Query gi|254781147|ref|YP_003065560.1| transcriptional regulator [Candidatus Liberibacter asiaticus str. psy62] Match_columns 83 No_of_seqs 109 out of 8897 Neff 7.1 Searched_HMMs 23785 Date Wed Jun 1 04:05:58 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781147.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2bnm_A Epoxidase; oxidoreducta 99.6 3.6E-16 1.5E-20 115.5 7.4 64 20-83 9-73 (198) 2 1y9q_A Transcriptional regulat 99.6 1.1E-15 4.7E-20 112.6 7.6 70 11-82 3-72 (192) 3 3ivp_A Putative transposon-rel 99.6 3.9E-15 1.6E-19 109.4 7.9 64 20-83 11-74 (126) 4 2ewt_A BLDD, putative DNA-bind 99.6 3.5E-15 1.5E-19 109.6 7.4 64 19-82 6-71 (71) 5 2b5a_A C.BCLI; helix-turn-heli 99.6 1.1E-14 4.5E-19 106.8 9.3 66 17-82 6-71 (77) 6 3f52_A CLP gene regulator (CLG 99.6 3.8E-15 1.6E-19 109.5 6.7 64 19-82 26-89 (117) 7 3op9_A PLI0006 protein; struct 99.6 7.8E-15 3.3E-19 107.6 7.6 64 19-82 7-70 (114) 8 3b7h_A Prophage LP1 protein 11 99.6 1.7E-14 7.1E-19 105.6 9.3 65 18-82 4-69 (78) 9 2kpj_A SOS-response transcript 99.6 9.3E-15 3.9E-19 107.2 7.9 65 18-82 6-70 (94) 10 1y7y_A C.AHDI; helix-turn-heli 99.5 9.5E-15 4E-19 107.1 7.7 63 19-81 11-73 (74) 11 3g5g_A Regulatory protein; tra 99.5 2.5E-14 1E-18 104.6 8.6 63 20-82 27-89 (99) 12 3clc_A Regulatory protein; pro 99.5 3.6E-14 1.5E-18 103.7 8.7 63 20-82 10-72 (82) 13 1b0n_A Protein (SINR protein); 99.5 1.7E-14 7.1E-19 105.6 6.8 62 21-82 1-63 (111) 14 1lmb_3 Protein (lambda repress 99.5 5.6E-14 2.3E-18 102.5 8.5 72 11-82 7-78 (92) 15 3f6w_A XRE-family like protein 99.5 6.9E-14 2.9E-18 102.0 8.8 64 19-82 12-75 (83) 16 3kxa_A NGO0477 protein, putati 99.5 1.5E-14 6.2E-19 106.0 5.3 64 19-82 66-129 (141) 17 2ofy_A Putative XRE-family tra 99.5 1.3E-13 5.5E-18 100.3 10.1 69 12-82 7-76 (86) 18 2r1j_L Repressor protein C2; p 99.5 6.9E-14 2.9E-18 102.0 7.9 62 21-82 5-66 (68) 19 3kz3_A Repressor protein CI; f 99.5 9.9E-14 4.2E-18 101.0 8.3 72 11-82 2-73 (80) 20 2a6c_A Helix-turn-helix motif; 99.5 2.6E-14 1.1E-18 104.5 5.1 74 10-83 7-81 (83) 21 1utx_A CYLR2; DNA-binding prot 99.5 6.1E-14 2.6E-18 102.3 7.0 60 23-82 3-62 (66) 22 1adr_A P22 C2 repressor; trans 99.5 9.3E-14 3.9E-18 101.2 7.9 62 21-82 5-66 (76) 23 2p5t_A Putative transcriptiona 99.5 3.4E-15 1.4E-19 109.7 0.0 62 21-82 1-62 (158) 24 3mlf_A Transcriptional regulat 99.5 1.8E-14 7.5E-19 105.5 3.3 62 21-82 23-84 (111) 25 2wiu_B HTH-type transcriptiona 99.5 2.5E-14 1.1E-18 104.6 3.7 63 20-82 11-73 (88) 26 3omt_A Uncharacterized protein 99.5 2.8E-14 1.2E-18 104.3 3.7 63 21-83 8-70 (73) 27 3bs3_A Putative DNA-binding pr 99.4 3E-14 1.3E-18 104.1 3.4 65 18-82 7-71 (76) 28 2jvl_A TRMBF1; coactivator, he 99.4 1.1E-13 4.8E-18 100.7 4.6 63 20-82 33-97 (107) 29 3eus_A DNA-binding protein; st 99.4 7.4E-13 3.1E-17 95.8 8.5 64 18-81 11-76 (86) 30 2ict_A Antitoxin HIGA; helix-t 99.4 4.5E-13 1.9E-17 97.2 7.4 60 22-81 9-68 (94) 31 1x57_A Endothelial differentia 99.4 2.1E-13 8.9E-18 99.1 5.4 61 20-80 12-72 (91) 32 1r69_A Repressor protein CI; g 99.4 4.8E-13 2E-17 97.0 6.5 60 22-82 2-61 (69) 33 2ef8_A C.ECOT38IS, putative tr 99.4 3.9E-13 1.6E-17 97.5 5.4 60 19-78 8-67 (84) 34 1zug_A Phage 434 CRO protein; 99.4 8.6E-13 3.6E-17 95.5 6.8 61 21-82 3-63 (71) 35 3cec_A Putative antidote prote 99.3 2.4E-12 9.9E-17 92.9 7.7 61 21-81 18-78 (104) 36 3g7d_A PHPD; non heme Fe(II) d 99.3 1.4E-12 6.1E-17 94.1 5.8 62 22-83 231-293 (443) 37 2awi_A PRGX; repressor, pherom 99.3 4.9E-12 2.1E-16 91.0 7.4 60 21-81 3-62 (317) 38 2l49_A C protein; P2 bacteriop 99.3 1.8E-12 7.4E-17 93.6 3.3 61 21-81 4-66 (99) 39 3bdn_A Lambda repressor; repre 99.2 5.4E-12 2.3E-16 90.7 4.7 71 11-81 7-77 (236) 40 2qfc_A PLCR protein; TPR, HTH, 99.2 2.1E-12 8.7E-17 93.2 2.5 61 20-81 4-64 (293) 41 2wus_R RODZ, putative uncharac 99.1 1.1E-10 4.7E-15 82.9 6.6 64 19-82 5-74 (112) 42 2o38_A Hypothetical protein; a 99.1 8.8E-11 3.7E-15 83.6 5.1 68 14-81 33-101 (120) 43 3fmy_A HTH-type transcriptiona 99.1 6.7E-11 2.8E-15 84.3 4.1 60 21-81 11-70 (73) 44 2eby_A Putative HTH-type trans 99.0 7.7E-10 3.2E-14 78.0 6.1 59 23-81 12-71 (113) 45 2ppx_A AGR_C_3184P, uncharacte 98.9 7.8E-10 3.3E-14 77.9 5.0 60 21-81 30-89 (99) 46 2fjr_A Repressor protein CI; g 98.9 4.4E-09 1.8E-13 73.5 6.7 58 24-82 9-67 (189) 47 3fym_A Putative uncharacterize 98.8 8.7E-09 3.7E-13 71.7 7.2 61 21-81 3-69 (130) 48 3o9x_A Uncharacterized HTH-typ 98.8 2.1E-09 9E-14 75.3 3.9 56 22-78 72-127 (133) 49 2auw_A Hypothetical protein NE 98.7 2.2E-08 9.3E-13 69.3 5.2 48 23-70 92-139 (170) 50 1dw9_A Cyanate lyase; cyanate 98.4 1E-06 4.2E-11 59.5 7.5 63 19-81 11-73 (156) 51 3bd1_A CRO protein; transcript 96.5 0.0022 9.3E-08 39.6 4.0 46 35-81 12-59 (79) 52 3kjx_A Transcriptional regulat 96.4 0.0028 1.2E-07 39.0 4.4 46 30-75 6-54 (344) 53 2k9q_A Uncharacterized protein 96.4 0.013 5.5E-07 35.0 7.7 61 22-82 3-63 (77) 54 1neq_A DNA-binding protein NER 96.3 0.011 4.8E-07 35.4 6.9 56 24-82 12-67 (74) 55 1uxc_A FRUR (1-57), fructose r 96.3 0.0042 1.8E-07 37.9 4.5 43 35-77 1-49 (65) 56 2hsg_A Glucose-resistance amyl 96.1 0.0077 3.2E-07 36.4 5.1 43 34-76 2-47 (332) 57 3h5t_A Transcriptional regulat 96.0 0.0043 1.8E-07 37.9 3.4 46 30-75 5-53 (366) 58 1zx4_A P1 PARB, plasmid partit 95.9 0.0089 3.7E-07 36.0 4.8 36 21-57 12-47 (192) 59 2h8r_A Hepatocyte nuclear fact 95.6 0.044 1.9E-06 31.9 7.4 45 20-64 30-74 (221) 60 1qpz_A PURA, protein (purine n 95.6 0.013 5.6E-07 35.0 4.7 42 36-77 2-46 (340) 61 3e3m_A Transcriptional regulat 95.1 0.0029 1.2E-07 38.9 0.0 48 30-77 8-58 (355) 62 3bil_A Probable LACI-family tr 94.7 0.0046 1.9E-07 37.7 0.0 47 31-77 5-54 (348) 63 2w48_A Sorbitol operon regulat 94.6 0.03 1.3E-06 32.9 4.1 55 21-75 8-75 (315) 64 3dbi_A Sugar-binding transcrip 94.3 0.0061 2.6E-07 37.0 0.0 44 34-77 3-49 (338) 65 3h5o_A Transcriptional regulat 94.3 0.0064 2.7E-07 36.9 0.0 46 32-77 2-50 (339) 66 1jye_A Lactose operon represso 94.2 0.0069 2.9E-07 36.7 0.0 45 33-77 2-49 (349) 67 1jhf_A LEXA repressor; LEXA SO 93.8 0.08 3.4E-06 30.4 4.8 37 17-54 7-46 (202) 68 2o20_A Catabolite control prot 93.7 0.0095 4E-07 35.9 0.0 46 32-77 3-51 (332) 69 1jhg_A Trp operon repressor; c 93.7 0.098 4.1E-06 29.8 5.1 41 17-57 39-81 (101) 70 3frw_A Putative Trp repressor 93.5 0.12 5.2E-06 29.3 5.4 41 17-57 40-81 (107) 71 3kor_A Possible Trp repressor; 93.3 0.13 5.3E-06 29.2 5.1 41 17-57 57-98 (119) 72 3jvd_A Transcriptional regulat 93.2 0.013 5.4E-07 35.1 0.0 46 32-77 4-52 (333) 73 2ox6_A Hypothetical protein SO 93.2 0.29 1.2E-05 27.0 6.9 48 23-70 9-56 (166) 74 2oi8_A Putative regulatory pro 93.1 0.14 5.9E-06 28.9 5.2 70 1-70 1-72 (216) 75 3mky_B Protein SOPB; partition 93.1 0.069 2.9E-06 30.7 3.6 56 22-77 29-98 (189) 76 3ctp_A Periplasmic binding pro 92.8 0.016 6.6E-07 34.6 0.0 42 36-77 4-48 (330) 77 1r71_A Transcriptional repress 92.6 0.14 5.9E-06 28.9 4.6 35 21-56 40-74 (178) 78 2csf_A DNA-binding protein SAT 92.4 0.41 1.7E-05 26.1 6.7 60 20-79 20-86 (101) 79 1ui5_A A-factor receptor homol 92.3 0.18 7.6E-06 28.2 4.9 64 1-71 1-66 (215) 80 3mvp_A TETR/ACRR transcription 92.2 0.44 1.8E-05 26.0 6.7 71 1-71 11-83 (217) 81 1zs4_A Regulatory protein CII; 92.1 0.089 3.8E-06 30.1 3.1 41 33-77 23-63 (83) 82 3d1n_I POU domain, class 6, tr 91.8 0.69 2.9E-05 24.8 7.6 52 16-69 3-60 (151) 83 2jn6_A Protein CGL2762, transp 91.8 0.15 6.5E-06 28.7 4.0 27 29-55 18-44 (97) 84 2o0m_A Transcriptional regulat 91.6 0.065 2.7E-06 30.9 2.0 38 26-63 26-68 (345) 85 3kz9_A SMCR; transcriptional r 91.4 0.29 1.2E-05 27.1 5.1 54 20-73 21-76 (206) 86 3gzi_A Transcriptional regulat 91.4 0.32 1.3E-05 26.8 5.3 71 1-72 2-75 (218) 87 1ic8_A Hepatocyte nuclear fact 90.7 0.48 2E-05 25.7 5.7 45 20-64 29-73 (194) 88 1t56_A EThr repressor; helix-t 90.7 0.24 1E-05 27.6 4.1 51 21-71 29-81 (216) 89 2d5v_A Hepatocyte nuclear fact 89.9 0.38 1.6E-05 26.4 4.5 58 20-77 7-70 (164) 90 1rp3_A RNA polymerase sigma fa 89.7 0.27 1.1E-05 27.2 3.7 32 26-57 195-226 (239) 91 1u8b_A ADA polyprotein; protei 89.7 0.52 2.2E-05 25.6 5.1 47 19-65 78-124 (133) 92 3ljl_A Transcriptional regulat 89.6 0.26 1.1E-05 27.4 3.5 66 1-70 4-70 (156) 93 3frq_A Repressor protein MPHR( 89.5 0.47 2E-05 25.8 4.8 66 1-73 2-67 (195) 94 3cwr_A Transcriptional regulat 89.3 0.4 1.7E-05 26.2 4.3 66 3-69 5-72 (208) 95 1z05_A Transcriptional regulat 88.9 0.53 2.2E-05 25.5 4.7 33 22-54 41-73 (429) 96 1jko_C HIN recombinase, DNA-in 88.8 0.25 1E-05 27.5 3.0 32 26-58 14-45 (52) 97 1nr3_A MTH0916, DNA-binding pr 88.6 0.011 4.4E-07 35.6 -4.2 26 32-57 3-28 (122) 98 3bru_A Regulatory protein, TET 88.4 0.51 2.1E-05 25.6 4.4 52 20-71 34-87 (222) 99 1s4k_A Putative cytoplasmic pr 88.2 0.98 4.1E-05 23.9 5.7 49 23-71 5-55 (120) 100 3on2_A Probable transcriptiona 87.7 0.19 8.1E-06 28.1 1.9 68 1-72 1-70 (199) 101 2xsd_C POU domain, class 3, tr 87.2 1.6 6.8E-05 22.6 6.9 51 18-70 14-70 (164) 102 3iwf_A Transcription regulator 86.8 0.86 3.6E-05 24.3 4.7 44 9-56 13-57 (107) 103 3k2z_A LEXA repressor; winged 86.7 1.1 4.5E-05 23.7 5.2 35 17-52 6-42 (196) 104 1r8d_A Transcription activator 86.7 0.95 4E-05 24.0 4.9 47 34-80 2-65 (109) 105 1u78_A TC3 transposase, transp 86.5 0.68 2.8E-05 24.9 4.1 28 27-55 16-43 (141) 106 1z6r_A MLC protein; transcript 86.4 0.44 1.8E-05 26.0 3.1 33 22-54 18-50 (406) 107 1ku3_A Sigma factor SIGA; heli 86.3 0.59 2.5E-05 25.2 3.7 32 26-57 18-53 (73) 108 1e3o_C Octamer-binding transcr 86.3 1.8 7.6E-05 22.3 7.9 43 17-59 7-55 (160) 109 2dg7_A Putative transcriptiona 86.1 1.1 4.5E-05 23.7 5.0 40 23-62 16-55 (195) 110 3cjd_A Transcriptional regulat 86.1 1 4.2E-05 23.8 4.8 49 23-71 21-69 (198) 111 2gfn_A HTH-type transcriptiona 86.1 0.88 3.7E-05 24.2 4.5 50 23-72 18-67 (209) 112 2p7v_B Sigma-70, RNA polymeras 86.0 0.5 2.1E-05 25.7 3.2 26 32-57 23-48 (68) 113 2r0q_C Putative transposon TN5 86.0 1.4 6.1E-05 22.9 5.5 36 22-58 164-199 (209) 114 2wui_A MEXZ, transcriptional r 85.9 0.17 7.1E-06 28.4 0.8 66 1-71 1-68 (210) 115 1vz0_A PARB, chromosome partit 85.8 0.61 2.6E-05 25.1 3.6 32 24-56 125-156 (230) 116 2ibd_A Possible transcriptiona 85.7 0.75 3.2E-05 24.6 4.0 54 20-73 18-73 (204) 117 2np5_A Transcriptional regulat 85.4 1.2 5.2E-05 23.3 5.0 54 21-74 14-69 (203) 118 3b81_A Transcriptional regulat 85.2 0.55 2.3E-05 25.4 3.1 65 1-71 2-68 (203) 119 2hyt_A TETR-family transcripti 85.2 0.23 9.8E-06 27.6 1.2 50 23-72 21-70 (197) 120 2xdn_A HTH-type transcriptiona 85.0 0.94 3.9E-05 24.0 4.2 50 21-70 16-67 (210) 121 3f1b_A TETR-like transcription 84.8 1.7 7.1E-05 22.5 5.4 55 19-73 17-73 (203) 122 3c2b_A Transcriptional regulat 84.7 0.95 4E-05 24.0 4.1 68 1-71 3-72 (221) 123 2dg8_A Putative TETR-family tr 84.5 1 4.4E-05 23.8 4.2 65 1-72 1-67 (193) 124 1x2l_A CUT-like 2, homeobox pr 84.2 1.3 5.5E-05 23.1 4.7 58 19-76 19-83 (101) 125 2gau_A Transcriptional regulat 83.9 0.66 2.8E-05 24.9 3.0 40 33-72 179-231 (232) 126 1vi0_A Transcriptional regulat 83.4 1.2 5E-05 23.4 4.2 52 20-71 12-65 (206) 127 3knw_A Putative transcriptiona 83.3 1.1 4.6E-05 23.6 4.0 54 26-79 26-79 (212) 128 2vz4_A Tipal, HTH-type transcr 83.2 1.6 6.7E-05 22.6 4.8 46 35-80 2-64 (108) 129 1umq_A Photosynthetic apparatu 83.1 1.1 4.7E-05 23.6 3.9 33 23-55 43-75 (81) 130 3bjb_A Probable transcriptiona 83.0 1.4 6E-05 22.9 4.4 63 12-74 18-82 (207) 131 2nx4_A Transcriptional regulat 82.8 1.2 5.1E-05 23.3 4.0 49 25-73 21-69 (194) 132 1rzs_A Antirepressor, regulato 82.8 1.3 5.4E-05 23.2 4.1 36 36-74 12-47 (61) 133 1l0o_C Sigma factor; bergerat 82.7 0.2 8.4E-06 28.0 0.0 32 26-57 206-237 (243) 134 1wiz_A DNA-binding protein SAT 82.5 1.8 7.5E-05 22.4 4.8 59 21-79 21-86 (101) 135 1k78_A Paired box protein PAX5 82.4 2.4 0.0001 21.6 5.4 31 23-54 38-68 (149) 136 1wh8_A CUT-like 2, homeobox pr 82.1 1.8 7.4E-05 22.4 4.6 57 20-76 30-93 (111) 137 2wte_A CSA3; antiviral protein 82.1 1.1 4.8E-05 23.5 3.7 32 23-54 155-186 (244) 138 2w53_A Repressor, SMet; antibi 82.0 1.3 5.6E-05 23.1 4.0 66 1-71 1-68 (219) 139 3hta_A EBRA repressor; TETR fa 82.0 2.4 1E-04 21.6 5.2 53 21-73 33-87 (217) 140 1hlv_A CENP-B, major centromer 81.5 0.95 4E-05 24.0 3.1 34 24-57 15-48 (131) 141 3g7r_A Putative transcriptiona 81.5 1.8 7.6E-05 22.3 4.5 51 23-73 44-94 (221) 142 2o3f_A Putative HTH-type trans 81.5 1.7 6.9E-05 22.6 4.3 53 9-65 17-70 (111) 143 3npi_A TETR family regulatory 81.4 2 8.3E-05 22.1 4.7 60 22-81 26-85 (251) 144 3on4_A Transcriptional regulat 81.4 1.6 6.6E-05 22.7 4.2 49 23-71 19-67 (191) 145 1tty_A Sigma-A, RNA polymerase 81.2 2.3 9.6E-05 21.7 5.0 43 32-74 36-83 (87) 146 1s7o_A Hypothetical UPF0122 pr 81.1 1.7 7.2E-05 22.5 4.3 30 25-54 29-58 (113) 147 2oer_A Probable transcriptiona 81.1 1 4.2E-05 23.9 3.1 43 31-73 41-83 (214) 148 2f07_A YVDT; helix-turn-helix, 80.9 3 0.00013 21.0 6.6 43 31-73 27-69 (197) 149 1wh6_A CUT-like 2, homeobox pr 80.9 1.8 7.5E-05 22.3 4.3 56 19-74 19-81 (101) 150 2gen_A Probable transcriptiona 80.6 1.9 8.1E-05 22.2 4.4 46 23-68 16-61 (197) 151 3bdd_A Regulatory protein MARR 80.3 1.4 5.9E-05 23.0 3.6 30 25-54 36-65 (142) 152 2qtq_A Transcriptional regulat 80.2 2.4 1E-04 21.6 4.7 52 21-72 21-74 (213) 153 3bni_A Putative TETR-family tr 79.7 2 8.5E-05 22.0 4.3 40 30-69 59-98 (229) 154 2hoe_A N-acetylglucosamine kin 79.7 1.4 6.1E-05 22.9 3.5 29 25-54 25-53 (380) 155 2d1h_A ST1889, 109AA long hypo 79.6 1.6 6.8E-05 22.6 3.7 29 26-54 27-56 (109) 156 2o8x_A Probable RNA polymerase 79.4 1.7 7.3E-05 22.4 3.9 34 24-57 21-55 (70) 157 2hyj_A Putative TETR-family tr 78.9 1.7 7.3E-05 22.4 3.7 51 23-73 21-71 (200) 158 3ccy_A Putative TETR-family tr 78.9 0.85 3.6E-05 24.3 2.1 62 1-68 4-68 (203) 159 2rdp_A Putative transcriptiona 78.8 1.7 7.1E-05 22.5 3.6 30 25-54 47-76 (150) 160 1pdn_C Protein (PRD paired); p 78.7 3.4 0.00014 20.7 5.2 31 23-54 23-53 (128) 161 2eth_A Transcriptional regulat 78.5 1.7 7E-05 22.5 3.5 30 25-54 49-78 (154) 162 3hug_A RNA polymerase sigma fa 78.4 2 8.2E-05 22.1 3.9 48 24-75 43-90 (92) 163 1tlh_B Sigma-70, RNA polymeras 78.1 1.7 7.2E-05 22.5 3.5 25 33-57 37-61 (81) 164 1sfx_A Conserved hypothetical 78.0 2.4 1E-04 21.6 4.2 31 24-54 24-54 (109) 165 1xsv_A Hypothetical UPF0122 pr 77.9 1.9 7.9E-05 22.2 3.7 31 24-54 31-61 (113) 166 2zb9_A Putative transcriptiona 77.8 3.8 0.00016 20.4 5.7 50 20-69 27-78 (214) 167 2g7s_A Transcriptional regulat 77.8 2.1 8.6E-05 22.0 3.8 49 25-73 19-67 (194) 168 2rae_A Transcriptional regulat 77.7 1.6 6.7E-05 22.7 3.2 47 26-72 29-75 (207) 169 3cta_A Riboflavin kinase; stru 77.7 2.5 0.0001 21.5 4.2 32 23-54 10-47 (230) 170 3lwj_A Putative TETR-family tr 77.6 2.7 0.00011 21.3 4.4 53 21-73 17-71 (202) 171 2ao9_A Phage protein; structur 77.5 1.3 5.5E-05 23.2 2.7 26 31-56 45-70 (155) 172 3g3z_A NMB1585, transcriptiona 77.3 2 8.3E-05 22.1 3.6 30 25-54 36-65 (145) 173 3bpv_A Transcriptional regulat 77.2 1.9 7.8E-05 22.3 3.5 29 26-54 35-63 (138) 174 3mn2_A Probable ARAC family tr 77.1 4 0.00017 20.3 5.5 33 32-64 16-48 (108) 175 2id3_A Putative transcriptiona 77.0 4 0.00017 20.3 5.2 53 21-73 45-99 (225) 176 3nrv_A Putative transcriptiona 76.9 1.7 7E-05 22.5 3.2 31 24-54 44-74 (148) 177 3nrg_A TETR family transcripti 76.8 0.51 2.1E-05 25.6 0.5 39 33-71 32-70 (217) 178 1eto_A FIS, factor for inversi 76.7 2.6 0.00011 21.4 4.1 31 23-53 60-90 (98) 179 2o7t_A Transcriptional regulat 76.6 4.1 0.00017 20.2 5.1 40 31-70 25-64 (199) 180 1gdt_A GD resolvase, protein ( 76.5 2.6 0.00011 21.4 4.1 30 26-56 151-180 (183) 181 3iwz_A CAP-like, catabolite ac 76.5 1.3 5.5E-05 23.2 2.5 21 34-54 187-207 (230) 182 2nnn_A Probable transcriptiona 76.1 2.1 8.7E-05 22.0 3.5 30 25-54 43-72 (140) 183 1pb6_A Hypothetical transcript 76.1 3.7 0.00015 20.5 4.7 53 21-73 23-77 (212) 184 2v57_A TETR family transcripti 76.0 1.8 7.7E-05 22.3 3.2 54 20-73 18-71 (190) 185 2a61_A Transcriptional regulat 76.0 2.3 9.7E-05 21.7 3.7 30 25-54 38-67 (145) 186 2o4a_A DNA-binding protein SAT 75.9 4.3 0.00018 20.1 6.9 59 21-79 11-76 (93) 187 2k27_A Paired box protein PAX- 75.9 3.5 0.00015 20.6 4.6 24 31-54 38-61 (159) 188 2pex_A Transcriptional regulat 75.8 1.6 6.6E-05 22.7 2.8 30 25-54 52-81 (153) 189 2ia0_A Putative HTH-type trans 75.8 2.3 9.6E-05 21.7 3.6 30 24-53 21-50 (171) 190 1yse_A DNA-binding protein SAT 75.8 2.1 8.7E-05 22.0 3.4 58 21-78 25-89 (141) 191 3crj_A Transcription regulator 75.7 4.2 0.00018 20.2 4.9 47 25-71 25-71 (199) 192 2w25_A Probable transcriptiona 75.7 2.3 9.7E-05 21.7 3.6 30 24-53 11-40 (150) 193 1jgs_A Multiple antibiotic res 75.6 2.3 9.8E-05 21.7 3.6 31 24-54 38-68 (138) 194 1z91_A Organic hydroperoxide r 75.6 1.3 5.4E-05 23.2 2.3 30 25-54 45-74 (147) 195 2fbq_A Probable transcriptiona 75.4 4.3 0.00018 20.1 4.9 60 10-69 2-62 (235) 196 3lsg_A Two-component response 75.4 2.8 0.00012 21.2 3.9 31 32-62 17-47 (103) 197 2yve_A Transcriptional regulat 75.3 2.5 0.00011 21.5 3.7 48 30-77 20-67 (185) 198 1ft9_A Carbon monoxide oxidati 75.3 1.5 6.3E-05 22.8 2.6 39 33-71 162-214 (222) 199 3f0c_A TETR-molecule A, transc 75.1 0.99 4.2E-05 23.9 1.6 51 23-73 20-70 (216) 200 2p5v_A Transcriptional regulat 75.0 2.5 0.0001 21.5 3.6 30 24-53 14-43 (162) 201 2dbb_A Putative HTH-type trans 74.9 2.3 9.7E-05 21.7 3.5 30 24-53 13-42 (151) 202 1ojl_A Transcriptional regulat 74.9 2.7 0.00011 21.3 3.8 32 23-54 270-301 (304) 203 2jj7_A Hemolysin II regulatory 74.8 3.3 0.00014 20.7 4.2 47 23-69 16-62 (186) 204 2zdb_A Transcriptional regulat 74.8 1.3 5.3E-05 23.3 2.1 38 34-71 139-189 (195) 205 1j5y_A Transcriptional regulat 74.8 4.1 0.00017 20.2 4.7 33 22-54 23-56 (187) 206 3e7l_A Transcriptional regulat 74.7 3.1 0.00013 20.9 4.1 32 23-54 21-52 (63) 207 1l9z_H Sigma factor SIGA; heli 74.7 1.7 7.2E-05 22.5 2.7 25 33-57 394-418 (438) 208 3gp4_A Transcriptional regulat 74.6 1.4 6E-05 22.9 2.3 47 34-80 2-65 (142) 209 2zhg_A Redox-sensitive transcr 74.5 1.5 6.2E-05 22.8 2.4 51 30-80 7-73 (154) 210 3geu_A Intercellular adhesion 74.5 3.1 0.00013 20.9 4.0 49 23-71 12-60 (189) 211 3dcf_A Transcriptional regulat 74.4 1.9 7.9E-05 22.2 2.9 52 21-72 36-89 (218) 212 2elh_A CG11849-PA, LD40883P; s 74.4 4 0.00017 20.3 4.5 26 31-56 35-60 (87) 213 3cjn_A Transcriptional regulat 74.4 1.8 7.5E-05 22.4 2.8 31 24-54 56-86 (162) 214 3ech_A MEXR, multidrug resista 74.3 1.7 7.3E-05 22.4 2.7 30 25-54 42-71 (142) 215 2pij_A Prophage PFL 6 CRO; tra 74.2 1.5 6.2E-05 22.9 2.3 28 36-63 15-42 (67) 216 2cyy_A Putative HTH-type trans 74.1 2.5 0.00011 21.5 3.5 30 24-53 11-40 (151) 217 1q06_A Transcriptional regulat 73.9 1.6 6.6E-05 22.7 2.4 23 35-57 1-23 (135) 218 2qww_A Transcriptional regulat 73.9 1.9 7.9E-05 22.2 2.8 30 25-54 46-75 (154) 219 2k9s_A Arabinose operon regula 73.9 3.5 0.00015 20.7 4.1 40 23-62 6-48 (107) 220 2jml_A DNA binding domain/tran 73.7 0.97 4.1E-05 23.9 1.3 48 33-80 4-70 (81) 221 3egq_A TETR family transcripti 73.6 1.5 6.1E-05 22.9 2.1 41 31-71 21-61 (170) 222 2pn6_A ST1022, 150AA long hypo 73.5 1.7 7.3E-05 22.4 2.5 30 24-53 7-36 (150) 223 2fa5_A Transcriptional regulat 73.5 2.6 0.00011 21.4 3.4 29 26-54 55-83 (162) 224 3ni7_A Bacterial regulatory pr 73.2 4.4 0.00019 20.0 4.6 52 20-71 11-64 (213) 225 1i1g_A Transcriptional regulat 73.2 2.9 0.00012 21.1 3.6 30 24-53 8-37 (141) 226 3oop_A LIN2960 protein; protei 73.1 2.5 0.0001 21.5 3.2 30 25-54 42-71 (143) 227 1rkt_A Protein YFIR; transcrip 73.1 5.1 0.00021 19.7 5.3 52 20-71 16-69 (205) 228 3mzy_A RNA polymerase sigma-H 73.0 3.4 0.00014 20.7 3.9 28 29-56 119-146 (164) 229 2rek_A Putative TETR-family tr 73.0 4.7 0.0002 19.9 4.6 39 33-71 34-72 (199) 230 3kcc_A Catabolite gene activat 72.7 1.9 7.8E-05 22.3 2.5 21 34-54 217-237 (260) 231 3g1l_A Transcriptional regulat 72.7 0.99 4.2E-05 23.9 1.1 39 33-71 63-101 (256) 232 3la7_A Global nitrogen regulat 72.6 2 8.4E-05 22.1 2.7 21 34-54 193-213 (243) 233 3dpj_A Transcription regulator 72.4 5.3 0.00022 19.6 5.7 51 21-71 13-65 (194) 234 2cfx_A HTH-type transcriptiona 72.4 3.1 0.00013 20.9 3.6 29 25-53 10-38 (144) 235 3i4p_A Transcriptional regulat 72.1 2 8.2E-05 22.1 2.5 29 24-52 7-35 (162) 236 3nqo_A MARR-family transcripti 71.9 1.9 8.2E-05 22.1 2.5 23 32-54 55-77 (189) 237 2g7g_A RHA04620, putative tran 71.8 2.1 8.8E-05 21.9 2.6 49 21-69 16-64 (213) 238 2o0y_A Transcriptional regulat 71.7 0.81 3.4E-05 24.4 0.5 54 1-54 4-58 (260) 239 2nyx_A Probable transcriptiona 71.7 2.8 0.00012 21.2 3.3 30 25-54 50-79 (168) 240 1s3j_A YUSO protein; structura 71.7 2.3 9.7E-05 21.7 2.8 30 25-54 42-71 (155) 241 1ntc_A Protein (nitrogen regul 71.7 2.4 0.0001 21.6 2.9 31 23-53 53-83 (91) 242 2zcm_A Biofilm operon icaabcd 71.7 3.3 0.00014 20.8 3.6 45 26-70 19-63 (192) 243 3bqz_B HTH-type transcriptiona 71.5 2.9 0.00012 21.1 3.3 49 23-71 11-59 (194) 244 2d6y_A Putative TETR family re 71.2 3.3 0.00014 20.8 3.5 46 23-68 17-62 (202) 245 2hr3_A Probable transcriptiona 71.1 3.5 0.00015 20.6 3.6 31 24-54 39-70 (147) 246 2i10_A Putative TETR transcrip 71.0 1.4 6.1E-05 22.9 1.7 40 26-65 23-62 (202) 247 3kkc_A TETR family transcripti 70.8 1.8 7.6E-05 22.3 2.1 54 20-73 15-71 (177) 248 3e6c_C CPRK, cyclic nucleotide 70.7 2.4 9.9E-05 21.7 2.7 40 33-72 176-228 (250) 249 3e7q_A Transcriptional regulat 70.6 1.6 6.9E-05 22.6 1.9 50 23-72 23-72 (215) 250 2pz9_A Putative regulatory pro 70.6 2.8 0.00012 21.2 3.1 48 23-70 39-86 (226) 251 2ovg_A Phage lambda CRO; trans 70.5 2 8.4E-05 22.1 2.3 34 27-62 8-41 (66) 252 3bj6_A Transcriptional regulat 70.5 2.5 0.00011 21.5 2.8 30 25-54 45-74 (152) 253 2e1c_A Putative HTH-type trans 70.4 3.7 0.00015 20.5 3.6 31 23-53 30-60 (171) 254 1ub9_A Hypothetical protein PH 70.2 2.4 1E-04 21.6 2.6 29 26-54 22-50 (100) 255 2a6h_F RNA polymerase sigma fa 69.8 1.4 6E-05 22.9 1.4 26 32-57 378-403 (423) 256 2l1p_A DNA-binding protein SAT 69.5 2.6 0.00011 21.3 2.7 40 22-63 22-61 (83) 257 3oio_A Transcriptional regulat 69.5 4.1 0.00017 20.2 3.7 35 31-65 20-54 (113) 258 3eco_A MEPR; mutlidrug efflux 69.5 1.9 8.2E-05 22.1 2.0 24 31-54 44-67 (139) 259 3cdl_A Transcriptional regulat 69.3 2.5 0.00011 21.4 2.6 48 26-73 21-68 (203) 260 1ku9_A Hypothetical protein MJ 69.2 2 8.6E-05 22.0 2.1 24 31-54 38-61 (152) 261 3hh0_A Transcriptional regulat 69.1 2.3 9.7E-05 21.7 2.4 49 32-80 2-67 (146) 262 3e97_A Transcriptional regulat 68.9 2.7 0.00011 21.3 2.7 21 34-54 175-195 (231) 263 2cg4_A Regulatory protein ASNC 68.9 4.1 0.00017 20.2 3.6 30 24-53 12-41 (152) 264 3dv8_A Transcriptional regulat 68.7 6.4 0.00027 19.1 4.9 38 34-71 169-219 (220) 265 2eh3_A Transcriptional regulat 68.3 2.5 0.00011 21.5 2.4 42 31-72 19-60 (179) 266 3iyd_F RNA polymerase sigma fa 68.2 0.51 2.2E-05 25.6 -1.1 32 26-57 558-593 (613) 267 3dew_A Transcriptional regulat 68.0 4.2 0.00018 20.2 3.5 53 21-73 13-67 (206) 268 2fxa_A Protease production reg 67.9 3.5 0.00015 20.6 3.1 29 26-54 54-82 (207) 269 1lj9_A Transcriptional regulat 67.8 3.1 0.00013 20.9 2.8 30 25-54 34-63 (144) 270 2fmy_A COOA, carbon monoxide o 67.6 3 0.00013 21.0 2.7 40 33-72 166-219 (220) 271 3gpv_A Transcriptional regulat 67.6 2.4 0.0001 21.6 2.2 50 31-80 13-79 (148) 272 3lhq_A Acrab operon repressor 67.1 6.9 0.00029 18.9 4.7 47 26-72 26-72 (220) 273 2hxo_A Putative TETR-family tr 67.1 1.7 7E-05 22.6 1.3 52 21-72 21-74 (237) 274 3bro_A Transcriptional regulat 66.9 6 0.00025 19.2 4.1 29 26-54 40-70 (141) 275 3k0l_A Repressor protein; heli 66.9 2.5 0.0001 21.5 2.2 29 26-54 52-80 (162) 276 2q24_A Putative TETR family tr 66.8 4.6 0.00019 19.9 3.5 39 34-72 34-72 (194) 277 3dn7_A Cyclic nucleotide bindi 66.7 0.96 4E-05 24.0 0.0 25 32-56 166-190 (194) 278 2guh_A Putative TETR-family tr 66.6 5 0.00021 19.7 3.7 41 21-61 44-86 (214) 279 3pas_A TETR family transcripti 66.1 4.2 0.00018 20.1 3.2 45 28-72 22-66 (195) 280 3eup_A Transcriptional regulat 66.0 4.6 0.00019 19.9 3.4 52 23-74 20-71 (204) 281 3c07_A Putative TETR-family tr 65.9 7.3 0.00031 18.7 4.6 38 33-70 60-97 (273) 282 2hku_A A putative transcriptio 65.8 3.6 0.00015 20.6 2.8 49 23-72 29-77 (215) 283 2oz6_A Virulence factor regula 65.8 3.2 0.00014 20.8 2.6 22 34-55 164-185 (207) 284 2g7l_A TETR-family transcripti 65.7 2.1 8.8E-05 22.0 1.6 34 31-64 36-69 (243) 285 3f3x_A Transcriptional regulat 65.5 4.3 0.00018 20.1 3.1 24 31-54 47-70 (144) 286 3jsj_A Putative TETR-family tr 65.3 3 0.00013 21.0 2.3 41 33-73 27-67 (190) 287 2qwt_A Transcriptional regulat 65.0 2.9 0.00012 21.1 2.2 40 33-72 31-70 (196) 288 3bhq_A Transcriptional regulat 64.9 3.5 0.00015 20.6 2.6 49 23-71 21-69 (211) 289 1zk8_A Transcriptional regulat 64.9 2.8 0.00012 21.2 2.1 49 25-73 19-67 (183) 290 2ras_A Transcriptional regulat 64.6 2.4 0.0001 21.6 1.7 32 30-61 27-58 (212) 291 3dkw_A DNR protein; CRP-FNR, H 64.6 2.5 0.00011 21.5 1.8 22 33-54 177-198 (227) 292 3col_A Putative transcription 64.5 6.3 0.00026 19.1 3.8 43 31-73 27-69 (196) 293 3o60_A LIN0861 protein; PSI, M 64.5 7.7 0.00032 18.6 6.9 62 12-73 14-79 (185) 294 3mkl_A HTH-type transcriptiona 64.3 6.7 0.00028 18.9 3.9 33 32-65 21-53 (120) 295 2zkz_A Transcriptional repress 64.2 5.5 0.00023 19.5 3.5 28 27-54 34-61 (99) 296 3fx3_A Cyclic nucleotide-bindi 64.0 2.6 0.00011 21.4 1.8 39 33-71 177-227 (237) 297 1zyb_A Transcription regulator 63.7 3.7 0.00016 20.4 2.6 21 34-54 186-206 (232) 298 2g3b_A Putative TETR-family tr 63.5 5.8 0.00024 19.3 3.5 47 23-69 12-58 (208) 299 2iai_A Putative transcriptiona 63.5 2.4 0.0001 21.6 1.5 49 23-71 39-87 (230) 300 2zcx_A SCO7815, TETR-family tr 63.5 8.1 0.00034 18.5 5.0 46 23-68 32-77 (231) 301 2rn7_A IS629 ORFA; helix, all 63.3 5 0.00021 19.7 3.1 23 33-55 29-51 (108) 302 1g2h_A Transcriptional regulat 62.9 5.6 0.00024 19.4 3.3 27 27-54 27-53 (61) 303 3cdh_A Transcriptional regulat 62.9 2.6 0.00011 21.4 1.6 29 26-54 49-77 (155) 304 3deu_A Transcriptional regulat 62.8 4.3 0.00018 20.1 2.7 29 26-54 59-88 (166) 305 2id6_A Transcriptional regulat 62.7 4.8 0.0002 19.8 2.9 47 23-69 14-60 (202) 306 2fbh_A Transcriptional regulat 62.6 4.3 0.00018 20.1 2.7 23 32-54 50-72 (146) 307 3e6m_A MARR family transcripti 62.3 4.2 0.00018 20.1 2.6 30 25-54 58-87 (161) 308 3bqy_A Putative TETR family tr 62.0 2.6 0.00011 21.4 1.5 49 23-71 11-59 (209) 309 1or7_A Sigma-24, RNA polymeras 61.9 7.4 0.00031 18.7 3.8 32 25-56 147-178 (194) 310 3jw4_A Transcriptional regulat 61.9 2.2 9.1E-05 21.9 1.1 29 26-54 47-77 (148) 311 3oou_A LIN2118 protein; protei 61.9 8.6 0.00036 18.3 4.9 34 32-65 19-52 (108) 312 1z0x_A Transcriptional regulat 61.8 2.5 0.00011 21.5 1.4 55 20-74 9-66 (220) 313 2qco_A CMER; transcriptional r 61.7 3.2 0.00013 20.9 1.9 52 21-72 18-71 (210) 314 2qib_A TETR-family transcripti 61.7 5.1 0.00022 19.6 2.9 53 21-73 18-72 (231) 315 1xwr_A Regulatory protein CII; 61.3 1.2 5E-05 23.4 -0.4 35 33-68 22-56 (97) 316 3b73_A PHIH1 repressor-like pr 61.1 4.8 0.0002 19.8 2.7 29 25-53 18-48 (111) 317 2zcw_A TTHA1359, transcription 60.3 4.6 0.00019 19.9 2.5 42 33-74 145-199 (202) 318 3cuo_A Uncharacterized HTH-typ 60.2 3.3 0.00014 20.8 1.7 28 27-54 31-58 (99) 319 2fq4_A Transcriptional regulat 60.2 9.3 0.00039 18.1 4.8 41 21-61 17-59 (192) 320 2fbi_A Probable transcriptiona 60.1 6 0.00025 19.2 3.1 29 26-54 42-70 (142) 321 3d0s_A Transcriptional regulat 59.8 4.8 0.0002 19.8 2.6 39 33-71 176-227 (227) 322 1j9i_A GPNU1 DBD;, terminase s 59.6 3.4 0.00014 20.7 1.7 23 34-56 2-24 (68) 323 3he0_A Transcriptional regulat 59.1 5 0.00021 19.7 2.5 42 25-66 22-63 (196) 324 1fse_A GERE; helix-turn-helix 59.0 5.5 0.00023 19.4 2.7 27 30-56 22-48 (74) 325 3bja_A Transcriptional regulat 58.6 2.1 8.9E-05 21.9 0.6 31 24-54 37-67 (139) 326 2vpr_A Tetracycline resistance 58.6 4.7 0.0002 19.9 2.3 51 23-73 13-63 (207) 327 3hsr_A HTH-type transcriptiona 58.4 2.1 8.7E-05 22.0 0.5 29 26-54 42-70 (140) 328 2opt_A Actii protein; helical 58.1 4.4 0.00018 20.0 2.1 41 26-66 18-58 (234) 329 2vke_A Tetracycline repressor 57.9 6.3 0.00026 19.1 2.9 46 26-71 15-60 (207) 330 3kkd_A Transcriptional regulat 57.7 2.7 0.00011 21.3 1.0 48 23-70 44-91 (237) 331 2of7_A Putative TETR-family tr 57.6 4.7 0.0002 19.9 2.2 37 24-60 58-94 (260) 332 1x3u_A Transcriptional regulat 57.5 5.6 0.00024 19.4 2.6 46 30-75 27-76 (79) 333 2fd5_A Transcriptional regulat 57.4 6.7 0.00028 18.9 2.9 51 23-73 16-66 (180) 334 3nnr_A Transcriptional regulat 57.3 10 0.00044 17.8 4.9 42 21-62 10-53 (228) 335 3fm5_A Transcriptional regulat 57.2 4.4 0.00018 20.0 2.0 23 32-54 52-74 (150) 336 2dg6_A Putative transcriptiona 56.9 5.4 0.00023 19.5 2.4 20 36-55 2-21 (222) 337 3kp7_A Transcriptional regulat 56.6 5.4 0.00023 19.5 2.3 28 26-54 44-71 (151) 338 3gbg_A TCP pilus virulence reg 56.5 11 0.00045 17.7 4.2 33 32-65 183-215 (276) 339 1ngr_A P75 low affinity neurot 56.5 5.4 0.00023 19.5 2.4 47 34-81 21-67 (85) 340 1rr7_A Middle operon regulator 56.5 9.7 0.00041 18.0 3.6 34 24-57 82-115 (129) 341 3hef_A Gene 1 protein; bacteri 56.4 4.8 0.0002 19.8 2.1 44 22-68 20-64 (143) 342 1t33_A Putative transcriptiona 56.3 11 0.00046 17.7 5.9 36 33-69 31-66 (224) 343 1r1u_A CZRA, repressor protein 55.7 10 0.00044 17.8 3.7 27 28-54 33-59 (106) 344 2w7n_A TRFB transcriptional re 55.5 6.7 0.00028 19.0 2.7 32 25-56 23-56 (101) 345 2iu5_A DHAS, hypothetical prot 54.7 6.1 0.00025 19.2 2.3 45 22-66 18-65 (195) 346 2g7u_A Transcriptional regulat 54.4 7 0.0003 18.8 2.6 24 31-54 26-49 (257) 347 2jpc_A SSRB; DNA binding prote 54.2 4.7 0.0002 19.9 1.7 26 31-56 10-35 (61) 348 2hxi_A Putative transcriptiona 54.0 6.5 0.00027 19.0 2.4 44 26-69 41-84 (241) 349 1bl0_A Protein (multiple antib 53.9 4.6 0.00019 19.9 1.6 29 32-60 25-53 (129) 350 1je8_A Nitrate/nitrite respons 53.9 7.6 0.00032 18.6 2.7 26 31-56 33-58 (82) 351 2x48_A CAG38821; archeal virus 53.8 12 0.0005 17.5 4.3 30 26-55 23-52 (55) 352 2gxg_A 146AA long hypothetical 53.5 6.2 0.00026 19.1 2.3 23 32-54 48-70 (146) 353 2bv6_A MGRA, HTH-type transcri 53.5 2.9 0.00012 21.1 0.6 30 25-54 42-71 (142) 354 2krf_A Transcriptional regulat 53.4 7.5 0.00032 18.7 2.7 44 31-74 24-71 (73) 355 3boq_A Transcriptional regulat 53.3 2.4 0.0001 21.6 0.1 29 26-54 53-82 (160) 356 2oqg_A Possible transcriptiona 53.2 10 0.00043 17.8 3.3 24 31-54 31-54 (114) 357 2frh_A SARA, staphylococcal ac 53.1 7.8 0.00033 18.6 2.7 22 33-54 52-73 (127) 358 2kfs_A Conserved hypothetical 52.9 5.7 0.00024 19.4 2.0 22 35-56 32-53 (148) 359 1r8e_A Multidrug-efflux transp 52.2 4 0.00017 20.3 1.1 49 32-80 3-69 (278) 360 1u3e_M HNH homing endonuclease 52.0 7.8 0.00033 18.6 2.6 27 34-60 135-161 (174) 361 1u2w_A CADC repressor, cadmium 51.6 9.8 0.00041 18.0 3.0 27 28-54 50-76 (122) 362 3mop_A Myeloid differentiation 50.2 7.8 0.00033 18.5 2.3 45 36-81 28-72 (110) 363 3c57_A Two component transcrip 50.1 9.3 0.00039 18.1 2.7 25 31-55 39-63 (95) 364 1o5l_A Transcriptional regulat 49.7 2.8 0.00012 21.2 0.0 23 33-55 163-185 (213) 365 3lsj_A DEST; transcriptional r 49.5 1.4 5.9E-05 23.0 -1.6 49 20-68 15-66 (220) 366 1p4w_A RCSB; solution structur 49.5 8.8 0.00037 18.2 2.5 45 31-75 46-94 (99) 367 3klo_A Transcriptional regulat 48.6 9.4 0.0004 18.1 2.5 45 31-75 171-220 (225) 368 2np3_A Putative TETR-family re 48.1 3.4 0.00014 20.7 0.2 41 25-65 41-81 (212) 369 1mkm_A ICLR transcriptional re 47.4 9.1 0.00038 18.1 2.3 24 31-54 20-43 (249) 370 3lap_A Arginine repressor; arg 47.3 15 0.00064 16.8 3.5 29 26-54 26-59 (170) 371 2fbk_A Transcriptional regulat 46.3 2.3 9.6E-05 21.7 -0.9 22 33-54 85-106 (181) 372 3fiw_A Putative TETR-family tr 46.1 7.4 0.00031 18.7 1.7 46 21-66 30-77 (211) 373 2jsc_A Transcriptional regulat 46.0 8.6 0.00036 18.3 2.0 28 26-54 27-54 (118) 374 1r1t_A Transcriptional repress 45.4 13 0.00055 17.2 2.9 24 31-54 56-79 (122) 375 2bgc_A PRFA; bacterial infecti 45.1 11 0.00048 17.6 2.5 42 33-74 168-223 (238) 376 1sgm_A Putative HTH-type trans 44.5 17 0.0007 16.6 3.8 40 21-60 11-52 (191) 377 3f6o_A Probable transcriptiona 44.3 16 0.00066 16.8 3.1 26 29-54 26-51 (118) 378 3jth_A Transcription activator 44.2 9.3 0.00039 18.1 2.0 24 31-54 33-56 (98) 379 1z4h_A TORI, TOR inhibition pr 43.9 8.9 0.00037 18.2 1.8 24 34-57 10-33 (66) 380 3m8j_A FOCB protein; all-alpha 43.5 12 0.00051 17.4 2.4 29 26-54 50-80 (111) 381 2rnj_A Response regulator prot 42.5 12 0.00051 17.4 2.3 27 30-56 40-66 (91) 382 2qko_A Possible transcriptiona 42.5 2.1 8.8E-05 22.0 -1.6 45 26-70 40-84 (215) 383 1d2z_A Death domain of pelle; 42.1 18 0.00077 16.4 4.5 46 36-81 33-81 (108) 384 1l3l_A Transcriptional activat 41.5 15 0.00064 16.8 2.7 44 31-74 185-232 (234) 385 2ia2_A Putative transcriptiona 41.4 11 0.00048 17.6 2.0 24 31-54 33-56 (265) 386 1uly_A Hypothetical protein PH 40.1 19 0.0008 16.2 3.0 26 29-54 28-53 (192) 387 2kko_A Possible transcriptiona 39.5 15 0.00065 16.8 2.5 24 31-54 35-58 (108) 388 1iuf_A Centromere ABP1 protein 38.8 4.5 0.00019 20.0 -0.4 24 32-55 28-57 (144) 389 3him_A Probable transcriptiona 38.7 2.7 0.00012 21.3 -1.5 50 23-72 25-74 (211) 390 3f6v_A Possible transcriptiona 38.2 9 0.00038 18.2 1.1 24 31-54 68-91 (151) 391 2q0o_A Probable transcriptiona 37.2 18 0.00077 16.3 2.6 45 30-74 186-234 (236) 392 1y0u_A Arsenical resistance op 36.2 23 0.00095 15.8 3.9 22 32-53 41-62 (96) 393 1d5y_A ROB transcription facto 36.1 9.9 0.00042 17.9 1.1 34 32-65 17-50 (292) 394 1c9b_A General transcription f 35.7 21 0.00088 16.0 2.7 23 32-54 157-179 (207) 395 2ev1_A Hypothetical protein RV 35.0 15 0.00064 16.8 1.9 23 35-57 79-101 (222) 396 2p4w_A Transcriptional regulat 34.4 24 0.001 15.6 3.5 24 31-54 25-48 (202) 397 1ais_B TFB TFIIB, protein (tra 34.3 21 0.0009 15.9 2.5 46 32-77 67-123 (200) 398 3clo_A Transcriptional regulat 33.7 25 0.001 15.6 2.9 44 31-74 209-256 (258) 399 2vt3_A REX, redox-sensing tran 33.7 25 0.001 15.6 4.2 73 1-76 1-83 (215) 400 1e0g_A Membrane-bound lytic mu 33.4 12 0.0005 17.5 1.1 22 33-54 9-30 (48) 401 3by6_A Predicted transcription 33.2 20 0.00084 16.1 2.2 19 36-54 37-55 (126) 402 2q1z_A RPOE, ECF SIGE; ECF sig 33.1 4.2 0.00018 20.2 -1.3 31 24-54 141-171 (184) 403 1p4x_A Staphylococcal accessor 32.7 15 0.00064 16.8 1.6 22 33-54 173-194 (250) 404 2ek5_A Predicted transcription 32.7 19 0.00081 16.2 2.1 22 33-54 26-48 (129) 405 3c3w_A Two component transcrip 30.8 28 0.0012 15.3 2.7 24 31-54 161-184 (225) 406 1qbj_A Protein (double-strande 30.4 28 0.0012 15.2 3.8 33 22-54 15-47 (81) 407 1xd7_A YWNA; structural genomi 29.4 29 0.0012 15.1 2.9 24 31-54 20-43 (145) 408 1y6u_A XIS, excisionase from t 28.9 20 0.00083 16.2 1.6 25 32-56 14-38 (70) 409 2vn2_A DNAD, chromosome replic 28.3 21 0.00089 16.0 1.7 20 35-54 52-71 (128) 410 1ylf_A RRF2 family protein; st 28.0 31 0.0013 15.0 2.6 44 32-75 28-89 (149) 411 3lwf_A LIN1550 protein, putati 27.3 29 0.0012 15.1 2.3 23 33-55 43-65 (159) 412 2wv0_A YVOA, HTH-type transcri 27.2 32 0.0014 14.9 3.2 23 32-54 31-54 (243) 413 1hw1_A FADR, fatty acid metabo 26.8 32 0.0013 14.9 2.4 22 33-54 29-51 (239) 414 3eet_A Putative GNTR-family tr 26.6 30 0.0013 15.0 2.2 22 33-54 51-73 (272) 415 3neu_A LIN1836 protein; struct 26.6 30 0.0013 15.0 2.2 23 32-54 34-57 (125) 416 3ez2_A Plasmid partition prote 26.1 19 0.0008 16.3 1.1 57 21-77 20-100 (398) 417 1v4r_A Transcriptional repress 25.5 30 0.0013 15.1 2.0 22 33-54 33-55 (102) 418 2v79_A DNA replication protein 25.4 20 0.00085 16.1 1.2 20 35-54 52-71 (135) 419 3dp7_A SAM-dependent methyltra 25.3 35 0.0015 14.7 2.4 23 33-55 49-71 (363) 420 1q1h_A TFE, transcription fact 24.2 37 0.0015 14.6 3.2 29 26-54 24-53 (110) 421 2gqq_A Leucine-responsive regu 23.4 3.2 0.00013 20.9 -3.3 29 24-52 17-45 (163) 422 2djp_A Hypothetical protein SB 23.2 23 0.00098 15.7 1.1 26 31-56 20-45 (77) 423 2vpv_A Protein MIF2, MIF2P; nu 22.7 15 0.00061 16.9 0.0 36 43-79 10-45 (166) 424 2dbf_A Nuclear factor NF-kappa 22.3 40 0.0017 14.3 3.4 45 34-81 30-74 (100) 425 1ixc_A CBNR, LYSR-type regulat 22.1 40 0.0017 14.3 3.4 20 35-54 16-35 (294) 426 3k7a_M Transcription initiatio 20.8 17 0.00071 16.6 0.0 27 30-56 288-314 (345) 427 2di3_A Bacterial regulatory pr 20.5 44 0.0018 14.1 2.4 20 34-53 27-47 (239) 428 3c7j_A Transcriptional regulat 20.2 44 0.0019 14.1 2.4 36 19-54 28-69 (237) No 1 >2bnm_A Epoxidase; oxidoreductase, cupin, HTH, cation-dependant, zinc, fosfomycin; 1.7A {Streptomyces wedmorensis} SCOP: a.35.1.3 b.82.1.10 PDB: 1zz7_A 1zz8_A 1zz9_A 1zzb_A 1zz6_A 1zzc_A 2bnn_A 2bno_A Probab=99.64 E-value=3.6e-16 Score=115.52 Aligned_cols=64 Identities=19% Similarity=0.330 Sum_probs=60.8 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC-CCCCHHHHHHHHHHHCCCHHHHCCC Q ss_conf 999999999999839949999998634299998875589-9944899999999928999996088 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGK-STINIDNMIILAHTLDTPLWKLLKP 83 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~-~~~~~~~l~~la~al~i~~~~l~~P 83 (83) ..||.+||.+|+++||||++||+++|+|+++||+||+|+ .+|++.+|.+||++|+|++.+||.+ T Consensus 9 ~~lg~rir~lR~~~gltl~eLA~~~GvS~~~lS~iE~G~~~~psl~~L~kia~aL~v~~~~l~~~ 73 (198) T 2bnm_A 9 TGFAELLKDRREQVKMDHAALASLLGETPETVAAWENGEGGELTLTQLGRIAHVLGTSIGALTPP 73 (198) T ss_dssp HHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTTCTTCBHHHHHHHHHHTTSCTGGGSCC T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHCCC T ss_conf 99999999999985999999998879799999986738988998999999999979799998186 No 2 >1y9q_A Transcriptional regulator, HTH_3 family; transcriptional regulaator, strucutral genomics, protein structure initiative, PSI; 1.90A {Vibrio cholerae} SCOP: a.35.1.8 b.82.1.15 Probab=99.61 E-value=1.1e-15 Score=112.63 Aligned_cols=70 Identities=21% Similarity=0.421 Sum_probs=64.0 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 898999999999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 11 LSDAILRERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 11 ~~~~~~~~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +.++.. ...+|.+||.+|+++||||++||+++|+|.++||+||+|+.+|++.+|.+||++||+++.+||. T Consensus 3 ~~d~~~--~~~ig~rir~~R~~~gls~~~lA~~~gvs~~~ls~iE~g~~~ps~~~l~~ia~~l~v~~~~l~~ 72 (192) T 1y9q_A 3 LTDVMF--KSQIANQLKNLRKSRGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAFFA 72 (192) T ss_dssp -CHHHH--HHHHHHHHHHHHHHTTCCHHHHHHHHSSCHHHHHHHHTTCSCCCHHHHHHHHHHHTCCSGGGGT T ss_pred CCHHHH--HHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC T ss_conf 537788--9999999999999819999999999893999999998699877634799999885568999547 No 3 >3ivp_A Putative transposon-related DNA-binding protein; APC62618, structural genomics, PSI-2, protein structure initiative; HET: PG4; 2.02A {Clostridium difficile 630} Probab=99.58 E-value=3.9e-15 Score=109.40 Aligned_cols=64 Identities=13% Similarity=0.225 Sum_probs=61.5 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCCC Q ss_conf 9999999999998399499999986342999988755899944899999999928999996088 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLKP 83 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~P 83 (83) ..||.+||.+|+.+||||++||+.+|||+++||+||+|...|++++|.+||++|||++++||.+ T Consensus 11 ~~ig~rlk~~R~~~gltq~elA~~lgvs~s~is~~E~G~~~ps~~~l~~ia~~l~v~~~~l~~~ 74 (126) T 3ivp_A 11 RALGLAIKEARKKQGLTREQVGAMIEIDPRYLTNIENKGQHPSLQVLYDLVSLLNVSVDEFFLP 74 (126) T ss_dssp HHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHHSCCCCCHHHHHHHHHHHTCCSHHHHSC T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHCC T ss_conf 9999999999998499999996730999879999970777999999999999979689998288 No 4 >2ewt_A BLDD, putative DNA-binding protein; the DNA-binding domain of BLDD; 1.81A {Streptomyces coelicolor A3} Probab=99.57 E-value=3.5e-15 Score=109.63 Aligned_cols=64 Identities=17% Similarity=0.332 Sum_probs=61.0 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHH--HHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 999999999999983994999999863--4299998875589994489999999992899999608 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTG--FAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~g--is~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ...||.+||.+|+++||||+|||+++| ||+++||+||+|+..|++++|.+||++|||++++||. T Consensus 6 ~~~ig~rir~~R~~~gltq~elA~~~g~~is~~~is~~E~G~~~ps~~~l~~la~~l~v~~~~LlP 71 (71) T 2ewt_A 6 AKQLGAKLRAIRTQQGLSLHGVEEKSQGRWKAVVVGSYERGDRAVTVQRLAELADFYGVPVQELLP 71 (71) T ss_dssp HHHHHHHHHHHHHHTTCCHHHHHHHTTTSSCHHHHHHHHHTCSCCCHHHHHHHHHHHTSCGGGGCC T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC T ss_conf 999999999999884998999998988874799999998599667689999999998968999789 No 5 >2b5a_A C.BCLI; helix-turn-helix motif, gene regulation; 1.54A {Bacillus caldolyticus} SCOP: a.35.1.3 Probab=99.57 E-value=1.1e-14 Score=106.79 Aligned_cols=66 Identities=24% Similarity=0.473 Sum_probs=62.7 Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 999999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 17 RERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 17 ~~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ..+..||.+||.+|+++||||++||+.+|+|+++|++||+|+..|+++++.+||++|||++++||. T Consensus 6 ~~~~~ig~~ir~~R~~~gltq~~lA~~~gvs~~~i~~~E~g~~~ps~~~l~~la~~l~v~~~~l~~ 71 (77) T 2b5a_A 6 EIKRKFGRTLKKIRTQKGVSQEELADLAGLHRTYISEVERGDRNISLINIHKICAALDIPASTFFR 71 (77) T ss_dssp HHHHHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCSCCBHHHHHHHHHHTTCCHHHHHH T ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 999999999999999819999999989796999999998799899999999999997988999854 No 6 >3f52_A CLP gene regulator (CLGR); helix-turn-helix motif, transcriptional activator, human pathogen, transcription activator; 1.75A {Corynebacterium glutamicum} PDB: 3f51_A Probab=99.56 E-value=3.8e-15 Score=109.45 Aligned_cols=64 Identities=20% Similarity=0.394 Sum_probs=61.3 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 9999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +..||.+||.+|+.+||||+++|+++||++++||+||+|...|+++++.+||++|||++.+||. T Consensus 26 ~~~iG~rLk~~R~~~glSq~~lA~~~gis~~~ls~~E~g~~~ps~~~l~~ia~~l~v~~~~ll~ 89 (117) T 3f52_A 26 REALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLI 89 (117) T ss_dssp HHHHHHHHHHHHHHHTCCHHHHHHHTTSCHHHHHHHHTTSSCCCHHHHHHHHHHHTCCHHHHHH T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHH T ss_conf 9999999999999819999999988533399999998699899999999999998997999962 No 7 >3op9_A PLI0006 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, transcription regulat; HET: MSE; 1.90A {Listeria innocua} Probab=99.55 E-value=7.8e-15 Score=107.60 Aligned_cols=64 Identities=19% Similarity=0.305 Sum_probs=61.2 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 9999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +..||.+|+.+|+++||||++||+.+|||+++||+||+|++.|++++|.+||++|||++++|+. T Consensus 7 ~~~~g~rlk~~R~~~gltq~elA~~~gvs~~~vs~~E~g~~~Ps~~~l~~ia~~l~vs~~~Ll~ 70 (114) T 3op9_A 7 QHQFAENLSRLKKEHGLKNHQIAELLNVQTRTVAYYMSGETKPDIEKLIRLATYFHLSIDELVG 70 (114) T ss_dssp CCCHHHHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHHHTSSCCCHHHHHHHHHHHTCCHHHHHT T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 9999999999999859999999761088732799996587899999999999995998999928 No 8 >3b7h_A Prophage LP1 protein 11; structural genomics, PSI2, MCSG, protein structure initiative, midwest center for structural genomics; 2.00A {Lactobacillus plantarum WCFS1} Probab=99.55 E-value=1.7e-14 Score=105.60 Aligned_cols=65 Identities=15% Similarity=0.261 Sum_probs=61.3 Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCC-CCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 999999999999998399499999986342999988755899-94489999999992899999608 Q gi|254781147|r 18 ERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKS-TINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 18 ~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~-~~~~~~l~~la~al~i~~~~l~~ 82 (83) ....+|.+|+.+|+++||||.+||+.+||++++|++||+|+. +|++++|.+||++|||++.+||. T Consensus 4 ~~~~i~~ri~~lr~~~gls~~~LA~~~Gis~~tis~~e~g~~~~p~~~~l~kia~~l~v~~~~l~~ 69 (78) T 3b7h_A 4 DGEFVSEHLMELITQQNLTINRVATLAGLNQSTVNAMFEGRSKRPTITTIRKVCGTLGISVHDFFD 69 (78) T ss_dssp HHHHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHCTTCCCCCHHHHHHHHHHHTCCHHHHTC T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCHHHHCC T ss_conf 799999999999999399899999988939999999986998896899999999998993999909 No 9 >2kpj_A SOS-response transcriptional repressor, LEXA; NESG, GFT, structural genomics, PSI-2, protein structure initiative; NMR {Eubacterium rectale atcc 33656} Probab=99.55 E-value=9.3e-15 Score=107.16 Aligned_cols=65 Identities=18% Similarity=0.247 Sum_probs=62.5 Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 99999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 18 ERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 18 ~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) .+.+||.+|+.+|+++|+||++||+.+|||+++|++||+|+..|+++++.+||++|||++.+||. T Consensus 6 ~~~~f~~~Lk~lr~~~~lsq~elA~~lgvs~~~is~~e~G~~~ps~~~l~~la~~l~v~~~~l~~ 70 (94) T 2kpj_A 6 QKAIFSENLNSYIAKSEKTQLEIAKSIGVSPQTFNTWCKGIAIPRMGKVQALADYFNINKSDLIE 70 (94) T ss_dssp HHHHHHHHHHHHHTTSSSCHHHHHHHHTCCHHHHHHHHTTSCCCCHHHHHHHHHHHTCCTHHHHS T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 99999999999999949989999998892883699997376799999999999998978999908 No 10 >1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein, transcriptional regulator, transcription regulator; 1.69A {Aeromonas hydrophila} SCOP: a.35.1.3 Probab=99.55 E-value=9.5e-15 Score=107.10 Aligned_cols=63 Identities=24% Similarity=0.447 Sum_probs=60.8 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 999999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) -..||.+||.+|+++||||.++|+.+|+|+++|++||+|+..|+++++.+||++||+++++|| T Consensus 11 ~~~ig~~ik~~R~~~gltq~~lA~~~gis~~~i~~~E~g~~~p~~~~l~~ia~~l~v~~~~lF 73 (74) T 1y7y_A 11 LVKFGQRLRELRTAKGLSQETLAFLSGLDRSYVGGVERGQRNVSLVNILKLATALDIEPRELF 73 (74) T ss_dssp HHHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCSCCBHHHHHHHHHHTTSCGGGGC T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC T ss_conf 999999999999981999999998969799999999879989999999999999893999984 No 11 >3g5g_A Regulatory protein; transcriptional regulator, helix-turn-helix, restriction- modification, transcription regulator; 2.80A {Enterobacter SP} PDB: 3fya_A Probab=99.53 E-value=2.5e-14 Score=104.62 Aligned_cols=63 Identities=16% Similarity=0.315 Sum_probs=60.7 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ..+|.+||.+|+++||||++||+++|+|+++|++||+|+.+|+++++.+||++||+++.+||. T Consensus 27 ~~ig~~Ik~lR~~~glsq~elA~~~gis~~~is~iE~G~~~ps~~~l~~ia~~l~v~~~~l~~ 89 (99) T 3g5g_A 27 SKVSFVIKKIRLEKGMTQEDLAYKSNLDRTYISGIERNSRNLTIKSLELIMKGLEVSDVVFFE 89 (99) T ss_dssp HHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCSCCBHHHHHHHHHHTTCCHHHHHH T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 999999999999819999999999797898899998699899999999999996998999976 No 12 >3clc_A Regulatory protein; protein-DNA complex, transcriptional regulator, helix-turn- helix, DNA-bending, plasmid, transcription regulator/DNA complex; 2.80A {Enterobacter SP} Probab=99.52 E-value=3.6e-14 Score=103.66 Aligned_cols=63 Identities=16% Similarity=0.315 Sum_probs=60.7 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ..||.+||.+|+++||||+++|+.+|+++++|++||+|+..|+++++.+||++||+++.+||. T Consensus 10 ~~i~~~lk~~R~~~glsq~~lA~~~gis~~~i~~~E~G~~~ps~~~l~~la~~l~i~~~~l~~ 72 (82) T 3clc_A 10 SKVSFVIKKIRLEKGMTQEDLAYKSNLDRTYISGIERNSRNLTIKSLELIMKGLEVSDVVFFE 72 (82) T ss_dssp HHHHHHHHHHHHHTTCCHHHHHHHHTSCHHHHHHHHTTCCCCBHHHHHHHHHHHTCCHHHHHH T ss_pred HHHHHHHHHHHHHCCCCHHHHHHCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 999999999999839999999570399887999998599899999999999997988999977 No 13 >1b0n_A Protein (SINR protein); transcription regulator, antagonist, sporulation; 1.90A {Bacillus subtilis} SCOP: a.34.1.1 a.35.1.3 Probab=99.52 E-value=1.7e-14 Score=105.62 Aligned_cols=62 Identities=23% Similarity=0.390 Sum_probs=58.8 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC-CCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 99999999999839949999998634299998875589-994489999999992899999608 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGK-STINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~-~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ++|.+|+.+|+++||||.+||+++|+|+++|++||+|. ..|+++++.+||++|||++++||. T Consensus 1 iiG~rlr~lR~~~g~tq~~lA~~~Gvs~~~is~~E~G~~~~p~~~~l~~ia~~l~v~~~~l~~ 63 (111) T 1b0n_A 1 MIGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTLLD 63 (111) T ss_dssp CCHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCCSCCCHHHHHHHHHHHTCCHHHHHC T ss_pred CHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 979999999998399999998784988999999987998999999999999998987999848 No 14 >1lmb_3 Protein (lambda repressor); protein-DNA complex, double helix, transcription/DNA complex; HET: DNA; 1.80A {Enterobacteria phage lambda} SCOP: a.35.1.2 PDB: 1lrp_A 1rio_A 1lli_A* Probab=99.50 E-value=5.6e-14 Score=102.53 Aligned_cols=72 Identities=21% Similarity=0.310 Sum_probs=66.5 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 898999999999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 11 LSDAILRERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 11 ~~~~~~~~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +++........++..|+.+|++.||||.+||+.+|+|+++||+||+|...|+++.|.+||++||+++.+||. T Consensus 7 ~~~~~~~~~~~l~~~l~~~R~~~glTQ~~lA~~lgis~~~is~~E~G~~~~s~~~l~~la~~l~v~~~~l~~ 78 (92) T 1lmb_3 7 LTQEQLEDARRLKAIYEKKKNELGLSQESVADKMGMGQSGVGALFNGINALNAYNAALLAKILKVSVEEFSP 78 (92) T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHHTTSSCCCHHHHHHHHHHHTSCGGGTCH T ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHH T ss_conf 998999999999999999999929999999998847898999997799899999999999998987999976 No 15 >3f6w_A XRE-family like protein; helix-turn-helix, DNA binding protein, xenobiotic response element family of transcriptional regulators; HET: MSE BTB; 1.85A {Pseudomonas syringae PV} Probab=99.50 E-value=6.9e-14 Score=101.98 Aligned_cols=64 Identities=23% Similarity=0.366 Sum_probs=61.6 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 9999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ...+|.+|+.+|+++||||.+||+++|+++++||+||+|+..|+++.+.+||++||+++.+||. T Consensus 12 ~~~l~~~lk~~R~~~gltq~elA~~~gvs~~~is~~E~g~~~~~~~~l~~la~~l~v~~~~l~~ 75 (83) T 3f6w_A 12 YQALLDLLLEARSAAGITQKELAARLGRPQSFVSKTENAERRLDVIEFMDFCRGIGTDPYALLS 75 (83) T ss_dssp HHHHHHHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHHTTSSCCCHHHHHHHHHHHTCCHHHHHH T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHH T ss_conf 9999999999999829999999989738999999998799899999999999995999999985 No 16 >3kxa_A NGO0477 protein, putative uncharacterized protein; NEW protein fold, OPPF, STRU genomics, oxford protein production facility; 2.80A {Neisseria gonorrhoeae} Probab=99.50 E-value=1.5e-14 Score=105.97 Aligned_cols=64 Identities=20% Similarity=0.293 Sum_probs=60.6 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 9999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +..+|++|+.+|+++||||++||+.+|+++++|++||+|+.+|+++++.+||++||+++.+||. T Consensus 66 ~~~~G~~l~~lR~~~glTQ~elA~~~gis~~~is~iE~G~~~ps~~~l~kia~~lgvs~~el~~ 129 (141) T 3kxa_A 66 LKAGGETFVSLRMKKGFTQSELATAAGLPQPYLSRIENSKQSLQDKTVQKLANALGVSPLEVRA 129 (141) T ss_dssp HHHSSCCHHHHHHHTTCCHHHHHHHTTCCHHHHHHHHHTCSCCCHHHHHHHHHHHTCCHHHHHH T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHH T ss_conf 9999999999999829989999999896999999998799789999999999994998999986 No 17 >2ofy_A Putative XRE-family transcriptional regulator; transcription regulator, structural genomics, PSI, protein structure initiative; 1.70A {Rhodococcus SP} SCOP: a.35.1.3 Probab=99.50 E-value=1.3e-13 Score=100.32 Aligned_cols=69 Identities=17% Similarity=0.215 Sum_probs=60.7 Q ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC-CCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 98999999999999999999839949999998634299998875589-994489999999992899999608 Q gi|254781147|r 12 SDAILRERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGK-STINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 12 ~~~~~~~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~-~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +.........||.+||.+|+ |+||.|||+++|||+++|++||+|+ .+|+++++.+||++||+++++||. T Consensus 7 t~~~~~~~~~lG~~lr~~R~--~~s~~elA~~~gis~~~is~iE~G~~~~~s~~~l~~ia~~L~v~~~~Ll~ 76 (86) T 2ofy_A 7 TAEELERGQRLGELLRSARG--DMSMVTVAFDAGISVETLRKIETGRIATPAFFTIAAVARVLDLSLDDVAA 76 (86) T ss_dssp CHHHHHHHHHHHHHHHHHHT--TSCHHHHHHHHTCCHHHHHHHHTTCCSSCBHHHHHHHHHHTTCCHHHHHT T ss_pred CHHHHHHHHHHHHHHHHHHH--CCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCHHHHHH T ss_conf 88999999999999999998--78999999997979999999986997887599999999998978999962 No 18 >2r1j_L Repressor protein C2; protein-DNA complex, helix-turn-helix, DNA-binding, transcription, transcription regulation; 1.53A {Enterobacteria phage P22} SCOP: a.35.1.2 PDB: 3jxb_C 3jxc_L 3jxd_L Probab=99.49 E-value=6.9e-14 Score=102.00 Aligned_cols=62 Identities=26% Similarity=0.326 Sum_probs=60.3 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 99999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) .+|.+||.+|+.+||||+++|+.+|+++++|++||+|+..|+.+.+.+||++|++++++||. T Consensus 5 ~ig~rlr~~R~~~glsq~~la~~~gvs~~~i~~~e~g~~~p~~~~l~~la~~l~v~~~~ll~ 66 (68) T 2r1j_L 5 LMGERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALSKALQCSPDYLLK 66 (68) T ss_dssp CHHHHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHHTTSSCCBHHHHHHHHHHTTSCHHHHHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 99999999999859999999887399999999998799899999999999997997999858 No 19 >3kz3_A Repressor protein CI; five helix bundle, DNA-binding, transcription, transcription regulation; 1.64A {Enterobacteria phage lambda} Probab=99.48 E-value=9.9e-14 Score=101.04 Aligned_cols=72 Identities=19% Similarity=0.288 Sum_probs=65.7 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 898999999999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 11 LSDAILRERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 11 ~~~~~~~~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ++..-+.+...++..++..|++.||||+++|+.+|+|+++|++||+|...|+++.+.+||++||+++++||. T Consensus 2 ~t~e~~~~~~~l~~~~~~~R~~~gltq~elA~~lgvs~~~is~~E~G~~~p~~~~l~~ia~~l~v~~~~~~~ 73 (80) T 3kz3_A 2 LTQEQLEDARRLKAIWEKKKNELGLSYESVADKMGMGQSAVAALFNGINALNAYNAALLAKILKVSVEEFSP 73 (80) T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHTTSCHHHHHHHHTTSSCCCHHHHHHHHHHHTSCGGGTCH T ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCH T ss_conf 898999999999999999999939999999662098898899998799789999999999998988999874 No 20 >2a6c_A Helix-turn-helix motif; putative transcriptional regulator, structural genomics, JOI for structural genomics, JCSG; HET: CIT; 1.90A {Nitrosomonas europaea} SCOP: a.35.1.13 Probab=99.48 E-value=2.6e-14 Score=104.50 Aligned_cols=74 Identities=18% Similarity=0.238 Sum_probs=66.7 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC-CCCCHHHHHHHHHHHCCCHHHHCCC Q ss_conf 6898999999999999999999839949999998634299998875589-9944899999999928999996088 Q gi|254781147|r 10 HLSDAILRERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGK-STINIDNMIILAHTLDTPLWKLLKP 83 (83) Q Consensus 10 ~~~~~~~~~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~-~~~~~~~l~~la~al~i~~~~l~~P 83 (83) ......|+-+..++..|+.+|+++||||.++|+++|+++++||+||+|+ .+|++++|.++|++||++++..+.| T Consensus 7 ~~~~~~M~lr~~L~~~Ir~~R~~~glTQ~elA~~~gvs~~~is~iE~G~~~~~s~~~L~~ia~aLg~~v~i~~~~ 81 (83) T 2a6c_A 7 HHHHHHMKMRSQLLIVLQEHLRNSGLTQFKAAELLGVTQPRVSDLMRGKIDLFSLESLIDMITSIGLKVEINIKD 81 (83) T ss_dssp CCCCSSHHHHHHHHHHHHHHHHTTTCCHHHHHHHHTSCHHHHHHHHTTCGGGCCHHHHHHHHHHTTCCCCCCCCC T ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCEEEEECC T ss_conf 410262699999999999999995999999999987789999999879999989999999999929963887238 No 21 >1utx_A CYLR2; DNA-binding protein, transcriptional repressor, regulation of cytolysin operon, helix-turn-helix; 1.90A {Enterococcus faecalis} SCOP: a.35.1.3 PDB: 2gzu_A Probab=99.48 E-value=6.1e-14 Score=102.29 Aligned_cols=60 Identities=25% Similarity=0.388 Sum_probs=57.8 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +.+|+.+|+++||||+++|+.+|+|+++|++||+|+.+|+++++.+||++||+++++||. T Consensus 3 ~nri~~lR~~~g~tq~~lA~~~gis~~~is~~e~g~~~ps~~~l~~ia~~l~v~~~~lf~ 62 (66) T 1utx_A 3 INNLKLIREKKKISQSELAALLEVSRQTINGIEKNKYNPSLQLALKIAYYLNTPLEDIFQ 62 (66) T ss_dssp EECHHHHHHHTTCCHHHHHHHHTSCHHHHHHHHTTSCCCCHHHHHHHHHHTTSCHHHHEE T ss_pred HHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC T ss_conf 999999999849999999887299899999998799899999999999998977999829 No 22 >1adr_A P22 C2 repressor; transcription regulation; NMR {Enterobacteria phage P22} SCOP: a.35.1.2 Probab=99.48 E-value=9.3e-14 Score=101.20 Aligned_cols=62 Identities=26% Similarity=0.326 Sum_probs=60.3 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 99999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) .+|.+||.+|+++|+||+++|+++|+++++|++||+|+..|+++.+.+||++|+|++.+||. T Consensus 5 ~ig~rik~~R~~~glsq~~la~~~gvs~~~i~~~e~G~~~p~~~~l~~ia~~~~v~~~~ll~ 66 (76) T 1adr_A 5 LMGERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALSKALQCSPDYLLK 66 (76) T ss_dssp CHHHHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHHTTSSCCCHHHHHHHHHHTTSCHHHHHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 99999999999939999999999796999999998799899999999999996988999957 No 23 >2p5t_A Putative transcriptional regulator PEZA; postsegregational killing system, phosphoryltransferase, helix-turn-helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae TIGR4} Probab=99.47 E-value=3.4e-15 Score=109.72 Aligned_cols=62 Identities=21% Similarity=0.393 Sum_probs=59.8 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 99999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +||.+||.+|+++||||.+||+.+|||+++||+||+|+..|+.+++.+||++|||++++||. T Consensus 1 ~iG~rik~lR~~~glsq~eLA~~~Gis~~~is~~E~G~~~ps~~~l~~la~~l~v~~~~ll~ 62 (158) T 2p5t_A 1 MIGKNIKSLRKTHDLTQLEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVSYVDIVG 62 (158) T ss_dssp -------------------------------------------------------------- T ss_pred CHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 97899999999849999999999895999999998799899999999999993998999836 No 24 >3mlf_A Transcriptional regulator; structural genomics, helix-turn-helix XRE-family like protei transcription regulator, PSI-2; 2.60A {Staphylococcus aureus subsp} Probab=99.46 E-value=1.8e-14 Score=105.46 Aligned_cols=62 Identities=15% Similarity=0.191 Sum_probs=59.5 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 99999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) .+|.+||.+|+.+||||++||+++||++++|++||+|...|+++.|.+||++|+|++++||. T Consensus 23 ~~~~~Lk~lR~~~glTq~elA~~lgvs~~tis~~E~G~~~Ps~~~L~kla~~l~vs~~~ll~ 84 (111) T 3mlf_A 23 NAMKTLKELRTDYGLTQKELGDLFKVSSRTIQNMEKDSTNIKDSLLSKYMSAFNVKYDDIFL 84 (111) T ss_dssp SSCEEHHHHHHHTTCCHHHHHHHHTSCHHHHHHHHHCCTTCCHHHHHHHHHHHTCCGGGEEC T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC T ss_conf 99999999999859999999999698999999998499999999999999998948999917 No 25 >2wiu_B HTH-type transcriptional regulator HIPB; transferase transcription complex, bacterial persistence, serine kinase, mercury derivative, SAD; 2.35A {Escherichia coli} PDB: 3dnv_B* 3dnw_B* 3hzi_B* Probab=99.45 E-value=2.5e-14 Score=104.59 Aligned_cols=63 Identities=17% Similarity=0.287 Sum_probs=59.4 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ..||.+||.+|+.+||||++||+++|+|+++|++||+|...|+++++.+||++||+++..++. T Consensus 11 ~~lg~~lr~~R~~~glsq~~lA~~~gvs~~~is~~E~g~~~ps~~~l~~ia~~lgv~~~~~~~ 73 (88) T 2wiu_B 11 TQLANAMKLVRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLELSMTLCDA 73 (88) T ss_dssp HHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHHCGGGCBHHHHHHHHHHTTCEEEEEC- T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEEEEEC T ss_conf 999999999999859999999786399899999998799999999999999996994086457 No 26 >3omt_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 1.65A {Cytophaga hutchinsonii} Probab=99.45 E-value=2.8e-14 Score=104.34 Aligned_cols=63 Identities=13% Similarity=0.172 Sum_probs=60.1 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCCC Q ss_conf 999999999998399499999986342999988755899944899999999928999996088 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLKP 83 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~P 83 (83) .++.+|+.+|+++||||++||+.+|+++++|++||+|...|+++++.+||++|||++++||.+ T Consensus 8 ~i~~rIk~~r~~~g~tq~~lA~~lgis~~~is~~e~G~~~p~~~~l~~ia~~~~v~~~~Ll~~ 70 (73) T 3omt_A 8 KIFNRLKSVLAEKGKTNLWLTETLDKNKTTVSKWCTNDVQPSLETLFDIAEALNVDVRELIVS 70 (73) T ss_dssp CCCBCHHHHHHHHTCCHHHHHHHTTCCHHHHHHHHTTSSCCCHHHHHHHHHHHTSCGGGGBCC T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCCC T ss_conf 999999999999399899999985998667899984988998679999999989489998165 No 27 >3bs3_A Putative DNA-binding protein; XRE-family, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.65A {Bacteroides fragilis nctc 9343} Probab=99.44 E-value=3e-14 Score=104.08 Aligned_cols=65 Identities=18% Similarity=0.292 Sum_probs=61.9 Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 99999999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 18 ERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 18 ~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ....++.+|+.+|+++||||+++|+++|+++++|++||+|+..|+++++.+||++|+|++.+||. T Consensus 7 ~~~~i~~rik~~r~~~gltq~~lA~~~gvs~~tis~~e~g~~~p~~~~l~~ia~~l~v~~~~ll~ 71 (76) T 3bs3_A 7 NQQMMLNRIKVVLAEKQRTNRWLAEQMGKSENTISRWCSNKSQPSLDMLVKVAELLNVDPRQLIN 71 (76) T ss_dssp ---CCCBCHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTSSCCCHHHHHHHHHHHTSCGGGGBC T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHC T ss_conf 79999999999999909989999999888999999998599999999999999997997999966 No 28 >2jvl_A TRMBF1; coactivator, helix-turn-helix, Pro binding, transcription; NMR {Trichoderma reesei} Probab=99.41 E-value=1.1e-13 Score=100.70 Aligned_cols=63 Identities=17% Similarity=0.179 Sum_probs=58.5 Q ss_pred HHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 999999999999--839949999998634299998875589994489999999992899999608 Q gi|254781147|r 20 MIFVNNFRNIRK--EAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 20 ~~~g~~ir~~R~--~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ..+|.+|+.+|+ ++||||+|||+.+|||+++||+||+|+..|++++|.+||++|||++..++. T Consensus 33 ~~iG~~I~~~R~~~~kglTQ~eLA~~lgvs~~~is~~E~G~~~ps~~~l~kia~~L~V~L~~~~~ 97 (107) T 2jvl_A 33 KEVGKAIEQGRQKFEPTMTQAELGKEIGETAATVASYERGTATPDQNILSKMERVLNVKLRGANI 97 (107) T ss_dssp HHHHHHHHHHHTTSSSCCCHHHHHHHHTCCHHHHHHHTTTCSCCCHHHHHHHHHTTTCBSSSSST T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCCC T ss_conf 99999999999998869989999999887899999998599789999999999994996766548 No 29 >3eus_A DNA-binding protein; structural genomics, PSI2,MCSG, protein structure initiative, midwest center for structural genomics; 1.80A {Silicibacter pomeroyi} Probab=99.41 E-value=7.4e-13 Score=95.85 Aligned_cols=64 Identities=19% Similarity=0.329 Sum_probs=57.9 Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC--CHHHHC Q ss_conf 9999999999999983994999999863429999887558999448999999999289--999960 Q gi|254781147|r 18 ERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDT--PLWKLL 81 (83) Q Consensus 18 ~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i--~~~~l~ 81 (83) +...||.+||.+|+++||||++||+++|+|+++||+||+|..+|+++++.+||++|++ .+.+++ T Consensus 11 ~~~~lg~~lk~~R~~~gltq~elA~~lgvs~~~is~~E~G~~~~~~~~l~~i~~aL~~~~~~~~~~ 76 (86) T 3eus_A 11 EHVYLCQRLRQARLDAGLTQADLAERLDKPQSFVAKVETRERRLDVIEFAKWMAACEGLDVVSEIV 76 (86) T ss_dssp HHHHHHHHHHHHHHHTTCCHHHHHHHTTCCHHHHHHHHTTSSCCBHHHHHHHHHHTTCGGGHHHHH T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHCCCCCHHHHHH T ss_conf 999999999999998499999999997969999999988999999999999999908976199999 No 30 >2ict_A Antitoxin HIGA; helix-turn-helix, structural genomics, PSI-2, protein struct initiative, northeast structural genomics consortium, NESG; 1.63A {Escherichia coli CFT073} SCOP: a.35.1.3 PDB: 2icp_A Probab=99.41 E-value=4.5e-13 Score=97.17 Aligned_cols=60 Identities=20% Similarity=0.159 Sum_probs=57.7 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) -|..|+.+|+++||||.+||+.+|||+++||+||+|++.|+.+.+.+||++||++++.|+ T Consensus 9 PG~~Lk~~r~~~gltq~~lA~~lgvs~~~is~~e~G~~~~s~~~~~~la~~lgvs~~~ll 68 (94) T 2ict_A 9 PGDIIQESLDELNVSLREFARAMEIAPSTASRLLTGKAALTPEMAIKLSVVIGSSPQMWL 68 (94) T ss_dssp HHHHHHHHHHHHTCCHHHHHHHHTCCHHHHHHHHHTSSCCCHHHHHHHHHHTCSCHHHHH T ss_pred HHHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHH T ss_conf 899999999996999999999849638998698727644729999999999990999997 No 31 >1x57_A Endothelial differentiation-related factor 1; HMBF1alpha, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.35.1.12 Probab=99.40 E-value=2.1e-13 Score=99.08 Aligned_cols=61 Identities=16% Similarity=0.181 Sum_probs=57.5 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHH Q ss_conf 9999999999998399499999986342999988755899944899999999928999996 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKL 80 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l 80 (83) ..||.+|+.+|+.+||||++||+.+||++++|++||+|+.+|+++++.+||++|||++... T Consensus 12 ~~ig~~ik~~R~~~glsq~elA~~~gvs~~~is~~E~G~~~p~~~~l~kia~~L~v~L~~~ 72 (91) T 1x57_A 12 LEVGKVIQQGRQSKGLTQKDLATKINEKPQVIADYESGRAIPNNQVLGKIERAIGLKLRGK 72 (91) T ss_dssp CHHHHHHHHHHHTTTCCHHHHHHHHTSCHHHHHHHHHTCSCCCHHHHHHHHHHHTBCCSST T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCC T ss_conf 9999999999998199899999871989999999987998899999999999949986455 No 32 >1r69_A Repressor protein CI; gene regulating protein; 2.00A {Phage 434} SCOP: a.35.1.2 PDB: 1pra_A 1per_L 1rpe_L* 2or1_L* 1r63_A 2r63_A 1sq8_A Probab=99.39 E-value=4.8e-13 Score=96.99 Aligned_cols=60 Identities=28% Similarity=0.305 Sum_probs=57.3 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 9999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +|.+|+.+|+.+||||.+||+.+|+++++|++||+|+ .|+.+++.+||++|+|++++||. T Consensus 2 ig~rik~~R~~~gltq~elA~~~gis~~~~~~~e~g~-~~~~~~l~~ia~~l~v~~~~l~~ 61 (69) T 1r69_A 2 ISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGK-TKRPRFLPELASALGVSVDWLLN 61 (69) T ss_dssp HHHHHHHHHHHTTCCHHHHHHHHTSCHHHHHHHHTTS-CSSCTTHHHHHHHTTCCHHHHHH T ss_pred HHHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHCCC-CCCHHHHHHHHHHHCCCHHHHHC T ss_conf 8999999999949999999886398999999998699-98999999999996988999828 No 33 >2ef8_A C.ECOT38IS, putative transcription factor; helix-turn-helix, DNA binding protein, transcription regulator; HET: CME; 1.95A {Enterobacteria phage P2} Probab=99.37 E-value=3.9e-13 Score=97.50 Aligned_cols=60 Identities=27% Similarity=0.293 Sum_probs=56.5 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHH Q ss_conf 999999999999983994999999863429999887558999448999999999289999 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLW 78 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~ 78 (83) ...||.+|+.+|+++||||+|||+.+|+++++||+||+|..+|+++++.+||++||+++. T Consensus 8 ~~~l~~~lk~~R~~~gltq~elA~~~gvs~~~is~~E~G~~~~s~~~l~~i~~~lg~~~~ 67 (84) T 2ef8_A 8 YRCLVQLLTKLRKEASLSQSELAIFLGLSQSDISKIESFERRLDALELFELLEVVASRLG 67 (84) T ss_dssp HHHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTSSCCBHHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCC T ss_conf 999999999999994999999999974799999999879999999999999999489858 No 34 >1zug_A Phage 434 CRO protein; gene regulating protein, transcription regulation; NMR {Phage 434} SCOP: a.35.1.2 PDB: 2cro_A 3cro_L* Probab=99.37 E-value=8.6e-13 Score=95.49 Aligned_cols=61 Identities=21% Similarity=0.240 Sum_probs=56.8 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 99999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) .+|.+|+.+|+++||||.|+|+.+|+|+++|++||+|+..|+ +++.+||++|||++.+|+. T Consensus 3 ~i~~rik~~r~~~gltq~elA~~~gis~~~is~~e~g~~~~~-~~l~~ia~~l~v~~~~Ll~ 63 (71) T 1zug_A 3 TLSERLKKRRIALKMTQTELATKAGVKQQSIQLIEAGVTKRP-RFLFEIAMALNCDPVWLQY 63 (71) T ss_dssp SHHHHHHHHHHHTTCCHHHHHHHHTSCHHHHHHHHTTCCSSC-STHHHHHHHTTSCHHHHHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHCCCCCCH-HHHHHHHHHHCCCHHHHHC T ss_conf 899999999999399999997841989999999987999999-9999999994997999841 No 35 >3cec_A Putative antidote protein of plasmid maintenance system; ZP_00107635.1, structural genomics, joint center for structural genomics; HET: MSE; 1.60A {Nostoc punctiforme pcc 73102} Probab=99.34 E-value=2.4e-12 Score=92.87 Aligned_cols=61 Identities=18% Similarity=0.199 Sum_probs=58.3 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 9999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) .-|..|+.+|+++||||.+||+.+|+|+++||+||+|++.|+.+.+.+|+++||++++.|+ T Consensus 18 hPGe~Lke~~~~~gisq~eLA~~lGvs~~~is~~e~G~~~~s~~~a~~La~~lgvs~~~~l 78 (104) T 3cec_A 18 HPGEVIADILDDLDINTANFAEILGVSNQTIQEVINGQRSITVDIAIRLGKALGNGPRLWL 78 (104) T ss_dssp CHHHHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHHTTSSCCCHHHHHHHHHHHTSCHHHHH T ss_pred CCCHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHH T ss_conf 8349999999987998999999978378999999758878989999999999891999998 No 36 >3g7d_A PHPD; non heme Fe(II) dioxygenase, cupin, biosynthetic protein; 1.80A {Streptomyces viridochromogenes} PDB: 3gbf_A Probab=99.32 E-value=1.4e-12 Score=94.14 Aligned_cols=62 Identities=11% Similarity=0.036 Sum_probs=58.0 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH-CCCCCCCHHHHHHHHHHHCCCHHHHCCC Q ss_conf 9999999999839949999998634299998875-5899944899999999928999996088 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELE-TGKSTINIDNMIILAHTLDTPLWKLLKP 83 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE-~G~~~~~~~~l~~la~al~i~~~~l~~P 83 (83) .+..|+..|+++|||+++||+++|+|.++||+|| +|+.+|++++|.+||++|+|++.+||.+ T Consensus 231 ~~slLk~~rk~RGLTL~eLAkrTGIS~S~LSqIERngks~PSl~tL~KIA~AL~V~lsdLf~~ 293 (443) T 3g7d_A 231 AGSVLDLFLARRAHTRTSAAEAAGVPPADLEAALRSPASETGLTVLRTLGRALGFDYRVLLPA 293 (443) T ss_dssp HHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHHCTTSHHHHHHHHHHHHHHTCCGGGGSCC T ss_pred HHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHCCC T ss_conf 689999999971888999998869899999999856888988999999999729999997488 No 37 >2awi_A PRGX; repressor, pheromone, DNA binding, regulatory domain, transcription; 2.25A {Enterococcus faecalis} SCOP: a.35.1.11 a.118.8.4 PDB: 2axv_A 2axu_A 2aw6_A 2axz_A 2grl_A 2grm_A Probab=99.30 E-value=4.9e-12 Score=91.00 Aligned_cols=60 Identities=15% Similarity=0.289 Sum_probs=57.4 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 9999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) .+|..+|.+|+++|+||+++|+. ++|++++|+||+|+..|+++.|..|++.+||++++|+ T Consensus 3 ~iG~~~k~~R~~~~ltq~~~a~~-~~s~s~ls~~E~g~~~~s~~~l~~l~~~l~v~~~ef~ 62 (317) T 2awi_A 3 KIGSVLKQIRQELNYHQIDLYSG-IMSKSVYIKVEADSRPISVEELSKFSERLGVNFFEIL 62 (317) T ss_dssp CHHHHHHHHHHHTTCCHHHHHTT-TSCHHHHHHHHTTCSCCBHHHHHHHHHHHTSCHHHHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHC-CCCHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHH T ss_conf 88999999999879989999662-8999999999889987999999999998599999998 No 38 >2l49_A C protein; P2 bacteriophage, P2 C, direct repeats, DNA-binding protein, binding protein; NMR {Enterobacteria phage P2} PDB: 2xcj_A Probab=99.26 E-value=1.8e-12 Score=93.62 Aligned_cols=61 Identities=21% Similarity=0.244 Sum_probs=54.8 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC--CHHHHC Q ss_conf 9999999999983994999999863429999887558999448999999999289--999960 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDT--PLWKLL 81 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i--~~~~l~ 81 (83) .||.+|+.+|+.+||||++||+++|||+++|++||+|.+.|+++.+.+|+.++++ ...+|+ T Consensus 4 ~ig~rik~~R~~~gltq~elA~~~Gis~~tis~~E~g~~~p~~~~l~~ia~~~~~~~~~~wll 66 (99) T 2l49_A 4 TISEKIVLMRKSEYLSRQQLADLTGVPYGTLSYYESGRSTPPTDVMMNILQTPQFTKYTLWFM 66 (99) T ss_dssp CTTHHHHHHHHHTTCCHHHHHHHHCCCHHHHHHHTTTSSCCCHHHHHHHHSSSSSSSSSSTTT T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCHHHHH T ss_conf 999999999999399999999996989999999987998799899999986037786478885 No 39 >3bdn_A Lambda repressor; repressor, allostery; HET: DNA; 3.91A {Enterobacteria phage lambda} Probab=99.23 E-value=5.4e-12 Score=90.73 Aligned_cols=71 Identities=21% Similarity=0.317 Sum_probs=59.5 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 89899999999999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 11 LSDAILRERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 11 ~~~~~~~~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) +++..+...+.+...++..|+++||||++||+.+|+++++||+||+|...|+.++|.+||++|++++.+|+ T Consensus 7 ~~~~~~~~~~rLk~l~~~~r~e~Glsq~elA~~~Gis~~tis~~e~G~~~~~~~~l~~ia~~l~v~~~~l~ 77 (236) T 3bdn_A 7 LTQEQLEDARRLKAIYEKKKNELGLSQESVADKMGMGQSGVGALFNGINALNAYNAALLAKILKVSVEEFS 77 (236) T ss_dssp CCSHHHHHHHHHHHHHHHHTTTTTCCSHHHHHHHTSCHHHHHHHTTTTSCCCHHHHHHTTTTTTSCGGGTC T ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHHHHCEEEEEHHC T ss_conf 99999999999999999999983999999999979799999888728524679999975220278512110 No 40 >2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovarisraelensis atcc 35646} Probab=99.23 E-value=2.1e-12 Score=93.20 Aligned_cols=61 Identities=25% Similarity=0.306 Sum_probs=58.2 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 99999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) ..+|..||.+|+++||||++||+-. +|++++|+||+|+..|+++++..|++.+|+++.+|+ T Consensus 4 ~~iG~~lk~~R~~~~ltq~~la~~i-~S~s~lSkiE~g~~~ps~~~l~~l~~~l~i~~~~~~ 64 (293) T 2qfc_A 4 EKLGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQIPIIHFY 64 (293) T ss_dssp HHHHHHHHHHHHHHTCCTTTTTTTT-SCHHHHHHHHTSSSCCCHHHHHHHTTTSCCCTHHHH T ss_pred HHHHHHHHHHHHHCCCCHHHHHHCC-CCHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHH T ss_conf 8999999999998799999985215-899999999889999999999999988599789987 No 41 >2wus_R RODZ, putative uncharacterized protein; structural protein, cell WALL morphogenesis, bacterial cytos bacterial actin; 2.90A {Thermotoga maritima} Probab=99.11 E-value=1.1e-10 Score=82.91 Aligned_cols=64 Identities=19% Similarity=0.128 Sum_probs=56.1 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHH------HHHHHHHHHCCCHHHHCC Q ss_conf 9999999999999839949999998634299998875589994489------999999992899999608 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINID------NMIILAHTLDTPLWKLLK 82 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~------~l~~la~al~i~~~~l~~ 82 (83) ...+|..||.+|+.+||||+|||+.+||+.++|+.||+|...+... .|.++|++||+++.+++. T Consensus 5 ~~~iG~~Lr~~R~~~glS~~elA~~l~Is~~~l~~iE~g~~~~~~~~~~~~g~lr~ya~~Lgld~~~l~~ 74 (112) T 2wus_R 5 WKELGETFRKKREERRITLLDASLFTNINPSKLKRIEEGDLKGLDAEVYIKSYIKRYSEFLELSPDEMLK 74 (112) T ss_dssp HHHHHHHHHHHHHTTTCCHHHHHHHSSCCHHHHHHHHHTCCTTSSCHHHHHHHHHHHHHHSSCCHHHHHH T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHH T ss_conf 9999999999999969999999999856899999988789533765228999999999996979999999 No 42 >2o38_A Hypothetical protein; alpha-beta, helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.83A {Rhodopseudomonas palustris CGA009} SCOP: a.35.1.13 Probab=99.08 E-value=8.8e-11 Score=83.56 Aligned_cols=68 Identities=18% Similarity=0.290 Sum_probs=60.6 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC-CCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 999999999999999999839949999998634299998875589-99448999999999289999960 Q gi|254781147|r 14 AILRERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGK-STINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 14 ~~~~~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~-~~~~~~~l~~la~al~i~~~~l~ 81 (83) +.+..+..++..|+.+|+++||||+++|+++|++++.||++|+|+ .++++++|.+++.+||..+.--+ T Consensus 33 eel~~K~~L~~~I~~~i~~~glTQ~eaA~~lGisq~~iS~l~~Gk~~~~Sld~L~~~~~~LG~~v~i~i 101 (120) T 2o38_A 33 EERQTKLRLAYALNAVIDRARLSQAAAAARLGINQPKVSALRNYKLEGFSVERLMTLLNALDQDVEIVI 101 (120) T ss_dssp HHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCCTTCCHHHHHHHHHHTTEEEEEEE T ss_pred HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCHHHHHHHHHHCCCEEEEEE T ss_conf 999999999999999999869967556555088889989997588678889999999998599389999 No 43 >3fmy_A HTH-type transcriptional regulator MQSA (YGIT/B3021); helix-turn-helix, DNA-binding, transcription regulation, DNA binding protein; HET: MEQ; 1.40A {Escherichia coli k-12} Probab=99.07 E-value=6.7e-11 Score=84.26 Aligned_cols=60 Identities=27% Similarity=0.189 Sum_probs=53.9 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 9999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) .++..|+.+|++.||||+++|+.+|||+++|++||+|+..|+.. +.++++.|++.+..|. T Consensus 11 ~~p~~ik~~R~~~gltQ~elA~~lgvs~~ti~~~E~G~~~P~~~-~~~l~~~l~~~P~~l~ 70 (73) T 3fmy_A 11 VAPEFIVKVRKKLSLTQKEASEIFGGGVNAFSRYEKGNAXPHPS-TIKLLRVLDKHPELLN 70 (73) T ss_dssp CCHHHHHHHHHHTTCCHHHHHHHHCSCTTHHHHHHTTSSCCCHH-HHHHHHHHHHCGGGHH T ss_pred CCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHH-HHHHHHHHCCCHHHHH T ss_conf 59999999999859999999999897999999999799799999-9999999877918888 No 44 >2eby_A Putative HTH-type transcriptional regulator YBAQ; hypothetical protein, JW0472, structural genomics, NPPSFA; 2.25A {Escherichia coli} Probab=98.97 E-value=7.7e-10 Score=77.96 Aligned_cols=59 Identities=15% Similarity=0.111 Sum_probs=53.4 Q ss_pred HHHHH-HHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 99999-999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 23 VNNFR-NIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 23 g~~ir-~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) |..|+ .+++..||||.+||+.+|||+++||+|++|++.++.+.+.+|+++||++.+.++ T Consensus 12 GeiL~~e~L~~~gisq~~LA~~lgvs~~~is~i~~Gk~~it~~~a~rL~~~fg~s~~~wl 71 (113) T 2eby_A 12 GDILLYEYLEPLDLKINELAELLHVHRNSVSALINNNRKLTTEMAFRLAKVFDTTVDFWL 71 (113) T ss_dssp HHHHHHHTTTTTTCCHHHHHHHHTSCHHHHHHHHTTSSCCCHHHHHHHHHHHTCCHHHHH T ss_pred HHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHH T ss_conf 199999988766999999999969899999999938778999999999999895899999 No 45 >2ppx_A AGR_C_3184P, uncharacterized protein ATU1735; HTH-motif, XRE-family, structural genomics, PSI-2, protein structure initiative; 2.00A {Agrobacterium tumefaciens str} SCOP: a.35.1.3 Probab=98.93 E-value=7.8e-10 Score=77.92 Aligned_cols=60 Identities=18% Similarity=0.148 Sum_probs=51.8 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 9999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) .++..||.+|+..||||++||+++||++++|++||+|+..|+...+. ++..+...+..+| T Consensus 30 ~~~~~ik~~R~~~gltq~~lA~~lgvs~~ti~~~E~G~~~P~~~~~~-ll~~i~~~Pe~~~ 89 (99) T 2ppx_A 30 PRMPRIKIIRRALKLTQEEFSARYHIPLGTLRDWEQGRSEPDQPARA-YLKIIAVDPEGTA 89 (99) T ss_dssp --CCHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTSSCCCHHHHH-HHHHHHHCHHHHH T ss_pred CCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHH-HHHHHHCCHHHHH T ss_conf 65899999999959999999999698899999998899869999999-9999874979999 No 46 >2fjr_A Repressor protein CI; genetic switch, regulation, cooperativity, transcription regulator; 1.95A {Enterobacteria phage 186} PDB: 2fkd_A Probab=98.86 E-value=4.4e-09 Score=73.46 Aligned_cols=58 Identities=19% Similarity=0.070 Sum_probs=52.8 Q ss_pred HHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 999999998399-49999998634299998875589994489999999992899999608 Q gi|254781147|r 24 NNFRNIRKEAKL-TQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 24 ~~ir~~R~~~gl-tq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ..|+++++..|+ ||.+||+++||++++|++||+|...|. +.+.++|++|++++.+|+. T Consensus 9 e~l~Rl~~~~g~~sq~eLA~~lGvs~stis~~e~~~~~p~-~~l~~ia~~~gv~~~~l~~ 67 (189) T 2fjr_A 9 DVLDRICEAYGFSQKIQLANHFDIASSSLSNRYTRGAISY-DFAAHCALETGANLQWLLT 67 (189) T ss_dssp HHHHHHHHHHTCSSHHHHHHHTTCCHHHHHHHHHSSSCCH-HHHHHHHHHHCCCHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHCCCCCH-HHHHHHHHHHCCCHHHHCC T ss_conf 9999999982998799999997979999999982899977-8999999880998345116 No 47 >3fym_A Putative uncharacterized protein; HTH DNA binding, DNA binding protein; 1.00A {Staphylococcus aureus subsp} Probab=98.82 E-value=8.7e-09 Score=71.69 Aligned_cols=61 Identities=16% Similarity=0.214 Sum_probs=54.1 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCC--CC----HHHHHHHHHHHCCCHHHHC Q ss_conf 9999999999983994999999863429999887558999--44----8999999999289999960 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKST--IN----IDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~--~~----~~~l~~la~al~i~~~~l~ 81 (83) .+|+.||.+|+++|+|++|+|+.++|+.++|..||+|... |+ ...+..+|+.||++.++++ T Consensus 3 tiG~~Lr~~R~~~glSi~eva~~l~I~~~~l~aiE~g~~~~lp~~~~~~g~lr~ya~~L~ld~~~ll 69 (130) T 3fym_A 3 TVGEALKGRRERLGMTLTELEQRTGIKREMLVHIENNEFDQLPNKNYSEGFIRKYASVVNIEPNQLI 69 (130) T ss_dssp CHHHHHHHHHHHTTCCHHHHHHHHCCCHHHHHHHHTTCGGGSSSGGGHHHHHHHHHHHTTCCHHHHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHH T ss_conf 7999999999996999999999975149999999848854567708999999999999395999999 No 48 >3o9x_A Uncharacterized HTH-type transcriptional regulato; HTH-XRE DNA binding motif, transcriptional regulator, bacter antitoxin, Zn binding protein, transcription regulator-DNA; HET: DNA; 2.10A {Escherichia coli} PDB: 3gn5_A* 3gn5_B* Probab=98.81 E-value=2.1e-09 Score=75.33 Aligned_cols=56 Identities=27% Similarity=0.197 Sum_probs=46.9 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHH Q ss_conf 999999999983994999999863429999887558999448999999999289999 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLW 78 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~ 78 (83) .+..||.+|+..||||+++|+++|+|.++|++||+|...|+... .++++.++..+. T Consensus 72 ~~e~ir~~R~~~glsQ~elA~~lg~~~~ti~~~E~G~~~p~~~~-~~l~~~l~~~p~ 127 (133) T 3o9x_A 72 APEFIVKVRKKLSLTQKEASEIFGGGVNAFSRYEKGNAQPHPST-IKLLRVLDKHPE 127 (133) T ss_dssp CHHHHHHHHHHTTCCHHHHHHHHCSCTTHHHHHHHTSSCCCHHH-HHHHHHHHHCGG T ss_pred CHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHH-HHHHHHHCCCCH T ss_conf 99999999998499999999995999999999986998899999-999999843854 No 49 >2auw_A Hypothetical protein NE0471; alpha-beta structure, structural genomics, PSI, protein structure initiative; 1.85A {Nitrosomonas europaea} SCOP: a.35.1.10 d.331.1.1 Probab=98.66 E-value=2.2e-08 Score=69.28 Aligned_cols=48 Identities=13% Similarity=0.111 Sum_probs=42.0 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 999999999839949999998634299998875589994489999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) .+.|+.+|++.||||+++|+.+|||+++|++||+|++.++......+. T Consensus 92 ~e~i~~~R~~~glsQ~~lA~~lGvs~~ti~~~E~G~r~ip~~i~La~l 139 (170) T 2auw_A 92 HEMFGDWMHRNNLSLTTAAEALGISRRMVSYYRTAHKIIPRTIWLACL 139 (170) T ss_dssp HHHHHHHHHHTTCCHHHHHHHHTSCHHHHHHHHTTSSCCCHHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHH T ss_conf 999999999869999999999599999999997799999989999997 No 50 >1dw9_A Cyanate lyase; cyanate degradation, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: SO4; 1.65A {Escherichia coli} SCOP: a.35.1.4 d.72.1.1 PDB: 1dwk_A* 2ivq_A 2ivb_A 2iu7_A 2iv1_A 2iuo_A 2ivg_A Probab=98.38 E-value=1e-06 Score=59.48 Aligned_cols=63 Identities=19% Similarity=0.301 Sum_probs=58.8 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 999999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) +..+...|..+|.++|||++++|+.+|.|..+++.++.|+...+-+...+++++|+++-+.+. T Consensus 11 r~elte~Il~AK~~KGlTwe~IAe~vG~S~v~vaaa~lGQ~~l~~e~A~~l~~~LgL~~e~~~ 73 (156) T 1dw9_A 11 RLDLADAILLSKAKKDLSFAEIADGTGLAEAFVTAALLGQQALPADAARLVGAKLDLDEDSIL 73 (156) T ss_dssp HHHHHHHHHHHHHHTTCCHHHHHTTSSSCHHHHHHHHTTSSCCCHHHHHHHHHHTTCCHHHHH T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHH T ss_conf 899999999999984999999999979799999999845777998999999985499999999 No 51 >3bd1_A CRO protein; transcription factor, helix-turn-helix, prophage, structural evolution; 1.40A {Xylella fastidiosa ann-1} Probab=96.47 E-value=0.0022 Score=39.63 Aligned_cols=46 Identities=15% Similarity=0.103 Sum_probs=40.6 Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHC--CCHHHHC Q ss_conf 9499999986342999988755899944899999999928--9999960 Q gi|254781147|r 35 LTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLD--TPLWKLL 81 (83) Q Consensus 35 ltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~--i~~~~l~ 81 (83) =+|.+||+.+|||+++|++|-+|. .++.+....|+++.+ |+.++|. T Consensus 12 G~q~~lAr~lGVsq~aVs~W~~~~-~vP~~~~~~Ie~aT~g~Vt~~eLr 59 (79) T 3bd1_A 12 GSVSALAASLGVRQSAISNWRARG-RVPAERCIDIERVTNGAVICRELR 59 (79) T ss_dssp SSHHHHHHHHTCCHHHHHHHHHHT-CCCGGGHHHHHHHTTTSSCHHHHC T ss_pred CCHHHHHHHHCCCHHHHHHHHHCC-CCCHHHHHHHHHHHCCCCCHHHHC T ss_conf 899999999299999999998469-999999999999978953199849 No 52 >3kjx_A Transcriptional regulator, LACI family; LACL family, protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.33A {Silicibacter pomeroyi} Probab=96.44 E-value=0.0028 Score=38.99 Aligned_cols=46 Identities=13% Similarity=0.196 Sum_probs=38.1 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH---HHHHHCC Q ss_conf 998399499999986342999988755899944899999---9999289 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMII---LAHTLDT 75 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~---la~al~i 75 (83) ...+..|++|+|+.+|||.+|+|++-||...++-++-.+ +|+.+|. T Consensus 6 ~~~k~vTikdIA~~agVS~aTVSr~Ln~~~~vs~~tr~rV~~~a~~lgY 54 (344) T 3kjx_A 6 DTKRPLTLRDVSEASGVSEMTVSRVLRNRGDVSDATRARVLAAAKELGY 54 (344) T ss_dssp ----CCCHHHHHHHHCCCSHHHHHHHTTCSCCCHHHHHHHHHHHHHHTC T ss_pred CCCCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCC T ss_conf 9999976999999989599999999789899999999999999999599 No 53 >2k9q_A Uncharacterized protein; all helix, helix-turn-helix, plasmid, structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides thetaiotaomicron} Probab=96.43 E-value=0.013 Score=35.05 Aligned_cols=61 Identities=16% Similarity=0.263 Sum_probs=55.9 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 9999999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) +...++.-|....+|.+.+|+.+|||++.+..||.....|-+-....+.+.-|+.+..||. T Consensus 3 lsnelkverirlsltaksvaeemgisrqqlcnieqsetapvvvkyiaflrskgvdlnalfd 63 (77) T 2k9q_A 3 LSNELKVERIRLSLTAKSVAEEMGISRQQLCNIEQSETAPVVVKYIAFLRSKGVDLNALFD 63 (77) T ss_dssp HHHHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHHTCCSCCHHHHHHHHHHHTTCCHHHHHH T ss_pred CCCCCEEEEEEEEEEHHHHHHHHCCCHHHHCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHH T ss_conf 5420123566775226778998484598834741136577348889999863875899999 No 54 >1neq_A DNA-binding protein NER; NMR {Enterobacteria phage MU} SCOP: a.35.1.2 PDB: 1ner_A Probab=96.31 E-value=0.011 Score=35.38 Aligned_cols=56 Identities=16% Similarity=0.119 Sum_probs=46.0 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHCC Q ss_conf 99999999839949999998634299998875589994489999999992899999608 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLLK 82 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~~ 82 (83) ..|+..-..+|+|..+||...|++.++++..-. .|....=..||++||+++.+++- T Consensus 12 adI~AaL~krG~sLa~lsr~~Gls~~tl~nal~---rp~pkgEriIA~aLGv~P~eIWP 67 (74) T 1neq_A 12 ADVIAGLKKRKLSLSALSRQFGYAPTTLANALE---RHWPKGEQIIANALETKPEVIWP 67 (74) T ss_dssp HHHHHHHHTTSCCHHHHHHHHSSCHHHHHHTTT---SSCHHHHHHHHHHTTSCHHHHCT T ss_pred HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHC---CCCCHHHHHHHHHHCCCHHHHCC T ss_conf 999999999689699999990998899999882---77807999999997859889496 No 55 >1uxc_A FRUR (1-57), fructose repressor; DNA-binding protein, LACI family, transcription regulation; NMR {Escherichia coli K12} SCOP: a.35.1.5 PDB: 1uxd_A Probab=96.26 E-value=0.0042 Score=37.94 Aligned_cols=43 Identities=14% Similarity=0.206 Sum_probs=33.9 Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCC---CCHH---HHHHHHHHHCCCH Q ss_conf 94999999863429999887558999---4489---9999999928999 Q gi|254781147|r 35 LTQKEIRNRTGFAQSWISELETGKST---INID---NMIILAHTLDTPL 77 (83) Q Consensus 35 ltq~ela~~~gis~~~is~iE~G~~~---~~~~---~l~~la~al~i~~ 77 (83) +|.+|+|+.+|+|.+++|++-||... ++-+ .+...++.+|..+ T Consensus 1 vTlkdIA~~aGVS~sTVSrvLng~~~~~~Vs~~Tr~rV~~~a~~lgY~p 49 (65) T 1uxc_A 1 MKLDEIARLAGVSRTTASYVINGKAKQYRVSDKTVEKVMAVVREHNYHP 49 (65) T ss_dssp CCHHHHHHHHTSCHHHHHHHHHTCTTTTTCTTHHHHHHHHHHHHHTCCC T ss_pred CCHHHHHHHHCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 9799999998859999999985999878779999999999999988897 No 56 >2hsg_A Glucose-resistance amylase regulator; CCPA, transcriptional regulator, transcription regulator; 2.50A {Bacillus megaterium} SCOP: a.35.1.5 c.93.1.1 PDB: 1rzr_G 2jcg_A 1zvv_A Probab=96.10 E-value=0.0077 Score=36.40 Aligned_cols=43 Identities=9% Similarity=0.126 Sum_probs=35.6 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH---HHHHHCCC Q ss_conf 99499999986342999988755899944899999---99992899 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELETGKSTINIDNMII---LAHTLDTP 76 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~---la~al~i~ 76 (83) +.|.+|+|+.+|||.+|+|++-||+..++-++-.+ .++-+|.. T Consensus 2 ~vTi~dIA~~aGVS~~TVSr~Ln~~~~vs~~tr~kV~~~a~elgY~ 47 (332) T 2hsg_A 2 NVTIYDVAREASVSMATVSRVVNGNPNVKPSTRKKVLETIERLGYR 47 (332) T ss_dssp CCCHHHHHHHTTSCHHHHHHHHTTCTTSCHHHHHHHHHHHHHHTCC T ss_pred CCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCC T ss_conf 7679999999897999999997895999999999999999996898 No 57 >3h5t_A Transcriptional regulator, LACI family; DNA-dependent, protein structure initiative II(PSI II), NYSGXRC, 11232D), structural genomics; 2.53A {Corynebacterium glutamicum} Probab=95.98 E-value=0.0043 Score=37.92 Aligned_cols=46 Identities=15% Similarity=0.178 Sum_probs=37.8 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH---HHHHHHHHCC Q ss_conf 998399499999986342999988755899944899---9999999289 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDN---MIILAHTLDT 75 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~---l~~la~al~i 75 (83) ++.+.-|.+|+|+.+|||++|+|++-||+..++-++ +.++++.||. T Consensus 5 ~~~~~~Tl~diA~~agVS~~TVsraLn~~~~vs~~tr~rV~~~a~~lgY 53 (366) T 3h5t_A 5 RKQQYGTLASIAAKLGISRTTVSNAYNRPEQLSAELRQRILDTAEDMGY 53 (366) T ss_dssp --CCTTHHHHHHHHHTSCHHHHHHHHHCGGGSCHHHHHHHHHHHHHTTC T ss_pred CCCCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCC T ss_conf 9999863999999988799999999689899999999999999998399 No 58 >1zx4_A P1 PARB, plasmid partition PAR B protein, PARB; translation; HET: CIT; 2.98A {Enterobacteria phage P1} PDB: 2ntz_A Probab=95.92 E-value=0.0089 Score=36.03 Aligned_cols=36 Identities=17% Similarity=0.224 Sum_probs=29.1 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 9999999999983994999999863429999887558 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G 57 (83) .+|..... ..+.|+||+++|+++|+|+++||++-+- T Consensus 12 E~g~~~~~-l~~~g~tQ~elAe~lg~Srs~Vsr~lrl 47 (192) T 1zx4_A 12 EIGLRLMR-MKNDGMSQKDIAAKEGLSQAKVTRALQA 47 (192) T ss_dssp HHHHHHHH-HHHTTCCHHHHHHHHTCCHHHHHHHHHH T ss_pred HHHHHHHH-HHHCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 99999999-9985999999999988799999999999 No 59 >2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo, protein-DNA, human disease; 3.20A {Homo sapiens} Probab=95.63 E-value=0.044 Score=31.90 Aligned_cols=45 Identities=16% Similarity=0.235 Sum_probs=39.6 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHH Q ss_conf 999999999999839949999998634299998875589994489 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINID 64 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~ 64 (83) ..|+..|+..+...|++|..++..+|+|+++||++++........ T Consensus 30 ~~~a~eIk~~L~~~~i~q~~~~~~~g~SqSsiS~~L~~~~~~~~~ 74 (221) T 2h8r_A 30 WRAAKMIKGYMQQHNIPQREVVDVTGLNQSHLSQHLNKGTPMKTQ 74 (221) T ss_dssp HHHHHHHHHHHHHHTCCHHHHHHHHTCCHHHHHHHHTTCCCCCHH T ss_pred HHHHHHHHHHHHHCCCCHHHHHCCCCCCHHHHHHHHCCCCCHHHH T ss_conf 999999999998669845553001244443788987189853440 No 60 >1qpz_A PURA, protein (purine nucleotide synthesis repressor); transcription regulation, DNA-binding, purine biosynthesis; HET: DNA HPA; 2.50A {Escherichia coli} SCOP: a.35.1.5 c.93.1.1 PDB: 1bdi_A* 1qp0_A* 1qp4_A* 1pnr_A* 1wet_A* 1zay_A* 1vpw_A* 2pue_A* 2puf_A* 2pug_A* 1bdh_A* 1qp7_A* 1qqa_A* 1qqb_A* 2puc_A* 2pua_A* 2pub_A* 2pud_A* 1jfs_A* 1jh9_A* ... Probab=95.61 E-value=0.013 Score=34.98 Aligned_cols=42 Identities=12% Similarity=0.145 Sum_probs=35.3 Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCHHH---HHHHHHHHCCCH Q ss_conf 499999986342999988755899944899---999999928999 Q gi|254781147|r 36 TQKEIRNRTGFAQSWISELETGKSTINIDN---MIILAHTLDTPL 77 (83) Q Consensus 36 tq~ela~~~gis~~~is~iE~G~~~~~~~~---l~~la~al~i~~ 77 (83) |.+|+|+.+|||.+|+|++-||+..++-++ +.++++-+|..+ T Consensus 2 Ti~DIA~~aGVS~~TVSraLn~~~~vs~~tr~rV~~~a~elgY~p 46 (340) T 1qpz_A 2 TIKDVAKRANVSTTTVSHVINKTRFVAEETRNAVWAAIKELHYSP 46 (340) T ss_dssp CHHHHHHHHTSCHHHHHHHHHTCSCCCHHHHHHHHHHHHHHTCCC T ss_pred CHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 689999998969999999967979999999999999999958988 No 61 >3e3m_A Transcriptional regulator, LACI family; structural genomics, DNA-binding, plasmid, transcription regulation, PSI-2; 1.60A {Silicibacter pomeroyi} Probab=95.12 E-value=0.0029 Score=38.88 Aligned_cols=48 Identities=10% Similarity=0.130 Sum_probs=37.7 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHH---HHHHHHCCCH Q ss_conf 99839949999998634299998875589994489999---9999928999 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMI---ILAHTLDTPL 77 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~---~la~al~i~~ 77 (83) ...+..|.+|+|+.+|||.+|+|++-||+..++-++-. ++++-||..+ T Consensus 8 ~~~k~vTikdIA~~aGVS~~TVSr~Ln~~~~Vs~~Tr~rV~~~a~elgY~p 58 (355) T 3e3m_A 8 PGHRPVTMRDVAKAAGVSRMTVSRALKKDSPISSETRERILKVVKDMNYVP 58 (355) T ss_dssp --------------------------------------------------- T ss_pred CCCCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 999997699999998859999999968989999999999999999959973 No 62 >3bil_A Probable LACI-family transcriptional regulator; structural genomics, unknown function, PSI-2, protein structure initiative; 2.50A {Corynebacterium glutamicum atcc 13032} Probab=94.67 E-value=0.0046 Score=37.73 Aligned_cols=47 Identities=15% Similarity=0.172 Sum_probs=36.5 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH---HHHHHHHHCCCH Q ss_conf 98399499999986342999988755899944899---999999928999 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDN---MIILAHTLDTPL 77 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~---l~~la~al~i~~ 77 (83) +...-|.+|+|+++|||.+|+|++-||...++-++ +.++++-+|..+ T Consensus 5 ~k~r~Ti~dIA~~aGVS~~TVSr~Ln~~~~Vs~~tr~rV~~~a~~lgY~p 54 (348) T 3bil_A 5 EKFRPTLKDVARQAGVSIATASRALADNPAVAASTRERIQQLASDLGYRA 54 (348) T ss_dssp -------------------------------------------------- T ss_pred CCCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 89997399999998869999999968989999999999999999958987 No 63 >2w48_A Sorbitol operon regulator; SORC, activator, repressor, DNA-binding, transcription, transcription regulator, transcription regulation; 3.20A {Klebsiella pneumoniae} Probab=94.62 E-value=0.03 Score=32.91 Aligned_cols=55 Identities=25% Similarity=0.300 Sum_probs=38.9 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH-----HCCCCCCCHH--------HHHHHHHHHCC Q ss_conf 9999999999983994999999863429999887-----5589994489--------99999999289 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISEL-----ETGKSTINID--------NMIILAHTLDT 75 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~i-----E~G~~~~~~~--------~l~~la~al~i 75 (83) .+..++-++-...|+||.|.|+++|+|++++|++ |.|-..++++ .-..|.+.||+ T Consensus 8 ~ll~~vA~lYY~~g~tQ~eIA~~lgiSR~~VsRlL~~Ar~~GiV~I~I~~~~~~~~~Le~~L~~~fgL 75 (315) T 2w48_A 8 RLIVKIAQLYYEQDMTQAQIARELGIYRTTISRLLKRGREQGIVTIAINYDYNENLWLEQQLKQKFGL 75 (315) T ss_dssp HHHHHHHHHHHTSCCCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEECSSCCHHHHHHHHHHHHHTC T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHCCC T ss_conf 99999999998249999999998795999999999999975937999948974419999999997299 No 64 >3dbi_A Sugar-binding transcriptional regulator, LACI family; structural genomics, protein structure initiative, PSI-2; HET: MSE; 2.45A {Escherichia coli K12} Probab=94.32 E-value=0.0061 Score=36.99 Aligned_cols=44 Identities=14% Similarity=0.194 Sum_probs=34.7 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH---HHHHHHHHCCCH Q ss_conf 99499999986342999988755899944899---999999928999 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELETGKSTINIDN---MIILAHTLDTPL 77 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~G~~~~~~~~---l~~la~al~i~~ 77 (83) .-|.+|+|+.+|||.+|+|++-||+..++-++ +.++++-+|..+ T Consensus 3 ~~Ti~DIA~~aGVS~~TVSrvLn~~~~vs~~tr~rI~~~a~elgY~p 49 (338) T 3dbi_A 3 LTTMLEVAKRAGVSKATVSRVLSGNGYVSQETKDRVFQAVEESGYRP 49 (338) T ss_dssp ----------------------------------------------- T ss_pred CCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 78899999997979999999968979999999999999999948987 No 65 >3h5o_A Transcriptional regulator GNTR; transcription regulator, GNTR,chromobacterium violaceum, PSI, SGX, DNA-binding; 2.30A {Chromobacterium violaceum} Probab=94.26 E-value=0.0064 Score=36.87 Aligned_cols=46 Identities=9% Similarity=0.072 Sum_probs=36.2 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH---HHHHHHHCCCH Q ss_conf 83994999999863429999887558999448999---99999928999 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKSTINIDNM---IILAHTLDTPL 77 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l---~~la~al~i~~ 77 (83) ..+.|.+|+|+.+|||.+|+|++-||+..++-++- .++++.+|..+ T Consensus 2 ~m~vTi~dIA~~aGVS~~TVSraLn~~~~Vs~~tr~rI~~~a~~lgY~p 50 (339) T 3h5o_A 2 SLGVTMHDVAKAAGVSAITVSRVLNQPQQVSEQLREKVMQAVDALAYVP 50 (339) T ss_dssp ------------------------------------------------- T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 9731199999998979999999968989999999999999999978975 No 66 >1jye_A Lactose operon repressor; gene regulation, protein stability, protein DNA-binding, transcription; 1.70A {Escherichia coli} SCOP: c.93.1.1 PDB: 1lbi_A 1lbg_A* 1lbh_A 1jyf_A 3edc_A 1efa_A* 1jwl_A* 2pe5_A* 1tlf_A* 2p9h_A* 2paf_A* 1cjg_A* 1l1m_A 1osl_A 2kei_A* 2kej_A* 2kek_A* 2bjc_A 1lqc_A 1lcc_A* ... Probab=94.17 E-value=0.0069 Score=36.69 Aligned_cols=45 Identities=11% Similarity=0.097 Sum_probs=35.5 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH---HHHHHHHHCCCH Q ss_conf 399499999986342999988755899944899---999999928999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDN---MIILAHTLDTPL 77 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~---l~~la~al~i~~ 77 (83) ++.|.+|+|+.+|||.+|+|++-||+..++-++ +.++++-+|..+ T Consensus 2 kk~Ti~dIA~~aGVS~sTVSraLn~~~~Vs~~tr~rV~~~a~~lgY~p 49 (349) T 1jye_A 2 KPVTLYDVAEYAGVSYQTVSRVVNQASHVSAKTREKVEAAMAELNYIP 49 (349) T ss_dssp ------------------------------------------------ T ss_pred CCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 977699999998869999999967969999999999999999978985 No 67 >1jhf_A LEXA repressor; LEXA SOS repressor, hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.2 b.87.1.1 PDB: 1jhh_A 1jhc_A 1jhe_A 1lea_A 1leb_A Probab=93.78 E-value=0.08 Score=30.36 Aligned_cols=37 Identities=27% Similarity=0.453 Sum_probs=30.8 Q ss_pred HHHHHHHHHHHHHHHHCCC--CHHHHHHHHHH-HHHHHHHH Q ss_conf 9999999999999998399--49999998634-29999887 Q gi|254781147|r 17 RERMIFVNNFRNIRKEAKL--TQKEIRNRTGF-AQSWISEL 54 (83) Q Consensus 17 ~~~~~~g~~ir~~R~~~gl--tq~ela~~~gi-s~~~is~i 54 (83) ++++++ ..|+.++++.|+ |+.|+|+.+|+ |.+++.++ T Consensus 7 kq~~il-~~I~~~~~~~g~~PS~~Eia~~~GikS~s~v~~~ 46 (202) T 1jhf_A 7 RQQEVF-DLIRDHISQTGMPPTRAEIAQRLGFRSPNAAEEH 46 (202) T ss_dssp HHHHHH-HHHHHHHHHHSSCCCHHHHHHHTTCSSHHHHHHH T ss_pred HHHHHH-HHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHHHH T ss_conf 999999-9999999982989669999998499972899999 No 68 >2o20_A Catabolite control protein A; CCPA, transcriptional regulator, helix-turn-helix; 1.90A {Lactococcus lactis} Probab=93.70 E-value=0.0095 Score=35.85 Aligned_cols=46 Identities=15% Similarity=0.197 Sum_probs=36.4 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH---HHHHHHHCCCH Q ss_conf 83994999999863429999887558999448999---99999928999 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKSTINIDNM---IILAHTLDTPL 77 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l---~~la~al~i~~ 77 (83) +...|.+|+|+.+|||.+|+|++-||...++-++- ..+++.||..+ T Consensus 3 ~~~~Ti~DIA~~aGVS~~TVSraLn~~~~vs~~tr~rV~~~a~~lgY~p 51 (332) T 2o20_A 3 ESTTTIYDVARVAGVSMATVSRVVNGNANVKEKTRQKVLEAIAELDYRP 51 (332) T ss_dssp ------------------------------------------------- T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 8987699999997979999999968969999999999999999958976 No 69 >1jhg_A Trp operon repressor; complex (regulatory protein/peptide), DNA-binding regulatory protein; HET: TRP; 1.30A {Escherichia coli} SCOP: a.4.12.1 PDB: 1co0_A* 1mi7_R 1p6z_R 1wrp_R* 1zt9_A* 2oz9_R* 3wrp_A 1rcs_A* 1wrs_R* 1wrt_R 2xdi_A 1trr_A* 1tro_A* Probab=93.65 E-value=0.098 Score=29.84 Aligned_cols=41 Identities=22% Similarity=0.240 Sum_probs=34.4 Q ss_pred HHHHHHHHHHHHHH-HHCC-CCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 99999999999999-9839-94999999863429999887558 Q gi|254781147|r 17 RERMIFVNNFRNIR-KEAK-LTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 17 ~~~~~~g~~ir~~R-~~~g-ltq~ela~~~gis~~~is~iE~G 57 (83) .+...++.+++.++ ...| +||.++++.+|+|.++|+++-+- T Consensus 39 ~E~~~la~R~~ia~~L~~g~~s~reI~~~~gvS~aTItR~s~~ 81 (101) T 1jhg_A 39 DEREALGTRVRIIEELLRGEMSQRELKNELGAGIATITRGSNS 81 (101) T ss_dssp HHHHHHHHHHHHHHHHHHCCSCHHHHHHHHCCCHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 9999999999999999908957999999969865777898999 No 70 >3frw_A Putative Trp repressor protein; structural genomics, APC21159, PSI-2, protein structure initiative; 2.05A {Ruminococcus obeum atcc 29174} PDB: 3g1c_A Probab=93.47 E-value=0.12 Score=29.25 Aligned_cols=41 Identities=22% Similarity=0.279 Sum_probs=33.6 Q ss_pred HHHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 99999999999999-983994999999863429999887558 Q gi|254781147|r 17 RERMIFVNNFRNIR-KEAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 17 ~~~~~~g~~ir~~R-~~~gltq~ela~~~gis~~~is~iE~G 57 (83) .+...++.++..++ ...|.|+.++++.+|+|.++|+++-+- T Consensus 40 ~E~~~la~R~~va~lL~~g~syreIa~~~gvS~aTIsRv~r~ 81 (107) T 3frw_A 40 NELLSLSQRFEVAKMLTDKRTYLDISEKTGASTATISRVNRS 81 (107) T ss_dssp HHHHHHHHHHHHHHHHHTTCCHHHHHHHHCCCHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 999999999999999886999999999969874758999999 No 71 >3kor_A Possible Trp repressor; putative DNA-binding Trp repressor, TRPR like protein, struc genomics, transcription; 1.60A {Staphylococcus aureus} Probab=93.27 E-value=0.13 Score=29.20 Aligned_cols=41 Identities=15% Similarity=0.179 Sum_probs=33.4 Q ss_pred HHHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 99999999999999-983994999999863429999887558 Q gi|254781147|r 17 RERMIFVNNFRNIR-KEAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 17 ~~~~~~g~~ir~~R-~~~gltq~ela~~~gis~~~is~iE~G 57 (83) .+...+++++..++ ...|.|+.++++.+|+|.++|+++-+- T Consensus 57 ~E~~~la~R~~Va~lL~~g~syreIa~~tgvS~aTIsRV~r~ 98 (119) T 3kor_A 57 NEIQSLSQRLQVAKMIKQGYTYATIEQESGASTATISRVKRS 98 (119) T ss_dssp HHHHHHHHHHHHHHHHHHTCCHHHHHHHHCCCHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 999999999999999885999999999969874547999999 No 72 >3jvd_A Transcriptional regulators; structural genomics, PSI-2, sugar binding protein, transcription regulation, protein structure initiative; 2.30A {Corynebacterium glutamicum} Probab=93.21 E-value=0.013 Score=35.08 Aligned_cols=46 Identities=22% Similarity=0.194 Sum_probs=36.5 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH---HHHHHHHHCCCH Q ss_conf 8399499999986342999988755899944899---999999928999 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKSTINIDN---MIILAHTLDTPL 77 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~---l~~la~al~i~~ 77 (83) ....|.+|+|+.+|||.+|+|++-|++..++-++ +..+++.+|... T Consensus 4 ~~k~Ti~diA~~aGVS~aTVSr~Ln~~~~Vs~~tr~rV~~aae~lgY~p 52 (333) T 3jvd_A 4 SAKSSLKEVAELAGVGYATASRALSGKGYVSPQTREKVQAAAKELNYVP 52 (333) T ss_dssp ------------------------------------------------- T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 9998799999998979999999968979999999999999999959973 No 73 >2ox6_A Hypothetical protein SO3848; structural genomics, PSI-2, MCSG, protein structure initiative, midwest center for structural genomics; 1.70A {Shewanella oneidensis mr-1} SCOP: a.35.1.6 Probab=93.19 E-value=0.29 Score=27.00 Aligned_cols=48 Identities=10% Similarity=0.088 Sum_probs=39.8 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 999999999839949999998634299998875589994489999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) +-.++.+|...|+|.+++++..+.|..-+-.||.|....+...-.++. T Consensus 9 aiei~ylr~slglt~aqv~e~~k~se~dv~aweage~~~~~laqkkll 56 (166) T 2ox6_A 9 AIEMSYLRQSLSLSAAQVGQLTNHSEAEVLAWENAETQAPELAQKKLL 56 (166) T ss_dssp HHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTSSCCCHHHHHHHH T ss_pred HHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHH T ss_conf 575999999707889998887445777755355068868607787551 No 74 >2oi8_A Putative regulatory protein SCO4313; TETR, structural genomics, PSI-2, protein structure initiative; 2.50A {Streptomyces coelicolor} SCOP: a.4.1.9 a.121.1.1 Probab=93.13 E-value=0.14 Score=28.92 Aligned_cols=70 Identities=14% Similarity=0.162 Sum_probs=48.0 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 969888888689899999999999999999--9839949999998634299998875589994489999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNIR--KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~R--~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) ||++....|...........++..-++.+. --.+.|..++|+.+|||++++..+..+|...=...+.... T Consensus 1 m~~~~~~~pr~~~~~~~R~~Il~aA~~l~~~~G~~~~t~~~IA~~aGvs~~~lY~~F~sK~~L~~al~~~~~ 72 (216) T 2oi8_A 1 MPEARTSTPRERYRTQVRAEIKDHAWEQIATAGASALSLNAIAKRMGMSGPALYRYFDGRDELITELIRDAY 72 (216) T ss_dssp -------CCSSCCHHHHHHHHHHHHHHHHHHHCTTSCCHHHHHHHTTCCHHHHHTTCSSHHHHHHHHHHHHH T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHH T ss_conf 968999998632279999999999999999709653889999999797988999887999999999999999 No 75 >3mky_B Protein SOPB; partition, F plasmid, centromere, DNA binding protein- complex; HET: DNA; 2.86A {Escherichia coli} PDB: 3mkw_B* 3mkz_A* Probab=93.08 E-value=0.069 Score=30.74 Aligned_cols=56 Identities=5% Similarity=-0.008 Sum_probs=36.4 Q ss_pred HHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHCC------------C-CCCCHHHHHHHHHHHCCCH Q ss_conf 999999999-983994999999863429999887558------------9-9944899999999928999 Q gi|254781147|r 22 FVNNFRNIR-KEAKLTQKEIRNRTGFAQSWISELETG------------K-STINIDNMIILAHTLDTPL 77 (83) Q Consensus 22 ~g~~ir~~R-~~~gltq~ela~~~gis~~~is~iE~G------------~-~~~~~~~l~~la~al~i~~ 77 (83) -|....++- ...++||+++|+++|+|+++|+++-+= . ..++......|...++-.- T Consensus 29 ~a~~y~rlL~~~~~~tq~eLA~~lG~Srs~VS~~L~l~~LP~~I~~~~~~~~~is~~~a~~L~~l~~~~~ 98 (189) T 3mky_B 29 RGQRYASRLQNEFAGNISALADAENISRKIITRCINTAKLPKSVVALFSHPGELSARSGDALQKAFTDKE 98 (189) T ss_dssp HHHHHHHHHHTTTTTCHHHHHHHHTSCHHHHHHHHHHHHSCHHHHHTSSSGGGSCHHHHHHHHHHTTTCH T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHHHCCCHHHHHHHHCCCCCCHHHHHHHHCCCCCCH T ss_conf 9999999998643888999999979799999999988658999999975449879899999980410068 No 76 >3ctp_A Periplasmic binding protein/LACI transcriptional regulator; structural genomics, protein structure initiative; HET: XLF; 1.41A {Alkaliphilus metalliredigens qymf} Probab=92.83 E-value=0.016 Score=34.56 Aligned_cols=42 Identities=17% Similarity=0.189 Sum_probs=33.2 Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH---HHHHHHHCCCH Q ss_conf 4999999863429999887558999448999---99999928999 Q gi|254781147|r 36 TQKEIRNRTGFAQSWISELETGKSTINIDNM---IILAHTLDTPL 77 (83) Q Consensus 36 tq~ela~~~gis~~~is~iE~G~~~~~~~~l---~~la~al~i~~ 77 (83) |.+|+|+++|||.+|+|++-||...++-++- .++++.+|..+ T Consensus 4 tikdIA~~agVS~~TVSr~Ln~~~~vs~~tr~rV~~~a~~lgY~p 48 (330) T 3ctp_A 4 NIREIAKRAGISIATVSRHLNNTGYVSEDAREKIQKVVDELNYTP 48 (330) T ss_dssp --------------------------------------------- T ss_pred CHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 899999998969999999968979999999999999999958987 No 77 >1r71_A Transcriptional repressor protein KORB; INCP, plasmid partitioning, protein-DNA complex, heilx-turn- helix motif, transcription factor; HET: BRU; 2.20A {Escherichia coli} SCOP: a.4.14.1 Probab=92.56 E-value=0.14 Score=28.93 Aligned_cols=35 Identities=11% Similarity=0.110 Sum_probs=27.7 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 999999999998399499999986342999988755 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~ 56 (83) ..+..++.+- ..|+||+++|+++|.|++||+++-+ T Consensus 40 e~A~~~~~l~-~~g~t~~~iA~~lg~s~~~V~~~l~ 74 (178) T 1r71_A 40 EIADFIGREL-AKGKKKGDIAKEIGKSPAFITQHVT 74 (178) T ss_dssp HHHHHHHHHH-HTTCCHHHHHHHHTCCHHHHHHHHG T ss_pred HHHHHHHHHH-HCCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 9999999999-8178899999996999999999999 No 78 >2csf_A DNA-binding protein SATB2; CUT domain, special AT-rich sequence-binding protein 2, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.35.1.7 Probab=92.35 E-value=0.41 Score=26.14 Aligned_cols=60 Identities=20% Similarity=0.285 Sum_probs=51.3 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHH-HHHHHHHHHHHCCCCCCC------HHHHHHHHHHHCCCHHH Q ss_conf 9999999999998399499999986-342999988755899944------89999999992899999 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRT-GFAQSWISELETGKSTIN------IDNMIILAHTLDTPLWK 79 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~-gis~~~is~iE~G~~~~~------~~~l~~la~al~i~~~~ 79 (83) ..++.+|+...+..+++|+-+|+.+ |.|+.++|.+-+.+.+|. .+++.++-+.|+.|-.+ T Consensus 20 ~~ia~~i~~eL~~~~I~Q~~FAk~VL~rSQGtLSdLLr~~~~PkPw~ksgre~~~rm~~wL~lPe~~ 86 (101) T 2csf_A 20 AAIYDEIQQEMKRAKVSQALFAKVAANKSQGWLCELLRWKENPSPENRTLWENLCTIRRFLNLPQHE 86 (101) T ss_dssp THHHHHHHHHHHHHTCCHHHHHHHHTCCCHHHHHHHHHHCCCCCTTCHHHHHHHHHHHHHHTSCHHH T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCHHHH T ss_conf 9999999999998486599999999801711799998464799975402578999999998182989 No 79 >1ui5_A A-factor receptor homolog; helix-turn-helix, alpha-helix-bundle, antibiotic; 2.40A {Streptomyces coelicolor A3} SCOP: a.4.1.9 a.121.1.1 PDB: 1ui6_A Probab=92.34 E-value=0.18 Score=28.25 Aligned_cols=64 Identities=19% Similarity=0.149 Sum_probs=41.6 Q ss_pred CCCCCCCCCCCCHHHHHHHHHH--HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9698888886898999999999--9999999998399499999986342999988755899944899999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIF--VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~--g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) |||+.+...+- ..++ +..+-..+--.+.|..++|+.+|||++++.++..+|...-...+..+.+ T Consensus 1 m~r~~r~~~tr-------~~Il~aa~~l~~~~G~~~~s~~~Ia~~agvs~~tiY~~F~~K~~L~~~~~~~~~~ 66 (215) T 1ui5_A 1 MARQLRAEQTR-------ATIIGAAADLFDRRGYESTTLSEIVAHAGVTKGALYFHFAAKEDLAHAILEIQSR 66 (215) T ss_dssp ----CCTTTHH-------HHHHHHHHHHHHHHCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred CCCCCCHHHHH-------HHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCHHHHHCCCHHHHHHHHHHHHHH T ss_conf 98985199999-------9999999999998591518799999986878211876169999999999999999 No 80 >3mvp_A TETR/ACRR transcriptional regulator; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 1.85A {Streptococcus mutans} Probab=92.20 E-value=0.44 Score=26.00 Aligned_cols=71 Identities=13% Similarity=0.097 Sum_probs=42.9 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9698888886898999999999999999999--8399499999986342999988755899944899999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNIRK--EAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~R~--~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) |+.++...|.-.........++-.-+.-+.+ -.+.|..++|+.+|||.+++..+..++...-...+..+.+ T Consensus 11 m~~~~~r~p~~~r~~~tr~~Il~aA~~l~~~~G~~~~t~~~IA~~agvs~~tiY~yF~sK~~L~~~~~~~~~~ 83 (217) T 3mvp_A 11 MAEKNIRKPKQERSIEKRNKILQVAKDLFSDKTYFNVTTNEIAKKADVSVGTLYAYFASKEDILTALLKRYND 83 (217) T ss_dssp ---CCSSCCSSCHHHHHHHHHHHHHHHHHHHHCGGGCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 6656788981212999999999999999987193427899999988909889999889999999999999999 No 81 >1zs4_A Regulatory protein CII; helix-turn-helix, transcription activator, transcription/DNA complex; HET: DNA; 1.70A {Enterobacteria phage lambda} SCOP: a.35.1.9 Probab=92.06 E-value=0.089 Score=30.08 Aligned_cols=41 Identities=22% Similarity=0.230 Sum_probs=31.9 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCH Q ss_conf 399499999986342999988755899944899999999928999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPL 77 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~ 77 (83) .-.+|..+|+.+|++.|+||++.+|. +..+.++..+|+..+ T Consensus 23 a~~Gq~~vA~~~Gv~eStISRwK~~~----~~k~a~lLA~Le~~v 63 (83) T 1zs4_A 23 AMLGTEKTAEAVGVDKSQISRWKRDW----IPKFSMLLAVLEWGV 63 (83) T ss_dssp HHHCHHHHHHHHTSCHHHHHHHHHHT----HHHHHHHHHHHTTCC T ss_pred HHHCCHHHHHHHCCCHHHHHHHCCCH----HHHHHHHHHHHCCCC T ss_conf 98552999999699899987301347----999999999973799 No 82 >3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex, helix-turn-helix (HTH), DNA-binding, homeobox, nucleus, transcription regulation; 2.51A {Homo sapiens} Probab=91.85 E-value=0.69 Score=24.81 Aligned_cols=52 Identities=27% Similarity=0.217 Sum_probs=40.5 Q ss_pred HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH------HHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 9999999999999999839949999998634------29999887558999448999999 Q gi|254781147|r 16 LRERMIFVNNFRNIRKEAKLTQKEIRNRTGF------AQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 16 ~~~~~~~g~~ir~~R~~~gltq~ela~~~gi------s~~~is~iE~G~~~~~~~~l~~l 69 (83) +.+-+.|+..++..|...|+||.+++..+|. ++++++..|+-.. +.....++ T Consensus 3 l~ele~f~~~fk~rRi~Lg~SQ~~V~~al~~~~~~~~sq~~i~~fe~~~l--s~kn~~kl 60 (151) T 3d1n_I 3 MEEIREFAKNFKIRRLSLGLTQTQVGQAMTATEGPAYSQSAISRFEKLDI--TPKSAQKL 60 (151) T ss_dssp HHHHHHHHHHHHHHHHTTTCCHHHHHHHHSCSSSCCCCHHHHHHHHTTCS--CHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCHHHHHHC--CHHHHHHH T ss_conf 99999999999987777178786699998664676566021468999765--76259881 No 83 >2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure, structural genomics, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: a.4.1.19 Probab=91.79 E-value=0.15 Score=28.67 Aligned_cols=27 Identities=11% Similarity=0.144 Sum_probs=23.1 Q ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 999839949999998634299998875 Q gi|254781147|r 29 IRKEAKLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 29 ~R~~~gltq~ela~~~gis~~~is~iE 55 (83) .+...|.|..++|+..|||.++|++|- T Consensus 18 ~~~~~g~s~~~vA~~~GIs~~tl~~W~ 44 (97) T 2jn6_A 18 YENSDGASLQQIANDLGINRVTLKNWI 44 (97) T ss_dssp HTTGGGSCHHHHHHHHTSCHHHHHHHH T ss_pred HHHCCCCCHHHHHHHHCCCCCCCCHHH T ss_conf 998499859999999789957446899 No 84 >2o0m_A Transcriptional regulator, SORC family; structural genomics, PSI-2, protein structure initiative; 1.60A {Enterococcus faecalis V583} SCOP: c.124.1.8 Probab=91.63 E-value=0.065 Score=30.89 Aligned_cols=38 Identities=11% Similarity=0.134 Sum_probs=30.5 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH-----HCCCCCCCH Q ss_conf 99999983994999999863429999887-----558999448 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL-----ETGKSTINI 63 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i-----E~G~~~~~~ 63 (83) ++.+-...|+||.++|+++|+|+++++++ |.|-..+++ T Consensus 26 l~~lyy~~~~~q~~IA~~lg~Sr~~V~r~l~~ar~~GiV~i~~ 68 (345) T 2o0m_A 26 LRNIYWMQPIGRRSLSETMGITERVLRTETDVLKQLNLIEPSK 68 (345) T ss_dssp ------------------------------------------- T ss_pred HHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC T ss_conf 9999884897999999884997759999999999879779964 No 85 >3kz9_A SMCR; transcriptional regulator, quorum S DNA-binding, transcription regulation, transcription regula; HET: MSE; 2.10A {Vibrio vulnificus} PDB: 2pbx_A Probab=91.43 E-value=0.29 Score=27.09 Aligned_cols=54 Identities=2% Similarity=0.008 Sum_probs=35.7 Q ss_pred HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9999999999998--39949999998634299998875589994489999999992 Q gi|254781147|r 20 MIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 20 ~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) .++..-+.-+.+. .+.|..++|+.+|||++++..+...+..+-...+..+.+.+ T Consensus 21 ~Il~aA~~l~~~~G~~~~ti~~IA~~agvs~~t~Y~yF~sKe~L~~~~~~~~~~~~ 76 (206) T 3kz9_A 21 QLMEIALEVFARRGIGRGGHADIAEIAQVSVATVFNYFPTREDLVDEVLNHVVRQF 76 (206) T ss_dssp HHHHHHHHHHHHSCCSSCCHHHHHHHHTSCHHHHHHHCCSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 99999999999729441779999998790998996980999999999999889999 No 86 >3gzi_A Transcriptional regulator, TETR family; TETR family transcriptional regulator, structural genomics, center for structural genomics, JCSG; 2.05A {Shewanella loihica pv-4} Probab=91.35 E-value=0.32 Score=26.80 Aligned_cols=71 Identities=17% Similarity=0.080 Sum_probs=44.4 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 969888888689899999999999999999983---994999999863429999887558999448999999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNIRKEA---KLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~R~~~---gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) ||..+...............++ .--..+=.++ +.|..++|+.+|||.+++..+..++-..-...+..+... T Consensus 2 m~~~~~~~~R~~~~~~tr~~Il-~aA~~lf~~~G~~~~s~~~IA~~agvs~~tlY~~F~sKe~L~~~~~~~~~~~ 75 (218) T 3gzi_A 2 MAEAKSRVGRPSGDTQNRDKLI-LAARNLFIERPYAQVSIREIASLAGTDPGLIRYYFGSKEKLFSTMIHETAMP 75 (218) T ss_dssp -------CCCCCHHHHHHHHHH-HHHHHHHHTSCCSCCCHHHHHHHHTSCTHHHHHHHSSHHHHHHHHHHHHHHH T ss_pred CCCCCCCCCCCCCCHHHHHHHH-HHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 8999999999999579999999-9999999974914164999999879197688874588999999999999999 No 87 >1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation, DNA-binding, POU domain, diabetes, disease mutation, MODY3, transcription/DNA comple; 2.60A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1 Probab=90.71 E-value=0.48 Score=25.75 Aligned_cols=45 Identities=16% Similarity=0.260 Sum_probs=38.7 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHH Q ss_conf 999999999999839949999998634299998875589994489 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINID 64 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~ 64 (83) ..|+..|+..+...+++|.+++..+|+|+++|+++.+.....+.. T Consensus 29 ~~~a~~Ik~~l~~~~i~q~~~~~~~~~Sqs~is~~l~~~~~~~~~ 73 (194) T 1ic8_A 29 WRVAKMVKSYLQQHNIPQREVVDTTGLNQSHLSQHLNKGTPMKTQ 73 (194) T ss_dssp HHHHHHHHHHHHHTTCCHHHHHHHHCCCHHHHHHHHHSBCCCCHH T ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC T ss_conf 999999999999828995335656677865402245689986655 No 88 >1t56_A EThr repressor; helix-turn-helix, TETR family, dimer, transcription; 1.70A {Mycobacterium tuberculosis H37RV} SCOP: a.4.1.9 a.121.1.1 PDB: 3g1m_A* 1u9n_A* 1u9o_A* Probab=90.66 E-value=0.24 Score=27.56 Aligned_cols=51 Identities=8% Similarity=0.090 Sum_probs=34.4 Q ss_pred HHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999999--98399499999986342999988755899944899999999 Q gi|254781147|r 21 IFVNNFRNIR--KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 21 ~~g~~ir~~R--~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) ++..-+.-+. --.+.|..++|+.+|||.+++..+..++...=...+....+ T Consensus 29 Il~aA~~l~~~~G~~~~ti~~IA~~agvs~~tlY~yF~sK~~L~~~~~~~~~~ 81 (216) T 1t56_A 29 ILATAENLLEDRPLADISVDDLAKGAGISRPTFYFYFPSKEAVLLTLLDRVVN 81 (216) T ss_dssp HHHHHHHHHHHSCGGGCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 99999999997092407899999883999999957639878999999999999 No 89 >2d5v_A Hepatocyte nuclear factor 6; transcription factor, transcription/DNA complex; 2.00A {Rattus norvegicus} PDB: 1s7e_A Probab=89.87 E-value=0.38 Score=26.37 Aligned_cols=58 Identities=14% Similarity=0.050 Sum_probs=41.1 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHH-HHHHHHHHHHHHCCCC-----CCCHHHHHHHHHHHCCCH Q ss_conf 999999999999839949999998-6342999988755899-----944899999999928999 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNR-TGFAQSWISELETGKS-----TINIDNMIILAHTLDTPL 77 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~-~gis~~~is~iE~G~~-----~~~~~~l~~la~al~i~~ 77 (83) ..++.+|+...+..+++|..+|+. +|.|++++|.+-+.-. ...-..+.++..-+..+. T Consensus 7 ~~ia~~Ik~~L~~~~I~Q~~fa~~vlg~SQ~tLS~lL~~pkpw~~l~~~re~~~Rm~~w~~~~~ 70 (164) T 2d5v_A 7 KEVAQRITTELKRYSIPQAIFAQRVLCRSQGTLSDLLRNPKPWSKLKSGRETFRRMWKWLQEPE 70 (164) T ss_dssp HHHHHHHHHHHHHTTCCHHHHHHHHTSCCHHHHHHHHHSCCCGGGCSTTHHHHHHHHHHHHSCH T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHCCCCCHHHCCHHHHHHHHHHHHHCCCC T ss_conf 9999999999988799789999998457888999987189985763737699999998851560 No 90 >1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A Probab=89.70 E-value=0.27 Score=27.22 Aligned_cols=32 Identities=19% Similarity=0.140 Sum_probs=27.6 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 99999983994999999863429999887558 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G 57 (83) |-.+|--.++|++|+|+..|+|++.|+++++. T Consensus 195 Ii~~ry~~~~tl~eIA~~lgiS~~rVrqi~~~ 226 (239) T 1rp3_A 195 VIQLIFYEELPAKEVAKILETSVSRVSQLKAK 226 (239) T ss_dssp HHHHHHTSCCCHHHHHHHTTSCHHHHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 99999269999999999989599999999999 No 91 >1u8b_A ADA polyprotein; protein-DNA complex, methylation, zinc, helix-turn-helix, metal binding protein/DNA complex; 2.10A {Escherichia coli} PDB: 1zgw_A* 1wpk_A* 1adn_A 1eyf_A Probab=89.67 E-value=0.52 Score=25.56 Aligned_cols=47 Identities=9% Similarity=0.128 Sum_probs=33.2 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH Q ss_conf 99999999999998399499999986342999988755899944899 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDN 65 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~ 65 (83) ...+...+........+|.++||+.+|+|.++++++.+.....|... T Consensus 78 ~~~v~~~~~~~~~~~~~sl~~la~~~g~S~~~l~R~Fk~~~G~tp~~ 124 (133) T 1u8b_A 78 LDKITHACRLLEQETPVTLEALADQVAMSPFHLHRLFKATTGMTPKA 124 (133) T ss_dssp HHHHHHHHHHTCSSSCCCHHHHHHHHTSCHHHHHHHHHHHTSSCHHH T ss_pred HHHHHHHHHHHCCCCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCHHH T ss_conf 89999999997047999999994261989999999999998929999 No 92 >3ljl_A Transcriptional regulator LUXT; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 3.20A {Vibrio parahaemolyticus} Probab=89.55 E-value=0.26 Score=27.37 Aligned_cols=66 Identities=18% Similarity=0.166 Sum_probs=41.0 Q ss_pred CCCCCCCCCCCCHHHHHHH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 9698888886898999999-999999999999839949999998634299998875589994489999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRER-MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~-~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) ||++++... + ..+++ ..-+..+-.-+--.+.|..++|+.+||+++++..+..++...=...+..+. T Consensus 4 M~r~~~~~~---~-~tr~~Il~aa~~l~~~~G~~~~s~~~Ia~~agvs~~tlY~~F~sK~~Ll~~~~~~~~ 70 (156) T 3ljl_A 4 MPKRSKEDT---E-ITIQKIMDAVVDQLLRLGYDKMSYTTLSQQTGVSRTGISHHFPKKTDFTAALDGRIF 70 (156) T ss_dssp ----CCSHH---H-HHHHHHHHHHHHHHHHTHHHHCCHHHHHHHHTCCHHHHHHHCSSTHHHHHHHTTHHH T ss_pred CCCCCCCCH---H-HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHH T ss_conf 999985279---9-999999999999998719030779999998698886998987799999999999999 No 93 >3frq_A Repressor protein MPHR(A); macrolide antibiotic. repressor, biosensor, erythromycin, STRPTOMYCES, natural products, biosynthesis, DNA-binding; HET: ERY; 1.76A {Escherichia coli} PDB: 3g56_A Probab=89.49 E-value=0.47 Score=25.82 Aligned_cols=66 Identities=17% Similarity=0.170 Sum_probs=41.8 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9698888886898999999999999999999839949999998634299998875589994489999999992 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) |||.+... -+.++ .-+..+-.-+--.++|..++|+.+|||.+++.++..+|...-...+....+.+ T Consensus 2 M~R~~~~t---re~Il----~aa~~l~~~~G~~~~t~~~IA~~agvs~~t~Y~~F~~K~~L~~~~~~~~~~~~ 67 (195) T 3frq_A 2 MPRPKLKS---DDEVL----EAATVVLKRCGPIEFTLSGVAKEVGLSRAALIQRFTNRDTLLVRMMERGVEQV 67 (195) T ss_dssp ----CCCC---HHHHH----HHHHHHHHHHHHHHCCHHHHHHHHTCCHHHHHHHHCSHHHHHHHHHHHHHHHH T ss_pred CCCCCCCC---HHHHH----HHHHHHHHHHCCCCCCHHHHHHHHCCCCCHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 79897360---99999----99999999759130779999998789822178739599999999999999999 No 94 >3cwr_A Transcriptional regulator, TETR family; YP_425770.1, transcriptional regulator of TETR family, bacterial regulatory proteins; 1.50A {Rhodospirillum rubrum atcc 11170} Probab=89.33 E-value=0.4 Score=26.22 Aligned_cols=66 Identities=21% Similarity=0.314 Sum_probs=41.2 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 988888868989999999999999999998--3994999999863429999887558999448999999 Q gi|254781147|r 3 RRKRDEPHLSDAILRERMIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 3 ~~~~~~p~~~~~~~~~~~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) ++++..|...++..+++ ++-.-+..+.+. .+.|..++|+.+|||.+++.++...+...-...+..+ T Consensus 5 ~r~rgRp~~~~~~~R~~-Il~aA~~l~~~~G~~~~si~~IA~~agvs~~tlY~~F~sK~~L~~a~~~~~ 72 (208) T 3cwr_A 5 QRNRGRPAVPDAVVRES-IVGAAQRLLSSGGAAAMTMEGVASEAGIAKKTLYRFASGRADLIGLLVESW 72 (208) T ss_dssp ------CCCCHHHHHHH-HHHHHHHHHHHHCGGGCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHH T ss_pred CCCCCCCCCCCHHHHHH-HHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHH T ss_conf 99999999982999999-999999999986915077999999948996640358999999999999999 No 95 >1z05_A Transcriptional regulator, ROK family; structural genomics, PSI, protein structure initiative; 2.00A {Vibrio cholerae o1 biovar eltor str} SCOP: a.4.5.63 c.55.1.10 c.55.1.10 Probab=88.91 E-value=0.53 Score=25.47 Aligned_cols=33 Identities=9% Similarity=0.264 Sum_probs=30.0 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999999983994999999863429999887 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -..-++.+|....+|..|+|+.+|+|+++++++ T Consensus 41 ~~~il~~i~~~g~iSR~ela~~tgLS~~Tvs~i 73 (429) T 1z05_A 41 AGRVYKLIDQKGPISRIDLSKESELAPASITKI 73 (429) T ss_dssp HHHHHHHHHHHCSBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999999849918999998879599999999 No 96 >1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C Probab=88.81 E-value=0.25 Score=27.46 Aligned_cols=32 Identities=9% Similarity=0.053 Sum_probs=26.0 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 999999839949999998634299998875589 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGK 58 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~ 58 (83) ++.++ ..|.|..++|+..|||+++|.++-... T Consensus 14 a~~l~-~~G~s~~~iA~~~gVsr~TlYrylp~~ 45 (52) T 1jko_C 14 ISRLL-EKGHPRQQLAIIFGIGVSTLYRYFPAS 45 (52) T ss_dssp HHHHH-HTTCCHHHHHHTTSCCHHHHHHHSCTT T ss_pred HHHHH-HCCCCHHHHHHHHCCCHHHHHHHCCCH T ss_conf 99999-978989999999797999999985130 No 97 >1nr3_A MTH0916, DNA-binding protein TFX; northeast structural genomics consortium, reduced- dimensionality PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: d.236.1.1 Probab=88.57 E-value=0.011 Score=35.60 Aligned_cols=26 Identities=23% Similarity=0.238 Sum_probs=23.9 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 83994999999863429999887558 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G 57 (83) ++|+||+|.|+.+|.|++.||-||+. T Consensus 3 ~kG~tQ~eIA~~LgTSraNVs~IEk~ 28 (122) T 1nr3_A 3 ERGWSQKKIARELKTTRQNVSAIERK 28 (122) T ss_dssp CCSCSSCSTHHHHHHCCSSSCCHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 25787999999977758899999999 No 98 >3bru_A Regulatory protein, TETR family; structural genomics, APC88928, PSI-2, protein structure initiative; 2.30A {Rhodobacter sphaeroides 2} Probab=88.44 E-value=0.51 Score=25.62 Aligned_cols=52 Identities=6% Similarity=0.089 Sum_probs=36.6 Q ss_pred HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999999998--399499999986342999988755899944899999999 Q gi|254781147|r 20 MIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 20 ~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) .++-.-+..+.+. .+.|..++|+.+|+|++++..+..++...=...+..+.. T Consensus 34 ~Il~AA~~l~~~~G~~~~si~~IA~~agvs~~tiY~~F~sK~~L~~~~~~~~~~ 87 (222) T 3bru_A 34 SLIRAGLEHLTEKGYSSVGVDEILKAARVPKGSFYHYFRNKADFGLALIEAYDT 87 (222) T ss_dssp HHHHHHHHHHHHSCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 999999999998590407799999986899026988569899999999999999 No 99 >1s4k_A Putative cytoplasmic protein YDIL; structural genomics, MCSG, PSI, protein structure initiative; 1.90A {Salmonella typhimurium LT2} SCOP: a.35.1.6 Probab=88.22 E-value=0.98 Score=23.89 Aligned_cols=49 Identities=14% Similarity=0.106 Sum_probs=40.8 Q ss_pred HHHHHHHHHHCCCCHHHHHHHH-H-HHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999998399499999986-3-42999988755899944899999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRT-G-FAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~-g-is~~~is~iE~G~~~~~~~~l~~la~ 71 (83) +-.|..+|+-.-||..|-|.-+ + ++..+..++|+|...++.+.+.++.. T Consensus 5 ~~ELqalR~if~m~v~EaA~~I~~~~~s~tWQ~WE~G~~~IP~~Vi~~~~~ 55 (120) T 1s4k_A 5 ALELQALRRIFDMTIEECTIYITQDNNSATWQRWEAGDIPISPEIIARLKE 55 (120) T ss_dssp HHHHHHHHHHTTCCHHHHHHHTSSSCCHHHHHHHHHTSSCCCHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHHHH T ss_conf 899999999999539999999965776899999975897899999999999 No 100 >3on2_A Probable transcriptional regulator; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG; HET: MSE PG6; 1.96A {Rhodococcus jostii} Probab=87.72 E-value=0.19 Score=28.09 Aligned_cols=68 Identities=10% Similarity=0.019 Sum_probs=44.0 Q ss_pred CCCCCCCCCCCCHHHHHHHHHH--HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 9698888886898999999999--99999999983994999999863429999887558999448999999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIF--VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~--g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) ||..++...+. +. +++ ++ +..+-.-.--.+.|..++|+.+|+|.+++..+..++...-...+...... T Consensus 1 ~~~~~~~~~~g-~~--R~~-Il~aa~~l~~~~G~~~~t~~~IA~~agvs~~tiY~~F~sK~~L~~~~~~~~~~~ 70 (199) T 3on2_A 1 MPVAEQPYHHG-SL--RRV-LLARAESTLEKDGVDGLSLRQLAREAGVSHAAPSKHFRDRQALLDALAESGFLR 70 (199) T ss_dssp ---CCCTTCCC-CH--HHH-HHHHHHHHHHHHCGGGCCHHHHHHHTC-----CCCSSSSHHHHHHHHHHHHHHH T ss_pred CCCCCCCCCCH-HH--HHH-HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 97999999863-79--999-999999999975916165999999979098678676698678999999999999 No 101 >2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA complex, SOX; 2.05A {Mus musculus} Probab=87.15 E-value=1.6 Score=22.61 Aligned_cols=51 Identities=25% Similarity=0.382 Sum_probs=40.5 Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHH------HHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 9999999999999983994999999863------4299998875589994489999999 Q gi|254781147|r 18 ERMIFVNNFRNIRKEAKLTQKEIRNRTG------FAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 18 ~~~~~g~~ir~~R~~~gltq~ela~~~g------is~~~is~iE~G~~~~~~~~l~~la 70 (83) +-+.|+..++..|...|+||.+++..+| .|++++++.|.-. ++.....++- T Consensus 14 ele~Fa~~~r~rri~lg~tq~~vg~al~~~~g~~~Sqtti~r~e~~~--ls~kn~~kl~ 70 (164) T 2xsd_C 14 DLEQFAKQFKQRRIKLGFTQADVGLALGTLYGNVFSQTTICRFEALQ--LSFKNMCKLK 70 (164) T ss_dssp HHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHSCCCCHHHHHHHHTTC--SBHHHHHHHH T ss_pred HHHHHHHHHHHHHHHCCCCCCCHHHHHHCCCCCCCCCCCCCCHHHCC--CCHHHHHHCC T ss_conf 99999999999998717873335777542257777876565043258--9988886452 No 102 >3iwf_A Transcription regulator RPIR family; transcriptional, N-terminal, domain, PSI, MCSG, structural genomics; 1.40A {Staphylococcus epidermidis atcc 12228} Probab=86.76 E-value=0.86 Score=24.26 Aligned_cols=44 Identities=18% Similarity=0.215 Sum_probs=31.3 Q ss_pred CCCCHHHHHHHHHHHHH-HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 86898999999999999-9999998399499999986342999988755 Q gi|254781147|r 9 PHLSDAILRERMIFVNN-FRNIRKEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 9 p~~~~~~~~~~~~~g~~-ir~~R~~~gltq~ela~~~gis~~~is~iE~ 56 (83) +.+++.. + .++.. +.....-..+|..++|+.+|+|.++|.|+=+ T Consensus 13 ~~ls~se---~-~Ia~yil~~~~~i~~~si~elA~~~~VS~aTi~Rf~k 57 (107) T 3iwf_A 13 PYFTKNE---K-KIAQFILNYPHKVVNMTSQEIANQLETSSTSIIRLSK 57 (107) T ss_dssp GGSCHHH---H-HHHHHHHHCHHHHTTCCHHHHHHHHTSCHHHHHHHHH T ss_pred HHCCHHH---H-HHHHHHHHCHHHHHHCCHHHHHHHHCCCHHHHHHHHH T ss_conf 6639999---9-9999999599999776599999897989989999999 No 103 >3k2z_A LEXA repressor; winged helix-turn-helix, SOS system, autoca cleavage, DNA damage, DNA repair, DNA replication, DNA-BIND hydrolase; 1.37A {Thermotoga maritima} Probab=86.72 E-value=1.1 Score=23.70 Aligned_cols=35 Identities=14% Similarity=0.121 Sum_probs=28.0 Q ss_pred HHHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHHHH Q ss_conf 9999999999999998399--49999998634299998 Q gi|254781147|r 17 RERMIFVNNFRNIRKEAKL--TQKEIRNRTGFAQSWIS 52 (83) Q Consensus 17 ~~~~~~g~~ir~~R~~~gl--tq~ela~~~gis~~~is 52 (83) +++ .+-..|+.++++.|+ |++|+|+.+|++.++.. T Consensus 6 kq~-~il~~I~~~~~~~G~~PS~reIa~~~Giss~s~v 42 (196) T 3k2z_A 6 RQR-KVLLFIEEFIEKNGYPPSVREIARRFRITPRGAL 42 (196) T ss_dssp HHH-HHHHHHHHHHHHHSSCCCHHHHHHHHTSCHHHHH T ss_pred HHH-HHHHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHH T ss_conf 999-9999999999984989669999998299964578 No 104 >1r8d_A Transcription activator MTAN; protein-DNA complex, transcription/DNA complex; 2.70A {Bacillus subtilis} SCOP: a.6.1.3 PDB: 1jbg_A Probab=86.72 E-value=0.95 Score=23.98 Aligned_cols=47 Identities=9% Similarity=0.097 Sum_probs=31.7 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCC------------CCCCCHHHHH-----HHHHHHCCCHHHH Q ss_conf 994999999863429999887558------------9994489999-----9999928999996 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELETG------------KSTINIDNMI-----ILAHTLDTPLWKL 80 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~G------------~~~~~~~~l~-----~la~al~i~~~~l 80 (83) .+|..|+|+.+|+|.++|.-||.- .+.-+...+. ..++.+|+|+.+. T Consensus 2 ~ytI~e~A~~~gvs~~tlR~Ye~~GLl~p~~r~~~gyR~Y~~~~v~~l~~I~~lr~~G~sl~ei 65 (109) T 1r8d_A 2 KYQVKQVAEISGVSIRTLHHYDNIELLNPSALTDAGYRLYSDADLERLQQILFFKEIGFRLDEI 65 (109) T ss_dssp CBCHHHHHHHHSCCHHHHHHHHHTTSSCCSEECTTCCEEBCHHHHHHHHHHHHHHHTTCCHHHH T ss_pred CEEHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCEECCHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 5109999999896999999999858948773189998306699999999999999969999999 No 105 >1u78_A TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} SCOP: a.4.1.2 a.4.1.2 Probab=86.49 E-value=0.68 Score=24.86 Aligned_cols=28 Identities=7% Similarity=0.095 Sum_probs=23.9 Q ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 99999839949999998634299998875 Q gi|254781147|r 27 RNIRKEAKLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 27 r~~R~~~gltq~ela~~~gis~~~is~iE 55 (83) ..++ ..|+|+.++|+.+|+|.++|++|- T Consensus 16 ~~l~-~~G~s~~~IAk~lg~s~stV~r~l 43 (141) T 1u78_A 16 DVMK-LLNVSLHEMSRKISRSRHCIRVYL 43 (141) T ss_dssp HHHH-HTTCCHHHHHHHHTCCHHHHHHHH T ss_pred HHHH-HCCCCHHHHHHHHCCCHHHHHHHH T ss_conf 9999-979999999999895789999999 No 106 >1z6r_A MLC protein; transcriptional repressor, ROK family protein, DNA binding protein, helix-turn-helix, phosphotransferase system, metalloprotein; 2.70A {Escherichia coli} SCOP: a.4.5.63 c.55.1.10 c.55.1.10 PDB: 3bp8_A Probab=86.41 E-value=0.44 Score=25.98 Aligned_cols=33 Identities=12% Similarity=0.186 Sum_probs=29.6 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999999983994999999863429999887 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -+.-++.+|+...+|..|+|+.+|+|+++++++ T Consensus 18 ~~~Il~~i~~~g~iSR~ela~~~gls~~Tvs~i 50 (406) T 1z6r_A 18 AGAVYRLIDQLGPVSRIDLSRLAQLAPASITKI 50 (406) T ss_dssp HHHHHHHHHSSCSCCHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999999859918999998879599999999 No 107 >1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H Probab=86.33 E-value=0.59 Score=25.23 Aligned_cols=32 Identities=22% Similarity=0.306 Sum_probs=26.1 Q ss_pred HHHHHH----HCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 999999----83994999999863429999887558 Q gi|254781147|r 26 FRNIRK----EAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 26 ir~~R~----~~gltq~ela~~~gis~~~is~iE~G 57 (83) |-.+|- ...+|+.|+|+.+|||+..+++||+. T Consensus 18 Ii~~ryGl~~~~~~tl~eIa~~lgiS~erVrqi~~~ 53 (73) T 1ku3_A 18 VLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENK 53 (73) T ss_dssp HHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHH T ss_pred HHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 999981899999878999999989699999999999 No 108 >1e3o_C Octamer-binding transcription factor 1; transcription factor, POU domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A 1oct_C* 1pou_A 1pog_A 1hdp_A Probab=86.26 E-value=1.8 Score=22.33 Aligned_cols=43 Identities=26% Similarity=0.271 Sum_probs=36.6 Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHHH------HHHHHHHHHCCCC Q ss_conf 999999999999999839949999998634------2999988755899 Q gi|254781147|r 17 RERMIFVNNFRNIRKEAKLTQKEIRNRTGF------AQSWISELETGKS 59 (83) Q Consensus 17 ~~~~~~g~~ir~~R~~~gltq~ela~~~gi------s~~~is~iE~G~~ 59 (83) .+-+.|+..++..|...|+||.+++..++. |+++++..|.... T Consensus 7 ~ele~f~~~fk~rRi~l~~tQ~~v~~al~~~~~~~~sq~~~~~~e~~~l 55 (160) T 1e3o_C 7 EELEQFAKTFKQRRIKLGFTQGDVGLAMGKLYGNDFSQTTISRFEALNL 55 (160) T ss_dssp HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHSCCCCHHHHHHHHHTCS T ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHCCC T ss_conf 9999999999998850376586999999830378777577727875334 No 109 >2dg7_A Putative transcriptional regulator; helix-turn-helix motif, TETR family, gene regulation; 2.30A {Streptomyces coelicolor A3} Probab=86.14 E-value=1.1 Score=23.67 Aligned_cols=40 Identities=13% Similarity=0.105 Sum_probs=30.4 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 9999999998399499999986342999988755899944 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTIN 62 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~ 62 (83) +..+-..+--.+.|..++|+.+|||++++..+..++...- T Consensus 16 A~~l~~~~G~~~~tl~~IA~~agvs~~t~Y~~F~sKe~L~ 55 (195) T 2dg7_A 16 ALELYSEHGYDNVTVTDIAERAGLTRRSYFRYFPDKREVL 55 (195) T ss_dssp HHHHHHHSCGGGCCHHHHHHHTTCCHHHHHHHCSSTTGGG T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHH T ss_conf 9999998590406699999997909889977779999999 No 110 >3cjd_A Transcriptional regulator, TETR family; YP_510936.1, putative TETR transcriptional regulator, structural genomics; HET: STE; 1.79A {Jannaschia SP} Probab=86.13 E-value=1 Score=23.85 Aligned_cols=49 Identities=10% Similarity=-0.031 Sum_probs=34.0 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) +..+-.-+--.+.|..++|+.+|+|.+++..+..++...-...+....+ T Consensus 21 A~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~ 69 (198) T 3cjd_A 21 AEAQIEAEGLASLRARELARQADCAVGAIYTHFQDLNALTLEVNGRTFA 69 (198) T ss_dssp HHHHHHHHCGGGCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCCCHHHHCCCCHHHHHHHHHHHHHH T ss_conf 9999997093405799999982889321023079778899999999999 No 111 >2gfn_A HTH-type transcriptional regulator PKSA related protein; transcriptional regulator TETR, PSI-2, regulatory protein, structural genomics; 1.90A {Rhodococcus SP} SCOP: a.4.1.9 a.121.1.1 Probab=86.07 E-value=0.88 Score=24.19 Aligned_cols=50 Identities=6% Similarity=0.113 Sum_probs=35.0 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 99999999983994999999863429999887558999448999999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) +..+-.-+--.+.|..++|+.+|+|++++..+..++...-...+...... T Consensus 18 a~~l~~~~G~~~~t~~~Ia~~agvs~~t~Y~~F~~K~~L~~~v~~~~~~~ 67 (209) T 2gfn_A 18 VLALIAREGISAVTTRAVAEESGWSTGVLNHYFGSRHELLLAALRRAGDI 67 (209) T ss_dssp HHHHHHHHCGGGCCHHHHHHHHSSCHHHHHHHTSSHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 99999972913076999999979099999743489999999999999999 No 112 >2p7v_B Sigma-70, RNA polymerase sigma factor RPOD; RSD, regulator of sigma 70, sigma 70 domain 4, transcription, regulation, helix-turn-helix; 2.60A {Escherichia coli} SCOP: a.4.13.2 Probab=85.97 E-value=0.5 Score=25.66 Aligned_cols=26 Identities=15% Similarity=0.286 Sum_probs=23.3 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 83994999999863429999887558 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G 57 (83) ...+|++|+|+.+|||+..+++||+- T Consensus 23 ~~~~tl~eia~~lgvS~erVrqie~~ 48 (68) T 2p7v_B 23 NTDYTLEEVGKQFDVTRERIRQIEAK 48 (68) T ss_dssp SSCCCHHHHHHHHTCCHHHHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 99778999999989699999999999 No 113 >2r0q_C Putative transposon TN552 DNA-invertase BIN3; site-specific recombinase, resolvase, DNA-binding protein, protein-DNA complex, DNA integration, DNA invertase, DNA recombination; 3.20A {Staphylococcus aureus} Probab=85.96 E-value=1.4 Score=22.91 Aligned_cols=36 Identities=6% Similarity=0.119 Sum_probs=27.7 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 9999999999839949999998634299998875589 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGK 58 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~ 58 (83) +-..|..++ ..|+|..++|+.+|||++++.+|-+-. T Consensus 164 ~v~~I~~l~-~~G~s~~~IA~~l~is~~Tv~R~l~~~ 199 (209) T 2r0q_C 164 IYHRVVEML-EEGQAISKIAKEVNITRQTVYRIKHDN 199 (209) T ss_dssp HHHHHHHHH-HTTCCHHHHHHHHTCCHHHHHHHHTTC T ss_pred HHHHHHHHH-HCCCCHHHHHHHHCCCHHHHHHHHHHC T ss_conf 999999999-875999999999896999999999977 No 114 >2wui_A MEXZ, transcriptional regulator; gene regulation, transcription regulation, TETR, DNA-binding transcription; 2.90A {Pseudomonas aeruginosa} Probab=85.91 E-value=0.17 Score=28.42 Aligned_cols=66 Identities=11% Similarity=0.101 Sum_probs=40.3 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 96988888868989999999999999999998--399499999986342999988755899944899999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) |+|+.+... +. ....++..-++.+.+. .+.|..++|+.+|||++++..+..++...=...+....+ T Consensus 1 MaR~~~~~~---~~--tr~~Il~aA~~l~~~~G~~~~si~~Ia~~agvs~~tiY~~F~sK~~L~~~v~~~~~~ 68 (210) T 2wui_A 1 MARKTKEES---QK--TRDGILDAAERVFLEKGVGTTAMADLADAAGVSRGAVYGHYKNKIEVCLAMCDRAFG 68 (210) T ss_dssp --------C---TH--HHHHHHHHHHHHHHHSCTTTCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHHT T ss_pred CCCCCCCCH---HH--HHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH T ss_conf 959971059---99--999999999999997591617599999987879774444789999999999999999 No 115 >1vz0_A PARB, chromosome partitioning protein PARB; nuclear protein, chromosome segregation, DNA-binding, helix-turn-helix; 2.3A {Thermus thermophilus} SCOP: a.4.14.1 d.268.1.1 Probab=85.76 E-value=0.61 Score=25.11 Aligned_cols=32 Identities=28% Similarity=0.343 Sum_probs=25.5 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 999999998399499999986342999988755 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~iE~ 56 (83) ..++. ..+.|+|++++|+++|+|.++|+++-. T Consensus 125 ~~~~~-l~~~g~t~~~iA~~lg~s~~~V~~~l~ 156 (230) T 1vz0_A 125 RGYQA-LLEMGLTQEEVARRVGKARSTVANALR 156 (230) T ss_dssp HHHHH-HHHTTCCHHHHHHHHTCCHHHHHHHHH T ss_pred HHHHH-HHHHCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 99999-988418999999880999999999998 No 116 >2ibd_A Possible transcriptional regulator; probable transcriptional regulatory protein, rhodococcus SP. RHA1, structural genomics, PSI-2; 1.50A {Rhodococcus SP} Probab=85.68 E-value=0.75 Score=24.59 Aligned_cols=54 Identities=9% Similarity=0.033 Sum_probs=37.7 Q ss_pred HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9999999999998--39949999998634299998875589994489999999992 Q gi|254781147|r 20 MIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 20 ~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) .++-.-+.-+... .+.|..++|+.+|||++++..+...+...-...+..+.+.+ T Consensus 18 ~Il~aa~~l~~~~G~~~~t~~~Ia~~agvs~~t~Y~~F~~K~~L~~~~~~~~~~~~ 73 (204) T 2ibd_A 18 ELLDIAATLFAERGLRATTVRDIADAAGILSGSLYHHFDSKESMVDEILRGFLDDL 73 (204) T ss_dssp HHHHHHHHHHHHHCSTTCCHHHHHHHTTSCHHHHHHHCSCHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 99999999999749240779999998688926599982999999999999999999 No 117 >2np5_A Transcriptional regulator; TETR family, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; HET: MSE LMT NDS; 1.80A {Rhodococcus SP} SCOP: a.4.1.9 a.121.1.1 Probab=85.44 E-value=1.2 Score=23.31 Aligned_cols=54 Identities=13% Similarity=0.078 Sum_probs=38.1 Q ss_pred HHHHHHHHH--HHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHC Q ss_conf 999999999--998399499999986342999988755899944899999999928 Q gi|254781147|r 21 IFVNNFRNI--RKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLD 74 (83) Q Consensus 21 ~~g~~ir~~--R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~ 74 (83) ++..-++-+ .--.+.|..++|+.+|||.+++.++..++...-...+..+.+.+. T Consensus 14 Il~aa~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~ 69 (203) T 2np5_A 14 LAAALFDVAAESGLEGASVREVAKRAGVSIGAVQHHFSTKDEMFAFALRTLVDKLL 69 (203) T ss_dssp HHHHHHHHHHHHCGGGCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHHH T ss_conf 99999999997290307799999997909887701069999999999999888899 No 118 >3b81_A Transcriptional regulator, ACRR family; NP_350189.1, predicted DNA-binding transcriptional regulator of TETR/ACRR family; 2.10A {Clostridium acetobutylicum atcc 824} Probab=85.21 E-value=0.55 Score=25.40 Aligned_cols=65 Identities=11% Similarity=0.014 Sum_probs=38.9 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 96988888868989999999999999999998--399499999986342999988755899944899999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) |||..++.. . +...++-.-+.-+.+. .+.|..++|+.+|||++++.++...+...-...+..+.+ T Consensus 2 M~r~~~~~~----~--~r~~Il~aa~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~yF~sK~~Ll~~~~~~~~~ 68 (203) T 3b81_A 2 MSRTNINFN----N--KRTELANKIWDIFIANGYENTTLAFIINKLGISKGALYHYFSSKEECADAAIENRVA 68 (203) T ss_dssp -----CCHH----H--HHHHHHHHHHHHHHHHCSTTCCHHHHHHHHTCCHHHHHTTCSSHHHHHHHHHHHHHH T ss_pred CCCCCCCHH----H--HHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 899999889----9--999999999999997292417799999997909999976469999999999999999 No 119 >2hyt_A TETR-family transcriptional regulator; structural genomics, center for structural genomics, JCSG, protein structure INI PSI-2; HET: MSE; 1.64A {Pectobacterium atrosepticum} Probab=85.17 E-value=0.23 Score=27.61 Aligned_cols=50 Identities=6% Similarity=0.003 Sum_probs=35.1 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 99999999983994999999863429999887558999448999999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) +..+-.-+--.+.|..++|+.+|||++++..+...+...=...+..+... T Consensus 21 a~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~yF~sKe~L~~a~~~~~~~~ 70 (197) T 2hyt_A 21 ARKVFSERGYADTSMDDLTAQASLTRGALYHHFGDKKGLLAAVVEQIDAE 70 (197) T ss_dssp HHHHHHHHCTTTCCHHHHHHHHTCCTTHHHHHHSSHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCCCHHHHCCCCHHHHHHHHHHHHHHH T ss_conf 99999986915187999999838592406550899999999999999999 No 120 >2xdn_A HTH-type transcriptional regulator TTGR; transcription regulation, TETR family; 2.20A {Pseudomonas putida} PDB: 2uxu_A* 2uxi_A* 2uxo_A* 2uxp_A* 2uxh_A* Probab=85.02 E-value=0.94 Score=24.03 Aligned_cols=50 Identities=22% Similarity=0.117 Sum_probs=34.7 Q ss_pred HHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 999999999998--39949999998634299998875589994489999999 Q gi|254781147|r 21 IFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 21 ~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) ++-.-++-+.+. .+.|..++|+.+|||.+++..+..++...-...+..+. T Consensus 16 Il~aa~~l~~~~G~~~~s~~~Ia~~agvs~~tiY~~F~~K~~L~~a~~~~~~ 67 (210) T 2xdn_A 16 IIEAAERAFYKRGVARTTLADIAELAGVTRGAIYWHFNNKAELVQALLDSLA 67 (210) T ss_dssp HHHHHHHHHHHHCSTTCCHHHHHHHHTCCTTHHHHHCSSHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHH T ss_conf 9999999999759140779999999792988998886999999998899999 No 121 >3f1b_A TETR-like transcriptional regulator; APC5888, rhodococcus SP. RHA1, structural genomics, PSI-2, protein structure initiative; 2.40A {Rhodococcus SP} Probab=84.76 E-value=1.7 Score=22.49 Aligned_cols=55 Identities=4% Similarity=0.005 Sum_probs=38.7 Q ss_pred HHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 99999999999998--39949999998634299998875589994489999999992 Q gi|254781147|r 19 RMIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 19 ~~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) ..++..-++-+.++ .+.|..++|+.+|||++++.++..++...-...+..+.+.+ T Consensus 17 ~~Il~aa~~l~~~~G~~~~s~~~IA~~agvs~~t~Y~~F~~K~~Ll~~~~~~~~~~~ 73 (203) T 3f1b_A 17 QQMLDAAVDVFSDRGFHETSMDAIAAKAEISKPMLYLYYGSKDELFAACIQREGLRF 73 (203) T ss_dssp HHHHHHHHHHHHHHCTTTCCHHHHHHHTTSCHHHHHHHCCSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 999999999999739352879999999890988887881998999999999999999 No 122 >3c2b_A Transcriptional regulator, TETR family; structural genomics, APC5923, PSI-2, protein structure initiative; 2.10A {Agrobacterium tumefaciens str} Probab=84.71 E-value=0.95 Score=23.99 Aligned_cols=68 Identities=7% Similarity=0.036 Sum_probs=42.7 Q ss_pred CCCCCCCCCCCCHHHHHHHHHH--HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9698888886898999999999--9999999998399499999986342999988755899944899999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIF--VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~--g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) |+..+...+..++. ...++ +..+-.-+--.+.|..++|+.+|||.+++.++..+|...-...+....+ T Consensus 3 ~~~~~~~~~~~~~r---r~~Il~aA~~lf~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~~Ke~L~~a~~~~~~~ 72 (221) T 3c2b_A 3 MASDPITTQEFSPR---QNAVLDQALRLLVEGGEKALTTSGLARAANCSKESLYKWFGDRDGLLAAMITFQQS 72 (221) T ss_dssp -----------CHH---HHHHHHHHHHHHHHHCGGGCCHHHHHHHHTCCHHHHHHHHSSHHHHHHHHHHHHHT T ss_pred CCCCCCCCCCCHHH---HHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 99999987665199---99999999999997591307799999997949889998879999999999999999 No 123 >2dg8_A Putative TETR-family transcriptional regulatory protein; helix-turn-helix motif, gene regulation; 2.21A {Streptomyces coelicolor A3} Probab=84.52 E-value=1 Score=23.76 Aligned_cols=65 Identities=14% Similarity=0.164 Sum_probs=41.8 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHH--HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 9698888886898999999999999--99999983994999999863429999887558999448999999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNN--FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~--ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) |++.+.++.. ...++..- +-.-.--.+.|..++|+.+|||++++.++..++...-...+....+. T Consensus 1 M~t~~~~~~~-------R~~Il~aA~~l~~e~G~~~~si~~Ia~~agvs~~t~Y~~F~sKe~Ll~~v~~~~~~~ 67 (193) T 2dg8_A 1 MATGHTDPQR-------RERILAATLDLIAEEGIARVSHRRIAQRAGVPLGSMTYHFTGIEQLLREAFGRFTDH 67 (193) T ss_dssp ------CTTH-------HHHHHHHHHHHHHHHCGGGCCHHHHHHHHTSCTHHHHHHCSSHHHHHHHHHHHHHHH T ss_pred CCCCCCCHHH-------HHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 9789998799-------999999999999975904076999999989099999878089999999999999999 No 124 >1x2l_A CUT-like 2, homeobox protein CUX-2; CUT domain, human homeobox protein CUX-2, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.35.1.7 Probab=84.23 E-value=1.3 Score=23.15 Aligned_cols=58 Identities=12% Similarity=0.136 Sum_probs=45.3 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHH-HHHHHHHHHHHCCCCCC---C---HHHHHHHHHHHCCC Q ss_conf 99999999999998399499999986-34299998875589994---4---89999999992899 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRT-GFAQSWISELETGKSTI---N---IDNMIILAHTLDTP 76 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~-gis~~~is~iE~G~~~~---~---~~~l~~la~al~i~ 76 (83) -..++.+|+...+..+++|+-+|+.+ |.|+.++|.+-+.-... + -++..++-.-|+-| T Consensus 19 T~~I~~~v~~eL~~~~I~Q~~Fa~~VL~rsQGtlSdLL~~PKPW~kl~~~gR~~y~RM~~wL~~p 83 (101) T 1x2l_A 19 TAEIAFQVKEQLLKHNIGQRVFGHYVLGLSQGSVSEILARPKPWRKLTVKGKEPFIKMKQFLSDE 83 (101) T ss_dssp HHHHHHHHHHHHHHTTCCHHHHHHHTTCSCHHHHHHHHHCCCCGGGCCHHHHHHHHHHHHHHTCT T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCH T ss_conf 99999999999999498599999999810858899998389992776688889999999985476 No 125 >2gau_A Transcriptional regulator, CRP/FNR family; structural genomics, PSI; 1.90A {Porphyromonas gingivalis W83} SCOP: a.4.5.4 b.82.3.2 Probab=83.94 E-value=0.66 Score=24.94 Aligned_cols=40 Identities=15% Similarity=0.173 Sum_probs=30.4 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH-----HCC-------C-CCCCHHHHHHHHHH Q ss_conf 3994999999863429999887-----558-------9-99448999999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL-----ETG-------K-STINIDNMIILAHT 72 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i-----E~G-------~-~~~~~~~l~~la~a 72 (83) ..+||+++|..+|+|+.+++++ +.| + ...+.+.|.++|++ T Consensus 179 ~~~t~~~lA~~~G~sr~tvsr~l~~l~~~g~I~~~~~~i~I~d~~~L~~~a~~ 231 (232) T 2gau_A 179 IYLSREELATLSNMTVSNAIRTLSTFVSERMLALDGKRIKIIDCDRLQKTARS 231 (232) T ss_dssp CCCCHHHHHHHTTSCHHHHHHHHHHHHHTTSEEEETTEEEESCHHHHHHHHHH T ss_pred CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEEECCHHHHHHHHHC T ss_conf 45059999988798999999999999988979970999998689999999856 No 126 >1vi0_A Transcriptional regulator; structural genomics; HET: MSE DCC; 1.65A {Bacillus subtilis} SCOP: a.4.1.9 a.121.1.1 Probab=83.45 E-value=1.2 Score=23.39 Aligned_cols=52 Identities=17% Similarity=0.068 Sum_probs=35.2 Q ss_pred HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999999998--399499999986342999988755899944899999999 Q gi|254781147|r 20 MIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 20 ~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) .++..-+.-+.+. .+.|.+++|+.+|||++++..+...+...=...+..+.+ T Consensus 12 ~Il~aa~~lf~~~G~~~~s~~~Ia~~agvs~~t~Y~~F~sKe~L~~~~~~~~~~ 65 (206) T 1vi0_A 12 QIIDAAVEVIAENGYHQSQVSKIAKQAGVADGTIYLYFKNKEDILISLFKEKMG 65 (206) T ss_dssp HHHHHHHHHHHHHCGGGCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHCCHHHHHHHHHHHHHH T ss_conf 999999999987390306799999997949999999918728999999998877 No 127 >3knw_A Putative transcriptional regulator (TETR/ACRR family); TETR-like protein, MCSG, PSI, structural genomics, protein structure initiative; 2.45A {Acinetobacter SP} Probab=83.33 E-value=1.1 Score=23.61 Aligned_cols=54 Identities=9% Similarity=0.025 Sum_probs=37.5 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHH Q ss_conf 999999839949999998634299998875589994489999999992899999 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWK 79 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~ 79 (83) +-...--.+.|..++|+.+|||.+++..+..++...=...+..+...+.-.+.+ T Consensus 26 l~~~~G~~~~s~~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~ 79 (212) T 3knw_A 26 LVLRKGFVGVGLQEILKTSGVPKGSFYHYFESKEAFGCELLKHYISDYQIRLNQ 79 (212) T ss_dssp HHHHHCSTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999719463879999999790999998883789999999999999999999999 No 128 >2vz4_A Tipal, HTH-type transcriptional activator TIPA; transcription, resistance, antibiotic; 2.90A {Streptomyces lividans} Probab=83.24 E-value=1.6 Score=22.64 Aligned_cols=46 Identities=11% Similarity=0.148 Sum_probs=27.8 Q ss_pred CCHHHHHHHHHHHHHHHHHHHCC------------CCCCCHHH-----HHHHHHHHCCCHHHH Q ss_conf 94999999863429999887558------------99944899-----999999928999996 Q gi|254781147|r 35 LTQKEIRNRTGFAQSWISELETG------------KSTINIDN-----MIILAHTLDTPLWKL 80 (83) Q Consensus 35 ltq~ela~~~gis~~~is~iE~G------------~~~~~~~~-----l~~la~al~i~~~~l 80 (83) +|..|+|+.+|+|.++|.-||.- .+.-+... ..+.++.+|+++.+. T Consensus 2 ytI~e~a~~~gvs~~tLR~Ye~~GLl~p~~r~~~gyR~Y~~~~~~~l~~I~~lr~~G~sl~eI 64 (108) T 2vz4_A 2 YSVGQVAGFAGVTVRTLHHYDDIGLLVPSERSHAGHRRYSDADLDRLQQILFYRELGFPLDEV 64 (108) T ss_dssp BCHHHHHHHHTCCHHHHHHHHHHTSSCCSEECSSCCEEBCHHHHHHHHHHHHHHHTTCCHHHH T ss_pred CCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCEEECHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 508999999895999999983258999872089984247879899999999999969999999 No 129 >1umq_A Photosynthetic apparatus regulatory protein; DNA-binding protein, response regulator, DNA binding domain, helix-turn-helix; NMR {Rhodobacter sphaeroides} SCOP: a.4.1.12 Probab=83.06 E-value=1.1 Score=23.58 Aligned_cols=33 Identities=9% Similarity=0.104 Sum_probs=28.5 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999839949999998634299998875 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE 55 (83) -..|...-.+.++.+.+.|+.+|||++++.+.- T Consensus 43 r~~I~~aL~~~~GN~s~AAr~LGIsR~TLyrkl 75 (81) T 1umq_A 43 WEHIQRIYEMCDRNVSETARRLNMHRRTLQRIL 75 (81) T ss_dssp HHHHHHHHHHTTSCHHHHHHHHTSCHHHHHHHH T ss_pred HHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHH T ss_conf 999999999972779999999798999999999 No 130 >3bjb_A Probable transcriptional regulator, TETR family protein; APC7331, rhodococcus SP. RHA1, structural genomics, PSI-2, protein structure initiative; 2.50A {Rhodococcus SP} Probab=83.01 E-value=1.4 Score=22.94 Aligned_cols=63 Identities=13% Similarity=0.171 Sum_probs=39.3 Q ss_pred CHHHHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHC Q ss_conf 989999999999999999998--399499999986342999988755899944899999999928 Q gi|254781147|r 12 SDAILRERMIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLD 74 (83) Q Consensus 12 ~~~~~~~~~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~ 74 (83) .+...+...++..-+.-+... .+.|..++|+.+|||++++..+..++...-...+....+.+. T Consensus 18 ~~~~~~r~~Il~aA~~l~~~~G~~~~t~~~IA~~agvs~~t~Y~~F~sK~~Ll~~~~~~~~~~~~ 82 (207) T 3bjb_A 18 EEQRARHVRMLEAAIELATEKELARVQMHEVAKRAGVAIGTLYRYFPSKTHLFVAVMVDQIDRMG 82 (207) T ss_dssp CHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHTTCC T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHCCCCHHHHHHHHHHHHHHHHH T ss_conf 43899999999999999997493527799999998909988613189999999999999999888 No 131 >2nx4_A Transcriptional regulator, TETR family protein; HTH DNA binding motif, structural genomics, PSI-2, protein structure initiative; 1.70A {Rhodococcus SP} Probab=82.84 E-value=1.2 Score=23.35 Aligned_cols=49 Identities=14% Similarity=0.192 Sum_probs=34.2 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9999999839949999998634299998875589994489999999992 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) .+-...--.+.|..++|+.+|+|++++..+..++...-...+..+...+ T Consensus 21 ~l~~~~G~~~~s~~~Ia~~agvs~~t~Y~~F~sK~~L~~a~~~~~~~~~ 69 (194) T 2nx4_A 21 RLIAARGIEAANMRDIATEAGYTNGALSHYFAGKDEILRTSYEHISEAT 69 (194) T ss_dssp HHHHHHCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9999759141659999998790999994306999999999999876679 No 132 >1rzs_A Antirepressor, regulatory protein CRO; helix-turn-helix, DNA-binding protein, structural evolution, transcription; NMR {Enterobacteria phage P22} SCOP: a.35.1.2 Probab=82.81 E-value=1.3 Score=23.21 Aligned_cols=36 Identities=17% Similarity=0.208 Sum_probs=28.1 Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHC Q ss_conf 499999986342999988755899944899999999928 Q gi|254781147|r 36 TQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLD 74 (83) Q Consensus 36 tq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~ 74 (83) ++..||+.+|||++.||+| |. .+......+|-++-+ T Consensus 12 ~~~~lA~~lgIs~~aVsqW--g~-~VP~~ra~~iE~~T~ 47 (61) T 1rzs_A 12 TQRAVAKALGISDAAVSQW--KE-VIPEKDAYRLEIVTA 47 (61) T ss_dssp SHHHHHHHHTCCHHHHHHC--CS-BCCHHHHHHHHHHTT T ss_pred CHHHHHHHHCCCHHHHHHC--CC-CCCHHHHHHHHHHHC T ss_conf 9999999969999999874--77-798999999999959 No 133 >1l0o_C Sigma factor; bergerat fold, helix-turn-helix, protein binding; HET: ADP; 2.90A {Geobacillus stearothermophilus} SCOP: a.4.13.2 Probab=82.74 E-value=0.2 Score=27.99 Aligned_cols=32 Identities=31% Similarity=0.355 Sum_probs=23.6 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 99999983994999999863429999887558 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G 57 (83) |-.+|.-.++|++|+|+.+|||++.|+++++- T Consensus 206 Vi~l~y~~~~t~~EIA~~lgiS~~rV~qi~~~ 237 (243) T 1l0o_C 206 IVYLRYYKDQTQSEVASRLGISQVQMSRLEKK 237 (243) T ss_dssp -------------------------------- T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 99998069998999999989499999999999 No 134 >1wiz_A DNA-binding protein SATB2; helix bundle, KIAA1034 protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: a.35.1.7 Probab=82.48 E-value=1.8 Score=22.35 Aligned_cols=59 Identities=17% Similarity=0.149 Sum_probs=46.3 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-HHHHHHHHHHHCCCCC------CCHHHHHHHHHHHCCCHHH Q ss_conf 999999999998399499999986-3429999887558999------4489999999992899999 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRT-GFAQSWISELETGKST------INIDNMIILAHTLDTPLWK 79 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~-gis~~~is~iE~G~~~------~~~~~l~~la~al~i~~~~ 79 (83) .++.+|+...+..+++|+-+|+.+ |.|+.++|.+-+.-.. ..-++..++-.-|+.|-.+ T Consensus 21 eI~~~v~~eL~~~~IsQ~~Fa~~vL~rSQGtlSdLL~~PK~pw~~~~~gre~y~RM~~wL~~pe~~ 86 (101) T 1wiz_A 21 DIYQQVRDELKRASVSQAVFARVAFNRTQGLLSEILRKEEDPRTASQSLLVNLRAMQNFLNLPEVE 86 (101) T ss_dssp THHHHHHHHHHHHTCCHHHHHHHHHSCCHHHHHHHHHTCCCTTTCCHHHHHHHHHHHHHTTSCHHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCHHHH T ss_conf 999999999999598799999999753828899999579982555135679999999998383888 No 135 >1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A Probab=82.38 E-value=2.4 Score=21.61 Aligned_cols=31 Identities=6% Similarity=0.175 Sum_probs=25.0 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999999983994999999863429999887 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -.+|..+ ...|++..++|++.|||.+++++| T Consensus 38 R~rIV~~-~~~G~s~r~IArrf~VS~stV~ki 68 (149) T 1k78_A 38 RQRIVEL-AHQGVRPCDISRQLRVSHGCVSKI 68 (149) T ss_dssp HHHHHHH-HHTTCCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHH-HHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999999-996999999999889499999999 No 136 >1wh8_A CUT-like 2, homeobox protein CUX-2; CUT domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, transcription; NMR {Homo sapiens} SCOP: a.35.1.7 Probab=82.14 E-value=1.8 Score=22.39 Aligned_cols=57 Identities=14% Similarity=0.284 Sum_probs=43.4 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHH-HHHHHHHHHHHCCCCC---CC---HHHHHHHHHHHCCC Q ss_conf 9999999999998399499999986-3429999887558999---44---89999999992899 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRT-GFAQSWISELETGKST---IN---IDNMIILAHTLDTP 76 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~-gis~~~is~iE~G~~~---~~---~~~l~~la~al~i~ 76 (83) ..++.+|+...+..+++|+-+|+.+ |.|+.++|.+-+.-.. .+ -++..++-.-|+-| T Consensus 30 ~~Ia~~v~~~L~~~~IsQ~~Fak~VL~rSQGtlSdLL~~PKPW~kl~~~gR~~y~RM~~WL~~p 93 (111) T 1wh8_A 30 YSITKRVKEVLTDNNLGQRLFGESILGLTQGSVSDLLSRPKPWHKLSLKGREPFVRMQLWLNDP 93 (111) T ss_dssp HHHHHHHHHHHHHTTCCHHHHHHHTTCCCHHHHHHHHHSCCCTTTSCHHHHHHHHHHHHHHHCT T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCH T ss_conf 9999999999998585299999999800847899998389990676688889999999981687 No 137 >2wte_A CSA3; antiviral protein, viral resistance, winged helix-turn-helix prnai nucleotide-binding domain; HET: MSE; 1.80A {Sulfolobus solfataricus} Probab=82.11 E-value=1.1 Score=23.52 Aligned_cols=32 Identities=3% Similarity=-0.044 Sum_probs=27.4 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999999983994999999863429999887 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -.-|..+....++|+.|+|+.+|+++++++++ T Consensus 155 ~~iL~~L~~~~~~s~~ela~~l~~s~~tv~r~ 186 (244) T 2wte_A 155 MKLLNVLYETKGTGITELAKMLDKSEKTLINK 186 (244) T ss_dssp HHHHHHHHHHTCBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99999999779989999999979798899999 No 138 >2w53_A Repressor, SMet; antibiotic resistance, multi-drug efflux pump, transcription regulation, transcriptional repressor, DNA binding; 2.00A {Stenotrophomonas maltophilia} Probab=82.05 E-value=1.3 Score=23.11 Aligned_cols=66 Identities=15% Similarity=0.125 Sum_probs=41.4 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 969888888689899999999999999999--98399499999986342999988755899944899999999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNIR--KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~R--~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) |.|+.+....-.- ..++..-++-+. --.+.|..++|+.+|||++++.++...+-..-...+..+.. T Consensus 1 M~r~~~~~~~~tr-----~~Il~aA~~l~~~~G~~~~t~~~Ia~~Agvs~g~lY~~F~sK~~L~~~~~~~~~~ 68 (219) T 2w53_A 1 MARKTKEDTQATR-----EGILDAAEACFHEHGVARTTLEMIGARAGYTRGAVYWHFKNKSEVLAAIVERVHL 68 (219) T ss_dssp ------CGGGCCH-----HHHHHHHHHHHHHHCTTTCCHHHHHHHHTSCHHHHHTTCSSHHHHHHHHHHHHHH T ss_pred CCCCCHHHHHHHH-----HHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH T ss_conf 9699512499999-----9999999999998592408899999984889554204789999999999999999 No 139 >3hta_A EBRA repressor; TETR family, DNA binding protein, multidrug resistance, MULT binding protein, DNA-binding, transcription; 2.30A {Streptomyces lividans} PDB: 3hth_A* 3hti_A* 3htj_A* 3iuv_A Probab=81.96 E-value=2.4 Score=21.63 Aligned_cols=53 Identities=8% Similarity=0.049 Sum_probs=36.9 Q ss_pred HHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 99999999999--839949999998634299998875589994489999999992 Q gi|254781147|r 21 IFVNNFRNIRK--EAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 21 ~~g~~ir~~R~--~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) ++-.-++-+.+ -.+.|..++|+.+|||++++..+...|...-...+..+.+.+ T Consensus 33 Il~aa~~l~~~~G~~~~t~~~IA~~aGvs~~tlY~~F~sKe~L~~a~~~~~~~~~ 87 (217) T 3hta_A 33 IIDAAIRVVGQKGIAGLSHRTVAAEADVPLGSTTYHFATLDDLMVAALRQANEGF 87 (217) T ss_dssp HHHHHHHHHHHHTGGGCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHTHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9999999999859040779999999488831487616999999999999999999 No 140 >1hlv_A CENP-B, major centromere autoantigen B; helix-turn-helix, protein-DNA complex, riken structural genomics/proteomics initiative, RSGI; 2.50A {Homo sapiens} SCOP: a.4.1.7 a.4.1.7 PDB: 1bw6_A Probab=81.50 E-value=0.95 Score=23.98 Aligned_cols=34 Identities=18% Similarity=0.265 Sum_probs=27.8 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 9999999983994999999863429999887558 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G 57 (83) .-|..+....++|+.++|+.-||++++|++|-++ T Consensus 15 ~vi~~~~~~~~~~~~~iAk~fgv~~sTi~~~~k~ 48 (131) T 1hlv_A 15 RIIQEVEENPDLRKGEIARRFNIPPSTLSTILKN 48 (131) T ss_dssp HHHHHHHHCTTSCHHHHHHHHTCCHHHHHHHHHT T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 9999999778888999999989199999999924 No 141 >3g7r_A Putative transcriptional regulator; TETR, all-helical, structural genomics, PSI-2, protein structure initiative; 1.38A {Streptomyces coelicolor A3} Probab=81.49 E-value=1.8 Score=22.32 Aligned_cols=51 Identities=6% Similarity=0.014 Sum_probs=35.6 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 999999999839949999998634299998875589994489999999992 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) +..+-...--.+.|..++|+.+|+|++++..+..++-..=...+..+.+.+ T Consensus 44 A~~l~~~~G~~~~T~~~IA~~aGvs~~tiY~yF~sKe~Ll~~v~~~~~~~~ 94 (221) T 3g7r_A 44 ATRIFYAEGIHSVGIDRITAEAQVTRATLYRHFSGKDDLILAYLDQADRGI 94 (221) T ss_dssp HHHHHHHHCSTTSCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 999999829140879999999891998999883769999999999999999 No 142 >2o3f_A Putative HTH-type transcriptional regulator YBBH; APC85504, putative transcriptional regulator YBBH; HET: MLY; 1.75A {Bacillus subtilis} SCOP: a.4.1.20 Probab=81.47 E-value=1.7 Score=22.56 Aligned_cols=53 Identities=13% Similarity=0.113 Sum_probs=34.4 Q ss_pred CCCCHHHHHHHHHHHHHH-HHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH Q ss_conf 868989999999999999-999998399499999986342999988755899944899 Q gi|254781147|r 9 PHLSDAILRERMIFVNNF-RNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDN 65 (83) Q Consensus 9 p~~~~~~~~~~~~~g~~i-r~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~ 65 (83) +.+++. ++ .++..| .....-..+|..++|+.+|+|.++|.|+=+.-.--+... T Consensus 17 ~~Lt~~---E~-~Ia~yil~n~~~v~~~si~elA~~~~vS~aTI~Rf~kklGf~gf~e 70 (111) T 2o3f_A 17 HXLPPS---ER-KLADYILAHPHXAIESTVNEISALANSSDAAVIRLCXSLGLKGFQD 70 (111) T ss_dssp GGSCHH---HH-HHHHHHHHCHHHHHTCCHHHHHHHTTCCHHHHHHHHHHTTCSSHHH T ss_pred CCCCHH---HH-HHHHHHHHCHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHCCCCHHH T ss_conf 417999---99-9999999592476437899999897989879999999927798999 No 143 >3npi_A TETR family regulatory protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI; 2.96A {Corynebacterium diphtheriae} Probab=81.43 E-value=2 Score=22.11 Aligned_cols=60 Identities=10% Similarity=0.017 Sum_probs=45.7 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 999999999983994999999863429999887558999448999999999289999960 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) -+..+-..+--.+.|..++|+.+|||.++|..+..+|...-...+......+.-.+...+ T Consensus 26 aA~~lf~~~G~~~~s~~~IA~~aGvs~~sly~~F~sK~~L~~av~~~~~~~~~~~~~~~~ 85 (251) T 3npi_A 26 IALSLFSELGFSDAKLEAIAKKSGMSKRMIHYHFGDKRGLYICCLEEAVRRLRPTAEEMY 85 (251) T ss_dssp HHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHCSHHHHHHHHHHHHHHHTSCCHHHHC T ss_pred HHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999986925288999999979496678886799999999999999999999999998 No 144 >3on4_A Transcriptional regulator, TETR family; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics; HET: MSE; 1.85A {Legionella pneumophila subsp} Probab=81.42 E-value=1.6 Score=22.70 Aligned_cols=49 Identities=8% Similarity=0.026 Sum_probs=35.6 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) +..+-..+--.+.|..++|+.+|||.+++..+..++...=...+....+ T Consensus 19 a~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~~K~~L~~~~~~~~~~ 67 (191) T 3on4_A 19 AEALIQKDGYNAFSFKDIATAINIKTASIHYHFPSKEDLGVAVISWHTD 67 (191) T ss_dssp HHHHHHHHCGGGCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHCCCCHHHHHHHHHHHHHH T ss_conf 9999997395637799999987829446876069899999988999999 No 145 >1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2 Probab=81.23 E-value=2.3 Score=21.72 Aligned_cols=43 Identities=14% Similarity=0.147 Sum_probs=32.0 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCC-----CCCCCHHHHHHHHHHHC Q ss_conf 83994999999863429999887558-----99944899999999928 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETG-----KSTINIDNMIILAHTLD 74 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G-----~~~~~~~~l~~la~al~ 74 (83) ...+|+.++|+.+|||+..+.+||+. +.......|..+.+.++ T Consensus 36 ~~~~Tl~eI~~~lgiSreRVRQie~~Al~kLr~~~~~~~L~~yl~~~~ 83 (87) T 1tty_A 36 GKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRSKYLKSLLSLMD 83 (87) T ss_dssp SSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHBTTBSSHHHHHHHHHTT T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHC T ss_conf 996579999989598899999999999999867078899999998634 No 146 >1s7o_A Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA binding protein, structural genomics; 2.31A {Streptococcus pyogenes serotype M3} SCOP: a.4.13.3 Probab=81.14 E-value=1.7 Score=22.48 Aligned_cols=30 Identities=13% Similarity=0.226 Sum_probs=26.6 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) .+-.++.-.|+|.+|+|+.+|+|.+++... T Consensus 29 ~vi~L~~~~~ls~~EIA~~lgis~~~V~~~ 58 (113) T 1s7o_A 29 NYIELYYADDYSLAEIADEFGVSRQAVYDN 58 (113) T ss_dssp HHHHHHHHTCCCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHCCCHHHHHHH T ss_conf 999999997312999999989799999999 No 147 >2oer_A Probable transcriptional regulator; helix-turn-helix, alpha-beta, structural genomics, PSI-2, protein structure initiative; 2.00A {Pseudomonas aeruginosa} Probab=81.13 E-value=1 Score=23.86 Aligned_cols=43 Identities=12% Similarity=0.053 Sum_probs=32.1 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9839949999998634299998875589994489999999992 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) --.+.|..++|+.+|||++++..+..++...=...+..+...+ T Consensus 41 G~~~~t~~~Ia~~agvs~~t~Y~~F~sK~~L~~a~~~~~~~~~ 83 (214) T 2oer_A 41 GAQRFTTARVAERAGVSIGSLYQYFPNKAAILFRLQSDEWRRT 83 (214) T ss_dssp --CCCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9451779999999890998999881999999999999999999 No 148 >2f07_A YVDT; helix-turn-helix, transcription; HET: BTB; 2.30A {Bacillus subtilis subsp} Probab=80.94 E-value=3 Score=20.99 Aligned_cols=43 Identities=16% Similarity=0.008 Sum_probs=34.1 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9839949999998634299998875589994489999999992 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) --.+.|..++|+.+|+|++++..+-..+...-...+..+.+.+ T Consensus 27 G~~~~s~~~IA~~agvs~~t~Y~~F~~K~~L~~~~~~~~~~~~ 69 (197) T 2f07_A 27 GLDKASISDIVKKAGTAQGTFYLYFSSKNALIPAIAENLLTHT 69 (197) T ss_dssp CTTTCCHHHHHHHHTSCHHHHHHHCSSSTTHHHHHHHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCCCHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9140769999998786911588864999999999999999999 No 149 >1wh6_A CUT-like 2, homeobox protein CUX-2; CUT domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, transcription; NMR {Homo sapiens} SCOP: a.35.1.7 Probab=80.90 E-value=1.8 Score=22.35 Aligned_cols=56 Identities=11% Similarity=0.213 Sum_probs=41.3 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHH-HHHHHHHHHHHCCCCC---C---CHHHHHHHHHHHC Q ss_conf 99999999999998399499999986-3429999887558999---4---4899999999928 Q gi|254781147|r 19 RMIFVNNFRNIRKEAKLTQKEIRNRT-GFAQSWISELETGKST---I---NIDNMIILAHTLD 74 (83) Q Consensus 19 ~~~~g~~ir~~R~~~gltq~ela~~~-gis~~~is~iE~G~~~---~---~~~~l~~la~al~ 74 (83) -..++.+|+...+..+++|+-+|+.+ |.|+.++|.+-+.-.. . .-++..++-.-|+ T Consensus 19 T~~I~~~v~~eL~~~~I~Q~~Fa~~VL~rSQGtlSdLL~~PKPW~kl~~~gr~~y~RM~~wL~ 81 (101) T 1wh6_A 19 TLELTRQVKEKLAKNGICQRIFGEKVLGLSQGSVSDMLSRPKPWSKLTQKGREPFIRMQLWLS 81 (101) T ss_dssp HHHHHHHHHHHHHTTTCCHHHHHHHTTCCCHHHHHHHHHSCCCTTTCCHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHC T ss_conf 999999999999994986999999998208378999984799878874864488999999965 No 150 >2gen_A Probable transcriptional regulator; APC6095, TETR family, structural genomics, PSI, protein structure initiative; 1.70A {Pseudomonas aeruginosa PAO1} SCOP: a.4.1.9 a.121.1.1 Probab=80.55 E-value=1.9 Score=22.18 Aligned_cols=46 Identities=15% Similarity=0.034 Sum_probs=32.1 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMII 68 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~ 68 (83) +..+-.-+--.+.|..++|+.+|||++++..+...+...-...+.. T Consensus 16 a~~l~~~~G~~~~t~~~Ia~~agvs~~t~y~~F~sK~~L~~~~~~~ 61 (197) T 2gen_A 16 ALACFSEHGVDATTIEMIRDRSGASIGSLYHHFGNKERIHGELYLA 61 (197) T ss_dssp HHHHHHHHCTTTCCHHHHHHHHCCCHHHHHHHTCSHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCCCHHHHCCCCHHHHHHHHHHH T ss_conf 9999997592517799999985839211345079878999999999 No 151 >3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance repressor, structura genomics, joint center for structural genomics, JCSG; 2.20A {Streptococcus suis 89} Probab=80.33 E-value=1.4 Score=22.98 Aligned_cols=30 Identities=17% Similarity=0.271 Sum_probs=26.3 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+....++|+.++|+.+++++++++++ T Consensus 36 vL~~l~~~~~~t~~~la~~l~i~~~tvs~~ 65 (142) T 3bdd_A 36 ILQTLLKDAPLHQLALQERLQIDRAAVTRH 65 (142) T ss_dssp HHHHHHHHCSBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999998779989999999989698689999 No 152 >2qtq_A Transcriptional regulator, TETR family; YP_496351.1, predicted DNA-binding transcriptional regulator; HET: MSE; 1.85A {Novosphingobium aromaticivorans DSM12444} PDB: 2rha_A* Probab=80.17 E-value=2.4 Score=21.63 Aligned_cols=52 Identities=10% Similarity=0.079 Sum_probs=35.8 Q ss_pred HHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 9999999999--983994999999863429999887558999448999999999 Q gi|254781147|r 21 IFVNNFRNIR--KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 21 ~~g~~ir~~R--~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) ++..-++-.. --.+.|..++|+.+|+|++++..+..++...=...+..+.+. T Consensus 21 Il~aA~~lf~~~G~~~~si~~Ia~~agvs~~tiy~yF~sK~~L~~~~~~~~~~~ 74 (213) T 2qtq_A 21 LLQTASNIMREGDVVDISLSELSLRSGLNSALVKYYFGNKAGLLKALLDRDMEN 74 (213) T ss_dssp HHHHHHHHHHHHTSSCCCHHHHHHHHCCCHHHHHHHHSSHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 999999999973934178999999979499999998798999999899999999 No 153 >3bni_A Putative TETR-family transcriptional regulator; structural genomics, APC7281, TETR transcriptional regulator, PSI-2; HET: PG4; 2.30A {Streptomyces coelicolor A3} Probab=79.74 E-value=2 Score=22.04 Aligned_cols=40 Identities=8% Similarity=-0.070 Sum_probs=29.8 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 9983994999999863429999887558999448999999 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) .--.+.|..++|+.+|||++++..+..++...=...+... T Consensus 59 ~G~~~~ti~~IA~~aGvS~~tlY~yF~sKe~L~~a~~~~~ 98 (229) T 3bni_A 59 VGYDALSTRAVALRADVPIGSVYRFFGNKRQMADALAQRN 98 (229) T ss_dssp HCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHH T ss_pred HCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHH T ss_conf 4901067999999959699999998699999999999999 No 154 >2hoe_A N-acetylglucosamine kinase; TM1224, structural genomics, PSI-2, protein structure initiative, joint center for structural genomics, JCSG; 2.46A {Thermotoga maritima} SCOP: a.4.5.63 c.55.1.10 c.55.1.10 Probab=79.67 E-value=1.4 Score=22.91 Aligned_cols=29 Identities=17% Similarity=0.412 Sum_probs=24.5 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -++.+|+ ..+|..|||+.+|+|+++++++ T Consensus 25 il~~l~~-gpiSR~eLa~~tgLS~~Tvs~i 53 (380) T 2hoe_A 25 ILKRIMK-SPVSRVELAEELGLTKTTVGEI 53 (380) T ss_dssp SHHHHHH-SCBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHH-CCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999980-9959999998889599999999 No 155 >2d1h_A ST1889, 109AA long hypothetical transcriptional regulator; helix-turn-helix, intermolecular and intramolecular S-S bonds; 2.05A {Sulfolobus tokodaii str} SCOP: a.4.5.50 Probab=79.59 E-value=1.6 Score=22.60 Aligned_cols=29 Identities=10% Similarity=0.178 Sum_probs=22.8 Q ss_pred HHHHH-HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999-983994999999863429999887 Q gi|254781147|r 26 FRNIR-KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R-~~~gltq~ela~~~gis~~~is~i 54 (83) +..+. ....+|+.|+|+.+|+++++++++ T Consensus 27 L~~L~~~~~~~t~~eia~~~~~~~~tvs~~ 56 (109) T 2d1h_A 27 LLKMVEIEKPITSEELADIFKLSKTTVENS 56 (109) T ss_dssp HHHHHHHCSCEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999997598989999999989788589999 No 156 >2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn- helix motif; 3.00A {Mycobacterium tuberculosis H37RV} Probab=79.41 E-value=1.7 Score=22.43 Aligned_cols=34 Identities=9% Similarity=0.026 Sum_probs=27.6 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHH-HHHCC Q ss_conf 99999999839949999998634299998-87558 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWIS-ELETG 57 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is-~iE~G 57 (83) +.+-.+|.-.|+|.+|+|+.+|+|.+++. ++-++ T Consensus 21 r~v~~l~~~~g~s~~EIA~~lgis~~tvk~~l~Ra 55 (70) T 2o8x_A 21 REALLLTQLLGLSYADAAAVCGCPVGTIRSRVARA 55 (70) T ss_dssp HHHHHHHHTSCCCHHHHHHHHTSCHHHHHHHHHHH T ss_pred HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHH T ss_conf 99999899909999999999897999999999999 No 157 >2hyj_A Putative TETR-family transcriptional regulator; HTH DNA binding motif, structural genomics, PSI-2, protein structure initiative; 2.19A {Streptomyces coelicolor A3} SCOP: a.4.1.9 a.121.1.1 Probab=78.91 E-value=1.7 Score=22.42 Aligned_cols=51 Identities=10% Similarity=0.034 Sum_probs=35.9 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 999999999839949999998634299998875589994489999999992 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) +..+-.-.--.+.|..++|+.+|+|++++..+..++...-...+..+.+.+ T Consensus 21 A~~l~~~~G~~~~t~~~IA~~aGvs~~~ly~~F~sK~~L~~a~~~~~~~~~ 71 (200) T 2hyj_A 21 AAEIASEEGLDGITIGRLAEELEMSKSGVHKHFGTKETLQISTLDKAFVDF 71 (200) T ss_dssp HHHHHHHHCGGGCCHHHHHHHHTCCHHHHHTTCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 999999739151889999998781978895544899999999999999999 No 158 >3ccy_A Putative TETR-family transcriptional regulator; APC88698, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.01A {Bordetella parapertussis 12822} Probab=78.87 E-value=0.85 Score=24.27 Aligned_cols=62 Identities=11% Similarity=0.150 Sum_probs=37.7 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH Q ss_conf 969888888689899999999999999999983---99499999986342999988755899944899999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNIRKEA---KLTQKEIRNRTGFAQSWISELETGKSTINIDNMII 68 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~R~~~---gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~ 68 (83) |||.+..... + . +..+-..-..+=.++ +.|..++|+.+|||++++..+..++...=...+.. T Consensus 4 M~r~r~~~~e--~--~--r~~Il~aa~~lf~e~G~~~~t~~~Ia~~agvs~~tlY~~F~~K~~L~~a~~~~ 68 (203) T 3ccy_A 4 MARTRSADYE--N--I--RDTIIERAAAMFARQGYSETSIGDIARACECSKSRLYHYFDSKEAVLRDMLTT 68 (203) T ss_dssp --------CT--T--H--HHHHHHHHHHHHHHTCTTTSCHHHHHHHTTCCGGGGTTTCSCHHHHHHHHHHH T ss_pred CCCCCCCCHH--H--H--HHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCHHCCCCHHHHHHHHHHH T ss_conf 9999988889--9--9--99999999999998494527899999985898677302489999999999999 No 159 >2rdp_A Putative transcriptional regulator MARR; PFAM PF01047, winged-helix DNA binding motif, structural genomics, PSI-2; 2.30A {Geobacillus stearothermophilus} Probab=78.77 E-value=1.7 Score=22.51 Aligned_cols=30 Identities=27% Similarity=0.294 Sum_probs=24.6 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+...-++|+.++|+.+|+++++++++ T Consensus 47 vL~~l~~~~~~t~~~La~~l~~~~~~vs~~ 76 (150) T 2rdp_A 47 ALQWLLEEGDLTVGELSNKMYLACSTTTDL 76 (150) T ss_dssp HHHHHHHHCSBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999779959999999989688789999 No 160 >1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5 Probab=78.67 E-value=3.4 Score=20.67 Aligned_cols=31 Identities=6% Similarity=0.094 Sum_probs=25.2 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999999983994999999863429999887 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -..|-.+ .+.|+++.++|.+.+||.+++++| T Consensus 23 R~rIv~l-~~~G~s~~~Iar~l~Vs~~~V~ki 53 (128) T 1pdn_C 23 RLKIVEM-AADGIRPCVISRQLRVSHGCVSKI 53 (128) T ss_dssp HHHHHHH-HHTTCCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHH-HHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999999-986999999999889689999999 No 161 >2eth_A Transcriptional regulator, putative, MAR family; TM0816, structural genomics, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: a.4.5.28 Probab=78.53 E-value=1.7 Score=22.53 Aligned_cols=30 Identities=17% Similarity=0.105 Sum_probs=25.7 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+.+..+.|+.++|+.+|++++++|++ T Consensus 49 vL~~l~~~~~~t~~eLa~~l~i~~~tvs~~ 78 (154) T 2eth_A 49 AFLYVALFGPKKMKEIAEFLSTTKSNVTNV 78 (154) T ss_dssp HHHHHHHHCCBCHHHHHHHTTSCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999869949999999989798899999 No 162 >3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative stress, transcription regulation; 2.35A {Mycobacterium tuberculosis} Probab=78.40 E-value=2 Score=22.12 Aligned_cols=48 Identities=8% Similarity=0.034 Sum_probs=33.7 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC Q ss_conf 9999999983994999999863429999887558999448999999999289 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDT 75 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i 75 (83) +.+-.++.-.|+|.+|+|+.+|+|.+++....+. ....|.+..+..|+ T Consensus 43 r~vi~l~~~~g~s~~eIA~~lgis~~tV~~~l~R----a~~~Lr~~l~~~G~ 90 (92) T 3hug_A 43 RAVIQRSYYRGWSTAQIATDLGIAEGTVKSRLHY----AVRALRLTLQELGV 90 (92) T ss_dssp HHHHHHHHTSCCCHHHHHHHHTSCHHHHHHHHHH----HHHHHHHHHHHHTS T ss_pred HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHH----HHHHHHHHHHHHCC T ss_conf 9999999993999999999989699999999999----99999999998389 No 163 >1tlh_B Sigma-70, RNA polymerase sigma factor RPOD; anti-sigma, transcription; NMR {Escherichia coli} SCOP: a.4.13.2 Probab=78.06 E-value=1.7 Score=22.48 Aligned_cols=25 Identities=16% Similarity=0.286 Sum_probs=22.3 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 3994999999863429999887558 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G 57 (83) .-+|.+++|+.+|||+..|.+||.. T Consensus 37 ~~~tl~eIa~~lgvSrerVRQie~~ 61 (81) T 1tlh_B 37 TDYTLEEVGKQFDVTRERIRQIEAK 61 (81) T ss_dssp SCCCHHHHHHHHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 8557999999989799999999999 No 164 >1sfx_A Conserved hypothetical protein AF2008; structural genomics, HTH motif, PSI, protein structure initiative; 1.55A {Archaeoglobus fulgidus dsm 4304} SCOP: a.4.5.50 Probab=77.96 E-value=2.4 Score=21.62 Aligned_cols=31 Identities=6% Similarity=0.200 Sum_probs=26.7 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999983994999999863429999887 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) .-+..+....+.|+.++|+.+|+++++++++ T Consensus 24 ~v~~~L~~~~~~t~~eia~~~~~~~~~v~~~ 54 (109) T 1sfx_A 24 RIYSLLLERGGMRVSEIARELDLSARFVRDR 54 (109) T ss_dssp HHHHHHHHHCCBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCCHHHHHHHHCCCCCHHHHH T ss_conf 9999998048887999999975670189999 No 165 >1xsv_A Hypothetical UPF0122 protein SAV1236; helix-turn-helix, putative DNA-binding protein, signal recognition particle, unknown function; 1.70A {Staphylococcus aureus subsp} SCOP: a.4.13.3 Probab=77.89 E-value=1.9 Score=22.21 Aligned_cols=31 Identities=10% Similarity=0.115 Sum_probs=26.8 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999983994999999863429999887 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) +.+-.++.-.|+|..|+|+.+|+|++++... T Consensus 31 R~v~~l~~~e~ls~~EIA~~lgiS~~aV~~~ 61 (113) T 1xsv_A 31 RNYLELFYLEDYSLSEIADTFNVSRQAVYDN 61 (113) T ss_dssp HHHHHHHHTSCCCHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999999991999999999989699999999 No 166 >2zb9_A Putative transcriptional regulator; transcription regulator, TETR family, helix-turn-helix, DNA- binding, transcription regulation; 2.25A {Streptomyces coelicolor} Probab=77.81 E-value=3.8 Score=20.40 Aligned_cols=50 Identities=14% Similarity=0.160 Sum_probs=34.9 Q ss_pred HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 9999999999998--3994999999863429999887558999448999999 Q gi|254781147|r 20 MIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 20 ~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) .++-.-++-+.+. .+.|..++|+.+|||.+++..+...+...=...+... T Consensus 27 ~Il~aA~~l~~~~G~~~~t~~~IA~~agvs~~tlY~~F~sK~~Ll~~~~~~~ 78 (214) T 2zb9_A 27 EVLHAVGELLLTEGTAQLTFERVARVSGVSKTTLYKWWPSKGALALDGYFHA 78 (214) T ss_dssp HHHHHHHHHHHHHCGGGCCHHHHHHHHCCCHHHHHHHCSSHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHH T ss_conf 9999999999985935087999999979298887450899999999999999 No 167 >2g7s_A Transcriptional regulator, TETR family; APC5906, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: MSE; 1.40A {Agrobacterium tumefaciens str} SCOP: a.4.1.9 a.121.1.1 Probab=77.79 E-value=2.1 Score=22.00 Aligned_cols=49 Identities=10% Similarity=0.006 Sum_probs=34.5 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9999999839949999998634299998875589994489999999992 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) .+-.-+--.+.|.+++|+.+|||++++.++..++...-...+.....-+ T Consensus 19 ~l~~~~G~~~~t~~~Ia~~agvs~~t~Y~~F~sK~~L~~a~~~~~~~~~ 67 (194) T 2g7s_A 19 TLIIRGGYNSFSYADISQVVGIRNASIHHHFPSKSDLVCKLVSQYRQEA 67 (194) T ss_dssp HHHHHHCGGGCCHHHHHHHHCCCHHHHHHHCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCHHHHHCCCCCHHHHHHHHHHHHHHHH T ss_conf 9999749574779999998782921331158999999999999999999 No 168 >2rae_A Transcriptional regulator, ACRR family protein; TETR/ACRR family transcriptional regulator, structural genomics, PSI-2, RHA08332, MCSG; 2.20A {Rhodococcus SP} Probab=77.69 E-value=1.6 Score=22.67 Aligned_cols=47 Identities=11% Similarity=0.042 Sum_probs=33.4 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 99999983994999999863429999887558999448999999999 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) +-.-+--.+.|..++|+.+|||++++..+..++...-...+....+. T Consensus 29 l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sKe~Ll~~~~~~~~~~ 75 (207) T 2rae_A 29 LFTEQGFDATSVDEVAEASGIARRTLFRYFPSKNAIPWGDFDAHLAE 75 (207) T ss_dssp HHHHHCTTTSCHHHHHHHTTSCHHHHHHHCSSTTTGGGCSHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 99972913067999999979198899888799999899999999999 No 169 >3cta_A Riboflavin kinase; structural genomics, transferase, PSI-2, protein structure initiative; 2.20A {Thermoplasma acidophilum dsm 1728} SCOP: a.4.5.28 b.43.5.2 Probab=77.67 E-value=2.5 Score=21.53 Aligned_cols=32 Identities=22% Similarity=0.354 Sum_probs=25.1 Q ss_pred HHHHHHHHHH------CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999998------3994999999863429999887 Q gi|254781147|r 23 VNNFRNIRKE------AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 23 g~~ir~~R~~------~gltq~ela~~~gis~~~is~i 54 (83) ...|+.++.. .++|+.++|+.+|+|+++++++ T Consensus 10 ~~aLk~L~~~~~~~~~~~ls~~eLa~~l~is~~tvsr~ 47 (230) T 3cta_A 10 YRAIKKIKEAAEASNRAYLTSSKLADMLGISQQSASRI 47 (230) T ss_dssp HHHHHHHHHHTTTSSEEECCHHHHHHHHTSCHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99999999736415799858999999988788899999 No 170 >3lwj_A Putative TETR-family transcriptional regulator; structural genomics, joint center for structural genomics, JCSG; 2.07A {Syntrophomonas wolfei subsp} Probab=77.55 E-value=2.7 Score=21.29 Aligned_cols=53 Identities=9% Similarity=0.041 Sum_probs=35.9 Q ss_pred HHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 999999999998--39949999998634299998875589994489999999992 Q gi|254781147|r 21 IFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 21 ~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) ++..-+.-+.+. .+.|..++|+.+|||++++..+..++...=...+..+.+.+ T Consensus 17 Il~aa~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~~Ke~L~~~~~~~~~~~~ 71 (202) T 3lwj_A 17 ILTCSLDLFIEKGYYNTSIRDIIALSEVGTGTFYNYFVDKEDILKNLLEDFAKQI 71 (202) T ss_dssp HHHHHHHHHHHHCTTTCCHHHHHHHHCSCHHHHHHHCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9999999998709551759999998792999998866999999999999999987 No 171 >2ao9_A Phage protein; structural genomics, nine-fold NCS., PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.90A {Bacillus cereus atcc 14579} SCOP: a.4.1.17 Probab=77.48 E-value=1.3 Score=23.17 Aligned_cols=26 Identities=35% Similarity=0.406 Sum_probs=23.3 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 98399499999986342999988755 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~ 56 (83) .....||+++|+-+|||+.++.+|.+ T Consensus 45 ~g~k~T~~eiAeEvGvsr~TLy~Wk~ 70 (155) T 2ao9_A 45 NEEKRTQDEMANELGINRTTLWEWRT 70 (155) T ss_dssp -CCCCCHHHHHHHHTCCHHHHHHHHH T ss_pred CHHHHHHHHHHHHHCHHHHHHHHHHH T ss_conf 73364799999995746999998860 No 172 >3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structural genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B} Probab=77.30 E-value=2 Score=22.10 Aligned_cols=30 Identities=20% Similarity=0.245 Sum_probs=25.6 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+....++|+.++|+.+|++.++++++ T Consensus 36 iL~~l~~~~~~t~~~la~~l~~~~~~vs~~ 65 (145) T 3g3z_A 36 VLYTLATEGSRTQKHIGEKWSLPKQTVSGV 65 (145) T ss_dssp HHHHHHHHCSBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999879949999999989698899999 No 173 >3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A* Probab=77.16 E-value=1.9 Score=22.25 Aligned_cols=29 Identities=17% Similarity=0.211 Sum_probs=24.5 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) |..+....|+|+.++|+.+|++.++++++ T Consensus 35 L~~i~~~~~~t~~eLa~~~~~~~~~vs~~ 63 (138) T 3bpv_A 35 LLRIHREPGIKQDELATFFHVDKGTIART 63 (138) T ss_dssp HHHHHHSTTCBHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99998589979999999989798799999 No 174 >3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris} Probab=77.12 E-value=4 Score=20.29 Aligned_cols=33 Identities=12% Similarity=-0.002 Sum_probs=25.6 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHH Q ss_conf 839949999998634299998875589994489 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKSTINID 64 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~~~~~ 64 (83) ...+|.+++|+.+|+|.++++++-+.....+.. T Consensus 16 ~~~~~~~~la~~~~~S~~~l~r~fk~~~g~s~~ 48 (108) T 3mn2_A 16 MRPITIEKLTALTGISSRGIFKAFQRSRGYSPM 48 (108) T ss_dssp TSCCCHHHHHHHHTCCHHHHHHHHHHHTSSCHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCHH T ss_conf 899999999999891999999999999891968 No 175 >2id3_A Putative transcriptional regulator; structural genomics, PSI-2, prote structure initiative; 1.70A {Streptomyces coelicolor} SCOP: a.4.1.9 a.121.1.1 Probab=77.02 E-value=4 Score=20.27 Aligned_cols=53 Identities=13% Similarity=0.138 Sum_probs=37.4 Q ss_pred HHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 999999999998--39949999998634299998875589994489999999992 Q gi|254781147|r 21 IFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 21 ~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) ++..-++-+.+. .+.|..++|+.+|||.+++..+..++...-...+..+...+ T Consensus 45 Il~Aa~~l~~e~G~~~~T~~~IA~~AgvS~~tlY~yF~sKe~Ll~~~~~~~~~~~ 99 (225) T 2id3_A 45 VLLAAGDALAADGFDALDLGEIARRAGVGKTTVYRRWGTPGGLAADLLADMAEQS 99 (225) T ss_dssp HHHHHHHHHHHHCGGGCCHHHHHHHHTCCHHHHHHHHCSHHHHHHHHHHHHHHHC T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHCCCCCCHHHHHHHHHHHHHHHH T ss_conf 9999999999849340779999999790988871018999999999999999999 No 176 >3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP} Probab=76.87 E-value=1.7 Score=22.52 Aligned_cols=31 Identities=10% Similarity=0.170 Sum_probs=26.7 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999983994999999863429999887 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) .-|..+....++|+.++|+.+|+++++++++ T Consensus 44 ~vL~~L~~~~~~t~~~la~~l~i~~~~vsr~ 74 (148) T 3nrv_A 44 RIISVLSSASDCSVQKISDILGLDKAAVSRT 74 (148) T ss_dssp HHHHHHHHSSSBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999999779979999999989699899999 No 177 >3nrg_A TETR family transcriptional regulator; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; 2.56A {Chloroflexus aurantiacus} Probab=76.77 E-value=0.51 Score=25.60 Aligned_cols=39 Identities=13% Similarity=0.130 Sum_probs=29.3 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 399499999986342999988755899944899999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) .+.|..++|+.+|+|++++..+..++...=...+....+ T Consensus 32 ~~~t~~~IA~~agvs~~tiY~~F~sK~~L~~~~~~~~~~ 70 (217) T 3nrg_A 32 DSVSINRITERAGIAKGSFYQYFADKKDCYLYLIQLGIE 70 (217) T ss_dssp GGCCHHHHHHHHTCCTTGGGGTCSSHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 407799999985888235888648999999999999999 No 178 >1eto_A FIS, factor for inversion stimulation; transcriptional activation region, DNA-binding protein, transcription activator; 1.90A {Escherichia coli} SCOP: a.4.1.12 PDB: 1etq_A 1ety_A 1fia_A 3fis_A 3iv5_A* 3jr9_A* 3jra_A* 3jrb_A* 3jrc_A* 3jrd_A* 3jre_A* 3jrf_A* 3jrg_A* 3jrh_A* 3jri_A* 1f36_A 1etv_A 1etk_A 1etx_A 1fip_A ... Probab=76.69 E-value=2.6 Score=21.37 Aligned_cols=31 Identities=6% Similarity=-0.052 Sum_probs=27.3 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 9999999998399499999986342999988 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) -..|+..-...++.+.+.|+.+|||++++.+ T Consensus 60 ~~~I~~aL~~~~gn~~~aA~~LGisR~tL~~ 90 (98) T 1eto_A 60 QPLLDMVMQYTLGNQTRAALMMGINRGTLRK 90 (98) T ss_dssp HHHHHHHHHHTTTCHHHHHHHHTSCHHHHHH T ss_pred HHHHHHHHHHHCCCHHHHHHHHCCCHHHHHH T ss_conf 9999999999199889999997989999999 No 179 >2o7t_A Transcriptional regulator; NP_600854.1, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; HET: UNL; 2.10A {Corynebacterium glutamicum} SCOP: a.4.1.9 a.121.1.1 Probab=76.58 E-value=4.1 Score=20.23 Aligned_cols=40 Identities=15% Similarity=0.160 Sum_probs=29.7 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 9839949999998634299998875589994489999999 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) --.+.|..++|+.+|||++++.++..++...-...+..+. T Consensus 25 G~~~~t~~~IA~~agvs~~tiY~~F~sK~~L~~av~~~~~ 64 (199) T 2o7t_A 25 HHDSLTMENIAEQAGVGVATLYRNFPDRFTLDMACAQYLF 64 (199) T ss_dssp CGGGCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCCCHHHHHCCCHHHHHHHHHHHHH T ss_conf 9140779999998686913177608999999999999999 No 180 >1gdt_A GD resolvase, protein (gamma delta resolvase); protein-DNA complex, double helix, overhanging base, DNA binding protein/DNA complex; 3.00A {Escherichia coli} SCOP: a.4.1.2 c.53.1.1 PDB: 1zr4_A 1zr2_A 2gm4_A 1res_A 1ret_A Probab=76.54 E-value=2.6 Score=21.38 Aligned_cols=30 Identities=17% Similarity=0.180 Sum_probs=24.6 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 9999998399499999986342999988755 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~ 56 (83) |..++ ..|+|..++|+.+|+|.+++.+|-+ T Consensus 151 i~~l~-~~g~s~~~Ia~~l~vs~sTv~R~l~ 180 (183) T 1gdt_A 151 VLNMW-QQGLGASHISKTMNIARSTVYKVIN 180 (183) T ss_dssp HHHHH-HTTCCHHHHHHHHTCCHHHHHHHHH T ss_pred HHHHH-HCCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 99999-8699999999998939999999987 No 181 >3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity, CRP, CLP, C-DI-GMP receptor, quorum sensing, DNA-binding; 2.30A {Xanthomonas campestris PV} Probab=76.50 E-value=1.3 Score=23.16 Aligned_cols=21 Identities=10% Similarity=0.355 Sum_probs=19.4 Q ss_pred CCCHHHHHHHHHHHHHHHHHH Q ss_conf 994999999863429999887 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 34 gltq~ela~~~gis~~~is~i 54 (83) .+||+++|..+|+|+.+++++ T Consensus 187 ~lt~~~lA~~lg~sr~tv~R~ 207 (230) T 3iwz_A 187 RVSRQELARLVGCSREMAGRV 207 (230) T ss_dssp ECCHHHHHHHHTCCHHHHHHH T ss_pred CCCHHHHHHHHCCCHHHHHHH T ss_conf 789999999979989999999 No 182 >2nnn_A Probable transcriptional regulator; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa} Probab=76.13 E-value=2.1 Score=21.98 Aligned_cols=30 Identities=10% Similarity=0.150 Sum_probs=25.5 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+...-+.|+.++|+.++++.++++++ T Consensus 43 vL~~l~~~~~~t~~eLa~~~~~~~~~vs~~ 72 (140) T 2nnn_A 43 ALVRLGETGPCPQNQLGRLTAMDAATIKGV 72 (140) T ss_dssp HHHHHHHHSSBCHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCCCCHHHH T ss_conf 999999879909999999878573529999 No 183 >1pb6_A Hypothetical transcriptional regulator YCDC; helix-loop-helix, dimer, structural genomics, PSI, protein structure initiative; 2.50A {Escherichia coli} SCOP: a.4.1.9 a.121.1.1 PDB: 3loc_A* Probab=76.13 E-value=3.7 Score=20.50 Aligned_cols=53 Identities=9% Similarity=0.071 Sum_probs=34.0 Q ss_pred HHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9999999999--9839949999998634299998875589994489999999992 Q gi|254781147|r 21 IFVNNFRNIR--KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 21 ~~g~~ir~~R--~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) ++-.-+.-+. --.+.|..++|+.+|||.+++..+...+-..=...+..+.+.+ T Consensus 23 Il~aA~~lf~~~G~~~~si~~IA~~agvs~~tiY~yF~sKe~L~~~~~~~~~~~~ 77 (212) T 1pb6_A 23 ILSAALDTFSQFGFHGTRLEQIAELAGVSKTNLLYYFPSKEALYIAVLRQILDIW 77 (212) T ss_dssp HHHHHHHHHHHHCTTTCCHHHHHHHTTSCHHHHHHHSSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9999999999859152889999999791987897877999999998789999999 No 184 >2v57_A TETR family transcriptional repressor LFRR; DNA-binding, transcription regulation; HET: PRL; 1.90A {Mycobacterium smegmatis} PDB: 2wgb_A Probab=75.97 E-value=1.8 Score=22.28 Aligned_cols=54 Identities=7% Similarity=0.023 Sum_probs=39.0 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 999999999999839949999998634299998875589994489999999992 Q gi|254781147|r 20 MIFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 20 ~~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) .++-.-+..+.+.-+.|..++|+.+|||++++..+..++...-...+....+.+ T Consensus 18 ~Il~aA~~l~~~~G~~T~~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~ 71 (190) T 2v57_A 18 AILDAAMLVLADHPTAALGDIAAAAGVGRSTVHRYYPERTDLLRALARHVHDLS 71 (190) T ss_dssp HHHHHHHHHHTTCTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 999999999998699739999999890999997773899999999999999999 No 185 >2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for structural genomics, PSI, protein structure initiative, MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28 Probab=75.97 E-value=2.3 Score=21.69 Aligned_cols=30 Identities=23% Similarity=0.201 Sum_probs=24.9 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+....++|+.++|+.+++++++++++ T Consensus 38 vL~~i~~~~~~t~~ela~~~~~~~~~vs~~ 67 (145) T 2a61_A 38 ILQKIYFEGPKRPGELSVLLGVAKSTVTGL 67 (145) T ss_dssp HHHHHHHHCCBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999998779989999999989798789999 No 186 >2o4a_A DNA-binding protein SATB1; protein-DNA complex, transcription, transcription/DNA complex; HET: DNA; 1.75A {Homo sapiens} SCOP: a.35.1.7 PDB: 2o49_A* Probab=75.88 E-value=4.3 Score=20.08 Aligned_cols=59 Identities=17% Similarity=0.112 Sum_probs=47.4 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-HHHHHHHHHHHCCCCCC------CHHHHHHHHHHHCCCHHH Q ss_conf 999999999998399499999986-34299998875589994------489999999992899999 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRT-GFAQSWISELETGKSTI------NIDNMIILAHTLDTPLWK 79 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~-gis~~~is~iE~G~~~~------~~~~l~~la~al~i~~~~ 79 (83) .++..|+...+..+++|+-+|+.+ |.|+.++|.+-+....| .-.++.++-.-|+.|-.+ T Consensus 11 eI~~~i~~eL~~~~I~Q~~Fak~VL~rsQGtlSdLLr~Pk~pw~~~~sgre~f~Rm~~wL~lPe~~ 76 (93) T 2o4a_A 11 EIYQWVRDELKRAGISQAVFARVAFNRTQGLLSEILRKEEDPKTASQSLLVNLRAMQNFLQLPEAE 76 (93) T ss_dssp THHHHHHHHHHHHTCCHHHHHHHHHSCCHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHTSCHHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCHHH T ss_conf 999999999998576499999999810705899998389996177652359999999998284999 No 187 >2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens} Probab=75.87 E-value=3.5 Score=20.60 Aligned_cols=24 Identities=8% Similarity=0.202 Sum_probs=22.3 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ...|++..++|++.+||.+++++| T Consensus 38 ~~~G~s~r~IArrl~VS~stV~ki 61 (159) T 2k27_A 38 AHQGVRPCDISRQLRVSHGCVSKI 61 (159) T ss_dssp HHHTCCHHHHHHHHTCCSHHHHHH T ss_pred HHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 986999999999889599999999 No 188 >2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A {Xanthomonas campestris} PDB: 2pfb_A Probab=75.83 E-value=1.6 Score=22.71 Aligned_cols=30 Identities=13% Similarity=0.117 Sum_probs=25.8 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+....++|+.++|+.+|+++++++++ T Consensus 52 vL~~l~~~~~~~~~eLa~~l~~~~~tvs~~ 81 (153) T 2pex_A 52 VMLVLWETDERSVSEIGERLYLDSATLTPL 81 (153) T ss_dssp HHHHHHHSCSEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999998479989999999989688689999 No 189 >2ia0_A Putative HTH-type transcriptional regulator PF0864; ASNC, PSI, structural genomics, southeast collaboratory for structural genomics; 2.37A {Pyrococcus furiosus} Probab=75.82 E-value=2.3 Score=21.72 Aligned_cols=30 Identities=30% Similarity=0.328 Sum_probs=26.3 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 999999998399499999986342999988 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) +-|+.+.+...+|..++|+.+|+|.+++.+ T Consensus 21 ~IL~~Lq~d~R~s~~eIA~~lgls~~tv~~ 50 (171) T 2ia0_A 21 NILRLLKKDARLTISELSEQLKKPESTIHF 50 (171) T ss_dssp HHHHHHHHCTTCCHHHHHHHHTSCHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 999999984899999999998909999999 No 190 >1yse_A DNA-binding protein SATB1; all helical, DNA-binding domain, T-cell development; NMR {Homo sapiens} SCOP: a.35.1.7 Probab=75.81 E-value=2.1 Score=21.97 Aligned_cols=58 Identities=17% Similarity=0.112 Sum_probs=44.3 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-HHHHHHHHHHHCCCCC------CCHHHHHHHHHHHCCCHH Q ss_conf 999999999998399499999986-3429999887558999------448999999999289999 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRT-GFAQSWISELETGKST------INIDNMIILAHTLDTPLW 78 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~-gis~~~is~iE~G~~~------~~~~~l~~la~al~i~~~ 78 (83) .+..+|+...+..+++|+-+|+.+ |.|+.++|.+-+.-.. -.-+++.++-.-|+.|.. T Consensus 25 ~i~~~v~~eL~~~~I~Q~~Fa~~vl~rsQgtlsdLL~~PKpp~~~~~~gre~f~RM~~wL~~pe~ 89 (141) T 1yse_A 25 EIYQWVRDELKRAGISQAVFARVAFNRTQGLLSEILRKEEDPKTASQSLLVNLRAMQNFLQLPEA 89 (141) T ss_dssp HHHHHHHHHHHHHTCCHHHHHHHHCCSCTTHHHHHHHHCCCGGGCCHHHHHHHHHHHHHHHSCHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCHH T ss_conf 99999999999848779999999982281889999858998566618778999999999828188 No 191 >3crj_A Transcription regulator; APC88200, TETR, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.60A {Haloarcula marismortui atcc 43049} Probab=75.67 E-value=4.2 Score=20.15 Aligned_cols=47 Identities=15% Similarity=0.022 Sum_probs=32.5 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 99999998399499999986342999988755899944899999999 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) .+-.-+--.+.|..++|+.+|||++++..+..++...-...+....+ T Consensus 25 ~lf~~~G~~~~t~~~IA~~agvs~~tiY~~F~~K~~L~~~~~~~~~~ 71 (199) T 3crj_A 25 RALREHGYADLTIQRIADEYGKSTAAVHYYYDTKDDLLAAFLDYLLE 71 (199) T ss_dssp HHHHHHTTTTCCHHHHHHHHTSCHHHHHTTCSSHHHHHHHHHHHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 99997490407799999997919999988858999999999999999 No 192 >2w25_A Probable transcriptional regulatory protein; transcription regulation, mutant, RV3291C, Glu104Ala, DNA-binding; 2.15A {Mycobacterium tuberculosis} PDB: 2vbw_A* 2vbx_A* 2vby_A* 2vbz_A* 2vc0_A 2vc1_A 2w24_A 2ivm_A 2w29_A 2qz8_A Probab=75.67 E-value=2.3 Score=21.69 Aligned_cols=30 Identities=20% Similarity=0.327 Sum_probs=25.7 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 999999998399499999986342999988 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) +-|+.+++.-.+|..++|+.+|+|++++.+ T Consensus 11 ~Il~~L~~n~R~s~~~ia~~~gls~~tv~~ 40 (150) T 2w25_A 11 ILVRELAADGRATLSELATRAGLSVSAVQS 40 (150) T ss_dssp HHHHHHHHCTTCCHHHHHHHHTSCHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 999999983899999999998929899999 No 193 >1jgs_A Multiple antibiotic resistance protein MARR; transcription regulation, DNA-binding, repressor; HET: SAL; 2.30A {Escherichia coli} SCOP: a.4.5.28 Probab=75.63 E-value=2.3 Score=21.67 Aligned_cols=31 Identities=16% Similarity=0.192 Sum_probs=26.1 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999983994999999863429999887 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) .-|..+....++|+.++|+.+|+++++++++ T Consensus 38 ~vL~~l~~~~~~t~~ela~~~~~~~~~vs~~ 68 (138) T 1jgs_A 38 KVLCSIRCAACITPVELKKVLSVDLGALTRM 68 (138) T ss_dssp HHHHHHHHHSSBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999998779989999999989788799999 No 194 >1z91_A Organic hydroperoxide resistance transcriptional regulator; OHRR, MARR family, bacterial transcription factor, DNA binding protein; 2.50A {Bacillus subtilis} SCOP: a.4.5.28 PDB: 1z9c_A* Probab=75.60 E-value=1.3 Score=23.20 Aligned_cols=30 Identities=10% Similarity=0.144 Sum_probs=26.2 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -+..+....|+||.++|+.+|++.++++++ T Consensus 45 vL~~l~~~~~~t~~eLa~~~~i~~~tit~~ 74 (147) T 1z91_A 45 ALLLLWEHETLTVKKMGEQLYLDSGTLTPM 74 (147) T ss_dssp HHHHHHHHSEEEHHHHHHTTTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999779949999999979788789999 No 195 >2fbq_A Probable transcriptional regulator; PA3006, APC5893, structural genomics, PSI, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.1.9 a.121.1.1 Probab=75.45 E-value=4.3 Score=20.11 Aligned_cols=60 Identities=12% Similarity=0.068 Sum_probs=38.4 Q ss_pred CCCHHHHHHHH-HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 68989999999-9999999999983994999999863429999887558999448999999 Q gi|254781147|r 10 HLSDAILRERM-IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 10 ~~~~~~~~~~~-~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) +++.+..+++. .-+..+-.-+--.+.|..++|+.+|+|.+++.++..+|...=...+... T Consensus 2 ~~~~~~trerIl~AA~~l~~~~G~~~~t~~~IA~~aGvs~~~lY~yF~sK~~Ll~av~~~~ 62 (235) T 2fbq_A 2 HMAQSETVERILDAAEQLFAEKGFAETSLRLITSKAGVNLAAVNYHFGSKKALIQAVFSRF 62 (235) T ss_dssp --CHHHHHHHHHHHHHHHHHHHCSTTCCHHHHHHHHTSCHHHHHHHTCSHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHH T ss_conf 9992899999999999999985904077999999979398899998599999999999999 No 196 >3lsg_A Two-component response regulator YESN; structural genomics, PSI-2, protein structure initiative, MCSG; 2.05A {Fusobacterium nucleatum} Probab=75.40 E-value=2.8 Score=21.24 Aligned_cols=31 Identities=10% Similarity=0.210 Sum_probs=24.4 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 8399499999986342999988755899944 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKSTIN 62 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~~~ 62 (83) +..+|.+++|+.+|+|.++++++-+.....+ T Consensus 17 ~~~l~l~~lA~~~~~s~~~l~r~fk~~~g~s 47 (103) T 3lsg_A 17 DSQFTLSVLSEKLDLSSGYLSIMFKKNFGIP 47 (103) T ss_dssp CTTCCHHHHHHHTTCCHHHHHHHHHHHHSSC T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCC T ss_conf 9998999999998929999999999988909 No 197 >2yve_A Transcriptional regulator; helix-turn-helix, TETR-family; HET: MBT; 1.40A {Corynebacterium glutamicum} PDB: 1v7b_A 2zoy_A 2yvh_A 2dh0_A* 2zoz_A* Probab=75.31 E-value=2.5 Score=21.46 Aligned_cols=48 Identities=17% Similarity=0.171 Sum_probs=36.2 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCH Q ss_conf 998399499999986342999988755899944899999999928999 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPL 77 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~ 77 (83) +--.+.|..++|+.+|+|++++..+..++...-...+..+.+.+.-.+ T Consensus 20 ~G~~~~s~~~IA~~AGvs~~siY~yF~~K~~L~~a~~~~~~~~~~~~~ 67 (185) T 2yve_A 20 YSLETLSYDSLAEATGLSKSGLIYHFPSRHALLLGMHELLADDWDKEL 67 (185) T ss_dssp SCSTTCCHHHHHHHHCCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHH T ss_pred HCCCCCCHHHHHHHHCCCHHHHCCCCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 690517799999986838531306689999999999999999999999 No 198 >1ft9_A Carbon monoxide oxidation system transcription regulator; heme sensor, catabolite gene activator protein; HET: HEM; 2.60A {Rhodospirillum rubrum} SCOP: a.4.5.4 b.82.3.1 Probab=75.26 E-value=1.5 Score=22.79 Aligned_cols=39 Identities=23% Similarity=0.245 Sum_probs=27.3 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH----------HC-CCCC---CCHHHHHHHHH Q ss_conf 3994999999863429999887----------55-8999---44899999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL----------ET-GKST---INIDNMIILAH 71 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i----------E~-G~~~---~~~~~l~~la~ 71 (83) ..+||+++|..+|+|+.+++++ +. |+.. .+.+.|..+|+ T Consensus 162 ~~lt~~~lA~~lg~sr~tvsr~l~~L~~~g~I~~~~r~~i~i~d~~~L~~~a~ 214 (222) T 1ft9_A 162 VDFTVEEIANLIGSSRQTTSTALNSLIKEGYISRQGRGHYTIPNLVRLKAAAD 214 (222) T ss_dssp ECCCHHHHHHHHCSCHHHHHHHHHHHHHTTSSEECSTTCEECSSHHHHHHTC- T ss_pred CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCEEEECCHHHHHHHHC T ss_conf 88469999999799899999999999988999988999699899999999856 No 199 >3f0c_A TETR-molecule A, transcriptional regulator; MCSG,PSI, SAD, structural genomics, protein structure initiative; 2.96A {Cytophaga hutchinsonii atcc 33406} Probab=75.08 E-value=0.99 Score=23.88 Aligned_cols=51 Identities=14% Similarity=0.007 Sum_probs=35.2 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 999999999839949999998634299998875589994489999999992 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) +..+-.-.--.+.|..++|+.+|||++++.++-..+...=...+....+.+ T Consensus 20 A~~lf~~~G~~~~s~~~IA~~aGvs~~tlY~yF~sK~~L~~a~~~~~~~~~ 70 (216) T 3f0c_A 20 AQKRFAHYGLCKTTMNEIASDVGMGKASLYYYFPDKETLFEAVIKKEQNVF 70 (216) T ss_dssp HHHHHHHHCSSSCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 999999749030789999998598852798757999999999899899999 No 200 >2p5v_A Transcriptional regulator, LRP/ASNC family; NMB0573, structural genomics; 1.99A {Neisseria meningitidis MC58} PDB: 2p6s_A 2p6t_A Probab=74.97 E-value=2.5 Score=21.52 Aligned_cols=30 Identities=17% Similarity=0.268 Sum_probs=25.9 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 999999998399499999986342999988 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) +-|+.+.+.-.+|..++|+++|+|.+++.+ T Consensus 14 ~Il~~L~~d~R~s~~eiA~~~gls~~tv~~ 43 (162) T 2p5v_A 14 KILQVLQENGRLTNVELSERVALSPSPCLR 43 (162) T ss_dssp HHHHHHHHCTTCCHHHHHHHHTSCHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 999999983799999999998929999999 No 201 >2dbb_A Putative HTH-type transcriptional regulator PH0061; ASNC family, helix-turn-helix (HTH) domain, structural genomics, NPPSFA; 2.00A {Pyrococcus horikoshii OT3} Probab=74.92 E-value=2.3 Score=21.69 Aligned_cols=30 Identities=13% Similarity=0.251 Sum_probs=25.7 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 999999998399499999986342999988 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) +-|+.+.+.-.+|..++|+.+|+|.+++++ T Consensus 13 ~Il~~L~~d~R~s~~eia~~lgls~~tv~~ 42 (151) T 2dbb_A 13 QLVKILSENSRLTYRELADILNTTRQRIAR 42 (151) T ss_dssp HHHHHHHHCTTCCHHHHHHHTTSCHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 999999885999999999998969999999 No 202 >1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium} Probab=74.88 E-value=2.7 Score=21.28 Aligned_cols=32 Identities=6% Similarity=-0.000 Sum_probs=26.9 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999999983994999999863429999887 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) ...|...-.+.+.++...|+.+|||++++.+- T Consensus 270 ~~~I~~aL~~~~gn~~~aA~~LGisR~tLyrk 301 (304) T 1ojl_A 270 KEVILAALEKTGGNKTEAARQLGITRKTLLAK 301 (304) T ss_dssp HHHHHHHHHTTTTCHHHHHHHHTSCHHHHHHH T ss_pred HHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHH T ss_conf 99999999992998999999988899999998 No 203 >2jj7_A Hemolysin II regulatory protein; DNA-binding protein, transcription regulation, DNA-binding, TETR family, transcription; 2.10A {Bacillus cereus} PDB: 2wv1_A 2jk3_A 2fx0_A Probab=74.84 E-value=3.3 Score=20.75 Aligned_cols=47 Identities=13% Similarity=0.024 Sum_probs=35.3 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 99999999983994999999863429999887558999448999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) +..+-.-+--.+.|..++|+.+|+|++++..+..++...-...+..+ T Consensus 16 A~~lf~~~G~~~~ti~~IA~~agvs~~tiY~~F~sK~~L~~~~~~~~ 62 (186) T 2jj7_A 16 AKKKFGERGYEGTSIQEIAKEAKVNVAMASYYFNGKENLYYEVFKKY 62 (186) T ss_dssp HHHHHHHHHHHHCCHHHHHHHHTSCHHHHHHHHSSHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHH T ss_conf 99999985914177999999869698899778789789999999999 No 204 >2zdb_A Transcriptional regulator, CRP family; CAMP-binding domain, winged helix-turn-helix, thermus thermophilus DNA-binding, plasmid; 2.00A {Thermus thermophilus} Probab=74.82 E-value=1.3 Score=23.26 Aligned_cols=38 Identities=13% Similarity=0.179 Sum_probs=27.5 Q ss_pred CCCHHHHHHHHHHHHHHHHHH------------HCCC-CCCCHHHHHHHHH Q ss_conf 994999999863429999887------------5589-9944899999999 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISEL------------ETGK-STINIDNMIILAH 71 (83) Q Consensus 34 gltq~ela~~~gis~~~is~i------------E~G~-~~~~~~~l~~la~ 71 (83) .+||+++|..+|+|+.+++++ .+|+ ...+.+.|.++|. T Consensus 139 ~lt~~~lA~~lg~sr~tvsR~l~~L~~~g~I~~~~~~i~I~d~~~L~~~A~ 189 (195) T 2zdb_A 139 TVSHEEIADATASIRESVSKVLADLRREGLIATAYRRVYLLDLAALEREAG 189 (195) T ss_dssp ECCHHHHHHTTTSCHHHHHHHHHHHHHHTSEEEETTEEEECCHHHHHHHHS T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHHHHHHHC T ss_conf 887999998879979999999999998898997099999978999999846 No 205 >1j5y_A Transcriptional regulator, biotin repressor family; structural genomics, TM1602, JCSG, conserved hypothetical protein, PSI; 2.30A {Thermotoga maritima} SCOP: a.4.5.1 d.94.2.1 Probab=74.76 E-value=4.1 Score=20.19 Aligned_cols=33 Identities=6% Similarity=0.149 Sum_probs=25.4 Q ss_pred HHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999839-94999999863429999887 Q gi|254781147|r 22 FVNNFRNIRKEAK-LTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 22 ~g~~ir~~R~~~g-ltq~ela~~~gis~~~is~i 54 (83) .-.-|..++...+ +|-.+||+.+|||+++|.+- T Consensus 23 ~~~Il~~L~~~~~~vs~~eLa~~l~vS~~TIrrd 56 (187) T 1j5y_A 23 LKSIVRILERSKEPVSGAQLAEELSVSRQVIVQD 56 (187) T ss_dssp HHHHHHHHHHCSSCBCHHHHHHHHTSCHHHHHHH T ss_pred HHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999999998599676999999979899999999 No 206 >3e7l_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; 2.25A {Aquifex aeolicus} Probab=74.70 E-value=3.1 Score=20.91 Aligned_cols=32 Identities=13% Similarity=0.003 Sum_probs=28.2 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999999983994999999863429999887 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) ...|...-...++++.+.|+.+||+++++.+. T Consensus 21 ~~~I~~aL~~~~gn~s~aA~~Lgi~r~tL~~k 52 (63) T 3e7l_A 21 KIFIEEKLREYDYDLKRTAEEIGIDLSNLYRK 52 (63) T ss_dssp HHHHHHHHHHTTTCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99999999991998999999989799999999 No 207 >1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1 Probab=74.70 E-value=1.7 Score=22.47 Aligned_cols=25 Identities=20% Similarity=0.280 Sum_probs=22.8 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 3994999999863429999887558 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G 57 (83) ..+|++|+|+..|||+..|++||+. T Consensus 394 ~~~Tl~EIg~~lgvSreRVrQIe~k 418 (438) T 1l9z_H 394 REHTLEEVGAYFGVTRERIRQIENK 418 (438) T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 8503999999989799999999999 No 208 >3gp4_A Transcriptional regulator, MERR family; structural genomics, DNA- binding, transcription regulator, PSI-2; 1.85A {Listeria monocytogenes str} Probab=74.59 E-value=1.4 Score=22.93 Aligned_cols=47 Identities=17% Similarity=0.210 Sum_probs=28.9 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHC-CC-----------CCCCHHH-----HHHHHHHHCCCHHHH Q ss_conf 99499999986342999988755-89-----------9944899-----999999928999996 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELET-GK-----------STINIDN-----MIILAHTLDTPLWKL 80 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~-G~-----------~~~~~~~-----l~~la~al~i~~~~l 80 (83) .||..|+|+.+|||..+|.-||. |- +.-+... ..+.++.+|+|+.+. T Consensus 2 ~msI~e~a~~~gvs~~tLRyYe~~GLl~p~~r~~~gyR~Y~~~dl~~L~~I~~lr~~G~sL~eI 65 (142) T 3gp4_A 2 SLNIKEASEKSGVSADTIRYYERIGLIPPIHRNESGVRKFGAEDLRWILFTRQMRRAGLSIEAL 65 (142) T ss_dssp CBCHHHHHHHHTSCHHHHHHHHHHTSSCCCCBCTTSCBCBCHHHHHHHHHHHHHHHTTCCHHHH T ss_pred CEEHHHHHHHHCCCHHHHHHHHHCCCCCCHHHCCCCCEEEEHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 5049999999894989999999879997255268995441098999999999999869989999 No 209 >2zhg_A Redox-sensitive transcriptional activator SOXR; oxidative stress, MERR family, 2Fe-2S; HET: DNA; 2.80A {Escherichia coli K12} PDB: 2zhh_A Probab=74.52 E-value=1.5 Score=22.84 Aligned_cols=51 Identities=27% Similarity=0.344 Sum_probs=34.9 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCC-----------CCCCC-----HHHHHHHHHHHCCCHHHH Q ss_conf 9983994999999863429999887558-----------99944-----899999999928999996 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELETG-----------KSTIN-----IDNMIILAHTLDTPLWKL 80 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~G-----------~~~~~-----~~~l~~la~al~i~~~~l 80 (83) +.+.-||..|+|+++|||.++|.-||.- .+.-+ .-.+.+.++.+|+++.+. T Consensus 7 ~~~~~mtIgEvA~~~gvs~~tLR~YE~~GLl~p~R~~~gyR~Y~~~dv~~l~~I~~lr~~g~sl~eI 73 (154) T 2zhg_A 7 RIKALLTPGEVAKRSGVAVSALHFYESKGLITSIRNSGNQRRYKRDVLRYVAIIKIAQRIGIPLATI 73 (154) T ss_dssp ---CCBCHHHHHHHHTSCHHHHHHHHHTTSSCCEECTTSCEEBCTTHHHHHHHHHHHHHHTCCHHHH T ss_pred CCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCEEECHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 2244707999999988499999999988799997179986451568889999999999917989999 No 210 >3geu_A Intercellular adhesion protein R; TETR family, intercellular adhesion regulator, IDP00851, DNA-binding, repressor, transcription; HET: MSE; 1.90A {Staphylococcus aureus} Probab=74.46 E-value=3.1 Score=20.92 Aligned_cols=49 Identities=8% Similarity=-0.040 Sum_probs=34.5 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) +..+-.-+--.+.|..++|+.+|||++++.++-.++...=...+..+.+ T Consensus 12 a~~l~~~~G~~~~si~~Ia~~agvs~~tiY~~F~sKe~L~~~~~~~~~~ 60 (189) T 3geu_A 12 AITLFSEKGYDGTTLDDIAKSVNIKKASLYYHFDSKKSIYEQSVKCCFD 60 (189) T ss_dssp HHHHHHHHHHHHCCHHHHHHHTTCCHHHHTTTCSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 9999997593648699999987909988700089899999999999999 No 211 >3dcf_A Transcriptional regulator of the TETR/ACRR family; YP_290855.1, structural genomics, joint center for structural genomics, JCSG; 2.50A {Thermobifida fusca YX} Probab=74.45 E-value=1.9 Score=22.22 Aligned_cols=52 Identities=15% Similarity=0.150 Sum_probs=34.8 Q ss_pred HHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 999999999998--3994999999863429999887558999448999999999 Q gi|254781147|r 21 IFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 21 ~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) ++-.-++-+.+. .+.|..++|+.+|||++++..+...+...=...+..+.+. T Consensus 36 Il~aA~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sKe~L~~a~~~~~~~~ 89 (218) T 3dcf_A 36 IIKVATELFREKGYYATSLDDIADRIGFTKPAIYYYFKSKEDVLFAIVNSIVDE 89 (218) T ss_dssp HHHHHHHHHHHTCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCHHHCCCCHHHHHHHHHHHHHH T ss_conf 999999999984935178999999819893410241497069999999999888 No 212 >2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster} Probab=74.38 E-value=4 Score=20.30 Aligned_cols=26 Identities=8% Similarity=0.059 Sum_probs=23.4 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 98399499999986342999988755 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~ 56 (83) .+.|.++.++|...||+.++|++|-+ T Consensus 35 ~e~G~s~~~vAre~gi~~stl~~W~k 60 (87) T 2elh_A 35 IHDGESKASVARDIGVPESTLRGWCK 60 (87) T ss_dssp HHHTCCHHHHHHHHTCCHHHHHHHHH T ss_pred HHCCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 98799999999997979989999999 No 213 >3cjn_A Transcriptional regulator, MARR family; structural genomics, PSI-2, protein structure initiative; 1.95A {Silicibacter pomeroyi dss-3} Probab=74.38 E-value=1.8 Score=22.35 Aligned_cols=31 Identities=13% Similarity=0.007 Sum_probs=26.2 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999983994999999863429999887 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) .-|..+....|.|+.++|+.+|++.++++++ T Consensus 56 ~iL~~l~~~~~~t~~~La~~~~~~~~~vsr~ 86 (162) T 3cjn_A 56 RALAILSAKDGLPIGTLGIFAVVEQSTLSRA 86 (162) T ss_dssp HHHHHHHHSCSEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999998479989999999989798899999 No 214 >3ech_A MEXR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa} PDB: 1lnw_A 3mex_A Probab=74.32 E-value=1.7 Score=22.42 Aligned_cols=30 Identities=10% Similarity=0.165 Sum_probs=24.8 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+....+.|+.++|+.+|++.++++++ T Consensus 42 iL~~l~~~~~~t~~~La~~l~i~~~~vsr~ 71 (142) T 3ech_A 42 VLKLIDEQRGLNLQDLGRQMCRDKALITRK 71 (142) T ss_dssp HHHHHHHTTTCCHHHHHHHHC---CHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999779989999999989698799999 No 215 >2pij_A Prophage PFL 6 CRO; transcription factor, helix-turn-helix, structural evolution; 1.70A {Pseudomonas fluorescens pf-5} Probab=74.16 E-value=1.5 Score=22.87 Aligned_cols=28 Identities=32% Similarity=0.373 Sum_probs=24.1 Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCH Q ss_conf 4999999863429999887558999448 Q gi|254781147|r 36 TQKEIRNRTGFAQSWISELETGKSTINI 63 (83) Q Consensus 36 tq~ela~~~gis~~~is~iE~G~~~~~~ 63 (83) ||.+.|+.+||.++.||+.-+..+++.+ T Consensus 15 ~Q~k~A~~lGV~Q~AIsKAlragR~I~v 42 (67) T 2pij_A 15 TQSALAAALGVNQSAISQMVRAGRSIEI 42 (67) T ss_dssp CHHHHHHHHTSCHHHHHHHHHTTCCEEE T ss_pred CHHHHHHHHCCCHHHHHHHHHCCCEEEE T ss_conf 5889999919758999999975981799 No 216 >2cyy_A Putative HTH-type transcriptional regulator PH1519; structural genomics, pyrococcus horikosii OT3, NPPSFA; HET: MSE GLN; 1.80A {Pyrococcus horikoshii} SCOP: a.4.5.32 d.58.4.2 Probab=74.13 E-value=2.5 Score=21.47 Aligned_cols=30 Identities=30% Similarity=0.418 Sum_probs=25.9 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 999999998399499999986342999988 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) +-|+.+.+.-..|..++|+.+|+|.+++.+ T Consensus 11 ~IL~~L~~d~R~s~~~iA~~lglS~~tv~~ 40 (151) T 2cyy_A 11 KIIKILQNDGKAPLREISKITGLAESTIHE 40 (151) T ss_dssp HHHHHHHHCTTCCHHHHHHHHCSCHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 999999984899999999998919999999 No 217 >1q06_A Transcriptional regulator CUER; MERR family transcriptional regulator, copper efflux regulator; 2.07A {Escherichia coli} SCOP: a.6.1.3 PDB: 1q05_A 1q07_A Probab=73.94 E-value=1.6 Score=22.68 Aligned_cols=23 Identities=17% Similarity=0.231 Sum_probs=15.6 Q ss_pred CCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 94999999863429999887558 Q gi|254781147|r 35 LTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 35 ltq~ela~~~gis~~~is~iE~G 57 (83) |+..|+|+.+|+|..+|.-||.- T Consensus 1 M~Ige~Ak~~gvs~~tlRyYe~~ 23 (135) T 1q06_A 1 MNISDVAKITGLTSKAIRFYEEK 23 (135) T ss_dssp CCHHHHHHHHTCCHHHHHHHHHT T ss_pred CCHHHHHHHHCCCHHHHHHHHHC T ss_conf 97899999989199999999997 No 218 >2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR), structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str} Probab=73.89 E-value=1.9 Score=22.21 Aligned_cols=30 Identities=10% Similarity=0.030 Sum_probs=25.1 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+...-++|+.++|+.+|++.++++++ T Consensus 46 vL~~L~~~~~~t~~~La~~l~~~~~tvs~~ 75 (154) T 2qww_A 46 MINVIYSTPGISVADLTKRLIITGSSAAAN 75 (154) T ss_dssp HHHHHHHSTTEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999779989999999979787579999 No 219 >2k9s_A Arabinose operon regulatory protein; activator, arabinose catabolism, carbohydrate metabolism, cytoplasm, DNA-binding, repressor, transcription; NMR {Escherichia coli} Probab=73.87 E-value=3.5 Score=20.66 Aligned_cols=40 Identities=13% Similarity=0.165 Sum_probs=27.9 Q ss_pred HHHHHHHHH---HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 999999999---8399499999986342999988755899944 Q gi|254781147|r 23 VNNFRNIRK---EAKLTQKEIRNRTGFAQSWISELETGKSTIN 62 (83) Q Consensus 23 g~~ir~~R~---~~gltq~ela~~~gis~~~is~iE~G~~~~~ 62 (83) .+-+..+.. +..+|.+++|+.+|+|+++++++-+-....+ T Consensus 6 ~~~~~~i~~~~~~~~~~l~~lA~~~~~s~~~l~r~fk~~~g~s 48 (107) T 2k9s_A 6 REACQYISDHLADSNFDIASVAQHVCLSPSRLSHLFRQQLGIS 48 (107) T ss_dssp HHHHHHHHHTSSCSSCCHHHHHHHTTSCHHHHHHHHHHHHSSC T ss_pred HHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCC T ss_conf 9999999975679997999999998929999999999998919 No 220 >2jml_A DNA binding domain/transcriptional regulator; anti-repressor, MERR, carotenogenesis; HET: DNA; NMR {Myxococcus xanthus dk 1622} Probab=73.71 E-value=0.97 Score=23.92 Aligned_cols=48 Identities=15% Similarity=0.164 Sum_probs=32.2 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHC--CCCCC-----------C---HHHHHH---HHHHHCCCHHHH Q ss_conf 399499999986342999988755--89994-----------4---899999---999928999996 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELET--GKSTI-----------N---IDNMII---LAHTLDTPLWKL 80 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~--G~~~~-----------~---~~~l~~---la~al~i~~~~l 80 (83) ..++..|+|+.+||+.++|..||. |-..| + +..+.. +++..|.++.+. T Consensus 4 ~~y~I~eva~~~gvs~~tlR~ye~~~gl~~p~r~~~~g~R~Y~~~~i~~l~~I~~l~~~~G~si~~i 70 (81) T 2jml_A 4 MTLRIRTIARMTGIREATLRAWERRYGFPRPLRSEGNNYRVYSREEVEAVRRVARLIQEEGLSVSEA 70 (81) T ss_dssp CCEEHHHHHHTTSTTHHHHHHHHHHTCCSCCBSSSCSSSCEECHHHHHHHHHHHHHHHHTSTHHHHH T ss_pred CEEEHHHHHHHHCCCHHHHHHHHHHCCCCCCEEECCCCCEECCHHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 5355999999988599999999982699986256899736678999999999999999869989999 No 221 >3egq_A TETR family transcriptional regulator; NP_070644.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE PE8; 2.55A {Archaeoglobus fulgidus} Probab=73.60 E-value=1.5 Score=22.89 Aligned_cols=41 Identities=12% Similarity=0.070 Sum_probs=31.4 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 98399499999986342999988755899944899999999 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) --.++|..++|+.+|||++++..+-.++...-...+..+.+ T Consensus 21 G~~~~t~~~Ia~~agvs~~t~Y~~F~~K~~Ll~~~~~~~~~ 61 (170) T 3egq_A 21 PPHEVSIEEIAREAKVSKSLIFYHFESKQKLLEEAVMHAFR 61 (170) T ss_dssp CGGGCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCCCCCHHHCCCHHHHHHHHHHHHHH T ss_conf 92406799999984899687064289999999999999999 No 222 >2pn6_A ST1022, 150AA long hypothetical transcriptional regulator; LRP/ASNC family Gln binding, structural genomics, NPPSFA; HET: GLN; 1.44A {Sulfolobus tokodaii} PDB: 2efn_A* 2e7x_A* 2e7w_A* 2yx4_A* 2efq_A* 2pmh_A* 2yx7_A* 2efp_A* 2efo_A* Probab=73.50 E-value=1.7 Score=22.43 Aligned_cols=30 Identities=17% Similarity=0.194 Sum_probs=25.6 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 999999998399499999986342999988 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) +-|+.+++.-.+|..++|+.+|+|.+++.+ T Consensus 7 ~Il~~L~~d~R~s~~eia~~lg~s~~tv~~ 36 (150) T 2pn6_A 7 RILKILQYNAKYSLDEIAREIRIPKATLSY 36 (150) T ss_dssp HHHHHHTTCTTSCHHHHHHHHTSCHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 999999984899999999998939999999 No 223 >2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris} Probab=73.47 E-value=2.6 Score=21.36 Aligned_cols=29 Identities=14% Similarity=0.152 Sum_probs=23.7 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) |..+...-++|+.++|..++++++++|++ T Consensus 55 L~~l~~~~~~t~~~La~~l~i~~~~vs~~ 83 (162) T 2fa5_A 55 ITILALYPGSSASEVSDRTAMDKVAVSRA 83 (162) T ss_dssp HHHHHHSTTCCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99998679989999999978787159999 No 224 >3ni7_A Bacterial regulatory proteins, TETR family; transcriptional regulator, structural genomics, PSI-2, structure initiative; HET: MSE; 2.78A {Nitrosomonas europaea} Probab=73.23 E-value=4.4 Score=20.02 Aligned_cols=52 Identities=10% Similarity=-0.087 Sum_probs=36.3 Q ss_pred HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999999998--399499999986342999988755899944899999999 Q gi|254781147|r 20 MIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 20 ~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) .++..-++...+. .+.|..++|+.+|||++++..+..+|...-...+....+ T Consensus 11 ~Il~AA~~lf~e~G~~~~s~~~IA~~AGvs~~~iy~yF~sK~~L~~a~~~~~~~ 64 (213) T 3ni7_A 11 AIVDTAVELAAHTSWEAVRLYDIAARLAVSLDEIRLYFREKDELIDAWFDRADS 64 (213) T ss_dssp HHHHHHHHHHHHSCSTTCCHHHHHHHTTSCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHCCCHHHHHHHCCCCCCHHHHHHHHHHH T ss_conf 999999999998697687899999990999999987469975216899887899 No 225 >1i1g_A Transcriptional regulator LRPA; helix-turn-helix, LRP/ASNC family; 2.90A {Pyrococcus furiosus} SCOP: a.4.5.32 d.58.4.2 Probab=73.21 E-value=2.9 Score=21.10 Aligned_cols=30 Identities=17% Similarity=0.292 Sum_probs=25.2 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 999999998399499999986342999988 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) +-|+.+.+....|..++|+.+|+|++++.+ T Consensus 8 ~Il~~L~~d~r~s~~~ia~~~gls~~tv~~ 37 (141) T 1i1g_A 8 IILEILEKDARTPFTEIAKKLGISETAVRK 37 (141) T ss_dssp HHHHHHHHCTTCCHHHHHHHHTSCHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 999999984898999999998929999999 No 226 >3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua} Probab=73.13 E-value=2.5 Score=21.52 Aligned_cols=30 Identities=20% Similarity=0.217 Sum_probs=25.3 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+...-+.|+.++|+.+|+++++++++ T Consensus 42 iL~~l~~~~~~t~~~La~~l~i~~~~vs~~ 71 (143) T 3oop_A 42 VLEGIEANEPISQKEIALWTKKDTPTVNRI 71 (143) T ss_dssp HHHHHHHHSSEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999998689979999999989699799999 No 227 >1rkt_A Protein YFIR; transcription regulator, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.95A {Bacillus subtilis} SCOP: a.4.1.9 a.121.1.1 Probab=73.13 E-value=5.1 Score=19.67 Aligned_cols=52 Identities=10% Similarity=0.056 Sum_probs=34.9 Q ss_pred HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999999998--399499999986342999988755899944899999999 Q gi|254781147|r 20 MIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 20 ~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) .++..-+.-+.+. .+.|..++|+.+|||++++.++..++-..=...+..+.+ T Consensus 16 ~Il~aA~~lf~~~G~~~~t~~~Ia~~agvs~~tlY~~F~~Ke~L~~~~~~~~~~ 69 (205) T 1rkt_A 16 EILEAAKTVFKRKGFELTTMKDVVEESGFSRGGVYLYFSSTEEMFRRIIETGLD 69 (205) T ss_dssp HHHHHHHHHHHHHCSTTCCHHHHHHHHTSCHHHHHTTCSCHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH T ss_conf 999999999997491518799999986898574115789999999999999999 No 228 >3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp} Probab=73.03 E-value=3.4 Score=20.70 Aligned_cols=28 Identities=11% Similarity=-0.107 Sum_probs=23.1 Q ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 9998399499999986342999988755 Q gi|254781147|r 29 IRKEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 29 ~R~~~gltq~ela~~~gis~~~is~iE~ 56 (83) .+.-.|+|.+|+|+.+|+|.+++++.-+ T Consensus 119 ~~~~~g~s~~EIA~~lgis~~~V~~~~~ 146 (164) T 3mzy_A 119 TYLIRGYSYREIATILSKNLKSIDNTIQ 146 (164) T ss_dssp HHHTTTCCHHHHHHHHTCCHHHHHHHHH T ss_pred HHHHHCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 7656238999999998919999999999 No 229 >2rek_A Putative TETR-family transcriptional regulator; sulfur, SAD, structural genomics, PSI-2, protein structure initiative; 1.86A {Streptomyces coelicolor A3} Probab=72.97 E-value=4.7 Score=19.87 Aligned_cols=39 Identities=13% Similarity=0.053 Sum_probs=30.1 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 399499999986342999988755899944899999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) -+.|..++|+.+|||.+++..+..+|-.+=...+..... T Consensus 34 ~~~T~~~IA~~aGvs~~tlY~~F~sKe~L~~a~~~~~~~ 72 (199) T 2rek_A 34 ADASLEEIARRAGVGSATLHRHFPSRWGLLQAVFQERVA 72 (199) T ss_dssp GGCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 788899999997919999987758998899999999999 No 230 >3kcc_A Catabolite gene activator; helix-turn-helix, CAMP, CAMP-binding, DNA- binding, nucleotide-binding, transcription; HET: CMP; 1.66A {Escherichia coli k-12} PDB: 3fwe_A 1g6n_A* 2cgp_A* 3hif_A 1i5z_A* 1j59_A* 1lb2_A* 1run_A* 1zrc_A* 1zrd_A* 1zre_A* 1zrf_A* 2gzw_A* 2wc2_A 3iyd_G* 1hw5_A* 1ruo_A* 1i6x_A* 1cgp_A* 1o3t_A* ... Probab=72.73 E-value=1.9 Score=22.26 Aligned_cols=21 Identities=24% Similarity=0.449 Sum_probs=19.1 Q ss_pred CCCHHHHHHHHHHHHHHHHHH Q ss_conf 994999999863429999887 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 34 gltq~ela~~~gis~~~is~i 54 (83) .+||+++|..+|+|+.+++++ T Consensus 217 ~lt~~~LA~~lG~sr~tvsR~ 237 (260) T 3kcc_A 217 KITRQEIGQIVGCSRETVGRI 237 (260) T ss_dssp ECCHHHHHHHHTCCHHHHHHH T ss_pred CCCHHHHHHHHCCCHHHHHHH T ss_conf 689999999979989999999 No 231 >3g1l_A Transcriptional regulatory repressor protein (TETR-family) EThr; DNA-binding, transcription regulation; HET: RF2; 1.70A {Mycobacterium tuberculosis} PDB: 3g1o_A* Probab=72.66 E-value=0.99 Score=23.88 Aligned_cols=39 Identities=8% Similarity=0.122 Sum_probs=29.7 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 399499999986342999988755899944899999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) .+.|..++|+.+|||.+++..+..+|...-...+..+.+ T Consensus 63 ~~~Tl~~IA~~aGvs~~tlY~~F~sK~~L~~av~~~~~~ 101 (256) T 3g1l_A 63 ADISVDDLAKGAGISRPTFYFYFPSKEAVLLTLLDRVVN 101 (256) T ss_dssp GGCCHHHHHHHHTCCHHHHHHHCSCHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 517699999998909999988828899999999999999 No 232 >3la7_A Global nitrogen regulator; activator, DNA-binding, transcription, transcription regulation; HET: BOG; 1.90A {Anabaena} PDB: 3la2_A* 3la3_A* 2xko_A* 2xgx_A* 2xhk_A* 2xkp_A* Probab=72.64 E-value=2 Score=22.06 Aligned_cols=21 Identities=24% Similarity=0.397 Sum_probs=19.7 Q ss_pred CCCHHHHHHHHHHHHHHHHHH Q ss_conf 994999999863429999887 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 34 gltq~ela~~~gis~~~is~i 54 (83) .+||+++|..+|+++.+++++ T Consensus 193 ~lt~~~LA~~lGisr~tvsR~ 213 (243) T 3la7_A 193 KLSHQAIAEAIGSTRVTVTRL 213 (243) T ss_dssp CCCHHHHHHHHTCCHHHHHHH T ss_pred CHHHHHHHHHHCCCHHHHHHH T ss_conf 525999988879999999999 No 233 >3dpj_A Transcription regulator, TETR family; APC88616, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; HET: MES; 1.90A {Silicibacter pomeroyi} Probab=72.38 E-value=5.3 Score=19.56 Aligned_cols=51 Identities=12% Similarity=0.036 Sum_probs=35.6 Q ss_pred HHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 999999999998--399499999986342999988755899944899999999 Q gi|254781147|r 21 IFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 21 ~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) ++..-++-+.+. .+.|..++|+.+|||++++..+..++...=...+..+.+ T Consensus 13 Il~aa~~l~~~~G~~~~s~~~IA~~agvs~~~~Y~~F~sK~~L~~~~~~~~~~ 65 (194) T 3dpj_A 13 IVAAADELFYRQGFAQTSFVDISAAVGISRGNFYYHFKTKDEILAEVIRLRLA 65 (194) T ss_dssp HHHHHHHHHHHHCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCHHHHHCCCHHHHHHHHHHHHHH T ss_conf 99999999997492518899999986829126888759999999999999999 No 234 >2cfx_A HTH-type transcriptional regulator LRPC; transcriptional regulation, DNA binding, FFRP; 2.4A {Bacillus subtilis} SCOP: a.4.5.32 d.58.4.2 Probab=72.37 E-value=3.1 Score=20.91 Aligned_cols=29 Identities=14% Similarity=0.424 Sum_probs=25.3 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 99999998399499999986342999988 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) -|..+.+.-.+|..++|+.+|+|.+++.+ T Consensus 10 Il~~L~~n~R~s~~eiA~~~g~s~~tv~~ 38 (144) T 2cfx_A 10 IIEELKKDSRLSMRELGRKIKLSPPSVTE 38 (144) T ss_dssp HHHHHHHCSCCCHHHHHHHHTCCHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 99999983899999999998929899999 No 235 >3i4p_A Transcriptional regulator, ASNC family; PSI, structural genomics, protein structure initiative; 2.30A {Agrobacterium tumefaciens str} Probab=72.11 E-value=2 Score=22.12 Aligned_cols=29 Identities=10% Similarity=0.280 Sum_probs=25.4 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHH Q ss_conf 99999999839949999998634299998 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWIS 52 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is 52 (83) +-|+.+.+...+|..++|+.+|+|.+++. T Consensus 7 ~IL~~L~~d~R~s~~eiA~~lglS~~tv~ 35 (162) T 3i4p_A 7 KILRILQEDSTLAVADLAKKVGLSTTPCW 35 (162) T ss_dssp HHHHHHTTCSCSCHHHHHHHHTCCHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHH T ss_conf 99999998489999999999892999999 No 236 >3nqo_A MARR-family transcriptional regulator; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE PG4; 2.20A {Clostridium difficile} Probab=71.87 E-value=1.9 Score=22.14 Aligned_cols=23 Identities=26% Similarity=0.361 Sum_probs=20.8 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 83994999999863429999887 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~i 54 (83) +.++|+.++|+.+|+++++++++ T Consensus 55 ~~~~t~~eLa~~l~i~~stvs~~ 77 (189) T 3nqo_A 55 EEETTLNNIARKMGTSKQNINRL 77 (189) T ss_dssp GGGCCHHHHHHHHTSCHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99909999999989688699999 No 237 >2g7g_A RHA04620, putative transcriptional regulator; helix-turn-helix, structural genomics, PSI, protein structure initiative; 2.01A {Rhodococcus SP} SCOP: a.4.1.9 a.121.1.1 Probab=71.77 E-value=2.1 Score=21.95 Aligned_cols=49 Identities=8% Similarity=0.066 Sum_probs=33.6 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 9999999999983994999999863429999887558999448999999 Q gi|254781147|r 21 IFVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 21 ~~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) ++-.-.+-+.+.-+.|..++|+.+|||.+++..+..+|..+=...+..+ T Consensus 16 Il~aA~~lf~e~G~~S~~~IA~~aGvs~~tlY~yF~sKe~L~~av~~~~ 64 (213) T 2g7g_A 16 IAEAALELVDRDGDFRMPDLARHLNVQVSSIYHHAKGRAAVVELVRHRV 64 (213) T ss_dssp HHHHHHHHHHHHSSCCHHHHHHHTTSCHHHHHTTSCHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHH T ss_conf 9999999999829862999999969687789988799899999999999 No 238 >2o0y_A Transcriptional regulator; ICLR-family, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 2.00A {Rhodococcus SP} Probab=71.74 E-value=0.81 Score=24.41 Aligned_cols=54 Identities=17% Similarity=0.271 Sum_probs=31.3 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHH-HHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 96988888868989999999999999999-9983994999999863429999887 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNI-RKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~-R~~~gltq~ela~~~gis~~~is~i 54 (83) ||....+.|..++...+.-..-..-|..+ ....++|..|+|+.+|++++++.++ T Consensus 4 ~p~d~~~~p~~~~~gv~sl~Ral~ILe~l~~~~~~~~l~eia~~lgl~~sT~~Rl 58 (260) T 2o0y_A 4 VPTDSAEKPAVADAGVRSVTRVIDLLELFDAAHPTRSLKELVEGTKLPKTTVVRL 58 (260) T ss_dssp --------------CCHHHHHHHHHHTTCBTTBSSBCHHHHHHHHCCCHHHHHHH T ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999777987778864299999999999974799989999999979199999999 No 239 >2nyx_A Probable transcriptional regulatory protein, RV1404; alpha/beta, structural genomics, PSI-2, protein structure initiative; 2.30A {Mycobacterium tuberculosis H37RV} Probab=71.70 E-value=2.8 Score=21.18 Aligned_cols=30 Identities=7% Similarity=0.110 Sum_probs=24.9 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+...-++|+.++|+.+|++.++++++ T Consensus 50 vL~~l~~~~~~~~~eLa~~l~i~~~~vs~~ 79 (168) T 2nyx_A 50 TLVILSNHGPINLATLATLLGVQPSATGRM 79 (168) T ss_dssp HHHHHHHHCSEEHHHHHHHHTSCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999679969999999989698899999 No 240 >1s3j_A YUSO protein; structural genomics, MARR transcriptional regulator family, PSI, protein structure initiative; HET: MSE; 2.25A {Bacillus subtilis} SCOP: a.4.5.28 Probab=71.69 E-value=2.3 Score=21.71 Aligned_cols=30 Identities=20% Similarity=0.295 Sum_probs=25.4 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+....++|+.++|+.+++++++++++ T Consensus 42 vL~~l~~~~~~t~~ela~~~~~~~~~vs~~ 71 (155) T 1s3j_A 42 VLASLKKHGSLKVSEIAERMEVKPSAVTLM 71 (155) T ss_dssp HHHHHHHHSEEEHHHHHHHHTSCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999869979999999989699899999 No 241 >1ntc_A Protein (nitrogen regulation protein (NTRC)); helix-turn-helix, FIS, four-helix bundle, transcription regulation; NMR {Salmonella typhimurium} SCOP: a.4.1.12 Probab=71.68 E-value=2.4 Score=21.61 Aligned_cols=31 Identities=6% Similarity=0.106 Sum_probs=27.2 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 9999999998399499999986342999988 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) ...|+..-+..++.+.+.|+.+||+++++.+ T Consensus 53 r~lI~~aL~~~~Gn~~~AA~~LGI~R~TL~~ 83 (91) T 1ntc_A 53 RTLLTTALRHTQGHKQEAARLLGWGAATLTA 83 (91) T ss_dssp HHHHHHHHHHTTTCTTHHHHHTTCCHHHHHH T ss_pred HHHHHHHHHHHCCCHHHHHHHHCCCHHHHHH T ss_conf 9999999999689599999997989999999 No 242 >2zcm_A Biofilm operon icaabcd HTH-type negative transcriptional regulator ICAR; helix-turn-helix, TETR family, repressor; 1.33A {Staphylococcus epidermidis RP62A} PDB: 2zcn_A Probab=71.67 E-value=3.3 Score=20.78 Aligned_cols=45 Identities=9% Similarity=-0.048 Sum_probs=31.7 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 999999839949999998634299998875589994489999999 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) +-.-.--.+.|..++|+.+|||++++.++..++-..=...+..+. T Consensus 19 l~~~~G~~~~t~~~IA~~agvs~~~lY~~F~sKe~L~~~~~~~~~ 63 (192) T 2zcm_A 19 LFSEKGYDGTTLDDISKSVNIKKASLYYHYDNKEEIYRKSVENCF 63 (192) T ss_dssp HHHHHCTTTCCHHHHHHHTTCCHHHHHHHTCCHHHHHHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHH T ss_conf 999749262779999998890988997887999999999999999 No 243 >3bqz_B HTH-type transcriptional regulator QACR; multidrug resistance, TETR, malachite green, DNA- binding, plasmid, repressor; HET: MGR; 2.17A {Staphylococcus aureus} PDB: 3br1_B* 3br3_B* 1rkw_B* 1jt0_A* 1jty_B* 1jum_B* 1jup_B* 1jtx_B* 1jus_B* 2dtz_B 2gby_B* 2hq5_B 3br2_B* 3br5_B* 1qvt_B* 1qvu_B* 3br0_B* 3br6_B* 1jt6_B* 1rpw_A* ... Probab=71.47 E-value=2.9 Score=21.11 Aligned_cols=49 Identities=10% Similarity=-0.053 Sum_probs=34.1 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) +..+-.-+--.+.|..++|+.+|||++++..+-.++...=...+....+ T Consensus 11 A~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~ 59 (194) T 3bqz_B 11 AKELFIKNGYNATTTGEIVKLSESSKGNLYYHFKTKENLFLEILNIEES 59 (194) T ss_dssp HHHHHHHHTTTTCCHHHHHHHTTCCHHHHHHHTSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 9999997693306799999997909998814378999999999999899 No 244 >2d6y_A Putative TETR family regulatory protein; helix-turn-helix, gene regulation; HET: TLA; 2.30A {Streptomyces coelicolor A3} SCOP: a.4.1.9 a.121.1.1 Probab=71.19 E-value=3.3 Score=20.77 Aligned_cols=46 Identities=9% Similarity=-0.125 Sum_probs=32.8 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMII 68 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~ 68 (83) +..+-.-+--.++|..++|+.+|+|.+++..+..+|...=...+.. T Consensus 17 A~~l~~e~G~~~~t~~~IA~~agvs~~tlY~~F~sKe~L~~av~~~ 62 (202) T 2d6y_A 17 AVAEFARHGIAGARIDRIAAEARANKQLIYAYYGNKGELFASVLEK 62 (202) T ss_dssp HHHHHHHHTTTSCCHHHHHHHHTCCHHHHHHHHSSHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHH T ss_conf 9999997590408799999997909889968869999999999999 No 245 >2hr3_A Probable transcriptional regulator; MCSG, structural genomics, PSI-2, protein structure initiati midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa} SCOP: a.4.5.28 Probab=71.11 E-value=3.5 Score=20.60 Aligned_cols=31 Identities=16% Similarity=0.180 Sum_probs=23.9 Q ss_pred HHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999983-994999999863429999887 Q gi|254781147|r 24 NNFRNIRKEA-KLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 24 ~~ir~~R~~~-gltq~ela~~~gis~~~is~i 54 (83) .-|..+-... .+|+.++|+.+|++.++++++ T Consensus 39 ~vL~~i~~~~g~~t~~ela~~~~~~~~tvs~~ 70 (147) T 2hr3_A 39 VVLGAIDRLGGDVTPSELAAAERMRSSNLAAL 70 (147) T ss_dssp HHHHHHHHTTSCBCHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99999997699989999999989798799999 No 246 >2i10_A Putative TETR transcriptional regulator; structural genomics, APC5890, TETR family, PSI-2, protein structure initiative; HET: MSE NPO PGE; 2.05A {Rhodococcus SP} SCOP: a.4.1.9 a.121.1.1 Probab=71.04 E-value=1.4 Score=22.90 Aligned_cols=40 Identities=5% Similarity=-0.061 Sum_probs=29.5 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH Q ss_conf 9999998399499999986342999988755899944899 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDN 65 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~ 65 (83) +-.-.--.+.|..++|+.+|||++++..+..++...=... T Consensus 23 l~~~~G~~~~ti~~IA~~agvs~~t~Y~~F~sK~~L~~a~ 62 (202) T 2i10_A 23 LFWRQGYEGTSITDLTKALGINPPSLYAAFGSKRDLFEKT 62 (202) T ss_dssp HHHHHTTTTCCHHHHHHHHTCCHHHHHHHHCSHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHH T ss_conf 9998691407699999997909999977618999999999 No 247 >3kkc_A TETR family transcriptional regulator; APC20805, structural genomics, PSI-2, protein structure initiative; 2.50A {Streptococcus agalactiae 2603V} Probab=70.84 E-value=1.8 Score=22.32 Aligned_cols=54 Identities=19% Similarity=0.176 Sum_probs=35.4 Q ss_pred HHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9999999999998---39949999998634299998875589994489999999992 Q gi|254781147|r 20 MIFVNNFRNIRKE---AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 20 ~~~g~~ir~~R~~---~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) ..+......+-.+ .+.|..++|+.+|||++++..+-.++...-...+..+.+.+ T Consensus 15 ~~I~~aa~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~ 71 (177) T 3kkc_A 15 VAIYNAFISLLQENDYSKITVQDVIGLANVGRSTFYSHYESKEVLLKELCEDLFHHL 71 (177) T ss_dssp HHHHHHHHHHTTTSCTTTCCHHHHHHHHCCCHHHHTTTCSSTHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 999999999998869740769999999797877743658988999999999989999 No 248 >3e6c_C CPRK, cyclic nucleotide-binding protein; CPRK, halorespiration; HET: DNA 3C4; 1.80A {Desulfitobacterium hafniense} SCOP: a.4.5.4 b.82.3.2 PDB: 3e6b_A* 3e5u_C* 3e6d_A 3e5x_A* 3e5q_A 2h6b_A* 2h6c_A Probab=70.73 E-value=2.4 Score=21.65 Aligned_cols=40 Identities=25% Similarity=0.313 Sum_probs=28.9 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH-----HCC-------C-CCCCHHHHHHHHHH Q ss_conf 3994999999863429999887-----558-------9-99448999999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL-----ETG-------K-STINIDNMIILAHT 72 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i-----E~G-------~-~~~~~~~l~~la~a 72 (83) ..+|++++|..+|+|+.+++++ +.| + .-.+.+.|..+|+- T Consensus 176 ~~lt~~~LA~~lgisr~tvsR~l~~L~~~giI~~~~~~i~I~d~~~L~~~a~~ 228 (250) T 3e6c_C 176 MPLSQKSIGEITGVHHVTVSRVLASLKRENILDKKKNKIIVYNLGELKHLSEQ 228 (250) T ss_dssp CCCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECSSEEEESCHHHHHHHHTS T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHHHHHHHCC T ss_conf 88689999989799999999999999988989964999998789999998757 No 249 >3e7q_A Transcriptional regulator; structural genomics, PSI, MCSG, protein structure initiative, midwest center for structural genomics; 2.20A {Pseudomonas aeruginosa} Probab=70.63 E-value=1.6 Score=22.58 Aligned_cols=50 Identities=10% Similarity=0.096 Sum_probs=35.4 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 99999999983994999999863429999887558999448999999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) +..+-.-+--.+.|..++|+.+|+|++++..+..++...-...+..+... T Consensus 23 A~~l~~~~G~~~~s~~~Ia~~agvs~~tlY~~F~sKe~L~~~v~~~~~~~ 72 (215) T 3e7q_A 23 TLACLKRHGFQGASVRKICAEAGVSVGLINHHYDGKDALVAEAYLAVTGR 72 (215) T ss_dssp HHHHHHHHHHHHCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 99999974904077999999979398899988688899999999999988 No 250 >2pz9_A Putative regulatory protein; structural genomics, transcriptional regulator, PSI, protein structure initiative; 2.80A {Streptomyces coelicolor A3} Probab=70.63 E-value=2.8 Score=21.18 Aligned_cols=48 Identities=6% Similarity=-0.103 Sum_probs=35.2 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 999999999839949999998634299998875589994489999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) +..+-.-+--.++|..++|+.+|||.++|.++..+|...=...+.... T Consensus 39 A~~lf~~~G~~~~T~~~IA~~aGvs~~tlY~~F~~K~~Ll~a~~~~~~ 86 (226) T 2pz9_A 39 AKEEFARHGIAGARVDRIAKQARTSKERVYAYFRSKEALYAHVAERET 86 (226) T ss_dssp HHHHHHHHHHHHCCHHHHHHHTTSCHHHHHHHCSSHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHH T ss_conf 999999859241889999999693875797885999999999999999 No 251 >2ovg_A Phage lambda CRO; transcription factor, helix-turn-helix, bacteriophage, flexibility; 1.35A {Enterobacteria phage lambda} PDB: 2ecs_A 1cop_D 4cro_A* 5cro_O 1orc_A 2orc_A 2a63_A 1d1l_A 6cro_A* 3orc_A* 1d1m_B Probab=70.50 E-value=2 Score=22.06 Aligned_cols=34 Identities=15% Similarity=0.071 Sum_probs=26.4 Q ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 999998399499999986342999988755899944 Q gi|254781147|r 27 RNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTIN 62 (83) Q Consensus 27 r~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~ 62 (83) ..+-.+.| |.+.|+.+||.++.||+--+..+++. T Consensus 8 ~dyv~~~G--Q~k~A~~lGV~q~AIsKAlragR~I~ 41 (66) T 2ovg_A 8 KDYAMRFG--QTKTAKDLGVYPSSINQAIHAGRKIF 41 (66) T ss_dssp HHHHHHHC--HHHHHHHHTSCHHHHHHHHHHTCEEE T ss_pred HHHHHHHC--HHHHHHHCCCCHHHHHHHHHCCCEEE T ss_conf 99999978--59999990976899999997598179 No 252 >3bj6_A Transcriptional regulator, MARR family; helix-turn-helix, trasnscription regulator, structural genomics, PSI-2; 2.01A {Silicibacter pomeroyi dss-3} Probab=70.48 E-value=2.5 Score=21.47 Aligned_cols=30 Identities=10% Similarity=0.189 Sum_probs=25.0 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+...-++|+.+||+.+++++++++++ T Consensus 45 vL~~l~~~~~~t~~~La~~l~~~~~~is~~ 74 (152) T 3bj6_A 45 ILEGLSLTPGATAPQLGAALQMKRQYISRI 74 (152) T ss_dssp HHHHHHHSTTEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999879989999999989698799999 No 253 >2e1c_A Putative HTH-type transcriptional regulator PH1519; DNA-binding; HET: DNA; 2.10A {Pyrococcus horikoshii OT3} SCOP: a.4.5.32 d.58.4.2 PDB: 1ri7_A* 2zny_A* 2znz_A* Probab=70.44 E-value=3.7 Score=20.50 Aligned_cols=31 Identities=29% Similarity=0.386 Sum_probs=26.7 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 9999999998399499999986342999988 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) -+-|+.+.+.-..|..++|+.+|+|.+++.+ T Consensus 30 ~~IL~~L~~d~R~s~~~iA~~lglS~~tV~~ 60 (171) T 2e1c_A 30 KKIIKILQNDGKAPLREISKITGLAESTIHE 60 (171) T ss_dssp HHHHHHHHHCTTCCHHHHHHHHTSCHHHHHH T ss_pred HHHHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 9999999983899999999998919999999 No 254 >1ub9_A Hypothetical protein PH1061; helix-turn-helix motif, winged helix motif, structural genomics, transcription; 2.05A {Pyrococcus horikoshii OT3} SCOP: a.4.5.28 Probab=70.25 E-value=2.4 Score=21.62 Aligned_cols=29 Identities=7% Similarity=0.015 Sum_probs=25.2 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) +..+....++|+.|+|+.+|++.+++|+. T Consensus 22 L~~L~~~~~~t~~eLa~~l~is~~~vs~~ 50 (100) T 1ub9_A 22 MIFLLPRRKAPFSQIQKVLDLTPGNLDSH 50 (100) T ss_dssp HHHHHHHSEEEHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99985189983999999989199899999 No 255 >2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F* 2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H 1ku2_A 3lev_A* 3les_A* Probab=69.79 E-value=1.4 Score=22.94 Aligned_cols=26 Identities=19% Similarity=0.242 Sum_probs=22.8 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 83994999999863429999887558 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G 57 (83) ...+|++|+|+..|||+..|++||.- T Consensus 378 ~~~~Tl~EIg~~lgvSreRVrQIe~~ 403 (423) T 2a6h_F 378 GREHTLEEVGAFFGVTRERIRQIENK 403 (423) T ss_dssp C-----CHHHHSSSSCHHHHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 98603999999989799999999999 No 256 >2l1p_A DNA-binding protein SATB1; PSI-2, NESG, structural genomics, protein structure initiati northeast structural genomics consortium; NMR {Homo sapiens} PDB: 3nzl_A* Probab=69.53 E-value=2.6 Score=21.34 Aligned_cols=40 Identities=18% Similarity=0.283 Sum_probs=30.2 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCH Q ss_conf 999999999983994999999863429999887558999448 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINI 63 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~ 63 (83) +-..++.+ -+.|+|..||+.|-++++.||.|-|+..-.++ T Consensus 22 VrnAlk~L--LkemnQS~LakecpLsQSmiSsIVNstyyanv 61 (83) T 2l1p_A 22 VRNALKDL--LKDMNQSSLAKECPLSQSMISSIVNSTYYANV 61 (83) T ss_dssp HHHHHHHH--HTTSCHHHHHHHSSSCHHHHHHHHTCSSCCCC T ss_pred HHHHHHHH--HHHHHHHHHHHHCCCHHHHHHHHHCCCCEEEC T ss_conf 99999999--99961888877088189999999844000203 No 257 >3oio_A Transcriptional regulator (ARAC-type DNA-binding containing proteins); PSI-2, midwest center for structural genomics; 1.65A {Chromobacterium violaceum} Probab=69.47 E-value=4.1 Score=20.22 Aligned_cols=35 Identities=14% Similarity=0.092 Sum_probs=26.8 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH Q ss_conf 98399499999986342999988755899944899 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDN 65 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~ 65 (83) ....+|.+++|+.+|+|.+++++.-+.....+... T Consensus 20 ~~~~~~~~~lA~~~~~s~~~l~r~fk~~~g~s~~~ 54 (113) T 3oio_A 20 IEEPLSTDDIAYYVGVSRRQLERLFKQYLGTVPSK 54 (113) T ss_dssp SSSCCCHHHHHHHHTSCHHHHHHHHHHHTSSCHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHHHHHCCCCCHHH T ss_conf 58999999999998919999999998607999999 No 258 >3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix motif, DNA-binding, transcription, transcription regulation; 2.40A {Staphylococcus aureus} Probab=69.45 E-value=1.9 Score=22.14 Aligned_cols=24 Identities=25% Similarity=0.270 Sum_probs=21.4 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ...|+|+.++|+.+++++++++++ T Consensus 44 ~~~~~t~~ela~~l~~~~~tvs~~ 67 (139) T 3eco_A 44 QQDGLTQNDIAKALQRTGPTVSNL 67 (139) T ss_dssp TTTCEEHHHHHHHHTCCHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999969999999989688789999 No 259 >3cdl_A Transcriptional regulator AEFR; APC88582, TETR, pseudomonas syringae PV. tomato STR. DC3000, structural genomics, PSI-2; HET: MSE; 2.36A {Pseudomonas syringae PV} Probab=69.32 E-value=2.5 Score=21.44 Aligned_cols=48 Identities=10% Similarity=-0.055 Sum_probs=34.3 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 999999839949999998634299998875589994489999999992 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) +-.-+--.+.|..++|+.+|||.+++..+..++-..-...+..+.+.+ T Consensus 21 lf~~~G~~~~ti~~Ia~~agvs~~tiY~~F~sKe~L~~~~~~~~~~~~ 68 (203) T 3cdl_A 21 EFGDRGFEITSMDRIAARAEVSKRTVYNHFPSKEELFAEMLQRLWNCA 68 (203) T ss_dssp HHHHHCTTTCCHHHHHHHTTSCHHHHHTTSSSHHHHHHHHHHHHHHTC T ss_pred HHHHHCCCCCCHHHHHHHHCCCCCCHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 999759050789999998685955255218986999999999999999 No 260 >1ku9_A Hypothetical protein MJ223; putative transcription factor, homodimeric winged-helix fold, structural genomics, PSI; 2.80A {Methanocaldococcus jannaschii} SCOP: a.4.5.36 Probab=69.20 E-value=2 Score=22.01 Aligned_cols=24 Identities=17% Similarity=0.169 Sum_probs=21.0 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ...++|+.|+|+.+|++++++|++ T Consensus 38 ~~~p~t~~eLa~~l~is~s~vs~~ 61 (152) T 1ku9_A 38 SDKPLTISDIMEELKISKGNVSMS 61 (152) T ss_dssp CSSCEEHHHHHHHHTCCHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 698929999999989688579999 No 261 >3hh0_A Transcriptional regulator, MERR family; protein structure initiative II(PSI II), NYSGXRC, 11183J, structural genomics; 2.67A {Bacillus cereus atcc 14579} Probab=69.07 E-value=2.3 Score=21.69 Aligned_cols=49 Identities=10% Similarity=-0.050 Sum_probs=30.8 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCC-CCCC-----------CHHH-----HHHHHHHHCCCHHHH Q ss_conf 83994999999863429999887558-9994-----------4899-----999999928999996 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETG-KSTI-----------NIDN-----MIILAHTLDTPLWKL 80 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G-~~~~-----------~~~~-----l~~la~al~i~~~~l 80 (83) ...+|..++|+.+|||..+|.-||.- --.| +.+. ..+.++.+|+++.+. T Consensus 2 ~~~Y~Igeva~~~gvs~~TLRyYe~~GLl~P~~r~~~gyR~Yt~~dl~~l~~I~~lr~~G~sl~eI 67 (146) T 3hh0_A 2 SLAWLISEFASVGDVTVRALRYYDKINLLKPSDYTEGGHRLYTKDDLYVLQQIQSFKHLGFSLGEI 67 (146) T ss_dssp -CCBCHHHHHHHHTCCHHHHHHHHHTTSSCCSEECTTSCEEBCHHHHHHHHHHHHHHHTTCCHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 987739999999895988999999879989770089997226899999999999999969999999 No 262 >3e97_A Transcriptional regulator, CRP/FNR family; YP_604437.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.86A {Deinococcus geothermalis dsm 11300} Probab=68.86 E-value=2.7 Score=21.27 Aligned_cols=21 Identities=24% Similarity=0.321 Sum_probs=19.4 Q ss_pred CCCHHHHHHHHHHHHHHHHHH Q ss_conf 994999999863429999887 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 34 gltq~ela~~~gis~~~is~i 54 (83) .+||+++|..+|+++.+++++ T Consensus 175 ~lt~~~iA~~lg~sr~tvsR~ 195 (231) T 3e97_A 175 PLGTQDIMARTSSSRETVSRV 195 (231) T ss_dssp CCCHHHHHHHHTCCHHHHHHH T ss_pred CCCHHHHHHHHCCCHHHHHHH T ss_conf 769999998869989999999 No 263 >2cg4_A Regulatory protein ASNC; DNA binding, FFRP, LRP family, transcription, DNA- binding, transcription regulation; 2.4A {Escherichia coli} SCOP: a.4.5.32 d.58.4.2 Probab=68.86 E-value=4.1 Score=20.24 Aligned_cols=30 Identities=13% Similarity=0.169 Sum_probs=25.5 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 999999998399499999986342999988 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~ 53 (83) +-|+.+.+.-.+|..++|+.+|+|.+++.+ T Consensus 12 ~Il~~L~~d~R~s~~~ia~~lg~s~~tv~~ 41 (152) T 2cg4_A 12 GILEALMGNARTAYAELAKQFGVSPETIHV 41 (152) T ss_dssp HHHHHHHHCTTSCHHHHHHHHTSCHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHH T ss_conf 999999984899999999998919999999 No 264 >3dv8_A Transcriptional regulator, CRP/FNR family; RER070207001219, structural genomics, joint center for structural genomics, JCSG; 2.55A {Eubacterium rectale atcc 33656} Probab=68.75 E-value=6.4 Score=19.08 Aligned_cols=38 Identities=24% Similarity=0.365 Sum_probs=27.4 Q ss_pred CCCHHHHHHHHHHHHHHHHHH-----HCC-------CC-CCCHHHHHHHHH Q ss_conf 994999999863429999887-----558-------99-944899999999 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISEL-----ETG-------KS-TINIDNMIILAH 71 (83) Q Consensus 34 gltq~ela~~~gis~~~is~i-----E~G-------~~-~~~~~~l~~la~ 71 (83) .+|++++|..+|+++.+++++ +.| +. ..+.+.|..|++ T Consensus 169 ~~t~~~lA~~lg~sr~tvsr~l~~L~~~g~I~~~~~~i~I~d~~~L~~l~~ 219 (220) T 3dv8_A 169 KITHETIANHLGSHREVITRMLRYFQVEGLVKLSRGKITILDSKRLETLQR 219 (220) T ss_dssp CCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEESCHHHHHHHHH T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHHHHHHHC T ss_conf 899999999979899999999999998898997299999888999999844 No 265 >2eh3_A Transcriptional regulator; all alpha proteins, tetracyclin repressor-like, C-terminal domain, homeodomain-like; 1.55A {Aquifex aeolicus VF5} Probab=68.30 E-value=2.5 Score=21.48 Aligned_cols=42 Identities=10% Similarity=-0.023 Sum_probs=31.2 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 983994999999863429999887558999448999999999 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) --.+.|..++|+.+|||++++..+..++...-...+....+. T Consensus 19 G~~~~t~~~Ia~~agvs~~tiY~~F~~K~~L~~a~~~~~~~~ 60 (179) T 2eh3_A 19 GYQGTSVEEIVKRANLSKGAFYFHFKSKEELITEIIERTHKK 60 (179) T ss_dssp CSTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCCCCHHHHCCCHHHHHHHHHHHHHHH T ss_conf 925076999999878496521442899999999999999999 No 266 >3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class I, activator, RNA polymerase, holoenzyme, sigma70, open complex, CAP, CRP, CAMP-dependent; HET: DNA CMP; 19.80A {Escherichia coli k-12} Probab=68.25 E-value=0.51 Score=25.57 Aligned_cols=32 Identities=16% Similarity=0.235 Sum_probs=26.0 Q ss_pred HHHHHH----HCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 999999----83994999999863429999887558 Q gi|254781147|r 26 FRNIRK----EAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 26 ir~~R~----~~gltq~ela~~~gis~~~is~iE~G 57 (83) |-.+|- ..++|++++|+..|||+..|++||+- T Consensus 558 vi~~r~~~~~~~~~t~~ei~~~~~vs~~rv~qi~~~ 593 (613) T 3iyd_F 558 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 593 (613) T ss_dssp HHHHHHTSSSCCCCSTTGGGTTTSSCSSHHHHHHHH T ss_pred HHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHH T ss_conf 999981899999845999999989599999999999 No 267 >3dew_A Transcriptional regulator, TETR family; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; HET: MSE; 1.75A {Geobacter sulfurreducens} Probab=68.02 E-value=4.2 Score=20.18 Aligned_cols=53 Identities=13% Similarity=0.026 Sum_probs=35.2 Q ss_pred HHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 99999999999--839949999998634299998875589994489999999992 Q gi|254781147|r 21 IFVNNFRNIRK--EAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 21 ~~g~~ir~~R~--~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) ++-.-+.-+.+ -.+.|..++|+.+|||.+++..+...+-..=...+..+...+ T Consensus 13 Il~aA~~lf~~~G~~~~s~~~IA~~agvs~~tlY~yF~sKe~L~~av~~~~~~~~ 67 (206) T 3dew_A 13 LMEVATELFAQKGFYGVSIRELAQAAGASISMISYHFGGKEGLYAAVLQEQFACF 67 (206) T ss_dssp HHHHHHHHHHHHCGGGCCHHHHHHHHTCCHHHHHHHSCHHHHHHHHHHHHHHGGG T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9999999999859241789999999695988998881899999977789999999 No 268 >2fxa_A Protease production regulatory protein HPR; protease porduction, regulation, structural genomics, PSI, protein structure initiative; HET: PGE P6G 1PE; 2.40A {Bacillus subtilis} SCOP: a.4.5.28 Probab=67.86 E-value=3.5 Score=20.62 Aligned_cols=29 Identities=10% Similarity=-0.131 Sum_probs=24.1 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) |..+....++|+.++|+.++++.++++++ T Consensus 54 L~~L~~~~~~s~~ela~~~~~~~stvs~~ 82 (207) T 2fxa_A 54 LWIAYQLNGASISEIAKFGVMHVSTAFNF 82 (207) T ss_dssp HHHHHHHTSEEHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99999769949999999988698799999 No 269 >1lj9_A Transcriptional regulator SLYA; HTH DNA binding protein, structural genomics, PSI, protein structure initiative; 1.60A {Enterococcus faecalis} SCOP: a.4.5.28 Probab=67.79 E-value=3.1 Score=20.93 Aligned_cols=30 Identities=7% Similarity=0.087 Sum_probs=24.8 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+...-++|+.++|+.++++.++++++ T Consensus 34 vL~~l~~~~~~t~~~La~~l~i~~~~vs~~ 63 (144) T 1lj9_A 34 YLVRVCENPGIIQEKIAELIKVDRTTAARA 63 (144) T ss_dssp HHHHHHHSTTEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999998489979999999989788899999 No 270 >2fmy_A COOA, carbon monoxide oxidation system transcription regulator COOA-1; DNA transcription regulator, DNA binding protein; HET: HEM; 2.20A {Carboxydothermus hydrogenoformans} PDB: 2hkx_A* Probab=67.64 E-value=3 Score=21.04 Aligned_cols=40 Identities=18% Similarity=0.218 Sum_probs=28.2 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH-----HCC-------C--CCCCHHHHHHHHHH Q ss_conf 3994999999863429999887-----558-------9--99448999999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL-----ETG-------K--STINIDNMIILAHT 72 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i-----E~G-------~--~~~~~~~l~~la~a 72 (83) ..+|++++|..+|+++.+++++ +.| + ...+.+.|.++|.. T Consensus 166 ~~lt~~~lA~~lg~sr~tvsr~l~~l~~~g~I~~~~~~~i~i~d~~~L~~~a~~ 219 (220) T 2fmy_A 166 LGLNTEEIALMLGTTRQTVSVLLNDFKKMGILERVNQRTLLLKDLQKLKEFSSG 219 (220) T ss_dssp CSSCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEESSSSEEEESCHHHHHHHCC- T ss_pred ECCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCEEEECCHHHHHHHHCC T ss_conf 072499999997999999999999999889999769998998999999998678 No 271 >3gpv_A Transcriptional regulator, MERR family; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 1.90A {Bacillus thuringiensis serovarkonkukian} Probab=67.60 E-value=2.4 Score=21.59 Aligned_cols=50 Identities=16% Similarity=0.173 Sum_probs=33.6 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCC-C-----------CHHH-----HHHHHHHHCCCHHHH Q ss_conf 983994999999863429999887558999-4-----------4899-----999999928999996 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKST-I-----------NIDN-----MIILAHTLDTPLWKL 80 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~-~-----------~~~~-----l~~la~al~i~~~~l 80 (83) ...-+|..|+|+.+|||.++|.-||+-.-- | +.+. ..+..+.+|.|+.+. T Consensus 13 ~~m~ytIgevA~~~gvs~~tLRyYE~~GLl~p~~r~~ngyR~Y~~~di~~l~~I~~lr~~G~sL~eI 79 (148) T 3gpv_A 13 NDMYYTIGQVAKMQHLTISQIRYYDKQGLFPFLQRNEKGDRIFNEEALKYLEMILCLKNTGMPIQKI 79 (148) T ss_dssp --CCBCHHHHHHHTTCCHHHHHHHHHTTCCTTCEECTTCCEEBCHHHHHHHHHHHHHHTTTCCHHHH T ss_pred HCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCEECCHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 1577659999999895999999999879918410057886016488899999999999969999999 No 272 >3lhq_A Acrab operon repressor (TETR/ACRR family); structural genomics, IDP02616, csgid, DNA-binding, transcription, transcription regulation; 1.56A {Salmonella enterica subsp} PDB: 3bcg_A 2qop_A Probab=67.14 E-value=6.9 Score=18.89 Aligned_cols=47 Identities=15% Similarity=0.035 Sum_probs=33.0 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 99999983994999999863429999887558999448999999999 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) +-.-+--.+.|..++|+.+|||++++..+...+...=...+..+.+. T Consensus 26 lf~~~G~~~~si~~Ia~~agvs~~t~Y~~F~sK~~L~~~v~~~~~~~ 72 (220) T 3lhq_A 26 LFSQQGVSATSLAEIANAAGVTRGAIYWHFKNKSDLFSEIWELSESN 72 (220) T ss_dssp HHHHHCSTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 99974914065999999979398899988699999999999999999 No 273 >2hxo_A Putative TETR-family transcriptional regulator; TETR transcriptional regulator, structural genomics, PSI-2; 2.40A {Streptomyces coelicolor A3} Probab=67.11 E-value=1.7 Score=22.55 Aligned_cols=52 Identities=17% Similarity=0.052 Sum_probs=35.7 Q ss_pred HHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 9999999999--983994999999863429999887558999448999999999 Q gi|254781147|r 21 IFVNNFRNIR--KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 21 ~~g~~ir~~R--~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) ++..-+..+. --.++|..++|+.+|||.+++..+..+|...-...+..+... T Consensus 21 Il~aA~~lf~e~G~~~~t~~~IA~~aGvs~~tlY~~F~sK~~L~~a~~~~~~~~ 74 (237) T 2hxo_A 21 IVGAAVELLDTVGERGLTFRALAERLATGPGAIYWHITGKAELLGAATDAVVTA 74 (237) T ss_dssp HHHHHHHHHHHTTTTTCCHHHHHHHHTSCGGGGGGTCCCHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHH T ss_conf 999999999983935277999999878495653010889899999999999999 No 274 >3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic resistance protein (MARR), structural genomics, PSI-2; HET: MSE; 2.04A {Oenococcus oeni psu-1} SCOP: a.4.5.28 Probab=66.93 E-value=6 Score=19.23 Aligned_cols=29 Identities=10% Similarity=0.231 Sum_probs=22.1 Q ss_pred HHHHHHH--CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999998--3994999999863429999887 Q gi|254781147|r 26 FRNIRKE--AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~--~gltq~ela~~~gis~~~is~i 54 (83) |..+-.. ..+||.++|+.++++.++++++ T Consensus 40 L~~l~~~~~~~~t~~~La~~l~i~~~~vs~~ 70 (141) T 3bro_A 40 IDYLSRNKNKEVLQRDLESEFSIKSSTATVL 70 (141) T ss_dssp HHHHHHTTTSCCBHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHCCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999848999959999999989788589999 No 275 >3k0l_A Repressor protein; helix-turn-helix, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.35A {Acinetobacter SP} Probab=66.92 E-value=2.5 Score=21.50 Aligned_cols=29 Identities=7% Similarity=0.188 Sum_probs=23.4 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) |..+...-|+|+.+||+.+++++++++++ T Consensus 52 L~~l~~~~~~t~~~La~~l~~~~~~vs~~ 80 (162) T 3k0l_A 52 LSVLAAKPNLSNAKLAERSFIKPQSANKI 80 (162) T ss_dssp HHHHHHCTTCCHHHHHHHHTSCGGGHHHH T ss_pred HHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99999779989999999989688699999 No 276 >2q24_A Putative TETR family transcriptional regulator; structural genomics, PSI, protein structure initiative; 1.80A {Streptomyces coelicolor A3} Probab=66.84 E-value=4.6 Score=19.91 Aligned_cols=39 Identities=5% Similarity=-0.061 Sum_probs=30.0 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 994999999863429999887558999448999999999 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) ..|..++|+.+|+|++++.++..+|...-...+..+.+. T Consensus 34 ~~T~~~IA~~agvs~~tiY~~F~sK~~L~~~~~~~~~~~ 72 (194) T 2q24_A 34 DAHLERIAREAGVGSGTLYRNFPTREALIEAAYRNEVAR 72 (194) T ss_dssp TCCHHHHHHHTTCCHHHHHHHCCSHHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 676999999839887469887699999999999999998 No 277 >3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics, APC88869, PSI-2, protein structure initiative; 1.80A {Cytophaga hutchinsonii atcc 33406} Probab=66.74 E-value=0.96 Score=23.97 Aligned_cols=25 Identities=20% Similarity=0.397 Sum_probs=21.9 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 8399499999986342999988755 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~ 56 (83) ...+||+++|..+|+|+.++|++-+ T Consensus 166 ~~~~t~~~iA~~lG~sr~tlSRi~k 190 (194) T 3dn7_A 166 IQRVPQYLLASYLGFTPEYLSEIRK 190 (194) T ss_dssp ------------------------- T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 5697999999997998999999999 No 278 >2guh_A Putative TETR-family transcriptional regulator; helix-turn-helix, TETR fold, structural genomics, PSI, protein structure initiative; HET: MSE; 1.52A {Rhodococcus SP} Probab=66.62 E-value=5 Score=19.70 Aligned_cols=41 Identities=20% Similarity=0.228 Sum_probs=29.6 Q ss_pred HHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 999999999998--39949999998634299998875589994 Q gi|254781147|r 21 IFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTI 61 (83) Q Consensus 21 ~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~ 61 (83) ++..-+.-+.+. .+.|..++|+.+|||++++.++..+|... T Consensus 44 Il~AA~~l~~e~G~~~~T~~~Ia~~AGvs~~t~Y~~F~~K~~L 86 (214) T 2guh_A 44 IVDAAGRAFATRPYREITLKDIAEDAGVSAPLIIKYFGSKEQL 86 (214) T ss_dssp HHHHHHHHHHHSCGGGCCHHHHHHHHTSCHHHHHHHHSSHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHH T ss_conf 9999999999839240779999999791987999987889999 No 279 >3pas_A TETR family transcription regulator; structural genomics, joint center for structural genomics, J protein structure initiative, PSI; HET: MSE; 1.90A {Marinobacter aquaeolei} Probab=66.13 E-value=4.2 Score=20.12 Aligned_cols=45 Identities=7% Similarity=0.058 Sum_probs=32.6 Q ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 999983994999999863429999887558999448999999999 Q gi|254781147|r 28 NIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 28 ~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) .-+--.+.|..++|+.+|||++++..+..++...=...+..+.+. T Consensus 22 ~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~~Ke~L~~~~~~~~~~~ 66 (195) T 3pas_A 22 ADHGFSATSVGKIAKAAGLSPATLYIYYEDKEQLLLATFYYVSDQ 66 (195) T ss_dssp HHHHHHHCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHHHH T ss_pred HHHCCCCCCHHHHHHHHCCCCCCHHHCCCCHHHHHHHHHHHHHHH T ss_conf 973934075999999869191410342999999999999999999 No 280 >3eup_A Transcriptional regulator, TETR family; structural genomics, PSI2, MCSG, protein structure initiative; 1.99A {Cytophaga hutchinsonii atcc 33406} Probab=66.04 E-value=4.6 Score=19.94 Aligned_cols=52 Identities=12% Similarity=0.048 Sum_probs=38.2 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHC Q ss_conf 9999999998399499999986342999988755899944899999999928 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLD 74 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~ 74 (83) +..+-.-+--.+.|..++|+.+|||.+++..+...+...=...+......+. T Consensus 20 a~~lf~~~G~~~~t~~~Ia~~agvs~~~iY~~F~sK~~L~~~~~~~~~~~~~ 71 (204) T 3eup_A 20 TAPVFNVKGLAGTSLTDLTEATNLTKGSIYGNFENKEAVAIAAFDYNWGHVK 71 (204) T ss_dssp HHHHHHHHHHHHCCHHHHHHHHTCCHHHHTTTSSSHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHHH T ss_conf 9999997394628899999997909999977645647999999999999999 No 281 >3c07_A Putative TETR-family transcriptional regulator; APC6322, structural genomics, PSI-2, protein structure initiative; 2.70A {Streptomyces coelicolor A3} SCOP: a.4.1.9 a.121.1.1 PDB: 2ofl_A* Probab=65.91 E-value=7.3 Score=18.74 Aligned_cols=38 Identities=16% Similarity=0.076 Sum_probs=29.4 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 39949999998634299998875589994489999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) .+.|..++|+.+|||++++..+..++..+-...+..+. T Consensus 60 ~~~sv~~IA~~AGvs~~t~Y~hF~sK~~Ll~av~~~~~ 97 (273) T 3c07_A 60 DRTTMRAIAQEAGVSVGNAYYYFAGKEHLIQGFYDRIA 97 (273) T ss_dssp TTCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHH T ss_conf 41789999999891999999995876789999999999 No 282 >2hku_A A putative transcriptional regulator; structural genomics, APC6040, TETR family, rhodococcus SP. RHA1, PSI-2, protein structure initiative; HET: PG4; 2.00A {Rhodococcus SP} SCOP: a.4.1.9 a.121.1.1 Probab=65.83 E-value=3.6 Score=20.56 Aligned_cols=49 Identities=6% Similarity=-0.018 Sum_probs=34.8 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 99999999983994999999863429999887558999448999999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) +..+-.-+- -+.|..++|+.+|||.+++..+..+|...=...+....+. T Consensus 29 A~~lf~e~G-~~~si~~IA~~aGvs~~tiY~hF~sK~~L~~av~~~~~~~ 77 (215) T 2hku_A 29 ATELFLEHG-EGVPITQICAAAGAHPNQVTYYYGSKERLFVEVACAAVLR 77 (215) T ss_dssp HHHHHHHHC-TTSCHHHHHHHHTCCHHHHHHHHSSHHHHHHHHHHHHHHH T ss_pred HHHHHHHHC-CCCCHHHHHHHHCCCCCHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 999999868-4782999999855063348885699999999999999999 No 283 >2oz6_A Virulence factor regulator; winged helix, helix-turn-helix, transcription factor, CAMP- binding proteins, CAMP receptor protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP: a.4.5.4 b.82.3.2 Probab=65.80 E-value=3.2 Score=20.83 Aligned_cols=22 Identities=23% Similarity=0.403 Sum_probs=19.4 Q ss_pred CCCHHHHHHHHHHHHHHHHHHH Q ss_conf 9949999998634299998875 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE 55 (83) .+||+++|..+|+|+.+++++- T Consensus 164 ~~t~~~iA~~lg~sr~tvsr~l 185 (207) T 2oz6_A 164 KITRQEIGRIVGCSREMVGRVL 185 (207) T ss_dssp ECCHHHHHHHHTSCHHHHHHHH T ss_pred CCCHHHHHHHHCCCHHHHHHHH T ss_conf 7789999988799999999999 No 284 >2g7l_A TETR-family transcriptional regulator; APC6062, protein structure initiative, PSI, midwest center for structural genomics, MCSG; 2.10A {Streptomyces coelicolor} SCOP: a.4.1.9 a.121.1.1 Probab=65.73 E-value=2.1 Score=21.95 Aligned_cols=34 Identities=6% Similarity=0.059 Sum_probs=26.4 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHH Q ss_conf 9839949999998634299998875589994489 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKSTINID 64 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~ 64 (83) --.++|..++|+.+|||.++|..+..+|...=.. T Consensus 36 G~~~~T~~~IA~~aGvs~~tlY~hF~sKe~L~~a 69 (243) T 2g7l_A 36 GLEKVTMRRLAQELDTGPASLYVYVANTAELHAA 69 (243) T ss_dssp CSSSCCHHHHHHHTTSCHHHHTTTCCSHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCCCCCHHCCCCHHHHHHH T ss_conf 9430789999998689955320039098999999 No 285 >3f3x_A Transcriptional regulator, MARR family, putative; DNA binding protein, DNA-binding, transcription regulation; 1.90A {Sulfolobus solfataricus} Probab=65.52 E-value=4.3 Score=20.11 Aligned_cols=24 Identities=25% Similarity=0.098 Sum_probs=20.9 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) .+.++|+.++|+.+|++.++++++ T Consensus 47 ~~~~~t~~~la~~~~~~~~tvs~~ 70 (144) T 3f3x_A 47 SEEPRSMVYLANRYFVTQSAITAA 70 (144) T ss_dssp HHSCEEHHHHHHHHTCCHHHHHHH T ss_pred HHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 919969999999989788689999 No 286 >3jsj_A Putative TETR-family transcriptional regulator; NP_821317.1, putative transcriptional regulator, structural genomics; 2.10A {Streptomyces avermitilis ma-4680} Probab=65.33 E-value=3 Score=21.01 Aligned_cols=41 Identities=7% Similarity=0.101 Sum_probs=31.2 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 39949999998634299998875589994489999999992 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) -+.|..++|+.+|+|++++..+..++...=...+..+++.+ T Consensus 27 ~~~t~~~IA~~agvs~~tlY~~F~sK~~L~~~~~~~~~~~~ 67 (190) T 3jsj_A 27 VGIGVEALCKAAGVSKRSMYQLFESKDELLAASLKERSAAF 67 (190) T ss_dssp TTCCHHHHHHHHTCCHHHHHHHCSCHHHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 78879999999790999996774999999999999999999 No 287 >2qwt_A Transcriptional regulator, TETR family; structural genomics, PSI-2, protein structure initiative; 2.30A {Mycobacterium vanbaalenii pyr-1} Probab=65.03 E-value=2.9 Score=21.14 Aligned_cols=40 Identities=13% Similarity=0.058 Sum_probs=30.5 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 3994999999863429999887558999448999999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) -+.|..++|+.+|||.+++..+..+|...-...+....+. T Consensus 31 ~~~t~~~IA~~aGvs~~tlY~~F~sK~~L~~av~~~~~~~ 70 (196) T 2qwt_A 31 LGVPMDEIARRAGVGAGTVYRHFPTKQALVVAVAEDRVRR 70 (196) T ss_dssp TTSCHHHHHHHTTSCHHHHHHHCSSHHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 7888999999969499999878489999999999999999 No 288 >3bhq_A Transcriptional regulator; bacterial RE proteins, structural genomics, joint center for structural JCSG; HET: MSE; 1.54A {Mesorhizobium loti MAFF303099} Probab=64.88 E-value=3.5 Score=20.59 Aligned_cols=49 Identities=14% Similarity=0.049 Sum_probs=34.2 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) +..+-.-+--.+.|..++|+.+|+|.+++..+..++...-...+..+.+ T Consensus 21 a~~lf~~~G~~~~ti~~Ia~~agvs~~~~Y~~F~sK~~L~~~~~~~~~~ 69 (211) T 3bhq_A 21 ATAAFISKGYDGTSMEEIATKAGASKQTVYKHFTDKETLFGEVVLSTAS 69 (211) T ss_dssp HHHHHHHHCSTTCCHHHHHHHHTCCHHHHHHHHCSHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 9999998591507799999985888405877789999999999999999 No 289 >1zk8_A Transcriptional regulator, TETR family; TETR member,transcriptional regulator, structural genomics, PSI, protein structure initiative; 2.15A {Bacillus cereus atcc 14579} SCOP: a.4.1.9 a.121.1.1 Probab=64.86 E-value=2.8 Score=21.21 Aligned_cols=49 Identities=10% Similarity=0.076 Sum_probs=33.9 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9999999839949999998634299998875589994489999999992 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) .+-.-+--.++|..++|+.+|+|.+++..+..++...-...+..+.+.+ T Consensus 19 ~l~~~~G~~~~s~~~IA~~agvs~~tlY~~F~~K~~L~~~~~~~~~~~~ 67 (183) T 1zk8_A 19 EIADANGVQEVTLASLAQTLGVRSPSLYNHVKGLQDVRKNLGIYGIKKL 67 (183) T ss_dssp HHHHHHCGGGCCHHHHHHHHTSCHHHHTTTCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9999749250769999998891988998886999999999999999999 No 290 >2ras_A Transcriptional regulator, TETR family; YP_495839.1, predicted transcriptional regulator of TETR/ACRR family; 1.80A {Novosphingobium aromaticivorans DSM12444} Probab=64.59 E-value=2.4 Score=21.57 Aligned_cols=32 Identities=28% Similarity=0.364 Sum_probs=25.7 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 99839949999998634299998875589994 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELETGKSTI 61 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~G~~~~ 61 (83) .--.+.|..++|+.+|||.+++.++..++... T Consensus 27 ~G~~~~s~~~IA~~agvs~~t~Y~~F~sKe~L 58 (212) T 2ras_A 27 RGGAGLTLSELAARAGISQANLSRYFETREDL 58 (212) T ss_dssp HTSSCCCHHHHHHHHTSCHHHHTTTCSSHHHH T ss_pred HCCCCCCHHHHHHHHCCCCCCCCCCCCCHHHH T ss_conf 49140779999998388945441129799999 No 291 >3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix, homodimer, transcription regulator; 3.60A {Pseudomonas aeruginosa} Probab=64.57 E-value=2.5 Score=21.45 Aligned_cols=22 Identities=5% Similarity=0.116 Sum_probs=19.8 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 3994999999863429999887 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i 54 (83) ..+||+++|..+|+|+.+++++ T Consensus 177 l~~t~~~lA~~lg~sr~tv~r~ 198 (227) T 3dkw_A 177 IPVAKQLVAGHLSIQPETFSRI 198 (227) T ss_dssp CCSCTHHHHHHTTSCHHHHHHH T ss_pred CCHHHHHHHHHHCCCHHHHHHH T ss_conf 4505999988869989999999 No 292 >3col_A Putative transcription regulator; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; HET: MSE; 2.10A {Lactobacillus plantarum WCFS1} Probab=64.54 E-value=6.3 Score=19.12 Aligned_cols=43 Identities=16% Similarity=0.121 Sum_probs=32.1 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 9839949999998634299998875589994489999999992 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) --.+.|..++|+.+|||++++.++..++...-...+..+.+.+ T Consensus 27 G~~~~si~~Ia~~agvs~~tiY~yF~sK~~L~~~~~~~~~~~~ 69 (196) T 3col_A 27 GPAGVSTTKVAKRVGIAQSNVYLYFKNKQALIDSVYARETNRI 69 (196) T ss_dssp CGGGCCHHHHHHHHTSCHHHHHTTCSSHHHHHHHHHHHHHHTT T ss_pred CCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9140779999999691998885876999999999999999999 No 293 >3o60_A LIN0861 protein; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative, unknown function; 2.80A {Listeria innocua} Probab=64.53 E-value=7.7 Score=18.58 Aligned_cols=62 Identities=2% Similarity=0.011 Sum_probs=42.3 Q ss_pred CHHHHHHHHHHHHHHHHH-HHHC---CCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 989999999999999999-9983---9949999998634299998875589994489999999992 Q gi|254781147|r 12 SDAILRERMIFVNNFRNI-RKEA---KLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 12 ~~~~~~~~~~~g~~ir~~-R~~~---gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) ......-+..+-.-...+ -.++ +.|..++|+.+|||++++..+-..+...-...+....+.+ T Consensus 14 d~r~~~Tk~~i~~a~~~Lf~~~kG~~~~Sv~dIa~~AgVs~~t~Y~~F~sK~~L~~~v~~~~~~~~ 79 (185) T 3o60_A 14 DLRTQKTQTKLYTVLERFYVEDRTFESISIKDLCEQARVSRATFYRHHKEIIQVIEVQILRTMQYF 79 (185) T ss_dssp CHHHHHHHHHHHHHHHHHHHTTCCTTTCCHHHHHHHHTCCHHHHHHHCSSTHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCHHCCCHHHHHHHHHHHHHHHH T ss_conf 778999999999999999988089310879999998788866622346989999999999999999 No 294 >3mkl_A HTH-type transcriptional regulator GADX; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.15A {Escherichia coli} Probab=64.32 E-value=6.7 Score=18.95 Aligned_cols=33 Identities=9% Similarity=0.040 Sum_probs=25.4 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH Q ss_conf 8399499999986342999988755899944899 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKSTINIDN 65 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~ 65 (83) ...+|.+++|+.+|+|.++++++-... ..+... T Consensus 21 ~~~~~l~~lA~~~~~S~~~l~r~fk~~-g~t~~~ 53 (120) T 3mkl_A 21 AHEWTLARIASELLMSPSLLKKKLREE-ETSYSQ 53 (120) T ss_dssp TSCCCHHHHHHHTTCCHHHHHHHHHHT-TCCHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHC-CCCHHH T ss_conf 899999999999893999999999983-999999 No 295 >2zkz_A Transcriptional repressor PAGR; protein-DNA, HTH motif, dimer, DNA-binding, plasmid, transcription regulation; 2.00A {Bacillus anthracis} Probab=64.21 E-value=5.5 Score=19.45 Aligned_cols=28 Identities=21% Similarity=0.194 Sum_probs=22.4 Q ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999983994999999863429999887 Q gi|254781147|r 27 RNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 27 r~~R~~~gltq~ela~~~gis~~~is~i 54 (83) +.+.....++-.|+++.+|+|++++|.- T Consensus 34 ~~L~~~~~~~v~el~~~l~~s~stvS~H 61 (99) T 2zkz_A 34 NELYKHKALNVTQIIQILKLPQSTVSQH 61 (99) T ss_dssp HHHHHHSCEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9997789927999899888497699999 No 296 >3fx3_A Cyclic nucleotide-binding protein; helix_TURN_helix, CAMP regulatory protein, structural genomics, PSI-2, protein structure initiative; 2.20A {Ruegeria pomeroyi} PDB: 3h3z_A* Probab=63.98 E-value=2.6 Score=21.38 Aligned_cols=39 Identities=15% Similarity=0.110 Sum_probs=27.5 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH-----------HCCC-CCCCHHHHHHHHH Q ss_conf 3994999999863429999887-----------5589-9944899999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL-----------ETGK-STINIDNMIILAH 71 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i-----------E~G~-~~~~~~~l~~la~ 71 (83) ..+||+++|..+|+++.+++++ ++|+ ...+.+.|..+|+ T Consensus 177 l~~t~~~iA~~lgisr~tvsR~l~~L~~~gii~~~~~i~I~d~~~L~~~a~ 227 (237) T 3fx3_A 177 LPYDKMLIAGRLGMKPESLSRAFSRLKAAGVTVKRNHAEIEDIALLRDYAE 227 (237) T ss_dssp CCSCTHHHHHHTTCCHHHHHHHHHHHGGGTEECCTTEEEESCHHHHHHHHC T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCEEEECCHHHHHHHHC T ss_conf 788999999886998999999999999799399799899978999999865 No 297 >1zyb_A Transcription regulator, CRP family; NP_813211.1, structural genomics, joint center for structural genomics, JCSG; 2.15A {Bacteroides thetaiotaomicron vpi-5482} SCOP: a.4.5.4 b.82.3.2 Probab=63.68 E-value=3.7 Score=20.45 Aligned_cols=21 Identities=14% Similarity=0.072 Sum_probs=19.1 Q ss_pred CCCHHHHHHHHHHHHHHHHHH Q ss_conf 994999999863429999887 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 34 gltq~ela~~~gis~~~is~i 54 (83) .+|++++|..+|+|+.+++++ T Consensus 186 ~~~~~~lA~~~g~sr~tv~R~ 206 (232) T 1zyb_A 186 KVKMDDLARCLDDTRLNISKT 206 (232) T ss_dssp ECCHHHHHHHHTSCHHHHHHH T ss_pred CCCHHHHHHHHCCCHHHHHHH T ss_conf 789999998979899999999 No 298 >2g3b_A Putative TETR-family transcriptional regulator; transcription regulator, structural genomics, P protein structure initiative; HET: MSE; 2.00A {Rhodococcus SP} SCOP: a.4.1.9 a.121.1.1 Probab=63.50 E-value=5.8 Score=19.34 Aligned_cols=47 Identities=6% Similarity=-0.014 Sum_probs=32.4 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 99999999983994999999863429999887558999448999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) +..+-.-.--.+.|..++|+.+|||++++..+..++...=...+..+ T Consensus 12 a~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~yF~~K~~L~~~~~~~~ 58 (208) T 2g3b_A 12 SATAIAQRGIRGLRVNDVAEVAGVSPGLLYYHFKDRIGLLEAALNYI 58 (208) T ss_dssp HHHHHHHHHHHHCCHHHHHHHHTSCHHHHHHHHCSHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHH T ss_conf 99999975915077999999979299999888699999999999999 No 299 >2iai_A Putative transcriptional regulator SCO3833; structural genomics, TETR, unknown function, PSI-2, protein structure initiative; 1.65A {Streptomyces coelicolor} Probab=63.49 E-value=2.4 Score=21.62 Aligned_cols=49 Identities=14% Similarity=0.044 Sum_probs=34.1 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) +..+-.-+--.+.|..++|+.+|||++++..+..++-..-...+....+ T Consensus 39 A~~lf~~~G~~~~si~~IA~~Agvs~~tiY~yF~sKe~L~~~v~~~~~~ 87 (230) T 2iai_A 39 AVQVFIERGYDGTSMEHLSKAAGISKSSIYHHVTGKEELLRRAVSRALD 87 (230) T ss_dssp HHHHHHHHCTTTCCHHHHHHHHTSCHHHHTTTCSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCCCHHHCCCCCHHHHHHHHHHHHHH T ss_conf 9999998592627299999985829101530589999999999999999 No 300 >2zcx_A SCO7815, TETR-family transcriptional regulator; helix-turn-helix, DNA-binding, transcription regulation; 2.22A {Streptomyces coelicolor} Probab=63.49 E-value=8.1 Score=18.47 Aligned_cols=46 Identities=13% Similarity=0.109 Sum_probs=32.3 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMII 68 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~ 68 (83) +..+-.-.--.+.|..++|+.+|||.+++..+..+|-..=...+.. T Consensus 32 A~~lf~~~G~~~~T~~~IA~~aGvs~~tlY~~F~sKe~Ll~a~~~~ 77 (231) T 2zcx_A 32 ARELGTERGIREITLTDIAATVGMHKSALLRYFETREQIFLKITAE 77 (231) T ss_dssp HHHHHHHHCSTTCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHH T ss_conf 9999997492406799999997919889978759999999973588 No 301 >2rn7_A IS629 ORFA; helix, all alpha, unknown function, structural genomics, PSI-2, protein structure initiative; NMR {Shigella flexneri} Probab=63.33 E-value=5 Score=19.70 Aligned_cols=23 Identities=13% Similarity=-0.016 Sum_probs=20.8 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 39949999998634299998875 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE 55 (83) .|.+..++|..+||+.+++.+|- T Consensus 29 ~g~~~~~va~~Lgi~~~tl~~Wv 51 (108) T 2rn7_A 29 QWATICSIAPKIGCTPETLRVWV 51 (108) T ss_dssp HHHHHHHHHHHHTSCHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHH T ss_conf 55519999999797999999999 No 302 >1g2h_A Transcriptional regulatory protein TYRR homolog; protein structure, , DNA-binding domain, helix- turn-helix motif; NMR {Haemophilus influenzae} SCOP: a.4.1.12 Probab=62.91 E-value=5.6 Score=19.40 Aligned_cols=27 Identities=15% Similarity=0.271 Sum_probs=20.1 Q ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999983994999999863429999887 Q gi|254781147|r 27 RNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 27 r~~R~~~gltq~ela~~~gis~~~is~i 54 (83) ...-...| +..+.|+.+|||++++.+- T Consensus 27 ~~aL~~~g-~~~~aA~~Lgisr~tL~rK 53 (61) T 1g2h_A 27 KLFYAEYP-STRKLAQRLGVSHTAIANK 53 (61) T ss_dssp HHHHHHSC-SHHHHHHHTTSCTHHHHHH T ss_pred HHHHHHCC-CHHHHHHHHCCCHHHHHHH T ss_conf 99999968-9999999979789999999 No 303 >3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structural genomics, PSI-2, protein structure initiative; 2.69A {Silicibacter pomeroyi dss-3} Probab=62.87 E-value=2.6 Score=21.43 Aligned_cols=29 Identities=7% Similarity=0.139 Sum_probs=23.2 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) |..+....++|+.++|+.++++.++++++ T Consensus 49 L~~l~~~~~~t~~eLa~~l~~~~~tvs~~ 77 (155) T 3cdh_A 49 LACLVDNDAMMITRLAKLSLMEQSRMTRI 77 (155) T ss_dssp HHHHSSCSCBCHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99998579969999999989699889999 No 304 >3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription regulator, activator, DNA-binding, repressor; HET: SAL; 2.30A {Salmonella typhimurium} SCOP: a.4.5.28 Probab=62.80 E-value=4.3 Score=20.08 Aligned_cols=29 Identities=17% Similarity=0.290 Sum_probs=22.9 Q ss_pred HHHHHH-HCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999-83994999999863429999887 Q gi|254781147|r 26 FRNIRK-EAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~-~~gltq~ela~~~gis~~~is~i 54 (83) |..+.. ..++|+.++|+.+++++++++++ T Consensus 59 L~~L~~~~~~~t~~eLa~~l~i~~stvsr~ 88 (166) T 3deu_A 59 LHNIHQLPPDQSQIQLAKAIGIEQPSLVRT 88 (166) T ss_dssp HHHHHHSCSSEEHHHHHHHHTSCHHHHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999997698979999999979899899999 No 305 >2id6_A Transcriptional regulator, TETR family; 1.75A {Thermotoga maritima} SCOP: a.4.1.9 a.121.1.1 PDB: 3ih2_A 3ih3_A 3ih4_A 1zkg_A* 2iek_A* 1z77_A* Probab=62.71 E-value=4.8 Score=19.84 Aligned_cols=47 Identities=15% Similarity=0.170 Sum_probs=32.9 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 99999999983994999999863429999887558999448999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) +..+-.-.--.+.|..++|+.+|+|++++..+-.++...=...+..+ T Consensus 14 A~~l~~~~G~~~~s~~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~ 60 (202) T 2id6_A 14 AVEVFGKKGYDRATTDEIAEKAGVAKGLIFHYFKNKEELYYQAYMSV 60 (202) T ss_dssp HHHHHHHHHHHHCCHHHHHHHHTCCTHHHHHHHSSHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHCCCCHHHHHHHHHHHH T ss_conf 99999872904164999999879099999840899999999999985 No 306 >2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, PSI, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 Probab=62.62 E-value=4.3 Score=20.10 Aligned_cols=23 Identities=22% Similarity=0.335 Sum_probs=20.2 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 83994999999863429999887 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~i 54 (83) .-++|+.++|+.+++++++++++ T Consensus 50 ~~~~t~~eL~~~~~~~~~~vs~~ 72 (146) T 2fbh_A 50 RDSPTQRELAQSVGVEGPTLARL 72 (146) T ss_dssp SSCCBHHHHHHHHTCCHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99999999999989689899999 No 307 >3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi} Probab=62.30 E-value=4.2 Score=20.14 Aligned_cols=30 Identities=17% Similarity=0.072 Sum_probs=24.0 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+....+.|+.++|+.++++.++++++ T Consensus 58 vL~~l~~~~~~t~~~la~~l~i~~~~vs~~ 87 (161) T 3e6m_A 58 LLSSLSAYGELTVGQLATLGVMEQSTTSRT 87 (161) T ss_dssp HHHHHHHHSEEEHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999779989999999989788799999 No 308 >3bqy_A Putative TETR family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.95A {Streptomyces coelicolor A3} Probab=62.04 E-value=2.6 Score=21.42 Aligned_cols=49 Identities=8% Similarity=-0.004 Sum_probs=34.4 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999999998399499999986342999988755899944899999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) +..+-.-+--.+.|..++|+.+|||.+++.++..+|...-...+....+ T Consensus 11 A~~l~~~~G~~~~T~~~IA~~aGvs~~tlY~~F~sK~~L~~a~~~~~~~ 59 (209) T 3bqy_A 11 ALDLLNESGLDTLTMRRLAQAMDVQAGALYRYFAAKQDLLTAMAEHMVD 59 (209) T ss_dssp HHHHHHHHCGGGCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHTT T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 9999997294516799999997948879998879989999999998888 No 309 >1or7_A Sigma-24, RNA polymerase sigma-E factor; regulation, DNA-binding, transmembrane, transcription; 2.00A {Escherichia coli} SCOP: a.4.13.2 a.177.1.1 PDB: 2h27_A Probab=61.94 E-value=7.4 Score=18.68 Aligned_cols=32 Identities=13% Similarity=-0.020 Sum_probs=26.0 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999998399499999986342999988755 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~iE~ 56 (83) .+-.++.-.|+|.+++|+.+|+|.++|...-+ T Consensus 147 ~ii~l~y~~g~s~~eIA~~lg~s~~tV~~~l~ 178 (194) T 1or7_A 147 MAITLRELDGLSYEEIAAIMDCPVGTVRSRIF 178 (194) T ss_dssp HHHHHHHTTCCCHHHHHHHTTSCHHHHHHHHH T ss_pred HHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 99999998398999999998939999999999 No 310 >3jw4_A Transcriptional regulator, MARR/EMRR family; DNA-binding protein, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Clostridium acetobutylicum} Probab=61.90 E-value=2.2 Score=21.86 Aligned_cols=29 Identities=21% Similarity=0.258 Sum_probs=22.9 Q ss_pred HHHHH--HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999--983994999999863429999887 Q gi|254781147|r 26 FRNIR--KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R--~~~gltq~ela~~~gis~~~is~i 54 (83) |..+. ...|+||.++|+.+|++.++++++ T Consensus 47 L~~L~~~~~~~it~~eLa~~l~~~~~~~sr~ 77 (148) T 3jw4_A 47 IGYIYENQESGIIQKDLAQFFGRRGASITSM 77 (148) T ss_dssp HHHHHHHTTTCCCHHHHHHC------CHHHH T ss_pred HHHHHHCCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999937999939999999989778589999 No 311 >3oou_A LIN2118 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; HET: BTB; 1.57A {Listeria innocua} Probab=61.90 E-value=8.6 Score=18.29 Aligned_cols=34 Identities=9% Similarity=0.144 Sum_probs=25.5 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH Q ss_conf 8399499999986342999988755899944899 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKSTINIDN 65 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~ 65 (83) ...+|.+++|+.+|+|.++++++-.-....+... T Consensus 19 ~~~~sl~~la~~~~~s~~~l~r~fk~~~g~s~~~ 52 (108) T 3oou_A 19 SEGMSLKTLGNDFHINAVYLGQLFQKEMGEHFTD 52 (108) T ss_dssp TSCCCHHHHHHHHTSCHHHHHHHHHHHHSSCHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCHHH T ss_conf 8999999999998929999999999998978799 No 312 >1z0x_A Transcriptional regulator, TETR family; structural genomics, PSI, protein structure initiative, midwest center for structural genomics; 2.40A {Enterococcus faecalis V583} SCOP: a.4.1.9 a.121.1.1 Probab=61.76 E-value=2.5 Score=21.47 Aligned_cols=55 Identities=13% Similarity=0.166 Sum_probs=38.8 Q ss_pred HHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHC Q ss_conf 9999999999998---399499999986342999988755899944899999999928 Q gi|254781147|r 20 MIFVNNFRNIRKE---AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLD 74 (83) Q Consensus 20 ~~~g~~ir~~R~~---~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~ 74 (83) .++..-+.-+-++ .+.|..++|+.+|||.++|..+..+|...=...+..+.+.+. T Consensus 9 ~Il~aA~~lf~~~~G~~~~T~~~IA~~aGvs~~~lY~hF~sKe~L~~av~~~~~~~~~ 66 (220) T 1z0x_A 9 TIIAAAFSLLEKSPTLEQLSMRKVAKQLGVQAPAIYWYFKNKQALLQSMAEAIEEHFQ 66 (220) T ss_dssp HHHHHHHHHHHHSCCGGGCCHHHHHHHHTSCHHHHHTTCSSHHHHHHHHHHHHHHTCC T ss_pred HHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHHC T ss_conf 9999999999880895316799999996967878999969999999999999987633 No 313 >2qco_A CMER; transcriptional regulator protein; 2.25A {Campylobacter jejuni} PDB: 3hgg_A* 3hgy_A* Probab=61.67 E-value=3.2 Score=20.86 Aligned_cols=52 Identities=12% Similarity=0.005 Sum_probs=34.1 Q ss_pred HHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 999999999998--3994999999863429999887558999448999999999 Q gi|254781147|r 21 IFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 21 ~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) ++-.-++-+.+. .+.|..++|+.+|||.+++.++..++...-...+..+++. T Consensus 18 Il~aA~~lf~~~G~~~~t~~~IA~~agvs~~tiY~yF~sKe~L~~~v~~~~~~~ 71 (210) T 2qco_A 18 IKAVALELFLTKGYQETSLSDIIKLSGGSYSNIYDGFKSKEGLFFEILDDICKK 71 (210) T ss_dssp HHHHHHHHHHHTTTTTCCHHHHHHHHCTTCTTCSSSTTSHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 999999999974915287999999868784068886898589999999999999 No 314 >2qib_A TETR-family transcriptional regulator; HTH DNA binding, structural genomics, MCSG, PSI-2, protein structure initiative; HET: P6G; 1.70A {Streptomyces coelicolor A3} Probab=61.65 E-value=5.1 Score=19.64 Aligned_cols=53 Identities=11% Similarity=0.179 Sum_probs=35.5 Q ss_pred HHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 99999999999--839949999998634299998875589994489999999992 Q gi|254781147|r 21 IFVNNFRNIRK--EAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 21 ~~g~~ir~~R~--~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) ++..-++-+.. -.+.|..++|+.+|++.+++..+..+|...-...+....+.+ T Consensus 18 Il~AA~~l~~~~G~~~~t~~~IA~~aGvs~~tlY~~F~sK~~Ll~a~~~~~~~~~ 72 (231) T 2qib_A 18 LIGVALDLFSRRSPDEVSIDEIASAAGISRPLVYHYFPGKLSLYEAALQRASDDL 72 (231) T ss_dssp HHHHHHHHHHHSCGGGCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9999999999739450779999999793988998884996899999999999999 No 315 >1xwr_A Regulatory protein CII; all-alpha fold, DNA binding protein; 2.56A {Bacteriophage lambda} SCOP: a.35.1.9 PDB: 1zpq_A Probab=61.30 E-value=1.2 Score=23.41 Aligned_cols=35 Identities=17% Similarity=0.174 Sum_probs=25.3 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH Q ss_conf 399499999986342999988755899944899999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMII 68 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~ 68 (83) .-++|..+|+.+|++.+.||++.++= .+....+.. T Consensus 22 a~~gq~~~Ak~~G~~eS~ISRwk~~~-~~~~smllA 56 (97) T 1xwr_A 22 AMLGTEKTAEAVGVDKSQISRWKRDW-IPKFSMLLA 56 (97) T ss_dssp HHHCHHHHHHHHTCCTTTHHHHHHHH-HHHHHHHHH T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHH-HHHHHHHHH T ss_conf 99820207998498798863322207-999999999 No 316 >3b73_A PHIH1 repressor-like protein; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 2.12A {Haloarcula marismortui atcc 43049} Probab=61.13 E-value=4.8 Score=19.80 Aligned_cols=29 Identities=24% Similarity=0.331 Sum_probs=24.3 Q ss_pred HHHHHHHHCCCCHHHHHHHHHH--HHHHHHH Q ss_conf 9999999839949999998634--2999988 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGF--AQSWISE 53 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gi--s~~~is~ 53 (83) .|..++.+-..|+.++|+.+|| |+++|++ T Consensus 18 ILE~L~e~g~~t~~eIA~~lgi~~S~~~Vs~ 48 (111) T 3b73_A 18 ILEIIHEEGNGSPKELEDRDEIRISKSSVSR 48 (111) T ss_dssp HHHHHHHHSCBCHHHHHTSTTCCSCHHHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCCCHHHHHH T ss_conf 9999998499999999998688847999999 No 317 >2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary phase, DNA-binding, transcription regulation; 1.50A {Thermus thermophilus} Probab=60.29 E-value=4.6 Score=19.90 Aligned_cols=42 Identities=19% Similarity=0.291 Sum_probs=31.1 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH------------HCCCC-CCCHHHHHHHHHHHC Q ss_conf 3994999999863429999887------------55899-944899999999928 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL------------ETGKS-TINIDNMIILAHTLD 74 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i------------E~G~~-~~~~~~l~~la~al~ 74 (83) ..+||.++|..+|+|+.+++++ ++|.. ..+.+.|.++|+.-| T Consensus 145 ~~~t~~~iA~~lg~sr~tv~r~l~~L~~~g~I~~~~~~i~I~d~~~L~~~a~~~g 199 (202) T 2zcw_A 145 LKATHDELAAAVGSVRETVTKVIGELAREGYIRSGYGKIQLLDLKGLKELAESRG 199 (202) T ss_dssp EECCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEESCHHHHHHHHTSCC T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHHHHHHHHHCC T ss_conf 7887999998979889999999999998899997499999988999999998628 No 318 >3cuo_A Uncharacterized HTH-type transcriptional regulator YGAV; DNA-binding transcriptional regulator, structural genomics, PSI, MCSG; 2.00A {Escherichia coli K12} Probab=60.20 E-value=3.3 Score=20.80 Aligned_cols=28 Identities=18% Similarity=0.139 Sum_probs=21.9 Q ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999983994999999863429999887 Q gi|254781147|r 27 RNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 27 r~~R~~~gltq~ela~~~gis~~~is~i 54 (83) ..+....+++..|+++.+|++++++|+- T Consensus 31 ~~L~~~~~~~v~eLa~~l~~s~stvS~H 58 (99) T 3cuo_A 31 CMLSGSPGTSAGELTRITGLSASATSQH 58 (99) T ss_dssp HHHTTCCSEEHHHHHHHHCCCHHHHHHH T ss_pred HHHHCCCCEEHHHHHHHHCCCHHHHHHH T ss_conf 9985899907999774558598799999 No 319 >2fq4_A Transcriptional regulator, TETR family; DNA-binding protein, structural genomics, PSI, protein structure initiative; 1.79A {Bacillus cereus atcc 14579} SCOP: a.4.1.9 a.121.1.1 Probab=60.16 E-value=9.3 Score=18.11 Aligned_cols=41 Identities=15% Similarity=0.241 Sum_probs=30.4 Q ss_pred HHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 999999999998--39949999998634299998875589994 Q gi|254781147|r 21 IFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKSTI 61 (83) Q Consensus 21 ~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~~ 61 (83) ++-.-++-+... .++|..++|+.+|||++++..+...+... T Consensus 17 Il~aa~~l~~~~G~~~~s~~~Ia~~agvs~~t~Y~~F~sK~~L 59 (192) T 2fq4_A 17 ILSASYELLLESGFKAVTVDKIAERAKVSKATIYKWWPNKAAV 59 (192) T ss_dssp HHHHHHHHHHHHCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHH T ss_conf 9999999999839440779999999891998885347899999 No 320 >2fbi_A Probable transcriptional regulator; MARR, APC5816, structural genomics, PSI, protein structure initiative; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.28 Probab=60.10 E-value=6 Score=19.24 Aligned_cols=29 Identities=10% Similarity=0.315 Sum_probs=23.4 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) |..+....++|+.++|+.++++.++++++ T Consensus 42 L~~l~~~~~~~~~~la~~l~i~~~~vs~~ 70 (142) T 2fbi_A 42 IRILRQQGEMESYQLANQACILRPSMTGV 70 (142) T ss_dssp HHHHHHHCSEEHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99999879979999999979898899999 No 321 >3d0s_A Transcriptional regulatory protein; CAMP receptor protein (CRP), dimer, inactive(APO, unliganded) form, allostery, DNA binding; 2.00A {Mycobacterium tuberculosis} PDB: 3i54_A* 3i59_A* 3h3u_A* Probab=59.82 E-value=4.8 Score=19.79 Aligned_cols=39 Identities=21% Similarity=0.253 Sum_probs=27.6 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH-----HCC-------C-CCCCHHHHHHHHH Q ss_conf 3994999999863429999887-----558-------9-9944899999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL-----ETG-------K-STINIDNMIILAH 71 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i-----E~G-------~-~~~~~~~l~~la~ 71 (83) ..+||.++|..+|+|+.+++++ +.| . .-.+.+.|.++|+ T Consensus 176 ~~~t~~~lA~~lg~s~~tvsr~l~~L~~~g~I~~~~~~i~I~d~~~L~~~a~ 227 (227) T 3d0s_A 176 HDLTQEEIAQLVGASRETVNKALADFAHRGWIRLEGKSVLISDSERLARRAR 227 (227) T ss_dssp CCCCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETTEEEESCHHHHHHHHC T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHHHHHHCC T ss_conf 0789999998879899999999999998898996399999888999998549 No 322 >1j9i_A GPNU1 DBD;, terminase small subunit; DNA binding domain, homodimer, viral assembly, winged helix-turn-helix, viral protein; NMR {Enterobacteria phage lambda} SCOP: a.6.1.5 Probab=59.59 E-value=3.4 Score=20.73 Aligned_cols=23 Identities=13% Similarity=0.227 Sum_probs=20.3 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 99499999986342999988755 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~ 56 (83) .++..++|+..|||..+|..+-. T Consensus 2 ~vNk~qlA~~fgVS~~TI~~W~~ 24 (68) T 1j9i_A 2 EVNKKQLADIFGASIRTIQNWQE 24 (68) T ss_dssp EEEHHHHHHHTTCCHHHHHHHTT T ss_pred CCCHHHHHHHHCCCHHHHHHHHH T ss_conf 55899999997988899999998 No 323 >3he0_A Transcriptional regulator, TETR family; ACRR, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.20A {Vibrio parahaemolyticus} Probab=59.13 E-value=5 Score=19.73 Aligned_cols=42 Identities=14% Similarity=0.082 Sum_probs=29.8 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH Q ss_conf 999999983994999999863429999887558999448999 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNM 66 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l 66 (83) .+-.-+--.+.|..++|+.+|||++++.++..++...=...+ T Consensus 22 ~l~~~~G~~~~si~~Ia~~agvs~~tiY~~F~sK~~L~~~~~ 63 (196) T 3he0_A 22 QLIAESGFQGLSMQKLANEAGVAAGTIYRYFSDKEHLLEEVR 63 (196) T ss_dssp HHHHHHCTTTCCHHHHHHHHTSCHHHHHTTCSSHHHHHHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHH T ss_conf 999973956377999999868997754021899999999999 No 324 >1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulator; 2.05A {Bacillus subtilis} SCOP: a.4.6.2 Probab=58.98 E-value=5.5 Score=19.44 Aligned_cols=27 Identities=15% Similarity=0.010 Sum_probs=22.9 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 998399499999986342999988755 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~ 56 (83) ....|+|-+|+|..+|+|..++..+-. T Consensus 22 ~l~~G~s~~eIA~~L~iS~~TV~~h~~ 48 (74) T 1fse_A 22 LLVQDKTTKEIASELFISEKTVRNHIS 48 (74) T ss_dssp HHTTTCCHHHHHHHHTSCHHHHHHHHH T ss_pred HHHCCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 999279999999997989999999999 No 325 >3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1, putative MARR-like transcription regulator, structural genomics; 2.38A {Bacillus cereus atcc 10987} Probab=58.59 E-value=2.1 Score=21.91 Aligned_cols=31 Identities=13% Similarity=0.253 Sum_probs=25.5 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999983994999999863429999887 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) .-|..+....++|+.++|+.++++.++++++ T Consensus 37 ~vL~~l~~~~~~t~~~La~~l~~~~~tvs~~ 67 (139) T 3bja_A 37 GVIQVLAKSGKVSMSKLIENMGCVPSNMTTM 67 (139) T ss_dssp HHHHHHHHSCSEEHHHHHHHCSSCCTTHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHCCCCHHHHHHH T ss_conf 9999999869989999984708688899999 No 326 >2vpr_A Tetracycline resistance repressor protein; transcription, metal-binding, antibiotic resistance, transcription regulator; HET: TDC; 2.49A {Pasteurella multocida} Probab=58.55 E-value=4.7 Score=19.86 Aligned_cols=51 Identities=12% Similarity=-0.020 Sum_probs=37.5 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 999999999839949999998634299998875589994489999999992 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) +..+-.-+--.+.|..++|+.+|+|.+++.++..+|...-...+......+ T Consensus 13 A~~lf~~~G~~~~sv~~IA~~aGvs~~tlY~~F~sKe~L~~av~~~~~~~~ 63 (207) T 2vpr_A 13 ALILLNEVGIEGLTTRKLAQKIGVEQPTLYWHVKNKRALLDALAETILQKH 63 (207) T ss_dssp HHHHHHHHHHHHCCHHHHHHHHTCCHHHHTTTCCSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 999999849352789999998784876899988988999999999999998 No 327 >3hsr_A HTH-type transcriptional regulator SARZ; helix-turn-helix, cysteine disulfide, MARR-family transcriptional regulator, DNA-binding; 1.90A {Staphylococcus aureus subsp} PDB: 3hse_A 3hrm_A Probab=58.37 E-value=2.1 Score=21.99 Aligned_cols=29 Identities=21% Similarity=0.311 Sum_probs=23.5 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) |..+-...++|+.++|+.+|++.++++++ T Consensus 42 L~~l~~~~~~t~~ela~~l~~~~~tvs~~ 70 (140) T 3hsr_A 42 LMAIENDEKLNIKKLGERVFLDSGTLTPL 70 (140) T ss_dssp HHHSCTTCEEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99998679989999999989786479999 No 328 >2opt_A Actii protein; helical protein, TETR family, APO-protein, transcriptional repressor; 2.05A {Streptomyces coelicolor} PDB: 3b6a_A* 3b6c_A* Probab=58.14 E-value=4.4 Score=20.05 Aligned_cols=41 Identities=2% Similarity=-0.057 Sum_probs=29.6 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH Q ss_conf 99999983994999999863429999887558999448999 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNM 66 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l 66 (83) +-.-.--.+.|..++|+.+||++++|..+..+|...=...+ T Consensus 18 lf~~~G~~~~T~~~IA~~aGVs~~~lY~hF~sK~~L~~av~ 58 (234) T 2opt_A 18 ILDAEGLDALSMRRLAQELKTGHASLYAHVGNRDELLDLVF 58 (234) T ss_dssp HHHHHCGGGCCHHHHHHHHTCCHHHHHHHHCSHHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHH T ss_conf 99972944278999999978588899998798899999999 No 329 >2vke_A Tetracycline repressor protein class D; transcription, metal-binding, helix-turn-helix, transcription regulator, transcription regulation; HET: TAC; 1.62A {Escherichia coli} SCOP: a.4.1.9 a.121.1.1 PDB: 1bjy_A* 1bj0_A 1du7_A* 1ork_A* 2fj1_A* 1bjz_A* 2o7o_A* 2tct_A* 2trt_A* 1qpi_A* 1a6i_A 2vkv_A* 3fk7_A* 3fk6_A* 2ns7_A 2ns8_A Probab=57.92 E-value=6.3 Score=19.11 Aligned_cols=46 Identities=13% Similarity=0.057 Sum_probs=33.0 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH Q ss_conf 9999998399499999986342999988755899944899999999 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAH 71 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~ 71 (83) +-.-+--.+.|..++|+.+|||++++..+..+|...=...+..+.. T Consensus 15 lf~~~G~~~~tv~~IA~~aGvs~~tlY~hF~sKe~L~~a~~~~~~~ 60 (207) T 2vke_A 15 LLNETGIDGLTTRKLAQKLGIEQPTLYWHVKNKRALLDALAVEILA 60 (207) T ss_dssp HHHHHCGGGCCHHHHHHHHTCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 9997491417899999997919769988789989999999999998 No 330 >3kkd_A Transcriptional regulator; TETR, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; HET: PGE 15P; 2.10A {Pseudomonas aeruginosa PAO1} Probab=57.69 E-value=2.7 Score=21.27 Aligned_cols=48 Identities=4% Similarity=-0.017 Sum_probs=34.3 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 999999999839949999998634299998875589994489999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) +..+-.-+--.+.|..++|+.+|||.+++..+..++...-...+..+. T Consensus 44 A~~l~~~~G~~~~t~~~IA~~agvs~~tiY~yF~sK~~L~~~~~~~~~ 91 (237) T 3kkd_A 44 AMRLIVRDGVRAVRHRAVAAEAQVPLSATTYYFKDIDDLITDTFALFV 91 (237) T ss_dssp HHHHHHHHCGGGCCHHHHHHHHTSCTTTC-----CHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHH T ss_conf 999999849240779999999886857798876999999999999999 No 331 >2of7_A Putative TETR-family transcriptional regulator; APC7240, streptomyces coelicolor A3, structural genomics, PSI-2; 2.30A {Streptomyces coelicolor} Probab=57.57 E-value=4.7 Score=19.87 Aligned_cols=37 Identities=11% Similarity=0.046 Sum_probs=28.5 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 9999999983994999999863429999887558999 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKST 60 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~ 60 (83) ..+-.-+--.+.|..++|+.+|||.+++..+..+|.. T Consensus 58 ~~lf~e~G~~~vS~~~IA~~AGVS~~t~Y~~F~sK~~ 94 (260) T 2of7_A 58 YGLIRQQGYEATTVEQIAERAEVSPSTVLRYFPTRED 94 (260) T ss_dssp HHHHHHHCSTTCCHHHHHHHHTSCHHHHHHHCSSHHH T ss_pred HHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHH T ss_conf 9999983945287999999969679799998599999 No 332 >1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti} Probab=57.53 E-value=5.6 Score=19.39 Aligned_cols=46 Identities=11% Similarity=0.055 Sum_probs=31.0 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCC----CCCCCHHHHHHHHHHHCC Q ss_conf 9983994999999863429999887558----999448999999999289 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELETG----KSTINIDNMIILAHTLDT 75 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~G----~~~~~~~~l~~la~al~i 75 (83) ....|+|..|+|+.+|+|.+++..+-+. -.--+...|..+|-..|+ T Consensus 27 ~l~~G~s~~eIA~~l~iS~~TV~~~~~~i~~Klgv~~r~elv~~a~~~Gl 76 (79) T 1x3u_A 27 AVVAGLPNKSIAYDLDISPRTVEVHRANVMAKMKAKSLPHLVRMALAGGF 76 (79) T ss_dssp HHTTTCCHHHHHHHTTSCHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTC T ss_pred HHHHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC T ss_conf 99907999999999798898999999999998089999999999999499 No 333 >2fd5_A Transcriptional regulator; DNA-binding protein, structural genomics, PSI, protein structure initiative; 1.70A {Pseudomonas aeruginosa PAO1} SCOP: a.4.1.9 a.121.1.1 Probab=57.43 E-value=6.7 Score=18.95 Aligned_cols=51 Identities=10% Similarity=0.017 Sum_probs=34.8 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH Q ss_conf 999999999839949999998634299998875589994489999999992 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTL 73 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al 73 (83) +..+-.-+--.+.|..++|+.+|||.+++..+..++...=...+..+...+ T Consensus 16 a~~l~~~~G~~~~si~~Ia~~agvs~~~~Y~~F~sK~~L~~a~~~~~~~~~ 66 (180) T 2fd5_A 16 ATQALLERGAVEPSVGEVMGAAGLTVGGFYAHFQSKDALMLEAFEQLLGKR 66 (180) T ss_dssp HHHHHHHHTTTSCCHHHHHHHTTCCGGGGGGTCSCHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCCCCHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 999998709440679999998688976176765899999999999999999 No 334 >3nnr_A Transcriptional regulator, TETR family; TETR-family transcriptional regulator, structural genomics, center for structural genomics, JCSG; HET: MSE; 2.49A {Marinobacter aquaeolei} Probab=57.28 E-value=10 Score=17.81 Aligned_cols=42 Identities=17% Similarity=0.176 Sum_probs=29.7 Q ss_pred HHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 99999999999--8399499999986342999988755899944 Q gi|254781147|r 21 IFVNNFRNIRK--EAKLTQKEIRNRTGFAQSWISELETGKSTIN 62 (83) Q Consensus 21 ~~g~~ir~~R~--~~gltq~ela~~~gis~~~is~iE~G~~~~~ 62 (83) ++-.-++-+.+ -.+.|..++|+.+|||.+++..+..+|...= T Consensus 10 Il~aA~~lf~~~G~~~~t~~~Ia~~agvs~~tlY~~F~sKe~L~ 53 (228) T 3nnr_A 10 ILLSSLELFNDKGERNITTNHIAAHLAISPGNLYYHFRNKSDII 53 (228) T ss_dssp HHHHHHHHHHHHCGGGCCHHHHHHHHTCCHHHHHHHCSSHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHH T ss_conf 99999999997393527799999988909989998878999999 No 335 >3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structural genomics, protein structure initiative; HET: GOL; 2.00A {Rhodococcus jostii RHA1} Probab=57.16 E-value=4.4 Score=20.04 Aligned_cols=23 Identities=22% Similarity=0.306 Sum_probs=20.4 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 83994999999863429999887 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~i 54 (83) ..++||.|+|+.++++.+++++. T Consensus 52 ~~~~t~~ela~~l~~~~~~vsr~ 74 (150) T 3fm5_A 52 AEGVNQRGVAATMGLDPSQIVGL 74 (150) T ss_dssp TTCCCSHHHHHHHTCCHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 98989999999978878778899 No 336 >2dg6_A Putative transcriptional regulator; winged-helix motif, MERR family, gene regulation; 2.20A {Streptomyces coelicolor A3} Probab=56.90 E-value=5.4 Score=19.51 Aligned_cols=20 Identities=15% Similarity=0.237 Sum_probs=10.4 Q ss_pred CHHHHHHHHHHHHHHHHHHH Q ss_conf 49999998634299998875 Q gi|254781147|r 36 TQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 36 tq~ela~~~gis~~~is~iE 55 (83) ...|+|+.+|+|.++|.-|| T Consensus 2 rI~elA~~~Gvs~~tLR~Ye 21 (222) T 2dg6_A 2 RLADLSKRSGVSTATIKYYL 21 (222) T ss_dssp CHHHHHHHHTCCHHHHHHHH T ss_pred CHHHHHHHHCCCHHHHHHHH T ss_conf 58999999895999999999 No 337 >3kp7_A Transcriptional regulator TCAR; multiple drug resistance, biofilm, transcription regulation, binding, transcription regulator; 2.30A {Staphylococcus epidermidis RP62A} PDB: 3kp3_A* 3kp4_A* 3kp5_A* 3kp2_A Probab=56.59 E-value=5.4 Score=19.52 Aligned_cols=28 Identities=18% Similarity=0.258 Sum_probs=22.1 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) |..+. ..++|+.++|+.+|++++++|++ T Consensus 44 L~~l~-~~~~t~~~la~~l~i~~~~vs~~ 71 (151) T 3kp7_A 44 LNMLS-IEALTVGQITEKQGVNKAAVSRR 71 (151) T ss_dssp HHHHH-HSCBCHHHHHHHHCSCSSHHHHH T ss_pred HHHHH-CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99986-28999999999989688899999 No 338 >3gbg_A TCP pilus virulence regulatory protein; cupin, helix-turn-helix, ARAC family, activator, cytoplasm, binding, transcription; HET: PAM; 1.90A {Vibrio cholerae O395} Probab=56.53 E-value=11 Score=17.74 Aligned_cols=33 Identities=3% Similarity=-0.018 Sum_probs=25.8 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH Q ss_conf 8399499999986342999988755899944899 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKSTINIDN 65 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~ 65 (83) ...+|.+++|+.+|+|++++++.-+- ...+... T Consensus 183 ~~~~~l~~lA~~~~~S~~~l~r~fK~-~g~s~~~ 215 (276) T 3gbg_A 183 TRNWRWADICGELRTNRMILKKELES-RGVKFRE 215 (276) T ss_dssp TSCCCHHHHHHHHTCCHHHHHHHHHT-TTCCHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHH-HCCCHHH T ss_conf 79999999999979899999999999-6988999 No 339 >1ngr_A P75 low affinity neurotrophin receptor; intracellular domain, death domain; NMR {Rattus norvegicus} SCOP: a.77.1.2 Probab=56.50 E-value=5.4 Score=19.49 Aligned_cols=47 Identities=13% Similarity=0.063 Sum_probs=32.2 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 994999999863429999887558999448999999999289999960 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) |-.=+.||..+|++...|..|++. .+|+...|.....--+.++..|. T Consensus 21 g~dWr~LA~~Lgl~~~~I~~i~~~-~spt~~lL~~W~~~~~~Tv~~L~ 67 (85) T 1ngr_A 21 GDTWRHLAGELGYQPEHIDSFTHE-ACPVRALLASWGAQDSATLDALL 67 (85) T ss_dssp TTHHHHHHHHTTCCHHHHHHHHHS-SCHHHHHHHHGGGSTTCBHHHHH T ss_pred CCCHHHHHHHCCCCHHHHHHHHCC-CCHHHHHHHHHHHCCCCCHHHHH T ss_conf 776899998939899999988438-98599999999873898599999 No 340 >1rr7_A Middle operon regulator; MOR, transcription; 2.20A {Enterobacteria phage MU} SCOP: a.4.1.14 Probab=56.46 E-value=9.7 Score=17.98 Aligned_cols=34 Identities=12% Similarity=0.060 Sum_probs=26.4 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 9999999983994999999863429999887558 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G 57 (83) .+...++.-.|.+..+||.+-|+|..+|.+|-+. T Consensus 82 Rn~~I~~ef~G~n~~eLArkY~LS~r~I~~Ii~~ 115 (129) T 1rr7_A 82 RDLRIWNDFNGRNVSELTTRYGVTFNTVYKAIRR 115 (129) T ss_dssp HHHHHHHHCCSSCHHHHHHHHTCCHHHHHHHHHH T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHH T ss_conf 9999999908998999999989789999999999 No 341 >3hef_A Gene 1 protein; bacteriophage SF6, terminase small subunit GP1, GP1 octameric assembly, GP1 channel, DNA recognition, DNA packaging; 1.65A {Enterobacteria phage SF6} Probab=56.35 E-value=4.8 Score=19.80 Aligned_cols=44 Identities=7% Similarity=0.034 Sum_probs=30.9 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHH-HHHHHHHHHCCCCCCCHHHHHH Q ss_conf 9999999999839949999998634-2999988755899944899999 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGF-AQSWISELETGKSTINIDNMII 68 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gi-s~~~is~iE~G~~~~~~~~l~~ 68 (83) +...|- -+...|.|..++++..|| |++++.++-+- ++.+..... T Consensus 20 ~~e~I~-~~l~~G~sl~~i~~~~gvps~sT~~~Wl~~--~~ef~e~y~ 64 (143) T 3hef_A 20 VADDIC-SLLSSGESLLKVCKRPGMPDKSTVFRWLAK--HEDFRDKYA 64 (143) T ss_dssp HHHHHH-HHHHTTCCHHHHHTSTTCCCHHHHHHHTTT--CHHHHHHHH T ss_pred HHHHHH-HHHHCCCCHHHHHHCCCCCCHHHHHHHHHH--CHHHHHHHH T ss_conf 999999-999889859999870799968999999971--899999999 No 342 >1t33_A Putative transcriptional repressor (TETR/ACRR family); structural genomics, TETR/CCRR family, helix turn helix DNA binding domain; 2.20A {Salmonella typhimurium LT2} SCOP: a.4.1.9 a.121.1.1 Probab=56.27 E-value=11 Score=17.71 Aligned_cols=36 Identities=14% Similarity=0.091 Sum_probs=27.1 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 3994999999863429999887558999448999999 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) .+ |..++|+.+|||.+++.++..++-..=...+..+ T Consensus 31 ~~-T~~~IA~~aGvs~~~iY~~F~sKe~L~~~v~~~~ 66 (224) T 1t33_A 31 HA-TTRDIAALAGQNIAAITYYFGSKEDLYLACAQWI 66 (224) T ss_dssp GS-CHHHHHHHHTSCHHHHHHHHSSHHHHHHHHHHHH T ss_pred HH-HHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHH T ss_conf 75-7999999809980212357899999999999999 No 343 >1r1u_A CZRA, repressor protein; zinc, DNA binding, transcriptional regulation, winged HTH protein, transcription repressor; 2.00A {Staphylococcus aureus} SCOP: a.4.5.5 PDB: 1r1v_A 2kjb_A 2kjc_A Probab=55.67 E-value=10 Score=17.79 Aligned_cols=27 Identities=15% Similarity=0.177 Sum_probs=22.3 Q ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999983994999999863429999887 Q gi|254781147|r 28 NIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 28 ~~R~~~gltq~ela~~~gis~~~is~i 54 (83) .+-....++..++++.+|++++++|.- T Consensus 33 ~~L~~~~~~v~el~~~l~~s~s~vS~H 59 (106) T 1r1u_A 33 ELLSVSEASVGHISHQLNLSQSNVSHQ 59 (106) T ss_dssp HHHHHCCBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999829967999999876586589999 No 344 >2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli} Probab=55.49 E-value=6.7 Score=18.96 Aligned_cols=32 Identities=13% Similarity=0.089 Sum_probs=24.8 Q ss_pred HHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 999999--98399499999986342999988755 Q gi|254781147|r 25 NFRNIR--KEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 25 ~ir~~R--~~~gltq~ela~~~gis~~~is~iE~ 56 (83) ++..+| .=.|-+|.++|...|+|.+.+|++.+ T Consensus 23 t~~iAr~VLV~G~~~~evA~~~Glskq~V~~~V~ 56 (101) T 2w7n_A 23 TIEIARGVLVDGKPQATFATSLGLTRGAVSQAVH 56 (101) T ss_dssp HHHHHHHHHTTCCCHHHHHHHHTCCHHHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHCCHHHHHHHHHH T ss_conf 9999999984884099999996803889999999 No 345 >2iu5_A DHAS, hypothetical protein YCEG; synthase, activator, TETR family, dihydroxyacetone; 1.6A {Lactococcus lactis subsp} SCOP: a.4.1.9 a.121.1.1 Probab=54.67 E-value=6.1 Score=19.21 Aligned_cols=45 Identities=4% Similarity=0.090 Sum_probs=30.1 Q ss_pred HHHHHHHHHHHCC---CCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH Q ss_conf 9999999999839---94999999863429999887558999448999 Q gi|254781147|r 22 FVNNFRNIRKEAK---LTQKEIRNRTGFAQSWISELETGKSTINIDNM 66 (83) Q Consensus 22 ~g~~ir~~R~~~g---ltq~ela~~~gis~~~is~iE~G~~~~~~~~l 66 (83) +-.-...+-.++| +|..++|+.+|||++++..+-..+...-...+ T Consensus 18 Il~Aa~~l~~~~G~~~~Tv~~Ia~~agvs~~t~Y~yF~sKe~Ll~~~~ 65 (195) T 2iu5_A 18 IAKAFKDLMQSNAYHQISVSDIMQTAKIRRQTFYNYFQNQEELLSWIF 65 (195) T ss_dssp HHHHHHHHHHHSCGGGCCHHHHHHHHTSCGGGGGGTCSSHHHHHHHHH T ss_pred HHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHH T ss_conf 999999999976963068999999868886179887739999999999 No 346 >2g7u_A Transcriptional regulator; ICLR family, structural genomics, MCSG, PSI, protein structure initiative, midwest center for structural genomics; 2.30A {Rhodococcus SP} Probab=54.37 E-value=7 Score=18.83 Aligned_cols=24 Identities=13% Similarity=0.315 Sum_probs=22.1 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ...++|..|+|+.+|++++++.++ T Consensus 26 ~~~~~~~~eia~~~gl~~st~~Rl 49 (257) T 2g7u_A 26 QRPNPTLAELATEAGLSRPAVRRI 49 (257) T ss_dssp SCSSCBHHHHHHHHTCCHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 799989999999879399999999 No 347 >2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium} Probab=54.18 E-value=4.7 Score=19.87 Aligned_cols=26 Identities=8% Similarity=0.068 Sum_probs=22.4 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 98399499999986342999988755 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~ 56 (83) ...|+|-+|+|+.+|+|.+++...-+ T Consensus 10 l~~G~s~~eIA~~l~iS~~TV~~h~~ 35 (61) T 2jpc_A 10 IDEGYTNHGISEKLHISIKTVETHRM 35 (61) T ss_dssp HHTSCCSHHHHHHTCSCHHHHHHHHH T ss_pred HHCCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 98279999999896989999999999 No 348 >2hxi_A Putative transcriptional regulator; structural genomics, APC6293, TETR family, PSI-2, protein structure initiative; 1.70A {Streptomyces coelicolor A3} Probab=53.98 E-value=6.5 Score=19.05 Aligned_cols=44 Identities=7% Similarity=-0.026 Sum_probs=30.8 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH Q ss_conf 99999983994999999863429999887558999448999999 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIIL 69 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~l 69 (83) +-.-+--.++|..++|+.+|||.+++.++..+|...=...+... T Consensus 41 l~~e~G~~~~t~~~IA~~aGVs~~tlY~yF~sKe~Ll~av~~~~ 84 (241) T 2hxi_A 41 LLLAGDAETFSVRKLAASLGTDSSSLYRHFRNKTELLRAVADRI 84 (241) T ss_dssp HHSSSSCCCCCHHHHHHHTTSCHHHHHHHTSSHHHHHHHHHHHH T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHH T ss_conf 99972913053999999979088899998799999999999999 No 349 >1bl0_A Protein (multiple antibiotic resistance protein), DNA (5'- D(*CP*CP*GP*AP*TP*GP*CP*CP*AP*CP*GP*TP*TP*TP*TP*GP*CP*TP*AP *AP*AP*TP* CP*C)-3')...; transcriptional activator; HET: DNA; 2.30A {Escherichia coli} SCOP: a.4.1.8 a.4.1.8 PDB: 1xs9_A Probab=53.88 E-value=4.6 Score=19.91 Aligned_cols=29 Identities=14% Similarity=0.386 Sum_probs=23.8 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 83994999999863429999887558999 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKST 60 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~ 60 (83) ...+|.+++|+.+|+|.+++++.-+.... T Consensus 25 ~~~~sl~~lA~~~~~S~~~l~r~fk~~~g 53 (129) T 1bl0_A 25 ESPLSLEKVSERSGYSKWHLQRMFKKETG 53 (129) T ss_dssp TSCCCCHHHHHHSSSCHHHHHHHHHHHHS T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHC T ss_conf 89999999999989299999999999869 No 350 >1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A Probab=53.87 E-value=7.6 Score=18.64 Aligned_cols=26 Identities=19% Similarity=0.123 Sum_probs=22.5 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 98399499999986342999988755 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~ 56 (83) ...|+|-+|+|+.+|+|..++..+-+ T Consensus 33 la~G~s~~eIA~~L~iS~~TV~~~~~ 58 (82) T 1je8_A 33 IAQGLPNKMIARRLDITESTVKVHVK 58 (82) T ss_dssp HTTTCCHHHHHHHHTSCHHHHHHHHH T ss_pred HHCCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 99289999999897959999999999 No 351 >2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid} Probab=53.83 E-value=12 Score=17.47 Aligned_cols=30 Identities=13% Similarity=0.120 Sum_probs=24.4 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 999999839949999998634299998875 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE 55 (83) +-.--..+|+|..++|..+|+|..-+.+|- T Consensus 23 v~hELa~~gysvqqIa~~LGVsvrKv~~YL 52 (55) T 2x48_A 23 VAHELAKMGYTVQQIANALGVSERKVRRYL 52 (55) T ss_dssp HHHHHHHTTCCHHHHHHHHTSCHHHHHHHH T ss_pred HHHHHHHCCCCHHHHHHHHCHHHHHHHHHH T ss_conf 999999848729999988461199999987 No 352 >2gxg_A 146AA long hypothetical transcriptional regulator; winged helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A Probab=53.51 E-value=6.2 Score=19.14 Aligned_cols=23 Identities=26% Similarity=0.117 Sum_probs=19.7 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 83994999999863429999887 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~i 54 (83) ....|+.++|+.+|++.++++++ T Consensus 48 ~~~~t~~ela~~~~i~~~~vs~~ 70 (146) T 2gxg_A 48 DGPKTMAYLANRYFVTQSAITAS 70 (146) T ss_dssp TSCBCHHHHHHHTTCCHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 59919999999989798699999 No 353 >2bv6_A MGRA, HTH-type transcriptional regulator MGRA; multidrug resistance regulator, virulence determinant, transcriptional factors; 2.8A {Staphylococcus aureus} SCOP: a.4.5.28 Probab=53.49 E-value=2.9 Score=21.07 Aligned_cols=30 Identities=13% Similarity=0.184 Sum_probs=23.9 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999983994999999863429999887 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) -|..+....++|+.++|..++++.++++++ T Consensus 42 vL~~i~~~~~~t~~~la~~l~~~~~~vs~~ 71 (142) T 2bv6_A 42 VLTILWDESPVNVKKVVTELALDTGTVSPL 71 (142) T ss_dssp HHHHHHHSSEEEHHHHHHHTTCCTTTHHHH T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999779989999999989798799999 No 354 >2krf_A Transcriptional regulatory protein COMA; activator, competence, DNA-binding, transcription regulation component regulatory system; NMR {Bacillus subtilis} Probab=53.36 E-value=7.5 Score=18.65 Aligned_cols=44 Identities=16% Similarity=0.123 Sum_probs=28.9 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCC----CCCCCHHHHHHHHHHHC Q ss_conf 983994999999863429999887558----99944899999999928 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETG----KSTINIDNMIILAHTLD 74 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G----~~~~~~~~l~~la~al~ 74 (83) ...|+|-+|+|+.+|+|..++..+-+. -.--+...+..+|...| T Consensus 24 ~~~G~s~~eIA~~l~iS~~TV~~~~~~i~~Kl~v~~r~elv~~A~~~G 71 (73) T 2krf_A 24 VEKGFTNQEIADALHLSKRSIEYSLTSIFNKLNVGSRTEAVLIAKSDG 71 (73) T ss_dssp HHTTSCHHHHHHHHTCCHHHHHHHHHHHHHHSCCSSSHHHHHHHHHHT T ss_pred HHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCC T ss_conf 995899999841618889999999999999809999999999999957 No 355 >3boq_A Transcriptional regulator, MARR family; structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3} Probab=53.31 E-value=2.4 Score=21.61 Aligned_cols=29 Identities=10% Similarity=0.202 Sum_probs=19.4 Q ss_pred HHHHHHH-CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999998-3994999999863429999887 Q gi|254781147|r 26 FRNIRKE-AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~-~gltq~ela~~~gis~~~is~i 54 (83) |..+... .++|+.++|+.+|+++++++++ T Consensus 53 L~~L~~~~~~~t~~~La~~~~v~~~~vs~~ 82 (160) T 3boq_A 53 MAQLARNPDGLSMGKLSGALKVTNGNVSGL 82 (160) T ss_dssp HHHHHHCTTCEEHHHHHHHCSSCCSCHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999986899998999999989688589999 No 356 >2oqg_A Possible transcriptional regulator, ARSR family protein; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.54A {Rhodococcus SP} Probab=53.23 E-value=10 Score=17.85 Aligned_cols=24 Identities=13% Similarity=0.147 Sum_probs=21.3 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) .+..+|..++++.+|++++++|+- T Consensus 31 ~~~~~~v~eLa~~l~is~s~vS~H 54 (114) T 2oqg_A 31 GRADQSASSLATRLPVSRQAIAKH 54 (114) T ss_dssp HHSCBCHHHHHHHSSSCHHHHHHH T ss_pred HHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 819928999998888898899999 No 357 >2frh_A SARA, staphylococcal accessory regulator A; winged-helix protein, divalent metal binding, transcription; 2.50A {Staphylococcus aureus} SCOP: a.4.5.28 PDB: 2fnp_A 1fzp_D Probab=53.15 E-value=7.8 Score=18.56 Aligned_cols=22 Identities=18% Similarity=0.237 Sum_probs=18.9 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 3994999999863429999887 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i 54 (83) ..+|+.++|+.++++.++++++ T Consensus 52 ~~~t~~ela~~l~~~~~~vs~~ 73 (127) T 2frh_A 52 KEYYLKDIINHLNYKQPQVVKA 73 (127) T ss_dssp SEEEHHHHHHHSSSHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHH T ss_conf 9878999999979887369999 No 358 >2kfs_A Conserved hypothetical regulatory protein; WHTH, DNA binding, phosphorylation, DNA-binding protein; NMR {Mycobacterium tuberculosis} Probab=52.92 E-value=5.7 Score=19.38 Aligned_cols=22 Identities=9% Similarity=0.057 Sum_probs=19.0 Q ss_pred CCHHHHHHHHHHHHHHHHHHHC Q ss_conf 9499999986342999988755 Q gi|254781147|r 35 LTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 35 ltq~ela~~~gis~~~is~iE~ 56 (83) +|..|+|+.+|+|++.+.++-. T Consensus 32 lt~~evA~~LGvs~~~V~~~i~ 53 (148) T 2kfs_A 32 YDLPRVAELLGVPVSKVAQQLR 53 (148) T ss_dssp EEHHHHHHHHTCCHHHHHHHHH T ss_pred CCHHHHHHHHCCCHHHHHHHHH T ss_conf 4899999996998899999998 No 359 >1r8e_A Multidrug-efflux transporter regulator; protein-DNA complex, MERR-family transcription activator, multidrug-binding protein; HET: P4P; 2.40A {Bacillus subtilis} SCOP: a.6.1.3 d.60.1.1 PDB: 1exi_A* 1exj_A* 3iao_A 3d71_A* 3d70_A 3d6z_A* 3d6y_A* 1bow_A 2bow_A* Probab=52.23 E-value=4 Score=20.31 Aligned_cols=49 Identities=12% Similarity=0.045 Sum_probs=33.2 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCC-CCCCC-----------------HHHHHHHHHHHCCCHHHH Q ss_conf 83994999999863429999887558-99944-----------------899999999928999996 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETG-KSTIN-----------------IDNMIILAHTLDTPLWKL 80 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G-~~~~~-----------------~~~l~~la~al~i~~~~l 80 (83) ++-+|..++|+.+|+|..+|.-||.- --.|+ .-...+..+.+|+|+.+. T Consensus 3 ~~~ysIge~akl~giS~~tLRyYd~~GLl~P~~~d~~ngYRyYs~~qi~~l~~I~~lr~lg~sL~eI 69 (278) T 1r8e_A 3 ESYYSIGEVSKLANVSIKALRYYDKIDLFKPAYVDPDTSYRYYTDSQLIHLDLIKSLKYIGTPLEEM 69 (278) T ss_dssp CCEEEHHHHHHHHTCCHHHHHHHHHTTSSCCSEECTTTCCEEEETGGGGHHHHHHHHHHTTCCHHHH T ss_pred CCCEEHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCEECCHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 8863199999998859889999996889899788799997773999999999999999869989999 No 360 >1u3e_M HNH homing endonuclease; HNH catalytic motif, helix-turn-helix DNA binding domain, protein-DNA complex, , DNA binding protein/DNA complex; 2.92A {Bacillus phage SPO1} SCOP: d.4.1.3 d.285.1.1 Probab=51.98 E-value=7.8 Score=18.55 Aligned_cols=27 Identities=11% Similarity=0.184 Sum_probs=23.7 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 994999999863429999887558999 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELETGKST 60 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~G~~~ 60 (83) ..|+.++|+..|++.++|+++-+|+.. T Consensus 135 f~S~~eaa~~~gv~~~~I~~~~~gk~~ 161 (174) T 1u3e_M 135 YPSTKCACEELGLTRGKVTDVLKGHRI 161 (174) T ss_dssp ESCHHHHHHHHTCCHHHHHHHHHTSSS T ss_pred CCCHHHHHHHHCCCHHHHHHHHCCCCC T ss_conf 689999999979898899999738876 No 361 >1u2w_A CADC repressor, cadmium efflux system accessory protein; zinc, LEAD, SOFT metal ION resistance, ARSR/SMTB family, DNA binding protein; 1.90A {Staphylococcus aureus} SCOP: a.4.5.5 PDB: 3f72_A Probab=51.62 E-value=9.8 Score=17.96 Aligned_cols=27 Identities=19% Similarity=0.174 Sum_probs=21.6 Q ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999983994999999863429999887 Q gi|254781147|r 28 NIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 28 ~~R~~~gltq~ela~~~gis~~~is~i 54 (83) .+-....++-.++|+.+|+|++++|+- T Consensus 50 ~L~~~~~~~v~ela~~l~~s~s~vS~H 76 (122) T 1u2w_A 50 ALCQDEELCVCDIANILGVTIANASHH 76 (122) T ss_dssp HHHHSSCEEHHHHHHHHTCCHHHHHHH T ss_pred HHHHCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 998788927999999988873269999 No 362 >3mop_A Myeloid differentiation primary response protein; death domain complex, helical symmetry, single-stranded HELI assembly; 3.40A {Homo sapiens} Probab=50.21 E-value=7.8 Score=18.55 Aligned_cols=45 Identities=16% Similarity=0.062 Sum_probs=31.2 Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 4999999863429999887558999448999999999289999960 Q gi|254781147|r 36 TQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 36 tq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) .=+.||..+|++...|..++.. .+|+...|..+..--+.++.+|. T Consensus 28 DWr~LA~~Lg~~~~~I~~~~~~-~sPt~~lL~~w~~~~~~Tv~~L~ 72 (110) T 3mop_A 28 DWTALAEEMDFEYLEIRQLETQ-ADPTGRLLDAWQGRPGASVGRLL 72 (110) T ss_dssp CHHHHHTTTTCCHHHHHHHTSS-SSHHHHHHHHHHSSSSCSHHHHH T ss_pred CHHHHHHHCCCCHHHHHHHHCC-CCCHHHHHHHHHCCCCCCHHHHH T ss_conf 0999998949899999988508-99499999999708998599999 No 363 >3c57_A Two component transcriptional regulatory protein DEVR; response regulator, two-component regulatory system, DNA- binding protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A Probab=50.06 E-value=9.3 Score=18.09 Aligned_cols=25 Identities=24% Similarity=0.248 Sum_probs=22.0 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 9839949999998634299998875 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE 55 (83) ...|+|-+|+|+.+|+|..++..+- T Consensus 39 l~~G~s~~eIA~~L~iS~~TV~~~~ 63 (95) T 3c57_A 39 LSEGLTNKQIADRMFLAEKTVKNYV 63 (95) T ss_dssp HHTTCCHHHHHHHHTCCHHHHHHHH T ss_pred HHCCCCHHHHHHHHCCCHHHHHHHH T ss_conf 9907999999879497899999999 No 364 >1o5l_A Transcriptional regulator, CRP family; TM1171, structural genomics, JCSG, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: b.82.3.2 Probab=49.74 E-value=2.8 Score=21.19 Aligned_cols=23 Identities=22% Similarity=0.205 Sum_probs=20.1 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 39949999998634299998875 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE 55 (83) ..+|+.++|..+|+|+.+++++- T Consensus 163 ~~~t~~~iA~~lg~sr~tvsr~l 185 (213) T 1o5l_A 163 LPVTLEELSRLFGCARPALSRVF 185 (213) T ss_dssp ----------------------- T ss_pred CCCCHHHHHHHHCCCHHHHHHHH T ss_conf 05689999999798999999999 No 365 >3lsj_A DEST; transcriptional repressor, TETR family, DNA-binding, transcription, transcription regulation; HET: PLM COA; 2.30A {Pseudomonas aeruginosa} PDB: 3lsp_A* 3lsr_A* Probab=49.49 E-value=1.4 Score=22.99 Aligned_cols=49 Identities=6% Similarity=0.080 Sum_probs=32.9 Q ss_pred HHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH Q ss_conf 99999999999983---99499999986342999988755899944899999 Q gi|254781147|r 20 MIFVNNFRNIRKEA---KLTQKEIRNRTGFAQSWISELETGKSTINIDNMII 68 (83) Q Consensus 20 ~~~g~~ir~~R~~~---gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~ 68 (83) .++..-+..+..++ +.|..++|+.+|||.+++..+..+|...=...+.. T Consensus 15 ~IL~AA~~l~~~e~G~~~~S~~~IA~~aGvs~~tlY~yF~sK~~Ll~a~~~~ 66 (220) T 3lsj_A 15 ALMSAARHLMESGRGFGSLSLREVTRAAGIVPAGFYRHFSDMDQLGLALVAE 66 (220) T ss_dssp HHHHHHHHHTTTSCCGGGCCHHHHHHHHTSCGGGGTTTCSSHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHH T ss_conf 9999999999875992541199999998929788888679999999999999 No 366 >1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2 Probab=49.49 E-value=8.8 Score=18.24 Aligned_cols=45 Identities=11% Similarity=-0.008 Sum_probs=32.2 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCC----CCCCCHHHHHHHHHHHCC Q ss_conf 983994999999863429999887558----999448999999999289 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETG----KSTINIDNMIILAHTLDT 75 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G----~~~~~~~~l~~la~al~i 75 (83) ...|+|.+++|+.+|+|.+++..+-+. -.--+-..+..++..+|+ T Consensus 46 l~~G~s~~eIA~~l~iS~~TV~~~~~~i~~KL~v~~~~elv~~a~~~Gl 94 (99) T 1p4w_A 46 FAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVDNDIALLNYLSSVSM 94 (99) T ss_dssp HHHTCCHHHHHHHHTSCHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHTC T ss_pred HHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCC T ss_conf 9938999999777299899999999999998099999999999999689 No 367 >3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A* Probab=48.63 E-value=9.4 Score=18.07 Aligned_cols=45 Identities=11% Similarity=0.045 Sum_probs=29.3 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHH----CCCCCCCHHHHHHHHHH-HCC Q ss_conf 9839949999998634299998875----58999448999999999-289 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELE----TGKSTINIDNMIILAHT-LDT 75 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE----~G~~~~~~~~l~~la~a-l~i 75 (83) ...|+|-+|+|+.+|+|..|+..+- +--.--+-..+..+|.- +|+ T Consensus 171 l~~G~snkeIA~~L~iS~~TVk~h~~~i~~KLgv~nr~el~~~A~~~~g~ 220 (225) T 3klo_A 171 LGSGASNIEIADKLFVSENTVKTHLHNVFKKINAKNRLQALIWAKNNIGI 220 (225) T ss_dssp HTTTCCHHHHHHHTTCCHHHHHHHHHHHTTTSCCSSHHHHHHHHHHHCCC T ss_pred HHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC T ss_conf 53399799999997889999999999999986899999999999990797 No 368 >2np3_A Putative TETR-family regulator; transcriptional regulator, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.35A {Streptomyces coelicolor} SCOP: a.4.1.9 a.121.1.1 Probab=48.07 E-value=3.4 Score=20.71 Aligned_cols=41 Identities=15% Similarity=0.118 Sum_probs=30.5 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH Q ss_conf 99999998399499999986342999988755899944899 Q gi|254781147|r 25 NFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDN 65 (83) Q Consensus 25 ~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~ 65 (83) .+-.-+--.+.|..++|+.+|||++++.++..++...=... T Consensus 41 ~l~~~~G~~~~T~~~IA~~aGvs~~tlY~~F~~K~~L~~~~ 81 (212) T 2np3_A 41 VCFAERGFDATSLRRIAETAGVDQSLVHHFYGTKENLFLQA 81 (212) T ss_dssp HHC---------------------------CCC-CHHHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHH T ss_conf 99998491306799999997819755668782999999787 No 369 >1mkm_A ICLR transcriptional regulator; structural genomics, winged helix-turn-helix, PSI, protein structure initiative; 2.20A {Thermotoga maritima} SCOP: a.4.5.33 d.110.2.2 Probab=47.39 E-value=9.1 Score=18.15 Aligned_cols=24 Identities=13% Similarity=0.145 Sum_probs=21.6 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ...++|..|+|+.+|++++++.++ T Consensus 20 ~~~~~tl~eia~~lglpksT~~Rl 43 (249) T 1mkm_A 20 NPGDVSVSEIAEKFNMSVSNAYKY 43 (249) T ss_dssp CSSCBCHHHHHHHTTCCHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 899989999999879199999999 No 370 >3lap_A Arginine repressor; arginine repressor, DNA binding, DNA-canavanine ternary complex; HET: GGB; 2.15A {Mycobacterium tuberculosis} PDB: 3fhz_A* 3ere_D* 3laj_A* Probab=47.26 E-value=15 Score=16.85 Aligned_cols=29 Identities=14% Similarity=0.062 Sum_probs=22.1 Q ss_pred HHHHHHHCCCCHHHHHHHHH-----HHHHHHHHH Q ss_conf 99999983994999999863-----429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTG-----FAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~g-----is~~~is~i 54 (83) .+-+....=-||+||.+.+. +++++||+- T Consensus 26 ~~lI~~~~I~tQeeL~~~L~~~Gi~vTQATiSRD 59 (170) T 3lap_A 26 VAILSSAQVRSQNELAALLAAEGIEVTQATLSRD 59 (170) T ss_dssp HHHHHHSCCCSHHHHHHHHHHTTCCCCHHHHHHH T ss_pred HHHHHHCCCCCHHHHHHHHHHCCCCEEHHHHHHH T ss_conf 9999858978999999999975985418998988 No 371 >2fbk_A Transcriptional regulator, MARR family; winged-helix-turn-helix; 2.30A {Deinococcus radiodurans} SCOP: a.4.5.28 Probab=46.34 E-value=2.3 Score=21.73 Aligned_cols=22 Identities=14% Similarity=0.092 Sum_probs=15.5 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 3994999999863429999887 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i 54 (83) .|+|+.++|+.+|++.++++++ T Consensus 85 ~~lt~~eLa~~l~~s~~~vs~~ 106 (181) T 2fbk_A 85 EGLRPTELSALAAISGPSTSNR 106 (181) T ss_dssp SCBCHHHHHHHCSCCSGGGSSH T ss_pred CCCCHHHHHHHHCCCHHHHHHH T ss_conf 9909999999978787579999 No 372 >3fiw_A Putative TETR-family transcriptional regulator; TETR-family transcriptional regulator streptomyces, structural genomics, PSI-2; 2.20A {Streptomyces coelicolor} Probab=46.12 E-value=7.4 Score=18.71 Aligned_cols=46 Identities=9% Similarity=0.094 Sum_probs=31.2 Q ss_pred HHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH Q ss_conf 99999999999--83994999999863429999887558999448999 Q gi|254781147|r 21 IFVNNFRNIRK--EAKLTQKEIRNRTGFAQSWISELETGKSTINIDNM 66 (83) Q Consensus 21 ~~g~~ir~~R~--~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l 66 (83) ++-.-+..++. -.+.|..++|+.+|||++++..+..+|...=...+ T Consensus 30 IL~AA~~lf~e~G~~~~T~~~IA~~aGvs~~tlY~~F~sKe~Ll~al~ 77 (211) T 3fiw_A 30 VITEALDLLDEVGLDGVSTRRLAKRLGVEQPSLYWYFRTKRDLLTAMA 77 (211) T ss_dssp HHHHHHHHHHHHCGGGCCHHHHHHHHTSCTHHHHTTCSSHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHH T ss_conf 999999999974945375999999989288589898899899999999 No 373 >2jsc_A Transcriptional regulator RV1994C/MT2050; cadmium, transcriptional repressor, solution structure, structural genomics; NMR {Mycobacterium tuberculosis H37RV} Probab=46.03 E-value=8.6 Score=18.31 Aligned_cols=28 Identities=11% Similarity=0.165 Sum_probs=22.5 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983994999999863429999887 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) +..+ .+...|..++++.+|+|++++|+- T Consensus 27 l~~L-~~~~~~v~ela~~lgis~stvS~H 54 (118) T 2jsc_A 27 LVAL-LDGVCYPGQLAAHLGLTRSNVSNH 54 (118) T ss_dssp HHHH-HTTCCSTTTHHHHHSSCHHHHHHH T ss_pred HHHH-HCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999-819928999999989299999999 No 374 >1r1t_A Transcriptional repressor SMTB; zinc, transcriptional regulation, winged HTH protein, DNA binding, transcription repressor; 1.70A {Synechococcus elongatus pcc 7942} SCOP: a.4.5.5 PDB: 1r23_A 1smt_A 1r22_A Probab=45.39 E-value=13 Score=17.22 Aligned_cols=24 Identities=17% Similarity=0.277 Sum_probs=20.6 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ....++-.|+++.+|++++++|+- T Consensus 56 ~~~~~~v~ela~~l~~s~stvS~H 79 (122) T 1r1t_A 56 ARSELCVGDLAQAIGVSESAVSHQ 79 (122) T ss_dssp TTCCBCHHHHHHHHTCCHHHHHHH T ss_pred HCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 829976999999989198889999 No 375 >2bgc_A PRFA; bacterial infection, human pathogen, transcriptional regulator, transcription; HET: PR3; 2.3A {Listeria monocytogenes} SCOP: a.4.5.4 b.82.3.3 PDB: 2beo_A* 1omi_A Probab=45.12 E-value=11 Score=17.59 Aligned_cols=42 Identities=29% Similarity=0.315 Sum_probs=28.5 Q ss_pred CCCCHHHHHHHHHHH-HHHHHHHH----C--------CC-CCCCHHHHHHHHHHHC Q ss_conf 399499999986342-99998875----5--------89-9944899999999928 Q gi|254781147|r 33 AKLTQKEIRNRTGFA-QSWISELE----T--------GK-STINIDNMIILAHTLD 74 (83) Q Consensus 33 ~gltq~ela~~~gis-~~~is~iE----~--------G~-~~~~~~~l~~la~al~ 74 (83) ..+||.++|..+|+| +.++|++- + |+ ...+++.|..+|..++ T Consensus 168 ~~~t~~~lA~~lg~s~r~~vsR~L~~L~~~giI~~~~~~i~I~D~~~Lk~~a~~~~ 223 (238) T 2bgc_A 168 DNLTMQELGYSSGIAHSSAVSRIISKLKQEKVIVYKNSCFYVQNLDYLKRYAPKLD 223 (238) T ss_dssp SCCCHHHHHHHTTCCCHHHHHHHHHHHHHTTSEEEETTEEEESCHHHHHHHCHHHH T ss_pred CCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHHHHHHHHHCH T ss_conf 47679999999689818899999999998897997699999888999999861050 No 376 >1sgm_A Putative HTH-type transcriptional regulator YXAF; structural genomics, PSI, protein structure initiative; 2.00A {Bacillus subtilis} SCOP: a.4.1.9 a.121.1.1 Probab=44.54 E-value=17 Score=16.60 Aligned_cols=40 Identities=10% Similarity=0.056 Sum_probs=28.6 Q ss_pred HHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 999999999998--3994999999863429999887558999 Q gi|254781147|r 21 IFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISELETGKST 60 (83) Q Consensus 21 ~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~iE~G~~~ 60 (83) ++-.-++-+.+. .+.|..++|+.+|||++++..+..++.. T Consensus 11 Il~aa~~l~~~~G~~~~s~~~Ia~~agvs~~~~y~~F~skkd 52 (191) T 1sgm_A 11 ILHTASRLSQLQGYHATGLNQIVKESGAPKGSLYHFFPNGKE 52 (191) T ss_dssp HHHHHHHHHHHHCTTTCCHHHHHHHHCCCSCHHHHSTTTCHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCCHH T ss_conf 999999999983925077999999869198899788499188 No 377 >3f6o_A Probable transcriptional regulator, ARSR family protein; transcriptional regulator,RHA00566,MCSG, structural genomics, PSI-2; 1.90A {Rhodococcus SP} Probab=44.28 E-value=16 Score=16.75 Aligned_cols=26 Identities=12% Similarity=-0.027 Sum_probs=21.8 Q ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99983994999999863429999887 Q gi|254781147|r 29 IRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 29 ~R~~~gltq~ela~~~gis~~~is~i 54 (83) +-.+..+|..++|+.+|++++++|.- T Consensus 26 ~L~~~~~~v~ela~~l~~s~~tvS~H 51 (118) T 3f6o_A 26 RLSRGPATVSELAKPFDMALPSFMKH 51 (118) T ss_dssp HHHTCCEEHHHHHTTCCSCHHHHHHH T ss_pred HHHHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99809947999999989199999999 No 378 >3jth_A Transcription activator HLYU; transcription factor, RTXA, DNA-binding, transcription regulation; 2.00A {Vibrio vulnificus} Probab=44.21 E-value=9.3 Score=18.10 Aligned_cols=24 Identities=21% Similarity=0.264 Sum_probs=21.2 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ....++..|+++.+|+|++++|+- T Consensus 33 ~~~~~~v~ela~~l~~s~~tvS~H 56 (98) T 3jth_A 33 HNQELSVGELCAKLQLSQSALSQH 56 (98) T ss_dssp TTSCEEHHHHHHHHTCCHHHHHHH T ss_pred HCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 729937999999988595678899 No 379 >1z4h_A TORI, TOR inhibition protein; winged helix, reverse turn, protein binding, DNA binding protein; NMR {Escherichia coli} Probab=43.88 E-value=8.9 Score=18.22 Aligned_cols=24 Identities=25% Similarity=0.317 Sum_probs=20.1 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 994999999863429999887558 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~G 57 (83) =+...|+++++|+|+++|.+..+. T Consensus 10 llr~keV~~~~glsrstiy~~i~~ 33 (66) T 1z4h_A 10 LVDLKFIMADTGFGKTFIYDRIKS 33 (66) T ss_dssp EECHHHHHHHHSSCHHHHHHHHHH T ss_pred CCCHHHHHHHHCCCHHHHHHHHHC T ss_conf 064999999989799999999987 No 380 >3m8j_A FOCB protein; all-alpha, helix-turn-helix, transcription; 1.40A {Escherichia coli} Probab=43.50 E-value=12 Score=17.44 Aligned_cols=29 Identities=7% Similarity=0.193 Sum_probs=23.2 Q ss_pred HHHHH--HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999--983994999999863429999887 Q gi|254781147|r 26 FRNIR--KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R--~~~gltq~ela~~~gis~~~is~i 54 (83) |.++| .-.|+++++.+++-||+++++|.- T Consensus 50 I~AL~dylV~G~~rk~ac~r~~V~~syfS~~ 80 (111) T 3m8j_A 50 ILAMKDYLVSGHSRKDVCEKYQMNNGYFSTT 80 (111) T ss_dssp HHHHHHHHTTCCCHHHHHHHTTCCHHHHHHH T ss_pred HHHHHHHHHCCCHHHHHHHHHCCCHHHHHHH T ss_conf 9999999984870999999909978999999 No 381 >2rnj_A Response regulator protein VRAR; HTH LUXR-type domain, DNA binding domain, activator, antibiotic resistance, cytoplasm, DNA-binding; NMR {Staphylococcus aureus} Probab=42.51 E-value=12 Score=17.40 Aligned_cols=27 Identities=7% Similarity=0.032 Sum_probs=22.9 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 998399499999986342999988755 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~ 56 (83) ....|+|-+|+|+.+++|.++|..+-+ T Consensus 40 ll~~G~s~~eIA~~L~iS~~TV~~~~~ 66 (91) T 2rnj_A 40 LIAKGYSNQEIASASHITIKTVKTHVS 66 (91) T ss_dssp HHHTTCCTTHHHHHHTCCHHHHHHHHH T ss_pred HHHCCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 999289999999997889999999999 No 382 >2qko_A Possible transcriptional regulator, TETR family protein; structural genomics, PSI-2, protein structure initiative; 2.35A {Rhodococcus SP} Probab=42.50 E-value=2.1 Score=21.95 Aligned_cols=45 Identities=7% Similarity=-0.065 Sum_probs=31.4 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH Q ss_conf 999999839949999998634299998875589994489999999 Q gi|254781147|r 26 FRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILA 70 (83) Q Consensus 26 ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la 70 (83) +-.-.--.+.|..++|+.+|||++++..+..++...-...+..+. T Consensus 40 l~~~~G~~~~Ti~~IA~~Agvs~~tlY~~F~sK~~Ll~a~~~~~~ 84 (215) T 2qko_A 40 VLAREGARGLTFRAVDVEANVPKGTASNYFPSRDDLFDQVGKRIH 84 (215) T ss_dssp HHHHTCTTTCCHHHHHHHSSSTTTCHHHHCSCHHHHHHHHHHHGG T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHH T ss_conf 999859140789999998786840698884798999999999999 No 383 >1d2z_A Death domain of pelle; six-helix bundle, linear array of death domains, plastic interfaces, apoptosis; HET: EPE; 2.00A {Drosophila melanogaster} SCOP: a.77.1.2 PDB: 1ik7_A 1ygo_A Probab=42.09 E-value=18 Score=16.37 Aligned_cols=46 Identities=4% Similarity=0.104 Sum_probs=33.0 Q ss_pred CHHHHHHHHHHHHHHHHHHHC---CCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 499999986342999988755---8999448999999999289999960 Q gi|254781147|r 36 TQKEIRNRTGFAQSWISELET---GKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 36 tq~ela~~~gis~~~is~iE~---G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) .=..||..+|++...|..|+. ...+|+...|.....--+.++.+|+ T Consensus 33 ~Wr~LA~~Lg~~~~~I~~i~~~~~~~~sPt~~LL~~W~~~~~~Tv~~L~ 81 (108) T 1d2z_A 33 VWQQLATAVKLYPDQVEQISSQKQRGRSASNEFLNIWGGQYNHTVQTLF 81 (108) T ss_dssp CHHHHHHHTTCCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHCCBHHHHH T ss_pred CHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCCHHHHHH T ss_conf 5999999959899999999873266888699999999807557099999 No 384 >1l3l_A Transcriptional activator protein TRAR; helix-turn-helix DNA binding motif, alpha/beta/alpha sandwich; HET: LAE; 1.66A {Agrobacterium tumefaciens} SCOP: a.4.6.2 d.110.5.1 PDB: 1h0m_A* Probab=41.48 E-value=15 Score=16.83 Aligned_cols=44 Identities=14% Similarity=0.003 Sum_probs=28.4 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCC----CCCCCHHHHHHHHHHHC Q ss_conf 983994999999863429999887558----99944899999999928 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETG----KSTINIDNMIILAHTLD 74 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G----~~~~~~~~l~~la~al~ 74 (83) ...|+|-+|.|.++|||.+++...-+. -.-.+-..+..+|-.+| T Consensus 185 ~a~G~s~~eIA~~L~iS~~TV~~hl~~i~~KLg~~nr~qav~~A~~~g 232 (234) T 1l3l_A 185 IAVGKTMEEIADVEGVKYNSVRVKLREAMKRFDVRSKAHLTALAIRRK 232 (234) T ss_dssp HTTTCCHHHHHHHHTCCHHHHHHHHHHHHHHHTCSSHHHHHHHHHHTT T ss_pred HHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCC T ss_conf 976999999999969899999999999999868999999999999869 No 385 >2ia2_A Putative transcriptional regulator; SAD, PSI-2, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 2.10A {Rhodococcus SP} Probab=41.42 E-value=11 Score=17.59 Aligned_cols=24 Identities=8% Similarity=0.217 Sum_probs=21.8 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ...++|..|+|+.+|++++++.++ T Consensus 33 ~~~~lsl~eia~~l~l~kst~~Rl 56 (265) T 2ia2_A 33 RNQRRTLSDVARATDLTRATARRF 56 (265) T ss_dssp SCSSEEHHHHHHHHTCCHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 799979999999979499999999 No 386 >1uly_A Hypothetical protein PH1932; helix-turn-helix, structural genomics, DNA binding protein; 2.50A {Pyrococcus horikoshii OT3} SCOP: a.4.5.58 PDB: 2cwe_A Probab=40.11 E-value=19 Score=16.24 Aligned_cols=26 Identities=12% Similarity=0.143 Sum_probs=21.1 Q ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99983994999999863429999887 Q gi|254781147|r 29 IRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 29 ~R~~~gltq~ela~~~gis~~~is~i 54 (83) +-.+.-+|-.++|+.+|+|+++++.- T Consensus 28 ~L~~~~~t~~ela~~l~~s~~~v~~H 53 (192) T 1uly_A 28 LLRNKEMTISQLSEILGKTPQTIYHH 53 (192) T ss_dssp HHTTCCBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99829967999999989198899999 No 387 >2kko_A Possible transcriptional regulatory protein (possibly ARSR-family); NESG, DNA-binding, transcription regulation, WHTH, homodimer; NMR {Mycobacterium bovis} PDB: 3gw2_A Probab=39.53 E-value=15 Score=16.81 Aligned_cols=24 Identities=17% Similarity=0.136 Sum_probs=20.9 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) .....+-.|+++.+|+|++++|.- T Consensus 35 ~~~~~~v~eLa~~l~is~s~vS~H 58 (108) T 2kko_A 35 AQGERAVEAIATATGMNLTTASAN 58 (108) T ss_dssp TTCCEEHHHHHHHHTCCHHHHHHH T ss_pred HCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 809957999999989098889999 No 388 >1iuf_A Centromere ABP1 protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Schizosaccharomyces pombe} SCOP: a.4.1.7 a.4.1.7 Probab=38.78 E-value=4.5 Score=20.00 Aligned_cols=24 Identities=13% Similarity=0.201 Sum_probs=19.7 Q ss_pred HCCCCHHHHHHHH------HHHHHHHHHHH Q ss_conf 8399499999986------34299998875 Q gi|254781147|r 32 EAKLTQKEIRNRT------GFAQSWISELE 55 (83) Q Consensus 32 ~~gltq~ela~~~------gis~~~is~iE 55 (83) .-+++|.+||+-. +|++++||+|- T Consensus 28 ~~~~~Q~~la~wf~~~fg~~Is~STvs~IL 57 (144) T 1iuf_A 28 QNRSGQQDLIEWFREKFGKDISQPSVSQIL 57 (144) T ss_dssp SSCCCHHHHHHHHHHHHSSCCSSSSTTHHH T ss_pred CCCCCHHHHHHHHHHHHCCCCCHHHHHHHH T ss_conf 998779999999999987998698999999 No 389 >3him_A Probable transcriptional regulator; TETR, bacterial, RHA1, PSI-2, MCSG, structural genomics, midwest center for structural genomics; 2.20A {Rhodococcus jostii} Probab=38.66 E-value=2.7 Score=21.25 Aligned_cols=50 Identities=10% Similarity=-0.007 Sum_probs=33.1 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH Q ss_conf 99999999983994999999863429999887558999448999999999 Q gi|254781147|r 23 VNNFRNIRKEAKLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHT 72 (83) Q Consensus 23 g~~ir~~R~~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~a 72 (83) +..+-.-+--.+.|..++|+.+|||++++..+..+|..+-...+..+.+. T Consensus 25 A~~l~~~~G~~~~s~~~Ia~~agvs~~t~Y~~F~sK~~L~~a~~~~~~~~ 74 (211) T 3him_A 25 AIEVFAAKGYGATTTREIAASLDMSPGAVYPHYKTKESLLYAISLEGHHS 74 (211) T ss_dssp HHHHHHHHCSTTCCHHHHHHHTTCCTTSSTTTCSSHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 99999985935177999999979089788443499999999999988779 No 390 >3f6v_A Possible transcriptional regulator, ARSR family protein; probable transcriptional repressor ARSR family, structural genomics, PSI-2; 1.48A {Rhodococcus SP} Probab=38.17 E-value=9 Score=18.18 Aligned_cols=24 Identities=17% Similarity=0.095 Sum_probs=21.0 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) .+..+|..|+|+.+|++++++|+- T Consensus 68 ~~g~~tv~eLa~~l~is~stvS~H 91 (151) T 3f6v_A 68 TSGEQTVNNLAAHFPASRSAISQH 91 (151) T ss_dssp GGCCEEHHHHHTTSSSCHHHHHHH T ss_pred HHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 809938999999989199999999 No 391 >2q0o_A Probable transcriptional activator protein TRAR; helix-turn-helix, two-helix coiled coil; HET: LAE; 2.00A {Rhizobium SP} Probab=37.22 E-value=18 Score=16.35 Aligned_cols=45 Identities=11% Similarity=0.091 Sum_probs=28.9 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCCC----CCCCHHHHHHHHHHHC Q ss_conf 99839949999998634299998875589----9944899999999928 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELETGK----STINIDNMIILAHTLD 74 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~G~----~~~~~~~l~~la~al~ 74 (83) ....|+|-+|.|..+|||..++...-+.- .--+-..+...|-.+| T Consensus 186 l~a~G~t~~eIA~~L~iS~~TV~~h~~~i~~KLgv~nr~qava~A~~~G 234 (236) T 2q0o_A 186 WASKGKTASVTANLTGINARTVQHYLDKARAKLDAESVPQLVAIAKDRG 234 (236) T ss_dssp HHHTTCCHHHHHHHHCCCHHHHHHHHHHHHHHHTCSSHHHHHHHHHHTT T ss_pred HHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCC T ss_conf 9866999999999969999999999999999868999999999999868 No 392 >1y0u_A Arsenical resistance operon repressor, putative; structural genomics, protein structure initiative, PSI; HET: MSE; 1.60A {Archaeoglobus fulgidus dsm 4304} SCOP: a.4.5.5 Probab=36.17 E-value=23 Score=15.81 Aligned_cols=22 Identities=9% Similarity=0.176 Sum_probs=19.6 Q ss_pred HCCCCHHHHHHHHHHHHHHHHH Q ss_conf 8399499999986342999988 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISE 53 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~ 53 (83) ..+.|..|+|+.+|+|++++|. T Consensus 41 ~~~~~~~eLa~~lg~s~stvs~ 62 (96) T 1y0u_A 41 DKGRSEEEIMQTLSLSKKQLDY 62 (96) T ss_dssp HTTCCHHHHHHHHTCCHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHH T ss_conf 5799799999998919989999 No 393 >1d5y_A ROB transcription factor; protein-DNA complex, DNA, transcription/DNA complex; HET: DNA; 2.70A {Escherichia coli} SCOP: a.4.1.8 a.4.1.8 d.60.1.2 Probab=36.12 E-value=9.9 Score=17.94 Aligned_cols=34 Identities=9% Similarity=0.251 Sum_probs=23.6 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHH Q ss_conf 8399499999986342999988755899944899 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELETGKSTINIDN 65 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~G~~~~~~~~ 65 (83) ...+|.+++|+.+|+|..+++++-+.....++.. T Consensus 17 ~~~~~l~~la~~~~~s~~~~~r~f~~~~g~~~~~ 50 (292) T 1d5y_A 17 DQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGA 50 (292) T ss_dssp SSSCCCHHHHTTTSSCHHHHHHHHHHHHSSCHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCHHH T ss_conf 8999999999998939999999999998909999 No 394 >1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Probab=35.74 E-value=21 Score=16.01 Aligned_cols=23 Identities=39% Similarity=0.368 Sum_probs=11.1 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 83994999999863429999887 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~i 54 (83) ..+.||.++|+.+|+|..+|.+. T Consensus 157 ~~~~t~~~Ia~~~~vs~~TI~~~ 179 (207) T 1c9b_A 157 AEKRTQKEIGDIAGVADVTIRQS 179 (207) T ss_dssp SSCCCHHHHHHHHTCCHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 89999999999979889999999 No 395 >2ev1_A Hypothetical protein RV1264/MT1302; alpha-helical, regulatory domain of adenylyl cyclase, oleic acid, lyase; HET: OLA 1PE; 1.60A {Mycobacterium tuberculosis} PDB: 2ev2_A* 2ev3_A* 2ev4_A* Probab=34.99 E-value=15 Score=16.82 Aligned_cols=23 Identities=13% Similarity=0.349 Sum_probs=17.8 Q ss_pred CCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 94999999863429999887558 Q gi|254781147|r 35 LTQKEIRNRTGFAQSWISELETG 57 (83) Q Consensus 35 ltq~ela~~~gis~~~is~iE~G 57 (83) +|..|+|+.+||+.-++.+|++. T Consensus 79 Yt~rEvAe~tGV~~e~~rr~wRa 101 (222) T 2ev1_A 79 VSAREISENYGVDLELLQRVQRA 101 (222) T ss_dssp ECHHHHHHHHTCCHHHHHHHHHH T ss_pred ECHHHHHHHHCCCHHHHHHHHHH T ss_conf 86999999979199999999998 No 396 >2p4w_A Transcriptional regulatory protein ARSR family; archaea, PHR, heat shock, transcriptional regulation, winged helix, DNA binding; 2.60A {Pyrococcus furiosus} SCOP: a.4.5.64 Probab=34.41 E-value=24 Score=15.64 Aligned_cols=24 Identities=17% Similarity=0.158 Sum_probs=20.5 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ...-+|-.++|+.+|+|++++++- T Consensus 25 ~~~~~~~~ela~~l~is~~~v~~H 48 (202) T 2p4w_A 25 TKRPYFVSELSRELGVGQKAVLEH 48 (202) T ss_dssp HHSCEEHHHHHHHHTCCHHHHHHH T ss_pred HCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 739998999999989099899999 No 397 >1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Probab=34.29 E-value=21 Score=15.95 Aligned_cols=46 Identities=15% Similarity=0.037 Sum_probs=23.0 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHC------C--CCC---CCHHHHHHHHHHHCCCH Q ss_conf 8399499999986342999988755------8--999---44899999999928999 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELET------G--KST---INIDNMIILAHTLDTPL 77 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~------G--~~~---~~~~~l~~la~al~i~~ 77 (83) ....|..|+|+..+++...+++..+ + ... -+-+-+.++|..|+++- T Consensus 67 ~~prtl~eia~~~~~~~k~i~~~~k~i~~~l~~~~~~~~~~~~~~i~rf~~~l~l~~ 123 (200) T 1ais_B 67 KVPRTLDEIADIARVDKKEIGRSYRFIARNLNLTPKKLFVKPTDYVNKFADELGLSE 123 (200) T ss_dssp TCCCCHHHHHHHTTSCHHHHHHHHHHHHHHTTCCTTTTCCCGGGGHHHHHHHHTCCH T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCCCH T ss_conf 899679999999840299999999999999632356688998999999985627989 No 398 >3clo_A Transcriptional regulator; NP_811094.1, bacterial regulatory proteins, LUXR family, structural genomics; 2.04A {Bacteroides thetaiotaomicron vpi-5482} Probab=33.70 E-value=25 Score=15.57 Aligned_cols=44 Identities=16% Similarity=0.020 Sum_probs=29.7 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHCC----CCCCCHHHHHHHHHHHC Q ss_conf 983994999999863429999887558----99944899999999928 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELETG----KSTINIDNMIILAHTLD 74 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~G----~~~~~~~~l~~la~al~ 74 (83) ...|+|-+|.|+.+++|.+++...-.. -.--+...+..+|..+| T Consensus 209 ~~~G~~~~eia~~l~is~~tv~~h~~~~~~kl~~~~~~~~~~~a~~~~ 256 (258) T 3clo_A 209 IRKGLSSKEIAATLYISVNTVNRHRQNILEKLSVGNSIEACRAAELMK 256 (258) T ss_dssp HHTTCCHHHHHHHHTCCHHHHHHHHHHHHHHTTCSSHHHHHHHHHHTT T ss_pred HHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCC T ss_conf 985999999998949999999999999999858999999999999859 No 399 >2vt3_A REX, redox-sensing transcriptional repressor REX; transcriptional regulation, transcription regulation, redox poise, DNA-binding, NAD, NADH; HET: ATP; 2.0A {Bacillus subtilis} PDB: 2vt2_A* Probab=33.67 E-value=25 Score=15.57 Aligned_cols=73 Identities=18% Similarity=0.322 Sum_probs=39.9 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHH-----HCCCCC--CCHHH-HHHHH Q ss_conf 96988888868989999999999999999998--3994999999863429999887-----558999--44899-99999 Q gi|254781147|r 1 MPRRKRDEPHLSDAILRERMIFVNNFRNIRKE--AKLTQKEIRNRTGFAQSWISEL-----ETGKST--INIDN-MIILA 70 (83) Q Consensus 1 Mp~~~~~~p~~~~~~~~~~~~~g~~ir~~R~~--~gltq~ela~~~gis~~~is~i-----E~G~~~--~~~~~-l~~la 70 (83) |.+++.+-|. +..+.-...-+.|+.+..+ ...|-.+||+.+|++.+.|.+= +-|++. -+++. +..|. T Consensus 1 M~~~~~~Ip~---~ti~RLp~Y~r~L~~l~~~g~~~iSS~~La~~~gi~~~qvRkDls~fG~~G~~g~GY~V~~L~~~i~ 77 (215) T 2vt3_A 1 MNKDQSKIPQ---ATAKRLPLYYRFLKNLHASGKQRVSSAELSDAVKVDSATIRRDFSYFGALGKKGYGYNVDYLLSFFR 77 (215) T ss_dssp -------------CHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHCCCHHHHHHHHHHTTCCC-----EEHHHHHHHHH T ss_pred CCCCCCCCCH---HHHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCEEHHHHHHHHH T ss_conf 9964466898---9999999999999999986994897999999969899999999999742499888716899999999 Q ss_pred HHHCCC Q ss_conf 992899 Q gi|254781147|r 71 HTLDTP 76 (83) Q Consensus 71 ~al~i~ 76 (83) +.||.. T Consensus 78 ~iLG~~ 83 (215) T 2vt3_A 78 KTLDQD 83 (215) T ss_dssp HHHHHC T ss_pred HHHCCC T ss_conf 996899 No 400 >1e0g_A Membrane-bound lytic murein transglycosylase D; cell WALL, hydrolase, glycosidase, lipoprotein, outer membrane, multigene family; NMR {Escherichia coli} SCOP: d.7.1.1 Probab=33.42 E-value=12 Score=17.45 Aligned_cols=22 Identities=14% Similarity=0.065 Sum_probs=11.5 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 3994999999863429999887 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i 54 (83) .|=|...+|.+-|++...|.++ T Consensus 9 ~GDTl~~IA~~y~vs~~~i~~~ 30 (48) T 1e0g_A 9 KGDSLSSIAKRHGVNIKDVMRW 30 (48) T ss_dssp TTCCHHHHHHHHTCCHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999999999989689999986 No 401 >3by6_A Predicted transcriptional regulator; structural genomics, PSI-2, MCSG, protein structure initiative, midwest center for structural genomics; 2.20A {Oenococcus oeni psu-1} Probab=33.16 E-value=20 Score=16.12 Aligned_cols=19 Identities=5% Similarity=0.081 Sum_probs=17.3 Q ss_pred CHHHHHHHHHHHHHHHHHH Q ss_conf 4999999863429999887 Q gi|254781147|r 36 TQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 36 tq~ela~~~gis~~~is~i 54 (83) |..+||+..|||++++.+. T Consensus 37 ser~La~~~~vSr~tVr~A 55 (126) T 3by6_A 37 SVRETALQEKINPNTVAKA 55 (126) T ss_dssp CHHHHHHHHTCCHHHHHHH T ss_pred CHHHHHHHHCCCHHHHHHH T ss_conf 4999999979898999999 No 402 >2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc binding transcription factor; 2.40A {Rhodobacter sphaeroides 2} PDB: 2z2s_A Probab=33.11 E-value=4.2 Score=20.17 Aligned_cols=31 Identities=19% Similarity=0.178 Sum_probs=24.5 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999983994999999863429999887 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) ..|-.++.-.|+|.+|+|+.+|+|..++... T Consensus 141 r~vl~l~~~~g~s~~eIA~~lgis~~tV~~~ 171 (184) T 2q1z_A 141 RALIERAFFGDLTHRELAAETGLPLGTIKSR 171 (184) T ss_dssp HHHHHHHHHSCCSSCCSTTTCCCCCHHHHHH T ss_pred HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHH T ss_conf 9999999992999999999989399999999 No 403 >1p4x_A Staphylococcal accessory regulator A homologue; winged-helix protein, transcription; 2.20A {Staphylococcus aureus} SCOP: a.4.5.28 a.4.5.28 Probab=32.74 E-value=15 Score=16.85 Aligned_cols=22 Identities=5% Similarity=-0.079 Sum_probs=14.8 Q ss_pred CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 3994999999863429999887 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~i 54 (83) .++|+.++|+.+|++.++++++ T Consensus 173 ~~~~~~~la~~l~~~~~~vs~~ 194 (250) T 1p4x_A 173 NIVLLKDLIETIHHKYPQTVRA 194 (250) T ss_dssp CCEEHHHHHHHSSSCHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHH T ss_conf 9676999999978885069999 No 404 >2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined alpha helices; 2.20A {Corynebacterium glutamicum atcc 13032} PDB: 2du9_A Probab=32.67 E-value=19 Score=16.23 Aligned_cols=22 Identities=5% Similarity=0.021 Sum_probs=18.4 Q ss_pred CCC-CHHHHHHHHHHHHHHHHHH Q ss_conf 399-4999999863429999887 Q gi|254781147|r 33 AKL-TQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 33 ~gl-tq~ela~~~gis~~~is~i 54 (83) ..+ |..+||+..|||++++.+- T Consensus 26 ~~LPse~~La~~~gVSr~tVR~A 48 (129) T 2ek5_A 26 QRVPSTNELAAFHRINPATARNG 48 (129) T ss_dssp SCBCCHHHHHHHTTCCHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99878999998929999999999 No 405 >3c3w_A Two component transcriptional regulatory protein DEVR; response regulator, two-component regulatory system, DNA- binding protein; 2.20A {Mycobacterium tuberculosis} Probab=30.84 E-value=28 Score=15.28 Aligned_cols=24 Identities=25% Similarity=0.285 Sum_probs=20.8 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) ...|+|-+++|+.+++|..|+..+ T Consensus 161 l~~G~snkeIA~~L~iS~~TVk~h 184 (225) T 3c3w_A 161 LSEGLTNKQIADRMFLAEKTVKNY 184 (225) T ss_dssp HHTTCCHHHHHHHHTCCHHHHHHH T ss_pred HHHCCCHHHHHHHHCCCHHHHHHH T ss_conf 993898889999978879999999 No 406 >1qbj_A Protein (double-stranded RNA specific adenosine deaminase (ADAR1)); protein/Z-DNA complex, hydrolase/DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A Probab=30.36 E-value=28 Score=15.23 Aligned_cols=33 Identities=9% Similarity=0.234 Sum_probs=24.2 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999999983994999999863429999887 Q gi|254781147|r 22 FVNNFRNIRKEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 22 ~g~~ir~~R~~~gltq~ela~~~gis~~~is~i 54 (83) +-..|+.+....++|-.++|+.+|++...|.+. T Consensus 15 Il~~L~~~g~g~~~tA~~LAk~lg~~Kk~vN~~ 47 (81) T 1qbj_A 15 ILKFLEELGEGKATTAHDLSGKLGTPKKEINRV 47 (81) T ss_dssp HHHHHHHHCTTCCBCHHHHHHHHTCCHHHHHHH T ss_pred HHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHH T ss_conf 999999737997521999999969888898999 No 407 >1xd7_A YWNA; structural genomics, protein structure initiative, winged helix DNA binding, hypothetical protein, PSI; 2.30A {Bacillus subtilis subsp} SCOP: a.4.5.55 Probab=29.42 E-value=29 Score=15.14 Aligned_cols=24 Identities=8% Similarity=0.127 Sum_probs=21.4 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 983994999999863429999887 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~i 54 (83) .+..+|-+++|+..|++++++.+| T Consensus 20 ~~~~~ss~~IAe~~~i~~~~l~kI 43 (145) T 1xd7_A 20 MDEKTSSEIIADSVNTNPVVVRRM 43 (145) T ss_dssp TCSCCCHHHHHHHHTSCHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 499989999998889199999999 No 408 >1y6u_A XIS, excisionase from transposon TN916; structure, DNA architectural protein, tyrosine recombinase, winged-helix protein; NMR {Enterococcus faecalis} Probab=28.92 E-value=20 Score=16.16 Aligned_cols=25 Identities=16% Similarity=0.136 Sum_probs=21.3 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 8399499999986342999988755 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE~ 56 (83) .--||.+|.|+-.||+++++.++=+ T Consensus 14 K~~LTi~EAa~Y~gIg~~klr~L~~ 38 (70) T 1y6u_A 14 RYTLTIEEASKYFRIGENKLRRLAE 38 (70) T ss_dssp SSEEEHHHHHHHTCSCHHHHHHHHH T ss_pred HHHCCHHHHHHHHCCCHHHHHHHHH T ss_conf 1003899999996927999999998 No 409 >2vn2_A DNAD, chromosome replication initiation protein; DNA replication, primosome; 2.3A {Geobacillus kaustophilus HTA426} Probab=28.30 E-value=21 Score=15.98 Aligned_cols=20 Identities=20% Similarity=0.185 Sum_probs=17.3 Q ss_pred CCHHHHHHHHHHHHHHHHHH Q ss_conf 94999999863429999887 Q gi|254781147|r 35 LTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 35 ltq~ela~~~gis~~~is~i 54 (83) .|.+.+|+.+|+|.+++.++ T Consensus 52 PS~~~La~~~g~s~~~v~~~ 71 (128) T 2vn2_A 52 PTPAELAERMTVSAAECMEM 71 (128) T ss_dssp CCHHHHHHTSSSCHHHHHHH T ss_pred CCHHHHHHHHCCCHHHHHHH T ss_conf 99999998959499999999 No 410 >1ylf_A RRF2 family protein; structural genomics, transcription regulator, PSI, protein structure initiative; 2.50A {Bacillus cereus atcc 14579} SCOP: a.4.5.55 Probab=28.01 E-value=31 Score=14.99 Aligned_cols=44 Identities=9% Similarity=0.123 Sum_probs=30.5 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHH-----C-------C------CCCCCHHHHHHHHHHHCC Q ss_conf 839949999998634299998875-----5-------8------999448999999999289 Q gi|254781147|r 32 EAKLTQKEIRNRTGFAQSWISELE-----T-------G------KSTINIDNMIILAHTLDT 75 (83) Q Consensus 32 ~~gltq~ela~~~gis~~~is~iE-----~-------G------~~~~~~~~l~~la~al~i 75 (83) ..-+|-+++|+..|+++.++.++- + | ...|.--+|..+-++++. T Consensus 28 ~~~~s~~~ia~~~~i~~~~l~kil~~L~kaGlv~s~rG~GGy~L~r~p~~ItL~dI~~ai~~ 89 (149) T 1ylf_A 28 SSLCTSDYMAESVNTNPVVIRKIMSYLKQAGFVYVNRGPGGAGLLKDLHEITLLDVYHAVNV 89 (149) T ss_dssp GGGCCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEC---CCEEESSCGGGCBHHHHHHHHCC T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCCCCEECCCHHHCCHHHHHHHHHC T ss_conf 98666999998789099999999999998898673169998530488755589999999815 No 411 >3lwf_A LIN1550 protein, putative transcriptional regulator; structural genomics, JOI for structural genomics, JCSG; HET: SO4; 2.06A {Listeria innocua} Probab=27.34 E-value=29 Score=15.14 Aligned_cols=23 Identities=9% Similarity=0.356 Sum_probs=20.2 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 39949999998634299998875 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE 55 (83) .-+|-+++|+..|++++++.+|- T Consensus 43 ~~vs~~eIAe~~~ip~~~L~kIl 65 (159) T 3lwf_A 43 GPISLRSIAQDKNLSEHYLEQLI 65 (159) T ss_dssp CCBCHHHHHHHHTCCHHHHHHHH T ss_pred CEECHHHHHHHHCCCHHHHHHHH T ss_conf 81959999987890999999999 No 412 >2wv0_A YVOA, HTH-type transcriptional repressor YVOA; DNA-binding, transcription regulation, transcriptional regulator, GNTR/HUTC family; 2.40A {Bacillus subtilis} Probab=27.18 E-value=32 Score=14.90 Aligned_cols=23 Identities=13% Similarity=0.328 Sum_probs=19.2 Q ss_pred HCCC-CHHHHHHHHHHHHHHHHHH Q ss_conf 8399-4999999863429999887 Q gi|254781147|r 32 EAKL-TQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 32 ~~gl-tq~ela~~~gis~~~is~i 54 (83) -..+ |..+||+..|||+.++.+- T Consensus 31 G~~LPse~~La~~~~VSr~TVR~A 54 (243) T 2wv0_A 31 DMPLPSEREYAEQFGISRMTVRQA 54 (243) T ss_dssp TCBCCCHHHHHHHHTCCHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 399937999999979699999999 No 413 >1hw1_A FADR, fatty acid metabolism regulator protein; helix-turn-helix, helix bundle, transcription; 1.50A {Escherichia coli} SCOP: a.4.5.6 a.78.1.1 PDB: 1hw2_A 1e2x_A 1h9g_A* 1h9t_A Probab=26.85 E-value=32 Score=14.92 Aligned_cols=22 Identities=18% Similarity=0.404 Sum_probs=16.5 Q ss_pred CCC-CHHHHHHHHHHHHHHHHHH Q ss_conf 399-4999999863429999887 Q gi|254781147|r 33 AKL-TQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 33 ~gl-tq~ela~~~gis~~~is~i 54 (83) ..+ |..+||+..|||++++... T Consensus 29 ~~LPse~eLa~~~gVSr~tVReA 51 (239) T 1hw1_A 29 TILPAERELSELIGVTRTTLREV 51 (239) T ss_dssp SBCCCHHHHHHHHTCCHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99915999999989299999999 No 414 >3eet_A Putative GNTR-family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.97A {Streptomyces avermitilis} Probab=26.61 E-value=30 Score=15.05 Aligned_cols=22 Identities=27% Similarity=0.406 Sum_probs=19.0 Q ss_pred CCC-CHHHHHHHHHHHHHHHHHH Q ss_conf 399-4999999863429999887 Q gi|254781147|r 33 AKL-TQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 33 ~gl-tq~ela~~~gis~~~is~i 54 (83) -.+ |..+||+..|||+.++.+. T Consensus 51 ~rLPsereLA~~~gVSR~TVR~A 73 (272) T 3eet_A 51 TRLPSQARIREEYGVSDTVALEA 73 (272) T ss_dssp SBCCCHHHHHHHHTCCHHHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99908999999989499999999 No 415 >3neu_A LIN1836 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, unknown function; 1.58A {Listeria innocua} Probab=26.60 E-value=30 Score=15.05 Aligned_cols=23 Identities=22% Similarity=0.284 Sum_probs=19.1 Q ss_pred HCCC-CHHHHHHHHHHHHHHHHHH Q ss_conf 8399-4999999863429999887 Q gi|254781147|r 32 EAKL-TQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 32 ~~gl-tq~ela~~~gis~~~is~i 54 (83) ...+ |..+||+..|||+.++.+- T Consensus 34 G~~LPser~La~~~~VSr~tVr~A 57 (125) T 3neu_A 34 EDKLPSVREMGVKLAVNPNTVSRA 57 (125) T ss_dssp TCBCCCHHHHHHHHTCCHHHHHHH T ss_pred CCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 699954999999939288999999 No 416 >3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, P partition, DNA binding protein; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A Probab=26.08 E-value=19 Score=16.27 Aligned_cols=57 Identities=12% Similarity=0.214 Sum_probs=39.6 Q ss_pred HHHHHHHHHHHH-------CCCCHHHHHHHHHHHHHHHHHH----H----------CCC---CCCCHHHHHHHHHHHCCC Q ss_conf 999999999998-------3994999999863429999887----5----------589---994489999999992899 Q gi|254781147|r 21 IFVNNFRNIRKE-------AKLTQKEIRNRTGFAQSWISEL----E----------TGK---STINIDNMIILAHTLDTP 76 (83) Q Consensus 21 ~~g~~ir~~R~~-------~gltq~ela~~~gis~~~is~i----E----------~G~---~~~~~~~l~~la~al~i~ 76 (83) .+.+.|+..|.+ +-+|..++|+.+|++++++... | +|. ...+++.+..+.+.++++ T Consensus 20 ~l~~~~~~~~~~~~~~~~~~~~~~~~~a~l~~~~~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~tl~~i~~~~~~~~~~ 99 (398) T 3ez2_A 20 VLTEQVQLQKDELHANEFYQVYAKAALAKLPLLTRANVDYAVSEMEEKGYVFDKRPAGSSMKYAMSIQNIIDIYEHRGVP 99 (398) T ss_dssp HHHHHHTTTC------CCCCCBCGGGGGGSTTCCHHHHHHHHHHHHHHTCCCCEEECSSSEEECBCHHHHHHHHHHTTCC T ss_pred HHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHCCC T ss_conf 99999984332457531356777999997559888899999985430588876567886642465599999999972689 Q ss_pred H Q ss_conf 9 Q gi|254781147|r 77 L 77 (83) Q Consensus 77 ~ 77 (83) . T Consensus 100 ~ 100 (398) T 3ez2_A 100 K 100 (398) T ss_dssp C T ss_pred C T ss_conf 8 No 417 >1v4r_A Transcriptional repressor; helix-turn-helix, winged-helix, gene regulation; NMR {Streptomyces} SCOP: a.4.5.6 Probab=25.48 E-value=30 Score=15.10 Aligned_cols=22 Identities=27% Similarity=0.362 Sum_probs=19.0 Q ss_pred CCC-CHHHHHHHHHHHHHHHHHH Q ss_conf 399-4999999863429999887 Q gi|254781147|r 33 AKL-TQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 33 ~gl-tq~ela~~~gis~~~is~i 54 (83) ..+ |..+||+..|||++++.+- T Consensus 33 ~~LPser~La~~~~vSr~tvr~A 55 (102) T 1v4r_A 33 DTLPSVADIRAQFGVAAKTVSRA 55 (102) T ss_dssp SBCCCHHHHHHHSSSCTTHHHHH T ss_pred CCCCCHHHHHHHHCCCHHHHHHH T ss_conf 99837999999979877999999 No 418 >2v79_A DNA replication protein DNAD; primosome, DNA remodelling, oligomerization domain, DNA-binding protein; HET: DNA; 2.00A {Bacillus subtilis} Probab=25.43 E-value=20 Score=16.09 Aligned_cols=20 Identities=5% Similarity=0.038 Sum_probs=13.6 Q ss_pred CCHHHHHHHHHHHHHHHHHH Q ss_conf 94999999863429999887 Q gi|254781147|r 35 LTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 35 ltq~ela~~~gis~~~is~i 54 (83) -|.+.+|+.+|+|.+++.++ T Consensus 52 PS~~~La~~~g~s~~~v~~~ 71 (135) T 2v79_A 52 PTPNQLQEGMSISVEECTNR 71 (135) T ss_dssp CCHHHHHTTSSSCHHHHHHH T ss_pred CCHHHHHHHHCCCHHHHHHH T ss_conf 89999998959499999999 No 419 >3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research, nysgxrc; 2.33A {Bacteroides vulgatus atcc 8482} Probab=25.32 E-value=35 Score=14.70 Aligned_cols=23 Identities=30% Similarity=0.294 Sum_probs=19.8 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 39949999998634299998875 Q gi|254781147|r 33 AKLTQKEIRNRTGFAQSWISELE 55 (83) Q Consensus 33 ~gltq~ela~~~gis~~~is~iE 55 (83) .++|.+|||+++|++...+.++- T Consensus 49 ~~~t~~eLa~~~g~~~~~l~rlL 71 (363) T 3dp7_A 49 EGYTLQEISGRTGLTRYAAQVLL 71 (363) T ss_dssp TCBCHHHHHHHHTCCHHHHHHHH T ss_pred CCCCHHHHHHHHCCCHHHHHHHH T ss_conf 99899999988790999999999 No 420 >1q1h_A TFE, transcription factor E, TFE; TFIIE, transcription initiation, preinitiation complex, RNA polymerase II, transcription bubble; 2.90A {Sulfolobus solfataricus} SCOP: a.4.5.41 Probab=24.19 E-value=37 Score=14.57 Aligned_cols=29 Identities=17% Similarity=0.273 Sum_probs=21.7 Q ss_pred HHHHHHH-CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999998-3994999999863429999887 Q gi|254781147|r 26 FRNIRKE-AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 26 ir~~R~~-~gltq~ela~~~gis~~~is~i 54 (83) ++.+... ..++.+++|+.+|+....+.++ T Consensus 24 ~~~L~~~~~~l~ee~la~~~~i~~k~vR~i 53 (110) T 1q1h_A 24 LRILLDKGTEMTDEEIANQLNIKVNDVRKK 53 (110) T ss_dssp HHHHHHHCSCBCHHHHHHTTTSCHHHHHHH T ss_pred HHHHHHCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999998588778999998949999999999 No 421 >2gqq_A Leucine-responsive regulatory protein; helix-turn-helix, transcription; 3.20A {Escherichia coli} Probab=23.39 E-value=3.2 Score=20.89 Aligned_cols=29 Identities=17% Similarity=0.408 Sum_probs=24.7 Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHH Q ss_conf 99999999839949999998634299998 Q gi|254781147|r 24 NNFRNIRKEAKLTQKEIRNRTGFAQSWIS 52 (83) Q Consensus 24 ~~ir~~R~~~gltq~ela~~~gis~~~is 52 (83) +-|+.+.+.-..|..++|+.+|+|.+++. T Consensus 17 ~Il~~L~~d~R~s~~~IA~~lg~S~~tV~ 45 (163) T 2gqq_A 17 NILNELQKDGRISNVELSKRVGLSPTPCL 45 (163) T ss_dssp HHHHHHHHCSSCCTTGGGTSSSCCTTTSS T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHH T ss_conf 99999998589999999999890999999 No 422 >2djp_A Hypothetical protein SB145; LYSM, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=23.17 E-value=23 Score=15.72 Aligned_cols=26 Identities=15% Similarity=0.056 Sum_probs=16.9 Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 98399499999986342999988755 Q gi|254781147|r 31 KEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 31 ~~~gltq~ela~~~gis~~~is~iE~ 56 (83) .+.|=|...+|++-|++...|.++-+ T Consensus 20 V~~GDTL~~IA~~y~v~~~~i~~~N~ 45 (77) T 2djp_A 20 LEPGDTLAGLALKYGVTMEQIKRANR 45 (77) T ss_dssp CCTTCCHHHHHHHHTCCHHHHHHHHT T ss_pred ECCCCCHHHHHHHHHHHHHHHHHHCC T ss_conf 89999999999998889999998759 No 423 >2vpv_A Protein MIF2, MIF2P; nucleus, mitosis, centromere, cell cycle, DNA-binding, kinetochore, cell division, phosphoprotein, jelly-roll fold; 2.7A {Saccharomyces cerevisiae} Probab=22.73 E-value=15 Score=16.94 Aligned_cols=36 Identities=11% Similarity=0.017 Sum_probs=23.2 Q ss_pred HHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHH Q ss_conf 8634299998875589994489999999992899999 Q gi|254781147|r 43 RTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWK 79 (83) Q Consensus 43 ~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~ 79 (83) -.+.+.+.|++||+|... +...+...+-.++++... T Consensus 10 ~~~~s~~~is~ie~g~~~-~~~~~~~~~~~~~v~~~~ 45 (166) T 2vpv_A 10 PEDPNEDIIERIESGGIE-NGEWLKHGILEANVKISD 45 (166) T ss_dssp ------------------------------------- T ss_pred CCCCCHHHHHHHHCCCCC-CHHHHHHHHCCCCCCCCC T ss_conf 278897685797769989-506623101014401200 No 424 >2dbf_A Nuclear factor NF-kappa-B P105 subunit; apoptosis, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=22.26 E-value=40 Score=14.34 Aligned_cols=45 Identities=7% Similarity=0.011 Sum_probs=31.3 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHC Q ss_conf 994999999863429999887558999448999999999289999960 Q gi|254781147|r 34 KLTQKEIRNRTGFAQSWISELETGKSTINIDNMIILAHTLDTPLWKLL 81 (83) Q Consensus 34 gltq~ela~~~gis~~~is~iE~G~~~~~~~~l~~la~al~i~~~~l~ 81 (83) |-.=..||..+|++. .|..++.+. +|+...|..+. .-+.++.+|+ T Consensus 30 g~dWr~LA~~Lg~~~-~i~~~~~~~-sPt~~LL~~w~-~~~~tv~~L~ 74 (100) T 2dbf_A 30 DKNWATLAQKLGLGI-LNNAFRLSP-APSKTLMDNYE-VSGGTVRELV 74 (100) T ss_dssp TSSHHHHHHHHTCGG-GHHHHHHSS-CHHHHHHHHHH-HTCCCHHHHH T ss_pred CCCHHHHHHHCCCHH-HHHHHHCCC-CHHHHHHHHHH-CCCCCHHHHH T ss_conf 988999999929889-999997289-87999999998-0899799999 No 425 >1ixc_A CBNR, LYSR-type regulatory protein; long alpha helix connecting DNA binding and regulatory domains, DNA binding protein; 2.20A {Cupriavidus necator} SCOP: a.4.5.37 c.94.1.1 PDB: 1iz1_A Probab=22.06 E-value=40 Score=14.31 Aligned_cols=20 Identities=15% Similarity=-0.002 Sum_probs=12.8 Q ss_pred CCHHHHHHHHHHHHHHHHHH Q ss_conf 94999999863429999887 Q gi|254781147|r 35 LTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 35 ltq~ela~~~gis~~~is~i 54 (83) -|....|+.+|+|++++|+- T Consensus 16 ~s~~~AA~~L~~sq~avS~~ 35 (294) T 1ixc_A 16 GNMAAAAKRLHVSQPPITRQ 35 (294) T ss_dssp SSHHHHHHHHTCCHHHHHHH T ss_pred CCHHHHHHHHCCCHHHHHHH T ss_conf 99999999988888999999 No 426 >3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Probab=20.81 E-value=17 Score=16.57 Aligned_cols=27 Identities=7% Similarity=-0.027 Sum_probs=20.5 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 998399499999986342999988755 Q gi|254781147|r 30 RKEAKLTQKEIRNRTGFAQSWISELET 56 (83) Q Consensus 30 R~~~gltq~ela~~~gis~~~is~iE~ 56 (83) ....+.||+++|+.+|||..+|.+.-+ T Consensus 288 ~~~~~~t~~~Ia~~~~vs~~TI~~~yk 314 (345) T 3k7a_M 288 LFQIPITAAKVGQTLQVTEGTIKSGYK 314 (345) T ss_dssp --------------------------- T ss_pred HHCCCCCHHHHHHHHCCCHHHHHHHHH T ss_conf 968798999999885987999999999 No 427 >2di3_A Bacterial regulatory proteins, GNTR family; helix-turn-helix, transcription; 2.05A {Corynebacterium glutamicum} Probab=20.47 E-value=44 Score=14.11 Aligned_cols=20 Identities=20% Similarity=0.449 Sum_probs=16.3 Q ss_pred CC-CHHHHHHHHHHHHHHHHH Q ss_conf 99-499999986342999988 Q gi|254781147|r 34 KL-TQKEIRNRTGFAQSWISE 53 (83) Q Consensus 34 gl-tq~ela~~~gis~~~is~ 53 (83) .+ |..+||+..|||++.|.. T Consensus 27 ~LpsE~eLa~~~gVSRt~VRE 47 (239) T 2di3_A 27 HLPSERALSETLGVSRSSLRE 47 (239) T ss_dssp BCCCHHHHHHHHTCCHHHHHH T ss_pred CCHHHHHHHHHHCCCHHHHHH T ss_conf 990199999998919899999 No 428 >3c7j_A Transcriptional regulator, GNTR family; structural genomics, MCSG, PSI-2, protein structure initiative; HET: MSE; 2.10A {Pseudomonas syringae PV} Probab=20.18 E-value=44 Score=14.08 Aligned_cols=36 Identities=22% Similarity=0.318 Sum_probs=25.4 Q ss_pred HHHHHHHHHHHHHH------CCCCHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999998------3994999999863429999887 Q gi|254781147|r 19 RMIFVNNFRNIRKE------AKLTQKEIRNRTGFAQSWISEL 54 (83) Q Consensus 19 ~~~~g~~ir~~R~~------~gltq~ela~~~gis~~~is~i 54 (83) ++.+...|+..=.. ..++..+||+..|||++.|... T Consensus 28 ~~~v~~~lr~~I~~g~l~pG~~L~e~~La~~~gvSRtpVREA 69 (237) T 3c7j_A 28 RTVIEEKLRNAIIDGSLPSGTALRQQELATLFGVSRMPVREA 69 (237) T ss_dssp HHHHHHHHHHHHHTSSSCTTCBCCHHHHHHHHTSCHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHCCCHHHHHHH T ss_conf 999999999999819999909749999999889586999999 Done!