Query 017902
Match_columns 364
No_of_seqs 165 out of 1111
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 04:25:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017902.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017902hhsearch_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 99.9 4.4E-26 9.5E-31 191.9 14.3 98 68-165 1-108 (112)
2 PRK07275 single-stranded DNA-b 99.9 6.4E-26 1.4E-30 203.7 13.8 98 68-165 1-108 (162)
3 PRK07459 single-stranded DNA-b 99.9 2.4E-25 5.3E-30 190.8 14.7 99 68-166 2-107 (121)
4 PRK08486 single-stranded DNA-b 99.9 6.2E-25 1.3E-29 200.6 14.6 99 68-166 1-111 (182)
5 PRK06751 single-stranded DNA-b 99.9 1.4E-24 3E-29 197.0 14.3 99 68-166 1-109 (173)
6 PRK08182 single-stranded DNA-b 99.9 7.5E-24 1.6E-28 187.5 15.3 99 68-166 1-116 (148)
7 PRK07274 single-stranded DNA-b 99.9 5.6E-24 1.2E-28 184.2 14.2 99 68-166 1-108 (131)
8 PRK08763 single-stranded DNA-b 99.9 5.9E-24 1.3E-28 191.4 14.5 100 67-166 3-114 (164)
9 PRK13732 single-stranded DNA-b 99.9 1.1E-23 2.3E-28 191.5 14.3 100 67-166 4-118 (175)
10 PRK06293 single-stranded DNA-b 99.9 1.8E-23 3.9E-28 187.9 14.9 98 69-166 1-105 (161)
11 PRK06642 single-stranded DNA-b 99.9 2.1E-23 4.5E-28 185.4 14.2 99 68-166 4-120 (152)
12 PRK09010 single-stranded DNA-b 99.9 4.6E-23 1E-27 187.7 14.9 100 67-166 4-119 (177)
13 PRK06958 single-stranded DNA-b 99.9 5.9E-23 1.3E-27 187.7 14.3 98 69-166 4-114 (182)
14 PRK06863 single-stranded DNA-b 99.9 1.1E-22 2.3E-27 184.0 14.9 98 69-166 4-114 (168)
15 PRK05733 single-stranded DNA-b 99.9 1.7E-22 3.6E-27 183.3 14.6 100 67-166 3-117 (172)
16 TIGR00621 ssb single stranded 99.9 2.2E-22 4.7E-27 180.3 14.3 99 67-165 2-112 (164)
17 PF00436 SSB: Single-strand bi 99.9 3.7E-22 8.1E-27 161.7 10.1 92 69-160 1-104 (104)
18 PRK06341 single-stranded DNA-b 99.9 1.1E-21 2.4E-26 177.0 14.2 97 68-164 4-118 (166)
19 PRK05813 single-stranded DNA-b 99.9 1.6E-21 3.6E-26 182.7 14.3 98 67-165 107-212 (219)
20 PRK02801 primosomal replicatio 99.9 2.6E-21 5.5E-26 161.2 13.4 92 68-161 1-101 (101)
21 COG0629 Ssb Single-stranded DN 99.9 2E-21 4.4E-26 173.9 11.7 98 68-165 2-116 (167)
22 PRK07772 single-stranded DNA-b 99.9 7.1E-21 1.5E-25 174.6 13.4 91 68-158 3-107 (186)
23 PRK05853 hypothetical protein; 99.8 8.3E-19 1.8E-23 157.8 11.4 85 74-159 1-98 (161)
24 cd04496 SSB_OBF SSB_OBF: A sub 99.8 3.9E-18 8.5E-23 136.7 13.0 89 72-160 1-100 (100)
25 PRK05813 single-stranded DNA-b 99.7 7.6E-17 1.7E-21 151.4 13.6 95 69-165 8-105 (219)
26 KOG1653 Single-stranded DNA-bi 99.5 3.3E-14 7.1E-19 128.0 7.7 98 67-164 53-168 (175)
27 PRK00036 primosomal replicatio 98.5 5.6E-07 1.2E-11 76.7 9.9 90 69-162 1-98 (107)
28 COG2965 PriB Primosomal replic 98.3 1.2E-05 2.5E-10 67.9 11.7 94 67-161 2-103 (103)
29 PF01336 tRNA_anti-codon: OB-f 97.3 0.0022 4.8E-08 48.3 8.5 75 72-160 1-75 (75)
30 cd04489 ExoVII_LU_OBF ExoVII_L 97.2 0.007 1.5E-07 46.7 10.5 74 72-158 2-75 (78)
31 cd04484 polC_OBF polC_OBF: A s 96.2 0.038 8.2E-07 44.5 8.6 69 71-145 1-71 (82)
32 cd04487 RecJ_OBF2_like RecJ_OB 96.2 0.039 8.5E-07 43.7 8.5 72 72-159 1-72 (73)
33 cd04474 RPA1_DBD_A RPA1_DBD_A: 95.9 0.042 9.1E-07 45.8 7.8 68 69-139 9-79 (104)
34 cd03524 RPA2_OBF_family RPA2_O 95.8 0.15 3.2E-06 36.9 9.7 47 90-140 15-62 (75)
35 cd04492 YhaM_OBF_like YhaM_OBF 95.8 0.11 2.3E-06 39.8 9.3 72 80-162 7-78 (83)
36 cd04485 DnaE_OBF DnaE_OBF: A s 95.4 0.15 3.2E-06 38.4 8.6 74 74-158 2-75 (84)
37 PF13742 tRNA_anti_2: OB-fold 93.7 0.65 1.4E-05 38.6 9.3 77 69-158 21-98 (99)
38 PRK07211 replication factor A; 93.6 0.41 8.8E-06 50.7 9.7 80 69-158 63-147 (485)
39 cd04490 PolII_SU_OBF PolII_SU_ 92.9 1.6 3.5E-05 34.9 10.0 72 72-160 2-75 (79)
40 cd04100 Asp_Lys_Asn_RS_N Asp_L 92.8 2.5 5.4E-05 33.4 10.9 81 71-161 1-84 (85)
41 TIGR00237 xseA exodeoxyribonuc 92.0 0.72 1.6E-05 47.7 8.7 79 69-160 17-95 (432)
42 cd04320 AspRS_cyto_N AspRS_cyt 91.9 3.8 8.3E-05 33.5 11.4 84 71-163 1-92 (102)
43 PRK00286 xseA exodeoxyribonucl 91.7 0.89 1.9E-05 46.6 9.1 80 69-161 23-102 (438)
44 cd04482 RPA2_OBF_like RPA2_OBF 91.6 0.54 1.2E-05 38.6 5.9 72 73-161 2-75 (91)
45 PRK07373 DNA polymerase III su 91.5 1.6 3.6E-05 45.6 10.8 79 71-160 282-360 (449)
46 cd04316 ND_PkAspRS_like_N ND_P 90.6 5.8 0.00013 32.9 11.4 81 71-164 14-98 (108)
47 cd04317 EcAspRS_like_N EcAspRS 90.5 4.7 0.0001 34.6 11.1 83 71-163 16-104 (135)
48 cd04323 AsnRS_cyto_like_N AsnR 89.8 5 0.00011 31.8 9.9 81 71-161 1-83 (84)
49 PRK15491 replication factor A; 89.7 1.7 3.7E-05 44.4 8.9 64 69-136 67-135 (374)
50 PRK05673 dnaE DNA polymerase I 89.5 2 4.2E-05 49.9 10.1 81 70-161 978-1058(1135)
51 cd04321 ScAspRS_mt_like_N ScAs 89.4 9.1 0.0002 30.6 11.2 82 72-161 2-85 (86)
52 COG3390 Uncharacterized protei 89.4 1.4 3.1E-05 41.5 7.3 89 68-162 44-132 (196)
53 PRK06461 single-stranded DNA-b 89.2 2 4.4E-05 37.3 7.8 63 69-139 14-80 (129)
54 cd04491 SoSSB_OBF SoSSB_OBF: A 88.9 2.2 4.7E-05 33.6 7.1 43 91-140 22-65 (82)
55 cd04322 LysRS_N LysRS_N: N-ter 88.7 9.2 0.0002 31.7 11.1 77 72-163 2-83 (108)
56 PF11506 DUF3217: Protein of u 88.6 8.4 0.00018 32.4 10.5 70 68-141 1-74 (104)
57 cd04319 PhAsnRS_like_N PhAsnRS 88.1 12 0.00026 30.8 11.3 80 72-164 2-84 (103)
58 PRK15491 replication factor A; 88.0 2.2 4.8E-05 43.6 8.3 71 70-145 177-252 (374)
59 PF11325 DUF3127: Domain of un 87.9 4.5 9.7E-05 33.5 8.5 65 86-155 16-81 (84)
60 cd04488 RecG_wedge_OBF RecG_we 87.1 3.1 6.8E-05 30.6 6.7 60 74-140 2-61 (75)
61 PRK07211 replication factor A; 86.5 2 4.3E-05 45.6 7.2 66 69-139 171-241 (485)
62 PRK13480 3'-5' exoribonuclease 86.2 4.7 0.0001 40.5 9.3 73 78-161 19-91 (314)
63 PRK06920 dnaE DNA polymerase I 85.2 5.4 0.00012 46.4 10.3 80 71-161 945-1024(1107)
64 PRK07374 dnaE DNA polymerase I 84.7 6.3 0.00014 46.0 10.6 80 70-160 1001-1080(1170)
65 COG1570 XseA Exonuclease VII, 84.7 2.9 6.4E-05 43.9 7.3 79 69-160 23-101 (440)
66 PRK06826 dnaE DNA polymerase I 84.7 6.1 0.00013 46.1 10.5 81 71-161 993-1073(1151)
67 PRK08402 replication factor A; 84.4 4.4 9.6E-05 41.3 8.3 72 69-144 72-147 (355)
68 PRK14699 replication factor A; 84.1 2.6 5.6E-05 44.6 6.7 64 69-136 67-135 (484)
69 cd04497 hPOT1_OB1_like hPOT1_O 83.8 4.8 0.0001 35.2 7.3 75 69-145 14-88 (138)
70 cd04475 RPA1_DBD_B RPA1_DBD_B: 82.8 18 0.00039 29.4 9.8 65 72-143 2-72 (101)
71 PRK00448 polC DNA polymerase I 82.6 10 0.00022 45.3 11.3 73 68-145 235-309 (1437)
72 PLN02850 aspartate-tRNA ligase 79.3 18 0.00039 38.8 10.9 84 70-163 82-172 (530)
73 PRK12366 replication factor A; 79.2 6.3 0.00014 43.0 7.7 63 69-136 73-139 (637)
74 PRK12366 replication factor A; 79.1 11 0.00025 41.0 9.6 80 70-156 292-376 (637)
75 cd04478 RPA2_DBD_D RPA2_DBD_D: 78.6 22 0.00049 28.3 9.0 75 72-162 2-79 (95)
76 PRK05672 dnaE2 error-prone DNA 78.5 12 0.00026 43.3 9.9 77 71-160 955-1031(1046)
77 PRK07279 dnaE DNA polymerase I 76.8 17 0.00036 42.2 10.4 81 70-161 885-966 (1034)
78 PF02765 POT1: Telomeric singl 76.8 7.8 0.00017 34.1 6.3 75 69-145 12-93 (146)
79 TIGR00458 aspS_arch aspartyl-t 76.5 29 0.00064 36.0 11.3 82 70-164 13-98 (428)
80 TIGR01405 polC_Gram_pos DNA po 76.2 13 0.00028 43.8 9.4 72 69-145 7-80 (1213)
81 PLN02903 aminoacyl-tRNA ligase 75.1 65 0.0014 35.7 13.9 83 71-163 74-163 (652)
82 PRK05159 aspC aspartyl-tRNA sy 73.4 31 0.00068 35.8 10.6 82 70-164 17-101 (437)
83 PTZ00401 aspartyl-tRNA synthet 73.1 41 0.00088 36.4 11.6 85 70-164 79-170 (550)
84 COG0017 AsnS Aspartyl/asparagi 71.8 33 0.00072 36.2 10.3 81 70-163 17-100 (435)
85 TIGR00457 asnS asparaginyl-tRN 71.4 49 0.0011 34.7 11.6 84 70-164 17-103 (453)
86 cd04318 EcAsnRS_like_N EcAsnRS 69.5 52 0.0011 25.7 9.9 78 72-160 2-80 (82)
87 TIGR00617 rpa1 replication fac 67.7 15 0.00032 40.0 7.0 67 69-139 190-260 (608)
88 TIGR00459 aspS_bact aspartyl-t 67.2 57 0.0012 35.6 11.2 83 71-163 17-104 (583)
89 PRK14699 replication factor A; 66.6 15 0.00032 39.1 6.5 83 69-160 176-263 (484)
90 PTZ00385 lysyl-tRNA synthetase 65.0 73 0.0016 35.4 11.6 77 71-162 109-191 (659)
91 PRK03932 asnC asparaginyl-tRNA 64.5 55 0.0012 34.2 10.2 81 70-163 17-100 (450)
92 KOG3416 Predicted nucleic acid 63.6 20 0.00043 32.1 5.8 62 70-139 15-76 (134)
93 PRK07218 replication factor A; 62.3 30 0.00064 36.3 7.7 62 69-139 172-235 (423)
94 PF10451 Stn1: Telomere regula 61.2 43 0.00094 32.8 8.2 86 64-162 61-149 (256)
95 PLN02603 asparaginyl-tRNA synt 60.6 1.1E+02 0.0025 33.2 12.0 85 69-164 107-194 (565)
96 PRK12820 bifunctional aspartyl 60.2 85 0.0019 35.1 11.2 85 70-164 19-111 (706)
97 PF12869 tRNA_anti-like: tRNA_ 60.1 42 0.00091 28.7 7.2 64 71-141 69-133 (144)
98 cd04481 RPA1_DBD_B_like RPA1_D 58.7 63 0.0014 26.6 7.7 39 106-144 34-76 (106)
99 cd04483 hOBFC1_like hOBFC1_lik 58.4 55 0.0012 26.9 7.2 36 105-140 23-78 (92)
100 PRK00476 aspS aspartyl-tRNA sy 57.8 1E+02 0.0022 33.6 11.1 83 71-164 19-107 (588)
101 TIGR00643 recG ATP-dependent D 57.7 58 0.0013 35.3 9.3 64 70-140 33-96 (630)
102 PRK12445 lysyl-tRNA synthetase 55.4 1.2E+02 0.0026 32.4 11.0 78 71-163 67-149 (505)
103 COG1200 RecG RecG-like helicas 55.2 55 0.0012 36.5 8.5 65 70-141 61-125 (677)
104 PRK10917 ATP-dependent DNA hel 54.8 44 0.00096 36.6 7.9 63 70-139 60-122 (681)
105 PLN02221 asparaginyl-tRNA synt 53.1 1.2E+02 0.0026 33.1 10.7 87 70-164 51-138 (572)
106 PTZ00417 lysine-tRNA ligase; P 52.2 1.2E+02 0.0026 33.2 10.5 78 72-163 135-219 (585)
107 TIGR00499 lysS_bact lysyl-tRNA 49.8 1.7E+02 0.0038 31.1 11.1 78 71-163 55-137 (496)
108 PRK06386 replication factor A; 49.6 75 0.0016 32.7 8.1 77 69-161 117-195 (358)
109 cd04498 hPOT1_OB2 hPOT1_OB2: A 49.2 25 0.00054 31.0 4.0 27 107-134 60-86 (123)
110 COG0587 DnaE DNA polymerase II 47.8 68 0.0015 37.8 8.3 66 71-141 978-1044(1139)
111 PHA01740 putative single-stran 46.8 10 0.00023 34.3 1.3 23 323-345 17-41 (158)
112 PF13567 DUF4131: Domain of un 46.4 74 0.0016 26.4 6.4 63 70-141 76-145 (176)
113 PLN02502 lysyl-tRNA synthetase 46.0 1.6E+02 0.0034 32.1 10.1 78 71-163 110-194 (553)
114 PRK07218 replication factor A; 45.6 61 0.0013 34.1 6.8 58 69-136 68-127 (423)
115 COG3689 Predicted membrane pro 44.6 78 0.0017 31.6 7.0 88 71-165 177-264 (271)
116 PRK00484 lysS lysyl-tRNA synth 43.4 1.4E+02 0.003 31.8 9.2 79 70-163 55-137 (491)
117 PF00970 FAD_binding_6: Oxidor 43.0 51 0.0011 26.1 4.7 32 106-138 62-95 (99)
118 COG2176 PolC DNA polymerase II 41.4 82 0.0018 37.5 7.5 73 67-145 237-312 (1444)
119 PLN02532 asparagine-tRNA synth 40.9 93 0.002 34.5 7.6 56 107-164 147-202 (633)
120 PHA01740 putative single-stran 37.9 16 0.00034 33.2 1.1 19 223-241 20-40 (158)
121 COG1190 LysU Lysyl-tRNA synthe 36.2 1.5E+02 0.0032 32.1 8.0 81 72-163 64-145 (502)
122 KOG1885 Lysyl-tRNA synthetase 35.1 76 0.0017 34.2 5.6 76 72-161 107-188 (560)
123 COG1107 Archaea-specific RecJ- 35.0 70 0.0015 35.4 5.4 79 69-163 213-291 (715)
124 TIGR00617 rpa1 replication fac 33.8 1.8E+02 0.0039 31.8 8.4 67 71-142 312-382 (608)
125 PRK07135 dnaE DNA polymerase I 33.8 1.5E+02 0.0033 34.5 8.1 64 71-141 899-962 (973)
126 COG4097 Predicted ferric reduc 31.1 61 0.0013 34.1 4.1 42 96-137 265-306 (438)
127 PF09104 BRCA-2_OB3: BRCA2, ol 31.1 2.2E+02 0.0047 25.9 7.1 90 64-166 14-105 (143)
128 PF02367 UPF0079: Uncharacteri 29.2 32 0.00069 30.1 1.5 25 116-140 3-27 (123)
129 KOG3056 Protein required for S 28.6 1.7E+02 0.0036 32.2 6.9 58 74-134 190-247 (578)
130 PF11736 DUF3299: Protein of u 28.1 1E+02 0.0022 27.8 4.6 82 67-158 52-143 (146)
131 COG1018 Hmp Flavodoxin reducta 27.2 1.9E+02 0.0041 28.2 6.6 31 106-136 67-99 (266)
132 PRK10646 ADP-binding protein; 26.0 52 0.0011 29.8 2.3 26 115-140 15-40 (153)
133 PRK02983 lysS lysyl-tRNA synth 24.9 6.8E+02 0.015 29.6 11.5 78 71-163 653-735 (1094)
134 COG0802 Predicted ATPase or ki 23.2 67 0.0014 29.3 2.5 26 115-140 12-37 (149)
135 cd06216 FNR_iron_sulfur_bindin 23.2 2.2E+02 0.0048 26.2 6.0 34 106-139 79-114 (243)
136 smart00350 MCM minichromosome 23.1 1.7E+02 0.0036 31.0 5.8 52 106-161 103-161 (509)
137 PTZ00425 asparagine-tRNA ligas 22.9 7.4E+02 0.016 27.4 10.7 89 69-163 81-180 (586)
138 TIGR01077 L13_A_E ribosomal pr 22.6 64 0.0014 29.0 2.2 22 113-134 9-30 (142)
139 cd06191 FNR_iron_sulfur_bindin 22.3 2.2E+02 0.0048 25.9 5.8 25 115-139 70-94 (231)
140 KOG0479 DNA replication licens 21.3 1.5E+02 0.0032 33.3 4.9 55 106-164 212-270 (818)
141 PRK06394 rpl13p 50S ribosomal 21.3 70 0.0015 28.9 2.2 22 113-134 13-34 (146)
142 TIGR00150 HI0065_YjeE ATPase, 20.5 84 0.0018 27.8 2.5 25 116-140 10-34 (133)
143 PF08021 FAD_binding_9: Sidero 20.4 2.9E+02 0.0063 23.5 5.7 44 92-135 67-112 (117)
144 KOG0554 Asparaginyl-tRNA synth 20.4 3.9E+02 0.0084 28.5 7.5 57 100-163 43-99 (446)
No 1
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.94 E-value=4.4e-26 Score=191.91 Aligned_cols=98 Identities=16% Similarity=0.210 Sum_probs=90.7
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~-------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
|||.|+|||||++|||++++++|+.+|.|+||+++. .+++||+|++||++||.+++||+|||+|+|+|+|+++
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 2479999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeeEEeccCCCc
Q 017902 141 PPAIE---GQANVQVMVHSLNLIEPTSQ 165 (364)
Q Consensus 141 syedk---~qt~~eVvVe~v~FV~~k~~ 165 (364)
+|+++ .++.++|+|++|.|++++..
T Consensus 81 ~~~~~~G~~~~~~ei~a~~i~~l~~~~~ 108 (112)
T PRK06752 81 NYEDDQGKRIYITEVVIESITFLERRRE 108 (112)
T ss_pred ccCCCCCcEEEEEEEEEEEEEECCCCCc
Confidence 99876 46688999999999987754
No 2
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=6.4e-26 Score=203.65 Aligned_cols=98 Identities=12% Similarity=0.182 Sum_probs=91.2
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~-------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
|||+|+|||||++|||+|+|++|..+|.|+|||++. .+++||+|++||++||.+++||+||++|+|+|||+++
T Consensus 1 M~N~v~LiGrL~~DPElr~t~sG~~v~~ftlAv~r~~~~~~ge~~tdfi~vv~wgk~Ae~~~~~l~KG~~V~VeGrl~~r 80 (162)
T PRK07275 1 MINNVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQNGEREADFINCVIWRQQAENLANWAKKGALIGVTGRIQTR 80 (162)
T ss_pred CeeEEEEEEEECCCCeEEECCCCCEEEEEEEEEcCceecCCCCEeeeEEEEEEEcHHHHHHHHHcCCCCEEEEEEEEEec
Confidence 799999999999999999999999999999999862 3589999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeeEEeccCCCc
Q 017902 141 PPAIE---GQANVQVMVHSLNLIEPTSQ 165 (364)
Q Consensus 141 syedk---~qt~~eVvVe~v~FV~~k~~ 165 (364)
+|+++ .++.++|+|++|.||+++..
T Consensus 81 ~y~dkdG~k~~~~evva~~i~~l~~~~~ 108 (162)
T PRK07275 81 NYENQQGQRVYVTEVVADNFQMLESRAT 108 (162)
T ss_pred eEECCCCCEEEEEEEEEeEEEECCCCCc
Confidence 99876 57788999999999988764
No 3
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=2.4e-25 Score=190.84 Aligned_cols=99 Identities=20% Similarity=0.291 Sum_probs=90.9
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC---CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCc
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~---~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syed 144 (364)
++|+|+||||||+|||++++++|+.+|.|+||+++. ++++||+|++||++||.+++||+||++|+|+|+|++++|++
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 489999999999999999999999999999999863 46899999999999999999999999999999999999986
Q ss_pred C--C--eEEEEEEEeeEEeccCCCcc
Q 017902 145 E--G--QANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 145 k--~--qt~~eVvVe~v~FV~~k~~~ 166 (364)
+ | ++.++|+|++|.||+++...
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 3 67889999999999876554
No 4
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=6.2e-25 Score=200.58 Aligned_cols=99 Identities=22% Similarity=0.301 Sum_probs=91.7
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEee
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~---------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~ 138 (364)
|+|+|+|||||++|||+|++++|..+|.|+||+++. ++++||+|++||++||.|++||+||++|+|+|||+
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 789999999999999999999999999999999751 36899999999999999999999999999999999
Q ss_pred eCCCCcC---CeEEEEEEEeeEEeccCCCcc
Q 017902 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 139 s~syedk---~qt~~eVvVe~v~FV~~k~~~ 166 (364)
+++|+++ .++.++|+|++|.||+++...
T Consensus 81 ~~~y~dkdG~~r~~~eI~a~~v~~L~~~~~~ 111 (182)
T PRK08486 81 FESWMDQNGQKRSKHTITAESMQMLDSKSDN 111 (182)
T ss_pred eCcEECCCCcEEEEEEEEEeEEEECCCCCCC
Confidence 9999876 577899999999999877653
No 5
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=1.4e-24 Score=196.97 Aligned_cols=99 Identities=18% Similarity=0.224 Sum_probs=91.1
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~-------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
|||+|+|||||++|||+|+|++|..+|.|+||+++. .+++||+|++||++||.+++||+||++|+|+|||+++
T Consensus 1 MmN~V~LiGrL~~DpelR~t~sG~~v~~fslAvnr~~~~~~ge~~tdwi~~v~wgk~Ae~~~~~l~KG~~V~VeGrL~~r 80 (173)
T PRK06751 1 MMNRVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQQGEREADFINCVIWRKQAENVANYLKKGSLAGVDGRLQTR 80 (173)
T ss_pred CceEEEEEEEECCCCcEEECCCCCEEEEEEEEEccceecCCCCEEEEEEEEEEeCcHHHHHHHHcCCCCEEEEEEEEEeC
Confidence 789999999999999999999999999999999862 3479999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeeEEeccCCCcc
Q 017902 141 PPAIE---GQANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 141 syedk---~qt~~eVvVe~v~FV~~k~~~ 166 (364)
+|+++ .++.++|+|++|.||+.+...
T Consensus 81 ~yedkdG~~~~~~eVva~~i~~l~~r~~~ 109 (173)
T PRK06751 81 NYEGQDGKRVYVTEVLAESVQFLEPRNGG 109 (173)
T ss_pred ccCCCCCcEEEEEEEEEEEEEeCcCCCCC
Confidence 99976 566889999999999977543
No 6
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=7.5e-24 Score=187.48 Aligned_cols=99 Identities=10% Similarity=0.159 Sum_probs=89.8
Q ss_pred ccceEEEEEEeCCCceEEECCCCcE----EEEEEEEEcCC----------CCCeeEEEEEechHHHHHHhhcCCCCeEEE
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKH----WAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHI 133 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~----va~f~LAv~~~----------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~V 133 (364)
|+|.|+||||||+|||++++++|.. +|.|+||+++. .+++||+|++||++|+.+++||+||++|+|
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 99999999741 147899999999999999999999999999
Q ss_pred EEEeeeCCCCcC---CeEEEEEEEeeEEeccCCCcc
Q 017902 134 AGQLTADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 134 sGRL~s~syedk---~qt~~eVvVe~v~FV~~k~~~ 166 (364)
+|+|++++|+++ .++.++|+|++|.|+..+...
T Consensus 81 ~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r~~~ 116 (148)
T PRK08182 81 EGRMERDEWTDNEDNERVTFKVEARRVGILPYRIES 116 (148)
T ss_pred EEEEEecccCCCCCCEEEEEEEEEeEEEEcCCcccc
Confidence 999999999875 577889999999999866553
No 7
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=5.6e-24 Score=184.25 Aligned_cols=99 Identities=22% Similarity=0.322 Sum_probs=89.6
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~-------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
|||.|+||||||+|||++++++|..+|.|+||+++. .+++||+|++||++|+.+++||+||++|+|+|+|+++
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 2479999999999999999999999999999999999
Q ss_pred CCCcC--CeEEEEEEEeeEEeccCCCcc
Q 017902 141 PPAIE--GQANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 141 syedk--~qt~~eVvVe~v~FV~~k~~~ 166 (364)
+|+.+ .++.++|+|++|.|++++...
T Consensus 81 ~y~kdG~~~~~~eviv~~i~~l~~k~~~ 108 (131)
T PRK07274 81 KYEKDGQTHYVTEVLCQSFQLLESRAQR 108 (131)
T ss_pred cCccCCcEEEEEEEEEEEEEECcCCCcc
Confidence 99433 466789999999999876544
No 8
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=5.9e-24 Score=191.41 Aligned_cols=100 Identities=16% Similarity=0.291 Sum_probs=91.2
Q ss_pred cccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEe
Q 017902 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (364)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~---------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL 137 (364)
+.+|+|+||||||+|||++++++|..+|.|+||+++. ++++||+|++||++||.|++||+||++|+|+|+|
T Consensus 3 r~~Nkv~LiGrLg~DPelr~t~~G~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~Ae~v~~~L~KGs~V~VeGrL 82 (164)
T PRK08763 3 RGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDREGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEGSI 82 (164)
T ss_pred CcceEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecCCCCeeccceEEEEEEehHHHHHHHHhcCCCCEEEEEEEE
Confidence 4599999999999999999999999999999999741 3579999999999999999999999999999999
Q ss_pred eeCCCCcC---CeEEEEEEEeeEEeccCCCcc
Q 017902 138 TADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 138 ~s~syedk---~qt~~eVvVe~v~FV~~k~~~ 166 (364)
++++|+++ .++.++|+|++|.||+++...
T Consensus 83 ~~~~y~dkdG~kr~~~eIva~~i~~L~~~~~~ 114 (164)
T PRK08763 83 RYDKFTGQDGQERYVTEIVADEMQMLGGRGEG 114 (164)
T ss_pred EeceeECCCCCEEEEEEEEEeEEEECCCCCCC
Confidence 99999876 477889999999999977543
No 9
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=1.1e-23 Score=191.48 Aligned_cols=100 Identities=20% Similarity=0.336 Sum_probs=91.9
Q ss_pred cccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEE
Q 017902 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (364)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~----------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGR 136 (364)
+.+|+|+||||||+|||++++++|..+|.|+||+++. ++++||+|++||++||.|++||+||++|+|+|+
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 3589999999999999999999999999999999751 358999999999999999999999999999999
Q ss_pred eeeCCCCcC--CeEEEEEEEe---eEEeccCCCcc
Q 017902 137 LTADPPAIE--GQANVQVMVH---SLNLIEPTSQK 166 (364)
Q Consensus 137 L~s~syedk--~qt~~eVvVe---~v~FV~~k~~~ 166 (364)
|++++|+++ .++.++|+|+ +|.||+++...
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 4678899999 99999988776
No 10
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=1.8e-23 Score=187.89 Aligned_cols=98 Identities=16% Similarity=0.180 Sum_probs=90.3
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC----CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCc
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~----~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syed 144 (364)
||.|+||||||+|||++++++|+.++.|+||+++. ++|+||+|++||++|+.+++||+||++|+|+|+|++++|++
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 79999999999999999999999999999999862 46899999999999999999999999999999999999987
Q ss_pred C---CeEEEEEEEeeEEeccCCCcc
Q 017902 145 E---GQANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 145 k---~qt~~eVvVe~v~FV~~k~~~ 166 (364)
+ .++.++|+|++|.|+.....+
T Consensus 81 kdG~kr~~~eIva~~I~fl~~~~~~ 105 (161)
T PRK06293 81 KDGSPQSSLVVSVDTIKFSPFGRNE 105 (161)
T ss_pred CCCCEEEEEEEEEeEEEECcCCCcc
Confidence 6 577899999999999766543
No 11
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=2.1e-23 Score=185.39 Aligned_cols=99 Identities=17% Similarity=0.313 Sum_probs=89.4
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEech-HHHHHHhhcCCCCeEEEEEE
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGD-LAHIASSHLKKDDHVHIAGQ 136 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~----------~~T~wI~Vv~wGk-LAE~aaqhLkKGD~V~VsGR 136 (364)
.+|+|+||||||+|||++++++|+.+|.|+||+++. ++|+||+|++||+ +|+.|++||+||++|+|+|+
T Consensus 4 ~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~Gr 83 (152)
T PRK06642 4 SLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIEGS 83 (152)
T ss_pred cceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEEEE
Confidence 379999999999999999999999999999999851 2589999999996 99999999999999999999
Q ss_pred eeeCCCCcC---CeEEEEEEEeeE----EeccCCCcc
Q 017902 137 LTADPPAIE---GQANVQVMVHSL----NLIEPTSQK 166 (364)
Q Consensus 137 L~s~syedk---~qt~~eVvVe~v----~FV~~k~~~ 166 (364)
|++++|+++ .++.++|+|++| .|++++...
T Consensus 84 L~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k~~~ 120 (152)
T PRK06642 84 LQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSN 120 (152)
T ss_pred EEeCeeECCCCCEEEEEEEEEEecccceEeccCCCCc
Confidence 999999875 567889999987 799877554
No 12
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=4.6e-23 Score=187.66 Aligned_cols=100 Identities=20% Similarity=0.339 Sum_probs=91.3
Q ss_pred cccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEE
Q 017902 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (364)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~----------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGR 136 (364)
+.+|+|+||||||+|||+|++++|..+|.|+||+++. ++++||+|++||++||.+++||+||++|+|+|+
T Consensus 4 r~~N~V~LiGrLg~DPelR~t~nG~~v~~fsVAvn~~~kd~~~Ge~~e~t~w~~V~~fgk~Ae~~~~~L~KGs~V~VeGr 83 (177)
T PRK09010 4 RGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYIEGQ 83 (177)
T ss_pred cCceEEEEEEEeCCCceEEEcCCCCEEEEEEEEEcCccccCcccccccceEEEEEEEehhHHHHHHHhcCCCCEEEEEEE
Confidence 5699999999999999999999999999999999751 358999999999999999999999999999999
Q ss_pred eeeCCCCcC---CeEEEEEEEe---eEEeccCCCcc
Q 017902 137 LTADPPAIE---GQANVQVMVH---SLNLIEPTSQK 166 (364)
Q Consensus 137 L~s~syedk---~qt~~eVvVe---~v~FV~~k~~~ 166 (364)
|++++|+++ .++.++|+|+ +|.||++..+.
T Consensus 84 L~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r~~~ 119 (177)
T PRK09010 84 LRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGG 119 (177)
T ss_pred EEeccccCCCCCEEEEEEEEEecCCcEEEccCCCCC
Confidence 999999976 5678899998 89999877554
No 13
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=5.9e-23 Score=187.71 Aligned_cols=98 Identities=19% Similarity=0.303 Sum_probs=90.4
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEee
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~----------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~ 138 (364)
+|+|+|||||++|||++++++|..+|.|+||+++. +.|+||+|++|+++||.+++||+||++|+|+|+|+
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 79999999999999999999999999999999751 24799999999999999999999999999999999
Q ss_pred eCCCCcC---CeEEEEEEEeeEEeccCCCcc
Q 017902 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 139 s~syedk---~qt~~eVvVe~v~FV~~k~~~ 166 (364)
++.|+++ .++.++|+|++|.||..+...
T Consensus 84 ~~~yeDkdG~kr~~~eVvA~~V~fL~sr~~~ 114 (182)
T PRK06958 84 TRKWQGQDGQDRYSTEIVADQMQMLGGRGGS 114 (182)
T ss_pred eCceECCCCcEEEEEEEEEeEEEECCCCccC
Confidence 9999866 577899999999999877655
No 14
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.89 E-value=1.1e-22 Score=183.97 Aligned_cols=98 Identities=19% Similarity=0.325 Sum_probs=90.0
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEee
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~----------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~ 138 (364)
+|+|+||||||+|||+|++++|..++.|+||+++. +.++||+|++||++||.+++||+||++|+|+|+|+
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 79999999999999999999999999999999741 24799999999999999999999999999999999
Q ss_pred eCCCCcC---CeEEEEEEEeeEEeccCCCcc
Q 017902 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 139 s~syedk---~qt~~eVvVe~v~FV~~k~~~ 166 (364)
+++|+++ .++.++|+|++|.||+++...
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 9999876 467889999999999877653
No 15
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.89 E-value=1.7e-22 Score=183.29 Aligned_cols=100 Identities=19% Similarity=0.310 Sum_probs=90.2
Q ss_pred cccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEE
Q 017902 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (364)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~----------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGR 136 (364)
+.||+|+||||||+|||++++++|..+|.|+||+++. ++++||+|++||++||.+++||+||++|+|+|+
T Consensus 3 ~~mNkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae~v~~~l~KGs~V~VeGr 82 (172)
T PRK05733 3 RGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIEGK 82 (172)
T ss_pred CcceEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEEE
Confidence 4599999999999999999999999999999999751 358999999999999999999999999999999
Q ss_pred eeeCCCCcC--CeEEEEEEEe---eEEeccCCCcc
Q 017902 137 LTADPPAIE--GQANVQVMVH---SLNLIEPTSQK 166 (364)
Q Consensus 137 L~s~syedk--~qt~~eVvVe---~v~FV~~k~~~ 166 (364)
|++++|+.+ .++.++|+|+ .|.||+.+...
T Consensus 83 Lr~~~y~kdG~~r~~~eVvvd~~g~v~~L~~~~~~ 117 (172)
T PRK05733 83 LQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQG 117 (172)
T ss_pred EEeCcEecCCEEEEEEEEEEeecCeEEECcCCCCC
Confidence 999999854 4668899999 89999866554
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=99.89 E-value=2.2e-22 Score=180.30 Aligned_cols=99 Identities=19% Similarity=0.351 Sum_probs=90.6
Q ss_pred cccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEe
Q 017902 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (364)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~---------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL 137 (364)
+|+|+|+|+|||++|||++++++|+.+|.|+||+++. +.++||+|++||++|+.+++||+||++|+|+|+|
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 4789999999999999999999999999999999752 3479999999999999999999999999999999
Q ss_pred eeCCCCcC---CeEEEEEEEeeEEeccCCCc
Q 017902 138 TADPPAIE---GQANVQVMVHSLNLIEPTSQ 165 (364)
Q Consensus 138 ~s~syedk---~qt~~eVvVe~v~FV~~k~~ 165 (364)
++++|+++ .++.++|+|++|.||+.+..
T Consensus 82 ~~~~~~~kdG~~~~~~ev~a~~i~~L~~~~~ 112 (164)
T TIGR00621 82 RTRKWEDQNGQKRSKTEIIADNVQLLDLLGA 112 (164)
T ss_pred EeceEECCCCcEEEEEEEEEEEEeeccccCC
Confidence 99999875 57789999999999987653
No 17
>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=99.87 E-value=3.7e-22 Score=161.72 Aligned_cols=92 Identities=23% Similarity=0.399 Sum_probs=82.1
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcC-----C----CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeee
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-----A----SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~-----~----~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s 139 (364)
||+|+|+|+|++||+++++++|+.++.|+||+++ . ..++||+|++||++|+.+++||+|||+|+|+|+|++
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 7999999999999999999999999999999976 1 347999999999999999999999999999999999
Q ss_pred CCCCcC-C--eEEEEEEEeeEEec
Q 017902 140 DPPAIE-G--QANVQVMVHSLNLI 160 (364)
Q Consensus 140 ~syedk-~--qt~~eVvVe~v~FV 160 (364)
+.|+++ + ++.++|+|++|+||
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 999877 4 67889999999996
No 18
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.87 E-value=1.1e-21 Score=177.02 Aligned_cols=97 Identities=23% Similarity=0.369 Sum_probs=87.7
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcC----------CCCCeeEEEEEech-HHHHHHhhcCCCCeEEEEEE
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----------ASHSLWIPILFEGD-LAHIASSHLKKDDHVHIAGQ 136 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~----------~~~T~wI~Vv~wGk-LAE~aaqhLkKGD~V~VsGR 136 (364)
++|+|+|||||++|||++++++|+.+|.|+||+++ .++|+||+|++|++ +|+.+++||+||++|+|+|+
T Consensus 4 ~mN~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~~Ae~~~~~LkKG~~V~VeGr 83 (166)
T PRK06341 4 SVNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYIEGQ 83 (166)
T ss_pred cceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChHHHHHHHHhcCCCCEEEEEEE
Confidence 48999999999999999999999999999999974 13589999999996 99999999999999999999
Q ss_pred eeeCCCCcC---CeEEEEEEEeeE----EeccCCC
Q 017902 137 LTADPPAIE---GQANVQVMVHSL----NLIEPTS 164 (364)
Q Consensus 137 L~s~syedk---~qt~~eVvVe~v----~FV~~k~ 164 (364)
|++++|+++ .++.++|+|++| .|++++.
T Consensus 84 L~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~~ 118 (166)
T PRK06341 84 LQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRG 118 (166)
T ss_pred EEeCcEECCCCCEEEEEEEEEEecccceEEcccCC
Confidence 999999876 577899999874 8987764
No 19
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.87 E-value=1.6e-21 Score=182.71 Aligned_cols=98 Identities=17% Similarity=0.249 Sum_probs=89.5
Q ss_pred cccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCC-CCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAAS-HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~-~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
.-+|.|+|+|||++|||+|+|++|+.+|.|+||+++.. +++||+|++||++|+.|+ +|+|||+|+|+|||++++|+++
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 45999999999999999999999999999999999753 689999999999999986 6999999999999999999864
Q ss_pred -------CeEEEEEEEeeEEeccCCCc
Q 017902 146 -------GQANVQVMVHSLNLIEPTSQ 165 (364)
Q Consensus 146 -------~qt~~eVvVe~v~FV~~k~~ 165 (364)
.++.++|.|++|+|++.+..
T Consensus 186 ~g~~~g~kr~~~eV~v~~i~~l~~~~~ 212 (219)
T PRK05813 186 LSEGEVVTKVAYEVSISKMEKVEKEEA 212 (219)
T ss_pred CCCccceEEEEEEEEEEEEEEcCChhh
Confidence 37789999999999977554
No 20
>PRK02801 primosomal replication protein N; Provisional
Probab=99.87 E-value=2.6e-21 Score=161.19 Aligned_cols=92 Identities=14% Similarity=0.261 Sum_probs=81.5
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC-C-------CCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeee
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-S-------HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~-~-------~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s 139 (364)
|+|.|+|+|||++|||+|+|++|.+++.|+||+++. . .++||+|++||++||.+++||+||++|.|+|+|.+
T Consensus 1 mmN~v~L~Grl~~dpelr~Tp~G~~v~~f~La~~~~~~ea~~~r~~~~~i~~va~G~~Ae~~~~~l~kGs~v~V~G~L~~ 80 (101)
T PRK02801 1 MTNRLVLSGTVCRTPKRKVSPSGIPHCQFVLEHRSVQEEAGLHRQAWCRMPVIVSGNQFQAITQSITVGSKITVQGFISC 80 (101)
T ss_pred CccEEEEEEEECcCcceEECCCCCeEEEEEEEEeCeEecCCCceeEEEEEEEEEEcHHHHHHHhhcCCCCEEEEEEEEEE
Confidence 689999999999999999999999999999999741 1 13789999999999999999999999999999999
Q ss_pred CCCCcC-CeEEEEEEEeeEEecc
Q 017902 140 DPPAIE-GQANVQVMVHSLNLIE 161 (364)
Q Consensus 140 ~syedk-~qt~~eVvVe~v~FV~ 161 (364)
|+++ ++..+.|++++|+|+.
T Consensus 81 --~~~~~g~~~~~v~~~~i~~l~ 101 (101)
T PRK02801 81 --HQGRNGLSKLVLHAEQIELID 101 (101)
T ss_pred --eECCCCCEEEEEEEEEEEECC
Confidence 3444 7666669999999973
No 21
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.86 E-value=2e-21 Score=173.90 Aligned_cols=98 Identities=20% Similarity=0.295 Sum_probs=83.3
Q ss_pred ccceEEEEEEeCCCceEEECC-CCcEEEEEEEEEcCC---------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEe
Q 017902 68 VANSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~-~Gk~va~f~LAv~~~---------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL 137 (364)
|+|+|+|+|||++|||+|+++ +|..++.|++|+++. ..++||+|++||++|+++++||+||++|+|+|+|
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 456777777787651 3469999999999999999999999999999999
Q ss_pred eeCCCCcC-C--eE----EEEEEEeeEEeccCCCc
Q 017902 138 TADPPAIE-G--QA----NVQVMVHSLNLIEPTSQ 165 (364)
Q Consensus 138 ~s~syedk-~--qt----~~eVvVe~v~FV~~k~~ 165 (364)
+++.|+++ + ++ ..++++..+.|++....
T Consensus 82 ~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 82 QTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EeeeeecCCCcceeeEEEEEEEeehhhhhccCccc
Confidence 99999976 4 22 34667788888887754
No 22
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.85 E-value=7.1e-21 Score=174.60 Aligned_cols=91 Identities=14% Similarity=0.230 Sum_probs=82.7
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC-----------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEE
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~-----------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGR 136 (364)
+.|.|+|||||++|||+|++++|..+|+|+||+++. .+++||+|++|+++||.+++||+|||+|+|+||
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 369999999999999999999999999999998631 257899999999999999999999999999999
Q ss_pred eeeCCCCcC---CeEEEEEEEeeEE
Q 017902 137 LTADPPAIE---GQANVQVMVHSLN 158 (364)
Q Consensus 137 L~s~syedk---~qt~~eVvVe~v~ 158 (364)
|++++|+++ .++.++|+|++|-
T Consensus 83 L~~r~wedkdG~~rt~~eV~a~~Vg 107 (186)
T PRK07772 83 LKQRSYETREGEKRTVVELEVDEIG 107 (186)
T ss_pred EEcCceECCCCCEEEEEEEEEEEcc
Confidence 999999876 5788999999653
No 23
>PRK05853 hypothetical protein; Validated
Probab=99.78 E-value=8.3e-19 Score=157.79 Aligned_cols=85 Identities=15% Similarity=0.196 Sum_probs=76.0
Q ss_pred EEEEeCCCceEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCC
Q 017902 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (364)
Q Consensus 74 LIGrLg~DPElr~T~~Gk~va~f~LAv~~~----------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~sye 143 (364)
|||||++|||+++++ |..+|.|+||+++. .+++||+|++||++|+.+++||+||++|+|+|+|++++|+
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 78999999999752 2489999999999999999999999999999999999998
Q ss_pred cC---CeEEEEEEEeeEEe
Q 017902 144 IE---GQANVQVMVHSLNL 159 (364)
Q Consensus 144 dk---~qt~~eVvVe~v~F 159 (364)
++ .++.++|+|++|-.
T Consensus 80 dkdG~~r~~~eV~a~~Vg~ 98 (161)
T PRK05853 80 DRDGNRRSSLEMRATSVGP 98 (161)
T ss_pred CCCCCEEEEEEEEEEEecc
Confidence 76 47788999998733
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=99.78 E-value=3.9e-18 Score=136.74 Aligned_cols=89 Identities=22% Similarity=0.325 Sum_probs=82.2
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCC--------CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCC
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA--------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~--------~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~sye 143 (364)
|+|+|+|+++|+++++++|..++.|+|++++. ..++||+|++||++|+.+++||+|||.|+|+|+|+++.|+
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 58999999999999999999999999999762 3679999999999999999999999999999999999998
Q ss_pred cC---CeEEEEEEEeeEEec
Q 017902 144 IE---GQANVQVMVHSLNLI 160 (364)
Q Consensus 144 dk---~qt~~eVvVe~v~FV 160 (364)
++ .+..++|+|++|.|+
T Consensus 81 ~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 81 DKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred CCCCCEEEEEEEEEEEEEEC
Confidence 76 577899999999875
No 25
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.72 E-value=7.6e-17 Score=151.36 Aligned_cols=95 Identities=18% Similarity=0.188 Sum_probs=86.1
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcC-CCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeC-CCC-cC
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD-PPA-IE 145 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~-~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~-sye-dk 145 (364)
.|+|+|||+|++|||++|+..|..++.|.|||++ ...++||+|++|++||+.+. |+||++|+|+|+|+++ .++ ++
T Consensus 8 ~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rlae~~~--l~kG~~v~VeGqlrsy~~~~~G~ 85 (219)
T PRK05813 8 NNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERLLAGMD--LKVGTLVIVEGQLRSYNKFIDGK 85 (219)
T ss_pred cCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhhhhhhc--ccCCCEEEEEEEEEEeccCCCCc
Confidence 7999999999999999999999999999999998 46689999999999999998 9999999999999943 453 33
Q ss_pred CeEEEEEEEeeEEeccCCCc
Q 017902 146 GQANVQVMVHSLNLIEPTSQ 165 (364)
Q Consensus 146 ~qt~~eVvVe~v~FV~~k~~ 165 (364)
.++..+|.|.+|.|++.+..
T Consensus 86 ~R~vl~V~a~~i~~l~~~~~ 105 (219)
T PRK05813 86 NRLILTVFARNIEYCDERSD 105 (219)
T ss_pred EEEEEEEEEEEEEEccCCCc
Confidence 68899999999999998753
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.51 E-value=3.3e-14 Score=127.95 Aligned_cols=98 Identities=14% Similarity=0.170 Sum_probs=85.9
Q ss_pred cccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcC------------CCCCeeEEEEEec-hHHHHHHhhcCCCCeEEE
Q 017902 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA------------ASHSLWIPILFEG-DLAHIASSHLKKDDHVHI 133 (364)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~------------~~~T~wI~Vv~wG-kLAE~aaqhLkKGD~V~V 133 (364)
+.+|.|+|+|+||+||..+...+|+.|..|+|+++. ...++||+|.+|+ .||+.+.+||+||.+|||
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 679999999999999999999999999999999863 1457999999999 799999999999999999
Q ss_pred EEEeeeCCCCcC-----CeEEEEEEEeeEEeccCCC
Q 017902 134 AGQLTADPPAIE-----GQANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 134 sGRL~s~syedk-----~qt~~eVvVe~v~FV~~k~ 164 (364)
+|+|.++-+.++ .+...-|++.+|.|+....
T Consensus 133 eG~iey~g~~~d~~g~~~r~~t~iIa~~v~Fl~~a~ 168 (175)
T KOG1653|consen 133 EGKIEYRGENDDIQGNVKRIPTIIIARDVSFLIDAI 168 (175)
T ss_pred eeeEEeeeeeccccCceeecceEEEechhHHHHHHh
Confidence 999999766554 3556788999999985443
No 27
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.55 E-value=5.6e-07 Score=76.75 Aligned_cols=90 Identities=18% Similarity=0.214 Sum_probs=76.3
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC------CC--CeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA------SH--SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~------~~--T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
||.+.|.|+|..-+.+||||.|-++|.|.|...+. .. -.-|++++.|++|+...+ +..|..|.|+|.|..
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 59999999999999999999999999999987651 11 267899999999999976 999999999999998
Q ss_pred CCCcCCeEEEEEEEeeEEeccC
Q 017902 141 PPAIEGQANVQVMVHSLNLIEP 162 (364)
Q Consensus 141 syedk~qt~~eVvVe~v~FV~~ 162 (364)
...+....-+.+++|+|++.
T Consensus 79 --~~~~~~~LVLHi~~Ie~i~~ 98 (107)
T PRK00036 79 --ARKDSVKVKLHLQQARRIAG 98 (107)
T ss_pred --CCCCCCcEEEEhHHeEEccc
Confidence 22344567788999999944
No 28
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=98.30 E-value=1.2e-05 Score=67.87 Aligned_cols=94 Identities=15% Similarity=0.217 Sum_probs=78.7
Q ss_pred cccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCC-C-----CC--eeEEEEEechHHHHHHhhcCCCCeEEEEEEee
Q 017902 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-S-----HS--LWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (364)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~-~-----~T--~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~ 138 (364)
.+.|.+.|+|.|.+-|.++|+|+|-+.|.|.|..+.- . .. .-+++.+-|+.|+..-+.+..|..|.|+|-|.
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 4689999999999999999999999999999988751 1 12 45789999999999988899999999999998
Q ss_pred eCCCCcCCeEEEEEEEeeEEecc
Q 017902 139 ADPPAIEGQANVQVMVHSLNLIE 161 (364)
Q Consensus 139 s~syedk~qt~~eVvVe~v~FV~ 161 (364)
...- ..+-...-|.+++|.|++
T Consensus 82 ~~~~-~sg~~~lvlha~qi~~id 103 (103)
T COG2965 82 CHKR-RSGLSKLVLHAEQIEFID 103 (103)
T ss_pred eecc-cCCccEEEEEeeEEEecC
Confidence 7642 235566788888888874
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=97.26 E-value=0.0022 Score=48.31 Aligned_cols=75 Identities=17% Similarity=0.252 Sum_probs=55.9
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEEE
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~e 151 (364)
|.+.|+|..-. .+|..++.+.|.. .+.-+.|++|++.+....+.|+.|+.|.|.|++..+.- + .++
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----GTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRYNG---G--ELE 66 (75)
T ss_dssp EEEEEEEEEEE-----EEETTEEEEEEEE----TTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEETT---S--SEE
T ss_pred CEEEEEEEEEE-----cCCCCEEEEEEEE----CCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEECC---c--cEE
Confidence 67888887522 4455566776654 46899999999888888899999999999999998732 1 367
Q ss_pred EEEeeEEec
Q 017902 152 VMVHSLNLI 160 (364)
Q Consensus 152 VvVe~v~FV 160 (364)
|.+++++.|
T Consensus 67 l~~~~i~~l 75 (75)
T PF01336_consen 67 LIVPKIEIL 75 (75)
T ss_dssp EEEEEEEEE
T ss_pred EEECEEEEC
Confidence 777776643
No 30
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=97.17 E-value=0.007 Score=46.69 Aligned_cols=74 Identities=16% Similarity=0.170 Sum_probs=58.3
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEEE
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~e 151 (364)
+.+.|-|. +... +.+| +|.++|.-. +.-+.|++|.+..+.+...|+.|+.|.|.|++..+.+. ..++
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 56788888 3444 7777 888888753 46799999999998888999999999999999986542 2367
Q ss_pred EEEeeEE
Q 017902 152 VMVHSLN 158 (364)
Q Consensus 152 VvVe~v~ 158 (364)
++|++|.
T Consensus 69 l~v~~i~ 75 (78)
T cd04489 69 LIVEEIE 75 (78)
T ss_pred EEEEEEE
Confidence 7777764
No 31
>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=96.21 E-value=0.038 Score=44.48 Aligned_cols=69 Identities=19% Similarity=0.142 Sum_probs=55.4
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEech-HHHHHHhhcC-CCCeEEEEEEeeeCCCCcC
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLK-KDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGk-LAE~aaqhLk-KGD~V~VsGRL~s~syedk 145 (364)
.|.+-|.|- +.|.|.+.+|+.+..+.|+- .++-|.|..|.+ .-+.. ..++ +|+.|.|.|.+..++|..+
T Consensus 1 ~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 1 NVVVEGEVF-DLEIRELKSGRKILTFKVTD----YTSSITVKKFLRKDEKDK-EELKSKGDWVRVRGKVQYDTFSKE 71 (82)
T ss_pred CEEEEEEEE-EEEEEEecCCCEEEEEEEEc----CCCCEEEEEeccCChhHH-hhcccCCCEEEEEEEEEEccCCCc
Confidence 378899986 47999999999988887774 467899998883 33333 5699 9999999999999998654
No 32
>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=96.19 E-value=0.039 Score=43.70 Aligned_cols=72 Identities=18% Similarity=0.175 Sum_probs=53.4
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEEE
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~e 151 (364)
|.+-|.|...+. .+|- ++|+|-. +..-|+|++|...+..+...|+.||.|.|.|++.. .+-.|+
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 356787776652 5555 4676743 33569999999988666677999999999999884 355688
Q ss_pred EEEeeEEe
Q 017902 152 VMVHSLNL 159 (364)
Q Consensus 152 VvVe~v~F 159 (364)
+.|++|+.
T Consensus 65 l~v~~i~~ 72 (73)
T cd04487 65 IEVESLEV 72 (73)
T ss_pred EEEeeEEE
Confidence 88888764
No 33
>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=95.90 E-value=0.042 Score=45.78 Aligned_cols=68 Identities=13% Similarity=0.014 Sum_probs=52.7
Q ss_pred cceEEEEEEeCCCceEEECCCC---cEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeee
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDG---KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~G---k~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s 139 (364)
++++.+.|||..-=+++...++ ..+..+.|+-+ ++.-|.|++|++.|+.....|+.|+.++|+|-...
T Consensus 9 ~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~De---~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V~ 79 (104)
T cd04474 9 QNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLDE---DGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSVK 79 (104)
T ss_pred CCcEEEEEEEeeccccccccCCCCCcEEEEEEEEEC---CCCEEEEEEehHHHHHhhcccccccEEEEeccEEe
Confidence 4679999999975555544432 44566666543 47799999999999999999999999999985543
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=95.84 E-value=0.15 Score=36.86 Aligned_cols=47 Identities=19% Similarity=0.114 Sum_probs=39.7
Q ss_pred CcEEEEEEEEEcCCCCC-eeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 90 GKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 90 Gk~va~f~LAv~~~~~T-~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
|+.++.+.|.- .+ ..+.|++|.+..+....++..|+.|.|.|++..+
T Consensus 15 ~~~~~~~~l~D----~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~~ 62 (75)
T cd03524 15 EGKVLIFTLTD----GTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKKF 62 (75)
T ss_pred CCeEEEEEEEc----CCCCEEEEEEEchHHHHHHhhccCCCEEEEEEEEEec
Confidence 66677776653 46 7999999999999888899999999999999764
No 35
>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=95.81 E-value=0.11 Score=39.83 Aligned_cols=72 Identities=15% Similarity=0.231 Sum_probs=53.5
Q ss_pred CCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEEEEEEeeEEe
Q 017902 80 APVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLNL 159 (364)
Q Consensus 80 ~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~eVvVe~v~F 159 (364)
..++.+.+.+|+.++.++|.-. +--+.|++|++.-+. ...|+.|..|.|.|++... .+ ..++.+.++.-
T Consensus 7 ~~~~~~~tk~g~~~~~~~l~D~----tg~i~~~~f~~~~~~-~~~l~~g~~v~v~G~v~~~--~~----~~~l~~~~i~~ 75 (83)
T cd04492 7 KSKELRTAKNGKPYLALTLQDK----TGEIEAKLWDASEED-EEKFKPGDIVHVKGRVEEY--RG----RLQLKIQRIRL 75 (83)
T ss_pred EEeeeecccCCCcEEEEEEEcC----CCeEEEEEcCCChhh-HhhCCCCCEEEEEEEEEEe--CC----ceeEEEEEEEE
Confidence 3466778889988888877753 556999999965544 6789999999999999653 11 35677777776
Q ss_pred ccC
Q 017902 160 IEP 162 (364)
Q Consensus 160 V~~ 162 (364)
++.
T Consensus 76 l~~ 78 (83)
T cd04492 76 VTE 78 (83)
T ss_pred CCc
Confidence 653
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=95.37 E-value=0.15 Score=38.44 Aligned_cols=74 Identities=16% Similarity=0.237 Sum_probs=54.1
Q ss_pred EEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEEEEE
Q 017902 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVM 153 (364)
Q Consensus 74 LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~eVv 153 (364)
++|.|. +.+.+.+.+|+.++.++|.- .+.-+.|++|++.-+.+...|+.|..|.|.|++..+. + ..++.
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----G--GLRLI 70 (84)
T ss_pred EEEEEE-EeEEEEcCCCCEEEEEEEEe----CCCeEEEEECHHHHHHHHHHhcCCCEEEEEEEEEecC----C--ceEEE
Confidence 566665 35667888898887777754 3556999999877556678899999999999997642 1 35566
Q ss_pred EeeEE
Q 017902 154 VHSLN 158 (364)
Q Consensus 154 Ve~v~ 158 (364)
++++.
T Consensus 71 ~~~i~ 75 (84)
T cd04485 71 AERIE 75 (84)
T ss_pred eeccc
Confidence 65553
No 37
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=93.73 E-value=0.65 Score=38.58 Aligned_cols=77 Identities=17% Similarity=0.241 Sum_probs=58.0
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHH-hhcCCCCeEEEEEEeeeCCCCcCCe
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQLTADPPAIEGQ 147 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aa-qhLkKGD~V~VsGRL~s~syedk~q 147 (364)
+-+|-+.|.|.. ++...+| .++|+|.- +..-++|++|...+..+. .-++.|+.|.|.|++..+...
T Consensus 21 ~~~vwV~GEIs~---~~~~~~g--h~YftLkD----~~a~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~~~y~~~---- 87 (99)
T PF13742_consen 21 LPNVWVEGEISN---LKRHSSG--HVYFTLKD----EEASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYEPR---- 87 (99)
T ss_pred cCCEEEEEEEee---cEECCCc--eEEEEEEc----CCcEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEECCC----
Confidence 356888898873 4333333 46888875 237899999999999998 889999999999999988542
Q ss_pred EEEEEEEeeEE
Q 017902 148 ANVQVMVHSLN 158 (364)
Q Consensus 148 t~~eVvVe~v~ 158 (364)
-.+++.|.+|+
T Consensus 88 G~~sl~v~~i~ 98 (99)
T PF13742_consen 88 GSLSLIVEDID 98 (99)
T ss_pred cEEEEEEEEeE
Confidence 24667776654
No 38
>PRK07211 replication factor A; Reviewed
Probab=93.65 E-value=0.41 Score=50.65 Aligned_cols=80 Identities=15% Similarity=0.175 Sum_probs=59.7
Q ss_pred cceEEEEEEeCCCceEEEC--CC-C--cEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCC
Q 017902 69 ANSVNLIGHVDAPVQFQTS--SD-G--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~~-G--k~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~sye 143 (364)
+|.|++.|||..--++|.. .+ | ..++++.|+- +|--|++++|++.|+.....|..||.|+|.|+.. ..|
T Consensus 63 ~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~D----eTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~-~~y- 136 (485)
T PRK07211 63 MDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVAD----ETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK-DGY- 136 (485)
T ss_pred CCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEEc----CCCeEEEEEechHhHhhhcccCCCCEEEEeceEe-ccc-
Confidence 6899999999887776544 22 1 3577777775 5778999999999999999999999999999874 222
Q ss_pred cCCeEEEEEEEeeEE
Q 017902 144 IEGQANVQVMVHSLN 158 (364)
Q Consensus 144 dk~qt~~eVvVe~v~ 158 (364)
...+|.+..+.
T Consensus 137 ----s~~El~i~~ve 147 (485)
T PRK07211 137 ----NGLEVSVDKVE 147 (485)
T ss_pred ----cceEEEEeeEE
Confidence 22366655443
No 39
>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=92.90 E-value=1.6 Score=34.93 Aligned_cols=72 Identities=18% Similarity=0.327 Sum_probs=53.4
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH--HHHhhcCCCCeEEEEEEeeeCCCCcCCeEE
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE--~aaqhLkKGD~V~VsGRL~s~syedk~qt~ 149 (364)
|.++|-|.. .. .|.+|+. .+.|. +.+--+.|++|.+.-+ .+...|..|..|+|.|++..+ + .
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 7788886 33333 2466799999999888 888999999999999999431 1 2
Q ss_pred EEEEEeeEEec
Q 017902 150 VQVMVHSLNLI 160 (364)
Q Consensus 150 ~eVvVe~v~FV 160 (364)
++.|++|-+-
T Consensus 66 -~l~~~~I~~~ 75 (79)
T cd04490 66 -LIFADEIFRP 75 (79)
T ss_pred -EEEEEEeEcC
Confidence 7778877664
No 40
>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=92.77 E-value=2.5 Score=33.42 Aligned_cols=81 Identities=14% Similarity=0.223 Sum_probs=53.4
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH---HHHhhcCCCCeEEEEEEeeeCCCCcCCe
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE---~aaqhLkKGD~V~VsGRL~s~syedk~q 147 (364)
.|.+-|+|.. +|. .|+ ++++.|-. .+.-++|++-....+ ....+|..||.|.|+|.+....-.....
T Consensus 1 ~V~i~Gwv~~---~R~--~g~-~~Fi~Lrd----~~~~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~~~~ 70 (85)
T cd04100 1 EVTLAGWVHS---RRD--HGG-LIFIDLRD----GSGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGNLAT 70 (85)
T ss_pred CEEEEEEEeh---hcc--CCC-EEEEEEEe----CCeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCCCCC
Confidence 3788999975 333 455 56665532 235577777655322 2345799999999999999764311234
Q ss_pred EEEEEEEeeEEecc
Q 017902 148 ANVQVMVHSLNLIE 161 (364)
Q Consensus 148 t~~eVvVe~v~FV~ 161 (364)
..+||.++++..+.
T Consensus 71 ~~~El~~~~i~il~ 84 (85)
T cd04100 71 GEIELQAEELEVLS 84 (85)
T ss_pred CCEEEEEeEEEEEC
Confidence 46899999998774
No 41
>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=91.97 E-value=0.72 Score=47.72 Aligned_cols=79 Identities=10% Similarity=0.139 Sum_probs=61.9
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeE
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt 148 (364)
+..|-+.|-|.. ++...+| -++|+|-- +..-|+|++|...|..+.-.++-|+.|.|.|++..+.. +-
T Consensus 17 ~~~v~V~GEisn---~~~~~sG--H~YFtLkD----~~a~i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~~y~~----~G 83 (432)
T TIGR00237 17 FLQVWIQGEISN---FTQPVSG--HWYFTLKD----ENAQVRCVMFRGNNNRLKFRPQNGQQVLVRGGISVYEP----RG 83 (432)
T ss_pred CCcEEEEEEecC---CeeCCCc--eEEEEEEc----CCcEEEEEEEcChhhCCCCCCCCCCEEEEEEEEEEECC----CC
Confidence 457899999984 3333556 46888843 45689999999999888888999999999999998754 33
Q ss_pred EEEEEEeeEEec
Q 017902 149 NVQVMVHSLNLI 160 (364)
Q Consensus 149 ~~eVvVe~v~FV 160 (364)
.|+++|++|.-.
T Consensus 84 ~~ql~v~~i~~~ 95 (432)
T TIGR00237 84 DYQIICFEMQPA 95 (432)
T ss_pred cEEEEEEEeccC
Confidence 488999888754
No 42
>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=91.93 E-value=3.8 Score=33.54 Aligned_cols=84 Identities=17% Similarity=0.242 Sum_probs=54.3
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH---HHH---HHhhcCCCCeEEEEEEeeeCCCCc
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHI---ASSHLKKDDHVHIAGQLTADPPAI 144 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL---AE~---aaqhLkKGD~V~VsGRL~s~syed 144 (364)
.|.|.|+|.+ +|. .|+.++++.|-. .+..+.|++-.+. .+. .++.|..||.|.|+|.+....-..
T Consensus 1 ~V~i~Gwv~~---~R~--~g~k~~Fi~LrD----~sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~ 71 (102)
T cd04320 1 EVLIRARVHT---SRA--QGAKLAFLVLRQ----QGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEEPI 71 (102)
T ss_pred CEEEEEEEEE---eec--CCCceEEEEEec----CCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCCcc
Confidence 3788899964 333 453355555532 2456888887543 122 235699999999999998642111
Q ss_pred C--CeEEEEEEEeeEEeccCC
Q 017902 145 E--GQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 145 k--~qt~~eVvVe~v~FV~~k 163 (364)
+ ....+||.|++|..+...
T Consensus 72 ~~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 72 KSCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred cCCCcCcEEEEEEEEEEEecC
Confidence 1 224699999999999754
No 43
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=91.75 E-value=0.89 Score=46.59 Aligned_cols=80 Identities=15% Similarity=0.155 Sum_probs=62.1
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeE
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt 148 (364)
+-.|-+.|-|.. ++...+| -++|+|.-+ ..-|+|++|...+..+...++.|+.|.|.|++..+.. +.
T Consensus 23 ~~~v~v~gEis~---~~~~~sG--H~Yf~Lkd~----~a~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~~y~~----~g 89 (438)
T PRK00286 23 LGQVWVRGEISN---FTRHSSG--HWYFTLKDE----IAQIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLYEP----RG 89 (438)
T ss_pred CCcEEEEEEeCC---CeeCCCC--eEEEEEEcC----CcEEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEECC----CC
Confidence 457899999874 3333455 478888754 5679999999999888888999999999999998643 33
Q ss_pred EEEEEEeeEEecc
Q 017902 149 NVQVMVHSLNLIE 161 (364)
Q Consensus 149 ~~eVvVe~v~FV~ 161 (364)
.|+++|++|.-..
T Consensus 90 ~~ql~v~~i~~~g 102 (438)
T PRK00286 90 DYQLIVEEIEPAG 102 (438)
T ss_pred CEEEEEEEeeeCC
Confidence 4888888887553
No 44
>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=91.56 E-value=0.54 Score=38.60 Aligned_cols=72 Identities=17% Similarity=0.092 Sum_probs=51.4
Q ss_pred EEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH--HHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEE
Q 017902 73 NLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (364)
Q Consensus 73 ~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL--AE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~ 150 (364)
.+.|.|..-+. ...+|- ++|+|.. ++.-|.|++|... +..+...|+.||.|.|.|++..+.
T Consensus 2 ~v~GeVs~~~~--~~~sGH--~yFtlkD----~~~~i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~v~~y~--------- 64 (91)
T cd04482 2 RVTGKVVEEPR--TIEGGH--VFFKISD----GTGEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT--------- 64 (91)
T ss_pred EEEEEEeCCee--cCCCCC--EEEEEEC----CCcEEEEEEECcccccccccCCCCCCCEEEEEEEEecCC---------
Confidence 45677765432 214454 4666642 3468999999887 667778899999999999987764
Q ss_pred EEEEeeEEecc
Q 017902 151 QVMVHSLNLIE 161 (364)
Q Consensus 151 eVvVe~v~FV~ 161 (364)
++.|+.|.-+.
T Consensus 65 ql~ve~l~~~g 75 (91)
T cd04482 65 TLNLEKLRVIR 75 (91)
T ss_pred EEEEEEEEECC
Confidence 58888877653
No 45
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=91.51 E-value=1.6 Score=45.63 Aligned_cols=79 Identities=18% Similarity=0.100 Sum_probs=64.4
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEE
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~ 150 (364)
.|.++|-|.. .+.+.|.+|..+|.++|... +--+.|++|.++-+.+...|+.|..|.|.|++..+. + ..
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-VKKIVTKKGDPMAFLQLEDL----SGQSEAVVFPKSYERISELLQVDARLIIWGKVDRRD----D--QV 350 (449)
T ss_pred EEEEEEEEEE-eEecccCCCCEEEEEEEEEC----CCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC----C--eE
Confidence 5788888875 77788899999999888764 556999999999999999999999999999997541 1 35
Q ss_pred EEEEeeEEec
Q 017902 151 QVMVHSLNLI 160 (364)
Q Consensus 151 eVvVe~v~FV 160 (364)
+|+|++|.-+
T Consensus 351 ~liv~~i~~l 360 (449)
T PRK07373 351 QLIVEDAEPI 360 (449)
T ss_pred EEEEeEeecH
Confidence 6777777554
No 46
>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=90.63 E-value=5.8 Score=32.91 Aligned_cols=81 Identities=11% Similarity=0.261 Sum_probs=54.3
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH--HH--HHHhhcCCCCeEEEEEEeeeCCCCcCC
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIEG 146 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL--AE--~aaqhLkKGD~V~VsGRL~s~syedk~ 146 (364)
.|.|-|+|.+ +|. .|+ ++++.|- + .+..+.|++-.+. .+ .....|..|+.|.|+|.+.... +.
T Consensus 14 ~V~v~Gwv~~---~R~--~g~-~~Fi~Lr-D---~~g~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~---~~ 80 (108)
T cd04316 14 EVTVAGWVHE---IRD--LGG-IKFVILR-D---REGIVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEP---KA 80 (108)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEEe-c---CCeeEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCC---CC
Confidence 4899999964 333 355 5555552 2 2446888887542 11 1234699999999999998753 22
Q ss_pred eEEEEEEEeeEEeccCCC
Q 017902 147 QANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 147 qt~~eVvVe~v~FV~~k~ 164 (364)
...+||.|++|..+....
T Consensus 81 ~~~~Ei~~~~i~il~~~~ 98 (108)
T cd04316 81 PNGVEIIPEEIEVLSEAK 98 (108)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 235999999999997543
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=90.53 E-value=4.7 Score=34.65 Aligned_cols=83 Identities=16% Similarity=0.300 Sum_probs=55.7
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH--HHHhhcCCCCeEEEEEEeeeCCC--C-cC
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPP--A-IE 145 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE--~aaqhLkKGD~V~VsGRL~s~sy--e-dk 145 (364)
.|.+.|+|.. +|. .|+ ++++.|-. .+..+.|++-.+... .....|+.||.|.|+|.+....- . ..
T Consensus 16 ~V~i~Gwv~~---~R~--~gk-~~Fi~LrD----~~g~~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~~~ 85 (135)
T cd04317 16 EVTLCGWVQR---RRD--HGG-LIFIDLRD----RYGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVNPK 85 (135)
T ss_pred EEEEEEeEeh---hcc--cCC-EEEEEEec----CCeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccCCC
Confidence 4999999975 333 355 56665532 234588887655333 23357999999999999986531 1 11
Q ss_pred -CeEEEEEEEeeEEeccCC
Q 017902 146 -GQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 146 -~qt~~eVvVe~v~FV~~k 163 (364)
....+||.+++|..+...
T Consensus 86 ~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 86 LPTGEIEVVASELEVLNKA 104 (135)
T ss_pred CCCCcEEEEEeEEEEEECC
Confidence 233589999999999765
No 48
>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=89.81 E-value=5 Score=31.76 Aligned_cols=81 Identities=19% Similarity=0.343 Sum_probs=51.3
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH--HHHhhcCCCCeEEEEEEeeeCCCCcCCeE
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE--~aaqhLkKGD~V~VsGRL~s~syedk~qt 148 (364)
.|.|.|+|.. +|.. |+ ++++.|- + .+.-+.|++-.+... ...+.|..|+.|.|+|.+....-......
T Consensus 1 ~V~v~Gwv~~---~R~~--g~-~~Fi~Lr-D---~~~~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~ 70 (84)
T cd04323 1 RVKVFGWVHR---LRSQ--KK-LMFLVLR-D---GTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAKQAPG 70 (84)
T ss_pred CEEEEEEEEE---EecC--CC-cEEEEEE-c---CCeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCcccCCCC
Confidence 3788899863 3333 44 3555442 2 234488877655332 23356999999999999987532111133
Q ss_pred EEEEEEeeEEecc
Q 017902 149 NVQVMVHSLNLIE 161 (364)
Q Consensus 149 ~~eVvVe~v~FV~ 161 (364)
.+||.+++|..+.
T Consensus 71 ~~Ei~~~~i~vl~ 83 (84)
T cd04323 71 GYELQVDYLEIIG 83 (84)
T ss_pred CEEEEEEEEEEEc
Confidence 5899999998764
No 49
>PRK15491 replication factor A; Provisional
Probab=89.74 E-value=1.7 Score=44.41 Aligned_cols=64 Identities=17% Similarity=0.283 Sum_probs=49.9
Q ss_pred cceEEEEEEeCCCceEEE--CCCC--cEEEEEEEEEcCCCCCeeEEEEEechHHHHHH-hhcCCCCeEEEEEE
Q 017902 69 ANSVNLIGHVDAPVQFQT--SSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQ 136 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~--T~~G--k~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aa-qhLkKGD~V~VsGR 136 (364)
++.|+|.|+|..--++|. ..+| ..++++.|+- +|--|++++|++.|+.+. .-|..|+.|.|.|.
T Consensus 67 ~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~D----eTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~ 135 (374)
T PRK15491 67 SSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVAD----ETGSIRLTLWDDLADLIKTGDIEVGKSLNISGY 135 (374)
T ss_pred CCceEEEEEEeeccCCeeeecCCCCceEEEEEEEEc----CCCeEEEEEECchhhhhccCCcCCCCEEEEeee
Confidence 589999999997656654 3455 3456666664 466799999999999986 36999999999986
No 50
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=89.55 E-value=2 Score=49.90 Aligned_cols=81 Identities=19% Similarity=0.224 Sum_probs=66.0
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEE
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~ 149 (364)
..|.++|-|. ..+.+.|.+|+.++.++|... +--+.|++|.+.=+.+...|..|..|.|.|++..+. -.
T Consensus 978 ~~V~v~G~I~-~vk~~~TKkG~~mafltLeD~----TG~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~~------~~ 1046 (1135)
T PRK05673 978 SVVTVAGLVV-SVRRRVTKRGNKMAIVTLEDL----SGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDD------GG 1046 (1135)
T ss_pred ceEEEEEEEE-EEEecccCCCCeEEEEEEEeC----CCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 4578888777 588889999999999988864 556999999998788888999999999999997642 13
Q ss_pred EEEEEeeEEecc
Q 017902 150 VQVMVHSLNLIE 161 (364)
Q Consensus 150 ~eVvVe~v~FV~ 161 (364)
.+|+|++|.-++
T Consensus 1047 ~qlii~~I~~L~ 1058 (1135)
T PRK05673 1047 LRLTAREVMDLE 1058 (1135)
T ss_pred EEEEEeecccHH
Confidence 678888887664
No 51
>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=89.43 E-value=9.1 Score=30.56 Aligned_cols=82 Identities=13% Similarity=0.152 Sum_probs=50.6
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH-HHHHHhhcCCCCeEEEEEEeeeCCCCcC-CeEE
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AHIASSHLKKDDHVHIAGQLTADPPAIE-GQAN 149 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL-AE~aaqhLkKGD~V~VsGRL~s~syedk-~qt~ 149 (364)
|.|.|+|.. +|.. .|+ ++++.|- + .. ..-++|++-.+. +-...+.|..||.|.|+|.+....-... ....
T Consensus 2 V~v~Gwv~~---~R~~-~~~-~~Fi~Lr-D-~~-g~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~~~~~~~ 73 (86)
T cd04321 2 VTLNGWIDR---KPRI-VKK-LSFADLR-D-PN-GDIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKSSEKNDE 73 (86)
T ss_pred EEEEEeEee---EeCC-CCc-eEEEEEE-C-CC-CCEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcCCCCCCC
Confidence 788898875 3321 233 5555552 2 11 234788765442 1123356999999999999987642211 1245
Q ss_pred EEEEEeeEEecc
Q 017902 150 VQVMVHSLNLIE 161 (364)
Q Consensus 150 ~eVvVe~v~FV~ 161 (364)
+||.+++|..+.
T Consensus 74 ~Ei~~~~i~il~ 85 (86)
T cd04321 74 WELVVDDIQTLN 85 (86)
T ss_pred EEEEEEEEEEec
Confidence 899999998874
No 52
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=89.37 E-value=1.4 Score=41.47 Aligned_cols=89 Identities=11% Similarity=0.153 Sum_probs=64.0
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCe
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~q 147 (364)
-+|.|.++|.|+.-+-+- ...-+..++++- +..++|+-.--+..-|-.+.+.+.++|.|.|.|++++..-+ ++.
T Consensus 44 k~nRifivGtltek~~i~---ed~~~~R~rVvD--pTGsF~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~~y~~d-~g~ 117 (196)
T COG3390 44 KVNRIFIVGTLTEKEGIG---EDREYWRIRVVD--PTGSFYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIRTYRTD-EGV 117 (196)
T ss_pred heeEEEEEEEEEeccCcC---CcccEEEEEEec--CCceEEEEcCCCChHHHHHHHhccCCceEEEecccceeecC-CCc
Confidence 399999999999754331 113366666653 34568876666777888899999999999999998865432 477
Q ss_pred EEEEEEEeeEEeccC
Q 017902 148 ANVQVMVHSLNLIEP 162 (364)
Q Consensus 148 t~~eVvVe~v~FV~~ 162 (364)
..+.|.++.|+-++.
T Consensus 118 ~~~siRpE~vs~vde 132 (196)
T COG3390 118 VLFSIRPELVSKVDE 132 (196)
T ss_pred eEEEechhhhhhcCH
Confidence 777777777766643
No 53
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=89.17 E-value=2 Score=37.32 Aligned_cols=63 Identities=19% Similarity=0.182 Sum_probs=44.1
Q ss_pred cceEEEEEEeCC--CceEEECCCCc-EEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEE-EEeee
Q 017902 69 ANSVNLIGHVDA--PVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLTA 139 (364)
Q Consensus 69 ~NsV~LIGrLg~--DPElr~T~~Gk-~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~Vs-GRL~s 139 (364)
++.|.++|.|-. ++....+.+|. .+....|+- +|--|++++|++.|+ .|+.||.|.|. |....
T Consensus 14 ~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~D----~TG~I~~tlW~~~a~----~l~~GdvV~I~na~v~~ 80 (129)
T PRK06461 14 MERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVGD----ETGRVKLTLWGEQAG----SLKEGEVVEIENAWTTL 80 (129)
T ss_pred CCceEEEEEEEEcCCceEEEeCCCceEEEEEEEEC----CCCEEEEEEeCCccc----cCCCCCEEEEECcEEee
Confidence 467888888884 33344455663 366666653 455699999999764 58999999999 55553
No 54
>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=88.92 E-value=2.2 Score=33.55 Aligned_cols=43 Identities=14% Similarity=0.075 Sum_probs=32.0
Q ss_pred cEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEE-EEeeeC
Q 017902 91 KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLTAD 140 (364)
Q Consensus 91 k~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~Vs-GRL~s~ 140 (364)
..+..+.|+- +|--|++++|+..| ...++.||.|.+. |+++..
T Consensus 22 ~~~~~~~l~D----~TG~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~~ 65 (82)
T cd04491 22 GKVQSGLVGD----ETGTIRFTLWDEKA---ADDLEPGDVVRIENAYVREF 65 (82)
T ss_pred eEEEEEEEEC----CCCEEEEEEECchh---cccCCCCCEEEEEeEEEEec
Confidence 3444444443 35579999999988 6779999999999 777654
No 55
>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=88.72 E-value=9.2 Score=31.66 Aligned_cols=77 Identities=16% Similarity=0.203 Sum_probs=51.1
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH--HHH---HHhhcCCCCeEEEEEEeeeCCCCcCC
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHI---ASSHLKKDDHVHIAGQLTADPPAIEG 146 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL--AE~---aaqhLkKGD~V~VsGRL~s~syedk~ 146 (364)
|.|-|+|-. +|. .|+ ++++.|... +.-++|++-... .+. +.+.|..||.|.|+|.+....-
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-LSFADLQDE----SGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKTKT---- 67 (108)
T ss_pred EEEEEEEEE---Eec--CCC-eEEEEEEEC----CeEEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEecCC----
Confidence 678888874 443 455 555555442 356888886442 122 2223999999999999886421
Q ss_pred eEEEEEEEeeEEeccCC
Q 017902 147 QANVQVMVHSLNLIEPT 163 (364)
Q Consensus 147 qt~~eVvVe~v~FV~~k 163 (364)
..+||.++++..+.+.
T Consensus 68 -g~~El~~~~~~ils~~ 83 (108)
T cd04322 68 -GELSIFVKEFTLLSKS 83 (108)
T ss_pred -CCEEEEeCEeEEeecc
Confidence 2379999999998654
No 56
>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=88.62 E-value=8.4 Score=32.44 Aligned_cols=70 Identities=23% Similarity=0.196 Sum_probs=49.0
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcC--CCC--CeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCC
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--ASH--SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~--~~~--T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~s 141 (364)
|+|.|.|-|-+..- ..+ ..+.....+|...+ ++. |+|+-+-+-|.||-.+.+|.++=.-|.|+|-|++..
T Consensus 1 MLN~V~LEG~IeS~---kWS-~~KTGF~VTI~QkR~FG~r~FTDyyViYAN~QL~~ELEky~~k~k~isieG~L~TY~ 74 (104)
T PF11506_consen 1 MLNTVFLEGEIESY---KWS-KKKTGFLVTIKQKRKFGERTFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRTYL 74 (104)
T ss_dssp --EEEEEEEEEEEE---EE--TTSSEEEEEEEEEEEETTEEEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEEEE
T ss_pred CcceEEEeceeehh---ccc-ccCceEEEEEeehhhhccccceeEEEEEECCeeehhHHHhhhhceEEEEeeehhhHH
Confidence 68999999987631 222 22222333444444 344 589999999999999999999999999999999763
No 57
>cd04319 PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Pyrococcus horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The archeal enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose.
Probab=88.09 E-value=12 Score=30.80 Aligned_cols=80 Identities=24% Similarity=0.330 Sum_probs=52.3
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHH---HHhhcCCCCeEEEEEEeeeCCCCcCCeE
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI---ASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~---aaqhLkKGD~V~VsGRL~s~syedk~qt 148 (364)
|.+.|+|.+ +|. .|+. +++.| +. .+..+.|++-.++++. ....|..||.|.|+|.+.... +...
T Consensus 2 V~v~Gwv~~---~R~--~gk~-~Fi~l--rD--~~g~iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~---~~~~ 68 (103)
T cd04319 2 VTLAGWVYR---KRE--VGKK-AFIVL--RD--STGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADP---RAPG 68 (103)
T ss_pred EEEEEEEEe---EEc--CCCe-EEEEE--ec--CCeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECC---CCCC
Confidence 788999964 333 3553 44444 22 2345888886543222 224688999999999998753 2223
Q ss_pred EEEEEEeeEEeccCCC
Q 017902 149 NVQVMVHSLNLIEPTS 164 (364)
Q Consensus 149 ~~eVvVe~v~FV~~k~ 164 (364)
.+||.+++++.+....
T Consensus 69 ~~Ei~~~~i~vl~~a~ 84 (103)
T cd04319 69 GAEVHGEKLEIIQNVE 84 (103)
T ss_pred CEEEEEEEEEEEecCC
Confidence 5999999999997653
No 58
>PRK15491 replication factor A; Provisional
Probab=87.97 E-value=2.2 Score=43.60 Aligned_cols=71 Identities=20% Similarity=0.230 Sum_probs=50.7
Q ss_pred ceEEEEEEeCCCceEEEC--CCCcE--EEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEE-EeeeCCCCc
Q 017902 70 NSVNLIGHVDAPVQFQTS--SDGKH--WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPAI 144 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T--~~Gk~--va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsG-RL~s~syed 144 (364)
+.|.++|+|..--++|.. .+|.. +....|+- +|--|++++|++.|+.. .-|..||.|+|.+ +.+...|.+
T Consensus 177 ~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~D----etG~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~~~~~g 251 (374)
T PRK15491 177 SDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGD----ETGKIRVTLWDGKTDLA-DKLENGDSVEIINGYARTNNYSQ 251 (374)
T ss_pred ccEEEEEEEEEccCceEEEecCCCeEEEEEEEEEC----CCCeEEEEEecchhccc-ccCCCCCEEEEEeceEEEeccCC
Confidence 459999999876555433 56763 44444432 34459999999999987 6699999999966 577666644
Q ss_pred C
Q 017902 145 E 145 (364)
Q Consensus 145 k 145 (364)
+
T Consensus 252 ~ 252 (374)
T PRK15491 252 E 252 (374)
T ss_pred C
Confidence 3
No 59
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=87.94 E-value=4.5 Score=33.48 Aligned_cols=65 Identities=15% Similarity=0.117 Sum_probs=47.8
Q ss_pred ECCCCcEEEE-EEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEEEEEEe
Q 017902 86 TSSDGKHWAG-TVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVH 155 (364)
Q Consensus 86 ~T~~Gk~va~-f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~eVvVe 155 (364)
.+.+| .-.. ++|- ..+.-+..|.+.+||+.++.+. .++.||.|.|+=.|+.+.|+ ++.+..|.|=
T Consensus 16 ~s~~G-w~Kre~Vle-t~~qYP~~i~f~~~~dk~~~l~-~~~~Gd~V~Vsf~i~~RE~~--gr~fn~i~aW 81 (84)
T PF11325_consen 16 VSKNG-WKKREFVLE-TEEQYPQKICFEFWGDKIDLLD-NFQVGDEVKVSFNIEGREWN--GRWFNSIRAW 81 (84)
T ss_pred CcCCC-cEEEEEEEe-CCCcCCceEEEEEEcchhhhhc-cCCCCCEEEEEEEeeccEec--ceEeeEeEEE
Confidence 45678 4444 4444 4455578999999998888754 58999999999999999997 5555555553
No 60
>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=87.11 E-value=3.1 Score=30.60 Aligned_cols=60 Identities=12% Similarity=0.154 Sum_probs=38.7
Q ss_pred EEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 74 LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
+.|+|..- ...... |..+..+.+.. ++--+.|++|+... .+...+++|+.|+|.|++...
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 44555555543 35679999998432 445779999999999999864
No 61
>PRK07211 replication factor A; Reviewed
Probab=86.54 E-value=2 Score=45.62 Aligned_cols=66 Identities=20% Similarity=0.243 Sum_probs=47.7
Q ss_pred cceEEEEEEeCCCceEEEC--CCCc--EEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEE-Eeee
Q 017902 69 ANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTA 139 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~~Gk--~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsG-RL~s 139 (364)
.+.|.|+|+|..--++|.. .+|+ .+..+.|+- +|-.|++++|++.|+.+ ..|..|+.|+|.| +++.
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 5789999999865565533 3452 344454543 35469999999999998 6799999999975 5544
No 62
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=86.22 E-value=4.7 Score=40.45 Aligned_cols=73 Identities=15% Similarity=0.105 Sum_probs=53.7
Q ss_pred eCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEEEEEEeeE
Q 017902 78 VDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSL 157 (364)
Q Consensus 78 Lg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~eVvVe~v 157 (364)
|.++.+++.+.+|+....++|+-+ |--|+..+|+..-+. ...+..|+.|.|.|++... .+. .+|.+..+
T Consensus 19 lv~~~~~~~~knG~~yl~l~l~D~----tG~I~ak~W~~~~~~-~~~~~~g~vv~v~G~v~~y--~g~----~Ql~i~~i 87 (314)
T PRK13480 19 LIKSATKGVASNGKPFLTLILQDK----SGDIEAKLWDVSPED-EATYVPETIVHVKGDIINY--RGR----KQLKVNQI 87 (314)
T ss_pred EEEEceeeecCCCCeEEEEEEEcC----CcEEEEEeCCCChhh-HhhcCCCCEEEEEEEEEEE--CCc----ceEEEEEe
Confidence 455789999999999888888753 566999999976444 5679999999999999854 333 33444455
Q ss_pred Eecc
Q 017902 158 NLIE 161 (364)
Q Consensus 158 ~FV~ 161 (364)
..++
T Consensus 88 ~~~~ 91 (314)
T PRK13480 88 RLAT 91 (314)
T ss_pred EECC
Confidence 4443
No 63
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=85.20 E-value=5.4 Score=46.35 Aligned_cols=80 Identities=15% Similarity=0.124 Sum_probs=65.0
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEE
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~ 150 (364)
.|.++|-|.. .+.+.|..|..+|.++|.. .+--+.|++|.+.-+.+...|..|..|.|.|++..+. ...
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 5888888874 6778889999999988875 3566999999999999999999999999999997641 135
Q ss_pred EEEEeeEEecc
Q 017902 151 QVMVHSLNLIE 161 (364)
Q Consensus 151 eVvVe~v~FV~ 161 (364)
+|+|++|.-++
T Consensus 1014 ~~~~~~i~~l~ 1024 (1107)
T PRK06920 1014 QWIVNGLYPLE 1024 (1107)
T ss_pred EEEEeecccHH
Confidence 77888776553
No 64
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=84.74 E-value=6.3 Score=46.03 Aligned_cols=80 Identities=15% Similarity=0.115 Sum_probs=64.9
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEE
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~ 149 (364)
..|.++|-|.. .+.+.|.+|..+|.++|.-. +--+.|++|-++=+.+...|..|..|.|+|++..+. ..
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-MKQVTTRKGDRMAILQLEDL----TGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRD------DR 1069 (1170)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEEEC----CCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 35888888874 77788899999999888763 556999999999999999999999999999997542 13
Q ss_pred EEEEEeeEEec
Q 017902 150 VQVMVHSLNLI 160 (364)
Q Consensus 150 ~eVvVe~v~FV 160 (364)
.+|+|++|.-+
T Consensus 1070 ~~~~~~~i~~l 1080 (1170)
T PRK07374 1070 VQLIIDDCREI 1080 (1170)
T ss_pred EEEEEeeeecH
Confidence 56777777655
No 65
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=84.70 E-value=2.9 Score=43.87 Aligned_cols=79 Identities=13% Similarity=0.163 Sum_probs=62.0
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeE
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt 148 (364)
+-.|-+-|-|.. ++.-.+| -.+|+|-- +.--|+|+||...+..+..-++-|+.|.|.|++..+.. +-
T Consensus 23 ~~~V~v~GEISn---~t~~~sg--H~YFtLKD----~~A~i~c~mf~~~~~~l~f~p~eG~~V~v~G~is~Y~~----rG 89 (440)
T COG1570 23 LGQVWVRGEISN---FTRPASG--HLYFTLKD----ERAQIRCVMFKGNNRRLKFRPEEGMQVLVRGKISLYEP----RG 89 (440)
T ss_pred CCeEEEEEEecC---CccCCCc--cEEEEEcc----CCceEEEEEEcCcccccCCCccCCCEEEEEEEEEEEcC----CC
Confidence 456788888774 3333556 56777753 46789999999999999988999999999999998864 55
Q ss_pred EEEEEEeeEEec
Q 017902 149 NVQVMVHSLNLI 160 (364)
Q Consensus 149 ~~eVvVe~v~FV 160 (364)
.|+|+++++..-
T Consensus 90 ~YQi~~~~~~p~ 101 (440)
T COG1570 90 DYQIVAESMEPA 101 (440)
T ss_pred ceEEEEecCCcC
Confidence 689999988743
No 66
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=84.69 E-value=6.1 Score=46.07 Aligned_cols=81 Identities=14% Similarity=0.147 Sum_probs=64.9
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEE
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~ 150 (364)
.|.++|-|.. .+.+.|.+|..+|.++|... +--+.|++|.+.-+.+...|..|..|.|+|++..+. ++ ..
T Consensus 993 ~v~v~g~i~~-~~~~~tk~G~~maf~~leD~----~g~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~---~~--~~ 1062 (1151)
T PRK06826 993 KVIIGGIITE-VKRKTTRNNEMMAFLTLEDL----YGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE---DE--EP 1062 (1151)
T ss_pred EEEEEEEEEE-eEeeccCCCCeEEEEEEEEC----CCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC---CC--ce
Confidence 5778888874 77788999999999888753 556999999999899999999999999999997542 11 36
Q ss_pred EEEEeeEEecc
Q 017902 151 QVMVHSLNLIE 161 (364)
Q Consensus 151 eVvVe~v~FV~ 161 (364)
+++|+.+.-+.
T Consensus 1063 ~~~~~~~~~l~ 1073 (1151)
T PRK06826 1063 KLICEEIEPLV 1073 (1151)
T ss_pred EEEEeeeecHh
Confidence 77788776554
No 67
>PRK08402 replication factor A; Reviewed
Probab=84.41 E-value=4.4 Score=41.34 Aligned_cols=72 Identities=14% Similarity=0.137 Sum_probs=51.3
Q ss_pred cceEEEEEEeCCCceEE--ECCCC--cEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCc
Q 017902 69 ANSVNLIGHVDAPVQFQ--TSSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr--~T~~G--k~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syed 144 (364)
+..|+++|+|..--+.| ...+| ..|.+.+|+- +|-.+++++|++.|......+..||.|.|.|--..+.|.+
T Consensus 72 ~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~D----eTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a~V~e~~~G 147 (355)
T PRK08402 72 MRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIYD----DTGRARVVLWDAKVAKYYNKINVGDVIKVIDAQVRESLSG 147 (355)
T ss_pred CceeeEEEEEEEccCCceeeccCCCcceEEEEEEEc----CCCeEEEEEechhhhhhcccCCCCCEEEEECCEEeecCCC
Confidence 47899999998743332 33345 3466666664 4778999999999987666799999999986544444433
No 68
>PRK14699 replication factor A; Provisional
Probab=84.06 E-value=2.6 Score=44.62 Aligned_cols=64 Identities=17% Similarity=0.287 Sum_probs=48.6
Q ss_pred cceEEEEEEeCCCceEEEC--CCCc--EEEEEEEEEcCCCCCeeEEEEEechHHHHHHh-hcCCCCeEEEEEE
Q 017902 69 ANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASS-HLKKDDHVHIAGQ 136 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~~Gk--~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaq-hLkKGD~V~VsGR 136 (364)
...|.|.|+|-.=-..|.. .+|. .++++.|+- +|--|++++|+++|+.+.. .|++||.|.|.|.
T Consensus 67 ~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~iaD----eTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~ 135 (484)
T PRK14699 67 SGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVGD----ETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY 135 (484)
T ss_pred CceEEEEEEEEEecCceEEecCCCCceEEEEEEEec----CCCeEEEEEecCccchhhhcCCCCCCEEEEcce
Confidence 5789999999875444433 3453 344455553 5778999999999998887 6999999999995
No 69
>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=83.82 E-value=4.8 Score=35.17 Aligned_cols=75 Identities=15% Similarity=0.031 Sum_probs=51.8
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
-..|.+||-|..-...+.+.+...++.+.|+-.......=+.|.+|++.++.+-. +..||.|.+.+ ++...|.++
T Consensus 14 ~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~~~~l~v~~F~~~~~~LP~-v~~GDVIll~~-~kv~~~~g~ 88 (138)
T cd04497 14 GGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNEESLPI-VKVGDIILLRR-VKIQSYNGK 88 (138)
T ss_pred CCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCCCCcEEEEEECCChhhCCC-CCCCCEEEEEE-EEEEEECCc
Confidence 4568899988765554555444566666666433222456999999999998865 59999999997 555555544
No 70
>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=82.81 E-value=18 Score=29.39 Aligned_cols=65 Identities=18% Similarity=0.257 Sum_probs=41.1
Q ss_pred EEEEEEeCCCceEE--ECCC-CcE--EEEEEEEEcCCCCC-eeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCC
Q 017902 72 VNLIGHVDAPVQFQ--TSSD-GKH--WAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (364)
Q Consensus 72 V~LIGrLg~DPElr--~T~~-Gk~--va~f~LAv~~~~~T-~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~sye 143 (364)
|.++|.|..--+.+ .+.+ |+. ...+.|+- ++ .-+.|++||+.|+...... |+.|.+.| +....|.
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 56777765433332 2233 543 33344442 23 3789999999999987655 99999998 4455554
No 71
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=82.59 E-value=10 Score=45.27 Aligned_cols=73 Identities=19% Similarity=0.139 Sum_probs=58.2
Q ss_pred ccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH--HHHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE--~aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
..+.|.+.|.|- +.|.+.+.+|+.+..|.|.- .++-|.|..|.+-.+ .....+++|+.|.|.|.+..+.|.++
T Consensus 235 ~~~~v~i~G~if-~~e~~~~k~~~~~~~~~~td----~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~~~~ 309 (1437)
T PRK00448 235 EERRVVVEGYVF-KVEIKELKSGRHILTFKITD----YTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTFTRD 309 (1437)
T ss_pred cCCeEEEEEEEE-EEEEEeccCCCEEEEEEEEc----CCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCCCCc
Confidence 357899999996 58999999999888887753 467788888873321 23356999999999999999998765
No 72
>PLN02850 aspartate-tRNA ligase
Probab=79.31 E-value=18 Score=38.82 Aligned_cols=84 Identities=17% Similarity=0.249 Sum_probs=55.3
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH---HHHH---HhhcCCCCeEEEEEEeeeCCCC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIA---SSHLKKDDHVHIAGQLTADPPA 143 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL---AE~a---aqhLkKGD~V~VsGRL~s~sye 143 (364)
..|.|.|+|.. ....|+ ++++.|-.. +..|+|++-.+. .+.+ +.+|..||.|.|+|.+....-.
T Consensus 82 ~~V~v~Grv~~-----~R~~gk-~~Fl~Lrd~----~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~ 151 (530)
T PLN02850 82 SEVLIRGRVHT-----IRGKGK-SAFLVLRQS----GFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKKP 151 (530)
T ss_pred CEEEEEEEEEE-----EccCCC-eEEEEEEeC----CcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccCcC
Confidence 45999999963 334566 565555432 446888886542 2222 3579999999999999853211
Q ss_pred cCC-eEEEEEEEeeEEeccCC
Q 017902 144 IEG-QANVQVMVHSLNLIEPT 163 (364)
Q Consensus 144 dk~-qt~~eVvVe~v~FV~~k 163 (364)
-++ ...++|.|++|..|...
T Consensus 152 ~~~~t~~~El~~~~i~vls~a 172 (530)
T PLN02850 152 VKGTTQQVEIQVRKIYCVSKA 172 (530)
T ss_pred CCCCCccEEEEEeEEEEEeCC
Confidence 111 12799999999988765
No 73
>PRK12366 replication factor A; Reviewed
Probab=79.18 E-value=6.3 Score=42.97 Aligned_cols=63 Identities=22% Similarity=0.271 Sum_probs=48.1
Q ss_pred cceEEEEEEeCCCceEE--ECCCC--cEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEE
Q 017902 69 ANSVNLIGHVDAPVQFQ--TSSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr--~T~~G--k~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGR 136 (364)
++.|+|.|+|..--++| ...+| ..++.+.|+- +|--|++++|++.|+. ...|..||.|.|.|.
T Consensus 73 ~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~D----etG~Ir~t~W~~~~~~-~~~le~G~v~~i~~~ 139 (637)
T PRK12366 73 QINVEITGRIIEISNIKTFTRKDGSTGKLANITIAD----NTGTIRLTLWNDNAKL-LKGLKEGDVIKIENA 139 (637)
T ss_pred CcceEEEEEEEEccCCeEEECCCCCccEEEEEEEEc----CCCEEEEEEEchhhhh-hccCCCCCEEEEecc
Confidence 58899999998665555 33455 3456666664 3446999999999987 478999999999985
No 74
>PRK12366 replication factor A; Reviewed
Probab=79.10 E-value=11 Score=41.02 Aligned_cols=80 Identities=19% Similarity=0.218 Sum_probs=52.8
Q ss_pred ceEEEEEEeCCCceEEEC--CCCc-EEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEE-EeeeCCCCcC
Q 017902 70 NSVNLIGHVDAPVQFQTS--SDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPAIE 145 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T--~~Gk-~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsG-RL~s~syedk 145 (364)
+.++|.|||..--++|.. .+|. .+..+.|+- ++--|+++||++.|+.... |..||.|+|+| +++ .|...
T Consensus 292 ~~~~I~grV~~~~~~R~f~~~~g~gkv~s~~l~D----~tG~IR~t~w~~~~d~~~~-l~~G~vy~is~~~vk--~y~~~ 364 (637)
T PRK12366 292 EEVDVKGRIIAISDKREVERDDRTAEVQDIELAD----GTGRVRVSFWGEKAKILEN-LKEGDAVKIENCKVR--TYYDN 364 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCcEEEEEEEEEc----CCCeEEEEEeCchhhhhcc-cCCCCEEEEecCEEe--ecccc
Confidence 489999999998888765 3454 233333332 2335999999999998865 78999999998 444 33321
Q ss_pred -CeEEEEEEEee
Q 017902 146 -GQANVQVMVHS 156 (364)
Q Consensus 146 -~qt~~eVvVe~ 156 (364)
+...|++.+..
T Consensus 365 ~~~~~~El~~~~ 376 (637)
T PRK12366 365 EGEKRVDLNAGY 376 (637)
T ss_pred CCCcCEEEEcCC
Confidence 23335554433
No 75
>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=78.62 E-value=22 Score=28.26 Aligned_cols=75 Identities=19% Similarity=0.108 Sum_probs=47.6
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH---HHHhhcCCCCeEEEEEEeeeCCCCcCCeE
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE---~aaqhLkKGD~V~VsGRL~s~syedk~qt 148 (364)
|.++|.|.. .+.. +. ...++|.- .|--|.|.+|..-.+ ...+.+..|+.|.|.|+++... +
T Consensus 2 v~~vG~V~~-~~~~----~~-~~~~tL~D----~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~--g---- 65 (95)
T cd04478 2 VTLVGVVRN-VEEQ----ST-NITYTIDD----GTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQ--G---- 65 (95)
T ss_pred EEEEEEEEe-eeEc----cc-EEEEEEEC----CCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccC--C----
Confidence 678888874 2222 22 23333332 344599999987654 3567899999999999998764 1
Q ss_pred EEEEEEeeEEeccC
Q 017902 149 NVQVMVHSLNLIEP 162 (364)
Q Consensus 149 ~~eVvVe~v~FV~~ 162 (364)
..+|.+..+..++.
T Consensus 66 ~~ql~i~~i~~v~d 79 (95)
T cd04478 66 KKSIMAFSIRPVTD 79 (95)
T ss_pred eeEEEEEEEEEeCC
Confidence 24455555655543
No 76
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=78.51 E-value=12 Score=43.31 Aligned_cols=77 Identities=13% Similarity=0.116 Sum_probs=60.3
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEE
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~ 150 (364)
.|.+.|-|.. .+.+.|.+| ++.++|.- .+.-+.|++|.++-+.+...|+.|..|.|.|+++.+ ++ ..
T Consensus 955 ~v~v~g~i~~-~~~~~TkkG--maf~~leD----~~g~~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~----~~--~~ 1021 (1046)
T PRK05672 955 RVRVAGVVTH-RQRPGTASG--VTFLTLED----ETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNA----EG--VR 1021 (1046)
T ss_pred EEEEEEEEEE-EEEecCCCc--eEEEEEec----CCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CC--eE
Confidence 3777777765 666778888 66666653 467799999999999999999999999999999764 12 25
Q ss_pred EEEEeeEEec
Q 017902 151 QVMVHSLNLI 160 (364)
Q Consensus 151 eVvVe~v~FV 160 (364)
+|+|++|.-+
T Consensus 1022 ~~~~~~i~~~ 1031 (1046)
T PRK05672 1022 HLVADRLEDL 1031 (1046)
T ss_pred EEEEeeeech
Confidence 7888888655
No 77
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=76.83 E-value=17 Score=42.18 Aligned_cols=81 Identities=7% Similarity=0.180 Sum_probs=63.4
Q ss_pred ceEEEEEEeCCCceEEECC-CCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeE
Q 017902 70 NSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~-~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt 148 (364)
+.+.++|.|.. +....|. .|+.++.++|... +.-+.|++|.+.-+.+...|..|..|.|.|++..+. .
T Consensus 885 ~~~~~~~~i~~-~~~~~tk~~g~~maf~~leD~----~g~ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~~------~ 953 (1034)
T PRK07279 885 SEATILVQIQS-IRVIRTKTKGQQMAFLSVTDT----KKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQERD------G 953 (1034)
T ss_pred CcceEEEEEEE-EEEEEEcCCCCeEEEEEEeeC----CCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------C
Confidence 34788888864 5555666 8998988888753 556999999999888989999999999999997641 1
Q ss_pred EEEEEEeeEEecc
Q 017902 149 NVQVMVHSLNLIE 161 (364)
Q Consensus 149 ~~eVvVe~v~FV~ 161 (364)
..+|+|+++.-+.
T Consensus 954 ~~~l~~~~i~~l~ 966 (1034)
T PRK07279 954 RLQMVLQQIQEAS 966 (1034)
T ss_pred eeEEEEeeeeccc
Confidence 3677888876554
No 78
>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=76.80 E-value=7.8 Score=34.06 Aligned_cols=75 Identities=11% Similarity=0.047 Sum_probs=54.8
Q ss_pred cceEEEEEEeCCCceE--EECCCCcEEEEEEEEEcCC-CCC---eeEEEEEechHHHHHHhhcCC-CCeEEEEEEeeeCC
Q 017902 69 ANSVNLIGHVDAPVQF--QTSSDGKHWAGTVIVQHAA-SHS---LWIPILFEGDLAHIASSHLKK-DDHVHIAGQLTADP 141 (364)
Q Consensus 69 ~NsV~LIGrLg~DPEl--r~T~~Gk~va~f~LAv~~~-~~T---~wI~Vv~wGkLAE~aaqhLkK-GD~V~VsGRL~s~s 141 (364)
-..|++||=|...-.. +.+.++..++.+.|.-..- ... ..+.|.+|.+..+.+-. ++. ||.|.+. |++...
T Consensus 12 ~~~vnvigVV~~~~~p~~~~t~g~D~~~tl~i~D~S~~~~~~~~~~l~v~iF~~~~~~LP~-v~~~GDii~l~-r~kv~~ 89 (146)
T PF02765_consen 12 GKFVNVIGVVVDFSPPNPKKTRGTDYMCTLTITDPSLNDSNQKLSGLTVNIFRPHKESLPN-VKSVGDIIRLR-RVKVQS 89 (146)
T ss_dssp SEEEEEEEEEEEEEEECTEEESSSCEEEEEEEEBTTCSCSSCCCCEEEEEEEESSHHHSCT-TCSTTHEEEEE-EEEEEE
T ss_pred CCEEEEEEEEEEccCCcceEcCCCcEEEEEEEECCCCCccccccCCEEEEEECCCHHHCCC-CCCCCCEEEEE-EEEEEE
Confidence 3468899988866555 6666688899998864332 112 78999999998888854 556 9988887 777777
Q ss_pred CCcC
Q 017902 142 PAIE 145 (364)
Q Consensus 142 yedk 145 (364)
|.++
T Consensus 90 ~~~~ 93 (146)
T PF02765_consen 90 YNGK 93 (146)
T ss_dssp ETTE
T ss_pred ECCE
Confidence 7665
No 79
>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=76.47 E-value=29 Score=35.99 Aligned_cols=82 Identities=12% Similarity=0.203 Sum_probs=54.3
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEech-HHHH---HHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGk-LAE~---aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
..|.|.|+|.+ ....|+ ++.+.|-.. +.-|+|++-.. .++. ....|..||.|.|+|.+.... .
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-----IRDLGG-LIFVLLRDR----EGLIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKE---K 79 (428)
T ss_pred CEEEEEEEEEE-----EecCCC-cEEEEEEeC----CeeEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecC---C
Confidence 46899999963 333455 455555432 33588887643 2211 224699999999999998542 1
Q ss_pred CeEEEEEEEeeEEeccCCC
Q 017902 146 GQANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 146 ~qt~~eVvVe~v~FV~~k~ 164 (364)
....++|.|+++..+....
T Consensus 80 ~~~~~el~~~~i~vl~~~~ 98 (428)
T TIGR00458 80 APGGFEIIPTKIEVINEAK 98 (428)
T ss_pred CCCcEEEEEeEEEEEecCC
Confidence 2235999999999997653
No 80
>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=76.25 E-value=13 Score=43.77 Aligned_cols=72 Identities=11% Similarity=0.068 Sum_probs=57.8
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH--HHHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE--~aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
.+.|++.|.|- +.|.+.+.+|+.+..|.|.- .++-|.|..|...-+ .....+++|+.|.|.|.+..++|..+
T Consensus 7 ~~~~~~~g~i~-~~~~~~~~~~~~~~~~~~~d----~~~s~~~k~f~~~~~~~~~~~~~~~g~~~~~~g~~~~d~~~~~ 80 (1213)
T TIGR01405 7 ENRVKIEGYIF-KIEIKELKSGRTLLKIKVTD----YTDSLILKKFLKSEEDPEKFDGIKIGKWVRARGKIELDNFSRD 80 (1213)
T ss_pred CCeEEEEEEEE-EEEeEeccCCCEEEEEEEEc----CCCCEEEEEecccccchHHHhhcCCCcEEEEEEEEeccCCCCc
Confidence 58899999996 58999999999888887773 467888888884322 12256999999999999999998765
No 81
>PLN02903 aminoacyl-tRNA ligase
Probab=75.08 E-value=65 Score=35.73 Aligned_cols=83 Identities=19% Similarity=0.299 Sum_probs=54.4
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH-H--HHHHhhcCCCCeEEEEEEeeeCCCC--c-
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-A--HIASSHLKKDDHVHIAGQLTADPPA--I- 144 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL-A--E~aaqhLkKGD~V~VsGRL~s~sye--d- 144 (364)
.|+|.|+|.+ +|. .|+ ++++.|-. .+-.++|++-.+. . ...++.|+.|+.|.|+|.+..+.-. +
T Consensus 74 ~V~l~GWV~~---~R~--~G~-l~FidLRD----~~G~iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V~~r~~~~~n~ 143 (652)
T PLN02903 74 RVTLCGWVDL---HRD--MGG-LTFLDVRD----HTGIVQVVTLPDEFPEAHRTANRLRNEYVVAVEGTVRSRPQESPNK 143 (652)
T ss_pred EEEEEEEEEE---Eec--CCC-cEEEEEEc----CCccEEEEEeCCccHHHHHHHhcCCCCCEEEEEEEEEeCCCcCcCC
Confidence 5999999964 444 343 44444432 2334788886542 2 2234679999999999999876321 1
Q ss_pred CCe-EEEEEEEeeEEeccCC
Q 017902 145 EGQ-ANVQVMVHSLNLIEPT 163 (364)
Q Consensus 145 k~q-t~~eVvVe~v~FV~~k 163 (364)
+.. -.+||.|++|+.+...
T Consensus 144 ~~~tGeiEl~~~~i~VL~~a 163 (652)
T PLN02903 144 KMKTGSVEVVAESVDILNVV 163 (652)
T ss_pred CCCCCCEEEEEeEEEEEecC
Confidence 222 2499999999999865
No 82
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=73.40 E-value=31 Score=35.79 Aligned_cols=82 Identities=20% Similarity=0.344 Sum_probs=54.1
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH---HHHHHhhcCCCCeEEEEEEeeeCCCCcCC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL---AE~aaqhLkKGD~V~VsGRL~s~syedk~ 146 (364)
+.|.|.|+|.. +|. .|+ ++++.|-.. +.-|+|++-.+. .....+.|..||.|.|+|.+.... ..
T Consensus 17 ~~V~i~GrV~~---~R~--~gk-~~Fl~LrD~----~g~iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~---~~ 83 (437)
T PRK05159 17 EEVTLAGWVHE---IRD--LGG-IAFLILRDR----SGIIQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANP---KA 83 (437)
T ss_pred CEEEEEEEeEe---eec--CCC-eEEEEEEcC----CcEEEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCC---CC
Confidence 56999999963 333 354 444444322 234888876542 111235699999999999999653 12
Q ss_pred eEEEEEEEeeEEeccCCC
Q 017902 147 QANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 147 qt~~eVvVe~v~FV~~k~ 164 (364)
...++|.|++|..+....
T Consensus 84 ~~~~el~~~~i~vls~a~ 101 (437)
T PRK05159 84 PGGVEVIPEEIEVLNKAE 101 (437)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 345899999999997654
No 83
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=73.11 E-value=41 Score=36.42 Aligned_cols=85 Identities=13% Similarity=0.207 Sum_probs=55.4
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEe--chHHHHHH---hhcCCCCeEEEEEEeeeCCCC-
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFE--GDLAHIAS---SHLKKDDHVHIAGQLTADPPA- 143 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~w--GkLAE~aa---qhLkKGD~V~VsGRL~s~sye- 143 (364)
..|.|.|+|.+ +|. .|+ ++++.|-. .+..|+|++- +...+.+. ..|..||.|.|+|.+....-.
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 45999999963 333 455 45554443 2346888773 22333332 459999999999999875322
Q ss_pred cC-CeEEEEEEEeeEEeccCCC
Q 017902 144 IE-GQANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 144 dk-~qt~~eVvVe~v~FV~~k~ 164 (364)
.. .+..++|.|++|..|....
T Consensus 149 ~~~~~~~~El~v~~i~vls~a~ 170 (550)
T PTZ00401 149 TSTSHSDIELKVKKIHTVTESL 170 (550)
T ss_pred CCCCCccEEEEeeEEEEEeCCC
Confidence 12 4457999999998887653
No 84
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=71.82 E-value=33 Score=36.19 Aligned_cols=81 Identities=17% Similarity=0.236 Sum_probs=56.3
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEec-hHHHHH--HhhcCCCCeEEEEEEeeeCCCCcCC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLAHIA--SSHLKKDDHVHIAGQLTADPPAIEG 146 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wG-kLAE~a--aqhLkKGD~V~VsGRL~s~syedk~ 146 (364)
-.|.|-|.|-. + ...|+ ++.+.|-. .+.+|+|++.. +..+.+ +.+|..++.|.|+|.+.-.. +.
T Consensus 17 ~~V~v~GWV~~---~--R~~g~-i~Fi~lrD----gsg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~---~a 83 (435)
T COG0017 17 QEVTVRGWVHN---K--RDLGK-IIFLVLRD----GSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASP---KA 83 (435)
T ss_pred cEEEEEEEeee---e--cccCC-eEEEEEEc----CCcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCC---CC
Confidence 46888898874 2 23444 44443332 46679999974 232222 56899999999999998663 24
Q ss_pred eEEEEEEEeeEEeccCC
Q 017902 147 QANVQVMVHSLNLIEPT 163 (364)
Q Consensus 147 qt~~eVvVe~v~FV~~k 163 (364)
...+||.|++|+.+...
T Consensus 84 ~~g~El~v~~i~Vl~~a 100 (435)
T COG0017 84 PQGFELQVEKIEVLGEA 100 (435)
T ss_pred CCCEEEEEEEEEEeecc
Confidence 55799999999999776
No 85
>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=71.40 E-value=49 Score=34.68 Aligned_cols=84 Identities=17% Similarity=0.203 Sum_probs=55.0
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH---HHHhhcCCCCeEEEEEEeeeCCCCcCC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEG 146 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE---~aaqhLkKGD~V~VsGRL~s~syedk~ 146 (364)
..|+|.|+|. .+| ..|+ ++.+.| +.+...--++|++-.+.++ ...+.|..||.|.|+|.+.... ..
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 4599999996 345 3344 444444 2222115688888665222 2335799999999999998632 11
Q ss_pred eEEEEEEEeeEEeccCCC
Q 017902 147 QANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 147 qt~~eVvVe~v~FV~~k~ 164 (364)
...++|.|++++.+....
T Consensus 86 ~~~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 86 GQPVELQVKKIEVVGEAE 103 (453)
T ss_pred CCCEEEEEeEEEEEecCC
Confidence 235899999999997654
No 86
>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=69.49 E-value=52 Score=25.67 Aligned_cols=78 Identities=13% Similarity=0.237 Sum_probs=47.3
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHH-HHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEE
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLA-E~aaqhLkKGD~V~VsGRL~s~syedk~qt~~ 150 (364)
|.+-|+|. .+|. .|+ +++..| +.+....=++|++-.+.. -...+.|..||.|.|+|.+....- ....+
T Consensus 2 v~v~Gwv~---~~R~--~g~-~~Fi~L--rD~s~~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~---~~~~~ 70 (82)
T cd04318 2 VTVNGWVR---SVRD--SKK-ISFIEL--NDGSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG---AKQPF 70 (82)
T ss_pred EEEEEeEE---EEEc--CCc-EEEEEE--ECCCCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC---CCCCE
Confidence 67888885 2333 344 333333 221111237777755422 123457999999999999987531 12468
Q ss_pred EEEEeeEEec
Q 017902 151 QVMVHSLNLI 160 (364)
Q Consensus 151 eVvVe~v~FV 160 (364)
||.++++..+
T Consensus 71 El~~~~i~il 80 (82)
T cd04318 71 ELQAEKIEVL 80 (82)
T ss_pred EEEEEEEEEe
Confidence 9999988766
No 87
>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=67.71 E-value=15 Score=39.98 Aligned_cols=67 Identities=13% Similarity=0.055 Sum_probs=51.8
Q ss_pred cceEEEEEEeCCCceEEEC--CCC-cEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEE-Eeee
Q 017902 69 ANSVNLIGHVDAPVQFQTS--SDG-KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTA 139 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~~G-k~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsG-RL~s 139 (364)
.|..++.|||.+--++|.. ++| ..+..+.|.- ++.-|++++|++.|+.....|+.|+.++|++ +++.
T Consensus 190 ~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~D----egg~Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~ 260 (608)
T TIGR00617 190 QNKWTIKARVTNKSEIRTWSNARGEGKLFNVELLD----ESGEIRATAFNEQADKFYDIIQEGKVYYISKGSLKP 260 (608)
T ss_pred CCceEEEEEEEeccccceecCCCCCceeeEEEEec----CCCeEEEEECchHHHHHhhhcccCCEEEECceEEEE
Confidence 4779999999988888754 233 2355555543 4567999999999999999999999999976 5544
No 88
>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=67.15 E-value=57 Score=35.60 Aligned_cols=83 Identities=19% Similarity=0.322 Sum_probs=54.2
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEech-HHHHHHhhcCCCCeEEEEEEeeeCCCC---cC-
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLKKDDHVHIAGQLTADPPA---IE- 145 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGk-LAE~aaqhLkKGD~V~VsGRL~s~sye---dk- 145 (364)
.|+|.|+|.+ +|. -|+ ++.+.|-.. +--++|++-.+ -+....+.|..||.|.|+|.+..+.-. .+
T Consensus 17 ~V~l~GwV~~---~R~--~Gk-l~Fi~LrD~----sg~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~~~ 86 (583)
T TIGR00459 17 TVTLAGWVNR---RRD--LGG-LIFIDLRDR----SGIVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINRNL 86 (583)
T ss_pred EEEEEEEEEE---EEc--CCC-cEEEEEEeC----CccEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCccC
Confidence 6999999963 444 355 444444322 33688887654 112234679999999999999865311 11
Q ss_pred CeEEEEEEEeeEEeccCC
Q 017902 146 GQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 146 ~qt~~eVvVe~v~FV~~k 163 (364)
..-.++|.|+++..+...
T Consensus 87 ~tg~iEl~~~~i~iL~~a 104 (583)
T TIGR00459 87 DTGEIEILAESITLLNKS 104 (583)
T ss_pred CCCcEEEEEeEEEEeecC
Confidence 223589999999998754
No 89
>PRK14699 replication factor A; Provisional
Probab=66.58 E-value=15 Score=39.12 Aligned_cols=83 Identities=16% Similarity=0.197 Sum_probs=55.6
Q ss_pred cceEEEEEEeCCCceEEEC--CCCcE--EEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEE-eeeCCCC
Q 017902 69 ANSVNLIGHVDAPVQFQTS--SDGKH--WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ-LTADPPA 143 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~~Gk~--va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGR-L~s~sye 143 (364)
+..|++.|+|..--+.|.. .+|.. +..+.|+- +|--|++++|++.|. +..-|..||.|.|.|- .+.+.|.
T Consensus 176 ~~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~igD----eTG~ir~tlW~~~a~-~~~~l~~Gd~v~I~~a~vr~~~~~ 250 (484)
T PRK14699 176 MGDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLGD----ETGTLRVTLWDDKTD-FLNQIEYGDTVELINAYARENAFT 250 (484)
T ss_pred CCceEEEEEEEeccCceEEecCCCCceEEEEEEEEc----CCceEEEEEECcccc-cccccCCCCEEEEecceEeecccC
Confidence 3559999999987776643 56643 55555553 578999999999986 3345999999998654 4444443
Q ss_pred cCCeEEEEEEEeeEEec
Q 017902 144 IEGQANVQVMVHSLNLI 160 (364)
Q Consensus 144 dk~qt~~eVvVe~v~FV 160 (364)
..++|.+.+...+
T Consensus 251 ----~~~el~~~~~s~i 263 (484)
T PRK14699 251 ----QKVELQVGNRSII 263 (484)
T ss_pred ----CceEEEecCceEe
Confidence 2355555544444
No 90
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=65.01 E-value=73 Score=35.42 Aligned_cols=77 Identities=14% Similarity=0.144 Sum_probs=52.1
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEech------HHHHHHhhcCCCCeEEEEEEeeeCCCCc
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD------LAHIASSHLKKDDHVHIAGQLTADPPAI 144 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGk------LAE~aaqhLkKGD~V~VsGRL~s~syed 144 (364)
.|.|-|+|.. +|. -|+ ++++.|- + .+--|+|++-.+ ....+.+.|..||.|.|+|.+....
T Consensus 109 ~V~vaGrV~~---~R~--~Gk-~~F~~Lr-D---~~G~IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~v~~t~--- 175 (659)
T PTZ00385 109 TVRVAGRVTS---VRD--IGK-IIFVTIR-S---NGNELQVVGQVGEHFTREDLKKLKVSLRVGDIIGADGVPCRMQ--- 175 (659)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEEE-E---CCceEEEEEECCccCCHHHHHHHHhCCCCCCEEEEEEEEEecC---
Confidence 3999999964 343 455 4444443 2 355788887532 2233445699999999999888542
Q ss_pred CCeEEEEEEEeeEEeccC
Q 017902 145 EGQANVQVMVHSLNLIEP 162 (364)
Q Consensus 145 k~qt~~eVvVe~v~FV~~ 162 (364)
.--++|.|++|..|.+
T Consensus 176 --~GeleI~~~~i~lLsk 191 (659)
T PTZ00385 176 --RGELSVAASRMLILSP 191 (659)
T ss_pred --CceEEEEeeEEEEech
Confidence 2247899999999875
No 91
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=64.55 E-value=55 Score=34.24 Aligned_cols=81 Identities=17% Similarity=0.209 Sum_probs=51.4
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH---HHHhhcCCCCeEEEEEEeeeCCCCcCC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEG 146 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE---~aaqhLkKGD~V~VsGRL~s~syedk~ 146 (364)
..|.+.|+|. .+|.. |+ ++.+.|- + .+.-++|++-.+-++ .....|..||.|.|.|.+.... .+
T Consensus 17 ~~V~i~G~v~---~~R~~--g~-~~Fi~lr-D---~~g~iq~~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~---~~ 83 (450)
T PRK03932 17 QEVTVRGWVR---TKRDS--GK-IAFLQLR-D---GSCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVTGTVVESP---RA 83 (450)
T ss_pred CEEEEEEEEE---EEEeC--CC-eEEEEEE-C---CCCcEEEEEEcCCChHHHHHHhcCCCCcEEEEEEEEEcCC---CC
Confidence 5699999996 35544 54 3444442 2 234555555422111 1224699999999999999642 12
Q ss_pred eEEEEEEEeeEEeccCC
Q 017902 147 QANVQVMVHSLNLIEPT 163 (364)
Q Consensus 147 qt~~eVvVe~v~FV~~k 163 (364)
...++|.|++|..+.+.
T Consensus 84 ~~~~el~~~~i~vl~~~ 100 (450)
T PRK03932 84 GQGYELQATKIEVIGED 100 (450)
T ss_pred CCCEEEEEEEEEEccCC
Confidence 33589999999999863
No 92
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=63.61 E-value=20 Score=32.13 Aligned_cols=62 Identities=13% Similarity=0.114 Sum_probs=45.9
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeee
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s 139 (364)
++++++=-|-.+-+...|.+|.-++.+.+|- +|--|++.+|++..+ .++.||.|.++|-..+
T Consensus 15 kN~~v~fIvl~~g~~tkTkdg~~v~~~kVaD----~TgsI~isvW~e~~~----~~~PGDIirLt~Gy~S 76 (134)
T KOG3416|consen 15 KNINVTFIVLEYGRATKTKDGHEVRSCKVAD----ETGSINISVWDEEGC----LIQPGDIIRLTGGYAS 76 (134)
T ss_pred hcceEEEEEEeeceeeeccCCCEEEEEEEec----ccceEEEEEecCcCc----ccCCccEEEecccchh
Confidence 3444444455555677899999898887775 578899999995543 5799999999886654
No 93
>PRK07218 replication factor A; Provisional
Probab=62.28 E-value=30 Score=36.31 Aligned_cols=62 Identities=15% Similarity=0.133 Sum_probs=42.3
Q ss_pred cceEEEEEEeCCCceE-EECCCCcE-EEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeee
Q 017902 69 ANSVNLIGHVDAPVQF-QTSSDGKH-WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (364)
Q Consensus 69 ~NsV~LIGrLg~DPEl-r~T~~Gk~-va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s 139 (364)
.+.|++.|+|-.--.- ....+|.. +....|+ .+|--|++++|+++|+ |..||.|.|.|--..
T Consensus 172 ~~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giig----DeTG~Ir~tlW~~~~~-----l~~Gd~v~I~na~v~ 235 (423)
T PRK07218 172 DRGVNVEARVLELEHREIDGRDGETTILSGVLA----DETGRLPFTDWDPLPE-----IEIGASIRIEDAYVR 235 (423)
T ss_pred CCceEEEEEEEEecceeEEcCCCCeEEEEEEEE----CCCceEEEEEeccccc-----CCCCCEEEEeeeEEe
Confidence 4679999999854221 12355543 3334333 3678999999999864 799999999985443
No 94
>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=61.21 E-value=43 Score=32.77 Aligned_cols=86 Identities=13% Similarity=0.136 Sum_probs=52.0
Q ss_pred cCccccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHH---HhhcCCCCeEEEEEEeeeC
Q 017902 64 FQVKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIA---SSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 64 ~qp~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~a---aqhLkKGD~V~VsGRL~s~ 140 (364)
|.=.-+|.|.|+|.|..- +.+...+.. ++.+.++.......+.|+++....-.+ ..-+ -|+.|.|.|.+. +
T Consensus 61 ~~NhPI~~v~i~G~Vv~~-~~~~~~~~~---~~~l~iDD~Sg~~~i~~~~~~~~~~~~~l~~~~~-~G~~V~VkG~vs-r 134 (256)
T PF10451_consen 61 YNNHPIRWVRIVGVVVGI-DYKWIENED---RIILTIDDSSGANTIECKCSKSSYLSMGLPINDL-IGKVVEVKGTVS-R 134 (256)
T ss_dssp ETTEEE-EEEEEEEEEEE-EEEE-BBTC---EEEEEEE-SSCS-EEEEEEEHHHHHCCCHHCTT--TT-EEEEEEEEE-S
T ss_pred ECCcccEEEEEEEEEEEE-EEEeecccc---eEEEEEeCCCCceeEEEEEEcccccccCCCccCC-CCcEEEEEEEEc-c
Confidence 444558999999999874 333223333 344556654443489999997632211 2235 899999999999 2
Q ss_pred CCCcCCeEEEEEEEeeEEeccC
Q 017902 141 PPAIEGQANVQVMVHSLNLIEP 162 (364)
Q Consensus 141 syedk~qt~~eVvVe~v~FV~~ 162 (364)
. .-++.|+.|..+..
T Consensus 135 ~-------~~ql~ve~i~~~~~ 149 (256)
T PF10451_consen 135 N-------ERQLDVERIELVRD 149 (256)
T ss_dssp S-------SEEEEEEEEEEETS
T ss_pred C-------cEEEEEEEEEccCC
Confidence 2 26778888887754
No 95
>PLN02603 asparaginyl-tRNA synthetase
Probab=60.63 E-value=1.1e+02 Score=33.24 Aligned_cols=85 Identities=14% Similarity=0.231 Sum_probs=53.6
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHH--HH-HhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IA-SSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE--~a-aqhLkKGD~V~VsGRL~s~syedk 145 (364)
-..|+|.|+|- .+|. .|+ +++ |.++.+....-|+|++-.+.+. .+ ...|..||.|.|+|.+.... .
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-VTF--IEVNDGSCLSNMQCVMTPDAEGYDQVESGLITTGASVLVQGTVVSSQ---G 175 (565)
T ss_pred CCEEEEEEEEE---EEEe--CCC-eEE--EEEECCCCCEeEEEEEECcHHHHHHHhhcCCCCCCEEEEEEEEEecC---C
Confidence 35688888886 4443 244 333 3333322334588888544221 11 12489999999999998542 2
Q ss_pred CeEEEEEEEeeEEeccCCC
Q 017902 146 GQANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 146 ~qt~~eVvVe~v~FV~~k~ 164 (364)
+...+||.|++|..|....
T Consensus 176 ~~~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 176 GKQKVELKVSKIVVVGKSD 194 (565)
T ss_pred CCccEEEEEeEEEEEECCC
Confidence 3346999999999998654
No 96
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=60.25 E-value=85 Score=35.15 Aligned_cols=85 Identities=21% Similarity=0.347 Sum_probs=55.6
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH--HH--HHHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL--AE--~aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
..|+|.|+|.+ +|. .|+ ++++.|-. .+-.++|++-.+. .+ ..+..|..|+.|.|+|.+..+.-...
T Consensus 19 ~~V~l~GWV~~---~R~--~G~-l~FidLRD----~~G~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~~ 88 (706)
T PRK12820 19 REVCLAGWVDA---FRD--HGE-LLFIHLRD----RNGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEETE 88 (706)
T ss_pred CEEEEEEEEEE---EEc--CCC-cEEEEEEe----CCccEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCcccc
Confidence 45999999964 343 344 44444433 2345888886442 11 23467999999999999988632211
Q ss_pred ---Ce-EEEEEEEeeEEeccCCC
Q 017902 146 ---GQ-ANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 146 ---~q-t~~eVvVe~v~FV~~k~ 164 (364)
.. -.+||.|+++..|....
T Consensus 89 n~~~~tg~iEl~~~~i~iL~~a~ 111 (706)
T PRK12820 89 NPHIETGDIEVFVRELSILAASE 111 (706)
T ss_pred CCCCCCCcEEEEeeEEEEEecCC
Confidence 12 35899999999997654
No 97
>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=60.07 E-value=42 Score=28.65 Aligned_cols=64 Identities=20% Similarity=0.306 Sum_probs=32.7
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH-HHHHHhhcCCCCeEEEEEEeeeCC
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AHIASSHLKKDDHVHIAGQLTADP 141 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL-AE~aaqhLkKGD~V~VsGRL~s~s 141 (364)
.|.+.|.|. ++.. ..+... +++... ......+.|.+-.+- .......|++||.|.|.|+.....
T Consensus 69 ~i~vtG~V~---~I~~-~~~~~~--~~~~~~-~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~~ 133 (144)
T PF12869_consen 69 IIEVTGTVS---SIDK-GFGDNY--VVLLGT-ENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGYS 133 (144)
T ss_dssp EEEEEEEEE---EEEE--STT-E--EEEEE--TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE-----
T ss_pred EEEEEEEEE---EEEE-cCCCcE--EEEccC-CCCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEeee
Confidence 378889996 4544 334433 333322 234567778877776 333445799999999999988663
No 98
>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=58.70 E-value=63 Score=26.62 Aligned_cols=39 Identities=8% Similarity=-0.025 Sum_probs=29.0
Q ss_pred CeeEEEEEechHHHHHHhhcC----CCCeEEEEEEeeeCCCCc
Q 017902 106 SLWIPILFEGDLAHIASSHLK----KDDHVHIAGQLTADPPAI 144 (364)
Q Consensus 106 T~wI~Vv~wGkLAE~aaqhLk----KGD~V~VsGRL~s~syed 144 (364)
-.-+.|++||+.|+....++. .+-.|.|-+-.+...|.+
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 368999999999999988763 444455666577777764
No 99
>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=58.44 E-value=55 Score=26.92 Aligned_cols=36 Identities=11% Similarity=0.118 Sum_probs=27.3
Q ss_pred CCeeEEEEEechHH--H------------------HHHhhcCCCCeEEEEEEeeeC
Q 017902 105 HSLWIPILFEGDLA--H------------------IASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 105 ~T~wI~Vv~wGkLA--E------------------~aaqhLkKGD~V~VsGRL~s~ 140 (364)
.|--|.|++|.... + .....+..|+.|.|.|+|.+.
T Consensus 23 gTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~f 78 (92)
T cd04483 23 GTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTY 78 (92)
T ss_pred CCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEecc
Confidence 34468999998753 0 234469999999999999976
No 100
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=57.84 E-value=1e+02 Score=33.64 Aligned_cols=83 Identities=17% Similarity=0.332 Sum_probs=54.1
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHH--HHhhcCCCCeEEEEEEeeeCCCC--c-C
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI--ASSHLKKDDHVHIAGQLTADPPA--I-E 145 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~--aaqhLkKGD~V~VsGRL~s~sye--d-k 145 (364)
.|+|.|+|.+ +|. .|+ ++.+.|-. .+-.++|++-.. .+. ....|+.|+.|.|+|.+..+.-. . +
T Consensus 19 ~V~l~GwV~~---~R~--~g~-l~Fi~LrD----~~g~iQ~v~~~~-~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~~ 87 (588)
T PRK00476 19 TVTLCGWVHR---RRD--HGG-LIFIDLRD----REGIVQVVFDPD-AEAFEVAESLRSEYVIQVTGTVRARPEGTVNPN 87 (588)
T ss_pred EEEEEEEEEE---EEe--CCC-eEEEEEEe----CCceEEEEEeCC-HHHHHHHhCCCCCCEEEEEEEEEecCCcccCcc
Confidence 4999999963 444 343 44444433 233588877542 222 23569999999999999875311 1 1
Q ss_pred -CeEEEEEEEeeEEeccCCC
Q 017902 146 -GQANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 146 -~qt~~eVvVe~v~FV~~k~ 164 (364)
..-.+||.|++|..+....
T Consensus 88 ~~~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 88 LPTGEIEVLASELEVLNKSK 107 (588)
T ss_pred CCCCcEEEEEeEEEEEecCC
Confidence 1235899999999997765
No 101
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=57.69 E-value=58 Score=35.26 Aligned_cols=64 Identities=9% Similarity=0.088 Sum_probs=43.1
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
-.|++.|.|... .. ....+..+..+.+... .+.-+.|++|+ . ..+.+.+++|+.|+|.|++...
T Consensus 33 ~~~~~~~~v~~~-~~-~~~~~~~~~~~~~~d~---~~~~~~~~~F~-~-~~~~~~~~~g~~~~~~Gk~~~~ 96 (630)
T TIGR00643 33 ERATIVGEVLSH-CI-FGFKRRKVLKLRLKDG---GYKKLELRFFN-R-AFLKKKFKVGSKVVVYGKVKSS 96 (630)
T ss_pred CEEEEEEEEEEe-Ee-ccCCCCceEEEEEEEC---CCCEEEEEEEC-C-HHHHhhCCCCCEEEEEEEEEee
Confidence 368999998763 22 1123333444444431 45568999998 2 3667789999999999999854
No 102
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=55.38 E-value=1.2e+02 Score=32.43 Aligned_cols=78 Identities=14% Similarity=0.141 Sum_probs=51.4
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEec-hHHH----HHHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLAH----IASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wG-kLAE----~aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
.|.|.|+|.. +|. .|+ ++++.|-.. +.-|+|++-. .+.+ .....|..||.|.|+|.+....
T Consensus 67 ~v~v~Grv~~---~R~--~Gk-~~F~~lrD~----~g~iQ~~~~~~~~~~~~~~~~~~~l~~Gd~V~v~G~~~~t~---- 132 (505)
T PRK12445 67 EVSVAGRMMT---RRI--MGK-ASFVTLQDV----GGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQ---- 132 (505)
T ss_pred EEEEEEEEEE---Eec--CCC-cEEEEEEeC----CccEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEecC----
Confidence 4999999963 444 365 344444332 3347887763 2221 1235699999999999997642
Q ss_pred CeEEEEEEEeeEEeccCC
Q 017902 146 GQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 146 ~qt~~eVvVe~v~FV~~k 163 (364)
.-.++|.|+++..+.+.
T Consensus 133 -~gelel~~~~~~llsk~ 149 (505)
T PRK12445 133 -TGELSIHCTELRLLTKA 149 (505)
T ss_pred -CCcEEEEEeEEEEEecC
Confidence 12489999999999754
No 103
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=55.20 E-value=55 Score=36.47 Aligned_cols=65 Identities=15% Similarity=0.147 Sum_probs=48.3
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~s 141 (364)
-.|++.|+|..-.... ..++....+.+.. .+.-+.++||+.-| .+.+.|+.|..|.|.|++....
T Consensus 61 ~~vti~g~V~~~~~~~--~~~~~~l~v~~~d----~~~~l~l~fFn~~~-~l~~~~~~G~~v~v~Gk~~~~~ 125 (677)
T COG1200 61 EIVTIEGTVLSHEKFP--FGKRKLLKVTLSD----GTGVLTLVFFNFPA-YLKKKLKVGERVIVYGKVKRFK 125 (677)
T ss_pred ceEEEEEEEEeeeccC--CCCCceEEEEEec----CcEEEEEEEECccH-HHHhhCCCCCEEEEEEEEeecc
Confidence 3689999998643332 3344444444443 57789999999999 7778899999999999999754
No 104
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=54.82 E-value=44 Score=36.60 Aligned_cols=63 Identities=13% Similarity=0.094 Sum_probs=43.1
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeee
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s 139 (364)
..|+++|+|..-... .. +..+..+.+.. ++--+.|++|+--...+.+.|+.|+.|+|.|++..
T Consensus 60 ~~vtv~g~V~~~~~~-~~--~~~~~~v~l~D----~tg~i~l~~F~~n~~~~~~~l~~G~~~~v~Gkv~~ 122 (681)
T PRK10917 60 EKVTVEGEVLSAEVV-FG--KRRRLTVTVSD----GTGNLTLRFFNFNQPYLKKQLKVGKRVAVYGKVKR 122 (681)
T ss_pred CEEEEEEEEEEEEEc-cC--CceEEEEEEEE----CCeEEEEEEEccCcHHHHhhCCCCCEEEEEEEEEe
Confidence 479999998764222 22 44454554443 35568999994212256678999999999999986
No 105
>PLN02221 asparaginyl-tRNA synthetase
Probab=53.12 E-value=1.2e+02 Score=33.11 Aligned_cols=87 Identities=16% Similarity=0.234 Sum_probs=55.5
Q ss_pred ceEEEEEEeCCCceEEECCCCc-EEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeE
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk-~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt 148 (364)
..|.|.|.|-. +| ..|+ .+++ |.++.+.-.-.|+|++-.++.. ..+.|..|+.|.|.|.+....-......
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---GR--EQGKGTFAF--LEVNDGSCPANLQVMVDSSLYD-LSTLVATGTCVTVDGVLKVPPEGKGTKQ 122 (572)
T ss_pred CEEEEEEEEEe---hh--hCCCceEEE--EEEeCCcccccEEEEEcCchhh-HHhcCCCceEEEEEEEEEeCCccCCCCc
Confidence 35999999874 23 2344 2333 3333222224799988765432 2346899999999999986542111223
Q ss_pred EEEEEEeeEEeccCCC
Q 017902 149 NVQVMVHSLNLIEPTS 164 (364)
Q Consensus 149 ~~eVvVe~v~FV~~k~ 164 (364)
.+||.|++|..|....
T Consensus 123 ~iEl~v~~i~vl~~a~ 138 (572)
T PLN02221 123 KIELSVEKVIDVGTVD 138 (572)
T ss_pred cEEEEEeEEEEEecCC
Confidence 8999999999998654
No 106
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=52.21 E-value=1.2e+02 Score=33.18 Aligned_cols=78 Identities=14% Similarity=0.184 Sum_probs=50.4
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEech-------HHHHHHhhcCCCCeEEEEEEeeeCCCCc
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-------LAHIASSHLKKDDHVHIAGQLTADPPAI 144 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGk-------LAE~aaqhLkKGD~V~VsGRL~s~syed 144 (364)
|.+.|+|-+ +|. .|+.++.+.|.. ++.-|+|++-.+ ..+.....|..||.|.|+|.+....
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--SGQKLRFFDLVG----DGAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGKSK--- 202 (585)
T ss_pred EEEEEEEEe---eec--CCCCCEEEEEEe----CCeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcCCC---
Confidence 889999953 333 454455555533 233588887632 1122245699999999999965432
Q ss_pred CCeEEEEEEEeeEEeccCC
Q 017902 145 EGQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 145 k~qt~~eVvVe~v~FV~~k 163 (364)
.--++|.|++|..+.+.
T Consensus 203 --~gel~i~~~~i~llsk~ 219 (585)
T PTZ00417 203 --KGELSIFPKETIILSPC 219 (585)
T ss_pred --CceEEEEEEEEEEEecC
Confidence 12478899999998754
No 107
>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=49.80 E-value=1.7e+02 Score=31.11 Aligned_cols=78 Identities=21% Similarity=0.233 Sum_probs=50.0
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEech-HHH----HHHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAH----IASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGk-LAE----~aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
.|++.|+|-. +| ..|+ ++.+.|... +--|+|++-.+ +.+ .+...|..||.|.|+|.+....
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-ATFITLQDE----SGQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFKTK---- 120 (496)
T ss_pred EEEEEEEEEE---Ee--cCCC-eEEEEEEcC----CccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEECC----
Confidence 4899999973 44 3454 444444432 23477777532 222 2333489999999999996432
Q ss_pred CeEEEEEEEeeEEeccCC
Q 017902 146 GQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 146 ~qt~~eVvVe~v~FV~~k 163 (364)
.-.++|.|++|..+.+.
T Consensus 121 -~gelel~~~~i~ilsk~ 137 (496)
T TIGR00499 121 -TGELSVHVTELQILTKA 137 (496)
T ss_pred -CCcEEEEeeEEEEEecC
Confidence 12388999999888754
No 108
>PRK06386 replication factor A; Reviewed
Probab=49.57 E-value=75 Score=32.73 Aligned_cols=77 Identities=19% Similarity=0.227 Sum_probs=49.9
Q ss_pred cceEEEEEEeCCCceEEECCCC--cEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCC
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~G--k~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~ 146 (364)
+..|++.|+|-.-++-.+..+| ..+....|. .+|--|++++|++ +|..||.|.|.+-- .+.|
T Consensus 117 ~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg----DeTGrIr~TlW~~-------~l~eGd~v~i~na~-v~e~---- 180 (358)
T PRK06386 117 TPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE----DDTARVRISSFGK-------PLEDNRFVRIENAR-VSQY---- 180 (358)
T ss_pred CCceEEEEEEEEccCceEecCCCccEEEEEEEE----cCCCeEEEEEccc-------cccCCCEEEEeeeE-EEcc----
Confidence 4678899998765553333333 344445554 3688999999997 48999999999844 4444
Q ss_pred eEEEEEEEeeEEecc
Q 017902 147 QANVQVMVHSLNLIE 161 (364)
Q Consensus 147 qt~~eVvVe~v~FV~ 161 (364)
+-.++|.+....-|+
T Consensus 181 ~G~~el~v~~~t~I~ 195 (358)
T PRK06386 181 NGYIEISVGNKSVIK 195 (358)
T ss_pred CCeEEEEeCCeEEEE
Confidence 334455555444443
No 109
>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=49.16 E-value=25 Score=30.99 Aligned_cols=27 Identities=41% Similarity=0.430 Sum_probs=24.9
Q ss_pred eeEEEEEechHHHHHHhhcCCCCeEEEE
Q 017902 107 LWIPILFEGDLAHIASSHLKKDDHVHIA 134 (364)
Q Consensus 107 ~wI~Vv~wGkLAE~aaqhLkKGD~V~Vs 134 (364)
.-|+|++|+.-|+.+.+ |+.||.|.+.
T Consensus 60 ~ti~It~yD~H~~~ar~-lK~GdfV~L~ 86 (123)
T cd04498 60 LTIDILVYDNHVELAKS-LKPGDFVRIY 86 (123)
T ss_pred EEEEEEEEcchHHHHhh-CCCCCEEEEE
Confidence 67999999999998888 9999999886
No 110
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=47.82 E-value=68 Score=37.79 Aligned_cols=66 Identities=14% Similarity=0.108 Sum_probs=54.1
Q ss_pred eEEEEEEeCCCceEEECC-CCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCC
Q 017902 71 SVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~-~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~s 141 (364)
.+.++|-|.. ...+.|. +|..++..+|... +--+.|++|-...+.....+..|..+.|.|+++.+.
T Consensus 978 ~~~~~~~i~~-vr~~~tk~~G~~~~f~tl~D~----~g~~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~~ 1044 (1139)
T COG0587 978 RVVLAGGIVA-VRQRPTKAKGNKMAFLTLEDE----TGILEVVVFPSEYERYRRLLLEGRLLIVKGKVQRRE 1044 (1139)
T ss_pred eeEEEEEEEE-EEEeeccCCCCEEEEEEEecC----CCcEEEEEcHHHHHHHHHHhccCcEEEEEEEEEecc
Confidence 5678888876 4455555 8999999888754 338999999999999999999999999999999854
No 111
>PHA01740 putative single-stranded DNA-binding protein
Probab=46.84 E-value=10 Score=34.29 Aligned_cols=23 Identities=35% Similarity=0.642 Sum_probs=19.5
Q ss_pred CCCCCCCCCCccCC--CCceeeccC
Q 017902 323 DKKSEKGPDFKHKE--TGKPLWLNY 345 (364)
Q Consensus 323 ~K~~~~~pDfkhk~--t~~~lwl~~ 345 (364)
.|+|+|+|||+-|- .|.-+||..
T Consensus 17 qkk~dK~PDf~GkInI~G~~yw~SG 41 (158)
T PHA01740 17 QPKNDKSPHFTGKVDIRGTVYWLAG 41 (158)
T ss_pred ccCCCCCCCcCceEeeCCEEEEeec
Confidence 37899999999996 489999873
No 112
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=46.37 E-value=74 Score=26.44 Aligned_cols=63 Identities=19% Similarity=0.239 Sum_probs=38.7
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEc---C--C--CCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQH---A--A--SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~---~--~--~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~s 141 (364)
..+++.|+|...|+... + .. .+.+.+. . . ....-+.+.+-.+-.. .+..||.|.++|+|+.-.
T Consensus 76 ~~~~v~g~V~~~~~~~~--~-~~--~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~l~~Gd~i~~~g~l~~~~ 145 (176)
T PF13567_consen 76 KEVTVQGTVESVPQIDG--R-GQ--RFTLRVERVLAGGNWIPVSGKILLYLPKDSQP----RLQPGDRIRVRGKLKPPS 145 (176)
T ss_pred ceEEEEEEEcccccccC--c-eE--EEEEEEEEeeccccccccceeeEEEecccccc----ccCCCCEEEEEEEEecCC
Confidence 45789999988777642 1 11 4444332 1 1 1234444444444333 689999999999999754
No 113
>PLN02502 lysyl-tRNA synthetase
Probab=45.99 E-value=1.6e+02 Score=32.11 Aligned_cols=78 Identities=18% Similarity=0.200 Sum_probs=49.9
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEech-HH------HHHHhhcCCCCeEEEEEEeeeCCCC
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LA------HIASSHLKKDDHVHIAGQLTADPPA 143 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGk-LA------E~aaqhLkKGD~V~VsGRL~s~sye 143 (364)
.|+|.|+|.. +|. .|+ ++++.|-. .+.-|+|++-.+ +. +.+...|..||.|.|.|.+....
T Consensus 110 ~V~v~GrV~~---~R~--~Gk-~~F~~LrD----~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t~-- 177 (553)
T PLN02502 110 SVSVAGRIMA---KRA--FGK-LAFYDLRD----DGGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKTK-- 177 (553)
T ss_pred EEEEEEEEEE---Eec--CCC-eEEEEEec----CCccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEecC--
Confidence 4889999874 333 454 34444432 234588877543 21 12234589999999999987542
Q ss_pred cCCeEEEEEEEeeEEeccCC
Q 017902 144 IEGQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 144 dk~qt~~eVvVe~v~FV~~k 163 (364)
.-.++|.|++|..|.+.
T Consensus 178 ---~gelel~~~~i~vLs~~ 194 (553)
T PLN02502 178 ---KGELSIFPTSFEVLTKC 194 (553)
T ss_pred ---CCCEEEEEeEEEEEecc
Confidence 12588899999888754
No 114
>PRK07218 replication factor A; Provisional
Probab=45.58 E-value=61 Score=34.06 Aligned_cols=58 Identities=17% Similarity=0.132 Sum_probs=40.4
Q ss_pred cceEEEEEEeCCCceEEECCCC--cEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEE
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~G--k~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGR 136 (364)
...|.|.|+|-.=.+-.+..+| ..+....|+- +|--|++++|++++ |..||.|.|.+-
T Consensus 68 ~~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~igD----eTG~Ir~tlW~~~~------l~~Gdvv~I~na 127 (423)
T PRK07218 68 DKNVTVTGRVLTIGERSIRYQGDDHVIYEGILAD----ETGTISYTAWKDFG------LSPGDTVTIGNA 127 (423)
T ss_pred CceeEEEEEEEEecceeEecCCCceEEEEEEEEC----CCCeEEEEEECCCC------CCCCCEEEEecc
Confidence 4779999987654331122344 3455555553 58899999999774 999999999974
No 115
>COG3689 Predicted membrane protein [Function unknown]
Probab=44.59 E-value=78 Score=31.57 Aligned_cols=88 Identities=19% Similarity=0.169 Sum_probs=57.9
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEE
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~ 150 (364)
.|.++|.|-+|.-+. .|--++++|.|.+=-+ ++.=+-+.+-.+ .- ..++..+.|.|+|+|.+..+.+.++...
T Consensus 177 ~Ie~tGFVy~~~~~~--~N~lflaRFgiicC~A-Da~vygl~v~~~---~~-~~y~ndtWltvkGtl~~e~~~~~~~~ip 249 (271)
T COG3689 177 KIEFTGFVYNDESFP--KNYLFLARFGIICCAA-DAGVYGLLVELD---NQ-TDYKNDTWLTVKGTLSSEYLSDFKKRIP 249 (271)
T ss_pred eEEEEEEEECCCCCC--cceeehhhhheeeeec-cceeEEEEEEcc---cc-ccCCCCceEEEEeEEEeeecCchhhcCc
Confidence 688889988875442 2335777777754221 122222222222 11 2479999999999999998877677777
Q ss_pred EEEEeeEEeccCCCc
Q 017902 151 QVMVHSLNLIEPTSQ 165 (364)
Q Consensus 151 eVvVe~v~FV~~k~~ 165 (364)
-|.|++++-|..+..
T Consensus 250 vi~v~sv~~I~kP~n 264 (271)
T COG3689 250 VIEVDSVEVIPKPAN 264 (271)
T ss_pred EEEeeeeeecCCCCC
Confidence 888999988865544
No 116
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=43.44 E-value=1.4e+02 Score=31.81 Aligned_cols=79 Identities=20% Similarity=0.213 Sum_probs=51.6
Q ss_pred ceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEech-HHHH---HHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGk-LAE~---aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
-.|+|.|+|.. +|. .|+ ++++.|-.. +.-|+|++-.+ +.+. ....|..||.|.|.|.+.... +
T Consensus 55 ~~v~v~G~v~~---~R~--~g~-~~Fi~lrD~----~g~iQ~v~~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~t~-~-- 121 (491)
T PRK00484 55 IEVSVAGRVML---KRV--MGK-ASFATLQDG----SGRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKTK-T-- 121 (491)
T ss_pred cEEEEEEEEEE---Eec--CCc-eEEEEEEcC----CccEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEcC-C--
Confidence 35899999963 343 354 444444332 33588877543 2111 223499999999999998642 1
Q ss_pred CeEEEEEEEeeEEeccCC
Q 017902 146 GQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 146 ~qt~~eVvVe~v~FV~~k 163 (364)
-.++|.|+++..+.+.
T Consensus 122 --ge~el~~~~~~vls~~ 137 (491)
T PRK00484 122 --GELSVKATELTLLTKS 137 (491)
T ss_pred --CcEEEEEeEEEEEecc
Confidence 2589999999998754
No 117
>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=43.00 E-value=51 Score=26.07 Aligned_cols=32 Identities=28% Similarity=0.296 Sum_probs=24.9
Q ss_pred CeeEEEEEe--chHHHHHHhhcCCCCeEEEEEEee
Q 017902 106 SLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLT 138 (364)
Q Consensus 106 T~wI~Vv~w--GkLAE~aaqhLkKGD~V~VsGRL~ 138 (364)
..-|-|... |.....+. .|+.||.|.|.|=+.
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 455566666 88888884 599999999999654
No 118
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=41.38 E-value=82 Score=37.55 Aligned_cols=73 Identities=11% Similarity=0.059 Sum_probs=57.6
Q ss_pred cccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH---HHHHHhhcCCCCeEEEEEEeeeCCCC
Q 017902 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIASSHLKKDDHVHIAGQLTADPPA 143 (364)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL---AE~aaqhLkKGD~V~VsGRL~s~sye 143 (364)
..+|.|.+.|.|=. .|.+.+.+|+.+..|.+.- .++-+.|..|-+. ++.. +.+++|+.|-|.|.++.+...
T Consensus 237 ~~~~~v~v~G~IF~-~e~~~~ksGr~l~~i~vTD----~t~Sl~~k~f~~~~ed~~~~-~~ik~g~wvk~~g~v~~d~f~ 310 (1444)
T COG2176 237 EEETRVKVEGYIFK-IEIKELKSGRTLLNIKVTD----YTSSLILKKFLRDEEDEKKF-DGIKKGMWVKARGNVQLDTFT 310 (1444)
T ss_pred ccccceEEEEEEEE-EeeeecccCcEEEEEEEec----CchheeehhhccccccHHHH-hhcccCcEEEEEEEEEecccc
Confidence 34677999999985 8999999999888887764 3456777777773 4444 679999999999999999765
Q ss_pred cC
Q 017902 144 IE 145 (364)
Q Consensus 144 dk 145 (364)
.+
T Consensus 311 ~~ 312 (1444)
T COG2176 311 RD 312 (1444)
T ss_pred cc
Confidence 44
No 119
>PLN02532 asparagine-tRNA synthetase
Probab=40.90 E-value=93 Score=34.46 Aligned_cols=56 Identities=16% Similarity=0.279 Sum_probs=41.7
Q ss_pred eeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEEEEEEeeEEeccCCC
Q 017902 107 LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 107 ~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~eVvVe~v~FV~~k~ 164 (364)
..++|++-+..+... +.|..|+.|.|+|.+..+.-. .....+||.|++|..|....
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 358998887655333 679999999999999876211 12446999999999998643
No 120
>PHA01740 putative single-stranded DNA-binding protein
Probab=37.92 E-value=16 Score=33.16 Aligned_cols=19 Identities=26% Similarity=0.511 Sum_probs=15.2
Q ss_pred CCCCCCcccCCC--CCccccC
Q 017902 223 KPRYPDFKRKDG--TLPLWLN 241 (364)
Q Consensus 223 ~pk~PDFk~k~~--~~~lWl~ 241 (364)
+||||||..+.+ |.-+||.
T Consensus 20 ~dK~PDf~GkInI~G~~yw~S 40 (158)
T PHA01740 20 NDKSPHFTGKVDIRGTVYWLA 40 (158)
T ss_pred CCCCCCcCceEeeCCEEEEee
Confidence 599999999954 6677765
No 121
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=36.22 E-value=1.5e+02 Score=32.08 Aligned_cols=81 Identities=15% Similarity=0.192 Sum_probs=48.4
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEE-EechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEE
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPIL-FEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv-~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~ 150 (364)
|.+.|||-. +|. .| .++++.|--..+.-..||+-. +=.+..+...+++..||.|.|.|.+-... ++ -.
T Consensus 64 v~vAGRi~~---~R~--~G-K~~F~~i~d~~gkiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~T~-~G----el 132 (502)
T COG1190 64 VSVAGRIMT---IRN--MG-KASFADLQDGSGKIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFKTK-TG----EL 132 (502)
T ss_pred eEEecceee---ecc--cC-ceeEEEEecCCceEEEEEeccccchhhHHHHHhccccCCEEeeeeeeeecC-CC----ce
Confidence 899999863 333 45 355555554333333444433 22234444556677899999999987653 12 25
Q ss_pred EEEEeeEEeccCC
Q 017902 151 QVMVHSLNLIEPT 163 (364)
Q Consensus 151 eVvVe~v~FV~~k 163 (364)
.|.|+++..+.+.
T Consensus 133 Sv~v~~~~lLsKs 145 (502)
T COG1190 133 SVSVEELRLLSKS 145 (502)
T ss_pred EEEEEEEeeeccc
Confidence 5777777777543
No 122
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=35.09 E-value=76 Score=34.24 Aligned_cols=76 Identities=11% Similarity=0.215 Sum_probs=48.8
Q ss_pred EEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH------HHHHHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL------AHIASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL------AE~aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
|++.|||.+ ...+|...+++.|--+ ..=++|++--+- -+..+++|++||.|.|+|...-..
T Consensus 107 ~svaGRI~s-----~R~sGsKL~Fydl~~~----g~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgrt~---- 173 (560)
T KOG1885|consen 107 VSVAGRIHS-----KRESGSKLVFYDLHGD----GVKLQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGRTK---- 173 (560)
T ss_pred eeeeeeEee-----eeccCCceEEEEEecC----CeEEEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCcCC----
Confidence 889999875 2235666666666543 223555554433 355677899999999999764321
Q ss_pred CeEEEEEEEeeEEecc
Q 017902 146 GQANVQVMVHSLNLIE 161 (364)
Q Consensus 146 ~qt~~eVvVe~v~FV~ 161 (364)
.--..|.+.+|..+.
T Consensus 174 -~gELSi~~~~~~lLs 188 (560)
T KOG1885|consen 174 -SGELSIIPNEIILLS 188 (560)
T ss_pred -CceEEEeecchheec
Confidence 125677888886664
No 123
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=35.02 E-value=70 Score=35.40 Aligned_cols=79 Identities=16% Similarity=0.205 Sum_probs=59.1
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeE
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt 148 (364)
--.|.+-|-|. ++++|++=+ .|+|. .+|.++.|.+|..-...+.-++..||.|.|.|....+. ++
T Consensus 213 g~tV~I~GeV~---qikqT~GPT---VFtlt----Detg~i~aAAFe~aGvRAyP~IevGdiV~ViG~V~~r~----g~- 277 (715)
T COG1107 213 GKTVRIEGEVT---QIKQTSGPT---VFTLT----DETGAIWAAAFEEAGVRAYPEIEVGDIVEVIGEVTRRD----GR- 277 (715)
T ss_pred CceEEEEEEEE---EEEEcCCCE---EEEEe----cCCCceehhhhccCCcccCCCCCCCceEEEEEEEeecC----Cc-
Confidence 44678888886 677776533 34444 36889999999999999999999999999999998763 33
Q ss_pred EEEEEEeeEEeccCC
Q 017902 149 NVQVMVHSLNLIEPT 163 (364)
Q Consensus 149 ~~eVvVe~v~FV~~k 163 (364)
++|.+..|+-|...
T Consensus 278 -lQiE~~~me~L~G~ 291 (715)
T COG1107 278 -LQIEIEAMEKLTGD 291 (715)
T ss_pred -EEEeehhhHHhhCc
Confidence 55556666666543
No 124
>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=33.83 E-value=1.8e+02 Score=31.82 Aligned_cols=67 Identities=18% Similarity=0.149 Sum_probs=41.7
Q ss_pred eEEEEEEeCCCceE---EECCCCcEEEEEEEEEcCCCCC-eeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCC
Q 017902 71 SVNLIGHVDAPVQF---QTSSDGKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPP 142 (364)
Q Consensus 71 sV~LIGrLg~DPEl---r~T~~Gk~va~f~LAv~~~~~T-~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~sy 142 (364)
.|-+||-|..-=++ ....+|+....-.|.... .+ .-|+|++||+.|+.+. ...|+.|.|.|-... .|
T Consensus 312 ~VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~D--~sg~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V~-~f 382 (608)
T TIGR00617 312 LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLVD--DSGKSVRVTLWGDDATKFD--VSVQPVIAIKGVRVS-DF 382 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEEe--CCCCEEEEEEEhhhhhhcC--CCCCCEEEEEeEEEE-ec
Confidence 57788877643222 223456544333332211 23 3699999999999875 778999999884443 45
No 125
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=33.75 E-value=1.5e+02 Score=34.48 Aligned_cols=64 Identities=17% Similarity=0.158 Sum_probs=50.3
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCC
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~s 141 (364)
.|.++|-|.. +..+. ..|..+|.++|.-. +.-+.|++|.+.-+.+.. |.+|+.++|+|+.+.+.
T Consensus 899 ~~~v~g~i~~-~~~~~-K~g~~maf~~~eD~----~~~~e~~~F~~~~~~~~~-l~~~~~~~~~~~~~~~~ 962 (973)
T PRK07135 899 EYRLAIEVKN-VKRLR-KANKEYKKVILSDD----SVEITIFVNDNDYLLFET-LKKGDIYEFLISKSKNN 962 (973)
T ss_pred eEEEEEEEEE-EEEEe-eCCCeEEEEEEEEC----CCcEEEEEcHHHHHHHHH-hhcCCEEEEEEEEcCCC
Confidence 4678887775 44444 77888988888753 556999999998888774 99999999999988763
No 126
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=31.13 E-value=61 Score=34.09 Aligned_cols=42 Identities=19% Similarity=0.253 Sum_probs=32.8
Q ss_pred EEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEe
Q 017902 96 TVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (364)
Q Consensus 96 f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL 137 (364)
|+||+.+....-.+.+.+-||-...+.+.|+.|+.+.|+|--
T Consensus 265 FTIa~s~~~sel~FsIK~LGD~Tk~l~dnLk~G~k~~vdGPY 306 (438)
T COG4097 265 FTIACSHEGSELRFSIKALGDFTKTLKDNLKVGTKLEVDGPY 306 (438)
T ss_pred eeeeeCCCCceEEEEehhhhhhhHHHHHhccCCceEEEecCc
Confidence 444443322247889999999999999999999999999843
No 127
>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=31.09 E-value=2.2e+02 Score=25.92 Aligned_cols=90 Identities=16% Similarity=0.160 Sum_probs=44.7
Q ss_pred cCccccceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhh-cCCCCeEEEEEEeeeCCC
Q 017902 64 FQVKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSH-LKKDDHVHIAGQLTADPP 142 (364)
Q Consensus 64 ~qp~l~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqh-LkKGD~V~VsGRL~s~sy 142 (364)
||| ++|.|-++|-|..= ....|- ...+-|+ ++...++-|.||+++.+.+.+- ++.|..|.++- |+-+
T Consensus 14 f~p-p~~EvD~VG~VvsV----~~~~~f-~~~vYLs---D~~~Nll~Ikfw~~l~~~~~eDilk~~~liA~SN-LqwR-- 81 (143)
T PF09104_consen 14 FQP-PYGEVDTVGFVVSV----SKKQGF-QPLVYLS---DECHNLLAIKFWTGLNQYGYEDILKPGSLIAASN-LQWR-- 81 (143)
T ss_dssp --T-CCCEEEEEEEEEEE----E--TTS---EEEEE----TTS-EEEEEESS-------SS---TT-EEEEEE-EEE---
T ss_pred cCC-CccccceEEEEEEE----EecCCC-ceeEEee---cCCccEEEEEeccCccccchhhhcCcceEEEEee-eEee--
Confidence 444 38999999998742 111221 1113334 3457899999999999888776 79999999984 3333
Q ss_pred CcC-CeEEEEEEEeeEEeccCCCcc
Q 017902 143 AIE-GQANVQVMVHSLNLIEPTSQK 166 (364)
Q Consensus 143 edk-~qt~~eVvVe~v~FV~~k~~~ 166 (364)
.+ .-.+..+-|.++..+..++..
T Consensus 82 -~~s~s~iP~~~A~d~S~FS~nPK~ 105 (143)
T PF09104_consen 82 -PESTSGIPTLFATDLSVFSANPKE 105 (143)
T ss_dssp -S-TTSSS-EEEEECCEEEESS-SS
T ss_pred -cccccCCCeeEeccceeeecCccH
Confidence 11 122356777777777665554
No 128
>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=29.18 E-value=32 Score=30.06 Aligned_cols=25 Identities=32% Similarity=0.400 Sum_probs=22.1
Q ss_pred hHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 116 kLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
++|+.+++.|++|+.|++.|.|-+-
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGaG 27 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGAG 27 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTSS
T ss_pred HHHHHHHHhCCCCCEEEEECCCCCC
Confidence 5899999999999999999999875
No 129
>KOG3056 consensus Protein required for S-phase initiation or completion [Cell cycle control, cell division, chromosome partitioning]
Probab=28.59 E-value=1.7e+02 Score=32.18 Aligned_cols=58 Identities=14% Similarity=0.180 Sum_probs=45.3
Q ss_pred EEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEE
Q 017902 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA 134 (364)
Q Consensus 74 LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~Vs 134 (364)
.+|-|..--..+.|.+|+.++.+.|..-+. . .-|.|-+||+ |..-.--++.|+.|.|-
T Consensus 190 t~GvI~~K~~~K~t~~G~~y~iwkL~dLk~-~-q~vslfLFG~-a~k~~wk~k~GtVialL 247 (578)
T KOG3056|consen 190 TMGVIVEKSDPKFTSNGNPYSIWKLTDLKD-H-QTVSLFLFGK-AHKRYWKIKLGTVIALL 247 (578)
T ss_pred EEEEEeecCCcccccCCCceEEEEeeecCc-c-ceeEEEEecH-HHHHHhhhccCcEEEEe
Confidence 468888888888888999888888875443 2 4688999999 76666669999988763
No 130
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=28.09 E-value=1e+02 Score=27.76 Aligned_cols=82 Identities=12% Similarity=0.202 Sum_probs=56.3
Q ss_pred cccce-EEEEEEeCCCceEEECCCCcEEEEEEEEEcC--------CCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEe
Q 017902 67 KVANS-VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (364)
Q Consensus 67 ~l~Ns-V~LIGrLg~DPElr~T~~Gk~va~f~LAv~~--------~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL 137 (364)
.|.+. |.|-|++- +.+ .++..+..|.|+-.. ......|.|.+=+.+.-. .--+.|.|+|+|
T Consensus 52 ~L~Gk~V~i~Gf~v-Ple----~~~~~v~eFlLvP~~gaC~h~PpPppNqiV~V~~~~~~~~~-----~~~~pv~V~G~l 121 (146)
T PF11736_consen 52 ALDGKQVRIPGFMV-PLE----QEEGKVTEFLLVPYFGACIHVPPPPPNQIVHVKMPKPIPVD-----SLYDPVWVEGTL 121 (146)
T ss_pred HhCCCEEEEeeEEE-eec----cCCCcEEEEEEeccCCcCcCCCCCCCccEEEEEeCCCcccc-----ccceeEEEEEEE
Confidence 55444 88999987 223 344557777776432 133478888876664321 235799999999
Q ss_pred eeCCCCcC-CeEEEEEEEeeEE
Q 017902 138 TADPPAIE-GQANVQVMVHSLN 158 (364)
Q Consensus 138 ~s~syedk-~qt~~eVvVe~v~ 158 (364)
+....+.+ +...|.+.+..|+
T Consensus 122 ~~~~~~~~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 122 KVERSSSDLGTSGYSMDADSVE 143 (146)
T ss_pred EeccccchheeEEEEEEeeEEE
Confidence 99987666 7888999988775
No 131
>COG1018 Hmp Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]
Probab=27.25 E-value=1.9e+02 Score=28.19 Aligned_cols=31 Identities=23% Similarity=0.289 Sum_probs=26.4
Q ss_pred CeeEEEEEe--chHHHHHHhhcCCCCeEEEEEE
Q 017902 106 SLWIPILFE--GDLAHIASSHLKKDDHVHIAGQ 136 (364)
Q Consensus 106 T~wI~Vv~w--GkLAE~aaqhLkKGD~V~VsGR 136 (364)
..+|.|..- |.+...++++|+.||.|.|++=
T Consensus 67 ~~~isVk~~~~G~~S~~Lh~~lk~Gd~l~v~~P 99 (266)
T COG1018 67 LYRISVKREDGGGGSNWLHDHLKVGDTLEVSAP 99 (266)
T ss_pred eEEEEEEEeCCCcccHHHHhcCCCCCEEEEecC
Confidence 577888877 6889999999999999999753
No 132
>PRK10646 ADP-binding protein; Provisional
Probab=25.95 E-value=52 Score=29.84 Aligned_cols=26 Identities=19% Similarity=0.157 Sum_probs=23.5
Q ss_pred chHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 115 GDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 115 GkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
.++|+.+++.|+.||.|++.|-|-.-
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaG 40 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAG 40 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCC
Confidence 46899999999999999999999875
No 133
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=24.89 E-value=6.8e+02 Score=29.61 Aligned_cols=78 Identities=17% Similarity=0.195 Sum_probs=50.8
Q ss_pred eEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH-H----HHHHhhcCCCCeEEEEEEeeeCCCCcC
Q 017902 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-A----HIASSHLKKDDHVHIAGQLTADPPAIE 145 (364)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL-A----E~aaqhLkKGD~V~VsGRL~s~syedk 145 (364)
.|++-|+|-. +|. .|+ ++++.|-. .+.-|+|++-.+. . +...+.+..||.|.|+|.+.... .
T Consensus 653 ~V~v~Grv~~---~R~--~G~-~~F~~lrD----~~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t~---~ 719 (1094)
T PRK02983 653 EVSVSGRVLR---IRD--YGG-VLFADLRD----WSGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTSR---N 719 (1094)
T ss_pred EEEEEEEEEE---Eee--CCC-eEEEEEEe----CCeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEcC---C
Confidence 4899999953 343 344 44444432 2456888775442 1 12234589999999999997642 1
Q ss_pred CeEEEEEEEeeEEeccCC
Q 017902 146 GQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 146 ~qt~~eVvVe~v~FV~~k 163 (364)
+ .++|.|+++..+.+.
T Consensus 720 g--e~ei~~~~i~ll~k~ 735 (1094)
T PRK02983 720 G--TLSLLVTSWRLAGKC 735 (1094)
T ss_pred C--CEEEEEeEEEEEecc
Confidence 2 478899999888644
No 134
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=23.21 E-value=67 Score=29.28 Aligned_cols=26 Identities=31% Similarity=0.322 Sum_probs=23.4
Q ss_pred chHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 115 GDLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 115 GkLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
.++|+.+++.|++||.|+++|-|-.-
T Consensus 12 ~~lg~~l~~~l~~g~Vv~L~GdLGAG 37 (149)
T COG0802 12 LALGERLAEALKAGDVVLLSGDLGAG 37 (149)
T ss_pred HHHHHHHHhhCCCCCEEEEEcCCcCC
Confidence 36889999999999999999999875
No 135
>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=23.19 E-value=2.2e+02 Score=26.21 Aligned_cols=34 Identities=15% Similarity=0.227 Sum_probs=25.8
Q ss_pred CeeEEEEEe--chHHHHHHhhcCCCCeEEEEEEeee
Q 017902 106 SLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (364)
Q Consensus 106 T~wI~Vv~w--GkLAE~aaqhLkKGD~V~VsGRL~s 139 (364)
..-|.|..- |..+..+.++++.||.|.|.|-+..
T Consensus 79 ~l~~~ik~~~~G~~s~~l~~~~~~Gd~v~i~gP~G~ 114 (243)
T cd06216 79 TITLTVKAQPDGLVSNWLVNHLAPGDVVELSQPQGD 114 (243)
T ss_pred eEEEEEEEcCCCcchhHHHhcCCCCCEEEEECCcee
Confidence 344555555 7888888888999999999986654
No 136
>smart00350 MCM minichromosome maintenance proteins.
Probab=23.06 E-value=1.7e+02 Score=31.02 Aligned_cols=52 Identities=17% Similarity=0.351 Sum_probs=37.4
Q ss_pred CeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcC-----Ce--EEEEEEEeeEEecc
Q 017902 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE-----GQ--ANVQVMVHSLNLIE 161 (364)
Q Consensus 106 T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk-----~q--t~~eVvVe~v~FV~ 161 (364)
+-.+.|++-++|.+ .++.||+|.|.|-+....|... .. ..+-|.|..|..++
T Consensus 103 Prsi~v~l~~dLvd----~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~i~~~~ 161 (509)
T smart00350 103 PRSVDVILDGDLVD----KAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANHVRKLD 161 (509)
T ss_pred CcEEEEEEcccccC----cccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeEEEEcc
Confidence 57899999999998 4689999999999998754221 22 23445566665554
No 137
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=22.90 E-value=7.4e+02 Score=27.35 Aligned_cols=89 Identities=15% Similarity=0.248 Sum_probs=51.8
Q ss_pred cceEEEEEEeCCCceEEECCCCcEEEEEEEEEcCCCCCeeEEEEEechH-HHHHHhhcCCCCeEEEEEEeeeCCCCc-C-
Q 017902 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AHIASSHLKKDDHVHIAGQLTADPPAI-E- 145 (364)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~va~f~LAv~~~~~T~wI~Vv~wGkL-AE~aaqhLkKGD~V~VsGRL~s~syed-k- 145 (364)
--.|+|.|.|-. +|... ++.++++.| +.+.-..=++|++-... +......|..|+.|.|+|.+..+.-.. +
T Consensus 81 g~~Vtl~GWv~~---iR~~g-~~~~~Fv~l--rDgsg~~~iQiVv~~~~~~~~~l~~l~~gs~v~v~G~v~~~~~~~~n~ 154 (586)
T PTZ00425 81 DQIITVCGWSKA---VRKQG-GGRFCFVNL--NDGSCHLNLQIIVDQSIENYEKLLKCGVGCCFRFTGKLIISPVQNENK 154 (586)
T ss_pred CCEEEEEEEEee---hhhcC-CceEEEEEE--ECCCCCcceEEEECCchHHHHHHhcCCCccEEEEEEEEEcCCccccCc
Confidence 346899999863 33222 223444444 32222234777764332 222345799999999999998764221 1
Q ss_pred -C--eEEEEEEE-----eeEEeccCC
Q 017902 146 -G--QANVQVMV-----HSLNLIEPT 163 (364)
Q Consensus 146 -~--qt~~eVvV-----e~v~FV~~k 163 (364)
+ ...+||.+ +++..+...
T Consensus 155 ~g~~~~~~El~~~~~~~~~~~ilg~~ 180 (586)
T PTZ00425 155 KGLLKENVELALKDNSIHNFEIYGEN 180 (586)
T ss_pred CCCCCccEEEEEecCCCceEEEEecc
Confidence 1 23588887 688878644
No 138
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=22.64 E-value=64 Score=29.03 Aligned_cols=22 Identities=23% Similarity=0.410 Sum_probs=19.6
Q ss_pred EechHHHHHHhhcCCCCeEEEE
Q 017902 113 FEGDLAHIASSHLKKDDHVHIA 134 (364)
Q Consensus 113 ~wGkLAE~aaqhLkKGD~V~Vs 134 (364)
..|+||..++..|.-||.|.|.
T Consensus 9 vlGRLAs~IA~~L~~Gd~VvVi 30 (142)
T TIGR01077 9 ILGRLASVVAKQLLNGEKVVVV 30 (142)
T ss_pred chHHHHHHHHHHHhcCCEEEEE
Confidence 4689999999999999998885
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=22.34 E-value=2.2e+02 Score=25.92 Aligned_cols=25 Identities=16% Similarity=0.323 Sum_probs=21.1
Q ss_pred chHHHHHHhhcCCCCeEEEEEEeee
Q 017902 115 GDLAHIASSHLKKDDHVHIAGQLTA 139 (364)
Q Consensus 115 GkLAE~aaqhLkKGD~V~VsGRL~s 139 (364)
|.....+.++++.||.|.|.|-+..
T Consensus 70 G~~s~~l~~~~~~Gd~v~i~gP~G~ 94 (231)
T cd06191 70 GRVSNYLREHIQPGMTVEVMGPQGH 94 (231)
T ss_pred CccchHHHhcCCCCCEEEEeCCccc
Confidence 7788888888999999999996654
No 140
>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]
Probab=21.34 E-value=1.5e+02 Score=33.28 Aligned_cols=55 Identities=18% Similarity=0.385 Sum_probs=42.6
Q ss_pred CeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcC----CeEEEEEEEeeEEeccCCC
Q 017902 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE----GQANVQVMVHSLNLIEPTS 164 (364)
Q Consensus 106 T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk----~qt~~eVvVe~v~FV~~k~ 164 (364)
+--|.|++=++|++ .||.||+|-|.|..++---..+ +....-|++++|..+....
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 36789999999987 5799999999998887543222 4446788999999987654
No 141
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=21.32 E-value=70 Score=28.94 Aligned_cols=22 Identities=27% Similarity=0.360 Sum_probs=19.4
Q ss_pred EechHHHHHHhhcCCCCeEEEE
Q 017902 113 FEGDLAHIASSHLKKDDHVHIA 134 (364)
Q Consensus 113 ~wGkLAE~aaqhLkKGD~V~Vs 134 (364)
..|+||..++..|.-||.|.|.
T Consensus 13 vlGRLAs~IA~~L~~Gd~VVVi 34 (146)
T PRK06394 13 ILGRLASYVAKRLLEGEEVVIV 34 (146)
T ss_pred chHHHHHHHHHHHhCCCEEEEE
Confidence 5689999999999999988874
No 142
>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=20.46 E-value=84 Score=27.75 Aligned_cols=25 Identities=20% Similarity=0.224 Sum_probs=22.9
Q ss_pred hHHHHHHhhcCCCCeEEEEEEeeeC
Q 017902 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (364)
Q Consensus 116 kLAE~aaqhLkKGD~V~VsGRL~s~ 140 (364)
++|+.+++.|+.|+.|.+.|-|.+-
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaG 34 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAG 34 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCC
Confidence 6899999999999999999999875
No 143
>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=20.43 E-value=2.9e+02 Score=23.46 Aligned_cols=44 Identities=23% Similarity=0.194 Sum_probs=26.9
Q ss_pred EEEEEEEEEcCCCCCeeEEEEEech--HHHHHHhhcCCCCeEEEEE
Q 017902 92 HWAGTVIVQHAASHSLWIPILFEGD--LAHIASSHLKKDDHVHIAG 135 (364)
Q Consensus 92 ~va~f~LAv~~~~~T~wI~Vv~wGk--LAE~aaqhLkKGD~V~VsG 135 (364)
.-.+++..++....+.-|.+++-|. .|-.=+..++.||.|.|.|
T Consensus 67 ~R~YTvR~~d~~~~~l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~g 112 (117)
T PF08021_consen 67 MRTYTVRRFDPETGELDIDFVLHGDEGPASRWARSARPGDRVGVTG 112 (117)
T ss_dssp EEEEE--EEETT--EEEEEEE--SS--HHHHHHHH--TT-EEEEEE
T ss_pred CCCcCEeeEcCCCCEEEEEEEECCCCCchHHHHhhCCCCCEEEEeC
Confidence 3455666777666678899999986 6666667899999999998
No 144
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=20.39 E-value=3.9e+02 Score=28.49 Aligned_cols=57 Identities=9% Similarity=0.170 Sum_probs=38.6
Q ss_pred EcCCCCCeeEEEEEechHHHHHHhhcCCCCeEEEEEEeeeCCCCcCCeEEEEEEEeeEEeccCC
Q 017902 100 QHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLNLIEPT 163 (364)
Q Consensus 100 v~~~~~T~wI~Vv~wGkLAE~aaqhLkKGD~V~VsGRL~s~syedk~qt~~eVvVe~v~FV~~k 163 (364)
++.+.-..-++|++=- -..++++-|..|.|+|.|... .-.+..+|..|+.|.-++.-
T Consensus 43 i~DGs~~~~lQvVv~~----~~~q~la~Gt~i~~~g~l~~~---~~~~q~iel~~eki~~vG~v 99 (446)
T KOG0554|consen 43 INDGSCPSPLQVVVDS----EQSQLLATGTCISAEGVLKVS---KGAKQQIELNAEKIKVVGTV 99 (446)
T ss_pred ecCCCCCcceEEEech----HHhhhccccceEEEEeeEEec---cchheeeeeeeeEEEEEeec
Confidence 3333333444444433 455789999999999999988 22566788888888777543
Done!