Query 022388
Match_columns 298
No_of_seqs 215 out of 1170
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 03:09:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022388.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022388hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK07459 single-stranded DNA-b 99.9 8.5E-27 1.8E-31 194.2 16.6 103 85-187 2-107 (121)
2 PRK06752 single-stranded DNA-b 99.9 8.2E-27 1.8E-31 191.3 15.0 102 85-186 1-108 (112)
3 PRK07275 single-stranded DNA-b 99.9 1.6E-26 3.4E-31 201.6 15.4 102 85-186 1-108 (162)
4 PRK08486 single-stranded DNA-b 99.9 2.1E-25 4.5E-30 197.9 16.1 103 85-187 1-111 (182)
5 PRK06751 single-stranded DNA-b 99.9 1.5E-25 3.1E-30 197.4 14.5 103 85-187 1-109 (173)
6 PRK07274 single-stranded DNA-b 99.9 3.3E-25 7.2E-30 186.8 15.5 102 85-187 1-108 (131)
7 PRK08763 single-stranded DNA-b 99.9 1.3E-24 2.9E-29 189.8 17.4 106 82-187 1-114 (164)
8 PRK06293 single-stranded DNA-b 99.9 1.6E-24 3.5E-29 188.7 15.3 101 86-186 1-104 (161)
9 PRK06642 single-stranded DNA-b 99.9 1.9E-24 4.2E-29 186.6 15.7 104 83-186 2-119 (152)
10 PRK08182 single-stranded DNA-b 99.9 2.6E-24 5.7E-29 185.1 15.1 102 85-186 1-115 (148)
11 TIGR00621 ssb single stranded 99.9 5.5E-24 1.2E-28 185.6 17.3 103 83-185 1-111 (164)
12 PRK06958 single-stranded DNA-b 99.9 4.5E-24 9.8E-29 189.1 17.0 104 84-187 2-114 (182)
13 PRK06863 single-stranded DNA-b 99.9 4.7E-24 1E-28 187.0 15.5 104 84-187 2-114 (168)
14 PRK09010 single-stranded DNA-b 99.9 7E-24 1.5E-28 187.3 15.3 104 84-187 4-119 (177)
15 PRK13732 single-stranded DNA-b 99.9 1.4E-23 2.9E-28 185.2 16.9 103 84-187 4-118 (175)
16 PRK06341 single-stranded DNA-b 99.9 4.2E-23 9.1E-28 180.7 17.9 105 82-186 1-119 (166)
17 PF00436 SSB: Single-strand bi 99.9 1.6E-23 3.5E-28 166.4 13.9 96 86-181 1-104 (104)
18 PRK05733 single-stranded DNA-b 99.9 3E-23 6.6E-28 182.5 16.5 104 82-186 1-116 (172)
19 PRK05813 single-stranded DNA-b 99.9 2.3E-22 5.1E-27 182.9 15.4 101 84-185 107-211 (219)
20 PRK02801 primosomal replicatio 99.9 5.3E-22 1.1E-26 160.6 14.1 93 85-181 1-100 (101)
21 PRK07772 single-stranded DNA-b 99.9 1.1E-21 2.3E-26 174.7 14.9 97 84-180 2-108 (186)
22 COG0629 Ssb Single-stranded DN 99.9 2.5E-21 5.5E-26 169.0 12.4 101 85-185 2-115 (167)
23 cd04496 SSB_OBF SSB_OBF: A sub 99.8 1.1E-19 2.4E-24 142.9 14.6 93 89-181 1-100 (100)
24 PRK05853 hypothetical protein; 99.8 9.5E-20 2.1E-24 158.8 12.2 89 91-180 1-98 (161)
25 PRK05813 single-stranded DNA-b 99.8 1.6E-17 3.4E-22 151.4 14.8 97 86-186 8-105 (219)
26 KOG1653 Single-stranded DNA-bi 99.5 1.2E-14 2.7E-19 125.7 7.9 101 83-183 52-166 (175)
27 COG2965 PriB Primosomal replic 98.8 5.9E-08 1.3E-12 78.1 11.4 96 83-182 1-103 (103)
28 PRK00036 primosomal replicatio 98.8 3.5E-08 7.6E-13 81.0 10.1 91 86-183 1-98 (107)
29 PF01336 tRNA_anti-codon: OB-f 97.6 0.00052 1.1E-08 50.5 8.7 75 89-181 1-75 (75)
30 cd04487 RecJ_OBF2_like RecJ_OB 97.0 0.0055 1.2E-07 46.8 8.3 73 89-181 1-73 (73)
31 cd04489 ExoVII_LU_OBF ExoVII_L 97.0 0.011 2.3E-07 44.3 9.9 74 89-179 2-75 (78)
32 cd04484 polC_OBF polC_OBF: A s 96.5 0.033 7.1E-07 43.3 9.7 66 89-161 2-69 (82)
33 PF13742 tRNA_anti_2: OB-fold 96.3 0.088 1.9E-06 42.3 11.1 77 86-179 21-98 (99)
34 cd03524 RPA2_OBF_family RPA2_O 96.2 0.08 1.7E-06 37.4 9.6 59 91-157 2-61 (75)
35 cd04485 DnaE_OBF DnaE_OBF: A s 96.1 0.049 1.1E-06 40.1 8.5 76 91-181 2-77 (84)
36 cd04474 RPA1_DBD_A RPA1_DBD_A: 96.0 0.042 9.1E-07 44.3 8.2 68 85-156 8-78 (104)
37 cd04492 YhaM_OBF_like YhaM_OBF 95.9 0.092 2E-06 39.1 9.2 72 96-182 6-77 (83)
38 cd04482 RPA2_OBF_like RPA2_OBF 95.8 0.065 1.4E-06 42.5 8.3 71 90-181 2-74 (91)
39 PRK07211 replication factor A; 95.0 0.15 3.3E-06 52.0 9.8 68 84-156 61-133 (485)
40 TIGR00237 xseA exodeoxyribonuc 94.9 0.15 3.2E-06 51.2 9.4 78 86-180 17-94 (432)
41 PRK00286 xseA exodeoxyribonucl 94.4 0.31 6.7E-06 48.6 10.3 78 86-180 23-100 (438)
42 cd04490 PolII_SU_OBF PolII_SU_ 94.4 0.95 2.1E-05 34.9 10.7 71 89-180 2-74 (79)
43 COG1570 XseA Exonuclease VII, 93.3 0.35 7.6E-06 48.8 8.2 78 86-180 23-100 (440)
44 PRK13480 3'-5' exoribonuclease 92.8 0.58 1.3E-05 45.3 8.6 74 95-183 19-92 (314)
45 cd04475 RPA1_DBD_B RPA1_DBD_B: 92.7 1.5 3.2E-05 34.6 9.6 67 89-160 2-71 (101)
46 cd04491 SoSSB_OBF SoSSB_OBF: A 92.6 0.64 1.4E-05 35.4 7.1 62 91-158 2-65 (82)
47 PRK07373 DNA polymerase III su 91.9 1.3 2.9E-05 44.8 10.4 81 87-182 281-361 (449)
48 PF11506 DUF3217: Protein of u 91.9 5.6 0.00012 31.8 11.7 81 85-170 1-84 (104)
49 cd04320 AspRS_cyto_N AspRS_cyt 91.7 3.9 8.5E-05 32.3 11.0 86 88-184 1-92 (102)
50 PRK06461 single-stranded DNA-b 91.6 1 2.2E-05 37.9 7.8 62 86-156 14-79 (129)
51 PRK15491 replication factor A; 91.1 1.3 2.8E-05 43.9 9.1 71 86-160 176-249 (374)
52 PHA01740 putative single-stran 91.1 0.13 2.8E-06 44.2 1.8 23 235-257 17-41 (158)
53 PF11325 DUF3127: Domain of un 90.9 2.5 5.3E-05 33.5 8.8 80 91-178 2-83 (84)
54 cd04100 Asp_Lys_Asn_RS_N Asp_L 90.9 3 6.5E-05 31.9 9.2 81 88-182 1-84 (85)
55 cd04317 EcAspRS_like_N EcAspRS 90.6 3.8 8.3E-05 34.1 10.4 87 87-184 15-104 (135)
56 PRK05673 dnaE DNA polymerase I 90.4 1.6 3.4E-05 49.1 10.0 81 87-182 978-1058(1135)
57 PRK15491 replication factor A; 90.3 0.99 2.1E-05 44.7 7.5 66 84-154 65-135 (374)
58 PRK07211 replication factor A; 89.8 1 2.2E-05 46.2 7.3 68 85-156 170-240 (485)
59 PRK12366 replication factor A; 89.7 3.6 7.9E-05 43.4 11.5 86 87-181 292-380 (637)
60 cd04488 RecG_wedge_OBF RecG_we 88.7 2.1 4.7E-05 30.6 6.6 60 91-158 2-61 (75)
61 cd04323 AsnRS_cyto_like_N AsnR 87.8 6.3 0.00014 30.1 9.0 81 88-182 1-83 (84)
62 PRK14699 replication factor A; 87.4 1.5 3.3E-05 44.9 6.7 65 85-154 66-135 (484)
63 cd04321 ScAspRS_mt_like_N ScAs 87.3 12 0.00025 28.9 11.3 84 88-182 1-85 (86)
64 PRK14699 replication factor A; 87.1 4.8 0.0001 41.3 10.1 86 85-183 175-265 (484)
65 PRK00448 polC DNA polymerase I 86.7 4.4 9.6E-05 46.7 10.5 87 85-184 235-323 (1437)
66 PRK06920 dnaE DNA polymerase I 86.5 4.2 9.2E-05 45.7 10.0 80 88-182 945-1024(1107)
67 PRK06826 dnaE DNA polymerase I 86.2 5 0.00011 45.3 10.4 83 87-183 992-1074(1151)
68 cd04322 LysRS_N LysRS_N: N-ter 85.9 14 0.0003 29.5 10.4 78 88-184 1-83 (108)
69 cd04478 RPA2_DBD_D RPA2_DBD_D: 85.8 6.3 0.00014 30.4 8.1 75 89-183 2-79 (95)
70 PRK07374 dnaE DNA polymerase I 85.5 5.4 0.00012 45.2 10.3 81 87-182 1001-1081(1170)
71 COG3390 Uncharacterized protei 85.4 3.3 7.1E-05 37.6 6.9 89 84-182 43-131 (196)
72 PRK12366 replication factor A; 85.1 3 6.5E-05 44.0 7.7 66 84-155 71-140 (637)
73 TIGR01405 polC_Gram_pos DNA po 84.4 6.9 0.00015 44.5 10.5 85 86-183 7-93 (1213)
74 PRK08402 replication factor A; 83.6 3 6.6E-05 41.1 6.6 68 85-157 71-142 (355)
75 cd04316 ND_PkAspRS_like_N ND_P 82.9 22 0.00048 28.4 12.5 81 87-184 13-97 (108)
76 PRK07279 dnaE DNA polymerase I 81.6 11 0.00024 42.1 10.6 81 87-182 885-966 (1034)
77 cd04319 PhAsnRS_like_N PhAsnRS 81.4 25 0.00054 27.9 11.2 80 88-184 1-83 (103)
78 cd04497 hPOT1_OB1_like hPOT1_O 80.0 9.4 0.0002 32.2 7.5 73 86-161 14-86 (138)
79 TIGR00617 rpa1 replication fac 78.9 8.7 0.00019 40.4 8.4 68 85-157 189-260 (608)
80 TIGR00457 asnS asparaginyl-tRN 77.3 30 0.00065 35.1 11.4 84 87-185 17-103 (453)
81 PLN02903 aminoacyl-tRNA ligase 77.2 23 0.00049 37.9 10.8 87 87-184 73-163 (652)
82 PRK05672 dnaE2 error-prone DNA 77.0 16 0.00035 41.0 10.1 78 88-182 955-1032(1046)
83 PF02765 POT1: Telomeric singl 76.3 11 0.00024 31.9 7.0 73 86-161 12-91 (146)
84 TIGR00458 aspS_arch aspartyl-t 73.3 37 0.00081 34.1 10.8 81 87-184 13-97 (428)
85 PF10451 Stn1: Telomere regula 73.2 17 0.00038 34.2 8.0 83 84-183 64-149 (256)
86 PRK03932 asnC asparaginyl-tRNA 72.0 38 0.00083 34.2 10.7 81 87-184 17-100 (450)
87 PLN02850 aspartate-tRNA ligase 71.3 54 0.0012 34.1 11.7 85 87-184 82-172 (530)
88 PRK05159 aspC aspartyl-tRNA sy 70.9 41 0.00089 33.8 10.5 82 87-185 17-101 (437)
89 KOG3416 Predicted nucleic acid 70.8 13 0.00029 31.7 5.9 79 86-173 14-98 (134)
90 TIGR00459 aspS_bact aspartyl-t 68.4 55 0.0012 34.5 11.1 87 87-184 16-104 (583)
91 cd04481 RPA1_DBD_B_like RPA1_D 68.1 53 0.0012 26.1 8.8 39 124-162 34-76 (106)
92 TIGR00499 lysS_bact lysyl-tRNA 67.3 57 0.0012 33.6 10.8 78 88-184 55-137 (496)
93 cd04318 EcAsnRS_like_N EcAsnRS 66.1 54 0.0012 24.6 9.9 77 89-182 2-81 (82)
94 COG0017 AsnS Aspartyl/asparagi 65.6 48 0.0011 33.7 9.7 82 87-185 17-101 (435)
95 COG3689 Predicted membrane pro 65.3 24 0.00053 33.6 7.1 88 87-185 176-263 (271)
96 COG2176 PolC DNA polymerase II 64.4 19 0.00042 40.9 7.1 88 84-184 237-326 (1444)
97 PTZ00401 aspartyl-tRNA synthet 64.2 79 0.0017 33.1 11.3 87 87-185 79-170 (550)
98 PTZ00385 lysyl-tRNA synthetase 62.5 65 0.0014 34.5 10.4 77 88-183 109-191 (659)
99 PRK00476 aspS aspartyl-tRNA sy 62.5 85 0.0018 33.1 11.2 88 87-185 18-107 (588)
100 PTZ00417 lysine-tRNA ligase; P 62.0 70 0.0015 33.8 10.5 79 88-184 134-219 (585)
101 PF12101 DUF3577: Protein of u 60.4 1.1E+02 0.0025 26.4 12.4 94 89-183 14-121 (137)
102 PF13567 DUF4131: Domain of un 59.3 42 0.00092 27.2 6.9 65 86-159 75-145 (176)
103 PRK12820 bifunctional aspartyl 59.3 95 0.002 33.6 11.0 88 87-185 19-111 (706)
104 PF12869 tRNA_anti-like: tRNA_ 58.8 26 0.00057 29.0 5.6 65 87-159 68-133 (144)
105 COG1190 LysU Lysyl-tRNA synthe 57.8 63 0.0014 33.5 9.0 81 89-184 64-145 (502)
106 PRK00484 lysS lysyl-tRNA synth 57.8 1E+02 0.0022 31.7 10.6 79 87-184 55-137 (491)
107 PLN02502 lysyl-tRNA synthetase 57.3 1.1E+02 0.0025 32.0 11.0 79 87-184 109-194 (553)
108 cd04483 hOBFC1_like hOBFC1_lik 56.4 65 0.0014 25.4 7.2 37 123-159 23-79 (92)
109 COG1200 RecG RecG-like helicas 53.9 86 0.0019 33.7 9.5 63 87-157 61-123 (677)
110 TIGR00643 recG ATP-dependent D 53.1 78 0.0017 33.3 9.1 63 87-157 33-95 (630)
111 KOG1885 Lysyl-tRNA synthetase 51.5 45 0.00098 34.5 6.7 78 88-183 106-189 (560)
112 COG4097 Predicted ferric reduc 51.2 18 0.0004 36.3 3.9 38 124-161 275-312 (438)
113 PF00970 FAD_binding_6: Oxidor 50.4 72 0.0016 24.3 6.5 35 124-159 62-98 (99)
114 PRK07218 replication factor A; 50.1 55 0.0012 33.2 7.2 62 86-157 172-235 (423)
115 COG0587 DnaE DNA polymerase II 49.4 69 0.0015 36.5 8.4 67 88-159 978-1044(1139)
116 COG1107 Archaea-specific RecJ- 49.1 21 0.00046 37.8 4.1 80 86-185 213-292 (715)
117 PRK10917 ATP-dependent DNA hel 48.7 53 0.0011 34.9 7.1 63 87-157 60-122 (681)
118 PRK12445 lysyl-tRNA synthetase 47.7 1.6E+02 0.0036 30.4 10.3 78 88-184 67-149 (505)
119 cd04498 hPOT1_OB2 hPOT1_OB2: A 45.3 29 0.00063 29.3 3.7 28 125-153 60-87 (123)
120 PRK06386 replication factor A; 43.0 1.6E+02 0.0036 29.2 9.1 81 84-184 115-197 (358)
121 KOG3056 Protein required for S 42.7 72 0.0016 33.5 6.7 76 91-173 190-266 (578)
122 PRK07218 replication factor A; 41.8 97 0.0021 31.4 7.4 64 79-154 61-127 (423)
123 PLN02221 asparaginyl-tRNA synt 41.6 2.4E+02 0.0051 29.8 10.4 87 87-185 51-138 (572)
124 TIGR00617 rpa1 replication fac 41.4 1.3E+02 0.0028 31.8 8.6 66 88-157 312-380 (608)
125 PRK02983 lysS lysyl-tRNA synth 40.9 2.7E+02 0.0058 31.8 11.3 78 88-184 653-735 (1094)
126 PLN02603 asparaginyl-tRNA synt 40.9 4.1E+02 0.009 28.0 12.1 87 84-185 105-194 (565)
127 COG1571 Predicted DNA-binding 38.2 3.9E+02 0.0084 27.3 10.9 67 84-159 264-332 (421)
128 smart00350 MCM minichromosome 37.8 74 0.0016 32.6 6.0 57 123-183 102-162 (509)
129 PRK07135 dnaE DNA polymerase I 33.2 1.6E+02 0.0035 33.1 8.0 63 88-158 899-961 (973)
130 PTZ00425 asparagine-tRNA ligas 30.4 4.4E+02 0.0095 28.0 10.3 92 86-184 81-180 (586)
131 PLN02532 asparagine-tRNA synth 28.7 1.2E+02 0.0027 32.4 6.0 54 126-184 148-201 (633)
132 PF09104 BRCA-2_OB3: BRCA2, ol 28.2 2.2E+02 0.0048 24.8 6.5 85 85-185 17-103 (143)
133 COG1018 Hmp Flavodoxin reducta 27.0 95 0.0021 29.2 4.4 40 123-162 66-107 (266)
134 PF08021 FAD_binding_9: Sidero 26.0 1.4E+02 0.0031 24.4 4.8 43 112-154 69-113 (117)
135 cd04486 YhcR_OBF_like YhcR_OBF 25.2 74 0.0016 24.3 2.7 20 140-159 42-61 (78)
136 cd06198 FNR_like_3 NAD(P) bind 25.1 1.3E+02 0.0029 26.2 4.8 34 127-160 58-91 (216)
137 PTZ00111 DNA replication licen 24.7 1.9E+02 0.0041 32.4 6.6 56 125-184 346-405 (915)
138 PF06557 DUF1122: Protein of u 23.5 1.8E+02 0.004 26.0 5.2 60 93-153 13-86 (170)
139 PF02367 UPF0079: Uncharacteri 22.1 47 0.001 27.8 1.2 25 134-158 3-27 (123)
140 PRK10646 ADP-binding protein; 21.4 69 0.0015 27.9 2.1 26 134-159 16-41 (153)
141 COG0802 Predicted ATPase or ki 21.3 76 0.0016 27.7 2.3 26 134-159 13-38 (149)
142 PF10628 CotE: Outer spore coa 21.0 6.3E+02 0.014 22.9 8.4 71 106-182 15-85 (182)
143 cd06211 phenol_2-monooxygenase 20.5 1.8E+02 0.0039 25.9 4.8 28 133-160 77-104 (238)
144 PF10574 UPF0552: Uncharacteri 20.3 3.3E+02 0.0071 25.5 6.3 45 143-187 29-76 (224)
No 1
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=8.5e-27 Score=194.23 Aligned_cols=103 Identities=30% Similarity=0.473 Sum_probs=97.3
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC--CCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeec
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~--~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
+||+|+|+|+|++||+++++++|+++|+|+||+++.+ ++++||+|++||++|+.+.+||+||++|+|+|+|+++.|+|
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 4899999999999999999999999999999999875 57999999999999999999999999999999999999999
Q ss_pred CC-CcEEEEEEEEEEEEEEeecCCCC
Q 022388 163 GD-GQQQTYYKVVVQQLNFVERSSPS 187 (298)
Q Consensus 163 kd-G~~r~~~eIva~~I~fl~~k~~s 187 (298)
++ |++++.++|+|++|.||+.+.+.
T Consensus 82 ~d~G~~r~~~ei~a~~i~~L~~k~~~ 107 (121)
T PRK07459 82 RNTGEDRSKPVIRVDRLELLGSKRDS 107 (121)
T ss_pred CCCCeEEEEEEEEEeEEEECcCCCcc
Confidence 87 99999999999999999876544
No 2
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.95 E-value=8.2e-27 Score=191.26 Aligned_cols=102 Identities=26% Similarity=0.386 Sum_probs=96.8
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC------CCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeee
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~ 158 (298)
|||+|+|+|+|++||+++++++|++++.|+||+++.+ .+++||+|++||++|+.++++|+||++|+|+|+|+++
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 7999999999999999999999999999999999764 2589999999999999999999999999999999999
Q ss_pred eeecCCCcEEEEEEEEEEEEEEeecCCC
Q 022388 159 VVESGDGQQQTYYKVVVQQLNFVERSSP 186 (298)
Q Consensus 159 ~~~dkdG~~r~~~eIva~~I~fl~~k~~ 186 (298)
.|+|++|++++.++|+|++|.||+++.+
T Consensus 81 ~~~~~~G~~~~~~ei~a~~i~~l~~~~~ 108 (112)
T PRK06752 81 NYEDDQGKRIYITEVVIESITFLERRRE 108 (112)
T ss_pred ccCCCCCcEEEEEEEEEEEEEECCCCCc
Confidence 9999999999999999999999987654
No 3
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=1.6e-26 Score=201.59 Aligned_cols=102 Identities=25% Similarity=0.394 Sum_probs=97.3
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC------CCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeee
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~ 158 (298)
|||+|+|+|||++||++|++++|..+|.|+|||++.+ .+++||+|++||++|+.+++||+||++|+|+|+|+++
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 7999999999999999999999999999999999864 2689999999999999999999999999999999999
Q ss_pred eeecCCCcEEEEEEEEEEEEEEeecCCC
Q 022388 159 VVESGDGQQQTYYKVVVQQLNFVERSSP 186 (298)
Q Consensus 159 ~~~dkdG~~r~~~eIva~~I~fl~~k~~ 186 (298)
.|++++|++++.++|+|++|.||+++..
T Consensus 81 ~y~dkdG~k~~~~evva~~i~~l~~~~~ 108 (162)
T PRK07275 81 NYENQQGQRVYVTEVVADNFQMLESRAT 108 (162)
T ss_pred eEECCCCCEEEEEEEEEeEEEECCCCCc
Confidence 9999999999999999999999988763
No 4
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=2.1e-25 Score=197.85 Aligned_cols=103 Identities=24% Similarity=0.445 Sum_probs=97.6
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC--------CCceEEEEEEehHHHHHHHhcCccCceEEEEEEee
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLV 156 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~--------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~ 156 (298)
|||+|+|+|+|++||++|++++|..+|.|+||+++.+ ++++||+|++||++|+.+.+||+||++|+|+|+|+
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 7899999999999999999999999999999999753 36899999999999999999999999999999999
Q ss_pred eeeeecCCCcEEEEEEEEEEEEEEeecCCCC
Q 022388 157 SDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (298)
Q Consensus 157 s~~~~dkdG~~r~~~eIva~~I~fl~~k~~s 187 (298)
++.|+|++|++++.++|+|++|.||.++...
T Consensus 81 ~~~y~dkdG~~r~~~eI~a~~v~~L~~~~~~ 111 (182)
T PRK08486 81 FESWMDQNGQKRSKHTITAESMQMLDSKSDN 111 (182)
T ss_pred eCcEECCCCcEEEEEEEEEeEEEECCCCCCC
Confidence 9999999999999999999999999887653
No 5
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=1.5e-25 Score=197.38 Aligned_cols=103 Identities=24% Similarity=0.397 Sum_probs=97.6
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC------CCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeee
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~ 158 (298)
|||+|+|+|||++||++|++++|.++|.|+||+++.+ .+++||+|++||++|+.+++||+||++|+|+|+|+++
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 7999999999999999999999999999999999864 2578999999999999999999999999999999999
Q ss_pred eeecCCCcEEEEEEEEEEEEEEeecCCCC
Q 022388 159 VVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (298)
Q Consensus 159 ~~~dkdG~~r~~~eIva~~I~fl~~k~~s 187 (298)
.|++++|++++.++|+|++|.||+.+.+.
T Consensus 81 ~yedkdG~~~~~~eVva~~i~~l~~r~~~ 109 (173)
T PRK06751 81 NYEGQDGKRVYVTEVLAESVQFLEPRNGG 109 (173)
T ss_pred ccCCCCCcEEEEEEEEEEEEEeCcCCCCC
Confidence 99999999999999999999999987654
No 6
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=3.3e-25 Score=186.80 Aligned_cols=102 Identities=27% Similarity=0.405 Sum_probs=96.0
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCC------CceEEEEEEehHHHHHHHhcCccCceEEEEEEeeee
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT------QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~------~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~ 158 (298)
|||+|+|+|+|++||+++++++|+.+|.|+||+++++. +++||+|++||++|+.+++||+||++|+|+|+|+++
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 79999999999999999999999999999999997642 588999999999999999999999999999999999
Q ss_pred eeecCCCcEEEEEEEEEEEEEEeecCCCC
Q 022388 159 VVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (298)
Q Consensus 159 ~~~dkdG~~r~~~eIva~~I~fl~~k~~s 187 (298)
+| +++|++++.++|+|++|.||+.+...
T Consensus 81 ~y-~kdG~~~~~~eviv~~i~~l~~k~~~ 108 (131)
T PRK07274 81 KY-EKDGQTHYVTEVLCQSFQLLESRAQR 108 (131)
T ss_pred cC-ccCCcEEEEEEEEEEEEEECcCCCcc
Confidence 99 89999999999999999999876543
No 7
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=1.3e-24 Score=189.78 Aligned_cols=106 Identities=25% Similarity=0.413 Sum_probs=98.4
Q ss_pred CcCCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC--------CCceEEEEEEehHHHHHHHhcCccCceEEEEE
Q 022388 82 DKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISG 153 (298)
Q Consensus 82 ~~~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~--------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsG 153 (298)
|.+.||+|+|+|+|++||+++++++|..+++|+||+++.+ +.++||+|++||++|+.+.+||+||++|+|+|
T Consensus 1 mar~~Nkv~LiGrLg~DPelr~t~~G~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~Ae~v~~~L~KGs~V~VeG 80 (164)
T PRK08763 1 MARGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDREGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEG 80 (164)
T ss_pred CCCcceEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecCCCCeeccceEEEEEEehHHHHHHHHhcCCCCEEEEEE
Confidence 3456999999999999999999999999999999999643 35889999999999999999999999999999
Q ss_pred EeeeeeeecCCCcEEEEEEEEEEEEEEeecCCCC
Q 022388 154 RLVSDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (298)
Q Consensus 154 rL~s~~~~dkdG~~r~~~eIva~~I~fl~~k~~s 187 (298)
+|+++.|++++|++++.++|+|++|.||+++...
T Consensus 81 rL~~~~y~dkdG~kr~~~eIva~~i~~L~~~~~~ 114 (164)
T PRK08763 81 SIRYDKFTGQDGQERYVTEIVADEMQMLGGRGEG 114 (164)
T ss_pred EEEeceeECCCCCEEEEEEEEEeEEEECCCCCCC
Confidence 9999999999999999999999999999987544
No 8
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=1.6e-24 Score=188.68 Aligned_cols=101 Identities=20% Similarity=0.336 Sum_probs=96.1
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC---CCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeec
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~---~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
||.|+|+|||++||++|++++|+.+++|+||++++. ++++||+|++||++|+.++++|+||++|+|+|+|+++.|+|
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 899999999999999999999999999999999754 47999999999999999999999999999999999999999
Q ss_pred CCCcEEEEEEEEEEEEEEeecCCC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERSSP 186 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k~~ 186 (298)
++|++++.++|+|++|.|+..++.
T Consensus 81 kdG~kr~~~eIva~~I~fl~~~~~ 104 (161)
T PRK06293 81 KDGSPQSSLVVSVDTIKFSPFGRN 104 (161)
T ss_pred CCCCEEEEEEEEEeEEEECcCCCc
Confidence 999999999999999999977653
No 9
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=1.9e-24 Score=186.65 Aligned_cols=104 Identities=28% Similarity=0.420 Sum_probs=95.7
Q ss_pred cCCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEehH-HHHHHHhcCccCceEEEE
Q 022388 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDE-LAHVASQHVEKGQQIYIS 152 (298)
Q Consensus 83 ~~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~---------~~t~wi~Vv~wg~-lAe~~a~~LkKGD~V~Vs 152 (298)
...||+|+|+|||++||+++++++|+++++|+||+++.+ +.++||+|++||+ +|+.+++||+||++|+|+
T Consensus 2 a~~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~ 81 (152)
T PRK06642 2 AGSLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIE 81 (152)
T ss_pred CCcceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEE
Confidence 345899999999999999999999999999999999753 2589999999996 999999999999999999
Q ss_pred EEeeeeeeecCCCcEEEEEEEEEEEE----EEeecCCC
Q 022388 153 GRLVSDVVESGDGQQQTYYKVVVQQL----NFVERSSP 186 (298)
Q Consensus 153 GrL~s~~~~dkdG~~r~~~eIva~~I----~fl~~k~~ 186 (298)
|+|+++.|++++|++++.++|+|++| .||+++..
T Consensus 82 GrL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k~~ 119 (152)
T PRK06642 82 GSLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNS 119 (152)
T ss_pred EEEEeCeeECCCCCEEEEEEEEEEecccceEeccCCCC
Confidence 99999999999999999999999987 79887654
No 10
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=2.6e-24 Score=185.06 Aligned_cols=102 Identities=16% Similarity=0.321 Sum_probs=95.0
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcE----EEEEEEEEecCC---------CCceEEEEEEehHHHHHHHhcCccCceEEE
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKV----LAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYI 151 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~----va~f~LAv~r~~---------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~V 151 (298)
|||+|+|+|||++||+++++++|.. +++|+||+++.+ ..++||+|++||++|+.+.+||+||++|+|
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 999999998643 147899999999999999999999999999
Q ss_pred EEEeeeeeeecCCCcEEEEEEEEEEEEEEeecCCC
Q 022388 152 SGRLVSDVVESGDGQQQTYYKVVVQQLNFVERSSP 186 (298)
Q Consensus 152 sGrL~s~~~~dkdG~~r~~~eIva~~I~fl~~k~~ 186 (298)
+|+|+++.|+|++|++++.++|+|++|.|+..+..
T Consensus 81 ~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r~~ 115 (148)
T PRK08182 81 EGRMERDEWTDNEDNERVTFKVEARRVGILPYRIE 115 (148)
T ss_pred EEEEEecccCCCCCCEEEEEEEEEeEEEEcCCccc
Confidence 99999999999999999999999999999986554
No 11
>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=99.92 E-value=5.5e-24 Score=185.60 Aligned_cols=103 Identities=26% Similarity=0.467 Sum_probs=97.1
Q ss_pred cCCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC--------CCceEEEEEEehHHHHHHHhcCccCceEEEEEE
Q 022388 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (298)
Q Consensus 83 ~~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~--------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGr 154 (298)
|.|||+|+|+|+|++||+++++++|++++.|+||+++++ +.++||+|++||++|+.++++|+||++|+|+|+
T Consensus 1 m~m~N~V~L~G~l~~dPe~r~t~~G~~v~~fsvA~~~~~~~~~G~~~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~ 80 (164)
T TIGR00621 1 MRMVNKVILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQDGEWKEETEWHDIVIFGRLAEVAAQYLKKGSLVYVEGR 80 (164)
T ss_pred CCcccEEEEEEEeCCCCEEEECCCCCEEEEEEEEEcCceecCCCCEeccceEEEEEEehHHHHHHHHhCCCCCEEEEEEE
Confidence 568999999999999999999999999999999998753 257899999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEEEEEEeecCC
Q 022388 155 LVSDVVESGDGQQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 155 L~s~~~~dkdG~~r~~~eIva~~I~fl~~k~ 185 (298)
|+++.|++++|++++.++|+|++|.+|..+.
T Consensus 81 L~~~~~~~kdG~~~~~~ev~a~~i~~L~~~~ 111 (164)
T TIGR00621 81 LRTRKWEDQNGQKRSKTEIIADNVQLLDLLG 111 (164)
T ss_pred EEeceEECCCCcEEEEEEEEEEEEeeccccC
Confidence 9999999999999999999999999998764
No 12
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=4.5e-24 Score=189.06 Aligned_cols=104 Identities=30% Similarity=0.510 Sum_probs=97.2
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEehHHHHHHHhcCccCceEEEEEE
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~---------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGr 154 (298)
.+||+|+|+|||++||+++++++|+.+++|+||+++.+ +.++||+|++|+++|+.+++||+||++|+|+|+
T Consensus 2 as~N~V~LiGrLg~DPElr~t~nG~~va~fsVAv~~~~kdk~sGe~~e~T~w~~V~~fGk~AE~v~~~LkKGs~V~VeGr 81 (182)
T PRK06958 2 ASVNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYIEGR 81 (182)
T ss_pred CcccEEEEEEEecCCCeEEEcCCCCEEEEEEEEeccccccccCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEEE
Confidence 34899999999999999999999999999999998743 258899999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEEEEEEeecCCCC
Q 022388 155 LVSDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (298)
Q Consensus 155 L~s~~~~dkdG~~r~~~eIva~~I~fl~~k~~s 187 (298)
|+++.|+|++|++++.++|+|++|.||..+.+.
T Consensus 82 L~~~~yeDkdG~kr~~~eVvA~~V~fL~sr~~~ 114 (182)
T PRK06958 82 IRTRKWQGQDGQDRYSTEIVADQMQMLGGRGGS 114 (182)
T ss_pred EEeCceECCCCcEEEEEEEEEeEEEECCCCccC
Confidence 999999999999999999999999999987654
No 13
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=4.7e-24 Score=187.01 Aligned_cols=104 Identities=25% Similarity=0.428 Sum_probs=97.0
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEehHHHHHHHhcCccCceEEEEEE
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~---------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGr 154 (298)
..||+|+|+|+|++||++|++++|+.+++|+||+++.+ +.++||+|++||++|+.++++|+||++|+|+|+
T Consensus 2 ~~~N~V~LiGrLg~DPElR~t~nG~~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~AE~v~~~LkKGs~V~VeGr 81 (168)
T PRK06863 2 AGINKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEGR 81 (168)
T ss_pred CCccEEEEEEEcCCCCEEEEcCCCCEEEEEEEEecCcccccCCCcccccceEEEEEEEhHHHHHHHHHCCCCCEEEEEEE
Confidence 34899999999999999999999999999999999642 247899999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEEEEEEeecCCCC
Q 022388 155 LVSDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (298)
Q Consensus 155 L~s~~~~dkdG~~r~~~eIva~~I~fl~~k~~s 187 (298)
|+++.|+|++|++++.++|+|++|.||+++...
T Consensus 82 L~~r~w~DkdG~~r~~~eI~a~~i~~L~~r~~~ 114 (168)
T PRK06863 82 LKTRKWQDQNGQDRYTTEIQGDVLQMLGGRNQR 114 (168)
T ss_pred EEeCCccCCCCCEEEEEEEEEeEEEECCCCCcc
Confidence 999999999999999999999999999987653
No 14
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=7e-24 Score=187.30 Aligned_cols=104 Identities=30% Similarity=0.457 Sum_probs=97.2
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEehHHHHHHHhcCccCceEEEEEE
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~---------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGr 154 (298)
+.||+|+|+|||++||++|++++|..+++|+||+++.+ ++++||+|++||++|+.++++|+||++|+|+|+
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 57999999999999999999999999999999999753 258899999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEE---EEEEeecCCCC
Q 022388 155 LVSDVVESGDGQQQTYYKVVVQ---QLNFVERSSPS 187 (298)
Q Consensus 155 L~s~~~~dkdG~~r~~~eIva~---~I~fl~~k~~s 187 (298)
|+++.|+|++|++++.++|+|+ +|.||.++..+
T Consensus 84 L~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r~~~ 119 (177)
T PRK09010 84 LRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGG 119 (177)
T ss_pred EEeccccCCCCCEEEEEEEEEecCCcEEEccCCCCC
Confidence 9999999999999999999998 89999877544
No 15
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=1.4e-23 Score=185.20 Aligned_cols=103 Identities=28% Similarity=0.486 Sum_probs=96.2
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEehHHHHHHHhcCccCceEEEEEE
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~---------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGr 154 (298)
+.||+|+|+|+|++||+++++++|..+|.|+||+++.+ +.++||+|++||++|+.+++||+||+.|+|+|+
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 36899999999999999999999999999999999753 258899999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEE---EEEEeecCCCC
Q 022388 155 LVSDVVESGDGQQQTYYKVVVQ---QLNFVERSSPS 187 (298)
Q Consensus 155 L~s~~~~dkdG~~r~~~eIva~---~I~fl~~k~~s 187 (298)
|+++.|++ +|++++.++|+|+ +|.||+++...
T Consensus 84 L~~r~ye~-dG~kr~~~eIiv~~~g~~~fL~~~~~~ 118 (175)
T PRK13732 84 LRTRSWED-NGITRYVTEILVKTTGTMQMLGRAPQQ 118 (175)
T ss_pred EEeeeEcc-CCeEEEEEEEEEeecCeEEEecCCCCC
Confidence 99999986 7999999999999 99999988765
No 16
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=4.2e-23 Score=180.65 Aligned_cols=105 Identities=27% Similarity=0.436 Sum_probs=95.8
Q ss_pred CcCCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEehH-HHHHHHhcCccCceEEE
Q 022388 82 DKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDE-LAHVASQHVEKGQQIYI 151 (298)
Q Consensus 82 ~~~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~---------~~t~wi~Vv~wg~-lAe~~a~~LkKGD~V~V 151 (298)
|..+||+|+|+|+|++||++|++++|+++|+|+||+++++ ++++||+|++|++ +|+.++++|+||++|+|
T Consensus 1 Ma~~mN~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~~Ae~~~~~LkKG~~V~V 80 (166)
T PRK06341 1 MAGSVNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYI 80 (166)
T ss_pred CCCcceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChHHHHHHHHhcCCCCEEEE
Confidence 3456999999999999999999999999999999998642 3689999999996 99999999999999999
Q ss_pred EEEeeeeeeecCCCcEEEEEEEEEEEE----EEeecCCC
Q 022388 152 SGRLVSDVVESGDGQQQTYYKVVVQQL----NFVERSSP 186 (298)
Q Consensus 152 sGrL~s~~~~dkdG~~r~~~eIva~~I----~fl~~k~~ 186 (298)
+|+|++++|+|++|++++.++|+|++| .|++.+.+
T Consensus 81 eGrL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~~~ 119 (166)
T PRK06341 81 EGQLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRGE 119 (166)
T ss_pred EEEEEeCcEECCCCCEEEEEEEEEEecccceEEcccCCc
Confidence 999999999999999999999999875 88887754
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=99.91 E-value=1.6e-23 Score=166.38 Aligned_cols=96 Identities=31% Similarity=0.590 Sum_probs=88.3
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecC--------CCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeee
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKS--------ATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~--------~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s 157 (298)
||+|+|+|+|++||+++++++|++++.|+|+++++ ...++|++|++||++|+.++++|+|||+|+|+|+|++
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 89999999999999999999999999999999993 2478899999999999999999999999999999999
Q ss_pred eeeecCCCcEEEEEEEEEEEEEEe
Q 022388 158 DVVESGDGQQQTYYKVVVQQLNFV 181 (298)
Q Consensus 158 ~~~~dkdG~~r~~~eIva~~I~fl 181 (298)
+.|++++|++++.++|+|++|.||
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 999999999999999999999986
No 18
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=3e-23 Score=182.52 Aligned_cols=104 Identities=26% Similarity=0.456 Sum_probs=96.1
Q ss_pred CcCCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEehHHHHHHHhcCccCceEEEE
Q 022388 82 DKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYIS 152 (298)
Q Consensus 82 ~~~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~---------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~Vs 152 (298)
|++.||+|+|+|+|++||+++++++|+.+++|+||+++.+ +.++||+|++||++|+.+.+||+||++|+|+
T Consensus 1 ma~~mNkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae~v~~~l~KGs~V~Ve 80 (172)
T PRK05733 1 MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIE 80 (172)
T ss_pred CCCcceEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEE
Confidence 3556999999999999999999999999999999998643 2589999999999999999999999999999
Q ss_pred EEeeeeeeecCCCcEEEEEEEEEE---EEEEeecCCC
Q 022388 153 GRLVSDVVESGDGQQQTYYKVVVQ---QLNFVERSSP 186 (298)
Q Consensus 153 GrL~s~~~~dkdG~~r~~~eIva~---~I~fl~~k~~ 186 (298)
|+|+++.|+ ++|+.++.++|+|+ +|.||..+..
T Consensus 81 GrLr~~~y~-kdG~~r~~~eVvvd~~g~v~~L~~~~~ 116 (172)
T PRK05733 81 GKLQTREWE-KDGIKRYTTEIVVDMQGTMQLLGGRPQ 116 (172)
T ss_pred EEEEeCcEe-cCCEEEEEEEEEEeecCeEEECcCCCC
Confidence 999999999 89999999999999 8999986654
No 19
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.89 E-value=2.3e-22 Score=182.94 Aligned_cols=101 Identities=22% Similarity=0.311 Sum_probs=95.2
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecC
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG 163 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dk 163 (298)
.-||+|+|+|+|++||++|++++|+++|.|+||+++.+..++||+|++||++|+.+. +|+|||+|.|+|+|+++.|+++
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 559999999999999999999999999999999999998999999999999999876 6999999999999999999988
Q ss_pred CC----cEEEEEEEEEEEEEEeecCC
Q 022388 164 DG----QQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 164 dG----~~r~~~eIva~~I~fl~~k~ 185 (298)
+| ++++.++|.|++|.+++.+.
T Consensus 186 ~g~~~g~kr~~~eV~v~~i~~l~~~~ 211 (219)
T PRK05813 186 LSEGEVVTKVAYEVSISKMEKVEKEE 211 (219)
T ss_pred CCCccceEEEEEEEEEEEEEEcCChh
Confidence 74 89999999999999997754
No 20
>PRK02801 primosomal replication protein N; Provisional
Probab=99.88 E-value=5.3e-22 Score=160.57 Aligned_cols=93 Identities=18% Similarity=0.227 Sum_probs=84.6
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCC-------ceEEEEEEehHHHHHHHhcCccCceEEEEEEeee
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQ-------TSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~-------t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s 157 (298)
|||+|+|+|+|++||++|++++|.++++|+||+++...+ ++||+|++||++|+.+.+||+||+.|.|+|+|.+
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 799999999999999999999999999999999754322 3679999999999999999999999999999998
Q ss_pred eeeecCCCcEEEEEEEEEEEEEEe
Q 022388 158 DVVESGDGQQQTYYKVVVQQLNFV 181 (298)
Q Consensus 158 ~~~~dkdG~~r~~~eIva~~I~fl 181 (298)
|++++|++++. |++++|+|+
T Consensus 81 --~~~~~g~~~~~--v~~~~i~~l 100 (101)
T PRK02801 81 --HQGRNGLSKLV--LHAEQIELI 100 (101)
T ss_pred --eECCCCCEEEE--EEEEEEEEC
Confidence 57899988865 999999987
No 21
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.88 E-value=1.1e-21 Score=174.68 Aligned_cols=97 Identities=20% Similarity=0.367 Sum_probs=89.6
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecC-C---------CCceEEEEEEehHHHHHHHhcCccCceEEEEE
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKS-A---------TQTSWINLTFWDELAHVASQHVEKGQQIYISG 153 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~-~---------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsG 153 (298)
.++|.|+|+|||++||++|++++|+.+|+|+||++++ + .+++||+|++|+++|+.++++|+|||+|+|+|
T Consensus 2 ~~~~~VtLiGrL~~DPElR~t~sG~~va~FrVAv~~r~~~~~~g~~~d~~t~fi~V~~Wg~~Ae~va~~L~KGd~V~V~G 81 (186)
T PRK07772 2 AGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNEWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVTG 81 (186)
T ss_pred CccCEEEEEEEeCCCCeEEEcCCCCEEEEEEEEecCcceecCCCcEeccCceEEEEEEecHHHHHHHHhcCCCCEEEEEE
Confidence 3579999999999999999999999999999999843 1 25789999999999999999999999999999
Q ss_pred EeeeeeeecCCCcEEEEEEEEEEEEEE
Q 022388 154 RLVSDVVESGDGQQQTYYKVVVQQLNF 180 (298)
Q Consensus 154 rL~s~~~~dkdG~~r~~~eIva~~I~f 180 (298)
+|+++.|++++|++++.++|+|++|..
T Consensus 82 rL~~r~wedkdG~~rt~~eV~a~~Vg~ 108 (186)
T PRK07772 82 RLKQRSYETREGEKRTVVELEVDEIGP 108 (186)
T ss_pred EEEcCceECCCCCEEEEEEEEEEEccc
Confidence 999999999999999999999997743
No 22
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.86 E-value=2.5e-21 Score=169.01 Aligned_cols=101 Identities=28% Similarity=0.506 Sum_probs=86.4
Q ss_pred CcceEEEEEEeCCCceEEEcC-CCcEEEEEEEEEecCC--------CCceEEEEEEehHHHHHHHhcCccCceEEEEEEe
Q 022388 85 LTNTVHLIGVVGTPIETKHLP-SGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRL 155 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~-nGk~va~f~LAv~r~~--------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL 155 (298)
|||+|+|+|+|++||++++++ +|..++.|++++++.. ..++||+|++||++|+.+.+||+||++|+|+|+|
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 899999999999999999999 5567777888888753 2569999999999999999999999999999999
Q ss_pred eeeeeecCCCcEEEEEEE----EEEEEEEeecCC
Q 022388 156 VSDVVESGDGQQQTYYKV----VVQQLNFVERSS 185 (298)
Q Consensus 156 ~s~~~~dkdG~~r~~~eI----va~~I~fl~~k~ 185 (298)
+++.|++++|+.++..++ ++..+.++..+.
T Consensus 82 ~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~ 115 (167)
T COG0629 82 QTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRK 115 (167)
T ss_pred EeeeeecCCCcceeeEEEEEEEeehhhhhccCcc
Confidence 999999999965555555 666666776654
No 23
>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=99.83 E-value=1.1e-19 Score=142.90 Aligned_cols=93 Identities=34% Similarity=0.555 Sum_probs=88.6
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC-------CCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeee
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA-------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~-------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
|+|+|+|+++|+++++++|..++.|+|++++.. ..++||+|++||++|+.++++|+|||.|+|+|+|+.+.|+
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 589999999999999999999999999999864 4789999999999999999999999999999999999999
Q ss_pred cCCCcEEEEEEEEEEEEEEe
Q 022388 162 SGDGQQQTYYKVVVQQLNFV 181 (298)
Q Consensus 162 dkdG~~r~~~eIva~~I~fl 181 (298)
+++|+.++.++|.|++|.++
T Consensus 81 ~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 81 DKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred CCCCCEEEEEEEEEEEEEEC
Confidence 99999999999999999874
No 24
>PRK05853 hypothetical protein; Validated
Probab=99.82 E-value=9.5e-20 Score=158.84 Aligned_cols=89 Identities=13% Similarity=0.287 Sum_probs=82.6
Q ss_pred EEEEeCCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeee
Q 022388 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 91 LIGrVg~dPelr~t~nGk~va~f~LAv~r~~---------~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
|+|||++||+++++. |..+++|+||+++++ ..++||+|++||++|+.+.+||+||++|+|+|+|+++.|+
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 699999999999984 789999999999753 2588999999999999999999999999999999999999
Q ss_pred cCCCcEEEEEEEEEEEEEE
Q 022388 162 SGDGQQQTYYKVVVQQLNF 180 (298)
Q Consensus 162 dkdG~~r~~~eIva~~I~f 180 (298)
+++|++++.++|+|+.|..
T Consensus 80 dkdG~~r~~~eV~a~~Vg~ 98 (161)
T PRK05853 80 DRDGNRRSSLEMRATSVGP 98 (161)
T ss_pred CCCCCEEEEEEEEEEEecc
Confidence 9999999999999998855
No 25
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.76 E-value=1.6e-17 Score=151.44 Aligned_cols=97 Identities=20% Similarity=0.266 Sum_probs=91.4
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecC-C
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG-D 164 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dk-d 164 (298)
.|+|+|+|+|++||+++++..|..++.|.|||+|..+.++||+|++|+++|+.+. |+||+.|+|+|+|+ +|++. +
T Consensus 8 ~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rlae~~~--l~kG~~v~VeGqlr--sy~~~~~ 83 (219)
T PRK05813 8 NNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERLLAGMD--LKVGTLVIVEGQLR--SYNKFID 83 (219)
T ss_pred cCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhhhhhhc--ccCCCEEEEEEEEE--EeccCCC
Confidence 6999999999999999999999999999999999768999999999999999987 99999999999999 77666 7
Q ss_pred CcEEEEEEEEEEEEEEeecCCC
Q 022388 165 GQQQTYYKVVVQQLNFVERSSP 186 (298)
Q Consensus 165 G~~r~~~eIva~~I~fl~~k~~ 186 (298)
|++++.++|+|++|.|++.++.
T Consensus 84 G~~R~vl~V~a~~i~~l~~~~~ 105 (219)
T PRK05813 84 GKNRLILTVFARNIEYCDERSD 105 (219)
T ss_pred CcEEEEEEEEEEEEEEccCCCc
Confidence 9999999999999999998753
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.55 E-value=1.2e-14 Score=125.75 Aligned_cols=101 Identities=21% Similarity=0.336 Sum_probs=90.6
Q ss_pred cCCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCC-----------CCceEEEEEEeh-HHHHHHHhcCccCceEE
Q 022388 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA-----------TQTSWINLTFWD-ELAHVASQHVEKGQQIY 150 (298)
Q Consensus 83 ~~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~-----------~~t~wi~Vv~wg-~lAe~~a~~LkKGD~V~ 150 (298)
.+.+|+|+|+|+||.||..|...+|++|+.|+|+++..+ ..+.||+|.+|+ .+|+.+.++|+||..||
T Consensus 52 ~~~vnkv~lvG~VGqdPl~k~~rngrpVtiFsv~T~~~~k~r~~q~g~~~~~tqWHRVsVf~~~L~d~~~k~lkKGsriy 131 (175)
T KOG1653|consen 52 ERGVNKVILVGRVGQDPLQKILRNGRPVTIFSVGTGGMFKQRLYQAGDQPQPTQWHRVSVFNEVLADYALKYLKKGSRIY 131 (175)
T ss_pred hcccceEEEEcccccchHHHhhcCCCeEEEEEeecCccccccccccCCcCCcceeEEEEeeCchHHHHHHHHhcCCCEEE
Confidence 467999999999999999999999999999999999653 378999999999 69999999999999999
Q ss_pred EEEEeeeeee-ecCCCcE-EEEEEEEEEEEEEeec
Q 022388 151 ISGRLVSDVV-ESGDGQQ-QTYYKVVVQQLNFVER 183 (298)
Q Consensus 151 VsGrL~s~~~-~dkdG~~-r~~~eIva~~I~fl~~ 183 (298)
|+|.|.++-+ .|..|+. +....|++++|.|+..
T Consensus 132 veG~iey~g~~~d~~g~~~r~~t~iIa~~v~Fl~~ 166 (175)
T KOG1653|consen 132 VEGKIEYRGENDDIQGNVKRIPTIIIARDVSFLID 166 (175)
T ss_pred EeeeEEeeeeeccccCceeecceEEEechhHHHHH
Confidence 9999999654 5677885 8888999999999864
No 27
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=98.83 E-value=5.9e-08 Score=78.12 Aligned_cols=96 Identities=21% Similarity=0.292 Sum_probs=81.2
Q ss_pred cCCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCce-----E--EEEEEehHHHHHHHhcCccCceEEEEEEe
Q 022388 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTS-----W--INLTFWDELAHVASQHVEKGQQIYISGRL 155 (298)
Q Consensus 83 ~~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~-----w--i~Vv~wg~lAe~~a~~LkKGD~V~VsGrL 155 (298)
+.|.|.+.|+|.|++-|..+++|+|.+.|.|.|.++....+.. | +++.+-|++|+..-+.+..|..|.|+|.|
T Consensus 1 ~~~~Nrl~L~g~vak~~~r~~sPsGIphc~f~Lehrs~q~Eag~~RQv~~~mpv~vsG~qa~~lt~~i~~Gs~i~v~GFl 80 (103)
T COG2965 1 MNMTNRLSLSGTVAKVPVRRYSPSGIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSGRQAEELTQSITVGSYILVVGFL 80 (103)
T ss_pred CCccceEEEEEEeeccceeeeCCCCCeeEEEEEeecchhhhCCcceeEEEEccEEeechhhhhhhhccccccEEEEEEEE
Confidence 3578999999999999999999999999999999987654333 4 66888899999999999999999999999
Q ss_pred eeeeeecCCCcEEEEEEEEEEEEEEee
Q 022388 156 VSDVVESGDGQQQTYYKVVVQQLNFVE 182 (298)
Q Consensus 156 ~s~~~~dkdG~~r~~~eIva~~I~fl~ 182 (298)
...+- .+|-.. +.|.+.+|.+++
T Consensus 81 a~~~~--~sg~~~--lvlha~qi~~id 103 (103)
T COG2965 81 ACHKR--RSGLSK--LVLHAEQIEFID 103 (103)
T ss_pred Eeecc--cCCccE--EEEEeeEEEecC
Confidence 88764 455443 778899998874
No 28
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.82 E-value=3.5e-08 Score=80.97 Aligned_cols=91 Identities=19% Similarity=0.146 Sum_probs=77.1
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCC-----c--eEEEEEEehHHHHHHHhcCccCceEEEEEEeeee
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQ-----T--SWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~-----t--~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~ 158 (298)
||.+.|+|.|++.+.+|+||.|.+++.|.|.+.+...+ . .-|.+++.|++|+...+ +..|..|.|+|.|..
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 59999999999999999999999999999999876432 2 24789999999999876 999999999999987
Q ss_pred eeecCCCcEEEEEEEEEEEEEEeec
Q 022388 159 VVESGDGQQQTYYKVVVQQLNFVER 183 (298)
Q Consensus 159 ~~~dkdG~~r~~~eIva~~I~fl~~ 183 (298)
+.+|.. .+.+++++|+++..
T Consensus 79 ---~~~~~~--~LVLHi~~Ie~i~~ 98 (107)
T PRK00036 79 ---ARKDSV--KVKLHLQQARRIAG 98 (107)
T ss_pred ---CCCCCC--cEEEEhHHeEEccc
Confidence 334443 37799999999943
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=97.61 E-value=0.00052 Score=50.49 Aligned_cols=75 Identities=19% Similarity=0.337 Sum_probs=57.3
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcEE
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~r 168 (298)
|++.|.|.+-. .++..++.|.|. +.+.-+.|++|++.+....+.|+.|+.|.|.|.+..+ ++|
T Consensus 1 V~v~G~V~~~~-----~~~~~~~~~~l~-----D~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~----~~~--- 63 (75)
T PF01336_consen 1 VTVEGRVTSIR-----RSGGKIVFFTLE-----DGTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRY----NGG--- 63 (75)
T ss_dssp EEEEEEEEEEE-----EEETTEEEEEEE-----ETTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEE----TTS---
T ss_pred CEEEEEEEEEE-----cCCCCEEEEEEE-----ECCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEE----CCc---
Confidence 67888887733 345567777775 3458999999998888888999999999999999876 333
Q ss_pred EEEEEEEEEEEEe
Q 022388 169 TYYKVVVQQLNFV 181 (298)
Q Consensus 169 ~~~eIva~~I~fl 181 (298)
.++|.+++++.|
T Consensus 64 -~~~l~~~~i~~l 75 (75)
T PF01336_consen 64 -ELELIVPKIEIL 75 (75)
T ss_dssp -SEEEEEEEEEEE
T ss_pred -cEEEEECEEEEC
Confidence 377888888765
No 30
>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=97.00 E-value=0.0055 Score=46.82 Aligned_cols=73 Identities=26% Similarity=0.330 Sum_probs=54.2
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcEE
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~r 168 (298)
|.+.|.|.+.+. .+|. ++|+|.- +..-++|++|...+..+...++.||.|.|.|++.. +.|.
T Consensus 1 v~v~GeVs~~~~----~~GH--vyfsLkD-----~~a~i~cv~f~~~~~~~~~~l~~Gd~V~v~G~v~~-----~~G~-- 62 (73)
T cd04487 1 VHIEGEVVQIKQ----TSGP--TIFTLRD-----ETGTVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEP-----RDGQ-- 62 (73)
T ss_pred CEEEEEEecccc----CCCC--EEEEEEc-----CCEEEEEEEEchhccCCcCCCCCCCEEEEEEEEec-----CCeE--
Confidence 457788888663 5675 6677732 33569999998877666778999999999999873 3443
Q ss_pred EEEEEEEEEEEEe
Q 022388 169 TYYKVVVQQLNFV 181 (298)
Q Consensus 169 ~~~eIva~~I~fl 181 (298)
+++.|+++..+
T Consensus 63 --~ql~v~~i~~~ 73 (73)
T cd04487 63 --LQIEVESLEVL 73 (73)
T ss_pred --EEEEEeeEEEC
Confidence 78888888764
No 31
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=96.99 E-value=0.011 Score=44.32 Aligned_cols=74 Identities=19% Similarity=0.368 Sum_probs=56.1
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcEE
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~r 168 (298)
+.+.|.|.. ... +.+| .+.++|.-. +.-+.|++|.+..+.+...|+.|+.|.|.|++..+.+ .|.
T Consensus 2 ~~v~g~v~~-i~~--tk~g--~~~~~L~D~-----~~~i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~~~~~---~~~-- 66 (78)
T cd04489 2 VWVEGEISN-LKR--PSSG--HLYFTLKDE-----DASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEP---RGG-- 66 (78)
T ss_pred EEEEEEEec-CEE--CCCc--EEEEEEEeC-----CeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECC---CCE--
Confidence 568888885 433 6677 888887643 3679999999988888899999999999999997543 232
Q ss_pred EEEEEEEEEEE
Q 022388 169 TYYKVVVQQLN 179 (298)
Q Consensus 169 ~~~eIva~~I~ 179 (298)
+++.++++.
T Consensus 67 --~~l~v~~i~ 75 (78)
T cd04489 67 --YQLIVEEIE 75 (78)
T ss_pred --EEEEEEEEE
Confidence 567777664
No 32
>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.53 E-value=0.033 Score=43.31 Aligned_cols=66 Identities=21% Similarity=0.270 Sum_probs=51.7
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH-HHHHHHhcCc-cCceEEEEEEeeeeeee
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAHVASQHVE-KGQQIYISGRLVSDVVE 161 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~-lAe~~a~~Lk-KGD~V~VsGrL~s~~~~ 161 (298)
|++-|.|-. .+.|.+.+|+.+..|.|. +.++-+.|..|.. .-+. ...|+ +|+.|.|.|.+..+.|.
T Consensus 2 v~i~G~Vf~-~e~re~k~g~~i~~~~it-----D~t~Si~~K~F~~~~~~~-~~~ik~~G~~v~v~G~v~~D~f~ 69 (82)
T cd04484 2 VVVEGEVFD-LEIRELKSGRKILTFKVT-----DYTSSITVKKFLRKDEKD-KEELKSKGDWVRVRGKVQYDTFS 69 (82)
T ss_pred EEEEEEEEE-EEEEEecCCCEEEEEEEE-----cCCCCEEEEEeccCChhH-HhhcccCCCEEEEEEEEEEccCC
Confidence 788999965 788899999888877776 3456788888873 3333 35699 99999999999988874
No 33
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=96.27 E-value=0.088 Score=42.27 Aligned_cols=77 Identities=17% Similarity=0.287 Sum_probs=60.3
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHH-hcCccCceEEEEEEeeeeeeecCC
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVAS-QHVEKGQQIYISGRLVSDVVESGD 164 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a-~~LkKGD~V~VsGrL~s~~~~dkd 164 (298)
+-.|-+.|.|.+ ++...+| .++|+|.- +..-++|++|...+..+. ..++.|+.|.|.|++..+. +.
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-----EEASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYE---PR 87 (99)
T ss_pred cCCEEEEEEEee---cEECCCc--eEEEEEEc-----CCcEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEEC---CC
Confidence 467899999987 4443344 68888886 337899999999888888 8899999999999998876 45
Q ss_pred CcEEEEEEEEEEEEE
Q 022388 165 GQQQTYYKVVVQQLN 179 (298)
Q Consensus 165 G~~r~~~eIva~~I~ 179 (298)
|. +.+.|++|.
T Consensus 88 G~----~sl~v~~i~ 98 (99)
T PF13742_consen 88 GS----LSLIVEDID 98 (99)
T ss_pred cE----EEEEEEEeE
Confidence 54 667777664
No 34
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=96.21 E-value=0.08 Score=37.37 Aligned_cols=59 Identities=24% Similarity=0.351 Sum_probs=44.4
Q ss_pred EEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCc-eEEEEEEehHHHHHHHhcCccCceEEEEEEeee
Q 022388 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQT-SWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (298)
Q Consensus 91 LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t-~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s 157 (298)
+.|.|..-- .+.+ |+.++.+.|. +.+ ..+.|++|.+..+.....++.|+.|.|.|++..
T Consensus 2 v~g~v~~~~-~~~~--~~~~~~~~l~-----D~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~ 61 (75)
T cd03524 2 IVGIVVAVE-EIRT--EGKVLIFTLT-----DGTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKK 61 (75)
T ss_pred eEEEEEeec-cccc--CCeEEEEEEE-----cCCCCEEEEEEEchHHHHHHhhccCCCEEEEEEEEEe
Confidence 456665422 2222 6677777775 456 899999999988888889999999999999965
No 35
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.14 E-value=0.049 Score=40.10 Aligned_cols=76 Identities=16% Similarity=0.357 Sum_probs=54.1
Q ss_pred EEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcEEEE
Q 022388 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTY 170 (298)
Q Consensus 91 LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~r~~ 170 (298)
+.|.|.. ...+.+.+|+.++.++|. +.+.-+.|++|++.-+...+.+++|..|.|.|++..+ .|.
T Consensus 2 i~g~v~~-~~~~~~k~g~~~~~~~l~-----D~tg~~~~~~f~~~~~~~~~~l~~g~~v~v~G~v~~~-----~~~---- 66 (84)
T cd04485 2 VAGLVTS-VRRRRTKKGKRMAFVTLE-----DLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERR-----DGG---- 66 (84)
T ss_pred EEEEEEE-eEEEEcCCCCEEEEEEEE-----eCCCeEEEEECHHHHHHHHHHhcCCCEEEEEEEEEec-----CCc----
Confidence 5677665 455777889888888764 3355699999987655567889999999999999652 232
Q ss_pred EEEEEEEEEEe
Q 022388 171 YKVVVQQLNFV 181 (298)
Q Consensus 171 ~eIva~~I~fl 181 (298)
.++.++++.-+
T Consensus 67 ~~l~~~~i~~~ 77 (84)
T cd04485 67 LRLIAERIEDL 77 (84)
T ss_pred eEEEeeccccH
Confidence 45666655443
No 36
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=96.03 E-value=0.042 Score=44.32 Aligned_cols=68 Identities=19% Similarity=0.155 Sum_probs=53.4
Q ss_pred CcceEEEEEEeCCCceEEEcCCC---cEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEee
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSG---KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLV 156 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nG---k~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~ 156 (298)
.++.+.|.|+|..--+++.+.++ ..+..+.|.- +++.-|.+++|++.|+.....|+.|+.++|+|-..
T Consensus 8 ~~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~D----e~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V 78 (104)
T cd04474 8 YQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLD----EDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSV 78 (104)
T ss_pred CCCcEEEEEEEeeccccccccCCCCCcEEEEEEEEE----CCCCEEEEEEehHHHHHhhcccccccEEEEeccEE
Confidence 35779999999976666666553 4566666543 33679999999999999999999999999997443
No 37
>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=95.92 E-value=0.092 Score=39.08 Aligned_cols=72 Identities=19% Similarity=0.324 Sum_probs=52.5
Q ss_pred CCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcEEEEEEEEE
Q 022388 96 GTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVVV 175 (298)
Q Consensus 96 g~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~r~~~eIva 175 (298)
...++.+.+.+|++++.++|.- .+.-+.|.+|++.-. ....++.|..|.|.|++..+ +|. .++.+
T Consensus 6 v~~~~~~~tk~g~~~~~~~l~D-----~tg~i~~~~f~~~~~-~~~~l~~g~~v~v~G~v~~~-----~~~----~~l~~ 70 (83)
T cd04492 6 IKSKELRTAKNGKPYLALTLQD-----KTGEIEAKLWDASEE-DEEKFKPGDIVHVKGRVEEY-----RGR----LQLKI 70 (83)
T ss_pred EEEeeeecccCCCcEEEEEEEc-----CCCeEEEEEcCCChh-hHhhCCCCCEEEEEEEEEEe-----CCc----eeEEE
Confidence 3445667788898888887773 345699999996443 36789999999999999542 232 56777
Q ss_pred EEEEEee
Q 022388 176 QQLNFVE 182 (298)
Q Consensus 176 ~~I~fl~ 182 (298)
.++..+.
T Consensus 71 ~~i~~l~ 77 (83)
T cd04492 71 QRIRLVT 77 (83)
T ss_pred EEEEECC
Confidence 7777665
No 38
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende
Probab=95.84 E-value=0.065 Score=42.49 Aligned_cols=71 Identities=11% Similarity=0.238 Sum_probs=52.6
Q ss_pred EEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH--HHHHHhcCccCceEEEEEEeeeeeeecCCCcE
Q 022388 90 HLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (298)
Q Consensus 90 ~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l--Ae~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~ 167 (298)
.+.|.|.+-+. ...+|. +.|+|. ++..-+.|++|... +..+...|+.||.|.|.|.+..+.
T Consensus 2 ~v~GeVs~~~~--~~~sGH--~yFtlk-----D~~~~i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~v~~y~-------- 64 (91)
T cd04482 2 RVTGKVVEEPR--TIEGGH--VFFKIS-----DGTGEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT-------- 64 (91)
T ss_pred EEEEEEeCCee--cCCCCC--EEEEEE-----CCCcEEEEEEECcccccccccCCCCCCCEEEEEEEEecCC--------
Confidence 46788887542 214564 667774 23468999999886 667788899999999999987654
Q ss_pred EEEEEEEEEEEEEe
Q 022388 168 QTYYKVVVQQLNFV 181 (298)
Q Consensus 168 r~~~eIva~~I~fl 181 (298)
++.++.+..+
T Consensus 65 ----ql~ve~l~~~ 74 (91)
T cd04482 65 ----TLNLEKLRVI 74 (91)
T ss_pred ----EEEEEEEEEC
Confidence 5778887765
No 39
>PRK07211 replication factor A; Reviewed
Probab=95.01 E-value=0.15 Score=52.02 Aligned_cols=68 Identities=25% Similarity=0.356 Sum_probs=54.4
Q ss_pred CCcceEEEEEEeCCCceEEEcCC-C----cEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEee
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPS-G----KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLV 156 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~n-G----k~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~ 156 (298)
.-|+.|+|.|+|..--.+|+..+ | ..++++.|+ +++--|++++|++.|..++..|++||.|+|.|+..
T Consensus 61 pg~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~-----DeTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~ 133 (485)
T PRK07211 61 PGMDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVA-----DETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK 133 (485)
T ss_pred CCCCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEE-----cCCCeEEEEEechHhHhhhcccCCCCEEEEeceEe
Confidence 35799999999987666665542 1 256666665 46779999999999999999999999999998763
No 40
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=94.92 E-value=0.15 Score=51.15 Aligned_cols=78 Identities=14% Similarity=0.217 Sum_probs=62.3
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
+..|-+.|.|.+ ++...+| .++|+|. ++..-|+|++|...+..+...++.|+.|.|.|++..+. ..|
T Consensus 17 ~~~v~V~GEisn---~~~~~sG--H~YFtLk-----D~~a~i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~~y~---~~G 83 (432)
T TIGR00237 17 FLQVWIQGEISN---FTQPVSG--HWYFTLK-----DENAQVRCVMFRGNNNRLKFRPQNGQQVLVRGGISVYE---PRG 83 (432)
T ss_pred CCcEEEEEEecC---CeeCCCc--eEEEEEE-----cCCcEEEEEEEcChhhCCCCCCCCCCEEEEEEEEEEEC---CCC
Confidence 457899999988 4444567 5888884 35578999999998888878899999999999999765 345
Q ss_pred cEEEEEEEEEEEEEE
Q 022388 166 QQQTYYKVVVQQLNF 180 (298)
Q Consensus 166 ~~r~~~eIva~~I~f 180 (298)
. |++.|++|.-
T Consensus 84 ~----~ql~v~~i~~ 94 (432)
T TIGR00237 84 D----YQIICFEMQP 94 (432)
T ss_pred c----EEEEEEEecc
Confidence 5 7888888875
No 41
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=94.42 E-value=0.31 Score=48.57 Aligned_cols=78 Identities=17% Similarity=0.259 Sum_probs=61.8
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
...|-+.|.|.+ ++...+| .++|+|.-. ..-++|++|...+..+...++.|+.|.|.|++..+. +.|
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-----IAQIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLYE---PRG 89 (438)
T ss_pred CCcEEEEEEeCC---CeeCCCC--eEEEEEEcC-----CcEEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEEC---CCC
Confidence 457899999988 4433466 578888743 567999999988888877899999999999999865 445
Q ss_pred cEEEEEEEEEEEEEE
Q 022388 166 QQQTYYKVVVQQLNF 180 (298)
Q Consensus 166 ~~r~~~eIva~~I~f 180 (298)
. +++.|++|..
T Consensus 90 ~----~ql~v~~i~~ 100 (438)
T PRK00286 90 D----YQLIVEEIEP 100 (438)
T ss_pred C----EEEEEEEeee
Confidence 5 7788888875
No 42
>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit. PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.
Probab=94.36 E-value=0.95 Score=34.89 Aligned_cols=71 Identities=17% Similarity=0.281 Sum_probs=51.6
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHH--HHHhcCccCceEEEEEEeeeeeeecCCCc
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe--~~a~~LkKGD~V~VsGrL~s~~~~dkdG~ 166 (298)
|.+.|-|.. .. .+.+|+. .+.|. +.+.-+.|++|.+.-+ .....|+.|..|+|.|++.. .++
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-----DTTGRITVLLTKDKEELFEEAEDILPDEVIGVSGTVSK-----DGG- 65 (79)
T ss_pred EEEEEEEeE-EE--EcCCCCE--EEEEE-----CCCCEEEEEEeCchhhhhhhhhhccCCCEEEEEEEEec-----CCC-
Confidence 567777766 33 6778887 34333 3456799999999877 88889999999999999932 122
Q ss_pred EEEEEEEEEEEEEE
Q 022388 167 QQTYYKVVVQQLNF 180 (298)
Q Consensus 167 ~r~~~eIva~~I~f 180 (298)
++.+++|-+
T Consensus 66 -----~l~~~~I~~ 74 (79)
T cd04490 66 -----LIFADEIFR 74 (79)
T ss_pred -----EEEEEEeEc
Confidence 566777655
No 43
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=93.29 E-value=0.35 Score=48.80 Aligned_cols=78 Identities=17% Similarity=0.267 Sum_probs=63.4
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
+-.|-+.|.|.+ ++.-.+| ..+|+|. ++..-+.|++|......+..-++.|+.|.|.|++..|. ..|
T Consensus 23 ~~~V~v~GEISn---~t~~~sg--H~YFtLK-----D~~A~i~c~mf~~~~~~l~f~p~eG~~V~v~G~is~Y~---~rG 89 (440)
T COG1570 23 LGQVWVRGEISN---FTRPASG--HLYFTLK-----DERAQIRCVMFKGNNRRLKFRPEEGMQVLVRGKISLYE---PRG 89 (440)
T ss_pred CCeEEEEEEecC---CccCCCc--cEEEEEc-----cCCceEEEEEEcCcccccCCCccCCCEEEEEEEEEEEc---CCC
Confidence 677999999988 4444567 7788886 44678999999998888888899999999999999876 455
Q ss_pred cEEEEEEEEEEEEEE
Q 022388 166 QQQTYYKVVVQQLNF 180 (298)
Q Consensus 166 ~~r~~~eIva~~I~f 180 (298)
. |+|+++++..
T Consensus 90 ~----YQi~~~~~~p 100 (440)
T COG1570 90 D----YQIVAESMEP 100 (440)
T ss_pred c----eEEEEecCCc
Confidence 5 7788887763
No 44
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=92.75 E-value=0.58 Score=45.30 Aligned_cols=74 Identities=14% Similarity=0.193 Sum_probs=55.9
Q ss_pred eCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcEEEEEEEE
Q 022388 95 VGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVV 174 (298)
Q Consensus 95 Vg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~r~~~eIv 174 (298)
+.++.+++++.+|+++..++|. +.+--|...+|+.. +.....++.|+.|.|.|++..+ +|+ .++.
T Consensus 19 lv~~~~~~~~knG~~yl~l~l~-----D~tG~I~ak~W~~~-~~~~~~~~~g~vv~v~G~v~~y-----~g~----~Ql~ 83 (314)
T PRK13480 19 LIKSATKGVASNGKPFLTLILQ-----DKSGDIEAKLWDVS-PEDEATYVPETIVHVKGDIINY-----RGR----KQLK 83 (314)
T ss_pred EEEEceeeecCCCCeEEEEEEE-----cCCcEEEEEeCCCC-hhhHhhcCCCCEEEEEEEEEEE-----CCc----ceEE
Confidence 4566888999999999999887 34567999999974 4446779999999999999754 233 3456
Q ss_pred EEEEEEeec
Q 022388 175 VQQLNFVER 183 (298)
Q Consensus 175 a~~I~fl~~ 183 (298)
+.++..+..
T Consensus 84 i~~i~~~~~ 92 (314)
T PRK13480 84 VNQIRLATE 92 (314)
T ss_pred EEEeEECCC
Confidence 666666543
No 45
>cd04475 RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ functiona
Probab=92.69 E-value=1.5 Score=34.63 Aligned_cols=67 Identities=27% Similarity=0.400 Sum_probs=42.2
Q ss_pred EEEEEEeCC--CceEEEcCC-CcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeee
Q 022388 89 VHLIGVVGT--PIETKHLPS-GKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVV 160 (298)
Q Consensus 89 V~LIGrVg~--dPelr~t~n-Gk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~ 160 (298)
|.++|.|.. ++.-..+.+ |.....-.|.+.+.. ..-+.|++||+.|+.+.... |+.|.+.| ++...|
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D~t--~~~i~vtLWg~~a~~~~~~~--~~vv~~~~-~~i~~~ 71 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLVDES--GHSVELTLWGEQAELFDGSE--NPVIAIKG-VKVSEF 71 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEEeCC--CCEEEEEEEHHHhhhcccCC--CCEEEEEe-eEEEec
Confidence 567888863 333333333 655444444443321 23789999999999877654 99999988 444444
No 46
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=92.55 E-value=0.64 Score=35.37 Aligned_cols=62 Identities=24% Similarity=0.274 Sum_probs=39.4
Q ss_pred EEEEeCCCceEEEc-CCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEE-EEeeee
Q 022388 91 LIGVVGTPIETKHL-PSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYIS-GRLVSD 158 (298)
Q Consensus 91 LIGrVg~dPelr~t-~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~Vs-GrL~s~ 158 (298)
++|+|..--+.+.+ .+|...-...+.+.+ ++--+++++|+..| ...++.|+.|.|+ |+.+.+
T Consensus 2 v~~~V~~~~~~~~~~~~g~~~~~~~~~l~D---~TG~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~~ 65 (82)
T cd04491 2 VEGKVLSISEPREFTRDGSEGKVQSGLVGD---ETGTIRFTLWDEKA---ADDLEPGDVVRIENAYVREF 65 (82)
T ss_pred EEEEEEEccCCeEeccCCCeeEEEEEEEEC---CCCEEEEEEECchh---cccCCCCCEEEEEeEEEEec
Confidence 56666533333322 344433334444333 35579999999877 6779999999999 777553
No 47
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=91.91 E-value=1.3 Score=44.82 Aligned_cols=81 Identities=14% Similarity=0.208 Sum_probs=63.6
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCc
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~ 166 (298)
..|.+.|-|.. ...+.|+.|+.++.++|.- .+.-+.|++|-+.-+.....|+.|..|.|+|++..+ +|.
T Consensus 281 ~~v~vaG~I~~-ik~~~TKkG~~maf~~leD-----~tG~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~-----~~~ 349 (449)
T PRK07373 281 TKVSAVVMLNE-VKKIVTKKGDPMAFLQLED-----LSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRR-----DDQ 349 (449)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEEE-----CCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CCe
Confidence 36888888887 6677888899988887763 456699999999999999999999999999999542 232
Q ss_pred EEEEEEEEEEEEEEee
Q 022388 167 QQTYYKVVVQQLNFVE 182 (298)
Q Consensus 167 ~r~~~eIva~~I~fl~ 182 (298)
.+|+|++|.-+.
T Consensus 350 ----~~liv~~i~~l~ 361 (449)
T PRK07373 350 ----VQLIVEDAEPIE 361 (449)
T ss_pred ----EEEEEeEeecHh
Confidence 557777776553
No 48
>PF11506 DUF3217: Protein of unknown function (DUF3217); InterPro: IPR024506 This family of proteins with unknown function appears to be restricted to Mycoplasma.; PDB: 2HQL_E.
Probab=91.86 E-value=5.6 Score=31.84 Aligned_cols=81 Identities=19% Similarity=0.110 Sum_probs=54.1
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCC---CceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeee
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT---QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~---~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
|.|.|-|.|.|.. .+-+.+-. ....+|...|-.. -++|+-+-+-|++|-.+..|.++=..|.|+|.|+++.-
T Consensus 1 MLN~V~LEG~IeS---~kWS~~KT-GF~VTI~QkR~FG~r~FTDyyViYAN~QL~~ELEky~~k~k~isieG~L~TY~e- 75 (104)
T PF11506_consen 1 MLNTVFLEGEIES---YKWSKKKT-GFLVTIKQKRKFGERTFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRTYLE- 75 (104)
T ss_dssp --EEEEEEEEEEE---EEE-TTSS-EEEEEEEEEEEETTEEEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEEEEE-
T ss_pred CcceEEEeceeeh---hcccccCc-eEEEEEeehhhhccccceeEEEEEECCeeehhHHHhhhhceEEEEeeehhhHHH-
Confidence 6899999999876 34443321 2223444555433 46788888889999999999999999999999998762
Q ss_pred cCCCcEEEE
Q 022388 162 SGDGQQQTY 170 (298)
Q Consensus 162 dkdG~~r~~ 170 (298)
.+.+.-.+.
T Consensus 76 kkS~iWKT~ 84 (104)
T PF11506_consen 76 KKSKIWKTT 84 (104)
T ss_dssp TTTTEEEEE
T ss_pred Hhcccceee
Confidence 245555443
No 49
>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=91.71 E-value=3.9 Score=32.34 Aligned_cols=86 Identities=14% Similarity=0.091 Sum_probs=53.2
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH------HHHHHhcCccCceEEEEEEeeeeeee
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL------AHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l------Ae~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
.|.|.|+|.+ +|. .|+.++.+.|. +. +..+.|++-.+. .-..+..|..|+.|.|+|.+....-
T Consensus 1 ~V~i~Gwv~~---~R~--~g~k~~Fi~Lr--D~---sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~- 69 (102)
T cd04320 1 EVLIRARVHT---SRA--QGAKLAFLVLR--QQ---GYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEE- 69 (102)
T ss_pred CEEEEEEEEE---eec--CCCceEEEEEe--cC---CceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCC-
Confidence 3788899976 343 35345544442 22 245777775331 1123457999999999999976421
Q ss_pred cCCCcEEEEEEEEEEEEEEeecC
Q 022388 162 SGDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 162 dkdG~~r~~~eIva~~I~fl~~k 184 (298)
..++.....+||.+++|.++...
T Consensus 70 ~~~~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 70 PIKSCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred cccCCCcCcEEEEEEEEEEEecC
Confidence 11221223599999999999754
No 50
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=91.58 E-value=1 Score=37.86 Aligned_cols=62 Identities=18% Similarity=0.248 Sum_probs=44.0
Q ss_pred cceEEEEEEeCC--CceEEEcCCCcE-EEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEE-EEee
Q 022388 86 TNTVHLIGVVGT--PIETKHLPSGKV-LAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYIS-GRLV 156 (298)
Q Consensus 86 mN~V~LIGrVg~--dPelr~t~nGk~-va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~Vs-GrL~ 156 (298)
++.|.++|.|.. ++....+.+|.. +....|+ ++|--|.+++|++.| ..|++||.|.|. |...
T Consensus 14 ~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~-----D~TG~I~~tlW~~~a----~~l~~GdvV~I~na~v~ 79 (129)
T PRK06461 14 MERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVG-----DETGRVKLTLWGEQA----GSLKEGEVVEIENAWTT 79 (129)
T ss_pred CCceEEEEEEEEcCCceEEEeCCCceEEEEEEEE-----CCCCEEEEEEeCCcc----ccCCCCCEEEEECcEEe
Confidence 578999999984 344444556643 6555553 445569999999855 358999999999 5555
No 51
>PRK15491 replication factor A; Provisional
Probab=91.12 E-value=1.3 Score=43.86 Aligned_cols=71 Identities=17% Similarity=0.321 Sum_probs=50.1
Q ss_pred cceEEEEEEeCCCceEEEc--CCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEE-Eeeeeee
Q 022388 86 TNTVHLIGVVGTPIETKHL--PSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVSDVV 160 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t--~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsG-rL~s~~~ 160 (298)
...|.+.|+|..--..|.. .+|...-.+.+.+-+ ++--+++++|++.|..+ ..|+.||.|+|.+ +.+.+.|
T Consensus 176 ~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~D---etG~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~~~~ 249 (374)
T PRK15491 176 DSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGD---ETGKIRVTLWDGKTDLA-DKLENGDSVEIINGYARTNNY 249 (374)
T ss_pred CccEEEEEEEEEccCceEEEecCCCeEEEEEEEEEC---CCCeEEEEEecchhccc-ccCCCCCEEEEEeceEEEecc
Confidence 4569999999865444443 467654444444433 34459999999999886 6699999999966 5665555
No 52
>PHA01740 putative single-stranded DNA-binding protein
Probab=91.11 E-value=0.13 Score=44.21 Aligned_cols=23 Identities=39% Similarity=0.738 Sum_probs=19.7
Q ss_pred CCCCCCCCCCCCCCC--CceeeecC
Q 022388 235 NKKNPKYPDFKHKDT--GEALWVEG 257 (298)
Q Consensus 235 ~k~n~k~pDfK~k~t--~~~lwl~~ 257 (298)
.|+|+|+|||+.+.+ |.-+||.+
T Consensus 17 qkk~dK~PDf~GkInI~G~~yw~SG 41 (158)
T PHA01740 17 QPKNDKSPHFTGKVDIRGTVYWLAG 41 (158)
T ss_pred ccCCCCCCCcCceEeeCCEEEEeec
Confidence 689999999999976 77888875
No 53
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=90.88 E-value=2.5 Score=33.50 Aligned_cols=80 Identities=11% Similarity=0.138 Sum_probs=53.3
Q ss_pred EEEEe-CCCceE-EEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcEE
Q 022388 91 LIGVV-GTPIET-KHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (298)
Q Consensus 91 LIGrV-g~dPel-r~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~r 168 (298)
|.|.| ..-|+. ..+++|=..-.|.|. -...-+..+.+.+||+.+..+ ..++.||.|.|+=.|+.+.|. .+
T Consensus 2 i~Gkii~~l~~~~g~s~~Gw~Kre~Vle--t~~qYP~~i~f~~~~dk~~~l-~~~~~Gd~V~Vsf~i~~RE~~-----gr 73 (84)
T PF11325_consen 2 ITGKIIKVLPEQQGVSKNGWKKREFVLE--TEEQYPQKICFEFWGDKIDLL-DNFQVGDEVKVSFNIEGREWN-----GR 73 (84)
T ss_pred cccEEEEEecCcccCcCCCcEEEEEEEe--CCCcCCceEEEEEEcchhhhh-ccCCCCCEEEEEEEeeccEec-----ce
Confidence 45663 322333 344467334445555 333456788999999877774 459999999999999999996 46
Q ss_pred EEEEEEEEEE
Q 022388 169 TYYKVVVQQL 178 (298)
Q Consensus 169 ~~~eIva~~I 178 (298)
+...|.|=+|
T Consensus 74 ~fn~i~aWri 83 (84)
T PF11325_consen 74 WFNSIRAWRI 83 (84)
T ss_pred EeeEeEEEEe
Confidence 6667766443
No 54
>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=90.86 E-value=3 Score=31.85 Aligned_cols=81 Identities=15% Similarity=0.243 Sum_probs=50.7
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHH---HHHHhcCccCceEEEEEEeeeeeeecCC
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELA---HVASQHVEKGQQIYISGRLVSDVVESGD 164 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lA---e~~a~~LkKGD~V~VsGrL~s~~~~dkd 164 (298)
.|++.|+|.+ +|. .|+ ++.+.| ++. +.-+.|++-.+.. -.....|+.||.|.|+|.+....-..
T Consensus 1 ~V~i~Gwv~~---~R~--~g~-~~Fi~L--rd~---~~~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~-- 67 (85)
T cd04100 1 EVTLAGWVHS---RRD--HGG-LIFIDL--RDG---SGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGN-- 67 (85)
T ss_pred CEEEEEEEeh---hcc--CCC-EEEEEE--EeC---CeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCC--
Confidence 4788999976 333 354 554444 222 2446666544321 22446799999999999998654211
Q ss_pred CcEEEEEEEEEEEEEEee
Q 022388 165 GQQQTYYKVVVQQLNFVE 182 (298)
Q Consensus 165 G~~r~~~eIva~~I~fl~ 182 (298)
.....++|.++++.++.
T Consensus 68 -~~~~~~El~~~~i~il~ 84 (85)
T cd04100 68 -LATGEIELQAEELEVLS 84 (85)
T ss_pred -CCCCCEEEEEeEEEEEC
Confidence 11234899999998874
No 55
>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=90.63 E-value=3.8 Score=34.08 Aligned_cols=87 Identities=18% Similarity=0.278 Sum_probs=54.0
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHH--HHHhcCccCceEEEEEEeeeeeeecCC
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGD 164 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe--~~a~~LkKGD~V~VsGrL~s~~~~dkd 164 (298)
..|++.|+|.+ +|. .|+ ++.+.| ++. +..+.|++-.+... .....|+.|+.|.|+|.+....-..++
T Consensus 15 ~~V~i~Gwv~~---~R~--~gk-~~Fi~L--rD~---~g~~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~ 83 (135)
T cd04317 15 QEVTLCGWVQR---RRD--HGG-LIFIDL--RDR---YGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVN 83 (135)
T ss_pred CEEEEEEeEeh---hcc--cCC-EEEEEE--ecC---CeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccC
Confidence 45999999987 333 355 554444 222 23477766543222 244679999999999999864321011
Q ss_pred Cc-EEEEEEEEEEEEEEeecC
Q 022388 165 GQ-QQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 165 G~-~r~~~eIva~~I~fl~~k 184 (298)
.. ....++|.+++|.++...
T Consensus 84 ~~~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 84 PKLPTGEIEVVASELEVLNKA 104 (135)
T ss_pred CCCCCCcEEEEEeEEEEEECC
Confidence 11 122489999999999864
No 56
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=90.41 E-value=1.6 Score=49.11 Aligned_cols=81 Identities=17% Similarity=0.323 Sum_probs=64.3
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCc
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~ 166 (298)
..|.+.|-|.. .+.+.|++|++++.++|. +.+.-+.+++|.+.-+.....|+.|..|.|+|++..+ +|.
T Consensus 978 ~~V~v~G~I~~-vk~~~TKkG~~mafltLe-----D~TG~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~-----~~~ 1046 (1135)
T PRK05673 978 SVVTVAGLVVS-VRRRVTKRGNKMAIVTLE-----DLSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFD-----DGG 1046 (1135)
T ss_pred ceEEEEEEEEE-EEecccCCCCeEEEEEEE-----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CCe
Confidence 46788888775 777888899999988887 3456799999999877888899999999999999642 232
Q ss_pred EEEEEEEEEEEEEEee
Q 022388 167 QQTYYKVVVQQLNFVE 182 (298)
Q Consensus 167 ~r~~~eIva~~I~fl~ 182 (298)
.+|++++|.-++
T Consensus 1047 ----~qlii~~I~~L~ 1058 (1135)
T PRK05673 1047 ----LRLTAREVMDLE 1058 (1135)
T ss_pred ----EEEEEeecccHH
Confidence 568888887764
No 57
>PRK15491 replication factor A; Provisional
Probab=90.33 E-value=0.99 Score=44.65 Aligned_cols=66 Identities=30% Similarity=0.463 Sum_probs=50.4
Q ss_pred CCcceEEEEEEeCCCceEEEc--CCCc--EEEEEEEEEecCCCCceEEEEEEehHHHHHHH-hcCccCceEEEEEE
Q 022388 84 ELTNTVHLIGVVGTPIETKHL--PSGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVAS-QHVEKGQQIYISGR 154 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t--~nGk--~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a-~~LkKGD~V~VsGr 154 (298)
..++.|+|.|+|..--..|++ .+|. .++++.|+ +++--+++++|++.|..+. .-|..|+.|.|.|.
T Consensus 65 ~~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~-----DeTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~ 135 (374)
T PRK15491 65 ESSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVA-----DETGSIRLTLWDDLADLIKTGDIEVGKSLNISGY 135 (374)
T ss_pred CCCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEE-----cCCCeEEEEEECchhhhhccCCcCCCCEEEEeee
Confidence 357999999999876555554 3453 45555554 3566799999999999876 47999999999986
No 58
>PRK07211 replication factor A; Reviewed
Probab=89.83 E-value=1 Score=46.22 Aligned_cols=68 Identities=24% Similarity=0.378 Sum_probs=48.4
Q ss_pred CcceEEEEEEeCCCceEEEcC--CCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEE-Eee
Q 022388 85 LTNTVHLIGVVGTPIETKHLP--SGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLV 156 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~--nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsG-rL~ 156 (298)
-++.|.|+|+|..--.+|++. +|...-.+.+.+-+ ++--|++++|++.|+.+ ..|.+|+.|+|.| +++
T Consensus 170 ~~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~D---eTG~IR~TlW~d~Ad~~-~~le~G~Vv~I~~a~Vr 240 (485)
T PRK07211 170 GLSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVGD---ETGRVRVTLWDDRADLA-EELDAGESVEIVDGYVR 240 (485)
T ss_pred CCCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEEc---CCCeEEEEEechhhhhh-ccCCCCCEEEEEeeEEE
Confidence 468899999998555555443 45443334444433 34469999999999998 6799999999984 554
No 59
>PRK12366 replication factor A; Reviewed
Probab=89.70 E-value=3.6 Score=43.44 Aligned_cols=86 Identities=12% Similarity=0.285 Sum_probs=57.6
Q ss_pred ceEEEEEEeCCCceEEEcC--CCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEE-EeeeeeeecC
Q 022388 87 NTVHLIGVVGTPIETKHLP--SGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVSDVVESG 163 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~--nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsG-rL~s~~~~dk 163 (298)
+.++|.|+|..--.+|++. +|. .--|.+.+.+. +-=|++++|++.|+.... |..||.++|++ +++ .|.+.
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 EEVDVKGRIIAISDKREVERDDRT-AEVQDIELADG---TGRVRVSFWGEKAKILEN-LKEGDAVKIENCKVR--TYYDN 364 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCc-EEEEEEEEEcC---CCeEEEEEeCchhhhhcc-cCCCCEEEEecCEEe--ecccc
Confidence 4899999999877777764 344 34455555443 235999999999988765 78999999996 444 45444
Q ss_pred CCcEEEEEEEEEEEEEEe
Q 022388 164 DGQQQTYYKVVVQQLNFV 181 (298)
Q Consensus 164 dG~~r~~~eIva~~I~fl 181 (298)
.|+.+ +++.+..-..|
T Consensus 365 ~~~~~--~El~~~~~s~I 380 (637)
T PRK12366 365 EGEKR--VDLNAGYSSEI 380 (637)
T ss_pred CCCcC--EEEEcCCceEE
Confidence 44333 55555444433
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=88.68 E-value=2.1 Score=30.58 Aligned_cols=60 Identities=17% Similarity=0.179 Sum_probs=39.5
Q ss_pred EEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeee
Q 022388 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (298)
Q Consensus 91 LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~ 158 (298)
+.|.|.... ..... |..+..+.|.. .+.-+.+++|+.. ......+++|+.+.|.|++...
T Consensus 2 i~~~V~~~~-~~~~~-~~~~~~~~~~D-----~~g~i~~~~F~~~-~~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 2 VEGTVVSVE-VVPRR-GRRRLKVTLSD-----GTGTLTLVFFNFQ-PYLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred EEEEEEEEE-eccCC-CccEEEEEEEc-----CCCEEEEEEECCC-HHHHhcCCCCCEEEEEEEEeec
Confidence 556665432 22222 45666666643 3567899999842 2456779999999999999753
No 61
>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=87.79 E-value=6.3 Score=30.07 Aligned_cols=81 Identities=19% Similarity=0.308 Sum_probs=49.3
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHH--HHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe--~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
+|+|.|+|.+ .|.. |+ .+.+.| ++. +..+.|++-.+... .....|..|+.|.|+|.+....-..
T Consensus 1 ~V~v~Gwv~~---~R~~--g~-~~Fi~L--rD~---~~~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~--- 66 (84)
T cd04323 1 RVKVFGWVHR---LRSQ--KK-LMFLVL--RDG---TGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAK--- 66 (84)
T ss_pred CEEEEEEEEE---EecC--CC-cEEEEE--EcC---CeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCccc---
Confidence 4788899966 3433 43 444444 222 23377766543221 2335699999999999998644211
Q ss_pred cEEEEEEEEEEEEEEee
Q 022388 166 QQQTYYKVVVQQLNFVE 182 (298)
Q Consensus 166 ~~r~~~eIva~~I~fl~ 182 (298)
.....+||.+++|.++.
T Consensus 67 ~~~~~~Ei~~~~i~vl~ 83 (84)
T cd04323 67 QAPGGYELQVDYLEIIG 83 (84)
T ss_pred CCCCCEEEEEEEEEEEc
Confidence 11124899999999874
No 62
>PRK14699 replication factor A; Provisional
Probab=87.36 E-value=1.5 Score=44.86 Aligned_cols=65 Identities=28% Similarity=0.458 Sum_probs=49.2
Q ss_pred CcceEEEEEEeCCCceEEEcC--CCc--EEEEEEEEEecCCCCceEEEEEEehHHHHHHHh-cCccCceEEEEEE
Q 022388 85 LTNTVHLIGVVGTPIETKHLP--SGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQ-HVEKGQQIYISGR 154 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~--nGk--~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~-~LkKGD~V~VsGr 154 (298)
-+..|.|.|+|-.--..|++. +|. .++++.|+ ++|--+++++|.++|..+.. .|++||.|.|.|.
T Consensus 66 ~~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~ia-----DeTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~ 135 (484)
T PRK14699 66 ESGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVG-----DETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY 135 (484)
T ss_pred CCceEEEEEEEEEecCceEEecCCCCceEEEEEEEe-----cCCCeEEEEEecCccchhhhcCCCCCCEEEEcce
Confidence 468899999998755555552 454 34444444 56779999999999988776 6999999999995
No 63
>cd04321 ScAspRS_mt_like_N ScAspRS_mt_like_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae mitochondrial (mt) aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this fungal group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Mutations in the gene for
Probab=87.29 E-value=12 Score=28.87 Aligned_cols=84 Identities=18% Similarity=0.262 Sum_probs=49.9
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH-HHHHHhcCccCceEEEEEEeeeeeeecCCCc
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-AHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l-Ae~~a~~LkKGD~V~VsGrL~s~~~~dkdG~ 166 (298)
+|+|.|.|.+ +|.. ++.++...| ++... .-+.|++-.+. +-.....|..|+.|.|+|.+....-.. .+
T Consensus 1 ~V~v~Gwv~~---~R~~--~~~~~Fi~L--rD~~g--~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~-~~- 69 (86)
T cd04321 1 KVTLNGWIDR---KPRI--VKKLSFADL--RDPNG--DIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKS-SE- 69 (86)
T ss_pred CEEEEEeEee---EeCC--CCceEEEEE--ECCCC--CEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcC-CC-
Confidence 3788899887 3421 233554444 33211 24666554332 222345699999999999998754221 11
Q ss_pred EEEEEEEEEEEEEEee
Q 022388 167 QQTYYKVVVQQLNFVE 182 (298)
Q Consensus 167 ~r~~~eIva~~I~fl~ 182 (298)
....+||.+++|.++.
T Consensus 70 ~~~~~Ei~~~~i~il~ 85 (86)
T cd04321 70 KNDEWELVVDDIQTLN 85 (86)
T ss_pred CCCCEEEEEEEEEEec
Confidence 1123899999999874
No 64
>PRK14699 replication factor A; Provisional
Probab=87.07 E-value=4.8 Score=41.27 Aligned_cols=86 Identities=15% Similarity=0.241 Sum_probs=58.4
Q ss_pred CcceEEEEEEeCCCceEEEcC--CCcE--EEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEE-eeeee
Q 022388 85 LTNTVHLIGVVGTPIETKHLP--SGKV--LAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGR-LVSDV 159 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~--nGk~--va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGr-L~s~~ 159 (298)
-+..|++.|+|..--+.|++. +|.. +..+.|+ ++|--+++++|++.|. +..-|++||.|.|.+- .+.+.
T Consensus 175 ~~~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~ig-----DeTG~ir~tlW~~~a~-~~~~l~~Gd~v~I~~a~vr~~~ 248 (484)
T PRK14699 175 GMGDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLG-----DETGTLRVTLWDDKTD-FLNQIEYGDTVELINAYARENA 248 (484)
T ss_pred CCCceEEEEEEEeccCceEEecCCCCceEEEEEEEE-----cCCceEEEEEECcccc-cccccCCCCEEEEecceEeecc
Confidence 356799999998766666543 5643 5555444 5678999999999886 4456999999998754 44433
Q ss_pred eecCCCcEEEEEEEEEEEEEEeec
Q 022388 160 VESGDGQQQTYYKVVVQQLNFVER 183 (298)
Q Consensus 160 ~~dkdG~~r~~~eIva~~I~fl~~ 183 (298)
|. | .++|.+.+...+..
T Consensus 249 ~~---~----~~el~~~~~s~i~~ 265 (484)
T PRK14699 249 FT---Q----KVELQVGNRSIIRK 265 (484)
T ss_pred cC---C----ceEEEecCceEeec
Confidence 32 2 35666666666554
No 65
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=86.71 E-value=4.4 Score=46.70 Aligned_cols=87 Identities=20% Similarity=0.224 Sum_probs=62.7
Q ss_pred CcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHH--HHHHhcCccCceEEEEEEeeeeeeec
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELA--HVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lA--e~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
-.+.|++.|.|-. .+.+.+.+|+.+..|.|. +.++-|.|..|.+.. ......+++|+.|.|.|.+..+.|..
T Consensus 235 ~~~~v~i~G~if~-~e~~~~k~~~~~~~~~~t-----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~~~ 308 (1437)
T PRK00448 235 EERRVVVEGYVFK-VEIKELKSGRHILTFKIT-----DYTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTFTR 308 (1437)
T ss_pred cCCeEEEEEEEEE-EEEEeccCCCEEEEEEEE-----cCCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCCCC
Confidence 4578999999965 788899999988888774 345667787876311 23446699999999999999888753
Q ss_pred CCCcEEEEEEEEEEEEEEeecC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k 184 (298)
+ +.+.++.|..+...
T Consensus 309 ~-------~~~~~~~~~~~~~~ 323 (1437)
T PRK00448 309 D-------LVMNAQDINEIKHP 323 (1437)
T ss_pred c-------eEEEeeeeeecCCc
Confidence 2 33455666555443
No 66
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=86.48 E-value=4.2 Score=45.69 Aligned_cols=80 Identities=14% Similarity=0.223 Sum_probs=63.3
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcE
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~ 167 (298)
.|.+.|-|.. .+.+.|+.|+..+.++|. +.+.-+.|++|.+.-+.....|..|..|.|+|++..+ +|.
T Consensus 945 ~v~v~g~i~~-~~~~~tk~g~~maf~~le-----D~tg~~e~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~-----~~~- 1012 (1107)
T PRK06920 945 VQRAIVYITS-VKVIRTKKGQKMAFITFC-----DQNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELR-----NHK- 1012 (1107)
T ss_pred EEEEEEEEEE-eEeecCCCCCeEEEEEEe-----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CCc-
Confidence 6888888876 556677889988888776 3456799999999888889999999999999999643 232
Q ss_pred EEEEEEEEEEEEEee
Q 022388 168 QTYYKVVVQQLNFVE 182 (298)
Q Consensus 168 r~~~eIva~~I~fl~ 182 (298)
.++++++|.-+.
T Consensus 1013 ---~~~~~~~i~~l~ 1024 (1107)
T PRK06920 1013 ---LQWIVNGLYPLE 1024 (1107)
T ss_pred ---EEEEEeecccHH
Confidence 567788887664
No 67
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=86.17 E-value=5 Score=45.31 Aligned_cols=83 Identities=12% Similarity=0.242 Sum_probs=64.2
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCc
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~ 166 (298)
..|.+.|-|.. .+.+.|+.|+..+.++|. +.+.-+.|++|.+.-+.....|+.|..|.|+|++..+. +|.
T Consensus 992 ~~v~v~g~i~~-~~~~~tk~G~~maf~~le-----D~~g~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~----~~~ 1061 (1151)
T PRK06826 992 DKVIIGGIITE-VKRKTTRNNEMMAFLTLE-----DLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE----DEE 1061 (1151)
T ss_pred cEEEEEEEEEE-eEeeccCCCCeEEEEEEE-----ECCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC----CCc
Confidence 36788888876 666778899989888777 34566999999998888889999999999999996432 232
Q ss_pred EEEEEEEEEEEEEEeec
Q 022388 167 QQTYYKVVVQQLNFVER 183 (298)
Q Consensus 167 ~r~~~eIva~~I~fl~~ 183 (298)
.+++|+++.-+..
T Consensus 1062 ----~~~~~~~~~~l~~ 1074 (1151)
T PRK06826 1062 ----PKLICEEIEPLVI 1074 (1151)
T ss_pred ----eEEEEeeeecHhh
Confidence 5677888876643
No 68
>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=85.94 E-value=14 Score=29.51 Aligned_cols=78 Identities=18% Similarity=0.315 Sum_probs=49.5
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH---H--HHHHhcCccCceEEEEEEeeeeeeec
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL---A--HVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l---A--e~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
.|+|.|+|.+ +|. .|+ ++.+.|.- . +.-+.|++-.+. . ..+...|..||.|.|+|.+...
T Consensus 1 ~v~v~GwV~~---~R~--~g~-~~Fi~lrd-~----~~~lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~v~~~---- 65 (108)
T cd04322 1 EVSVAGRIMS---KRG--SGK-LSFADLQD-E----SGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKT---- 65 (108)
T ss_pred CEEEEEEEEE---Eec--CCC-eEEEEEEE-C----CeEEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEec----
Confidence 3788899877 443 354 55443332 2 245777664321 1 1222349999999999998753
Q ss_pred CCCcEEEEEEEEEEEEEEeecC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k 184 (298)
+.|+ ++|.++.+.++...
T Consensus 66 ~~g~----~El~~~~~~ils~~ 83 (108)
T cd04322 66 KTGE----LSIFVKEFTLLSKS 83 (108)
T ss_pred CCCC----EEEEeCEeEEeecc
Confidence 2244 79999999999653
No 69
>cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam
Probab=85.83 E-value=6.3 Score=30.43 Aligned_cols=75 Identities=20% Similarity=0.259 Sum_probs=49.6
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHH---HHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH---VASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe---~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
|.++|.|.+ +... + .+..|+|. +.+--+.+.+|....+ ...+.++.|+.|.|.|+++... |
T Consensus 2 v~~vG~V~~---~~~~--~-~~~~~tL~-----D~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~-----g 65 (95)
T cd04478 2 VTLVGVVRN---VEEQ--S-TNITYTID-----DGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQ-----G 65 (95)
T ss_pred EEEEEEEEe---eeEc--c-cEEEEEEE-----CCCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccC-----C
Confidence 678888876 2221 2 34555554 2344699999986443 3577899999999999997643 3
Q ss_pred cEEEEEEEEEEEEEEeec
Q 022388 166 QQQTYYKVVVQQLNFVER 183 (298)
Q Consensus 166 ~~r~~~eIva~~I~fl~~ 183 (298)
+ .+|.+..+..++.
T Consensus 66 ~----~ql~i~~i~~v~d 79 (95)
T cd04478 66 K----KSIMAFSIRPVTD 79 (95)
T ss_pred e----eEEEEEEEEEeCC
Confidence 3 4466667776654
No 70
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=85.54 E-value=5.4 Score=45.15 Aligned_cols=81 Identities=11% Similarity=0.185 Sum_probs=63.3
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCc
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~ 166 (298)
..|.+.|-|.. .+.+.|++|+..+.++|.- .+.-+.|++|-+.-+.....|+.|..|.|+|++..+ +|.
T Consensus 1001 ~~v~v~g~i~~-~k~~~Tk~G~~maf~~leD-----~tg~~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~-----~~~ 1069 (1170)
T PRK07374 1001 AKVSAIAMIPE-MKQVTTRKGDRMAILQLED-----LTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRR-----DDR 1069 (1170)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEEE-----CCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CCe
Confidence 46889998886 6667788999888887763 456699999999888889999999999999999542 232
Q ss_pred EEEEEEEEEEEEEEee
Q 022388 167 QQTYYKVVVQQLNFVE 182 (298)
Q Consensus 167 ~r~~~eIva~~I~fl~ 182 (298)
.+++|+++.-+.
T Consensus 1070 ----~~~~~~~i~~l~ 1081 (1170)
T PRK07374 1070 ----VQLIIDDCREID 1081 (1170)
T ss_pred ----EEEEEeeeecHh
Confidence 567777776553
No 71
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=85.40 E-value=3.3 Score=37.56 Aligned_cols=89 Identities=11% Similarity=0.149 Sum_probs=59.8
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecC
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG 163 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dk 163 (298)
.-+|.|-++|.|+..+-+-+ ...+.+++|+-. ..++|+-.--|..-|..+++.++++|.|.|.|.++++. +.
T Consensus 43 ~k~nRifivGtltek~~i~e---d~~~~R~rVvDp---TGsF~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~~y~--~d 114 (196)
T COG3390 43 LKVNRIFIVGTLTEKEGIGE---DREYWRIRVVDP---TGSFYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIRTYR--TD 114 (196)
T ss_pred hheeEEEEEEEEEeccCcCC---cccEEEEEEecC---CceEEEEcCCCChHHHHHHHhccCCceEEEecccceee--cC
Confidence 34899999999998654321 245777777621 22445533345567888889999999999999998754 55
Q ss_pred CCcEEEEEEEEEEEEEEee
Q 022388 164 DGQQQTYYKVVVQQLNFVE 182 (298)
Q Consensus 164 dG~~r~~~eIva~~I~fl~ 182 (298)
+|... +.|.++.|+.++
T Consensus 115 ~g~~~--~siRpE~vs~vd 131 (196)
T COG3390 115 EGVVL--FSIRPELVSKVD 131 (196)
T ss_pred CCceE--EEechhhhhhcC
Confidence 66643 445566665543
No 72
>PRK12366 replication factor A; Reviewed
Probab=85.07 E-value=3 Score=44.04 Aligned_cols=66 Identities=26% Similarity=0.322 Sum_probs=49.0
Q ss_pred CCcceEEEEEEeCCCceEEEc--CCC--cEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEe
Q 022388 84 ELTNTVHLIGVVGTPIETKHL--PSG--KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRL 155 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t--~nG--k~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL 155 (298)
..++.|+|.|+|..--.+|.. .+| ..++.+.|+ +++--|++++|++.|+. ...|+.|+.|.|+|..
T Consensus 71 p~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~-----DetG~Ir~t~W~~~~~~-~~~le~G~v~~i~~~~ 140 (637)
T PRK12366 71 EGQINVEITGRIIEISNIKTFTRKDGSTGKLANITIA-----DNTGTIRLTLWNDNAKL-LKGLKEGDVIKIENAR 140 (637)
T ss_pred CCCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEE-----cCCCEEEEEEEchhhhh-hccCCCCCEEEEeccE
Confidence 346899999999865555544 345 345555555 24557999999999986 5789999999999853
No 73
>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=84.37 E-value=6.9 Score=44.47 Aligned_cols=85 Identities=18% Similarity=0.246 Sum_probs=61.2
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHH--HHHHhcCccCceEEEEEEeeeeeeecC
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELA--HVASQHVEKGQQIYISGRLVSDVVESG 163 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lA--e~~a~~LkKGD~V~VsGrL~s~~~~dk 163 (298)
++.|++.|.|-. .+.+.+.+|+.+..|.|. +.++-|.|..|...- ......+++|+.|.|.|.+..+.|..+
T Consensus 7 ~~~~~~~g~i~~-~~~~~~~~~~~~~~~~~~-----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~~~~~g~~~~d~~~~~ 80 (1213)
T TIGR01405 7 ENRVKIEGYIFK-IEIKELKSGRTLLKIKVT-----DYTDSLILKKFLKSEEDPEKFDGIKIGKWVRARGKIELDNFSRD 80 (1213)
T ss_pred CCeEEEEEEEEE-EEeEeccCCCEEEEEEEE-----cCCCCEEEEEecccccchHHHhhcCCCcEEEEEEEEeccCCCCc
Confidence 578999999965 788899999988888776 345668888887311 223466999999999999998877532
Q ss_pred CCcEEEEEEEEEEEEEEeec
Q 022388 164 DGQQQTYYKVVVQQLNFVER 183 (298)
Q Consensus 164 dG~~r~~~eIva~~I~fl~~ 183 (298)
+.+.+..|..+..
T Consensus 81 -------~~~~~~~~~~~~~ 93 (1213)
T TIGR01405 81 -------LQMIIKDIEEIPY 93 (1213)
T ss_pred -------eEEEeeeeeecCC
Confidence 3445555555443
No 74
>PRK08402 replication factor A; Reviewed
Probab=83.59 E-value=3 Score=41.07 Aligned_cols=68 Identities=16% Similarity=0.196 Sum_probs=48.6
Q ss_pred CcceEEEEEEeCCCceEEE--cCCCc--EEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeee
Q 022388 85 LTNTVHLIGVVGTPIETKH--LPSGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~--t~nGk--~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s 157 (298)
-+..|+++|+|..--..|. ..+|. .+.+..|+ ++|-.+++++|++.|......|..||.|.|.|--..
T Consensus 71 g~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~-----DeTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a~V~ 142 (355)
T PRK08402 71 GMRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIY-----DDTGRARVVLWDAKVAKYYNKINVGDVIKVIDAQVR 142 (355)
T ss_pred CCceeeEEEEEEEccCCceeeccCCCcceEEEEEEE-----cCCCeEEEEEechhhhhhcccCCCCCEEEEECCEEe
Confidence 4589999999986433332 23554 35555555 456788999999999876777999999999854433
No 75
>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=82.90 E-value=22 Score=28.37 Aligned_cols=81 Identities=11% Similarity=0.226 Sum_probs=52.7
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH----HHHHHhcCccCceEEEEEEeeeeeeec
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL----AHVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l----Ae~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
..|++-|+|.+ +|. .|+ ++.+.| ++. +..+.|++-.+. .-.....|..|+.|.|+|.+....-
T Consensus 13 ~~V~v~Gwv~~---~R~--~g~-~~Fi~L--rD~---~g~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~-- 79 (108)
T cd04316 13 EEVTVAGWVHE---IRD--LGG-IKFVIL--RDR---EGIVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEPK-- 79 (108)
T ss_pred CEEEEEEEEEe---eec--cCC-eEEEEE--ecC---CeeEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCCC--
Confidence 35899999976 443 344 554444 222 245777776431 1123356999999999999986531
Q ss_pred CCCcEEEEEEEEEEEEEEeecC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k 184 (298)
..+ .+||.+++|.++...
T Consensus 80 ~~~----~~Ei~~~~i~il~~~ 97 (108)
T cd04316 80 APN----GVEIIPEEIEVLSEA 97 (108)
T ss_pred CCC----CEEEEEeEEEEEeCC
Confidence 111 489999999999754
No 76
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=81.57 E-value=11 Score=42.11 Aligned_cols=81 Identities=16% Similarity=0.353 Sum_probs=61.3
Q ss_pred ceEEEEEEeCCCceEEEcC-CCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 87 NTVHLIGVVGTPIETKHLP-SGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~-nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
..+.+.|.|.. ...+.+. .|+..+.++|.- .+.-+.|++|.+.-+.....|+.|..|.|+|++..+ +|
T Consensus 885 ~~~~~~~~i~~-~~~~~tk~~g~~maf~~leD-----~~g~ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~-----~~ 953 (1034)
T PRK07279 885 SEATILVQIQS-IRVIRTKTKGQQMAFLSVTD-----TKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQER-----DG 953 (1034)
T ss_pred CcceEEEEEEE-EEEEEEcCCCCeEEEEEEee-----CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC
Confidence 45788899876 4445556 888888887763 455699999999888888899999999999999652 23
Q ss_pred cEEEEEEEEEEEEEEee
Q 022388 166 QQQTYYKVVVQQLNFVE 182 (298)
Q Consensus 166 ~~r~~~eIva~~I~fl~ 182 (298)
. .+++++++.-+.
T Consensus 954 ~----~~l~~~~i~~l~ 966 (1034)
T PRK07279 954 R----LQMVLQQIQEAS 966 (1034)
T ss_pred e----eEEEEeeeeccc
Confidence 2 567777776553
No 77
>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=81.38 E-value=25 Score=27.85 Aligned_cols=80 Identities=25% Similarity=0.329 Sum_probs=50.3
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH---HHHHHhcCccCceEEEEEEeeeeeeecCC
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL---AHVASQHVEKGQQIYISGRLVSDVVESGD 164 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l---Ae~~a~~LkKGD~V~VsGrL~s~~~~dkd 164 (298)
.|++.|+|.+ +|. .|+ ++.+.| ++. +..+.|++-.+. .-.....|..|+.|.|+|.+.... ...
T Consensus 1 ~V~v~Gwv~~---~R~--~gk-~~Fi~l--rD~---~g~iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~--~~~ 67 (103)
T cd04319 1 KVTLAGWVYR---KRE--VGK-KAFIVL--RDS---TGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADP--RAP 67 (103)
T ss_pred CEEEEEEEEe---EEc--CCC-eEEEEE--ecC---CeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECC--CCC
Confidence 3788999976 343 344 343333 332 234777665431 111234689999999999997653 112
Q ss_pred CcEEEEEEEEEEEEEEeecC
Q 022388 165 GQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 165 G~~r~~~eIva~~I~fl~~k 184 (298)
+ .+||.+++|+++...
T Consensus 68 ~----~~Ei~~~~i~vl~~a 83 (103)
T cd04319 68 G----GAEVHGEKLEIIQNV 83 (103)
T ss_pred C----CEEEEEEEEEEEecC
Confidence 2 489999999999754
No 78
>cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP). POT1 proteins recognize single-stranded (ss) 3-prime ends of the telomere. A 3-prime ss overhang is conserved in ciliated protozoa, yeast, and mammals. SpPOT1 is essential for telomere maintenance. It binds specifically to the ss G-rich telomeric sequence (GGTTAC) of S. pombe. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. Deletion of the S. pombe pot1+ gene results in a rapid loss of telomere sequences, chromosome mis-segregation and chromosome circularization. hPOT1 is implicated in telomere length regulation. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB
Probab=80.00 E-value=9.4 Score=32.20 Aligned_cols=73 Identities=11% Similarity=0.086 Sum_probs=47.3
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeee
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
-..|.+||-|..-...+.+.+....+.|+|.-... ....-+.|.+|++.++.+=. +..||.|.+.+ ++...|.
T Consensus 14 ~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~-~~~~~l~v~~F~~~~~~LP~-v~~GDVIll~~-~kv~~~~ 86 (138)
T cd04497 14 GGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSL-ANSDGLTVKLFRPNEESLPI-VKVGDIILLRR-VKIQSYN 86 (138)
T ss_pred CCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCC-CCCCcEEEEEECCChhhCCC-CCCCCEEEEEE-EEEEEEC
Confidence 45788999997544334343333455555543322 12456999999998887644 59999999998 5555553
No 79
>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=78.92 E-value=8.7 Score=40.45 Aligned_cols=68 Identities=22% Similarity=0.225 Sum_probs=52.6
Q ss_pred CcceEEEEEEeCCCceEEEcCC--C-cEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEE-Eeee
Q 022388 85 LTNTVHLIGVVGTPIETKHLPS--G-KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVS 157 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~n--G-k~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsG-rL~s 157 (298)
.++..+|.|||...-++|...+ | ..+..+.|. + +..-|++++|++.|+.....|+.|+.++|++ +++.
T Consensus 189 y~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~--D---egg~Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~ 260 (608)
T TIGR00617 189 YQNKWTIKARVTNKSEIRTWSNARGEGKLFNVELL--D---ESGEIRATAFNEQADKFYDIIQEGKVYYISKGSLKP 260 (608)
T ss_pred CCCceEEEEEEEeccccceecCCCCCceeeEEEEe--c---CCCeEEEEECchHHHHHhhhcccCCEEEECceEEEE
Confidence 4678999999998888887643 2 245555443 2 4567999999999999999999999999975 5543
No 80
>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=77.30 E-value=30 Score=35.11 Aligned_cols=84 Identities=15% Similarity=0.222 Sum_probs=53.2
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH---HHHHHhcCccCceEEEEEEeeeeeeecC
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL---AHVASQHVEKGQQIYISGRLVSDVVESG 163 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l---Ae~~a~~LkKGD~V~VsGrL~s~~~~dk 163 (298)
..|+|.|+|.+ +|. .| .++.+.| ++.. ...-+.|++-.+. .-.....|..||.|.|+|.+.... .+
T Consensus 17 ~~v~v~Gwv~~---~R~--~~-~~~F~~l--rD~~-~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~--~~ 85 (453)
T TIGR00457 17 DEVTVSGWVRT---KRS--SK-KIIFLEL--NDGS-SLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESP--GK 85 (453)
T ss_pred CEEEEEEEeEE---EEc--CC-CeEEEEE--ECCC-CCccEEEEEeCCcChHHHHHHHcCCCCcEEEEEEEEEcCC--CC
Confidence 56999999976 452 33 3444444 2221 1135777665431 112346799999999999998632 12
Q ss_pred CCcEEEEEEEEEEEEEEeecCC
Q 022388 164 DGQQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 164 dG~~r~~~eIva~~I~fl~~k~ 185 (298)
.| .++|.++.|+++....
T Consensus 86 ~~----~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 86 GQ----PVELQVKKIEVVGEAE 103 (453)
T ss_pred CC----CEEEEEeEEEEEecCC
Confidence 23 4889999999998654
No 81
>PLN02903 aminoacyl-tRNA ligase
Probab=77.24 E-value=23 Score=37.86 Aligned_cols=87 Identities=18% Similarity=0.292 Sum_probs=54.0
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH---HHHHHHhcCccCceEEEEEEeeeeeeecC
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE---LAHVASQHVEKGQQIYISGRLVSDVVESG 163 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~---lAe~~a~~LkKGD~V~VsGrL~s~~~~dk 163 (298)
..|+|.|.|.+ +|.. |+ ++.+.| ++. +..+.|++-.+ .+...+..|+.|+.|.|+|.+..+.-...
T Consensus 73 k~V~l~GWV~~---~R~~--G~-l~FidL--RD~---~G~iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V~~r~~~~~ 141 (652)
T PLN02903 73 SRVTLCGWVDL---HRDM--GG-LTFLDV--RDH---TGIVQVVTLPDEFPEAHRTANRLRNEYVVAVEGTVRSRPQESP 141 (652)
T ss_pred CEEEEEEEEEE---EecC--CC-cEEEEE--EcC---CccEEEEEeCCccHHHHHHHhcCCCCCEEEEEEEEEeCCCcCc
Confidence 46999999976 4443 43 333333 222 22367776532 22234567999999999999986532122
Q ss_pred CCcEE-EEEEEEEEEEEEeecC
Q 022388 164 DGQQQ-TYYKVVVQQLNFVERS 184 (298)
Q Consensus 164 dG~~r-~~~eIva~~I~fl~~k 184 (298)
+.+.. -.+||.|++|.+|...
T Consensus 142 n~~~~tGeiEl~~~~i~VL~~a 163 (652)
T PLN02903 142 NKKMKTGSVEVVAESVDILNVV 163 (652)
T ss_pred CCCCCCCCEEEEEeEEEEEecC
Confidence 21111 2389999999999875
No 82
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=77.01 E-value=16 Score=41.00 Aligned_cols=78 Identities=21% Similarity=0.372 Sum_probs=58.9
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcE
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~ 167 (298)
.|.+.|-|.. .+.+.|+.| .+.++|. +.+.-+.|++|.+.-+.....|+.|..|.|+|+++.+ +|.
T Consensus 955 ~v~v~g~i~~-~~~~~TkkG--maf~~le-----D~~g~~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~-----~~~- 1020 (1046)
T PRK05672 955 RVRVAGVVTH-RQRPGTASG--VTFLTLE-----DETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNA-----EGV- 1020 (1046)
T ss_pred EEEEEEEEEE-EEEecCCCc--eEEEEEe-----cCCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CCe-
Confidence 4777777766 555567777 5555554 5567799999999999999999999999999999642 332
Q ss_pred EEEEEEEEEEEEEee
Q 022388 168 QTYYKVVVQQLNFVE 182 (298)
Q Consensus 168 r~~~eIva~~I~fl~ 182 (298)
.+++|++|.-++
T Consensus 1021 ---~~~~~~~i~~~~ 1032 (1046)
T PRK05672 1021 ---RHLVADRLEDLS 1032 (1046)
T ss_pred ---EEEEEeeeechH
Confidence 468888887664
No 83
>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=76.35 E-value=11 Score=31.94 Aligned_cols=73 Identities=16% Similarity=0.173 Sum_probs=51.5
Q ss_pred cceEEEEEEeCCCceE--EEcCCCcEEEEEEEEEecCC-CCc---eEEEEEEehHHHHHHHhcCcc-CceEEEEEEeeee
Q 022388 86 TNTVHLIGVVGTPIET--KHLPSGKVLAWTRLAVRKSA-TQT---SWINLTFWDELAHVASQHVEK-GQQIYISGRLVSD 158 (298)
Q Consensus 86 mN~V~LIGrVg~dPel--r~t~nGk~va~f~LAv~r~~-~~t---~wi~Vv~wg~lAe~~a~~LkK-GD~V~VsGrL~s~ 158 (298)
-..|.++|-|...-.. +.+.++...+.|+| ++.+. ... ..+.|.+|.+..+.+-. ++. ||.|.+. +++..
T Consensus 12 ~~~vnvigVV~~~~~p~~~~t~g~D~~~tl~i-~D~S~~~~~~~~~~l~v~iF~~~~~~LP~-v~~~GDii~l~-r~kv~ 88 (146)
T PF02765_consen 12 GKFVNVIGVVVDFSPPNPKKTRGTDYMCTLTI-TDPSLNDSNQKLSGLTVNIFRPHKESLPN-VKSVGDIIRLR-RVKVQ 88 (146)
T ss_dssp SEEEEEEEEEEEEEEECTEEESSSCEEEEEEE-EBTTCSCSSCCCCEEEEEEEESSHHHSCT-TCSTTHEEEEE-EEEEE
T ss_pred CCEEEEEEEEEEccCCcceEcCCCcEEEEEEE-ECCCCCccccccCCEEEEEECCCHHHCCC-CCCCCCEEEEE-EEEEE
Confidence 4578999999754444 55556778888888 44443 333 78999999887777644 666 9988887 66666
Q ss_pred eee
Q 022388 159 VVE 161 (298)
Q Consensus 159 ~~~ 161 (298)
.|.
T Consensus 89 ~~~ 91 (146)
T PF02765_consen 89 SYN 91 (146)
T ss_dssp EET
T ss_pred EEC
Confidence 664
No 84
>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=73.25 E-value=37 Score=34.10 Aligned_cols=81 Identities=12% Similarity=0.220 Sum_probs=51.7
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH----HHHHHHhcCccCceEEEEEEeeeeeeec
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE----LAHVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~----lAe~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
..|+|.|+|.+ +|. .|+ ++...|. +.. .-+.|++-.+ ..-.....|..||.|.|+|.+....-
T Consensus 13 ~~v~i~G~v~~---~R~--~g~-~~Fi~lr-d~~----g~iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~~-- 79 (428)
T TIGR00458 13 QEVTFMGWVHE---IRD--LGG-LIFVLLR-DRE----GLIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKEK-- 79 (428)
T ss_pred CEEEEEEEEEE---Eec--CCC-cEEEEEE-eCC----eeEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecCC--
Confidence 56899999966 443 354 4433332 222 2477766532 11112356999999999999984321
Q ss_pred CCCcEEEEEEEEEEEEEEeecC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k 184 (298)
..| .++|.+++|.++...
T Consensus 80 ~~~----~~el~~~~i~vl~~~ 97 (428)
T TIGR00458 80 APG----GFEIIPTKIEVINEA 97 (428)
T ss_pred CCC----cEEEEEeEEEEEecC
Confidence 123 399999999999865
No 85
>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=73.23 E-value=17 Score=34.21 Aligned_cols=83 Identities=14% Similarity=0.164 Sum_probs=50.5
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHH---HHhcCccCceEEEEEEeeeeee
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHV---ASQHVEKGQQIYISGRLVSDVV 160 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~---~a~~LkKGD~V~VsGrL~s~~~ 160 (298)
.-++.|.|+|.|..- ..+...+.+ +..+.+++....+ .+.|.++...... -...+ .|+.|.|.|.+.
T Consensus 64 hPI~~v~i~G~Vv~~-~~~~~~~~~---~~~l~iDD~Sg~~-~i~~~~~~~~~~~~~l~~~~~-~G~~V~VkG~vs---- 133 (256)
T PF10451_consen 64 HPIRWVRIVGVVVGI-DYKWIENED---RIILTIDDSSGAN-TIECKCSKSSYLSMGLPINDL-IGKVVEVKGTVS---- 133 (256)
T ss_dssp EEE-EEEEEEEEEEE-EEEE-BBTC---EEEEEEE-SSCS--EEEEEEEHHHHHCCCHHCTT--TT-EEEEEEEEE----
T ss_pred cccEEEEEEEEEEEE-EEEeecccc---eEEEEEeCCCCce-eEEEEEEcccccccCCCccCC-CCcEEEEEEEEc----
Confidence 349999999999884 333333333 2344566654433 8999999763221 12335 999999999998
Q ss_pred ecCCCcEEEEEEEEEEEEEEeec
Q 022388 161 ESGDGQQQTYYKVVVQQLNFVER 183 (298)
Q Consensus 161 ~dkdG~~r~~~eIva~~I~fl~~ 183 (298)
.+ ..++.++.|..+..
T Consensus 134 ---r~----~~ql~ve~i~~~~~ 149 (256)
T PF10451_consen 134 ---RN----ERQLDVERIELVRD 149 (256)
T ss_dssp ---SS----SEEEEEEEEEEETS
T ss_pred ---cC----cEEEEEEEEEccCC
Confidence 11 25677888887743
No 86
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=72.00 E-value=38 Score=34.23 Aligned_cols=81 Identities=17% Similarity=0.300 Sum_probs=49.9
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEe---hHHHHHHHhcCccCceEEEEEEeeeeeeecC
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFW---DELAHVASQHVEKGQQIYISGRLVSDVVESG 163 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~w---g~lAe~~a~~LkKGD~V~VsGrL~s~~~~dk 163 (298)
..|++.|+|.+ +|.. |+ ++.+.| -+. +.-+.|++- +..+-.....|..||.|.|+|.+....- .
T Consensus 17 ~~V~i~G~v~~---~R~~--g~-~~Fi~l-rD~----~g~iq~~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~~--~ 83 (450)
T PRK03932 17 QEVTVRGWVRT---KRDS--GK-IAFLQL-RDG----SCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVTGTVVESPR--A 83 (450)
T ss_pred CEEEEEEEEEE---EEeC--CC-eEEEEE-ECC----CCcEEEEEEcCCChHHHHHHhcCCCCcEEEEEEEEEcCCC--C
Confidence 67999999976 5543 43 333333 222 233444332 2222223356999999999999985331 2
Q ss_pred CCcEEEEEEEEEEEEEEeecC
Q 022388 164 DGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 164 dG~~r~~~eIva~~I~fl~~k 184 (298)
.| .++|.|+++.++...
T Consensus 84 ~~----~~el~~~~i~vl~~~ 100 (450)
T PRK03932 84 GQ----GYELQATKIEVIGED 100 (450)
T ss_pred CC----CEEEEEEEEEEccCC
Confidence 22 389999999999863
No 87
>PLN02850 aspartate-tRNA ligase
Probab=71.30 E-value=54 Score=34.11 Aligned_cols=85 Identities=15% Similarity=0.171 Sum_probs=53.7
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH------HHHHHhcCccCceEEEEEEeeeeee
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL------AHVASQHVEKGQQIYISGRLVSDVV 160 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l------Ae~~a~~LkKGD~V~VsGrL~s~~~ 160 (298)
..|.|.|+|.+ +|. -|+ ++.+.|.- . +..+.|++-.+. .-..+..|..|+.|.|+|.+....-
T Consensus 82 ~~V~v~Grv~~---~R~--~gk-~~Fl~Lrd-~----~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~ 150 (530)
T PLN02850 82 SEVLIRGRVHT---IRG--KGK-SAFLVLRQ-S----GFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKK 150 (530)
T ss_pred CEEEEEEEEEE---Ecc--CCC-eEEEEEEe-C----CcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccCc
Confidence 57899999976 333 355 55444432 2 234777664321 1123467999999999999984321
Q ss_pred ecCCCcEEEEEEEEEEEEEEeecC
Q 022388 161 ESGDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 161 ~dkdG~~r~~~eIva~~I~fl~~k 184 (298)
...+.+. .++|.+++|.+|...
T Consensus 151 -~~~~~t~-~~El~~~~i~vls~a 172 (530)
T PLN02850 151 -PVKGTTQ-QVEIQVRKIYCVSKA 172 (530)
T ss_pred -CCCCCCc-cEEEEEeEEEEEeCC
Confidence 1122223 699999999998765
No 88
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=70.87 E-value=41 Score=33.83 Aligned_cols=82 Identities=15% Similarity=0.287 Sum_probs=52.2
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH---HHHHHhcCccCceEEEEEEeeeeeeecC
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL---AHVASQHVEKGQQIYISGRLVSDVVESG 163 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l---Ae~~a~~LkKGD~V~VsGrL~s~~~~dk 163 (298)
+.|+|.|+|.. +|. .|+ ++...| .+.+ .-+.|++-.+. .-.....|..||.|.|+|.+....- .
T Consensus 17 ~~V~i~GrV~~---~R~--~gk-~~Fl~L-rD~~----g~iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~~--~ 83 (437)
T PRK05159 17 EEVTLAGWVHE---IRD--LGG-IAFLIL-RDRS----GIIQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANPK--A 83 (437)
T ss_pred CEEEEEEEeEe---eec--CCC-eEEEEE-EcCC----cEEEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCCC--C
Confidence 67899999976 343 343 443333 2222 23777664431 1123467999999999999985431 1
Q ss_pred CCcEEEEEEEEEEEEEEeecCC
Q 022388 164 DGQQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 164 dG~~r~~~eIva~~I~fl~~k~ 185 (298)
.| .++|.+++|.++....
T Consensus 84 ~~----~~el~~~~i~vls~a~ 101 (437)
T PRK05159 84 PG----GVEVIPEEIEVLNKAE 101 (437)
T ss_pred CC----CEEEEEeEEEEEeCCC
Confidence 23 4889999999998754
No 89
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=70.76 E-value=13 Score=31.72 Aligned_cols=79 Identities=19% Similarity=0.261 Sum_probs=53.7
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeee------e
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD------V 159 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~------~ 159 (298)
+++++++=-|-.+-+...+++|+.+..+.+| +++--|++.+|++ .-..++.||.|...|-..+. -
T Consensus 14 ~kN~~v~fIvl~~g~~tkTkdg~~v~~~kVa-----D~TgsI~isvW~e----~~~~~~PGDIirLt~Gy~Si~qg~LtL 84 (134)
T KOG3416|consen 14 LKNINVTFIVLEYGRATKTKDGHEVRSCKVA-----DETGSINISVWDE----EGCLIQPGDIIRLTGGYASIFQGCLTL 84 (134)
T ss_pred hhcceEEEEEEeeceeeeccCCCEEEEEEEe-----cccceEEEEEecC----cCcccCCccEEEecccchhhhcCceEE
Confidence 4444444445555556678899999999887 5678899999995 34568999999988754432 2
Q ss_pred eecCCCcEEEEEEE
Q 022388 160 VESGDGQQQTYYKV 173 (298)
Q Consensus 160 ~~dkdG~~r~~~eI 173 (298)
|..+.|+....=+.
T Consensus 85 ~~GK~Ge~~KiGef 98 (134)
T KOG3416|consen 85 YVGKGGEVQKIGEF 98 (134)
T ss_pred EecCCceEeEeeee
Confidence 45667764443333
No 90
>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=68.44 E-value=55 Score=34.50 Aligned_cols=87 Identities=14% Similarity=0.180 Sum_probs=53.4
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH-HHHHHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~-lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
..|+|.|+|.+ +|.. |+ ++ |....+++ .-+.|++-.+ .+-.....|..|+.|.|+|.+..+.-...+-
T Consensus 16 ~~V~l~GwV~~---~R~~--Gk-l~-Fi~LrD~s----g~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~ 84 (583)
T TIGR00459 16 QTVTLAGWVNR---RRDL--GG-LI-FIDLRDRS----GIVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINR 84 (583)
T ss_pred CEEEEEEEEEE---EEcC--CC-cE-EEEEEeCC----ccEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCc
Confidence 37999999976 4433 54 33 43332222 2577766543 2223456799999999999998643111110
Q ss_pred -cEEEEEEEEEEEEEEeecC
Q 022388 166 -QQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 166 -~~r~~~eIva~~I~fl~~k 184 (298)
...-.++|.|+++.+|...
T Consensus 85 ~~~tg~iEl~~~~i~iL~~a 104 (583)
T TIGR00459 85 NLDTGEIEILAESITLLNKS 104 (583)
T ss_pred cCCCCcEEEEEeEEEEeecC
Confidence 1122489999999999754
No 91
>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=68.11 E-value=53 Score=26.07 Aligned_cols=39 Identities=13% Similarity=0.212 Sum_probs=28.2
Q ss_pred ceEEEEEEehHHHHHHHhcCc---cCc-eEEEEEEeeeeeeec
Q 022388 124 TSWINLTFWDELAHVASQHVE---KGQ-QIYISGRLVSDVVES 162 (298)
Q Consensus 124 t~wi~Vv~wg~lAe~~a~~Lk---KGD-~V~VsGrL~s~~~~d 162 (298)
..-+.|++||+.|+.+..++. ++. .|.|-+-.+...|.+
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 468999999999998887663 444 445656577777753
No 92
>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=67.34 E-value=57 Score=33.57 Aligned_cols=78 Identities=19% Similarity=0.250 Sum_probs=49.4
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeh----H-HHHHHHhcCccCceEEEEEEeeeeeeec
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD----E-LAHVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg----~-lAe~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
.|++.|+|.+ +|. .|+ ++ |....+.+ .-+.|++-. + ..+.+...|..||.|.|+|.+.. .
T Consensus 55 ~v~v~Grv~~---~R~--~gk-~~-F~~l~D~~----g~iQ~~~~~~~~~~~~~~~~~~~l~~gd~V~v~G~~~~----t 119 (496)
T TIGR00499 55 EVSIAGRIMA---RRS--MGK-AT-FITLQDES----GQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFK----T 119 (496)
T ss_pred EEEEEEEEEE---Eec--CCC-eE-EEEEEcCC----ccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEE----C
Confidence 5899999987 452 343 44 43333322 235655532 1 12233335899999999999953 3
Q ss_pred CCCcEEEEEEEEEEEEEEeecC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k 184 (298)
+.|+ ++|.|++|.++...
T Consensus 120 ~~ge----lel~~~~i~ilsk~ 137 (496)
T TIGR00499 120 KTGE----LSVHVTELQILTKA 137 (496)
T ss_pred CCCc----EEEEeeEEEEEecC
Confidence 3454 89999999999864
No 93
>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=66.13 E-value=54 Score=24.61 Aligned_cols=77 Identities=16% Similarity=0.278 Sum_probs=46.2
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceE--EEEEEehHHH-HHHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSW--INLTFWDELA-HVASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~w--i~Vv~wg~lA-e~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
|++.|+|.+ +|. .|+ ++ | |..++. +.. +.|++-.+.. -.....|..|+.|.|+|.+....- +.|
T Consensus 2 v~v~Gwv~~---~R~--~g~-~~-F-i~LrD~---s~~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~--~~~ 68 (82)
T cd04318 2 VTVNGWVRS---VRD--SKK-IS-F-IELNDG---SCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG--AKQ 68 (82)
T ss_pred EEEEEeEEE---EEc--CCc-EE-E-EEEECC---CCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC--CCC
Confidence 678888865 443 233 33 3 222222 222 5565543311 134467999999999999876442 122
Q ss_pred cEEEEEEEEEEEEEEee
Q 022388 166 QQQTYYKVVVQQLNFVE 182 (298)
Q Consensus 166 ~~r~~~eIva~~I~fl~ 182 (298)
.+||.++++..+.
T Consensus 69 ----~~El~~~~i~il~ 81 (82)
T cd04318 69 ----PFELQAEKIEVLG 81 (82)
T ss_pred ----CEEEEEEEEEEec
Confidence 4899999998863
No 94
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=65.61 E-value=48 Score=33.74 Aligned_cols=82 Identities=11% Similarity=0.214 Sum_probs=55.5
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeh-HHHHHH--HhcCccCceEEEEEEeeeeeeecC
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD-ELAHVA--SQHVEKGQQIYISGRLVSDVVESG 163 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg-~lAe~~--a~~LkKGD~V~VsGrL~s~~~~dk 163 (298)
..|+|-|-|.+ .|. .|+ ++ |.+. + +.+.++.|++-. +..+.+ +.+|..++.|.|+|.+....-
T Consensus 17 ~~V~v~GWV~~---~R~--~g~-i~-Fi~l-r---Dgsg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~~--- 82 (435)
T COG0017 17 QEVTVRGWVHN---KRD--LGK-II-FLVL-R---DGSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASPK--- 82 (435)
T ss_pred cEEEEEEEeee---ecc--cCC-eE-EEEE-E---cCCcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCCC---
Confidence 68899999876 332 344 33 4222 2 235679999874 222222 568999999999999975442
Q ss_pred CCcEEEEEEEEEEEEEEeecCC
Q 022388 164 DGQQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 164 dG~~r~~~eIva~~I~fl~~k~ 185 (298)
....+||.|+.|.++....
T Consensus 83 ---a~~g~El~v~~i~Vl~~a~ 101 (435)
T COG0017 83 ---APQGFELQVEKIEVLGEAD 101 (435)
T ss_pred ---CCCCEEEEEEEEEEeeccC
Confidence 3335999999999997763
No 95
>COG3689 Predicted membrane protein [Function unknown]
Probab=65.28 E-value=24 Score=33.58 Aligned_cols=88 Identities=10% Similarity=0.086 Sum_probs=59.0
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCc
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~ 166 (298)
.++.++|.|-+|..+. .|--.+++|-|.|=-.... -+-..+..+ -...++..+.|.|+|+|.+..+.+.
T Consensus 176 k~Ie~tGFVy~~~~~~--~N~lflaRFgiicC~ADa~--vygl~v~~~----~~~~y~ndtWltvkGtl~~e~~~~~--- 244 (271)
T COG3689 176 KKIEFTGFVYNDESFP--KNYLFLARFGIICCAADAG--VYGLLVELD----NQTDYKNDTWLTVKGTLSSEYLSDF--- 244 (271)
T ss_pred ceEEEEEEEECCCCCC--cceeehhhhheeeeeccce--eEEEEEEcc----ccccCCCCceEEEEeEEEeeecCch---
Confidence 4789999999976543 2445777887766433222 222222221 1345899999999999999998654
Q ss_pred EEEEEEEEEEEEEEeecCC
Q 022388 167 QQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 167 ~r~~~eIva~~I~fl~~k~ 185 (298)
+.....|.|++++.|..+.
T Consensus 245 ~~~ipvi~v~sv~~I~kP~ 263 (271)
T COG3689 245 KKRIPVIEVDSVEVIPKPA 263 (271)
T ss_pred hhcCcEEEeeeeeecCCCC
Confidence 2334678899999997654
No 96
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=64.39 E-value=19 Score=40.90 Aligned_cols=88 Identities=23% Similarity=0.267 Sum_probs=62.8
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH--HHHHHhcCccCceEEEEEEeeeeeee
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l--Ae~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
..++.|.+.|.|=. .+.+.+.+|+..+.|.|.- -++-+.|..|-+. -+...+.+++|+.|.|+|.++.+.+.
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-----YTSSLILKKFLRDEEDEKKFDGIKKGMWVKARGNVQLDTFT 310 (1444)
T ss_pred ccccceEEEEEEEE-EeeeecccCcEEEEEEEec-----CchheeehhhccccccHHHHhhcccCcEEEEEEEEEecccc
Confidence 45788999999976 8888999998888876652 2334556666542 23455679999999999999988654
Q ss_pred cCCCcEEEEEEEEEEEEEEeecC
Q 022388 162 SGDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 162 dkdG~~r~~~eIva~~I~fl~~k 184 (298)
. + ..+.++.|+-|...
T Consensus 311 ~-~------l~m~i~~I~ei~~~ 326 (1444)
T COG2176 311 R-D------LTMIINDINEIENA 326 (1444)
T ss_pred c-c------eEEEhhhhhhhhcc
Confidence 2 2 44666777666643
No 97
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=64.25 E-value=79 Score=33.10 Aligned_cols=87 Identities=14% Similarity=0.100 Sum_probs=53.7
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEe--h---HHHHHHHhcCccCceEEEEEEeeeeeee
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFW--D---ELAHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~w--g---~lAe~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
..|.|.|+|.+ +|. .|+ .+.+.|.- . +..+.|++- + +..-.....|..|+.|.|+|.+....-.
T Consensus 79 ~~V~v~Grv~~---~R~--~Gk-~~Fl~LRd-~----~~~iQ~v~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~ 147 (550)
T PTZ00401 79 KTVLIRARVST---TRK--KGK-MAFMVLRD-G----SDSVQAMAAVEGDVPKEMIDFIGQIPTESIVDVEATVCKVEQP 147 (550)
T ss_pred CEEEEEEEEEE---Eec--CCC-eEEEEEEe-C----CcCEEEEEECCCccCHHHHHHHhcCCCCCEEEEEEEEEecCcc
Confidence 45999999976 343 354 45343332 2 235666652 1 2222234569999999999999764321
Q ss_pred cCCCcEEEEEEEEEEEEEEeecCC
Q 022388 162 SGDGQQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 162 dkdG~~r~~~eIva~~I~fl~~k~ 185 (298)
- .......++|.+++|.+|....
T Consensus 148 ~-~~~~~~~~El~v~~i~vls~a~ 170 (550)
T PTZ00401 148 I-TSTSHSDIELKVKKIHTVTESL 170 (550)
T ss_pred C-CCCCCccEEEEeeEEEEEeCCC
Confidence 1 1223345999999999998653
No 98
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=62.53 E-value=65 Score=34.53 Aligned_cols=77 Identities=14% Similarity=0.176 Sum_probs=51.3
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEe-----hH-HHHHHHhcCccCceEEEEEEeeeeeee
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFW-----DE-LAHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~w-----g~-lAe~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
.|.|.|+|.+ +|. -|+ ++.+.|. +. +.-|.|++- ++ ....+...|..||.|.|+|.+..
T Consensus 109 ~V~vaGrV~~---~R~--~Gk-~~F~~Lr-D~----~G~IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~v~~---- 173 (659)
T PTZ00385 109 TVRVAGRVTS---VRD--IGK-IIFVTIR-SN----GNELQVVGQVGEHFTREDLKKLKVSLRVGDIIGADGVPCR---- 173 (659)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEEE-EC----CceEEEEEECCccCCHHHHHHHHhCCCCCCEEEEEEEEEe----
Confidence 4999999976 443 354 4433332 22 345666664 22 23334457999999999998874
Q ss_pred cCCCcEEEEEEEEEEEEEEeec
Q 022388 162 SGDGQQQTYYKVVVQQLNFVER 183 (298)
Q Consensus 162 dkdG~~r~~~eIva~~I~fl~~ 183 (298)
.+.|+ ++|.|++|.+|..
T Consensus 174 t~~Ge----leI~~~~i~lLsk 191 (659)
T PTZ00385 174 MQRGE----LSVAASRMLILSP 191 (659)
T ss_pred cCCce----EEEEeeEEEEech
Confidence 23555 8899999999886
No 99
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=62.46 E-value=85 Score=33.08 Aligned_cols=88 Identities=17% Similarity=0.248 Sum_probs=53.0
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH-HHHHHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~-lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
..|+|.|.|.+ +|.. |+ ++.+.|. +. +..+.|++-.. ..-..+..|+.|+.|.|+|.+..+.-...+-
T Consensus 18 ~~V~l~GwV~~---~R~~--g~-l~Fi~Lr-D~----~g~iQ~v~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~ 86 (588)
T PRK00476 18 QTVTLCGWVHR---RRDH--GG-LIFIDLR-DR----EGIVQVVFDPDAEAFEVAESLRSEYVIQVTGTVRARPEGTVNP 86 (588)
T ss_pred CEEEEEEEEEE---EEeC--CC-eEEEEEE-eC----CceEEEEEeCCHHHHHHHhCCCCCCEEEEEEEEEecCCcccCc
Confidence 35999999976 4443 42 4433332 22 23477766431 1112346799999999999998653211111
Q ss_pred c-EEEEEEEEEEEEEEeecCC
Q 022388 166 Q-QQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 166 ~-~r~~~eIva~~I~fl~~k~ 185 (298)
. ..-.++|.|++|.++....
T Consensus 87 ~~~~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 87 NLPTGEIEVLASELEVLNKSK 107 (588)
T ss_pred cCCCCcEEEEEeEEEEEecCC
Confidence 1 1124899999999998754
No 100
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=62.03 E-value=70 Score=33.75 Aligned_cols=79 Identities=13% Similarity=0.117 Sum_probs=50.1
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH-------HHHHHHhcCccCceEEEEEEeeeeee
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-------LAHVASQHVEKGQQIYISGRLVSDVV 160 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~-------lAe~~a~~LkKGD~V~VsGrL~s~~~ 160 (298)
.|.+.|+|.+ +|.. |+.++.+.|. +. ..-+.|++-.+ ........|..||.|.|+|.+..
T Consensus 134 ~v~v~Grv~~---~R~~--G~k~~F~~L~-d~----~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~--- 200 (585)
T PTZ00417 134 ILNVTGRIMR---VSAS--GQKLRFFDLV-GD----GAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGK--- 200 (585)
T ss_pred eEEEEEEEEe---eecC--CCCCEEEEEE-eC----CeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcC---
Confidence 3889999966 4433 5345544552 22 22467666421 11223457999999999999653
Q ss_pred ecCCCcEEEEEEEEEEEEEEeecC
Q 022388 161 ESGDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 161 ~dkdG~~r~~~eIva~~I~fl~~k 184 (298)
.+.|+ ++|.|++|.++...
T Consensus 201 -t~~ge----l~i~~~~i~llsk~ 219 (585)
T PTZ00417 201 -SKKGE----LSIFPKETIILSPC 219 (585)
T ss_pred -CCCce----EEEEEEEEEEEecC
Confidence 23454 88999999998754
No 101
>PF12101 DUF3577: Protein of unknown function (DUF3577); InterPro: IPR021960 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 143 to 307 amino acids in length.
Probab=60.35 E-value=1.1e+02 Score=26.37 Aligned_cols=94 Identities=16% Similarity=0.223 Sum_probs=64.4
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecC-CC--CceEEEEEEehHHHHHH----HhcCccCceEEEE---EEeeee
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKS-AT--QTSWINLTFWDELAHVA----SQHVEKGQQIYIS---GRLVSD 158 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~-~~--~t~wi~Vv~wg~lAe~~----a~~LkKGD~V~Vs---GrL~s~ 158 (298)
++=+|+|-+.-++. ...|.++..-+|+.=.. .+ +..+|.|.+-|+.|..+ .+.+..+..|+|. |.|..+
T Consensus 14 t~GiGYLnriR~V~-~~kg~pFlac~I~AL~G~~d~~ey~~fD~~V~G~eA~~Lv~r~~~av~~~~KVli~FrlgDl~~d 92 (137)
T PF12101_consen 14 TTGIGYLNRIREVT-PRKGDPFLACTIAALRGPADNPEYRYFDCRVVGEEAKELVRRCQKAVDEDKKVLIGFRLGDLWAD 92 (137)
T ss_pred EeeEEEeccceEcc-CCCCCeeEEEEeeeeecCCCCccEEEEEEEEecHHHHHHHHHHHhhcccCCcEEEEEEecCCcee
Confidence 45679998854443 45788777777766553 23 45689999999977654 4456778889887 445666
Q ss_pred eee----cCCCcEEEEEEEEEEEEEEeec
Q 022388 159 VVE----SGDGQQQTYYKVVVQQLNFVER 183 (298)
Q Consensus 159 ~~~----dkdG~~r~~~eIva~~I~fl~~ 183 (298)
.|+ ++.|+....++=..-.|.+|.-
T Consensus 93 ~f~~~~G~~~Ge~g~sLKgRLl~i~~iKV 121 (137)
T PF12101_consen 93 TFTYKKGERAGEPGASLKGRLLKIKWIKV 121 (137)
T ss_pred eEEeccCCcCCccceeeEEEEEEEEEEEE
Confidence 665 4678888777766666666643
No 102
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=59.34 E-value=42 Score=27.22 Aligned_cols=65 Identities=18% Similarity=0.238 Sum_probs=40.3
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEec----CC--CCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeee
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRK----SA--TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r----~~--~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~ 159 (298)
-..+++.|.|...|+.. +. ..+|.+.+.+ .. ....-+.+..-.+... .++.||.|.++|+|+.=.
T Consensus 75 ~~~~~v~g~V~~~~~~~----~~-~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~l~~Gd~i~~~g~l~~~~ 145 (176)
T PF13567_consen 75 GKEVTVQGTVESVPQID----GR-GQRFTLRVERVLAGGNWIPVSGKILLYLPKDSQP----RLQPGDRIRVRGKLKPPS 145 (176)
T ss_pred CceEEEEEEEccccccc----Cc-eEEEEEEEEEeeccccccccceeeEEEecccccc----ccCCCCEEEEEEEEecCC
Confidence 45678999998887654 22 2266666543 11 2233344444333222 699999999999997654
No 103
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=59.29 E-value=95 Score=33.60 Aligned_cols=88 Identities=18% Similarity=0.246 Sum_probs=54.4
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH----HHHHHHhcCccCceEEEEEEeeeeeeec
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE----LAHVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~----lAe~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
..|+|.|.|.+ +|.. |+ ++...|. +. +..+.|++-.+ ..-..+..|..|+.|.|+|.+..+.-..
T Consensus 19 ~~V~l~GWV~~---~R~~--G~-l~FidLR--D~---~G~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~ 87 (706)
T PRK12820 19 REVCLAGWVDA---FRDH--GE-LLFIHLR--DR---NGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEET 87 (706)
T ss_pred CEEEEEEEEEE---EEcC--CC-cEEEEEE--eC---CccEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCccc
Confidence 46999999976 4432 43 3333332 22 23477777532 1222346799999999999998753221
Q ss_pred CC-CcEEEEEEEEEEEEEEeecCC
Q 022388 163 GD-GQQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 163 kd-G~~r~~~eIva~~I~fl~~k~ 185 (298)
++ +...-.++|.|+++.+|....
T Consensus 88 ~n~~~~tg~iEl~~~~i~iL~~a~ 111 (706)
T PRK12820 88 ENPHIETGDIEVFVRELSILAASE 111 (706)
T ss_pred cCCCCCCCcEEEEeeEEEEEecCC
Confidence 11 111134899999999997653
No 104
>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=58.76 E-value=26 Score=28.98 Aligned_cols=65 Identities=15% Similarity=0.223 Sum_probs=31.1
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH-HHHHHhcCccCceEEEEEEeeeee
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-AHVASQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l-Ae~~a~~LkKGD~V~VsGrL~s~~ 159 (298)
..|.+.|.|.. +.. ..+..+ +.+. ........+.|.+-.+. .......|++||.|.|.|......
T Consensus 68 K~i~vtG~V~~---I~~-~~~~~~--~~~~--~~~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~~ 133 (144)
T PF12869_consen 68 KIIEVTGTVSS---IDK-GFGDNY--VVLL--GTENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGYS 133 (144)
T ss_dssp -EEEEEEEEEE---EEE--STT-E--EEEE--E-TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE-----
T ss_pred CEEEEEEEEEE---EEE-cCCCcE--EEEc--cCCCCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEeee
Confidence 34677899965 333 234444 3332 22234455667666554 233455699999999999997654
No 105
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=57.82 E-value=63 Score=33.51 Aligned_cols=81 Identities=21% Similarity=0.338 Sum_probs=51.0
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEe-hHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcE
Q 022388 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFW-DELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (298)
Q Consensus 89 V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~w-g~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~ 167 (298)
|.+.|||.. .|. .| +.+.+.|- +.+.+-..|++-..- .+..+....++..||.|.|+|.+.. .+.|+
T Consensus 64 v~vAGRi~~---~R~--~G-K~~F~~i~-d~~gkiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~----T~~Ge- 131 (502)
T COG1190 64 VSVAGRIMT---IRN--MG-KASFADLQ-DGSGKIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFK----TKTGE- 131 (502)
T ss_pred eEEecceee---ecc--cC-ceeEEEEe-cCCceEEEEEeccccchhhHHHHHhccccCCEEeeeeeeee----cCCCc-
Confidence 899999876 333 35 34444443 333333334443322 2244455677888999999999964 34666
Q ss_pred EEEEEEEEEEEEEeecC
Q 022388 168 QTYYKVVVQQLNFVERS 184 (298)
Q Consensus 168 r~~~eIva~~I~fl~~k 184 (298)
+.|.|+++.++...
T Consensus 132 ---lSv~v~~~~lLsKs 145 (502)
T COG1190 132 ---LSVSVEELRLLSKS 145 (502)
T ss_pred ---eEEEEEEEeeeccc
Confidence 67899999888653
No 106
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=57.81 E-value=1e+02 Score=31.73 Aligned_cols=79 Identities=24% Similarity=0.302 Sum_probs=50.5
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH----HHHHHHhcCccCceEEEEEEeeeeeeec
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE----LAHVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~----lAe~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
..|++.|+|.+ +|. .|+ ++.+.|. +.+ .-+.|++-.+ ..-.....|..||.|.|.|.+...
T Consensus 55 ~~v~v~G~v~~---~R~--~g~-~~Fi~lr-D~~----g~iQ~v~~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~t---- 119 (491)
T PRK00484 55 IEVSVAGRVML---KRV--MGK-ASFATLQ-DGS----GRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKT---- 119 (491)
T ss_pred cEEEEEEEEEE---Eec--CCc-eEEEEEE-cCC----ccEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEc----
Confidence 46999999976 443 343 4433332 222 2466665432 111123349999999999999853
Q ss_pred CCCcEEEEEEEEEEEEEEeecC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k 184 (298)
+.|+ ++|.|+++.++...
T Consensus 120 ~~ge----~el~~~~~~vls~~ 137 (491)
T PRK00484 120 KTGE----LSVKATELTLLTKS 137 (491)
T ss_pred CCCc----EEEEEeEEEEEecc
Confidence 3454 99999999999764
No 107
>PLN02502 lysyl-tRNA synthetase
Probab=57.26 E-value=1.1e+02 Score=31.98 Aligned_cols=79 Identities=18% Similarity=0.249 Sum_probs=50.1
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH-H------HHHHHhcCccCceEEEEEEeeeee
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-L------AHVASQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~-l------Ae~~a~~LkKGD~V~VsGrL~s~~ 159 (298)
..|+|.|+|.+ +|. .|+ ++.+.|. +. +.-+.|++-.+ . -..+...|..||.|.|+|.+...
T Consensus 109 ~~V~v~GrV~~---~R~--~Gk-~~F~~Lr-D~----~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t- 176 (553)
T PLN02502 109 VSVSVAGRIMA---KRA--FGK-LAFYDLR-DD----GGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKT- 176 (553)
T ss_pred CEEEEEEEEEE---Eec--CCC-eEEEEEe-cC----CccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEec-
Confidence 35899999976 443 353 4433332 22 23466655422 1 11233459999999999998642
Q ss_pred eecCCCcEEEEEEEEEEEEEEeecC
Q 022388 160 VESGDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 160 ~~dkdG~~r~~~eIva~~I~fl~~k 184 (298)
+.|+ ++|.|++|.+|...
T Consensus 177 ---~~ge----lel~~~~i~vLs~~ 194 (553)
T PLN02502 177 ---KKGE----LSIFPTSFEVLTKC 194 (553)
T ss_pred ---CCCC----EEEEEeEEEEEecc
Confidence 3454 89999999999764
No 108
>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=56.36 E-value=65 Score=25.39 Aligned_cols=37 Identities=19% Similarity=0.368 Sum_probs=27.7
Q ss_pred CceEEEEEEehHHH--H------------------HHHhcCccCceEEEEEEeeeee
Q 022388 123 QTSWINLTFWDELA--H------------------VASQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 123 ~t~wi~Vv~wg~lA--e------------------~~a~~LkKGD~V~VsGrL~s~~ 159 (298)
.|--|.|.+|.... . .....++.|+.|.|.|+++++.
T Consensus 23 gTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~fr 79 (92)
T cd04483 23 GTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTYR 79 (92)
T ss_pred CCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEeccC
Confidence 34568999997632 1 2445699999999999998764
No 109
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=53.86 E-value=86 Score=33.71 Aligned_cols=63 Identities=17% Similarity=0.226 Sum_probs=47.5
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeee
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s 157 (298)
-.|++.|.|....... ..++....+.+.. .+..+.+++|+..| .+.+.++.|..|.|.|.+..
T Consensus 61 ~~vti~g~V~~~~~~~--~~~~~~l~v~~~d-----~~~~l~l~fFn~~~-~l~~~~~~G~~v~v~Gk~~~ 123 (677)
T COG1200 61 EIVTIEGTVLSHEKFP--FGKRKLLKVTLSD-----GTGVLTLVFFNFPA-YLKKKLKVGERVIVYGKVKR 123 (677)
T ss_pred ceEEEEEEEEeeeccC--CCCCceEEEEEec-----CcEEEEEEEECccH-HHHhhCCCCCEEEEEEEEee
Confidence 4689999997744332 3344555554442 46789999999877 88889999999999999976
No 110
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=53.09 E-value=78 Score=33.28 Aligned_cols=63 Identities=14% Similarity=0.228 Sum_probs=42.6
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeee
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s 157 (298)
..+++.|.|.... ... ..+.....+.+. +. .+.-+.+++|+. ..+.+.+++|+.|+|.|++..
T Consensus 33 ~~~~~~~~v~~~~-~~~-~~~~~~~~~~~~--d~--~~~~~~~~~F~~--~~~~~~~~~g~~~~~~Gk~~~ 95 (630)
T TIGR00643 33 ERATIVGEVLSHC-IFG-FKRRKVLKLRLK--DG--GYKKLELRFFNR--AFLKKKFKVGSKVVVYGKVKS 95 (630)
T ss_pred CEEEEEEEEEEeE-ecc-CCCCceEEEEEE--EC--CCCEEEEEEECC--HHHHhhCCCCCEEEEEEEEEe
Confidence 4789999987632 211 233444444443 31 345689999983 367788999999999999975
No 111
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=51.55 E-value=45 Score=34.49 Aligned_cols=78 Identities=14% Similarity=0.190 Sum_probs=52.0
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH------HHHHHHhcCccCceEEEEEEeeeeeee
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE------LAHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~------lAe~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
.|.+.|||.+ .|. +|.+.+.|.|.-.. .-+.|++--+ .=+...++|++||.|.|+|....
T Consensus 106 ~~svaGRI~s---~R~--sGsKL~Fydl~~~g-----~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgr---- 171 (560)
T KOG1885|consen 106 IVSVAGRIHS---KRE--SGSKLVFYDLHGDG-----VKLQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGR---- 171 (560)
T ss_pred eeeeeeeEee---eec--cCCceEEEEEecCC-----eEEEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCc----
Confidence 3899999987 343 56678877776442 1244444322 23456778999999999998753
Q ss_pred cCCCcEEEEEEEEEEEEEEeec
Q 022388 162 SGDGQQQTYYKVVVQQLNFVER 183 (298)
Q Consensus 162 dkdG~~r~~~eIva~~I~fl~~ 183 (298)
.+.| -+.|.+.+|.+|..
T Consensus 172 t~~g----ELSi~~~~~~lLsp 189 (560)
T KOG1885|consen 172 TKSG----ELSIIPNEIILLSP 189 (560)
T ss_pred CCCc----eEEEeecchheecc
Confidence 2344 37788898876643
No 112
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=51.18 E-value=18 Score=36.31 Aligned_cols=38 Identities=8% Similarity=0.150 Sum_probs=32.6
Q ss_pred ceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeee
Q 022388 124 TSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 124 t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
--.+.|.+-||-...+.+.|+.|+.+.|+|--..-.++
T Consensus 275 el~FsIK~LGD~Tk~l~dnLk~G~k~~vdGPYG~F~~~ 312 (438)
T COG4097 275 ELRFSIKALGDFTKTLKDNLKVGTKLEVDGPYGKFDFE 312 (438)
T ss_pred eEEEEehhhhhhhHHHHHhccCCceEEEecCcceeecc
Confidence 35789999999999999999999999999977655553
No 113
>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=50.41 E-value=72 Score=24.31 Aligned_cols=35 Identities=9% Similarity=0.144 Sum_probs=25.8
Q ss_pred ceEEEEEEe--hHHHHHHHhcCccCceEEEEEEeeeee
Q 022388 124 TSWINLTFW--DELAHVASQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 124 t~wi~Vv~w--g~lAe~~a~~LkKGD~V~VsGrL~s~~ 159 (298)
..-+.|... |.....+ ..|+.||.|.|+|-+..-.
T Consensus 62 ~~~~~ik~~~~G~~S~~L-~~l~~Gd~v~i~gP~G~f~ 98 (99)
T PF00970_consen 62 YLEFAIKRYPNGRVSRYL-HQLKPGDEVEIRGPYGNFT 98 (99)
T ss_dssp EEEEEEEECTTSHHHHHH-HTSCTTSEEEEEEEESSEE
T ss_pred cEEEEEEeccCCHHHHHH-HhCCCCCEEEEEEcccccC
Confidence 344556666 7778877 5599999999999875443
No 114
>PRK07218 replication factor A; Provisional
Probab=50.08 E-value=55 Score=33.15 Aligned_cols=62 Identities=24% Similarity=0.234 Sum_probs=41.6
Q ss_pred cceEEEEEEeCCC-ceEEEcCCCcEE-EEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeee
Q 022388 86 TNTVHLIGVVGTP-IETKHLPSGKVL-AWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (298)
Q Consensus 86 mN~V~LIGrVg~d-Pelr~t~nGk~v-a~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s 157 (298)
++.|++.|+|..- |.-....+|... ....| .++|--+++++|+++| .|..||.|.|.+-...
T Consensus 172 ~~~V~v~g~Vl~~~~r~f~~~dg~~~v~~gii-----gDeTG~Ir~tlW~~~~-----~l~~Gd~v~I~na~v~ 235 (423)
T PRK07218 172 DRGVNVEARVLELEHREIDGRDGETTILSGVL-----ADETGRLPFTDWDPLP-----EIEIGASIRIEDAYVR 235 (423)
T ss_pred CCceEEEEEEEEecceeEEcCCCCeEEEEEEE-----ECCCceEEEEEecccc-----cCCCCCEEEEeeeEEe
Confidence 5779999999743 221123455432 22222 2668899999999865 3899999999986543
No 115
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=49.44 E-value=69 Score=36.49 Aligned_cols=67 Identities=13% Similarity=0.192 Sum_probs=52.4
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeee
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~ 159 (298)
.+++.|-|..-.+..+..+|..++..+|.- .+.-++|++|-...+.....+..|..++|.|+++.+.
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~D-----~~g~~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~~ 1044 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLED-----ETGILEVVVFPSEYERYRRLLLEGRLLIVKGKVQRRE 1044 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCCEEEEEEEec-----CCCcEEEEEcHHHHHHHHHHhccCcEEEEEEEEEecc
Confidence 577888888744444444798888877763 3347999999888888889999999999999998644
No 116
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=49.12 E-value=21 Score=37.76 Aligned_cols=80 Identities=19% Similarity=0.255 Sum_probs=60.2
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
=..|.+.|.|.+ +++|++-+ -|+|. +++.++.+.+|......+..+++.||.|.|.|.... .+|
T Consensus 213 g~tV~I~GeV~q---ikqT~GPT---VFtlt-----Detg~i~aAAFe~aGvRAyP~IevGdiV~ViG~V~~-----r~g 276 (715)
T COG1107 213 GKTVRIEGEVTQ---IKQTSGPT---VFTLT-----DETGAIWAAAFEEAGVRAYPEIEVGDIVEVIGEVTR-----RDG 276 (715)
T ss_pred CceEEEEEEEEE---EEEcCCCE---EEEEe-----cCCCceehhhhccCCcccCCCCCCCceEEEEEEEee-----cCC
Confidence 356788898876 77774322 24443 678899999999888999999999999999999864 566
Q ss_pred cEEEEEEEEEEEEEEeecCC
Q 022388 166 QQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 166 ~~r~~~eIva~~I~fl~~k~ 185 (298)
+ ++|.+..++.|....
T Consensus 277 ~----lQiE~~~me~L~G~e 292 (715)
T COG1107 277 R----LQIEIEAMEKLTGDE 292 (715)
T ss_pred c----EEEeehhhHHhhCch
Confidence 6 556667777766543
No 117
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=48.70 E-value=53 Score=34.91 Aligned_cols=63 Identities=13% Similarity=0.132 Sum_probs=43.2
Q ss_pred ceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeee
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s 157 (298)
..|++.|.|..-.... . +.....+.+. +.+.-+.|++|+-....+.+.+++|+.|+|.|++..
T Consensus 60 ~~vtv~g~V~~~~~~~-~--~~~~~~v~l~-----D~tg~i~l~~F~~n~~~~~~~l~~G~~~~v~Gkv~~ 122 (681)
T PRK10917 60 EKVTVEGEVLSAEVVF-G--KRRRLTVTVS-----DGTGNLTLRFFNFNQPYLKKQLKVGKRVAVYGKVKR 122 (681)
T ss_pred CEEEEEEEEEEEEEcc-C--CceEEEEEEE-----ECCeEEEEEEEccCcHHHHhhCCCCCEEEEEEEEEe
Confidence 5799999997753332 2 4555555443 234568899994112366788999999999999975
No 118
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=47.66 E-value=1.6e+02 Score=30.36 Aligned_cols=78 Identities=19% Similarity=0.291 Sum_probs=50.3
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehH-HH----HHHHhcCccCceEEEEEEeeeeeeec
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LA----HVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~-lA----e~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
.|+|.|+|.+ +|.. |+ ++.+.| .+.. .-+.|++-.+ .. ......|..||.|.|+|.+...
T Consensus 67 ~v~v~Grv~~---~R~~--Gk-~~F~~l-rD~~----g~iQ~~~~~~~~~~~~~~~~~~~l~~Gd~V~v~G~~~~t---- 131 (505)
T PRK12445 67 EVSVAGRMMT---RRIM--GK-ASFVTL-QDVG----GRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKT---- 131 (505)
T ss_pred EEEEEEEEEE---EecC--CC-cEEEEE-EeCC----ccEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEec----
Confidence 5999999976 4543 54 343333 2222 2366655421 11 1234569999999999999642
Q ss_pred CCCcEEEEEEEEEEEEEEeecC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k 184 (298)
+.|+ ++|.|+++.+|...
T Consensus 132 ~~ge----lel~~~~~~llsk~ 149 (505)
T PRK12445 132 QTGE----LSIHCTELRLLTKA 149 (505)
T ss_pred CCCc----EEEEEeEEEEEecC
Confidence 3454 89999999999764
No 119
>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=45.26 E-value=29 Score=29.31 Aligned_cols=28 Identities=18% Similarity=0.312 Sum_probs=24.5
Q ss_pred eEEEEEEehHHHHHHHhcCccCceEEEEE
Q 022388 125 SWINLTFWDELAHVASQHVEKGQQIYISG 153 (298)
Q Consensus 125 ~wi~Vv~wg~lAe~~a~~LkKGD~V~VsG 153 (298)
.-|.|++|+.-|+.+.+ |+.||.|.+.=
T Consensus 60 ~ti~It~yD~H~~~ar~-lK~GdfV~L~N 87 (123)
T cd04498 60 LTIDILVYDNHVELAKS-LKPGDFVRIYN 87 (123)
T ss_pred EEEEEEEEcchHHHHhh-CCCCCEEEEEE
Confidence 56899999999998877 99999998863
No 120
>PRK06386 replication factor A; Reviewed
Probab=42.99 E-value=1.6e+02 Score=29.17 Aligned_cols=81 Identities=14% Similarity=0.215 Sum_probs=52.8
Q ss_pred CCcceEEEEEEeCCCceEEE-cCCC-cEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeee
Q 022388 84 ELTNTVHLIGVVGTPIETKH-LPSG-KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~-t~nG-k~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~ 161 (298)
.-+..|++.|+|..-++... ..++ ..+....|. ++|--+++++|++ .|+.||.|.|.+-. .+.|
T Consensus 115 ~g~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg-----DeTGrIr~TlW~~-------~l~eGd~v~i~na~-v~e~- 180 (358)
T PRK06386 115 LVTPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE-----DDTARVRISSFGK-------PLEDNRFVRIENAR-VSQY- 180 (358)
T ss_pred CCCCceEEEEEEEEccCceEecCCCccEEEEEEEE-----cCCCeEEEEEccc-------cccCCCEEEEeeeE-EEcc-
Confidence 34678999999975444222 2233 234444443 6788999999996 48999999999954 3333
Q ss_pred cCCCcEEEEEEEEEEEEEEeecC
Q 022388 162 SGDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 162 dkdG~~r~~~eIva~~I~fl~~k 184 (298)
.| .++|.+.+...|...
T Consensus 181 --~G----~~el~v~~~t~I~~~ 197 (358)
T PRK06386 181 --NG----YIEISVGNKSVIKEV 197 (358)
T ss_pred --CC----eEEEEeCCeEEEEEC
Confidence 22 366777777776553
No 121
>KOG3056 consensus Protein required for S-phase initiation or completion [Cell cycle control, cell division, chromosome partitioning]
Probab=42.66 E-value=72 Score=33.51 Aligned_cols=76 Identities=18% Similarity=0.282 Sum_probs=55.0
Q ss_pred EEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCc-EEE
Q 022388 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ-QQT 169 (298)
Q Consensus 91 LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~-~r~ 169 (298)
.+|-|...-..+.+.+|++|+.+.|-.-+. . .-+.|-+||+ |..-..-++.|+.|.| |......+++|. ...
T Consensus 190 t~GvI~~K~~~K~t~~G~~y~iwkL~dLk~--~-q~vslfLFG~-a~k~~wk~k~GtVial---LNp~v~k~~~gs~~~f 262 (578)
T KOG3056|consen 190 TMGVIVEKSDPKFTSNGNPYSIWKLTDLKD--H-QTVSLFLFGK-AHKRYWKIKLGTVIAL---LNPEVLKDRPGSRKSF 262 (578)
T ss_pred EEEEEeecCCcccccCCCceEEEEeeecCc--c-ceeEEEEecH-HHHHHhhhccCcEEEE---eCccccCCCCCCcceE
Confidence 457777777778888888888888765443 2 5688999999 7766777999987755 666666666666 444
Q ss_pred EEEE
Q 022388 170 YYKV 173 (298)
Q Consensus 170 ~~eI 173 (298)
.+.|
T Consensus 263 ~LsI 266 (578)
T KOG3056|consen 263 SLSI 266 (578)
T ss_pred EEEe
Confidence 4444
No 122
>PRK07218 replication factor A; Provisional
Probab=41.80 E-value=97 Score=31.41 Aligned_cols=64 Identities=25% Similarity=0.272 Sum_probs=42.8
Q ss_pred cccCcCCcceEEEEEEeCCCceEEEc-CCCc--EEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEE
Q 022388 79 IPWDKELTNTVHLIGVVGTPIETKHL-PSGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (298)
Q Consensus 79 I~~~~~mmN~V~LIGrVg~dPelr~t-~nGk--~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGr 154 (298)
|.--..-+..|.+.|+|..-.+ |++ .+|. .+....|+ ++|--+++++|++++ |+.||.|.|.+-
T Consensus 61 I~Di~~~~~~V~v~~kVl~i~~-rt~r~dg~~g~v~~~~ig-----DeTG~Ir~tlW~~~~------l~~Gdvv~I~na 127 (423)
T PRK07218 61 IKELSTDDKNVTVTGRVLTIGE-RSIRYQGDDHVIYEGILA-----DETGTISYTAWKDFG------LSPGDTVTIGNA 127 (423)
T ss_pred HhhCCCCCceeEEEEEEEEecc-eeEecCCCceEEEEEEEE-----CCCCeEEEEEECCCC------CCCCCEEEEecc
Confidence 4333344689999999975433 222 2443 33333333 568899999999753 999999999974
No 123
>PLN02221 asparaginyl-tRNA synthetase
Probab=41.56 E-value=2.4e+02 Score=29.84 Aligned_cols=87 Identities=23% Similarity=0.232 Sum_probs=53.9
Q ss_pred ceEEEEEEeCCCceEEEcCCCcE-EEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCC
Q 022388 87 NTVHLIGVVGTPIETKHLPSGKV-LAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (298)
Q Consensus 87 N~V~LIGrVg~dPelr~t~nGk~-va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG 165 (298)
..|.|.|.|.+ +|. .|+. ++ | |.+++.. ....+.|++-.+.. .....|..|+.|.|.|.+....- ..+
T Consensus 51 ~~V~I~GWV~~---iR~--~Gk~~i~-F-l~LRDgs-~~g~iQvVv~~~~~-~~~~~L~~ES~V~V~G~V~~~~~--~~~ 119 (572)
T PLN02221 51 QKVRIGGWVKT---GRE--QGKGTFA-F-LEVNDGS-CPANLQVMVDSSLY-DLSTLVATGTCVTVDGVLKVPPE--GKG 119 (572)
T ss_pred CEEEEEEEEEe---hhh--CCCceEE-E-EEEeCCc-ccccEEEEEcCchh-hHHhcCCCceEEEEEEEEEeCCc--cCC
Confidence 46999999977 332 2432 33 4 2333321 11357787754422 22346899999999999975442 122
Q ss_pred cEEEEEEEEEEEEEEeecCC
Q 022388 166 QQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 166 ~~r~~~eIva~~I~fl~~k~ 185 (298)
.++ .+||.+++|.+|....
T Consensus 120 ~~~-~iEl~v~~i~vl~~a~ 138 (572)
T PLN02221 120 TKQ-KIELSVEKVIDVGTVD 138 (572)
T ss_pred CCc-cEEEEEeEEEEEecCC
Confidence 222 6999999999998653
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=41.42 E-value=1.3e+02 Score=31.79 Aligned_cols=66 Identities=24% Similarity=0.321 Sum_probs=41.7
Q ss_pred eEEEEEEeCC--CceEEE-cCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeee
Q 022388 88 TVHLIGVVGT--PIETKH-LPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (298)
Q Consensus 88 ~V~LIGrVg~--dPelr~-t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s 157 (298)
.|-+||-|.. ++.... -.+|+..-.-.|.+.+. ...-++|++||+.|+.+. ..+|+.|.+.|-...
T Consensus 312 ~VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~D~--sg~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V~ 380 (608)
T TIGR00617 312 LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLVDD--SGKSVRVTLWGDDATKFD--VSVQPVIAIKGVRVS 380 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEEeC--CCCEEEEEEEhhhhhhcC--CCCCCEEEEEeEEEE
Confidence 5778888863 232222 23566544444444332 123699999999998764 778999999884443
No 125
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=40.90 E-value=2.7e+02 Score=31.75 Aligned_cols=78 Identities=13% Similarity=0.193 Sum_probs=50.2
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH-----HHHHHhcCccCceEEEEEEeeeeeeec
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-----AHVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l-----Ae~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
.|++.|+|.+ +|. .|+ ++.+.| .+. +.-+.|++-.+. -......+..||.|.|+|.+...
T Consensus 653 ~V~v~Grv~~---~R~--~G~-~~F~~l-rD~----~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t---- 717 (1094)
T PRK02983 653 EVSVSGRVLR---IRD--YGG-VLFADL-RDW----SGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTS---- 717 (1094)
T ss_pred EEEEEEEEEE---Eee--CCC-eEEEEE-EeC----CeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEc----
Confidence 5999999966 444 343 443333 222 244666664331 12233468999999999999652
Q ss_pred CCCcEEEEEEEEEEEEEEeecC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k 184 (298)
+.|+ ++|.++++.++...
T Consensus 718 ~~ge----~ei~~~~i~ll~k~ 735 (1094)
T PRK02983 718 RNGT----LSLLVTSWRLAGKC 735 (1094)
T ss_pred CCCC----EEEEEeEEEEEecc
Confidence 3454 88999999999754
No 126
>PLN02603 asparaginyl-tRNA synthetase
Probab=40.87 E-value=4.1e+02 Score=27.99 Aligned_cols=87 Identities=17% Similarity=0.253 Sum_probs=52.6
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHH--HH-HhcCccCceEEEEEEeeeeee
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VA-SQHVEKGQQIYISGRLVSDVV 160 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe--~~-a~~LkKGD~V~VsGrL~s~~~ 160 (298)
..=..|+|.|.|.. +|.. |+ ++ |. .+++. ....-+.|++-.+.+. .+ ...|..|+.|.|+|.+...
T Consensus 105 ~~g~~V~v~GwV~~---iR~~--g~-~~-Fi-~l~Dg-s~~~~lQ~v~~~~~~~~~~l~~~~l~~gs~V~V~G~v~~~-- 173 (565)
T PLN02603 105 RVGKTLNVMGWVRT---LRAQ--SS-VT-FI-EVNDG-SCLSNMQCVMTPDAEGYDQVESGLITTGASVLVQGTVVSS-- 173 (565)
T ss_pred cCCCEEEEEEEEEE---EEeC--CC-eE-EE-EEECC-CCCEeEEEEEECcHHHHHHHhhcCCCCCCEEEEEEEEEec--
Confidence 33467999999974 5532 33 33 42 22332 1123466766433221 12 1248999999999999743
Q ss_pred ecCCCcEEEEEEEEEEEEEEeecCC
Q 022388 161 ESGDGQQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 161 ~dkdG~~r~~~eIva~~I~fl~~k~ 185 (298)
+.++ ..++|.|++|.+|....
T Consensus 174 --~~~~--~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 174 --QGGK--QKVELKVSKIVVVGKSD 194 (565)
T ss_pred --CCCC--ccEEEEEeEEEEEECCC
Confidence 2232 35999999999998754
No 127
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=38.16 E-value=3.9e+02 Score=27.28 Aligned_cols=67 Identities=13% Similarity=0.164 Sum_probs=46.5
Q ss_pred CCcceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHH--HHHhcCccCceEEEEEEeeeee
Q 022388 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 84 ~mmN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe--~~a~~LkKGD~V~VsGrL~s~~ 159 (298)
+..-+..+.|.|..+|... ++|..++.+ . +..--|.|.+|-...+ .++..|.+||.|.+-|.+....
T Consensus 264 ~~~~~~~v~g~v~~~p~~i--eGghv~v~i----~---d~~G~I~~~A~eptk~fr~~a~~L~pGD~i~~~G~~~~~~ 332 (421)
T COG1571 264 EDYSKYRVVGRVEAEPRAI--EGGHVVVEI----T---DGEGEIGAVAFEPTKEFRELARKLIPGDEITVYGSVKPGT 332 (421)
T ss_pred hhccceEEEEEEecccEEe--eCCEEEEEe----c---CCCceEEEEEecccccchHHHHhcCCCCEEEEecCccccc
Confidence 3466789999999988764 366544333 1 2223788888876443 3556699999999999997544
No 128
>smart00350 MCM minichromosome maintenance proteins.
Probab=37.77 E-value=74 Score=32.59 Aligned_cols=57 Identities=7% Similarity=0.077 Sum_probs=41.2
Q ss_pred CceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecC----CCcEEEEEEEEEEEEEEeec
Q 022388 123 QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG----DGQQQTYYKVVVQQLNFVER 183 (298)
Q Consensus 123 ~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dk----dG~~r~~~eIva~~I~fl~~ 183 (298)
-+..+.|++.+++.. .++.||.|.|.|-+....|..+ .+...+.+.|.|..|..+..
T Consensus 102 ~Prsi~v~l~~dLvd----~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~i~~~~~ 162 (509)
T smart00350 102 LPRSVDVILDGDLVD----KAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANHVRKLDY 162 (509)
T ss_pred CCcEEEEEEcccccC----cccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeEEEEccc
Confidence 457899999998764 5899999999999998754221 22233556777777777644
No 129
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=33.25 E-value=1.6e+02 Score=33.12 Aligned_cols=63 Identities=13% Similarity=0.004 Sum_probs=47.6
Q ss_pred eEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeee
Q 022388 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (298)
Q Consensus 88 ~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~ 158 (298)
.+.+.|-|.. ...+. +.|+..+.++|. +.+.-+.|++|.+.-+.+.. |.+|+.++|+|+.+.+
T Consensus 899 ~~~v~g~i~~-~~~~~-K~g~~maf~~~e-----D~~~~~e~~~F~~~~~~~~~-l~~~~~~~~~~~~~~~ 961 (973)
T PRK07135 899 EYRLAIEVKN-VKRLR-KANKEYKKVILS-----DDSVEITIFVNDNDYLLFET-LKKGDIYEFLISKSKN 961 (973)
T ss_pred eEEEEEEEEE-EEEEe-eCCCeEEEEEEE-----ECCCcEEEEEcHHHHHHHHH-hhcCCEEEEEEEEcCC
Confidence 4678888876 34444 778888877776 34556999999997777665 9999999999987643
No 130
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=30.42 E-value=4.4e+02 Score=28.01 Aligned_cols=92 Identities=9% Similarity=0.165 Sum_probs=52.5
Q ss_pred cceEEEEEEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEehHH-HHHHHhcCccCceEEEEEEeeeeeee--c
Q 022388 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-AHVASQHVEKGQQIYISGRLVSDVVE--S 162 (298)
Q Consensus 86 mN~V~LIGrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~Vv~wg~l-Ae~~a~~LkKGD~V~VsGrL~s~~~~--d 162 (298)
=..|+|.|-|-+ +|.. .++.++...| ++. ....-+.|++-... +...+..|..|+.|.|+|.+..+.-. +
T Consensus 81 g~~Vtl~GWv~~---iR~~-g~~~~~Fv~l--rDg-sg~~~iQiVv~~~~~~~~~l~~l~~gs~v~v~G~v~~~~~~~~n 153 (586)
T PTZ00425 81 DQIITVCGWSKA---VRKQ-GGGRFCFVNL--NDG-SCHLNLQIIVDQSIENYEKLLKCGVGCCFRFTGKLIISPVQNEN 153 (586)
T ss_pred CCEEEEEEEEee---hhhc-CCceEEEEEE--ECC-CCCcceEEEECCchHHHHHHhcCCCccEEEEEEEEEcCCccccC
Confidence 357999999965 3332 1223443333 222 11123556553321 22234579999999999999865432 2
Q ss_pred CCCcEEEEEEEEE-----EEEEEeecC
Q 022388 163 GDGQQQTYYKVVV-----QQLNFVERS 184 (298)
Q Consensus 163 kdG~~r~~~eIva-----~~I~fl~~k 184 (298)
+.|.....+||.+ .++.++...
T Consensus 154 ~~g~~~~~~El~~~~~~~~~~~ilg~~ 180 (586)
T PTZ00425 154 KKGLLKENVELALKDNSIHNFEIYGEN 180 (586)
T ss_pred cCCCCCccEEEEEecCCCceEEEEecc
Confidence 3333334578877 799888654
No 131
>PLN02532 asparagine-tRNA synthetase
Probab=28.74 E-value=1.2e+02 Score=32.36 Aligned_cols=54 Identities=15% Similarity=0.157 Sum_probs=38.1
Q ss_pred EEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcEEEEEEEEEEEEEEeecC
Q 022388 126 WINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 126 wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~r~~~eIva~~I~fl~~k 184 (298)
.+.|++-++.+... ..|..|+.|.|+|.+..+. ..+ ....+||.|++|.+|...
T Consensus 148 ~lQvVv~~~~~~~~-~~L~~Es~V~V~G~V~~~~---~~~-~~g~iEl~v~~i~VLg~a 201 (633)
T PLN02532 148 SLQVVVDSALAPLT-QLMATGTCILAEGVLKLPL---PAQ-GKHVIELEVEKILHIGTV 201 (633)
T ss_pred ceEEEEeCCcccHh-hcCCCceEEEEEEEEEecC---CCC-CCCcEEEEeeEEEEEecC
Confidence 37777765544332 6799999999999998651 111 122489999999999864
No 132
>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=28.24 E-value=2.2e+02 Score=24.77 Aligned_cols=85 Identities=20% Similarity=0.290 Sum_probs=44.4
Q ss_pred CcceEEEEEEeCCCceEEEcCCCc-EEEEEEEEEecCCCCceEEEEEEehHHHHHHHhc-CccCceEEEEEEeeeeeeec
Q 022388 85 LTNTVHLIGVVGTPIETKHLPSGK-VLAWTRLAVRKSATQTSWINLTFWDELAHVASQH-VEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 85 mmN~V~LIGrVg~dPelr~t~nGk-~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~-LkKGD~V~VsGrL~s~~~~d 162 (298)
+.+.|-++|.|..- .+ ..|- +.++. + .+...++.|.+|+++.+.+.+- |+.|..|.++- |+.+. ..
T Consensus 17 p~~EvD~VG~VvsV--~~--~~~f~~~vYL--s----D~~~Nll~Ikfw~~l~~~~~eDilk~~~liA~SN-LqwR~-~s 84 (143)
T PF09104_consen 17 PYGEVDTVGFVVSV--SK--KQGFQPLVYL--S----DECHNLLAIKFWTGLNQYGYEDILKPGSLIAASN-LQWRP-ES 84 (143)
T ss_dssp CCCEEEEEEEEEEE--E----TTS--EEEE--E-----TTS-EEEEEESS-------SS---TT-EEEEEE-EEE-S--T
T ss_pred CccccceEEEEEEE--Ee--cCCCceeEEe--e----cCCccEEEEEeccCccccchhhhcCcceEEEEee-eEeec-cc
Confidence 48999999999873 21 1232 22333 2 4567899999999999886664 69999999874 33221 11
Q ss_pred CCCcEEEEEEEEEEEEEEeecCC
Q 022388 163 GDGQQQTYYKVVVQQLNFVERSS 185 (298)
Q Consensus 163 kdG~~r~~~eIva~~I~fl~~k~ 185 (298)
..|- -.+.|.++..+...+
T Consensus 85 ~s~i----P~~~A~d~S~FS~nP 103 (143)
T PF09104_consen 85 TSGI----PTLFATDLSVFSANP 103 (143)
T ss_dssp TSSS-----EEEEECCEEEESS-
T ss_pred ccCC----CeeEeccceeeecCc
Confidence 2333 457788888886644
No 133
>COG1018 Hmp Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]
Probab=27.02 E-value=95 Score=29.22 Aligned_cols=40 Identities=13% Similarity=0.073 Sum_probs=29.9
Q ss_pred CceEEEEEEe--hHHHHHHHhcCccCceEEEEEEeeeeeeec
Q 022388 123 QTSWINLTFW--DELAHVASQHVEKGQQIYISGRLVSDVVES 162 (298)
Q Consensus 123 ~t~wi~Vv~w--g~lAe~~a~~LkKGD~V~VsGrL~s~~~~d 162 (298)
....|.|..- |.....+.++|++||.|.|++--..-.+.+
T Consensus 66 ~~~~isVk~~~~G~~S~~Lh~~lk~Gd~l~v~~P~G~F~l~~ 107 (266)
T COG1018 66 SLYRISVKREDGGGGSNWLHDHLKVGDTLEVSAPAGDFVLDD 107 (266)
T ss_pred ceEEEEEEEeCCCcccHHHHhcCCCCCEEEEecCCCCccCCC
Confidence 3567777776 578888998999999999976555444443
No 134
>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=25.99 E-value=1.4e+02 Score=24.39 Aligned_cols=43 Identities=12% Similarity=0.100 Sum_probs=24.6
Q ss_pred EEEEEEecCCCCceEEEEEEehH--HHHHHHhcCccCceEEEEEE
Q 022388 112 WTRLAVRKSATQTSWINLTFWDE--LAHVASQHVEKGQQIYISGR 154 (298)
Q Consensus 112 ~f~LAv~r~~~~t~wi~Vv~wg~--lAe~~a~~LkKGD~V~VsGr 154 (298)
.|+|.--+......-|.++..|. .|-.-+..++.||.|.|.|-
T Consensus 69 ~YTvR~~d~~~~~l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~gP 113 (117)
T PF08021_consen 69 TYTVRRFDPETGELDIDFVLHGDEGPASRWARSARPGDRVGVTGP 113 (117)
T ss_dssp EEE--EEETT--EEEEEEE--SS--HHHHHHHH--TT-EEEEEEE
T ss_pred CcCEeeEcCCCCEEEEEEEECCCCCchHHHHhhCCCCCEEEEeCC
Confidence 34454444445567788888885 67777788999999999983
No 135
>cd04486 YhcR_OBF_like YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate nucleosides. YhcR appears to be the major Ca2+ activated nuclease of B. subtilis. YhcR may be localized in the cell wall.
Probab=25.16 E-value=74 Score=24.33 Aligned_cols=20 Identities=15% Similarity=0.312 Sum_probs=16.9
Q ss_pred HhcCccCceEEEEEEeeeee
Q 022388 140 SQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 140 a~~LkKGD~V~VsGrL~s~~ 159 (298)
...++.||+|.|.|++..+.
T Consensus 42 ~~~~~~Gd~V~vtG~v~ey~ 61 (78)
T cd04486 42 GADVAVGDLVRVTGTVTEYY 61 (78)
T ss_pred CCCCCCCCEEEEEEEEEeeC
Confidence 46799999999999997654
No 136
>cd06198 FNR_like_3 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=25.09 E-value=1.3e+02 Score=26.19 Aligned_cols=34 Identities=6% Similarity=0.182 Sum_probs=25.4
Q ss_pred EEEEEehHHHHHHHhcCccCceEEEEEEeeeeee
Q 022388 127 INLTFWDELAHVASQHVEKGQQIYISGRLVSDVV 160 (298)
Q Consensus 127 i~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~ 160 (298)
+.|..-|.....+.+.|+.||.|.|.|-+..-.+
T Consensus 58 l~vk~~G~~t~~l~~~l~~G~~v~i~gP~G~~~~ 91 (216)
T cd06198 58 FTIKALGDYTRRLAERLKPGTRVTVEGPYGRFTF 91 (216)
T ss_pred EEEEeCChHHHHHHHhCCCCCEEEEECCCCCCcc
Confidence 3344457777888878999999999998765443
No 137
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=24.68 E-value=1.9e+02 Score=32.36 Aligned_cols=56 Identities=21% Similarity=0.357 Sum_probs=39.8
Q ss_pred eEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeec----CCCcEEEEEEEEEEEEEEeecC
Q 022388 125 SWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVES----GDGQQQTYYKVVVQQLNFVERS 184 (298)
Q Consensus 125 ~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~d----kdG~~r~~~eIva~~I~fl~~k 184 (298)
.-+.|++.+++.. .+++||+|.|.|-+....-.. +.....+.+.|.|..|+.+...
T Consensus 346 rsi~v~l~dDLVD----~v~PGDrV~VtGIl~~~~~~~~~~~~~~~~~~~~yl~~~~i~~~~~~ 405 (915)
T PTZ00111 346 EVINLNLYDDLID----SVKTGDRVTVVGILKVTPIRTSTTRRTLKSLYTYFVNVIHVKVINST 405 (915)
T ss_pred ceEEEEEecchhc----cCCCCCEEEEEEEEEeccccccccccccccccceEEEEEEEEEeccc
Confidence 6699999998764 679999999999998754211 1122345667778888877543
No 138
>PF06557 DUF1122: Protein of unknown function (DUF1122); InterPro: IPR008304 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 2ARH_C.
Probab=23.48 E-value=1.8e+02 Score=25.98 Aligned_cols=60 Identities=15% Similarity=0.349 Sum_probs=32.0
Q ss_pred EEeCCCceEEEcCCCcEEEEEEEEEecCCCCceEEEE-EE--------eh-----HHHHHHHhcCccCceEEEEE
Q 022388 93 GVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINL-TF--------WD-----ELAHVASQHVEKGQQIYISG 153 (298)
Q Consensus 93 GrVg~dPelr~t~nGk~va~f~LAv~r~~~~t~wi~V-v~--------wg-----~lAe~~a~~LkKGD~V~VsG 153 (298)
|++.....+...-+|+.++...+-..|. .-.-|+.| .+ +| .+-+.++.||.+|++++|+-
T Consensus 13 Grf~Ee~n~~l~~~~~~l~~~kvF~GR~-yY~pW~EiFni~p~~~~~~~~s~~E~~l~~~~~~~l~pg~~lfVeY 86 (170)
T PF06557_consen 13 GRFKEEVNFELYLGGRHLCHVKVFFGRP-YYRPWAEIFNINPWLRVVFFGSPLEDELYKLFSRYLEPGGRLFVEY 86 (170)
T ss_dssp -SSTTEEEEEEEETTEEEEEEEEE--BT-TB--EEEEE---GGGHHHHTTSHHHHHHHHHHHTT----SEEEEE-
T ss_pred CcccceeeEEEEECCeeEEEEEEecCCC-CCcchheeecccchhcccccCChHHHHHHHHHHHHhhhcCeEEEEE
Confidence 3344444343334778888888888887 55667776 22 23 24467889999999999984
No 139
>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=22.10 E-value=47 Score=27.84 Aligned_cols=25 Identities=32% Similarity=0.424 Sum_probs=21.1
Q ss_pred HHHHHHHhcCccCceEEEEEEeeee
Q 022388 134 ELAHVASQHVEKGQQIYISGRLVSD 158 (298)
Q Consensus 134 ~lAe~~a~~LkKGD~V~VsGrL~s~ 158 (298)
++|+.+++.|++|+.|..+|.|-..
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 5789999999999999999998654
No 140
>PRK10646 ADP-binding protein; Provisional
Probab=21.39 E-value=69 Score=27.90 Aligned_cols=26 Identities=19% Similarity=0.336 Sum_probs=22.7
Q ss_pred HHHHHHHhcCccCceEEEEEEeeeee
Q 022388 134 ELAHVASQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 134 ~lAe~~a~~LkKGD~V~VsGrL~s~~ 159 (298)
++|+.+++.|+.|+.|.+.|.|-.-.
T Consensus 16 ~l~~~la~~l~~g~vi~L~GdLGaGK 41 (153)
T PRK10646 16 DLGARVAKACDGATVIYLYGDLGAGK 41 (153)
T ss_pred HHHHHHHHhCCCCcEEEEECCCCCCH
Confidence 57899999999999999999997543
No 141
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=21.25 E-value=76 Score=27.73 Aligned_cols=26 Identities=19% Similarity=0.346 Sum_probs=22.6
Q ss_pred HHHHHHHhcCccCceEEEEEEeeeee
Q 022388 134 ELAHVASQHVEKGQQIYISGRLVSDV 159 (298)
Q Consensus 134 ~lAe~~a~~LkKGD~V~VsGrL~s~~ 159 (298)
++|+.+++.|++||.|+.+|.|-...
T Consensus 13 ~lg~~l~~~l~~g~Vv~L~GdLGAGK 38 (149)
T COG0802 13 ALGERLAEALKAGDVVLLSGDLGAGK 38 (149)
T ss_pred HHHHHHHhhCCCCCEEEEEcCCcCCh
Confidence 47888999999999999999997643
No 142
>PF10628 CotE: Outer spore coat protein E (CotE); InterPro: IPR018901 CotE is a morphogenic protein that is required for the assembly of the outer coat of the endospore [] and spore resistance to lysozyme []. CotE also regulates the expression of cotA, cotB, cotC and other genes encoding spore outer coat proteins []. The timing of cotE expression has been shown in Bacillus subtilis to affect spore coat morphology but not lysozyme resistance [].
Probab=21.00 E-value=6.3e+02 Score=22.89 Aligned_cols=71 Identities=13% Similarity=0.185 Sum_probs=42.8
Q ss_pred CCcEEEEEEEEEecCCCCceEEEEEEehHHHHHHHhcCccCceEEEEEEeeeeeeecCCCcEEEEEEEEEEEEEEee
Q 022388 106 SGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVVVQQLNFVE 182 (298)
Q Consensus 106 nGk~va~f~LAv~r~~~~t~wi~Vv~wg~lAe~~a~~LkKGD~V~VsGrL~s~~~~dkdG~~r~~~eIva~~I~fl~ 182 (298)
.|+++...+..+.....+++-+=|-+-+..- +..++|+.|.|.|......|=.=++++. ++|.-+.|.|.+
T Consensus 15 KGrKfs~~t~ti~p~~~PtsILGcWIiNh~y----~A~k~g~~VeV~GtyDINvWYSyn~ntk--T~V~ketV~Y~d 85 (182)
T PF10628_consen 15 KGRKFSQSTHTITPPHRPTSILGCWIINHRY----EAKKVGDTVEVRGTYDINVWYSYNDNTK--TEVAKETVSYVD 85 (182)
T ss_pred cceeeEEeEEEECCCCCCCcEEEEEEEccEe----ehhhcCCeEEEEEEEEEEEEEEcCCCcc--ceEEEEEeeeEE
Confidence 4677666666666655555543333333211 2278899999999999998865443333 345555555544
No 143
>cd06211 phenol_2-monooxygenase_like Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H dependent conversion of phenol and O2 to catechol and H2O. This group is related to the NAD binding ferredoxin reductases.
Probab=20.47 E-value=1.8e+02 Score=25.91 Aligned_cols=28 Identities=18% Similarity=0.235 Sum_probs=21.3
Q ss_pred hHHHHHHHhcCccCceEEEEEEeeeeee
Q 022388 133 DELAHVASQHVEKGQQIYISGRLVSDVV 160 (298)
Q Consensus 133 g~lAe~~a~~LkKGD~V~VsGrL~s~~~ 160 (298)
|.....+.++|+.||.|.|.|-+..-..
T Consensus 77 G~~s~~l~~~l~~G~~v~i~gP~G~~~~ 104 (238)
T cd06211 77 GIATTYVHKQLKEGDELEISGPYGDFFV 104 (238)
T ss_pred CcchhhHhhcCCCCCEEEEECCccceEe
Confidence 5556667678999999999997655443
No 144
>PF10574 UPF0552: Uncharacterised protein family UPF0552; InterPro: IPR018889 This family of proteins has no known function.
Probab=20.33 E-value=3.3e+02 Score=25.47 Aligned_cols=45 Identities=20% Similarity=0.434 Sum_probs=34.1
Q ss_pred CccCceEEEEEEeeee---eeecCCCcEEEEEEEEEEEEEEeecCCCC
Q 022388 143 VEKGQQIYISGRLVSD---VVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (298)
Q Consensus 143 LkKGD~V~VsGrL~s~---~~~dkdG~~r~~~eIva~~I~fl~~k~~s 187 (298)
+..|+-|+++|.|.-. ...|..|++..++.|.++=-..+.++...
T Consensus 29 ~q~G~GvilEG~l~~~sRH~I~D~~~~k~Ry~vl~i~~~~~hrR~fd~ 76 (224)
T PF10574_consen 29 HQSGDGVILEGELVDVSRHSITDASGQKERYYVLYIRPSRIHRRKFDA 76 (224)
T ss_pred hcCCCeEEEEEEEEeeeEEEEEcCCCCceEEEEEEEeechhhhhcccC
Confidence 7899999999999543 35678888777777777766667666553
Done!