Query gi|254780553|ref|YP_003064966.1| Holliday junction DNA helicase RuvA [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 207
No_of_seqs 117 out of 1856
Neff 6.5
Searched_HMMs 23785
Date Tue May 31 20:16:26 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780553.hhm -d /home/congqian_1/database/pdb/pdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1cuk_A RUVA protein; DNA repai 100.0 0 0 416.5 23.5 202 1-205 1-202 (203)
2 2ztd_A Holliday junction ATP-d 100.0 0 0 415.7 23.8 193 1-206 17-209 (212)
3 1ixr_A Holliday junction DNA h 100.0 0 0 408.4 14.6 190 1-205 1-190 (191)
4 1ixs_A Holliday junction DNA h 98.6 4.8E-08 2E-12 72.8 6.1 49 156-205 13-61 (62)
5 1vq8_Y 50S ribosomal protein L 98.0 5.3E-07 2.2E-11 65.9 0.0 65 65-131 7-71 (241)
6 1kft_A UVRC, excinuclease ABC 97.9 4.2E-06 1.8E-10 59.9 3.0 53 74-129 25-77 (78)
7 1x2i_A HEF helicase/nuclease; 97.7 2.9E-05 1.2E-09 54.3 4.6 64 65-132 7-70 (75)
8 1z00_A DNA excision repair pro 97.4 0.00015 6.5E-09 49.5 4.4 57 73-133 19-76 (89)
9 2a1j_B DNA excision repair pro 97.4 0.00013 5.4E-09 50.0 3.8 61 70-133 29-89 (91)
10 2bgw_A XPF endonuclease; hydro 97.2 0.00024 9.9E-09 48.2 4.2 55 70-128 159-214 (219)
11 1vdd_A Recombination protein R 96.7 0.00081 3.4E-08 44.7 2.7 23 107-129 11-33 (228)
12 2a1j_A DNA repair endonuclease 96.5 0.0014 5.7E-08 43.2 3.0 55 73-131 4-58 (63)
13 2zj8_A DNA helicase, putative 96.3 0.003 1.3E-07 40.9 4.0 12 110-121 648-659 (720)
14 2nrt_A Uvrabc system protein C 96.3 0.0028 1.2E-07 41.1 3.5 56 69-128 163-219 (220)
15 1z00_B DNA repair endonuclease 96.2 0.0039 1.6E-07 40.1 3.9 61 70-134 15-75 (84)
16 2w9m_A Polymerase X; SAXS, DNA 96.0 0.0072 3E-07 38.3 4.5 51 74-125 58-114 (578)
17 2fmp_A DNA polymerase beta; nu 96.0 0.0025 1.1E-07 41.4 2.1 55 73-128 57-117 (335)
18 3c65_A Uvrabc system protein C 95.9 0.001 4.3E-08 44.0 0.0 59 67-129 166-225 (226)
19 2ziu_A MUS81 protein; helix-ha 95.7 0.0084 3.5E-07 37.9 3.9 55 71-125 235-301 (311)
20 2ihm_A POL MU, DNA polymerase 95.6 0.0025 1.1E-07 41.4 1.1 52 74-125 62-119 (360)
21 2edu_A Kinesin-like protein KI 95.1 0.025 1E-06 34.8 4.6 32 96-127 28-59 (98)
22 1jms_A Terminal deoxynucleotid 94.8 0.0064 2.7E-07 38.7 1.1 61 74-137 81-147 (381)
23 2w9m_A Polymerase X; SAXS, DNA 94.7 0.0041 1.7E-07 40.0 -0.3 52 72-126 96-149 (578)
24 2zix_A Crossover junction endo 94.7 0.025 1.1E-06 34.7 3.7 57 70-126 230-298 (307)
25 1dgs_A DNA ligase; AMP complex 94.2 0.049 2.1E-06 32.8 4.4 52 76-130 510-561 (667)
26 1m3q_A 8-oxoguanine DNA glycos 93.9 0.066 2.8E-06 31.9 4.7 20 87-106 122-141 (317)
27 3bz1_U Photosystem II 12 kDa e 93.9 0.036 1.5E-06 33.7 3.2 47 73-128 33-79 (104)
28 2duy_A Competence protein come 93.8 0.044 1.8E-06 33.1 3.5 42 74-124 28-69 (75)
29 2bcq_A DNA polymerase lambda; 93.7 0.0093 3.9E-07 37.6 -0.0 53 73-128 57-115 (335)
30 1s5l_U Photosystem II 12 kDa e 93.7 0.032 1.3E-06 34.0 2.7 23 103-125 58-80 (134)
31 2edu_A Kinesin-like protein KI 93.6 0.052 2.2E-06 32.6 3.6 49 72-126 39-88 (98)
32 2jhn_A ALKA, 3-methyladenine D 93.6 0.18 7.7E-06 29.0 6.4 71 55-126 153-228 (295)
33 1b43_A Protein (FEN-1); nuclea 93.0 0.45 1.9E-05 26.4 7.7 94 93-186 221-324 (340)
34 2izo_A FEN1, flap structure-sp 92.1 0.4 1.7E-05 26.7 6.4 38 93-130 218-256 (346)
35 2owo_A DNA ligase; protein/DNA 91.9 0.11 4.6E-06 30.5 3.4 50 76-128 515-564 (671)
36 1s5l_U Photosystem II 12 kDa e 91.6 0.075 3.2E-06 31.5 2.2 48 72-128 62-109 (134)
37 3bzc_A TEX; helix-turn-helix, 91.2 0.24 1E-05 28.2 4.5 20 107-126 507-526 (785)
38 3bz1_U Photosystem II 12 kDa e 91.1 0.09 3.8E-06 31.0 2.2 25 102-126 27-51 (104)
39 1a76_A Flap endonuclease-1 pro 91.0 0.87 3.7E-05 24.5 7.2 93 93-186 209-310 (326)
40 1b22_A DNA repair protein RAD5 90.4 0.062 2.6E-06 32.1 0.9 54 76-131 28-81 (114)
41 2ziu_B Crossover junction endo 90.0 0.24 1E-05 28.2 3.6 62 68-129 250-329 (341)
42 1exn_A 5'-exonuclease, 5'-nucl 89.9 0.08 3.4E-06 31.4 1.1 37 94-130 187-225 (290)
43 2duy_A Competence protein come 89.8 0.14 6E-06 29.7 2.3 25 102-126 21-45 (75)
44 1exn_A 5'-exonuclease, 5'-nucl 89.5 0.43 1.8E-05 26.5 4.6 71 29-101 149-232 (290)
45 1mpg_A ALKA, 3-methyladenine D 89.4 0.29 1.2E-05 27.6 3.7 76 86-179 104-181 (282)
46 3i0w_A 8-oxoguanine-DNA-glycos 89.2 0.21 8.9E-06 28.6 2.8 38 86-132 107-144 (290)
47 1orn_A Endonuclease III; DNA r 89.1 0.2 8.4E-06 28.7 2.6 25 104-128 109-133 (226)
48 1kg2_A A/G-specific adenine gl 89.0 0.21 8.6E-06 28.6 2.6 29 103-131 104-132 (225)
49 1kft_A UVRC, excinuclease ABC 88.4 0.13 5.5E-06 29.9 1.3 24 107-130 23-46 (78)
50 1rxw_A Flap structure-specific 88.3 0.27 1.1E-05 27.8 2.9 95 87-184 215-322 (336)
51 1kea_A Possible G-T mismatches 88.3 0.24 1E-05 28.2 2.6 47 78-130 82-137 (221)
52 2abk_A Endonuclease III; DNA-r 88.3 0.24 1E-05 28.2 2.6 28 103-130 104-131 (211)
53 2a1j_A DNA repair endonuclease 88.2 0.19 8.1E-06 28.8 2.1 23 108-130 4-26 (63)
54 1z00_B DNA repair endonuclease 88.0 0.22 9E-06 28.5 2.2 23 108-130 18-40 (84)
55 1pu6_A 3-methyladenine DNA gly 87.9 0.26 1.1E-05 27.9 2.6 24 104-127 117-140 (218)
56 3fhg_A Mjogg, N-glycosylase/DN 87.5 0.25 1.1E-05 28.0 2.3 22 107-128 116-137 (207)
57 3fsp_A A/G-specific adenine gl 87.3 0.3 1.3E-05 27.5 2.6 53 76-130 84-140 (369)
58 2i5h_A Hypothetical protein AF 87.1 0.28 1.2E-05 27.7 2.4 22 109-130 133-154 (205)
59 1ul1_X Flap endonuclease-1; pr 86.9 0.29 1.2E-05 27.6 2.4 98 87-187 212-330 (379)
60 3fhf_A Mjogg, N-glycosylase/DN 86.9 0.26 1.1E-05 28.0 2.1 22 107-128 124-145 (214)
61 2bcq_A DNA polymerase lambda; 86.7 0.085 3.6E-06 31.2 -0.4 44 71-120 94-139 (335)
62 2h56_A DNA-3-methyladenine gly 86.0 0.69 2.9E-05 25.2 3.9 20 107-126 137-156 (233)
63 2a1j_B DNA excision repair pro 85.7 0.48 2E-05 26.2 3.0 43 88-130 8-54 (91)
64 1cuk_A RUVA protein; DNA repai 85.3 0.29 1.2E-05 27.6 1.7 22 108-129 73-94 (203)
65 1x2i_A HEF helicase/nuclease; 85.2 0.37 1.6E-05 26.9 2.2 25 106-130 12-36 (75)
66 3fsp_A A/G-specific adenine gl 85.1 0.092 3.9E-06 31.0 -0.9 55 72-128 117-176 (369)
67 1z00_A DNA excision repair pro 84.8 0.56 2.4E-05 25.7 3.0 34 97-130 8-41 (89)
68 1ngn_A Methyl-CPG binding prot 84.7 0.49 2E-05 26.1 2.6 34 97-130 93-126 (155)
69 1rxw_A Flap structure-specific 83.5 0.56 2.4E-05 25.7 2.5 40 65-104 221-267 (336)
70 2ihm_A POL MU, DNA polymerase 83.4 0.17 7.2E-06 29.1 -0.1 49 71-124 100-150 (360)
71 1jms_A Terminal deoxynucleotid 83.1 0.2 8.2E-06 28.8 0.0 19 107-125 79-97 (381)
72 3e1s_A Exodeoxyribonuclease V, 81.5 0.23 9.6E-06 28.3 -0.1 61 66-129 5-65 (574)
73 2kp7_A Crossover junction endo 80.9 0.69 2.9E-05 25.1 2.2 25 105-129 55-79 (87)
74 1kea_A Possible G-T mismatches 80.9 0.44 1.9E-05 26.4 1.2 20 72-91 114-133 (221)
75 1ixr_A Holliday junction DNA h 80.7 0.71 3E-05 25.0 2.2 22 108-129 72-93 (191)
76 3fhg_A Mjogg, N-glycosylase/DN 80.7 0.49 2.1E-05 26.1 1.4 23 68-90 30-55 (207)
77 1orn_A Endonuclease III; DNA r 80.7 0.43 1.8E-05 26.5 1.1 20 72-91 112-131 (226)
78 3n5n_X A/G-specific adenine DN 80.7 0.73 3.1E-05 25.0 2.2 50 77-128 95-149 (287)
79 2abk_A Endonuclease III; DNA-r 80.6 0.45 1.9E-05 26.4 1.2 20 72-91 108-127 (211)
80 3maj_A DNA processing chain A; 80.4 1.1 4.5E-05 23.8 3.0 66 63-130 16-86 (382)
81 1wgn_A UBAP1, ubiquitin associ 80.1 0.93 3.9E-05 24.3 2.6 28 157-184 16-43 (63)
82 1kg2_A A/G-specific adenine gl 79.7 0.51 2.1E-05 26.0 1.2 20 72-91 108-127 (225)
83 1ify_A HHR23A, UV excision rep 78.6 2.2 9.2E-05 21.8 4.2 27 158-184 6-32 (49)
84 2g3q_A Protein YBL047C; endocy 78.4 1.7 7E-05 22.6 3.5 25 160-184 4-28 (43)
85 2izo_A FEN1, flap structure-sp 77.8 0.43 1.8E-05 26.5 0.4 42 60-102 215-264 (346)
86 3go5_A Multidomain protein wit 77.8 3.7 0.00016 20.3 7.2 50 3-57 8-57 (285)
87 1wiv_A UBP14, ubiquitin-specif 75.5 3 0.00013 20.8 4.2 26 158-183 27-52 (73)
88 1vg5_A RSGI RUH-014, rhomboid 75.3 3.2 0.00013 20.7 4.2 27 158-184 27-53 (73)
89 1bgx_T TAQ DNA polymerase; DNA 74.6 0.69 2.9E-05 25.1 0.7 18 77-94 195-212 (832)
90 2dak_A Ubiquitin carboxyl-term 74.5 2.2 9.4E-05 21.7 3.3 24 161-184 10-33 (63)
91 2zkq_m 40S ribosomal protein S 74.4 1.7 7.1E-05 22.5 2.6 22 108-129 28-49 (152)
92 1jx4_A DNA polymerase IV (fami 73.5 2.8 0.00012 21.1 3.6 44 78-124 141-194 (352)
93 2csb_A Topoisomerase V, TOP61; 73.3 3.4 0.00014 20.5 4.0 57 72-128 353-431 (519)
94 2dai_A Ubadc1, ubiquitin assoc 73.0 4.2 0.00018 19.9 4.4 27 157-183 26-52 (83)
95 1vq8_Y 50S ribosomal protein L 73.0 0.34 1.4E-05 27.2 -1.2 21 74-94 49-69 (241)
96 1wji_A Tudor domain containing 73.0 2.9 0.00012 21.0 3.6 25 159-183 8-32 (63)
97 1vek_A UBP14, ubiquitin-specif 70.4 4.8 0.0002 19.5 4.2 26 159-184 28-53 (84)
98 2cpw_A CBL-interacting protein 68.3 2.7 0.00011 21.2 2.5 24 161-184 20-43 (64)
99 3mr3_A DNA polymerase ETA; POL 67.2 3.1 0.00013 20.8 2.7 46 80-128 218-273 (435)
100 1im4_A DBH; DNA polymerase PAL 67.0 2.1 9E-05 21.8 1.8 29 93-124 172-200 (221)
101 1wud_A ATP-dependent DNA helic 65.1 3 0.00013 20.9 2.3 62 63-128 7-75 (89)
102 2vqe_M 30S ribosomal protein S 64.9 2.3 9.8E-05 21.6 1.7 21 108-128 17-37 (126)
103 2dag_A Ubiquitin carboxyl-term 64.8 4.8 0.0002 19.5 3.3 24 161-184 10-33 (74)
104 2va8_A SSO2462, SKI2-type heli 63.1 7.5 0.00032 18.2 4.0 19 112-130 503-521 (715)
105 2aq4_A DNA repair protein REV1 62.4 3 0.00012 20.9 1.8 56 67-125 189-258 (434)
106 1pzn_A RAD51, DNA repair and r 61.5 1.7 7.3E-05 22.5 0.5 61 69-131 31-91 (349)
107 1whc_A RSGI RUH-027, UBA/UBX 3 60.6 3.6 0.00015 20.4 2.0 24 161-184 10-33 (64)
108 3ofp_M 30S ribosomal protein S 59.7 3.5 0.00015 20.4 1.8 21 108-128 16-36 (113)
109 1bgx_T TAQ DNA polymerase; DNA 59.7 0.61 2.6E-05 25.5 -2.1 25 105-129 187-212 (832)
110 1t94_A Polymerase (DNA directe 58.3 3.8 0.00016 20.2 1.8 42 80-124 245-298 (459)
111 3bbn_M Ribosomal protein S13; 56.0 3.6 0.00015 20.4 1.4 28 68-95 57-84 (145)
112 1d8b_A SGS1 RECQ helicase; fiv 54.7 5.9 0.00025 18.9 2.3 58 67-124 4-64 (81)
113 2p6r_A Afuhel308 helicase; pro 53.1 10 0.00043 17.3 3.3 21 109-129 481-501 (702)
114 2i1q_A DNA repair and recombin 52.7 6.3 0.00027 18.7 2.2 57 74-132 4-60 (322)
115 3bq0_A POL IV, DBH, DNA polyme 52.3 4.7 0.0002 19.6 1.5 29 93-124 167-195 (354)
116 1fr3_A MOP, molybdate/tungstat 51.4 12 0.0005 16.9 7.2 47 3-49 7-58 (67)
117 2qsf_X RAD23, UV excision repa 50.1 13 0.00053 16.7 4.0 28 156-183 126-153 (171)
118 1gm5_A RECG; helicase, replica 49.7 5.2 0.00022 19.3 1.4 14 166-179 361-374 (780)
119 3mfi_A DNA polymerase ETA; DNA 49.4 13 0.00054 16.7 5.5 31 95-126 295-325 (520)
120 2ooa_A E3 ubiquitin-protein li 49.3 12 0.00052 16.8 3.2 20 164-183 15-34 (52)
121 1sxj_B Activator 1 37 kDa subu 47.5 9.4 0.0004 17.6 2.4 28 162-189 251-278 (323)
122 1z96_A DNA-damage, UBA-domain 47.0 12 0.00051 16.9 2.9 22 163-184 7-28 (40)
123 2rhf_A DNA helicase RECQ; HRDC 45.1 9.6 0.0004 17.5 2.1 57 68-128 4-67 (77)
124 2oo9_A E3 ubiquitin-protein li 44.8 12 0.00051 16.8 2.6 21 163-183 7-27 (46)
125 2d9s_A CBL E3 ubiquitin protei 42.2 16 0.00069 15.9 3.5 20 164-183 13-32 (53)
126 3osn_A DNA polymerase IOTA; ho 42.0 10 0.00042 17.4 1.8 15 110-124 236-250 (420)
127 1jr3_A DNA polymerase III subu 40.7 12 0.00051 16.8 2.1 18 59-76 171-188 (373)
128 2chg_A Replication factor C sm 39.7 14 0.0006 16.4 2.3 32 97-128 28-61 (226)
129 1wcn_A Transcription elongatio 39.6 18 0.00076 15.7 3.3 52 74-129 8-61 (70)
130 3gqc_A DNA repair protein REV1 38.2 12 0.00052 16.8 1.8 42 80-124 280-331 (504)
131 3bqs_A Uncharacterized protein 37.9 13 0.00053 16.7 1.8 17 108-124 4-20 (93)
132 2z43_A DNA repair and recombin 36.2 6.1 0.00026 18.8 0.0 24 104-127 106-130 (324)
133 1m8p_A Sulfate adenylyltransfe 35.5 21 0.00088 15.3 4.2 39 93-131 376-423 (573)
134 1sxj_D Activator 1 41 kDa subu 35.3 16 0.00066 16.1 2.0 20 59-78 185-204 (353)
135 2juj_A E3 ubiquitin-protein li 35.0 21 0.00089 15.2 3.9 23 161-183 8-30 (56)
136 2pmy_A RAS and EF-hand domain- 34.6 22 0.0009 15.2 4.8 45 159-203 45-89 (91)
137 2rrd_A BLM HRDC domain, HRDC d 34.4 18 0.00074 15.8 2.1 58 68-129 21-85 (101)
138 1sxj_C Activator 1 40 kDa subu 33.2 20 0.00083 15.4 2.2 20 59-78 162-181 (340)
139 2hnh_A DNA polymerase III alph 33.2 21 0.00088 15.2 2.3 74 53-130 546-625 (910)
140 1z3e_B DNA-directed RNA polyme 32.3 19 0.0008 15.5 2.0 41 88-129 22-62 (73)
141 2e1f_A Werner syndrome ATP-dep 31.4 20 0.00086 15.3 2.0 56 65-124 11-73 (103)
142 2nr7_A Secretion activator pro 29.5 18 0.00075 15.7 1.5 10 93-102 62-71 (195)
143 2k7b_A CABP1, calbrain, calciu 28.8 27 0.0011 14.5 2.4 44 160-203 29-74 (76)
144 1iqp_A RFCS; clamp loader, ext 27.9 27 0.0012 14.5 2.2 20 59-78 162-181 (327)
145 3f2b_A DNA-directed DNA polyme 27.7 28 0.0012 14.4 2.3 126 55-185 677-824 (1041)
146 1wi5_A RRP5 protein homolog; S 27.2 29 0.0012 14.4 6.2 54 4-57 24-86 (119)
147 1dv0_A DNA repair protein HHR2 26.9 17 0.00072 15.8 1.0 21 161-181 5-25 (47)
148 2fe3_A Peroxide operon regulat 25.9 30 0.0013 14.2 5.4 32 92-130 37-68 (145)
149 1njg_A DNA polymerase III subu 25.5 31 0.0013 14.2 2.2 31 97-127 34-67 (250)
150 1avs_A Troponin C; muscle cont 25.3 31 0.0013 14.1 5.7 47 160-206 39-87 (90)
151 3k4g_A DNA-directed RNA polyme 24.8 31 0.0013 14.1 2.6 26 105-130 41-66 (86)
152 1zq1_C Glutamyl-tRNA(Gln) amid 24.6 25 0.0011 14.7 1.5 29 72-100 463-491 (633)
153 1f54_A Calmodulin; EF-hand, he 23.4 31 0.0013 14.1 1.8 44 160-203 29-74 (77)
154 1ci4_A Protein (barrier-TO-aut 22.9 25 0.001 14.8 1.2 19 108-126 18-36 (89)
155 1uss_A Histone H1; DNA binding 22.8 34 0.0014 13.8 4.9 50 156-205 7-61 (88)
156 2o1e_A YCDH; alpha-beta protei 22.8 23 0.00096 15.0 1.0 13 19-31 74-86 (312)
157 2d58_A Allograft inflammatory 22.6 35 0.0015 13.8 3.8 44 159-202 50-95 (107)
158 2kna_A Baculoviral IAP repeat- 22.1 35 0.0015 13.7 6.4 42 162-203 29-71 (104)
159 2khj_A 30S ribosomal protein S 21.6 36 0.0015 13.7 4.1 53 4-57 34-94 (109)
160 1toa_A Tromp-1, protein (perip 21.1 37 0.0016 13.6 4.3 11 21-31 93-103 (313)
161 3bdm_F Proteasome component C1 20.8 38 0.0016 13.6 5.2 38 169-206 163-200 (287)
162 2khi_A 30S ribosomal protein S 20.6 38 0.0016 13.5 5.6 55 4-59 33-96 (115)
163 1gut_A Mopii, molybdate bindin 20.5 38 0.0016 13.5 6.0 47 3-49 7-59 (68)
164 3hjl_A Flagellar motor switch 20.3 39 0.0016 13.5 4.6 48 80-132 21-68 (329)
165 1uhm_A Histone H1, histone HHO 20.2 39 0.0016 13.5 3.4 44 162-205 10-57 (78)
No 1
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination, helicase; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=100.00 E-value=0 Score=416.51 Aligned_cols=202 Identities=28% Similarity=0.425 Sum_probs=181.2
Q ss_pred CCCEEEEEEEEEECCEEEEEECCEEEEEECCHHHHHHCCCCCCEEEEEEEEEECCCCEEEEEEECHHHHHHHHHHHHHHH
Q ss_conf 93258999999609979998588323897086889850247984999999997388418999706779999999850100
Q gi|254780553|r 1 MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIRLFGFLSDLDRQWFMLLQSVQG 80 (207)
Q Consensus 1 MI~~i~G~i~~~~~~~ivi~v~GvGY~i~vs~~~~~~l~~~g~~v~l~~~~~vrEd~~~LyGF~~~~Er~~F~~Li~V~G 80 (207)
||+||+|++.+++++++|||||||||+|++|.++++.+++.|++++||||++||||+++||||.+.+||++|++|++|||
T Consensus 1 MI~~l~G~i~~~~~~~vvl~v~GvGY~V~v~~~~~~~l~~~g~~v~l~~~~~vrEd~~~LyGF~~~~Er~lF~~Li~VsG 80 (203)
T 1cuk_A 1 MIGRLRGIIIEKQPPLVLIEVGGVGYEVHMPMTCFYELPEAGQEAIVFTHFVVREDAQLLYGFNNKQERTLFKELIKTNG 80 (203)
T ss_dssp CCCEEEEEEEEEETTEEEEEETTEEEEEECCHHHHTTCCCTTSEEEEEEEEEEETTEEEEEEESSHHHHHHHHHHHHSSS
T ss_pred CCCEEEEEEEEEECCEEEEEECCEEEEEEECHHHHHHHHCCCCEEEEEEEEEEECCCCEEEECCCHHHHHHHHHHHCCCC
T ss_conf 96569999999719989999899889999078999961348984999999996167746886194699999999857688
Q ss_pred CCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf 05101124431578999999985156687510457116799999999742221101133443233333445555653158
Q gi|254780553|r 81 VGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFA 160 (207)
Q Consensus 81 IGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (207)
||||+||+|||+++|++|++||.++|.+.|+++||||||||+||++|||||+.++.....................++..
T Consensus 81 IGPK~AL~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIilELkdK~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (203)
T 1cuk_A 81 VGPKLALAILSGMSAQQFVNAVEREEVGALVKLPGIGKKTAERLIVEMKDRFKGLHGDLFTPAADLVLTSPASPATDDAE 160 (203)
T ss_dssp CCHHHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHHHHGGGCCSTTTCC-------------CCHHH
T ss_pred CCHHHHHHHHHCCCHHHHHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHH
T ss_conf 57566888861279899999987189988606998779999999999999987630122465422123577776666058
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf 999999996799989999999999851688889899999999974
Q gi|254780553|r 161 INAISALVNLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALRAI 205 (207)
Q Consensus 161 ~d~~~AL~~LGy~~~ea~~ai~~i~~~~~~~~~~eelIk~aLk~L 205 (207)
.|+++||++|||++++|++++.++.. +..++|++||.|||..
T Consensus 161 ~d~~~AL~~LGy~~~ea~~ai~~~~~---~~~~~e~lik~aLk~~ 202 (203)
T 1cuk_A 161 QEAVARLVALGYKPQEASRMVSKIAR---PDASSETLIREALRAA 202 (203)
T ss_dssp HHHHHHHHHHTCCHHHHHHHHHHSCC---SSCCHHHHHHHHHHTT
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHC---CCCCHHHHHHHHHHHH
T ss_conf 99999999879999999999998616---8999999999999971
No 2
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA binding, oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
Probab=100.00 E-value=0 Score=415.74 Aligned_cols=193 Identities=30% Similarity=0.416 Sum_probs=177.1
Q ss_pred CCCEEEEEEEEEECCEEEEEECCEEEEEECCHHHHHHCCCCCCEEEEEEEEEECCCCEEEEEEECHHHHHHHHHHHHHHH
Q ss_conf 93258999999609979998588323897086889850247984999999997388418999706779999999850100
Q gi|254780553|r 1 MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIRLFGFLSDLDRQWFMLLQSVQG 80 (207)
Q Consensus 1 MI~~i~G~i~~~~~~~ivi~v~GvGY~i~vs~~~~~~l~~~g~~v~l~~~~~vrEd~~~LyGF~~~~Er~~F~~Li~V~G 80 (207)
||+||+|+|.+++++++|||||||||+|+||.+++..++ .|++++||||++||||+++||||.+.+||++|++|++|+|
T Consensus 17 MI~~l~G~i~~~~~~~vvldv~GvGY~v~v~~~~~~~l~-~g~~v~l~t~~~vrEd~~~LyGF~~~~Er~lF~~Li~VsG 95 (212)
T 2ztd_A 17 MIASVRGEVLEVALDHVVIEAAGVGYRVNATPATLATLR-QGTEARLITAMIVREDSMTLYGFPDGETRDLFLTLLSVSG 95 (212)
T ss_dssp SCCEEEEEEEEECSSEEEEEETTEEEEEECCHHHHTTCC-TTSEEEEEEEEEEETTEEEEEEESSHHHHHHHHHHHTSTT
T ss_pred CEEEEEEEEEEECCCEEEEEECCEEEEEEECHHHHHHCC-CCCEEEEEEEEEECCCCCEEECCCCHHHHHHHHHHHHCCC
T ss_conf 216899999996399899997998899994689998769-9985999999998168875656599899999999983489
Q ss_pred CCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf 05101124431578999999985156687510457116799999999742221101133443233333445555653158
Q gi|254780553|r 81 VGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFA 160 (207)
Q Consensus 81 IGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (207)
||||+||+|||+++|++|++||.++|.+.|+++||||||||+|||+|||||+..+..... .....++..
T Consensus 96 IGPK~AL~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAeRIilELkdKl~~~~~~~~-----------~~~~~~~~~ 164 (212)
T 2ztd_A 96 VGPRLAMAALAVHDAPALRQVLADGNVAALTRVPGIGKRGAERMVLELRDKVGVAATGGA-----------LSTNGHAVR 164 (212)
T ss_dssp CCHHHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHTTTCC------------------------CCH
T ss_pred CCHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCC-----------CCCCCCCCH
T ss_conf 774678788854999999999980899998517782488899999999754313334554-----------345664317
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHC
Q ss_conf 9999999967999899999999998516888898999999999745
Q gi|254780553|r 161 INAISALVNLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALRAIS 206 (207)
Q Consensus 161 ~d~~~AL~~LGy~~~ea~~ai~~i~~~~~~~~~~eelIk~aLk~Ls 206 (207)
.|+++||++|||++++|++++.++.+++++ .++|++||.|||+|+
T Consensus 165 ~e~~~AL~~LGy~~~ea~~av~~i~~~~~~-~~~eelik~ALk~L~ 209 (212)
T 2ztd_A 165 SPVVEALVGLGFAAKQAEEATDTVLAANHD-ATTSSALRSALSLLG 209 (212)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHT
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHH
T ss_conf 899999998599989999999999840899-999999999999974
No 3
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2
Probab=100.00 E-value=0 Score=408.45 Aligned_cols=190 Identities=25% Similarity=0.404 Sum_probs=174.0
Q ss_pred CCCEEEEEEEEEECCEEEEEECCEEEEEECCHHHHHHCCCCCCEEEEEEEEEECCCCEEEEEEECHHHHHHHHHHHHHHH
Q ss_conf 93258999999609979998588323897086889850247984999999997388418999706779999999850100
Q gi|254780553|r 1 MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIRLFGFLSDLDRQWFMLLQSVQG 80 (207)
Q Consensus 1 MI~~i~G~i~~~~~~~ivi~v~GvGY~i~vs~~~~~~l~~~g~~v~l~~~~~vrEd~~~LyGF~~~~Er~~F~~Li~V~G 80 (207)
||+||+|++.+++++++|||||||||+|+||.+++..+ +.|++++||||++||||+++||||.+.+||++|++|++|+|
T Consensus 1 MI~~l~G~i~~~~~~~vvl~v~GvGY~v~v~~~~~~~l-~~g~~v~l~t~~~vrEd~~~LyGF~~~~Er~lF~~Li~V~G 79 (191)
T 1ixr_A 1 MIRYLRGLVLKKEAGGFVLLAGGVGFFLQAPTPFLQAL-EEGKEVGVHTHLLLKEEGLSLYGFPDEENLALFELLLSVSG 79 (191)
T ss_dssp CCCEEEEEEEEECSSEEEEECSSEEEEEECCHHHHHHC-CTTSEEEEEECCCCCSSCCCEEEESSHHHHHHHHHHHSSSC
T ss_pred CCCEEEEEEEEEECCEEEEEECCEEEEEECCHHHHHHC-CCCCEEEEEEEEEEEECCCEEECCCCHHHHHHHHHHHCCCC
T ss_conf 94579999999839979999899899998377899746-89987999999999607866771182899999999857688
Q ss_pred CCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf 05101124431578999999985156687510457116799999999742221101133443233333445555653158
Q gi|254780553|r 81 VGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFA 160 (207)
Q Consensus 81 IGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (207)
||||+||+|||++++++|++||.++|.+.|+++||||||||+|||+|||||+.++....+ ...++..
T Consensus 80 IGpK~Al~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAerIilELk~K~~~~~~~~~-------------~~~~~~~ 146 (191)
T 1ixr_A 80 VGPKVALALLSALPPRLLARALLEGDARLLTSASGVGRRLAERIALELKGKVPPHLLAGE-------------KVESEAA 146 (191)
T ss_dssp CCHHHHHHHHHHSCHHHHHHHHHTTCHHHHTTSTTCCHHHHHHHHHHHTTTSCSCC------------------------
T ss_pred CCHHHHHHHHHCCCHHHHHHHHHCCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCC-------------CCCCCCH
T ss_conf 377889888725999999999983999995018884688999999999864342100112-------------3345568
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf 999999996799989999999999851688889899999999974
Q gi|254780553|r 161 INAISALVNLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALRAI 205 (207)
Q Consensus 161 ~d~~~AL~~LGy~~~ea~~ai~~i~~~~~~~~~~eelIk~aLk~L 205 (207)
+|+++||.+|||++.+|++++.++..++++ .++|++||.|||+|
T Consensus 147 ~ea~~AL~~LGy~~~ea~~av~~~~~~~~~-~~~e~lik~ALk~L 190 (191)
T 1ixr_A 147 EEAVMALAALGFKEAQARAVVLDLLAQNPK-ARAQDLIKEALKRL 190 (191)
T ss_dssp ---------------------------------------------
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHC
T ss_conf 999999998599999999999999852999-99999999999962
No 4
>1ixs_A Holliday junction DNA helicase RUVA; heterodimeric protein complex, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.20A {Thermus thermophilus} SCOP: a.5.1.1
Probab=98.62 E-value=4.8e-08 Score=72.82 Aligned_cols=49 Identities=29% Similarity=0.432 Sum_probs=43.9
Q ss_pred CCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf 53158999999996799989999999999851688889899999999974
Q gi|254780553|r 156 MPSFAINAISALVNLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALRAI 205 (207)
Q Consensus 156 ~~~~~~d~~~AL~~LGy~~~ea~~ai~~i~~~~~~~~~~eelIk~aLk~L 205 (207)
.++...|+++||++|||++.++.+++.++..++++ .++|++||.|||+|
T Consensus 13 ~~~~~~dAv~AL~~LGY~~~~a~~av~~i~~~~~~-~s~e~lIk~ALk~L 61 (62)
T 1ixs_A 13 ESEAAEEAVMALAALGFKEAQARAVVLDLLAQNPK-ARAQDLIKEALKRL 61 (62)
T ss_dssp CCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHTTC
T ss_pred CCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHC
T ss_conf 65319999999999499889999999999860899-99999999999864
No 5
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
Probab=98.03 E-value=5.3e-07 Score=65.87 Aligned_cols=65 Identities=22% Similarity=0.296 Sum_probs=56.2
Q ss_pred CHHHHHHHHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf 6779999999850100051011244315789999999851566875104571167999999997422
Q gi|254780553|r 65 SDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGK 131 (207)
Q Consensus 65 ~~~Er~~F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K 131 (207)
+.++++.|..|.+|.||||++|-.+++. ... -...|.+.+...|.++||||+|+|++|+.+++..
T Consensus 7 ~~~~~~~~~~l~~i~gvG~~~~~~l~~~-g~~-~~~~i~~~~~~~L~~~~g~g~k~a~~i~~~i~~~ 71 (241)
T 1vq8_Y 7 DVEAEEEYTELTDISGVGPSKAESLREA-GFE-SVEDVRGADQSALADVSGIGNALAARIKADVGGL 71 (241)
T ss_dssp -------------------------------------------------------------------
T ss_pred HHHHHHHHHHHCCCCCCCHHHHHHHHHC-CCC-CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHC
T ss_conf 7886886743258899899999999976-899-9999986999999746895799999999998650
No 6
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3
Probab=97.92 E-value=4.2e-06 Score=59.89 Aligned_cols=53 Identities=28% Similarity=0.476 Sum_probs=47.7
Q ss_pred HHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 98501000510112443157899999998515668751045711679999999974
Q gi|254780553|r 74 LLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 74 ~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk 129 (207)
.|-+|.||||++|-.++..+.. +..|.+-+...|.++||||+++|++|.-.|+
T Consensus 25 ~L~~IpGIG~k~ak~Ll~~F~s---i~~i~~As~eeL~~v~GIg~~~A~~I~~~l~ 77 (78)
T 1kft_A 25 SLETIEGVGPKRRQMLLKYMGG---LQGLRNASVEEIAKVPGISQGLAEKIFWSLK 77 (78)
T ss_dssp GGGGCTTCSSSHHHHHHHHHSC---HHHHHHCCHHHHTTSSSTTSHHHHHHHHHHT
T ss_pred CCCCCCCCCHHHHHHHHHHHCC---HHHHHHHCHHHHHCCCCCCHHHHHHHHHHHC
T ss_conf 2656999329999999999299---4999883799998079989999999999966
No 7
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5
Probab=97.72 E-value=2.9e-05 Score=54.27 Aligned_cols=64 Identities=22% Similarity=0.323 Sum_probs=51.6
Q ss_pred CHHHHHHHHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf 67799999998501000510112443157899999998515668751045711679999999974222
Q gi|254780553|r 65 SDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKA 132 (207)
Q Consensus 65 ~~~Er~~F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~ 132 (207)
+..+|..| .|.++.||||+.|-.++..+.. ...|.+-+..-|..|||||+++|++|.--+.++.
T Consensus 7 ~~~~~~~~-~L~~IpgIG~~~a~~L~~~F~s---~~~i~~As~eeL~~v~GIG~~~a~~i~~~~~~~~ 70 (75)
T 1x2i_A 7 TLAERQRL-IVEGLPHVSATLARRLLKHFGS---VERVFTASVAELMKVEGIGEKIAKEIRRVITAPY 70 (75)
T ss_dssp CHHHHHHH-HHTTSTTCCHHHHHHHHHHHCS---HHHHHHCCHHHHTTSTTCCHHHHHHHHHHHHSCC
T ss_pred CHHHHHHH-HHCCCCCCCHHHHHHHHHHHCC---HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCHH
T ss_conf 89999999-9848999429999999999688---8989997899998558979999999999985763
No 8
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=97.37 E-value=0.00015 Score=49.48 Aligned_cols=57 Identities=21% Similarity=0.292 Sum_probs=47.4
Q ss_pred HHHHHHHHCCCHHHHHHHCCCC-HHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 9985010005101124431578-999999985156687510457116799999999742221
Q gi|254780553|r 73 MLLQSVQGVGARVAMGVLSRIT-ATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKAI 133 (207)
Q Consensus 73 ~~Li~V~GIGpK~AL~iLs~l~-~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~~ 133 (207)
..|.+|.|||++.|-.++..+. .+.+ .+.+...|.++||||++.|++|.--+++.+.
T Consensus 19 ~~L~~I~gIG~~~a~~L~~~Fgsl~~i----~~As~eeL~~i~GiG~~~A~~I~~~f~~pf~ 76 (89)
T 1z00_A 19 ECLTTVKSVNKTDSQTLLTTFGSLEQL----IAASREDLALCPGLGPQKARRLFDVLHEPFL 76 (89)
T ss_dssp HHHTTSSSCCHHHHHHHHHHTCBHHHH----HHCCHHHHHTSTTCCHHHHHHHHHHHHSCSS
T ss_pred HHHCCCCCCCHHHHHHHHHHHCCHHHH----HHHHHHHHHCCCCCCHHHHHHHHHHHCCHHC
T ss_conf 987589975999999999994888999----9987877726899699999999999808420
No 9
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Probab=97.35 E-value=0.00013 Score=49.99 Aligned_cols=61 Identities=20% Similarity=0.282 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 9999985010005101124431578999999985156687510457116799999999742221
Q gi|254780553|r 70 QWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKAI 133 (207)
Q Consensus 70 ~~F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~~ 133 (207)
.+...|-+|.|||++.|-.++..+.. ++.|.+.+...|..+||||+++|++|.--+++.+.
T Consensus 29 ~~~~~L~~I~gIGk~~A~~L~~~F~S---i~~l~~As~eeL~~i~GIG~~~A~~I~~~f~~pf~ 89 (91)
T 2a1j_B 29 RVTECLTTVKSVNKTDSQTLLTTFGS---LEQLIAASREDLALCPGLGPQKARRLFDVLHEPFL 89 (91)
T ss_dssp HHHHHHTTSTTCCHHHHHHHHHHHSS---HHHHHSCCHHHHHTSSSCCSHHHHHHHHHHHSCSC
T ss_pred HHHHHHCCCCCCCHHHHHHHHHHHCC---CHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCHH
T ss_conf 99998646888599999999999588---29899989997557799699999999999848140
No 10
>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A
Probab=97.25 E-value=0.00024 Score=48.24 Aligned_cols=55 Identities=29% Similarity=0.405 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHCCCHHHHHHHCCC-CHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 999998501000510112443157-89999999851566875104571167999999997
Q gi|254780553|r 70 QWFMLLQSVQGVGARVAMGVLSRI-TATELVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 70 ~~F~~Li~V~GIGpK~AL~iLs~l-~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
.+-..|.++.|||++.|-.+++++ +..+|. +.....|.++||||++.|++|.--|
T Consensus 159 ~~~~~L~~Ipgi~~~~A~~Ll~~f~Sl~~l~----~as~~eL~~v~giG~~~A~~I~~~l 214 (219)
T 2bgw_A 159 WQLYILQSFPGIGRRTAERILERFGSLERFF----TASKAEISKVEGIGEKRAEEIKKIL 214 (219)
T ss_dssp HHHHHHHTSTTCCHHHHHHHHHHHSSHHHHT----TCCHHHHHHSTTCCHHHHHHHHHHH
T ss_pred HHHHHHHCCCCCCHHHHHHHHHHCCCHHHHH----HCCHHHHHCCCCCCHHHHHHHHHHH
T ss_conf 8999984079989999999999869999998----6889999608997999999999996
No 11
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} SCOP: e.49.1.1 PDB: 2v1c_A
Probab=96.66 E-value=0.00081 Score=44.68 Aligned_cols=23 Identities=30% Similarity=0.481 Sum_probs=20.1
Q ss_pred HHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 68751045711679999999974
Q gi|254780553|r 107 SKVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 107 ~~~L~~vpGIGkKtA~rIi~ELk 129 (207)
+..|+++||||+|||+||.+.|-
T Consensus 11 I~~l~kLPGIG~KsA~RlA~~LL 33 (228)
T 1vdd_A 11 IRELSRLPGIGPKSAQRLAFHLF 33 (228)
T ss_dssp HHHHHTSTTCCHHHHHHHHHHHS
T ss_pred HHHHHHCCCCCHHHHHHHHHHHH
T ss_conf 99996689998899999999998
No 12
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A*
Probab=96.48 E-value=0.0014 Score=43.19 Aligned_cols=55 Identities=13% Similarity=0.241 Sum_probs=45.2
Q ss_pred HHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf 99850100051011244315789999999851566875104571167999999997422
Q gi|254780553|r 73 MLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGK 131 (207)
Q Consensus 73 ~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K 131 (207)
.+|.++.|||||.+-.+++.+.- ++.|.+-+..-|..++| |++.|++|---|...
T Consensus 4 d~L~~IPGIg~~~~~~Ll~~fgS---i~~l~~as~eeL~~v~G-~~~~A~~i~~~l~~~ 58 (63)
T 2a1j_A 4 DFLLKMPGVNAKNCRSLMHHVKN---IAELAALSQDELTSILG-NAANAKQLYDFIHTS 58 (63)
T ss_dssp HHHHTSTTCCHHHHHHHHHHCSS---HHHHHTCCHHHHHHHHS-CHHHHHHHHHHHHCC
T ss_pred HHHHCCCCCCHHHHHHHHHHCCC---HHHHHHCCHHHHHHCCC-CHHHHHHHHHHHCCC
T ss_conf 88852999889999999998679---99998799999987869-899999999998021
No 13
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Probab=96.32 E-value=0.003 Score=40.87 Aligned_cols=12 Identities=25% Similarity=0.426 Sum_probs=4.3
Q ss_pred HHHCCCCCHHHH
Q ss_conf 510457116799
Q gi|254780553|r 110 IAQIPGISMKIA 121 (207)
Q Consensus 110 L~~vpGIGkKtA 121 (207)
|.++||||++.|
T Consensus 648 L~~i~~ig~~~a 659 (720)
T 2zj8_A 648 LMQLPLVGRRRA 659 (720)
T ss_dssp GTTSTTCCHHHH
T ss_pred CCCCCCCCHHHH
T ss_conf 227899999999
No 14
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=96.25 E-value=0.0028 Score=41.09 Aligned_cols=56 Identities=23% Similarity=0.392 Sum_probs=42.3
Q ss_pred HHHHH-HHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 99999-9850100051011244315789999999851566875104571167999999997
Q gi|254780553|r 69 RQWFM-LLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 69 r~~F~-~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
+.+|. .|-+|.|||||..-.+|..+.. +..|.+-...-|.+|||++ |+|++|.-.|
T Consensus 163 k~~~~S~Ld~I~GIG~k~~~~Ll~~Fgs---~~~I~~As~eeL~~v~g~~-k~A~~I~~~l 219 (220)
T 2nrt_A 163 KESLRSVLDNVPGIGPIRKKKLIEHFGS---LENIRSASLEEIARVIGST-EIARRVLDIL 219 (220)
T ss_dssp HHHHHHHHTTSTTCCHHHHHHHHHHHCS---HHHHHTSCHHHHHHHHTCH-HHHHHHHHHC
T ss_pred HHCCCCCCHHCCCCCHHHHHHHHHHCCC---HHHHHHCCHHHHHHCCCCH-HHHHHHHHHH
T ss_conf 2103464100379699999999998189---9999718999998686959-9999999971
No 15
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=96.17 E-value=0.0039 Score=40.15 Aligned_cols=61 Identities=11% Similarity=0.155 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 99999850100051011244315789999999851566875104571167999999997422211
Q gi|254780553|r 70 QWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKAIS 134 (207)
Q Consensus 70 ~~F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~~~ 134 (207)
.....|.++.|||||.+-.+|..+.- ++.|.+-+..-|..++| |++.|++|---|..+...
T Consensus 15 ~~~~~L~~iPGIg~k~~~~Ll~~f~s---l~~i~~AS~eeL~~v~G-~~~~Ak~i~~~lh~~~~~ 75 (84)
T 1z00_B 15 GPQDFLLKMPGVNAKNCRSLMHHVKN---IAELAALSQDELTSILG-NAANAKQLYDFIHTSFAE 75 (84)
T ss_dssp HHHHHHHTCSSCCHHHHHHHHHHSSC---HHHHHHSCHHHHHHHHS-CHHHHHHHHHHHTSBHHH
T ss_pred HHHHHHHCCCCCCHHHHHHHHHHCCC---HHHHHHCCHHHHHHCCC-CHHHHHHHHHHHCCCCCC
T ss_conf 19999983899999999999999669---99998599999988759-799999999998553555
No 16
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=95.98 E-value=0.0072 Score=38.35 Aligned_cols=51 Identities=16% Similarity=0.088 Sum_probs=31.5
Q ss_pred HHHHHHHCCCHHHHHHH---CCCCHHHHHHHHHCC---CHHHHHHCCCCCHHHHHHHH
Q ss_conf 98501000510112443---157899999998515---66875104571167999999
Q gi|254780553|r 74 LLQSVQGVGARVAMGVL---SRITATELVESIILQ---NSKVIAQIPGISMKIASRIM 125 (207)
Q Consensus 74 ~Li~V~GIGpK~AL~iL---s~l~~~~l~~aI~~~---D~~~L~~vpGIGkKtA~rIi 125 (207)
.|.+++|||+++|=.|- .+-+..++-+ +.++ ....|.+|||||+|+|+++.
T Consensus 58 ~l~~ipGIG~~i~~kI~Eil~TG~l~~le~-l~~~~~~~~~~l~~I~GvGpk~A~~l~ 114 (578)
T 2w9m_A 58 EFTGIPKVGKGIAAELSDFARSGTFAPLEA-AAGQLPPGLLDLLGVRGLGPKKIRSLW 114 (578)
T ss_dssp -CCSSTTCCHHHHHHHHHHHHHSSCHHHHH-HHHHSCHHHHHHTTSTTCCHHHHHHHH
T ss_pred HHHCCCCCCHHHHHHHHHHHHHCCCHHHHH-HHCCCCHHHHHHHCCCCCCHHHHHHHH
T ss_conf 873699976899999999998698689999-863461779998478986899999999
No 17
>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1bpx_A* 1bpz_A* 1mq2_A* 1mq3_A* 1bpy_A* 1tva_A* 1zjm_A* 1zjn_A* 1zqa_A* 1zqb_A* 1zqc_A* 1zqd_A* 1zqe_A* 1zqf_A* 1zqg_A* 1zqh_A* 1zqi_A* 1zqj_A* 1zqk_A* 1zql_A* ...
Probab=95.97 E-value=0.0025 Score=41.39 Aligned_cols=55 Identities=13% Similarity=0.224 Sum_probs=37.5
Q ss_pred HHHHHHHHCCCHHHHHHH---CCCCHHH---HHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 998501000510112443---1578999---9999851566875104571167999999997
Q gi|254780553|r 73 MLLQSVQGVGARVAMGVL---SRITATE---LVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 73 ~~Li~V~GIGpK~AL~iL---s~l~~~~---l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
..+.+++|||+++|=.|- .+-...+ +......+-...|++|||||+|+|.++. ++
T Consensus 57 ~~l~~i~GiG~~i~~kI~Eil~tG~~~~le~l~~~~~~~~l~~l~~I~GvGpk~a~~l~-~~ 117 (335)
T 2fmp_A 57 AEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAARKFV-DE 117 (335)
T ss_dssp HHHHTSTTCCHHHHHHHHHHHHHSSCHHHHHHHHCHHHHHHHHHTTSTTCCHHHHHHHH-HT
T ss_pred HHHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHH-HC
T ss_conf 98836999748999999999982977899998717964678998745687989999999-81
No 18
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=95.93 E-value=0.001 Score=44.02 Aligned_cols=59 Identities=19% Similarity=0.357 Sum_probs=41.7
Q ss_pred HHHHHHH-HHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 7999999-98501000510112443157899999998515668751045711679999999974
Q gi|254780553|r 67 LDRQWFM-LLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 67 ~Er~~F~-~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk 129 (207)
..+.++. .|-.|.|||||.+-.+|..+.. +.+|.+-...-|.++ |||+++|++|.-.|.
T Consensus 166 r~k~~~~S~Ld~I~GIG~~~~~~Ll~~Fgs---~~~i~~As~eeL~~v-gI~~~~A~~I~~~l~ 225 (226)
T 3c65_A 166 RQKTMFHSVLDDIPGVGEKRKKALLNYFGS---VKKMKEATVEELQRA-NIPRAVAEKIYEKLH 225 (226)
T ss_dssp ----------------------------------------------------------------
T ss_pred HHHHHCCCCCCCCCCCCHHHHHHHHHHCCC---HHHHHHCCHHHHHHC-CCCHHHHHHHHHHHC
T ss_conf 740320371102688699999999998189---999973899999876-999999999999962
No 19
>2ziu_A MUS81 protein; helix-hairpin-helix, alternative splicing, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; 2.70A {Danio rerio} PDB: 2ziv_A 2ziw_A
Probab=95.70 E-value=0.0084 Score=37.89 Aligned_cols=55 Identities=20% Similarity=0.303 Sum_probs=27.9
Q ss_pred HHHHHHHHHHCCCHHHHHHHCCC-CHHHHHHHHHCCCH-----HHHHHCC------CCCHHHHHHHH
Q ss_conf 99998501000510112443157-89999999851566-----8751045------71167999999
Q gi|254780553|r 71 WFMLLQSVQGVGARVAMGVLSRI-TATELVESIILQNS-----KVIAQIP------GISMKIASRIM 125 (207)
Q Consensus 71 ~F~~Li~V~GIGpK~AL~iLs~l-~~~~l~~aI~~~D~-----~~L~~vp------GIGkKtA~rIi 125 (207)
+.++|..|+||||+.|-+|++.+ ++.+|++|..+.+. ..|+.++ -||++.+++|-
T Consensus 235 ~~~~L~qIpGIs~~~A~~I~~~y~T~~~L~~a~~~~~~~~e~~~ll~~~~~~~~~RkiG~~~S~~Iy 301 (311)
T 2ziu_A 235 FARQLMQISGVSGDKAAAVLEHYSTVSSLLQAYDKCSSETEKEKLLSSVKYGKLKRNLGPALSRTIY 301 (311)
T ss_dssp HHHHHTTBTTCCHHHHHHHHHHCSSHHHHHHHHHHCSSHHHHTTTTTTCEETTTTEECHHHHHHHHH
T ss_pred HHHHHHHCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHH
T ss_conf 9999982799999999999997699999999998569888899987644356555773899999999
No 20
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=95.64 E-value=0.0025 Score=41.39 Aligned_cols=52 Identities=21% Similarity=0.231 Sum_probs=35.6
Q ss_pred HHHHHHHCCCHHHHHHH---CCCCHHHHHHHHH---CCCHHHHHHCCCCCHHHHHHHH
Q ss_conf 98501000510112443---1578999999985---1566875104571167999999
Q gi|254780553|r 74 LLQSVQGVGARVAMGVL---SRITATELVESII---LQNSKVIAQIPGISMKIASRIM 125 (207)
Q Consensus 74 ~Li~V~GIGpK~AL~iL---s~l~~~~l~~aI~---~~D~~~L~~vpGIGkKtA~rIi 125 (207)
.+.+++|||+++|=.|- .+-+..++-+.-. ..-...|.+|||||+|+|+++.
T Consensus 62 ~~~~i~gIG~~i~~kI~e~l~tG~~~~le~l~~~~~~~~l~~l~~i~GvGpk~a~~l~ 119 (360)
T 2ihm_A 62 QLHGLPYFGEHSTRVIQELLEHGTCEEVKQVRCSERYQTMKLFTQVFGVGVKTANRWY 119 (360)
T ss_dssp GGTTCTTCCHHHHHHHHHHHHHSCCHHHHHHHHSHHHHHHHHHHTSTTCCHHHHHHHH
T ss_pred HHHCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf 9836999878999999999953868999988622157999999757787899999999
No 21
>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7
Probab=95.06 E-value=0.025 Score=34.77 Aligned_cols=32 Identities=13% Similarity=0.128 Sum_probs=26.8
Q ss_pred HHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf 99999985156687510457116799999999
Q gi|254780553|r 96 TELVESIILQNSKVIAQIPGISMKIASRIMTE 127 (207)
Q Consensus 96 ~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~E 127 (207)
.++...|.+.+..-|.++||||+|+|++|+-.
T Consensus 28 ~~~L~~iNtAs~~eL~~lpgIg~~~A~~Iv~~ 59 (98)
T 2edu_A 28 QKILDLLNEGSARDLRSLQRIGPKKAQLIVGW 59 (98)
T ss_dssp HHHHHHHHHSCHHHHHHSTTCCHHHHHHHHHH
T ss_pred HHHCCCCCCCCHHHHHHCCCCCHHHHHHHHHH
T ss_conf 35410043789999964799899999999999
No 22
>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A*
Probab=94.82 E-value=0.0064 Score=38.67 Aligned_cols=61 Identities=16% Similarity=0.193 Sum_probs=38.9
Q ss_pred HHHHHHHCCCHHHHHHH---CCCCHHHHHHHHHC---CCHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCC
Q ss_conf 98501000510112443---15789999999851---566875104571167999999997422211011
Q gi|254780553|r 74 LLQSVQGVGARVAMGVL---SRITATELVESIIL---QNSKVIAQIPGISMKIASRIMTELKGKAISLSS 137 (207)
Q Consensus 74 ~Li~V~GIGpK~AL~iL---s~l~~~~l~~aI~~---~D~~~L~~vpGIGkKtA~rIi~ELk~K~~~~~~ 137 (207)
.|.+++|||+++|=.|- .+-+..++-+.-.+ .-...|.+|||||+|+|.++ .++ + +.++..
T Consensus 81 ~l~~ipGIG~~i~~kI~Eil~tG~l~~le~l~~~~~~~~l~~l~~I~GiGpk~a~~l-~~~-G-i~tl~d 147 (381)
T 1jms_A 81 DTEGIPCLGDKVKSIIEGIIEDGESSEAKAVLNDERYKSFKLFTSVFGVGLKTAEKW-FRM-G-FRTLSK 147 (381)
T ss_dssp GGTTCSSCCHHHHHHHHHHHHHSSCHHHHHHHHCHHHHHHHHHHTSTTCCHHHHHHH-HHT-T-CCSHHH
T ss_pred HHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHHCCCCCHHHHHHH-HHC-C-CCCHHH
T ss_conf 983699951999999999998498588999870153368899873778789999999-986-9-777999
No 23
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=94.66 E-value=0.0041 Score=40.00 Aligned_cols=52 Identities=21% Similarity=0.266 Sum_probs=40.1
Q ss_pred HHHHHHHHHCCCHHHHHHHCC--CCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf 999850100051011244315--7899999998515668751045711679999999
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLSR--ITATELVESIILQNSKVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs~--l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ 126 (207)
...|.+|.|||||+|..+... -+.++|.++..++ .|+..||+|.|+.+.|.-
T Consensus 96 ~~~l~~I~GvGpk~A~~l~~~Gi~si~dL~~a~~~~---~l~~~~~~G~k~~~~i~~ 149 (578)
T 2w9m_A 96 LLDLLGVRGLGPKKIRSLWLAGIDSLERLREAAESG---ELAGLKGFGAKSAATILE 149 (578)
T ss_dssp HHHHTTSTTCCHHHHHHHHHTTCCSHHHHHHHHHHT---TTTTSTTCCHHHHHHHHH
T ss_pred HHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHCC---CCHHHCCCCHHHHHHHHH
T ss_conf 999847898689999999980998899999875505---720321447779999998
No 24
>2zix_A Crossover junction endonuclease MUS81; helix-hairpin-helix, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium, metal-binding, nucleus; 3.50A {Homo sapiens}
Probab=94.66 E-value=0.025 Score=34.73 Aligned_cols=57 Identities=16% Similarity=0.232 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHCCCHHHHHHHCCC-CHHHHHHHHHCCC-----HHHHHHCCC------CCHHHHHHHHH
Q ss_conf 999998501000510112443157-8999999985156-----687510457------11679999999
Q gi|254780553|r 70 QWFMLLQSVQGVGARVAMGVLSRI-TATELVESIILQN-----SKVIAQIPG------ISMKIASRIMT 126 (207)
Q Consensus 70 ~~F~~Li~V~GIGpK~AL~iLs~l-~~~~l~~aI~~~D-----~~~L~~vpG------IGkKtA~rIi~ 126 (207)
.+-++|..|+||||+.|-+|++.+ ++.+|+.|..+.. ...|..+++ |||+.+++|.-
T Consensus 230 ~~~~mL~qIpGIs~~~A~~I~~~ypT~~~L~~ay~~~~~~~e~~~ll~~~~~~~~~RkiG~~~Sk~I~~ 298 (307)
T 2zix_A 230 VFARQLMQVRGVSGEKAAALVDRYSTPASLLAAYDACATPKEQETLLSTIKCGRLQRNLGPALSRTLSQ 298 (307)
T ss_dssp HHHHTTTCSTTCCSTTTTTSSSSSCSHHHHHHHHHCCSSGGGTTTTTSCCCCTTTTCCCCHHHHHHHHH
T ss_pred HHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHH
T ss_conf 999999627899999999999977999999999985898889999987433565667429999999999
No 25
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A*
Probab=94.18 E-value=0.049 Score=32.76 Aligned_cols=52 Identities=17% Similarity=0.310 Sum_probs=33.0
Q ss_pred HHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 5010005101124431578999999985156687510457116799999999742
Q gi|254780553|r 76 QSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 76 i~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
+++.|||.++|-.+.+.+.. ...+.+-....|..++|||+++|+.|+--+++
T Consensus 510 LGIp~vG~~~ak~L~~~f~~---l~~l~~as~e~L~~I~GIG~~~A~si~~~f~~ 561 (667)
T 1dgs_A 510 LGLPGVGEVLARNLARRFGT---MDRLLEASLEELIEVEEVGELTARAILETLKD 561 (667)
T ss_dssp TTCSSCCHHHHHHHHHTTSB---HHHHTTCCHHHHHTSTTCCHHHHHHHHHHHHC
T ss_pred CCCCCCCHHHHHHHHHHCCC---HHHHHCCCHHHHHCCCCCCHHHHHHHHHHHCC
T ss_conf 06787448999999887599---99986079999857799489999999999759
No 26
>1m3q_A 8-oxoguanine DNA glycosylase; DNA repair, END product, HOGG, 8-aminoguanine, RE-ligation, hydrolase/DNA complex; HET: DRZ ANG; 1.90A {Homo sapiens} SCOP: a.96.1.3 d.129.1.2 PDB: 1m3h_A* 1n39_A* 1lwy_A* 1hu0_A* 1lwv_A* 1lww_A* 1fn7_A* 1n3a_A* 1n3c_A* 1ebm_A* 1ko9_A 2noe_A* 2noh_A* 2nol_A* 3ktu_A* 1yqk_A 2noz_A* 2nof_A* 1yqr_A* 1yql_A* ...
Probab=93.95 E-value=0.066 Score=31.92 Aligned_cols=20 Identities=20% Similarity=0.109 Sum_probs=9.8
Q ss_pred HHHHCCCCHHHHHHHHHCCC
Q ss_conf 24431578999999985156
Q gi|254780553|r 87 MGVLSRITATELVESIILQN 106 (207)
Q Consensus 87 L~iLs~l~~~~l~~aI~~~D 106 (207)
+.++..-+.+.++.+|.+++
T Consensus 122 lRilrqdpfE~Lv~~I~sQq 141 (317)
T 1m3q_A 122 VRLLRQDPIECLFSFICSSN 141 (317)
T ss_dssp CCCCCCCHHHHHHHHHHHTT
T ss_pred CCCCCCCHHHHHHHHHHHHH
T ss_conf 73668987999999999988
No 27
>3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3kzi_U* 3a0b_U* 3a0h_U*
Probab=93.88 E-value=0.036 Score=33.69 Aligned_cols=47 Identities=13% Similarity=0.250 Sum_probs=25.7
Q ss_pred HHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 99850100051011244315789999999851566875104571167999999997
Q gi|254780553|r 73 MLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 73 ~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
..|..+.||||..|=+|... .| -..+.-|.+|+|||+++.++|=--|
T Consensus 33 ~eL~~lpGig~~~A~~Iv~~-gp--------f~s~~dL~~V~Gig~~~~e~ik~yl 79 (104)
T 3bz1_U 33 AAFIQYRGLYPTLAKLIVKN-AP--------YESVEDVLNIPGLTERQKQILRENL 79 (104)
T ss_dssp GGGGGSTTTTHHHHHHHHHS-CC--------CSSGGGGGGCTTCCHHHHHHHHHHG
T ss_pred HHHHHCCCCCHHHHHHHHHC-CC--------CCCHHHHHCCCCCCHHHHHHHHHHH
T ss_conf 99965899799999999974-99--------7989999638998999999999865
No 28
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} SCOP: a.60.2.7
Probab=93.79 E-value=0.044 Score=33.13 Aligned_cols=42 Identities=17% Similarity=0.321 Sum_probs=21.1
Q ss_pred HHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf 985010005101124431578999999985156687510457116799999
Q gi|254780553|r 74 LLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRI 124 (207)
Q Consensus 74 ~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rI 124 (207)
.|.++.||||+.|-+|... -+ -.+..-|.+++|||.++.++|
T Consensus 28 eL~~lpGig~~~A~~Iv~~-R~--------f~s~~dL~~v~gi~~~~~~~i 69 (75)
T 2duy_A 28 ELMALPGIGPVLARRIVEG-RP--------YARVEDLLKVKGIGPATLERL 69 (75)
T ss_dssp HHTTSTTCCHHHHHHHHHT-CC--------CSSGGGGGGSTTCCHHHHHHH
T ss_pred HHHHCCCCCHHHHHHHHHC-CC--------CCCHHHHHHCCCCCHHHHHHH
T ss_conf 9977789899999999985-89--------898999975789899999999
No 29
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=93.74 E-value=0.0093 Score=37.60 Aligned_cols=53 Identities=21% Similarity=0.248 Sum_probs=28.1
Q ss_pred HHHHHHHHCCCHHHHHHH---CCCCHH---HHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 998501000510112443---157899---99999851566875104571167999999997
Q gi|254780553|r 73 MLLQSVQGVGARVAMGVL---SRITAT---ELVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 73 ~~Li~V~GIGpK~AL~iL---s~l~~~---~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
..|.+++|||+++|=.|- .+-+.. ++...+.. ...|.++||||+|+|.++. ++
T Consensus 57 ~~l~~ipGIGk~i~~kI~Eil~tG~~~~le~l~~~~p~--~~~l~~I~GvGpk~a~~l~-~~ 115 (335)
T 2bcq_A 57 QEACSIPGIGKRMAEKIIEILESGHLRKLDHISESVPV--LELFSNIWGAGTKTAQMWY-QQ 115 (335)
T ss_dssp HHHHTSTTCCHHHHHHHHHHHHSSSCGGGGGCCTTHHH--HHHHHTSTTCCHHHHHHHH-HT
T ss_pred HHHHCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHCCH--HHHHHCCCCCCHHHHHHHH-HC
T ss_conf 99717999758999999999973968689988633401--5665118876889999999-81
No 30
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus}
Probab=93.70 E-value=0.032 Score=34.03 Aligned_cols=23 Identities=22% Similarity=0.163 Sum_probs=12.6
Q ss_pred HCCCHHHHHHCCCCCHHHHHHHH
Q ss_conf 51566875104571167999999
Q gi|254780553|r 103 ILQNSKVIAQIPGISMKIASRIM 125 (207)
Q Consensus 103 ~~~D~~~L~~vpGIGkKtA~rIi 125 (207)
.+.+...|.++||||+++|++||
T Consensus 58 N~A~~~eL~~lpGig~~~A~~Iv 80 (134)
T 1s5l_U 58 NNTNIAAFIQYRGLYPTLAKLIV 80 (134)
T ss_dssp TTSCGGGGGGSTTCTHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 40789999771034699999999
No 31
>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7
Probab=93.57 E-value=0.052 Score=32.60 Aligned_cols=49 Identities=18% Similarity=0.205 Sum_probs=38.0
Q ss_pred HHHHHHHHHCCCHHHHHHHCCCCHHHHHHHH-HCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf 9998501000510112443157899999998-515668751045711679999999
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLSRITATELVESI-ILQNSKVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI-~~~D~~~L~~vpGIGkKtA~rIi~ 126 (207)
++.|..++||||+.|=.|... .+.- --.+..-|.+|||||+|+.+||+=
T Consensus 39 ~~eL~~lpgIg~~~A~~Iv~~------R~~~G~f~sledL~~v~Gi~~k~~eki~k 88 (98)
T 2edu_A 39 ARDLRSLQRIGPKKAQLIVGW------RELHGPFSQVEDLERVEGITGKQMESFLK 88 (98)
T ss_dssp HHHHHHSTTCCHHHHHHHHHH------HHHHCCCSSGGGGGGSTTCCHHHHHHHHH
T ss_pred HHHHHHCCCCCHHHHHHHHHH------HHHCCCCCCHHHHHCCCCCCHHHHHHHHH
T ss_conf 999964799899999999999------99859928899984489989999999998
No 32
>2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair, N1-methyladenine, N3-methylcytosine, hyperthermophiles, hydrolase; HET: MBO MES; 1.8A {Archaeoglobus fulgidus} PDB: 2jhj_A
Probab=93.57 E-value=0.18 Score=28.97 Aligned_cols=71 Identities=17% Similarity=0.148 Sum_probs=32.8
Q ss_pred CCCEEEEEEECHHHHHH--HHHHHHHHHCCCHHHHHHHC---CCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf 88418999706779999--99985010005101124431---57899999998515668751045711679999999
Q gi|254780553|r 55 QDQIRLFGFLSDLDRQW--FMLLQSVQGVGARVAMGVLS---RITATELVESIILQNSKVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 55 Ed~~~LyGF~~~~Er~~--F~~Li~V~GIGpK~AL~iLs---~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ 126 (207)
.+...++.|.+.++--- ...|. --|++.+.|-+|.+ ..+.+++...=..+=...|.++||||++||+=+.+
T Consensus 153 ~~~~~~~~fPtp~~la~~~~~~L~-~~Gl~~~Ka~~i~~lA~~~~~~~l~~~~~~e~~~~L~~i~GIGpWTA~~ill 228 (295)
T 2jhn_A 153 WNGLKFYGFPTQEAILKAGVEGLR-ECGLSRRKAELIVEIAKEENLEELKEWGEEEAYEYLTSFKGIGRWTAELVLS 228 (295)
T ss_dssp ETTEEEECCCCHHHHHHHHHHHHH-HTTCCHHHHHHHHHHHTCSSGGGGGGSCHHHHHHHHHTSTTCCHHHHHHHHH
T ss_pred CCCCHHCCCCCHHHHHCCCHHHHH-HCCCCHHHHHHHHHCCCCCCHHHHCCCCHHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf 763010379999999849999997-7897388999998501135556541288588888998459948899999999
No 33
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication, transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1 c.120.1.2 PDB: 1mc8_A
Probab=93.03 E-value=0.45 Score=26.35 Aligned_cols=94 Identities=17% Similarity=0.218 Sum_probs=43.7
Q ss_pred CCHHHHHHHHHCCCHHHH-HHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCC-----CC---CCCCCCCCCCCHHHHH
Q ss_conf 789999999851566875-10457116799999999742221101133443233-----33---3445555653158999
Q gi|254780553|r 93 ITATELVESIILQNSKVI-AQIPGISMKIASRIMTELKGKAISLSSVVQQDMSC-----VN---KEQAHICSMPSFAINA 163 (207)
Q Consensus 93 l~~~~l~~aI~~~D~~~L-~~vpGIGkKtA~rIi~ELk~K~~~~~~~~~~~~~~-----~~---~~~~~~~~~~~~~~d~ 163 (207)
+++++|+..-.-.|..-- ..+||||+|||-+++-+.++--..+.......... .+ .+.....-.....+.+
T Consensus 221 l~~~q~id~all~G~dyn~~gi~giG~ktA~~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~d~~~l 300 (340)
T 1b43_A 221 LTREKLIELAILVGTDYNPGGIKGIGLKKALEIVRHSKDPLAKFQKQSDVDLYAIKEFFLNPPVTDNYNLVWRDPDEEGI 300 (340)
T ss_dssp CCHHHHHHHHHHHCCTTSTTCSTTCCHHHHHHHHHTCSSGGGGTGGGCSSCHHHHHHHHHSCCCCCCCCCCCCCCCHHHH
T ss_pred CCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCHHHH
T ss_conf 99999989999718756855579827999999999959999998750102689999982599989766663699998999
Q ss_pred HHHH-HHCCCCHHHHHHHHHHHHH
Q ss_conf 9999-9679998999999999985
Q gi|254780553|r 164 ISAL-VNLGYGQDQATTAVVSVLK 186 (207)
Q Consensus 164 ~~AL-~~LGy~~~ea~~ai~~i~~ 186 (207)
..=| ..+||++..+..++.++.+
T Consensus 301 ~~fl~~~~~f~~~~~~~~~~kl~k 324 (340)
T 1b43_A 301 LKFLCDEHDFSEERVKNGLERLKK 324 (340)
T ss_dssp HHHHTTTTCCCHHHHHHHHHHHHH
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf 999998649999999999999997
No 34
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-binding, excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus}
Probab=92.12 E-value=0.4 Score=26.72 Aligned_cols=38 Identities=24% Similarity=0.336 Sum_probs=26.1
Q ss_pred CCHHHHHH-HHHCCCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 78999999-985156687510457116799999999742
Q gi|254780553|r 93 ITATELVE-SIILQNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 93 l~~~~l~~-aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
+++++++. +|..++.--...|||||+|||-+++-+.+.
T Consensus 218 i~~~qfid~~iL~G~dyn~~gv~giG~ktA~kli~~~~s 256 (346)
T 2izo_A 218 ITREQLIDIGILIGTDYNPDGIRGIGPERALKIIKKYGK 256 (346)
T ss_dssp CCHHHHHHHHHHHCCSSSTTCSTTCCHHHHHHHHHHSSC
T ss_pred CCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHCC
T ss_conf 999999999984586568666898379999999999399
No 35
>2owo_A DNA ligase; protein/DNA complex, ligase/DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli K12}
Probab=91.92 E-value=0.11 Score=30.48 Aligned_cols=50 Identities=16% Similarity=0.349 Sum_probs=30.7
Q ss_pred HHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 50100051011244315789999999851566875104571167999999997
Q gi|254780553|r 76 QSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 76 i~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
+++.+||.++|-.+...+.. ...+.+.+...|.+++|||+++|+.|.--+
T Consensus 515 LGI~~vG~~~ak~La~~f~~---l~~l~~as~eeL~~I~gIG~~~A~si~~ff 564 (671)
T 2owo_A 515 LGIREVGEATAAGLAAYFGT---LEALEAASIEELQKVPDVGIVVASHVHNFF 564 (671)
T ss_dssp TTCTTCCHHHHHHHHHHHCS---HHHHHTCCHHHHTTSTTCCHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHCCC---HHHHHCCCHHHHHCCCCCCHHHHHHHHHHH
T ss_conf 43777547789999886299---999873899999644981699999999997
No 36
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus}
Probab=91.58 E-value=0.075 Score=31.55 Aligned_cols=48 Identities=13% Similarity=0.252 Sum_probs=37.9
Q ss_pred HHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 999850100051011244315789999999851566875104571167999999997
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
-+.|.++.||||++|=.|... .| =.++.-|.+|||||+|+-++|---|
T Consensus 62 ~~eL~~lpGig~~~A~~Iv~~-gp--------f~svedl~~v~Gig~~~~e~l~~~l 109 (134)
T 1s5l_U 62 IAAFIQYRGLYPTLAKLIVKN-AP--------YESVEDVLNIPGLTERQKQILRENL 109 (134)
T ss_dssp GGGGGGSTTCTHHHHHHHHHT-CC--------CSSGGGGGGCTTCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHC-CC--------CCCHHHHHCCCCCCHHHHHHHHHHH
T ss_conf 999977103469999999982-78--------4879999617757999999999865
No 37
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5 c.55.3.13 PDB: 3bzk_A 2oce_A
Probab=91.21 E-value=0.24 Score=28.16 Aligned_cols=20 Identities=25% Similarity=0.576 Sum_probs=10.7
Q ss_pred HHHHHHCCCCCHHHHHHHHH
Q ss_conf 68751045711679999999
Q gi|254780553|r 107 SKVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 107 ~~~L~~vpGIGkKtA~rIi~ 126 (207)
...|.-|+|+|++.|+.|+-
T Consensus 507 ~~lL~~VsGLgprkA~~iv~ 526 (785)
T 3bzc_A 507 AALLARISGLNSTLAQNIVA 526 (785)
T ss_dssp HHHHHTSTTCCHHHHHHHHH
T ss_pred HHHHHCCCCCCHHHHHHHHH
T ss_conf 77753257878899999999
No 38
>3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3kzi_U* 3a0b_U* 3a0h_U*
Probab=91.08 E-value=0.09 Score=31.01 Aligned_cols=25 Identities=20% Similarity=0.188 Sum_probs=21.0
Q ss_pred HHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf 8515668751045711679999999
Q gi|254780553|r 102 IILQNSKVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 102 I~~~D~~~L~~vpGIGkKtA~rIi~ 126 (207)
|.+-+...|.++||||+++|+|||-
T Consensus 27 lN~As~~eL~~lpGig~~~A~~Iv~ 51 (104)
T 3bz1_U 27 LNNTNIAAFIQYRGLYPTLAKLIVK 51 (104)
T ss_dssp TTSSCGGGGGGSTTTTHHHHHHHHH
T ss_pred CCCCCHHHHHHCCCCCHHHHHHHHH
T ss_conf 8408999996589979999999997
No 39
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2 PDB: 1a77_A
Probab=91.02 E-value=0.87 Score=24.45 Aligned_cols=93 Identities=14% Similarity=0.092 Sum_probs=42.5
Q ss_pred CCHHHHHHHHHCCCHHH-HHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCC-------CCCCCCCCCCCCCCCHHHHHH
Q ss_conf 78999999985156687-5104571167999999997422211011334432-------333334455556531589999
Q gi|254780553|r 93 ITATELVESIILQNSKV-IAQIPGISMKIASRIMTELKGKAISLSSVVQQDM-------SCVNKEQAHICSMPSFAINAI 164 (207)
Q Consensus 93 l~~~~l~~aI~~~D~~~-L~~vpGIGkKtA~rIi~ELk~K~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~d~~ 164 (207)
+++++++..-.-.|..- ...+||||+|||-+++-+... +..+........ .....+...........+.+.
T Consensus 209 ~~~~q~id~~il~g~d~n~~gi~giG~k~A~~li~~~~s-~e~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~l~ 287 (326)
T 1a76_A 209 ISLDDLIDIAIFMGTDYNPGGVKGIGFKRAYELVRSGVA-KDVLKKEVEYYDEIKRIFKEPKVTDNYSLSLKLPDKEGII 287 (326)
T ss_dssp CCHHHHHHHHHHHCCTTSTTTTTTCCHHHHHHHHHHTCH-HHHHHHHSTTHHHHHHHHHSCCCCCCCCCCCCCCCHHHHH
T ss_pred CCHHHHHHHHHEECCCCCCCCCCCCCHHHHHHHHHHCCC-HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHH
T ss_conf 587999987802796457889994249999999998499-9999886531689999854987676544446899989999
Q ss_pred HHH-HHCCCCHHHHHHHHHHHHH
Q ss_conf 999-9679998999999999985
Q gi|254780553|r 165 SAL-VNLGYGQDQATTAVVSVLK 186 (207)
Q Consensus 165 ~AL-~~LGy~~~ea~~ai~~i~~ 186 (207)
.=| ..+||++..+++.+.++.+
T Consensus 288 ~fl~~e~~f~~~~v~~~~~kl~~ 310 (326)
T 1a76_A 288 KFLVDENDFNYDRVKKHVDKLYN 310 (326)
T ss_dssp HHHTTTTCCCHHHHHHHHHHHHH
T ss_pred HHHHHHCCCCHHHHHHHHHHHHH
T ss_conf 99998649999999999999997
No 40
>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1
Probab=90.36 E-value=0.062 Score=32.12 Aligned_cols=54 Identities=22% Similarity=0.202 Sum_probs=43.4
Q ss_pred HHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf 50100051011244315789999999851566875104571167999999997422
Q gi|254780553|r 76 QSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGK 131 (207)
Q Consensus 76 i~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K 131 (207)
+.+.||||..+=.+-+ .+.. =+..|..-..+-|..++|||.++|++|+-.-+.-
T Consensus 28 L~~~Gvg~~~i~KL~~-aG~~-Tv~~Ia~~t~~eL~~i~Gi~e~~A~KIi~aark~ 81 (114)
T 1b22_A 28 LEQCGINANDVKKLEE-AGFH-TVEAVAYAPKKELINIKGISEAKADKILAEAAKL 81 (114)
T ss_dssp HHHTTCSHHHHHHHHT-TCCS-SGGGBTSSBHHHHHTTTTCSTTHHHHHHHHHHHH
T ss_pred HHHCCCCHHHHHHHHH-CCCC-HHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf 9768999999999999-6974-4999984899999766698899999999999987
No 41
>2ziu_B Crossover junction endonuclease EME1; helix-hairpin-helix, alternative splicing, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; 2.70A {Homo sapiens} PDB: 2ziw_B 2zix_B 2ziv_B
Probab=90.00 E-value=0.24 Score=28.22 Aligned_cols=62 Identities=19% Similarity=0.280 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHCCCHHHHHHHCCC-CHHHHHHHHHCCC-----HHHHHHCC------------CCCHHHHHHHHHHHH
Q ss_conf 99999998501000510112443157-8999999985156-----68751045------------711679999999974
Q gi|254780553|r 68 DRQWFMLLQSVQGVGARVAMGVLSRI-TATELVESIILQN-----SKVIAQIP------------GISMKIASRIMTELK 129 (207)
Q Consensus 68 Er~~F~~Li~V~GIGpK~AL~iLs~l-~~~~l~~aI~~~D-----~~~L~~vp------------GIGkKtA~rIi~ELk 129 (207)
..-|.++|..++||.+..|.+|.+.+ +|..|++|..+.. ...|..++ -||+..++||..=+-
T Consensus 250 ~~~w~~~L~qi~~vs~~~A~aI~~~Ypt~~~L~~ay~~~~~~~e~~~lL~~i~~~~~~~~~~~~rriG~~lSkriy~~~t 329 (341)
T 2ziu_B 250 ALVWRRQIQQLNRVSLEMASAVVNAYPSPQLLVQAYQQCFSDKERQNLLADIQVRRGEGVTSTSRRIGPELSRRIYLQMT 329 (341)
T ss_dssp HHHHHHHHTTSTTCCHHHHHHHHHHSCSHHHHHHHHHTCSCHHHHTTTTTTCBTTTTC----CCCBCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHCEECCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf 99999999871499999999999978999999999983687567888864323234788775667437999999999984
No 42
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Probab=89.92 E-value=0.08 Score=31.37 Aligned_cols=37 Identities=19% Similarity=0.308 Sum_probs=24.1
Q ss_pred CHHHHH--HHHHCCCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 899999--9985156687510457116799999999742
Q gi|254780553|r 94 TATELV--ESIILQNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 94 ~~~~l~--~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
+|++++ .|+.-.-..-+-.|||||+|||.+++-+..+
T Consensus 187 p~~q~~d~kaL~GD~SDNIpGV~GiG~KtA~kLl~~ygs 225 (290)
T 1exn_A 187 DVEQFISLKAIMGDLGDNIRGVEGIGAKRGYNIIREFGN 225 (290)
T ss_dssp SHHHHHHHHHHHCBGGGTBCCCTTCCHHHHHHHHHHHCS
T ss_pred CCHHHCCEEECCCCCCCCCCCCCCCCHHHHHHHHHHHCC
T ss_conf 732210212078845017999998589999999987389
No 43
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} SCOP: a.60.2.7
Probab=89.77 E-value=0.14 Score=29.68 Aligned_cols=25 Identities=24% Similarity=0.394 Sum_probs=21.2
Q ss_pred HHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf 8515668751045711679999999
Q gi|254780553|r 102 IILQNSKVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 102 I~~~D~~~L~~vpGIGkKtA~rIi~ 126 (207)
|.+-+...|.++||||++.|++|+-
T Consensus 21 iN~As~~eL~~lpGig~~~A~~Iv~ 45 (75)
T 2duy_A 21 LNEASLEELMALPGIGPVLARRIVE 45 (75)
T ss_dssp TTTCCHHHHTTSTTCCHHHHHHHHH
T ss_pred CCCCCHHHHHHCCCCCHHHHHHHHH
T ss_conf 7128799997778989999999998
No 44
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Probab=89.54 E-value=0.43 Score=26.51 Aligned_cols=71 Identities=13% Similarity=0.153 Sum_probs=39.1
Q ss_pred ECCHHHHHHCCCCCCEEEEEEEEE---E-CCCCEEEEEEECHHHHHHHHHHH--------HHHHCCCHHHHHHHCCCC-H
Q ss_conf 708688985024798499999999---7-38841899970677999999985--------010005101124431578-9
Q gi|254780553|r 29 YCPIRTLSCLGKIGDFCTLFVETH---M-RQDQIRLFGFLSDLDRQWFMLLQ--------SVQGVGARVAMGVLSRIT-A 95 (207)
Q Consensus 29 ~vs~~~~~~l~~~g~~v~l~~~~~---v-rEd~~~LyGF~~~~Er~~F~~Li--------~V~GIGpK~AL~iLs~l~-~ 95 (207)
..+.+.+..| ..+.+++|-+.. + .++-..-||+...++--.|+.|. +|.|||||+|..+|..+. .
T Consensus 149 vS~DkD~~QL--v~~~v~~~~~~~~~~~~~~~~~ek~gv~p~~q~~d~kaL~GD~SDNIpGV~GiG~KtA~kLl~~ygsl 226 (290)
T 1exn_A 149 ISTDGDWDTL--LTDKVSRFSFTTRREYHLRDMYEHHNVDDVEQFISLKAIMGDLGDNIRGVEGIGAKRGYNIIREFGNV 226 (290)
T ss_dssp ECSCGGGGGG--CCSSEEEEETTTTEEECGGGHHHHHSSSSHHHHHHHHHHHCBGGGTBCCCTTCCHHHHHHHHHHHCSH
T ss_pred EECCCCHHHH--CCCCCCCCCCCCCCCCCCCCCEEECCCCCCHHHCCEEECCCCCCCCCCCCCCCCHHHHHHHHHHHCCH
T ss_conf 9358864441--13666455653343212211100025567322102120788450179999985899999999873899
Q ss_pred HHHHHH
Q ss_conf 999999
Q gi|254780553|r 96 TELVES 101 (207)
Q Consensus 96 ~~l~~a 101 (207)
+.+.+.
T Consensus 227 e~i~~~ 232 (290)
T 1exn_A 227 LDIIDQ 232 (290)
T ss_dssp HHHHHH
T ss_pred HHHHHH
T ss_conf 999987
No 45
>1mpg_A ALKA, 3-methyladenine DNA glycosylase II; DNA repair, base excision, methylation, hydrolase; 1.80A {Escherichia coli} SCOP: a.96.1.3 d.129.1.2 PDB: 1diz_A 1pvs_A* 3cvs_A* 3cvt_A* 3cw7_A* 3cwa_A* 3cws_A* 3cwt_A* 3cwu_A* 3d4v_A*
Probab=89.36 E-value=0.29 Score=27.60 Aligned_cols=76 Identities=14% Similarity=0.083 Sum_probs=35.2
Q ss_pred HHHHHCCCC-HHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHH-H
Q ss_conf 124431578-99999998515668751045711679999999974222110113344323333344555565315899-9
Q gi|254780553|r 86 AMGVLSRIT-ATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFAIN-A 163 (207)
Q Consensus 86 AL~iLs~l~-~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d-~ 163 (207)
.|.+..+.+ .+.++.+|..+.++. +.|.+|.--|...+..- .... ........+....+ -
T Consensus 104 GlR~p~~~d~fE~lvraIlgQQvS~---------~aA~~i~~rL~~~~G~~---~~~~------~~~~~fPtp~~la~~~ 165 (282)
T 1mpg_A 104 GLRLPGCVDAFEQGVRAILGQLVSV---------AMAAKLTARVAQLYGER---LDDF------PEYICFPTPQRLAAAD 165 (282)
T ss_dssp TCCCCCCSCHHHHHHHHHHTTTSCH---------HHHHHHHHHHHHHHCCB---CSSC------TTCBCCCCHHHHHTCC
T ss_pred CCCCCCCCCHHHHHHHHHHHCHHHH---------HHHHHHHHHHHHHHCCC---CCCC------CCCCCCCCHHHHHCCC
T ss_conf 9768899999999999998274519---------99999999999986887---7767------6545777799997499
Q ss_pred HHHHHHCCCCHHHHHH
Q ss_conf 9999967999899999
Q gi|254780553|r 164 ISALVNLGYGQDQATT 179 (207)
Q Consensus 164 ~~AL~~LGy~~~ea~~ 179 (207)
.+.|..+|++...++.
T Consensus 166 ~~~Lr~~Gls~~ka~~ 181 (282)
T 1mpg_A 166 PQALKALGMPLKRAEA 181 (282)
T ss_dssp HHHHHHTTSCHHHHHH
T ss_pred HHHHHHCCCCCHHHHH
T ss_conf 9999654886047999
No 46
>3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG, 8OXOG, glycosylase, cytosine, hydrolase,lyase/DNA complex; HET: 8OG; 1.73A {Clostridium acetobutylicum} PDB: 3i0x_A* 3f10_A* 3f0z_A
Probab=89.18 E-value=0.21 Score=28.57 Aligned_cols=38 Identities=18% Similarity=0.312 Sum_probs=21.1
Q ss_pred HHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf 12443157899999998515668751045711679999999974222
Q gi|254780553|r 86 AMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKA 132 (207)
Q Consensus 86 AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~ 132 (207)
++.+|..-+.+.++.+|.+++.+. +.|.+++-.|..+.
T Consensus 107 GlRilrqdpfE~Lv~~I~sQq~si---------~~a~~~~~~L~~~~ 144 (290)
T 3i0w_A 107 GIRILRQDPFEILLSFIISANNRI---------PMIKKCINNISEKA 144 (290)
T ss_dssp TCCCCCCCHHHHHHHHHHHTTCCH---------HHHHHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHHHCCH---------HHHHHHHHHHHHHC
T ss_conf 977889986999999999846209---------99999999999981
No 47
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1 PDB: 1orp_A* 1p59_A*
Probab=89.07 E-value=0.2 Score=28.71 Aligned_cols=25 Identities=16% Similarity=0.391 Sum_probs=20.5
Q ss_pred CCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 1566875104571167999999997
Q gi|254780553|r 104 LQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 104 ~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
-.|...|.++||||+|||.-|+.--
T Consensus 109 P~~~~~L~~LpGVG~kTA~~il~~a 133 (226)
T 1orn_A 109 PRDRDELMKLPGVGRKTANVVVSVA 133 (226)
T ss_dssp CSCHHHHTTSTTCCHHHHHHHHHHH
T ss_pred CCCHHHHHHCCCCCHHHHHHHHHHH
T ss_conf 8789999748775367999999998
No 48
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A 1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A* 1kg7_A 1kqj_A
Probab=88.95 E-value=0.21 Score=28.64 Aligned_cols=29 Identities=24% Similarity=0.395 Sum_probs=22.6
Q ss_pred HCCCHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf 51566875104571167999999997422
Q gi|254780553|r 103 ILQNSKVIAQIPGISMKIASRIMTELKGK 131 (207)
Q Consensus 103 ~~~D~~~L~~vpGIGkKtA~rIi~ELk~K 131 (207)
.-.+...|.++||||+|||.-|+.---++
T Consensus 104 ~p~~~~~L~~LpGVG~kTA~~il~~a~~~ 132 (225)
T 1kg2_A 104 FPETFEEVAALPGVGRSTAGAILSLSLGK 132 (225)
T ss_dssp CCCSHHHHHTSTTCCHHHHHHHHHHHHCC
T ss_pred CCCHHHHHHHCCCCCHHHHHHHHHHHCCC
T ss_conf 97429999758987478999999985298
No 49
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3
Probab=88.39 E-value=0.13 Score=29.93 Aligned_cols=24 Identities=17% Similarity=0.343 Sum_probs=20.3
Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 687510457116799999999742
Q gi|254780553|r 107 SKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 107 ~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
.+.|..+||||+|+|++|+-..++
T Consensus 23 ~S~L~~IpGIG~k~ak~Ll~~F~s 46 (78)
T 1kft_A 23 TSSLETIEGVGPKRRQMLLKYMGG 46 (78)
T ss_dssp CCGGGGCTTCSSSHHHHHHHHHSC
T ss_pred CCCCCCCCCCCHHHHHHHHHHHCC
T ss_conf 382656999329999999999299
No 50
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase/DNA complex; 2.00A {Archaeoglobus fulgidus} SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A
Probab=88.34 E-value=0.27 Score=27.85 Aligned_cols=95 Identities=14% Similarity=0.206 Sum_probs=43.5
Q ss_pred HHHHCCCCHHHHHHH-HHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCC--------CCC---CCCCCCC
Q ss_conf 244315789999999-8515668751045711679999999974222110113344323--------333---3445555
Q gi|254780553|r 87 MGVLSRITATELVES-IILQNSKVIAQIPGISMKIASRIMTELKGKAISLSSVVQQDMS--------CVN---KEQAHIC 154 (207)
Q Consensus 87 L~iLs~l~~~~l~~a-I~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~~~~~~~~~~~~~--------~~~---~~~~~~~ 154 (207)
+.-+. +++++|+.. |..|+ .....+||||+|||-+++-+..+ +.++......... ..+ .+.....
T Consensus 215 l~~lg-l~~~qfid~~iL~G~-Dy~~gv~giG~ktA~kli~~~~~-i~~i~~~~~~~~~~~~~~r~l~~~~~v~~~~~~~ 291 (336)
T 1rxw_A 215 LKRLG-LTREQLIDIAILVGT-DYNEGVKGVGVKKALNYIKTYGD-IFRALKALKVNIDHVEEIRNFFLNPPVTDDYRIE 291 (336)
T ss_dssp HHHHT-CCHHHHHHHHHHHCB-TTBCCCTTCCHHHHHHHHHHHSS-HHHHHHHHTC----CHHHHHHHHSCCCCCCCCCC
T ss_pred HHHCC-CCHHHHHHHHHHCCC-CCCCCCCCCCHHHHHHHHHHHCC-HHHHHHHHHHCHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf 98709-999999999986088-76899999688999999999299-9999998763446799999982899888745466
Q ss_pred CCCCHHHHHHHHH-HHCCCCHHHHHHHHHHH
Q ss_conf 6531589999999-96799989999999999
Q gi|254780553|r 155 SMPSFAINAISAL-VNLGYGQDQATTAVVSV 184 (207)
Q Consensus 155 ~~~~~~~d~~~AL-~~LGy~~~ea~~ai~~i 184 (207)
......+.+..=| ..++|++...++.+.++
T Consensus 292 ~~~~d~~~l~~fl~~~~~f~~~~v~~~~~~l 322 (336)
T 1rxw_A 292 FREPDFEKAIEFLCEEHDFSRERVEKALEKL 322 (336)
T ss_dssp CCCCCHHHHHHHHTTTTCCCHHHHHHHHGGG
T ss_pred CCCCCHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 6999989999999985398999999999999
No 51
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} SCOP: a.96.1.2
Probab=88.29 E-value=0.24 Score=28.18 Aligned_cols=47 Identities=21% Similarity=0.392 Sum_probs=31.7
Q ss_pred HHHCC--CHHHHHHHCCCCHHHHHHHH-------HCCCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 10005--10112443157899999998-------5156687510457116799999999742
Q gi|254780553|r 78 VQGVG--ARVAMGVLSRITATELVESI-------ILQNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 78 V~GIG--pK~AL~iLs~l~~~~l~~aI-------~~~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
+.|+| ...|-.|.. +.+.| .-.+...|.++||||+|||.-|+..--+
T Consensus 82 i~~~G~~~~KA~~l~~------~a~~i~~~~~g~vp~~~~eL~~LPGVG~ktA~~vl~~a~~ 137 (221)
T 1kea_A 82 IKEIGLSNQRAEQLKE------LARVVINDYGGRVPRNRKAILDLPGVGKYTCAAVMCLAFG 137 (221)
T ss_dssp TGGGSCHHHHHHHHHH------HHHHHHHHHTTSCCSCHHHHHTSTTCCHHHHHHHHHHTTC
T ss_pred HHHCCCHHHHHHHHHH------HHHHHHHHHCCCCCHHHHHHHCCCCCCHHHHHHHHHHHCC
T ss_conf 9987899999999999------9999988605873012888744898765679999998538
No 52
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1
Probab=88.27 E-value=0.24 Score=28.22 Aligned_cols=28 Identities=18% Similarity=0.452 Sum_probs=22.2
Q ss_pred HCCCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 5156687510457116799999999742
Q gi|254780553|r 103 ILQNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 103 ~~~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
.-.+...|.++||||+|||.-|..---+
T Consensus 104 ~p~~~~~L~~LpGVG~kTA~~il~~a~~ 131 (211)
T 2abk_A 104 VPEDRAALEALPGVGRKTANVVLNTAFG 131 (211)
T ss_dssp CCSCHHHHHHSTTCCHHHHHHHHHHHHC
T ss_pred CCCCHHHHHHCCCCCHHHHHHHHHHHHC
T ss_conf 9832999871788736999999998735
No 53
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A*
Probab=88.20 E-value=0.19 Score=28.83 Aligned_cols=23 Identities=22% Similarity=0.534 Sum_probs=19.5
Q ss_pred HHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 87510457116799999999742
Q gi|254780553|r 108 KVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 108 ~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
..|.++||||+|++++++-..+.
T Consensus 4 d~L~~IPGIg~~~~~~Ll~~fgS 26 (63)
T 2a1j_A 4 DFLLKMPGVNAKNCRSLMHHVKN 26 (63)
T ss_dssp HHHHTSTTCCHHHHHHHHHHCSS
T ss_pred HHHHCCCCCCHHHHHHHHHHCCC
T ss_conf 88852999889999999998679
No 54
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=88.04 E-value=0.22 Score=28.50 Aligned_cols=23 Identities=22% Similarity=0.534 Sum_probs=19.8
Q ss_pred HHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 87510457116799999999742
Q gi|254780553|r 108 KVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 108 ~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
..|.++||||+|++++|+-..+.
T Consensus 18 ~~L~~iPGIg~k~~~~Ll~~f~s 40 (84)
T 1z00_B 18 DFLLKMPGVNAKNCRSLMHHVKN 40 (84)
T ss_dssp HHHHTCSSCCHHHHHHHHHHSSC
T ss_pred HHHHCCCCCCHHHHHHHHHHCCC
T ss_conf 99983899999999999999669
No 55
>1pu6_A 3-methyladenine DNA glycosylase; helix-hairpin-helix, base excision repair, hydrolase; HET: KCX; 1.64A {Helicobacter pylori} SCOP: a.96.1.5 PDB: 1pu7_A* 1pu8_A*
Probab=87.90 E-value=0.26 Score=27.92 Aligned_cols=24 Identities=17% Similarity=0.134 Sum_probs=19.5
Q ss_pred CCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf 156687510457116799999999
Q gi|254780553|r 104 LQNSKVIAQIPGISMKIASRIMTE 127 (207)
Q Consensus 104 ~~D~~~L~~vpGIGkKtA~rIi~E 127 (207)
......|.++||||+|||.-+..-
T Consensus 117 ~~~~~~L~~lpGIG~kTA~~il~~ 140 (218)
T 1pu6_A 117 EVTREWLLDQKGIGKESADAILCY 140 (218)
T ss_dssp HCCHHHHHTSTTCCHHHHHHHHHH
T ss_pred HHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf 679999984899669999999999
No 56
>3fhg_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, ssogg, DNA damage, DNA repair, glycosidase, hydrolase; 1.90A {Sulfolobus solfataricus}
Probab=87.47 E-value=0.25 Score=28.04 Aligned_cols=22 Identities=27% Similarity=0.460 Sum_probs=17.8
Q ss_pred HHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 6875104571167999999997
Q gi|254780553|r 107 SKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 107 ~~~L~~vpGIGkKtA~rIi~EL 128 (207)
...|+++||||+|||.-+..-.
T Consensus 116 ~~~L~~l~GIG~ktA~~~L~~~ 137 (207)
T 3fhg_A 116 RERLLNIKGIGMQEASHFLRNV 137 (207)
T ss_dssp HHHHTTSTTCCHHHHHHHHHHT
T ss_pred HHHHHHCCCCCHHHHHHHHHHH
T ss_conf 9999987887299999999997
No 57
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Probab=87.28 E-value=0.3 Score=27.52 Aligned_cols=53 Identities=9% Similarity=0.219 Sum_probs=31.2
Q ss_pred HHHHHCC-CHHHHHHHCCCCHHHHHHH---HHCCCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 5010005-1011244315789999999---85156687510457116799999999742
Q gi|254780553|r 76 QSVQGVG-ARVAMGVLSRITATELVES---IILQNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 76 i~V~GIG-pK~AL~iLs~l~~~~l~~a---I~~~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
--++|+| .+-|-.++.. ...++.- -.-.+...|.++||||+|||.-|..---+
T Consensus 84 ~~~~~lGyy~ra~~l~~~--a~~i~~~~~g~~P~~~~~L~~LpGVG~~TA~ail~~a~~ 140 (369)
T 3fsp_A 84 KAWEGLGYYSRVRNLHAA--VKEVKTRYGGKVPDDPDEFSRLKGVGPYTVGAVLSLAYG 140 (369)
T ss_dssp HTTTTSSCTHHHHHHHHH--HHHHHHHHTTCCCCSHHHHHTSTTCCHHHHHHHHHHHHC
T ss_pred HHHHHCCHHHHHHHHHHC--CCCEEECCCCCCCCCHHHHHHCCCHHHHHHHHHHHHHCC
T ss_conf 998746889999999852--122760048999987999852422588999999998614
No 58
>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} SCOP: e.71.1.1
Probab=87.10 E-value=0.28 Score=27.69 Aligned_cols=22 Identities=27% Similarity=0.452 Sum_probs=17.5
Q ss_pred HHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 7510457116799999999742
Q gi|254780553|r 109 VIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 109 ~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
+|.-+||||||+|..|+=|=+-
T Consensus 133 ~leLLPGIGKK~~~~IleeR~k 154 (205)
T 2i5h_A 133 QLELLPGVGKKMMWAIIEERKK 154 (205)
T ss_dssp GGGGSTTCCHHHHHHHHHHHHH
T ss_pred HHHHCCCCCHHHHHHHHHHHCC
T ss_conf 8875235058999999999655
No 59
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Probab=86.91 E-value=0.29 Score=27.61 Aligned_cols=98 Identities=14% Similarity=0.210 Sum_probs=47.1
Q ss_pred HHHHCCCCHHHHHH-HHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCC-------CC------------CCC
Q ss_conf 24431578999999-98515668751045711679999999974222110113344-------32------------333
Q gi|254780553|r 87 MGVLSRITATELVE-SIILQNSKVIAQIPGISMKIASRIMTELKGKAISLSSVVQQ-------DM------------SCV 146 (207)
Q Consensus 87 L~iLs~l~~~~l~~-aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~~~~~~~~~~-------~~------------~~~ 146 (207)
+.-++ +++++|+. +|..|+ .-...|||||+|||-+++-+.+. +..+...... .. ...
T Consensus 212 ~~~~g-~~~~q~id~~~L~G~-Dy~~gv~giG~ktA~kli~~~~s-le~i~~~~~~~~~~~~~~~~~~~~~~~fl~~~v~ 288 (379)
T 1ul1_X 212 LQELG-LNQEQFVDLCILLGS-DYCESIRGIGPKRAVDLIQKHKS-IEEIVRRLDPNKYPVPENWLHKEAHQLFLEPEVL 288 (379)
T ss_dssp HHHHT-CCHHHHHHHHHHHHC-SSSCCCTTCCHHHHHHHHHHSSS-HHHHHTTCCCTTSCCCSSCCHHHHHHHHHSCCCC
T ss_pred HHHCC-CCHHHHHHHHHHCCC-CCCCCCCCCCHHHHHHHHHHCCC-HHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCC
T ss_conf 76508-999999999997198-66776788668999999998199-9999999987077788554789999971399768
Q ss_pred CCCCCCCCCCCCHHHHHHHHH-HHCCCCHHHHHHHHHHHHHH
Q ss_conf 334455556531589999999-96799989999999999851
Q gi|254780553|r 147 NKEQAHICSMPSFAINAISAL-VNLGYGQDQATTAVVSVLKK 187 (207)
Q Consensus 147 ~~~~~~~~~~~~~~~d~~~AL-~~LGy~~~ea~~ai~~i~~~ 187 (207)
..............+.+..=| ..+||++..+...+..+.+.
T Consensus 289 ~~~~~~l~~~~pd~~~l~~fl~~e~~f~~~r~~~~~~~l~~~ 330 (379)
T 1ul1_X 289 DPESVELKWSEPNEEELIKFMCGEKQFSEERIRSGVKRLSKS 330 (379)
T ss_dssp CGGGCCCCCCCCCHHHHHHHTTTTSCCCHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf 997666676999999999999986288999999999999976
No 60
>3fhf_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, DNA damage, DNA repair, glycosidase, hydrolase; 2.00A {Methanocaldococcus jannaschii} PDB: 3knt_A*
Probab=86.90 E-value=0.26 Score=27.98 Aligned_cols=22 Identities=27% Similarity=0.427 Sum_probs=17.5
Q ss_pred HHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 6875104571167999999997
Q gi|254780553|r 107 SKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 107 ~~~L~~vpGIGkKtA~rIi~EL 128 (207)
...|.++||||+|||.-++.-.
T Consensus 124 ~~~L~~l~GIG~ktA~~~L~~~ 145 (214)
T 3fhf_A 124 EFLVRNIKGIGYKEASHFLRNV 145 (214)
T ss_dssp HHHHHHSTTCCHHHHHHHHHHT
T ss_pred HHHHHHCCCCCHHHHHHHHHHH
T ss_conf 9999748887699999999997
No 61
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=86.71 E-value=0.085 Score=31.19 Aligned_cols=44 Identities=14% Similarity=0.217 Sum_probs=21.4
Q ss_pred HHHHHHHHHHCCCHHHHHHHCC--CCHHHHHHHHHCCCHHHHHHCCCCCHHH
Q ss_conf 9999850100051011244315--7899999998515668751045711679
Q gi|254780553|r 71 WFMLLQSVQGVGARVAMGVLSR--ITATELVESIILQNSKVIAQIPGISMKI 120 (207)
Q Consensus 71 ~F~~Li~V~GIGpK~AL~iLs~--l~~~~l~~aI~~~D~~~L~~vpGIGkKt 120 (207)
..+.|.+|.|||||+|-.+-.. -+.++|.++. .|+.++|+|.|+
T Consensus 94 ~~~~l~~I~GvGpk~a~~l~~~Gi~si~dL~~~~------~l~~~q~~Glk~ 139 (335)
T 2bcq_A 94 VLELFSNIWGAGTKTAQMWYQQGFRSLEDIRSQA------SLTTQQAIGLKH 139 (335)
T ss_dssp HHHHHHTSTTCCHHHHHHHHHTTCCSHHHHHHHC------CCCHHHHHHHHT
T ss_pred HHHHHHCCCCCCHHHHHHHHHCCCCCHHHHHHHH------HHHHHHHCCHHH
T ss_conf 1566511887688999999981925699999887------643333200356
No 62
>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, structural genomics, PSI-2, protein structure initiative; 2.55A {Bacillus halodurans}
Probab=85.97 E-value=0.69 Score=25.15 Aligned_cols=20 Identities=25% Similarity=0.265 Sum_probs=14.0
Q ss_pred HHHHHHCCCCCHHHHHHHHH
Q ss_conf 68751045711679999999
Q gi|254780553|r 107 SKVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 107 ~~~L~~vpGIGkKtA~rIi~ 126 (207)
.+.|+++||||++||+=+.+
T Consensus 137 ~~~L~~ikGIGpWTA~~ill 156 (233)
T 2h56_A 137 IEKLTAIKGIGQWTAEMFMM 156 (233)
T ss_dssp HHHHHTSTTCCHHHHHHHHH
T ss_pred HHHHHHCCCCCHHHHHHHHH
T ss_conf 99988068848789999999
No 63
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Probab=85.73 E-value=0.48 Score=26.19 Aligned_cols=43 Identities=12% Similarity=0.143 Sum_probs=28.4
Q ss_pred HHHCCCCHHHHHHHHHCCC----HHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 4431578999999985156----687510457116799999999742
Q gi|254780553|r 88 GVLSRITATELVESIILQN----SKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 88 ~iLs~l~~~~l~~aI~~~D----~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
..-+.-+++.+.+...+.. ...|+++||||+++|.+++-..+.
T Consensus 8 ~~~~q~~~d~ike~~~~~~~~~~~~~L~~I~gIGk~~A~~L~~~F~S 54 (91)
T 2a1j_B 8 HHHSQDPADLLMEKLEQDFVSRVTECLTTVKSVNKTDSQTLLTTFGS 54 (91)
T ss_dssp -----CCSHHHHHHHHHHHHHHHHHHHTTSTTCCHHHHHHHHHHHSS
T ss_pred CCCCCCCHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCC
T ss_conf 10024978999998737909999998646888599999999999588
No 64
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination, helicase; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=85.31 E-value=0.29 Score=27.60 Aligned_cols=22 Identities=23% Similarity=0.412 Sum_probs=18.0
Q ss_pred HHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 8751045711679999999974
Q gi|254780553|r 108 KVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 108 ~~L~~vpGIGkKtA~rIi~ELk 129 (207)
..|.+|+|||+|+|-.|+..+.
T Consensus 73 ~~Li~VsGIGPK~AL~ILs~~~ 94 (203)
T 1cuk_A 73 KELIKTNGVGPKLALAILSGMS 94 (203)
T ss_dssp HHHHHSSSCCHHHHHHHHHHSC
T ss_pred HHHHCCCCCCHHHHHHHHHCCC
T ss_conf 9985768857566888861279
No 65
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5
Probab=85.19 E-value=0.37 Score=26.92 Aligned_cols=25 Identities=16% Similarity=0.460 Sum_probs=20.6
Q ss_pred CHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 6687510457116799999999742
Q gi|254780553|r 106 NSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 106 D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
....|..+||||+++|.+|+-...+
T Consensus 12 ~~~~L~~IpgIG~~~a~~L~~~F~s 36 (75)
T 1x2i_A 12 QRLIVEGLPHVSATLARRLLKHFGS 36 (75)
T ss_dssp HHHHHTTSTTCCHHHHHHHHHHHCS
T ss_pred HHHHHCCCCCCCHHHHHHHHHHHCC
T ss_conf 9999848999429999999999688
No 66
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Probab=85.07 E-value=0.092 Score=30.97 Aligned_cols=55 Identities=16% Similarity=0.166 Sum_probs=32.2
Q ss_pred HHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHH-HHHHCCCCC----HHHHHHHHHHH
Q ss_conf 9998501000510112443157899999998515668-751045711----67999999997
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLSRITATELVESIILQNSK-VIAQIPGIS----MKIASRIMTEL 128 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~-~L~~vpGIG----kKtA~rIi~EL 128 (207)
++.|+++.||||++|=+||+ +..+.= ..+..+++. .++++-|+. .+...+.+-++
T Consensus 117 ~~~L~~LpGVG~~TA~ail~-~a~~~~-~~~vD~nv~Rv~~R~~~~~~~~~~~~~~~~~~~~ 176 (369)
T 3fsp_A 117 PDEFSRLKGVGPYTVGAVLS-LAYGVP-EPAVDGNVMRVLSRLFLVTDDIAKPSTRKRFEQI 176 (369)
T ss_dssp HHHHHTSTTCCHHHHHHHHH-HHHCCC-CCCCCHHHHHHHHHHTTCCSCTTSHHHHHHHHHH
T ss_pred HHHHHHCCCHHHHHHHHHHH-HHCCCC-CCEECCCHHHHHHHHCCCCCCCCCCHHHHHHHHH
T ss_conf 99985242258899999999-861488-6122485135675430446888751146778875
No 67
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=84.82 E-value=0.56 Score=25.73 Aligned_cols=34 Identities=6% Similarity=0.248 Sum_probs=25.2
Q ss_pred HHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 9999985156687510457116799999999742
Q gi|254780553|r 97 ELVESIILQNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 97 ~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
...+...+.=...|+.+||||+++|++|+-..++
T Consensus 8 k~~~~~~~~~~~~L~~I~gIG~~~a~~L~~~Fgs 41 (89)
T 1z00_A 8 KLEQDFVSRVTECLTTVKSVNKTDSQTLLTTFGS 41 (89)
T ss_dssp HHHHHHHHHHHHHHTTSSSCCHHHHHHHHHHTCB
T ss_pred HHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCC
T ss_conf 8736749999998758997599999999999488
No 68
>1ngn_A Methyl-CPG binding protein MBD4; mismacth repair in methylated DNA, DNA binding protein; 2.10A {Mus musculus} SCOP: a.96.1.2 PDB: 3iho_A
Probab=84.68 E-value=0.49 Score=26.14 Aligned_cols=34 Identities=6% Similarity=-0.000 Sum_probs=23.9
Q ss_pred HHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 9999985156687510457116799999999742
Q gi|254780553|r 97 ELVESIILQNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 97 ~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
++.+.+...|...|.++||||++||.-+..=..+
T Consensus 93 ~~a~~~vp~~~~~l~~LpGVG~ytad~~~if~~~ 126 (155)
T 1ngn_A 93 KFSDEYLTKQWRYPIELHGIGKYGNDSYRIFCVN 126 (155)
T ss_dssp HHHHHHHHSCCSSGGGSTTCCHHHHHHHHHHTSS
T ss_pred HHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCC
T ss_conf 9971665442331675898219999999999879
No 69
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase/DNA complex; 2.00A {Archaeoglobus fulgidus} SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A
Probab=83.49 E-value=0.56 Score=25.72 Aligned_cols=40 Identities=15% Similarity=0.234 Sum_probs=27.6
Q ss_pred CHHHHHHHHHHH------HHHHCCCHHHHHHHCCC-CHHHHHHHHHC
Q ss_conf 677999999985------01000510112443157-89999999851
Q gi|254780553|r 65 SDLDRQWFMLLQ------SVQGVGARVAMGVLSRI-TATELVESIIL 104 (207)
Q Consensus 65 ~~~Er~~F~~Li------~V~GIGpK~AL~iLs~l-~~~~l~~aI~~ 104 (207)
+.++---|..|. +|.|||||+|+.+++.+ +.+.+.+.+..
T Consensus 221 ~~~qfid~~iL~G~Dy~~gv~giG~ktA~kli~~~~~i~~i~~~~~~ 267 (336)
T 1rxw_A 221 TREQLIDIAILVGTDYNEGVKGVGVKKALNYIKTYGDIFRALKALKV 267 (336)
T ss_dssp CHHHHHHHHHHHCBTTBCCCTTCCHHHHHHHHHHHSSHHHHHHHHTC
T ss_pred CHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHHH
T ss_conf 99999999986088768999996889999999992999999998763
No 70
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=83.45 E-value=0.17 Score=29.15 Aligned_cols=49 Identities=22% Similarity=0.241 Sum_probs=31.1
Q ss_pred HHHHHHHHHHCCCHHHHHHHCC--CCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf 9999850100051011244315--78999999985156687510457116799999
Q gi|254780553|r 71 WFMLLQSVQGVGARVAMGVLSR--ITATELVESIILQNSKVIAQIPGISMKIASRI 124 (207)
Q Consensus 71 ~F~~Li~V~GIGpK~AL~iLs~--l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rI 124 (207)
.-..|.+|.|||||+|-.+.+. -+.++|.++ ...|+..+++|-|.-+.+
T Consensus 100 ~l~~l~~i~GvGpk~a~~l~~~Gi~si~dL~~~-----~~~l~~~q~~Glk~~~dl 150 (360)
T 2ihm_A 100 TMKLFTQVFGVGVKTANRWYQEGLRTLDELREQ-----PQRLTQQQKAGLQYYQDL 150 (360)
T ss_dssp HHHHHHTSTTCCHHHHHHHHHTTCCSHHHHHTC-----CTTCCHHHHHHHHTHHHH
T ss_pred HHHHHHHCCCCCHHHHHHHHHCCCCCHHHHHHH-----HHHHHHHHHHHHHHHHHH
T ss_conf 999997577878999999998398879999877-----875015465333239999
No 71
>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A*
Probab=83.06 E-value=0.2 Score=28.78 Aligned_cols=19 Identities=32% Similarity=0.261 Sum_probs=12.6
Q ss_pred HHHHHHCCCCCHHHHHHHH
Q ss_conf 6875104571167999999
Q gi|254780553|r 107 SKVIAQIPGISMKIASRIM 125 (207)
Q Consensus 107 ~~~L~~vpGIGkKtA~rIi 125 (207)
..-|..+||||+++|++|-
T Consensus 79 ~~~l~~ipGIG~~i~~kI~ 97 (381)
T 1jms_A 79 MKDTEGIPCLGDKVKSIIE 97 (381)
T ss_dssp GGGGTTCSSCCHHHHHHHH
T ss_pred HHHHHCCCCCCHHHHHHHH
T ss_conf 9998369995199999999
No 72
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, hydrolase; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*
Probab=81.46 E-value=0.23 Score=28.34 Aligned_cols=61 Identities=16% Similarity=0.204 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 7799999998501000510112443157899999998515668751045711679999999974
Q gi|254780553|r 66 DLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 66 ~~Er~~F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk 129 (207)
..||++...|. =-|++|+.|..|...+..+ .-.+..+|.=.|..++|||-|+|.+|...+.
T Consensus 5 ~~~~~~~~~l~-~~g~~~~~a~~i~~~~g~~--~~~~i~~nPy~l~~i~gi~f~~aD~ia~~~g 65 (574)
T 3e1s_A 5 GLERRLLAGLQ-GLGLTINQAQRAVKHFGAD--ALDRLEKDLFTLTEVEGIGFLTADKLWQARG 65 (574)
T ss_dssp ------------------------------------------CGGGTSSSCCHHHHHTTC----
T ss_pred HHHHHHHHHHH-HCCCCHHHHHHHHHHHHHH--HHHHHHHCCCEEEECCCCCHHHHHHHHHHCC
T ss_conf 79999999998-7799999999999998489--9999984991231258899589999999769
No 73
>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus}
Probab=80.87 E-value=0.69 Score=25.12 Aligned_cols=25 Identities=12% Similarity=0.173 Sum_probs=19.9
Q ss_pred CCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 5668751045711679999999974
Q gi|254780553|r 105 QNSKVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 105 ~D~~~L~~vpGIGkKtA~rIi~ELk 129 (207)
.+.+-+..+||||+++|++|-=-|+
T Consensus 55 ~s~~~l~~l~GIG~~i~~ki~e~L~ 79 (87)
T 2kp7_A 55 RSGKEAKILQHFGDRLCRMLDEKLK 79 (87)
T ss_dssp CSHHHHHTCTTTCHHHHHHHHHHHH
T ss_pred CCHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf 8899997279977899999999999
No 74
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} SCOP: a.96.1.2
Probab=80.87 E-value=0.44 Score=26.41 Aligned_cols=20 Identities=20% Similarity=0.310 Sum_probs=14.4
Q ss_pred HHHHHHHHHCCCHHHHHHHC
Q ss_conf 99985010005101124431
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLS 91 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs 91 (207)
++.|+++.|||||+|=.||+
T Consensus 114 ~~eL~~LPGVG~ktA~~vl~ 133 (221)
T 1kea_A 114 RKAILDLPGVGKYTCAAVMC 133 (221)
T ss_dssp HHHHHTSTTCCHHHHHHHHH
T ss_pred HHHHHCCCCCCHHHHHHHHH
T ss_conf 88874489876567999999
No 75
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2
Probab=80.68 E-value=0.71 Score=25.04 Aligned_cols=22 Identities=18% Similarity=0.493 Sum_probs=17.9
Q ss_pred HHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 8751045711679999999974
Q gi|254780553|r 108 KVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 108 ~~L~~vpGIGkKtA~rIi~ELk 129 (207)
..|.+|+|||+|+|-.|+..+.
T Consensus 72 ~~Li~V~GIGpK~Al~ILs~~~ 93 (191)
T 1ixr_A 72 ELLLSVSGVGPKVALALLSALP 93 (191)
T ss_dssp HHHHSSSCCCHHHHHHHHHHSC
T ss_pred HHHHCCCCCCHHHHHHHHHCCC
T ss_conf 9985768837788988872599
No 76
>3fhg_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, ssogg, DNA damage, DNA repair, glycosidase, hydrolase; 1.90A {Sulfolobus solfataricus}
Probab=80.67 E-value=0.49 Score=26.11 Aligned_cols=23 Identities=22% Similarity=0.283 Sum_probs=8.8
Q ss_pred HHHHHHHHHH---HHHCCCHHHHHHH
Q ss_conf 9999999850---1000510112443
Q gi|254780553|r 68 DRQWFMLLQS---VQGVGARVAMGVL 90 (207)
Q Consensus 68 Er~~F~~Li~---V~GIGpK~AL~iL 90 (207)
+..+|..|.. -+.+=.+.|.++.
T Consensus 30 ~~~~F~~L~~~Ilsqq~s~~~a~~~~ 55 (207)
T 3fhg_A 30 EEVWFRELTLCLLTANSSFISAYQAL 55 (207)
T ss_dssp HHHHHHHHHHHHHHTTSCHHHHHHHH
T ss_pred CCCHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf 02199999999975867299999999
No 77
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1 PDB: 1orp_A* 1p59_A*
Probab=80.67 E-value=0.43 Score=26.48 Aligned_cols=20 Identities=35% Similarity=0.313 Sum_probs=15.3
Q ss_pred HHHHHHHHHCCCHHHHHHHC
Q ss_conf 99985010005101124431
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLS 91 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs 91 (207)
++.|+++.|||||+|=+||+
T Consensus 112 ~~~L~~LpGVG~kTA~~il~ 131 (226)
T 1orn_A 112 RDELMKLPGVGRKTANVVVS 131 (226)
T ss_dssp HHHHTTSTTCCHHHHHHHHH
T ss_pred HHHHHHCCCCCHHHHHHHHH
T ss_conf 99997487753679999999
No 78
>3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices, helix-hairpin-helix motif, iron-sulfur cluste hydrolase; 2.30A {Homo sapiens}
Probab=80.67 E-value=0.73 Score=24.98 Aligned_cols=50 Identities=18% Similarity=0.204 Sum_probs=27.4
Q ss_pred HHHHCC-CHHHHHHHCCCCHHHHHHH----HHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 010005-1011244315789999999----851566875104571167999999997
Q gi|254780553|r 77 SVQGVG-ARVAMGVLSRITATELVES----IILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 77 ~V~GIG-pK~AL~iLs~l~~~~l~~a----I~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
-+.|+| ++.|-.++.. ...++.- +-......|.++||||+|||.-|...-
T Consensus 95 ~~~glGyy~ra~~l~~~--a~~i~~~~~g~~p~~~~e~l~~LPGVG~kTA~aIl~~a 149 (287)
T 3n5n_X 95 LWAGLGYYSRGRRLQEG--ARKVVEELGGHMPRTAETLQQLLPGVGRYTAGAIASIA 149 (287)
T ss_dssp HHTTSSCHHHHHHHHHH--HHHHHHHSTTCCCSSHHHHHHHSTTCCHHHHHHHHHHH
T ss_pred HHHHCCHHHHHHHHHHH--HHHHHHHHCCCCCCCHHHHCCCCCCCCHHHHHHHHHHH
T ss_conf 99856389999999999--98888984798876215440468875689999999988
No 79
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1
Probab=80.56 E-value=0.45 Score=26.36 Aligned_cols=20 Identities=35% Similarity=0.454 Sum_probs=10.3
Q ss_pred HHHHHHHHHCCCHHHHHHHC
Q ss_conf 99985010005101124431
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLS 91 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs 91 (207)
++.|.++.|||||+|=+||+
T Consensus 108 ~~~L~~LpGVG~kTA~~il~ 127 (211)
T 2abk_A 108 RAALEALPGVGRKTANVVLN 127 (211)
T ss_dssp HHHHHHSTTCCHHHHHHHHH
T ss_pred HHHHHHCCCCCHHHHHHHHH
T ss_conf 99987178873699999999
No 80
>3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein structure initiati midwest center for structural genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris}
Probab=80.36 E-value=1.1 Score=23.83 Aligned_cols=66 Identities=21% Similarity=0.237 Sum_probs=42.8
Q ss_pred EECHHHHHHHHHHHHHHHCCCHHHHHHHCCCC-HHHHHHHHHCCCH----HHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 70677999999985010005101124431578-9999999851566----87510457116799999999742
Q gi|254780553|r 63 FLSDLDRQWFMLLQSVQGVGARVAMGVLSRIT-ATELVESIILQNS----KVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 63 F~~~~Er~~F~~Li~V~GIGpK~AL~iLs~l~-~~~l~~aI~~~D~----~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
+.+.+||--+..|..+.||||++.-.++..+. ++++.++...--. ....+.+ ...-|+|.+-.++.
T Consensus 16 ~~t~~e~l~wl~L~~~~giG~~~~~~Ll~~fgs~~~~~~~~~~~~~~~~~~~~~~~~--~~~~a~~~l~~~~~ 86 (382)
T 3maj_A 16 VLTEAQRIDWMRLIRAENVGPRTFRSLINHFGSARAALERLPELARRGGAARAGRIP--SEDEARREIEAGRR 86 (382)
T ss_dssp CSCHHHHHHHHHHHTSTTCCHHHHHHHHHHHSSHHHHHHHHHHHHHHHTCSSCCCCC--CHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHH
T ss_conf 899999999999982899649999999998399999997799999876356654279--98899999999997
No 81
>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} SCOP: a.5.2.1
Probab=80.06 E-value=0.93 Score=24.26 Aligned_cols=28 Identities=18% Similarity=0.302 Sum_probs=23.2
Q ss_pred CCHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 3158999999996799989999999999
Q gi|254780553|r 157 PSFAINAISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 157 ~~~~~d~~~AL~~LGy~~~ea~~ai~~i 184 (207)
....++++..|+.+||++.++++|+..-
T Consensus 16 ~~~d~~~v~~L~~MGF~~~~a~~AL~~~ 43 (63)
T 1wgn_A 16 SPSERQCVETVVNMGYSYECVLRAMKKK 43 (63)
T ss_dssp CHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHCCCCHHHHHHHHHHC
T ss_conf 8022999999999699899999999990
No 82
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A 1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A* 1kg7_A 1kqj_A
Probab=79.73 E-value=0.51 Score=26.01 Aligned_cols=20 Identities=35% Similarity=0.517 Sum_probs=16.9
Q ss_pred HHHHHHHHHCCCHHHHHHHC
Q ss_conf 99985010005101124431
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLS 91 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs 91 (207)
++.|+++.|||||+|=.||+
T Consensus 108 ~~~L~~LpGVG~kTA~~il~ 127 (225)
T 1kg2_A 108 FEEVAALPGVGRSTAGAILS 127 (225)
T ss_dssp HHHHHTSTTCCHHHHHHHHH
T ss_pred HHHHHHCCCCCHHHHHHHHH
T ss_conf 99997589874789999999
No 83
>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1
Probab=78.62 E-value=2.2 Score=21.80 Aligned_cols=27 Identities=15% Similarity=0.346 Sum_probs=22.5
Q ss_pred CHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 158999999996799989999999999
Q gi|254780553|r 158 SFAINAISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 158 ~~~~d~~~AL~~LGy~~~ea~~ai~~i 184 (207)
+..++.+.-|+.+||++.++++|+..-
T Consensus 6 ~~~e~~v~~L~~MGF~~~~a~~AL~~~ 32 (49)
T 1ify_A 6 SEYETMLTEIMSMGYERERVVAALRAS 32 (49)
T ss_dssp HHHHHHHHHHHHTTCCHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 528999999998499999999999993
No 84
>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1
Probab=78.43 E-value=1.7 Score=22.56 Aligned_cols=25 Identities=20% Similarity=0.380 Sum_probs=21.8
Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 8999999996799989999999999
Q gi|254780553|r 160 AINAISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 160 ~~d~~~AL~~LGy~~~ea~~ai~~i 184 (207)
.++++.-|+.+||++.++++|+..-
T Consensus 4 ~e~av~~L~~MGF~~~~a~~AL~~~ 28 (43)
T 2g3q_A 4 KSLAVEELSGMGFTEEEAHNALEKC 28 (43)
T ss_dssp HHHHHHHHHTTTSCHHHHHHHHHHH
T ss_pred CHHHHHHHHHCCCCHHHHHHHHHHC
T ss_conf 6999999998599999999999981
No 85
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-binding, excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus}
Probab=77.84 E-value=0.43 Score=26.48 Aligned_cols=42 Identities=14% Similarity=0.211 Sum_probs=26.8
Q ss_pred EEEEECHHHHHHHHHHH-------HHHHCCCHHHHHHHCCCCH-HHHHHHH
Q ss_conf 99970677999999985-------0100051011244315789-9999998
Q gi|254780553|r 60 LFGFLSDLDRQWFMLLQ-------SVQGVGARVAMGVLSRITA-TELVESI 102 (207)
Q Consensus 60 LyGF~~~~Er~~F~~Li-------~V~GIGpK~AL~iLs~l~~-~~l~~aI 102 (207)
-||+. .+.--.|..|. +|+|||||+|+.++..+.. +.+.+.+
T Consensus 215 ~~gi~-~~qfid~~iL~G~dyn~~gv~giG~ktA~kli~~~~sle~i~~~~ 264 (346)
T 2izo_A 215 KLGIT-REQLIDIGILIGTDYNPDGIRGIGPERALKIIKKYGKIEKAMEYG 264 (346)
T ss_dssp HHTCC-HHHHHHHHHHHCCSSSTTCSTTCCHHHHHHHHHHSSCC-------
T ss_pred HCCCC-HHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHH
T ss_conf 81999-999999998458656866689837999999999939999999989
No 86
>3go5_A Multidomain protein with S1 RNA-binding domains; joint center for structural genomics, protein structure initiative, PSI-2; HET: MSE; 1.40A {Streptococcus pneumoniae TIGR4}
Probab=77.78 E-value=3.7 Score=20.26 Aligned_cols=50 Identities=18% Similarity=0.181 Sum_probs=35.7
Q ss_pred CEEEEEEEEEECCEEEEEECCEEEEEECCHHHHHHCCCCCCEEEEEEEEEECCCC
Q ss_conf 2589999996099799985883238970868898502479849999999973884
Q gi|254780553|r 3 GKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQ 57 (207)
Q Consensus 3 ~~i~G~i~~~~~~~ivi~v~GvGY~i~vs~~~~~~l~~~g~~v~l~~~~~vrEd~ 57 (207)
..+.|+|.+..+..+.++.+|..+.+.-+.- .+ ++|+++.+|+|. -+|+.
T Consensus 8 ~iv~g~V~~~~d~g~~v~~~g~~~~l~k~e~---~~-~iGd~i~Vfvy~-D~e~r 57 (285)
T 3go5_A 8 SFIVGLIIDENDRFYFVQKDGQTYALAKEEG---QH-TVGDTVKGFAYT-DMKQK 57 (285)
T ss_dssp EEEEEEEEEECSSEEEEEETTEEEEEEGGGC---CC-CTTSEEEEEEEE-CTTSC
T ss_pred CEEEEEEEEEECCEEEEECCCEEEEECCCCC---CC-CCCCEEEEEEEE-CCCCC
T ss_conf 5899999998278799953998997052016---67-899999999999-88898
No 87
>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1
Probab=75.46 E-value=3 Score=20.84 Aligned_cols=26 Identities=19% Similarity=0.478 Sum_probs=22.0
Q ss_pred CHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf 15899999999679998999999999
Q gi|254780553|r 158 SFAINAISALVNLGYGQDQATTAVVS 183 (207)
Q Consensus 158 ~~~~d~~~AL~~LGy~~~ea~~ai~~ 183 (207)
....+++.-|+.+||++..+++|+..
T Consensus 27 ~~d~~~v~~L~~MGF~~~~a~~AL~~ 52 (73)
T 1wiv_A 27 DIDQSSVDTLLSFGFAEDVARKALKA 52 (73)
T ss_dssp SSCHHHHHHHHHHTCCHHHHHHHHHH
T ss_pred CCCHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 98999999999969999999999999
No 88
>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1
Probab=75.26 E-value=3.2 Score=20.71 Aligned_cols=27 Identities=22% Similarity=0.410 Sum_probs=22.6
Q ss_pred CHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 158999999996799989999999999
Q gi|254780553|r 158 SFAINAISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 158 ~~~~d~~~AL~~LGy~~~ea~~ai~~i 184 (207)
...++.+.-|+.+||++.++.+|+...
T Consensus 27 ~~~ee~i~~L~~MGF~~~~a~~AL~~~ 53 (73)
T 1vg5_A 27 AASEEQIQKLVAMGFDRTQVEVALAAA 53 (73)
T ss_dssp CCCHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 869999999999189999999999992
No 89
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A*
Probab=74.57 E-value=0.69 Score=25.14 Aligned_cols=18 Identities=28% Similarity=0.508 Sum_probs=14.2
Q ss_pred HHHHCCCHHHHHHHCCCC
Q ss_conf 010005101124431578
Q gi|254780553|r 77 SVQGVGARVAMGVLSRIT 94 (207)
Q Consensus 77 ~V~GIGpK~AL~iLs~l~ 94 (207)
+|.|||||+|..+|+.++
T Consensus 195 Gv~giG~ktA~~ll~~~~ 212 (832)
T 1bgx_T 195 GVKGIGEKTARKLLEEWG 212 (832)
T ss_dssp CCCCSSSCTTTTTGGGTT
T ss_pred CCCCCCHHHHHHHHHHCC
T ss_conf 866557477999986156
No 90
>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=74.48 E-value=2.2 Score=21.72 Aligned_cols=24 Identities=25% Similarity=0.565 Sum_probs=21.3
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 999999996799989999999999
Q gi|254780553|r 161 INAISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 161 ~d~~~AL~~LGy~~~ea~~ai~~i 184 (207)
++.+..|+.+||++..+++|+..-
T Consensus 10 e~~v~~L~~MGF~~~~a~~AL~~~ 33 (63)
T 2dak_A 10 EDCVTTIVSMGFSRDQALKALRAT 33 (63)
T ss_dssp HHHHHHHHHHTCCHHHHHHHHHHT
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHC
T ss_conf 999999999699999999999993
No 91
>2zkq_m 40S ribosomal protein S18E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_M 3jyv_M*
Probab=74.37 E-value=1.7 Score=22.53 Aligned_cols=22 Identities=18% Similarity=0.326 Sum_probs=19.3
Q ss_pred HHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 8751045711679999999974
Q gi|254780553|r 108 KVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 108 ~~L~~vpGIGkKtA~rIi~ELk 129 (207)
-+|+.+.|||.++|.+||-.|.
T Consensus 28 ~aLt~I~GIG~~~A~~Ic~~lg 49 (152)
T 2zkq_m 28 FAITAIKGVGRRYAHVVLRKAD 49 (152)
T ss_dssp HHGGGSTTCCHHHHHHHHHHHT
T ss_pred EEEECCCCCCHHHHHHHHHHHC
T ss_conf 6500210658999999999938
No 92
>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase/DNA complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB: 1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A* 1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A* 2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ...
Probab=73.48 E-value=2.8 Score=21.07 Aligned_cols=44 Identities=23% Similarity=0.353 Sum_probs=27.7
Q ss_pred HHHCCCHHHHHHHC----------CCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf 10005101124431----------578999999985156687510457116799999
Q gi|254780553|r 78 VQGVGARVAMGVLS----------RITATELVESIILQNSKVIAQIPGISMKIASRI 124 (207)
Q Consensus 78 V~GIGpK~AL~iLs----------~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rI 124 (207)
--||||-.-++-+. .++++++...+..-. +.++||||+|+++++
T Consensus 141 siGia~nk~lAK~As~~~Kp~g~~vi~~~~~~~~L~~lp---v~~l~Gig~~~~~~L 194 (352)
T 1jx4_A 141 TVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELD---IADVPGIGNITAEKL 194 (352)
T ss_dssp EEEEESSHHHHHHHHHHHCSSCEEECCHHHHHHHHHHSB---GGGSTTCCHHHHHHH
T ss_pred EECCCCCHHHHHHHHHHHHHCCEEEEECCCCCCCCCCCC---EEEECCCCCHHHHHH
T ss_conf 552477177899998765426733320432000002676---024148870468899
No 93
>2csb_A Topoisomerase V, TOP61; topoisomerase IB, helix-turn-helix, helix- hairpin-helix, HHH motif, three helix bundle; 2.30A {Methanopyrus kandleri} SCOP: a.60.2.4 a.60.2.4 a.60.2.4 a.60.2.4 a.267.1.1 PDB: 2csd_A
Probab=73.26 E-value=3.4 Score=20.48 Aligned_cols=57 Identities=14% Similarity=0.245 Sum_probs=35.0
Q ss_pred HHHHHHHHHCCCHHHHHHHCC---------CCHHHH-------------HHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 999850100051011244315---------789999-------------999851566875104571167999999997
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLSR---------ITATEL-------------VESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs~---------l~~~~l-------------~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
...||.-.|..|-.|=.+... .+.+++ .+|...-...-|++-.|+|.|||+|++-..
T Consensus 353 latlidehglspdaadeliehfesiagilatdleeiermyeegrlseeayraaveiqlaeltkkegvgrktaerllraf 431 (519)
T 2csb_A 353 LATLIDEHGLSPDAADELIEHFESIAGILATDLEEIERMYEEGRLSEEAYRAAVEIQLAELTKKEGVGRKTAERLLRAF 431 (519)
T ss_dssp HHHHHHHHCCCHHHHHHHHHHHSSHHHHHTSCHHHHHHHHHHTSSCHHHHHHHHHHHHHHHHTSTTCCHHHHHHHHHHH
T ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 9998875189963389999999988889860499999998715644899988898779977654064565799999970
No 94
>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=73.01 E-value=4.2 Score=19.88 Aligned_cols=27 Identities=22% Similarity=0.368 Sum_probs=22.3
Q ss_pred CCHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf 315899999999679998999999999
Q gi|254780553|r 157 PSFAINAISALVNLGYGQDQATTAVVS 183 (207)
Q Consensus 157 ~~~~~d~~~AL~~LGy~~~ea~~ai~~ 183 (207)
...-++++..|+.+||++..+++|+..
T Consensus 26 ~~vd~~~v~~L~~MGF~~~~a~~AL~~ 52 (83)
T 2dai_A 26 ERVDEAALRQLTEMGFPENRATKALQL 52 (83)
T ss_dssp SSCCHHHHHHHHHHTCCHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 667999999999969999999999999
No 95
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
Probab=73.00 E-value=0.34 Score=27.18 Aligned_cols=21 Identities=24% Similarity=0.452 Sum_probs=15.9
Q ss_pred HHHHHHHCCCHHHHHHHCCCC
Q ss_conf 985010005101124431578
Q gi|254780553|r 74 LLQSVQGVGARVAMGVLSRIT 94 (207)
Q Consensus 74 ~Li~V~GIGpK~AL~iLs~l~ 94 (207)
.|.++.|+|||+|-.|...+.
T Consensus 49 ~L~~~~g~g~k~a~~i~~~i~ 69 (241)
T 1vq8_Y 49 ALADVSGIGNALAARIKADVG 69 (241)
T ss_dssp ---------------------
T ss_pred HHHHCCCCCHHHHHHHHHHHH
T ss_conf 997468957999999999986
No 96
>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1
Probab=72.99 E-value=2.9 Score=20.96 Aligned_cols=25 Identities=12% Similarity=0.430 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf 5899999999679998999999999
Q gi|254780553|r 159 FAINAISALVNLGYGQDQATTAVVS 183 (207)
Q Consensus 159 ~~~d~~~AL~~LGy~~~ea~~ai~~ 183 (207)
.-++++.-|+.+||++..+++|+..
T Consensus 8 vd~~~v~~L~~MGF~~~~a~~AL~~ 32 (63)
T 1wji_A 8 VDEKALKHITEMGFSKEASRQALMD 32 (63)
T ss_dssp SCHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred CCHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 6999999999969999999999999
No 97
>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1
Probab=70.35 E-value=4.8 Score=19.50 Aligned_cols=26 Identities=19% Similarity=0.373 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 58999999996799989999999999
Q gi|254780553|r 159 FAINAISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 159 ~~~d~~~AL~~LGy~~~ea~~ai~~i 184 (207)
.-.+++.-|+.+||++..|++|+...
T Consensus 28 ~d~~~v~~L~~MGF~~~~a~~AL~~t 53 (84)
T 1vek_A 28 ANEEIVAQLVSMGFSQLHCQKAAINT 53 (84)
T ss_dssp CCHHHHHHHHHHTCCHHHHHHHHHHT
T ss_pred CCHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 99999999999599999999999998
No 98
>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1
Probab=68.26 E-value=2.7 Score=21.19 Aligned_cols=24 Identities=25% Similarity=0.466 Sum_probs=20.7
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 999999996799989999999999
Q gi|254780553|r 161 INAISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 161 ~d~~~AL~~LGy~~~ea~~ai~~i 184 (207)
+++++.|+.+||++..+++|+...
T Consensus 20 ~~~l~~L~~MGF~~~~a~~AL~~t 43 (64)
T 2cpw_A 20 GSALDVLLSMGFPRARAQKALAST 43 (64)
T ss_dssp CCHHHHHHHHTCCHHHHHHHHHHT
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 999999999699899999999996
No 99
>3mr3_A DNA polymerase ETA; POL ETA, polymerase, thymine dimer, CPD, XPV, xeroderma PIGM variant, DNA damage; HET: DNA TTD DZ4; 1.75A {Homo sapiens} PDB: 3mr2_A* 3mr5_A* 3mr6_A*
Probab=67.24 E-value=3.1 Score=20.80 Aligned_cols=46 Identities=13% Similarity=0.241 Sum_probs=27.3
Q ss_pred HCCCHHHHHHHC----------CCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 005101124431----------5789999999851566875104571167999999997
Q gi|254780553|r 80 GVGARVAMGVLS----------RITATELVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 80 GIGpK~AL~iLs----------~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
||||-.-++=+. .+.+++..+.+..-+ +..+||||+|+.+++.-.+
T Consensus 218 Gia~nk~lAKlAs~~~KP~g~~~i~~~~~~~~l~~lp---i~~l~GiG~k~~~~~L~~~ 273 (435)
T 3mr3_A 218 GISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMP---IRKIRSLGGKLGASVIEIL 273 (435)
T ss_dssp EEESSHHHHHHHHHHTCSSCEEECCGGGHHHHHHTCB---GGGSTTCSSHHHHHHHHHH
T ss_pred EECCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC---CCEECCCCHHHHHHHHHHH
T ss_conf 0568535668989756998634778789999998376---7760776757899999995
No 100
>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix, fidelity, processivity, transferase; 2.30A {Sulfolobus solfataricus} SCOP: e.8.1.7
Probab=66.99 E-value=2.1 Score=21.85 Aligned_cols=29 Identities=34% Similarity=0.525 Sum_probs=20.2
Q ss_pred CCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf 78999999985156687510457116799999
Q gi|254780553|r 93 ITATELVESIILQNSKVIAQIPGISMKIASRI 124 (207)
Q Consensus 93 l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rI 124 (207)
++++++...+..-. +.++||||+|+++++
T Consensus 172 i~~~~~~~~L~~lp---l~~l~GiG~~~~~~L 200 (221)
T 1im4_A 172 IRPTEVQDFLNELD---IDEIPGIGSVLARRL 200 (221)
T ss_dssp CCGGGHHHHHHTCB---GGGSTTCCHHHHHHH
T ss_pred ECHHHHHHHHHCCC---HHHHCCCCHHHHHHH
T ss_conf 78999999985798---754189479999999
No 101
>1wud_A ATP-dependent DNA helicase RECQ; DNA-binding domain, HRDC, hydrolase; 2.20A {Escherichia coli} SCOP: a.60.8.1
Probab=65.08 E-value=3 Score=20.86 Aligned_cols=62 Identities=21% Similarity=0.304 Sum_probs=37.9
Q ss_pred EECHHHHHHHHHHHH-------HHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 706779999999850-------100051011244315789999999851566875104571167999999997
Q gi|254780553|r 63 FLSDLDRQWFMLLQS-------VQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 63 F~~~~Er~~F~~Li~-------V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
|....|+++|+.|.. -.++-| -.|+|.-...+++. -.-.+...|.+|+|||++.++|-=-++
T Consensus 7 ~~~~~d~~L~~~L~~~R~~~A~~~~vp~---~~V~s~~~L~~ia~-~~P~t~~eL~~I~Gvg~~k~~~yG~~i 75 (89)
T 1wud_A 7 FGGNYDRKLFAKLRKLRKSIADESNVPP---YVVFNDATLIEMAE-QMPITASEMLSVNGVGMRKLERFGKPF 75 (89)
T ss_dssp ---CCCHHHHHHHHHHHHHHHHHHTSCH---HHHCCHHHHHHHHH-HCCCSHHHHHTSTTCCHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCC---CCCCCHHHHHHHHH-HCCCCHHHHCCCCCCCHHHHHHHHHHH
T ss_conf 8885109999999999999999839895---55657999999999-788999998079998999999999999
No 102
>2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.156.1.1 PDB: 1gix_P* 1hnw_M* 1hnx_M* 1hnz_M* 1hr0_M 1ibk_M* 1ibl_M* 1ibm_M 1j5e_M 1jgo_P* 1jgp_P* 1jgq_P* 1mj1_P* 1ml5_P* 1n32_M* 1n33_M* 1n34_M 1n36_M 1xmo_M* 1xmq_M* ...
Probab=64.95 E-value=2.3 Score=21.59 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=15.1
Q ss_pred HHHHHCCCCCHHHHHHHHHHH
Q ss_conf 875104571167999999997
Q gi|254780553|r 108 KVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 108 ~~L~~vpGIGkKtA~rIi~EL 128 (207)
-+|+++.|||.++|..||-.|
T Consensus 17 ~aLt~I~GIG~~~A~~Ic~~l 37 (126)
T 2vqe_M 17 VALTYIYGIGKARAKEALEKT 37 (126)
T ss_dssp HHHTTSSSCCSHHHHHHTTTT
T ss_pred EEECCEECCCHHHHHHHHHHC
T ss_conf 762043483899999999985
No 103
>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=64.80 E-value=4.8 Score=19.53 Aligned_cols=24 Identities=29% Similarity=0.393 Sum_probs=21.4
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 999999996799989999999999
Q gi|254780553|r 161 INAISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 161 ~d~~~AL~~LGy~~~ea~~ai~~i 184 (207)
++++..|+.+||++..+++|+...
T Consensus 10 ~~~v~~L~~MGF~~~~a~~AL~~t 33 (74)
T 2dag_A 10 ESVIIQLVEMGFPMDACRKAVYYT 33 (74)
T ss_dssp HHHHHHHHHHSCCHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 999999999699999999999998
No 104
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-binding, nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Probab=63.15 E-value=7.5 Score=18.21 Aligned_cols=19 Identities=26% Similarity=0.041 Sum_probs=9.7
Q ss_pred HCCCCCHHHHHHHHHHHHH
Q ss_conf 0457116799999999742
Q gi|254780553|r 112 QIPGISMKIASRIMTELKG 130 (207)
Q Consensus 112 ~vpGIGkKtA~rIi~ELk~ 130 (207)
.-.++-+.++..+.-.|+.
T Consensus 503 ~~~~~~~~~~~~~~~~l~~ 521 (715)
T 2va8_A 503 ADLYINPFTADIIRKGLEG 521 (715)
T ss_dssp HHHTCCHHHHHHHHHHHHH
T ss_pred HHHCCCHHHHHHHHHHHHH
T ss_conf 9858998899999999754
No 105
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A*
Probab=62.39 E-value=3 Score=20.92 Aligned_cols=56 Identities=18% Similarity=0.241 Sum_probs=31.3
Q ss_pred HHHHHHHHH--HHHH-HCCCHHHHHHHCC----------CCHHHH-HHHHHCCCHHHHHHCCCCCHHHHHHHH
Q ss_conf 799999998--5010-0051011244315----------789999-999851566875104571167999999
Q gi|254780553|r 67 LDRQWFMLL--QSVQ-GVGARVAMGVLSR----------ITATEL-VESIILQNSKVIAQIPGISMKIASRIM 125 (207)
Q Consensus 67 ~Er~~F~~L--i~V~-GIGpK~AL~iLs~----------l~~~~l-~~aI~~~D~~~L~~vpGIGkKtA~rIi 125 (207)
--+++|+.. ++++ ||||-.-||-+.+ +.+.+. ...+..- -+..+||||+++++|+-
T Consensus 189 ir~~I~~~t~Glt~SiGIa~nkllAKlAs~~aKPnG~~v~~~~~~~~~fl~~l---pv~~LpGIG~~~~~kL~ 258 (434)
T 2aq4_A 189 IRQEIFQGTNGCTVSIGCSDSLVLARLALKMAKPNGYNITFKSNLSEEFWSSF---KLDDLPGVGHSTLSRLE 258 (434)
T ss_dssp HHHHHHHHHSSCCEEEEEESSHHHHHHHHHHHCSSCEECCCGGGCCHHHHTTC---CGGGSTTCCHHHHHHHH
T ss_pred HHHHHHHCCCCCCEEEEECCHHHHHHHHHHHCCCCCEEEECCHHHHHHHCCCC---CCCCCCCCCHHHHHHHH
T ss_conf 99999853588635886673588999988734999738965533322303666---72106686789999999
No 106
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerization motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11
Probab=61.52 E-value=1.7 Score=22.46 Aligned_cols=61 Identities=18% Similarity=0.275 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf 999999850100051011244315789999999851566875104571167999999997422
Q gi|254780553|r 69 RQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGK 131 (207)
Q Consensus 69 r~~F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K 131 (207)
...++.|-..+||||..+=.+-+. .... +..+..-+.+-|..+.||+...|++|+-..+.-
T Consensus 31 ~~~~~~l~~l~gv~~~~~~kL~~a-G~~t-~~~l~~~~~~~L~~~~gis~~~a~kii~~a~~~ 91 (349)
T 1pzn_A 31 EKIIRSIEDLPGVGPATAEKLREA-GYDT-LEAIAVASPIELKEVAGISEGTALKIIQAARKA 91 (349)
T ss_dssp ----CCSSCCTTCCHHHHHHHHTT-TCCS-HHHHHTCCHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred HHCCCCHHHCCCCCHHHHHHHHHC-CCCC-HHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf 000157633799699999999986-9972-999970899999986498999999999999975
No 107
>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1
Probab=60.57 E-value=3.6 Score=20.37 Aligned_cols=24 Identities=21% Similarity=0.534 Sum_probs=20.8
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 999999996799989999999999
Q gi|254780553|r 161 INAISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 161 ~d~~~AL~~LGy~~~ea~~ai~~i 184 (207)
+++++-|+.+||++..+++|+...
T Consensus 10 ~~~l~~L~~MGF~~~~a~~AL~~t 33 (64)
T 1whc_A 10 LTALESLIEMGFPRGRAEKALALT 33 (64)
T ss_dssp CCHHHHHHTTTCCHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 999999999599999999999994
No 108
>3ofp_M 30S ribosomal protein S13; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_M* 2wwl_M 2qal_M* 1p6g_M 1p87_M 2aw7_M 2avy_M 2i2u_M 2i2p_M* 2qan_M* 2qb9_M* 2qbb_M* 2qbd_M 2qbf_M 2qbh_M* 2qbj_M* 2qou_M* 2qow_M* 2qoy_M* 2qp0_M* ...
Probab=59.69 E-value=3.5 Score=20.43 Aligned_cols=21 Identities=14% Similarity=0.251 Sum_probs=16.5
Q ss_pred HHHHHCCCCCHHHHHHHHHHH
Q ss_conf 875104571167999999997
Q gi|254780553|r 108 KVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 108 ~~L~~vpGIGkKtA~rIi~EL 128 (207)
-+|+++.|||.++|..|+-.|
T Consensus 16 ~ALt~I~GIG~~~A~~Ic~~l 36 (113)
T 3ofp_M 16 IALTSIYGVGKTRSKAILAAA 36 (113)
T ss_dssp HHHTSSSSCCSSHHHHGGGTT
T ss_pred EEEECEECCCHHHHHHHHHHC
T ss_conf 550143474899999999984
No 109
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A*
Probab=59.66 E-value=0.61 Score=25.49 Aligned_cols=25 Identities=20% Similarity=0.376 Sum_probs=18.7
Q ss_pred CCH-HHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 566-8751045711679999999974
Q gi|254780553|r 105 QNS-KVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 105 ~D~-~~L~~vpGIGkKtA~rIi~ELk 129 (207)
||. .-+-.|||||+|||.+++-+..
T Consensus 187 GD~sDnipGv~giG~ktA~~ll~~~~ 212 (832)
T 1bgx_T 187 GDESDNLPGVKGIGEKTARKLLEEWG 212 (832)
T ss_dssp CCSSSCCCCCCCSSSCTTTTTGGGTT
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf 87545788866557477999986156
No 110
>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7 PDB: 2oh2_A* 2w7o_A* 2w7p_A* 3hed_A* 3in5_A*
Probab=58.28 E-value=3.8 Score=20.16 Aligned_cols=42 Identities=12% Similarity=0.246 Sum_probs=23.0
Q ss_pred HCCCHHHHHHHCC-----------C-CHHHHHHHHHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf 0051011244315-----------7-8999999985156687510457116799999
Q gi|254780553|r 80 GVGARVAMGVLSR-----------I-TATELVESIILQNSKVIAQIPGISMKIASRI 124 (207)
Q Consensus 80 GIGpK~AL~iLs~-----------l-~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rI 124 (207)
||||-.-|+=+.+ + +.+++...+..- -+..+||||++|++++
T Consensus 245 GIa~nk~lAKlAs~~~KP~G~~~~~~~~~~~~~~L~~l---pv~~l~GIG~~~~~~L 298 (459)
T 1t94_A 245 GIAPNTMLAKVCSDKNKPNGQYQILPNRQAVMDFIKDL---PIRKVSGIGKVTEKML 298 (459)
T ss_dssp EEESSHHHHHHHHHHTTTTCEEECCSSHHHHHHHHTTC---BGGGCTTSCHHHHHHH
T ss_pred EECCCHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHC---CCCEECCCCCHHHHHH
T ss_conf 42476888898897369987089914689999998629---8353368884137889
No 111
>3bbn_M Ribosomal protein S13; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Oryza sativa}
Probab=55.97 E-value=3.6 Score=20.35 Aligned_cols=28 Identities=18% Similarity=0.269 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHCCCHHHHHHHCCCCH
Q ss_conf 9999999850100051011244315789
Q gi|254780553|r 68 DRQWFMLLQSVQGVGARVAMGVLSRITA 95 (207)
Q Consensus 68 Er~~F~~Li~V~GIGpK~AL~iLs~l~~ 95 (207)
+|.+.--|..|.|||++.|..||..+..
T Consensus 57 nK~V~~ALT~IyGIG~~~A~~Ic~~lgI 84 (145)
T 3bbn_M 57 HKRVEYSLQYIHGIGRSRSRQILLDLNF 84 (145)
T ss_dssp SSBTTTGGGGSTTCCSSTTTGGGTTTTC
T ss_pred CCEEEEHHHHHHCCCHHHHHHHHHHCCC
T ss_conf 9772123556746388999999998599
No 112
>1d8b_A SGS1 RECQ helicase; five helices, three-helical bundle flanked by two helices, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.60.8.1
Probab=54.73 E-value=5.9 Score=18.92 Aligned_cols=58 Identities=19% Similarity=0.185 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHH-HCCCHHHHHHHCCCCHHHHHHH--HHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf 7999999985010-0051011244315789999999--85156687510457116799999
Q gi|254780553|r 67 LDRQWFMLLQSVQ-GVGARVAMGVLSRITATELVES--IILQNSKVIAQIPGISMKIASRI 124 (207)
Q Consensus 67 ~Er~~F~~Li~V~-GIGpK~AL~iLs~l~~~~l~~a--I~~~D~~~L~~vpGIGkKtA~rI 124 (207)
..|.+|+.|...- .+.-+..+..-.-++-..|... ..-.|...|.+++|||++.++|-
T Consensus 4 ~~~~~ye~Lr~~R~~lA~~~~vP~~~I~~d~~L~~iA~~~P~t~~eL~~I~Gvg~~k~~kY 64 (81)
T 1d8b_A 4 NLRMTYERLRELSLNLGNRMVPPVGNFMPDSILKKMAAILPMNDSAFATLGTVEDKYRRRF 64 (81)
T ss_dssp HHHHHHHHHHHHHHHHHHSSSSCCSCSSCHHHHHHHHHHCCCSHHHHGGGSCCCHHHHHHG
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHHHCCCCHHHHCCCCCCCHHHHHHH
T ss_conf 5999999999999999987097974666699999999868999999827999998999999
No 113
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A
Probab=53.10 E-value=10 Score=17.34 Aligned_cols=21 Identities=10% Similarity=-0.156 Sum_probs=11.3
Q ss_pred HHHHCCCCCHHHHHHHHHHHH
Q ss_conf 751045711679999999974
Q gi|254780553|r 109 VIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 109 ~L~~vpGIGkKtA~rIi~ELk 129 (207)
.+..-.++-+.++..+.-.|+
T Consensus 481 ~~~~~~~~~~~~~~~~~~~l~ 501 (702)
T 2p6r_A 481 SLVSRLYIDPLTGFIFHDVLS 501 (702)
T ss_dssp HHHHHTTCCHHHHHHHHHHTT
T ss_pred HHHHHCCCCHHHHHHHHHHHH
T ss_conf 999984999789999999865
No 114
>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ewa_A* 3ew9_A* 3etl_A* 2gdj_A*
Probab=52.66 E-value=6.3 Score=18.71 Aligned_cols=57 Identities=21% Similarity=0.284 Sum_probs=37.1
Q ss_pred HHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf 98501000510112443157899999998515668751045711679999999974222
Q gi|254780553|r 74 LLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKA 132 (207)
Q Consensus 74 ~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~ 132 (207)
.|.+.+||||++.=.+-+. .... +..+...+..-|.++.|+..+.|++|+-..+..+
T Consensus 4 ~l~~~~g~~~~~~~kL~~a-g~~t-~~~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~ 60 (322)
T 2i1q_A 4 NLTDLPGVGPSTAEKLVEA-GYID-FMKIATATVGELTDIEGISEKAAAKMIMGARDLC 60 (322)
T ss_dssp -CTTSTTCCHHHHHHHHHH-TCCS-HHHHHTCCHHHHHTSTTCCHHHHHHHHHHHHHHT
T ss_pred CHHCCCCCCHHHHHHHHHC-CCCC-HHHHHCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_conf 3002799899999999986-9960-9999739999999874999999999999999873
No 115
>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA; 2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1 e.8.1.7 PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A
Probab=52.28 E-value=4.7 Score=19.60 Aligned_cols=29 Identities=34% Similarity=0.525 Sum_probs=16.7
Q ss_pred CCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf 78999999985156687510457116799999
Q gi|254780553|r 93 ITATELVESIILQNSKVIAQIPGISMKIASRI 124 (207)
Q Consensus 93 l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rI 124 (207)
++++++.+.+..-. +..+||||+++++++
T Consensus 167 i~~~~~~~~l~~lp---v~~l~GiG~~~~~~L 195 (354)
T 3bq0_A 167 IRPTEVQDFLNELD---IDEIPGIGSVLARRL 195 (354)
T ss_dssp CCGGGHHHHHHHCB---STTSTTCCHHHHHHH
T ss_pred CCCHHHHHHHHHHH---HHHHCCCCHHHHHHH
T ss_conf 78067999998610---666159647899999
No 116
>1fr3_A MOP, molybdate/tungstate binding protein; molybdate homeostasis, metal binding protein; 1.50A {Sporomusa ovata} SCOP: b.40.6.1
Probab=51.36 E-value=12 Score=16.86 Aligned_cols=47 Identities=19% Similarity=0.339 Sum_probs=37.5
Q ss_pred CEEEEEEEEEECC----EEEEEECCEEEEEECCHHHHHHCC-CCCCEEEEEE
Q ss_conf 2589999996099----799985883238970868898502-4798499999
Q gi|254780553|r 3 GKIKGNIEGLYED----YVLIDVQGVCYIIYCPIRTLSCLG-KIGDFCTLFV 49 (207)
Q Consensus 3 ~~i~G~i~~~~~~----~ivi~v~GvGY~i~vs~~~~~~l~-~~g~~v~l~~ 49 (207)
..+.|+|.++.++ .+.++++|.-....++......|. +.|+++...+
T Consensus 7 N~l~g~V~~i~~~~~~~~V~l~~g~~~l~a~IT~~s~~~L~L~~G~~V~a~i 58 (67)
T 1fr3_A 7 NKLEATVKEIVKGTVMAKIVMDYKGTELVAAITIDSVADLDLVPGDKVTALV 58 (67)
T ss_dssp EEEEEEEEEEEECSSEEEEEEEETTEEEEEEEEHHHHHHHTCCTTCEEEEEE
T ss_pred CEEEEEEEEEEECCCEEEEEEECCCCEEEEEECHHHHHHCCCCCCCEEEEEE
T ss_conf 4899999999989983999999289799999498999767999999999999
No 117
>2qsf_X RAD23, UV excision repair protein RAD23; alpha-beta structure, beta hairpin, transglutaminase fold, DNA-damage recognition, DNA repair; HET: DNA; 2.35A {Saccharomyces cerevisiae} PDB: 2qsg_X* 2qsh_X* 1x3z_B* 1x3w_B* 3esw_B*
Probab=50.13 E-value=13 Score=16.74 Aligned_cols=28 Identities=25% Similarity=0.300 Sum_probs=22.6
Q ss_pred CCCHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf 5315899999999679998999999999
Q gi|254780553|r 156 MPSFAINAISALVNLGYGQDQATTAVVS 183 (207)
Q Consensus 156 ~~~~~~d~~~AL~~LGy~~~ea~~ai~~ 183 (207)
......++++-|+.|||++..+.+|+..
T Consensus 126 ~t~~~~~~i~~L~~mGF~~~~~~~A~~~ 153 (171)
T 2qsf_X 126 YTPEDDQAISRLCELGFERDLVIQVYFA 153 (171)
T ss_dssp CCHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 8800299999999849999999999998
No 118
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19
Probab=49.74 E-value=5.2 Score=19.30 Aligned_cols=14 Identities=14% Similarity=0.185 Sum_probs=6.9
Q ss_pred HHHHCCCCHHHHHH
Q ss_conf 99967999899999
Q gi|254780553|r 166 ALVNLGYGQDQATT 179 (207)
Q Consensus 166 AL~~LGy~~~ea~~ 179 (207)
-+.+|.|.-.++++
T Consensus 361 ~~~~Lpf~lT~~Q~ 374 (780)
T 1gm5_A 361 FIKSLPFKLTNAQK 374 (780)
T ss_dssp HHHHSSSCCCHHHH
T ss_pred HHHCCCCCCCHHHH
T ss_conf 99649987898899
No 119
>3mfi_A DNA polymerase ETA; DNA damage, DNA repair, DNA replication, DNA synthesis, NUCL binding, magnesium; HET: DNA DOC TTD DTP; 1.76A {Saccharomyces cerevisiae} PDB: 3mfh_A* 2r8j_A* 2r8k_A* 2wtf_A* 1jih_A*
Probab=49.43 E-value=13 Score=16.67 Aligned_cols=31 Identities=6% Similarity=0.022 Sum_probs=15.7
Q ss_pred HHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf 99999998515668751045711679999999
Q gi|254780553|r 95 ATELVESIILQNSKVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 95 ~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ 126 (207)
+++....+...+. -+.++||||+|+++|+.-
T Consensus 295 ~~~~~~~L~~~~l-pI~~i~GIG~~~~~kL~~ 325 (520)
T 3mfi_A 295 NDCLLDFLDCGKF-EITSFWTLGGVLGKELID 325 (520)
T ss_dssp GGGHHHHHTSSSC-CGGGSTTCSSHHHHHHHH
T ss_pred HHHHHHHHHHCCC-CCCEECCCCHHHHHHHHH
T ss_conf 4789999873579-801006747899999999
No 120
>2ooa_A E3 ubiquitin-protein ligase CBL-B; alpha-helical domain; 1.56A {Homo sapiens} PDB: 2oob_A 2jnh_A 2do6_A
Probab=49.26 E-value=12 Score=16.80 Aligned_cols=20 Identities=25% Similarity=0.420 Sum_probs=17.8
Q ss_pred HHHHHHCCCCHHHHHHHHHH
Q ss_conf 99999679998999999999
Q gi|254780553|r 164 ISALVNLGYGQDQATTAVVS 183 (207)
Q Consensus 164 ~~AL~~LGy~~~ea~~ai~~ 183 (207)
+.-|.+.||+..++.+|+.-
T Consensus 15 I~~Lm~~GYs~~dv~rAL~I 34 (52)
T 2ooa_A 15 IAKLMGEGYAFEEVKRALEI 34 (52)
T ss_dssp HHHHHHTTCCHHHHHHHHHH
T ss_pred HHHHHHCCCCHHHHHHHHHH
T ss_conf 99999866559999999999
No 121
>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ ATPase, DNA polymerase; HET: ATG ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20
Probab=47.47 E-value=9.4 Score=17.56 Aligned_cols=28 Identities=21% Similarity=0.134 Sum_probs=16.8
Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHCC
Q ss_conf 9999999679998999999999985168
Q gi|254780553|r 162 NAISALVNLGYGQDQATTAVVSVLKKEK 189 (207)
Q Consensus 162 d~~~AL~~LGy~~~ea~~ai~~i~~~~~ 189 (207)
.....|...||+..++-..+........
T Consensus 251 ~~~~~l~~~g~s~~dii~~l~~~~~~~~ 278 (323)
T 1sxj_B 251 ILRTDLWKKGYSSIDIVTTSFRVTKNLA 278 (323)
T ss_dssp HHHHTTTTTTCCHHHHHHHHHHHHHTCT
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHH
T ss_conf 9999999859999999999999999861
No 122
>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1
Probab=46.97 E-value=12 Score=16.86 Aligned_cols=22 Identities=27% Similarity=0.462 Sum_probs=18.2
Q ss_pred HHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 9999996799989999999999
Q gi|254780553|r 163 AISALVNLGYGQDQATTAVVSV 184 (207)
Q Consensus 163 ~~~AL~~LGy~~~ea~~ai~~i 184 (207)
-+.-|+++||++-|+.+++...
T Consensus 7 kiaqlvsmgfdpleaaqaldaa 28 (40)
T 1z96_A 7 KIAQLVSMGFDPLEAAQALDAA 28 (40)
T ss_dssp HHHHHHHTTCCHHHHHHHHHHT
T ss_pred HHHHHHHCCCCHHHHHHHHHHH
T ss_conf 9999998178878999887540
No 123
>2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase, nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans R1}
Probab=45.06 E-value=9.6 Score=17.52 Aligned_cols=57 Identities=18% Similarity=0.215 Sum_probs=34.4
Q ss_pred HHHHHHHHHHH-------HHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 99999998501-------00051011244315789999999851566875104571167999999997
Q gi|254780553|r 68 DRQWFMLLQSV-------QGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 68 Er~~F~~Li~V-------~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~EL 128 (207)
..++|+.|... .||= +-.|++.-...+++. ..-.+...|.+++|||++.++|-=-++
T Consensus 4 d~~L~~~L~~~R~~~A~~~~vp---~~~I~~d~~L~~ia~-~~P~t~~eL~~I~Gig~~k~~~yG~~i 67 (77)
T 2rhf_A 4 NADLSEALRELRRELMKETGYS---AFVVFTNATLEALAA-RQPRTLAELAEVPGLGEKRIEAYGERI 67 (77)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCC---HHHHCCHHHHHHHHH-HCCCSHHHHTTSTTTCHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHCCCC---CEEEECHHHHHHHHH-HCCCCHHHHHCCCCCCHHHHHHHHHHH
T ss_conf 7999999999999999876989---656578999999998-397899998079997999999999999
No 124
>2oo9_A E3 ubiquitin-protein ligase CBL; alpha-helical domain, homodimer; 2.10A {Homo sapiens}
Probab=44.81 E-value=12 Score=16.84 Aligned_cols=21 Identities=29% Similarity=0.458 Sum_probs=17.7
Q ss_pred HHHHHHHCCCCHHHHHHHHHH
Q ss_conf 999999679998999999999
Q gi|254780553|r 163 AISALVNLGYGQDQATTAVVS 183 (207)
Q Consensus 163 ~~~AL~~LGy~~~ea~~ai~~ 183 (207)
-++-|.+.||+..++.+|+.-
T Consensus 7 eI~~Lm~~GYs~~~v~rAL~I 27 (46)
T 2oo9_A 7 EIENLMSQGYSYQDIQKALVI 27 (46)
T ss_dssp HHHHHHHTTBCHHHHHHHHHH
T ss_pred HHHHHHHCCCCHHHHHHHHHH
T ss_conf 999999867769999999999
No 125
>2d9s_A CBL E3 ubiquitin protein ligase; UBA domain, dimer, protein binding, structural genomics, NPPSFA; NMR {Mus musculus}
Probab=42.22 E-value=16 Score=15.95 Aligned_cols=20 Identities=30% Similarity=0.476 Sum_probs=17.8
Q ss_pred HHHHHHCCCCHHHHHHHHHH
Q ss_conf 99999679998999999999
Q gi|254780553|r 164 ISALVNLGYGQDQATTAVVS 183 (207)
Q Consensus 164 ~~AL~~LGy~~~ea~~ai~~ 183 (207)
++-|.+.||+..++.+|+.-
T Consensus 13 I~~Lm~~GYs~~~v~~AL~I 32 (53)
T 2d9s_A 13 IERLMSQGYSYQDIQKALVI 32 (53)
T ss_dssp HHHHHHHTCCHHHHHHHHHH
T ss_pred HHHHHHCCCCHHHHHHHHHH
T ss_conf 99999855449999999999
No 126
>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex, Y-family DNA polym translesion synthesis, nucleoside triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens} PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A* 2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A* 3gv5_B* 3h4d_A* 3h4b_A* 2alz_A* 3h40_A* 1t3n_A* 1zet_A*
Probab=42.03 E-value=10 Score=17.40 Aligned_cols=15 Identities=47% Similarity=0.742 Sum_probs=9.5
Q ss_pred HHHCCCCCHHHHHHH
Q ss_conf 510457116799999
Q gi|254780553|r 110 IAQIPGISMKIASRI 124 (207)
Q Consensus 110 L~~vpGIGkKtA~rI 124 (207)
+..+||||+++++++
T Consensus 236 v~~l~GiG~~~~~~L 250 (420)
T 3osn_A 236 IKEIPGIGYKTAKCL 250 (420)
T ss_dssp GGGSTTCCHHHHHHH
T ss_pred HHHHCCCCHHHHHHH
T ss_conf 888568887899998
No 127
>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*
Probab=40.69 E-value=12 Score=16.84 Aligned_cols=18 Identities=17% Similarity=-0.130 Sum_probs=8.3
Q ss_pred EEEEEECHHHHHHHHHHH
Q ss_conf 899970677999999985
Q gi|254780553|r 59 RLFGFLSDLDRQWFMLLQ 76 (207)
Q Consensus 59 ~LyGF~~~~Er~~F~~Li 76 (207)
..+=|......++.+.|.
T Consensus 171 ~~i~~~~~~~~~~~~~l~ 188 (373)
T 1jr3_A 171 LQFHLKALDVEQIRHQLE 188 (373)
T ss_dssp EEEECCCCCHHHHHHHHH
T ss_pred HHCCCCCCCHHHHHHHHH
T ss_conf 310113467077899999
No 128
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}
Probab=39.68 E-value=14 Score=16.37 Aligned_cols=32 Identities=13% Similarity=0.107 Sum_probs=21.2
Q ss_pred HHHHHHHCCCH--HHHHHCCCCCHHHHHHHHHHH
Q ss_conf 99999851566--875104571167999999997
Q gi|254780553|r 97 ELVESIILQNS--KVIAQIPGISMKIASRIMTEL 128 (207)
Q Consensus 97 ~l~~aI~~~D~--~~L~~vpGIGkKtA~rIi~EL 128 (207)
.|..+|.++.. -.|..-||+||.|+-|++..-
T Consensus 28 ~l~~~i~~~~~~~~Ll~Gp~G~GKTtla~~iak~ 61 (226)
T 2chg_A 28 RLKGYVERKNIPHLLFSGPPGTGKTATAIALARD 61 (226)
T ss_dssp HHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHH
T ss_pred HHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf 9999997699985988899999889999999999
No 129
>1wcn_A Transcription elongation protein NUSA; RNA-binding protein, escherichia coli NUSA, transcription regulation, regulation of RNA binding; NMR {Escherichia coli} PDB: 2jzb_B
Probab=39.65 E-value=18 Score=15.69 Aligned_cols=52 Identities=21% Similarity=0.316 Sum_probs=30.3
Q ss_pred HHHHHHHCCCHHHHHHHCC--CCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 9850100051011244315--7899999998515668751045711679999999974
Q gi|254780553|r 74 LLQSVQGVGARVAMGVLSR--ITATELVESIILQNSKVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 74 ~Li~V~GIGpK~AL~iLs~--l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk 129 (207)
.|.++.|++|.+|..+-.. .+.++ ++.-.+.-|..+.|+....|.+||..=+
T Consensus 8 dL~~leG~~~~~~~~L~e~gI~t~ed----LAdls~dEL~ei~~i~ee~A~~lIM~AR 61 (70)
T 1wcn_A 8 DLLNLEGVDRDLAFKLAARGVCTLED----LAEQGIDDLADIEGLTDEKAGALIMAAR 61 (70)
T ss_dssp HHHSSTTCCHHHHHHHHTTTCCSHHH----HHTSCHHHHHTSSSCCHHHHHHHHHHHH
T ss_pred HHHHCCCCCHHHHHHHHHCCCCCHHH----HHHHCHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf 99717898999999999969974999----9872899998761689999999999998
No 130
>3gqc_A DNA repair protein REV1; protein-DNA complex, alternative splicing, DNA damage, DNA repair, DNA synthesis; HET: DNA DOC DCP; 2.50A {Homo sapiens}
Probab=38.22 E-value=12 Score=16.77 Aligned_cols=42 Identities=19% Similarity=0.484 Sum_probs=23.9
Q ss_pred HCCCHHHHHHHCC----------CCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf 0051011244315----------78999999985156687510457116799999
Q gi|254780553|r 80 GVGARVAMGVLSR----------ITATELVESIILQNSKVIAQIPGISMKIASRI 124 (207)
Q Consensus 80 GIGpK~AL~iLs~----------l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rI 124 (207)
||||-..|+-|.+ +.++++.+.+..-. +..+||||+++++++
T Consensus 280 GIa~nkllAKlAs~~aKP~g~~~~~~~~~~~fL~~lp---v~~lpGIG~~~~~kL 331 (504)
T 3gqc_A 280 GIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQL---VTNLPGVGHSMESKL 331 (504)
T ss_dssp EEESSHHHHHHHHHHHCSSCEEECCGGGHHHHHHHSB---GGGSTTCCHHHHHHH
T ss_pred CCCCCHHHHHHHHHHCCCCCCEEECHHHHHHHHHHHC---CCCCCCCCHHHHHHH
T ss_conf 5266289999889864888608977899889886413---334478787899999
No 131
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=37.95 E-value=13 Score=16.72 Aligned_cols=17 Identities=12% Similarity=0.405 Sum_probs=13.6
Q ss_pred HHHHHCCCCCHHHHHHH
Q ss_conf 87510457116799999
Q gi|254780553|r 108 KVIAQIPGISMKIASRI 124 (207)
Q Consensus 108 ~~L~~vpGIGkKtA~rI 124 (207)
+.|+.+|+||+++++.+
T Consensus 4 ~~L~~LPNig~~~e~~L 20 (93)
T 3bqs_A 4 ANLSELPNIGKVLEQDL 20 (93)
T ss_dssp SCGGGSTTCCHHHHHHH
T ss_pred HHHHHCCCCCHHHHHHH
T ss_conf 77724899999999999
No 132
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular switch, RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus P2} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*
Probab=36.20 E-value=6.1 Score=18.81 Aligned_cols=24 Identities=4% Similarity=-0.069 Sum_probs=12.4
Q ss_pred CCCHHHHHHCCCCCHHH-HHHHHHH
Q ss_conf 15668751045711679-9999999
Q gi|254780553|r 104 LQNSKVIAQIPGISMKI-ASRIMTE 127 (207)
Q Consensus 104 ~~D~~~L~~vpGIGkKt-A~rIi~E 127 (207)
.+-+..+..-||.||-+ |-+++.+
T Consensus 106 ~G~itei~G~~GsGKT~l~l~l~~~ 130 (324)
T 2z43_A 106 TRTMTEFFGEFGSGKTQLCHQLSVN 130 (324)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf 7879998758888804799999999
No 133
>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*
Probab=35.51 E-value=21 Score=15.26 Aligned_cols=39 Identities=13% Similarity=0.129 Sum_probs=24.1
Q ss_pred CCHHHHHHHHHCCC--------HHHHHHCCCCCHHH-HHHHHHHHHHH
Q ss_conf 78999999985156--------68751045711679-99999997422
Q gi|254780553|r 93 ITATELVESIILQN--------SKVIAQIPGISMKI-ASRIMTELKGK 131 (207)
Q Consensus 93 l~~~~l~~aI~~~D--------~~~L~~vpGIGkKt-A~rIi~ELk~K 131 (207)
+...|++..+..-. +=.|+..||-||-| |..+.-.|+.+
T Consensus 376 f~rpeV~~~L~~~~~p~~~~g~~iw~tGLsGsGKTTia~~l~~~L~~~ 423 (573)
T 1m8p_A 376 FSYPEVVKILRESNPPRATQGFTIFLTGYMNSGKDAIARALQVTLNQQ 423 (573)
T ss_dssp TSCHHHHHHHHTTSCCTTTCCEEEEEECSTTSSHHHHHHHHHHHHHHH
T ss_pred HCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf 644778999998622214785599995789987759999999999971
No 134
>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ ATPase, DNA polymerase; HET: ATG ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20
Probab=35.29 E-value=16 Score=16.10 Aligned_cols=20 Identities=15% Similarity=0.001 Sum_probs=12.3
Q ss_pred EEEEEECHHHHHHHHHHHHH
Q ss_conf 89997067799999998501
Q gi|254780553|r 59 RLFGFLSDLDRQWFMLLQSV 78 (207)
Q Consensus 59 ~LyGF~~~~Er~~F~~Li~V 78 (207)
..+-|......++...|..+
T Consensus 185 ~~i~f~~~~~~~i~~~L~~i 204 (353)
T 1sxj_D 185 SKFRFKALDASNAIDRLRFI 204 (353)
T ss_dssp EEEECCCCCHHHHHHHHHHH
T ss_pred HHHHCCCCCHHHHHHHHHHH
T ss_conf 12202678899999999999
No 135
>2juj_A E3 ubiquitin-protein ligase CBL; alpha helix, UBA domain, calcium, cytoplasm, metal- binding, phosphorylation, proto-oncogene, SH2 domain; NMR {Homo sapiens}
Probab=35.05 E-value=21 Score=15.21 Aligned_cols=23 Identities=26% Similarity=0.406 Sum_probs=18.5
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf 99999999679998999999999
Q gi|254780553|r 161 INAISALVNLGYGQDQATTAVVS 183 (207)
Q Consensus 161 ~d~~~AL~~LGy~~~ea~~ai~~ 183 (207)
+--++-|.+.||+..++.+|+.-
T Consensus 8 ~~eI~~Lm~~GYs~~~v~rAL~I 30 (56)
T 2juj_A 8 SSEIENLMSQGYSYQDIQKALVI 30 (56)
T ss_dssp HHHHHHHHTTTCCHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 28999999855449999999999
No 136
>2pmy_A RAS and EF-hand domain-containing protein; rasef, calcium-binding domain, structural genomics, structural genomics consortium, SGC; 2.30A {Homo sapiens}
Probab=34.60 E-value=22 Score=15.17 Aligned_cols=45 Identities=9% Similarity=-0.092 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 589999999967999899999999998516888898999999999
Q gi|254780553|r 159 FAINAISALVNLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALR 203 (207)
Q Consensus 159 ~~~d~~~AL~~LGy~~~ea~~ai~~i~~~~~~~~~~eelIk~aLk 203 (207)
...|...+|..+|+++.++...+..+..+.....+.+|.++.-..
T Consensus 45 ~~~El~~~l~~~~~~~~ei~~i~~~~D~d~dG~I~~~EF~~~f~~ 89 (91)
T 2pmy_A 45 EREEFRALCTELRVRPADAEAVFQRLDADRDGAITFQEFARGFLG 89 (91)
T ss_dssp EHHHHHHHHHHTTCCHHHHHHHHHHHCTTCSSEECHHHHTHHHHH
T ss_pred CHHHHHHHHHHHHHCCHHHHHHHEEECCCCCCEEEHHHHHHHHHH
T ss_conf 399999999972101013464610110798883809999999983
No 137
>2rrd_A BLM HRDC domain, HRDC domain from bloom syndrome protein; DNA helicase, RECQ family, HRDC DOMA binding protein; NMR {Homo sapiens}
Probab=34.41 E-value=18 Score=15.75 Aligned_cols=58 Identities=21% Similarity=0.297 Sum_probs=34.3
Q ss_pred HHHHHHHHH-------HHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 999999985-------01000510112443157899999998515668751045711679999999974
Q gi|254780553|r 68 DRQWFMLLQ-------SVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 68 Er~~F~~Li-------~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk 129 (207)
++++|..|. .-.||=| -.|++.-...++++ -.-.+...|.+++|+|++.++|---++=
T Consensus 21 ~~~l~~~L~~~R~~lA~~~~ip~---~~I~~d~~L~eia~-~~P~t~~eL~~I~Gv~~~k~~~yG~~il 85 (101)
T 2rrd_A 21 VKKCLGELTEVCKSLGKVFGVHY---FNIFNTVTLKKLAE-SLSSDPEVLLQIDGVTEDKLEKYGAEVI 85 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHTTCCH---HHHCCHHHHHHHHH-HCCCCHHHHHTSTTCCHHHHHHTHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHCCCCC---EEEECHHHHHHHHH-HCCCCHHHHHCCCCCCHHHHHHHHHHHH
T ss_conf 99999999999999999769995---45577999999998-6859999982677879999999999999
No 138
>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ ATPase, DNA polymerase; HET: ATG ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20
Probab=33.22 E-value=20 Score=15.43 Aligned_cols=20 Identities=15% Similarity=0.027 Sum_probs=13.5
Q ss_pred EEEEEECHHHHHHHHHHHHH
Q ss_conf 89997067799999998501
Q gi|254780553|r 59 RLFGFLSDLDRQWFMLLQSV 78 (207)
Q Consensus 59 ~LyGF~~~~Er~~F~~Li~V 78 (207)
..+-|......++++.|..+
T Consensus 162 ~~~~~~~~~~~~i~~~l~~i 181 (340)
T 1sxj_C 162 TRFRFQPLPQEAIERRIANV 181 (340)
T ss_dssp EEEECCCCCHHHHHHHHHHH
T ss_pred HHHHCCCCCHHHHHHHHHHH
T ss_conf 51013789879999999999
No 139
>2hnh_A DNA polymerase III alpha subunit; DNA replication, nucleotidyltransferase, POL beta, PHP; HET: DNA; 2.30A {Escherichia coli} PDB: 2hqa_A*
Probab=33.22 E-value=21 Score=15.24 Aligned_cols=74 Identities=5% Similarity=0.067 Sum_probs=33.1
Q ss_pred ECCCCEEEEEEECHHHHHHHHHHHHH----HH--CCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf 73884189997067799999998501----00--0510112443157899999998515668751045711679999999
Q gi|254780553|r 53 MRQDQIRLFGFLSDLDRQWFMLLQSV----QG--VGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 53 vrEd~~~LyGF~~~~Er~~F~~Li~V----~G--IGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ 126 (207)
+-+.+..=+-|+......+.+..+.. .| ..|..-+.-+.. +-....+.+.++|.. .++.++...+.+++-
T Consensus 546 ~e~~gllK~D~Lgl~~lt~i~~~~~~i~~~~~~~~~~~~~~~~ip~-~D~~~~~l~~~g~t~---Gifq~es~~~~~~l~ 621 (910)
T 2hnh_A 546 VEYAGLVKFDFLGLRTLTIINWALEMINKRRAKNGEPPLDIAAIPL-DDKKSFDMLQRSETT---AVFQLESRGMKDLIK 621 (910)
T ss_dssp HHHTTCEEEEECCCCHHHHHHHHHHHHHHTTTTTTCCCCCGGGCCS-CCHHHHHHHHTTCCT---TSTTCCSHHHHHHHH
T ss_pred HHHCCCCCHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHCCC-CCHHHHHHHCCCCCC---CCCCCCCHHHHHHHH
T ss_conf 3116873123651446999999999998631766788678754898-658999976042557---867678879999998
Q ss_pred HHHH
Q ss_conf 9742
Q gi|254780553|r 127 ELKG 130 (207)
Q Consensus 127 ELk~ 130 (207)
++|=
T Consensus 622 ~~~P 625 (910)
T 2hnh_A 622 RLQP 625 (910)
T ss_dssp HHCC
T ss_pred HCCC
T ss_conf 6599
No 140
>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} SCOP: a.60.3.1 PDB: 3ihq_B
Probab=32.29 E-value=19 Score=15.52 Aligned_cols=41 Identities=12% Similarity=0.183 Sum_probs=24.0
Q ss_pred HHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 443157899999998515668751045711679999999974
Q gi|254780553|r 88 GVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELK 129 (207)
Q Consensus 88 ~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk 129 (207)
..|.......+-+-+ .-...-|.++||+|+|+-+.|.--|+
T Consensus 22 N~L~~~~I~tv~dL~-~~s~~dLl~i~n~G~kSl~EI~~~L~ 62 (73)
T 1z3e_B 22 NCLKRAGINTVQELA-NKTEEDMMKVRNLGRKSLEEVKAKLE 62 (73)
T ss_dssp HHHHHTTCCBHHHHH-TSCHHHHHTSTTCCHHHHHHHHHHHH
T ss_pred HHHHHCCCCCHHHHH-HCCHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf 999894896799998-68999997478986605999999999
No 141
>2e1f_A Werner syndrome ATP-dependent helicase; HRDC domain, hydrolase; 2.00A {Homo sapiens} SCOP: a.60.8.1 PDB: 2e1e_A
Probab=31.45 E-value=20 Score=15.32 Aligned_cols=56 Identities=11% Similarity=0.078 Sum_probs=34.6
Q ss_pred CHHHHHHHHHHHHH-------HHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf 67799999998501-------0005101124431578999999985156687510457116799999
Q gi|254780553|r 65 SDLDRQWFMLLQSV-------QGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRI 124 (207)
Q Consensus 65 ~~~Er~~F~~Li~V-------~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rI 124 (207)
+..+..+|..|... .++= +-.|++.-...+++.. .-.+...|.+++|+|.+.++|-
T Consensus 11 ~~~~~~l~~~L~~~R~~~A~~~~~p---~~~I~~d~~L~~ia~~-~P~t~~eL~~I~G~g~~k~~ry 73 (103)
T 2e1f_A 11 QETQIVLYGKLVEARQKHANKMDVP---PAILATNKILVDMAKM-RPTTVENVKRIDGVSEGKAAML 73 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTSC---HHHHCCHHHHHHHHHH-CCCSHHHHTTSTTCCHHHHHHT
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCC---CEEEECHHHHHHHHHH-CCCCHHHHHCCCCCCHHHHHHH
T ss_conf 4799999999999999999975979---2044789999999987-8999999937899899999999
No 142
>2nr7_A Secretion activator protein, putative; APCC85792, structural genomics, PSI-2, protein structure initiative, MCSG; 1.30A {Porphyromonas gingivalis W83} SCOP: d.2.1.9
Probab=29.48 E-value=18 Score=15.73 Aligned_cols=10 Identities=10% Similarity=0.504 Sum_probs=3.3
Q ss_pred CCHHHHHHHH
Q ss_conf 7899999998
Q gi|254780553|r 93 ITATELVESI 102 (207)
Q Consensus 93 l~~~~l~~aI 102 (207)
++.++.+++|
T Consensus 62 lt~~~a~~~i 71 (195)
T 2nr7_A 62 LTDDDVLNRV 71 (195)
T ss_dssp SCHHHHHHHT
T ss_pred CCHHHHHHHH
T ss_conf 6898999999
No 143
>2k7b_A CABP1, calbrain, calcium-binding protein 1; EF-hand, alternative splicing, cell membrane, cytoplasm, cytoskeleton, lipoprotein, membrane, myristate; NMR {Homo sapiens}
Probab=28.82 E-value=27 Score=14.54 Aligned_cols=44 Identities=9% Similarity=0.033 Sum_probs=29.7
Q ss_pred HHHHHHHHHHCCCC--HHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 89999999967999--899999999998516888898999999999
Q gi|254780553|r 160 AINAISALVNLGYG--QDQATTAVVSVLKKEKNIADDSQIIRLALR 203 (207)
Q Consensus 160 ~~d~~~AL~~LGy~--~~ea~~ai~~i~~~~~~~~~~eelIk~aLk 203 (207)
..|...+|.+||+. +.++...+..+..+.....+.++.+...-+
T Consensus 29 ~~el~~~l~~lg~~~t~~e~~~~~~~~D~~~~g~i~~~eF~~~m~~ 74 (76)
T 2k7b_A 29 CRDLGNCMRTMGYMPTEMELIELSQQINMNLGGHVDFDDFVELMGP 74 (76)
T ss_dssp HHHHHHHHHHHHSCSCSSHHHHHHHHGGGTSSSCBCHHHHHHHHTT
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCEEEHHHHHHHHHH
T ss_conf 9999999999389999999999999967999981829999999983
No 144
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20
Probab=27.94 E-value=27 Score=14.47 Aligned_cols=20 Identities=20% Similarity=0.205 Sum_probs=13.5
Q ss_pred EEEEEECHHHHHHHHHHHHH
Q ss_conf 89997067799999998501
Q gi|254780553|r 59 RLFGFLSDLDRQWFMLLQSV 78 (207)
Q Consensus 59 ~LyGF~~~~Er~~F~~Li~V 78 (207)
..+-|....+.+++..|..+
T Consensus 162 ~~i~~~~~~~~~~~~~l~~i 181 (327)
T 1iqp_A 162 AIFRFRPLRDEDIAKRLRYI 181 (327)
T ss_dssp EEEECCCCCHHHHHHHHHHH
T ss_pred HCCCCCCCCHHHHHHHHHHH
T ss_conf 20212567777899999999
No 145
>3f2b_A DNA-directed DNA polymerase III alpha chain; DNA polymerase C; HET: DGT; 2.39A {Geobacillus kaustophilus} PDB: 3f2c_A* 3f2d_A*
Probab=27.70 E-value=28 Score=14.41 Aligned_cols=126 Identities=13% Similarity=0.160 Sum_probs=53.3
Q ss_pred CCCEEEEEEECHHHHHHHHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHH-----------HHHHCCCCCHHHHHH
Q ss_conf 884189997067799999998501000510112443157899999998515668-----------751045711679999
Q gi|254780553|r 55 QDQIRLFGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSK-----------VIAQIPGISMKIASR 123 (207)
Q Consensus 55 Ed~~~LyGF~~~~Er~~F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~-----------~L~~vpGIGkKtA~r 123 (207)
|++..=+-|+-.....+-+++....|+-|+. +..-++. ......+.+.- --..+|-+|.....+
T Consensus 677 e~gLlK~D~LGl~~lt~I~~~~~l~~id~~~----Ip~dD~~-t~~lf~~~~~~~~~~~~~~~~~~T~GifQ~eS~~~r~ 751 (1041)
T 3f2b_A 677 HDNLLKLDILGHDDPTVIRMLQDLSGIDPKT----IPTDDPD-VMGIFSSTEPLGVTPEQIMCNVGTIGIPEFGTRFVRQ 751 (1041)
T ss_dssp TTTBCEEEEEEEHHHHHHHHHHHHHCCCGGG----CCSCCHH-HHHTTTCSGGGTSCHHHHTCSSSCTTSTTTTSHHHHH
T ss_pred HCCCEEEEECCCCCHHHHHHHHHHHCCCHHH----CCCCCHH-HHHHHHCCCCCCCCHHHHHHCCCCCCCCCCHHHHHHH
T ss_conf 2286668653788579999998760278765----7765677-8887640241122168887423755567411167999
Q ss_pred HHHHHHHH-HHHCCCCC--CCCCCCCC--------CCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 99997422-21101133--44323333--------34455556531589999999967999899999999998
Q gi|254780553|r 124 IMTELKGK-AISLSSVV--QQDMSCVN--------KEQAHICSMPSFAINAISALVNLGYGQDQATTAVVSVL 185 (207)
Q Consensus 124 Ii~ELk~K-~~~~~~~~--~~~~~~~~--------~~~~~~~~~~~~~~d~~~AL~~LGy~~~ea~~ai~~i~ 185 (207)
++-++|=+ +.++.... ........ .........-....+++-.++.-|+.+.++.+....+.
T Consensus 752 ~L~~~kP~~f~DLv~i~aL~rp~~v~~~n~~e~i~~~~~~l~~vl~~t~gimvy~i~~g~~~~~a~~i~e~~r 824 (1041)
T 3f2b_A 752 MLEETRPKTFSELVQISGLSHGTDVWLGNAQELIQNGTCTLSEVIGCRDDIMVYLIYRGLEPSLAFKIMESVR 824 (1041)
T ss_dssp HHHHHCCCSHHHHHHHHHHTSSTTSTTTTHHHHHHTTSSCGGGSCCSHHHHHHHHHHTTCCHHHHHHHHHHHT
T ss_pred HHHHHCCCCHHHHHHHHHHCCCCCHHHCCCCHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9997089866767878751036411211440110368757998850274799999999777999999999999
No 146
>1wi5_A RRP5 protein homolog; S1 domain, OB-fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: b.40.4.5
Probab=27.15 E-value=29 Score=14.35 Aligned_cols=54 Identities=17% Similarity=0.204 Sum_probs=37.9
Q ss_pred EEEEEEEEEECCEEEEEECCEEEEEECCHHHHHH---------CCCCCCEEEEEEEEEECCCC
Q ss_conf 5899999960997999858832389708688985---------02479849999999973884
Q gi|254780553|r 4 KIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSC---------LGKIGDFCTLFVETHMRQDQ 57 (207)
Q Consensus 4 ~i~G~i~~~~~~~ivi~v~GvGY~i~vs~~~~~~---------l~~~g~~v~l~~~~~vrEd~ 57 (207)
-+.|+|..+.+..+.++.+.=|+.-++|...+.. .-+.|+.+...+.-.-.++.
T Consensus 24 iv~G~V~~i~~~G~~V~~g~~~~~G~l~~~e~~~~~~~~~~~~~~~vGq~v~~~V~~vd~~~~ 86 (119)
T 1wi5_A 24 LLTGTVSSLEDHGYLVDIGVDGTRAFLPLLKAQEYIRQKNKGAKLKVGQYLNCIVEKVKGNGG 86 (119)
T ss_dssp EEEEEEEEECSSEEEEECCCSSCEEEEEHHHHHHHHHHHSSSCCCCTTCEEEEEEEECCTTSC
T ss_pred EEEEEEEEECCCEEEEEECCCCCCCEECHHHHHCCCCCCCCCCCCCCCCEEEEEEEEEECCCC
T ss_conf 999999983398799980675432301255641234445743232589999999999989999
No 147
>1dv0_A DNA repair protein HHR23A; helical bundle, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 1f4i_A
Probab=26.88 E-value=17 Score=15.85 Aligned_cols=21 Identities=29% Similarity=0.355 Sum_probs=16.3
Q ss_pred HHHHHHHHHCCCCHHHHHHHH
Q ss_conf 999999996799989999999
Q gi|254780553|r 161 INAISALVNLGYGQDQATTAV 181 (207)
Q Consensus 161 ~d~~~AL~~LGy~~~ea~~ai 181 (207)
.+++.-|..|||++..+-.+.
T Consensus 5 ~~aIeRL~~lGF~~~~viqay 25 (47)
T 1dv0_A 5 KEAIERLKALGFPESLVIQAY 25 (47)
T ss_dssp HHHHTTTTTTTCCHHHHHHHH
T ss_pred HHHHHHHHHCCCCHHHHHHHH
T ss_conf 999999998399788899999
No 148
>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*
Probab=25.90 E-value=30 Score=14.20 Aligned_cols=32 Identities=13% Similarity=0.225 Sum_probs=17.9
Q ss_pred CCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 578999999985156687510457116799999999742
Q gi|254780553|r 92 RITATELVESIILQNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 92 ~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
.++++++.+.+.. +.|.|+.-|-=|.+--|.+
T Consensus 37 ~~sa~ei~~~l~~-------~~~~is~aTVYR~L~~L~~ 68 (145)
T 2fe3_A 37 HPTADDIYKALEG-------KFPNMSVATVYNNLRVFRE 68 (145)
T ss_dssp CCCHHHHHHHHGG-------GCTTCCHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHH-------HCCCCCHHHHHHHHHHHHH
T ss_conf 9999999999985-------0789888899999999985
No 149
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*
Probab=25.50 E-value=31 Score=14.16 Aligned_cols=31 Identities=13% Similarity=0.317 Sum_probs=19.0
Q ss_pred HHHHHHHCCCHH---HHHHCCCCCHHHHHHHHHH
Q ss_conf 999998515668---7510457116799999999
Q gi|254780553|r 97 ELVESIILQNSK---VIAQIPGISMKIASRIMTE 127 (207)
Q Consensus 97 ~l~~aI~~~D~~---~L~~vpGIGkKtA~rIi~E 127 (207)
.|.+++.+++.. .|..-||+||.++-|.+..
T Consensus 34 ~L~~~i~~~~~~~~~L~~Gp~G~GKt~~a~~~~~ 67 (250)
T 1njg_A 34 ALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAK 67 (250)
T ss_dssp HHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHH
T ss_pred HHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf 9999998699760598789999878999999999
No 150
>1avs_A Troponin C; muscle contraction, calcium-activated, E-F hand calcium-binding protein; 1.75A {Gallus gallus} SCOP: a.39.1.5 PDB: 1blq_A 1skt_A 1tnp_A 1tnq_A 1zac_A 1smg_A 1npq_A 1trf_A
Probab=25.35 E-value=31 Score=14.14 Aligned_cols=47 Identities=11% Similarity=0.168 Sum_probs=33.1
Q ss_pred HHHHHHHHHHCCCC--HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHC
Q ss_conf 89999999967999--899999999998516888898999999999745
Q gi|254780553|r 160 AINAISALVNLGYG--QDQATTAVVSVLKKEKNIADDSQIIRLALRAIS 206 (207)
Q Consensus 160 ~~d~~~AL~~LGy~--~~ea~~ai~~i~~~~~~~~~~eelIk~aLk~Ls 206 (207)
..|+..+|..||++ +.++...+..+..+.....+.++.++.-.++++
T Consensus 39 ~~el~~~l~~lg~~~t~~ev~~~~~~~D~d~~g~I~~~eF~~~m~~~~~ 87 (90)
T 1avs_A 39 TKELGTVMRMLGQNPTKEELDAIIEEVDEDGSGTIDFEEFLVMMVRQMK 87 (90)
T ss_dssp HHHHHHHHHHTTCCCCHHHHHHHHHHHCTTCCSSEEHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCEEEHHHHHHHHHHHHC
T ss_conf 8999999999489853999999999848999985839999999999875
No 151
>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} PDB: 1lb2_B* 1xs9_D
Probab=24.76 E-value=31 Score=14.07 Aligned_cols=26 Identities=12% Similarity=0.204 Sum_probs=19.9
Q ss_pred CCHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 56687510457116799999999742
Q gi|254780553|r 105 QNSKVIAQIPGISMKIASRIMTELKG 130 (207)
Q Consensus 105 ~D~~~L~~vpGIGkKtA~rIi~ELk~ 130 (207)
-...-|.++|++|+|+.+.|.--|+.
T Consensus 41 ~se~dLl~i~NfG~kSl~EI~~~L~~ 66 (86)
T 3k4g_A 41 RTEVELLXTPNLGXXSLTEIXDVLAS 66 (86)
T ss_dssp SCHHHHHTSTTCCHHHHHHHHHHHHT
T ss_pred CCHHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf 89999817889877269999999998
No 152
>1zq1_C Glutamyl-tRNA(Gln) amidotransferase subunit E; X-RAY, 3D structure, asparaginase 1 family, GATD subfamily, lyase; 3.00A {Pyrococcus abyssi} SCOP: a.182.1.2 d.74.4.1 d.128.1.5
Probab=24.58 E-value=25 Score=14.73 Aligned_cols=29 Identities=7% Similarity=-0.062 Sum_probs=13.0
Q ss_pred HHHHHHHHHCCCHHHHHHHCCCCHHHHHH
Q ss_conf 99985010005101124431578999999
Q gi|254780553|r 72 FMLLQSVQGVGARVAMGVLSRITATELVE 100 (207)
Q Consensus 72 F~~Li~V~GIGpK~AL~iLs~l~~~~l~~ 100 (207)
.+.+++--|+-+..|-.+.+.--...|-+
T Consensus 463 ~~R~~~~ygLs~~dA~iL~~~~~~~~Fee 491 (633)
T 1zq1_C 463 VERYVKEYKLDRSLAQTLVDDERDELFEE 491 (633)
T ss_dssp HHHHHTTTCCCHHHHHHHHHTSTHHHHHH
T ss_pred HHHHHHHCCCCHHHHHHHHCCHHHHHHHH
T ss_conf 99999971999999999862223788999
No 153
>1f54_A Calmodulin; EF-hand, helix-loop-helix, transport protein; NMR {Saccharomyces cerevisiae} SCOP: a.39.1.5 PDB: 1f55_A
Probab=23.42 E-value=31 Score=14.10 Aligned_cols=44 Identities=11% Similarity=0.170 Sum_probs=26.6
Q ss_pred HHHHHHHHHHCCCC--HHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 89999999967999--899999999998516888898999999999
Q gi|254780553|r 160 AINAISALVNLGYG--QDQATTAVVSVLKKEKNIADDSQIIRLALR 203 (207)
Q Consensus 160 ~~d~~~AL~~LGy~--~~ea~~ai~~i~~~~~~~~~~eelIk~aLk 203 (207)
..|+..+|.++|++ +.++...+..+..+.....+.++-++.--+
T Consensus 29 ~~el~~~l~~~g~~~t~~ei~~~~~~~D~d~~g~i~~~eF~~~m~~ 74 (77)
T 1f54_A 29 SSELATVMRSLGLSPSEAEVNDLMNEIDVDGNHQIEFSEFLALMSR 74 (77)
T ss_dssp HHHHHHHHHHHTCCCCHHHHHHHHHTTCCSSCCEEEHHHHHHHHTT
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCEEEHHHHHHHHHH
T ss_conf 9999999998389999999999999868999984829999999998
No 154
>1ci4_A Protein (barrier-TO-autointegration factor (BAF) ); DNA binding protein, retroviral integration, preintegration complex; 1.90A {Homo sapiens} SCOP: a.60.5.1 PDB: 1qck_A 2bzf_A 2ezx_A 2ezy_A 2ezz_A 2odg_A
Probab=22.91 E-value=25 Score=14.77 Aligned_cols=19 Identities=16% Similarity=0.394 Sum_probs=14.1
Q ss_pred HHHHHCCCCCHHHHHHHHH
Q ss_conf 8751045711679999999
Q gi|254780553|r 108 KVIAQIPGISMKIASRIMT 126 (207)
Q Consensus 108 ~~L~~vpGIGkKtA~rIi~ 126 (207)
+..+.+||||+..++|+.-
T Consensus 18 K~V~~l~GIG~~lg~~L~~ 36 (89)
T 1ci4_A 18 KPVGSLAGIGEVLGKKLEE 36 (89)
T ss_dssp CCGGGSTTCCHHHHHHHHH
T ss_pred CCCCCCCCCCHHHHHHHHH
T ss_conf 8743147864899999998
No 155
>1uss_A Histone H1; DNA binding protein, linker histone, DNA binding domain; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13 PDB: 1yqa_A
Probab=22.81 E-value=34 Score=13.82 Aligned_cols=50 Identities=8% Similarity=0.150 Sum_probs=30.4
Q ss_pred CCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHC-C----CCCCHHHHHHHHHHHH
Q ss_conf 531589999999967999899999999998516-8----8889899999999974
Q gi|254780553|r 156 MPSFAINAISALVNLGYGQDQATTAVVSVLKKE-K----NIADDSQIIRLALRAI 205 (207)
Q Consensus 156 ~~~~~~d~~~AL~~LGy~~~ea~~ai~~i~~~~-~----~~~~~eelIk~aLk~L 205 (207)
.+...+=+.+|+.+|+=..-..+.+|...+.+. + ....+..+++.||++.
T Consensus 7 ~ptY~~MI~eAI~~L~er~GsS~~aI~KYI~~~y~~~~~~~~~~~~~l~~aLkkg 61 (88)
T 1uss_A 7 SLTYKEMILKSMPQLNDGKGSSRIVLKKYVKDTFSSKLKTSSNFDYLFNSAIKKC 61 (88)
T ss_dssp SCCHHHHHHHHHHHSCCTTSBCHHHHHHHHHHHTTTTSCCSSTHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHH
T ss_conf 9989999999999838889978999999999987777655277999999999999
No 156
>2o1e_A YCDH; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.60A {Bacillus subtilis}
Probab=22.76 E-value=23 Score=15.00 Aligned_cols=13 Identities=8% Similarity=0.102 Sum_probs=7.5
Q ss_pred EEECCEEEEEECC
Q ss_conf 9858832389708
Q gi|254780553|r 19 IDVQGVCYIIYCP 31 (207)
Q Consensus 19 i~v~GvGY~i~vs 31 (207)
+-++|.||+-+++
T Consensus 74 iv~~G~~le~~l~ 86 (312)
T 2o1e_A 74 FVYNSEYMETWVP 86 (312)
T ss_dssp EEESCTTTSTTHH
T ss_pred EEECCCCHHHHHH
T ss_conf 9992875167899
No 157
>2d58_A Allograft inflammatory factor 1; EF-hand, metal binding protein; 1.90A {Homo sapiens}
Probab=22.64 E-value=35 Score=13.80 Aligned_cols=44 Identities=14% Similarity=0.096 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHCCCC--HHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf 589999999967999--89999999999851688889899999999
Q gi|254780553|r 159 FAINAISALVNLGYG--QDQATTAVVSVLKKEKNIADDSQIIRLAL 202 (207)
Q Consensus 159 ~~~d~~~AL~~LGy~--~~ea~~ai~~i~~~~~~~~~~eelIk~aL 202 (207)
...|...+|.+||+. +.++...+..+..+.....+.++.++.-+
T Consensus 50 ~~~el~~~l~~lG~~~s~~e~~~l~~~~D~d~dg~I~f~EFl~~m~ 95 (107)
T 2d58_A 50 DIMSLKRMLEKLGVPKTHLELKKLIGEVSSGSGETFSYPDFLRMML 95 (107)
T ss_dssp EHHHHHHHHHHTTCCCCHHHHHHHHHHHCSSSSSEECHHHHHHHHS
T ss_pred EHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCEEEHHHHHHHHH
T ss_conf 2799999999839999978998797651699998572999999998
No 158
>2kna_A Baculoviral IAP repeat-containing protein 4; XIAP, UBA, apoptosis, ligase, metal-binding, phosphoprotein, inhibitor, thiol protease inhibitor; NMR {Homo sapiens}
Probab=22.07 E-value=35 Score=13.73 Aligned_cols=42 Identities=5% Similarity=0.137 Sum_probs=31.2
Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHC-CCCCCHHHHHHHHHH
Q ss_conf 999999967999899999999998516-888898999999999
Q gi|254780553|r 162 NAISALVNLGYGQDQATTAVVSVLKKE-KNIADDSQIIRLALR 203 (207)
Q Consensus 162 d~~~AL~~LGy~~~ea~~ai~~i~~~~-~~~~~~eelIk~aLk 203 (207)
.++.+-..+||.+..+++++.+-+... .+-.+.++||-..|.
T Consensus 29 pvV~~AleMGF~~~~Ir~~v~rk~~~~G~~y~s~~eLV~dll~ 71 (104)
T 2kna_A 29 PMVQEAIRMGFSFKDIKKIMEEKIQISGSNYKSLEVLVADLVN 71 (104)
T ss_dssp THHHHHHHTTCCHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHH
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf 9999999918989999999999999868898889999999997
No 159
>2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=21.63 E-value=36 Score=13.67 Aligned_cols=53 Identities=11% Similarity=0.089 Sum_probs=37.6
Q ss_pred EEEEEEEEEECCEEEEEECCEEEEEECCHHHHHH--------CCCCCCEEEEEEEEEECCCC
Q ss_conf 5899999960997999858832389708688985--------02479849999999973884
Q gi|254780553|r 4 KIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSC--------LGKIGDFCTLFVETHMRQDQ 57 (207)
Q Consensus 4 ~i~G~i~~~~~~~ivi~v~GvGY~i~vs~~~~~~--------l~~~g~~v~l~~~~~vrEd~ 57 (207)
-+.|+|..+.+..+.++.++ |.+-++|.+.++. .-+.|+.+...+...-.++.
T Consensus 34 iv~G~V~~I~~~Gv~V~l~~-~i~G~i~~~els~~~~~~~~~~~~vG~~v~vkVi~id~~~~ 94 (109)
T 2khj_A 34 IVTGKVTAVDAKGATVELAD-GVEGYLRASEASRDRVEDATLVLSVGDEVEAKFTGVDRKNR 94 (109)
T ss_dssp EEEEEEEEECSSCEEEECST-TCBCCBCTTCCCSSSSSSGGGSCCTTCEEEEEEEEEETTTT
T ss_pred EEEEEEEEEECCEEEEEECC-CCEEEEEHHHCCCCCCCCCCCEECCCCEEEEEEEEEECCCC
T ss_conf 99999999989779999799-97899868992755312602076899999999999989999
No 160
>1toa_A Tromp-1, protein (periplasmic binding protein TROA); zinc binding protein, ABC transporter; 1.80A {Treponema pallidum} SCOP: c.92.2.2 PDB: 1k0f_A
Probab=21.07 E-value=37 Score=13.59 Aligned_cols=11 Identities=9% Similarity=-0.034 Sum_probs=6.3
Q ss_pred ECCEEEEEECC
Q ss_conf 58832389708
Q gi|254780553|r 21 VQGVCYIIYCP 31 (207)
Q Consensus 21 v~GvGY~i~vs 31 (207)
.+|.||+-.+.
T Consensus 93 ~~G~~~E~~~~ 103 (313)
T 1toa_A 93 YNGLHLETKMG 103 (313)
T ss_dssp ECCTTCSTTCH
T ss_pred ECCCCCCHHHH
T ss_conf 83898666789
No 161
>3bdm_F Proteasome component C1; ubiquitin, proteolysis, pathogen, virulence factor, cytoplasm, hydrolase, nucleus, protease; HET: GDT; 2.70A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_G* 2zcy_F* 1z7q_G
Probab=20.79 E-value=38 Score=13.55 Aligned_cols=38 Identities=13% Similarity=0.223 Sum_probs=28.9
Q ss_pred HCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHC
Q ss_conf 67999899999999998516888898999999999745
Q gi|254780553|r 169 NLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALRAIS 206 (207)
Q Consensus 169 ~LGy~~~ea~~ai~~i~~~~~~~~~~eelIk~aLk~Ls 206 (207)
+.|+....|...+.+......+..+.+|.++.|+|.|.
T Consensus 163 AiG~gs~~a~~~LEk~~~~~~~~ms~eEai~la~kaL~ 200 (287)
T 3bdm_F 163 ATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIY 200 (287)
T ss_dssp EESTTHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHH
T ss_pred EECCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf 98988899999998666527899899999999999999
No 162
>2khi_A 30S ribosomal protein S1; acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=20.59 E-value=38 Score=13.53 Aligned_cols=55 Identities=11% Similarity=0.170 Sum_probs=38.0
Q ss_pred EEEEEEEEEECCEEEEEECCEEEEEECCHHHHHHC---------CCCCCEEEEEEEEEECCCCEE
Q ss_conf 58999999609979998588323897086889850---------247984999999997388418
Q gi|254780553|r 4 KIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCL---------GKIGDFCTLFVETHMRQDQIR 59 (207)
Q Consensus 4 ~i~G~i~~~~~~~ivi~v~GvGY~i~vs~~~~~~l---------~~~g~~v~l~~~~~vrEd~~~ 59 (207)
-+.|+|..+.+..+.++.++ |++-+++.+.++.. -+.|+.+.+.+...-+++...
T Consensus 33 iv~G~V~~I~d~G~fV~l~~-~i~Gli~~sels~~~~~~~~~~~~~vG~~v~vkVi~vD~~~~kI 96 (115)
T 2khi_A 33 KLTGRVTNLTDYGCFVEIEE-GVEGLVHVSEMDWTNKNIHPSKVVNVGDVVEVMVLDIDEERRRI 96 (115)
T ss_dssp EEEEEEEEEETTEEEEECST-TCEEEEETTSSSCSSTTCSSTTTCCTTCEEEEEEEEEETTTTEE
T ss_pred EEEEEEEEEECCEEEEEECC-CCEEEEEEEEECCCCEECCHHHEECCCCEEEEEEEEEECCCCEE
T ss_conf 99999999968669999799-97899998630353201363122069989999999998999999
No 163
>1gut_A Mopii, molybdate binding protein II; transport protein; 1.50A {Clostridium pasteurianum} SCOP: b.40.6.1 PDB: 1gun_A 1guo_A 1gus_A 1gug_A
Probab=20.48 E-value=38 Score=13.51 Aligned_cols=47 Identities=26% Similarity=0.379 Sum_probs=35.8
Q ss_pred CEEEEEEEEEECC----EEEEEE-CCEEEEEECCHHHHHHCC-CCCCEEEEEE
Q ss_conf 2589999996099----799985-883238970868898502-4798499999
Q gi|254780553|r 3 GKIKGNIEGLYED----YVLIDV-QGVCYIIYCPIRTLSCLG-KIGDFCTLFV 49 (207)
Q Consensus 3 ~~i~G~i~~~~~~----~ivi~v-~GvGY~i~vs~~~~~~l~-~~g~~v~l~~ 49 (207)
..+.|+|.++.++ .+.++. +|.-....++......|. +.|+++...+
T Consensus 7 N~l~g~V~~i~~~~~~~~V~~~~~~g~~l~a~IT~~s~~~L~L~~G~~V~a~i 59 (68)
T 1gut_A 7 NQLKGKVVGLKKGVVTAEVVLEIAGGNKITSIISLDSVEELGVKEGAELTAVV 59 (68)
T ss_dssp CEEEEEEEEEEECSSEEEEEEEETTSCEEEEEEEHHHHHHHTCCTTCEEEEEC
T ss_pred CEEEEEEEEEEECCCCEEEEEEECCCCEEEEECCHHHHHHCCCCCCCEEEEEE
T ss_conf 38889999999899858999995999999999398999776999999999999
No 164
>3hjl_A Flagellar motor switch protein FLIG; armadillo repeat motif, superhelix, conformational plasticit repeat, torque generation; 2.40A {Aquifex aeolicus}
Probab=20.27 E-value=39 Score=13.48 Aligned_cols=48 Identities=15% Similarity=0.244 Sum_probs=30.3
Q ss_pred HCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf 00510112443157899999998515668751045711679999999974222
Q gi|254780553|r 80 GVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKGKA 132 (207)
Q Consensus 80 GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi~ELk~K~ 132 (207)
.+|+..|-.+|..|+++++.+. .....++..|.+...+.++-|.-+.+
T Consensus 21 ~LGee~Aa~vlk~L~~~Ei~~l-----~~~m~~l~~v~~~~~~~Vl~eF~~~~ 68 (329)
T 3hjl_A 21 SLPEEVSMNIVKELSEEELQKL-----FALAKDLESVPEEEIENIAEELLDEI 68 (329)
T ss_dssp HSCHHHHHHHHHHSCHHHHHHH-----HHHHHTCCCCCHHHHHHHHHHHHHHH
T ss_pred HHCCHHHHHHHHCCCHHHHHHH-----HHHHHCCCCCCHHHHHHHHHHHHHHH
T ss_conf 9792779999867999999999-----99997148999999999999999999
No 165
>1uhm_A Histone H1, histone HHO1P; winged helix-turn-helix, linker histone, riken structural genomics/proteomics initiative, RSGI; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13
Probab=20.22 E-value=39 Score=13.48 Aligned_cols=44 Identities=14% Similarity=0.106 Sum_probs=25.1
Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHH
Q ss_conf 9999999679998999999999985168----8889899999999974
Q gi|254780553|r 162 NAISALVNLGYGQDQATTAVVSVLKKEK----NIADDSQIIRLALRAI 205 (207)
Q Consensus 162 d~~~AL~~LGy~~~ea~~ai~~i~~~~~----~~~~~eelIk~aLk~L 205 (207)
=+.+|+.+|+=..-....+|...+.+.- +......+++.||+.+
T Consensus 10 MI~eAI~al~er~GsS~~aI~kyI~~~y~~~~~~~~~~~~L~~aLk~~ 57 (78)
T 1uhm_A 10 LIIEGLTALKERKGSSRPALKKFIKENYPIVGSASNFDLYFNNAIKKG 57 (78)
T ss_dssp HHHHHHHHHCCSSCEEHHHHHHHHHTTSCTTTSSSTHHHHHHHHHHHH
T ss_pred HHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH
T ss_conf 999999974998997899999999988778887888999999999999
Done!