Query 020012
Match_columns 332
No_of_seqs 225 out of 1079
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 06:19:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020012.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020012hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06752 single-stranded DNA-b 100.0 1.7E-27 3.7E-32 198.0 14.2 98 68-165 1-108 (112)
2 PRK07275 single-stranded DNA-b 99.9 2E-27 4.4E-32 210.8 13.6 98 68-165 1-108 (162)
3 PRK07459 single-stranded DNA-b 99.9 5.3E-27 1.1E-31 198.7 15.1 98 68-165 2-106 (121)
4 PRK08486 single-stranded DNA-b 99.9 2.8E-26 6.2E-31 206.9 14.4 99 68-166 1-111 (182)
5 PRK06751 single-stranded DNA-b 99.9 6.5E-26 1.4E-30 203.2 14.3 98 68-165 1-108 (173)
6 PRK08182 single-stranded DNA-b 99.9 2.7E-25 5.8E-30 194.4 15.3 99 68-166 1-116 (148)
7 PRK08763 single-stranded DNA-b 99.9 2.7E-25 5.9E-30 197.7 14.5 100 66-165 2-113 (164)
8 PRK07274 single-stranded DNA-b 99.9 3.4E-25 7.3E-30 189.6 14.4 99 68-166 1-108 (131)
9 PRK06642 single-stranded DNA-b 99.9 6.2E-25 1.3E-29 192.8 15.2 100 67-166 3-120 (152)
10 PRK13732 single-stranded DNA-b 99.9 8.5E-25 1.8E-29 196.3 15.1 101 67-167 4-119 (175)
11 PRK06293 single-stranded DNA-b 99.9 9.2E-25 2E-29 193.9 14.7 97 69-165 1-104 (161)
12 PRK09010 single-stranded DNA-b 99.9 2.5E-24 5.4E-29 193.6 14.7 101 66-166 3-119 (177)
13 PRK06958 single-stranded DNA-b 99.9 3.9E-24 8.4E-29 193.2 14.2 98 69-166 4-114 (182)
14 PRK06863 single-stranded DNA-b 99.9 6.2E-24 1.3E-28 189.7 14.6 98 69-166 4-114 (168)
15 PRK05733 single-stranded DNA-b 99.9 9.2E-24 2E-28 189.2 14.6 101 66-166 2-117 (172)
16 TIGR00621 ssb single stranded 99.9 2E-23 4.4E-28 184.7 14.0 98 67-164 2-111 (164)
17 PRK06341 single-stranded DNA-b 99.9 4.3E-23 9.3E-28 184.0 14.4 99 67-165 3-119 (166)
18 PRK02801 primosomal replicatio 99.9 6.8E-23 1.5E-27 168.6 13.3 92 68-161 1-101 (101)
19 PF00436 SSB: Single-strand bi 99.9 2.8E-23 6.1E-28 166.3 10.4 92 69-160 1-104 (104)
20 PRK05813 single-stranded DNA-b 99.9 8.9E-23 1.9E-27 188.9 14.2 98 67-165 107-212 (219)
21 COG0629 Ssb Single-stranded DN 99.9 1.3E-22 2.9E-27 179.4 11.7 98 68-165 2-116 (167)
22 PRK07772 single-stranded DNA-b 99.9 6.7E-22 1.4E-26 179.2 13.3 90 68-157 3-106 (186)
23 PRK05853 hypothetical protein; 99.8 6.6E-20 1.4E-24 162.9 11.2 85 74-159 1-98 (161)
24 cd04496 SSB_OBF SSB_OBF: A sub 99.8 5.2E-19 1.1E-23 140.1 12.8 89 72-160 1-100 (100)
25 PRK05813 single-stranded DNA-b 99.8 5E-18 1.1E-22 157.4 13.6 96 68-165 7-105 (219)
26 KOG1653 Single-stranded DNA-bi 99.6 1.3E-15 2.9E-20 135.3 7.7 99 67-165 53-169 (175)
27 PRK00036 primosomal replicatio 98.6 3.2E-07 6.8E-12 77.3 9.6 90 69-162 1-98 (107)
28 COG2965 PriB Primosomal replic 98.3 1.4E-05 3E-10 66.6 11.6 94 67-161 2-103 (103)
29 PF01336 tRNA_anti-codon: OB-f 97.5 0.00065 1.4E-08 50.6 8.1 75 72-160 1-75 (75)
30 cd04489 ExoVII_LU_OBF ExoVII_L 97.3 0.0044 9.6E-08 47.2 10.5 74 72-158 2-75 (78)
31 cd04487 RecJ_OBF2_like RecJ_OB 96.8 0.011 2.4E-07 46.2 8.9 73 72-160 1-73 (73)
32 cd04492 YhaM_OBF_like YhaM_OBF 96.6 0.023 4.9E-07 43.0 9.3 74 79-163 6-79 (83)
33 cd04484 polC_OBF polC_OBF: A s 96.6 0.019 4.1E-07 45.6 8.9 68 72-145 2-71 (82)
34 cd03524 RPA2_OBF_family RPA2_O 96.5 0.044 9.6E-07 39.1 9.9 47 90-140 15-62 (75)
35 cd04474 RPA1_DBD_A RPA1_DBD_A: 96.4 0.016 3.4E-07 47.7 7.3 67 69-138 9-78 (104)
36 cd04485 DnaE_OBF DnaE_OBF: A s 96.0 0.067 1.4E-06 39.8 8.6 76 74-160 2-77 (84)
37 cd04482 RPA2_OBF_like RPA2_OBF 95.3 0.16 3.5E-06 41.2 9.1 72 73-161 2-75 (91)
38 PRK07211 replication factor A; 95.2 0.12 2.7E-06 53.8 9.9 80 69-158 63-147 (485)
39 PF13742 tRNA_anti_2: OB-fold 94.4 0.43 9.4E-06 39.1 9.4 77 69-158 21-98 (99)
40 cd04490 PolII_SU_OBF PolII_SU_ 94.2 0.9 1.9E-05 35.9 10.4 72 72-160 2-75 (79)
41 cd04100 Asp_Lys_Asn_RS_N Asp_L 93.5 1.8 3.8E-05 33.8 11.0 81 71-161 1-84 (85)
42 PRK00286 xseA exodeoxyribonucl 93.4 0.48 1E-05 47.9 9.5 80 69-161 23-102 (438)
43 cd04320 AspRS_cyto_N AspRS_cyt 92.9 2.2 4.8E-05 34.5 11.1 84 71-163 1-92 (102)
44 cd04475 RPA1_DBD_B RPA1_DBD_B: 92.9 1.1 2.5E-05 35.9 9.3 67 72-143 2-72 (101)
45 cd04491 SoSSB_OBF SoSSB_OBF: A 92.8 0.58 1.3E-05 36.3 7.2 59 74-139 2-64 (82)
46 PRK06461 single-stranded DNA-b 92.7 0.64 1.4E-05 39.9 8.0 62 69-138 14-79 (129)
47 PRK15491 replication factor A; 92.6 0.62 1.3E-05 46.9 8.8 64 69-136 67-135 (374)
48 TIGR00237 xseA exodeoxyribonuc 92.5 0.68 1.5E-05 47.3 9.2 79 69-160 17-95 (432)
49 PRK07373 DNA polymerase III su 92.4 0.92 2E-05 46.9 10.1 80 71-161 282-361 (449)
50 cd04316 ND_PkAspRS_like_N ND_P 91.7 4.7 0.0001 33.0 11.7 81 71-164 14-98 (108)
51 cd04317 EcAspRS_like_N EcAspRS 91.7 3.4 7.4E-05 35.0 11.2 83 71-163 16-104 (135)
52 PF11506 DUF3217: Protein of u 91.7 4 8.7E-05 33.9 10.9 83 68-156 1-89 (104)
53 PRK07211 replication factor A; 91.3 0.58 1.3E-05 48.9 7.2 66 69-139 171-241 (485)
54 PRK05673 dnaE DNA polymerase I 91.2 1 2.3E-05 51.4 9.7 81 70-161 978-1058(1135)
55 PRK15491 replication factor A; 91.1 0.97 2.1E-05 45.6 8.4 71 69-144 176-251 (374)
56 cd04488 RecG_wedge_OBF RecG_we 91.1 1.2 2.6E-05 32.4 6.9 60 74-140 2-61 (75)
57 cd04323 AsnRS_cyto_like_N AsnR 91.0 4.7 0.0001 31.4 10.6 81 71-161 1-83 (84)
58 PRK14699 replication factor A; 90.4 0.76 1.7E-05 47.9 7.1 64 69-136 67-135 (484)
59 PRK13480 3'-5' exoribonuclease 89.7 1.9 4.2E-05 42.6 9.0 79 71-161 13-91 (314)
60 PRK08402 replication factor A; 89.7 1.6 3.4E-05 44.0 8.4 72 69-144 72-147 (355)
61 cd04322 LysRS_N LysRS_N: N-ter 89.6 6.9 0.00015 32.0 10.8 77 72-163 2-83 (108)
62 cd04319 PhAsnRS_like_N PhAsnRS 88.7 12 0.00025 30.4 12.2 81 71-164 1-84 (103)
63 PRK12366 replication factor A; 88.1 4.4 9.6E-05 43.6 11.0 83 70-157 292-377 (637)
64 COG1570 XseA Exonuclease VII, 87.7 2 4.4E-05 44.5 7.8 78 69-159 23-100 (440)
65 PRK06920 dnaE DNA polymerase I 87.7 2.8 6.2E-05 47.9 9.6 80 71-161 945-1024(1107)
66 PRK07374 dnaE DNA polymerase I 87.5 3.3 7.1E-05 47.7 10.0 81 70-161 1001-1081(1170)
67 cd04321 ScAspRS_mt_like_N ScAs 87.4 12 0.00027 29.4 11.6 83 71-161 1-85 (86)
68 PRK06826 dnaE DNA polymerase I 86.8 3.8 8.3E-05 47.1 10.0 82 71-162 993-1074(1151)
69 PF11325 DUF3127: Domain of un 86.7 6.3 0.00014 32.2 8.6 78 74-156 2-82 (84)
70 PRK12366 replication factor A; 86.4 2.4 5.1E-05 45.6 7.8 69 69-143 73-145 (637)
71 COG3390 Uncharacterized protei 85.9 3 6.6E-05 38.9 7.2 90 67-163 43-133 (196)
72 cd04478 RPA2_DBD_D RPA2_DBD_D: 85.2 10 0.00023 29.8 9.2 78 72-165 2-82 (95)
73 PRK05672 dnaE2 error-prone DNA 84.0 5.9 0.00013 45.1 9.8 79 71-162 955-1033(1046)
74 PRK00448 polC DNA polymerase I 83.7 5.1 0.00011 47.1 9.3 73 68-145 235-309 (1437)
75 TIGR00617 rpa1 replication fac 82.9 7.5 0.00016 41.7 9.6 67 69-139 190-260 (608)
76 PRK07279 dnaE DNA polymerase I 82.1 8.3 0.00018 44.0 10.0 81 70-161 885-966 (1034)
77 cd04497 hPOT1_OB1_like hPOT1_O 81.8 7.2 0.00016 33.6 7.5 75 69-145 14-88 (138)
78 TIGR01405 polC_Gram_pos DNA po 81.4 7.3 0.00016 45.1 9.4 72 69-145 7-80 (1213)
79 PRK14699 replication factor A; 80.1 4.3 9.4E-05 42.4 6.5 84 69-161 176-264 (484)
80 TIGR00458 aspS_arch aspartyl-t 79.3 20 0.00044 36.7 10.9 82 70-164 13-98 (428)
81 PLN02850 aspartate-tRNA ligase 78.8 19 0.00041 38.2 10.8 84 70-163 82-172 (530)
82 PF02765 POT1: Telomeric singl 78.7 7.1 0.00015 33.8 6.5 74 69-145 12-93 (146)
83 cd04318 EcAsnRS_like_N EcAsnRS 78.6 28 0.00061 26.8 9.7 77 72-161 2-81 (82)
84 PLN02903 aminoacyl-tRNA ligase 78.4 40 0.00087 36.8 13.2 83 71-163 74-163 (652)
85 COG0017 AsnS Aspartyl/asparagi 76.5 25 0.00054 36.7 10.6 81 70-163 17-100 (435)
86 PRK05159 aspC aspartyl-tRNA sy 75.9 32 0.0007 35.2 11.3 82 70-164 17-101 (437)
87 PTZ00401 aspartyl-tRNA synthet 74.5 34 0.00073 36.5 11.3 85 70-164 79-170 (550)
88 cd04481 RPA1_DBD_B_like RPA1_D 72.6 38 0.00082 27.6 8.9 39 106-144 34-76 (106)
89 TIGR00459 aspS_bact aspartyl-t 72.4 45 0.00097 35.9 11.6 84 71-164 17-105 (583)
90 TIGR00457 asnS asparaginyl-tRN 70.3 52 0.0011 34.0 11.3 84 70-164 17-103 (453)
91 PRK07218 replication factor A; 69.1 15 0.00034 37.9 7.1 62 69-139 172-235 (423)
92 PRK12820 bifunctional aspartyl 65.5 67 0.0015 35.5 11.4 85 70-164 19-111 (706)
93 PRK07218 replication factor A; 65.2 25 0.00053 36.4 7.7 64 69-145 68-135 (423)
94 COG1200 RecG RecG-like helicas 64.1 35 0.00077 37.4 8.9 65 70-141 61-125 (677)
95 PRK10917 ATP-dependent DNA hel 63.8 23 0.00049 38.3 7.5 63 70-139 60-122 (681)
96 PRK06386 replication factor A; 63.7 36 0.00079 34.5 8.4 76 69-160 117-194 (358)
97 PRK00476 aspS aspartyl-tRNA sy 63.4 79 0.0017 34.0 11.3 83 71-164 19-107 (588)
98 TIGR00643 recG ATP-dependent D 63.3 37 0.00079 36.3 8.8 64 70-140 33-96 (630)
99 PRK03932 asnC asparaginyl-tRNA 63.0 77 0.0017 32.7 10.8 81 70-163 17-100 (450)
100 KOG3416 Predicted nucleic acid 62.7 23 0.0005 31.3 5.9 62 70-139 15-76 (134)
101 PTZ00385 lysyl-tRNA synthetase 62.1 78 0.0017 34.7 11.0 77 71-162 109-191 (659)
102 PRK00484 lysS lysyl-tRNA synth 60.3 85 0.0018 32.9 10.7 79 70-163 55-137 (491)
103 PLN02603 asparaginyl-tRNA synt 59.2 1.4E+02 0.003 32.2 12.2 85 69-164 107-194 (565)
104 cd05898 Ig5_KIRREL3 Fifth immu 57.7 18 0.00039 29.7 4.3 85 27-119 2-90 (98)
105 PLN02221 asparaginyl-tRNA synt 57.3 1.1E+02 0.0023 33.1 10.9 86 70-164 51-138 (572)
106 PF10451 Stn1: Telomere regula 55.2 44 0.00096 32.3 7.1 94 59-165 56-152 (256)
107 PLN02502 lysyl-tRNA synthetase 54.7 1.1E+02 0.0024 32.8 10.5 78 71-163 110-194 (553)
108 PF12869 tRNA_anti-like: tRNA_ 54.2 65 0.0014 27.1 7.3 63 71-140 69-132 (144)
109 COG0587 DnaE DNA polymerase II 54.0 47 0.001 38.6 8.1 66 71-141 978-1044(1139)
110 PTZ00417 lysine-tRNA ligase; P 53.6 99 0.0022 33.4 10.0 78 72-163 135-219 (585)
111 PHA01740 putative single-stran 53.4 6.7 0.00015 35.0 1.2 23 216-242 17-41 (158)
112 COG1107 Archaea-specific RecJ- 53.1 26 0.00057 38.1 5.6 79 69-163 213-291 (715)
113 PRK12445 lysyl-tRNA synthetase 53.1 1.4E+02 0.003 31.5 10.9 78 71-163 67-149 (505)
114 PF13567 DUF4131: Domain of un 52.9 53 0.0011 27.0 6.4 62 70-140 76-144 (176)
115 COG3689 Predicted membrane pro 52.6 60 0.0013 31.9 7.5 86 71-164 177-263 (271)
116 TIGR00499 lysS_bact lysyl-tRNA 51.8 1.5E+02 0.0032 31.2 10.8 78 71-163 55-137 (496)
117 cd04483 hOBFC1_like hOBFC1_lik 51.7 94 0.002 25.2 7.5 37 104-140 22-78 (92)
118 cd04498 hPOT1_OB2 hPOT1_OB2: A 51.7 22 0.00047 30.9 4.0 27 107-134 60-86 (123)
119 PF00970 FAD_binding_6: Oxidor 51.2 41 0.0009 26.2 5.3 32 106-138 62-95 (99)
120 COG2176 PolC DNA polymerase II 48.5 57 0.0012 38.3 7.5 86 67-161 237-324 (1444)
121 KOG1885 Lysyl-tRNA synthetase 43.6 1.1E+02 0.0024 32.6 8.2 77 72-162 107-189 (560)
122 PLN02532 asparagine-tRNA synth 41.5 1E+02 0.0022 33.8 7.9 56 107-164 147-202 (633)
123 PF11736 DUF3299: Protein of u 39.0 55 0.0012 29.1 4.7 82 67-158 52-143 (146)
124 PRK07135 dnaE DNA polymerase I 37.6 1E+02 0.0023 35.2 7.6 64 71-141 899-962 (973)
125 COG4097 Predicted ferric reduc 37.5 42 0.0009 34.8 4.0 33 106-138 275-307 (438)
126 TIGR00617 rpa1 replication fac 37.5 1.5E+02 0.0031 32.1 8.3 69 71-144 312-384 (608)
127 PF08021 FAD_binding_9: Sidero 34.7 1E+02 0.0022 25.9 5.4 43 93-135 68-112 (117)
128 COG1571 Predicted DNA-binding 34.5 2.9E+02 0.0063 28.9 9.6 89 28-141 242-332 (421)
129 PRK02983 lysS lysyl-tRNA synth 33.8 3.2E+02 0.0068 31.8 10.6 78 71-163 653-735 (1094)
130 PF09104 BRCA-2_OB3: BRCA2, ol 33.0 1.4E+02 0.003 26.8 6.1 86 68-165 17-104 (143)
131 COG1018 Hmp Flavodoxin reducta 31.9 1.4E+02 0.0031 28.7 6.6 32 106-137 67-100 (266)
132 PF02367 UPF0079: Uncharacteri 31.5 27 0.00059 30.1 1.4 25 116-140 3-27 (123)
133 COG1190 LysU Lysyl-tRNA synthe 31.2 2.3E+02 0.0049 30.4 8.3 82 72-164 64-146 (502)
134 cd06216 FNR_iron_sulfur_bindin 30.8 1.3E+02 0.0029 27.3 6.0 45 95-139 66-114 (243)
135 cd06191 FNR_iron_sulfur_bindin 28.4 1.5E+02 0.0032 26.7 5.7 25 115-139 70-94 (231)
136 PRK10646 ADP-binding protein; 26.3 49 0.0011 29.6 2.2 26 115-140 15-40 (153)
137 KOG3056 Protein required for S 26.3 1.9E+02 0.0042 31.3 6.8 67 73-145 189-255 (578)
138 TIGR01077 L13_A_E ribosomal pr 24.9 49 0.0011 29.4 1.9 23 113-135 9-31 (142)
139 smart00350 MCM minichromosome 24.7 1.6E+02 0.0035 30.7 5.9 53 105-161 102-161 (509)
140 COG0802 Predicted ATPase or ki 24.6 58 0.0013 29.3 2.3 25 116-140 13-37 (149)
141 cd06198 FNR_like_3 NAD(P) bind 23.5 1.9E+02 0.004 25.7 5.4 33 107-139 56-88 (216)
142 PRK06394 rpl13p 50S ribosomal 22.4 59 0.0013 29.0 1.9 22 113-134 13-34 (146)
143 KOG0479 DNA replication licens 22.0 1.3E+02 0.0028 33.3 4.6 55 106-164 212-270 (818)
144 TIGR00150 HI0065_YjeE ATPase, 21.5 74 0.0016 27.7 2.4 25 116-140 10-34 (133)
145 PRK13289 bifunctional nitric o 21.1 2.7E+02 0.0058 27.4 6.5 44 96-139 208-253 (399)
146 KOG0554 Asparaginyl-tRNA synth 20.0 4.4E+02 0.0095 27.7 7.7 58 98-163 41-99 (446)
No 1
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.95 E-value=1.7e-27 Score=198.04 Aligned_cols=98 Identities=17% Similarity=0.235 Sum_probs=90.8
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~-------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
|||+|+|||||++|||++++++|+.+|.|+||+++. .+++||+|++||++||.+++||+|||+|+|+|+|+++
T Consensus 1 MmN~v~liGrl~~dPelr~t~~G~~~~~f~lAv~~~~~~~~g~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~l~~~ 80 (112)
T PRK06752 1 MMNRVVLIGRLTKEPELYYTKQGVAYARVCVAVNRGFRNSLGEQQVDFINCVVWRKSAENVTEYCTKGSLVGITGRIHTR 80 (112)
T ss_pred CceEEEEEEECcCCCEEEECCCCCEEEEEEEEECCCeEcCCCCEEEEEEEEEEehHHHHHHHHhcCCCCEEEEEEEEEeC
Confidence 799999999999999999999999999999999862 2589999999999999999999999999999999999
Q ss_pred CCCcC-C--eeEEEEEEeEEEEeccCCc
Q 020012 141 PPAIE-G--QANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 141 syedk-g--rs~~eVvVe~I~FL~~k~~ 165 (332)
+|+++ | ++.++|+|++|.||+++..
T Consensus 81 ~~~~~~G~~~~~~ei~a~~i~~l~~~~~ 108 (112)
T PRK06752 81 NYEDDQGKRIYITEVVIESITFLERRRE 108 (112)
T ss_pred ccCCCCCcEEEEEEEEEEEEEECCCCCc
Confidence 99887 4 6678999999999987754
No 2
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=2e-27 Score=210.80 Aligned_cols=98 Identities=12% Similarity=0.182 Sum_probs=91.2
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~-------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
|||+|+|||||++|||+|+|++|.++|.|+|||++. .+++||+|++||++||.+++||+||++|+|+|||+++
T Consensus 1 M~N~v~LiGrL~~DPElr~t~sG~~v~~ftlAv~r~~~~~~ge~~tdfi~vv~wgk~Ae~~~~~l~KG~~V~VeGrl~~r 80 (162)
T PRK07275 1 MINNVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQNGEREADFINCVIWRQQAENLANWAKKGALIGVTGRIQTR 80 (162)
T ss_pred CeeEEEEEEEECCCCeEEECCCCCEEEEEEEEEcCceecCCCCEeeeEEEEEEEcHHHHHHHHHcCCCCEEEEEEEEEec
Confidence 799999999999999999999999999999999862 3589999999999999999999999999999999999
Q ss_pred CCCcC---CeeEEEEEEeEEEEeccCCc
Q 020012 141 PPAIE---GQANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 141 syedk---grs~~eVvVe~I~FL~~k~~ 165 (332)
+|+++ .++.++|+|++|.||+++..
T Consensus 81 ~y~dkdG~k~~~~evva~~i~~l~~~~~ 108 (162)
T PRK07275 81 NYENQQGQRVYVTEVVADNFQMLESRAT 108 (162)
T ss_pred eEECCCCCEEEEEEEEEeEEEECCCCCc
Confidence 99887 46778999999999998764
No 3
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=5.3e-27 Score=198.69 Aligned_cols=98 Identities=20% Similarity=0.293 Sum_probs=90.8
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC---CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~---~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syed 144 (332)
+||+|+||||||+|||++++++|+.+|.|+||+++. ++|+||+|++||++||.+++||+||++|+|+|+|++++|++
T Consensus 2 ~~N~v~LiGrL~~DPelr~t~~G~~v~~fslAv~~~~~~~~t~w~~v~~wg~~Ae~~~~~l~KG~~V~V~G~l~~~~~~d 81 (121)
T PRK07459 2 SLNSVTLVGRAGRDPEVRYFESGSVVCNLTLAVNRRSRDDEPDWFNLEIWGKTAQVAADYVKKGSLIGITGSLKFDRWTD 81 (121)
T ss_pred CccEEEEEEEccCCCEEEEcCCCCEEEEEEEEecccccCCCceEEEEEEehHHHHHHHHHcCCCCEEEEEEEEEecceEc
Confidence 489999999999999999999999999999999873 56899999999999999999999999999999999999987
Q ss_pred C--C--eeEEEEEEeEEEEeccCCc
Q 020012 145 E--G--QANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 145 k--g--rs~~eVvVe~I~FL~~k~~ 165 (332)
+ | ++.++|+|++|.||+++..
T Consensus 82 ~d~G~~r~~~ei~a~~i~~L~~k~~ 106 (121)
T PRK07459 82 RNTGEDRSKPVIRVDRLELLGSKRD 106 (121)
T ss_pred CCCCeEEEEEEEEEeEEEECcCCCc
Confidence 5 4 6788999999999987654
No 4
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=2.8e-26 Score=206.88 Aligned_cols=99 Identities=22% Similarity=0.301 Sum_probs=91.8
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~---------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~ 138 (332)
|||+|+|||||++|||+|++++|..+|.|+||+++. ++|+||+|++||++||.|++||+||++|+|+|||+
T Consensus 1 m~N~V~LvGrL~~DPElr~t~sG~~va~fslAv~r~~~~~~Ge~~e~t~fi~v~~fg~~AE~~~~~l~KG~~V~VeGrL~ 80 (182)
T PRK08486 1 MFNKVILVGNLTRDVELRYLPSGSAIATIGLATSRRFKKQDGEKGEEVCFIDIRLFGRTAEIANQYLSKGSKVLIEGRLT 80 (182)
T ss_pred CeeEEEEEEEecCCCEEEECCCCCEEEEEEEEEecceecCCCCCcccceEEEEEEEhHHHHHHHHHcCCCCEEEEEEEEE
Confidence 689999999999999999999999999999999861 36899999999999999999999999999999999
Q ss_pred ecCCCcC---CeeEEEEEEeEEEEeccCCcc
Q 020012 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (332)
Q Consensus 139 t~syedk---grs~~eVvVe~I~FL~~k~~~ 166 (332)
+++|+++ .++.++|+|++|.||+++...
T Consensus 81 ~~~y~dkdG~~r~~~eI~a~~v~~L~~~~~~ 111 (182)
T PRK08486 81 FESWMDQNGQKRSKHTITAESMQMLDSKSDN 111 (182)
T ss_pred eCcEECCCCcEEEEEEEEEeEEEECCCCCCC
Confidence 9999887 477889999999999877653
No 5
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=6.5e-26 Score=203.16 Aligned_cols=98 Identities=19% Similarity=0.256 Sum_probs=90.8
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~-------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
|||+|+|||||++|||+|+|++|..+|.|+||+++. .+++||+|++||++||.+++||+||++|+|+|||+++
T Consensus 1 MmN~V~LiGrL~~DpelR~t~sG~~v~~fslAvnr~~~~~~ge~~tdwi~~v~wgk~Ae~~~~~l~KG~~V~VeGrL~~r 80 (173)
T PRK06751 1 MMNRVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQQGEREADFINCVIWRKQAENVANYLKKGSLAGVDGRLQTR 80 (173)
T ss_pred CceEEEEEEEECCCCcEEECCCCCEEEEEEEEEccceecCCCCEEEEEEEEEEeCcHHHHHHHHcCCCCEEEEEEEEEeC
Confidence 789999999999999999999999999999999862 3579999999999999999999999999999999999
Q ss_pred CCCcC-C--eeEEEEEEeEEEEeccCCc
Q 020012 141 PPAIE-G--QANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 141 syedk-g--rs~~eVvVe~I~FL~~k~~ 165 (332)
.|+++ | ++.++|+|++|.||+++..
T Consensus 81 ~yedkdG~~~~~~eVva~~i~~l~~r~~ 108 (173)
T PRK06751 81 NYEGQDGKRVYVTEVLAESVQFLEPRNG 108 (173)
T ss_pred ccCCCCCcEEEEEEEEEEEEEeCcCCCC
Confidence 99987 4 6778999999999997754
No 6
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=2.7e-25 Score=194.36 Aligned_cols=99 Identities=10% Similarity=0.159 Sum_probs=90.0
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcE----EEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhcCCCCeEEE
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKH----WAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHI 133 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~----vA~fsLAv~~~----------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~V 133 (332)
|+|+|+||||||+|||+|++++|.. ++.|+||+++. .+++||+|++||++||.+++||+||++|+|
T Consensus 1 M~N~V~LiGrLg~DPElr~t~~G~~~~~~va~fslA~~r~~~~~~Ge~~~~~t~w~~V~~wg~~Ae~v~~~l~KG~~V~V 80 (148)
T PRK08182 1 MSTHFVGEGNIGSAPEYREFPNGNDEPRRLLRLNVYFDNPVPTKDGEYEDRGGFWAPVELWHRDAEHWARLYQKGMRVLV 80 (148)
T ss_pred CccEEEEEEECCCCCeEEECCCCCeeeeeEEEEEEEecCceECCCCCEEecCcEEEEEEEEhHHHHHHHHhcCCCCEEEE
Confidence 7899999999999999999999986 99999999751 147899999999999999999999999999
Q ss_pred EEEeeecCCCcC---CeeEEEEEEeEEEEeccCCcc
Q 020012 134 AGQLTADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (332)
Q Consensus 134 eGrL~t~syedk---grs~~eVvVe~I~FL~~k~~~ 166 (332)
+|+|++++|+++ .++.++|+|++|.|+..+...
T Consensus 81 ~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r~~~ 116 (148)
T PRK08182 81 EGRMERDEWTDNEDNERVTFKVEARRVGILPYRIES 116 (148)
T ss_pred EEEEEecccCCCCCCEEEEEEEEEeEEEEcCCcccc
Confidence 999999999887 467889999999999876653
No 7
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=2.7e-25 Score=197.67 Aligned_cols=100 Identities=17% Similarity=0.320 Sum_probs=91.6
Q ss_pred ccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEE
Q 020012 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (332)
Q Consensus 66 p~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~---------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGr 136 (332)
++.||+|+||||||+||||+++++|..++.|+||+++. ++|+||+|++||++||.+++||+||++|+|+|+
T Consensus 2 ar~~Nkv~LiGrLg~DPelr~t~~G~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~Ae~v~~~L~KGs~V~VeGr 81 (164)
T PRK08763 2 ARGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDREGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEGS 81 (164)
T ss_pred CCcceEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecCCCCeeccceEEEEEEehHHHHHHHHhcCCCCEEEEEEE
Confidence 45699999999999999999999999999999999751 358999999999999999999999999999999
Q ss_pred eeecCCCcC-C--eeEEEEEEeEEEEeccCCc
Q 020012 137 LTADPPAIE-G--QANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 137 L~t~syedk-g--rs~~eVvVe~I~FL~~k~~ 165 (332)
|++++|+++ | ++.++|+|++|.||+++..
T Consensus 82 L~~~~y~dkdG~kr~~~eIva~~i~~L~~~~~ 113 (164)
T PRK08763 82 IRYDKFTGQDGQERYVTEIVADEMQMLGGRGE 113 (164)
T ss_pred EEeceeECCCCCEEEEEEEEEeEEEECCCCCC
Confidence 999999876 4 6788999999999997754
No 8
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=3.4e-25 Score=189.59 Aligned_cols=99 Identities=23% Similarity=0.348 Sum_probs=89.5
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~-------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
|||+|+||||||+|||++++++|..+|.|+||+++. .+++||+|++||++|+.+++||+||++|+|+|+|+++
T Consensus 1 mmN~v~LiGrL~~dPelr~t~~g~~~~~fslAv~~~~k~~~g~~~t~w~~v~~fg~~Ae~v~~~l~KG~~V~V~Grl~~~ 80 (131)
T PRK07274 1 MYNKVILIGRLTATPELVKTANDKSVARVTLAVNRRFKNQNGEREADFINVVLWGKLAETLASYASKGSLISIDGELRTR 80 (131)
T ss_pred CeeEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCceecCCCCEEEEEEEEEEehHHHHHHHHHcCCCCEEEEEEEEEec
Confidence 799999999999999999999999999999999862 2589999999999999999999999999999999999
Q ss_pred CCCcCC--eeEEEEEEeEEEEeccCCcc
Q 020012 141 PPAIEG--QANVQVMVHSLNLIEPTSQK 166 (332)
Q Consensus 141 syedkg--rs~~eVvVe~I~FL~~k~~~ 166 (332)
+|+.+| ++.++|+|++|.||+++...
T Consensus 81 ~y~kdG~~~~~~eviv~~i~~l~~k~~~ 108 (131)
T PRK07274 81 KYEKDGQTHYVTEVLCQSFQLLESRAQR 108 (131)
T ss_pred cCccCCcEEEEEEEEEEEEEECcCCCcc
Confidence 993334 56779999999999977543
No 9
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=6.2e-25 Score=192.83 Aligned_cols=100 Identities=18% Similarity=0.330 Sum_probs=90.0
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEecc-HHHHHHhhcCCCCeEEEEE
Q 020012 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGD-LAHIASSHLKKDDHVHIAG 135 (332)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~----------~~T~wI~VvaWGk-LAE~~aqyLkKGD~V~VeG 135 (332)
..||+|+||||||+|||+|++++|+.++.|+||+++. .+|+||+|++||+ +|+.|++||+||++|+|+|
T Consensus 3 ~~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~G 82 (152)
T PRK06642 3 GSLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIEG 82 (152)
T ss_pred CcceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEEE
Confidence 4589999999999999999999999999999999851 2589999999996 9999999999999999999
Q ss_pred EeeecCCCcC-C--eeEEEEEEeEE----EEeccCCcc
Q 020012 136 QLTADPPAIE-G--QANVQVMVHSL----NLIEPTSQK 166 (332)
Q Consensus 136 rL~t~syedk-g--rs~~eVvVe~I----~FL~~k~~~ 166 (332)
+|++++|+++ | ++.++|+|++| .||+++...
T Consensus 83 rL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k~~~ 120 (152)
T PRK06642 83 SLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSN 120 (152)
T ss_pred EEEeCeeECCCCCEEEEEEEEEEecccceEeccCCCCc
Confidence 9999999876 4 67889999987 799877554
No 10
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=8.5e-25 Score=196.33 Aligned_cols=101 Identities=21% Similarity=0.359 Sum_probs=92.4
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEE
Q 020012 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (332)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~----------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGr 136 (332)
+.||+|+||||||+|||+|++++|..+|.|+||+++. ++|+||+|++||++||.|++||+||++|+|+|+
T Consensus 4 r~mN~V~LiGrLg~DPElR~t~nG~~va~fslAvn~~~kd~~~Ge~~e~t~w~~Vv~wgk~Ae~v~~~L~KG~~V~VeGr 83 (175)
T PRK13732 4 RGINKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAEVAGEYLRKGAQVYIEGQ 83 (175)
T ss_pred cCceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEcCccccCCCCceecceeEEEEEEecHHHHHHHHhcCCCCEEEEEEE
Confidence 4689999999999999999999999999999999751 358999999999999999999999999999999
Q ss_pred eeecCCCcCC--eeEEEEEEe---EEEEeccCCccc
Q 020012 137 LTADPPAIEG--QANVQVMVH---SLNLIEPTSQKR 167 (332)
Q Consensus 137 L~t~syedkg--rs~~eVvVe---~I~FL~~k~~~~ 167 (332)
|++++|+++| ++.++|+|+ +|.||+++....
T Consensus 84 L~~r~ye~dG~kr~~~eIiv~~~g~~~fL~~~~~~~ 119 (175)
T PRK13732 84 LRTRSWEDNGITRYVTEILVKTTGTMQMLGRAPQQN 119 (175)
T ss_pred EEeeeEccCCeEEEEEEEEEeecCeEEEecCCCCCC
Confidence 9999998874 678899999 999999887653
No 11
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=9.2e-25 Score=193.91 Aligned_cols=97 Identities=16% Similarity=0.179 Sum_probs=89.9
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~----~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syed 144 (332)
||.|+||||||+|||+|++++|+.++.|+||+++ .++|+||+|++||++||++++||+||++|+|+|+|++++|++
T Consensus 1 MN~V~LiGrLg~DPElR~t~sG~~v~~FsLAvn~~~~~~~~T~wi~v~awg~~Ae~v~~yL~KG~~V~VeGrL~~~~y~d 80 (161)
T PRK06293 1 MMFGYIVGRLGADPEERMTSKGKRVVVLRLGVKSRVGSKDETVWCRCNIWGNRYDKMLPYLKKGSGVIVAGEMSPESYVD 80 (161)
T ss_pred CeEEEEEEEecCCCeEEEcCCCCEEEEEEEEEeCCCCCccceEEEEEEEEhHHHHHHHHhCCCCCEEEEEEEEEeCccCC
Confidence 8999999999999999999999999999999986 246899999999999999999999999999999999999988
Q ss_pred C---CeeEEEEEEeEEEEeccCCc
Q 020012 145 E---GQANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 145 k---grs~~eVvVe~I~FL~~k~~ 165 (332)
+ .++.++|+|++|.|+.....
T Consensus 81 kdG~kr~~~eIva~~I~fl~~~~~ 104 (161)
T PRK06293 81 KDGSPQSSLVVSVDTIKFSPFGRN 104 (161)
T ss_pred CCCCEEEEEEEEEeEEEECcCCCc
Confidence 7 47788999999999975543
No 12
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=2.5e-24 Score=193.64 Aligned_cols=101 Identities=20% Similarity=0.332 Sum_probs=91.9
Q ss_pred ccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE
Q 020012 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAG 135 (332)
Q Consensus 66 p~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~----------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeG 135 (332)
.+.||+|+|||||++|||+|++++|..+|+|+||+++. ++|+||+|++||++||.+++||+||++|+|+|
T Consensus 3 ~r~~N~V~LiGrLg~DPelR~t~nG~~v~~fsVAvn~~~kd~~~Ge~~e~t~w~~V~~fgk~Ae~~~~~L~KGs~V~VeG 82 (177)
T PRK09010 3 SRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYIEG 82 (177)
T ss_pred ccCceEEEEEEEeCCCceEEEcCCCCEEEEEEEEEcCccccCcccccccceEEEEEEEehhHHHHHHHhcCCCCEEEEEE
Confidence 36799999999999999999999999999999999751 35899999999999999999999999999999
Q ss_pred EeeecCCCcC---CeeEEEEEEe---EEEEeccCCcc
Q 020012 136 QLTADPPAIE---GQANVQVMVH---SLNLIEPTSQK 166 (332)
Q Consensus 136 rL~t~syedk---grs~~eVvVe---~I~FL~~k~~~ 166 (332)
+|++++|+++ .++.++|+|+ +|.||+++.+.
T Consensus 83 rL~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r~~~ 119 (177)
T PRK09010 83 QLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGG 119 (177)
T ss_pred EEEeccccCCCCCEEEEEEEEEecCCcEEEccCCCCC
Confidence 9999999987 4678899998 89999987554
No 13
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=3.9e-24 Score=193.18 Aligned_cols=98 Identities=19% Similarity=0.303 Sum_probs=90.2
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~----------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~ 138 (332)
||+|+|||||++|||++++++|..||.|+||+++. +.|+||+|++|+++||.+++||+||++|+|+|+|+
T Consensus 4 ~N~V~LiGrLg~DPElr~t~nG~~va~fsVAv~~~~kdk~sGe~~e~T~w~~V~~fGk~AE~v~~~LkKGs~V~VeGrL~ 83 (182)
T PRK06958 4 VNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYIEGRIR 83 (182)
T ss_pred ccEEEEEEEecCCCeEEEcCCCCEEEEEEEEeccccccccCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEEEEE
Confidence 89999999999999999999999999999999751 24899999999999999999999999999999999
Q ss_pred ecCCCcC---CeeEEEEEEeEEEEeccCCcc
Q 020012 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (332)
Q Consensus 139 t~syedk---grs~~eVvVe~I~FL~~k~~~ 166 (332)
++.|+++ .++.++|+|++|.||.++...
T Consensus 84 ~~~yeDkdG~kr~~~eVvA~~V~fL~sr~~~ 114 (182)
T PRK06958 84 TRKWQGQDGQDRYSTEIVADQMQMLGGRGGS 114 (182)
T ss_pred eCceECCCCcEEEEEEEEEeEEEECCCCccC
Confidence 9999877 467889999999999977643
No 14
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=6.2e-24 Score=189.71 Aligned_cols=98 Identities=20% Similarity=0.347 Sum_probs=90.3
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~----------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~ 138 (332)
||+|+||||||+|||+|++++|..+++|+||+++. +.++||+|++||++||.+++||+||++|+|+|+|+
T Consensus 4 ~N~V~LiGrLg~DPElR~t~nG~~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~AE~v~~~LkKGs~V~VeGrL~ 83 (168)
T PRK06863 4 INKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEGRLK 83 (168)
T ss_pred ccEEEEEEEcCCCCEEEEcCCCCEEEEEEEEecCcccccCCCcccccceEEEEEEEhHHHHHHHHHCCCCCEEEEEEEEE
Confidence 79999999999999999999999999999999751 24799999999999999999999999999999999
Q ss_pred ecCCCcC-C--eeEEEEEEeEEEEeccCCcc
Q 020012 139 ADPPAIE-G--QANVQVMVHSLNLIEPTSQK 166 (332)
Q Consensus 139 t~syedk-g--rs~~eVvVe~I~FL~~k~~~ 166 (332)
+++|+|+ | ++.++|+|++|.||+++...
T Consensus 84 ~r~w~DkdG~~r~~~eI~a~~i~~L~~r~~~ 114 (168)
T PRK06863 84 TRKWQDQNGQDRYTTEIQGDVLQMLGGRNQR 114 (168)
T ss_pred eCCccCCCCCEEEEEEEEEeEEEECCCCCcc
Confidence 9999887 4 67889999999999987653
No 15
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=9.2e-24 Score=189.23 Aligned_cols=101 Identities=20% Similarity=0.333 Sum_probs=90.9
Q ss_pred ccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE
Q 020012 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAG 135 (332)
Q Consensus 66 p~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~----------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeG 135 (332)
++.||+|+||||||+|||++++++|..+|+|+||+++. ++|+||+|++||++||.+++||+||++|+|+|
T Consensus 2 a~~mNkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae~v~~~l~KGs~V~VeG 81 (172)
T PRK05733 2 ARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIEG 81 (172)
T ss_pred CCcceEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEE
Confidence 45699999999999999999999999999999999751 35899999999999999999999999999999
Q ss_pred EeeecCCCcCC--eeEEEEEEe---EEEEeccCCcc
Q 020012 136 QLTADPPAIEG--QANVQVMVH---SLNLIEPTSQK 166 (332)
Q Consensus 136 rL~t~syedkg--rs~~eVvVe---~I~FL~~k~~~ 166 (332)
+|++++|+.+| ++.++|+|+ +|.||+++...
T Consensus 82 rLr~~~y~kdG~~r~~~eVvvd~~g~v~~L~~~~~~ 117 (172)
T PRK05733 82 KLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQG 117 (172)
T ss_pred EEEeCcEecCCEEEEEEEEEEeecCeEEECcCCCCC
Confidence 99999998444 677899999 89999876553
No 16
>TIGR00621 ssb single stranded DNA-binding protein (ssb). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.90 E-value=2e-23 Score=184.66 Aligned_cols=98 Identities=19% Similarity=0.355 Sum_probs=90.2
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEe
Q 020012 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (332)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~---------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL 137 (332)
+|+|+|+|+|||++|||+|++++|+.+|.|+||+++. +.++||+|++||++||.+++||+||++|+|+|+|
T Consensus 2 ~m~N~V~L~G~l~~dPe~r~t~~G~~v~~fsvA~~~~~~~~~G~~~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~L 81 (164)
T TIGR00621 2 RMVNKVILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQDGEWKEETEWHDIVIFGRLAEVAAQYLKKGSLVYVEGRL 81 (164)
T ss_pred CcccEEEEEEEeCCCCEEEECCCCCEEEEEEEEEcCceecCCCCEeccceEEEEEEehHHHHHHHHhCCCCCEEEEEEEE
Confidence 4689999999999999999999999999999999752 3479999999999999999999999999999999
Q ss_pred eecCCCcC---CeeEEEEEEeEEEEeccCC
Q 020012 138 TADPPAIE---GQANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 138 ~t~syedk---grs~~eVvVe~I~FL~~k~ 164 (332)
++++|+++ .++.++|+|++|.||+.+.
T Consensus 82 ~~~~~~~kdG~~~~~~ev~a~~i~~L~~~~ 111 (164)
T TIGR00621 82 RTRKWEDQNGQKRSKTEIIADNVQLLDLLG 111 (164)
T ss_pred EeceEECCCCcEEEEEEEEEEEEeeccccC
Confidence 99999886 4778899999999998764
No 17
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=4.3e-23 Score=184.03 Aligned_cols=99 Identities=22% Similarity=0.363 Sum_probs=89.1
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----------CCCCeeEEEEEecc-HHHHHHhhcCCCCeEEEEE
Q 020012 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----------ASHSLWIPILFEGD-LAHIASSHLKKDDHVHIAG 135 (332)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~----------~~~T~wI~VvaWGk-LAE~~aqyLkKGD~V~VeG 135 (332)
.+||+|+|||||++|||+|++++|+.+|.|+||+++ .++|+||+|++|++ +|+.+++||+||++|+|+|
T Consensus 3 ~~mN~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~~Ae~~~~~LkKG~~V~VeG 82 (166)
T PRK06341 3 GSVNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYIEG 82 (166)
T ss_pred CcceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChHHHHHHHHhcCCCCEEEEEE
Confidence 458999999999999999999999999999999974 13589999999996 9999999999999999999
Q ss_pred EeeecCCCcC---CeeEEEEEEeEE----EEeccCCc
Q 020012 136 QLTADPPAIE---GQANVQVMVHSL----NLIEPTSQ 165 (332)
Q Consensus 136 rL~t~syedk---grs~~eVvVe~I----~FL~~k~~ 165 (332)
+|++++|+++ .++.++|+|++| .||+++..
T Consensus 83 rL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~~~ 119 (166)
T PRK06341 83 QLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRGE 119 (166)
T ss_pred EEEeCcEECCCCCEEEEEEEEEEecccceEEcccCCc
Confidence 9999999887 467889999874 89987753
No 18
>PRK02801 primosomal replication protein N; Provisional
Probab=99.90 E-value=6.8e-23 Score=168.59 Aligned_cols=92 Identities=14% Similarity=0.261 Sum_probs=82.0
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-C-------CCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-S-------HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~-~-------~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t 139 (332)
|||.|+|+|||++|||+|+|++|.+++.|+||+++. . .++||+|++||++||.+++||+||++|.|+|+|++
T Consensus 1 mmN~v~L~Grl~~dpelr~Tp~G~~v~~f~La~~~~~~ea~~~r~~~~~i~~va~G~~Ae~~~~~l~kGs~v~V~G~L~~ 80 (101)
T PRK02801 1 MTNRLVLSGTVCRTPKRKVSPSGIPHCQFVLEHRSVQEEAGLHRQAWCRMPVIVSGNQFQAITQSITVGSKITVQGFISC 80 (101)
T ss_pred CccEEEEEEEECcCcceEECCCCCeEEEEEEEEeCeEecCCCceeEEEEEEEEEEcHHHHHHHhhcCCCCEEEEEEEEEE
Confidence 689999999999999999999999999999999741 1 13789999999999999999999999999999998
Q ss_pred cCCCcC-CeeEEEEEEeEEEEec
Q 020012 140 DPPAIE-GQANVQVMVHSLNLIE 161 (332)
Q Consensus 140 ~syedk-grs~~eVvVe~I~FL~ 161 (332)
|+++ |+..+.|+|++|+|+.
T Consensus 81 --~~~~~g~~~~~v~~~~i~~l~ 101 (101)
T PRK02801 81 --HQGRNGLSKLVLHAEQIELID 101 (101)
T ss_pred --eECCCCCEEEEEEEEEEEECC
Confidence 4555 7666779999999974
No 19
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=99.89 E-value=2.8e-23 Score=166.25 Aligned_cols=92 Identities=23% Similarity=0.399 Sum_probs=82.4
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-----C----CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-----A----SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~-----~----~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t 139 (332)
||+|+|+|+|++||+++++++|+.++.|+||+++ . ..++||+|++||++|+.+++||+|||+|+|+|+|++
T Consensus 1 mN~v~l~G~l~~~p~~~~~~~g~~~~~f~la~~~~~~~~~~~~~~~~~~~~v~~~g~~A~~~~~~l~kG~~V~V~G~l~~ 80 (104)
T PF00436_consen 1 MNKVTLIGRLGKDPELRYTKNGTPVARFSLAVNRRFKDDGGEGDEKTDWINVVAWGKLAENVAEYLKKGDRVYVEGRLRT 80 (104)
T ss_dssp EEEEEEEEEESSSEEEEEETTSEEEEEEEEEEEEEEEETTSCEEEEEEEEEEEEEHHHHHHHHHH--TT-EEEEEEEEEE
T ss_pred CcEEEEEEEECCCcEEEECCCCCEEEEEEEEEecEEeeeeccCccceEEEEEEeeeecccccceEEcCCCEEEEEEEEEe
Confidence 7999999999999999999999999999999886 1 357999999999999999999999999999999999
Q ss_pred cCCCcC-C--eeEEEEEEeEEEEe
Q 020012 140 DPPAIE-G--QANVQVMVHSLNLI 160 (332)
Q Consensus 140 ~syedk-g--rs~~eVvVe~I~FL 160 (332)
+.|+++ | ++.++|+|++|.||
T Consensus 81 ~~~~~~~G~~~~~~~i~a~~i~fl 104 (104)
T PF00436_consen 81 RTYEDKDGQKRYRVEIIADNIEFL 104 (104)
T ss_dssp EEEESTTSSEEEEEEEEEEEEEE-
T ss_pred eEEECCCCCEEEEEEEEEEEEEeC
Confidence 999888 5 67889999999997
No 20
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.89 E-value=8.9e-23 Score=188.94 Aligned_cols=98 Identities=17% Similarity=0.264 Sum_probs=89.9
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~-~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
.-+|+|+|+|||++|||+|+|++|+.+|.|+|||++. .+++||+|++||++||.|+ +|+|||+|+|+|+|++++|+++
T Consensus 107 ~~~N~V~LiGrL~~DPelR~t~~G~~va~f~lAvnr~~~~td~i~~v~wg~~Ae~~~-~l~KG~~V~V~GrL~sr~y~~k 185 (219)
T PRK05813 107 KNPNEIFLDGYICKEPVYRTTPFGREIADLLLAVNRPYNKSDYIPCIAWGRNARFCK-TLEVGDNIRVWGRVQSREYQKK 185 (219)
T ss_pred CCccEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCCCCCceEEEEEEEhHHhHHHh-hCCCCCEEEEEEEEEecceEcC
Confidence 4599999999999999999999999999999999985 3689999999999999976 6999999999999999999875
Q ss_pred -C------eeEEEEEEeEEEEeccCCc
Q 020012 146 -G------QANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 146 -g------rs~~eVvVe~I~FL~~k~~ 165 (332)
+ ++.|+|.|++|.||+++..
T Consensus 186 ~g~~~g~kr~~~eV~v~~i~~l~~~~~ 212 (219)
T PRK05813 186 LSEGEVVTKVAYEVSISKMEKVEKEEA 212 (219)
T ss_pred CCCccceEEEEEEEEEEEEEEcCChhh
Confidence 2 7789999999999987654
No 21
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.88 E-value=1.3e-22 Score=179.35 Aligned_cols=98 Identities=20% Similarity=0.306 Sum_probs=83.7
Q ss_pred ccceEEEEEEeCCCCeEEECC-CCcEEEEEEEEEcC---------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEe
Q 020012 68 VANSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHA---------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~-sG~~vA~fsLAv~~---------~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL 137 (332)
|||+|+|||||++|||+|+|+ +|..++.|++|+++ ...++||+|++||++||++.+||+||++|+|+|+|
T Consensus 2 ~~Nkv~LvG~l~~DPE~r~t~~g~~~v~~~~~a~~r~~~~~~~~~~~~t~~~~vv~wgk~Ae~~~~yl~KG~~V~VeG~l 81 (167)
T COG0629 2 MMNKVILVGRLTRDPELRYTPNGGAVVALFSAAVNRRFDNQSGERDEETDWIRVVIWGKLAENAAEYLKKGSLVYVEGRL 81 (167)
T ss_pred CcceEEEEeecccCcceeecCCCCeeeEEEEEEeccccccCCcccccccceEEEEEehHHHHHHHHHhcCCCEEEEEEEE
Confidence 799999999999999999999 55677778888775 13579999999999999999999999999999999
Q ss_pred eecCCCcC-C--eeE----EEEEEeEEEEeccCCc
Q 020012 138 TADPPAIE-G--QAN----VQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 138 ~t~syedk-g--rs~----~eVvVe~I~FL~~k~~ 165 (332)
+++.|+++ + |+. .++++..+.+++.++.
T Consensus 82 ~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 82 QTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EeeeeecCCCcceeeEEEEEEEeehhhhhccCccc
Confidence 99999987 4 233 3567778888887754
No 22
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.87 E-value=6.7e-22 Score=179.20 Aligned_cols=90 Identities=14% Similarity=0.231 Sum_probs=82.6
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-----------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEE
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~-----------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGr 136 (332)
.+|.|+|||||++|||||++++|..+|+|+||+++. .+++||+|++|+++||++++||+|||+|+|+||
T Consensus 3 ~~~~VtLiGrL~~DPElR~t~sG~~va~FrVAv~~r~~~~~~g~~~d~~t~fi~V~~Wg~~Ae~va~~L~KGd~V~V~Gr 82 (186)
T PRK07772 3 GDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNEWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVTGR 82 (186)
T ss_pred ccCEEEEEEEeCCCCeEEEcCCCCEEEEEEEEecCcceecCCCcEeccCceEEEEEEecHHHHHHHHhcCCCCEEEEEEE
Confidence 379999999999999999999999999999998631 257899999999999999999999999999999
Q ss_pred eeecCCCcC---CeeEEEEEEeEE
Q 020012 137 LTADPPAIE---GQANVQVMVHSL 157 (332)
Q Consensus 137 L~t~syedk---grs~~eVvVe~I 157 (332)
|++++|+++ .++.++|+|++|
T Consensus 83 L~~r~wedkdG~~rt~~eV~a~~V 106 (186)
T PRK07772 83 LKQRSYETREGEKRTVVELEVDEI 106 (186)
T ss_pred EEcCceECCCCCEEEEEEEEEEEc
Confidence 999999887 478899999965
No 23
>PRK05853 hypothetical protein; Validated
Probab=99.82 E-value=6.6e-20 Score=162.92 Aligned_cols=85 Identities=16% Similarity=0.226 Sum_probs=76.2
Q ss_pred EEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 020012 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (332)
Q Consensus 74 LIGrLg~DPElr~T~sG~~vA~fsLAv~~~----------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~sye 143 (332)
|||||++|||+++++ |..+|+|+||+++. .+|+||+|++||++||++++||+||++|+|+|+|++++|+
T Consensus 1 ivGrLg~DPelr~~~-g~~va~F~lAvn~r~~~~~Ge~~d~~T~wi~V~~wg~lAe~v~~~L~KG~~V~V~GrL~~~~we 79 (161)
T PRK05853 1 VVGHIVNDPQRRKVG-DQEVIKFRVASNSRRRTADGGWEPGNSLFITVNCWGRLVTGVGAALGKGAPVIVVGHVYTSEYE 79 (161)
T ss_pred CeEcccCCCEEEEEC-CceEEEEEEEECCCeECCCCCEeccCccEEEEEEEhHHHHHHHHHcCCCCEEEEEEEEEccceE
Confidence 699999999999985 78999999999751 2489999999999999999999999999999999999998
Q ss_pred cC-C--eeEEEEEEeEEEE
Q 020012 144 IE-G--QANVQVMVHSLNL 159 (332)
Q Consensus 144 dk-g--rs~~eVvVe~I~F 159 (332)
++ | ++.++|+|++|-.
T Consensus 80 dkdG~~r~~~eV~a~~Vg~ 98 (161)
T PRK05853 80 DRDGNRRSSLEMRATSVGP 98 (161)
T ss_pred CCCCCEEEEEEEEEEEecc
Confidence 87 4 6788999998743
No 24
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=99.81 E-value=5.2e-19 Score=140.06 Aligned_cols=89 Identities=22% Similarity=0.325 Sum_probs=82.3
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC--------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA--------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~--------~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~sye 143 (332)
|+|+|+|+++|+++++++|..++.|+|++++. .+++||+|++||++|+.+++||+|||+|+|+|+|+++.|+
T Consensus 1 v~l~G~l~~~p~~~~~~~g~~~~~~~v~~~~~~~~~~~~~~~~~~~~v~~~g~~a~~~~~~~~kG~~V~v~G~l~~~~~~ 80 (100)
T cd04496 1 VILIGRLGKDPELRYTPSGTPVARFSLAVNRRRKDRDEEEEETDWIRVVAFGKLAENAAKYLKKGDLVYVEGRLRTRSWE 80 (100)
T ss_pred CEEEEEecCCCEEEECCCCCEEEEEEEEEcCceecccccccccEEEEEEEEhHHHHHHHHHhCCCCEEEEEEEEEeceeE
Confidence 58999999999999999999999999998762 3689999999999999999999999999999999999998
Q ss_pred cC---CeeEEEEEEeEEEEe
Q 020012 144 IE---GQANVQVMVHSLNLI 160 (332)
Q Consensus 144 dk---grs~~eVvVe~I~FL 160 (332)
++ .+..++|+|++|.++
T Consensus 81 ~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 81 DKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred CCCCCEEEEEEEEEEEEEEC
Confidence 87 467889999999875
No 25
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.77 E-value=5e-18 Score=157.40 Aligned_cols=96 Identities=18% Similarity=0.196 Sum_probs=85.9
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee-cCCC-c
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA-DPPA-I 144 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~-~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t-~sye-d 144 (332)
..|+|+|||+|++|||++|+..|..++.|+|||++ +..+|||+|++|++|||.+. |+||++|+|+|+|++ +.++ +
T Consensus 7 ~~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rlae~~~--l~kG~~v~VeGqlrsy~~~~~G 84 (219)
T PRK05813 7 ENNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERLLAGMD--LKVGTLVIVEGQLRSYNKFIDG 84 (219)
T ss_pred hcCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhhhhhhc--ccCCCEEEEEEEEEEeccCCCC
Confidence 47999999999999999999999999999999998 56789999999999999999 999999999999992 2342 2
Q ss_pred CCeeEEEEEEeEEEEeccCCc
Q 020012 145 EGQANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 145 kgrs~~eVvVe~I~FL~~k~~ 165 (332)
+.|+.++|+|++|.||+++..
T Consensus 85 ~~R~vl~V~a~~i~~l~~~~~ 105 (219)
T PRK05813 85 KNRLILTVFARNIEYCDERSD 105 (219)
T ss_pred cEEEEEEEEEEEEEEccCCCc
Confidence 258889999999999998753
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.61 E-value=1.3e-15 Score=135.32 Aligned_cols=99 Identities=14% Similarity=0.160 Sum_probs=86.8
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC------------CCCCeeEEEEEec-cHHHHHHhhcCCCCeEEE
Q 020012 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA------------ASHSLWIPILFEG-DLAHIASSHLKKDDHVHI 133 (332)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~------------~~~T~wI~VvaWG-kLAE~~aqyLkKGD~V~V 133 (332)
+.+|+|+|+|+||+||.++...+|++|.-|+|++.. ...|+||+|.+|+ .||+.+.+||+||++|||
T Consensus 53 ~~vnkv~lvG~VGqdPl~k~~rngrpVtiFsv~T~~~~k~r~~q~g~~~~~tqWHRVsVf~~~L~d~~~k~lkKGsriyv 132 (175)
T KOG1653|consen 53 RGVNKVILVGRVGQDPLQKILRNGRPVTIFSVGTGGMFKQRLYQAGDQPQPTQWHRVSVFNEVLADYALKYLKKGSRIYV 132 (175)
T ss_pred cccceEEEEcccccchHHHhhcCCCeEEEEEeecCccccccccccCCcCCcceeEEEEeeCchHHHHHHHHhcCCCEEEE
Confidence 779999999999999999999999999999999863 2458999999999 799999999999999999
Q ss_pred EEEeeecCCCcC-----CeeEEEEEEeEEEEeccCCc
Q 020012 134 AGQLTADPPAIE-----GQANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 134 eGrL~t~syedk-----grs~~eVvVe~I~FL~~k~~ 165 (332)
+|+|.++-+.++ .+...-|++++|.|+.....
T Consensus 133 eG~iey~g~~~d~~g~~~r~~t~iIa~~v~Fl~~a~~ 169 (175)
T KOG1653|consen 133 EGKIEYRGENDDIQGNVKRIPTIIIARDVSFLIDAIF 169 (175)
T ss_pred eeeEEeeeeeccccCceeecceEEEechhHHHHHHhh
Confidence 999999776554 24566889999999876543
No 27
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.60 E-value=3.2e-07 Score=77.30 Aligned_cols=90 Identities=18% Similarity=0.212 Sum_probs=76.3
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CC-CeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SH-SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~-------~~-T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
||.+.|.|.|..-+.+||||.|-+++.|.|..... .. -.-|++++.|++|+...+ +..|..|.|+|-|..
T Consensus 1 mN~l~Ltg~v~~~~~lryTPAGIp~~~~~LeH~S~q~EAG~~Rqv~~~i~ava~G~~a~~~~~-l~~Gs~v~v~GFLa~- 78 (107)
T PRK00036 1 MNTLELSARVLECGAMRHTPAGLPALELLLVHESEVVEAGHPRRVELTISAVALGDLALLLAD-TPLGTEMQVQGFLAP- 78 (107)
T ss_pred CCEEEEEEEEeccCccccCCCCCceEEEEEEEeEEeEeCCCcceEEEEEEEEEEhhHHHHhcc-cCCCCEEEEEEEEEE-
Confidence 59999999999999999999999999999987641 11 267899999999999886 999999999999997
Q ss_pred CCCcCCeeEEEEEEeEEEEecc
Q 020012 141 PPAIEGQANVQVMVHSLNLIEP 162 (332)
Q Consensus 141 syedkgrs~~eVvVe~I~FL~~ 162 (332)
...+....-+.+++|++++.
T Consensus 79 --~~~~~~~LVLHi~~Ie~i~~ 98 (107)
T PRK00036 79 --ARKDSVKVKLHLQQARRIAG 98 (107)
T ss_pred --CCCCCCcEEEEhHHeEEccc
Confidence 22355667788999999944
No 28
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=98.28 E-value=1.4e-05 Score=66.61 Aligned_cols=94 Identities=15% Similarity=0.216 Sum_probs=77.9
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-CC-----C--eeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 020012 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-SH-----S--LWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (332)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~-~~-----T--~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~ 138 (332)
.+.|.+.|+|.|.+-|..+|||+|-+.|.|.|..+.- .+ . .-+++..-|+.|+..-+.+..|..|.|+|-|.
T Consensus 2 ~~~Nrl~L~g~vak~~~r~~sPsGIphc~f~Lehrs~q~Eag~~RQv~~~mpv~vsG~qa~~lt~~i~~Gs~i~v~GFla 81 (103)
T COG2965 2 NMTNRLSLSGTVAKVPVRRYSPSGIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSGRQAEELTQSITVGSYILVVGFLA 81 (103)
T ss_pred CccceEEEEEEeeccceeeeCCCCCeeEEEEEeecchhhhCCcceeEEEEccEEeechhhhhhhhccccccEEEEEEEEE
Confidence 3679999999999999999999999999999987651 11 1 45788999999999999899999999999998
Q ss_pred ecCCCcCCeeEEEEEEeEEEEec
Q 020012 139 ADPPAIEGQANVQVMVHSLNLIE 161 (332)
Q Consensus 139 t~syedkgrs~~eVvVe~I~FL~ 161 (332)
...- ..+-...-|.+++|.|++
T Consensus 82 ~~~~-~sg~~~lvlha~qi~~id 103 (103)
T COG2965 82 CHKR-RSGLSKLVLHAEQIEFID 103 (103)
T ss_pred eecc-cCCccEEEEEeeEEEecC
Confidence 7542 125566778888888874
No 29
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=97.51 E-value=0.00065 Score=50.58 Aligned_cols=75 Identities=17% Similarity=0.251 Sum_probs=57.1
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEEE
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~e 151 (332)
|.+.|+|.+-. .+|..++.++|. +.|.-+.|++|++.++...+.|+.|+.|.|.|++....- + .++
T Consensus 1 V~v~G~V~~~~-----~~~~~~~~~~l~----D~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~~~---~--~~~ 66 (75)
T PF01336_consen 1 VTVEGRVTSIR-----RSGGKIVFFTLE----DGTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRYNG---G--ELE 66 (75)
T ss_dssp EEEEEEEEEEE-----EEETTEEEEEEE----ETTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEETT---S--SEE
T ss_pred CEEEEEEEEEE-----cCCCCEEEEEEE----ECCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEECC---c--cEE
Confidence 67888887532 445556677776 456899999999888889999999999999999998732 1 467
Q ss_pred EEEeEEEEe
Q 020012 152 VMVHSLNLI 160 (332)
Q Consensus 152 VvVe~I~FL 160 (332)
|.++++..|
T Consensus 67 l~~~~i~~l 75 (75)
T PF01336_consen 67 LIVPKIEIL 75 (75)
T ss_dssp EEEEEEEEE
T ss_pred EEECEEEEC
Confidence 888877654
No 30
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=97.30 E-value=0.0044 Score=47.16 Aligned_cols=74 Identities=16% Similarity=0.168 Sum_probs=57.8
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEEE
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~e 151 (332)
+.+.|-|. +... +.+| .|.++|. +.+.-+.|++|.+..+.+...|+.|+.|.|.|++..+.+. ..++
T Consensus 2 ~~v~g~v~-~i~~--tk~g--~~~~~L~----D~~~~i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~~~~~~----~~~~ 68 (78)
T cd04489 2 VWVEGEIS-NLKR--PSSG--HLYFTLK----DEDASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEPR----GGYQ 68 (78)
T ss_pred EEEEEEEe-cCEE--CCCc--EEEEEEE----eCCeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECCC----CEEE
Confidence 56788887 3444 7777 7888887 3356799999999988889999999999999999976542 2367
Q ss_pred EEEeEEE
Q 020012 152 VMVHSLN 158 (332)
Q Consensus 152 VvVe~I~ 158 (332)
++|+++.
T Consensus 69 l~v~~i~ 75 (78)
T cd04489 69 LIVEEIE 75 (78)
T ss_pred EEEEEEE
Confidence 7777764
No 31
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=96.83 E-value=0.011 Score=46.22 Aligned_cols=73 Identities=18% Similarity=0.183 Sum_probs=55.3
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEEE
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~e 151 (332)
|.+-|.|...+. .+|. ++|+|- ++..-|+|++|...+..+...++.||.|.|.|++.. .+-.|+
T Consensus 1 v~v~GeVs~~~~----~~GH--vyfsLk----D~~a~i~cv~f~~~~~~~~~~l~~Gd~V~v~G~v~~------~~G~~q 64 (73)
T cd04487 1 VHIEGEVVQIKQ----TSGP--TIFTLR----DETGTVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEP------RDGQLQ 64 (73)
T ss_pred CEEEEEEecccc----CCCC--EEEEEE----cCCEEEEEEEEchhccCCcCCCCCCCEEEEEEEEec------CCeEEE
Confidence 356788877663 5666 568884 233569999999888667778999999999999874 356688
Q ss_pred EEEeEEEEe
Q 020012 152 VMVHSLNLI 160 (332)
Q Consensus 152 VvVe~I~FL 160 (332)
++|+++..+
T Consensus 65 l~v~~i~~~ 73 (73)
T cd04487 65 IEVESLEVL 73 (73)
T ss_pred EEEeeEEEC
Confidence 999888754
No 32
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=96.63 E-value=0.023 Score=42.99 Aligned_cols=74 Identities=15% Similarity=0.228 Sum_probs=55.5
Q ss_pred CCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEEEEEEeEEE
Q 020012 79 DAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLN 158 (332)
Q Consensus 79 g~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~eVvVe~I~ 158 (332)
...++.+.+.+|+.++.++|. +.+--+.|++|++.-+. ...|+.|..|.|.|++... . ...++.+.++.
T Consensus 6 v~~~~~~~tk~g~~~~~~~l~----D~tg~i~~~~f~~~~~~-~~~l~~g~~v~v~G~v~~~--~----~~~~l~~~~i~ 74 (83)
T cd04492 6 IKSKELRTAKNGKPYLALTLQ----DKTGEIEAKLWDASEED-EEKFKPGDIVHVKGRVEEY--R----GRLQLKIQRIR 74 (83)
T ss_pred EEEeeeecccCCCcEEEEEEE----cCCCeEEEEEcCCChhh-HhhCCCCCEEEEEEEEEEe--C----CceeEEEEEEE
Confidence 345677788899888888887 44567999999965543 6789999999999999652 1 14567788887
Q ss_pred EeccC
Q 020012 159 LIEPT 163 (332)
Q Consensus 159 FL~~k 163 (332)
.++..
T Consensus 75 ~l~~~ 79 (83)
T cd04492 75 LVTEE 79 (83)
T ss_pred ECCcc
Confidence 76643
No 33
>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.60 E-value=0.019 Score=45.62 Aligned_cols=68 Identities=19% Similarity=0.138 Sum_probs=54.8
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHHHHhhcC-CCCeEEEEEEeeecCCCcC
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLK-KDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGk-LAE~~aqyLk-KGD~V~VeGrL~t~syedk 145 (332)
|.+-|.|- +.|.|.+.+|+.+..|.|+ +.|+-|.|..|.+ .-+.. ..|+ +|+.|.|.|.+..+.|..+
T Consensus 2 v~i~G~Vf-~~e~re~k~g~~i~~~~it----D~t~Si~~K~F~~~~~~~~-~~ik~~G~~v~v~G~v~~D~f~~e 71 (82)
T cd04484 2 VVVEGEVF-DLEIRELKSGRKILTFKVT----DYTSSITVKKFLRKDEKDK-EELKSKGDWVRVRGKVQYDTFSKE 71 (82)
T ss_pred EEEEEEEE-EEEEEEecCCCEEEEEEEE----cCCCCEEEEEeccCChhHH-hhcccCCCEEEEEEEEEEccCCCc
Confidence 77889986 5799999999988888777 4677888988873 33333 5699 9999999999999998654
No 34
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=96.54 E-value=0.044 Score=39.09 Aligned_cols=47 Identities=19% Similarity=0.111 Sum_probs=40.4
Q ss_pred CcEEEEEEEEEcCCCCC-eeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 90 GKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 90 G~~vA~fsLAv~~~~~T-~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
|+.++.+.|. +.+ ..+.|++|.+..+....+++.|+.|.|.|++...
T Consensus 15 ~~~~~~~~l~----D~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~~ 62 (75)
T cd03524 15 EGKVLIFTLT----DGTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKKF 62 (75)
T ss_pred CCeEEEEEEE----cCCCCEEEEEEEchHHHHHHhhccCCCEEEEEEEEEec
Confidence 6667777776 557 8999999999998888999999999999999764
No 35
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=96.36 E-value=0.016 Score=47.72 Aligned_cols=67 Identities=13% Similarity=0.009 Sum_probs=52.8
Q ss_pred cceEEEEEEeCCCCeEEECCCC---cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDG---KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG---~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~ 138 (332)
++.+.+.|||.+--+++...++ ..+..+.|+ .+++.-|.+++|+++|+.....|+.|+.++|+|-..
T Consensus 9 ~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~---De~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V 78 (104)
T cd04474 9 QNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLL---DEDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSV 78 (104)
T ss_pred CCcEEEEEEEeeccccccccCCCCCcEEEEEEEE---ECCCCEEEEEEehHHHHHhhcccccccEEEEeccEE
Confidence 5679999999986666655442 445566665 234789999999999999999999999999998544
No 36
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.00 E-value=0.067 Score=39.83 Aligned_cols=76 Identities=14% Similarity=0.197 Sum_probs=55.3
Q ss_pred EEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEEEEE
Q 020012 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVM 153 (332)
Q Consensus 74 LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~eVv 153 (332)
++|.|. +.+.+.+.+|+.++.++|. +.+.-+.|++|.+.-+.+...|+.|..|.|.|++.... ..+++.
T Consensus 2 i~g~v~-~~~~~~~k~g~~~~~~~l~----D~tg~~~~~~f~~~~~~~~~~l~~g~~v~v~G~v~~~~------~~~~l~ 70 (84)
T cd04485 2 VAGLVT-SVRRRRTKKGKRMAFVTLE----DLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRD------GGLRLI 70 (84)
T ss_pred EEEEEE-EeEEEEcCCCCEEEEEEEE----eCCCeEEEEECHHHHHHHHHHhcCCCEEEEEEEEEecC------CceEEE
Confidence 566665 4566788889888888776 44566999999877555688899999999999997532 135666
Q ss_pred EeEEEEe
Q 020012 154 VHSLNLI 160 (332)
Q Consensus 154 Ve~I~FL 160 (332)
++++.-+
T Consensus 71 ~~~i~~~ 77 (84)
T cd04485 71 AERIEDL 77 (84)
T ss_pred eeccccH
Confidence 6665433
No 37
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende
Probab=95.34 E-value=0.16 Score=41.15 Aligned_cols=72 Identities=17% Similarity=0.090 Sum_probs=53.1
Q ss_pred EEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEE
Q 020012 73 NLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (332)
Q Consensus 73 ~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL--AE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~ 150 (332)
.+.|.|..-+. ...+|. ++|+|. +++.-|+|++|... +..+...|+.||.|.|.|++....
T Consensus 2 ~v~GeVs~~~~--~~~sGH--~yFtlk----D~~~~i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~v~~y~--------- 64 (91)
T cd04482 2 RVTGKVVEEPR--TIEGGH--VFFKIS----DGTGEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT--------- 64 (91)
T ss_pred EEEEEEeCCee--cCCCCC--EEEEEE----CCCcEEEEEEECcccccccccCCCCCCCEEEEEEEEecCC---------
Confidence 35677765442 225666 568885 34468999999987 667888899999999999987554
Q ss_pred EEEEeEEEEec
Q 020012 151 QVMVHSLNLIE 161 (332)
Q Consensus 151 eVvVe~I~FL~ 161 (332)
++.|+.+..+.
T Consensus 65 ql~ve~l~~~g 75 (91)
T cd04482 65 TLNLEKLRVIR 75 (91)
T ss_pred EEEEEEEEECC
Confidence 58888888654
No 38
>PRK07211 replication factor A; Reviewed
Probab=95.18 E-value=0.12 Score=53.78 Aligned_cols=80 Identities=15% Similarity=0.168 Sum_probs=61.3
Q ss_pred cceEEEEEEeCCCCeEEECC--C--C-cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 020012 69 ANSVNLIGHVDAPVQFQTSS--D--G-KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~--s--G-~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~sye 143 (332)
+|.|++.|||..--++|... + + ..++++.|+ .+|--|++++|++.|+.....|..||.|+|.|+.. ..|
T Consensus 63 ~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~----DeTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~-~~y- 136 (485)
T PRK07211 63 MDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVA----DETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK-DGY- 136 (485)
T ss_pred CCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEE----cCCCeEEEEEechHhHhhhcccCCCCEEEEeceEe-ccc-
Confidence 69999999999777765442 2 1 367778777 57889999999999999999999999999999874 222
Q ss_pred cCCeeEEEEEEeEEE
Q 020012 144 IEGQANVQVMVHSLN 158 (332)
Q Consensus 144 dkgrs~~eVvVe~I~ 158 (332)
+..+|.++.+.
T Consensus 137 ----s~~El~i~~ve 147 (485)
T PRK07211 137 ----NGLEVSVDKVE 147 (485)
T ss_pred ----cceEEEEeeEE
Confidence 23466666543
No 39
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=94.44 E-value=0.43 Score=39.09 Aligned_cols=77 Identities=17% Similarity=0.256 Sum_probs=58.1
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHH-hhcCCCCeEEEEEEeeecCCCcCCe
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQLTADPPAIEGQ 147 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~a-qyLkKGD~V~VeGrL~t~syedkgr 147 (332)
+-.|-+.|.|.. ++...+|. ++|+|.- +.--++|++|...+..+. ..++-|++|.|.|++..... +
T Consensus 21 ~~~vwV~GEIs~---~~~~~~gh--~YftLkD----~~a~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~~~y~~----~ 87 (99)
T PF13742_consen 21 LPNVWVEGEISN---LKRHSSGH--VYFTLKD----EEASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYEP----R 87 (99)
T ss_pred cCCEEEEEEEee---cEECCCce--EEEEEEc----CCcEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEECC----C
Confidence 456788888874 33333444 6899984 348899999999999888 88999999999999987653 2
Q ss_pred eEEEEEEeEEE
Q 020012 148 ANVQVMVHSLN 158 (332)
Q Consensus 148 s~~eVvVe~I~ 158 (332)
-.+++.|++|+
T Consensus 88 G~~sl~v~~i~ 98 (99)
T PF13742_consen 88 GSLSLIVEDID 98 (99)
T ss_pred cEEEEEEEEeE
Confidence 34667777664
No 40
>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit. PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.
Probab=94.19 E-value=0.9 Score=35.91 Aligned_cols=72 Identities=18% Similarity=0.327 Sum_probs=53.9
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhcCCCCeEEEEEEeeecCCCcCCeeE
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE--~~aqyLkKGD~V~VeGrL~t~syedkgrs~ 149 (332)
|.++|-|.. .. .|.+|+. .++|. +.+.-+.|++|.+.-+ .+...|..|..|+|.|++..+ + .
T Consensus 2 v~i~GiI~~-v~--~TK~g~~--~~~le----D~~G~~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g~v~~~---~-~--- 65 (79)
T cd04490 2 VSIIGMVND-VR--STKNGHR--IVELE----DTTGRITVLLTKDKEELFEEAEDILPDEVIGVSGTVSKD---G-G--- 65 (79)
T ss_pred EEEEEEEeE-EE--EcCCCCE--EEEEE----CCCCEEEEEEeCchhhhhhhhhhccCCCEEEEEEEEecC---C-C---
Confidence 567777763 44 6788887 44444 4567799999999988 889999999999999999431 1 2
Q ss_pred EEEEEeEEEEe
Q 020012 150 VQVMVHSLNLI 160 (332)
Q Consensus 150 ~eVvVe~I~FL 160 (332)
++.|++|-+-
T Consensus 66 -~l~~~~I~~~ 75 (79)
T cd04490 66 -LIFADEIFRP 75 (79)
T ss_pred -EEEEEEeEcC
Confidence 7788877654
No 41
>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A
Probab=93.54 E-value=1.8 Score=33.83 Aligned_cols=81 Identities=14% Similarity=0.221 Sum_probs=53.0
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH---HHHhhcCCCCeEEEEEEeeecCCCcCCe
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE---~~aqyLkKGD~V~VeGrL~t~syedkgr 147 (332)
.|.+-|+|.. +|. .|+ ++++.|- + .+.-+.|++-.+..+ ....+|+.||-|.|+|.+....-.....
T Consensus 1 ~V~i~Gwv~~---~R~--~g~-~~Fi~Lr-d---~~~~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~~~~ 70 (85)
T cd04100 1 EVTLAGWVHS---RRD--HGG-LIFIDLR-D---GSGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGNLAT 70 (85)
T ss_pred CEEEEEEEeh---hcc--CCC-EEEEEEE-e---CCeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCCCCC
Confidence 3788899965 332 355 5555553 2 235577776554322 2346799999999999998754211123
Q ss_pred eEEEEEEeEEEEec
Q 020012 148 ANVQVMVHSLNLIE 161 (332)
Q Consensus 148 s~~eVvVe~I~FL~ 161 (332)
..+||.++++..+.
T Consensus 71 ~~~El~~~~i~il~ 84 (85)
T cd04100 71 GEIELQAEELEVLS 84 (85)
T ss_pred CCEEEEEeEEEEEC
Confidence 56899999998874
No 42
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=93.38 E-value=0.48 Score=47.92 Aligned_cols=80 Identities=14% Similarity=0.121 Sum_probs=61.9
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCee
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs 148 (332)
+-.|-+.|-|.. ++...+|. ++|+|. ++..-|+|++|...+..+...++-|+.|.|.|++.... .+.
T Consensus 23 ~~~v~v~gEis~---~~~~~sGH--~Yf~Lk----d~~a~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~~y~----~~g 89 (438)
T PRK00286 23 LGQVWVRGEISN---FTRHSSGH--WYFTLK----DEIAQIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLYE----PRG 89 (438)
T ss_pred CCcEEEEEEeCC---CeeCCCCe--EEEEEE----cCCcEEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEEC----CCC
Confidence 456889999875 33335665 689997 33567999999999988888899999999999999754 234
Q ss_pred EEEEEEeEEEEec
Q 020012 149 NVQVMVHSLNLIE 161 (332)
Q Consensus 149 ~~eVvVe~I~FL~ 161 (332)
.|+++|++|.-..
T Consensus 90 ~~ql~v~~i~~~g 102 (438)
T PRK00286 90 DYQLIVEEIEPAG 102 (438)
T ss_pred CEEEEEEEeeeCC
Confidence 5888999887543
No 43
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=92.94 E-value=2.2 Score=34.46 Aligned_cols=84 Identities=15% Similarity=0.232 Sum_probs=54.1
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHH---HHhhcCCCCeEEEEEEeeecCCCc
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHI---ASSHLKKDDHVHIAGQLTADPPAI 144 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL---AE~---~aqyLkKGD~V~VeGrL~t~syed 144 (332)
.|.|.|+|.+ +|. .|+.++++.|- +.+..+.|++-.+. .+. ..+.|+.|+.|.|+|.+....-..
T Consensus 1 ~V~i~Gwv~~---~R~--~g~k~~Fi~Lr----D~sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~ 71 (102)
T cd04320 1 EVLIRARVHT---SRA--QGAKLAFLVLR----QQGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEEPI 71 (102)
T ss_pred CEEEEEEEEE---eec--CCCceEEEEEe----cCCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCCcc
Confidence 3788899964 332 35335555552 22456888886543 122 235699999999999997642111
Q ss_pred C--CeeEEEEEEeEEEEeccC
Q 020012 145 E--GQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 145 k--grs~~eVvVe~I~FL~~k 163 (332)
+ ....+||.|+++..|...
T Consensus 72 ~~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 72 KSCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred cCCCcCcEEEEEEEEEEEecC
Confidence 1 224699999999999754
No 44
>cd04475 RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ functiona
Probab=92.90 E-value=1.1 Score=35.93 Aligned_cols=67 Identities=18% Similarity=0.215 Sum_probs=42.6
Q ss_pred EEEEEEeCCCCeE--EECCC-CcEEEEEEEEEcCCCCC-eeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 020012 72 VNLIGHVDAPVQF--QTSSD-GKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (332)
Q Consensus 72 V~LIGrLg~DPEl--r~T~s-G~~vA~fsLAv~~~~~T-~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~sye 143 (332)
|.++|.|..--+. ..+.+ |.....-.|.+- +++ .-+.|++||+.|+.+.... |+.|++.| ++...|.
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~--D~t~~~i~vtLWg~~a~~~~~~~--~~vv~~~~-~~i~~~~ 72 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLV--DESGHSVELTLWGEQAELFDGSE--NPVIAIKG-VKVSEFN 72 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEE--eCCCCEEEEEEEHHHhhhcccCC--CCEEEEEe-eEEEecC
Confidence 5678887743333 22333 644333333322 233 3789999999999888765 99999998 5555564
No 45
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=92.80 E-value=0.58 Score=36.30 Aligned_cols=59 Identities=17% Similarity=0.139 Sum_probs=39.5
Q ss_pred EEEEeCCCCeEEEC-CCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEE-EEeee
Q 020012 74 LIGHVDAPVQFQTS-SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLTA 139 (332)
Q Consensus 74 LIGrLg~DPElr~T-~sG--~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~Ve-GrL~t 139 (332)
++|+|..=-+.+.. .+| ..+..+.|+ ++|--|++++|+..| ...++.|+.|.|. |+++.
T Consensus 2 v~~~V~~~~~~~~~~~~g~~~~~~~~~l~----D~TG~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~ 64 (82)
T cd04491 2 VEGKVLSISEPREFTRDGSEGKVQSGLVG----DETGTIRFTLWDEKA---ADDLEPGDVVRIENAYVRE 64 (82)
T ss_pred EEEEEEEccCCeEeccCCCeeEEEEEEEE----CCCCEEEEEEECchh---cccCCCCCEEEEEeEEEEe
Confidence 45555533333322 233 445555555 445679999999988 6779999999999 77654
No 46
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=92.75 E-value=0.64 Score=39.90 Aligned_cols=62 Identities=19% Similarity=0.189 Sum_probs=45.1
Q ss_pred cceEEEEEEeCC--CCeEEECCCCc-EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEE-EEee
Q 020012 69 ANSVNLIGHVDA--PVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLT 138 (332)
Q Consensus 69 ~NsV~LIGrLg~--DPElr~T~sG~-~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~Ve-GrL~ 138 (332)
++.|.++|.|-. ++....+.+|. .+....|+ ++|--|++++|++.|+ .|+.||.|.|. |..+
T Consensus 14 ~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~----D~TG~I~~tlW~~~a~----~l~~GdvV~I~na~v~ 79 (129)
T PRK06461 14 MERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVG----DETGRVKLTLWGEQAG----SLKEGEVVEIENAWTT 79 (129)
T ss_pred CCceEEEEEEEEcCCceEEEeCCCceEEEEEEEE----CCCCEEEEEEeCCccc----cCCCCCEEEEECcEEe
Confidence 478899999985 33344455664 46667666 5566699999999764 58999999999 5555
No 47
>PRK15491 replication factor A; Provisional
Probab=92.56 E-value=0.62 Score=46.95 Aligned_cols=64 Identities=17% Similarity=0.268 Sum_probs=51.1
Q ss_pred cceEEEEEEeCCCCeEEEC--CCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHH-hhcCCCCeEEEEEE
Q 020012 69 ANSVNLIGHVDAPVQFQTS--SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQ 136 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~sG--~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~a-qyLkKGD~V~VeGr 136 (332)
++.|+|.|||..--++|.. .+| ..++.+.|+ .+|--|++++|++.|+.+. .-|..|+.|.|.|.
T Consensus 67 ~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~----DeTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~ 135 (374)
T PRK15491 67 SSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVA----DETGSIRLTLWDDLADLIKTGDIEVGKSLNISGY 135 (374)
T ss_pred CCceEEEEEEeeccCCeeeecCCCCceEEEEEEEE----cCCCeEEEEEECchhhhhccCCcCCCCEEEEeee
Confidence 6899999999977666643 345 346666776 5667799999999999887 46999999999986
No 48
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=92.55 E-value=0.68 Score=47.26 Aligned_cols=79 Identities=10% Similarity=0.143 Sum_probs=62.0
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCee
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs 148 (332)
+..|-+.|.|.. ++...+|. +||+|- ++..-|+|++|...|..+.-.++-|+.|.|.|++..... +-
T Consensus 17 ~~~v~V~GEisn---~~~~~sGH--~YFtLk----D~~a~i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~~y~~----~G 83 (432)
T TIGR00237 17 FLQVWIQGEISN---FTQPVSGH--WYFTLK----DENAQVRCVMFRGNNNRLKFRPQNGQQVLVRGGISVYEP----RG 83 (432)
T ss_pred CCcEEEEEEecC---CeeCCCce--EEEEEE----cCCcEEEEEEEcChhhCCCCCCCCCCEEEEEEEEEEECC----CC
Confidence 457889999874 33345675 689995 345779999999999888888999999999999987643 34
Q ss_pred EEEEEEeEEEEe
Q 020012 149 NVQVMVHSLNLI 160 (332)
Q Consensus 149 ~~eVvVe~I~FL 160 (332)
.|+++|++|.-.
T Consensus 84 ~~ql~v~~i~~~ 95 (432)
T TIGR00237 84 DYQIICFEMQPA 95 (432)
T ss_pred cEEEEEEEeccC
Confidence 588999998754
No 49
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=92.45 E-value=0.92 Score=46.85 Aligned_cols=80 Identities=19% Similarity=0.110 Sum_probs=65.1
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEE
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~ 150 (332)
.|.++|-|.. ...+.|..|..+|.++|. +.+--+.|++|.++-+.+...|+.|..|.|+|++..+. ...
T Consensus 282 ~v~vaG~I~~-ik~~~TKkG~~maf~~le----D~tG~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~~------~~~ 350 (449)
T PRK07373 282 KVSAVVMLNE-VKKIVTKKGDPMAFLQLE----DLSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRRD------DQV 350 (449)
T ss_pred EEEEEEEEEE-eEecccCCCCEEEEEEEE----ECCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------CeE
Confidence 5788888875 677788899999998887 44567999999999999999999999999999997531 135
Q ss_pred EEEEeEEEEec
Q 020012 151 QVMVHSLNLIE 161 (332)
Q Consensus 151 eVvVe~I~FL~ 161 (332)
+|+|++|.-++
T Consensus 351 ~liv~~i~~l~ 361 (449)
T PRK07373 351 QLIVEDAEPIE 361 (449)
T ss_pred EEEEeEeecHh
Confidence 78888876554
No 50
>cd04316 ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes.
Probab=91.73 E-value=4.7 Score=33.04 Aligned_cols=81 Identities=11% Similarity=0.261 Sum_probs=54.3
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HH--HHHhhcCCCCeEEEEEEeeecCCCcCC
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIEG 146 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL--AE--~~aqyLkKGD~V~VeGrL~t~syedkg 146 (332)
.|.|-|+|.+ +|. .|+ ++++.|- + .+..+.|++-.+. .+ .....|..|+.|.|+|.+.... +.
T Consensus 14 ~V~v~Gwv~~---~R~--~g~-~~Fi~Lr-D---~~g~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~---~~ 80 (108)
T cd04316 14 EVTVAGWVHE---IRD--LGG-IKFVILR-D---REGIVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEP---KA 80 (108)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEEe-c---CCeeEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCC---CC
Confidence 4889999964 333 354 5555552 2 2346888876542 11 1335699999999999998753 22
Q ss_pred eeEEEEEEeEEEEeccCC
Q 020012 147 QANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 147 rs~~eVvVe~I~FL~~k~ 164 (332)
...+||.|++|..+....
T Consensus 81 ~~~~Ei~~~~i~il~~~~ 98 (108)
T cd04316 81 PNGVEIIPEEIEVLSEAK 98 (108)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 236899999999998653
No 51
>cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS. These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh
Probab=91.70 E-value=3.4 Score=35.03 Aligned_cols=83 Identities=16% Similarity=0.298 Sum_probs=55.3
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhcCCCCeEEEEEEeeecCC--C-cC
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPP--A-IE 145 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE--~~aqyLkKGD~V~VeGrL~t~sy--e-dk 145 (332)
.|.+.|+|.. +|. .|+ ++++.|- + .+..+.|++-.+..+ .....|+.||.|.|+|.+....- . .+
T Consensus 16 ~V~i~Gwv~~---~R~--~gk-~~Fi~Lr-D---~~g~~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~~~ 85 (135)
T cd04317 16 EVTLCGWVQR---RRD--HGG-LIFIDLR-D---RYGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVNPK 85 (135)
T ss_pred EEEEEEeEeh---hcc--cCC-EEEEEEe-c---CCeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccCCC
Confidence 5999999976 332 355 5555552 2 234588877655332 23457999999999999986431 1 11
Q ss_pred -CeeEEEEEEeEEEEeccC
Q 020012 146 -GQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 146 -grs~~eVvVe~I~FL~~k 163 (332)
....+||.|++|..|...
T Consensus 86 ~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 86 LPTGEIEVVASELEVLNKA 104 (135)
T ss_pred CCCCcEEEEEeEEEEEECC
Confidence 233589999999999865
No 52
>PF11506 DUF3217: Protein of unknown function (DUF3217); InterPro: IPR024506 This family of proteins with unknown function appears to be restricted to Mycoplasma.; PDB: 2HQL_E.
Probab=91.66 E-value=4 Score=33.89 Aligned_cols=83 Identities=19% Similarity=0.134 Sum_probs=54.2
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC--CCC--CeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--ASH--SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~--~~~--T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~sye 143 (332)
|+|.|-|-|-|..- .-+ ..+.-...+|...+ ++. |+|+-+-+-|.||-.+.+|.+|=..|.|+|-|++..
T Consensus 1 MLN~V~LEG~IeS~---kWS-~~KTGF~VTI~QkR~FG~r~FTDyyViYAN~QL~~ELEky~~k~k~isieG~L~TY~-- 74 (104)
T PF11506_consen 1 MLNTVFLEGEIESY---KWS-KKKTGFLVTIKQKRKFGERTFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRTYL-- 74 (104)
T ss_dssp --EEEEEEEEEEEE---EE--TTSSEEEEEEEEEEEETTEEEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEEEE--
T ss_pred CcceEEEeceeehh---ccc-ccCceEEEEEeehhhhccccceeEEEEEECCeeehhHHHhhhhceEEEEeeehhhHH--
Confidence 68999999987542 122 12222234455555 333 689999999999999999999999999999998743
Q ss_pred cC--CeeEEEEEEeE
Q 020012 144 IE--GQANVQVMVHS 156 (332)
Q Consensus 144 dk--grs~~eVvVe~ 156 (332)
++ +.-...|.|..
T Consensus 75 ekkS~iWKT~I~~~K 89 (104)
T PF11506_consen 75 EKKSKIWKTTIEAVK 89 (104)
T ss_dssp ETTTTEEEEEEEEEE
T ss_pred HHhcccceeeEEEEE
Confidence 44 33344454443
No 53
>PRK07211 replication factor A; Reviewed
Probab=91.29 E-value=0.58 Score=48.88 Aligned_cols=66 Identities=20% Similarity=0.241 Sum_probs=48.5
Q ss_pred cceEEEEEEeCCCCeEEEC--CCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE-Eeee
Q 020012 69 ANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTA 139 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~sG~--~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeG-rL~t 139 (332)
++.|.|+|+|..--++|.. .+|. .+..+.|+ .+|--|++++|++.|+.+ .-|..|+.|+|.| +++.
T Consensus 171 ~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~----DeTG~IR~TlW~d~Ad~~-~~le~G~Vv~I~~a~Vre 241 (485)
T PRK07211 171 LSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVG----DETGRVRVTLWDDRADLA-EELDAGESVEIVDGYVRE 241 (485)
T ss_pred CCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEE----cCCCeEEEEEechhhhhh-ccCCCCCEEEEEeeEEEe
Confidence 5789999999966666543 3452 34445554 345569999999999998 6799999999974 5543
No 54
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=91.23 E-value=1 Score=51.40 Aligned_cols=81 Identities=19% Similarity=0.222 Sum_probs=66.1
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeE
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~ 149 (332)
..|.++|-|. ..+.+.|.+|+.+|.++|. +.|--+.+++|.+.=+.+...|..|..|+|.|++..+. ..
T Consensus 978 ~~V~v~G~I~-~vk~~~TKkG~~mafltLe----D~TG~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~~------~~ 1046 (1135)
T PRK05673 978 SVVTVAGLVV-SVRRRVTKRGNKMAIVTLE----DLSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDD------GG 1046 (1135)
T ss_pred ceEEEEEEEE-EEEecccCCCCeEEEEEEE----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 4578888877 5788889999999999888 44567999999998788888999999999999997531 24
Q ss_pred EEEEEeEEEEec
Q 020012 150 VQVMVHSLNLIE 161 (332)
Q Consensus 150 ~eVvVe~I~FL~ 161 (332)
.+++|+++.-++
T Consensus 1047 ~qlii~~I~~L~ 1058 (1135)
T PRK05673 1047 LRLTAREVMDLE 1058 (1135)
T ss_pred EEEEEeecccHH
Confidence 678888887665
No 55
>PRK15491 replication factor A; Provisional
Probab=91.11 E-value=0.97 Score=45.56 Aligned_cols=71 Identities=18% Similarity=0.209 Sum_probs=50.9
Q ss_pred cceEEEEEEeCCCCeEEEC--CCCcE--EEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE-EeeecCCC
Q 020012 69 ANSVNLIGHVDAPVQFQTS--SDGKH--WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPA 143 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~sG~~--vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeG-rL~t~sye 143 (332)
...|.++|+|..--++|.. .+|.. +....|+ .+|--|++++|++.|+.+ .-|..||.|+|.+ +.+.+.|.
T Consensus 176 ~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~----DetG~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~~~~~ 250 (374)
T PRK15491 176 DSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIG----DETGKIRVTLWDGKTDLA-DKLENGDSVEIINGYARTNNYS 250 (374)
T ss_pred CccEEEEEEEEEccCceEEEecCCCeEEEEEEEEE----CCCCeEEEEEecchhccc-ccCCCCCEEEEEeceEEEeccC
Confidence 3459999999976555433 46763 4444444 344459999999999987 6699999999966 57766664
Q ss_pred c
Q 020012 144 I 144 (332)
Q Consensus 144 d 144 (332)
+
T Consensus 251 g 251 (374)
T PRK15491 251 Q 251 (374)
T ss_pred C
Confidence 4
No 56
>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha
Probab=91.09 E-value=1.2 Score=32.45 Aligned_cols=60 Identities=12% Similarity=0.152 Sum_probs=39.5
Q ss_pred EEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 74 LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
+.|+|..- ..+... |..+..+.+. +++--+.+++|+... .+...+++|+.|+|.|++...
T Consensus 2 i~~~V~~~-~~~~~~-~~~~~~~~~~----D~~g~i~~~~F~~~~-~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 2 VEGTVVSV-EVVPRR-GRRRLKVTLS----DGTGTLTLVFFNFQP-YLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred EEEEEEEE-EeccCC-CccEEEEEEE----cCCCEEEEEEECCCH-HHHhcCCCCCEEEEEEEEeec
Confidence 45665432 222222 4556666554 335679999998422 456789999999999999764
No 57
>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with
Probab=91.01 E-value=4.7 Score=31.45 Aligned_cols=81 Identities=19% Similarity=0.343 Sum_probs=51.1
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhcCCCCeEEEEEEeeecCCCcCCee
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE--~~aqyLkKGD~V~VeGrL~t~syedkgrs 148 (332)
.|.|.|+|.. +|.. |+ ++++.|- +.+.-+.|++-.+... ...+.|..|+.|.|+|.+....-......
T Consensus 1 ~V~v~Gwv~~---~R~~--g~-~~Fi~Lr----D~~~~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~ 70 (84)
T cd04323 1 RVKVFGWVHR---LRSQ--KK-LMFLVLR----DGTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAKQAPG 70 (84)
T ss_pred CEEEEEEEEE---EecC--CC-cEEEEEE----cCCeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCcccCCCC
Confidence 3788899964 3332 44 3445442 2234488877655322 23356999999999999987432101134
Q ss_pred EEEEEEeEEEEec
Q 020012 149 NVQVMVHSLNLIE 161 (332)
Q Consensus 149 ~~eVvVe~I~FL~ 161 (332)
.+||.++++..|.
T Consensus 71 ~~Ei~~~~i~vl~ 83 (84)
T cd04323 71 GYELQVDYLEIIG 83 (84)
T ss_pred CEEEEEEEEEEEc
Confidence 5899999998874
No 58
>PRK14699 replication factor A; Provisional
Probab=90.37 E-value=0.76 Score=47.93 Aligned_cols=64 Identities=17% Similarity=0.284 Sum_probs=50.3
Q ss_pred cceEEEEEEeCCCCeEEEC--CCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHh-hcCCCCeEEEEEE
Q 020012 69 ANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASS-HLKKDDHVHIAGQ 136 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~sG~--~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aq-yLkKGD~V~VeGr 136 (332)
+..|.|.|+|-.=-..|.. .+|. .++++.|| .+|--|++++|.++|+.+.. .|++||.|.|.|.
T Consensus 67 ~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~ia----DeTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~ 135 (484)
T PRK14699 67 SGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVG----DETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY 135 (484)
T ss_pred CceEEEEEEEEEecCceEEecCCCCceEEEEEEEe----cCCCeEEEEEecCccchhhhcCCCCCCEEEEcce
Confidence 5789999999876555533 2343 45556666 67789999999999998887 6999999999995
No 59
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=89.73 E-value=1.9 Score=42.58 Aligned_cols=79 Identities=15% Similarity=0.111 Sum_probs=57.2
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEE
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~ 150 (332)
.|..+. |.++.+++.+.+|+++..++|+ +.|--|+..+|+..-+ ....+..|+.|.|.|++.. |.++ .
T Consensus 13 ~v~~~~-lv~~~~~~~~knG~~yl~l~l~----D~tG~I~ak~W~~~~~-~~~~~~~g~vv~v~G~v~~--y~g~----~ 80 (314)
T PRK13480 13 QVDHFL-LIKSATKGVASNGKPFLTLILQ----DKSGDIEAKLWDVSPE-DEATYVPETIVHVKGDIIN--YRGR----K 80 (314)
T ss_pred EeeEEE-EEEEceeeecCCCCeEEEEEEE----cCCcEEEEEeCCCChh-hHhhcCCCCEEEEEEEEEE--ECCc----c
Confidence 344444 4567899999999999888888 4566799999997644 4667999999999999974 4333 2
Q ss_pred EEEEeEEEEec
Q 020012 151 QVMVHSLNLIE 161 (332)
Q Consensus 151 eVvVe~I~FL~ 161 (332)
++.+..+..+.
T Consensus 81 Ql~i~~i~~~~ 91 (314)
T PRK13480 81 QLKVNQIRLAT 91 (314)
T ss_pred eEEEEEeEECC
Confidence 34455555543
No 60
>PRK08402 replication factor A; Reviewed
Probab=89.68 E-value=1.6 Score=43.98 Aligned_cols=72 Identities=14% Similarity=0.135 Sum_probs=52.3
Q ss_pred cceEEEEEEeCCCCeEE--ECCCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 020012 69 ANSVNLIGHVDAPVQFQ--TSSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr--~T~sG--~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syed 144 (332)
+..|+++|+|.+--+.| ...+| ..|.+..|+ ++|-.+++++|++.|+.....|..||.|.|.|--..+.|.+
T Consensus 72 ~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~----DeTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a~V~e~~~G 147 (355)
T PRK08402 72 MRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIY----DDTGRARVVLWDAKVAKYYNKINVGDVIKVIDAQVRESLSG 147 (355)
T ss_pred CceeeEEEEEEEccCCceeeccCCCcceEEEEEEE----cCCCeEEEEEechhhhhhcccCCCCCEEEEECCEEeecCCC
Confidence 58899999999743333 22345 346667777 56779999999999987667799999999986444444433
No 61
>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein
Probab=89.60 E-value=6.9 Score=31.97 Aligned_cols=77 Identities=16% Similarity=0.203 Sum_probs=50.9
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HHH---HHhhcCCCCeEEEEEEeeecCCCcCC
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHI---ASSHLKKDDHVHIAGQLTADPPAIEG 146 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL--AE~---~aqyLkKGD~V~VeGrL~t~syedkg 146 (332)
|.|-|+|-. +|. .|+ ++++.|.- .+.-++|++-.+. .+. +.+.|..||.|.|+|.+....-
T Consensus 2 v~v~GwV~~---~R~--~g~-~~Fi~lrd----~~~~lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~v~~~~~---- 67 (108)
T cd04322 2 VSVAGRIMS---KRG--SGK-LSFADLQD----ESGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKTKT---- 67 (108)
T ss_pred EEEEEEEEE---Eec--CCC-eEEEEEEE----CCeEEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEecCC----
Confidence 678898875 443 355 55555542 2356888775442 122 2223999999999999975421
Q ss_pred eeEEEEEEeEEEEeccC
Q 020012 147 QANVQVMVHSLNLIEPT 163 (332)
Q Consensus 147 rs~~eVvVe~I~FL~~k 163 (332)
..+||.++.+..+.+.
T Consensus 68 -g~~El~~~~~~ils~~ 83 (108)
T cd04322 68 -GELSIFVKEFTLLSKS 83 (108)
T ss_pred -CCEEEEeCEeEEeecc
Confidence 3479999999999754
No 62
>cd04319 PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Pyrococcus horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The archeal enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose.
Probab=88.71 E-value=12 Score=30.45 Aligned_cols=81 Identities=23% Similarity=0.330 Sum_probs=52.6
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH---HHhhcCCCCeEEEEEEeeecCCCcCCe
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI---ASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~---~aqyLkKGD~V~VeGrL~t~syedkgr 147 (332)
.|.+.|+|.. +|. .|+. +++.| + +.+..+.|++-.++++. ....|..||.|.|+|.+.... +..
T Consensus 1 ~V~v~Gwv~~---~R~--~gk~-~Fi~l--r--D~~g~iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~---~~~ 67 (103)
T cd04319 1 KVTLAGWVYR---KRE--VGKK-AFIVL--R--DSTGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADP---RAP 67 (103)
T ss_pred CEEEEEEEEe---EEc--CCCe-EEEEE--e--cCCeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECC---CCC
Confidence 3788899965 332 3443 44444 2 22345888886543222 224688999999999998653 212
Q ss_pred eEEEEEEeEEEEeccCC
Q 020012 148 ANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 148 s~~eVvVe~I~FL~~k~ 164 (332)
..+||.|+++..+....
T Consensus 68 ~~~Ei~~~~i~vl~~a~ 84 (103)
T cd04319 68 GGAEVHGEKLEIIQNVE 84 (103)
T ss_pred CCEEEEEEEEEEEecCC
Confidence 35999999999997653
No 63
>PRK12366 replication factor A; Reviewed
Probab=88.08 E-value=4.4 Score=43.58 Aligned_cols=83 Identities=19% Similarity=0.134 Sum_probs=54.5
Q ss_pred ceEEEEEEeCCCCeEEECC--CCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC-C
Q 020012 70 NSVNLIGHVDAPVQFQTSS--DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE-G 146 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~--sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedk-g 146 (332)
+.+.|.|||..--++|... +|. .-.|++..- +++-=|++++|++.|+.... |..||.|+|+|--. +.|... +
T Consensus 292 ~~~~I~grV~~~~~~R~f~~~~g~-gkv~s~~l~--D~tG~IR~t~w~~~~d~~~~-l~~G~vy~is~~~v-k~y~~~~~ 366 (637)
T PRK12366 292 EEVDVKGRIIAISDKREVERDDRT-AEVQDIELA--DGTGRVRVSFWGEKAKILEN-LKEGDAVKIENCKV-RTYYDNEG 366 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCc-EEEEEEEEE--cCCCeEEEEEeCchhhhhcc-cCCCCEEEEecCEE-eeccccCC
Confidence 4899999999888887653 444 222333332 23345999999999998765 78999999998332 244322 3
Q ss_pred eeEEEEEEeEE
Q 020012 147 QANVQVMVHSL 157 (332)
Q Consensus 147 rs~~eVvVe~I 157 (332)
...|++.+..-
T Consensus 367 ~~~~El~~~~~ 377 (637)
T PRK12366 367 EKRVDLNAGYS 377 (637)
T ss_pred CcCEEEEcCCc
Confidence 34466555443
No 64
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=87.67 E-value=2 Score=44.49 Aligned_cols=78 Identities=12% Similarity=0.128 Sum_probs=61.7
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCee
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs 148 (332)
+-.|-+-|-|.. ++.-.+| -.+|+|- ++.--|+|++|......+.--++-|+.|.|.|++.... ++.
T Consensus 23 ~~~V~v~GEISn---~t~~~sg--H~YFtLK----D~~A~i~c~mf~~~~~~l~f~p~eG~~V~v~G~is~Y~----~rG 89 (440)
T COG1570 23 LGQVWVRGEISN---FTRPASG--HLYFTLK----DERAQIRCVMFKGNNRRLKFRPEEGMQVLVRGKISLYE----PRG 89 (440)
T ss_pred CCeEEEEEEecC---CccCCCc--cEEEEEc----cCCceEEEEEEcCcccccCCCccCCCEEEEEEEEEEEc----CCC
Confidence 456777787764 2333466 4688886 55688999999999999998899999999999999765 456
Q ss_pred EEEEEEeEEEE
Q 020012 149 NVQVMVHSLNL 159 (332)
Q Consensus 149 ~~eVvVe~I~F 159 (332)
.|+|+++++..
T Consensus 90 ~YQi~~~~~~p 100 (440)
T COG1570 90 DYQIVAESMEP 100 (440)
T ss_pred ceEEEEecCCc
Confidence 78999998874
No 65
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=87.65 E-value=2.8 Score=47.92 Aligned_cols=80 Identities=15% Similarity=0.123 Sum_probs=65.2
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEE
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~ 150 (332)
.|.++|-|.. ...+.|..|..+|.++|. +.|.-+.|++|.+.-+.+...|..|..|.|+|++..+. ...
T Consensus 945 ~v~v~g~i~~-~~~~~tk~g~~maf~~le----D~tg~~e~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~~------~~~ 1013 (1107)
T PRK06920 945 VQRAIVYITS-VKVIRTKKGQKMAFITFC----DQNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELRN------HKL 1013 (1107)
T ss_pred EEEEEEEEEE-eEeecCCCCCeEEEEEEe----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------CcE
Confidence 5788888874 666788899999988887 45667999999999999999999999999999997541 235
Q ss_pred EEEEeEEEEec
Q 020012 151 QVMVHSLNLIE 161 (332)
Q Consensus 151 eVvVe~I~FL~ 161 (332)
+++|++|.-+.
T Consensus 1014 ~~~~~~i~~l~ 1024 (1107)
T PRK06920 1014 QWIVNGLYPLE 1024 (1107)
T ss_pred EEEEeecccHH
Confidence 78888886664
No 66
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=87.46 E-value=3.3 Score=47.70 Aligned_cols=81 Identities=15% Similarity=0.123 Sum_probs=65.6
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeE
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~ 149 (332)
..|.++|-|.. ...+.|.+|..+|.++|. +.+--+.|++|-+.=+.+...|..|..|+|+|++..+. ..
T Consensus 1001 ~~v~v~g~i~~-~k~~~Tk~G~~maf~~le----D~tg~~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~~------~~ 1069 (1170)
T PRK07374 1001 AKVSAIAMIPE-MKQVTTRKGDRMAILQLE----DLTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRD------DR 1069 (1170)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEE----ECCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 35888888874 667788899999998887 44566999999999999999999999999999997532 23
Q ss_pred EEEEEeEEEEec
Q 020012 150 VQVMVHSLNLIE 161 (332)
Q Consensus 150 ~eVvVe~I~FL~ 161 (332)
.+++|+++.-+.
T Consensus 1070 ~~~~~~~i~~l~ 1081 (1170)
T PRK07374 1070 VQLIIDDCREID 1081 (1170)
T ss_pred EEEEEeeeecHh
Confidence 578888886554
No 67
>cd04321 ScAspRS_mt_like_N ScAspRS_mt_like_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae mitochondrial (mt) aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this fungal group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Mutations in the gene for
Probab=87.45 E-value=12 Score=29.38 Aligned_cols=83 Identities=12% Similarity=0.155 Sum_probs=50.9
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHH-HHHHhhcCCCCeEEEEEEeeecCCCcC-Cee
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIE-GQA 148 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLA-E~~aqyLkKGD~V~VeGrL~t~syedk-grs 148 (332)
.|.|.|+|.. +|.. .|+ ++++.| .+ . ...=+.|++-.+.. -...+.|..||.|.|+|.+..+.-... ...
T Consensus 1 ~V~v~Gwv~~---~R~~-~~~-~~Fi~L-rD-~-~g~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~~~~~~ 72 (86)
T cd04321 1 KVTLNGWIDR---KPRI-VKK-LSFADL-RD-P-NGDIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKSSEKND 72 (86)
T ss_pred CEEEEEeEee---EeCC-CCc-eEEEEE-EC-C-CCCEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcCCCCCC
Confidence 3788899875 3321 233 455555 22 1 12347777654432 123456999999999999987542211 124
Q ss_pred EEEEEEeEEEEec
Q 020012 149 NVQVMVHSLNLIE 161 (332)
Q Consensus 149 ~~eVvVe~I~FL~ 161 (332)
.+||.|++|..|.
T Consensus 73 ~~Ei~~~~i~il~ 85 (86)
T cd04321 73 EWELVVDDIQTLN 85 (86)
T ss_pred CEEEEEEEEEEec
Confidence 5899999999875
No 68
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=86.77 E-value=3.8 Score=47.09 Aligned_cols=82 Identities=13% Similarity=0.137 Sum_probs=65.4
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEE
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~ 150 (332)
.|.++|-|.. .+.+.|..|..+|.++|. +.+--+.|++|.+.-+.+...|..|..|+|+|++..+. + ...
T Consensus 993 ~v~v~g~i~~-~~~~~tk~G~~maf~~le----D~~g~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~---~--~~~ 1062 (1151)
T PRK06826 993 KVIIGGIITE-VKRKTTRNNEMMAFLTLE----DLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE---D--EEP 1062 (1151)
T ss_pred EEEEEEEEEE-eEeeccCCCCeEEEEEEE----ECCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC---C--Cce
Confidence 5778888874 677788899999998887 44566999999999888999999999999999997542 1 236
Q ss_pred EEEEeEEEEecc
Q 020012 151 QVMVHSLNLIEP 162 (332)
Q Consensus 151 eVvVe~I~FL~~ 162 (332)
+++|+++.-+..
T Consensus 1063 ~~~~~~~~~l~~ 1074 (1151)
T PRK06826 1063 KLICEEIEPLVI 1074 (1151)
T ss_pred EEEEeeeecHhh
Confidence 788888866643
No 69
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=86.67 E-value=6.3 Score=32.19 Aligned_cols=78 Identities=14% Similarity=0.127 Sum_probs=52.6
Q ss_pred EEEE-eCCCCeE-EECCCCcEEEE-EEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEE
Q 020012 74 LIGH-VDAPVQF-QTSSDGKHWAG-TVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (332)
Q Consensus 74 LIGr-Lg~DPEl-r~T~sG~~vA~-fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~ 150 (332)
|.|. |..=|+. ..+.+| .-.. |.|- ..+..+..|.+.+||+.++.+. .++.||.|.|+=.|+.+.|. ++...
T Consensus 2 i~Gkii~~l~~~~g~s~~G-w~Kre~Vle-t~~qYP~~i~f~~~~dk~~~l~-~~~~Gd~V~Vsf~i~~RE~~--gr~fn 76 (84)
T PF11325_consen 2 ITGKIIKVLPEQQGVSKNG-WKKREFVLE-TEEQYPQKICFEFWGDKIDLLD-NFQVGDEVKVSFNIEGREWN--GRWFN 76 (84)
T ss_pred cccEEEEEecCcccCcCCC-cEEEEEEEe-CCCcCCceEEEEEEcchhhhhc-cCCCCCEEEEEEEeeccEec--ceEee
Confidence 3455 2333344 345578 3333 4444 4456678999999998887644 58999999999999999997 55555
Q ss_pred EEEEeE
Q 020012 151 QVMVHS 156 (332)
Q Consensus 151 eVvVe~ 156 (332)
.|.|=.
T Consensus 77 ~i~aWr 82 (84)
T PF11325_consen 77 SIRAWR 82 (84)
T ss_pred EeEEEE
Confidence 555543
No 70
>PRK12366 replication factor A; Reviewed
Probab=86.45 E-value=2.4 Score=45.62 Aligned_cols=69 Identities=20% Similarity=0.198 Sum_probs=51.5
Q ss_pred cceEEEEEEeCCCCeEEEC--CCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 020012 69 ANSVNLIGHVDAPVQFQTS--SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~sG--~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~sye 143 (332)
++.|.|.|||..--++|.. .+| ..++.+.|+ ++|--|++++|++.|+. ...|..||.|.|+|.- .+.|.
T Consensus 73 ~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~----DetG~Ir~t~W~~~~~~-~~~le~G~v~~i~~~~-v~~~~ 145 (637)
T PRK12366 73 QINVEITGRIIEISNIKTFTRKDGSTGKLANITIA----DNTGTIRLTLWNDNAKL-LKGLKEGDVIKIENAR-SRKWN 145 (637)
T ss_pred CcceEEEEEEEEccCCeEEECCCCCccEEEEEEEE----cCCCEEEEEEEchhhhh-hccCCCCCEEEEeccE-ecccC
Confidence 6889999999876666533 445 346666666 44556999999999986 5789999999999853 33443
No 71
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=85.90 E-value=3 Score=38.86 Aligned_cols=90 Identities=10% Similarity=0.128 Sum_probs=64.0
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC-
Q 020012 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE- 145 (332)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedk- 145 (332)
.-+|.|-++|.|+.-+-+-. ..-+.+++|+- +..++|+-.--+..=|-.+.+-+.++|.|.|.|++++ |+++
T Consensus 43 ~k~nRifivGtltek~~i~e---d~~~~R~rVvD--pTGsF~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~~--y~~d~ 115 (196)
T COG3390 43 LKVNRIFIVGTLTEKEGIGE---DREYWRIRVVD--PTGSFYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIRT--YRTDE 115 (196)
T ss_pred hheeEEEEEEEEEeccCcCC---cccEEEEEEec--CCceEEEEcCCCChHHHHHHHhccCCceEEEecccce--eecCC
Confidence 34899999999997654421 13466777762 2334777444555667788899999999999999875 4444
Q ss_pred CeeEEEEEEeEEEEeccC
Q 020012 146 GQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~k 163 (332)
|...+.|.++.|.-++..
T Consensus 116 g~~~~siRpE~vs~vde~ 133 (196)
T COG3390 116 GVVLFSIRPELVSKVDEE 133 (196)
T ss_pred CceEEEechhhhhhcCHH
Confidence 777777878888777643
No 72
>cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam
Probab=85.15 E-value=10 Score=29.78 Aligned_cols=78 Identities=18% Similarity=0.124 Sum_probs=51.5
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH---HHHhhcCCCCeEEEEEEeeecCCCcCCee
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE---~~aqyLkKGD~V~VeGrL~t~syedkgrs 148 (332)
|.++|.|.. .+.+ + ....++|. +.|--|.+.+|..-.+ ...+.+..|+.|.|.|+++... .
T Consensus 2 v~~vG~V~~-~~~~----~-~~~~~tL~----D~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~------g 65 (95)
T cd04478 2 VTLVGVVRN-VEEQ----S-TNITYTID----DGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQ------G 65 (95)
T ss_pred EEEEEEEEe-eeEc----c-cEEEEEEE----CCCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccC------C
Confidence 778888875 3322 2 23445554 3455699999987654 4577899999999999997543 2
Q ss_pred EEEEEEeEEEEeccCCc
Q 020012 149 NVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 149 ~~eVvVe~I~FL~~k~~ 165 (332)
..+|.+..+..++..+.
T Consensus 66 ~~ql~i~~i~~v~d~ne 82 (95)
T cd04478 66 KKSIMAFSIRPVTDFNE 82 (95)
T ss_pred eeEEEEEEEEEeCCccH
Confidence 24566667766665543
No 73
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=83.99 E-value=5.9 Score=45.12 Aligned_cols=79 Identities=14% Similarity=0.145 Sum_probs=61.5
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEE
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~ 150 (332)
.|.+.|-|.. .+.+.|..| +|.++|. +.|.-+.|++|.++-+.+...|+.|..|+|+|+++.+ ++ .+
T Consensus 955 ~v~v~g~i~~-~~~~~TkkG--maf~~le----D~~g~~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~----~~--~~ 1021 (1046)
T PRK05672 955 RVRVAGVVTH-RQRPGTASG--VTFLTLE----DETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNA----EG--VR 1021 (1046)
T ss_pred EEEEEEEEEE-EEEecCCCc--eEEEEEe----cCCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CC--eE
Confidence 4677777764 666678888 6777766 5677899999999999999999999999999999754 12 35
Q ss_pred EEEEeEEEEecc
Q 020012 151 QVMVHSLNLIEP 162 (332)
Q Consensus 151 eVvVe~I~FL~~ 162 (332)
+++|++|.-++.
T Consensus 1022 ~~~~~~i~~~~~ 1033 (1046)
T PRK05672 1022 HLVADRLEDLSP 1033 (1046)
T ss_pred EEEEeeeechHH
Confidence 788888865543
No 74
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=83.71 E-value=5.1 Score=47.11 Aligned_cols=73 Identities=19% Similarity=0.127 Sum_probs=58.1
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHH--HHHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA--HIASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLA--E~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
-.+.|.+.|.|- +.|.|.+.+|+.+..|.|. +.|+-|.|..|.+-. ......+++|+.|.|.|++..+.|..+
T Consensus 235 ~~~~v~i~G~if-~~e~~~~k~~~~~~~~~~t----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~~~~ 309 (1437)
T PRK00448 235 EERRVVVEGYVF-KVEIKELKSGRHILTFKIT----DYTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTFTRD 309 (1437)
T ss_pred cCCeEEEEEEEE-EEEEEeccCCCEEEEEEEE----cCCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCCCCc
Confidence 457899999996 5899999999988888775 456778888887322 123456999999999999999998654
No 75
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=82.92 E-value=7.5 Score=41.65 Aligned_cols=67 Identities=15% Similarity=0.058 Sum_probs=52.1
Q ss_pred cceEEEEEEeCCCCeEEECC--CC-cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE-Eeee
Q 020012 69 ANSVNLIGHVDAPVQFQTSS--DG-KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTA 139 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~--sG-~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeG-rL~t 139 (332)
.+.++|.|||.+--++|... +| ..+..+.|+ + ++.-|++++|++.|+.....|+.|+.++|++ +++.
T Consensus 190 ~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~-D---egg~Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~ 260 (608)
T TIGR00617 190 QNKWTIKARVTNKSEIRTWSNARGEGKLFNVELL-D---ESGEIRATAFNEQADKFYDIIQEGKVYYISKGSLKP 260 (608)
T ss_pred CCceEEEEEEEeccccceecCCCCCceeeEEEEe-c---CCCeEEEEECchHHHHHhhhcccCCEEEECceEEEE
Confidence 47799999999988887653 33 234455444 2 5678999999999999999999999999966 5544
No 76
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=82.11 E-value=8.3 Score=44.00 Aligned_cols=81 Identities=7% Similarity=0.178 Sum_probs=63.4
Q ss_pred ceEEEEEEeCCCCeEEECC-CCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCee
Q 020012 70 NSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~-sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs 148 (332)
..+.++|.|.. .....|. .|..+|.++|. +.+.-+.|++|.+.-+.+...|..|..|.|+|++..+. .
T Consensus 885 ~~~~~~~~i~~-~~~~~tk~~g~~maf~~le----D~~g~ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~~------~ 953 (1034)
T PRK07279 885 SEATILVQIQS-IRVIRTKTKGQQMAFLSVT----DTKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQERD------G 953 (1034)
T ss_pred CcceEEEEEEE-EEEEEEcCCCCeEEEEEEe----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------C
Confidence 34788899874 4555566 89989888887 44566999999999888999999999999999997641 2
Q ss_pred EEEEEEeEEEEec
Q 020012 149 NVQVMVHSLNLIE 161 (332)
Q Consensus 149 ~~eVvVe~I~FL~ 161 (332)
..+++|+++.-+.
T Consensus 954 ~~~l~~~~i~~l~ 966 (1034)
T PRK07279 954 RLQMVLQQIQEAS 966 (1034)
T ss_pred eeEEEEeeeeccc
Confidence 4578888886554
No 77
>cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP). POT1 proteins recognize single-stranded (ss) 3-prime ends of the telomere. A 3-prime ss overhang is conserved in ciliated protozoa, yeast, and mammals. SpPOT1 is essential for telomere maintenance. It binds specifically to the ss G-rich telomeric sequence (GGTTAC) of S. pombe. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. Deletion of the S. pombe pot1+ gene results in a rapid loss of telomere sequences, chromosome mis-segregation and chromosome circularization. hPOT1 is implicated in telomere length regulation. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB
Probab=81.76 E-value=7.2 Score=33.61 Aligned_cols=75 Identities=15% Similarity=0.031 Sum_probs=51.8
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
-..|.+||=|..-...+.+.+....+.++|.-.......=+.|.+|++.++.+-. +..||.|.+.+ ++...|.++
T Consensus 14 ~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~~~~l~v~~F~~~~~~LP~-v~~GDVIll~~-~kv~~~~g~ 88 (138)
T cd04497 14 GGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNEESLPI-VKVGDIILLRR-VKIQSYNGK 88 (138)
T ss_pred CCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCCCCcEEEEEECCChhhCCC-CCCCCEEEEEE-EEEEEECCc
Confidence 4568899988865555555444556666665222111466999999999998776 49999999987 666667655
No 78
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=81.44 E-value=7.3 Score=45.11 Aligned_cols=72 Identities=11% Similarity=0.067 Sum_probs=57.5
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE--~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
.+.|.+.|.|- +.|.+.+.+|+.+..|.|. +.|+-|.|..|.+.-+ .....+++|+.|.|.|.+..+.|..+
T Consensus 7 ~~~~~~~g~i~-~~~~~~~~~~~~~~~~~~~----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~~~~~g~~~~d~~~~~ 80 (1213)
T TIGR01405 7 ENRVKIEGYIF-KIEIKELKSGRTLLKIKVT----DYTDSLILKKFLKSEEDPEKFDGIKIGKWVRARGKIELDNFSRD 80 (1213)
T ss_pred CCeEEEEEEEE-EEEeEeccCCCEEEEEEEE----cCCCCEEEEEecccccchHHHhhcCCCcEEEEEEEEeccCCCCc
Confidence 68899999996 5889999999988888777 4567788888874221 12356999999999999999998654
No 79
>PRK14699 replication factor A; Provisional
Probab=80.09 E-value=4.3 Score=42.43 Aligned_cols=84 Identities=15% Similarity=0.198 Sum_probs=57.6
Q ss_pred cceEEEEEEeCCCCeEEEC--CCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEE-eeecCCC
Q 020012 69 ANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ-LTADPPA 143 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~sG~--~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGr-L~t~sye 143 (332)
+..|++.|+|..--++|.. .+|. .+..+.|+ .+|--|++++|++.|+ +..-|..||.|.|.+- .+.+.|.
T Consensus 176 ~~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~ig----DeTG~ir~tlW~~~a~-~~~~l~~Gd~v~I~~a~vr~~~~~ 250 (484)
T PRK14699 176 MGDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLG----DETGTLRVTLWDDKTD-FLNQIEYGDTVELINAYARENAFT 250 (484)
T ss_pred CCceEEEEEEEeccCceEEecCCCCceEEEEEEEE----cCCceEEEEEECcccc-cccccCCCCEEEEecceEeecccC
Confidence 4569999999987776643 4563 35566666 6788999999999886 4445999999998654 5544443
Q ss_pred cCCeeEEEEEEeEEEEec
Q 020012 144 IEGQANVQVMVHSLNLIE 161 (332)
Q Consensus 144 dkgrs~~eVvVe~I~FL~ 161 (332)
..++|.+.+...+.
T Consensus 251 ----~~~el~~~~~s~i~ 264 (484)
T PRK14699 251 ----QKVELQVGNRSIIR 264 (484)
T ss_pred ----CceEEEecCceEee
Confidence 24455554444443
No 80
>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).
Probab=79.26 E-value=20 Score=36.67 Aligned_cols=82 Identities=12% Similarity=0.214 Sum_probs=53.5
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHH---HHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGk-LAE~---~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
..|.|.|+|.+ +| ..|+ ++...|- + .+.-|.|++-.+ .++. ....|..||.|.|+|.+.... .
T Consensus 13 ~~v~i~G~v~~---~R--~~g~-~~Fi~lr-d---~~g~iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~---~ 79 (428)
T TIGR00458 13 QEVTFMGWVHE---IR--DLGG-LIFVLLR-D---REGLIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKE---K 79 (428)
T ss_pred CEEEEEEEEEE---Ee--cCCC-cEEEEEE-e---CCeeEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecC---C
Confidence 56899999964 23 3455 4455443 2 223588877643 2211 235699999999999998532 1
Q ss_pred CeeEEEEEEeEEEEeccCC
Q 020012 146 GQANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~k~ 164 (332)
....++|.|+++..|....
T Consensus 80 ~~~~~el~~~~i~vl~~~~ 98 (428)
T TIGR00458 80 APGGFEIIPTKIEVINEAK 98 (428)
T ss_pred CCCcEEEEEeEEEEEecCC
Confidence 2246999999999998653
No 81
>PLN02850 aspartate-tRNA ligase
Probab=78.82 E-value=19 Score=38.15 Aligned_cols=84 Identities=17% Similarity=0.256 Sum_probs=54.3
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHH---HHhhcCCCCeEEEEEEeeecCCC
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHI---ASSHLKKDDHVHIAGQLTADPPA 143 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL---AE~---~aqyLkKGD~V~VeGrL~t~sye 143 (332)
..|.|.|||.. +| ..|+ ++.+.|-. .+..|.|++-.+. .+. .+..|..||.|.|+|.+....-.
T Consensus 82 ~~V~v~Grv~~---~R--~~gk-~~Fl~Lrd----~~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~ 151 (530)
T PLN02850 82 SEVLIRGRVHT---IR--GKGK-SAFLVLRQ----SGFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKKP 151 (530)
T ss_pred CEEEEEEEEEE---Ec--cCCC-eEEEEEEe----CCcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccCcC
Confidence 46899999964 22 3455 55555532 2345888875442 122 24679999999999999853211
Q ss_pred cCC-eeEEEEEEeEEEEeccC
Q 020012 144 IEG-QANVQVMVHSLNLIEPT 163 (332)
Q Consensus 144 dkg-rs~~eVvVe~I~FL~~k 163 (332)
-++ ...++|.|++|..|...
T Consensus 152 ~~~~t~~~El~~~~i~vls~a 172 (530)
T PLN02850 152 VKGTTQQVEIQVRKIYCVSKA 172 (530)
T ss_pred CCCCCccEEEEEeEEEEEeCC
Confidence 121 12799999999988765
No 82
>PF02765 POT1: Telomeric single stranded DNA binding POT1/CDC13; InterPro: IPR011564 This entry represents a domain that binds single stranded telomeric DNA and adopts an OB fold []. It includes the proteins POT1 and CDC13 which have been shown to regulate telomere length, replication and capping [, , ]. ; GO: 0003677 DNA binding, 0000723 telomere maintenance, 0000784 nuclear chromosome, telomeric region; PDB: 1S40_A 1KXL_A 1PH7_A 1PH9_A 1PH2_A 1OTC_A 1PHJ_A 1JB7_A 1PA6_A 1PH1_A ....
Probab=78.74 E-value=7.1 Score=33.84 Aligned_cols=74 Identities=11% Similarity=0.052 Sum_probs=54.7
Q ss_pred cceEEEEEEeCCCCeE--EECCCCcEEEEEEEEEcCCCC--C---eeEEEEEeccHHHHHHhhcCC-CCeEEEEEEeeec
Q 020012 69 ANSVNLIGHVDAPVQF--QTSSDGKHWAGTVIVQHAASH--S---LWIPILFEGDLAHIASSHLKK-DDHVHIAGQLTAD 140 (332)
Q Consensus 69 ~NsV~LIGrLg~DPEl--r~T~sG~~vA~fsLAv~~~~~--T---~wI~VvaWGkLAE~~aqyLkK-GD~V~VeGrL~t~ 140 (332)
-..|.+||=|...-.. +.+.++..++.++|. +.... . ..+.|.+|.+..|.+-. ++. ||.|.+. |++..
T Consensus 12 ~~~vnvigVV~~~~~p~~~~t~g~D~~~tl~i~-D~S~~~~~~~~~~l~v~iF~~~~~~LP~-v~~~GDii~l~-r~kv~ 88 (146)
T PF02765_consen 12 GKFVNVIGVVVDFSPPNPKKTRGTDYMCTLTIT-DPSLNDSNQKLSGLTVNIFRPHKESLPN-VKSVGDIIRLR-RVKVQ 88 (146)
T ss_dssp SEEEEEEEEEEEEEEECTEEESSSCEEEEEEEE-BTTCSCSSCCCCEEEEEEEESSHHHSCT-TCSTTHEEEEE-EEEEE
T ss_pred CCEEEEEEEEEEccCCcceEcCCCcEEEEEEEE-CCCCCccccccCCEEEEEECCCHHHCCC-CCCCCCEEEEE-EEEEE
Confidence 3468899988865555 666668888888884 44322 2 78999999888887764 555 9988877 78888
Q ss_pred CCCcC
Q 020012 141 PPAIE 145 (332)
Q Consensus 141 syedk 145 (332)
.|.++
T Consensus 89 ~~~~~ 93 (146)
T PF02765_consen 89 SYNGK 93 (146)
T ss_dssp EETTE
T ss_pred EECCE
Confidence 88766
No 83
>cd04318 EcAsnRS_like_N EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial
Probab=78.65 E-value=28 Score=26.81 Aligned_cols=77 Identities=13% Similarity=0.251 Sum_probs=47.4
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCee--EEEEEeccHH-HHHHhhcCCCCeEEEEEEeeecCCCcCCee
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLW--IPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~w--I~VvaWGkLA-E~~aqyLkKGD~V~VeGrL~t~syedkgrs 148 (332)
|.+-|+|.. +|. .|+ +++..|- + .+.. +.|++-.+.. -...+.|..||.|.|+|.+....- ...
T Consensus 2 v~v~Gwv~~---~R~--~g~-~~Fi~Lr-D---~s~~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~---~~~ 68 (82)
T cd04318 2 VTVNGWVRS---VRD--SKK-ISFIELN-D---GSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG---AKQ 68 (82)
T ss_pred EEEEEeEEE---EEc--CCc-EEEEEEE-C---CCCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC---CCC
Confidence 677888842 333 343 3333332 2 2333 7777654422 124467999999999999986431 124
Q ss_pred EEEEEEeEEEEec
Q 020012 149 NVQVMVHSLNLIE 161 (332)
Q Consensus 149 ~~eVvVe~I~FL~ 161 (332)
.+||.++++..+.
T Consensus 69 ~~El~~~~i~il~ 81 (82)
T cd04318 69 PFELQAEKIEVLG 81 (82)
T ss_pred CEEEEEEEEEEec
Confidence 6899999998764
No 84
>PLN02903 aminoacyl-tRNA ligase
Probab=78.40 E-value=40 Score=36.84 Aligned_cols=83 Identities=18% Similarity=0.295 Sum_probs=54.1
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH-HH--HHHhhcCCCCeEEEEEEeeecCCC---c
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AH--IASSHLKKDDHVHIAGQLTADPPA---I 144 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL-AE--~~aqyLkKGD~V~VeGrL~t~sye---d 144 (332)
.|+|.|+|.+ +|. .|+ ++.+.| .+ .+..++|++-.+. .+ ..++.|+.|+.|.|+|.+..+.-. .
T Consensus 74 ~V~l~GWV~~---~R~--~G~-l~FidL-RD---~~G~iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V~~r~~~~~n~ 143 (652)
T PLN02903 74 RVTLCGWVDL---HRD--MGG-LTFLDV-RD---HTGIVQVVTLPDEFPEAHRTANRLRNEYVVAVEGTVRSRPQESPNK 143 (652)
T ss_pred EEEEEEEEEE---Eec--CCC-cEEEEE-Ec---CCccEEEEEeCCccHHHHHHHhcCCCCCEEEEEEEEEeCCCcCcCC
Confidence 5999999964 343 343 344444 22 2334788876442 22 234679999999999999875321 1
Q ss_pred C-CeeEEEEEEeEEEEeccC
Q 020012 145 E-GQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 145 k-grs~~eVvVe~I~FL~~k 163 (332)
+ ..-.+||.|++|..|...
T Consensus 144 ~~~tGeiEl~~~~i~VL~~a 163 (652)
T PLN02903 144 KMKTGSVEVVAESVDILNVV 163 (652)
T ss_pred CCCCCCEEEEEeEEEEEecC
Confidence 1 123589999999999865
No 85
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=76.50 E-value=25 Score=36.66 Aligned_cols=81 Identities=17% Similarity=0.234 Sum_probs=55.9
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEec-cHHHHH--HhhcCCCCeEEEEEEeeecCCCcCC
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLAHIA--SSHLKKDDHVHIAGQLTADPPAIEG 146 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWG-kLAE~~--aqyLkKGD~V~VeGrL~t~syedkg 146 (332)
-.|.|-|.|-. +| ..|+ ++...|- +.+.+|+|++-. +..+.+ +.+|..++-|.|+|.+.-..- .
T Consensus 17 ~~V~v~GWV~~---~R--~~g~-i~Fi~lr----Dgsg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~~---a 83 (435)
T COG0017 17 QEVTVRGWVHN---KR--DLGK-IIFLVLR----DGSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASPK---A 83 (435)
T ss_pred cEEEEEEEeee---ec--ccCC-eEEEEEE----cCCcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCCC---C
Confidence 57888898874 22 3344 4333332 446779999974 232222 568999999999999985432 3
Q ss_pred eeEEEEEEeEEEEeccC
Q 020012 147 QANVQVMVHSLNLIEPT 163 (332)
Q Consensus 147 rs~~eVvVe~I~FL~~k 163 (332)
...+||.|++|..+...
T Consensus 84 ~~g~El~v~~i~Vl~~a 100 (435)
T COG0017 84 PQGFELQVEKIEVLGEA 100 (435)
T ss_pred CCCEEEEEEEEEEeecc
Confidence 45789999999999766
No 86
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=75.93 E-value=32 Score=35.22 Aligned_cols=82 Identities=20% Similarity=0.337 Sum_probs=53.4
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHHHHhhcCCCCeEEEEEEeeecCCCcCC
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL---AE~~aqyLkKGD~V~VeGrL~t~syedkg 146 (332)
+.|.|.|+|.. +|. .|+ ++...|- +. +.-|.|++=.+. .....+.|..||.|.|+|.+.... +.
T Consensus 17 ~~V~i~GrV~~---~R~--~gk-~~Fl~Lr-D~---~g~iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~---~~ 83 (437)
T PRK05159 17 EEVTLAGWVHE---IRD--LGG-IAFLILR-DR---SGIIQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANP---KA 83 (437)
T ss_pred CEEEEEEEeEe---eec--CCC-eEEEEEE-cC---CcEEEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCC---CC
Confidence 56899999964 232 354 3444442 22 234888775542 112345799999999999998642 12
Q ss_pred eeEEEEEEeEEEEeccCC
Q 020012 147 QANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 147 rs~~eVvVe~I~FL~~k~ 164 (332)
...++|.|+++..|....
T Consensus 84 ~~~~el~~~~i~vls~a~ 101 (437)
T PRK05159 84 PGGVEVIPEEIEVLNKAE 101 (437)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 245899999999998664
No 87
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=74.49 E-value=34 Score=36.55 Aligned_cols=85 Identities=13% Similarity=0.205 Sum_probs=54.5
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEe--ccHHHHH---HhhcCCCCeEEEEEEeeecCCC-
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFE--GDLAHIA---SSHLKKDDHVHIAGQLTADPPA- 143 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaW--GkLAE~~---aqyLkKGD~V~VeGrL~t~sye- 143 (332)
..|.|.|||.. +| ..|+ ++.+.|- +.+..|.|++- +...+.+ ...|..||.|.|+|.+....-.
T Consensus 79 ~~V~v~Grv~~---~R--~~Gk-~~Fl~LR----d~~~~iQ~v~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~ 148 (550)
T PTZ00401 79 KTVLIRARVST---TR--KKGK-MAFMVLR----DGSDSVQAMAAVEGDVPKEMIDFIGQIPTESIVDVEATVCKVEQPI 148 (550)
T ss_pred CEEEEEEEEEE---Ee--cCCC-eEEEEEE----eCCcCEEEEEECCCccCHHHHHHHhcCCCCCEEEEEEEEEecCccC
Confidence 45899999964 33 2454 3544443 22346787763 2232322 3459999999999999875322
Q ss_pred cC-CeeEEEEEEeEEEEeccCC
Q 020012 144 IE-GQANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 144 dk-grs~~eVvVe~I~FL~~k~ 164 (332)
.. ....++|.|++|..|....
T Consensus 149 ~~~~~~~~El~v~~i~vls~a~ 170 (550)
T PTZ00401 149 TSTSHSDIELKVKKIHTVTESL 170 (550)
T ss_pred CCCCCccEEEEeeEEEEEeCCC
Confidence 12 3456999999999987653
No 88
>cd04481 RPA1_DBD_B_like RPA1_DBD_B_like: A subgroup of uncharacterized, plant OB folds with similarity to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change.
Probab=72.60 E-value=38 Score=27.56 Aligned_cols=39 Identities=8% Similarity=-0.002 Sum_probs=29.4
Q ss_pred CeeEEEEEeccHHHHHHhhcC---CCC-eEEEEEEeeecCCCc
Q 020012 106 SLWIPILFEGDLAHIASSHLK---KDD-HVHIAGQLTADPPAI 144 (332)
Q Consensus 106 T~wI~VvaWGkLAE~~aqyLk---KGD-~V~VeGrL~t~syed 144 (332)
-.-+.|++||+.|+....++. .+. .|+|-+-.+...|.+
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 478999999999999988863 444 445656577777765
No 89
>TIGR00459 aspS_bact aspartyl-tRNA synthetase, bacterial type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences.
Probab=72.41 E-value=45 Score=35.93 Aligned_cols=84 Identities=19% Similarity=0.324 Sum_probs=54.2
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHHHHhhcCCCCeEEEEEEeeecCCCc---C-
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLKKDDHVHIAGQLTADPPAI---E- 145 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGk-LAE~~aqyLkKGD~V~VeGrL~t~syed---k- 145 (332)
.|+|.|+|.+ +|. .|+ ++.+.| .+. +.-++|++-.+ -+-...+.|+.||.|.|+|.+..+.-.. +
T Consensus 17 ~V~l~GwV~~---~R~--~Gk-l~Fi~L-rD~---sg~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~~~ 86 (583)
T TIGR00459 17 TVTLAGWVNR---RRD--LGG-LIFIDL-RDR---SGIVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINRNL 86 (583)
T ss_pred EEEEEEEEEE---EEc--CCC-cEEEEE-EeC---CccEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCccC
Confidence 6899999964 443 355 444444 332 23588887654 1112346799999999999998653211 1
Q ss_pred CeeEEEEEEeEEEEeccCC
Q 020012 146 GQANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~k~ 164 (332)
..-.++|.|+++..|....
T Consensus 87 ~tg~iEl~~~~i~iL~~a~ 105 (583)
T TIGR00459 87 DTGEIEILAESITLLNKSK 105 (583)
T ss_pred CCCcEEEEEeEEEEeecCC
Confidence 2235899999999987543
No 90
>TIGR00457 asnS asparaginyl-tRNA synthetase. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.
Probab=70.31 E-value=52 Score=34.03 Aligned_cols=84 Identities=17% Similarity=0.206 Sum_probs=54.7
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH---HHHhhcCCCCeEEEEEEeeecCCCcCC
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEG 146 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE---~~aqyLkKGD~V~VeGrL~t~syedkg 146 (332)
..|.+.|+|.. +| ..|+ ++.+.| +......-+.|++-.+.++ ...+.|..||.|.|+|.+.... ..
T Consensus 17 ~~v~v~Gwv~~---~R--~~~~-~~F~~l--rD~~~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~---~~ 85 (453)
T TIGR00457 17 DEVTVSGWVRT---KR--SSKK-IIFLEL--NDGSSLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESP---GK 85 (453)
T ss_pred CEEEEEEEeEE---EE--cCCC-eEEEEE--ECCCCCccEEEEEeCCcChHHHHHHHcCCCCcEEEEEEEEEcCC---CC
Confidence 45899999963 44 2344 344444 2222115688887665222 2345799999999999998632 12
Q ss_pred eeEEEEEEeEEEEeccCC
Q 020012 147 QANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 147 rs~~eVvVe~I~FL~~k~ 164 (332)
...++|.|+++..|....
T Consensus 86 ~~~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 86 GQPVELQVKKIEVVGEAE 103 (453)
T ss_pred CCCEEEEEeEEEEEecCC
Confidence 245899999999998654
No 91
>PRK07218 replication factor A; Provisional
Probab=69.10 E-value=15 Score=37.86 Aligned_cols=62 Identities=15% Similarity=0.153 Sum_probs=43.4
Q ss_pred cceEEEEEEeCCCCeEE-ECCCCc-EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 020012 69 ANSVNLIGHVDAPVQFQ-TSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr-~T~sG~-~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t 139 (332)
.+.|++.|+|..-.+-. ...+|. .+....|+ .+|--|++++|+++|+ |..||.|.|.|--..
T Consensus 172 ~~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giig----DeTG~Ir~tlW~~~~~-----l~~Gd~v~I~na~v~ 235 (423)
T PRK07218 172 DRGVNVEARVLELEHREIDGRDGETTILSGVLA----DETGRLPFTDWDPLPE-----IEIGASIRIEDAYVR 235 (423)
T ss_pred CCceEEEEEEEEecceeEEcCCCCeEEEEEEEE----CCCceEEEEEeccccc-----CCCCCEEEEeeeEEe
Confidence 56799999998542211 234553 34444444 6788999999999874 799999999985543
No 92
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=65.52 E-value=67 Score=35.48 Aligned_cols=85 Identities=21% Similarity=0.353 Sum_probs=55.4
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HH--HHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL--AE--~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
..|.|.|+|.+ +|. .|+ ++.+.|- + .+..+.|++-.+. .+ ..+..|..|+.|.|+|.+..+.-..+
T Consensus 19 ~~V~l~GWV~~---~R~--~G~-l~FidLR-D---~~G~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~~ 88 (706)
T PRK12820 19 REVCLAGWVDA---FRD--HGE-LLFIHLR-D---RNGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEETE 88 (706)
T ss_pred CEEEEEEEEEE---EEc--CCC-cEEEEEE-e---CCccEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCcccc
Confidence 45899999964 333 344 4444443 2 2345888886442 22 23467999999999999988642221
Q ss_pred ----CeeEEEEEEeEEEEeccCC
Q 020012 146 ----GQANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 146 ----grs~~eVvVe~I~FL~~k~ 164 (332)
..-.+||.|+++..|....
T Consensus 89 n~~~~tg~iEl~~~~i~iL~~a~ 111 (706)
T PRK12820 89 NPHIETGDIEVFVRELSILAASE 111 (706)
T ss_pred CCCCCCCcEEEEeeEEEEEecCC
Confidence 1235899999999997654
No 93
>PRK07218 replication factor A; Provisional
Probab=65.18 E-value=25 Score=36.42 Aligned_cols=64 Identities=16% Similarity=0.068 Sum_probs=45.1
Q ss_pred cceEEEEEEeCCCC--eEEECCCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 020012 69 ANSVNLIGHVDAPV--QFQTSSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (332)
Q Consensus 69 ~NsV~LIGrLg~DP--Elr~T~sG--~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syed 144 (332)
+..|.|+|+|-.=. +++ .+| ..+....|| .+|--|++++|++++ |..||.|.|.+-- ++.|.+
T Consensus 68 ~~~V~v~~kVl~i~~rt~r--~dg~~g~v~~~~ig----DeTG~Ir~tlW~~~~------l~~Gdvv~I~na~-vre~~g 134 (423)
T PRK07218 68 DKNVTVTGRVLTIGERSIR--YQGDDHVIYEGILA----DETGTISYTAWKDFG------LSPGDTVTIGNAG-VREWDG 134 (423)
T ss_pred CceeEEEEEEEEecceeEe--cCCCceEEEEEEEE----CCCCeEEEEEECCCC------CCCCCEEEEeccE-eeccCC
Confidence 57899999986443 443 334 345556666 678999999999774 9999999999743 334544
Q ss_pred C
Q 020012 145 E 145 (332)
Q Consensus 145 k 145 (332)
.
T Consensus 135 ~ 135 (423)
T PRK07218 135 R 135 (423)
T ss_pred c
Confidence 3
No 94
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=64.11 E-value=35 Score=37.39 Aligned_cols=65 Identities=15% Similarity=0.145 Sum_probs=49.1
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecC
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~s 141 (332)
-.|++.|.|..-.-.. ..++....+++. +.+.-+.+++|+.-| .+.+.|+.|..|.|.|++....
T Consensus 61 ~~vti~g~V~~~~~~~--~~~~~~l~v~~~----d~~~~l~l~fFn~~~-~l~~~~~~G~~v~v~Gk~~~~~ 125 (677)
T COG1200 61 EIVTIEGTVLSHEKFP--FGKRKLLKVTLS----DGTGVLTLVFFNFPA-YLKKKLKVGERVIVYGKVKRFK 125 (677)
T ss_pred ceEEEEEEEEeeeccC--CCCCceEEEEEe----cCcEEEEEEEECccH-HHHhhCCCCCEEEEEEEEeecc
Confidence 3689999998643332 344555455444 357889999999998 8888999999999999998744
No 95
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=63.77 E-value=23 Score=38.27 Aligned_cols=63 Identities=13% Similarity=0.090 Sum_probs=43.5
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t 139 (332)
..|+++|+|..-.... . +..+..+.+. +++--+.|++|+--...+.+.|++|+.|+|.|++..
T Consensus 60 ~~vtv~g~V~~~~~~~-~--~~~~~~v~l~----D~tg~i~l~~F~~n~~~~~~~l~~G~~~~v~Gkv~~ 122 (681)
T PRK10917 60 EKVTVEGEVLSAEVVF-G--KRRRLTVTVS----DGTGNLTLRFFNFNQPYLKKQLKVGKRVAVYGKVKR 122 (681)
T ss_pred CEEEEEEEEEEEEEcc-C--CceEEEEEEE----ECCeEEEEEEEccCcHHHHhhCCCCCEEEEEEEEEe
Confidence 4789999987653332 2 4545555554 344568999994212267788999999999999986
No 96
>PRK06386 replication factor A; Reviewed
Probab=63.72 E-value=36 Score=34.51 Aligned_cols=76 Identities=17% Similarity=0.145 Sum_probs=50.5
Q ss_pred cceEEEEEEeCCCCeEEECC-CC-cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCC
Q 020012 69 ANSVNLIGHVDAPVQFQTSS-DG-KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~-sG-~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkg 146 (332)
+..|++.|+|..-++-.+.. +| ..+....|+ ++|--|++++|++ .|..||.|.|.+-- .+.|.+
T Consensus 117 ~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg----DeTGrIr~TlW~~-------~l~eGd~v~i~na~-v~e~~G-- 182 (358)
T PRK06386 117 TPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE----DDTARVRISSFGK-------PLEDNRFVRIENAR-VSQYNG-- 182 (358)
T ss_pred CCceEEEEEEEEccCceEecCCCccEEEEEEEE----cCCCeEEEEEccc-------cccCCCEEEEeeeE-EEccCC--
Confidence 56788999997655533333 33 445556555 7789999999986 48999999999844 555533
Q ss_pred eeEEEEEEeEEEEe
Q 020012 147 QANVQVMVHSLNLI 160 (332)
Q Consensus 147 rs~~eVvVe~I~FL 160 (332)
.++|.+.+..-|
T Consensus 183 --~~el~v~~~t~I 194 (358)
T PRK06386 183 --YIEISVGNKSVI 194 (358)
T ss_pred --eEEEEeCCeEEE
Confidence 344444444433
No 97
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=63.41 E-value=79 Score=34.03 Aligned_cols=83 Identities=17% Similarity=0.330 Sum_probs=53.6
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH--HHhhcCCCCeEEEEEEeeecCCC--c-C
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI--ASSHLKKDDHVHIAGQLTADPPA--I-E 145 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~--~aqyLkKGD~V~VeGrL~t~sye--d-k 145 (332)
.|.|.|+|.+ +|. .|+ ++.+.|- + .+..+.|++-.. .+. ....|+.|+.|.|+|.+..+.-. . +
T Consensus 19 ~V~l~GwV~~---~R~--~g~-l~Fi~Lr-D---~~g~iQ~v~~~~-~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~~ 87 (588)
T PRK00476 19 TVTLCGWVHR---RRD--HGG-LIFIDLR-D---REGIVQVVFDPD-AEAFEVAESLRSEYVIQVTGTVRARPEGTVNPN 87 (588)
T ss_pred EEEEEEEEEE---EEe--CCC-eEEEEEE-e---CCceEEEEEeCC-HHHHHHHhCCCCCCEEEEEEEEEecCCcccCcc
Confidence 4999999964 443 343 3444443 2 234588877542 222 34579999999999999865311 1 1
Q ss_pred -CeeEEEEEEeEEEEeccCC
Q 020012 146 -GQANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 146 -grs~~eVvVe~I~FL~~k~ 164 (332)
..-.+||.|++|..|....
T Consensus 88 ~~~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 88 LPTGEIEVLASELEVLNKSK 107 (588)
T ss_pred CCCCcEEEEEeEEEEEecCC
Confidence 1235899999999998654
No 98
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=63.32 E-value=37 Score=36.30 Aligned_cols=64 Identities=9% Similarity=0.111 Sum_probs=43.3
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
-.|++.|.|.... . ....+..+..+.+.. . .+.-+.|++|+ . ..+.+.+++|+.|+|.|++...
T Consensus 33 ~~~~~~~~v~~~~-~-~~~~~~~~~~~~~~d--~-~~~~~~~~~F~-~-~~~~~~~~~g~~~~~~Gk~~~~ 96 (630)
T TIGR00643 33 ERATIVGEVLSHC-I-FGFKRRKVLKLRLKD--G-GYKKLELRFFN-R-AFLKKKFKVGSKVVVYGKVKSS 96 (630)
T ss_pred CEEEEEEEEEEeE-e-ccCCCCceEEEEEEE--C-CCCEEEEEEEC-C-HHHHhhCCCCCEEEEEEEEEee
Confidence 4689999987632 2 112333344444432 1 45678999998 2 3677889999999999999753
No 99
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=63.04 E-value=77 Score=32.74 Aligned_cols=81 Identities=17% Similarity=0.198 Sum_probs=50.8
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc---HHHHHHhhcCCCCeEEEEEEeeecCCCcCC
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD---LAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGk---LAE~~aqyLkKGD~V~VeGrL~t~syedkg 146 (332)
..|.+.|+|.. +|.. |+. +.+.|- + .+.-+.|++-.+ -+-.....|..||.|.|.|.+.... .+
T Consensus 17 ~~V~i~G~v~~---~R~~--g~~-~Fi~lr-D---~~g~iq~~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~---~~ 83 (450)
T PRK03932 17 QEVTVRGWVRT---KRDS--GKI-AFLQLR-D---GSCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVTGTVVESP---RA 83 (450)
T ss_pred CEEEEEEEEEE---EEeC--CCe-EEEEEE-C---CCCcEEEEEEcCCChHHHHHHhcCCCCcEEEEEEEEEcCC---CC
Confidence 56999999963 4443 543 334332 2 234555544322 1111235699999999999998532 12
Q ss_pred eeEEEEEEeEEEEeccC
Q 020012 147 QANVQVMVHSLNLIEPT 163 (332)
Q Consensus 147 rs~~eVvVe~I~FL~~k 163 (332)
...++|.|+++..|...
T Consensus 84 ~~~~el~~~~i~vl~~~ 100 (450)
T PRK03932 84 GQGYELQATKIEVIGED 100 (450)
T ss_pred CCCEEEEEEEEEEccCC
Confidence 34689999999999863
No 100
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=62.72 E-value=23 Score=31.31 Aligned_cols=62 Identities=13% Similarity=0.119 Sum_probs=45.8
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t 139 (332)
++++++=-|-.+-+...|.+|.-+..+-+| ++|--|.+.+|++.. ..++.||.|.+.|-..+
T Consensus 15 kN~~v~fIvl~~g~~tkTkdg~~v~~~kVa----D~TgsI~isvW~e~~----~~~~PGDIirLt~Gy~S 76 (134)
T KOG3416|consen 15 KNINVTFIVLEYGRATKTKDGHEVRSCKVA----DETGSINISVWDEEG----CLIQPGDIIRLTGGYAS 76 (134)
T ss_pred hcceEEEEEEeeceeeeccCCCEEEEEEEe----cccceEEEEEecCcC----cccCCccEEEecccchh
Confidence 344444444555566789999999888887 678899999999543 35789999999886543
No 101
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=62.14 E-value=78 Score=34.74 Aligned_cols=77 Identities=14% Similarity=0.144 Sum_probs=51.4
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc------HHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD------LAHIASSHLKKDDHVHIAGQLTADPPAI 144 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGk------LAE~~aqyLkKGD~V~VeGrL~t~syed 144 (332)
.|.|-|||.. +|. .|+ ++.+.|- + .+.-|+|++-.+ ....+.+.|..||.|.|+|.+....
T Consensus 109 ~V~vaGrV~~---~R~--~Gk-~~F~~Lr-D---~~G~IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~v~~t~--- 175 (659)
T PTZ00385 109 TVRVAGRVTS---VRD--IGK-IIFVTIR-S---NGNELQVVGQVGEHFTREDLKKLKVSLRVGDIIGADGVPCRMQ--- 175 (659)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEEE-E---CCceEEEEEECCccCCHHHHHHHHhCCCCCCEEEEEEEEEecC---
Confidence 3999999964 333 355 3444443 2 345778777533 2223445699999999999987432
Q ss_pred CCeeEEEEEEeEEEEecc
Q 020012 145 EGQANVQVMVHSLNLIEP 162 (332)
Q Consensus 145 kgrs~~eVvVe~I~FL~~ 162 (332)
.--++|.|++|.+|..
T Consensus 176 --~GeleI~~~~i~lLsk 191 (659)
T PTZ00385 176 --RGELSVAASRMLILSP 191 (659)
T ss_pred --CceEEEEeeEEEEech
Confidence 2347899999999885
No 102
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=60.29 E-value=85 Score=32.91 Aligned_cols=79 Identities=20% Similarity=0.209 Sum_probs=51.3
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHH---HHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGk-LAE~---~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
-.|++.|+|.. +|. .|+ ++.+.|- + .+.-|.|++-.+ +.+. ....|..||.|.|.|.+....
T Consensus 55 ~~v~v~G~v~~---~R~--~g~-~~Fi~lr-D---~~g~iQ~v~~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~t~---- 120 (491)
T PRK00484 55 IEVSVAGRVML---KRV--MGK-ASFATLQ-D---GSGRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKTK---- 120 (491)
T ss_pred cEEEEEEEEEE---Eec--CCc-eEEEEEE-c---CCccEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEcC----
Confidence 35899999964 333 354 3444443 2 223578777543 2111 223499999999999998642
Q ss_pred CeeEEEEEEeEEEEeccC
Q 020012 146 GQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~k 163 (332)
.-.++|.|+++.+|.+.
T Consensus 121 -~ge~el~~~~~~vls~~ 137 (491)
T PRK00484 121 -TGELSVKATELTLLTKS 137 (491)
T ss_pred -CCcEEEEEeEEEEEecc
Confidence 13589999999999765
No 103
>PLN02603 asparaginyl-tRNA synthetase
Probab=59.15 E-value=1.4e+02 Score=32.18 Aligned_cols=85 Identities=14% Similarity=0.243 Sum_probs=53.0
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HH-HhhcCCCCeEEEEEEeeecCCCcC
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IA-SSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE--~~-aqyLkKGD~V~VeGrL~t~syedk 145 (332)
-..|.+-|+|- .+|. .|+ ++ | |.++.+....-|.|++-.+.+. .+ ...|..||.|.|+|.+.... .
T Consensus 107 g~~V~v~GwV~---~iR~--~g~-~~-F-i~l~Dgs~~~~lQ~v~~~~~~~~~~l~~~~l~~gs~V~V~G~v~~~~---~ 175 (565)
T PLN02603 107 GKTLNVMGWVR---TLRA--QSS-VT-F-IEVNDGSCLSNMQCVMTPDAEGYDQVESGLITTGASVLVQGTVVSSQ---G 175 (565)
T ss_pred CCEEEEEEEEE---EEEe--CCC-eE-E-EEEECCCCCEeEEEEEECcHHHHHHHhhcCCCCCCEEEEEEEEEecC---C
Confidence 35688888886 4443 244 23 3 2233233334588887544321 11 12488999999999998542 2
Q ss_pred CeeEEEEEEeEEEEeccCC
Q 020012 146 GQANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~k~ 164 (332)
+...+||.|++|..|....
T Consensus 176 ~~~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 176 GKQKVELKVSKIVVVGKSD 194 (565)
T ss_pred CCccEEEEEeEEEEEECCC
Confidence 3356999999999998654
No 104
>cd05898 Ig5_KIRREL3 Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein (also known as Neph2). Ig5_KIRREL3: the fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein (also known as Neph2). This protein has five Ig-like domains, one transmembrane domain, and a cytoplasmic tail. Included in this group is mammalian Kirrel (Neph1). These proteins contain multiple Ig domains, have properties of cell adhesion molecules, and are important in organ development. Neph1 and 2 may mediate axonal guidance and synapse formation in certain areas of the CNS. In the kidney, they participate in the formation of the slit diaphragm.
Probab=57.69 E-value=18 Score=29.70 Aligned_cols=85 Identities=13% Similarity=0.082 Sum_probs=47.6
Q ss_pred CccccCCccccccccccCCceeeccCCCCCCCCCccccCccccceEEE-EEEeCCCCeEEECCCCcEEEEEEEEEcCCCC
Q 020012 27 PAHFTRPFSSRAHQFTKATTKTTTSKDVVWPKPSEIPFQVKVANSVNL-IGHVDAPVQFQTSSDGKHWAGTVIVQHAASH 105 (332)
Q Consensus 27 ~~~~~~~~st~~~~~~~~~~~~~~~~~~~~prP~tI~w~p~l~NsV~L-IGrLg~DPElr~T~sG~~vA~fsLAv~~~~~ 105 (332)
|+.|++..|.-+..-..+.+.|... ..|+|..|.|.-+- ..| .|.-+ .-.+.....+.- ....|...+...
T Consensus 2 pP~i~~~~s~~~~~G~~~~L~C~~~---s~P~P~~i~W~w~~---~~i~~~~~~-r~~I~~~~~~~g-~~S~L~I~~~~~ 73 (98)
T cd05898 2 PPIISSEQVQYAVRGERGKVKCFIG---STPPPDRIAWAWKE---NVLESGTSE-RYTVERTSTGSG-VLSTLTINNIME 73 (98)
T ss_pred CCEEecCceEEEeCCCcEEEEEEEc---cCCCCcEEEEEEcc---ccccCCCCC-CEEEEEEccCCC-cEEEEEECCCcc
Confidence 5677888888777755567789875 78999999885541 111 11111 122322221111 234455554333
Q ss_pred Ce---eEEEEEeccHHH
Q 020012 106 SL---WIPILFEGDLAH 119 (332)
Q Consensus 106 T~---wI~VvaWGkLAE 119 (332)
.+ -..|.+++.+..
T Consensus 74 ~d~~g~Y~C~a~N~~G~ 90 (98)
T cd05898 74 ADFQTHYNCTAWNSFGS 90 (98)
T ss_pred ccCCcEEEEEEEeCCcc
Confidence 33 588999887653
No 105
>PLN02221 asparaginyl-tRNA synthetase
Probab=57.28 E-value=1.1e+02 Score=33.10 Aligned_cols=86 Identities=16% Similarity=0.245 Sum_probs=54.9
Q ss_pred ceEEEEEEeCCCCeEEECCCCc-EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC-Ce
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE-GQ 147 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~-~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedk-gr 147 (332)
..|.|.|+|-. +| ..|+ .++ | |.++.+.-.-.++|++-.++.. ..+.|+.|+.|.|.|.+..+.- .+ ..
T Consensus 51 ~~V~I~GWV~~---iR--~~Gk~~i~-F-l~LRDgs~~g~iQvVv~~~~~~-~~~~L~~ES~V~V~G~V~~~~~-~~~~~ 121 (572)
T PLN02221 51 QKVRIGGWVKT---GR--EQGKGTFA-F-LEVNDGSCPANLQVMVDSSLYD-LSTLVATGTCVTVDGVLKVPPE-GKGTK 121 (572)
T ss_pred CEEEEEEEEEe---hh--hCCCceEE-E-EEEeCCcccccEEEEEcCchhh-HHhcCCCceEEEEEEEEEeCCc-cCCCC
Confidence 35889999874 22 2343 233 3 2333222224789988655332 3346899999999999986542 22 22
Q ss_pred eEEEEEEeEEEEeccCC
Q 020012 148 ANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 148 s~~eVvVe~I~FL~~k~ 164 (332)
..+||.|++|..|....
T Consensus 122 ~~iEl~v~~i~vl~~a~ 138 (572)
T PLN02221 122 QKIELSVEKVIDVGTVD 138 (572)
T ss_pred ccEEEEEeEEEEEecCC
Confidence 37999999999998653
No 106
>PF10451 Stn1: Telomere regulation protein Stn1; InterPro: IPR018856 The budding yeast protein Stn1 is a DNA-binding protein which has specificity for telomeric DNA. Structural profiling has predicted an OB-fold []. This entry represents the N-terminal part of the molecule, which adopts the OB fold. Protection of telomeres by multiple proteins with OB-fold domains is conserved in eukaryotic evolution [].; PDB: 3KF6_A 3KF8_A.
Probab=55.22 E-value=44 Score=32.27 Aligned_cols=94 Identities=12% Similarity=0.098 Sum_probs=56.0
Q ss_pred CCccccCccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH---HHhhcCCCCeEEEEE
Q 020012 59 PSEIPFQVKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI---ASSHLKKDDHVHIAG 135 (332)
Q Consensus 59 P~tI~w~p~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~---~aqyLkKGD~V~VeG 135 (332)
..-+=|...-+|.|.|+|.|..-- .+...+.. +..+.++.+.....+.|+++....-. -...+ -|+.|.|.|
T Consensus 56 ~~~~f~~NhPI~~v~i~G~Vv~~~-~~~~~~~~---~~~l~iDD~Sg~~~i~~~~~~~~~~~~~l~~~~~-~G~~V~VkG 130 (256)
T PF10451_consen 56 QNIYFYNNHPIRWVRIVGVVVGID-YKWIENED---RIILTIDDSSGANTIECKCSKSSYLSMGLPINDL-IGKVVEVKG 130 (256)
T ss_dssp TT-EEETTEEE-EEEEEEEEEEEE-EEE-BBTC---EEEEEEE-SSCS-EEEEEEEHHHHHCCCHHCTT--TT-EEEEEE
T ss_pred CCEEEECCcccEEEEEEEEEEEEE-EEeecccc---eEEEEEeCCCCceeEEEEEEcccccccCCCccCC-CCcEEEEEE
Confidence 344445566799999999998743 22222222 34455676544449999999663211 12234 899999999
Q ss_pred EeeecCCCcCCeeEEEEEEeEEEEeccCCc
Q 020012 136 QLTADPPAIEGQANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 136 rL~t~syedkgrs~~eVvVe~I~FL~~k~~ 165 (332)
.+. +..-++.|+.|..+.+-..
T Consensus 131 ~vs--------r~~~ql~ve~i~~~~~l~~ 152 (256)
T PF10451_consen 131 TVS--------RNERQLDVERIELVRDLNA 152 (256)
T ss_dssp EEE--------SSSEEEEEEEEEEETSCCH
T ss_pred EEc--------cCcEEEEEEEEEccCChHH
Confidence 999 2234677888888865544
No 107
>PLN02502 lysyl-tRNA synthetase
Probab=54.66 E-value=1.1e+02 Score=32.76 Aligned_cols=78 Identities=18% Similarity=0.200 Sum_probs=49.9
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HH------HHHHhhcCCCCeEEEEEEeeecCCC
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LA------HIASSHLKKDDHVHIAGQLTADPPA 143 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGk-LA------E~~aqyLkKGD~V~VeGrL~t~sye 143 (332)
.|.+.|||.. +| ..|+ ++.+.|- + .+.-|.|++-.+ +. +.+...|..||.|.|+|.+....
T Consensus 110 ~V~v~GrV~~---~R--~~Gk-~~F~~Lr-D---~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t~-- 177 (553)
T PLN02502 110 SVSVAGRIMA---KR--AFGK-LAFYDLR-D---DGGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKTK-- 177 (553)
T ss_pred EEEEEEEEEE---Ee--cCCC-eEEEEEe-c---CCccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEecC--
Confidence 4888899874 23 2454 3444443 2 234577776533 21 12334589999999999987532
Q ss_pred cCCeeEEEEEEeEEEEeccC
Q 020012 144 IEGQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 144 dkgrs~~eVvVe~I~FL~~k 163 (332)
.-.++|.|++|.+|...
T Consensus 178 ---~gelel~~~~i~vLs~~ 194 (553)
T PLN02502 178 ---KGELSIFPTSFEVLTKC 194 (553)
T ss_pred ---CCCEEEEEeEEEEEecc
Confidence 23588999999998755
No 108
>PF12869 tRNA_anti-like: tRNA_anti-like; InterPro: IPR024422 The function of the proteins in this entry is not known, but they contain a novel variant of the nucleic acid-binding OB fold [].; PDB: 3F1Z_I.
Probab=54.24 E-value=65 Score=27.07 Aligned_cols=63 Identities=21% Similarity=0.309 Sum_probs=31.4
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH-HHHHHhhcCCCCeEEEEEEeeec
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL-AE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
.|.+.|.|. ++.. ..+..+ +.+... ......+.|.+-.+- .......|++||.|.|.|.....
T Consensus 69 ~i~vtG~V~---~I~~-~~~~~~--~~~~~~-~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~ 132 (144)
T PF12869_consen 69 IIEVTGTVS---SIDK-GFGDNY--VVLLGT-ENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGY 132 (144)
T ss_dssp EEEEEEEEE---EEEE--STT-E--EEEEE--TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE----
T ss_pred EEEEEEEEE---EEEE-cCCCcE--EEEccC-CCCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEee
Confidence 367779986 4444 334433 333322 244556777766665 33345579999999999998765
No 109
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=54.02 E-value=47 Score=38.59 Aligned_cols=66 Identities=12% Similarity=0.080 Sum_probs=53.6
Q ss_pred eEEEEEEeCCCCeEEECC-CCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecC
Q 020012 71 SVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~-sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~s 141 (332)
.+.++|-|..- ..+.|. +|..++..+|. +++--+.|++|-...+.....+..|..++|.|+++.+.
T Consensus 978 ~~~~~~~i~~v-r~~~tk~~G~~~~f~tl~----D~~g~~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~~ 1044 (1139)
T COG0587 978 RVVLAGGIVAV-RQRPTKAKGNKMAFLTLE----DETGILEVVVFPSEYERYRRLLLEGRLLIVKGKVQRRE 1044 (1139)
T ss_pred eeEEEEEEEEE-EEeeccCCCCEEEEEEEe----cCCCcEEEEEcHHHHHHHHHHhccCcEEEEEEEEEecc
Confidence 46777888764 444555 89989888887 33448999999999999999999999999999999854
No 110
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=53.57 E-value=99 Score=33.38 Aligned_cols=78 Identities=14% Similarity=0.214 Sum_probs=49.9
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH----HH---HHHhhcCCCCeEEEEEEeeecCCCc
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL----AH---IASSHLKKDDHVHIAGQLTADPPAI 144 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL----AE---~~aqyLkKGD~V~VeGrL~t~syed 144 (332)
|.+-|||.+ +|. .|+.++.+.|- + ++.-|+|++-.+. .+ .+...|..||.|.|+|.+....
T Consensus 135 v~v~Grv~~---~R~--~G~k~~F~~L~-d---~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~t~--- 202 (585)
T PTZ00417 135 LNVTGRIMR---VSA--SGQKLRFFDLV-G---DGAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGKSK--- 202 (585)
T ss_pred EEEEEEEEe---eec--CCCCCEEEEEE-e---CCeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcCCC---
Confidence 889999953 333 35334555553 2 2235888775321 12 2345699999999999965321
Q ss_pred CCeeEEEEEEeEEEEeccC
Q 020012 145 EGQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 145 kgrs~~eVvVe~I~FL~~k 163 (332)
.--++|.|++|..|.+.
T Consensus 203 --~gel~i~~~~i~llsk~ 219 (585)
T PTZ00417 203 --KGELSIFPKETIILSPC 219 (585)
T ss_pred --CceEEEEEEEEEEEecC
Confidence 22578999999998754
No 111
>PHA01740 putative single-stranded DNA-binding protein
Probab=53.44 E-value=6.7 Score=35.05 Aligned_cols=23 Identities=22% Similarity=0.403 Sum_probs=18.9
Q ss_pred cccCCCCCCCCCCCCCCCC--CcceecCC
Q 020012 216 DKLKGLVKPRYPDFKRKDG--TLPLWLNS 242 (332)
Q Consensus 216 ~K~n~~~~pk~PDFKhkdt--~~aLWl~~ 242 (332)
.|+| ||||||+-|.+ |.-+||..
T Consensus 17 qkk~----dK~PDf~GkInI~G~~yw~SG 41 (158)
T PHA01740 17 QPKN----DKSPHFTGKVDIRGTVYWLAG 41 (158)
T ss_pred ccCC----CCCCCcCceEeeCCEEEEeec
Confidence 4566 99999999966 88899874
No 112
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=53.12 E-value=26 Score=38.06 Aligned_cols=79 Identities=16% Similarity=0.200 Sum_probs=58.9
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCee
Q 020012 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (332)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs 148 (332)
=-.|.+-|.|+ ++++|++-+ .|+|. .+|.++.+.+|..-...+.-++..||.|.|.|....+. +
T Consensus 213 g~tV~I~GeV~---qikqT~GPT---VFtlt----Detg~i~aAAFe~aGvRAyP~IevGdiV~ViG~V~~r~----g-- 276 (715)
T COG1107 213 GKTVRIEGEVT---QIKQTSGPT---VFTLT----DETGAIWAAAFEEAGVRAYPEIEVGDIVEVIGEVTRRD----G-- 276 (715)
T ss_pred CceEEEEEEEE---EEEEcCCCE---EEEEe----cCCCceehhhhccCCcccCCCCCCCceEEEEEEEeecC----C--
Confidence 34577778876 466665433 36665 77899999999999999999999999999999998664 3
Q ss_pred EEEEEEeEEEEeccC
Q 020012 149 NVQVMVHSLNLIEPT 163 (332)
Q Consensus 149 ~~eVvVe~I~FL~~k 163 (332)
.++|.+..++-|...
T Consensus 277 ~lQiE~~~me~L~G~ 291 (715)
T COG1107 277 RLQIEIEAMEKLTGD 291 (715)
T ss_pred cEEEeehhhHHhhCc
Confidence 345556666655443
No 113
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=53.07 E-value=1.4e+02 Score=31.52 Aligned_cols=78 Identities=14% Similarity=0.160 Sum_probs=50.9
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEec-cHHH----HHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLAH----IASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWG-kLAE----~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
.|.+.|||.. +|. .|+. +.+.|- +. +.-|.|++-. .+.+ .....|..||.|.|+|.+....
T Consensus 67 ~v~v~Grv~~---~R~--~Gk~-~F~~lr-D~---~g~iQ~~~~~~~~~~~~~~~~~~~l~~Gd~V~v~G~~~~t~---- 132 (505)
T PRK12445 67 EVSVAGRMMT---RRI--MGKA-SFVTLQ-DV---GGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQ---- 132 (505)
T ss_pred EEEEEEEEEE---Eec--CCCc-EEEEEE-eC---CccEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEecC----
Confidence 4999999964 343 3553 444443 32 2347777653 2221 1345699999999999997532
Q ss_pred CeeEEEEEEeEEEEeccC
Q 020012 146 GQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~k 163 (332)
.-.++|.|+++.+|.+.
T Consensus 133 -~gelel~~~~~~llsk~ 149 (505)
T PRK12445 133 -TGELSIHCTELRLLTKA 149 (505)
T ss_pred -CCcEEEEEeEEEEEecC
Confidence 12589999999999765
No 114
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=52.92 E-value=53 Score=26.96 Aligned_cols=62 Identities=18% Similarity=0.213 Sum_probs=38.5
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-----C--CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-----A--SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 70 NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~-----~--~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
..+++.|+|...|+... +. .++.+.+.+ . ....-+.+.+-.+-.. .++.||.|.++|+|+.-
T Consensus 76 ~~~~v~g~V~~~~~~~~---~~--~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~l~~Gd~i~~~g~l~~~ 144 (176)
T PF13567_consen 76 KEVTVQGTVESVPQIDG---RG--QRFTLRVERVLAGGNWIPVSGKILLYLPKDSQP----RLQPGDRIRVRGKLKPP 144 (176)
T ss_pred ceEEEEEEEcccccccC---ce--EEEEEEEEEeeccccccccceeeEEEecccccc----ccCCCCEEEEEEEEecC
Confidence 45789999988887741 12 155554331 1 1224444444333332 68999999999999873
No 115
>COG3689 Predicted membrane protein [Function unknown]
Probab=52.56 E-value=60 Score=31.93 Aligned_cols=86 Identities=17% Similarity=0.167 Sum_probs=57.4
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCC-CCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeE
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAAS-HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~-~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~ 149 (332)
.|.++|.|-+|.-+. .+--++++|-|.+=-++ ...=..|.+ + + ...++-.+.|.|+|+|.+..+.+..+..
T Consensus 177 ~Ie~tGFVy~~~~~~--~N~lflaRFgiicC~ADa~vygl~v~~--~---~-~~~y~ndtWltvkGtl~~e~~~~~~~~i 248 (271)
T COG3689 177 KIEFTGFVYNDESFP--KNYLFLARFGIICCAADAGVYGLLVEL--D---N-QTDYKNDTWLTVKGTLSSEYLSDFKKRI 248 (271)
T ss_pred eEEEEEEEECCCCCC--cceeehhhhheeeeeccceeEEEEEEc--c---c-cccCCCCceEEEEeEEEeeecCchhhcC
Confidence 688999998876552 24467888877533211 111122222 1 1 2247899999999999999887766666
Q ss_pred EEEEEeEEEEeccCC
Q 020012 150 VQVMVHSLNLIEPTS 164 (332)
Q Consensus 150 ~eVvVe~I~FL~~k~ 164 (332)
.-|.|++++-|..+.
T Consensus 249 pvi~v~sv~~I~kP~ 263 (271)
T COG3689 249 PVIEVDSVEVIPKPA 263 (271)
T ss_pred cEEEeeeeeecCCCC
Confidence 778889998886554
No 116
>TIGR00499 lysS_bact lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial. This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms.
Probab=51.83 E-value=1.5e+02 Score=31.25 Aligned_cols=78 Identities=21% Similarity=0.230 Sum_probs=49.5
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHH----HHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAH----IASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGk-LAE----~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
.|.+.|||.. +| ..|+ ++.+.|- +. +.-|.|++-.+ +.+ .+...|..||.|.|+|.+....
T Consensus 55 ~v~v~Grv~~---~R--~~gk-~~F~~l~-D~---~g~iQ~~~~~~~~~~~~~~~~~~~l~~gd~V~v~G~~~~t~---- 120 (496)
T TIGR00499 55 EVSIAGRIMA---RR--SMGK-ATFITLQ-DE---SGQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFKTK---- 120 (496)
T ss_pred EEEEEEEEEE---Ee--cCCC-eEEEEEE-cC---CccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEECC----
Confidence 4899999974 44 3454 3444333 32 23477766432 222 2333489999999999995321
Q ss_pred CeeEEEEEEeEEEEeccC
Q 020012 146 GQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~k 163 (332)
.-.++|.|+++..|.+.
T Consensus 121 -~gelel~~~~i~ilsk~ 137 (496)
T TIGR00499 121 -TGELSVHVTELQILTKA 137 (496)
T ss_pred -CCcEEEEeeEEEEEecC
Confidence 23489999999998765
No 117
>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.
Probab=51.71 E-value=94 Score=25.16 Aligned_cols=37 Identities=11% Similarity=0.119 Sum_probs=27.5
Q ss_pred CCCeeEEEEEeccHH--H------------------HHHhhcCCCCeEEEEEEeeec
Q 020012 104 SHSLWIPILFEGDLA--H------------------IASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 104 ~~T~wI~VvaWGkLA--E------------------~~aqyLkKGD~V~VeGrL~t~ 140 (332)
+.|--|.|++|.... + .....+..|+.|.|.|+|++.
T Consensus 22 DgTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~f 78 (92)
T cd04483 22 DGTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTY 78 (92)
T ss_pred cCCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEecc
Confidence 345568999997653 1 244569999999999999864
No 118
>cd04498 hPOT1_OB2 hPOT1_OB2: A subfamily of OB folds similar to the second OB fold (OB2) of human protection of telomeres 1 protein (hPOT1). POT1 proteins bind to the single-stranded (ss) 3-prime ends of the telomere. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB2) which cooperate to bind telomeric ssDNA. OB1 makes more extensive contact with the ssDNA than OB2. OB2 protects the 3' end of the ssDNA. hPOT1 is implicated in telomere length regulation.
Probab=51.70 E-value=22 Score=30.92 Aligned_cols=27 Identities=41% Similarity=0.430 Sum_probs=24.7
Q ss_pred eeEEEEEeccHHHHHHhhcCCCCeEEEE
Q 020012 107 LWIPILFEGDLAHIASSHLKKDDHVHIA 134 (332)
Q Consensus 107 ~wI~VvaWGkLAE~~aqyLkKGD~V~Ve 134 (332)
.-|+|++|+.-|+.+.+ |+.||-|.+.
T Consensus 60 ~ti~It~yD~H~~~ar~-lK~GdfV~L~ 86 (123)
T cd04498 60 LTIDILVYDNHVELAKS-LKPGDFVRIY 86 (123)
T ss_pred EEEEEEEEcchHHHHhh-CCCCCEEEEE
Confidence 67999999999998888 9999999886
No 119
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=51.18 E-value=41 Score=26.20 Aligned_cols=32 Identities=28% Similarity=0.296 Sum_probs=24.2
Q ss_pred CeeEEEEEe--ccHHHHHHhhcCCCCeEEEEEEee
Q 020012 106 SLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLT 138 (332)
Q Consensus 106 T~wI~VvaW--GkLAE~~aqyLkKGD~V~VeGrL~ 138 (332)
..-|-|... |.....+. .|+.||.|.|+|=+.
T Consensus 62 ~~~~~ik~~~~G~~S~~L~-~l~~Gd~v~i~gP~G 95 (99)
T PF00970_consen 62 YLEFAIKRYPNGRVSRYLH-QLKPGDEVEIRGPYG 95 (99)
T ss_dssp EEEEEEEECTTSHHHHHHH-TSCTTSEEEEEEEES
T ss_pred cEEEEEEeccCCHHHHHHH-hCCCCCEEEEEEccc
Confidence 344556666 77888884 599999999999654
No 120
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=48.46 E-value=57 Score=38.29 Aligned_cols=86 Identities=13% Similarity=0.129 Sum_probs=63.6
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HHHHHhhcCCCCeEEEEEEeeecCCCc
Q 020012 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHIASSHLKKDDHVHIAGQLTADPPAI 144 (332)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL--AE~~aqyLkKGD~V~VeGrL~t~syed 144 (332)
..+|.|.+.|.|=. .|.+.+.+|+.+..|.|. +.++-+.|..|-+. -+...+.+++|+.|-|.|.++.+....
T Consensus 237 ~~~~~v~v~G~IF~-~e~~~~ksGr~l~~i~vT----D~t~Sl~~k~f~~~~ed~~~~~~ik~g~wvk~~g~v~~d~f~~ 311 (1444)
T COG2176 237 EEETRVKVEGYIFK-IEIKELKSGRTLLNIKVT----DYTSSLILKKFLRDEEDEKKFDGIKKGMWVKARGNVQLDTFTR 311 (1444)
T ss_pred ccccceEEEEEEEE-EeeeecccCcEEEEEEEe----cCchheeehhhccccccHHHHhhcccCcEEEEEEEEEeccccc
Confidence 45678999999984 899999999988888776 33456667777663 234566799999999999999987654
Q ss_pred CCeeEEEEEEeEEEEec
Q 020012 145 EGQANVQVMVHSLNLIE 161 (332)
Q Consensus 145 kgrs~~eVvVe~I~FL~ 161 (332)
+ ..++|++|+-|.
T Consensus 312 ~----l~m~i~~I~ei~ 324 (1444)
T COG2176 312 D----LTMIINDINEIE 324 (1444)
T ss_pred c----eEEEhhhhhhhh
Confidence 3 245566665555
No 121
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=43.59 E-value=1.1e+02 Score=32.65 Aligned_cols=77 Identities=12% Similarity=0.236 Sum_probs=50.1
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH------HHHHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL------AHIASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL------AE~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
|++.|||.+ +| .+|..++.+.|--+ ..=++|++--+- -+...++|++||.|-|+|...-.
T Consensus 107 ~svaGRI~s---~R--~sGsKL~Fydl~~~----g~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgrt----- 172 (560)
T KOG1885|consen 107 VSVAGRIHS---KR--ESGSKLVFYDLHGD----GVKLQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGRT----- 172 (560)
T ss_pred eeeeeeEee---ee--ccCCceEEEEEecC----CeEEEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCcC-----
Confidence 888999976 22 35666677766533 223555554333 24567789999999999976421
Q ss_pred CeeEEEEEEeEEEEecc
Q 020012 146 GQANVQVMVHSLNLIEP 162 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~ 162 (332)
+.--..|++.+|.+|..
T Consensus 173 ~~gELSi~~~~~~lLsp 189 (560)
T KOG1885|consen 173 KSGELSIIPNEIILLSP 189 (560)
T ss_pred CCceEEEeecchheecc
Confidence 22256788888877754
No 122
>PLN02532 asparagine-tRNA synthetase
Probab=41.53 E-value=1e+02 Score=33.76 Aligned_cols=56 Identities=16% Similarity=0.279 Sum_probs=41.6
Q ss_pred eeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEEEEEEeEEEEeccCC
Q 020012 107 LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 107 ~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~eVvVe~I~FL~~k~ 164 (332)
..++||+-+..+... +.|+.|+.|.|+|.+..+.-. .....+||.|++|..|....
T Consensus 147 ~~lQvVv~~~~~~~~-~~L~~Es~V~V~G~V~~~~~~-~~~g~iEl~v~~i~VLg~a~ 202 (633)
T PLN02532 147 ASLQVVVDSALAPLT-QLMATGTCILAEGVLKLPLPA-QGKHVIELEVEKILHIGTVD 202 (633)
T ss_pred cceEEEEeCCcccHh-hcCCCceEEEEEEEEEecCCC-CCCCcEEEEeeEEEEEecCC
Confidence 349999887655333 679999999999999876210 12456999999999998643
No 123
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=39.02 E-value=55 Score=29.07 Aligned_cols=82 Identities=11% Similarity=0.171 Sum_probs=55.6
Q ss_pred cccce-EEEEEEeCCCCeEEECCCCcEEEEEEEEEcC--------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEe
Q 020012 67 KVANS-VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (332)
Q Consensus 67 ~l~Ns-V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~--------~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL 137 (332)
.|-++ |.|-|.+.- .+ .++..+..|.|+-.. ....+.|-|.+=+... .-.--+.|.|+|+|
T Consensus 52 ~L~Gk~V~i~Gf~vP-le----~~~~~v~eFlLvP~~gaC~h~PpPppNqiV~V~~~~~~~-----~~~~~~pv~V~G~l 121 (146)
T PF11736_consen 52 ALDGKQVRIPGFMVP-LE----QEEGKVTEFLLVPYFGACIHVPPPPPNQIVHVKMPKPIP-----VDSLYDPVWVEGTL 121 (146)
T ss_pred HhCCCEEEEeeEEEe-ec----cCCCcEEEEEEeccCCcCcCCCCCCCccEEEEEeCCCcc-----ccccceeEEEEEEE
Confidence 55444 788899872 33 334456778776332 1345888888865533 11234799999999
Q ss_pred eecCCCcC-CeeEEEEEEeEEE
Q 020012 138 TADPPAIE-GQANVQVMVHSLN 158 (332)
Q Consensus 138 ~t~syedk-grs~~eVvVe~I~ 158 (332)
+....+.. +...|.+.+..|.
T Consensus 122 ~~~~~~~~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 122 KVERSSSDLGTSGYSMDADSVE 143 (146)
T ss_pred EeccccchheeEEEEEEeeEEE
Confidence 99887666 7889999998875
No 124
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=37.63 E-value=1e+02 Score=35.24 Aligned_cols=64 Identities=17% Similarity=0.156 Sum_probs=49.9
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecC
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~s 141 (332)
.|.++|-|.. ...+. ..|..+|.++|. +.+.-+.|++|.+.=+.+.. |.+|+.++|+|+.+.+.
T Consensus 899 ~~~v~g~i~~-~~~~~-K~g~~maf~~~e----D~~~~~e~~~F~~~~~~~~~-l~~~~~~~~~~~~~~~~ 962 (973)
T PRK07135 899 EYRLAIEVKN-VKRLR-KANKEYKKVILS----DDSVEITIFVNDNDYLLFET-LKKGDIYEFLISKSKNN 962 (973)
T ss_pred eEEEEEEEEE-EEEEe-eCCCeEEEEEEE----ECCCcEEEEEcHHHHHHHHH-hhcCCEEEEEEEEcCCC
Confidence 4678887775 44444 778889888887 44566999999998777774 99999999999987654
No 125
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=37.54 E-value=42 Score=34.84 Aligned_cols=33 Identities=21% Similarity=0.323 Sum_probs=29.3
Q ss_pred CeeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 020012 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (332)
Q Consensus 106 T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~ 138 (332)
--.+.|.+-|+--..+.+.|+.|+.+.|+|--.
T Consensus 275 el~FsIK~LGD~Tk~l~dnLk~G~k~~vdGPYG 307 (438)
T COG4097 275 ELRFSIKALGDFTKTLKDNLKVGTKLEVDGPYG 307 (438)
T ss_pred eEEEEehhhhhhhHHHHHhccCCceEEEecCcc
Confidence 368889999999999999999999999998443
No 126
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=37.51 E-value=1.5e+02 Score=32.10 Aligned_cols=69 Identities=20% Similarity=0.144 Sum_probs=43.5
Q ss_pred eEEEEEEeCCCCeEEE---CCCCcEEEEEEEEEcCCCCC-eeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 020012 71 SVNLIGHVDAPVQFQT---SSDGKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (332)
Q Consensus 71 sV~LIGrLg~DPElr~---T~sG~~vA~fsLAv~~~~~T-~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syed 144 (332)
.|-+||-|..-=++.. -.+|+..-.-.|... +++ .-|+|++||+.|+.+. ...|+.|.|.|-.. ..|.+
T Consensus 312 ~VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~--D~sg~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V-~~f~g 384 (608)
T TIGR00617 312 LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLV--DDSGKSVRVTLWGDDATKFD--VSVQPVIAIKGVRV-SDFGG 384 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEE--eCCCCEEEEEEEhhhhhhcC--CCCCCEEEEEeEEE-EecCC
Confidence 6788888874333222 245554443333322 233 3699999999998775 67899999988443 34543
No 127
>PF08021 FAD_binding_9: Siderophore-interacting FAD-binding domain; InterPro: IPR013113 Proteins in this entry are siderophore-interacting FAD-binding proteins. This entry includes the vibriobactin utilization protein ViuB, which is involved in the removal of iron from iron-vibriobactin complexes, as well as several hypothetical proteins.; PDB: 2GPJ_A.
Probab=34.65 E-value=1e+02 Score=25.93 Aligned_cols=43 Identities=23% Similarity=0.209 Sum_probs=27.8
Q ss_pred EEEEEEEEcCCCCCeeEEEEEecc--HHHHHHhhcCCCCeEEEEE
Q 020012 93 WAGTVIVQHAASHSLWIPILFEGD--LAHIASSHLKKDDHVHIAG 135 (332)
Q Consensus 93 vA~fsLAv~~~~~T~wI~VvaWGk--LAE~~aqyLkKGD~V~VeG 135 (332)
-.|+.-+++....+.-|++++.+. .|-.-+..++.||.|.|.|
T Consensus 68 R~YTvR~~d~~~~~l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~g 112 (117)
T PF08021_consen 68 RTYTVRRFDPETGELDIDFVLHGDEGPASRWARSARPGDRVGVTG 112 (117)
T ss_dssp EEEE--EEETT--EEEEEEE--SS--HHHHHHHH--TT-EEEEEE
T ss_pred CCcCEeeEcCCCCEEEEEEEECCCCCchHHHHhhCCCCCEEEEeC
Confidence 345555677666788999999996 7888888999999999998
No 128
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=34.52 E-value=2.9e+02 Score=28.92 Aligned_cols=89 Identities=17% Similarity=0.163 Sum_probs=59.0
Q ss_pred ccccCCccccccccccCCceeeccCCCCCCCCCccccCccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCe
Q 020012 28 AHFTRPFSSRAHQFTKATTKTTTSKDVVWPKPSEIPFQVKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSL 107 (332)
Q Consensus 28 ~~~~~~~st~~~~~~~~~~~~~~~~~~~~prP~tI~w~p~l~NsV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~ 107 (332)
.+|-.+++|+.|=.-.+ ++..|. ..-+..+.|++..+|... .+|..+ |.+. +..-
T Consensus 242 ~if~TNqatD~hl~~~~-------------~l~d~~----~~~~~~v~g~v~~~p~~i--eGghv~--v~i~----d~~G 296 (421)
T COG1571 242 AIFETNQATDDHLVDKG-------------KLNDIE----DYSKYRVVGRVEAEPRAI--EGGHVV--VEIT----DGEG 296 (421)
T ss_pred EEEeccchhhhhccccc-------------hhhhhh----hccceEEEEEEecccEEe--eCCEEE--EEec----CCCc
Confidence 45667777777652221 123332 466789999999988764 345433 2221 2233
Q ss_pred eEEEEEeccHHHH--HHhhcCCCCeEEEEEEeeecC
Q 020012 108 WIPILFEGDLAHI--ASSHLKKDDHVHIAGQLTADP 141 (332)
Q Consensus 108 wI~VvaWGkLAE~--~aqyLkKGD~V~VeGrL~t~s 141 (332)
-|.|+||..+.+. ++..|.+||.|.|.|.+....
T Consensus 297 ~I~~~A~eptk~fr~~a~~L~pGD~i~~~G~~~~~~ 332 (421)
T COG1571 297 EIGAVAFEPTKEFRELARKLIPGDEITVYGSVKPGT 332 (421)
T ss_pred eEEEEEecccccchHHHHhcCCCCEEEEecCccccc
Confidence 7899998887664 557899999999999987654
No 129
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=33.79 E-value=3.2e+02 Score=31.85 Aligned_cols=78 Identities=15% Similarity=0.167 Sum_probs=50.4
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH-H----HHHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-A----HIASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 71 sV~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkL-A----E~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
.|.+-|||.. +|. .|+ ++.+.|- + .+.-|+|++-.+. . +...+.+..||.|.|+|.+.... .
T Consensus 653 ~V~v~Grv~~---~R~--~G~-~~F~~lr-D---~~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t~---~ 719 (1094)
T PRK02983 653 EVSVSGRVLR---IRD--YGG-VLFADLR-D---WSGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTSR---N 719 (1094)
T ss_pred EEEEEEEEEE---Eee--CCC-eEEEEEE-e---CCeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEcC---C
Confidence 5889999953 333 344 4444443 2 3356888775442 1 12234589999999999997532 1
Q ss_pred CeeEEEEEEeEEEEeccC
Q 020012 146 GQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~k 163 (332)
-.++|.|+++.++.+.
T Consensus 720 --ge~ei~~~~i~ll~k~ 735 (1094)
T PRK02983 720 --GTLSLLVTSWRLAGKC 735 (1094)
T ss_pred --CCEEEEEeEEEEEecc
Confidence 2478999999988754
No 130
>PF09104 BRCA-2_OB3: BRCA2, oligonucleotide/oligosaccharide-binding, domain 3; InterPro: IPR015188 This domain assumes an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel. OB3 has a pronounced groove formed by one face of the curved sheet and is demarcated by two loops, one between beta 1 and beta 2 and another between beta 4 and beta 5, which allows for strong ssDNA binding []. ; PDB: 1IYJ_D 1MIU_A.
Probab=33.00 E-value=1.4e+02 Score=26.84 Aligned_cols=86 Identities=14% Similarity=0.175 Sum_probs=44.4
Q ss_pred ccceEEEEEEeCCCCeEEECCCC-cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhh-cCCCCeEEEEEEeeecCCCcC
Q 020012 68 VANSVNLIGHVDAPVQFQTSSDG-KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSH-LKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~sG-~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqy-LkKGD~V~VeGrL~t~syedk 145 (332)
..+.|-++|-|..= ....| ..+++ |+ .+...++-|.+|+++.+.+.+- |+.|..|.++- |+-|. ..
T Consensus 17 p~~EvD~VG~VvsV----~~~~~f~~~vY--Ls---D~~~Nll~Ikfw~~l~~~~~eDilk~~~liA~SN-LqwR~--~s 84 (143)
T PF09104_consen 17 PYGEVDTVGFVVSV----SKKQGFQPLVY--LS---DECHNLLAIKFWTGLNQYGYEDILKPGSLIAASN-LQWRP--ES 84 (143)
T ss_dssp CCCEEEEEEEEEEE----E--TTS--EEE--EE----TTS-EEEEEESS-------SS---TT-EEEEEE-EEE-S---T
T ss_pred CccccceEEEEEEE----EecCCCceeEE--ee---cCCccEEEEEeccCccccchhhhcCcceEEEEee-eEeec--cc
Confidence 48999999998752 11223 23333 33 3567899999999999987776 69999999983 44331 11
Q ss_pred CeeEEEEEEeEEEEeccCCc
Q 020012 146 GQANVQVMVHSLNLIEPTSQ 165 (332)
Q Consensus 146 grs~~eVvVe~I~FL~~k~~ 165 (332)
......+.|.++..+...++
T Consensus 85 ~s~iP~~~A~d~S~FS~nPK 104 (143)
T PF09104_consen 85 TSGIPTLFATDLSVFSANPK 104 (143)
T ss_dssp TSSS-EEEEECCEEEESS-S
T ss_pred ccCCCeeEeccceeeecCcc
Confidence 22345677888877765443
No 131
>COG1018 Hmp Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]
Probab=31.86 E-value=1.4e+02 Score=28.66 Aligned_cols=32 Identities=22% Similarity=0.267 Sum_probs=26.3
Q ss_pred CeeEEEEEe--ccHHHHHHhhcCCCCeEEEEEEe
Q 020012 106 SLWIPILFE--GDLAHIASSHLKKDDHVHIAGQL 137 (332)
Q Consensus 106 T~wI~VvaW--GkLAE~~aqyLkKGD~V~VeGrL 137 (332)
..+|.|..- |.+...+.++|+.||.|.|++=-
T Consensus 67 ~~~isVk~~~~G~~S~~Lh~~lk~Gd~l~v~~P~ 100 (266)
T COG1018 67 LYRISVKREDGGGGSNWLHDHLKVGDTLEVSAPA 100 (266)
T ss_pred eEEEEEEEeCCCcccHHHHhcCCCCCEEEEecCC
Confidence 577888777 67888899999999999997543
No 132
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=31.52 E-value=27 Score=30.06 Aligned_cols=25 Identities=32% Similarity=0.400 Sum_probs=21.7
Q ss_pred cHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 116 kLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
++|+.+++.|++|+.|+.+|.|-..
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGaG 27 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGAG 27 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTSS
T ss_pred HHHHHHHHhCCCCCEEEEECCCCCC
Confidence 5899999999999999999999763
No 133
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=31.16 E-value=2.3e+02 Score=30.36 Aligned_cols=82 Identities=16% Similarity=0.214 Sum_probs=47.6
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEE-EeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeeEE
Q 020012 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPIL-FEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (332)
Q Consensus 72 V~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~Vv-aWGkLAE~~aqyLkKGD~V~VeGrL~t~syedkgrs~~ 150 (332)
|.+.|||-. +| ..|+ ++.+.|--..+.-..||.-. +=.+..+...+++..||.|.|.|.+-... + --.
T Consensus 64 v~vAGRi~~---~R--~~GK-~~F~~i~d~~gkiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~T~-~----Gel 132 (502)
T COG1190 64 VSVAGRIMT---IR--NMGK-ASFADLQDGSGKIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFKTK-T----GEL 132 (502)
T ss_pred eEEecceee---ec--ccCc-eeEEEEecCCceEEEEEeccccchhhHHHHHhccccCCEEeeeeeeeecC-C----Cce
Confidence 899999864 23 2453 44555542222222344433 22224444566677899999999986543 1 234
Q ss_pred EEEEeEEEEeccCC
Q 020012 151 QVMVHSLNLIEPTS 164 (332)
Q Consensus 151 eVvVe~I~FL~~k~ 164 (332)
.|.|+++.+|.+.-
T Consensus 133 Sv~v~~~~lLsKsL 146 (502)
T COG1190 133 SVSVEELRLLSKSL 146 (502)
T ss_pred EEEEEEEeeecccC
Confidence 57888887776543
No 134
>cd06216 FNR_iron_sulfur_binding_2 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to for
Probab=30.80 E-value=1.3e+02 Score=27.26 Aligned_cols=45 Identities=11% Similarity=0.167 Sum_probs=30.2
Q ss_pred EEEEEEcCC--CCCeeEEEEEe--ccHHHHHHhhcCCCCeEEEEEEeee
Q 020012 95 GTVIVQHAA--SHSLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (332)
Q Consensus 95 ~fsLAv~~~--~~T~wI~VvaW--GkLAE~~aqyLkKGD~V~VeGrL~t 139 (332)
.++|+.... ....-|.|..- |.....+.++++.||.|.|.|-+..
T Consensus 66 ~ysi~s~~~~~~~~l~~~ik~~~~G~~s~~l~~~~~~Gd~v~i~gP~G~ 114 (243)
T cd06216 66 SYSLSSSPTQEDGTITLTVKAQPDGLVSNWLVNHLAPGDVVELSQPQGD 114 (243)
T ss_pred EEeccCCCcCCCCeEEEEEEEcCCCcchhHHHhcCCCCCEEEEECCcee
Confidence 355653322 23344555555 7788888888999999999986654
No 135
>cd06191 FNR_iron_sulfur_binding Iron-sulfur binding Ferredoxin Reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with a C-terminal iron-sulfur binding cluster domain. FNR was intially identified as a chloroplast reductase activity catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methnae assimilation in a variety of organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in
Probab=28.38 E-value=1.5e+02 Score=26.72 Aligned_cols=25 Identities=16% Similarity=0.323 Sum_probs=20.9
Q ss_pred ccHHHHHHhhcCCCCeEEEEEEeee
Q 020012 115 GDLAHIASSHLKKDDHVHIAGQLTA 139 (332)
Q Consensus 115 GkLAE~~aqyLkKGD~V~VeGrL~t 139 (332)
|.....+.++++.||.|.|+|-...
T Consensus 70 G~~s~~l~~~~~~Gd~v~i~gP~G~ 94 (231)
T cd06191 70 GRVSNYLREHIQPGMTVEVMGPQGH 94 (231)
T ss_pred CccchHHHhcCCCCCEEEEeCCccc
Confidence 7778888888999999999996643
No 136
>PRK10646 ADP-binding protein; Provisional
Probab=26.34 E-value=49 Score=29.61 Aligned_cols=26 Identities=19% Similarity=0.157 Sum_probs=23.2
Q ss_pred ccHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 115 GDLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 115 GkLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
.++|+.+++.|+.||.|++.|.|-..
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaG 40 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAG 40 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCC
Confidence 35899999999999999999999864
No 137
>KOG3056 consensus Protein required for S-phase initiation or completion [Cell cycle control, cell division, chromosome partitioning]
Probab=26.26 E-value=1.9e+02 Score=31.28 Aligned_cols=67 Identities=13% Similarity=0.149 Sum_probs=49.9
Q ss_pred EEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC
Q 020012 73 NLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (332)
Q Consensus 73 ~LIGrLg~DPElr~T~sG~~vA~fsLAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedk 145 (332)
..+|-|...-..+.|.+|+.++.+.|..-+. + .-|.|-+||+ |..-.-.++-|+.|.| |.-....++
T Consensus 189 vt~GvI~~K~~~K~t~~G~~y~iwkL~dLk~-~-q~vslfLFG~-a~k~~wk~k~GtVial---LNp~v~k~~ 255 (578)
T KOG3056|consen 189 VTMGVIVEKSDPKFTSNGNPYSIWKLTDLKD-H-QTVSLFLFGK-AHKRYWKIKLGTVIAL---LNPEVLKDR 255 (578)
T ss_pred EEEEEEeecCCcccccCCCceEEEEeeecCc-c-ceeEEEEecH-HHHHHhhhccCcEEEE---eCccccCCC
Confidence 4578888888889999999998888875443 2 5688899999 6666666899998876 444444444
No 138
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=24.95 E-value=49 Score=29.35 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=20.1
Q ss_pred EeccHHHHHHhhcCCCCeEEEEE
Q 020012 113 FEGDLAHIASSHLKKDDHVHIAG 135 (332)
Q Consensus 113 aWGkLAE~~aqyLkKGD~V~VeG 135 (332)
..|+||..++..|.-||.|.|.-
T Consensus 9 vlGRLAs~IA~~L~~Gd~VvViN 31 (142)
T TIGR01077 9 ILGRLASVVAKQLLNGEKVVVVN 31 (142)
T ss_pred chHHHHHHHHHHHhcCCEEEEEe
Confidence 46899999999999999998853
No 139
>smart00350 MCM minichromosome maintenance proteins.
Probab=24.67 E-value=1.6e+02 Score=30.74 Aligned_cols=53 Identities=17% Similarity=0.349 Sum_probs=37.8
Q ss_pred CCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC-----Cee--EEEEEEeEEEEec
Q 020012 105 HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE-----GQA--NVQVMVHSLNLIE 161 (332)
Q Consensus 105 ~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedk-----grs--~~eVvVe~I~FL~ 161 (332)
-+-.+.|++-++|.+ .++.||+|.|.|-+....|..+ +.. .+-|.|..|..++
T Consensus 102 ~Prsi~v~l~~dLvd----~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~i~~~~ 161 (509)
T smart00350 102 LPRSVDVILDGDLVD----KAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANHVRKLD 161 (509)
T ss_pred CCcEEEEEEcccccC----cccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeEEEEcc
Confidence 357899999999987 5789999999999998755322 222 2445566665554
No 140
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=24.61 E-value=58 Score=29.27 Aligned_cols=25 Identities=32% Similarity=0.393 Sum_probs=22.7
Q ss_pred cHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 116 kLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
++|+.+++.|++||.|+++|-|-..
T Consensus 13 ~lg~~l~~~l~~g~Vv~L~GdLGAG 37 (149)
T COG0802 13 ALGERLAEALKAGDVVLLSGDLGAG 37 (149)
T ss_pred HHHHHHHhhCCCCCEEEEEcCCcCC
Confidence 5789999999999999999999864
No 141
>cd06198 FNR_like_3 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=23.45 E-value=1.9e+02 Score=25.74 Aligned_cols=33 Identities=24% Similarity=0.298 Sum_probs=25.3
Q ss_pred eeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 020012 107 LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (332)
Q Consensus 107 ~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t 139 (332)
.-|-|..-|.....+.++|+.||.|.|.|-+..
T Consensus 56 l~l~vk~~G~~t~~l~~~l~~G~~v~i~gP~G~ 88 (216)
T cd06198 56 LRFTIKALGDYTRRLAERLKPGTRVTVEGPYGR 88 (216)
T ss_pred EEEEEEeCChHHHHHHHhCCCCCEEEEECCCCC
Confidence 334445558888888888999999999997654
No 142
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=22.38 E-value=59 Score=29.04 Aligned_cols=22 Identities=27% Similarity=0.360 Sum_probs=19.5
Q ss_pred EeccHHHHHHhhcCCCCeEEEE
Q 020012 113 FEGDLAHIASSHLKKDDHVHIA 134 (332)
Q Consensus 113 aWGkLAE~~aqyLkKGD~V~Ve 134 (332)
..|+||..++..|.-||.|.|.
T Consensus 13 vlGRLAs~IA~~L~~Gd~VVVi 34 (146)
T PRK06394 13 ILGRLASYVAKRLLEGEEVVIV 34 (146)
T ss_pred chHHHHHHHHHHHhCCCEEEEE
Confidence 5688999999999999998885
No 143
>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]
Probab=22.02 E-value=1.3e+02 Score=33.29 Aligned_cols=55 Identities=18% Similarity=0.385 Sum_probs=42.7
Q ss_pred CeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC----CeeEEEEEEeEEEEeccCC
Q 020012 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE----GQANVQVMVHSLNLIEPTS 164 (332)
Q Consensus 106 T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedk----grs~~eVvVe~I~FL~~k~ 164 (332)
+--|.|++=.+|++ .+|.||+|-|.|-.+.---... +.-++-|++++|..+....
T Consensus 212 PRSVDvilddDLVD----~~KPGDRV~ivG~yr~Lp~k~~g~tsg~FRTvliaNni~~l~ke~ 270 (818)
T KOG0479|consen 212 PRSVDVILDDDLVD----RVKPGDRVNIVGIYRSLPGKSNGNTSGTFRTVLIANNIELLSKEA 270 (818)
T ss_pred CcceeEEecccccc----cCCCCCeeEEEEEEeeccCccCCcccceeEEEEEeccHHhhcccc
Confidence 46799999888875 6899999999998877543222 4456788999999997664
No 144
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=21.54 E-value=74 Score=27.70 Aligned_cols=25 Identities=20% Similarity=0.224 Sum_probs=22.7
Q ss_pred cHHHHHHhhcCCCCeEEEEEEeeec
Q 020012 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (332)
Q Consensus 116 kLAE~~aqyLkKGD~V~VeGrL~t~ 140 (332)
++|+.+++.|+.|+.|++.|.|-..
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaG 34 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAG 34 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCC
Confidence 5899999999999999999999764
No 145
>PRK13289 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional
Probab=21.12 E-value=2.7e+02 Score=27.44 Aligned_cols=44 Identities=14% Similarity=0.204 Sum_probs=29.7
Q ss_pred EEEEEcCCCCCeeEEEEEe--ccHHHHHHhhcCCCCeEEEEEEeee
Q 020012 96 TVIVQHAASHSLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (332)
Q Consensus 96 fsLAv~~~~~T~wI~VvaW--GkLAE~~aqyLkKGD~V~VeGrL~t 139 (332)
++||........-|.|..- |.....+.++|+.||.|.|.|-+..
T Consensus 208 ySias~p~~~~l~~~Vk~~~~G~~S~~L~~~l~~Gd~v~v~gP~G~ 253 (399)
T PRK13289 208 YSLSDAPNGKYYRISVKREAGGKVSNYLHDHVNVGDVLELAAPAGD 253 (399)
T ss_pred EEeeeCCCCCeEEEEEEECCCCeehHHHhhcCCCCCEEEEEcCccc
Confidence 5566433222333444444 7788888889999999999997654
No 146
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=20.01 E-value=4.4e+02 Score=27.74 Aligned_cols=58 Identities=9% Similarity=0.190 Sum_probs=41.3
Q ss_pred EEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC-CeeEEEEEEeEEEEeccC
Q 020012 98 IVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE-GQANVQVMVHSLNLIEPT 163 (332)
Q Consensus 98 LAv~~~~~T~wI~VvaWGkLAE~~aqyLkKGD~V~VeGrL~t~syedk-grs~~eVvVe~I~FL~~k 163 (332)
|.++.+.-..-++|++=. -..++|.-|..|.|+|.|... + .+..+|..|+.|..++.-
T Consensus 41 l~i~DGs~~~~lQvVv~~----~~~q~la~Gt~i~~~g~l~~~----~~~~q~iel~~eki~~vG~v 99 (446)
T KOG0554|consen 41 LDINDGSCPSPLQVVVDS----EQSQLLATGTCISAEGVLKVS----KGAKQQIELNAEKIKVVGTV 99 (446)
T ss_pred EEecCCCCCcceEEEech----HHhhhccccceEEEEeeEEec----cchheeeeeeeeEEEEEeec
Confidence 344444444455555533 467889999999999999887 5 567788888888877643
Done!