCCCCCCCCCCCCCE T ss_conf 780089999886649399999189997886753568999997302 No 114 >>1e8j_A Rubredoxin; iron-sulfur-protein, zinc-substitution, thermostability; NMR {Desulfovibrio gigas} (A:) Probab=22.47 E-value=48 Score=14.56 Aligned_cols=26 Identities=19% Similarity=0.680 Sum_probs=18.1 Q ss_pred CCCCCCCCCCCCCC---------------------CCCCCCCCCCCC Q ss_conf 18288999733456---------------------541003555567 Q gi|254780762|r 57 VCLCSICGNVDTTD---------------------PCAICIDQQRDA 82 (201) Q Consensus 57 i~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~ 82 (201) .-.|..|+.+-+.+ .|++|..++.+. T Consensus 3 ~y~C~~CgyiYd~~~Gd~~~~i~pGT~F~~lP~~w~CP~C~a~K~~F 49 (52) T 1e8j_A 3 IYVCTVCGYEYDPAKGDPDSGIKPGTKFEDLPDDWACPVCGASKDAF 49 (52) T ss_dssp CEECSSSCCCCCTTTCCTTTTCCSSCCTTSSCTTCCCSSSCCCTTSC T ss_pred EEECCCCCEEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHH T ss_conf 37918999087755477456879999877889988895998818993 No 115 >>3cp8_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme GIDA; rossmann fold, FAD-binding domain, dinucleotide-binding motif; HET: FAD; 3.20A {Chlorobium tepidum} (A:172-218,A:356-366) Probab=22.19 E-value=10 Score=19.11 Aligned_cols=34 Identities=18% Similarity=0.381 Sum_probs=28.1 Q ss_pred CHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHH Q ss_conf 86899999999820179808874146748820666 Q gi|254780762|r 151 EGQTTAHYIMDKLKGIDVKITRLAYGIPMGSELDY 185 (201) Q Consensus 151 EGe~Ta~yi~~~lk~~~ikitrla~GiP~G~~ley 185 (201) .||..|..|.+.|+..++++-|+-.|-|- -.||| T Consensus 20 ~ge~~s~~Ls~sL~~lGf~l~RlKTGTP~-~~~~~ 53 (58) T 3cp8_A 20 TAEPPVEGLTESLASLGFSFGRLKTGTPG-YAIEY 53 (58) T ss_dssp TTSCCBCSHHHHHHHTTCCEEEEEEEECC-EEEEE T ss_pred CCCCCCCCCCHHHHHCCCCCEEEEECCCC-CCCEE T ss_conf 48764544407788506630124412466-33100 No 116 >>3gi1_A LBP, laminin-binding protein of group A streptococci; zinc-binding receptor, metal-binding, helical backbone, alpha/beta domains; 2.45A {Streptococcus pyogenes} PDB: 3hjt_A (A:178-286) Probab=21.92 E-value=56 Score=14.14 Aligned_cols=82 Identities=10% Similarity=0.140 Sum_probs=46.9 Q ss_pred HHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCC-HHHHHH-- Q ss_conf 10020002681112889999985157855499994699786899999999820179808874146748820-666347-- Q gi|254780762|r 112 GSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMGSE-LDYLDD-- 188 (201) Q Consensus 112 G~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G~~-ley~D~-- 188 (201) |.+.+..+..|.--.+..+.+.+++.+++=|+..-.+ +..++..|.+.+.-..+.+.-++.+.|-|.+ ++.++. T Consensus 25 ~~~~~~~~~~ps~~~i~~l~~~ik~~~i~~i~~e~~~---~~~~~~~ia~~~~~~~~~l~~l~~~~~~~~~Y~~~m~~n~ 101 (109) T 3gi1_A 25 GISGISPEQEPSPRQLKEIQDFVKEYNVKTIFAEDNV---NPKIAHAIAKSTGAKVKTLSPLEAAPSGNKTYLENLRANL 101 (109) T ss_dssp EEECSCC---CCHHHHHHHHHHHHHTTCCEEEECTTS---CTHHHHHHHHTTTCEEEECCCSCSCCSSSCCHHHHHHHHH T ss_pred ECCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEECCC---CHHHHHHHHHHHCCCEEEECCCCCCCCCCCCHHHHHHHHH T ss_conf 3256687678998999999999997599889995889---9399999999829987874777678888665999999999 Q ss_pred HHHHHHHH Q ss_conf 99999983 Q gi|254780762|r 189 GTIFEAIR 196 (201) Q Consensus 189 ~TL~~Al~ 196 (201) .+|..||+ T Consensus 102 ~~l~~aLk 109 (109) T 3gi1_A 102 EVLYQQLK 109 (109) T ss_dssp HHHHHHHC T ss_pred HHHHHHHC T ss_conf 99999719 No 117 >>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis/exocytosis complex; 7.90A {Bos taurus} (A:707-767) Probab=21.75 E-value=20 Score=17.10 Aligned_cols=57 Identities=14% Similarity=0.287 Sum_probs=33.5 Q ss_pred CEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEE--EEEECCCCCHHHHHHHHHH Q ss_conf 40134210121002000268111288999998515785549--9994699786899999999 Q gi|254780762|r 102 AVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIREL--IFAISATIEGQTTAHYIMD 161 (201) Q Consensus 102 ~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EV--IlA~~~t~EGe~Ta~yi~~ 161 (201) .|.|+|+-||..++..+. .++.+.=...-.+-++++|| |---|..-++|-+-+||++ T Consensus 1 s~eglyyyL~sivn~s~d---~~v~fKYIeAa~k~gq~~EvERicresn~YdpekvKnfLKe 59 (61) T 1xi4_A 1 SFEGLFYFLGSIVNFSQD---PDVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKE 59 (61) T ss_pred CCHHHHHHHHHHCCCCCC---CHHHHHHHHHHHHHCCHHHHHHHHCCCCCCCHHHHHHHHHC T ss_conf 631399998876155668---21899999999972758999999705677898999999840 No 118 >>4rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.20A {} (A:) Probab=21.37 E-value=35 Score=15.55 Aligned_cols=25 Identities=20% Similarity=0.688 Sum_probs=17.2 Q ss_pred CCCCCCCCCCCCC---------------------CCCCCCCCCCCC Q ss_conf 8288999733456---------------------541003555567 Q gi|254780762|r 58 CLCSICGNVDTTD---------------------PCAICIDQQRDA 82 (201) Q Consensus 58 ~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~ 82 (201) -.|..||.+-+.+ .|++|..++.+. T Consensus 4 ~~C~~CgyiYd~~~Gd~~~~i~pGT~F~~LP~dw~CP~C~a~K~~F 49 (54) T 4rxn_A 4 YTCTVCGYIYDPEDGDPDDGVNPGTDFKDIPDDWVCPLCGVGKDEF 49 (54) T ss_dssp EEETTTCCEECTTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGGE T ss_pred EECCCCCCEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHC T ss_conf 5919999288855478456879899968889988993998948993 No 119 >>3erm_A Uncharacterized conserved protein; APC85034, ppspto1197, seudomonas syringae PV. tomato STR. DC3000, structural genomics, PSI-2; HET: MSE; 2.45A {Pseudomonas syringae PV} (A:) Probab=20.78 E-value=59 Score=13.99 Aligned_cols=36 Identities=22% Similarity=0.456 Sum_probs=27.2 Q ss_pred HHHHHHH-HHCCCCCHHHHHHHHHHHHHCCHHHHHHH Q ss_conf 9999999-75689995379999999971998999999 Q gi|254780762|r 11 ENLIKIL-ARIPGFGPRSARRATLHLVKKKEQLLGPL 46 (201) Q Consensus 11 ~~LI~~l-~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l 46 (201) ++|.+.| ++.||+...+++-+++||-++++....-| T Consensus 37 d~L~~~L~~~~~~lde~~~E~l~l~LA~nKd~l~~~l 73 (91) T 3erm_A 37 ELLTDVLIKNVPGLSEKHAEDASIYXAKNRAVFAAAF 73 (91) T ss_dssp HHHHHHHHHHSTTCCHHHHHHHHHHHHTTHHHHHHHH T ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999838899888899999999997799999998 No 120 >>2v3b_B Rubredoxin 2, rubredoxin; alkane degradation, iron-sulfur protein, oxidoreductase, electron transfer, electron transport, FAD, NAD, iron; HET: FAD; 2.45A {Pseudomonas aeruginosa} (B:) Probab=20.74 E-value=34 Score=15.59 Aligned_cols=25 Identities=24% Similarity=0.490 Sum_probs=17.3 Q ss_pred CCCCCCCCCCCCC---------------------CCCCCCCCCCCC Q ss_conf 8288999733456---------------------541003555567 Q gi|254780762|r 58 CLCSICGNVDTTD---------------------PCAICIDQQRDA 82 (201) Q Consensus 58 ~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~ 82 (201) -.|..||.+-+.+ .|++|..++.+. T Consensus 4 y~C~~CgyiYd~~~Gd~~~~I~pGT~F~~LP~~w~CP~C~a~K~~F 49 (55) T 2v3b_B 4 WQCVVCGFIYDEALGLPEEGIPAGTRWEDIPADWVCPDCGVGKIDF 49 (55) T ss_dssp EEETTTCCEEETTTCBTTTTBCTTCCGGGSCTTCCCTTTCCCGGGE T ss_pred EECCCCCCEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHC T ss_conf 5939999188956588456869899867888886796999968888 No 121 >>2zxi_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme MNMG; 5-carboxymethylaminomethyl uridine, wobble uridine, FAD, FAD-binding protein; HET: FAD; 2.30A {Aquifex aeolicus} PDB: 2zxh_A* 2e57_A* (A:179-223,A:367-383) Probab=20.16 E-value=11 Score=18.90 Aligned_cols=34 Identities=18% Similarity=0.252 Sum_probs=28.9 Q ss_pred CCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCC Q ss_conf 6997868999999998201798088741467488 Q gi|254780762|r 147 SATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMG 180 (201) Q Consensus 147 ~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G 180 (201) +.--.||..+..|.+.|++.++++-|+-.|-|.= T Consensus 14 ~gGR~Ge~~s~~LS~sL~~lGf~l~RlKTGTP~~ 47 (62) T 2zxi_A 14 PGGRLGEPRSEGLSDFYRRFDFPLIRFKTGTPAY 47 (62) T ss_dssp ECSBTTBCCBCTHHHHHHHTTCCCEEEEEEECCE T ss_pred CCCCCHHCCCHHHHHHHHHCCCCCCCHHCCCCHH T ss_conf 4543010000127899886074200011024244 Done!