Query 019560
Match_columns 339
No_of_seqs 237 out of 1100
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 02:44:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019560.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019560hhsearch_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 5.3E-28 1.1E-32 201.8 14.3 98 68-165 1-108 (112)
2 PRK07275 single-stranded DNA-b 100.0 6.2E-28 1.3E-32 214.7 13.7 98 68-165 1-108 (162)
3 PRK07459 single-stranded DNA-b 100.0 2.4E-27 5.2E-32 201.4 14.8 99 68-166 2-107 (121)
4 PRK08486 single-stranded DNA-b 99.9 1E-26 2.2E-31 210.4 14.5 98 68-165 1-110 (182)
5 PRK06751 single-stranded DNA-b 99.9 2E-26 4.3E-31 207.1 14.4 99 68-166 1-109 (173)
6 PRK08182 single-stranded DNA-b 99.9 7.9E-26 1.7E-30 198.3 15.4 100 68-167 1-117 (148)
7 PRK08763 single-stranded DNA-b 99.9 6.7E-26 1.5E-30 202.2 14.6 100 66-165 2-113 (164)
8 PRK07274 single-stranded DNA-b 99.9 8.7E-26 1.9E-30 193.8 14.0 99 68-166 1-108 (131)
9 PRK06642 single-stranded DNA-b 99.9 1.9E-25 4.1E-30 196.7 15.0 101 66-166 2-120 (152)
10 PRK13732 single-stranded DNA-b 99.9 2.4E-25 5.3E-30 200.4 14.4 100 67-166 4-118 (175)
11 PRK06293 single-stranded DNA-b 99.9 3.5E-25 7.7E-30 197.1 14.9 97 69-165 1-104 (161)
12 PRK09010 single-stranded DNA-b 99.9 7.4E-25 1.6E-29 197.6 14.9 101 66-166 3-119 (177)
13 PRK06958 single-stranded DNA-b 99.9 1.6E-24 3.5E-29 196.2 14.3 98 69-166 4-114 (182)
14 PRK05733 single-stranded DNA-b 99.9 2.5E-24 5.4E-29 193.4 14.7 100 66-165 2-116 (172)
15 PRK06863 single-stranded DNA-b 99.9 2.7E-24 5.8E-29 192.6 14.8 98 69-166 4-114 (168)
16 TIGR00621 ssb single stranded 99.9 7.2E-24 1.6E-28 188.2 14.3 99 67-165 2-112 (164)
17 PRK06341 single-stranded DNA-b 99.9 1.6E-23 3.4E-28 187.4 14.4 99 66-164 2-118 (166)
18 PRK02801 primosomal replicatio 99.9 3E-23 6.6E-28 171.2 13.3 92 68-161 1-101 (101)
19 PF00436 SSB: Single-strand bi 99.9 2E-23 4.3E-28 167.9 10.3 92 69-160 1-104 (104)
20 PRK05813 single-stranded DNA-b 99.9 6.6E-23 1.4E-27 190.4 14.3 98 67-165 107-212 (219)
21 COG0629 Ssb Single-stranded DN 99.9 5.1E-23 1.1E-27 182.6 11.7 98 68-165 2-116 (167)
22 PRK07772 single-stranded DNA-b 99.9 3.5E-22 7.5E-27 181.6 13.4 91 68-158 3-107 (186)
23 PRK05853 hypothetical protein; 99.8 2.9E-20 6.3E-25 165.6 11.3 85 74-159 1-98 (161)
24 cd04496 SSB_OBF SSB_OBF: A sub 99.8 4.4E-19 9.6E-24 141.1 12.9 89 72-160 1-100 (100)
25 PRK05813 single-stranded DNA-b 99.8 3.1E-18 6.7E-23 159.3 13.8 96 68-165 7-105 (219)
26 KOG1653 Single-stranded DNA-bi 99.6 1.7E-15 3.6E-20 134.9 7.7 99 67-165 53-169 (175)
27 PRK00036 primosomal replicatio 98.7 1.8E-07 3.9E-12 78.9 10.4 91 69-163 1-99 (107)
28 COG2965 PriB Primosomal replic 98.4 7.6E-06 1.6E-10 68.2 11.7 94 67-161 2-103 (103)
29 PF01336 tRNA_anti-codon: OB-f 97.3 0.002 4.3E-08 48.1 8.5 75 72-160 1-75 (75)
30 cd04489 ExoVII_LU_OBF ExoVII_L 96.9 0.019 4.2E-07 43.8 10.9 74 72-158 2-75 (78)
31 cd04487 RecJ_OBF2_like RecJ_OB 96.7 0.014 3E-07 45.8 8.6 73 72-160 1-73 (73)
32 cd04484 polC_OBF polC_OBF: A s 96.4 0.031 6.8E-07 44.5 8.9 68 72-145 2-71 (82)
33 cd04492 YhaM_OBF_like YhaM_OBF 96.1 0.079 1.7E-06 40.2 9.4 73 79-162 6-78 (83)
34 cd03524 RPA2_OBF_family RPA2_O 96.0 0.12 2.6E-06 36.9 9.9 47 90-140 15-62 (75)
35 cd04474 RPA1_DBD_A RPA1_DBD_A: 96.0 0.038 8.3E-07 45.6 7.8 67 69-138 9-78 (104)
36 cd04485 DnaE_OBF DnaE_OBF: A s 95.9 0.11 2.4E-06 38.8 9.6 76 74-160 2-77 (84)
37 cd04482 RPA2_OBF_like RPA2_OBF 94.7 0.27 5.9E-06 39.9 8.8 72 73-161 2-75 (91)
38 PRK07211 replication factor A; 94.6 0.21 4.5E-06 52.3 9.9 81 68-158 62-147 (485)
39 PF13742 tRNA_anti_2: OB-fold 94.3 0.69 1.5E-05 38.0 10.3 77 69-158 21-98 (99)
40 TIGR00237 xseA exodeoxyribonuc 93.4 0.39 8.4E-06 49.2 8.9 79 69-160 17-95 (432)
41 cd04490 PolII_SU_OBF PolII_SU_ 92.6 2.4 5.1E-05 33.6 10.4 72 72-160 2-75 (79)
42 cd04100 Asp_Lys_Asn_RS_N Asp_L 92.3 2.4 5.3E-05 33.1 10.2 81 71-161 1-84 (85)
43 PRK00286 xseA exodeoxyribonucl 92.0 0.88 1.9E-05 46.2 9.3 80 69-161 23-102 (438)
44 cd04320 AspRS_cyto_N AspRS_cyt 92.0 2.9 6.2E-05 33.9 10.7 84 71-163 1-92 (102)
45 PRK07373 DNA polymerase III su 91.5 1.6 3.4E-05 45.3 10.6 81 71-162 282-362 (449)
46 PF11506 DUF3217: Protein of u 91.4 4.1 8.8E-05 33.9 10.7 84 68-157 1-90 (104)
47 cd04317 EcAspRS_like_N EcAspRS 90.9 3.9 8.4E-05 34.8 10.8 84 70-163 15-104 (135)
48 PRK15491 replication factor A; 90.9 0.96 2.1E-05 45.8 8.1 71 69-144 176-251 (374)
49 PRK15491 replication factor A; 90.7 1.3 2.9E-05 44.7 8.9 83 68-160 66-153 (374)
50 cd04321 ScAspRS_mt_like_N ScAs 90.5 6.2 0.00013 31.2 10.9 83 71-161 1-85 (86)
51 PRK06461 single-stranded DNA-b 90.4 1.6 3.5E-05 37.5 8.1 79 69-161 14-99 (129)
52 cd04316 ND_PkAspRS_like_N ND_P 90.3 6.4 0.00014 32.3 11.2 81 71-164 14-98 (108)
53 cd04491 SoSSB_OBF SoSSB_OBF: A 90.1 1.7 3.7E-05 33.8 7.3 60 74-140 2-65 (82)
54 PRK05673 dnaE DNA polymerase I 90.1 1.7 3.6E-05 49.9 10.0 82 70-162 978-1059(1135)
55 PRK07211 replication factor A; 89.7 0.99 2.2E-05 47.3 7.3 66 69-139 171-241 (485)
56 cd04323 AsnRS_cyto_like_N AsnR 89.2 6.5 0.00014 30.8 10.0 81 71-161 1-83 (84)
57 PRK13480 3'-5' exoribonuclease 88.7 2.9 6.4E-05 41.4 9.4 78 71-160 13-90 (314)
58 cd04488 RecG_wedge_OBF RecG_we 87.5 2.9 6.3E-05 30.5 6.7 60 74-140 2-61 (75)
59 PRK14699 replication factor A; 86.9 1.8 4E-05 45.3 7.1 65 68-136 66-135 (484)
60 cd04319 PhAsnRS_like_N PhAsnRS 86.9 15 0.00033 29.8 11.7 81 71-164 1-84 (103)
61 cd04475 RPA1_DBD_B RPA1_DBD_B: 86.7 8.8 0.00019 30.9 9.6 67 72-143 2-72 (101)
62 cd04322 LysRS_N LysRS_N: N-ter 86.1 17 0.00036 29.8 11.1 77 72-163 2-83 (108)
63 PRK06920 dnaE DNA polymerase I 85.6 4.9 0.00011 46.2 10.1 80 71-161 945-1024(1107)
64 PRK06826 dnaE DNA polymerase I 85.5 6 0.00013 45.7 10.8 82 71-162 993-1074(1151)
65 PRK12366 replication factor A; 85.3 4.7 0.0001 43.5 9.4 80 70-155 292-375 (637)
66 PRK07374 dnaE DNA polymerase I 85.2 5.8 0.00013 45.9 10.5 81 70-161 1001-1081(1170)
67 PF11325 DUF3127: Domain of un 85.2 8.4 0.00018 31.5 8.7 68 86-157 16-83 (84)
68 COG3390 Uncharacterized protei 84.9 3.8 8.2E-05 38.3 7.3 88 67-161 43-131 (196)
69 PRK00448 polC DNA polymerase I 83.9 8.7 0.00019 45.4 11.3 74 67-145 234-309 (1437)
70 PRK12366 replication factor A; 83.3 4.1 8.8E-05 44.0 7.9 70 68-143 72-145 (637)
71 TIGR01405 polC_Gram_pos DNA po 82.8 12 0.00026 43.6 11.7 73 68-145 6-80 (1213)
72 cd04478 RPA2_DBD_D RPA2_DBD_D: 81.4 17 0.00037 28.6 9.1 76 72-163 2-80 (95)
73 PRK08402 replication factor A; 81.0 5.4 0.00012 40.3 7.3 71 69-143 72-146 (355)
74 cd04497 hPOT1_OB1_like hPOT1_O 80.7 8.7 0.00019 33.2 7.7 76 68-145 13-88 (138)
75 PRK07279 dnaE DNA polymerase I 79.2 13 0.00028 42.6 10.3 81 70-161 885-966 (1034)
76 PRK05672 dnaE2 error-prone DNA 78.6 12 0.00025 43.0 9.8 79 71-162 955-1033(1046)
77 PF02765 POT1: Telomeric singl 78.4 7.7 0.00017 33.7 6.7 74 69-145 12-93 (146)
78 COG1570 XseA Exonuclease VII, 78.4 8.7 0.00019 40.0 8.0 79 69-160 23-101 (440)
79 PLN02850 aspartate-tRNA ligase 76.3 25 0.00053 37.4 10.8 85 70-164 82-173 (530)
80 TIGR00458 aspS_arch aspartyl-t 76.2 28 0.00062 35.7 11.0 82 70-164 13-98 (428)
81 cd04481 RPA1_DBD_B_like RPA1_D 75.9 28 0.0006 28.4 8.9 39 106-144 34-76 (106)
82 PRK14699 replication factor A; 74.3 8.1 0.00018 40.6 6.6 84 69-161 176-264 (484)
83 TIGR00457 asnS asparaginyl-tRN 72.8 45 0.00098 34.6 11.5 84 70-164 17-103 (453)
84 TIGR00617 rpa1 replication fac 72.2 9.3 0.0002 41.1 6.6 67 69-139 190-260 (608)
85 PRK05159 aspC aspartyl-tRNA sy 72.1 38 0.00081 34.9 10.7 82 70-164 17-101 (437)
86 PTZ00401 aspartyl-tRNA synthet 71.1 45 0.00097 35.7 11.3 85 70-164 79-170 (550)
87 PLN02903 aminoacyl-tRNA ligase 70.7 94 0.002 34.2 13.7 84 70-163 73-163 (652)
88 COG0017 AsnS Aspartyl/asparagi 69.3 44 0.00095 35.0 10.5 81 70-163 17-100 (435)
89 cd04318 EcAsnRS_like_N EcAsnRS 65.2 61 0.0013 25.0 9.2 77 72-161 2-81 (82)
90 PTZ00385 lysyl-tRNA synthetase 61.0 93 0.002 34.2 11.4 77 71-162 109-191 (659)
91 TIGR00459 aspS_bact aspartyl-t 60.3 92 0.002 33.7 11.2 85 70-164 16-105 (583)
92 PLN02603 asparaginyl-tRNA synt 59.4 1.2E+02 0.0026 32.7 11.8 85 69-164 107-194 (565)
93 TIGR00643 recG ATP-dependent D 59.0 56 0.0012 35.0 9.4 64 70-140 33-96 (630)
94 COG1200 RecG RecG-like helicas 58.8 46 0.001 36.6 8.6 66 70-142 61-126 (677)
95 KOG3416 Predicted nucleic acid 58.5 30 0.00065 30.7 5.9 62 70-139 15-76 (134)
96 PRK03932 asnC asparaginyl-tRNA 58.1 85 0.0018 32.5 10.2 81 70-163 17-100 (450)
97 PRK07218 replication factor A; 58.0 41 0.00088 34.9 7.8 73 69-155 172-246 (423)
98 PLN02221 asparaginyl-tRNA synt 57.7 94 0.002 33.6 10.7 87 70-164 51-138 (572)
99 PRK12820 bifunctional aspartyl 56.7 1.1E+02 0.0023 34.1 11.0 85 70-164 19-111 (706)
100 PRK10917 ATP-dependent DNA hel 56.7 41 0.00088 36.5 7.9 64 69-139 59-122 (681)
101 PRK00476 aspS aspartyl-tRNA sy 56.3 1.2E+02 0.0026 32.8 11.2 84 70-164 18-107 (588)
102 PF10451 Stn1: Telomere regula 55.7 64 0.0014 31.3 8.3 94 58-164 55-151 (256)
103 PHA01740 putative single-stran 54.6 6.4 0.00014 35.2 1.2 22 298-319 17-40 (158)
104 PF13567 DUF4131: Domain of un 52.7 76 0.0017 26.1 7.4 62 69-139 75-143 (176)
105 PRK06386 replication factor A; 52.3 65 0.0014 32.8 8.0 76 69-160 117-194 (358)
106 cd04483 hOBFC1_like hOBFC1_lik 51.0 89 0.0019 25.4 7.3 35 106-140 24-78 (92)
107 PTZ00417 lysine-tRNA ligase; P 49.8 1.1E+02 0.0023 33.2 9.6 78 72-163 135-219 (585)
108 PLN02502 lysyl-tRNA synthetase 49.4 1.6E+02 0.0035 31.7 10.8 78 71-163 110-194 (553)
109 PF12869 tRNA_anti-like: tRNA_ 48.5 85 0.0018 26.4 7.2 63 71-140 69-132 (144)
110 PRK07218 replication factor A; 47.6 56 0.0012 33.9 6.9 58 69-136 68-127 (423)
111 PRK12445 lysyl-tRNA synthetase 47.3 2.1E+02 0.0045 30.4 11.2 78 71-163 67-149 (505)
112 PF00970 FAD_binding_6: Oxidor 46.4 57 0.0012 25.5 5.4 32 106-138 62-95 (99)
113 COG1107 Archaea-specific RecJ- 46.0 36 0.00078 37.1 5.3 81 68-164 212-292 (715)
114 cd04498 hPOT1_OB2 hPOT1_OB2: A 44.8 30 0.00064 30.2 3.8 27 107-134 60-86 (123)
115 KOG1885 Lysyl-tRNA synthetase 43.8 84 0.0018 33.6 7.4 77 72-162 107-189 (560)
116 TIGR00499 lysS_bact lysyl-tRNA 42.7 2.2E+02 0.0048 30.0 10.5 78 71-163 55-137 (496)
117 PLN02532 asparagine-tRNA synth 42.0 89 0.0019 34.2 7.6 56 107-164 147-202 (633)
118 PRK00484 lysS lysyl-tRNA synth 41.9 1.5E+02 0.0033 31.2 9.1 79 70-163 55-137 (491)
119 COG0587 DnaE DNA polymerase II 41.5 1E+02 0.0022 36.1 8.3 67 71-142 978-1045(1139)
120 TIGR00617 rpa1 replication fac 41.1 1.2E+02 0.0026 32.8 8.4 68 71-143 312-383 (608)
121 COG3689 Predicted membrane pro 40.4 1.1E+02 0.0024 30.2 7.3 88 71-165 177-264 (271)
122 COG1571 Predicted DNA-binding 38.0 2.2E+02 0.0048 29.8 9.4 67 67-141 264-332 (421)
123 COG1190 LysU Lysyl-tRNA synthe 37.2 1.4E+02 0.0031 31.9 8.0 82 72-164 64-146 (502)
124 PF09104 BRCA-2_OB3: BRCA2, ol 36.5 1.8E+02 0.0038 26.2 7.4 85 68-165 17-104 (143)
125 PHA01740 putative single-stran 35.6 15 0.00032 33.0 0.5 20 223-242 20-41 (158)
126 COG4097 Predicted ferric reduc 33.9 52 0.0011 34.2 4.1 44 96-139 265-308 (438)
127 PF11736 DUF3299: Protein of u 33.1 78 0.0017 28.2 4.7 82 67-158 52-143 (146)
128 COG2176 PolC DNA polymerase II 31.5 1.5E+02 0.0032 35.2 7.5 86 67-161 237-324 (1444)
129 KOG3056 Protein required for S 31.4 1.4E+02 0.003 32.4 6.8 59 73-134 189-247 (578)
130 PRK07135 dnaE DNA polymerase I 29.2 2E+02 0.0043 33.2 8.0 64 71-141 899-962 (973)
131 PF02367 UPF0079: Uncharacteri 29.1 29 0.00063 30.0 1.2 24 116-139 3-26 (123)
132 PF08021 FAD_binding_9: Sidero 28.3 1.4E+02 0.003 25.1 5.2 42 94-135 69-112 (117)
133 PRK02983 lysS lysyl-tRNA synth 27.0 4.6E+02 0.01 30.6 10.5 78 71-163 653-735 (1094)
134 PRK10646 ADP-binding protein; 26.6 48 0.001 29.7 2.2 26 115-140 15-40 (153)
135 COG1018 Hmp Flavodoxin reducta 26.4 2E+02 0.0044 27.7 6.6 47 96-142 56-105 (266)
136 cd06216 FNR_iron_sulfur_bindin 26.3 1.8E+02 0.0039 26.5 6.0 45 95-139 66-114 (243)
137 smart00350 MCM minichromosome 26.0 1.7E+02 0.0036 30.7 6.4 53 106-162 103-162 (509)
138 COG0677 WecC UDP-N-acetyl-D-ma 24.6 50 0.0011 34.5 2.2 57 84-144 73-133 (436)
139 cd06191 FNR_iron_sulfur_bindin 24.6 1.9E+02 0.0041 26.1 5.8 25 115-139 70-94 (231)
140 COG0802 Predicted ATPase or ki 24.3 59 0.0013 29.3 2.3 25 116-140 13-37 (149)
141 TIGR01077 L13_A_E ribosomal pr 23.4 58 0.0013 29.0 2.1 22 113-134 9-30 (142)
142 PRK06394 rpl13p 50S ribosomal 22.5 61 0.0013 29.0 2.1 22 113-134 13-34 (146)
143 KOG0479 DNA replication licens 22.5 1.4E+02 0.0029 33.2 4.9 55 106-164 212-270 (818)
144 TIGR00150 HI0065_YjeE ATPase, 22.5 69 0.0015 28.0 2.4 25 116-140 10-34 (133)
No 1
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.95 E-value=5.3e-28 Score=201.85 Aligned_cols=98 Identities=16% Similarity=0.210 Sum_probs=91.1
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~-------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
|||+|+|||||++|||++++++|+.+|.|+||+++. ++++||+|++||++||++++||+|||+|+|+|+|+++
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---CeEEEEEEEeeEEeccCCCc
Q 019560 141 PPAIE---GQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 141 syedk---~r~~~eViV~~I~FL~~k~~ 165 (339)
+|+++ .++.++|+|++|.||+++..
T Consensus 81 ~~~~~~G~~~~~~ei~a~~i~~l~~~~~ 108 (112)
T PRK06752 81 NYEDDQGKRIYITEVVIESITFLERRRE 108 (112)
T ss_pred ccCCCCCcEEEEEEEEEEEEEECCCCCc
Confidence 99976 55688999999999987754
No 2
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=6.2e-28 Score=214.72 Aligned_cols=98 Identities=12% Similarity=0.182 Sum_probs=91.6
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~-------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
|||+|+|||||++|||+|+|++|.+||.|+|||++. .+++||+|++||++||.+++||+||++|+|+|||+++
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 799999999999999999999999999999999872 3589999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeeEEeccCCCc
Q 019560 141 PPAIE---GQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 141 syedk---~r~~~eViV~~I~FL~~k~~ 165 (339)
+|+++ +++.++|+|++|.||+++..
T Consensus 81 ~y~dkdG~k~~~~evva~~i~~l~~~~~ 108 (162)
T PRK07275 81 NYENQQGQRVYVTEVVADNFQMLESRAT 108 (162)
T ss_pred eEECCCCCEEEEEEEEEeEEEECCCCCc
Confidence 99886 56788999999999988764
No 3
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=2.4e-27 Score=201.44 Aligned_cols=99 Identities=19% Similarity=0.269 Sum_probs=91.3
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC---CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCc
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~---~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syed 144 (339)
+||+|+||||||+|||+|++++|+.+|+|+||+++. ++|+||+|++||++||.+++||+||++|+|+|+|++++|++
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----CeEEEEEEEeeEEeccCCCcc
Q 019560 145 E----GQANVQVMVHSLNLIEPTSQK 166 (339)
Q Consensus 145 k----~r~~~eViV~~I~FL~~k~~~ 166 (339)
+ .++.++|+|++|.||+++...
T Consensus 82 ~d~G~~r~~~ei~a~~i~~L~~k~~~ 107 (121)
T PRK07459 82 RNTGEDRSKPVIRVDRLELLGSKRDS 107 (121)
T ss_pred CCCCeEEEEEEEEEeEEEECcCCCcc
Confidence 4 357889999999999877543
No 4
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=1e-26 Score=210.41 Aligned_cols=98 Identities=22% Similarity=0.302 Sum_probs=91.7
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEee
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~---------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~ 138 (339)
|||+|+|||||++|||+|++++|..+|.|+||+++. ++|+||+|++||++||.|++||+||++|+|+|||+
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 789999999999999999999999999999999861 36899999999999999999999999999999999
Q ss_pred ecCCCcC---CeEEEEEEEeeEEeccCCCc
Q 019560 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 139 s~syedk---~r~~~eViV~~I~FL~~k~~ 165 (339)
+++|+++ .++.++|+|++|.||+++..
T Consensus 81 ~~~y~dkdG~~r~~~eI~a~~v~~L~~~~~ 110 (182)
T PRK08486 81 FESWMDQNGQKRSKHTITAESMQMLDSKSD 110 (182)
T ss_pred eCcEECCCCcEEEEEEEEEeEEEECCCCCC
Confidence 9999887 67789999999999987764
No 5
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=2e-26 Score=207.12 Aligned_cols=99 Identities=18% Similarity=0.224 Sum_probs=91.7
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~-------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
|||+|+|||||++|||+|+|++|..||.|+|||++. .+++||+|++||++||.+++||+||++|+|+|+|+++
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 799999999999999999999999999999999862 3579999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeeEEeccCCCcc
Q 019560 141 PPAIE---GQANVQVMVHSLNLIEPTSQK 166 (339)
Q Consensus 141 syedk---~r~~~eViV~~I~FL~~k~~~ 166 (339)
+|+++ .++.++|+|++|.||++++..
T Consensus 81 ~yedkdG~~~~~~eVva~~i~~l~~r~~~ 109 (173)
T PRK06751 81 NYEGQDGKRVYVTEVLAESVQFLEPRNGG 109 (173)
T ss_pred ccCCCCCcEEEEEEEEEEEEEeCcCCCCC
Confidence 99976 567889999999999987653
No 6
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=7.9e-26 Score=198.33 Aligned_cols=100 Identities=10% Similarity=0.151 Sum_probs=91.0
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcE----EEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhCCCCCeEEE
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKH----WAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHI 133 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~----Va~fsLAv~r~----------~~T~wI~VvawGklAE~~a~yLkKGD~V~V 133 (339)
|+|+|+||||||+|||+|++++|.. ||+|+||+++. .+++||+|++||++||++++||+||++|+|
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 99999999851 147899999999999999999999999999
Q ss_pred EEEeeecCCCcC---CeEEEEEEEeeEEeccCCCccc
Q 019560 134 AGQLTADPPAIE---GQANVQVMVHSLNLIEPTSQKR 167 (339)
Q Consensus 134 eGrL~s~syedk---~r~~~eViV~~I~FL~~k~~~~ 167 (339)
+|+|++++|+++ .++.++|+|++|.|+..+....
T Consensus 81 ~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r~~~~ 117 (148)
T PRK08182 81 EGRMERDEWTDNEDNERVTFKVEARRVGILPYRIESV 117 (148)
T ss_pred EEEEEecccCCCCCCEEEEEEEEEeEEEEcCCccccc
Confidence 999999999986 5678899999999998776643
No 7
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=6.7e-26 Score=202.16 Aligned_cols=100 Identities=16% Similarity=0.295 Sum_probs=91.9
Q ss_pred cccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEE
Q 019560 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (339)
Q Consensus 66 ~~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~---------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGr 136 (339)
++.||+|+||||||+||||+++++|..+|+|+||+++. ++|+||+|++||++||++++||+||++|+|+|+
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 46799999999999999999999999999999999851 358999999999999999999999999999999
Q ss_pred eeecCCCcC---CeEEEEEEEeeEEeccCCCc
Q 019560 137 LTADPPAIE---GQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 137 L~s~syedk---~r~~~eViV~~I~FL~~k~~ 165 (339)
|++++|+++ .++.++|+|++|.||+++..
T Consensus 82 L~~~~y~dkdG~kr~~~eIva~~i~~L~~~~~ 113 (164)
T PRK08763 82 IRYDKFTGQDGQERYVTEIVADEMQMLGGRGE 113 (164)
T ss_pred EEeceeECCCCCEEEEEEEEEeEEEECCCCCC
Confidence 999999876 56788999999999997753
No 8
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=8.7e-26 Score=193.85 Aligned_cols=99 Identities=22% Similarity=0.322 Sum_probs=89.9
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~-------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
|||+|+||||||+|||++++++|..+|.|+||+++. .+++||+|++||++|+.+++||+||++|+|+|+|+++
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 CCCcC--CeEEEEEEEeeEEeccCCCcc
Q 019560 141 PPAIE--GQANVQVMVHSLNLIEPTSQK 166 (339)
Q Consensus 141 syedk--~r~~~eViV~~I~FL~~k~~~ 166 (339)
+|+.+ .++.++|+|++|.||+++...
T Consensus 81 ~y~kdG~~~~~~eviv~~i~~l~~k~~~ 108 (131)
T PRK07274 81 KYEKDGQTHYVTEVLCQSFQLLESRAQR 108 (131)
T ss_pred cCccCCcEEEEEEEEEEEEEECcCCCcc
Confidence 99433 456789999999999977543
No 9
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=1.9e-25 Score=196.68 Aligned_cols=101 Identities=17% Similarity=0.303 Sum_probs=90.9
Q ss_pred cccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEecc-HHHHHHhhCCCCCeEEEE
Q 019560 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGD-LAHIASSHLKKDDHVHIA 134 (339)
Q Consensus 66 ~~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~----------~~T~wI~VvawGk-lAE~~a~yLkKGD~V~Ve 134 (339)
...||+|+||||||+|||+|++++|+.+|+|+||+++. .+|+||+|++||+ +|+.+++||+||++|+|+
T Consensus 2 a~~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~ 81 (152)
T PRK06642 2 AGSLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIE 81 (152)
T ss_pred CCcceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEE
Confidence 34589999999999999999999999999999999861 2589999999996 999999999999999999
Q ss_pred EEeeecCCCcC---CeEEEEEEEeeE----EeccCCCcc
Q 019560 135 GQLTADPPAIE---GQANVQVMVHSL----NLIEPTSQK 166 (339)
Q Consensus 135 GrL~s~syedk---~r~~~eViV~~I----~FL~~k~~~ 166 (339)
|+|++++|+++ .++.++|+|++| .||+++...
T Consensus 82 GrL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k~~~ 120 (152)
T PRK06642 82 GSLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSN 120 (152)
T ss_pred EEEEeCeeECCCCCEEEEEEEEEEecccceEeccCCCCc
Confidence 99999999876 567889999987 899877654
No 10
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=2.4e-25 Score=200.42 Aligned_cols=100 Identities=20% Similarity=0.336 Sum_probs=92.4
Q ss_pred ccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEE
Q 019560 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (339)
Q Consensus 67 ~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~----------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGr 136 (339)
+.||+|+||||||+|||+|++++|..+|.|+||+++. ++|+||+|++||++||.|++||+||++|+|+|+
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 4689999999999999999999999999999999851 358999999999999999999999999999999
Q ss_pred eeecCCCcC--CeEEEEEEEe---eEEeccCCCcc
Q 019560 137 LTADPPAIE--GQANVQVMVH---SLNLIEPTSQK 166 (339)
Q Consensus 137 L~s~syedk--~r~~~eViV~---~I~FL~~k~~~ 166 (339)
|++++|+++ .++.++|+|+ +|.||+++...
T Consensus 84 L~~r~ye~dG~kr~~~eIiv~~~g~~~fL~~~~~~ 118 (175)
T PRK13732 84 LRTRSWEDNGITRYVTEILVKTTGTMQMLGRAPQQ 118 (175)
T ss_pred EEeeeEccCCeEEEEEEEEEeecCeEEEecCCCCC
Confidence 999999887 5678899999 99999988765
No 11
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=3.5e-25 Score=197.07 Aligned_cols=97 Identities=16% Similarity=0.179 Sum_probs=90.5
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----CCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCc
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r----~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syed 144 (339)
||.|+||||||+|||+|++++|+.+++|+||+++ .++|+||+|++||++|+++++||+||++|+|+|+|++++|++
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 246899999999999999999999999999999999999987
Q ss_pred C---CeEEEEEEEeeEEeccCCCc
Q 019560 145 E---GQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 145 k---~r~~~eViV~~I~FL~~k~~ 165 (339)
+ .++.++|+|++|.||.....
T Consensus 81 kdG~kr~~~eIva~~I~fl~~~~~ 104 (161)
T PRK06293 81 KDGSPQSSLVVSVDTIKFSPFGRN 104 (161)
T ss_pred CCCCEEEEEEEEEeEEEECcCCCc
Confidence 6 66789999999999976654
No 12
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=7.4e-25 Score=197.60 Aligned_cols=101 Identities=20% Similarity=0.332 Sum_probs=92.3
Q ss_pred cccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEE
Q 019560 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAG 135 (339)
Q Consensus 66 ~~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~----------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeG 135 (339)
.+.||+|+||||||+|||+|++++|..+|+|+||+++. ++|+||+|++||++||++++||+||++|+|+|
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 36799999999999999999999999999999999851 35899999999999999999999999999999
Q ss_pred EeeecCCCcC---CeEEEEEEEe---eEEeccCCCcc
Q 019560 136 QLTADPPAIE---GQANVQVMVH---SLNLIEPTSQK 166 (339)
Q Consensus 136 rL~s~syedk---~r~~~eViV~---~I~FL~~k~~~ 166 (339)
+|++++|+++ .++.++|+|+ +|.||+++.+.
T Consensus 83 rL~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r~~~ 119 (177)
T PRK09010 83 QLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGG 119 (177)
T ss_pred EEEeccccCCCCCEEEEEEEEEecCCcEEEccCCCCC
Confidence 9999999986 5678899998 89999988654
No 13
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=1.6e-24 Score=196.19 Aligned_cols=98 Identities=19% Similarity=0.303 Sum_probs=90.4
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEee
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~----------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~ 138 (339)
||+|+|||||++|||++++++|+.||+|+||+++. +.|+||+|++|+++||++++||+||++|+|+|+|+
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---CeEEEEEEEeeEEeccCCCcc
Q 019560 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (339)
Q Consensus 139 s~syedk---~r~~~eViV~~I~FL~~k~~~ 166 (339)
++.|+++ .++.++|+|++|.||+++...
T Consensus 84 ~~~yeDkdG~kr~~~eVvA~~V~fL~sr~~~ 114 (182)
T PRK06958 84 TRKWQGQDGQDRYSTEIVADQMQMLGGRGGS 114 (182)
T ss_pred eCceECCCCcEEEEEEEEEeEEEECCCCccC
Confidence 9999876 667899999999999977643
No 14
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=2.5e-24 Score=193.44 Aligned_cols=100 Identities=19% Similarity=0.314 Sum_probs=90.9
Q ss_pred cccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEE
Q 019560 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAG 135 (339)
Q Consensus 66 ~~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~----------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeG 135 (339)
++.||+|+||||||+|||++++++|+.+|+|+||+++. ++|+||+|++||++||.+++||+||++|+|+|
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 46799999999999999999999999999999999751 35899999999999999999999999999999
Q ss_pred EeeecCCCcC--CeEEEEEEEe---eEEeccCCCc
Q 019560 136 QLTADPPAIE--GQANVQVMVH---SLNLIEPTSQ 165 (339)
Q Consensus 136 rL~s~syedk--~r~~~eViV~---~I~FL~~k~~ 165 (339)
+|++++|+++ .++.++|+|+ +|.||+++..
T Consensus 82 rLr~~~y~kdG~~r~~~eVvvd~~g~v~~L~~~~~ 116 (172)
T PRK05733 82 KLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQ 116 (172)
T ss_pred EEEeCcEecCCEEEEEEEEEEeecCeEEECcCCCC
Confidence 9999999954 5678899999 8999986654
No 15
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=2.7e-24 Score=192.58 Aligned_cols=98 Identities=19% Similarity=0.325 Sum_probs=90.4
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEee
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~----------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~ 138 (339)
||+|+||||||+|||+|++++|..+++|+||+++. +.++||+|++||++||.+++||+||++|+|+|+|+
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 79999999999999999999999999999999851 24799999999999999999999999999999999
Q ss_pred ecCCCcC---CeEEEEEEEeeEEeccCCCcc
Q 019560 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (339)
Q Consensus 139 s~syedk---~r~~~eViV~~I~FL~~k~~~ 166 (339)
+++|+++ .++.++|+|++|.||+++...
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 9999976 567889999999999888653
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=99.91 E-value=7.2e-24 Score=188.19 Aligned_cols=99 Identities=19% Similarity=0.351 Sum_probs=91.2
Q ss_pred ccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEe
Q 019560 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (339)
Q Consensus 67 ~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~---------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL 137 (339)
+|+|+|+|+|||++|||+|++++|+.+|.|+||+++. +.++||+|++||++||.+++||+||++|+|+|+|
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 5789999999999999999999999999999999761 3479999999999999999999999999999999
Q ss_pred eecCCCcC---CeEEEEEEEeeEEeccCCCc
Q 019560 138 TADPPAIE---GQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 138 ~s~syedk---~r~~~eViV~~I~FL~~k~~ 165 (339)
++++|+++ .++.++|+|++|.||+.+..
T Consensus 82 ~~~~~~~kdG~~~~~~ev~a~~i~~L~~~~~ 112 (164)
T TIGR00621 82 RTRKWEDQNGQKRSKTEIIADNVQLLDLLGA 112 (164)
T ss_pred EeceEECCCCcEEEEEEEEEEEEeeccccCC
Confidence 99999985 56789999999999987753
No 17
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=1.6e-23 Score=187.38 Aligned_cols=99 Identities=22% Similarity=0.358 Sum_probs=89.1
Q ss_pred cccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----------CCCCeeEEEEEecc-HHHHHHhhCCCCCeEEEE
Q 019560 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----------ASHSLWIPILFEGD-LAHIASSHLKKDDHVHIA 134 (339)
Q Consensus 66 ~~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r----------~~~T~wI~VvawGk-lAE~~a~yLkKGD~V~Ve 134 (339)
.++||+|+|||||++|||+|++++|+.+|+|+||+++ .++|+||+|++|++ +|+.+++||+||++|+|+
T Consensus 2 a~~mN~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~~Ae~~~~~LkKG~~V~Ve 81 (166)
T PRK06341 2 AGSVNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYIE 81 (166)
T ss_pred CCcceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChHHHHHHHHhcCCCCEEEEE
Confidence 3568999999999999999999999999999999974 13689999999996 999999999999999999
Q ss_pred EEeeecCCCcC---CeEEEEEEEeeE----EeccCCC
Q 019560 135 GQLTADPPAIE---GQANVQVMVHSL----NLIEPTS 164 (339)
Q Consensus 135 GrL~s~syedk---~r~~~eViV~~I----~FL~~k~ 164 (339)
|+|++++|+++ .++.++|+|++| .||+++.
T Consensus 82 GrL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~~ 118 (166)
T PRK06341 82 GQLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRG 118 (166)
T ss_pred EEEEeCcEECCCCCEEEEEEEEEEecccceEEcccCC
Confidence 99999999876 667889999874 8987764
No 18
>PRK02801 primosomal replication protein N; Provisional
Probab=99.90 E-value=3e-23 Score=171.19 Aligned_cols=92 Identities=14% Similarity=0.261 Sum_probs=81.9
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-C-------CCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeee
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-S-------HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~-~-------~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s 139 (339)
|||+|+|+|||++|||+|||++|.++|+|+||+++. . .++||+|++||++||.+++||+||++|.|+|+|++
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 789999999999999999999999999999999751 1 13789999999999999999999999999999999
Q ss_pred cCCCcC-CeEEEEEEEeeEEecc
Q 019560 140 DPPAIE-GQANVQVMVHSLNLIE 161 (339)
Q Consensus 140 ~syedk-~r~~~eViV~~I~FL~ 161 (339)
|+++ ++..+.|++++|+|+.
T Consensus 81 --~~~~~g~~~~~v~~~~i~~l~ 101 (101)
T PRK02801 81 --HQGRNGLSKLVLHAEQIELID 101 (101)
T ss_pred --eECCCCCEEEEEEEEEEEECC
Confidence 4554 6666779999999974
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=99.90 E-value=2e-23 Score=167.89 Aligned_cols=92 Identities=22% Similarity=0.368 Sum_probs=82.5
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC---------CCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeee
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA---------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r---------~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s 139 (339)
||+|+|+|+|++||+++++++|+.++.|+||+++ ...++||+|++||++|+.+++||+|||+|+|+|+|++
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 7999999999999999999999999999999987 1357999999999999999999999999999999999
Q ss_pred cCCCcC---CeEEEEEEEeeEEec
Q 019560 140 DPPAIE---GQANVQVMVHSLNLI 160 (339)
Q Consensus 140 ~syedk---~r~~~eViV~~I~FL 160 (339)
+.|+++ .++.++|+|++|+||
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 999987 467889999999997
No 20
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.89 E-value=6.6e-23 Score=190.38 Aligned_cols=98 Identities=17% Similarity=0.249 Sum_probs=90.1
Q ss_pred ccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCC-CCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAAS-HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 67 ~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~-~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
.-+|+|+|+|||++|||+|+|++|+.+|.|+|||++.+ +++||+|++||++||.|+ +|+|||+|+|+|+|++++|+++
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 56999999999999999999999999999999999854 689999999999999976 6999999999999999999875
Q ss_pred -------CeEEEEEEEeeEEeccCCCc
Q 019560 146 -------GQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 146 -------~r~~~eViV~~I~FL~~k~~ 165 (339)
+++.++|.|++|+||+++..
T Consensus 186 ~g~~~g~kr~~~eV~v~~i~~l~~~~~ 212 (219)
T PRK05813 186 LSEGEVVTKVAYEVSISKMEKVEKEEA 212 (219)
T ss_pred CCCccceEEEEEEEEEEEEEEcCChhh
Confidence 36789999999999987654
No 21
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.89 E-value=5.1e-23 Score=182.64 Aligned_cols=98 Identities=20% Similarity=0.296 Sum_probs=84.1
Q ss_pred cccEEEEEEEeCCCCeEEECC-CCcEEEEEEEEEcC---------CCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEe
Q 019560 68 VANSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHA---------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~-~G~~Va~fsLAv~r---------~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL 137 (339)
|||+|+|||||++|||+|+|+ +|..++.|++|+++ ...++||+|++||++||++.+||+||++|+|+|+|
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 45677778888876 13569999999999999999999999999999999
Q ss_pred eecCCCcC-C--eE----EEEEEEeeEEeccCCCc
Q 019560 138 TADPPAIE-G--QA----NVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 138 ~s~syedk-~--r~----~~eViV~~I~FL~~k~~ 165 (339)
++++|+++ + ++ .+++++..+.+++.+..
T Consensus 82 ~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 82 QTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EeeeeecCCCcceeeEEEEEEEeehhhhhccCccc
Confidence 99999986 3 23 34667788888887764
No 22
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.88 E-value=3.5e-22 Score=181.57 Aligned_cols=91 Identities=14% Similarity=0.230 Sum_probs=83.2
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-----------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEE
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~-----------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGr 136 (339)
++|.|+|||||++|||+|+|++|..||+|+||+++. .+++||+|++|+++||++++||+|||+|+|+||
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 479999999999999999999999999999999731 257899999999999999999999999999999
Q ss_pred eeecCCCcC---CeEEEEEEEeeEE
Q 019560 137 LTADPPAIE---GQANVQVMVHSLN 158 (339)
Q Consensus 137 L~s~syedk---~r~~~eViV~~I~ 158 (339)
|++++|+++ .++.++|+|++|-
T Consensus 83 L~~r~wedkdG~~rt~~eV~a~~Vg 107 (186)
T PRK07772 83 LKQRSYETREGEKRTVVELEVDEIG 107 (186)
T ss_pred EEcCceECCCCCEEEEEEEEEEEcc
Confidence 999999976 6788999999764
No 23
>PRK05853 hypothetical protein; Validated
Probab=99.83 E-value=2.9e-20 Score=165.64 Aligned_cols=85 Identities=15% Similarity=0.196 Sum_probs=76.6
Q ss_pred EEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCC
Q 019560 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (339)
Q Consensus 74 LIGrLgkDPElr~T~~G~~Va~fsLAv~r~----------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sye 143 (339)
||||||+|||+++++ |..+|+|+||+++. .+|+||+|++||++||++++||+||++|+|+|+|++++|+
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 78999999999861 2489999999999999999999999999999999999999
Q ss_pred cC---CeEEEEEEEeeEEe
Q 019560 144 IE---GQANVQVMVHSLNL 159 (339)
Q Consensus 144 dk---~r~~~eViV~~I~F 159 (339)
++ .++.++|+|+.|-.
T Consensus 80 dkdG~~r~~~eV~a~~Vg~ 98 (161)
T PRK05853 80 DRDGNRRSSLEMRATSVGP 98 (161)
T ss_pred CCCCCEEEEEEEEEEEecc
Confidence 76 56788999998744
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=4.4e-19 Score=141.13 Aligned_cols=89 Identities=22% Similarity=0.325 Sum_probs=82.6
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC--------CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCC
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA--------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~--------~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sye 143 (339)
|+|+|+|+++|+++++++|..++.|+|++++. .+++||+|++||++|+.+++||+|||.|+|+|+|+++.|+
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 58999999999999999999999999999872 3679999999999999999999999999999999999999
Q ss_pred cC---CeEEEEEEEeeEEec
Q 019560 144 IE---GQANVQVMVHSLNLI 160 (339)
Q Consensus 144 dk---~r~~~eViV~~I~FL 160 (339)
++ .++.++|+|++|.++
T Consensus 81 ~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 81 DKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred CCCCCEEEEEEEEEEEEEEC
Confidence 86 567899999999875
No 25
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.77 E-value=3.1e-18 Score=159.29 Aligned_cols=96 Identities=18% Similarity=0.196 Sum_probs=86.5
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-CCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeee-cCCC-c
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA-DPPA-I 144 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r-~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s-~sye-d 144 (339)
..|+|+|||+|++|||++++..|..++.|+|||+| ...+|||+|++|++|||.+. |+||++|+|+|+|++ +.++ .
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 47999999999999999999999999999999999 56789999999999999998 999999999999992 3442 2
Q ss_pred CCeEEEEEEEeeEEeccCCCc
Q 019560 145 EGQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 145 k~r~~~eViV~~I~FL~~k~~ 165 (339)
+.++.++|.|++|.||++++.
T Consensus 85 ~~R~vl~V~a~~i~~l~~~~~ 105 (219)
T PRK05813 85 KNRLILTVFARNIEYCDERSD 105 (219)
T ss_pred cEEEEEEEEEEEEEEccCCCc
Confidence 368899999999999999864
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.60 E-value=1.7e-15 Score=134.89 Aligned_cols=99 Identities=14% Similarity=0.160 Sum_probs=87.5
Q ss_pred ccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC------------CCCCeeEEEEEec-cHHHHHHhhCCCCCeEEE
Q 019560 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA------------ASHSLWIPILFEG-DLAHIASSHLKKDDHVHI 133 (339)
Q Consensus 67 ~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r------------~~~T~wI~VvawG-klAE~~a~yLkKGD~V~V 133 (339)
+.+|+|+|+|+||+||-.+...+|++|.-|+|+++. ...|+||+|.+|+ .||+.+.+||+||+.|||
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 789999999999999999999999999999999974 2457999999999 899999999999999999
Q ss_pred EEEeeecCCCcC-----CeEEEEEEEeeEEeccCCCc
Q 019560 134 AGQLTADPPAIE-----GQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 134 eGrL~s~syedk-----~r~~~eViV~~I~FL~~k~~ 165 (339)
+|+|.++-+.++ ++...-||+++|.|+.....
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 999999766654 34567889999999865544
No 27
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.68 E-value=1.8e-07 Score=78.94 Aligned_cols=91 Identities=18% Similarity=0.215 Sum_probs=77.0
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CC-CeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SH-SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~-------~~-T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
||.+.|.|.|..-+.+||||.|.++|.|.|..... .. -+-|++++.|++|+.... +..|..|.|+|-|..
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 59999999999999999999999999999988651 11 267889999999998876 999999999999998
Q ss_pred CCCcCCeEEEEEEEeeEEeccCC
Q 019560 141 PPAIEGQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 141 syedk~r~~~eViV~~I~FL~~k 163 (339)
...+....-+.+++|+|++..
T Consensus 79 --~~~~~~~LVLHi~~Ie~i~~~ 99 (107)
T PRK00036 79 --ARKDSVKVKLHLQQARRIAGS 99 (107)
T ss_pred --CCCCCCcEEEEhHHeEEcccc
Confidence 223556678889999999443
No 28
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=98.36 E-value=7.6e-06 Score=68.20 Aligned_cols=94 Identities=15% Similarity=0.222 Sum_probs=77.7
Q ss_pred ccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-CC-----C--eeEEEEEeccHHHHHHhhCCCCCeEEEEEEee
Q 019560 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-SH-----S--LWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (339)
Q Consensus 67 ~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~-~~-----T--~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~ 138 (339)
.|.|.+.|+|.|.+-|.++|||+|.++|.|.|....- .+ - .-+++..-|+.|+..-..+..|..|.|+|-|.
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 4789999999999999999999999999999988751 11 1 55788999999999998899999999999998
Q ss_pred ecCCCcCCeEEEEEEEeeEEecc
Q 019560 139 ADPPAIEGQANVQVMVHSLNLIE 161 (339)
Q Consensus 139 s~syedk~r~~~eViV~~I~FL~ 161 (339)
...-. .+-..+-|.+++|.|++
T Consensus 82 ~~~~~-sg~~~lvlha~qi~~id 103 (103)
T COG2965 82 CHKRR-SGLSKLVLHAEQIEFID 103 (103)
T ss_pred eeccc-CCccEEEEEeeEEEecC
Confidence 76321 14456778888888764
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=97.30 E-value=0.002 Score=48.12 Aligned_cols=75 Identities=16% Similarity=0.225 Sum_probs=56.7
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEEE
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~e 151 (339)
|.+.|+|..-. .+|..++.++|.- .|.-+.|++|++.++...+.|+.|+.|.|.|+++...-. .++
T Consensus 1 V~v~G~V~~~~-----~~~~~~~~~~l~D----~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~~~~-----~~~ 66 (75)
T PF01336_consen 1 VTVEGRVTSIR-----RSGGKIVFFTLED----GTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRYNGG-----ELE 66 (75)
T ss_dssp EEEEEEEEEEE-----EEETTEEEEEEEE----TTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEETTS-----SEE
T ss_pred CEEEEEEEEEE-----cCCCCEEEEEEEE----CCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEECCc-----cEE
Confidence 67888887532 3455566776653 468999999998888889999999999999999987321 368
Q ss_pred EEEeeEEec
Q 019560 152 VMVHSLNLI 160 (339)
Q Consensus 152 ViV~~I~FL 160 (339)
|.+++++.|
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=96.92 E-value=0.019 Score=43.76 Aligned_cols=74 Identities=16% Similarity=0.170 Sum_probs=57.3
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEEE
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~e 151 (339)
+.+.|-|. +... +.+| .|.++|.-. +.-+.|++|.+..+.+...|+.|+.|.|.|++..+.+. ..++
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--HLYFTLKDE----DASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEPR----GGYQ 68 (78)
T ss_pred EEEEEEEe-cCEE--CCCc--EEEEEEEeC----CeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECCC----CEEE
Confidence 56788887 3443 7777 777877643 46799999999888888999999999999999986543 2367
Q ss_pred EEEeeEE
Q 019560 152 VMVHSLN 158 (339)
Q Consensus 152 ViV~~I~ 158 (339)
++|++|.
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=96.69 E-value=0.014 Score=45.79 Aligned_cols=73 Identities=18% Similarity=0.185 Sum_probs=54.4
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEEE
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~e 151 (339)
|.+-|.|...+. .+|. ++|+|-- +..-|+|++|...+..+...++.||.|.|.|++.. .+-.|+
T Consensus 1 v~v~GeVs~~~~----~~GH--vyfsLkD----~~a~i~cv~f~~~~~~~~~~l~~Gd~V~v~G~v~~------~~G~~q 64 (73)
T cd04487 1 VHIEGEVVQIKQ----TSGP--TIFTLRD----ETGTVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEP------RDGQLQ 64 (73)
T ss_pred CEEEEEEecccc----CCCC--EEEEEEc----CCEEEEEEEEchhccCCcCCCCCCCEEEEEEEEec------CCeEEE
Confidence 356687876652 6677 5677732 33469999999887666678999999999999874 355688
Q ss_pred EEEeeEEec
Q 019560 152 VMVHSLNLI 160 (339)
Q Consensus 152 ViV~~I~FL 160 (339)
++|++|+.+
T Consensus 65 l~v~~i~~~ 73 (73)
T cd04487 65 IEVESLEVL 73 (73)
T ss_pred EEEeeEEEC
Confidence 888888754
No 32
>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=96.37 E-value=0.031 Score=44.49 Aligned_cols=68 Identities=19% Similarity=0.140 Sum_probs=54.6
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHHHHhhCC-CCCeEEEEEEeeecCCCcC
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLK-KDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGk-lAE~~a~yLk-KGD~V~VeGrL~s~syedk 145 (339)
|.+-|.|- +.|.|.+.+|+.+..|.|+= .|+-|.|..|.+ .-+.. ..++ +|+.|.|.|.+..++|..+
T Consensus 2 v~i~G~Vf-~~e~re~k~g~~i~~~~itD----~t~Si~~K~F~~~~~~~~-~~ik~~G~~v~v~G~v~~D~f~~e 71 (82)
T cd04484 2 VVVEGEVF-DLEIRELKSGRKILTFKVTD----YTSSITVKKFLRKDEKDK-EELKSKGDWVRVRGKVQYDTFSKE 71 (82)
T ss_pred EEEEEEEE-EEEEEEecCCCEEEEEEEEc----CCCCEEEEEeccCChhHH-hhcccCCCEEEEEEEEEEccCCCc
Confidence 77889986 48999999999888877762 577889988883 33333 5699 9999999999999999654
No 33
>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=96.06 E-value=0.079 Score=40.16 Aligned_cols=73 Identities=15% Similarity=0.233 Sum_probs=54.2
Q ss_pred CCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEEEEEEeeEE
Q 019560 79 DAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLN 158 (339)
Q Consensus 79 gkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~eViV~~I~ 158 (339)
...++.+.+.+|+.++.++|.- .+--+.|++|++.-+. ...|+.|..|.|.|++... . ...++.+.++.
T Consensus 6 v~~~~~~~tk~g~~~~~~~l~D----~tg~i~~~~f~~~~~~-~~~l~~g~~v~v~G~v~~~--~----~~~~l~~~~i~ 74 (83)
T cd04492 6 IKSKELRTAKNGKPYLALTLQD----KTGEIEAKLWDASEED-EEKFKPGDIVHVKGRVEEY--R----GRLQLKIQRIR 74 (83)
T ss_pred EEEeeeecccCCCcEEEEEEEc----CCCeEEEEEcCCChhh-HhhCCCCCEEEEEEEEEEe--C----CceeEEEEEEE
Confidence 3456677888998888877764 3556999999965443 6789999999999999652 1 13577788887
Q ss_pred eccC
Q 019560 159 LIEP 162 (339)
Q Consensus 159 FL~~ 162 (339)
.++.
T Consensus 75 ~l~~ 78 (83)
T cd04492 75 LVTE 78 (83)
T ss_pred ECCc
Confidence 7653
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=96.03 E-value=0.12 Score=36.93 Aligned_cols=47 Identities=19% Similarity=0.111 Sum_probs=39.5
Q ss_pred CcEEEEEEEEEcCCCCC-eeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 90 GKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 90 G~~Va~fsLAv~r~~~T-~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
|+..+.++|. +.+ ..+.|++|.+..+....+++.|+.|.|.|++...
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 6667776665 356 8999999999988888899999999999999764
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=95.97 E-value=0.038 Score=45.56 Aligned_cols=67 Identities=13% Similarity=0.015 Sum_probs=52.8
Q ss_pred ccEEEEEEEeCCCCeEEECCCC---cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEee
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDG---KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G---~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~ 138 (339)
++.+.+.|||.+--+++...++ ..+..+.|+= +++.-|.|++|++.|+.....|+.|+.++|+|-..
T Consensus 9 ~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~D---e~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V 78 (104)
T cd04474 9 QNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLD---EDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSV 78 (104)
T ss_pred CCcEEEEEEEeeccccccccCCCCCcEEEEEEEEE---CCCCEEEEEEehHHHHHhhcccccccEEEEeccEE
Confidence 4679999999986666665543 4566666542 34789999999999999999999999999998443
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=95.92 E-value=0.11 Score=38.76 Aligned_cols=76 Identities=14% Similarity=0.199 Sum_probs=55.1
Q ss_pred EEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEEEEE
Q 019560 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVM 153 (339)
Q Consensus 74 LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~eVi 153 (339)
++|-|. +.+.+.+.+|+.++.++|.- .+.-+.|++|...-+.+...|+.|..|.|.|++.... ...++.
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-SVRRRRTKKGKRMAFVTLED----LTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRD------GGLRLI 70 (84)
T ss_pred EEEEEE-EeEEEEcCCCCEEEEEEEEe----CCCeEEEEECHHHHHHHHHHhcCCCEEEEEEEEEecC------CceEEE
Confidence 456665 35667888898887777653 4566899999877555678899999999999997632 135666
Q ss_pred EeeEEec
Q 019560 154 VHSLNLI 160 (339)
Q Consensus 154 V~~I~FL 160 (339)
++++.-+
T Consensus 71 ~~~i~~~ 77 (84)
T cd04485 71 AERIEDL 77 (84)
T ss_pred eeccccH
Confidence 7665444
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=94.70 E-value=0.27 Score=39.90 Aligned_cols=72 Identities=17% Similarity=0.090 Sum_probs=52.2
Q ss_pred EEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEE
Q 019560 73 NLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (339)
Q Consensus 73 ~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl--AE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~ 150 (339)
.+.|.|..-+. ...+|. ++|+|- +++.-|+|++|... +..+...|+.||.|.|.|++....
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 35677765432 225677 557774 24468999999887 667778899999999999987653
Q ss_pred EEEEeeEEecc
Q 019560 151 QVMVHSLNLIE 161 (339)
Q Consensus 151 eViV~~I~FL~ 161 (339)
++.|+.+..+.
T Consensus 65 ql~ve~l~~~g 75 (91)
T cd04482 65 TLNLEKLRVIR 75 (91)
T ss_pred EEEEEEEEECC
Confidence 68888888654
No 38
>PRK07211 replication factor A; Reviewed
Probab=94.64 E-value=0.21 Score=52.27 Aligned_cols=81 Identities=17% Similarity=0.204 Sum_probs=61.3
Q ss_pred cccEEEEEEEeCCCCeEEECC-CC----cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCC
Q 019560 68 VANSVNLIGHVDAPVQFQTSS-DG----KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPP 142 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~-~G----~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sy 142 (339)
-+|.|++.|||..--++|... .| ..|+++.|+= +|--|++++|++.|+.....|+.||.|+|.|+.. ..|
T Consensus 62 g~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~D----eTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~-~~y 136 (485)
T PRK07211 62 GMDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVAD----ETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK-DGY 136 (485)
T ss_pred CCCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEEc----CCCeEEEEEechHhHhhhcccCCCCEEEEeceEe-ccc
Confidence 469999999999877776543 21 3577777763 6779999999999999899999999999999864 222
Q ss_pred CcCCeEEEEEEEeeEE
Q 019560 143 AIEGQANVQVMVHSLN 158 (339)
Q Consensus 143 edk~r~~~eViV~~I~ 158 (339)
..++|.+..+.
T Consensus 137 -----s~~El~i~~ve 147 (485)
T PRK07211 137 -----NGLEVSVDKVE 147 (485)
T ss_pred -----cceEEEEeeEE
Confidence 23466666544
No 39
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=94.27 E-value=0.69 Score=38.01 Aligned_cols=77 Identities=17% Similarity=0.247 Sum_probs=58.4
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHH-hhCCCCCeEEEEEEeeecCCCcCCe
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQLTADPPAIEGQ 147 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a-~yLkKGD~V~VeGrL~s~syedk~r 147 (339)
+-.|-+.|.|.. ++...+|. ++|+|.- +.--++|++|...+..+. .-++-|++|.|.|++......
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----EEASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYEPR---- 87 (99)
T ss_pred cCCEEEEEEEee---cEECCCce--EEEEEEc----CCcEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEECCC----
Confidence 467888898873 44434555 7788875 237899999999999888 889999999999999986432
Q ss_pred EEEEEEEeeEE
Q 019560 148 ANVQVMVHSLN 158 (339)
Q Consensus 148 ~~~eViV~~I~ 158 (339)
-.+++.|++|+
T Consensus 88 G~~sl~v~~i~ 98 (99)
T PF13742_consen 88 GSLSLIVEDID 98 (99)
T ss_pred cEEEEEEEEeE
Confidence 24677777664
No 40
>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=93.38 E-value=0.39 Score=49.21 Aligned_cols=79 Identities=10% Similarity=0.143 Sum_probs=62.0
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeE
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~ 148 (339)
+..|-+.|-|.. ++.-.+|. ++|+|- ++..-|+|++|...|..+.-.++-|+.|.|.|++..... +-
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 457899999984 44446776 778883 245679999999999888778999999999999997643 33
Q ss_pred EEEEEEeeEEec
Q 019560 149 NVQVMVHSLNLI 160 (339)
Q Consensus 149 ~~eViV~~I~FL 160 (339)
.|+++|++|.-.
T Consensus 84 ~~ql~v~~i~~~ 95 (432)
T TIGR00237 84 DYQIICFEMQPA 95 (432)
T ss_pred cEEEEEEEeccC
Confidence 488999988854
No 41
>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=92.55 E-value=2.4 Score=33.59 Aligned_cols=72 Identities=18% Similarity=0.327 Sum_probs=52.7
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhCCCCCeEEEEEEeeecCCCcCCeEE
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE--~~a~yLkKGD~V~VeGrL~s~syedk~r~~ 149 (339)
|.++|-|.. .. .|.+|+. .++|. +.+--+.|++|.+.-+ .+...|+.|..|+|.|++..+ + .
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 7778887 33332 2466799999999988 888999999999999999431 1 2
Q ss_pred EEEEEeeEEec
Q 019560 150 VQVMVHSLNLI 160 (339)
Q Consensus 150 ~eViV~~I~FL 160 (339)
+++|++|-+-
T Consensus 66 -~l~~~~I~~~ 75 (79)
T cd04490 66 -LIFADEIFRP 75 (79)
T ss_pred -EEEEEEeEcC
Confidence 7778777654
No 42
>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=92.31 E-value=2.4 Score=33.14 Aligned_cols=81 Identities=14% Similarity=0.236 Sum_probs=52.8
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH---HHHhhCCCCCeEEEEEEeeecCCCcCCe
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE---~~a~yLkKGD~V~VeGrL~s~syedk~r 147 (339)
.|.+-|+|.. +|. .|+ ++.+.| .+ .+.-+.|++-.+..+ .....|+.||.|.|+|.+....-.....
T Consensus 1 ~V~i~Gwv~~---~R~--~g~-~~Fi~L-rd---~~~~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~~~~ 70 (85)
T cd04100 1 EVTLAGWVHS---RRD--HGG-LIFIDL-RD---GSGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGNLAT 70 (85)
T ss_pred CEEEEEEEeh---hcc--CCC-EEEEEE-Ee---CCeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCCCCC
Confidence 3788899965 333 355 555555 22 235577776554322 2345799999999999999754321223
Q ss_pred EEEEEEEeeEEecc
Q 019560 148 ANVQVMVHSLNLIE 161 (339)
Q Consensus 148 ~~~eViV~~I~FL~ 161 (339)
..+||.++++..+.
T Consensus 71 ~~~El~~~~i~il~ 84 (85)
T cd04100 71 GEIELQAEELEVLS 84 (85)
T ss_pred CCEEEEEeEEEEEC
Confidence 45899999998874
No 43
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=92.03 E-value=0.88 Score=46.20 Aligned_cols=80 Identities=15% Similarity=0.161 Sum_probs=62.1
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeE
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~ 148 (339)
+-.|.+.|-|.. ++...+|. ++|+|.-+ ..-|+|++|...+..+...++-|+.|.|.|++..... +.
T Consensus 23 ~~~v~v~gEis~---~~~~~sGH--~Yf~Lkd~----~a~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~~y~~----~g 89 (438)
T PRK00286 23 LGQVWVRGEISN---FTRHSSGH--WYFTLKDE----IAQIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLYEP----RG 89 (438)
T ss_pred CCcEEEEEEeCC---CeeCCCCe--EEEEEEcC----CcEEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEECC----CC
Confidence 457899999874 44445676 77888643 5679999999999888778999999999999998532 34
Q ss_pred EEEEEEeeEEecc
Q 019560 149 NVQVMVHSLNLIE 161 (339)
Q Consensus 149 ~~eViV~~I~FL~ 161 (339)
.|+++|++|.-.+
T Consensus 90 ~~ql~v~~i~~~g 102 (438)
T PRK00286 90 DYQLIVEEIEPAG 102 (438)
T ss_pred CEEEEEEEeeeCC
Confidence 4788888888654
No 44
>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=92.01 E-value=2.9 Score=33.91 Aligned_cols=84 Identities=15% Similarity=0.236 Sum_probs=53.9
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHH---HHhhCCCCCeEEEEEEeeecCCCc
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHI---ASSHLKKDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl---AE~---~a~yLkKGD~V~VeGrL~s~syed 144 (339)
.|.|.|+|.+ +|. .|+.++.+.|- + .+..+.|++-.+. .+. ..+.|..|+.|.|+|.+....-..
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-Q---QGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEEPI 71 (102)
T ss_pred CEEEEEEEEE---eec--CCCceEEEEEe-c---CCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCCcc
Confidence 3788899964 333 35335544442 2 2456888886542 122 235699999999999998642211
Q ss_pred C--CeEEEEEEEeeEEeccCC
Q 019560 145 E--GQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 145 k--~r~~~eViV~~I~FL~~k 163 (339)
+ ....+||.|++|..|...
T Consensus 72 ~~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 72 KSCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred cCCCcCcEEEEEEEEEEEecC
Confidence 1 224689999999999754
No 45
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=91.54 E-value=1.6 Score=45.33 Aligned_cols=81 Identities=19% Similarity=0.108 Sum_probs=64.9
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEE
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~ 150 (339)
.|.++|-|.. ...+.|.+|..+|.++|.- .+--+.|++|.++-+.+...|+.|..|.|+|++..+. ...
T Consensus 282 ~v~vaG~I~~-ik~~~TKkG~~maf~~leD----~tG~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~~------~~~ 350 (449)
T PRK07373 282 KVSAVVMLNE-VKKIVTKKGDPMAFLQLED----LSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRRD------DQV 350 (449)
T ss_pred EEEEEEEEEE-eEecccCCCCEEEEEEEEE----CCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------CeE
Confidence 5788888875 6777888999888888764 3566999999999999999999999999999997541 136
Q ss_pred EEEEeeEEeccC
Q 019560 151 QVMVHSLNLIEP 162 (339)
Q Consensus 151 eViV~~I~FL~~ 162 (339)
+|+|++|.-++.
T Consensus 351 ~liv~~i~~l~~ 362 (449)
T PRK07373 351 QLIVEDAEPIEE 362 (449)
T ss_pred EEEEeEeecHhh
Confidence 788888766643
No 46
>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=91.37 E-value=4.1 Score=33.86 Aligned_cols=84 Identities=19% Similarity=0.148 Sum_probs=55.0
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC--CCC--CeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCC
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--ASH--SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r--~~~--T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sye 143 (339)
|+|.|.|-|-+..- .-+ ..+.-...+|...| ++. |||+-+-+=|.||-.+.+|.+|=.-|.|+|-|++. .
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-KKKTGFLVTIKQKRKFGERTFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRTY--L 74 (104)
T ss_dssp --EEEEEEEEEEEE---EE--TTSSEEEEEEEEEEEETTEEEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEEE--E
T ss_pred CcceEEEeceeehh---ccc-ccCceEEEEEeehhhhccccceeEEEEEECCeeehhHHHhhhhceEEEEeeehhhH--H
Confidence 78999999987531 122 22222233455555 333 68999999999999999999999999999999874 3
Q ss_pred cC--CeEEEEEEEeeE
Q 019560 144 IE--GQANVQVMVHSL 157 (339)
Q Consensus 144 dk--~r~~~eViV~~I 157 (339)
++ +.-.+.|.|..|
T Consensus 75 ekkS~iWKT~I~~~KI 90 (104)
T PF11506_consen 75 EKKSKIWKTTIEAVKI 90 (104)
T ss_dssp ETTTTEEEEEEEEEEE
T ss_pred HHhcccceeeEEEEEe
Confidence 33 444555555443
No 47
>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=90.89 E-value=3.9 Score=34.81 Aligned_cols=84 Identities=15% Similarity=0.311 Sum_probs=55.7
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhCCCCCeEEEEEEeeecCC--C-c
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPP--A-I 144 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE--~~a~yLkKGD~V~VeGrL~s~sy--e-d 144 (339)
..|.+.|+|.. +|. .|+ ++.+.| .+ .+..+.|++-.+..+ .....|+.||.|.|+|.+....- . .
T Consensus 15 ~~V~i~Gwv~~---~R~--~gk-~~Fi~L-rD---~~g~~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~~ 84 (135)
T cd04317 15 QEVTLCGWVQR---RRD--HGG-LIFIDL-RD---RYGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVNP 84 (135)
T ss_pred CEEEEEEeEeh---hcc--cCC-EEEEEE-ec---CCeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccCC
Confidence 35999999976 333 355 555555 22 234588887655332 23457999999999999986432 1 1
Q ss_pred C-CeEEEEEEEeeEEeccCC
Q 019560 145 E-GQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 145 k-~r~~~eViV~~I~FL~~k 163 (339)
+ ....+||.+++|..|...
T Consensus 85 ~~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 85 KLPTGEIEVVASELEVLNKA 104 (135)
T ss_pred CCCCCcEEEEEeEEEEEECC
Confidence 1 233589999999999765
No 48
>PRK15491 replication factor A; Provisional
Probab=90.88 E-value=0.96 Score=45.75 Aligned_cols=71 Identities=18% Similarity=0.209 Sum_probs=51.3
Q ss_pred ccEEEEEEEeCCCCeEEEC--CCCcE--EEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEE-EeeecCCC
Q 019560 69 ANSVNLIGHVDAPVQFQTS--SDGKH--WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPA 143 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T--~~G~~--Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeG-rL~s~sye 143 (339)
.+.|.++|+|..--++|.. .+|.. +..+.|+ .+|--|++++|++.|+.+ .-|..||.|+|.+ ..+.+.|.
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 3469999999987665543 46764 4444443 234459999999999886 6699999999966 57776664
Q ss_pred c
Q 019560 144 I 144 (339)
Q Consensus 144 d 144 (339)
+
T Consensus 251 g 251 (374)
T PRK15491 251 Q 251 (374)
T ss_pred C
Confidence 4
No 49
>PRK15491 replication factor A; Provisional
Probab=90.68 E-value=1.3 Score=44.73 Aligned_cols=83 Identities=16% Similarity=0.234 Sum_probs=58.4
Q ss_pred cccEEEEEEEeCCCCeEEEC--CCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHH-hhCCCCCeEEEEEEeeecCC
Q 019560 68 VANSVNLIGHVDAPVQFQTS--SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQLTADPP 142 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T--~~G--~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a-~yLkKGD~V~VeGrL~s~sy 142 (339)
.++.|.|.|||..--++|.. .+| ..++++.|+= +|--|++++|++.|+.+. .-|..|+.|.|.|. ....|
T Consensus 66 ~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~D----eTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~-~~~~y 140 (374)
T PRK15491 66 SSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVAD----ETGSIRLTLWDDLADLIKTGDIEVGKSLNISGY-AKEGY 140 (374)
T ss_pred CCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEEc----CCCeEEEEEECchhhhhccCCcCCCCEEEEeee-eccCc
Confidence 46999999999987666654 346 3466666663 566799999999999876 46999999999986 22222
Q ss_pred CcCCeEEEEEEEeeEEec
Q 019560 143 AIEGQANVQVMVHSLNLI 160 (339)
Q Consensus 143 edk~r~~~eViV~~I~FL 160 (339)
..++|.+.+-..+
T Consensus 141 -----~g~Ei~i~~~~~i 153 (374)
T PRK15491 141 -----SGIEVNIGRYGGI 153 (374)
T ss_pred -----ccEEEEeCCCcee
Confidence 2256666543333
No 50
>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=90.50 E-value=6.2 Score=31.19 Aligned_cols=83 Identities=12% Similarity=0.149 Sum_probs=51.0
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHH-HHHHhhCCCCCeEEEEEEeeecCCCcC-CeE
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIE-GQA 148 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklA-E~~a~yLkKGD~V~VeGrL~s~syedk-~r~ 148 (339)
.|.|.|+|.+ +|.. .|+ ++.+.| +.. ...=+.|++-.+.. -...+.|..||.|.|+|.+....-... ...
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--RDP-NGDIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKSSEKND 72 (86)
T ss_pred CEEEEEeEee---EeCC-CCc-eEEEEE--ECC-CCCEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcCCCCCC
Confidence 3778899875 3321 233 455444 221 12347777654422 123456999999999999997543221 224
Q ss_pred EEEEEEeeEEecc
Q 019560 149 NVQVMVHSLNLIE 161 (339)
Q Consensus 149 ~~eViV~~I~FL~ 161 (339)
.+||.+++|+.|.
T Consensus 73 ~~Ei~~~~i~il~ 85 (86)
T cd04321 73 EWELVVDDIQTLN 85 (86)
T ss_pred CEEEEEEEEEEec
Confidence 5899999999875
No 51
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=90.45 E-value=1.6 Score=37.54 Aligned_cols=79 Identities=20% Similarity=0.187 Sum_probs=51.5
Q ss_pred ccEEEEEEEeCC--CCeEEECCCCcE-EEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEE-EEeeecCCCc
Q 019560 69 ANSVNLIGHVDA--PVQFQTSSDGKH-WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLTADPPAI 144 (339)
Q Consensus 69 ~N~V~LIGrLgk--DPElr~T~~G~~-Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~Ve-GrL~s~syed 144 (339)
++.|.++|.|-. ++....+.+|.. +....|+ ++|--|++++|++.|+ .|+.||.|.|. |..+. |.
T Consensus 14 ~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~----D~TG~I~~tlW~~~a~----~l~~GdvV~I~na~v~~--f~- 82 (129)
T PRK06461 14 MERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVG----DETGRVKLTLWGEQAG----SLKEGEVVEIENAWTTL--YR- 82 (129)
T ss_pred CCceEEEEEEEEcCCceEEEeCCCceEEEEEEEE----CCCCEEEEEEeCCccc----cCCCCCEEEEECcEEee--eC-
Confidence 478899999885 233334556643 6666664 3455699999998664 58999999999 55553 32
Q ss_pred CCeEEEEEEEe---eEEecc
Q 019560 145 EGQANVQVMVH---SLNLIE 161 (339)
Q Consensus 145 k~r~~~eViV~---~I~FL~ 161 (339)
-.++|.+. .|..++
T Consensus 83 ---G~lqL~i~~~~~i~~~~ 99 (129)
T PRK06461 83 ---GKVQLNVGKYGSISESD 99 (129)
T ss_pred ---CEEEEEECCCEEEEECC
Confidence 23556555 344443
No 52
>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=90.26 E-value=6.4 Score=32.34 Aligned_cols=81 Identities=11% Similarity=0.275 Sum_probs=54.1
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HH--HHHhhCCCCCeEEEEEEeeecCCCcCC
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIEG 146 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl--AE--~~a~yLkKGD~V~VeGrL~s~syedk~ 146 (339)
.|.+-|+|.+ +|. .|+ ++.+.| .+ .+..+.|++-.+. .+ .....|..|+.|.|+|.+.... +.
T Consensus 14 ~V~v~Gwv~~---~R~--~g~-~~Fi~L-rD---~~g~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~---~~ 80 (108)
T cd04316 14 EVTVAGWVHE---IRD--LGG-IKFVIL-RD---REGIVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEP---KA 80 (108)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEE-ec---CCeeEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCC---CC
Confidence 4889999964 333 344 555544 22 2446888886542 11 1234699999999999998753 12
Q ss_pred eEEEEEEEeeEEeccCCC
Q 019560 147 QANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 147 r~~~eViV~~I~FL~~k~ 164 (339)
...+||.|++|..+....
T Consensus 81 ~~~~Ei~~~~i~il~~~~ 98 (108)
T cd04316 81 PNGVEIIPEEIEVLSEAK 98 (108)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 235899999999997553
No 53
>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=90.11 E-value=1.7 Score=33.75 Aligned_cols=60 Identities=17% Similarity=0.121 Sum_probs=38.7
Q ss_pred EEEEeCCCCeEEEC-CCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEE-EEeeec
Q 019560 74 LIGHVDAPVQFQTS-SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLTAD 140 (339)
Q Consensus 74 LIGrLgkDPElr~T-~~G~--~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~Ve-GrL~s~ 140 (339)
++|+|-.=-+.+.. .+|. .+..+.|+= +|--|++++|+..| ...++.|+.|.|. |+++..
T Consensus 2 v~~~V~~~~~~~~~~~~g~~~~~~~~~l~D----~TG~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~~ 65 (82)
T cd04491 2 VEGKVLSISEPREFTRDGSEGKVQSGLVGD----ETGTIRFTLWDEKA---ADDLEPGDVVRIENAYVREF 65 (82)
T ss_pred EEEEEEEccCCeEeccCCCeeEEEEEEEEC----CCCEEEEEEECchh---cccCCCCCEEEEEeEEEEec
Confidence 45555443333322 3444 444454442 35579999999988 6779999999999 776553
No 54
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=90.06 E-value=1.7 Score=49.95 Aligned_cols=82 Identities=18% Similarity=0.219 Sum_probs=66.2
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEE
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~ 149 (339)
..|.++|-|. ..+.+.|.+|+.++.++|.- .|--+.+++|.+.=+.+...|..|..|.|.|++..+. ..
T Consensus 978 ~~V~v~G~I~-~vk~~~TKkG~~mafltLeD----~TG~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~~------~~ 1046 (1135)
T PRK05673 978 SVVTVAGLVV-SVRRRVTKRGNKMAIVTLED----LSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDD------GG 1046 (1135)
T ss_pred ceEEEEEEEE-EEEecccCCCCeEEEEEEEe----CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 4577888777 47888899999999888875 3567999999998788888999999999999997531 23
Q ss_pred EEEEEeeEEeccC
Q 019560 150 VQVMVHSLNLIEP 162 (339)
Q Consensus 150 ~eViV~~I~FL~~ 162 (339)
.+++|++|.-++.
T Consensus 1047 ~qlii~~I~~L~~ 1059 (1135)
T PRK05673 1047 LRLTAREVMDLEE 1059 (1135)
T ss_pred EEEEEeecccHHH
Confidence 6888888877743
No 55
>PRK07211 replication factor A; Reviewed
Probab=89.72 E-value=0.99 Score=47.34 Aligned_cols=66 Identities=20% Similarity=0.243 Sum_probs=48.6
Q ss_pred ccEEEEEEEeCCCCeEEEC--CCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEE-Eeee
Q 019560 69 ANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTA 139 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T--~~G~--~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeG-rL~s 139 (339)
++.|.|+|+|..--++|.. .+|. .+.++.|+= +|--|++++|++.|+.+ .-|..|+.|+|.| +++.
T Consensus 171 ~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~D----eTG~IR~TlW~d~Ad~~-~~le~G~Vv~I~~a~Vre 241 (485)
T PRK07211 171 LSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVGD----ETGRVRVTLWDDRADLA-EELDAGESVEIVDGYVRE 241 (485)
T ss_pred CCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEEc----CCCeEEEEEechhhhhh-ccCCCCCEEEEEeeEEEe
Confidence 5889999999976666643 3453 344444442 45469999999999987 6799999999974 5543
No 56
>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=89.16 E-value=6.5 Score=30.76 Aligned_cols=81 Identities=19% Similarity=0.357 Sum_probs=51.1
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhCCCCCeEEEEEEeeecCCCcCCeE
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE--~~a~yLkKGD~V~VeGrL~s~syedk~r~ 148 (339)
.|.|.|+|.. +|.. |+ ++.+.| .+ .+..+.|++-.+... .....|..|+.|.|+|.+....-......
T Consensus 1 ~V~v~Gwv~~---~R~~--g~-~~Fi~L-rD---~~~~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~ 70 (84)
T cd04323 1 RVKVFGWVHR---LRSQ--KK-LMFLVL-RD---GTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAKQAPG 70 (84)
T ss_pred CEEEEEEEEE---EecC--CC-cEEEEE-Ec---CCeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCcccCCCC
Confidence 3788899864 3333 44 344444 22 234488877655322 23356999999999999987532111133
Q ss_pred EEEEEEeeEEecc
Q 019560 149 NVQVMVHSLNLIE 161 (339)
Q Consensus 149 ~~eViV~~I~FL~ 161 (339)
.+||.+++|..|+
T Consensus 71 ~~Ei~~~~i~vl~ 83 (84)
T cd04323 71 GYELQVDYLEIIG 83 (84)
T ss_pred CEEEEEEEEEEEc
Confidence 5899999998874
No 57
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=88.67 E-value=2.9 Score=41.44 Aligned_cols=78 Identities=15% Similarity=0.099 Sum_probs=55.9
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEE
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~ 150 (339)
.|..+. |.++.+++.+.+|+++..++|+- .|--|+..+|+..-+. ...+..|+.|.|.|++.. |.++ .
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-LIKSATKGVASNGKPFLTLILQD----KSGDIEAKLWDVSPED-EATYVPETIVHVKGDIIN--YRGR----K 80 (314)
T ss_pred EeeEEE-EEEEceeeecCCCCeEEEEEEEc----CCcEEEEEeCCCChhh-HhhcCCCCEEEEEEEEEE--ECCc----c
Confidence 344444 45578999999999988888874 4666999999976444 667999999999999975 4333 2
Q ss_pred EEEEeeEEec
Q 019560 151 QVMVHSLNLI 160 (339)
Q Consensus 151 eViV~~I~FL 160 (339)
++.+.++..+
T Consensus 81 Ql~i~~i~~~ 90 (314)
T PRK13480 81 QLKVNQIRLA 90 (314)
T ss_pred eEEEEEeEEC
Confidence 3444444444
No 58
>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=87.51 E-value=2.9 Score=30.46 Aligned_cols=60 Identities=12% Similarity=0.154 Sum_probs=39.1
Q ss_pred EEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 74 LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
+.|+|..- ..+.+. |..+..+.+.- ++--+.|++|+... .+.+.+++|+.|+|.|++...
T Consensus 2 i~~~V~~~-~~~~~~-~~~~~~~~~~D----~~g~i~~~~F~~~~-~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 2 VEGTVVSV-EVVPRR-GRRRLKVTLSD----GTGTLTLVFFNFQP-YLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred EEEEEEEE-EeccCC-CccEEEEEEEc----CCCEEEEEEECCCH-HHHhcCCCCCEEEEEEEEeec
Confidence 45665432 222222 45566665543 36679999998422 446779999999999999864
No 59
>PRK14699 replication factor A; Provisional
Probab=86.88 E-value=1.8 Score=45.27 Aligned_cols=65 Identities=17% Similarity=0.270 Sum_probs=50.5
Q ss_pred cccEEEEEEEeCCCCeEEEC--CCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHh-hCCCCCeEEEEEE
Q 019560 68 VANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASS-HLKKDDHVHIAGQ 136 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T--~~G~--~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~-yLkKGD~V~VeGr 136 (339)
-+..|.|.|+|-.=-..|.+ .+|. .++++.|| .+|--|++++|.++|+.+.+ .|++||.|.|.|.
T Consensus 66 ~~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~ia----DeTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~ 135 (484)
T PRK14699 66 ESGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVG----DETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY 135 (484)
T ss_pred CCceEEEEEEEEEecCceEEecCCCCceEEEEEEEe----cCCCeEEEEEecCccchhhhcCCCCCCEEEEcce
Confidence 35789999999886555544 3454 35555555 36778999999999998887 6999999999995
No 60
>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=86.87 E-value=15 Score=29.81 Aligned_cols=81 Identities=23% Similarity=0.310 Sum_probs=52.3
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH---HHhhCCCCCeEEEEEEeeecCCCcCCe
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI---ASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~---~a~yLkKGD~V~VeGrL~s~syedk~r 147 (339)
.|.+.|+|.+ +|. .|+ ++.+.| +. .+..+.|++-.++++. ....|..||.|.|+|.+.... +..
T Consensus 1 ~V~v~Gwv~~---~R~--~gk-~~Fi~l--rD--~~g~iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~---~~~ 67 (103)
T cd04319 1 KVTLAGWVYR---KRE--VGK-KAFIVL--RD--STGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADP---RAP 67 (103)
T ss_pred CEEEEEEEEe---EEc--CCC-eEEEEE--ec--CCeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECC---CCC
Confidence 3788899964 333 344 343333 22 2345888886543222 224688999999999998753 212
Q ss_pred EEEEEEEeeEEeccCCC
Q 019560 148 ANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 148 ~~~eViV~~I~FL~~k~ 164 (339)
..+||.|++++.++...
T Consensus 68 ~~~Ei~~~~i~vl~~a~ 84 (103)
T cd04319 68 GGAEVHGEKLEIIQNVE 84 (103)
T ss_pred CCEEEEEEEEEEEecCC
Confidence 35999999999997553
No 61
>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=86.72 E-value=8.8 Score=30.86 Aligned_cols=67 Identities=18% Similarity=0.221 Sum_probs=42.5
Q ss_pred EEEEEEeCCCCeEE--ECCC-CcEEEEEEEEEcCCCCC-eeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCC
Q 019560 72 VNLIGHVDAPVQFQ--TSSD-GKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (339)
Q Consensus 72 V~LIGrLgkDPElr--~T~~-G~~Va~fsLAv~r~~~T-~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sye 143 (339)
|.++|.|..--+.+ .+.+ |.......|-+-. +| .-+.|++||+.|+...... |+.|.+.| ++...|.
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D--~t~~~i~vtLWg~~a~~~~~~~--~~vv~~~~-~~i~~~~ 72 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLVD--ESGHSVELTLWGEQAELFDGSE--NPVIAIKG-VKVSEFN 72 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEEe--CCCCEEEEEEEHHHhhhcccCC--CCEEEEEe-eEEEecC
Confidence 56778776543332 2233 6543333333322 33 3789999999999887654 99999998 5555664
No 62
>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=86.11 E-value=17 Score=29.79 Aligned_cols=77 Identities=16% Similarity=0.203 Sum_probs=50.5
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HHH---HHhhCCCCCeEEEEEEeeecCCCcCC
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHI---ASSHLKKDDHVHIAGQLTADPPAIEG 146 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl--AE~---~a~yLkKGD~V~VeGrL~s~syedk~ 146 (339)
|.|-|+|-. +|. .|+ ++.+.|.- .+.-+.|++-.+. .+. +.+.|..||.|.|+|.+....-
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 678888874 444 355 55444443 2456888875442 122 2223999999999999986421
Q ss_pred eEEEEEEEeeEEeccCC
Q 019560 147 QANVQVMVHSLNLIEPT 163 (339)
Q Consensus 147 r~~~eViV~~I~FL~~k 163 (339)
..+||.++++..+++.
T Consensus 68 -g~~El~~~~~~ils~~ 83 (108)
T cd04322 68 -GELSIFVKEFTLLSKS 83 (108)
T ss_pred -CCEEEEeCEeEEeecc
Confidence 2379999999999654
No 63
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=85.59 E-value=4.9 Score=46.21 Aligned_cols=80 Identities=15% Similarity=0.124 Sum_probs=64.7
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEE
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~ 150 (339)
.|.++|-|.. ...+.|..|..+|.++|.- .|--+.|++|.+.-+.+...|..|..|.|+|++..+. ...
T Consensus 945 ~v~v~g~i~~-~~~~~tk~g~~maf~~leD----~tg~~e~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~~------~~~ 1013 (1107)
T PRK06920 945 VQRAIVYITS-VKVIRTKKGQKMAFITFCD----QNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELRN------HKL 1013 (1107)
T ss_pred EEEEEEEEEE-eEeecCCCCCeEEEEEEee----CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------CcE
Confidence 5788888874 6667888999888887764 4667999999999999999999999999999997641 135
Q ss_pred EEEEeeEEecc
Q 019560 151 QVMVHSLNLIE 161 (339)
Q Consensus 151 eViV~~I~FL~ 161 (339)
+++|++|.-++
T Consensus 1014 ~~~~~~i~~l~ 1024 (1107)
T PRK06920 1014 QWIVNGLYPLE 1024 (1107)
T ss_pred EEEEeecccHH
Confidence 78888887664
No 64
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=85.54 E-value=6 Score=45.67 Aligned_cols=82 Identities=13% Similarity=0.124 Sum_probs=65.2
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEE
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~ 150 (339)
.|.++|-|.. .+.+.|.+|..+|.++|.- .+--+.|++|.+.-+.+...|..|..|.|+|++..+.- ...
T Consensus 993 ~v~v~g~i~~-~~~~~tk~G~~maf~~leD----~~g~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~~-----~~~ 1062 (1151)
T PRK06826 993 KVIIGGIITE-VKRKTTRNNEMMAFLTLED----LYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRED-----EEP 1062 (1151)
T ss_pred EEEEEEEEEE-eEeeccCCCCeEEEEEEEE----CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecCC-----Cce
Confidence 5777888775 6777888999998888874 45569999999998889999999999999999975421 136
Q ss_pred EEEEeeEEeccC
Q 019560 151 QVMVHSLNLIEP 162 (339)
Q Consensus 151 eViV~~I~FL~~ 162 (339)
+++|++|.-+..
T Consensus 1063 ~~~~~~~~~l~~ 1074 (1151)
T PRK06826 1063 KLICEEIEPLVI 1074 (1151)
T ss_pred EEEEeeeecHhh
Confidence 888888877654
No 65
>PRK12366 replication factor A; Reviewed
Probab=85.28 E-value=4.7 Score=43.52 Aligned_cols=80 Identities=20% Similarity=0.185 Sum_probs=53.6
Q ss_pred cEEEEEEEeCCCCeEEECC--CCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEE-EeeecCCCcC-
Q 019560 70 NSVNLIGHVDAPVQFQTSS--DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPAIE- 145 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~--~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeG-rL~s~syedk- 145 (339)
+.+.|.|||..--++|... +|. .-.|++.+-. +|-=|++++|++.|+.... |..||.|+|+| +++ .|...
T Consensus 292 ~~~~I~grV~~~~~~R~f~~~~g~-gkv~s~~l~D--~tG~IR~t~w~~~~d~~~~-l~~G~vy~is~~~vk--~y~~~~ 365 (637)
T PRK12366 292 EEVDVKGRIIAISDKREVERDDRT-AEVQDIELAD--GTGRVRVSFWGEKAKILEN-LKEGDAVKIENCKVR--TYYDNE 365 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCc-EEEEEEEEEc--CCCeEEEEEeCchhhhhcc-cCCCCEEEEecCEEe--eccccC
Confidence 4899999999988887753 454 2334444332 2335999999999998765 78999999998 444 44322
Q ss_pred CeEEEEEEEe
Q 019560 146 GQANVQVMVH 155 (339)
Q Consensus 146 ~r~~~eViV~ 155 (339)
+...+++.+.
T Consensus 366 ~~~~~El~~~ 375 (637)
T PRK12366 366 GEKRVDLNAG 375 (637)
T ss_pred CCcCEEEEcC
Confidence 3334555553
No 66
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=85.20 E-value=5.8 Score=45.89 Aligned_cols=81 Identities=15% Similarity=0.124 Sum_probs=65.0
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEE
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~ 149 (339)
..|.++|-|.. ...+.|.+|..+|.++|.- .+--+.|++|-+.-+.+...|..|..|.|+|++..+. ..
T Consensus 1001 ~~v~v~g~i~~-~k~~~Tk~G~~maf~~leD----~tg~~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~~------~~ 1069 (1170)
T PRK07374 1001 AKVSAIAMIPE-MKQVTTRKGDRMAILQLED----LTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRD------DR 1069 (1170)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEEE----CCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 35888888874 6667888999998887764 4566999999999999999999999999999997542 13
Q ss_pred EEEEEeeEEecc
Q 019560 150 VQVMVHSLNLIE 161 (339)
Q Consensus 150 ~eViV~~I~FL~ 161 (339)
.+|+|++|.-++
T Consensus 1070 ~~~~~~~i~~l~ 1081 (1170)
T PRK07374 1070 VQLIIDDCREID 1081 (1170)
T ss_pred EEEEEeeeecHh
Confidence 578888887664
No 67
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=85.19 E-value=8.4 Score=31.49 Aligned_cols=68 Identities=15% Similarity=0.114 Sum_probs=48.8
Q ss_pred ECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEEEEEEeeE
Q 019560 86 TSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSL 157 (339)
Q Consensus 86 ~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~eViV~~I 157 (339)
.+.+|=..-.|.|- ..+.-+..|.+.+||+-++.+. .++.||.|.|+=.|+.+.|. +++...|.|=.|
T Consensus 16 ~s~~Gw~Kre~Vle-t~~qYP~~i~f~~~~dk~~~l~-~~~~Gd~V~Vsf~i~~RE~~--gr~fn~i~aWri 83 (84)
T PF11325_consen 16 VSKNGWKKREFVLE-TEEQYPQKICFEFWGDKIDLLD-NFQVGDEVKVSFNIEGREWN--GRWFNSIRAWRI 83 (84)
T ss_pred CcCCCcEEEEEEEe-CCCcCCceEEEEEEcchhhhhc-cCCCCCEEEEEEEeeccEec--ceEeeEeEEEEe
Confidence 44577333345555 3345567899999998877644 58999999999999999997 566666665443
No 68
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=84.95 E-value=3.8 Score=38.31 Aligned_cols=88 Identities=10% Similarity=0.134 Sum_probs=62.5
Q ss_pred ccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcC-
Q 019560 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE- 145 (339)
Q Consensus 67 ~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk- 145 (339)
.-+|.|-++|.|+.-+-+-. ...+.+++|+- ...++|+-.--+..-|-.+.+-+.++|.|.|.|++++ |+++
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 45899999999997654411 13466666653 3345777444555667788899999999999999875 4444
Q ss_pred CeEEEEEEEeeEEecc
Q 019560 146 GQANVQVMVHSLNLIE 161 (339)
Q Consensus 146 ~r~~~eViV~~I~FL~ 161 (339)
+...+.|..+.|.-++
T Consensus 116 g~~~~siRpE~vs~vd 131 (196)
T COG3390 116 GVVLFSIRPELVSKVD 131 (196)
T ss_pred CceEEEechhhhhhcC
Confidence 7777777787776664
No 69
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=83.94 E-value=8.7 Score=45.40 Aligned_cols=74 Identities=19% Similarity=0.141 Sum_probs=58.6
Q ss_pred ccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhCCCCCeEEEEEEeeecCCCc
Q 019560 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 67 ~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE--~~a~yLkKGD~V~VeGrL~s~syed 144 (339)
.-.+.|.+.|.|- +.|.|.+.+|+.+..|.|. +.|+-|.|..|.+-.+ .....+++|+.|.|.|++..+.|..
T Consensus 234 ~~~~~v~i~G~if-~~e~~~~k~~~~~~~~~~t----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~~~ 308 (1437)
T PRK00448 234 EEERRVVVEGYVF-KVEIKELKSGRHILTFKIT----DYTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTFTR 308 (1437)
T ss_pred ccCCeEEEEEEEE-EEEEEeccCCCEEEEEEEE----cCCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCCCC
Confidence 3468999999996 5899999999988888775 2567788888873321 2335699999999999999999976
Q ss_pred C
Q 019560 145 E 145 (339)
Q Consensus 145 k 145 (339)
+
T Consensus 309 ~ 309 (1437)
T PRK00448 309 D 309 (1437)
T ss_pred c
Confidence 4
No 70
>PRK12366 replication factor A; Reviewed
Probab=83.29 E-value=4.1 Score=43.99 Aligned_cols=70 Identities=20% Similarity=0.182 Sum_probs=51.6
Q ss_pred cccEEEEEEEeCCCCeEEEC--CCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCC
Q 019560 68 VANSVNLIGHVDAPVQFQTS--SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T--~~G--~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sye 143 (339)
-++.|.|.|||..--++|.. .+| ..++++.|+= +|--|++++|++.|+. ...|..||.|.|.|.- .+.|.
T Consensus 72 ~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~D----etG~Ir~t~W~~~~~~-~~~le~G~v~~i~~~~-v~~~~ 145 (637)
T PRK12366 72 GQINVEITGRIIEISNIKTFTRKDGSTGKLANITIAD----NTGTIRLTLWNDNAKL-LKGLKEGDVIKIENAR-SRKWN 145 (637)
T ss_pred CCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEEc----CCCEEEEEEEchhhhh-hccCCCCCEEEEeccE-ecccC
Confidence 36889999999876666643 445 3466666653 4546999999999986 5789999999999853 33443
No 71
>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=82.76 E-value=12 Score=43.57 Aligned_cols=73 Identities=11% Similarity=0.059 Sum_probs=57.9
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE--~~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
-.+.|.+.|.|- +.|.+.+.+|+.+..|.|.- .|+-|.|..|.+.-+ .....+++|+.|.|.|.+..++|..+
T Consensus 6 ~~~~~~~~g~i~-~~~~~~~~~~~~~~~~~~~d----~~~s~~~k~f~~~~~~~~~~~~~~~g~~~~~~g~~~~d~~~~~ 80 (1213)
T TIGR01405 6 EENRVKIEGYIF-KIEIKELKSGRTLLKIKVTD----YTDSLILKKFLKSEEDPEKFDGIKIGKWVRARGKIELDNFSRD 80 (1213)
T ss_pred cCCeEEEEEEEE-EEEeEeccCCCEEEEEEEEc----CCCCEEEEEecccccchHHHhhcCCCcEEEEEEEEeccCCCCc
Confidence 468899999996 58999999999888887762 567888888884321 12356999999999999999998764
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=81.43 E-value=17 Score=28.64 Aligned_cols=76 Identities=18% Similarity=0.103 Sum_probs=48.9
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH---HHHhhCCCCCeEEEEEEeeecCCCcCCeE
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE---~~a~yLkKGD~V~VeGrL~s~syedk~r~ 148 (339)
|.++|.|.. .+.. + ....|+|. . .|-=|.|.+|..-.+ ...+.+..|+.|.|.|+++...-
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--D--GTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQG------ 65 (95)
T ss_pred EEEEEEEEe-eeEc----c-cEEEEEEE--C--CCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccCC------
Confidence 678888875 3322 2 22334443 2 344599999986653 35778999999999999976532
Q ss_pred EEEEEEeeEEeccCC
Q 019560 149 NVQVMVHSLNLIEPT 163 (339)
Q Consensus 149 ~~eViV~~I~FL~~k 163 (339)
..+|.+..+..++..
T Consensus 66 ~~ql~i~~i~~v~d~ 80 (95)
T cd04478 66 KKSIMAFSIRPVTDF 80 (95)
T ss_pred eeEEEEEEEEEeCCc
Confidence 245666666666543
No 73
>PRK08402 replication factor A; Reviewed
Probab=80.97 E-value=5.4 Score=40.30 Aligned_cols=71 Identities=13% Similarity=0.153 Sum_probs=51.2
Q ss_pred ccEEEEEEEeCCCCeEEE--CCCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCC
Q 019560 69 ANSVNLIGHVDAPVQFQT--SSDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~--T~~G~--~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sye 143 (339)
+..|.++|+|..--+.|. ..+|. .|.+..|+= +|-.+++++|++.|+.....+..||.|.|.|--..+.|.
T Consensus 72 ~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~D----eTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a~V~e~~~ 146 (355)
T PRK08402 72 MRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIYD----DTGRARVVLWDAKVAKYYNKINVGDVIKVIDAQVRESLS 146 (355)
T ss_pred CceeeEEEEEEEccCCceeeccCCCcceEEEEEEEc----CCCeEEEEEechhhhhhcccCCCCCEEEEECCEEeecCC
Confidence 588999999997534332 23554 466666663 577899999999998766679999999998644444443
No 74
>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=80.73 E-value=8.7 Score=33.21 Aligned_cols=76 Identities=14% Similarity=0.026 Sum_probs=50.4
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
.-..|.+||=|..-...+.+.+....+.|+|.=.......=+.|.+|++.++.+-. +..||.|.+.+ ++...|.++
T Consensus 13 ~~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~~~~l~v~~F~~~~~~LP~-v~~GDVIll~~-~kv~~~~g~ 88 (138)
T cd04497 13 SGGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNEESLPI-VKVGDIILLRR-VKIQSYNGK 88 (138)
T ss_pred cCCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCCCCcEEEEEECCChhhCCC-CCCCCEEEEEE-EEEEEECCc
Confidence 34578889988765444444433455566555322111456999999999998765 59999999987 555656543
No 75
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=79.17 E-value=13 Score=42.62 Aligned_cols=81 Identities=7% Similarity=0.180 Sum_probs=63.1
Q ss_pred cEEEEEEEeCCCCeEEECC-CCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeE
Q 019560 70 NSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~-~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~ 148 (339)
+.+.++|.|.. .....|. .|..++.++|.- .+--+.|++|.+.-+.+...|..|..|.|+|++..+. .
T Consensus 885 ~~~~~~~~i~~-~~~~~tk~~g~~maf~~leD----~~g~ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~~------~ 953 (1034)
T PRK07279 885 SEATILVQIQS-IRVIRTKTKGQQMAFLSVTD----TKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQERD------G 953 (1034)
T ss_pred CcceEEEEEEE-EEEEEEcCCCCeEEEEEEee----CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------C
Confidence 45788888875 4555556 898888887764 3566999999999888889999999999999997641 1
Q ss_pred EEEEEEeeEEecc
Q 019560 149 NVQVMVHSLNLIE 161 (339)
Q Consensus 149 ~~eViV~~I~FL~ 161 (339)
..+++|+++.-+.
T Consensus 954 ~~~l~~~~i~~l~ 966 (1034)
T PRK07279 954 RLQMVLQQIQEAS 966 (1034)
T ss_pred eeEEEEeeeeccc
Confidence 3678888887664
No 76
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=78.60 E-value=12 Score=42.98 Aligned_cols=79 Identities=14% Similarity=0.145 Sum_probs=60.5
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEE
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~ 150 (339)
.|.+.|-+.. .+.+.|.+| ++.++|. +.|--+.|++|.++-+.+...|+.|..|.|+|+++.+ ++ .+
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 4677777765 666668888 5665554 3577799999999999999999999999999999764 12 25
Q ss_pred EEEEeeEEeccC
Q 019560 151 QVMVHSLNLIEP 162 (339)
Q Consensus 151 eViV~~I~FL~~ 162 (339)
+|+|++|.-++.
T Consensus 1022 ~~~~~~i~~~~~ 1033 (1046)
T PRK05672 1022 HLVADRLEDLSP 1033 (1046)
T ss_pred EEEEeeeechHH
Confidence 888988876633
No 77
>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=78.44 E-value=7.7 Score=33.73 Aligned_cols=74 Identities=11% Similarity=0.051 Sum_probs=53.7
Q ss_pred ccEEEEEEEeCCCCeE--EECCCCcEEEEEEEEEcCCCCC-----eeEEEEEeccHHHHHHhhCCC-CCeEEEEEEeeec
Q 019560 69 ANSVNLIGHVDAPVQF--QTSSDGKHWAGTVIVQHAASHS-----LWIPILFEGDLAHIASSHLKK-DDHVHIAGQLTAD 140 (339)
Q Consensus 69 ~N~V~LIGrLgkDPEl--r~T~~G~~Va~fsLAv~r~~~T-----~wI~VvawGklAE~~a~yLkK-GD~V~VeGrL~s~ 140 (339)
-..|.+||=|...-.. +.|.++..++.|+| ++..... ..+.|.+|.+..|.+- .++. ||.|.+. |++..
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 GKFVNVIGVVVDFSPPNPKKTRGTDYMCTLTI-TDPSLNDSNQKLSGLTVNIFRPHKESLP-NVKSVGDIIRLR-RVKVQ 88 (146)
T ss_dssp SEEEEEEEEEEEEEEECTEEESSSCEEEEEEE-EBTTCSCSSCCCCEEEEEEEESSHHHSC-TTCSTTHEEEEE-EEEEE
T ss_pred CCEEEEEEEEEEccCCcceEcCCCcEEEEEEE-ECCCCCccccccCCEEEEEECCCHHHCC-CCCCCCCEEEEE-EEEEE
Confidence 4478888888765555 56666778888888 4553222 7899999988888775 4566 9988877 77777
Q ss_pred CCCcC
Q 019560 141 PPAIE 145 (339)
Q Consensus 141 syedk 145 (339)
.|.++
T Consensus 89 ~~~~~ 93 (146)
T PF02765_consen 89 SYNGK 93 (146)
T ss_dssp EETTE
T ss_pred EECCE
Confidence 77665
No 78
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=78.42 E-value=8.7 Score=40.04 Aligned_cols=79 Identities=13% Similarity=0.162 Sum_probs=60.9
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeE
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~ 148 (339)
+-.|-+-|-|.. ++.-.+| -.+|+|- ++.--|+|++|...+..+.--++-|+.|.|.|++..... +.
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----DERAQIRCVMFKGNNRRLKFRPEEGMQVLVRGKISLYEP----RG 89 (440)
T ss_pred CCeEEEEEEecC---CccCCCc--cEEEEEc----cCCceEEEEEEcCcccccCCCccCCCEEEEEEEEEEEcC----CC
Confidence 556788888774 3333566 4667764 346789999999999988888999999999999998643 45
Q ss_pred EEEEEEeeEEec
Q 019560 149 NVQVMVHSLNLI 160 (339)
Q Consensus 149 ~~eViV~~I~FL 160 (339)
.|+|++++++.-
T Consensus 90 ~YQi~~~~~~p~ 101 (440)
T COG1570 90 DYQIVAESMEPA 101 (440)
T ss_pred ceEEEEecCCcC
Confidence 689999988753
No 79
>PLN02850 aspartate-tRNA ligase
Probab=76.34 E-value=25 Score=37.41 Aligned_cols=85 Identities=15% Similarity=0.221 Sum_probs=54.9
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHHH---HhhCCCCCeEEEEEEeeecCCC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIA---SSHLKKDDHVHIAGQLTADPPA 143 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl---AE~~---a~yLkKGD~V~VeGrL~s~sye 143 (339)
..|.|.|||.. +| ..|+ ++.+.|-- .+..|.|++-.+. .+.+ +..|..||.|.|+|.+....-.
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 57888899963 33 3455 55544432 2445888876542 1222 4579999999999999853211
Q ss_pred cC-CeEEEEEEEeeEEeccCCC
Q 019560 144 IE-GQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 144 dk-~r~~~eViV~~I~FL~~k~ 164 (339)
-+ ....++|.|++|..|....
T Consensus 152 ~~~~t~~~El~~~~i~vls~a~ 173 (530)
T PLN02850 152 VKGTTQQVEIQVRKIYCVSKAL 173 (530)
T ss_pred CCCCCccEEEEEeEEEEEeCCC
Confidence 11 1127999999999987653
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=76.19 E-value=28 Score=35.73 Aligned_cols=82 Identities=12% Similarity=0.216 Sum_probs=53.6
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHH---HHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGk-lAE~---~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
..|.|.|+|.+ +| ..|+ ++.+.|-- .+.-|.|++-.+ ..+. ....|..||.|.|+|.+.... .
T Consensus 13 ~~v~i~G~v~~---~R--~~g~-~~Fi~lrd----~~g~iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~---~ 79 (428)
T TIGR00458 13 QEVTFMGWVHE---IR--DLGG-LIFVLLRD----REGLIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKE---K 79 (428)
T ss_pred CEEEEEEEEEE---Ee--cCCC-cEEEEEEe----CCeeEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecC---C
Confidence 56889999963 33 3455 44444432 233588887643 2111 235699999999999998542 1
Q ss_pred CeEEEEEEEeeEEeccCCC
Q 019560 146 GQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 146 ~r~~~eViV~~I~FL~~k~ 164 (339)
....++|.|+++..|....
T Consensus 80 ~~~~~el~~~~i~vl~~~~ 98 (428)
T TIGR00458 80 APGGFEIIPTKIEVINEAK 98 (428)
T ss_pred CCCcEEEEEeEEEEEecCC
Confidence 2235999999999998653
No 81
>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=75.92 E-value=28 Score=28.44 Aligned_cols=39 Identities=8% Similarity=-0.025 Sum_probs=29.5
Q ss_pred CeeEEEEEeccHHHHHHhhCC----CCCeEEEEEEeeecCCCc
Q 019560 106 SLWIPILFEGDLAHIASSHLK----KDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 106 T~wI~VvawGklAE~~a~yLk----KGD~V~VeGrL~s~syed 144 (339)
-.-+.|++||+.|+....++. .+-.|+|-+-.+...|.+
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 468999999999999888763 444455666688888865
No 82
>PRK14699 replication factor A; Provisional
Probab=74.26 E-value=8.1 Score=40.60 Aligned_cols=84 Identities=15% Similarity=0.195 Sum_probs=57.8
Q ss_pred ccEEEEEEEeCCCCeEEEC--CCCcE--EEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEE-eeecCCC
Q 019560 69 ANSVNLIGHVDAPVQFQTS--SDGKH--WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ-LTADPPA 143 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T--~~G~~--Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGr-L~s~sye 143 (339)
+..|++.|+|..--++|.. .+|.. +.++.|+ .+|--|++++|++.|. +..-|..||.|.|.|- .+.+.|.
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 4569999999997776653 46643 5555555 4688999999999886 4446999999998654 5555453
Q ss_pred cCCeEEEEEEEeeEEecc
Q 019560 144 IEGQANVQVMVHSLNLIE 161 (339)
Q Consensus 144 dk~r~~~eViV~~I~FL~ 161 (339)
..++|.+.+...+.
T Consensus 251 ----~~~el~~~~~s~i~ 264 (484)
T PRK14699 251 ----QKVELQVGNRSIIR 264 (484)
T ss_pred ----CceEEEecCceEee
Confidence 24555555544443
No 83
>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=72.75 E-value=45 Score=34.59 Aligned_cols=84 Identities=17% Similarity=0.203 Sum_probs=54.8
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH---HHHhhCCCCCeEEEEEEeeecCCCcCC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEG 146 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE---~~a~yLkKGD~V~VeGrL~s~syedk~ 146 (339)
..|.+.|+|. .+| ..|+ ++.+.| .......-+.|++-.+.++ ...+.|..||.|.|+|.+.... ..
T Consensus 17 ~~v~v~Gwv~---~~R--~~~~-~~F~~l--rD~~~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~---~~ 85 (453)
T TIGR00457 17 DEVTVSGWVR---TKR--SSKK-IIFLEL--NDGSSLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESP---GK 85 (453)
T ss_pred CEEEEEEEeE---EEE--cCCC-eEEEEE--ECCCCCccEEEEEeCCcChHHHHHHHcCCCCcEEEEEEEEEcCC---CC
Confidence 5689999996 455 2343 444444 2222115688888665222 2335799999999999998632 12
Q ss_pred eEEEEEEEeeEEeccCCC
Q 019560 147 QANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 147 r~~~eViV~~I~FL~~k~ 164 (339)
...++|.|++|+.|....
T Consensus 86 ~~~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 86 GQPVELQVKKIEVVGEAE 103 (453)
T ss_pred CCCEEEEEeEEEEEecCC
Confidence 245899999999998664
No 84
>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=72.17 E-value=9.3 Score=41.09 Aligned_cols=67 Identities=15% Similarity=0.058 Sum_probs=52.3
Q ss_pred ccEEEEEEEeCCCCeEEECC--CC-cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEE-Eeee
Q 019560 69 ANSVNLIGHVDAPVQFQTSS--DG-KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTA 139 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~--~G-~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeG-rL~s 139 (339)
.+++.|.|||.+--++|... +| ..+..+.|+ + ++.=|++++|++.|+.....|+.|+.++|++ +++.
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 57899999999988888653 33 245455443 2 5678999999999999999999999999966 5554
No 85
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=72.09 E-value=38 Score=34.87 Aligned_cols=82 Identities=20% Similarity=0.351 Sum_probs=53.4
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHHHHhhCCCCCeEEEEEEeeecCCCcCC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl---AE~~a~yLkKGD~V~VeGrL~s~syedk~ 146 (339)
+.|.|.|+|.. +|. .|+ ++.+.| .+. +.-|.|++=.+. .....+.|..||.|.|+|.+.... ..
T Consensus 17 ~~V~i~GrV~~---~R~--~gk-~~Fl~L-rD~---~g~iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~---~~ 83 (437)
T PRK05159 17 EEVTLAGWVHE---IRD--LGG-IAFLIL-RDR---SGIIQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANP---KA 83 (437)
T ss_pred CEEEEEEEeEe---eec--CCC-eEEEEE-EcC---CcEEEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCC---CC
Confidence 67899999963 333 354 333333 222 234888875442 112335799999999999999652 12
Q ss_pred eEEEEEEEeeEEeccCCC
Q 019560 147 QANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 147 r~~~eViV~~I~FL~~k~ 164 (339)
...++|.|++|..|....
T Consensus 84 ~~~~el~~~~i~vls~a~ 101 (437)
T PRK05159 84 PGGVEVIPEEIEVLNKAE 101 (437)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 245899999999997665
No 86
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=71.09 E-value=45 Score=35.72 Aligned_cols=85 Identities=14% Similarity=0.225 Sum_probs=54.8
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEe--ccHHHHH---HhhCCCCCeEEEEEEeeecCCCc
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFE--GDLAHIA---SSHLKKDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~Vvaw--GklAE~~---a~yLkKGD~V~VeGrL~s~syed 144 (339)
..|.|.|+|.. +|. .|+ ++.+.|-- .+..|.|++- +...+.+ ...|..||.|.|+|.+....-..
T Consensus 79 ~~V~v~Grv~~---~R~--~Gk-~~Fl~LRd----~~~~iQ~v~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~ 148 (550)
T PTZ00401 79 KTVLIRARVST---TRK--KGK-MAFMVLRD----GSDSVQAMAAVEGDVPKEMIDFIGQIPTESIVDVEATVCKVEQPI 148 (550)
T ss_pred CEEEEEEEEEE---Eec--CCC-eEEEEEEe----CCcCEEEEEECCCccCHHHHHHHhcCCCCCEEEEEEEEEecCccC
Confidence 45889999963 333 354 45444432 2346887763 2232322 34599999999999998753221
Q ss_pred -C-CeEEEEEEEeeEEeccCCC
Q 019560 145 -E-GQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 145 -k-~r~~~eViV~~I~FL~~k~ 164 (339)
. .+..++|.|++|..|....
T Consensus 149 ~~~~~~~~El~v~~i~vls~a~ 170 (550)
T PTZ00401 149 TSTSHSDIELKVKKIHTVTESL 170 (550)
T ss_pred CCCCCccEEEEeeEEEEEeCCC
Confidence 1 4456999999999997664
No 87
>PLN02903 aminoacyl-tRNA ligase
Probab=70.70 E-value=94 Score=34.17 Aligned_cols=84 Identities=17% Similarity=0.269 Sum_probs=54.6
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH-HH--HHHhhCCCCCeEEEEEEeeecCCCc--
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AH--IASSHLKKDDHVHIAGQLTADPPAI-- 144 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl-AE--~~a~yLkKGD~V~VeGrL~s~syed-- 144 (339)
..|.|.|+|.+ +|. .|+ ++.+.| .++ +-.+.|++-.+. .+ ..++.|+.|+.|.|+|.+..+.-..
T Consensus 73 k~V~l~GWV~~---~R~--~G~-l~FidL-RD~---~G~iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V~~r~~~~~n 142 (652)
T PLN02903 73 SRVTLCGWVDL---HRD--MGG-LTFLDV-RDH---TGIVQVVTLPDEFPEAHRTANRLRNEYVVAVEGTVRSRPQESPN 142 (652)
T ss_pred CEEEEEEEEEE---Eec--CCC-cEEEEE-EcC---CccEEEEEeCCccHHHHHHHhcCCCCCEEEEEEEEEeCCCcCcC
Confidence 36999999964 444 343 333333 332 334788886442 22 2346799999999999998753211
Q ss_pred -C-CeEEEEEEEeeEEeccCC
Q 019560 145 -E-GQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 145 -k-~r~~~eViV~~I~FL~~k 163 (339)
+ ..-.+||.|++|+.|...
T Consensus 143 ~~~~tGeiEl~~~~i~VL~~a 163 (652)
T PLN02903 143 KKMKTGSVEVVAESVDILNVV 163 (652)
T ss_pred CCCCCCCEEEEEeEEEEEecC
Confidence 1 223589999999999865
No 88
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=69.35 E-value=44 Score=34.95 Aligned_cols=81 Identities=17% Similarity=0.256 Sum_probs=56.2
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEec-cHHHHH--HhhCCCCCeEEEEEEeeecCCCcCC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLAHIA--SSHLKKDDHVHIAGQLTADPPAIEG 146 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawG-klAE~~--a~yLkKGD~V~VeGrL~s~syedk~ 146 (339)
-.|.|-|.|-. +| ..|+ ++ | |.++ +.|.+|+|++.. +..+.+ +..|..++.|.|+|.+.-..- .
T Consensus 17 ~~V~v~GWV~~---~R--~~g~-i~-F-i~lr--Dgsg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~~---a 83 (435)
T COG0017 17 QEVTVRGWVHN---KR--DLGK-II-F-LVLR--DGSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASPK---A 83 (435)
T ss_pred cEEEEEEEeee---ec--ccCC-eE-E-EEEE--cCCcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCCC---C
Confidence 57888888864 22 2344 33 3 2232 246779999974 233222 568999999999999986532 3
Q ss_pred eEEEEEEEeeEEeccCC
Q 019560 147 QANVQVMVHSLNLIEPT 163 (339)
Q Consensus 147 r~~~eViV~~I~FL~~k 163 (339)
...+||.|++|+.++..
T Consensus 84 ~~g~El~v~~i~Vl~~a 100 (435)
T COG0017 84 PQGFELQVEKIEVLGEA 100 (435)
T ss_pred CCCEEEEEEEEEEeecc
Confidence 45689999999999777
No 89
>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=65.22 E-value=61 Score=24.95 Aligned_cols=77 Identities=14% Similarity=0.259 Sum_probs=47.5
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCee--EEEEEeccHH-HHHHhhCCCCCeEEEEEEeeecCCCcCCeE
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLW--IPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~w--I~VvawGklA-E~~a~yLkKGD~V~VeGrL~s~syedk~r~ 148 (339)
|.+-|+|. .+|. .|+ ++. |..++ .+.. +.|++-.+.. -...+.|..||.|.|+|.+....- ...
T Consensus 2 v~v~Gwv~---~~R~--~g~-~~F--i~LrD--~s~~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~---~~~ 68 (82)
T cd04318 2 VTVNGWVR---SVRD--SKK-ISF--IELND--GSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG---AKQ 68 (82)
T ss_pred EEEEEeEE---EEEc--CCc-EEE--EEEEC--CCCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC---CCC
Confidence 67788884 2333 343 333 23322 2333 7777754422 123457999999999999987532 124
Q ss_pred EEEEEEeeEEecc
Q 019560 149 NVQVMVHSLNLIE 161 (339)
Q Consensus 149 ~~eViV~~I~FL~ 161 (339)
.+||.++++..+.
T Consensus 69 ~~El~~~~i~il~ 81 (82)
T cd04318 69 PFELQAEKIEVLG 81 (82)
T ss_pred CEEEEEEEEEEec
Confidence 6899999988764
No 90
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=61.05 E-value=93 Score=34.24 Aligned_cols=77 Identities=14% Similarity=0.159 Sum_probs=51.6
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc------HHHHHHhhCCCCCeEEEEEEeeecCCCc
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD------LAHIASSHLKKDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGk------lAE~~a~yLkKGD~V~VeGrL~s~syed 144 (339)
.|.|-|||.. +|. .|+ ++.+.| .+ .+--|+|++-.+ ....+.+.|..||.|.|+|.+....
T Consensus 109 ~V~vaGrV~~---~R~--~Gk-~~F~~L-rD---~~G~IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~v~~t~--- 175 (659)
T PTZ00385 109 TVRVAGRVTS---VRD--IGK-IIFVTI-RS---NGNELQVVGQVGEHFTREDLKKLKVSLRVGDIIGADGVPCRMQ--- 175 (659)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEE-EE---CCceEEEEEECCccCCHHHHHHHHhCCCCCCEEEEEEEEEecC---
Confidence 4999999964 443 355 344333 33 355788877532 2233445699999999999888542
Q ss_pred CCeEEEEEEEeeEEeccC
Q 019560 145 EGQANVQVMVHSLNLIEP 162 (339)
Q Consensus 145 k~r~~~eViV~~I~FL~~ 162 (339)
.--++|.|++|.+|.+
T Consensus 176 --~GeleI~~~~i~lLsk 191 (659)
T PTZ00385 176 --RGELSVAASRMLILSP 191 (659)
T ss_pred --CceEEEEeeEEEEech
Confidence 2347999999999975
No 91
>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=60.32 E-value=92 Score=33.71 Aligned_cols=85 Identities=19% Similarity=0.323 Sum_probs=54.6
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHHHHhhCCCCCeEEEEEEeeecCCCc---C
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLKKDDHVHIAGQLTADPPAI---E 145 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGk-lAE~~a~yLkKGD~V~VeGrL~s~syed---k 145 (339)
..|.|.|+|-+ +|. .|+ ++.+.| .++ +--+.|++-.+ -+-...+.|..||.|.|+|.+..+.-.. +
T Consensus 16 ~~V~l~GwV~~---~R~--~Gk-l~Fi~L-rD~---sg~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~~ 85 (583)
T TIGR00459 16 QTVTLAGWVNR---RRD--LGG-LIFIDL-RDR---SGIVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINRN 85 (583)
T ss_pred CEEEEEEEEEE---EEc--CCC-cEEEEE-EeC---CccEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCcc
Confidence 37899999963 444 354 433333 332 33688887654 1122346799999999999998653211 1
Q ss_pred -CeEEEEEEEeeEEeccCCC
Q 019560 146 -GQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 146 -~r~~~eViV~~I~FL~~k~ 164 (339)
....+||.|+++..|....
T Consensus 86 ~~tg~iEl~~~~i~iL~~a~ 105 (583)
T TIGR00459 86 LDTGEIEILAESITLLNKSK 105 (583)
T ss_pred CCCCcEEEEEeEEEEeecCC
Confidence 2235899999999997543
No 92
>PLN02603 asparaginyl-tRNA synthetase
Probab=59.42 E-value=1.2e+02 Score=32.69 Aligned_cols=85 Identities=14% Similarity=0.243 Sum_probs=53.7
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HH-HhhCCCCCeEEEEEEeeecCCCcC
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IA-SSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE--~~-a~yLkKGD~V~VeGrL~s~syedk 145 (339)
-..|.+-|+|- .+|. .|+ ++ | |.++.+....-+.|++-.+.+. .+ ...|..||.|.|+|.+.... .
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 35788888886 4553 243 32 3 3333323334588887544321 11 12489999999999998542 2
Q ss_pred CeEEEEEEEeeEEeccCCC
Q 019560 146 GQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 146 ~r~~~eViV~~I~FL~~k~ 164 (339)
+...+||.|++|..|+...
T Consensus 176 ~~~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 176 GKQKVELKVSKIVVVGKSD 194 (565)
T ss_pred CCccEEEEEeEEEEEECCC
Confidence 3356999999999998664
No 93
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=58.96 E-value=56 Score=35.03 Aligned_cols=64 Identities=11% Similarity=0.115 Sum_probs=43.3
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
..|++.|.|... .. ....+..+..+.+... .+.-+.|++|+. . .+.+.+++|+.|+|.|++...
T Consensus 33 ~~~~~~~~v~~~-~~-~~~~~~~~~~~~~~d~---~~~~~~~~~F~~-~-~~~~~~~~g~~~~~~Gk~~~~ 96 (630)
T TIGR00643 33 ERATIVGEVLSH-CI-FGFKRRKVLKLRLKDG---GYKKLELRFFNR-A-FLKKKFKVGSKVVVYGKVKSS 96 (630)
T ss_pred CEEEEEEEEEEe-Ee-ccCCCCceEEEEEEEC---CCCEEEEEEECC-H-HHHhhCCCCCEEEEEEEEEee
Confidence 468999998763 22 2123344444444331 456689999982 2 567889999999999999753
No 94
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=58.79 E-value=46 Score=36.63 Aligned_cols=66 Identities=15% Similarity=0.137 Sum_probs=49.6
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPP 142 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sy 142 (339)
-.|++.|.|..-.-.. ..++....+.+.. .+.-+.+++|+.-| .+.+.|+.|..|.|.|++....+
T Consensus 61 ~~vti~g~V~~~~~~~--~~~~~~l~v~~~d----~~~~l~l~fFn~~~-~l~~~~~~G~~v~v~Gk~~~~~~ 126 (677)
T COG1200 61 EIVTIEGTVLSHEKFP--FGKRKLLKVTLSD----GTGVLTLVFFNFPA-YLKKKLKVGERVIVYGKVKRFKG 126 (677)
T ss_pred ceEEEEEEEEeeeccC--CCCCceEEEEEec----CcEEEEEEEECccH-HHHhhCCCCCEEEEEEEEeeccC
Confidence 3679999998643332 3445555554443 57889999999998 78889999999999999998543
No 95
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=58.50 E-value=30 Score=30.66 Aligned_cols=62 Identities=13% Similarity=0.121 Sum_probs=45.0
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeee
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s 139 (339)
+++.++=-|-.+-+.+.|.+|..|+.+.+|- +|--|.+.+|++.. ..++.||.|...|-..+
T Consensus 15 kN~~v~fIvl~~g~~tkTkdg~~v~~~kVaD----~TgsI~isvW~e~~----~~~~PGDIirLt~Gy~S 76 (134)
T KOG3416|consen 15 KNINVTFIVLEYGRATKTKDGHEVRSCKVAD----ETGSINISVWDEEG----CLIQPGDIIRLTGGYAS 76 (134)
T ss_pred hcceEEEEEEeeceeeeccCCCEEEEEEEec----ccceEEEEEecCcC----cccCCccEEEecccchh
Confidence 3344444444555667889999999887773 68889999999544 35889999998875543
No 96
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=58.09 E-value=85 Score=32.53 Aligned_cols=81 Identities=17% Similarity=0.210 Sum_probs=51.2
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHHHHhhCCCCCeEEEEEEeeecCCCcCC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl---AE~~a~yLkKGD~V~VeGrL~s~syedk~ 146 (339)
..|.+.|+|. .+|.. |+ ++.+.| .+ .+.-+.|++-.+- +-.....|..||.|.|.|.+.... .+
T Consensus 17 ~~V~i~G~v~---~~R~~--g~-~~Fi~l-rD---~~g~iq~~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~---~~ 83 (450)
T PRK03932 17 QEVTVRGWVR---TKRDS--GK-IAFLQL-RD---GSCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVTGTVVESP---RA 83 (450)
T ss_pred CEEEEEEEEE---EEEeC--CC-eEEEEE-EC---CCCcEEEEEEcCCChHHHHHHhcCCCCcEEEEEEEEEcCC---CC
Confidence 6799999996 35543 44 333333 22 2345555553221 111235699999999999999532 12
Q ss_pred eEEEEEEEeeEEeccCC
Q 019560 147 QANVQVMVHSLNLIEPT 163 (339)
Q Consensus 147 r~~~eViV~~I~FL~~k 163 (339)
...++|.|++|..|.+.
T Consensus 84 ~~~~el~~~~i~vl~~~ 100 (450)
T PRK03932 84 GQGYELQATKIEVIGED 100 (450)
T ss_pred CCCEEEEEEEEEEccCC
Confidence 34589999999999863
No 97
>PRK07218 replication factor A; Provisional
Probab=57.99 E-value=41 Score=34.95 Aligned_cols=73 Identities=15% Similarity=0.125 Sum_probs=47.4
Q ss_pred ccEEEEEEEeCCCCeEEE-CCCCcE-EEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCC
Q 019560 69 ANSVNLIGHVDAPVQFQT-SSDGKH-WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~-T~~G~~-Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~ 146 (339)
.+.|++.|+|..-.+-.+ ..+|.. +.+..|+ .+|--|++++|+.+|+ |..||.|.|.|--... |.
T Consensus 172 ~~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giig----DeTG~Ir~tlW~~~~~-----l~~Gd~v~I~na~v~e-~~--- 238 (423)
T PRK07218 172 DRGVNVEARVLELEHREIDGRDGETTILSGVLA----DETGRLPFTDWDPLPE-----IEIGASIRIEDAYVRE-FR--- 238 (423)
T ss_pred CCceEEEEEEEEecceeEEcCCCCeEEEEEEEE----CCCceEEEEEeccccc-----CCCCCEEEEeeeEEec-cC---
Confidence 567999999986422112 345543 3333333 4688999999999864 7999999999854432 42
Q ss_pred eEEEEEEEe
Q 019560 147 QANVQVMVH 155 (339)
Q Consensus 147 r~~~eViV~ 155 (339)
-.++|.+.
T Consensus 239 -G~~elnv~ 246 (423)
T PRK07218 239 -GVPSVNVS 246 (423)
T ss_pred -CeEEEEEC
Confidence 23455555
No 98
>PLN02221 asparaginyl-tRNA synthetase
Probab=57.67 E-value=94 Score=33.59 Aligned_cols=87 Identities=16% Similarity=0.244 Sum_probs=55.6
Q ss_pred cEEEEEEEeCCCCeEEECCCCc-EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeE
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~-~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~ 148 (339)
..|.|-|.|-. +|. .|+ .++ | |.++...-.-.++|++-.+... ..+.|..|+.|.|.|.+..+.-......
T Consensus 51 ~~V~I~GWV~~---iR~--~Gk~~i~-F-l~LRDgs~~g~iQvVv~~~~~~-~~~~L~~ES~V~V~G~V~~~~~~~~~~~ 122 (572)
T PLN02221 51 QKVRIGGWVKT---GRE--QGKGTFA-F-LEVNDGSCPANLQVMVDSSLYD-LSTLVATGTCVTVDGVLKVPPEGKGTKQ 122 (572)
T ss_pred CEEEEEEEEEe---hhh--CCCceEE-E-EEEeCCcccccEEEEEcCchhh-HHhcCCCceEEEEEEEEEeCCccCCCCc
Confidence 45889999874 332 343 233 3 3333322124799988655332 3346899999999999986543211223
Q ss_pred EEEEEEeeEEeccCCC
Q 019560 149 NVQVMVHSLNLIEPTS 164 (339)
Q Consensus 149 ~~eViV~~I~FL~~k~ 164 (339)
.+||.|++|..|+...
T Consensus 123 ~iEl~v~~i~vl~~a~ 138 (572)
T PLN02221 123 KIELSVEKVIDVGTVD 138 (572)
T ss_pred cEEEEEeEEEEEecCC
Confidence 7999999999998654
No 99
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=56.70 E-value=1.1e+02 Score=34.08 Aligned_cols=85 Identities=21% Similarity=0.367 Sum_probs=55.4
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HH--HHHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl--AE--~~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
..|.|.|+|.+ +|. .|+ ++.+.| .+ .+-.+.|++-.+. .+ ..+..|..|+.|.|+|.++.+.-..+
T Consensus 19 ~~V~l~GWV~~---~R~--~G~-l~FidL-RD---~~G~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~~ 88 (706)
T PRK12820 19 REVCLAGWVDA---FRD--HGE-LLFIHL-RD---RNGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEETE 88 (706)
T ss_pred CEEEEEEEEEE---EEc--CCC-cEEEEE-Ee---CCccEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCcccc
Confidence 46899999964 443 344 444333 22 2345888886442 22 23467999999999999988633221
Q ss_pred ----CeEEEEEEEeeEEeccCCC
Q 019560 146 ----GQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 146 ----~r~~~eViV~~I~FL~~k~ 164 (339)
..-.+||.|++|..|....
T Consensus 89 n~~~~tg~iEl~~~~i~iL~~a~ 111 (706)
T PRK12820 89 NPHIETGDIEVFVRELSILAASE 111 (706)
T ss_pred CCCCCCCcEEEEeeEEEEEecCC
Confidence 1235899999999997654
No 100
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=56.67 E-value=41 Score=36.51 Aligned_cols=64 Identities=13% Similarity=0.095 Sum_probs=43.9
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeee
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s 139 (339)
-..|+++|+|..-... .. +..+..+.+.- ++--+.|++|+--...+.+.|++|+.|+|.|++..
T Consensus 59 g~~vtv~g~V~~~~~~-~~--~~~~~~v~l~D----~tg~i~l~~F~~n~~~~~~~l~~G~~~~v~Gkv~~ 122 (681)
T PRK10917 59 GEKVTVEGEVLSAEVV-FG--KRRRLTVTVSD----GTGNLTLRFFNFNQPYLKKQLKVGKRVAVYGKVKR 122 (681)
T ss_pred CCEEEEEEEEEEEEEc-cC--CceEEEEEEEE----CCeEEEEEEEccCcHHHHhhCCCCCEEEEEEEEEe
Confidence 3578999998764322 22 55555555542 45568999994112256678999999999999986
No 101
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=56.30 E-value=1.2e+02 Score=32.82 Aligned_cols=84 Identities=17% Similarity=0.338 Sum_probs=54.1
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH--HHhhCCCCCeEEEEEEeeecCCC--cC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI--ASSHLKKDDHVHIAGQLTADPPA--IE 145 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~--~a~yLkKGD~V~VeGrL~s~sye--dk 145 (339)
..|.|.|+|.+ +|. .|+ ++.+.| .+ .+..+.|++-.. .+. ....|+.|+.|.|+|.+..+.-. +.
T Consensus 18 ~~V~l~GwV~~---~R~--~g~-l~Fi~L-rD---~~g~iQ~v~~~~-~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~ 86 (588)
T PRK00476 18 QTVTLCGWVHR---RRD--HGG-LIFIDL-RD---REGIVQVVFDPD-AEAFEVAESLRSEYVIQVTGTVRARPEGTVNP 86 (588)
T ss_pred CEEEEEEEEEE---EEe--CCC-eEEEEE-Ee---CCceEEEEEeCC-HHHHHHHhCCCCCCEEEEEEEEEecCCcccCc
Confidence 35999999964 444 343 444444 22 234588877542 222 24579999999999999875321 11
Q ss_pred --CeEEEEEEEeeEEeccCCC
Q 019560 146 --GQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 146 --~r~~~eViV~~I~FL~~k~ 164 (339)
..-.+||.|++|..|....
T Consensus 87 ~~~~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 87 NLPTGEIEVLASELEVLNKSK 107 (588)
T ss_pred cCCCCcEEEEEeEEEEEecCC
Confidence 2235899999999998765
No 102
>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=55.68 E-value=64 Score=31.27 Aligned_cols=94 Identities=12% Similarity=0.091 Sum_probs=56.5
Q ss_pred CCCccccccccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH---HHhhCCCCCeEEEE
Q 019560 58 KPSEIPFQVKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI---ASSHLKKDDHVHIA 134 (339)
Q Consensus 58 rP~~I~~~~~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~---~a~yLkKGD~V~Ve 134 (339)
...-+-|...-+|.|.|+|.|..-- .+-..+.. +..+.++.......+.|+++....-. -..-+ -|+.|.|.
T Consensus 55 ~~~~~f~~NhPI~~v~i~G~Vv~~~-~~~~~~~~---~~~l~iDD~Sg~~~i~~~~~~~~~~~~~l~~~~~-~G~~V~Vk 129 (256)
T PF10451_consen 55 QQNIYFYNNHPIRWVRIVGVVVGID-YKWIENED---RIILTIDDSSGANTIECKCSKSSYLSMGLPINDL-IGKVVEVK 129 (256)
T ss_dssp -TT-EEETTEEE-EEEEEEEEEEEE-EEE-BBTC---EEEEEEE-SSCS-EEEEEEEHHHHHCCCHHCTT--TT-EEEEE
T ss_pred cCCEEEECCcccEEEEEEEEEEEEE-EEeecccc---eEEEEEeCCCCceeEEEEEEcccccccCCCccCC-CCcEEEEE
Confidence 3455667777899999999998743 22222222 23455676444448999999763211 12234 89999999
Q ss_pred EEeeecCCCcCCeEEEEEEEeeEEeccCCC
Q 019560 135 GQLTADPPAIEGQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 135 GrL~s~syedk~r~~~eViV~~I~FL~~k~ 164 (339)
|.+. +.. -++.|+.|..+..-.
T Consensus 130 G~vs-r~~-------~ql~ve~i~~~~~l~ 151 (256)
T PF10451_consen 130 GTVS-RNE-------RQLDVERIELVRDLN 151 (256)
T ss_dssp EEEE-SSS-------EEEEEEEEEEETSCC
T ss_pred EEEc-cCc-------EEEEEEEEEccCChH
Confidence 9999 222 478888888875433
No 103
>PHA01740 putative single-stranded DNA-binding protein
Probab=54.56 E-value=6.4 Score=35.22 Aligned_cols=22 Identities=36% Similarity=0.735 Sum_probs=19.2
Q ss_pred CCCCCCCCCCccCCC--Ccceecc
Q 019560 298 DKKSEKGPDFKHKET--GKPLWLN 319 (339)
Q Consensus 298 ~K~~~~~pDfkhk~~--~~~lwl~ 319 (339)
.|+|+|+|||+-|-+ |.-+||.
T Consensus 17 qkk~dK~PDf~GkInI~G~~yw~S 40 (158)
T PHA01740 17 QPKNDKSPHFTGKVDIRGTVYWLA 40 (158)
T ss_pred ccCCCCCCCcCceEeeCCEEEEee
Confidence 478999999999964 8999987
No 104
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=52.73 E-value=76 Score=26.11 Aligned_cols=62 Identities=18% Similarity=0.227 Sum_probs=38.3
Q ss_pred ccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-----C--CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeee
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-----A--SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r-----~--~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s 139 (339)
-..|++.|+|...|+... +.. .+.+.+.+ . ....-+.+.+-.+... .++.||.|.++|+|+.
T Consensus 75 ~~~~~v~g~V~~~~~~~~---~~~--~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~l~~Gd~i~~~g~l~~ 143 (176)
T PF13567_consen 75 GKEVTVQGTVESVPQIDG---RGQ--RFTLRVERVLAGGNWIPVSGKILLYLPKDSQP----RLQPGDRIRVRGKLKP 143 (176)
T ss_pred CceEEEEEEEcccccccC---ceE--EEEEEEEEeeccccccccceeeEEEecccccc----ccCCCCEEEEEEEEec
Confidence 346779999988877641 121 45554331 1 1234444444433332 6899999999999997
No 105
>PRK06386 replication factor A; Reviewed
Probab=52.35 E-value=65 Score=32.84 Aligned_cols=76 Identities=18% Similarity=0.207 Sum_probs=49.9
Q ss_pred ccEEEEEEEeCCCCeEEECCCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCC
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~--~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~ 146 (339)
+..|++.|+|..-++-.+..+|. .+....|+ ++|--|++++|++ .|..||.|.|.+-- .+.|.
T Consensus 117 ~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg----DeTGrIr~TlW~~-------~l~eGd~v~i~na~-v~e~~--- 181 (358)
T PRK06386 117 TPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE----DDTARVRISSFGK-------PLEDNRFVRIENAR-VSQYN--- 181 (358)
T ss_pred CCceEEEEEEEEccCceEecCCCccEEEEEEEE----cCCCeEEEEEccc-------cccCCCEEEEeeeE-EEccC---
Confidence 56789999997655533333333 34444444 4788999999996 48999999999844 55553
Q ss_pred eEEEEEEEeeEEec
Q 019560 147 QANVQVMVHSLNLI 160 (339)
Q Consensus 147 r~~~eViV~~I~FL 160 (339)
-.++|.+.+..-|
T Consensus 182 -G~~el~v~~~t~I 194 (358)
T PRK06386 182 -GYIEISVGNKSVI 194 (358)
T ss_pred -CeEEEEeCCeEEE
Confidence 3445555544444
No 106
>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=51.04 E-value=89 Score=25.35 Aligned_cols=35 Identities=11% Similarity=0.135 Sum_probs=26.5
Q ss_pred CeeEEEEEeccHH--H------------------HHHhhCCCCCeEEEEEEeeec
Q 019560 106 SLWIPILFEGDLA--H------------------IASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 106 T~wI~VvawGklA--E------------------~~a~yLkKGD~V~VeGrL~s~ 140 (339)
|--|.|++|.... + .....+..|+.|.|.|+|++-
T Consensus 24 TG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~f 78 (92)
T cd04483 24 TGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTY 78 (92)
T ss_pred CceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEecc
Confidence 4458999998643 1 244569999999999999864
No 107
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=49.83 E-value=1.1e+02 Score=33.24 Aligned_cols=78 Identities=14% Similarity=0.186 Sum_probs=49.9
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-----H--HHHHHhhCCCCCeEEEEEEeeecCCCc
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-----L--AHIASSHLKKDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGk-----l--AE~~a~yLkKGD~V~VeGrL~s~syed 144 (339)
|.+-|||.+ +|. .|+.++.+.|- + ++.-|+|++-.+ . .+.+...|..||.|.|+|.+....
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 343 35445555552 2 233588877532 1 122345699999999999965321
Q ss_pred CCeEEEEEEEeeEEeccCC
Q 019560 145 EGQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 145 k~r~~~eViV~~I~FL~~k 163 (339)
..-++|.|++|..|.+.
T Consensus 203 --~gel~i~~~~i~llsk~ 219 (585)
T PTZ00417 203 --KGELSIFPKETIILSPC 219 (585)
T ss_pred --CceEEEEEEEEEEEecC
Confidence 22578999999998754
No 108
>PLN02502 lysyl-tRNA synthetase
Probab=49.40 E-value=1.6e+02 Score=31.66 Aligned_cols=78 Identities=18% Similarity=0.198 Sum_probs=49.5
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HH------HHHHhhCCCCCeEEEEEEeeecCCC
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LA------HIASSHLKKDDHVHIAGQLTADPPA 143 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGk-lA------E~~a~yLkKGD~V~VeGrL~s~sye 143 (339)
.|.+-|||.. +|. .|+ ++.+.|- + .+.-|.|++-.+ +. +.+...|..||.|.|+|.+....
T Consensus 110 ~V~v~GrV~~---~R~--~Gk-~~F~~Lr-D---~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t~-- 177 (553)
T PLN02502 110 SVSVAGRIMA---KRA--FGK-LAFYDLR-D---DGGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKTK-- 177 (553)
T ss_pred EEEEEEEEEE---Eec--CCC-eEEEEEe-c---CCccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEecC--
Confidence 4888899874 333 454 3433332 2 234578776533 21 12234599999999999987532
Q ss_pred cCCeEEEEEEEeeEEeccCC
Q 019560 144 IEGQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 144 dk~r~~~eViV~~I~FL~~k 163 (339)
...++|.|++|..|.+.
T Consensus 178 ---~gelel~~~~i~vLs~~ 194 (553)
T PLN02502 178 ---KGELSIFPTSFEVLTKC 194 (553)
T ss_pred ---CCCEEEEEeEEEEEecc
Confidence 12589999999998754
No 109
>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=48.46 E-value=85 Score=26.45 Aligned_cols=63 Identities=21% Similarity=0.309 Sum_probs=31.0
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH-HHHHHhhCCCCCeEEEEEEeeec
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl-AE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
.|.+-|.|. ++.. ..+..+ +.+... ......+.|.+=... .......|++||.|.|.|.....
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 356669886 4544 334433 333332 234456777766655 33345579999999999998765
No 110
>PRK07218 replication factor A; Provisional
Probab=47.59 E-value=56 Score=33.94 Aligned_cols=58 Identities=17% Similarity=0.129 Sum_probs=40.9
Q ss_pred ccEEEEEEEeCCCCeEEECCCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEE
Q 019560 69 ANSVNLIGHVDAPVQFQTSSDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (339)
Q Consensus 69 ~N~V~LIGrLgkDPElr~T~~G~--~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGr 136 (339)
+..|.|+|+|-.=.+-.+..+|. .+....|| .+|--|++++|++++ |..||.|.|.+-
T Consensus 68 ~~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~ig----DeTG~Ir~tlW~~~~------l~~Gdvv~I~na 127 (423)
T PRK07218 68 DKNVTVTGRVLTIGERSIRYQGDDHVIYEGILA----DETGTISYTAWKDFG------LSPGDTVTIGNA 127 (423)
T ss_pred CceeEEEEEEEEecceeEecCCCceEEEEEEEE----CCCCeEEEEEECCCC------CCCCCEEEEecc
Confidence 58899999987544311223443 35555555 468899999999774 999999999973
No 111
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=47.31 E-value=2.1e+02 Score=30.35 Aligned_cols=78 Identities=15% Similarity=0.158 Sum_probs=50.7
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEec-cHH-H---HHHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLA-H---IASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawG-klA-E---~~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
.|.+-|||.. +|. .|+ ++.+.| .+. +.-|.|++-. .+. + .....|..||.|.|+|.+....
T Consensus 67 ~v~v~Grv~~---~R~--~Gk-~~F~~l-rD~---~g~iQ~~~~~~~~~~~~~~~~~~~l~~Gd~V~v~G~~~~t~---- 132 (505)
T PRK12445 67 EVSVAGRMMT---RRI--MGK-ASFVTL-QDV---GGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQ---- 132 (505)
T ss_pred EEEEEEEEEE---Eec--CCC-cEEEEE-EeC---CccEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEecC----
Confidence 5999999963 444 355 343333 232 3347777653 222 1 1235699999999999997532
Q ss_pred CeEEEEEEEeeEEeccCC
Q 019560 146 GQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 146 ~r~~~eViV~~I~FL~~k 163 (339)
...++|.|+++.+|++.
T Consensus 133 -~gelel~~~~~~llsk~ 149 (505)
T PRK12445 133 -TGELSIHCTELRLLTKA 149 (505)
T ss_pred -CCcEEEEEeEEEEEecC
Confidence 12489999999999755
No 112
>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=46.39 E-value=57 Score=25.49 Aligned_cols=32 Identities=28% Similarity=0.296 Sum_probs=23.8
Q ss_pred CeeEEEEEe--ccHHHHHHhhCCCCCeEEEEEEee
Q 019560 106 SLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLT 138 (339)
Q Consensus 106 T~wI~Vvaw--GklAE~~a~yLkKGD~V~VeGrL~ 138 (339)
..-|-|... |.....+. .|+.||.|.|.|=+-
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 344455566 77888884 499999999999654
No 113
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=46.03 E-value=36 Score=37.14 Aligned_cols=81 Identities=15% Similarity=0.178 Sum_probs=60.8
Q ss_pred cccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCe
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r 147 (339)
.=-.|.+-|.|+ ++++|++-+ | |+|. .+|.++.|.+|..-...+..++..||.|.|.|+...+.=
T Consensus 212 ig~tV~I~GeV~---qikqT~GPT-V--Ftlt----Detg~i~aAAFe~aGvRAyP~IevGdiV~ViG~V~~r~g----- 276 (715)
T COG1107 212 IGKTVRIEGEVT---QIKQTSGPT-V--FTLT----DETGAIWAAAFEEAGVRAYPEIEVGDIVEVIGEVTRRDG----- 276 (715)
T ss_pred cCceEEEEEEEE---EEEEcCCCE-E--EEEe----cCCCceehhhhccCCcccCCCCCCCceEEEEEEEeecCC-----
Confidence 345677778886 577775433 3 5554 478999999999999999999999999999999987632
Q ss_pred EEEEEEEeeEEeccCCC
Q 019560 148 ANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 148 ~~~eViV~~I~FL~~k~ 164 (339)
.++|.+..|+.|....
T Consensus 277 -~lQiE~~~me~L~G~e 292 (715)
T COG1107 277 -RLQIEIEAMEKLTGDE 292 (715)
T ss_pred -cEEEeehhhHHhhCch
Confidence 3567777777765443
No 114
>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=44.84 E-value=30 Score=30.17 Aligned_cols=27 Identities=41% Similarity=0.430 Sum_probs=24.6
Q ss_pred eeEEEEEeccHHHHHHhhCCCCCeEEEE
Q 019560 107 LWIPILFEGDLAHIASSHLKKDDHVHIA 134 (339)
Q Consensus 107 ~wI~VvawGklAE~~a~yLkKGD~V~Ve 134 (339)
.-|+|++|+..|+.+.+ |+.||-|.+.
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 67999999999998887 9999999886
No 115
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=43.81 E-value=84 Score=33.58 Aligned_cols=77 Identities=12% Similarity=0.235 Sum_probs=49.5
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH------HHHHHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL------AHIASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl------AE~~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
|.+.|||.+ +|+ +|..++.+.|--+. .=+.|++=-+- -+...++|++||.|.|+|...-.
T Consensus 107 ~svaGRI~s---~R~--sGsKL~Fydl~~~g----~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgrt----- 172 (560)
T KOG1885|consen 107 VSVAGRIHS---KRE--SGSKLVFYDLHGDG----VKLQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGRT----- 172 (560)
T ss_pred eeeeeeEee---eec--cCCceEEEEEecCC----eEEEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCcC-----
Confidence 888999975 333 56667777665432 22555543332 24567789999999999976432
Q ss_pred CeEEEEEEEeeEEeccC
Q 019560 146 GQANVQVMVHSLNLIEP 162 (339)
Q Consensus 146 ~r~~~eViV~~I~FL~~ 162 (339)
+.--..|++.+|.+|..
T Consensus 173 ~~gELSi~~~~~~lLsp 189 (560)
T KOG1885|consen 173 KSGELSIIPNEIILLSP 189 (560)
T ss_pred CCceEEEeecchheecc
Confidence 12256788888877643
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=42.67 E-value=2.2e+02 Score=30.02 Aligned_cols=78 Identities=22% Similarity=0.247 Sum_probs=49.1
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHH----HHHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAH----IASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGk-lAE----~~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
.|.+.|||.. +| ..|+ ++.+.| .+. +--|.|++-.+ +.+ .+...|..||.|.|+|.+....
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-ATFITL-QDE---SGQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFKTK---- 120 (496)
T ss_pred EEEEEEEEEE---Ee--cCCC-eEEEEE-EcC---CccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEECC----
Confidence 4899999974 44 3454 333333 332 23477766432 222 2233489999999999996421
Q ss_pred CeEEEEEEEeeEEeccCC
Q 019560 146 GQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 146 ~r~~~eViV~~I~FL~~k 163 (339)
...++|.|++|..|.+.
T Consensus 121 -~gelel~~~~i~ilsk~ 137 (496)
T TIGR00499 121 -TGELSVHVTELQILTKA 137 (496)
T ss_pred -CCcEEEEeeEEEEEecC
Confidence 22489999999998755
No 117
>PLN02532 asparagine-tRNA synthetase
Probab=42.01 E-value=89 Score=34.24 Aligned_cols=56 Identities=16% Similarity=0.279 Sum_probs=41.6
Q ss_pred eeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEEEEEEeeEEeccCCC
Q 019560 107 LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 107 ~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~eViV~~I~FL~~k~ 164 (339)
..+.||+-+..+... +.|..|+.|.|+|.+..+.-. .....+||.|++|..|+...
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 348998877655332 679999999999999876211 13456899999999998643
No 118
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=41.85 E-value=1.5e+02 Score=31.15 Aligned_cols=79 Identities=22% Similarity=0.234 Sum_probs=51.0
Q ss_pred cEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHH---HHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 70 N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGk-lAE~---~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
..|.+.|+|.. +|. .|+ ++.+.| .+. +.-|.|++-.+ +.+. ....|..||.|.|.|.+....
T Consensus 55 ~~v~v~G~v~~---~R~--~g~-~~Fi~l-rD~---~g~iQ~v~~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~t~---- 120 (491)
T PRK00484 55 IEVSVAGRVML---KRV--MGK-ASFATL-QDG---SGRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKTK---- 120 (491)
T ss_pred cEEEEEEEEEE---Eec--CCc-eEEEEE-EcC---CccEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEcC----
Confidence 46899999963 343 353 444333 222 33578777543 1111 223499999999999999642
Q ss_pred CeEEEEEEEeeEEeccCC
Q 019560 146 GQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 146 ~r~~~eViV~~I~FL~~k 163 (339)
...++|.|+++..|++.
T Consensus 121 -~ge~el~~~~~~vls~~ 137 (491)
T PRK00484 121 -TGELSVKATELTLLTKS 137 (491)
T ss_pred -CCcEEEEEeEEEEEecc
Confidence 12589999999999765
No 119
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=41.45 E-value=1e+02 Score=36.09 Aligned_cols=67 Identities=13% Similarity=0.103 Sum_probs=53.2
Q ss_pred EEEEEEEeCCCCeEEECC-CCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCC
Q 019560 71 SVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPP 142 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~-~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sy 142 (339)
.+.++|-|.. ...+.|. +|..++..+|.-. +--+.|++|-...+.....+..|..++|.|+++.+..
T Consensus 978 ~~~~~~~i~~-vr~~~tk~~G~~~~f~tl~D~----~g~~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~~~ 1045 (1139)
T COG0587 978 RVVLAGGIVA-VRQRPTKAKGNKMAFLTLEDE----TGILEVVVFPSEYERYRRLLLEGRLLIVKGKVQRRED 1045 (1139)
T ss_pred eeEEEEEEEE-EEEeeccCCCCEEEEEEEecC----CCcEEEEEcHHHHHHHHHHhccCcEEEEEEEEEeccc
Confidence 4677788876 4444555 8998888877643 3379999999999999999999999999999998543
No 120
>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=41.11 E-value=1.2e+02 Score=32.81 Aligned_cols=68 Identities=21% Similarity=0.164 Sum_probs=43.3
Q ss_pred EEEEEEEeCCCCeEEE---CCCCcEEEEEEEEEcCCCCC-eeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCC
Q 019560 71 SVNLIGHVDAPVQFQT---SSDGKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~---T~~G~~Va~fsLAv~r~~~T-~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~sye 143 (339)
.|-+||-|..-=++.. ..+|+..-.-.|.+.. ++ .-|+|++||+.|+.+. ...|+.|.|.|-.. ..|.
T Consensus 312 ~VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~D--~sg~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V-~~f~ 383 (608)
T TIGR00617 312 LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLVD--DSGKSVRVTLWGDDATKFD--VSVQPVIAIKGVRV-SDFG 383 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEEe--CCCCEEEEEEEhhhhhhcC--CCCCCEEEEEeEEE-EecC
Confidence 6778888775333322 3456654443333322 33 3699999999998765 77899999988443 3453
No 121
>COG3689 Predicted membrane protein [Function unknown]
Probab=40.37 E-value=1.1e+02 Score=30.15 Aligned_cols=88 Identities=19% Similarity=0.171 Sum_probs=58.0
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEE
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~ 150 (339)
+|.++|.|-+|.-+. .+--++++|-|.+=-+ ++.=+-+.+-++ + ...++..+-|.|+|+|.+..+.+.++...
T Consensus 177 ~Ie~tGFVy~~~~~~--~N~lflaRFgiicC~A-Da~vygl~v~~~---~-~~~y~ndtWltvkGtl~~e~~~~~~~~ip 249 (271)
T COG3689 177 KIEFTGFVYNDESFP--KNYLFLARFGIICCAA-DAGVYGLLVELD---N-QTDYKNDTWLTVKGTLSSEYLSDFKKRIP 249 (271)
T ss_pred eEEEEEEEECCCCCC--cceeehhhhheeeeec-cceeEEEEEEcc---c-cccCCCCceEEEEeEEEeeecCchhhcCc
Confidence 788999998876542 1234677777754221 111122222221 1 23478999999999999998877667777
Q ss_pred EEEEeeEEeccCCCc
Q 019560 151 QVMVHSLNLIEPTSQ 165 (339)
Q Consensus 151 eViV~~I~FL~~k~~ 165 (339)
-|.|++++-+..+..
T Consensus 250 vi~v~sv~~I~kP~n 264 (271)
T COG3689 250 VIEVDSVEVIPKPAN 264 (271)
T ss_pred EEEeeeeeecCCCCC
Confidence 888999998866554
No 122
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=38.02 E-value=2.2e+02 Score=29.80 Aligned_cols=67 Identities=12% Similarity=0.095 Sum_probs=48.2
Q ss_pred ccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH--HHhhCCCCCeEEEEEEeeecC
Q 019560 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI--ASSHLKKDDHVHIAGQLTADP 141 (339)
Q Consensus 67 ~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~--~a~yLkKGD~V~VeGrL~s~s 141 (339)
+.+-++.+.|++..+|.... +|..+..+ . +..--|.|+||-.+.+. ++..|.+||.|.+.|.++...
T Consensus 264 ~~~~~~~v~g~v~~~p~~ie--Gghv~v~i----~--d~~G~I~~~A~eptk~fr~~a~~L~pGD~i~~~G~~~~~~ 332 (421)
T COG1571 264 EDYSKYRVVGRVEAEPRAIE--GGHVVVEI----T--DGEGEIGAVAFEPTKEFRELARKLIPGDEITVYGSVKPGT 332 (421)
T ss_pred hhccceEEEEEEecccEEee--CCEEEEEe----c--CCCceEEEEEecccccchHHHHhcCCCCEEEEecCccccc
Confidence 46778899999999887643 45544222 2 12337999999877653 557899999999999988664
No 123
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=37.24 E-value=1.4e+02 Score=31.87 Aligned_cols=82 Identities=15% Similarity=0.183 Sum_probs=48.3
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEE-eccHHHHHHhhCCCCCeEEEEEEeeecCCCcCCeEEE
Q 019560 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILF-EGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (339)
Q Consensus 72 V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~Vva-wGklAE~~a~yLkKGD~V~VeGrL~s~syedk~r~~~ 150 (339)
|.+.|||-. +|. .| .++.+.|--..+.-..||+-.. =....+...+++..||.|.|.|.+-... .--.
T Consensus 64 v~vAGRi~~---~R~--~G-K~~F~~i~d~~gkiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~T~-----~Gel 132 (502)
T COG1190 64 VSVAGRIMT---IRN--MG-KASFADLQDGSGKIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFKTK-----TGEL 132 (502)
T ss_pred eEEecceee---ecc--cC-ceeEEEEecCCceEEEEEeccccchhhHHHHHhccccCCEEeeeeeeeecC-----CCce
Confidence 899999864 333 35 3444444432222234444332 2224444566778899999999987543 1235
Q ss_pred EEEEeeEEeccCCC
Q 019560 151 QVMVHSLNLIEPTS 164 (339)
Q Consensus 151 eViV~~I~FL~~k~ 164 (339)
.|.|+++.+|.+.-
T Consensus 133 Sv~v~~~~lLsKsL 146 (502)
T COG1190 133 SVSVEELRLLSKSL 146 (502)
T ss_pred EEEEEEEeeecccC
Confidence 77888888775443
No 124
>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=36.47 E-value=1.8e+02 Score=26.20 Aligned_cols=85 Identities=14% Similarity=0.143 Sum_probs=43.7
Q ss_pred cccEEEEEEEeCCCCeEEECCCCc-EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhh-CCCCCeEEEEEEeeecCCCcC
Q 019560 68 VANSVNLIGHVDAPVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSH-LKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 68 l~N~V~LIGrLgkDPElr~T~~G~-~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~y-LkKGD~V~VeGrL~s~syedk 145 (339)
+++.|-++|-|..= ....|- .+++ |+ ++...++-|.+|+++.+.+.+- ++.|..|.++- |+-+ .+
T Consensus 17 p~~EvD~VG~VvsV----~~~~~f~~~vY--Ls---D~~~Nll~Ikfw~~l~~~~~eDilk~~~liA~SN-LqwR---~~ 83 (143)
T PF09104_consen 17 PYGEVDTVGFVVSV----SKKQGFQPLVY--LS---DECHNLLAIKFWTGLNQYGYEDILKPGSLIAASN-LQWR---PE 83 (143)
T ss_dssp CCCEEEEEEEEEEE----E--TTS--EEE--EE----TTS-EEEEEESS-------SS---TT-EEEEEE-EEE----S-
T ss_pred CccccceEEEEEEE----EecCCCceeEE--ee---cCCccEEEEEeccCccccchhhhcCcceEEEEee-eEee---cc
Confidence 78999999998752 212232 3344 33 3567899999999999887775 79999999983 3333 22
Q ss_pred -CeEEEEEEEeeEEeccCCCc
Q 019560 146 -GQANVQVMVHSLNLIEPTSQ 165 (339)
Q Consensus 146 -~r~~~eViV~~I~FL~~k~~ 165 (339)
.-....+.|.++..+...+.
T Consensus 84 s~s~iP~~~A~d~S~FS~nPK 104 (143)
T PF09104_consen 84 STSGIPTLFATDLSVFSANPK 104 (143)
T ss_dssp TTSSS-EEEEECCEEEESS-S
T ss_pred cccCCCeeEeccceeeecCcc
Confidence 22235667777776655443
No 125
>PHA01740 putative single-stranded DNA-binding protein
Probab=35.64 E-value=15 Score=33.00 Aligned_cols=20 Identities=25% Similarity=0.493 Sum_probs=16.0
Q ss_pred CCCCCcccccCC--CCccccCC
Q 019560 223 KPRYPDFKRKDG--TLPLWLNS 242 (339)
Q Consensus 223 ~pk~PDFk~k~~--~~~lwl~~ 242 (339)
+||||||..+.+ |.-+||..
T Consensus 20 ~dK~PDf~GkInI~G~~yw~SG 41 (158)
T PHA01740 20 NDKSPHFTGKVDIRGTVYWLAG 41 (158)
T ss_pred CCCCCCcCceEeeCCEEEEeec
Confidence 499999999855 77777763
No 126
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=33.88 E-value=52 Score=34.23 Aligned_cols=44 Identities=18% Similarity=0.230 Sum_probs=33.6
Q ss_pred EEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeee
Q 019560 96 TVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (339)
Q Consensus 96 fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s 139 (339)
|+||.......-.+.|.+-|+.-..+.+.|+.|+.+.|+|---.
T Consensus 265 FTIa~s~~~sel~FsIK~LGD~Tk~l~dnLk~G~k~~vdGPYG~ 308 (438)
T COG4097 265 FTIACSHEGSELRFSIKALGDFTKTLKDNLKVGTKLEVDGPYGK 308 (438)
T ss_pred eeeeeCCCCceEEEEehhhhhhhHHHHHhccCCceEEEecCcce
Confidence 44554332224788899999999999999999999999985433
No 127
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=33.06 E-value=78 Score=28.19 Aligned_cols=82 Identities=11% Similarity=0.172 Sum_probs=54.9
Q ss_pred cccc-EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC--------CCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEe
Q 019560 67 KVAN-SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (339)
Q Consensus 67 ~l~N-~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r--------~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL 137 (339)
.+-+ .|.|-|.+.- .+ .++..+..|.|.-.- ....+.|-|.+=+... .-.--+.|.|+|+|
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 4433 5667788872 23 344557777776432 2345888888765533 11234799999999
Q ss_pred eecCCCcC-CeEEEEEEEeeEE
Q 019560 138 TADPPAIE-GQANVQVMVHSLN 158 (339)
Q Consensus 138 ~s~syedk-~r~~~eViV~~I~ 158 (339)
+....+.+ ....|.+.+..|.
T Consensus 122 ~~~~~~~~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 122 KVERSSSDLGTSGYSMDADSVE 143 (146)
T ss_pred EeccccchheeEEEEEEeeEEE
Confidence 99988777 7788999988875
No 128
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=31.52 E-value=1.5e+02 Score=35.18 Aligned_cols=86 Identities=13% Similarity=0.131 Sum_probs=62.3
Q ss_pred ccccEEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HHHHHhhCCCCCeEEEEEEeeecCCCc
Q 019560 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHIASSHLKKDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 67 ~l~N~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl--AE~~a~yLkKGD~V~VeGrL~s~syed 144 (339)
..+|.|.+.|-|=. .|.+.+.+|+.+++|.|.- .++-+.|..|-+. -+...+.+++|+.|-|.|.++.+....
T Consensus 237 ~~~~~v~v~G~IF~-~e~~~~ksGr~l~~i~vTD----~t~Sl~~k~f~~~~ed~~~~~~ik~g~wvk~~g~v~~d~f~~ 311 (1444)
T COG2176 237 EEETRVKVEGYIFK-IEIKELKSGRTLLNIKVTD----YTSSLILKKFLRDEEDEKKFDGIKKGMWVKARGNVQLDTFTR 311 (1444)
T ss_pred ccccceEEEEEEEE-EeeeecccCcEEEEEEEec----CchheeehhhccccccHHHHhhcccCcEEEEEEEEEeccccc
Confidence 45788999999985 8999999999888877652 3445667777663 233456799999999999999997754
Q ss_pred CCeEEEEEEEeeEEecc
Q 019560 145 EGQANVQVMVHSLNLIE 161 (339)
Q Consensus 145 k~r~~~eViV~~I~FL~ 161 (339)
+ ..+++++|+-+.
T Consensus 312 ~----l~m~i~~I~ei~ 324 (1444)
T COG2176 312 D----LTMIINDINEIE 324 (1444)
T ss_pred c----eEEEhhhhhhhh
Confidence 3 344444444444
No 129
>KOG3056 consensus Protein required for S-phase initiation or completion [Cell cycle control, cell division, chromosome partitioning]
Probab=31.35 E-value=1.4e+02 Score=32.40 Aligned_cols=59 Identities=14% Similarity=0.165 Sum_probs=45.7
Q ss_pred EEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEE
Q 019560 73 NLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA 134 (339)
Q Consensus 73 ~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~Ve 134 (339)
..+|=|..--..+.|.+|++++.+.|.--+. + .=|.|-+||+ |..-.-.++-|+.|.|-
T Consensus 189 vt~GvI~~K~~~K~t~~G~~y~iwkL~dLk~-~-q~vslfLFG~-a~k~~wk~k~GtVialL 247 (578)
T KOG3056|consen 189 VTMGVIVEKSDPKFTSNGNPYSIWKLTDLKD-H-QTVSLFLFGK-AHKRYWKIKLGTVIALL 247 (578)
T ss_pred EEEEEEeecCCcccccCCCceEEEEeeecCc-c-ceeEEEEecH-HHHHHhhhccCcEEEEe
Confidence 4568888888888899999998888876543 2 5688899999 66555668999988763
No 130
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=29.17 E-value=2e+02 Score=33.17 Aligned_cols=64 Identities=17% Similarity=0.158 Sum_probs=48.8
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecC
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~s 141 (339)
.|.++|-|.. ...+. ..|..++.++|.- .+.-+.|++|.+.-+.+.. |.+|+.++|+|+.+.+.
T Consensus 899 ~~~v~g~i~~-~~~~~-K~g~~maf~~~eD----~~~~~e~~~F~~~~~~~~~-l~~~~~~~~~~~~~~~~ 962 (973)
T PRK07135 899 EYRLAIEVKN-VKRLR-KANKEYKKVILSD----DSVEITIFVNDNDYLLFET-LKKGDIYEFLISKSKNN 962 (973)
T ss_pred eEEEEEEEEE-EEEEe-eCCCeEEEEEEEE----CCCcEEEEEcHHHHHHHHH-hhcCCEEEEEEEEcCCC
Confidence 4678887775 34434 6788888877764 3566999999998777774 99999999999988753
No 131
>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=29.14 E-value=29 Score=29.95 Aligned_cols=24 Identities=33% Similarity=0.415 Sum_probs=21.3
Q ss_pred cHHHHHHhhCCCCCeEEEEEEeee
Q 019560 116 DLAHIASSHLKKDDHVHIAGQLTA 139 (339)
Q Consensus 116 klAE~~a~yLkKGD~V~VeGrL~s 139 (339)
++|+.+++.|++|+.|+.+|.|-.
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGa 26 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGA 26 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTS
T ss_pred HHHHHHHHhCCCCCEEEEECCCCC
Confidence 589999999999999999999986
No 132
>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=28.31 E-value=1.4e+02 Score=25.10 Aligned_cols=42 Identities=24% Similarity=0.226 Sum_probs=26.9
Q ss_pred EEEEEEEcCCCCCeeEEEEEecc--HHHHHHhhCCCCCeEEEEE
Q 019560 94 AGTVIVQHAASHSLWIPILFEGD--LAHIASSHLKKDDHVHIAG 135 (339)
Q Consensus 94 a~fsLAv~r~~~T~wI~VvawGk--lAE~~a~yLkKGD~V~VeG 135 (339)
.++.-+++....+.-|.+++-|. .|-.-+..++.||.|.|.|
T Consensus 69 ~YTvR~~d~~~~~l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~g 112 (117)
T PF08021_consen 69 TYTVRRFDPETGELDIDFVLHGDEGPASRWARSARPGDRVGVTG 112 (117)
T ss_dssp EEE--EEETT--EEEEEEE--SS--HHHHHHHH--TT-EEEEEE
T ss_pred CcCEeeEcCCCCEEEEEEEECCCCCchHHHHhhCCCCCEEEEeC
Confidence 44444677666788899999996 7777888999999999998
No 133
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=27.04 E-value=4.6e+02 Score=30.65 Aligned_cols=78 Identities=15% Similarity=0.181 Sum_probs=50.4
Q ss_pred EEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH-H----HHHHhhCCCCCeEEEEEEeeecCCCcC
Q 019560 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-A----HIASSHLKKDDHVHIAGQLTADPPAIE 145 (339)
Q Consensus 71 ~V~LIGrLgkDPElr~T~~G~~Va~fsLAv~r~~~T~wI~VvawGkl-A----E~~a~yLkKGD~V~VeGrL~s~syedk 145 (339)
.|.+-|+|-. +|. .|+ ++.+.| .+ .+.-|.|++-.+. . +.....+..||.|.|+|.+....
T Consensus 653 ~V~v~Grv~~---~R~--~G~-~~F~~l-rD---~~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t~---- 718 (1094)
T PRK02983 653 EVSVSGRVLR---IRD--YGG-VLFADL-RD---WSGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTSR---- 718 (1094)
T ss_pred EEEEEEEEEE---Eee--CCC-eEEEEE-Ee---CCeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEcC----
Confidence 5889999953 443 343 444444 22 3456888775442 1 12234589999999999997642
Q ss_pred CeEEEEEEEeeEEeccCC
Q 019560 146 GQANVQVMVHSLNLIEPT 163 (339)
Q Consensus 146 ~r~~~eViV~~I~FL~~k 163 (339)
.-.++|.|+++.++.+.
T Consensus 719 -~ge~ei~~~~i~ll~k~ 735 (1094)
T PRK02983 719 -NGTLSLLVTSWRLAGKC 735 (1094)
T ss_pred -CCCEEEEEeEEEEEecc
Confidence 12489999999998754
No 134
>PRK10646 ADP-binding protein; Provisional
Probab=26.63 E-value=48 Score=29.75 Aligned_cols=26 Identities=19% Similarity=0.157 Sum_probs=23.2
Q ss_pred ccHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 115 GDLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 115 GklAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
.++|+.+++.|+.|+.|++.|.|-..
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaG 40 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAG 40 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCC
Confidence 36899999999999999999999874
No 135
>COG1018 Hmp Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]
Probab=26.40 E-value=2e+02 Score=27.68 Aligned_cols=47 Identities=15% Similarity=0.100 Sum_probs=31.6
Q ss_pred EEEEEcCCC-CCeeEEEEEe--ccHHHHHHhhCCCCCeEEEEEEeeecCC
Q 019560 96 TVIVQHAAS-HSLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTADPP 142 (339)
Q Consensus 96 fsLAv~r~~-~T~wI~Vvaw--GklAE~~a~yLkKGD~V~VeGrL~s~sy 142 (339)
.+|+..... ...+|.|..- |.....+.++|+.||.|.|++=--.-.+
T Consensus 56 YSl~s~p~~~~~~~isVk~~~~G~~S~~Lh~~lk~Gd~l~v~~P~G~F~l 105 (266)
T COG1018 56 YSLSSAPDEDSLYRISVKREDGGGGSNWLHDHLKVGDTLEVSAPAGDFVL 105 (266)
T ss_pred EEeccCCCCCceEEEEEEEeCCCcccHHHHhcCCCCCEEEEecCCCCccC
Confidence 345443333 3567777666 6788889999999999999764443333
No 136
>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=26.32 E-value=1.8e+02 Score=26.51 Aligned_cols=45 Identities=11% Similarity=0.167 Sum_probs=30.1
Q ss_pred EEEEEEcCC--CCCeeEEEEEe--ccHHHHHHhhCCCCCeEEEEEEeee
Q 019560 95 GTVIVQHAA--SHSLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (339)
Q Consensus 95 ~fsLAv~r~--~~T~wI~Vvaw--GklAE~~a~yLkKGD~V~VeGrL~s 139 (339)
.++|+.-.. ....-|.|..- |.....+.+.++.||.|.|.|-+..
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 356654332 23344444445 7778888888999999999986654
No 137
>smart00350 MCM minichromosome maintenance proteins.
Probab=26.04 E-value=1.7e+02 Score=30.70 Aligned_cols=53 Identities=17% Similarity=0.325 Sum_probs=39.0
Q ss_pred CeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcC-----Ce--EEEEEEEeeEEeccC
Q 019560 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE-----GQ--ANVQVMVHSLNLIEP 162 (339)
Q Consensus 106 T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk-----~r--~~~eViV~~I~FL~~ 162 (339)
+-.+.|++-|+|.+ .++.||.|.|.|-+....|... .. ..+-|.|..|..++.
T Consensus 103 Prsi~v~l~~dLvd----~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~i~~~~~ 162 (509)
T smart00350 103 PRSVDVILDGDLVD----KAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANHVRKLDY 162 (509)
T ss_pred CcEEEEEEcccccC----cccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeEEEEccc
Confidence 47899999999986 5789999999999998765322 22 235566667766643
No 138
>COG0677 WecC UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]
Probab=24.65 E-value=50 Score=34.50 Aligned_cols=57 Identities=16% Similarity=0.140 Sum_probs=35.4
Q ss_pred EEECCCCc---EEEEEEEEEcCC-CCCeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCc
Q 019560 84 FQTSSDGK---HWAGTVIVQHAA-SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (339)
Q Consensus 84 lr~T~~G~---~Va~fsLAv~r~-~~T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syed 144 (339)
+|.|.++. ..=.|.|+|... .+..=-++.+-.+.|+.++.+|+|||+|.+| +.+|.+
T Consensus 73 lraTtd~~~l~~~dv~iI~VPTPl~~~~~pDls~v~~aa~sIa~~L~kG~LVIlE----ST~~PG 133 (436)
T COG0677 73 LRATTDPEELKECDVFIICVPTPLKKYREPDLSYVESAARSIAPVLKKGDLVILE----STTPPG 133 (436)
T ss_pred ceEecChhhcccCCEEEEEecCCcCCCCCCChHHHHHHHHHHHHhcCCCCEEEEe----cCCCCC
Confidence 44554443 222366777541 1111123455567899999999999999998 666654
No 139
>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=24.58 E-value=1.9e+02 Score=26.07 Aligned_cols=25 Identities=16% Similarity=0.323 Sum_probs=20.8
Q ss_pred ccHHHHHHhhCCCCCeEEEEEEeee
Q 019560 115 GDLAHIASSHLKKDDHVHIAGQLTA 139 (339)
Q Consensus 115 GklAE~~a~yLkKGD~V~VeGrL~s 139 (339)
|.....+.++++.||.|.|.|-.-.
T Consensus 70 G~~s~~l~~~~~~Gd~v~i~gP~G~ 94 (231)
T cd06191 70 GRVSNYLREHIQPGMTVEVMGPQGH 94 (231)
T ss_pred CccchHHHhcCCCCCEEEEeCCccc
Confidence 7777778778999999999997654
No 140
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=24.32 E-value=59 Score=29.27 Aligned_cols=25 Identities=32% Similarity=0.393 Sum_probs=22.7
Q ss_pred cHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 116 klAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
++|+.+++.|++||.|+.+|-|-..
T Consensus 13 ~lg~~l~~~l~~g~Vv~L~GdLGAG 37 (149)
T COG0802 13 ALGERLAEALKAGDVVLLSGDLGAG 37 (149)
T ss_pred HHHHHHHhhCCCCCEEEEEcCCcCC
Confidence 5789999999999999999999874
No 141
>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=23.37 E-value=58 Score=28.97 Aligned_cols=22 Identities=23% Similarity=0.410 Sum_probs=19.6
Q ss_pred EeccHHHHHHhhCCCCCeEEEE
Q 019560 113 FEGDLAHIASSHLKKDDHVHIA 134 (339)
Q Consensus 113 awGklAE~~a~yLkKGD~V~Ve 134 (339)
..|+||..++..|.-||.|.|.
T Consensus 9 vlGRLAs~IA~~L~~Gd~VvVi 30 (142)
T TIGR01077 9 ILGRLASVVAKQLLNGEKVVVV 30 (142)
T ss_pred chHHHHHHHHHHHhcCCEEEEE
Confidence 4689999999999999998886
No 142
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=22.52 E-value=61 Score=28.98 Aligned_cols=22 Identities=27% Similarity=0.360 Sum_probs=19.5
Q ss_pred EeccHHHHHHhhCCCCCeEEEE
Q 019560 113 FEGDLAHIASSHLKKDDHVHIA 134 (339)
Q Consensus 113 awGklAE~~a~yLkKGD~V~Ve 134 (339)
..|+||..++..|.-||.|.|.
T Consensus 13 vlGRLAs~IA~~L~~Gd~VVVi 34 (146)
T PRK06394 13 ILGRLASYVAKRLLEGEEVVIV 34 (146)
T ss_pred chHHHHHHHHHHHhCCCEEEEE
Confidence 4689999999999999988876
No 143
>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]
Probab=22.48 E-value=1.4e+02 Score=33.18 Aligned_cols=55 Identities=18% Similarity=0.385 Sum_probs=42.9
Q ss_pred CeeEEEEEeccHHHHHHhhCCCCCeEEEEEEeeecCCCcC----CeEEEEEEEeeEEeccCCC
Q 019560 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE----GQANVQVMVHSLNLIEPTS 164 (339)
Q Consensus 106 T~wI~VvawGklAE~~a~yLkKGD~V~VeGrL~s~syedk----~r~~~eViV~~I~FL~~k~ 164 (339)
+--|.|++=.+|++ .+|.||+|-|.|..++---... +.-++-|++++|..++...
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 46788999888875 5899999999999887544322 4456789999999997765
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=22.47 E-value=69 Score=27.97 Aligned_cols=25 Identities=20% Similarity=0.224 Sum_probs=22.7
Q ss_pred cHHHHHHhhCCCCCeEEEEEEeeec
Q 019560 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (339)
Q Consensus 116 klAE~~a~yLkKGD~V~VeGrL~s~ 140 (339)
++|+.+++.|+.|+.|++.|.|-..
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaG 34 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAG 34 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCC
Confidence 5899999999999999999999874
Done!