Query 021789
Match_columns 307
No_of_seqs 236 out of 1112
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 05:41:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021789.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021789hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06752 single-stranded DNA-b 100.0 6.8E-28 1.5E-32 198.5 14.3 98 68-165 1-108 (112)
2 PRK07275 single-stranded DNA-b 100.0 8.3E-28 1.8E-32 211.1 13.7 98 68-165 1-108 (162)
3 PRK07459 single-stranded DNA-b 100.0 3E-27 6.5E-32 198.2 15.3 99 68-166 2-107 (121)
4 PRK08486 single-stranded DNA-b 99.9 1.3E-26 2.9E-31 206.9 14.5 99 68-166 1-111 (182)
5 PRK06751 single-stranded DNA-b 99.9 2.8E-26 6E-31 203.5 14.5 99 68-166 1-109 (173)
6 PRK08182 single-stranded DNA-b 99.9 1.3E-25 2.9E-30 194.3 16.3 99 68-166 1-116 (148)
7 PRK07274 single-stranded DNA-b 99.9 1.3E-25 2.8E-30 190.3 14.6 99 68-166 1-108 (131)
8 PRK08763 single-stranded DNA-b 99.9 1.2E-25 2.5E-30 198.0 14.6 100 66-165 2-113 (164)
9 PRK06642 single-stranded DNA-b 99.9 3.6E-25 7.7E-30 192.4 15.3 100 67-166 3-120 (152)
10 PRK13732 single-stranded DNA-b 99.9 3.6E-25 7.7E-30 196.7 15.3 101 67-167 4-119 (175)
11 PRK06293 single-stranded DNA-b 99.9 4.3E-25 9.4E-30 193.9 14.8 97 69-165 1-104 (161)
12 PRK09010 single-stranded DNA-b 99.9 1.2E-24 2.6E-29 193.7 14.8 101 66-166 3-119 (177)
13 PRK06958 single-stranded DNA-b 99.9 2E-24 4.4E-29 193.0 14.3 98 69-166 4-114 (182)
14 PRK06863 single-stranded DNA-b 99.9 3.2E-24 6.8E-29 189.6 14.8 98 69-166 4-114 (168)
15 PRK05733 single-stranded DNA-b 99.9 3.6E-24 7.8E-29 189.8 14.8 101 66-166 2-117 (172)
16 TIGR00621 ssb single stranded 99.9 9.3E-24 2E-28 185.0 14.3 99 67-165 2-112 (164)
17 PRK06341 single-stranded DNA-b 99.9 2.2E-23 4.9E-28 183.9 14.4 99 67-165 3-119 (166)
18 PRK02801 primosomal replicatio 99.9 3.3E-23 7E-28 168.8 13.4 92 68-161 1-101 (101)
19 PF00436 SSB: Single-strand bi 99.9 1.8E-23 3.9E-28 166.0 10.5 92 69-160 1-104 (104)
20 PRK05813 single-stranded DNA-b 99.9 7.5E-23 1.6E-27 187.5 14.3 98 67-165 107-212 (219)
21 COG0629 Ssb Single-stranded DN 99.9 8.1E-23 1.8E-27 179.0 11.6 98 68-165 2-116 (167)
22 PRK07772 single-stranded DNA-b 99.9 4.1E-22 8.9E-27 178.7 13.5 90 68-157 3-106 (186)
23 PRK05853 hypothetical protein; 99.8 3.7E-20 8.1E-25 162.7 11.4 85 74-159 1-98 (161)
24 cd04496 SSB_OBF SSB_OBF: A sub 99.8 4.3E-19 9.2E-24 139.4 13.1 89 72-160 1-100 (100)
25 PRK05813 single-stranded DNA-b 99.8 3.1E-18 6.7E-23 157.1 13.7 96 68-165 7-105 (219)
26 KOG1653 Single-stranded DNA-bi 99.6 4.4E-16 9.4E-21 136.7 7.9 99 67-165 53-169 (175)
27 PRK00036 primosomal replicatio 98.6 2.9E-07 6.2E-12 76.6 10.2 90 69-162 1-98 (107)
28 COG2965 PriB Primosomal replic 98.3 1.1E-05 2.3E-10 66.4 11.7 94 67-161 2-103 (103)
29 PF01336 tRNA_anti-codon: OB-f 97.5 0.00066 1.4E-08 50.1 8.3 75 72-160 1-75 (75)
30 cd04489 ExoVII_LU_OBF ExoVII_L 97.2 0.0067 1.5E-07 45.7 10.6 74 72-158 2-75 (78)
31 cd04484 polC_OBF polC_OBF: A s 96.7 0.015 3.3E-07 45.6 9.0 68 72-145 2-71 (82)
32 cd04487 RecJ_OBF2_like RecJ_OB 96.7 0.017 3.7E-07 44.6 9.0 73 72-160 1-73 (73)
33 cd03524 RPA2_OBF_family RPA2_O 96.5 0.05 1.1E-06 38.4 9.9 47 90-140 15-62 (75)
34 cd04492 YhaM_OBF_like YhaM_OBF 96.5 0.038 8.3E-07 41.3 9.5 74 79-163 6-79 (83)
35 cd04474 RPA1_DBD_A RPA1_DBD_A: 96.4 0.017 3.7E-07 47.0 7.4 67 69-138 9-78 (104)
36 cd04485 DnaE_OBF DnaE_OBF: A s 95.4 0.11 2.5E-06 38.2 7.9 76 74-160 2-77 (84)
37 PRK07211 replication factor A; 95.0 0.16 3.4E-06 52.4 9.9 80 69-158 63-147 (485)
38 cd04482 RPA2_OBF_like RPA2_OBF 94.8 0.33 7.2E-06 38.8 9.4 72 73-161 2-75 (91)
39 cd04490 PolII_SU_OBF PolII_SU_ 93.9 1.3 2.9E-05 34.5 10.8 72 72-160 2-75 (79)
40 PF13742 tRNA_anti_2: OB-fold 93.6 0.84 1.8E-05 36.9 9.6 77 69-158 21-98 (99)
41 cd04100 Asp_Lys_Asn_RS_N Asp_L 93.2 2 4.2E-05 33.2 10.6 81 71-161 1-84 (85)
42 cd04491 SoSSB_OBF SoSSB_OBF: A 93.0 0.58 1.3E-05 35.9 7.4 60 74-140 2-65 (82)
43 cd04320 AspRS_cyto_N AspRS_cyt 92.9 1.9 4.1E-05 34.5 10.5 83 72-163 2-92 (102)
44 PRK06461 single-stranded DNA-b 92.8 0.65 1.4E-05 39.4 8.1 63 69-139 14-80 (129)
45 cd04475 RPA1_DBD_B RPA1_DBD_B: 92.4 1.2 2.6E-05 35.4 8.7 67 72-143 2-72 (101)
46 PF11506 DUF3217: Protein of u 92.2 3.3 7.1E-05 33.9 10.8 83 68-156 1-89 (104)
47 PRK15491 replication factor A; 92.0 0.81 1.7E-05 45.6 8.8 65 68-136 66-135 (374)
48 cd04317 EcAspRS_like_N EcAspRS 92.0 3.1 6.6E-05 34.9 11.1 84 70-163 15-104 (135)
49 PRK00286 xseA exodeoxyribonucl 91.9 1 2.2E-05 45.2 9.4 80 69-161 23-102 (438)
50 PRK07373 DNA polymerase III su 91.5 1.4 3.1E-05 45.0 10.1 80 71-161 282-361 (449)
51 PRK15491 replication factor A; 91.5 0.9 1.9E-05 45.3 8.5 74 69-145 176-252 (374)
52 cd04323 AsnRS_cyto_like_N AsnR 91.3 4.2 9.1E-05 31.3 10.4 81 71-161 1-83 (84)
53 PRK07211 replication factor A; 91.1 0.66 1.4E-05 47.9 7.2 66 69-139 171-241 (485)
54 cd04488 RecG_wedge_OBF RecG_we 90.6 1.4 3.1E-05 31.6 6.9 60 74-140 2-61 (75)
55 cd04316 ND_PkAspRS_like_N ND_P 90.6 6.2 0.00013 31.9 11.2 81 71-164 14-98 (108)
56 TIGR00237 xseA exodeoxyribonuc 90.6 1.5 3.3E-05 44.3 9.3 79 69-160 17-95 (432)
57 PRK05673 dnaE DNA polymerase I 90.3 1.5 3.2E-05 49.7 9.7 82 70-162 978-1059(1135)
58 cd04321 ScAspRS_mt_like_N ScAs 90.3 6.1 0.00013 30.8 10.6 83 71-161 1-85 (86)
59 PRK14699 replication factor A; 90.2 0.83 1.8E-05 47.1 7.1 64 69-136 67-135 (484)
60 PRK13480 3'-5' exoribonuclease 89.5 2.6 5.5E-05 41.2 9.6 64 71-140 13-76 (314)
61 cd04322 LysRS_N LysRS_N: N-ter 89.4 7.3 0.00016 31.4 10.7 77 72-163 2-83 (108)
62 PRK12366 replication factor A; 89.3 3.3 7.1E-05 44.1 10.8 81 70-156 292-376 (637)
63 COG3390 Uncharacterized protei 88.7 1.7 3.8E-05 39.9 7.2 90 67-163 43-133 (196)
64 PRK08402 replication factor A; 88.7 1.6 3.4E-05 43.4 7.5 72 69-144 72-147 (355)
65 cd04319 PhAsnRS_like_N PhAsnRS 88.3 12 0.00025 30.0 12.2 81 71-164 1-84 (103)
66 PRK06920 dnaE DNA polymerase I 86.9 3.3 7.2E-05 46.9 9.5 80 71-161 945-1024(1107)
67 PRK00448 polC DNA polymerase I 86.6 5.7 0.00012 46.2 11.3 73 68-145 235-309 (1437)
68 PRK06826 dnaE DNA polymerase I 86.4 4.2 9E-05 46.3 10.0 82 71-162 993-1074(1151)
69 PRK12366 replication factor A; 86.0 2.5 5.4E-05 45.0 7.6 63 69-136 73-139 (637)
70 PRK07374 dnaE DNA polymerase I 85.4 5 0.00011 45.7 10.0 81 70-161 1001-1081(1170)
71 COG1570 XseA Exonuclease VII, 84.8 3.5 7.7E-05 42.2 7.8 78 69-159 23-100 (440)
72 TIGR01405 polC_Gram_pos DNA po 84.6 9.1 0.0002 43.9 11.6 71 69-145 7-80 (1213)
73 cd04478 RPA2_DBD_D RPA2_DBD_D: 83.5 9.4 0.0002 29.7 8.2 77 72-164 2-81 (95)
74 PF11325 DUF3127: Domain of un 83.3 12 0.00026 30.1 8.7 79 74-156 2-82 (84)
75 TIGR00617 rpa1 replication fac 81.7 9 0.00019 40.6 9.6 67 69-139 190-260 (608)
76 PRK14699 replication factor A; 80.2 4.4 9.6E-05 41.9 6.6 83 69-160 176-263 (484)
77 PLN02850 aspartate-tRNA ligase 79.4 18 0.00038 37.9 10.7 84 70-163 82-172 (530)
78 PRK07279 dnaE DNA polymerase I 79.4 12 0.00026 42.3 9.9 81 70-161 885-966 (1034)
79 PLN02903 aminoacyl-tRNA ligase 79.1 31 0.00067 37.2 12.5 84 70-163 73-163 (652)
80 TIGR00458 aspS_arch aspartyl-t 78.9 22 0.00048 36.0 10.9 82 70-164 13-98 (428)
81 PRK05672 dnaE2 error-prone DNA 78.8 11 0.00024 42.5 9.6 79 71-162 955-1033(1046)
82 cd04497 hPOT1_OB1_like hPOT1_O 78.8 11 0.00024 32.1 7.6 76 68-145 13-88 (138)
83 cd04318 EcAsnRS_like_N EcAsnRS 77.7 29 0.00062 26.4 9.7 77 72-161 2-81 (82)
84 PF02765 POT1: Telomeric singl 77.5 9.1 0.0002 32.8 6.7 74 69-145 12-93 (146)
85 COG0017 AsnS Aspartyl/asparagi 77.2 21 0.00045 36.7 10.2 81 70-163 17-100 (435)
86 PTZ00401 aspartyl-tRNA synthet 75.3 32 0.0007 36.3 11.2 181 70-262 79-285 (550)
87 cd04481 RPA1_DBD_B_like RPA1_D 74.8 31 0.00067 27.7 8.9 39 106-144 34-76 (106)
88 PRK05159 aspC aspartyl-tRNA sy 74.6 38 0.00081 34.3 11.3 82 70-164 17-101 (437)
89 KOG3416 Predicted nucleic acid 73.7 9.8 0.00021 33.1 5.8 62 70-139 15-76 (134)
90 TIGR00459 aspS_bact aspartyl-t 71.9 38 0.00083 36.0 10.9 84 71-164 17-105 (583)
91 TIGR00457 asnS asparaginyl-tRN 70.5 52 0.0011 33.7 11.2 84 70-164 17-103 (453)
92 COG1200 RecG RecG-like helicas 67.7 28 0.00061 37.7 8.9 66 70-142 61-126 (677)
93 PRK07218 replication factor A; 67.2 18 0.0004 36.9 7.2 62 69-139 172-235 (423)
94 PRK03932 asnC asparaginyl-tRNA 66.2 86 0.0019 32.0 11.8 81 70-163 17-100 (450)
95 PRK12820 bifunctional aspartyl 65.8 54 0.0012 35.8 10.6 85 70-164 19-111 (706)
96 PRK10917 ATP-dependent DNA hel 64.6 23 0.00049 37.9 7.6 63 70-139 60-122 (681)
97 PTZ00385 lysyl-tRNA synthetase 63.6 62 0.0013 35.1 10.5 77 71-162 109-191 (659)
98 TIGR00643 recG ATP-dependent D 62.6 40 0.00086 35.6 8.9 64 70-140 33-96 (630)
99 PRK00476 aspS aspartyl-tRNA sy 62.1 72 0.0016 33.9 10.6 83 71-164 19-107 (588)
100 PRK07218 replication factor A; 59.8 31 0.00067 35.3 7.2 58 69-136 68-127 (423)
101 PLN02603 asparaginyl-tRNA synt 59.4 1.4E+02 0.003 31.8 12.1 85 69-164 107-194 (565)
102 PHA01740 putative single-stran 58.6 5 0.00011 35.3 1.2 19 224-242 21-41 (158)
103 PRK06386 replication factor A; 58.5 52 0.0011 33.0 8.4 76 69-160 117-194 (358)
104 COG2176 PolC DNA polymerase II 58.3 33 0.00072 39.6 7.6 86 67-161 237-324 (1444)
105 PF13567 DUF4131: Domain of un 58.3 53 0.0012 26.6 7.3 62 70-140 76-144 (176)
106 COG1107 Archaea-specific RecJ- 58.1 20 0.00044 38.4 5.6 79 68-162 212-290 (715)
107 PLN02221 asparaginyl-tRNA synt 57.5 1.1E+02 0.0025 32.4 11.1 87 70-164 51-138 (572)
108 PF10451 Stn1: Telomere regula 55.5 43 0.00094 31.9 7.0 94 59-165 56-152 (256)
109 PRK00484 lysS lysyl-tRNA synth 55.3 1.2E+02 0.0025 31.5 10.6 79 70-163 55-137 (491)
110 PLN02502 lysyl-tRNA synthetase 54.6 1.1E+02 0.0024 32.4 10.4 78 71-163 110-194 (553)
111 cd04483 hOBFC1_like hOBFC1_lik 53.6 78 0.0017 25.3 7.3 36 105-140 23-78 (92)
112 PTZ00417 lysine-tRNA ligase; P 52.5 1.4E+02 0.0029 32.0 10.7 78 72-163 135-219 (585)
113 COG3689 Predicted membrane pro 52.0 67 0.0015 31.2 7.6 88 71-165 177-264 (271)
114 COG0587 DnaE DNA polymerase II 51.8 60 0.0013 37.3 8.4 67 71-142 978-1045(1139)
115 PF12869 tRNA_anti-like: tRNA_ 51.8 83 0.0018 26.1 7.5 64 71-141 69-133 (144)
116 PRK12445 lysyl-tRNA synthetase 51.8 1.6E+02 0.0034 30.8 10.9 78 71-163 67-149 (505)
117 cd04498 hPOT1_OB2 hPOT1_OB2: A 51.8 22 0.00048 30.5 4.0 27 107-134 60-86 (123)
118 PF00970 FAD_binding_6: Oxidor 50.4 47 0.001 25.6 5.4 32 106-138 62-95 (99)
119 TIGR00499 lysS_bact lysyl-tRNA 50.1 1.6E+02 0.0035 30.6 10.7 78 71-163 55-137 (496)
120 cd05898 Ig5_KIRREL3 Fifth immu 49.6 31 0.00068 27.9 4.4 84 27-118 2-89 (98)
121 KOG1885 Lysyl-tRNA synthetase 45.6 1E+02 0.0022 32.5 8.2 77 72-162 107-189 (560)
122 PLN02532 asparagine-tRNA synth 44.4 97 0.0021 33.5 8.2 56 107-164 147-202 (633)
123 COG4097 Predicted ferric reduc 42.7 32 0.00068 35.2 4.1 44 96-139 265-308 (438)
124 PF08021 FAD_binding_9: Sidero 40.6 69 0.0015 26.5 5.3 43 93-135 68-112 (117)
125 PF09104 BRCA-2_OB3: BRCA2, ol 38.7 1E+02 0.0023 27.2 6.2 85 68-165 17-104 (143)
126 PRK07135 dnaE DNA polymerase I 38.2 1.1E+02 0.0024 34.7 7.8 64 71-141 899-962 (973)
127 PF11736 DUF3299: Protein of u 36.6 66 0.0014 28.2 4.7 78 71-158 57-143 (146)
128 TIGR00617 rpa1 replication fac 35.0 2E+02 0.0043 30.7 8.8 69 71-144 312-384 (608)
129 PRK02983 lysS lysyl-tRNA synth 34.6 3.9E+02 0.0084 30.8 11.4 78 71-163 653-735 (1094)
130 COG1571 Predicted DNA-binding 33.8 3.1E+02 0.0068 28.3 9.6 90 27-141 241-332 (421)
131 PF02367 UPF0079: Uncharacteri 31.9 25 0.00055 29.8 1.3 25 116-140 3-27 (123)
132 cd06216 FNR_iron_sulfur_bindin 30.0 1.4E+02 0.0031 26.7 6.0 45 95-139 66-114 (243)
133 COG1190 LysU Lysyl-tRNA synthe 29.2 2.5E+02 0.0054 29.7 8.1 82 72-164 64-146 (502)
134 COG1018 Hmp Flavodoxin reducta 27.9 1.9E+02 0.0041 27.5 6.6 34 106-139 67-102 (266)
135 KOG3056 Protein required for S 27.8 1.8E+02 0.0039 31.1 6.9 59 73-134 189-247 (578)
136 PRK10646 ADP-binding protein; 27.8 45 0.00097 29.4 2.2 26 115-140 15-40 (153)
137 cd06191 FNR_iron_sulfur_bindin 27.5 1.6E+02 0.0034 26.2 5.8 25 115-139 70-94 (231)
138 KOG0479 DNA replication licens 27.5 85 0.0018 34.2 4.5 55 106-164 212-270 (818)
139 smart00350 MCM minichromosome 27.0 1.6E+02 0.0035 30.4 6.4 52 106-161 103-161 (509)
140 COG0173 AspS Aspartyl-tRNA syn 26.3 7.4E+02 0.016 26.8 11.0 89 69-167 15-110 (585)
141 COG0802 Predicted ATPase or ki 25.9 54 0.0012 29.1 2.4 25 116-140 13-37 (149)
142 TIGR01077 L13_A_E ribosomal pr 25.4 52 0.0011 28.8 2.2 23 113-135 9-31 (142)
143 TIGR00150 HI0065_YjeE ATPase, 23.7 64 0.0014 27.7 2.4 25 116-140 10-34 (133)
144 PRK06394 rpl13p 50S ribosomal 23.4 60 0.0013 28.6 2.1 23 113-135 13-35 (146)
145 cd06198 FNR_like_3 NAD(P) bind 23.0 2E+02 0.0043 25.2 5.5 33 107-139 56-88 (216)
146 PRK13289 bifunctional nitric o 22.2 2.5E+02 0.0055 27.3 6.5 44 96-139 208-253 (399)
147 PTZ00425 asparagine-tRNA ligas 21.6 9E+02 0.02 26.0 10.8 90 68-163 80-180 (586)
148 KOG0554 Asparaginyl-tRNA synth 21.0 4.1E+02 0.009 27.5 7.7 58 98-163 41-99 (446)
149 cd04486 YhcR_OBF_like YhcR_OBF 20.9 92 0.002 24.1 2.5 19 122-140 42-60 (78)
No 1
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.95 E-value=6.8e-28 Score=198.54 Aligned_cols=98 Identities=16% Similarity=0.210 Sum_probs=90.6
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~-------~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
|||+|+|||||++|||++++++|+.+|.|+||+++. .+++||+|++||++||.+++||+|||+|+|+|+|+++
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 799999999999999999999999999999999861 2589999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeEEEeeccCCc
Q 021789 141 PPAIE---GQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 141 syedk---~rs~~eViVe~I~FL~~k~~ 165 (307)
+|+++ .++.++|+|++|.||+++..
T Consensus 81 ~~~~~~G~~~~~~ei~a~~i~~l~~~~~ 108 (112)
T PRK06752 81 NYEDDQGKRIYITEVVIESITFLERRRE 108 (112)
T ss_pred ccCCCCCcEEEEEEEEEEEEEECCCCCc
Confidence 99976 45678999999999987754
No 2
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=8.3e-28 Score=211.08 Aligned_cols=98 Identities=12% Similarity=0.180 Sum_probs=91.2
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~-------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
|||+|+|||||++|||+|+|++|.++|.|+|||++ ..+++||+|++||++||.+++||+||++|+|+|||+++
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 79999999999999999999999999999999986 12689999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeEEEeeccCCc
Q 021789 141 PPAIE---GQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 141 syedk---~rs~~eViVe~I~FL~~k~~ 165 (307)
+|+++ .++.++|+|++|.||+++..
T Consensus 81 ~y~dkdG~k~~~~evva~~i~~l~~~~~ 108 (162)
T PRK07275 81 NYENQQGQRVYVTEVVADNFQMLESRAT 108 (162)
T ss_pred eEECCCCCEEEEEEEEEeEEEECCCCCc
Confidence 99876 56778999999999998764
No 3
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=3e-27 Score=198.18 Aligned_cols=99 Identities=20% Similarity=0.292 Sum_probs=90.8
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC---CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA---ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~---~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syed 144 (307)
++|+|+||||||+|||++++++|+.+|.|+||+++ .++|+||+|++||++||.+++||+||++|+|+|+|++++|++
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 48999999999999999999999999999999987 347899999999999999999999999999999999999987
Q ss_pred C--C--eEEEEEEEeEEEeeccCCcc
Q 021789 145 E--G--QANVQVMVHSLNLIEPTSQK 166 (307)
Q Consensus 145 k--~--rs~~eViVe~I~FL~~k~~~ 166 (307)
+ + ++.++|+|++|.||+++...
T Consensus 82 ~d~G~~r~~~ei~a~~i~~L~~k~~~ 107 (121)
T PRK07459 82 RNTGEDRSKPVIRVDRLELLGSKRDS 107 (121)
T ss_pred CCCCeEEEEEEEEEeEEEECcCCCcc
Confidence 4 3 57789999999999876543
No 4
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=1.3e-26 Score=206.91 Aligned_cols=99 Identities=22% Similarity=0.305 Sum_probs=91.8
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC---------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA---------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~---------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~ 138 (307)
|||+|+|||||++|||+|++++|..+|.|+|||++ .++|+||+|++||++||.|++||+||++|+|+|||+
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 78999999999999999999999999999999986 136899999999999999999999999999999999
Q ss_pred ecCCCcC---CeEEEEEEEeEEEeeccCCcc
Q 021789 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (307)
Q Consensus 139 s~syedk---~rs~~eViVe~I~FL~~k~~~ 166 (307)
+++|+++ .++.++|+|++|.||+++...
T Consensus 81 ~~~y~dkdG~~r~~~eI~a~~v~~L~~~~~~ 111 (182)
T PRK08486 81 FESWMDQNGQKRSKHTITAESMQMLDSKSDN 111 (182)
T ss_pred eCcEECCCCcEEEEEEEEEeEEEECCCCCCC
Confidence 9999887 568889999999999877653
No 5
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=2.8e-26 Score=203.46 Aligned_cols=99 Identities=18% Similarity=0.224 Sum_probs=91.1
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~-------~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
|||+|+|||||++|||+|+|++|..+|.|+|||++. .+++||+|++||++||.+++||+||++|+|+|||+++
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 799999999999999999999999999999999861 2579999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeEEEeeccCCcc
Q 021789 141 PPAIE---GQANVQVMVHSLNLIEPTSQK 166 (307)
Q Consensus 141 syedk---~rs~~eViVe~I~FL~~k~~~ 166 (307)
.|+++ .++.++|+|++|.||+.+...
T Consensus 81 ~yedkdG~~~~~~eVva~~i~~l~~r~~~ 109 (173)
T PRK06751 81 NYEGQDGKRVYVTEVLAESVQFLEPRNGG 109 (173)
T ss_pred ccCCCCCcEEEEEEEEEEEEEeCcCCCCC
Confidence 99976 567789999999999977543
No 6
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=1.3e-25 Score=194.33 Aligned_cols=99 Identities=10% Similarity=0.160 Sum_probs=89.9
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcE----EEEEEEEEcC------C----CCCeeEEEEEeccHHHHHHhhcCCCCeEEE
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKH----WAGTVIVQHA------A----SHSLWIPILFEGDLAHIASSHLKKDDHVHI 133 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~----va~fsLAv~~------~----~~T~wI~Vv~wGklAE~~a~yLkKGD~V~V 133 (307)
|+|+|+||||||+|||++++++|.. ++.|+||+++ . .+++||+|++||++||.+++||+||++|+|
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 9999999975 1 147899999999999999999999999999
Q ss_pred EEEeeecCCCcC---CeEEEEEEEeEEEeeccCCcc
Q 021789 134 AGQLTADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (307)
Q Consensus 134 sGrL~s~syedk---~rs~~eViVe~I~FL~~k~~~ 166 (307)
+|+|++++|+++ .++.++|+|++|.|+..+...
T Consensus 81 ~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r~~~ 116 (148)
T PRK08182 81 EGRMERDEWTDNEDNERVTFKVEARRVGILPYRIES 116 (148)
T ss_pred EEEEEecccCCCCCCEEEEEEEEEeEEEEcCCcccc
Confidence 999999999876 567889999999999876653
No 7
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=1.3e-25 Score=190.31 Aligned_cols=99 Identities=22% Similarity=0.322 Sum_probs=89.4
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC-------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~-------~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
|||+|+||||||+|||++++++|+.+|.|+||+++. .+++||+|++||++|+.+++||+||++|+|+|+|+++
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 799999999999999999999999999999999861 1589999999999999999999999999999999999
Q ss_pred CCCcC--CeEEEEEEEeEEEeeccCCcc
Q 021789 141 PPAIE--GQANVQVMVHSLNLIEPTSQK 166 (307)
Q Consensus 141 syedk--~rs~~eViVe~I~FL~~k~~~ 166 (307)
+|+.+ .++.++|+|++|.||+++...
T Consensus 81 ~y~kdG~~~~~~eviv~~i~~l~~k~~~ 108 (131)
T PRK07274 81 KYEKDGQTHYVTEVLCQSFQLLESRAQR 108 (131)
T ss_pred cCccCCcEEEEEEEEEEEEEECcCCCcc
Confidence 99433 456779999999999976543
No 8
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=1.2e-25 Score=197.97 Aligned_cols=100 Identities=16% Similarity=0.294 Sum_probs=91.5
Q ss_pred ccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC---------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEE
Q 021789 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA---------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (307)
Q Consensus 66 p~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~---------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGr 136 (307)
++.||+|+||||||+|||++++++|..++.|+||+++ .++|+||+|++||++||.+++||+||++|+|+|+
T Consensus 2 ar~~Nkv~LiGrLg~DPelr~t~~G~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~Ae~v~~~L~KGs~V~VeGr 81 (164)
T PRK08763 2 ARGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDREGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEGS 81 (164)
T ss_pred CCcceEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecCCCCeeccceEEEEEEehHHHHHHHHhcCCCCEEEEEEE
Confidence 4569999999999999999999999999999999975 1258999999999999999999999999999999
Q ss_pred eeecCCCcC---CeEEEEEEEeEEEeeccCCc
Q 021789 137 LTADPPAIE---GQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 137 L~s~syedk---~rs~~eViVe~I~FL~~k~~ 165 (307)
|++++|+++ .++.++|+|++|.||+++..
T Consensus 82 L~~~~y~dkdG~kr~~~eIva~~i~~L~~~~~ 113 (164)
T PRK08763 82 IRYDKFTGQDGQERYVTEIVADEMQMLGGRGE 113 (164)
T ss_pred EEeceeECCCCCEEEEEEEEEeEEEECCCCCC
Confidence 999999876 46788999999999997753
No 9
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=3.6e-25 Score=192.39 Aligned_cols=100 Identities=17% Similarity=0.306 Sum_probs=89.8
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEecc-HHHHHHhhcCCCCeEEEEE
Q 021789 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGD-LAHIASSHLKKDDHVHIAG 135 (307)
Q Consensus 67 ~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~----------~~T~wI~Vv~wGk-lAE~~a~yLkKGD~V~VsG 135 (307)
..||+|+||||||+|||+|++++|+.++.|+||+++. .+|+||+|++||+ +|+.+++||+||++|+|+|
T Consensus 3 ~~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~G 82 (152)
T PRK06642 3 GSLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIEG 82 (152)
T ss_pred CcceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEEE
Confidence 4589999999999999999999999999999999851 2589999999996 9999999999999999999
Q ss_pred EeeecCCCcC---CeEEEEEEEeEE----EeeccCCcc
Q 021789 136 QLTADPPAIE---GQANVQVMVHSL----NLIEPTSQK 166 (307)
Q Consensus 136 rL~s~syedk---~rs~~eViVe~I----~FL~~k~~~ 166 (307)
+|++++|+++ .++.++|+|++| .||+++...
T Consensus 83 rL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k~~~ 120 (152)
T PRK06642 83 SLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSN 120 (152)
T ss_pred EEEeCeeECCCCCEEEEEEEEEEecccceEeccCCCCc
Confidence 9999999876 567889999987 799876554
No 10
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=3.6e-25 Score=196.71 Aligned_cols=101 Identities=20% Similarity=0.334 Sum_probs=92.3
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC----------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEE
Q 021789 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (307)
Q Consensus 67 ~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~----------~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGr 136 (307)
+.||+|+||||||+|||+|++++|..+|.|+||+++. ++|+||+|++||++||.|++||+||++|+|+|+
T Consensus 4 r~mN~V~LiGrLg~DPElR~t~nG~~va~fslAvn~~~kd~~~Ge~~e~t~w~~Vv~wgk~Ae~v~~~L~KG~~V~VeGr 83 (175)
T PRK13732 4 RGINKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAEVAGEYLRKGAQVYIEGQ 83 (175)
T ss_pred cCceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEcCccccCCCCceecceeEEEEEEecHHHHHHHHhcCCCCEEEEEEE
Confidence 4689999999999999999999999999999999751 258999999999999999999999999999999
Q ss_pred eeecCCCcC--CeEEEEEEEe---EEEeeccCCccc
Q 021789 137 LTADPPAIE--GQANVQVMVH---SLNLIEPTSQKR 167 (307)
Q Consensus 137 L~s~syedk--~rs~~eViVe---~I~FL~~k~~~~ 167 (307)
|++++|+++ .++.++|+|+ +|.||+++....
T Consensus 84 L~~r~ye~dG~kr~~~eIiv~~~g~~~fL~~~~~~~ 119 (175)
T PRK13732 84 LRTRSWEDNGITRYVTEILVKTTGTMQMLGRAPQQN 119 (175)
T ss_pred EEeeeEccCCeEEEEEEEEEeecCeEEEecCCCCCC
Confidence 999999887 5677899999 999999887653
No 11
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=4.3e-25 Score=193.92 Aligned_cols=97 Identities=16% Similarity=0.179 Sum_probs=90.2
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~----~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syed 144 (307)
||.|+||||||+|||+|++++|+.++.|+||+++ ..+|+||+|++||++|+++++||+||++|+|+|+|++++|++
T Consensus 1 MN~V~LiGrLg~DPElR~t~sG~~v~~FsLAvn~~~~~~~~T~wi~v~awg~~Ae~v~~yL~KG~~V~VeGrL~~~~y~d 80 (161)
T PRK06293 1 MMFGYIVGRLGADPEERMTSKGKRVVVLRLGVKSRVGSKDETVWCRCNIWGNRYDKMLPYLKKGSGVIVAGEMSPESYVD 80 (161)
T ss_pred CeEEEEEEEecCCCeEEEcCCCCEEEEEEEEEeCCCCCccceEEEEEEEEhHHHHHHHHhCCCCCEEEEEEEEEeCccCC
Confidence 8999999999999999999999999999999986 347899999999999999999999999999999999999987
Q ss_pred C---CeEEEEEEEeEEEeeccCCc
Q 021789 145 E---GQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 145 k---~rs~~eViVe~I~FL~~k~~ 165 (307)
+ .++.++|+|++|.||.....
T Consensus 81 kdG~kr~~~eIva~~I~fl~~~~~ 104 (161)
T PRK06293 81 KDGSPQSSLVVSVDTIKFSPFGRN 104 (161)
T ss_pred CCCCEEEEEEEEEeEEEECcCCCc
Confidence 6 56788999999999976554
No 12
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=1.2e-24 Score=193.66 Aligned_cols=101 Identities=20% Similarity=0.328 Sum_probs=91.9
Q ss_pred ccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE
Q 021789 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG 135 (307)
Q Consensus 66 p~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~----------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsG 135 (307)
.+.||+|+|||||++|||+|++++|..+|+|+|||++ .++|+||+|++||++||.+++||+||++|+|+|
T Consensus 3 ~r~~N~V~LiGrLg~DPelR~t~nG~~v~~fsVAvn~~~kd~~~Ge~~e~t~w~~V~~fgk~Ae~~~~~L~KGs~V~VeG 82 (177)
T PRK09010 3 SRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYIEG 82 (177)
T ss_pred ccCceEEEEEEEeCCCceEEEcCCCCEEEEEEEEEcCccccCcccccccceEEEEEEEehhHHHHHHHhcCCCCEEEEEE
Confidence 3679999999999999999999999999999999975 125899999999999999999999999999999
Q ss_pred EeeecCCCcC---CeEEEEEEEe---EEEeeccCCcc
Q 021789 136 QLTADPPAIE---GQANVQVMVH---SLNLIEPTSQK 166 (307)
Q Consensus 136 rL~s~syedk---~rs~~eViVe---~I~FL~~k~~~ 166 (307)
+|++++|+++ .++.++|+|+ +|.||+++...
T Consensus 83 rL~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r~~~ 119 (177)
T PRK09010 83 QLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGG 119 (177)
T ss_pred EEEeccccCCCCCEEEEEEEEEecCCcEEEccCCCCC
Confidence 9999999987 5678899988 89999977554
No 13
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=2e-24 Score=192.97 Aligned_cols=98 Identities=19% Similarity=0.304 Sum_probs=90.1
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~----------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~ 138 (307)
||+|+|||||++|||++++++|..+|.|+||+++ .+.|+||+|++|+++||.+++||+||++|+|+|+|+
T Consensus 4 ~N~V~LiGrLg~DPElr~t~nG~~va~fsVAv~~~~kdk~sGe~~e~T~w~~V~~fGk~AE~v~~~LkKGs~V~VeGrL~ 83 (182)
T PRK06958 4 VNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYIEGRIR 83 (182)
T ss_pred ccEEEEEEEecCCCeEEEcCCCCEEEEEEEEeccccccccCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEEEEE
Confidence 8999999999999999999999999999999975 125899999999999999999999999999999999
Q ss_pred ecCCCcC---CeEEEEEEEeEEEeeccCCcc
Q 021789 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (307)
Q Consensus 139 s~syedk---~rs~~eViVe~I~FL~~k~~~ 166 (307)
++.|+++ .++.++|+|++|.||.++...
T Consensus 84 ~~~yeDkdG~kr~~~eVvA~~V~fL~sr~~~ 114 (182)
T PRK06958 84 TRKWQGQDGQDRYSTEIVADQMQMLGGRGGS 114 (182)
T ss_pred eCceECCCCcEEEEEEEEEeEEEECCCCccC
Confidence 9999866 567889999999999977643
No 14
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=3.2e-24 Score=189.58 Aligned_cols=98 Identities=19% Similarity=0.323 Sum_probs=90.1
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-------C---CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-------A---SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~-------~---~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~ 138 (307)
||+|+||||||+|||+|++++|+.+++|+||+++ . +.++||+|++||++||.+++||+||++|+|+|+|+
T Consensus 4 ~N~V~LiGrLg~DPElR~t~nG~~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~AE~v~~~LkKGs~V~VeGrL~ 83 (168)
T PRK06863 4 INKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEGRLK 83 (168)
T ss_pred ccEEEEEEEcCCCCEEEEcCCCCEEEEEEEEecCcccccCCCcccccceEEEEEEEhHHHHHHHHHCCCCCEEEEEEEEE
Confidence 7999999999999999999999999999999975 1 14799999999999999999999999999999999
Q ss_pred ecCCCcC---CeEEEEEEEeEEEeeccCCcc
Q 021789 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (307)
Q Consensus 139 s~syedk---~rs~~eViVe~I~FL~~k~~~ 166 (307)
+++|+|+ .++.++|+|++|.||+++...
T Consensus 84 ~r~w~DkdG~~r~~~eI~a~~i~~L~~r~~~ 114 (168)
T PRK06863 84 TRKWQDQNGQDRYTTEIQGDVLQMLGGRNQR 114 (168)
T ss_pred eCCccCCCCCEEEEEEEEEeEEEECCCCCcc
Confidence 9999877 467889999999999987653
No 15
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=3.6e-24 Score=189.83 Aligned_cols=101 Identities=19% Similarity=0.308 Sum_probs=90.9
Q ss_pred ccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE
Q 021789 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG 135 (307)
Q Consensus 66 p~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~----------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsG 135 (307)
++.||+|+||||||+|||++++++|..+|+|+||+++ .++|+||+|++||++||.+++||+||++|+|+|
T Consensus 2 a~~mNkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae~v~~~l~KGs~V~VeG 81 (172)
T PRK05733 2 ARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIEG 81 (172)
T ss_pred CCcceEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEE
Confidence 4569999999999999999999999999999999975 125899999999999999999999999999999
Q ss_pred EeeecCCCcC--CeEEEEEEEe---EEEeeccCCcc
Q 021789 136 QLTADPPAIE--GQANVQVMVH---SLNLIEPTSQK 166 (307)
Q Consensus 136 rL~s~syedk--~rs~~eViVe---~I~FL~~k~~~ 166 (307)
+|++++|+.+ .++.++|+|+ +|.||+++...
T Consensus 82 rLr~~~y~kdG~~r~~~eVvvd~~g~v~~L~~~~~~ 117 (172)
T PRK05733 82 KLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQG 117 (172)
T ss_pred EEEeCcEecCCEEEEEEEEEEeecCeEEECcCCCCC
Confidence 9999999844 5677899999 89999866543
No 16
>TIGR00621 ssb single stranded DNA-binding protein (ssb). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.91 E-value=9.3e-24 Score=185.04 Aligned_cols=99 Identities=19% Similarity=0.351 Sum_probs=90.6
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCC---------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEe
Q 021789 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (307)
Q Consensus 67 ~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~---------~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL 137 (307)
+|+|+|+|+|||++|||++++++|+.+|.|+||+++. +.++||+|++||++||.+++||+||++|+|+|+|
T Consensus 2 ~m~N~V~L~G~l~~dPe~r~t~~G~~v~~fsvA~~~~~~~~~G~~~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~L 81 (164)
T TIGR00621 2 RMVNKVILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQDGEWKEETEWHDIVIFGRLAEVAAQYLKKGSLVYVEGRL 81 (164)
T ss_pred CcccEEEEEEEeCCCCEEEECCCCCEEEEEEEEEcCceecCCCCEeccceEEEEEEehHHHHHHHHhCCCCCEEEEEEEE
Confidence 4789999999999999999999999999999999751 2579999999999999999999999999999999
Q ss_pred eecCCCcC---CeEEEEEEEeEEEeeccCCc
Q 021789 138 TADPPAIE---GQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 138 ~s~syedk---~rs~~eViVe~I~FL~~k~~ 165 (307)
++++|+++ .++.++|+|++|.||+.+..
T Consensus 82 ~~~~~~~kdG~~~~~~ev~a~~i~~L~~~~~ 112 (164)
T TIGR00621 82 RTRKWEDQNGQKRSKTEIIADNVQLLDLLGA 112 (164)
T ss_pred EeceEECCCCcEEEEEEEEEEEEeeccccCC
Confidence 99999885 56788999999999987643
No 17
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=2.2e-23 Score=183.88 Aligned_cols=99 Identities=22% Similarity=0.363 Sum_probs=89.0
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----------CCCCeeEEEEEecc-HHHHHHhhcCCCCeEEEEE
Q 021789 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----------ASHSLWIPILFEGD-LAHIASSHLKKDDHVHIAG 135 (307)
Q Consensus 67 ~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~----------~~~T~wI~Vv~wGk-lAE~~a~yLkKGD~V~VsG 135 (307)
.+||+|+|||||++|||+|++++|+.+|.|+||+++ .++|+||+|++|++ +|+.+++||+||++|+|+|
T Consensus 3 ~~mN~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~~Ae~~~~~LkKG~~V~VeG 82 (166)
T PRK06341 3 GSVNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYIEG 82 (166)
T ss_pred CcceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChHHHHHHHHhcCCCCEEEEEE
Confidence 458999999999999999999999999999999974 13689999999996 9999999999999999999
Q ss_pred EeeecCCCcC---CeEEEEEEEeEE----EeeccCCc
Q 021789 136 QLTADPPAIE---GQANVQVMVHSL----NLIEPTSQ 165 (307)
Q Consensus 136 rL~s~syedk---~rs~~eViVe~I----~FL~~k~~ 165 (307)
+|++++|+++ .++.++|+|++| .||+++..
T Consensus 83 rL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~~~ 119 (166)
T PRK06341 83 QLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRGE 119 (166)
T ss_pred EEEeCcEECCCCCEEEEEEEEEEecccceEEcccCCc
Confidence 9999999876 567889999874 89987753
No 18
>PRK02801 primosomal replication protein N; Provisional
Probab=99.90 E-value=3.3e-23 Score=168.76 Aligned_cols=92 Identities=14% Similarity=0.260 Sum_probs=81.9
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-CC-------CCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-AS-------HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~-~~-------~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
|||.|+|+|||++|||+|||++|.+++.|+||+++ .. .++||+|++||++||.+++||+||++|.|+|+|++
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 68999999999999999999999999999999974 11 13789999999999999999999999999999999
Q ss_pred cCCCcC-CeEEEEEEEeEEEeec
Q 021789 140 DPPAIE-GQANVQVMVHSLNLIE 161 (307)
Q Consensus 140 ~syedk-~rs~~eViVe~I~FL~ 161 (307)
|+++ ++..+.|+|++|+|+.
T Consensus 81 --~~~~~g~~~~~v~~~~i~~l~ 101 (101)
T PRK02801 81 --HQGRNGLSKLVLHAEQIELID 101 (101)
T ss_pred --eECCCCCEEEEEEEEEEEECC
Confidence 4554 6666779999999974
No 19
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=99.90 E-value=1.8e-23 Score=165.98 Aligned_cols=92 Identities=23% Similarity=0.396 Sum_probs=82.2
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC---------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA---------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~---------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
||+|+|+|+|++||+++++++|+.++.|+||+++ ...++||+|++||++|+.+++||+|||+|+|+|+|++
T Consensus 1 mN~v~l~G~l~~~p~~~~~~~g~~~~~f~la~~~~~~~~~~~~~~~~~~~~v~~~g~~A~~~~~~l~kG~~V~V~G~l~~ 80 (104)
T PF00436_consen 1 MNKVTLIGRLGKDPELRYTKNGTPVARFSLAVNRRFKDDGGEGDEKTDWINVVAWGKLAENVAEYLKKGDRVYVEGRLRT 80 (104)
T ss_dssp EEEEEEEEEESSSEEEEEETTSEEEEEEEEEEEEEEEETTSCEEEEEEEEEEEEEHHHHHHHHHH--TT-EEEEEEEEEE
T ss_pred CcEEEEEEEECCCcEEEECCCCCEEEEEEEEEecEEeeeeccCccceEEEEEEeeeecccccceEEcCCCEEEEEEEEEe
Confidence 7999999999999999999999999999999976 1257999999999999999999999999999999999
Q ss_pred cCCCcC-C--eEEEEEEEeEEEee
Q 021789 140 DPPAIE-G--QANVQVMVHSLNLI 160 (307)
Q Consensus 140 ~syedk-~--rs~~eViVe~I~FL 160 (307)
+.|+++ + ++.++|+|++|+||
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 999887 4 67889999999997
No 20
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.89 E-value=7.5e-23 Score=187.49 Aligned_cols=98 Identities=17% Similarity=0.249 Sum_probs=89.6
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCC-CCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAAS-HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 67 ~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~-~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
.-+|+|+|+|||++|||+|+|++|+.+|.|+|||++.. +++||+|++||++||.|+ +|+|||+|+|+|||++++|+++
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 45999999999999999999999999999999999843 689999999999999976 6999999999999999999865
Q ss_pred -------CeEEEEEEEeEEEeeccCCc
Q 021789 146 -------GQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 146 -------~rs~~eViVe~I~FL~~k~~ 165 (307)
.++.|+|.|++|+||+.+..
T Consensus 186 ~g~~~g~kr~~~eV~v~~i~~l~~~~~ 212 (219)
T PRK05813 186 LSEGEVVTKVAYEVSISKMEKVEKEEA 212 (219)
T ss_pred CCCccceEEEEEEEEEEEEEEcCChhh
Confidence 36889999999999987654
No 21
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.89 E-value=8.1e-23 Score=178.99 Aligned_cols=98 Identities=20% Similarity=0.296 Sum_probs=83.9
Q ss_pred ccceEEEEEEeCCCCeEEECC-CCcEEEEEEEEEcC---------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEe
Q 021789 68 VANSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHA---------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~-sGk~va~fsLAv~~---------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL 137 (307)
|||+|+|+|||++|||+|+|+ +|..++.|++|+++ ...++||+|++||++||++.+||+||++|+|+|+|
T Consensus 2 ~~Nkv~LvG~l~~DPE~r~t~~g~~~v~~~~~a~~r~~~~~~~~~~~~t~~~~vv~wgk~Ae~~~~yl~KG~~V~VeG~l 81 (167)
T COG0629 2 MMNKVILVGRLTRDPELRYTPNGGAVVALFSAAVNRRFDNQSGERDEETDWIRVVIWGKLAENAAEYLKKGSLVYVEGRL 81 (167)
T ss_pred CcceEEEEeecccCcceeecCCCCeeeEEEEEEeccccccCCcccccccceEEEEEehHHHHHHHHHhcCCCEEEEEEEE
Confidence 799999999999999999999 55777778888876 12579999999999999999999999999999999
Q ss_pred eecCCCcC-C--eE----EEEEEEeEEEeeccCCc
Q 021789 138 TADPPAIE-G--QA----NVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 138 ~s~syedk-~--rs----~~eViVe~I~FL~~k~~ 165 (307)
++++|+++ + ++ ..+++++.+.+++.+..
T Consensus 82 ~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 82 QTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EeeeeecCCCcceeeEEEEEEEeehhhhhccCccc
Confidence 99999987 4 22 33567788888887754
No 22
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.88 E-value=4.1e-22 Score=178.68 Aligned_cols=90 Identities=14% Similarity=0.233 Sum_probs=82.7
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-----------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEE
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-----------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~-----------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGr 136 (307)
++|.|+|||||++|||+|++++|+.+|+|+||+++ ..+++||+|++|+++||++++||+|||+|+|+||
T Consensus 3 ~~~~VtLiGrL~~DPElR~t~sG~~va~FrVAv~~r~~~~~~g~~~d~~t~fi~V~~Wg~~Ae~va~~L~KGd~V~V~Gr 82 (186)
T PRK07772 3 GDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNEWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVTGR 82 (186)
T ss_pred ccCEEEEEEEeCCCCeEEEcCCCCEEEEEEEEecCcceecCCCcEeccCceEEEEEEecHHHHHHHHhcCCCCEEEEEEE
Confidence 37999999999999999999999999999999963 1257899999999999999999999999999999
Q ss_pred eeecCCCcC---CeEEEEEEEeEE
Q 021789 137 LTADPPAIE---GQANVQVMVHSL 157 (307)
Q Consensus 137 L~s~syedk---~rs~~eViVe~I 157 (307)
|++++|+++ .++.++|+|++|
T Consensus 83 L~~r~wedkdG~~rt~~eV~a~~V 106 (186)
T PRK07772 83 LKQRSYETREGEKRTVVELEVDEI 106 (186)
T ss_pred EEcCceECCCCCEEEEEEEEEEEc
Confidence 999999976 678899999965
No 23
>PRK05853 hypothetical protein; Validated
Probab=99.83 E-value=3.7e-20 Score=162.74 Aligned_cols=85 Identities=16% Similarity=0.208 Sum_probs=76.0
Q ss_pred EEEEeCCCCeEEECCCCcEEEEEEEEEcC----C------CCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 021789 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHA----A------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (307)
Q Consensus 74 LIGrLg~DPElr~T~sGk~va~fsLAv~~----~------~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~sye 143 (307)
|||||++|||+++++ |..+|+|+||+++ . .+|+||+|++||++||++++||+||++|+|+|+|++++|+
T Consensus 1 ivGrLg~DPelr~~~-g~~va~F~lAvn~r~~~~~Ge~~d~~T~wi~V~~wg~lAe~v~~~L~KG~~V~V~GrL~~~~we 79 (161)
T PRK05853 1 VVGHIVNDPQRRKVG-DQEVIKFRVASNSRRRTADGGWEPGNSLFITVNCWGRLVTGVGAALGKGAPVIVVGHVYTSEYE 79 (161)
T ss_pred CeEcccCCCEEEEEC-CceEEEEEEEECCCeECCCCCEeccCccEEEEEEEhHHHHHHHHHcCCCCEEEEEEEEEccceE
Confidence 699999999999985 7899999999975 1 2489999999999999999999999999999999999998
Q ss_pred cC---CeEEEEEEEeEEEe
Q 021789 144 IE---GQANVQVMVHSLNL 159 (307)
Q Consensus 144 dk---~rs~~eViVe~I~F 159 (307)
++ .++.++|+|+.|-.
T Consensus 80 dkdG~~r~~~eV~a~~Vg~ 98 (161)
T PRK05853 80 DRDGNRRSSLEMRATSVGP 98 (161)
T ss_pred CCCCCEEEEEEEEEEEecc
Confidence 76 56788999998743
No 24
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=99.81 E-value=4.3e-19 Score=139.42 Aligned_cols=89 Identities=22% Similarity=0.327 Sum_probs=82.3
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcC--------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~--------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~sye 143 (307)
|+|+|+|+++|+++++++|..++.|+|++++ ..+++||+|++||++|+.+++||+|||.|+|+|+|+++.|+
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 5899999999999999999999999999976 13689999999999999999999999999999999999999
Q ss_pred cC---CeEEEEEEEeEEEee
Q 021789 144 IE---GQANVQVMVHSLNLI 160 (307)
Q Consensus 144 dk---~rs~~eViVe~I~FL 160 (307)
++ .+..++|+|++|.++
T Consensus 81 ~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 81 DKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred CCCCCEEEEEEEEEEEEEEC
Confidence 77 567889999999875
No 25
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.77 E-value=3.1e-18 Score=157.14 Aligned_cols=96 Identities=18% Similarity=0.196 Sum_probs=86.3
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee-cCCC-c
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA-DPPA-I 144 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~-~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s-~sye-d 144 (307)
..|+|+|||+|++|||++++..|..++.|+|||+| ...+|||+|++|++|||.+. |+||++|+|+|+|++ +.++ +
T Consensus 7 ~~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rlae~~~--l~kG~~v~VeGqlrsy~~~~~G 84 (219)
T PRK05813 7 ENNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERLLAGMD--LKVGTLVIVEGQLRSYNKFIDG 84 (219)
T ss_pred hcCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhhhhhhc--ccCCCEEEEEEEEEEeccCCCC
Confidence 37999999999999999999999999999999999 56789999999999999998 999999999999993 3443 3
Q ss_pred CCeEEEEEEEeEEEeeccCCc
Q 021789 145 EGQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 145 k~rs~~eViVe~I~FL~~k~~ 165 (307)
+.++.++|.|++|.||++++.
T Consensus 85 ~~R~vl~V~a~~i~~l~~~~~ 105 (219)
T PRK05813 85 KNRLILTVFARNIEYCDERSD 105 (219)
T ss_pred cEEEEEEEEEEEEEEccCCCc
Confidence 368889999999999998754
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.64 E-value=4.4e-16 Score=136.73 Aligned_cols=99 Identities=14% Similarity=0.160 Sum_probs=87.0
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC------------CCCCeeEEEEEec-cHHHHHHhhcCCCCeEEE
Q 021789 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA------------ASHSLWIPILFEG-DLAHIASSHLKKDDHVHI 133 (307)
Q Consensus 67 ~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~------------~~~T~wI~Vv~wG-klAE~~a~yLkKGD~V~V 133 (307)
+.+|+|+|+|+||+||.++...+|++|+-|+|+++. ...|+||+|.+|+ .||+.+.+||+||.+|||
T Consensus 53 ~~vnkv~lvG~VGqdPl~k~~rngrpVtiFsv~T~~~~k~r~~q~g~~~~~tqWHRVsVf~~~L~d~~~k~lkKGsriyv 132 (175)
T KOG1653|consen 53 RGVNKVILVGRVGQDPLQKILRNGRPVTIFSVGTGGMFKQRLYQAGDQPQPTQWHRVSVFNEVLADYALKYLKKGSRIYV 132 (175)
T ss_pred cccceEEEEcccccchHHHhhcCCCeEEEEEeecCccccccccccCCcCCcceeEEEEeeCchHHHHHHHHhcCCCEEEE
Confidence 789999999999999999999999999999999963 2368999999999 899999999999999999
Q ss_pred EEEeeecCCCcC-----CeEEEEEEEeEEEeeccCCc
Q 021789 134 AGQLTADPPAIE-----GQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 134 sGrL~s~syedk-----~rs~~eViVe~I~FL~~k~~ 165 (307)
+|+|.++-+.++ ++...-||+++|.|+.....
T Consensus 133 eG~iey~g~~~d~~g~~~r~~t~iIa~~v~Fl~~a~~ 169 (175)
T KOG1653|consen 133 EGKIEYRGENDDIQGNVKRIPTIIIARDVSFLIDAIF 169 (175)
T ss_pred eeeEEeeeeeccccCceeecceEEEechhHHHHHHhh
Confidence 999999766555 34556789999999876543
No 27
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.63 E-value=2.9e-07 Score=76.62 Aligned_cols=90 Identities=19% Similarity=0.223 Sum_probs=76.4
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC----CC---C-CeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----AS---H-SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~----~~---~-T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
||.+.|.|.|..-+.+||||.|-++|.|.|.... .. . -+-|++++.|++|+.... +..|..|.|+|-|..
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 5999999999999999999999999999998765 11 1 267899999999999886 999999999999998
Q ss_pred CCCcCCeEEEEEEEeEEEeecc
Q 021789 141 PPAIEGQANVQVMVHSLNLIEP 162 (307)
Q Consensus 141 syedk~rs~~eViVe~I~FL~~ 162 (307)
...+....-+.+++|+|++.
T Consensus 79 --~~~~~~~LVLHi~~Ie~i~~ 98 (107)
T PRK00036 79 --ARKDSVKVKLHLQQARRIAG 98 (107)
T ss_pred --CCCCCCcEEEEhHHeEEccc
Confidence 22355667888999999943
No 28
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=98.33 E-value=1.1e-05 Score=66.38 Aligned_cols=94 Identities=15% Similarity=0.229 Sum_probs=78.1
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-CC-----CC--eeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 021789 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-AS-----HS--LWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (307)
Q Consensus 67 ~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~-~~-----~T--~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~ 138 (307)
.+.|.+.|+|.|.+-|..+|+|+|-+.|.|.|.... .. .. .-+++..-|+.|+..-+.+..|..|.|+|-|.
T Consensus 2 ~~~Nrl~L~g~vak~~~r~~sPsGIphc~f~Lehrs~q~Eag~~RQv~~~mpv~vsG~qa~~lt~~i~~Gs~i~v~GFla 81 (103)
T COG2965 2 NMTNRLSLSGTVAKVPVRRYSPSGIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSGRQAEELTQSITVGSYILVVGFLA 81 (103)
T ss_pred CccceEEEEEEeeccceeeeCCCCCeeEEEEEeecchhhhCCcceeEEEEccEEeechhhhhhhhccccccEEEEEEEEE
Confidence 368999999999999999999999999999998875 11 12 45788999999999998899999999999998
Q ss_pred ecCCCcCCeEEEEEEEeEEEeec
Q 021789 139 ADPPAIEGQANVQVMVHSLNLIE 161 (307)
Q Consensus 139 s~syedk~rs~~eViVe~I~FL~ 161 (307)
...- ..+-....+.+++|.|++
T Consensus 82 ~~~~-~sg~~~lvlha~qi~~id 103 (103)
T COG2965 82 CHKR-RSGLSKLVLHAEQIEFID 103 (103)
T ss_pred eecc-cCCccEEEEEeeEEEecC
Confidence 7532 125566778888888874
No 29
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=97.53 E-value=0.00066 Score=50.06 Aligned_cols=75 Identities=16% Similarity=0.224 Sum_probs=56.4
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEEE
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~e 151 (307)
|.+.|+|.+-. .+|..++.++|. +.|.-+.|++|++.++...+.|+.|+.|.|.|+++...-. .++
T Consensus 1 V~v~G~V~~~~-----~~~~~~~~~~l~----D~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~~~~-----~~~ 66 (75)
T PF01336_consen 1 VTVEGRVTSIR-----RSGGKIVFFTLE----DGTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRYNGG-----ELE 66 (75)
T ss_dssp EEEEEEEEEEE-----EEETTEEEEEEE----ETTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEETTS-----SEE
T ss_pred CEEEEEEEEEE-----cCCCCEEEEEEE----ECCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEECCc-----cEE
Confidence 67888887633 344556667665 4578999999998888889999999999999999987321 467
Q ss_pred EEEeEEEee
Q 021789 152 VMVHSLNLI 160 (307)
Q Consensus 152 ViVe~I~FL 160 (307)
|.+++++.|
T Consensus 67 l~~~~i~~l 75 (75)
T PF01336_consen 67 LIVPKIEIL 75 (75)
T ss_dssp EEEEEEEEE
T ss_pred EEECEEEEC
Confidence 888777654
No 30
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=97.21 E-value=0.0067 Score=45.66 Aligned_cols=74 Identities=16% Similarity=0.168 Sum_probs=57.4
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEEE
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~e 151 (307)
+.+.|-|. +... +.+| .|.++|. +.+.-+.|++|.+..+.+...|+.|+.|.|.|++..+.+. ..++
T Consensus 2 ~~v~g~v~-~i~~--tk~g--~~~~~L~----D~~~~i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~~~~~~----~~~~ 68 (78)
T cd04489 2 VWVEGEIS-NLKR--PSSG--HLYFTLK----DEDASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEPR----GGYQ 68 (78)
T ss_pred EEEEEEEe-cCEE--CCCc--EEEEEEE----eCCeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECCC----CEEE
Confidence 56778887 3444 7777 7788887 3456799999999888888999999999999999986543 2367
Q ss_pred EEEeEEE
Q 021789 152 VMVHSLN 158 (307)
Q Consensus 152 ViVe~I~ 158 (307)
++|+++.
T Consensus 69 l~v~~i~ 75 (78)
T cd04489 69 LIVEEIE 75 (78)
T ss_pred EEEEEEE
Confidence 7777764
No 31
>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.71 E-value=0.015 Score=45.59 Aligned_cols=68 Identities=19% Similarity=0.138 Sum_probs=54.9
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHHHHhhcC-CCCeEEEEEEeeecCCCcC
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLK-KDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk-lAE~~a~yLk-KGD~V~VsGrL~s~syedk 145 (307)
|.+-|.|- +.|.|.+.+|+.+..|.|+ +.|+-+.|..|.+ .-+.. ..++ +|+.|.|.|.+..++|..+
T Consensus 2 v~i~G~Vf-~~e~re~k~g~~i~~~~it----D~t~Si~~K~F~~~~~~~~-~~ik~~G~~v~v~G~v~~D~f~~e 71 (82)
T cd04484 2 VVVEGEVF-DLEIRELKSGRKILTFKVT----DYTSSITVKKFLRKDEKDK-EELKSKGDWVRVRGKVQYDTFSKE 71 (82)
T ss_pred EEEEEEEE-EEEEEEecCCCEEEEEEEE----cCCCCEEEEEeccCChhHH-hhcccCCCEEEEEEEEEEccCCCc
Confidence 77889986 4799999999988877776 4677889988873 33333 5699 9999999999999999654
No 32
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=96.70 E-value=0.017 Score=44.64 Aligned_cols=73 Identities=18% Similarity=0.183 Sum_probs=54.8
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEEE
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~e 151 (307)
|.+-|.|...+. .+|- ++|+|- ++..-|+|++|...+..+...++.||.|.|.|++.. .+-.|+
T Consensus 1 v~v~GeVs~~~~----~~GH--vyfsLk----D~~a~i~cv~f~~~~~~~~~~l~~Gd~V~v~G~v~~------~~G~~q 64 (73)
T cd04487 1 VHIEGEVVQIKQ----TSGP--TIFTLR----DETGTVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEP------RDGQLQ 64 (73)
T ss_pred CEEEEEEecccc----CCCC--EEEEEE----cCCEEEEEEEEchhccCCcCCCCCCCEEEEEEEEec------CCeEEE
Confidence 356788877663 5565 468884 233469999999887667778999999999999874 356688
Q ss_pred EEEeEEEee
Q 021789 152 VMVHSLNLI 160 (307)
Q Consensus 152 ViVe~I~FL 160 (307)
++|++|..+
T Consensus 65 l~v~~i~~~ 73 (73)
T cd04487 65 IEVESLEVL 73 (73)
T ss_pred EEEeeEEEC
Confidence 899888754
No 33
>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=96.49 E-value=0.05 Score=38.42 Aligned_cols=47 Identities=19% Similarity=0.111 Sum_probs=39.9
Q ss_pred CcEEEEEEEEEcCCCCC-eeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 90 GKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 90 Gk~va~fsLAv~~~~~T-~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
|+..+.+.|. +.+ ..+.|++|++..+....+++.|+.|.|.|++...
T Consensus 15 ~~~~~~~~l~----D~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~~ 62 (75)
T cd03524 15 EGKVLIFTLT----DGTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKKF 62 (75)
T ss_pred CCeEEEEEEE----cCCCCEEEEEEEchHHHHHHhhccCCCEEEEEEEEEec
Confidence 6667777765 456 8999999999988888899999999999999764
No 34
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=96.46 E-value=0.038 Score=41.30 Aligned_cols=74 Identities=15% Similarity=0.206 Sum_probs=55.1
Q ss_pred CCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEEEEEEeEEE
Q 021789 79 DAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLN 158 (307)
Q Consensus 79 g~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~eViVe~I~ 158 (307)
...++.+.+.+|+.++.++|. +.+--+.|++|++.-+. ...++.|..|.|.|++... .+ ..++.+.++.
T Consensus 6 v~~~~~~~tk~g~~~~~~~l~----D~tg~i~~~~f~~~~~~-~~~l~~g~~v~v~G~v~~~--~~----~~~l~~~~i~ 74 (83)
T cd04492 6 IKSKELRTAKNGKPYLALTLQ----DKTGEIEAKLWDASEED-EEKFKPGDIVHVKGRVEEY--RG----RLQLKIQRIR 74 (83)
T ss_pred EEEeeeecccCCCcEEEEEEE----cCCCeEEEEEcCCChhh-HhhCCCCCEEEEEEEEEEe--CC----ceeEEEEEEE
Confidence 345677888899888777776 44567999999965543 6789999999999999652 11 3577788887
Q ss_pred eeccC
Q 021789 159 LIEPT 163 (307)
Q Consensus 159 FL~~k 163 (307)
.+...
T Consensus 75 ~l~~~ 79 (83)
T cd04492 75 LVTEE 79 (83)
T ss_pred ECCcc
Confidence 66643
No 35
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=96.35 E-value=0.017 Score=46.99 Aligned_cols=67 Identities=13% Similarity=0.009 Sum_probs=52.5
Q ss_pred cceEEEEEEeCCCCeEEECCCC---cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEee
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDG---KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sG---k~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~ 138 (307)
++.+.+.|||.+--+++...++ ..+..+.|+ .+++.-|.+++|++.|+.....|+.|+.++|+|-..
T Consensus 9 ~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~---De~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V 78 (104)
T cd04474 9 QNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLL---DEDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSV 78 (104)
T ss_pred CCcEEEEEEEeeccccccccCCCCCcEEEEEEEE---ECCCCEEEEEEehHHHHHhhcccccccEEEEeccEE
Confidence 4679999999986666665542 445566554 234789999999999999999999999999998444
No 36
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=95.40 E-value=0.11 Score=38.16 Aligned_cols=76 Identities=14% Similarity=0.197 Sum_probs=54.8
Q ss_pred EEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEEEEE
Q 021789 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVM 153 (307)
Q Consensus 74 LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~eVi 153 (307)
++|.|. +.+.+.+.+|+.++.++|. +.+.-+.|++|+..-+.+...++.|..|.|.|++.... ...++.
T Consensus 2 i~g~v~-~~~~~~~k~g~~~~~~~l~----D~tg~~~~~~f~~~~~~~~~~l~~g~~v~v~G~v~~~~------~~~~l~ 70 (84)
T cd04485 2 VAGLVT-SVRRRRTKKGKRMAFVTLE----DLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRD------GGLRLI 70 (84)
T ss_pred EEEEEE-EeEEEEcCCCCEEEEEEEE----eCCCeEEEEECHHHHHHHHHHhcCCCEEEEEEEEEecC------CceEEE
Confidence 456665 3566788889888777765 44666999999877555678899999999999997632 134666
Q ss_pred EeEEEee
Q 021789 154 VHSLNLI 160 (307)
Q Consensus 154 Ve~I~FL 160 (307)
++++.-+
T Consensus 71 ~~~i~~~ 77 (84)
T cd04485 71 AERIEDL 77 (84)
T ss_pred eeccccH
Confidence 6665433
No 37
>PRK07211 replication factor A; Reviewed
Probab=94.99 E-value=0.16 Score=52.41 Aligned_cols=80 Identities=15% Similarity=0.172 Sum_probs=61.0
Q ss_pred cceEEEEEEeCCCCeEEECC--C-C--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 021789 69 ANSVNLIGHVDAPVQFQTSS--D-G--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~--s-G--k~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~sye 143 (307)
+|.|++.|||..--++|... + | ..++++.|+ ++|--|++++|++.|+.....|+.||.|+|.|+.. ..|
T Consensus 63 ~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~----DeTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~-~~y- 136 (485)
T PRK07211 63 MDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVA----DETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK-DGY- 136 (485)
T ss_pred CCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEE----cCCCeEEEEEechHhHhhhcccCCCCEEEEeceEe-ccc-
Confidence 69999999999887766553 2 1 356777777 57889999999999999999999999999999874 222
Q ss_pred cCCeEEEEEEEeEEE
Q 021789 144 IEGQANVQVMVHSLN 158 (307)
Q Consensus 144 dk~rs~~eViVe~I~ 158 (307)
...+|.++.+.
T Consensus 137 ----s~~El~i~~ve 147 (485)
T PRK07211 137 ----NGLEVSVDKVE 147 (485)
T ss_pred ----cceEEEEeeEE
Confidence 22366665543
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=94.81 E-value=0.33 Score=38.80 Aligned_cols=72 Identities=17% Similarity=0.090 Sum_probs=52.4
Q ss_pred EEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEE
Q 021789 73 NLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (307)
Q Consensus 73 ~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl--AE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~ 150 (307)
.+.|.|..-+. ...+|- ++|+|. +++.-|+|++|... +..+...|+.||.|.|.|++....
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 35677766442 214555 468885 34568999999887 667788899999999999987653
Q ss_pred EEEEeEEEeec
Q 021789 151 QVMVHSLNLIE 161 (307)
Q Consensus 151 eViVe~I~FL~ 161 (307)
++.|+.+..+.
T Consensus 65 ql~ve~l~~~g 75 (91)
T cd04482 65 TLNLEKLRVIR 75 (91)
T ss_pred EEEEEEEEECC
Confidence 68888887654
No 39
>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit. PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.
Probab=93.89 E-value=1.3 Score=34.46 Aligned_cols=72 Identities=18% Similarity=0.327 Sum_probs=53.3
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhcCCCCeEEEEEEeeecCCCcCCeEE
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE--~~a~yLkKGD~V~VsGrL~s~syedk~rs~ 149 (307)
|.++|-|.. .. .|..|+. .++|. +.+.-+.|++|.+.-+ .+...|..|..|+|.|++..+ + .
T Consensus 2 v~i~GiI~~-v~--~TK~g~~--~~~le----D~~G~~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g~v~~~---~-~--- 65 (79)
T cd04490 2 VSIIGMVND-VR--STKNGHR--IVELE----DTTGRITVLLTKDKEELFEEAEDILPDEVIGVSGTVSKD---G-G--- 65 (79)
T ss_pred EEEEEEEeE-EE--EcCCCCE--EEEEE----CCCCEEEEEEeCchhhhhhhhhhccCCCEEEEEEEEecC---C-C---
Confidence 466777663 44 6778887 44443 4567799999999888 888999999999999999431 1 2
Q ss_pred EEEEEeEEEee
Q 021789 150 VQVMVHSLNLI 160 (307)
Q Consensus 150 ~eViVe~I~FL 160 (307)
+++|++|-+-
T Consensus 66 -~l~~~~I~~~ 75 (79)
T cd04490 66 -LIFADEIFRP 75 (79)
T ss_pred -EEEEEEeEcC
Confidence 7778877653
No 40
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=93.64 E-value=0.84 Score=36.94 Aligned_cols=77 Identities=17% Similarity=0.247 Sum_probs=57.5
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHH-hhcCCCCeEEEEEEeeecCCCcCCe
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQLTADPPAIEGQ 147 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a-~yLkKGD~V~VsGrL~s~syedk~r 147 (307)
+-.|-+.|.|.. ++...+|- ++|+|.= +.--++|++|...+..+. ..++.|++|.|.|++......
T Consensus 21 ~~~vwV~GEIs~---~~~~~~gh--~YftLkD----~~a~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~~~y~~~---- 87 (99)
T PF13742_consen 21 LPNVWVEGEISN---LKRHSSGH--VYFTLKD----EEASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYEPR---- 87 (99)
T ss_pred cCCEEEEEEEee---cEECCCce--EEEEEEc----CCcEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEECCC----
Confidence 456788888874 33333443 6888873 337899999999999888 889999999999999987432
Q ss_pred EEEEEEEeEEE
Q 021789 148 ANVQVMVHSLN 158 (307)
Q Consensus 148 s~~eViVe~I~ 158 (307)
-.+.+.|++|+
T Consensus 88 G~~sl~v~~i~ 98 (99)
T PF13742_consen 88 GSLSLIVEDID 98 (99)
T ss_pred cEEEEEEEEeE
Confidence 24667776664
No 41
>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A
Probab=93.16 E-value=2 Score=33.16 Aligned_cols=81 Identities=14% Similarity=0.221 Sum_probs=53.1
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH---HHHhhcCCCCeEEEEEEeeecCCCcCCe
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE---~~a~yLkKGD~V~VsGrL~s~syedk~r 147 (307)
.|.+-|+|.. +|. .|+ ++++.|- + .+.-+.|++-.+..+ .....|..||-|.|+|.+....-.....
T Consensus 1 ~V~i~Gwv~~---~R~--~g~-~~Fi~Lr-d---~~~~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~~~~ 70 (85)
T cd04100 1 EVTLAGWVHS---RRD--HGG-LIFIDLR-D---GSGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGNLAT 70 (85)
T ss_pred CEEEEEEEeh---hcc--CCC-EEEEEEE-e---CCeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCCCCC
Confidence 3788899965 332 355 5555552 2 235577776554322 2346799999999999999764321233
Q ss_pred EEEEEEEeEEEeec
Q 021789 148 ANVQVMVHSLNLIE 161 (307)
Q Consensus 148 s~~eViVe~I~FL~ 161 (307)
..+||.++++..+.
T Consensus 71 ~~~El~~~~i~il~ 84 (85)
T cd04100 71 GEIELQAEELEVLS 84 (85)
T ss_pred CCEEEEEeEEEEEC
Confidence 56899999998875
No 42
>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=93.02 E-value=0.58 Score=35.90 Aligned_cols=60 Identities=17% Similarity=0.112 Sum_probs=39.4
Q ss_pred EEEEeCCCCeEEEC-CCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEE-EEeeec
Q 021789 74 LIGHVDAPVQFQTS-SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLTAD 140 (307)
Q Consensus 74 LIGrLg~DPElr~T-~sG--k~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~Vs-GrL~s~ 140 (307)
++|+|..--+.+.. .+| ..+..+.|+ ++|--|++++|+..| ...++.|+.|.|. |+++..
T Consensus 2 v~~~V~~~~~~~~~~~~g~~~~~~~~~l~----D~TG~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~~ 65 (82)
T cd04491 2 VEGKVLSISEPREFTRDGSEGKVQSGLVG----DETGTIRFTLWDEKA---ADDLEPGDVVRIENAYVREF 65 (82)
T ss_pred EEEEEEEccCCeEeccCCCeeEEEEEEEE----CCCCEEEEEEECchh---cccCCCCCEEEEEeEEEEec
Confidence 45555443333332 233 344445554 346689999999988 6779999999999 777653
No 43
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=92.88 E-value=1.9 Score=34.48 Aligned_cols=83 Identities=16% Similarity=0.234 Sum_probs=53.8
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHH---HHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl---AE~---~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
|.|.|+|.+ +|. .|+.++.+.|- +.+..+.|++-.+. .+. .++.|..|+.|.|+|.+....-..+
T Consensus 2 V~i~Gwv~~---~R~--~g~k~~Fi~Lr----D~sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~ 72 (102)
T cd04320 2 VLIRARVHT---SRA--QGAKLAFLVLR----QQGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEEPIK 72 (102)
T ss_pred EEEEEEEEE---eec--CCCceEEEEEe----cCCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCCccc
Confidence 778899965 333 35335554442 23456888887542 122 2356999999999999986422111
Q ss_pred --CeEEEEEEEeEEEeeccC
Q 021789 146 --GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 146 --~rs~~eViVe~I~FL~~k 163 (307)
....+||.|+++..|...
T Consensus 73 ~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 73 SCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred CCCcCcEEEEEEEEEEEecC
Confidence 225689999999999755
No 44
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=92.80 E-value=0.65 Score=39.39 Aligned_cols=63 Identities=19% Similarity=0.180 Sum_probs=45.0
Q ss_pred cceEEEEEEeCC--CCeEEECCCCc-EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEE-EEeee
Q 021789 69 ANSVNLIGHVDA--PVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLTA 139 (307)
Q Consensus 69 ~N~V~LIGrLg~--DPElr~T~sGk-~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~Vs-GrL~s 139 (307)
++.|.++|.|-. ++....+.+|. .+....|+ ++|--|++++|++.|+ .|+.||.|.|. |+.+.
T Consensus 14 ~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~----D~TG~I~~tlW~~~a~----~l~~GdvV~I~na~v~~ 80 (129)
T PRK06461 14 MERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVG----DETGRVKLTLWGEQAG----SLKEGEVVEIENAWTTL 80 (129)
T ss_pred CCceEEEEEEEEcCCceEEEeCCCceEEEEEEEE----CCCCEEEEEEeCCccc----cCCCCCEEEEECcEEee
Confidence 478899999885 23343455664 36666665 5566799999999764 58999999999 56553
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=92.38 E-value=1.2 Score=35.38 Aligned_cols=67 Identities=18% Similarity=0.225 Sum_probs=42.2
Q ss_pred EEEEEEeCCCCeEEE--CCC-CcEEEEEEEEEcCCCCC-eeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 021789 72 VNLIGHVDAPVQFQT--SSD-GKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (307)
Q Consensus 72 V~LIGrLg~DPElr~--T~s-Gk~va~fsLAv~~~~~T-~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~sye 143 (307)
|.++|.|..--+.+. +.+ |.......|-+- ++| .-+.|++||+.|+...... |+.|.+.| ++...|.
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~--D~t~~~i~vtLWg~~a~~~~~~~--~~vv~~~~-~~i~~~~ 72 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLV--DESGHSVELTLWGEQAELFDGSE--NPVIAIKG-VKVSEFN 72 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEE--eCCCCEEEEEEEHHHhhhcccCC--CCEEEEEe-eEEEecC
Confidence 567777765444332 222 654433333332 233 3789999999999987654 99999998 5555564
No 46
>PF11506 DUF3217: Protein of unknown function (DUF3217); InterPro: IPR024506 This family of proteins with unknown function appears to be restricted to Mycoplasma.; PDB: 2HQL_E.
Probab=92.18 E-value=3.3 Score=33.86 Aligned_cols=83 Identities=19% Similarity=0.135 Sum_probs=54.2
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC--CC--CCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCC
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--AS--HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~--~~--~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~sye 143 (307)
|+|.|.|-|-+..- .-+ -.+.-...+|...| ++ =|||+-+-+-|.||-.+.+|.+|=.-|.|+|-|++. .
T Consensus 1 MLN~V~LEG~IeS~---kWS-~~KTGF~VTI~QkR~FG~r~FTDyyViYAN~QL~~ELEky~~k~k~isieG~L~TY--~ 74 (104)
T PF11506_consen 1 MLNTVFLEGEIESY---KWS-KKKTGFLVTIKQKRKFGERTFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRTY--L 74 (104)
T ss_dssp --EEEEEEEEEEEE---EE--TTSSEEEEEEEEEEEETTEEEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEEE--E
T ss_pred CcceEEEeceeehh---ccc-ccCceEEEEEeehhhhccccceeEEEEEECCeeehhHHHhhhhceEEEEeeehhhH--H
Confidence 78999999987542 111 12222234555555 34 368999999999999999999999999999999875 3
Q ss_pred cC--CeEEEEEEEeE
Q 021789 144 IE--GQANVQVMVHS 156 (307)
Q Consensus 144 dk--~rs~~eViVe~ 156 (307)
++ +.-...|.|..
T Consensus 75 ekkS~iWKT~I~~~K 89 (104)
T PF11506_consen 75 EKKSKIWKTTIEAVK 89 (104)
T ss_dssp ETTTTEEEEEEEEEE
T ss_pred HHhcccceeeEEEEE
Confidence 33 33344444443
No 47
>PRK15491 replication factor A; Provisional
Probab=92.03 E-value=0.81 Score=45.62 Aligned_cols=65 Identities=17% Similarity=0.259 Sum_probs=51.2
Q ss_pred ccceEEEEEEeCCCCeEEEC--CCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHH-hhcCCCCeEEEEEE
Q 021789 68 VANSVNLIGHVDAPVQFQTS--SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQ 136 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T--~sG--k~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a-~yLkKGD~V~VsGr 136 (307)
-++.|.|.|||..--++|.. .+| ..++++.|+ ++|--|++++|++.|+.+. .-|..|+.|.|.|.
T Consensus 66 ~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~----DeTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~ 135 (374)
T PRK15491 66 SSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVA----DETGSIRLTLWDDLADLIKTGDIEVGKSLNISGY 135 (374)
T ss_pred CCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEE----cCCCeEEEEEECchhhhhccCCcCCCCEEEEeee
Confidence 36999999999987666654 345 345566666 4677899999999999876 46999999999986
No 48
>cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS. These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh
Probab=91.96 E-value=3.1 Score=34.92 Aligned_cols=84 Identities=15% Similarity=0.303 Sum_probs=55.9
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhcCCCCeEEEEEEeeecCC---Cc
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPP---AI 144 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE--~~a~yLkKGD~V~VsGrL~s~sy---ed 144 (307)
..|.+.|+|.. +|. .|+ ++++.| +. .+..+.|++-.+..+ .....|+.||.|.|+|.+....- ..
T Consensus 15 ~~V~i~Gwv~~---~R~--~gk-~~Fi~L--rD--~~g~~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~~ 84 (135)
T cd04317 15 QEVTLCGWVQR---RRD--HGG-LIFIDL--RD--RYGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVNP 84 (135)
T ss_pred CEEEEEEeEeh---hcc--cCC-EEEEEE--ec--CCeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccCC
Confidence 35999999976 232 355 555555 22 234588887655332 23457999999999999987532 11
Q ss_pred C-CeEEEEEEEeEEEeeccC
Q 021789 145 E-GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 145 k-~rs~~eViVe~I~FL~~k 163 (307)
+ ....+||.|++|..|...
T Consensus 85 ~~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 85 KLPTGEIEVVASELEVLNKA 104 (135)
T ss_pred CCCCCcEEEEEeEEEEEECC
Confidence 1 233589999999999865
No 49
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=91.93 E-value=1 Score=45.15 Aligned_cols=80 Identities=14% Similarity=0.121 Sum_probs=61.3
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeE
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs 148 (307)
+-.|-+.|-|.. ++...+|- +||+|. ++..-|+|++|...+..+...++.|+.|.|.|++.... .+.
T Consensus 23 ~~~v~v~gEis~---~~~~~sGH--~Yf~Lk----d~~a~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~~y~----~~g 89 (438)
T PRK00286 23 LGQVWVRGEISN---FTRHSSGH--WYFTLK----DEIAQIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLYE----PRG 89 (438)
T ss_pred CCcEEEEEEeCC---CeeCCCCe--EEEEEE----cCCcEEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEEC----CCC
Confidence 456889999875 33335564 689987 33567999999999988888899999999999999853 234
Q ss_pred EEEEEEeEEEeec
Q 021789 149 NVQVMVHSLNLIE 161 (307)
Q Consensus 149 ~~eViVe~I~FL~ 161 (307)
.|+++|++|.-.+
T Consensus 90 ~~ql~v~~i~~~g 102 (438)
T PRK00286 90 DYQLIVEEIEPAG 102 (438)
T ss_pred CEEEEEEEeeeCC
Confidence 5788898887543
No 50
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=91.50 E-value=1.4 Score=44.97 Aligned_cols=80 Identities=19% Similarity=0.110 Sum_probs=64.7
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEE
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~ 150 (307)
.|.+.|-|.. ...+.|..|..+|.++|. +.+--+.|++|.++-+.+...|+.|..|.|+|++..+. ...
T Consensus 282 ~v~vaG~I~~-ik~~~TKkG~~maf~~le----D~tG~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~~------~~~ 350 (449)
T PRK07373 282 KVSAVVMLNE-VKKIVTKKGDPMAFLQLE----DLSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRRD------DQV 350 (449)
T ss_pred EEEEEEEEEE-eEecccCCCCEEEEEEEE----ECCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------CeE
Confidence 5788888875 777888899999888876 44667999999999999999999999999999997531 135
Q ss_pred EEEEeEEEeec
Q 021789 151 QVMVHSLNLIE 161 (307)
Q Consensus 151 eViVe~I~FL~ 161 (307)
+++|++|.-++
T Consensus 351 ~liv~~i~~l~ 361 (449)
T PRK07373 351 QLIVEDAEPIE 361 (449)
T ss_pred EEEEeEeecHh
Confidence 78888876554
No 51
>PRK15491 replication factor A; Provisional
Probab=91.46 E-value=0.9 Score=45.30 Aligned_cols=74 Identities=19% Similarity=0.186 Sum_probs=51.9
Q ss_pred cceEEEEEEeCCCCeEEEC--CCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE-EeeecCCCcC
Q 021789 69 ANSVNLIGHVDAPVQFQTS--SDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPAIE 145 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T--~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsG-rL~s~syedk 145 (307)
.+.|.++|+|..--++|.. .+|...-.+.+-+- ++|--|++++|++.|+.+ .-|..||.|+|.+ +.+.+.|.++
T Consensus 176 ~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~--DetG~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~~~~~g~ 252 (374)
T PRK15491 176 DSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIG--DETGKIRVTLWDGKTDLA-DKLENGDSVEIINGYARTNNYSQE 252 (374)
T ss_pred CccEEEEEEEEEccCceEEEecCCCeEEEEEEEEE--CCCCeEEEEEecchhccc-ccCCCCCEEEEEeceEEEeccCCC
Confidence 3459999999987665444 46764323333332 345459999999999986 6699999999966 6777666543
No 52
>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with
Probab=91.29 E-value=4.2 Score=31.34 Aligned_cols=81 Identities=19% Similarity=0.354 Sum_probs=51.3
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HHHhhcCCCCeEEEEEEeeecCCCcCCeE
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE--~~a~yLkKGD~V~VsGrL~s~syedk~rs 148 (307)
.|.|-|+|.. +|.. |+ ++++.| + +.+.-+.+++-.+... ...+.|..|+.|.|+|.+....-......
T Consensus 1 ~V~v~Gwv~~---~R~~--g~-~~Fi~L--r--D~~~~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~ 70 (84)
T cd04323 1 RVKVFGWVHR---LRSQ--KK-LMFLVL--R--DGTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAKQAPG 70 (84)
T ss_pred CEEEEEEEEE---EecC--CC-cEEEEE--E--cCCeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCcccCCCC
Confidence 3788899864 3332 44 344444 2 2234588877655322 23356999999999999987532111134
Q ss_pred EEEEEEeEEEeec
Q 021789 149 NVQVMVHSLNLIE 161 (307)
Q Consensus 149 ~~eViVe~I~FL~ 161 (307)
.+||.++++..|+
T Consensus 71 ~~Ei~~~~i~vl~ 83 (84)
T cd04323 71 GYELQVDYLEIIG 83 (84)
T ss_pred CEEEEEEEEEEEc
Confidence 5899999998875
No 53
>PRK07211 replication factor A; Reviewed
Probab=91.06 E-value=0.66 Score=47.95 Aligned_cols=66 Identities=21% Similarity=0.274 Sum_probs=48.7
Q ss_pred cceEEEEEEeCCCCeEEECC--CCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEE-EEeee
Q 021789 69 ANSVNLIGHVDAPVQFQTSS--DGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLTA 139 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~--sGk--~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~Vs-GrL~s 139 (307)
++.|.|+|+|..--++|... +|. .+..+.|+ ++|--|++++|++.|+.+ .-|..|+.|+|. |+++.
T Consensus 171 ~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~----DeTG~IR~TlW~d~Ad~~-~~le~G~Vv~I~~a~Vre 241 (485)
T PRK07211 171 LSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVG----DETGRVRVTLWDDRADLA-EELDAGESVEIVDGYVRE 241 (485)
T ss_pred CCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEE----cCCCeEEEEEechhhhhh-ccCCCCCEEEEEeeEEEe
Confidence 58899999999766666542 452 33344444 345569999999999997 679999999997 55554
No 54
>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=90.64 E-value=1.4 Score=31.63 Aligned_cols=60 Identities=12% Similarity=0.152 Sum_probs=39.1
Q ss_pred EEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 74 LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
+.|+|..- ...... |..+..+.+. +++--+.+++|+... .+.+.+++|+.++|.|++...
T Consensus 2 i~~~V~~~-~~~~~~-~~~~~~~~~~----D~~g~i~~~~F~~~~-~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 2 VEGTVVSV-EVVPRR-GRRRLKVTLS----DGTGTLTLVFFNFQP-YLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred EEEEEEEE-EeccCC-CccEEEEEEE----cCCCEEEEEEECCCH-HHHhcCCCCCEEEEEEEEeec
Confidence 45665432 222222 4555555554 346679999998432 456789999999999999864
No 55
>cd04316 ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes.
Probab=90.56 E-value=6.2 Score=31.92 Aligned_cols=81 Identities=11% Similarity=0.272 Sum_probs=54.3
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HH--HHHhhcCCCCeEEEEEEeeecCCCcCC
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIEG 146 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl--AE--~~a~yLkKGD~V~VsGrL~s~syedk~ 146 (307)
.|.+-|+|.+ +|. .|+ ++++.| + +.+..+.|++-.+. .+ .....|..|+.|.|+|.+.... +.
T Consensus 14 ~V~v~Gwv~~---~R~--~g~-~~Fi~L--r--D~~g~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~---~~ 80 (108)
T cd04316 14 EVTVAGWVHE---IRD--LGG-IKFVIL--R--DREGIVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEP---KA 80 (108)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEE--e--cCCeeEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCC---CC
Confidence 4889999965 333 355 555555 2 22446888887542 11 1335699999999999998753 22
Q ss_pred eEEEEEEEeEEEeeccCC
Q 021789 147 QANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 147 rs~~eViVe~I~FL~~k~ 164 (307)
...+||.|++|..+....
T Consensus 81 ~~~~Ei~~~~i~il~~~~ 98 (108)
T cd04316 81 PNGVEIIPEEIEVLSEAK 98 (108)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 235899999999998653
No 56
>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=90.56 E-value=1.5 Score=44.26 Aligned_cols=79 Identities=10% Similarity=0.143 Sum_probs=61.3
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeE
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs 148 (307)
+..|-+.|.|.. ++.-.+|- +||+|- ++.--|+|++|...|..+.-.++-|+.|.|.|++..... +-
T Consensus 17 ~~~v~V~GEisn---~~~~~sGH--~YFtLk----D~~a~i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~~y~~----~G 83 (432)
T TIGR00237 17 FLQVWIQGEISN---FTQPVSGH--WYFTLK----DENAQVRCVMFRGNNNRLKFRPQNGQQVLVRGGISVYEP----RG 83 (432)
T ss_pred CCcEEEEEEecC---CeeCCCce--EEEEEE----cCCcEEEEEEEcChhhCCCCCCCCCCEEEEEEEEEEECC----CC
Confidence 457889999875 33335664 689994 345679999999999888888999999999999997633 34
Q ss_pred EEEEEEeEEEee
Q 021789 149 NVQVMVHSLNLI 160 (307)
Q Consensus 149 ~~eViVe~I~FL 160 (307)
.|+++|++|.-.
T Consensus 84 ~~ql~v~~i~~~ 95 (432)
T TIGR00237 84 DYQIICFEMQPA 95 (432)
T ss_pred cEEEEEEEeccC
Confidence 588999988754
No 57
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=90.32 E-value=1.5 Score=49.70 Aligned_cols=82 Identities=18% Similarity=0.217 Sum_probs=66.0
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEE
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~ 149 (307)
..|.++|-|. ..+.+.|.+|+.++.++|. +.|--+.+++|.+.=+.+...|..|..|.|.|++..+. ..
T Consensus 978 ~~V~v~G~I~-~vk~~~TKkG~~mafltLe----D~TG~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~~------~~ 1046 (1135)
T PRK05673 978 SVVTVAGLVV-SVRRRVTKRGNKMAIVTLE----DLSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDD------GG 1046 (1135)
T ss_pred ceEEEEEEEE-EEEecccCCCCeEEEEEEE----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 4577778777 5888899999999988887 45667999999998778888999999999999997531 23
Q ss_pred EEEEEeEEEeecc
Q 021789 150 VQVMVHSLNLIEP 162 (307)
Q Consensus 150 ~eViVe~I~FL~~ 162 (307)
.+++|+++.-++.
T Consensus 1047 ~qlii~~I~~L~~ 1059 (1135)
T PRK05673 1047 LRLTAREVMDLEE 1059 (1135)
T ss_pred EEEEEeecccHHH
Confidence 5788888877653
No 58
>cd04321 ScAspRS_mt_like_N ScAspRS_mt_like_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae mitochondrial (mt) aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this fungal group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Mutations in the gene for
Probab=90.32 E-value=6.1 Score=30.76 Aligned_cols=83 Identities=12% Similarity=0.149 Sum_probs=51.2
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHH-HHHHhhcCCCCeEEEEEEeeecCCCcC-CeE
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIE-GQA 148 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklA-E~~a~yLkKGD~V~VsGrL~s~syedk-~rs 148 (307)
.|.|.|+|.+ +|.. .|+ ++++.| ++. ...=++|++-.+.. -...+.|..|+.|.|+|.+..+.-... ...
T Consensus 1 ~V~v~Gwv~~---~R~~-~~~-~~Fi~L--rD~-~g~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~~~~~~ 72 (86)
T cd04321 1 KVTLNGWIDR---KPRI-VKK-LSFADL--RDP-NGDIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKSSEKND 72 (86)
T ss_pred CEEEEEeEee---EeCC-CCc-eEEEEE--ECC-CCCEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcCCCCCC
Confidence 3778898876 3321 233 455555 221 12347777654432 123457999999999999998643221 224
Q ss_pred EEEEEEeEEEeec
Q 021789 149 NVQVMVHSLNLIE 161 (307)
Q Consensus 149 ~~eViVe~I~FL~ 161 (307)
.+||.|++|..|.
T Consensus 73 ~~Ei~~~~i~il~ 85 (86)
T cd04321 73 EWELVVDDIQTLN 85 (86)
T ss_pred CEEEEEEEEEEec
Confidence 5899999999875
No 59
>PRK14699 replication factor A; Provisional
Probab=90.19 E-value=0.83 Score=47.12 Aligned_cols=64 Identities=17% Similarity=0.284 Sum_probs=50.2
Q ss_pred cceEEEEEEeCCCCeEEEC--CCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHh-hcCCCCeEEEEEE
Q 021789 69 ANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASS-HLKKDDHVHIAGQ 136 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T--~sGk--~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~-yLkKGD~V~VsGr 136 (307)
+..|.|.|+|-.=-..|.+ .+|. .++++.|| ++|--|++++|.++|+.+.. .|++||.|.|.|.
T Consensus 67 ~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~ia----DeTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~ 135 (484)
T PRK14699 67 SGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVG----DETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY 135 (484)
T ss_pred CceEEEEEEEEEecCceEEecCCCCceEEEEEEEe----cCCCeEEEEEecCccchhhhcCCCCCCEEEEcce
Confidence 5789999999886555544 2343 34455555 67889999999999998777 6999999999996
No 60
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=89.54 E-value=2.6 Score=41.24 Aligned_cols=64 Identities=14% Similarity=0.079 Sum_probs=50.2
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
.|..+. |.++.+++.+.+|+++..++|+ +.|--|+..+|+..-+. ...+..|+.|.|.|++...
T Consensus 13 ~v~~~~-lv~~~~~~~~knG~~yl~l~l~----D~tG~I~ak~W~~~~~~-~~~~~~g~vv~v~G~v~~y 76 (314)
T PRK13480 13 QVDHFL-LIKSATKGVASNGKPFLTLILQ----DKSGDIEAKLWDVSPED-EATYVPETIVHVKGDIINY 76 (314)
T ss_pred EeeEEE-EEEEceeeecCCCCeEEEEEEE----cCCcEEEEEeCCCChhh-HhhcCCCCEEEEEEEEEEE
Confidence 344444 4567899999999998888887 45667999999976444 6679999999999999753
No 61
>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein
Probab=89.40 E-value=7.3 Score=31.44 Aligned_cols=77 Identities=16% Similarity=0.203 Sum_probs=50.8
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HHH---HHhhcCCCCeEEEEEEeeecCCCcCC
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHI---ASSHLKKDDHVHIAGQLTADPPAIEG 146 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl--AE~---~a~yLkKGD~V~VsGrL~s~syedk~ 146 (307)
|.|-|+|-. +|. .|+ ++.+.|.- .+.-++|++-.+. .+. +.+.|..||.|.|+|.+....-
T Consensus 2 v~v~GwV~~---~R~--~g~-~~Fi~lrd----~~~~lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~v~~~~~---- 67 (108)
T cd04322 2 VSVAGRIMS---KRG--SGK-LSFADLQD----ESGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKTKT---- 67 (108)
T ss_pred EEEEEEEEE---Eec--CCC-eEEEEEEE----CCeEEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEecCC----
Confidence 678888875 443 355 55554442 3456888876442 122 2223999999999999986421
Q ss_pred eEEEEEEEeEEEeeccC
Q 021789 147 QANVQVMVHSLNLIEPT 163 (307)
Q Consensus 147 rs~~eViVe~I~FL~~k 163 (307)
..+||.++++..+++.
T Consensus 68 -g~~El~~~~~~ils~~ 83 (108)
T cd04322 68 -GELSIFVKEFTLLSKS 83 (108)
T ss_pred -CCEEEEeCEeEEeecc
Confidence 2379999999999754
No 62
>PRK12366 replication factor A; Reviewed
Probab=89.26 E-value=3.3 Score=44.07 Aligned_cols=81 Identities=20% Similarity=0.175 Sum_probs=54.6
Q ss_pred ceEEEEEEeCCCCeEEECC--CCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE-EeeecCCCcC-
Q 021789 70 NSVNLIGHVDAPVQFQTSS--DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPAIE- 145 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~--sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsG-rL~s~syedk- 145 (307)
+.+.|.|||..--++|... +|. .-.|++.+.. +|-=|++++|++.|+.... |..||.|+|+| +++ .|...
T Consensus 292 ~~~~I~grV~~~~~~R~f~~~~g~-gkv~s~~l~D--~tG~IR~t~w~~~~d~~~~-l~~G~vy~is~~~vk--~y~~~~ 365 (637)
T PRK12366 292 EEVDVKGRIIAISDKREVERDDRT-AEVQDIELAD--GTGRVRVSFWGEKAKILEN-LKEGDAVKIENCKVR--TYYDNE 365 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCc-EEEEEEEEEc--CCCeEEEEEeCchhhhhcc-cCCCCEEEEecCEEe--eccccC
Confidence 4899999999988887763 444 2234444433 3345999999999998765 78999999998 444 34322
Q ss_pred CeEEEEEEEeE
Q 021789 146 GQANVQVMVHS 156 (307)
Q Consensus 146 ~rs~~eViVe~ 156 (307)
+...|++.+..
T Consensus 366 ~~~~~El~~~~ 376 (637)
T PRK12366 366 GEKRVDLNAGY 376 (637)
T ss_pred CCcCEEEEcCC
Confidence 33345555543
No 63
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=88.72 E-value=1.7 Score=39.89 Aligned_cols=90 Identities=10% Similarity=0.125 Sum_probs=63.0
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC-
Q 021789 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE- 145 (307)
Q Consensus 67 ~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk- 145 (307)
.-+|.|-++|.|+.-+-+-. ..-+.+++|+ ++.-++|+-.--+..=|-.+.+-+.++|.|+|.|++++. +++
T Consensus 43 ~k~nRifivGtltek~~i~e---d~~~~R~rVv--DpTGsF~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~~y--~~d~ 115 (196)
T COG3390 43 LKVNRIFIVGTLTEKEGIGE---DREYWRIRVV--DPTGSFYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIRTY--RTDE 115 (196)
T ss_pred hheeEEEEEEEEEeccCcCC---cccEEEEEEe--cCCceEEEEcCCCChHHHHHHHhccCCceEEEeccccee--ecCC
Confidence 34899999999998655511 1345666666 223346764445555677788899999999999998764 444
Q ss_pred CeEEEEEEEeEEEeeccC
Q 021789 146 GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 146 ~rs~~eViVe~I~FL~~k 163 (307)
+...+.|.++.|.-++..
T Consensus 116 g~~~~siRpE~vs~vde~ 133 (196)
T COG3390 116 GVVLFSIRPELVSKVDEE 133 (196)
T ss_pred CceEEEechhhhhhcCHH
Confidence 767777778877777543
No 64
>PRK08402 replication factor A; Reviewed
Probab=88.66 E-value=1.6 Score=43.43 Aligned_cols=72 Identities=13% Similarity=0.114 Sum_probs=51.7
Q ss_pred cceEEEEEEeCCCCeEEEC--CCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 021789 69 ANSVNLIGHVDAPVQFQTS--SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T--~sG--k~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syed 144 (307)
+..|.++|+|..--+.|.. .+| ..|.+..|+ ++|-.+++++|++.|+.....+..||.|.|.|--..+.|.+
T Consensus 72 ~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~----DeTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a~V~e~~~G 147 (355)
T PRK08402 72 MRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIY----DDTGRARVVLWDAKVAKYYNKINVGDVIKVIDAQVRESLSG 147 (355)
T ss_pred CceeeEEEEEEEccCCceeeccCCCcceEEEEEEE----cCCCeEEEEEechhhhhhcccCCCCCEEEEECCEEeecCCC
Confidence 5889999999975333322 344 345566666 56779999999999987666799999999985444444443
No 65
>cd04319 PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Pyrococcus horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The archeal enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose.
Probab=88.29 E-value=12 Score=30.03 Aligned_cols=81 Identities=23% Similarity=0.327 Sum_probs=52.8
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH---HHhhcCCCCeEEEEEEeeecCCCcCCe
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI---ASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~---~a~yLkKGD~V~VsGrL~s~syedk~r 147 (307)
.|.+.|+|.+ +|. .|+. +.+.| ++ .+..+.|++-.++++. ....|..||.|.|+|.+.... +..
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--VGKK-AFIVL--RD--STGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADP---RAP 67 (103)
T ss_pred CEEEEEEEEe---EEc--CCCe-EEEEE--ec--CCeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECC---CCC
Confidence 3788899965 332 3553 44434 22 3345888886543222 224688999999999998752 222
Q ss_pred EEEEEEEeEEEeeccCC
Q 021789 148 ANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 148 s~~eViVe~I~FL~~k~ 164 (307)
..+||.|+++..++...
T Consensus 68 ~~~Ei~~~~i~vl~~a~ 84 (103)
T cd04319 68 GGAEVHGEKLEIIQNVE 84 (103)
T ss_pred CCEEEEEEEEEEEecCC
Confidence 35899999999998653
No 66
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=86.85 E-value=3.3 Score=46.87 Aligned_cols=80 Identities=15% Similarity=0.125 Sum_probs=64.8
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEE
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~ 150 (307)
.|.+.|-|.. ...+.|..|+.+|.++|. +.|.-+.|++|.+.-+.+...|..|..|.|+|++..+ . ...
T Consensus 945 ~v~v~g~i~~-~~~~~tk~g~~maf~~le----D~tg~~e~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~--~----~~~ 1013 (1107)
T PRK06920 945 VQRAIVYITS-VKVIRTKKGQKMAFITFC----DQNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELR--N----HKL 1013 (1107)
T ss_pred EEEEEEEEEE-eEeecCCCCCeEEEEEEe----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec--C----CcE
Confidence 5788888874 667788899999888776 4566799999999989999999999999999999764 1 135
Q ss_pred EEEEeEEEeec
Q 021789 151 QVMVHSLNLIE 161 (307)
Q Consensus 151 eViVe~I~FL~ 161 (307)
+++|++|.-+.
T Consensus 1014 ~~~~~~i~~l~ 1024 (1107)
T PRK06920 1014 QWIVNGLYPLE 1024 (1107)
T ss_pred EEEEeecccHH
Confidence 78888886664
No 67
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=86.60 E-value=5.7 Score=46.22 Aligned_cols=73 Identities=19% Similarity=0.127 Sum_probs=58.0
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHH--HHHHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA--HIASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklA--E~~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
-.+.|.+.|.|- +.|.|.+.+|+.+..|.|. +.|+-|.|..|.+-. ......+++|+.|.|.|++..+.|..+
T Consensus 235 ~~~~v~i~G~if-~~e~~~~k~~~~~~~~~~t----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~~~~ 309 (1437)
T PRK00448 235 EERRVVVEGYVF-KVEIKELKSGRHILTFKIT----DYTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTFTRD 309 (1437)
T ss_pred cCCeEEEEEEEE-EEEEEeccCCCEEEEEEEE----cCCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCCCCc
Confidence 358999999996 5899999999988777775 456778888887322 123456999999999999999999765
No 68
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=86.43 E-value=4.2 Score=46.26 Aligned_cols=82 Identities=13% Similarity=0.137 Sum_probs=65.0
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEE
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~ 150 (307)
.|.+.|-|.. .+.+.|..|..+|.++|. +.+--+.|++|.+.-+.+...|..|..|.|+|++..+. + ...
T Consensus 993 ~v~v~g~i~~-~~~~~tk~G~~maf~~le----D~~g~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~---~--~~~ 1062 (1151)
T PRK06826 993 KVIIGGIITE-VKRKTTRNNEMMAFLTLE----DLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE---D--EEP 1062 (1151)
T ss_pred EEEEEEEEEE-eEeeccCCCCeEEEEEEE----ECCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC---C--Cce
Confidence 5777787774 777788899999888887 44567999999999888899999999999999997542 1 135
Q ss_pred EEEEeEEEeecc
Q 021789 151 QVMVHSLNLIEP 162 (307)
Q Consensus 151 eViVe~I~FL~~ 162 (307)
+++|+++.-+..
T Consensus 1063 ~~~~~~~~~l~~ 1074 (1151)
T PRK06826 1063 KLICEEIEPLVI 1074 (1151)
T ss_pred EEEEeeeecHhh
Confidence 788888866653
No 69
>PRK12366 replication factor A; Reviewed
Probab=86.02 E-value=2.5 Score=44.96 Aligned_cols=63 Identities=22% Similarity=0.255 Sum_probs=48.9
Q ss_pred cceEEEEEEeCCCCeEEEC--CCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEE
Q 021789 69 ANSVNLIGHVDAPVQFQTS--SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T--~sG--k~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGr 136 (307)
++.|.|.|||..--++|.. .+| ..++.+.|+ ++|--|++++|++.|+. ...|..||.|.|.|.
T Consensus 73 ~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~----DetG~Ir~t~W~~~~~~-~~~le~G~v~~i~~~ 139 (637)
T PRK12366 73 QINVEITGRIIEISNIKTFTRKDGSTGKLANITIA----DNTGTIRLTLWNDNAKL-LKGLKEGDVIKIENA 139 (637)
T ss_pred CcceEEEEEEEEccCCeEEECCCCCccEEEEEEEE----cCCCEEEEEEEchhhhh-hccCCCCCEEEEecc
Confidence 6889999999877666544 444 345566666 35557999999999986 578999999999985
No 70
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=85.44 E-value=5 Score=45.74 Aligned_cols=81 Identities=15% Similarity=0.123 Sum_probs=65.2
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEE
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~ 149 (307)
..|.++|-|.. ...+.|..|..+|.++|. +.+--+.|++|.+.=+.+...|..|..|.|+|++..+. ..
T Consensus 1001 ~~v~v~g~i~~-~k~~~Tk~G~~maf~~le----D~tg~~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~~------~~ 1069 (1170)
T PRK07374 1001 AKVSAIAMIPE-MKQVTTRKGDRMAILQLE----DLTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRD------DR 1069 (1170)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEE----ECCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 35888888874 677788899999888776 45667999999999999999999999999999997541 13
Q ss_pred EEEEEeEEEeec
Q 021789 150 VQVMVHSLNLIE 161 (307)
Q Consensus 150 ~eViVe~I~FL~ 161 (307)
.+++|+++.-+.
T Consensus 1070 ~~~~~~~i~~l~ 1081 (1170)
T PRK07374 1070 VQLIIDDCREID 1081 (1170)
T ss_pred EEEEEeeeecHh
Confidence 578888886654
No 71
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=84.81 E-value=3.5 Score=42.23 Aligned_cols=78 Identities=12% Similarity=0.128 Sum_probs=61.1
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeE
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs 148 (307)
+-.|-+-|-|.. ++.-.+| -.+|+|- ++.--|+|++|...+..+.--++-|+.|.|.|++.... ++.
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 456778887775 3333566 4678875 45678999999999999888899999999999999863 455
Q ss_pred EEEEEEeEEEe
Q 021789 149 NVQVMVHSLNL 159 (307)
Q Consensus 149 ~~eViVe~I~F 159 (307)
.|+|+++++..
T Consensus 90 ~YQi~~~~~~p 100 (440)
T COG1570 90 DYQIVAESMEP 100 (440)
T ss_pred ceEEEEecCCc
Confidence 78999998874
No 72
>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=84.58 E-value=9.1 Score=43.86 Aligned_cols=71 Identities=11% Similarity=0.074 Sum_probs=57.4
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHHHHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl---AE~~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
.+.|.+.|.|- +.|.+.+.+|+.+..|.|. +.|+-|.|..|.+. .+. ...+++|+.|.|.|.+..++|..+
T Consensus 7 ~~~~~~~g~i~-~~~~~~~~~~~~~~~~~~~----d~~~s~~~k~f~~~~~~~~~-~~~~~~g~~~~~~g~~~~d~~~~~ 80 (1213)
T TIGR01405 7 ENRVKIEGYIF-KIEIKELKSGRTLLKIKVT----DYTDSLILKKFLKSEEDPEK-FDGIKIGKWVRARGKIELDNFSRD 80 (1213)
T ss_pred CCeEEEEEEEE-EEEeEeccCCCEEEEEEEE----cCCCCEEEEEecccccchHH-HhhcCCCcEEEEEEEEeccCCCCc
Confidence 68899999996 5889999999988777776 45778888888742 233 356999999999999999998754
No 73
>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=83.48 E-value=9.4 Score=29.67 Aligned_cols=77 Identities=18% Similarity=0.098 Sum_probs=50.2
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH---HHHhhcCCCCeEEEEEEeeecCCCcCCeE
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE---~~a~yLkKGD~V~VsGrL~s~syedk~rs 148 (307)
|.++|.|.. .+.+ +. ...++|. +.|--|.+.+|..-.+ ...+.+..|+.|.|.|+++... +
T Consensus 2 v~~vG~V~~-~~~~----~~-~~~~tL~----D~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~--g---- 65 (95)
T cd04478 2 VTLVGVVRN-VEEQ----ST-NITYTID----DGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQ--G---- 65 (95)
T ss_pred EEEEEEEEe-eeEc----cc-EEEEEEE----CCCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccC--C----
Confidence 678888875 3322 22 2344444 3455699999987653 3577899999999999997653 2
Q ss_pred EEEEEEeEEEeeccCC
Q 021789 149 NVQVMVHSLNLIEPTS 164 (307)
Q Consensus 149 ~~eViVe~I~FL~~k~ 164 (307)
..+|.+..+..++..+
T Consensus 66 ~~ql~i~~i~~v~d~n 81 (95)
T cd04478 66 KKSIMAFSIRPVTDFN 81 (95)
T ss_pred eeEEEEEEEEEeCCcc
Confidence 2355566666666544
No 74
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=83.31 E-value=12 Score=30.13 Aligned_cols=79 Identities=14% Similarity=0.117 Sum_probs=51.5
Q ss_pred EEEEe-CCCCeE-EECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEEE
Q 021789 74 LIGHV-DAPVQF-QTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (307)
Q Consensus 74 LIGrL-g~DPEl-r~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~e 151 (307)
|.|.| ..=|+. ..+.+|=..-.|.|- ..+..+..+.+.+||+.++.+. .++.||.|.|+=.|+.+.|. ++....
T Consensus 2 i~Gkii~~l~~~~g~s~~Gw~Kre~Vle-t~~qYP~~i~f~~~~dk~~~l~-~~~~Gd~V~Vsf~i~~RE~~--gr~fn~ 77 (84)
T PF11325_consen 2 ITGKIIKVLPEQQGVSKNGWKKREFVLE-TEEQYPQKICFEFWGDKIDLLD-NFQVGDEVKVSFNIEGREWN--GRWFNS 77 (84)
T ss_pred cccEEEEEecCcccCcCCCcEEEEEEEe-CCCcCCceEEEEEEcchhhhhc-cCCCCCEEEEEEEeeccEec--ceEeeE
Confidence 34552 333333 344577222234444 3345678999999998887744 57999999999999999997 444445
Q ss_pred EEEeE
Q 021789 152 VMVHS 156 (307)
Q Consensus 152 ViVe~ 156 (307)
|.|=.
T Consensus 78 i~aWr 82 (84)
T PF11325_consen 78 IRAWR 82 (84)
T ss_pred eEEEE
Confidence 55433
No 75
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=81.66 E-value=9 Score=40.62 Aligned_cols=67 Identities=15% Similarity=0.058 Sum_probs=51.9
Q ss_pred cceEEEEEEeCCCCeEEECC--CC-cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE-Eeee
Q 021789 69 ANSVNLIGHVDAPVQFQTSS--DG-KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTA 139 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~--sG-k~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsG-rL~s 139 (307)
.+.++|.|||.+--++|... +| ..+..+.|+ + ++.=|++++|++.|+.....|+.|+.++|++ +++.
T Consensus 190 ~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~-D---egg~Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~ 260 (608)
T TIGR00617 190 QNKWTIKARVTNKSEIRTWSNARGEGKLFNVELL-D---ESGEIRATAFNEQADKFYDIIQEGKVYYISKGSLKP 260 (608)
T ss_pred CCceEEEEEEEeccccceecCCCCCceeeEEEEe-c---CCCeEEEEECchHHHHHhhhcccCCEEEECceEEEE
Confidence 47899999999988887653 32 234444443 2 5678999999999999999999999999966 5554
No 76
>PRK14699 replication factor A; Provisional
Probab=80.23 E-value=4.4 Score=41.89 Aligned_cols=83 Identities=16% Similarity=0.186 Sum_probs=56.9
Q ss_pred cceEEEEEEeCCCCeEEEC--CCCc--EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEE-EeeecCCC
Q 021789 69 ANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPA 143 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T--~sGk--~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsG-rL~s~sye 143 (307)
+..|++.|+|..--+.|.. .+|. .+..+.|+ ++|--|++++|++.|+ +..-|..||.|.|.| ..+.+.|.
T Consensus 176 ~~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~ig----DeTG~ir~tlW~~~a~-~~~~l~~Gd~v~I~~a~vr~~~~~ 250 (484)
T PRK14699 176 MGDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLG----DETGTLRVTLWDDKTD-FLNQIEYGDTVELINAYARENAFT 250 (484)
T ss_pred CCceEEEEEEEeccCceEEecCCCCceEEEEEEEE----cCCceEEEEEECcccc-cccccCCCCEEEEecceEeecccC
Confidence 4569999999988777654 3563 35555555 6788999999999886 444599999999865 45555453
Q ss_pred cCCeEEEEEEEeEEEee
Q 021789 144 IEGQANVQVMVHSLNLI 160 (307)
Q Consensus 144 dk~rs~~eViVe~I~FL 160 (307)
+ .+++.+.+...+
T Consensus 251 ~----~~el~~~~~s~i 263 (484)
T PRK14699 251 Q----KVELQVGNRSII 263 (484)
T ss_pred C----ceEEEecCceEe
Confidence 2 344544444433
No 77
>PLN02850 aspartate-tRNA ligase
Probab=79.44 E-value=18 Score=37.90 Aligned_cols=84 Identities=14% Similarity=0.220 Sum_probs=54.4
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHH---HHhhcCCCCeEEEEEEeeecCCC
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHI---ASSHLKKDDHVHIAGQLTADPPA 143 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl---AE~---~a~yLkKGD~V~VsGrL~s~sye 143 (307)
..|.|.|||.. +| ..|+ ++.+.|- + .+..|+|++-.+. .+. .+..|..||.|.|+|.+....-.
T Consensus 82 ~~V~v~Grv~~---~R--~~gk-~~Fl~Lr-d---~~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~ 151 (530)
T PLN02850 82 SEVLIRGRVHT---IR--GKGK-SAFLVLR-Q---SGFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKKP 151 (530)
T ss_pred CEEEEEEEEEE---Ec--cCCC-eEEEEEE-e---CCcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccCcC
Confidence 57888999964 22 2466 5555443 2 2446888876442 122 24679999999999999853211
Q ss_pred cC-CeEEEEEEEeEEEeeccC
Q 021789 144 IE-GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 144 dk-~rs~~eViVe~I~FL~~k 163 (307)
-+ ....++|.|++|..|...
T Consensus 152 ~~~~t~~~El~~~~i~vls~a 172 (530)
T PLN02850 152 VKGTTQQVEIQVRKIYCVSKA 172 (530)
T ss_pred CCCCCccEEEEEeEEEEEeCC
Confidence 12 112799999999988765
No 78
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=79.38 E-value=12 Score=42.33 Aligned_cols=81 Identities=7% Similarity=0.178 Sum_probs=62.9
Q ss_pred ceEEEEEEeCCCCeEEECC-CCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeE
Q 021789 70 NSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~-sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs 148 (307)
..+.++|.|.. .....|. .|+.++.++|. +.+.-+.|++|.+.-+.+...|..|..|.|+|++..+. .
T Consensus 885 ~~~~~~~~i~~-~~~~~tk~~g~~maf~~le----D~~g~ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~~------~ 953 (1034)
T PRK07279 885 SEATILVQIQS-IRVIRTKTKGQQMAFLSVT----DTKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQERD------G 953 (1034)
T ss_pred CcceEEEEEEE-EEEEEEcCCCCeEEEEEEe----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------C
Confidence 45788898875 5555566 89888888776 44567999999998888889999999999999997641 1
Q ss_pred EEEEEEeEEEeec
Q 021789 149 NVQVMVHSLNLIE 161 (307)
Q Consensus 149 ~~eViVe~I~FL~ 161 (307)
..+++|+++.-+.
T Consensus 954 ~~~l~~~~i~~l~ 966 (1034)
T PRK07279 954 RLQMVLQQIQEAS 966 (1034)
T ss_pred eeEEEEeeeeccc
Confidence 3577888886654
No 79
>PLN02903 aminoacyl-tRNA ligase
Probab=79.05 E-value=31 Score=37.24 Aligned_cols=84 Identities=18% Similarity=0.295 Sum_probs=54.9
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH-HH--HHHhhcCCCCeEEEEEEeeecCCC---
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AH--IASSHLKKDDHVHIAGQLTADPPA--- 143 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl-AE--~~a~yLkKGD~V~VsGrL~s~sye--- 143 (307)
..|+|.|+|.+ +|. .|+ ++.+.| .+ .+..++|++-.+. .+ ..++.|+.|+.|.|+|.+..+.-.
T Consensus 73 k~V~l~GWV~~---~R~--~G~-l~FidL-RD---~~G~iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V~~r~~~~~n 142 (652)
T PLN02903 73 SRVTLCGWVDL---HRD--MGG-LTFLDV-RD---HTGIVQVVTLPDEFPEAHRTANRLRNEYVVAVEGTVRSRPQESPN 142 (652)
T ss_pred CEEEEEEEEEE---Eec--CCC-cEEEEE-Ec---CCccEEEEEeCCccHHHHHHHhcCCCCCEEEEEEEEEeCCCcCcC
Confidence 36999999965 333 244 344444 22 2335788886442 22 234679999999999999875321
Q ss_pred cC-CeEEEEEEEeEEEeeccC
Q 021789 144 IE-GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 144 dk-~rs~~eViVe~I~FL~~k 163 (307)
.+ ..-.+||.|++|..|...
T Consensus 143 ~~~~tGeiEl~~~~i~VL~~a 163 (652)
T PLN02903 143 KKMKTGSVEVVAESVDILNVV 163 (652)
T ss_pred CCCCCCCEEEEEeEEEEEecC
Confidence 12 223589999999999865
No 80
>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).
Probab=78.89 E-value=22 Score=35.99 Aligned_cols=82 Identities=12% Similarity=0.214 Sum_probs=53.6
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHH---HHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk-lAE~---~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
..|.|.|+|.+ +| ..|+ ++.+.|- + .+.-|+|++-.+ .++. ....|..||.|.|+|.+.... .
T Consensus 13 ~~v~i~G~v~~---~R--~~g~-~~Fi~lr-d---~~g~iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~---~ 79 (428)
T TIGR00458 13 QEVTFMGWVHE---IR--DLGG-LIFVLLR-D---REGLIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKE---K 79 (428)
T ss_pred CEEEEEEEEEE---Ee--cCCC-cEEEEEE-e---CCeeEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecC---C
Confidence 56889999954 22 2455 4444443 2 233588877643 2111 235699999999999998542 1
Q ss_pred CeEEEEEEEeEEEeeccCC
Q 021789 146 GQANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 146 ~rs~~eViVe~I~FL~~k~ 164 (307)
....++|.|+++..|....
T Consensus 80 ~~~~~el~~~~i~vl~~~~ 98 (428)
T TIGR00458 80 APGGFEIIPTKIEVINEAK 98 (428)
T ss_pred CCCcEEEEEeEEEEEecCC
Confidence 2245899999999998653
No 81
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=78.81 E-value=11 Score=42.50 Aligned_cols=79 Identities=14% Similarity=0.145 Sum_probs=61.1
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEE
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~ 150 (307)
.|.+.|-+.. .+.+.|..| ++.++|. +.|.-+.|++|.++-+.+...|+.|..|.|+|+++.+ ++ .+
T Consensus 955 ~v~v~g~i~~-~~~~~TkkG--maf~~le----D~~g~~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~----~~--~~ 1021 (1046)
T PRK05672 955 RVRVAGVVTH-RQRPGTASG--VTFLTLE----DETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNA----EG--VR 1021 (1046)
T ss_pred EEEEEEEEEE-EEEecCCCc--eEEEEEe----cCCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CC--eE
Confidence 4667676664 666678888 6666665 5677899999999999999999999999999999754 12 25
Q ss_pred EEEEeEEEeecc
Q 021789 151 QVMVHSLNLIEP 162 (307)
Q Consensus 151 eViVe~I~FL~~ 162 (307)
+++|++|.-++.
T Consensus 1022 ~~~~~~i~~~~~ 1033 (1046)
T PRK05672 1022 HLVADRLEDLSP 1033 (1046)
T ss_pred EEEEeeeechHH
Confidence 788888866543
No 82
>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=78.77 E-value=11 Score=32.08 Aligned_cols=76 Identities=14% Similarity=0.026 Sum_probs=50.8
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
.-..|.+||=|..-...+.+.+....+.++|.=.......=+.|.+|++.++.+-. +..||.|.+.+ ++...|.++
T Consensus 13 ~~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~~~~l~v~~F~~~~~~LP~-v~~GDVIll~~-~kv~~~~g~ 88 (138)
T cd04497 13 SGGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNEESLPI-VKVGDIILLRR-VKIQSYNGK 88 (138)
T ss_pred cCCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCCCCcEEEEEECCChhhCCC-CCCCCEEEEEE-EEEEEECCc
Confidence 34567888888765555555444455555554211111356999999999998765 49999999987 666666554
No 83
>cd04318 EcAsnRS_like_N EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial
Probab=77.69 E-value=29 Score=26.41 Aligned_cols=77 Identities=13% Similarity=0.262 Sum_probs=47.7
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCee--EEEEEeccHH-HHHHhhcCCCCeEEEEEEeeecCCCcCCeE
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLW--IPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~w--I~Vv~wGklA-E~~a~yLkKGD~V~VsGrL~s~syedk~rs 148 (307)
|.+-|+|.. +|. .|+ +++..| ++ .+.. ++|++-.+.. -...+.|..||.|.|+|.+....- ...
T Consensus 2 v~v~Gwv~~---~R~--~g~-~~Fi~L--rD--~s~~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~---~~~ 68 (82)
T cd04318 2 VTVNGWVRS---VRD--SKK-ISFIEL--ND--GSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG---AKQ 68 (82)
T ss_pred EEEEEeEEE---EEc--CCc-EEEEEE--EC--CCCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC---CCC
Confidence 677888843 333 344 333333 22 2333 7777754422 123467999999999999987532 124
Q ss_pred EEEEEEeEEEeec
Q 021789 149 NVQVMVHSLNLIE 161 (307)
Q Consensus 149 ~~eViVe~I~FL~ 161 (307)
.+||.++++..+.
T Consensus 69 ~~El~~~~i~il~ 81 (82)
T cd04318 69 PFELQAEKIEVLG 81 (82)
T ss_pred CEEEEEEEEEEec
Confidence 6899999988764
No 84
>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=77.53 E-value=9.1 Score=32.78 Aligned_cols=74 Identities=11% Similarity=0.052 Sum_probs=54.4
Q ss_pred cceEEEEEEeCCCCeE--EECCCCcEEEEEEEEEcCCCC--C---eeEEEEEeccHHHHHHhhcCC-CCeEEEEEEeeec
Q 021789 69 ANSVNLIGHVDAPVQF--QTSSDGKHWAGTVIVQHAASH--S---LWIPILFEGDLAHIASSHLKK-DDHVHIAGQLTAD 140 (307)
Q Consensus 69 ~N~V~LIGrLg~DPEl--r~T~sGk~va~fsLAv~~~~~--T---~wI~Vv~wGklAE~~a~yLkK-GD~V~VsGrL~s~ 140 (307)
-..|.+||=|...-.. +.+.++...+.++| ++.... . ..+.|.+|.+..+.+-. ++. ||.|.+. |++..
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 4478888888766555 66666788888888 454222 2 78999999888887764 566 9988777 78888
Q ss_pred CCCcC
Q 021789 141 PPAIE 145 (307)
Q Consensus 141 syedk 145 (307)
.|.++
T Consensus 89 ~~~~~ 93 (146)
T PF02765_consen 89 SYNGK 93 (146)
T ss_dssp EETTE
T ss_pred EECCE
Confidence 88766
No 85
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=77.23 E-value=21 Score=36.74 Aligned_cols=81 Identities=17% Similarity=0.255 Sum_probs=56.4
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEec-cHHHHH--HhhcCCCCeEEEEEEeeecCCCcCC
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLAHIA--SSHLKKDDHVHIAGQLTADPPAIEG 146 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wG-klAE~~--a~yLkKGD~V~VsGrL~s~syedk~ 146 (307)
-.|.|-|.|-.- | ..|+ ++. |.++ +.|.+++|++-. +..+.+ +.+|..++-|.|+|.+.-..- .
T Consensus 17 ~~V~v~GWV~~~---R--~~g~-i~F--i~lr--Dgsg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~~---a 83 (435)
T COG0017 17 QEVTVRGWVHNK---R--DLGK-IIF--LVLR--DGSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASPK---A 83 (435)
T ss_pred cEEEEEEEeeee---c--ccCC-eEE--EEEE--cCCcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCCC---C
Confidence 578888888652 2 2355 433 3333 346679999974 233222 568999999999999986532 4
Q ss_pred eEEEEEEEeEEEeeccC
Q 021789 147 QANVQVMVHSLNLIEPT 163 (307)
Q Consensus 147 rs~~eViVe~I~FL~~k 163 (307)
...+||.|++|..+...
T Consensus 84 ~~g~El~v~~i~Vl~~a 100 (435)
T COG0017 84 PQGFELQVEKIEVLGEA 100 (435)
T ss_pred CCCEEEEEEEEEEeecc
Confidence 46789999999999876
No 86
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=75.27 E-value=32 Score=36.26 Aligned_cols=181 Identities=13% Similarity=0.147 Sum_probs=93.5
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEe--ccHHHHH---HhhcCCCCeEEEEEEeeecCCCc
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFE--GDLAHIA---SSHLKKDDHVHIAGQLTADPPAI 144 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~w--GklAE~~---a~yLkKGD~V~VsGrL~s~syed 144 (307)
..|.|.|+|.. +|. .|+ ++.+.|- + .+..|+|++- +...+.+ +..|..|+.|.|+|.+....-..
T Consensus 79 ~~V~v~Grv~~---~R~--~Gk-~~Fl~LR-d---~~~~iQ~v~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~ 148 (550)
T PTZ00401 79 KTVLIRARVST---TRK--KGK-MAFMVLR-D---GSDSVQAMAAVEGDVPKEMIDFIGQIPTESIVDVEATVCKVEQPI 148 (550)
T ss_pred CEEEEEEEEEE---Eec--CCC-eEEEEEE-e---CCcCEEEEEECCCccCHHHHHHHhcCCCCCEEEEEEEEEecCccC
Confidence 45899999964 332 355 3444443 2 3346887763 2232322 34599999999999998753221
Q ss_pred -C-CeEEEEEEEeEEEeeccCCcccccccccccccccccccccc---------------cc---cccCCcchhhhhHHHh
Q 021789 145 -E-GQANVQVMVHSLNLIEPTSQKRMFFVSKKQEAATVDHSVKI---------------SS---SKKDGDSALSSWRDLL 204 (307)
Q Consensus 145 -k-~rs~~eViVe~I~FL~~k~~~~~~~~~~~~~~~~~~~~~~~---------------~~---~~~~~~~~~~~W~~~~ 204 (307)
. ....++|.|++|..|...... .++...+...+........ .. --+.+.....+.++||
T Consensus 149 ~~~~~~~~El~v~~i~vls~a~~~-lP~~~~d~~~~~~~~~~~~~~dtrl~~R~LdlR~~~~~~i~r~rs~i~~~~R~fl 227 (550)
T PTZ00401 149 TSTSHSDIELKVKKIHTVTESLRT-LPFTLEDASRKESDEGAKVNFDTRLNSRWMDLRTPASGAIFRLQSRVCQYFRQFL 227 (550)
T ss_pred CCCCCccEEEEeeEEEEEeCCCCC-CCCCcccccccccccccccChhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 1 445699999999999865321 1111111111111110000 00 0000012234466666
Q ss_pred cCCCccccccccccCCC-CCCCCCCCcCCCCCcceecCCCChhHHhhcccccCCCCCCc
Q 021789 205 DNPEQWRDYRSDKLKGL-VKPRYPDFKRKDGTLPLWLNSAPDWVLSELEGVVFDKSKPV 262 (307)
Q Consensus 205 ~np~~wwDnR~~K~n~~-~~pk~pDFk~k~~~~aLWl~~~P~wv~~~L~~l~~~~~~~~ 262 (307)
.+= ...---.-+.-+. .-+-.-.|+-..-|..++|..+|--.+..|-...|+..+..
T Consensus 228 ~~~-gFiEV~TP~L~~~~~egga~~F~v~yf~~~~~L~qSpql~kq~li~~g~~rVfeI 285 (550)
T PTZ00401 228 IDS-DFCEIHSPKIINAPSEGGANVFKLEYFNRFAYLAQSPQLYKQMVLQGDVPRVFEV 285 (550)
T ss_pred HHC-CCEEEeCCccccCCCCccccccccccCCCCeecCCCHHHHHHHHHhcCCCCEEEE
Confidence 542 2222222221110 11223337776667899999999888777765567754443
No 87
>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=74.83 E-value=31 Score=27.70 Aligned_cols=39 Identities=8% Similarity=-0.025 Sum_probs=29.4
Q ss_pred CeeEEEEEeccHHHHHHhhcC----CCCeEEEEEEeeecCCCc
Q 021789 106 SLWIPILFEGDLAHIASSHLK----KDDHVHIAGQLTADPPAI 144 (307)
Q Consensus 106 T~wI~Vv~wGklAE~~a~yLk----KGD~V~VsGrL~s~syed 144 (307)
-.-+.|++||+.|+....++. .+-.|+|-+-.+...|.+
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 368999999999999888763 444455666677777765
No 88
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=74.61 E-value=38 Score=34.34 Aligned_cols=82 Identities=20% Similarity=0.337 Sum_probs=53.7
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH---HHHHHhhcCCCCeEEEEEEeeecCCCcCC
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl---AE~~a~yLkKGD~V~VsGrL~s~syedk~ 146 (307)
+.|.|.|+|.. +|. .|+ ++.+.|- +. +.-++|++=.+. .....+.|..||.|.|+|.+.... ..
T Consensus 17 ~~V~i~GrV~~---~R~--~gk-~~Fl~Lr-D~---~g~iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~---~~ 83 (437)
T PRK05159 17 EEVTLAGWVHE---IRD--LGG-IAFLILR-DR---SGIIQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANP---KA 83 (437)
T ss_pred CEEEEEEEeEe---eec--CCC-eEEEEEE-cC---CcEEEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCC---CC
Confidence 67899999964 232 354 3444332 22 234888875542 112346799999999999999652 12
Q ss_pred eEEEEEEEeEEEeeccCC
Q 021789 147 QANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 147 rs~~eViVe~I~FL~~k~ 164 (307)
...++|.|+++..|....
T Consensus 84 ~~~~el~~~~i~vls~a~ 101 (437)
T PRK05159 84 PGGVEVIPEEIEVLNKAE 101 (437)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 245899999999998664
No 89
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=73.69 E-value=9.8 Score=33.12 Aligned_cols=62 Identities=13% Similarity=0.119 Sum_probs=46.2
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
+++.++=-|-.+-+.+.|.+|.-+..+-+| ++|--|.+.+|++.. ..++.||.|.++|-..+
T Consensus 15 kN~~v~fIvl~~g~~tkTkdg~~v~~~kVa----D~TgsI~isvW~e~~----~~~~PGDIirLt~Gy~S 76 (134)
T KOG3416|consen 15 KNINVTFIVLEYGRATKTKDGHEVRSCKVA----DETGSINISVWDEEG----CLIQPGDIIRLTGGYAS 76 (134)
T ss_pred hcceEEEEEEeeceeeeccCCCEEEEEEEe----cccceEEEEEecCcC----cccCCccEEEecccchh
Confidence 444444445555566788999999888777 678899999999543 35899999999886554
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=71.92 E-value=38 Score=36.00 Aligned_cols=84 Identities=19% Similarity=0.324 Sum_probs=54.5
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHHHHhhcCCCCeEEEEEEeeecCCCc---C-
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLKKDDHVHIAGQLTADPPAI---E- 145 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk-lAE~~a~yLkKGD~V~VsGrL~s~syed---k- 145 (307)
.|+|.|+|.+ +|. .|+ ++.+.| .+. +.-++|++-.+ -+-...+.|..||.|.|+|.+..+.-.. +
T Consensus 17 ~V~l~GwV~~---~R~--~Gk-l~Fi~L-rD~---sg~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~~~ 86 (583)
T TIGR00459 17 TVTLAGWVNR---RRD--LGG-LIFIDL-RDR---SGIVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINRNL 86 (583)
T ss_pred EEEEEEEEEE---EEc--CCC-cEEEEE-EeC---CccEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCccC
Confidence 6899999964 443 355 444444 232 33688887654 1122356799999999999998653211 1
Q ss_pred CeEEEEEEEeEEEeeccCC
Q 021789 146 GQANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 146 ~rs~~eViVe~I~FL~~k~ 164 (307)
..-.+||.|+++..|....
T Consensus 87 ~tg~iEl~~~~i~iL~~a~ 105 (583)
T TIGR00459 87 DTGEIEILAESITLLNKSK 105 (583)
T ss_pred CCCcEEEEEeEEEEeecCC
Confidence 2345899999999997543
No 91
>TIGR00457 asnS asparaginyl-tRNA synthetase. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.
Probab=70.53 E-value=52 Score=33.67 Aligned_cols=84 Identities=17% Similarity=0.206 Sum_probs=55.0
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH---HHHhhcCCCCeEEEEEEeeecCCCcCC
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEG 146 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE---~~a~yLkKGD~V~VsGrL~s~syedk~ 146 (307)
..|.+.|+|.. +| ..|+ ++.+.| .+.....-++|++-.+.++ ...+.|..||.|.|+|.+.... ..
T Consensus 17 ~~v~v~Gwv~~---~R--~~~~-~~F~~l--rD~~~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~---~~ 85 (453)
T TIGR00457 17 DEVTVSGWVRT---KR--SSKK-IIFLEL--NDGSSLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESP---GK 85 (453)
T ss_pred CEEEEEEEeEE---EE--cCCC-eEEEEE--ECCCCCccEEEEEeCCcChHHHHHHHcCCCCcEEEEEEEEEcCC---CC
Confidence 56899999963 44 2344 344444 2222115788888665222 2346799999999999998632 12
Q ss_pred eEEEEEEEeEEEeeccCC
Q 021789 147 QANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 147 rs~~eViVe~I~FL~~k~ 164 (307)
...++|.|+++..|....
T Consensus 86 ~~~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 86 GQPVELQVKKIEVVGEAE 103 (453)
T ss_pred CCCEEEEEeEEEEEecCC
Confidence 245899999999998654
No 92
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=67.74 E-value=28 Score=37.67 Aligned_cols=66 Identities=15% Similarity=0.135 Sum_probs=49.4
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCC
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPP 142 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~sy 142 (307)
-.|++.|.|..-.... ..++....+.+. +.+.-+.++||+.-| .+.+.++.|..|.|.|++....+
T Consensus 61 ~~vti~g~V~~~~~~~--~~~~~~l~v~~~----d~~~~l~l~fFn~~~-~l~~~~~~G~~v~v~Gk~~~~~~ 126 (677)
T COG1200 61 EIVTIEGTVLSHEKFP--FGKRKLLKVTLS----DGTGVLTLVFFNFPA-YLKKKLKVGERVIVYGKVKRFKG 126 (677)
T ss_pred ceEEEEEEEEeeeccC--CCCCceEEEEEe----cCcEEEEEEEECccH-HHHhhCCCCCEEEEEEEEeeccC
Confidence 3678999997644332 344444444444 257789999999998 78889999999999999998543
No 93
>PRK07218 replication factor A; Provisional
Probab=67.25 E-value=18 Score=36.89 Aligned_cols=62 Identities=15% Similarity=0.149 Sum_probs=43.0
Q ss_pred cceEEEEEEeCCCCeEEE-CCCCcE-EEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 69 ANSVNLIGHVDAPVQFQT-SSDGKH-WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~-T~sGk~-va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
.+.|++.|+|..-..-.+ ..+|.. +....|+ ++|--|++++|+.+|+ |..||.|.|.|--..
T Consensus 172 ~~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giig----DeTG~Ir~tlW~~~~~-----l~~Gd~v~I~na~v~ 235 (423)
T PRK07218 172 DRGVNVEARVLELEHREIDGRDGETTILSGVLA----DETGRLPFTDWDPLPE-----IEIGASIRIEDAYVR 235 (423)
T ss_pred CCceEEEEEEEEecceeEEcCCCCeEEEEEEEE----CCCceEEEEEeccccc-----CCCCCEEEEeeeEEe
Confidence 567999999985432212 245533 3334343 6788999999999874 799999999985544
No 94
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=66.23 E-value=86 Score=31.99 Aligned_cols=81 Identities=17% Similarity=0.212 Sum_probs=51.4
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc---HHHHHHhhcCCCCeEEEEEEeeecCCCcCC
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD---LAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk---lAE~~a~yLkKGD~V~VsGrL~s~syedk~ 146 (307)
..|.+.|+|.. +|.. |+. +.+.| .+ .+.-++|++-.+ .+-.....|..||.|.|.|.+.... .+
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--GKI-AFLQL-RD---GSCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVTGTVVESP---RA 83 (450)
T ss_pred CEEEEEEEEEE---EEeC--CCe-EEEEE-EC---CCCcEEEEEEcCCChHHHHHHhcCCCCcEEEEEEEEEcCC---CC
Confidence 67999999964 4443 543 33333 22 334555555422 1111235699999999999999642 12
Q ss_pred eEEEEEEEeEEEeeccC
Q 021789 147 QANVQVMVHSLNLIEPT 163 (307)
Q Consensus 147 rs~~eViVe~I~FL~~k 163 (307)
...++|.|+++..|...
T Consensus 84 ~~~~el~~~~i~vl~~~ 100 (450)
T PRK03932 84 GQGYELQATKIEVIGED 100 (450)
T ss_pred CCCEEEEEEEEEEccCC
Confidence 34689999999999863
No 95
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=65.79 E-value=54 Score=35.76 Aligned_cols=85 Identities=21% Similarity=0.353 Sum_probs=55.7
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HH--HHHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl--AE--~~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
..|.|.|+|.+ +|. .|+ ++.+.|- + .+..++|++-.+. .+ ..+..|..|+.|.|+|.+..+.-..+
T Consensus 19 ~~V~l~GWV~~---~R~--~G~-l~FidLR-D---~~G~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~~ 88 (706)
T PRK12820 19 REVCLAGWVDA---FRD--HGE-LLFIHLR-D---RNGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEETE 88 (706)
T ss_pred CEEEEEEEEEE---EEc--CCC-cEEEEEE-e---CCccEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCcccc
Confidence 45899999965 333 244 4444442 2 2346888886442 22 23467999999999999988633221
Q ss_pred ----CeEEEEEEEeEEEeeccCC
Q 021789 146 ----GQANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 146 ----~rs~~eViVe~I~FL~~k~ 164 (307)
..-.+||.|+++..|....
T Consensus 89 n~~~~tg~iEl~~~~i~iL~~a~ 111 (706)
T PRK12820 89 NPHIETGDIEVFVRELSILAASE 111 (706)
T ss_pred CCCCCCCcEEEEeeEEEEEecCC
Confidence 1245899999999997654
No 96
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=64.63 E-value=23 Score=37.88 Aligned_cols=63 Identities=13% Similarity=0.090 Sum_probs=43.6
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
..|+++|+|..-.... . +..+..+.+. +++--+.|++|+-....+.+.|++|+.|+|.|++..
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 5789999987653332 2 4545455443 345568999994212266788999999999999986
No 97
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=63.60 E-value=62 Score=35.06 Aligned_cols=77 Identities=14% Similarity=0.144 Sum_probs=51.7
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc------HHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD------LAHIASSHLKKDDHVHIAGQLTADPPAI 144 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk------lAE~~a~yLkKGD~V~VsGrL~s~syed 144 (307)
.|.|-|||.. +|. .|+ ++.+.|- + .+.-|+|++-.+ ....+.+.|..||.|.|+|.+....
T Consensus 109 ~V~vaGrV~~---~R~--~Gk-~~F~~Lr-D---~~G~IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~v~~t~--- 175 (659)
T PTZ00385 109 TVRVAGRVTS---VRD--IGK-IIFVTIR-S---NGNELQVVGQVGEHFTREDLKKLKVSLRVGDIIGADGVPCRMQ--- 175 (659)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEEE-E---CCceEEEEEECCccCCHHHHHHHHhCCCCCCEEEEEEEEEecC---
Confidence 4999999965 333 355 3444443 3 355788877532 2233445699999999999988542
Q ss_pred CCeEEEEEEEeEEEeecc
Q 021789 145 EGQANVQVMVHSLNLIEP 162 (307)
Q Consensus 145 k~rs~~eViVe~I~FL~~ 162 (307)
.-.++|.|++|.+|.+
T Consensus 176 --~GeleI~~~~i~lLsk 191 (659)
T PTZ00385 176 --RGELSVAASRMLILSP 191 (659)
T ss_pred --CceEEEEeeEEEEech
Confidence 2347999999999886
No 98
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=62.64 E-value=40 Score=35.64 Aligned_cols=64 Identities=11% Similarity=0.115 Sum_probs=43.1
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
-.|++.|.|... .. ....+..+..+.+.. . .+.-+.+++|+ .. .+.+.+++|+.|+|.|++...
T Consensus 33 ~~~~~~~~v~~~-~~-~~~~~~~~~~~~~~d--~-~~~~~~~~~F~-~~-~~~~~~~~g~~~~~~Gk~~~~ 96 (630)
T TIGR00643 33 ERATIVGEVLSH-CI-FGFKRRKVLKLRLKD--G-GYKKLELRFFN-RA-FLKKKFKVGSKVVVYGKVKSS 96 (630)
T ss_pred CEEEEEEEEEEe-Ee-ccCCCCceEEEEEEE--C-CCCEEEEEEEC-CH-HHHhhCCCCCEEEEEEEEEee
Confidence 468899998763 22 112333344444432 1 45678999998 22 677889999999999999863
No 99
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=62.09 E-value=72 Score=33.89 Aligned_cols=83 Identities=17% Similarity=0.330 Sum_probs=53.9
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH--HHhhcCCCCeEEEEEEeeecCCC--c-C
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI--ASSHLKKDDHVHIAGQLTADPPA--I-E 145 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~--~a~yLkKGD~V~VsGrL~s~sye--d-k 145 (307)
.|.|.|+|.+ +|. .|+ ++.+.|- + .+..++|++-.. .+. .+..|+.|+.|.|+|.+..+.-. . +
T Consensus 19 ~V~l~GwV~~---~R~--~g~-l~Fi~Lr-D---~~g~iQ~v~~~~-~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~~ 87 (588)
T PRK00476 19 TVTLCGWVHR---RRD--HGG-LIFIDLR-D---REGIVQVVFDPD-AEAFEVAESLRSEYVIQVTGTVRARPEGTVNPN 87 (588)
T ss_pred EEEEEEEEEE---EEe--CCC-eEEEEEE-e---CCceEEEEEeCC-HHHHHHHhCCCCCCEEEEEEEEEecCCcccCcc
Confidence 5999999964 443 243 3444442 2 234588877542 222 34579999999999999875311 1 1
Q ss_pred -CeEEEEEEEeEEEeeccCC
Q 021789 146 -GQANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 146 -~rs~~eViVe~I~FL~~k~ 164 (307)
..-.+||.|++|..|....
T Consensus 88 ~~~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 88 LPTGEIEVLASELEVLNKSK 107 (588)
T ss_pred CCCCcEEEEEeEEEEEecCC
Confidence 2335899999999998765
No 100
>PRK07218 replication factor A; Provisional
Probab=59.76 E-value=31 Score=35.27 Aligned_cols=58 Identities=17% Similarity=0.130 Sum_probs=41.2
Q ss_pred cceEEEEEEeCCCCeEEECCCC--cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEE
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sG--k~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGr 136 (307)
+..|.|+|+|..=.+-.+..+| ..+....|| ++|--|++++|++++ |..||.|.|.+-
T Consensus 68 ~~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~ig----DeTG~Ir~tlW~~~~------l~~Gdvv~I~na 127 (423)
T PRK07218 68 DKNVTVTGRVLTIGERSIRYQGDDHVIYEGILA----DETGTISYTAWKDFG------LSPGDTVTIGNA 127 (423)
T ss_pred CceeEEEEEEEEecceeEecCCCceEEEEEEEE----CCCCeEEEEEECCCC------CCCCCEEEEecc
Confidence 5788999998654441112334 344455555 678899999999774 999999999974
No 101
>PLN02603 asparaginyl-tRNA synthetase
Probab=59.39 E-value=1.4e+02 Score=31.76 Aligned_cols=85 Identities=14% Similarity=0.243 Sum_probs=53.1
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHH--HH-HhhcCCCCeEEEEEEeeecCCCcC
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IA-SSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE--~~-a~yLkKGD~V~VsGrL~s~syedk 145 (307)
-..|.+-|+|- .+|. .|+ ++ | |.+++.....-++|++-.+.+. .+ ...|..||.|.|+|.+.... .
T Consensus 107 g~~V~v~GwV~---~iR~--~g~-~~-F-i~l~Dgs~~~~lQ~v~~~~~~~~~~l~~~~l~~gs~V~V~G~v~~~~---~ 175 (565)
T PLN02603 107 GKTLNVMGWVR---TLRA--QSS-VT-F-IEVNDGSCLSNMQCVMTPDAEGYDQVESGLITTGASVLVQGTVVSSQ---G 175 (565)
T ss_pred CCEEEEEEEEE---EEEe--CCC-eE-E-EEEECCCCCEeEEEEEECcHHHHHHHhhcCCCCCCEEEEEEEEEecC---C
Confidence 35688888886 3443 244 23 3 3333323334588887544321 11 12488999999999998542 2
Q ss_pred CeEEEEEEEeEEEeeccCC
Q 021789 146 GQANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 146 ~rs~~eViVe~I~FL~~k~ 164 (307)
+...+||.|++|..|+...
T Consensus 176 ~~~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 176 GKQKVELKVSKIVVVGKSD 194 (565)
T ss_pred CCccEEEEEeEEEEEECCC
Confidence 3356899999999998654
No 102
>PHA01740 putative single-stranded DNA-binding protein
Probab=58.60 E-value=5 Score=35.33 Aligned_cols=19 Identities=26% Similarity=0.504 Sum_probs=16.8
Q ss_pred CCCCCCcCCCC--CcceecCC
Q 021789 224 PRYPDFKRKDG--TLPLWLNS 242 (307)
Q Consensus 224 pk~pDFk~k~~--~~aLWl~~ 242 (307)
||||||+-|.+ |.-+||.+
T Consensus 21 dK~PDf~GkInI~G~~yw~SG 41 (158)
T PHA01740 21 DKSPHFTGKVDIRGTVYWLAG 41 (158)
T ss_pred CCCCCcCceEeeCCEEEEeec
Confidence 99999999966 88899975
No 103
>PRK06386 replication factor A; Reviewed
Probab=58.50 E-value=52 Score=33.03 Aligned_cols=76 Identities=18% Similarity=0.165 Sum_probs=49.4
Q ss_pred cceEEEEEEeCCCCeEEECCC-C-cEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCC
Q 021789 69 ANSVNLIGHVDAPVQFQTSSD-G-KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~s-G-k~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~ 146 (307)
+..|++.|+|..-++-.+..+ | ..+....|+ ++|--|++++|++ .|..||.|.|.+-- .+.|.+
T Consensus 117 ~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg----DeTGrIr~TlW~~-------~l~eGd~v~i~na~-v~e~~G-- 182 (358)
T PRK06386 117 TPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE----DDTARVRISSFGK-------PLEDNRFVRIENAR-VSQYNG-- 182 (358)
T ss_pred CCceEEEEEEEEccCceEecCCCccEEEEEEEE----cCCCeEEEEEccc-------cccCCCEEEEeeeE-EEccCC--
Confidence 567889999976555333333 3 344445454 6788999999997 48999999999944 444533
Q ss_pred eEEEEEEEeEEEee
Q 021789 147 QANVQVMVHSLNLI 160 (307)
Q Consensus 147 rs~~eViVe~I~FL 160 (307)
.++|.+.+..-|
T Consensus 183 --~~el~v~~~t~I 194 (358)
T PRK06386 183 --YIEISVGNKSVI 194 (358)
T ss_pred --eEEEEeCCeEEE
Confidence 344444444333
No 104
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=58.34 E-value=33 Score=39.63 Aligned_cols=86 Identities=13% Similarity=0.105 Sum_probs=63.7
Q ss_pred cccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH--HHHHHhhcCCCCeEEEEEEeeecCCCc
Q 021789 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHIASSHLKKDDHVHIAGQLTADPPAI 144 (307)
Q Consensus 67 ~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl--AE~~a~yLkKGD~V~VsGrL~s~syed 144 (307)
..+|.|.+.|.|=. .|.+.+.+|+.+..|.|. +.++-+.|..|-+. -+...+.+++|+.|-|.|.++.+....
T Consensus 237 ~~~~~v~v~G~IF~-~e~~~~ksGr~l~~i~vT----D~t~Sl~~k~f~~~~ed~~~~~~ik~g~wvk~~g~v~~d~f~~ 311 (1444)
T COG2176 237 EEETRVKVEGYIFK-IEIKELKSGRTLLNIKVT----DYTSSLILKKFLRDEEDEKKFDGIKKGMWVKARGNVQLDTFTR 311 (1444)
T ss_pred ccccceEEEEEEEE-EeeeecccCcEEEEEEEe----cCchheeehhhccccccHHHHhhcccCcEEEEEEEEEeccccc
Confidence 44677999999985 899999999988777665 34456667667663 233466799999999999999997764
Q ss_pred CCeEEEEEEEeEEEeec
Q 021789 145 EGQANVQVMVHSLNLIE 161 (307)
Q Consensus 145 k~rs~~eViVe~I~FL~ 161 (307)
+. .+++++|+-|.
T Consensus 312 ~l----~m~i~~I~ei~ 324 (1444)
T COG2176 312 DL----TMIINDINEIE 324 (1444)
T ss_pred ce----EEEhhhhhhhh
Confidence 43 55666666555
No 105
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=58.26 E-value=53 Score=26.64 Aligned_cols=62 Identities=18% Similarity=0.193 Sum_probs=38.8
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC-----CC--CCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-----AS--HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~-----~~--~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
..+++.|+|...|+... +. ..+.+.+.+ .. ...-+.+.+-.+... .++.||.|.++|+|+.-
T Consensus 76 ~~~~v~g~V~~~~~~~~---~~--~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~l~~Gd~i~~~g~l~~~ 144 (176)
T PF13567_consen 76 KEVTVQGTVESVPQIDG---RG--QRFTLRVERVLAGGNWIPVSGKILLYLPKDSQP----RLQPGDRIRVRGKLKPP 144 (176)
T ss_pred ceEEEEEEEcccccccC---ce--EEEEEEEEEeeccccccccceeeEEEecccccc----ccCCCCEEEEEEEEecC
Confidence 46789999988887741 12 145555431 11 223444444443332 68999999999999984
No 106
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=58.06 E-value=20 Score=38.40 Aligned_cols=79 Identities=16% Similarity=0.218 Sum_probs=58.3
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCe
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQ 147 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~r 147 (307)
.=-.|.+-|.|+ ++++|++-+ -|+|. ++|.++.+.+|..-...+.-++..||.|.|.|....+. ++
T Consensus 212 ig~tV~I~GeV~---qikqT~GPT---VFtlt----Detg~i~aAAFe~aGvRAyP~IevGdiV~ViG~V~~r~----g~ 277 (715)
T COG1107 212 IGKTVRIEGEVT---QIKQTSGPT---VFTLT----DETGAIWAAAFEEAGVRAYPEIEVGDIVEVIGEVTRRD----GR 277 (715)
T ss_pred cCceEEEEEEEE---EEEEcCCCE---EEEEe----cCCCceehhhhccCCcccCCCCCCCceEEEEEEEeecC----Cc
Confidence 345677778876 467775433 35665 67899999999999999999999999999999998763 33
Q ss_pred EEEEEEEeEEEeecc
Q 021789 148 ANVQVMVHSLNLIEP 162 (307)
Q Consensus 148 s~~eViVe~I~FL~~ 162 (307)
++|.+..++-|..
T Consensus 278 --lQiE~~~me~L~G 290 (715)
T COG1107 278 --LQIEIEAMEKLTG 290 (715)
T ss_pred --EEEeehhhHHhhC
Confidence 3555556655543
No 107
>PLN02221 asparaginyl-tRNA synthetase
Probab=57.53 E-value=1.1e+02 Score=32.44 Aligned_cols=87 Identities=16% Similarity=0.259 Sum_probs=55.5
Q ss_pred ceEEEEEEeCCCCeEEECCCCc-EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeE
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk-~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs 148 (307)
..|.|-|.|-.- | ..|+ .++ | |.+++..-.-.++|++-.+... ..+.|..|+.|.|.|.+..+.-......
T Consensus 51 ~~V~I~GWV~~i---R--~~Gk~~i~-F-l~LRDgs~~g~iQvVv~~~~~~-~~~~L~~ES~V~V~G~V~~~~~~~~~~~ 122 (572)
T PLN02221 51 QKVRIGGWVKTG---R--EQGKGTFA-F-LEVNDGSCPANLQVMVDSSLYD-LSTLVATGTCVTVDGVLKVPPEGKGTKQ 122 (572)
T ss_pred CEEEEEEEEEeh---h--hCCCceEE-E-EEEeCCcccccEEEEEcCchhh-HHhcCCCceEEEEEEEEEeCCccCCCCc
Confidence 458899998752 2 2343 243 3 3333322224799988765332 3346899999999999986543111223
Q ss_pred EEEEEEeEEEeeccCC
Q 021789 149 NVQVMVHSLNLIEPTS 164 (307)
Q Consensus 149 ~~eViVe~I~FL~~k~ 164 (307)
.+||.|++|..|+...
T Consensus 123 ~iEl~v~~i~vl~~a~ 138 (572)
T PLN02221 123 KIELSVEKVIDVGTVD 138 (572)
T ss_pred cEEEEEeEEEEEecCC
Confidence 7999999999998654
No 108
>PF10451 Stn1: Telomere regulation protein Stn1; InterPro: IPR018856 The budding yeast protein Stn1 is a DNA-binding protein which has specificity for telomeric DNA. Structural profiling has predicted an OB-fold []. This entry represents the N-terminal part of the molecule, which adopts the OB fold. Protection of telomeres by multiple proteins with OB-fold domains is conserved in eukaryotic evolution [].; PDB: 3KF6_A 3KF8_A.
Probab=55.55 E-value=43 Score=31.91 Aligned_cols=94 Identities=12% Similarity=0.104 Sum_probs=56.3
Q ss_pred CCccccCccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHH---HHhhcCCCCeEEEEE
Q 021789 59 PSEIPFQVKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI---ASSHLKKDDHVHIAG 135 (307)
Q Consensus 59 P~tI~~~p~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~---~a~yLkKGD~V~VsG 135 (307)
..-+=|...-+|.|.|+|.|..- +.+...+.. +..+.+++.+....+.|+++....-. -..-+ -|+.|.|.|
T Consensus 56 ~~~~f~~NhPI~~v~i~G~Vv~~-~~~~~~~~~---~~~l~iDD~Sg~~~i~~~~~~~~~~~~~l~~~~~-~G~~V~VkG 130 (256)
T PF10451_consen 56 QNIYFYNNHPIRWVRIVGVVVGI-DYKWIENED---RIILTIDDSSGANTIECKCSKSSYLSMGLPINDL-IGKVVEVKG 130 (256)
T ss_dssp TT-EEETTEEE-EEEEEEEEEEE-EEEE-BBTC---EEEEEEE-SSCS-EEEEEEEHHHHHCCCHHCTT--TT-EEEEEE
T ss_pred CCEEEECCcccEEEEEEEEEEEE-EEEeecccc---eEEEEEeCCCCceeEEEEEEcccccccCCCccCC-CCcEEEEEE
Confidence 34445566679999999999875 333222233 23456776444448999999663211 12234 899999999
Q ss_pred EeeecCCCcCCeEEEEEEEeEEEeeccCCc
Q 021789 136 QLTADPPAIEGQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 136 rL~s~syedk~rs~~eViVe~I~FL~~k~~ 165 (307)
.+.. ..-++.|+.|..+..-..
T Consensus 131 ~vsr--------~~~ql~ve~i~~~~~l~~ 152 (256)
T PF10451_consen 131 TVSR--------NERQLDVERIELVRDLNA 152 (256)
T ss_dssp EEES--------SSEEEEEEEEEEETSCCH
T ss_pred EEcc--------CcEEEEEEEEEccCChHH
Confidence 9991 123777888888866554
No 109
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=55.30 E-value=1.2e+02 Score=31.50 Aligned_cols=79 Identities=20% Similarity=0.209 Sum_probs=51.3
Q ss_pred ceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHHH---HHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 70 N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk-lAE~---~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
-.|++.|+|.. +|. .|+ ++.+.|- + .+.-++|++-.+ +.+. ....|..||.|.|.|.+....
T Consensus 55 ~~v~v~G~v~~---~R~--~g~-~~Fi~lr-D---~~g~iQ~v~~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~t~---- 120 (491)
T PRK00484 55 IEVSVAGRVML---KRV--MGK-ASFATLQ-D---GSGRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKTK---- 120 (491)
T ss_pred cEEEEEEEEEE---Eec--CCc-eEEEEEE-c---CCccEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEcC----
Confidence 45899999964 333 354 3444443 2 233578777543 2111 223499999999999999642
Q ss_pred CeEEEEEEEeEEEeeccC
Q 021789 146 GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 146 ~rs~~eViVe~I~FL~~k 163 (307)
...++|.|+++..|.+.
T Consensus 121 -~ge~el~~~~~~vls~~ 137 (491)
T PRK00484 121 -TGELSVKATELTLLTKS 137 (491)
T ss_pred -CCcEEEEEeEEEEEecc
Confidence 13589999999999765
No 110
>PLN02502 lysyl-tRNA synthetase
Probab=54.62 E-value=1.1e+02 Score=32.38 Aligned_cols=78 Identities=18% Similarity=0.198 Sum_probs=49.7
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HH------HHHHhhcCCCCeEEEEEEeeecCCC
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LA------HIASSHLKKDDHVHIAGQLTADPPA 143 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk-lA------E~~a~yLkKGD~V~VsGrL~s~sye 143 (307)
.|.+-|||.. +|. .|+ ++.+.|- + .+.-|+|++-.+ +. +.+...|..||.|.|+|.+....
T Consensus 110 ~V~v~GrV~~---~R~--~Gk-~~F~~Lr-D---~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t~-- 177 (553)
T PLN02502 110 SVSVAGRIMA---KRA--FGK-LAFYDLR-D---DGGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKTK-- 177 (553)
T ss_pred EEEEEEEEEE---Eec--CCC-eEEEEEe-c---CCccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEecC--
Confidence 4888899875 232 354 3444442 2 234578776533 21 12234589999999999987542
Q ss_pred cCCeEEEEEEEeEEEeeccC
Q 021789 144 IEGQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 144 dk~rs~~eViVe~I~FL~~k 163 (307)
.-.++|.|++|..|.+.
T Consensus 178 ---~gelel~~~~i~vLs~~ 194 (553)
T PLN02502 178 ---KGELSIFPTSFEVLTKC 194 (553)
T ss_pred ---CCCEEEEEeEEEEEecc
Confidence 12578999999998755
No 111
>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=53.64 E-value=78 Score=25.27 Aligned_cols=36 Identities=11% Similarity=0.118 Sum_probs=27.3
Q ss_pred CCeeEEEEEeccHH--H------------------HHHhhcCCCCeEEEEEEeeec
Q 021789 105 HSLWIPILFEGDLA--H------------------IASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 105 ~T~wI~Vv~wGklA--E------------------~~a~yLkKGD~V~VsGrL~s~ 140 (307)
.|--|.|++|.... + .....+..|+.|.|.|+|++.
T Consensus 23 gTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~f 78 (92)
T cd04483 23 GTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTY 78 (92)
T ss_pred CCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEecc
Confidence 45568999997643 1 245569999999999999875
No 112
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=52.52 E-value=1.4e+02 Score=31.98 Aligned_cols=78 Identities=14% Similarity=0.201 Sum_probs=49.7
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-----HH--HHHHhhcCCCCeEEEEEEeeecCCCc
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-----LA--HIASSHLKKDDHVHIAGQLTADPPAI 144 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk-----lA--E~~a~yLkKGD~V~VsGrL~s~syed 144 (307)
|.+-|||.+ +|. .|+.++.+.|- + ++.-++|++-.+ .+ +.+...|..||.|.|+|.+....
T Consensus 135 v~v~Grv~~---~R~--~G~k~~F~~L~-d---~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~t~--- 202 (585)
T PTZ00417 135 LNVTGRIMR---VSA--SGQKLRFFDLV-G---DGAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGKSK--- 202 (585)
T ss_pred EEEEEEEEe---eec--CCCCCEEEEEE-e---CCeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcCCC---
Confidence 888999954 333 35334455552 2 233588877532 11 22345799999999999965321
Q ss_pred CCeEEEEEEEeEEEeeccC
Q 021789 145 EGQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 145 k~rs~~eViVe~I~FL~~k 163 (307)
...++|.|++|..|.+.
T Consensus 203 --~gel~i~~~~i~llsk~ 219 (585)
T PTZ00417 203 --KGELSIFPKETIILSPC 219 (585)
T ss_pred --CceEEEEEEEEEEEecC
Confidence 23578899999998754
No 113
>COG3689 Predicted membrane protein [Function unknown]
Probab=51.97 E-value=67 Score=31.16 Aligned_cols=88 Identities=19% Similarity=0.171 Sum_probs=58.0
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEE
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~ 150 (307)
.|.++|.|-+|.-+. .+--++++|-|.+=-++ ..=+-+.+-++ + ...++..+.|.|+|+|.+..+.+.++...
T Consensus 177 ~Ie~tGFVy~~~~~~--~N~lflaRFgiicC~AD-a~vygl~v~~~---~-~~~y~ndtWltvkGtl~~e~~~~~~~~ip 249 (271)
T COG3689 177 KIEFTGFVYNDESFP--KNYLFLARFGIICCAAD-AGVYGLLVELD---N-QTDYKNDTWLTVKGTLSSEYLSDFKKRIP 249 (271)
T ss_pred eEEEEEEEECCCCCC--cceeehhhhheeeeecc-ceeEEEEEEcc---c-cccCCCCceEEEEeEEEeeecCchhhcCc
Confidence 688999998876552 23456777777542211 11122222221 1 22478999999999999998877666777
Q ss_pred EEEEeEEEeeccCCc
Q 021789 151 QVMVHSLNLIEPTSQ 165 (307)
Q Consensus 151 eViVe~I~FL~~k~~ 165 (307)
-|.|++++-|..+..
T Consensus 250 vi~v~sv~~I~kP~n 264 (271)
T COG3689 250 VIEVDSVEVIPKPAN 264 (271)
T ss_pred EEEeeeeeecCCCCC
Confidence 889999998876543
No 114
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=51.84 E-value=60 Score=37.32 Aligned_cols=67 Identities=12% Similarity=0.075 Sum_probs=53.5
Q ss_pred eEEEEEEeCCCCeEEECC-CCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCC
Q 021789 71 SVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPP 142 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~-sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~sy 142 (307)
.+.+.|-|..- ..+.|. +|..++..+|. +.+--+.|++|-...+.....+..|..++|.|+++.+..
T Consensus 978 ~~~~~~~i~~v-r~~~tk~~G~~~~f~tl~----D~~g~~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~~~ 1045 (1139)
T COG0587 978 RVVLAGGIVAV-RQRPTKAKGNKMAFLTLE----DETGILEVVVFPSEYERYRRLLLEGRLLIVKGKVQRRED 1045 (1139)
T ss_pred eeEEEEEEEEE-EEeeccCCCCEEEEEEEe----cCCCcEEEEEcHHHHHHHHHHhccCcEEEEEEEEEeccc
Confidence 46777888764 444554 89988888776 334489999999999999999999999999999998543
No 115
>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=51.83 E-value=83 Score=26.11 Aligned_cols=64 Identities=20% Similarity=0.306 Sum_probs=30.9
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH-HHHHHhhcCCCCeEEEEEEeeecC
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AHIASSHLKKDDHVHIAGQLTADP 141 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl-AE~~a~yLkKGD~V~VsGrL~s~s 141 (307)
.|.+.|.|. ++.. ..+..+ +.+... ......+.|.+-... .......|++||.|.|.|......
T Consensus 69 ~i~vtG~V~---~I~~-~~~~~~--~~~~~~-~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~~ 133 (144)
T PF12869_consen 69 IIEVTGTVS---SIDK-GFGDNY--VVLLGT-ENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGYS 133 (144)
T ss_dssp EEEEEEEEE---EEEE--STT-E--EEEEE--TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE-----
T ss_pred EEEEEEEEE---EEEE-cCCCcE--EEEccC-CCCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEeee
Confidence 466779886 3444 334433 333332 234456677766655 333455799999999999987653
No 116
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=51.77 E-value=1.6e+02 Score=30.79 Aligned_cols=78 Identities=14% Similarity=0.167 Sum_probs=50.9
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEec-cHHH----HHHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLAH----IASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wG-klAE----~~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
.|.+-|||.. +|.. |+. +.+.|- +. +.-++|++-. .+.+ .....|..||.|.|+|.+....
T Consensus 67 ~v~v~Grv~~---~R~~--Gk~-~F~~lr-D~---~g~iQ~~~~~~~~~~~~~~~~~~~l~~Gd~V~v~G~~~~t~---- 132 (505)
T PRK12445 67 EVSVAGRMMT---RRIM--GKA-SFVTLQ-DV---GGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQ---- 132 (505)
T ss_pred EEEEEEEEEE---EecC--CCc-EEEEEE-eC---CccEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEecC----
Confidence 5899999964 3433 653 444442 22 3347777653 2221 1245699999999999997642
Q ss_pred CeEEEEEEEeEEEeeccC
Q 021789 146 GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 146 ~rs~~eViVe~I~FL~~k 163 (307)
.-.++|.|+++.+|++.
T Consensus 133 -~gelel~~~~~~llsk~ 149 (505)
T PRK12445 133 -TGELSIHCTELRLLTKA 149 (505)
T ss_pred -CCcEEEEEeEEEEEecC
Confidence 12489999999999765
No 117
>cd04498 hPOT1_OB2 hPOT1_OB2: A subfamily of OB folds similar to the second OB fold (OB2) of human protection of telomeres 1 protein (hPOT1). POT1 proteins bind to the single-stranded (ss) 3-prime ends of the telomere. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB2) which cooperate to bind telomeric ssDNA. OB1 makes more extensive contact with the ssDNA than OB2. OB2 protects the 3' end of the ssDNA. hPOT1 is implicated in telomere length regulation.
Probab=51.77 E-value=22 Score=30.47 Aligned_cols=27 Identities=41% Similarity=0.430 Sum_probs=24.6
Q ss_pred eeEEEEEeccHHHHHHhhcCCCCeEEEE
Q 021789 107 LWIPILFEGDLAHIASSHLKKDDHVHIA 134 (307)
Q Consensus 107 ~wI~Vv~wGklAE~~a~yLkKGD~V~Vs 134 (307)
.-|+|++|+..|+.+.+ |+.||-|.+.
T Consensus 60 ~ti~It~yD~H~~~ar~-lK~GdfV~L~ 86 (123)
T cd04498 60 LTIDILVYDNHVELAKS-LKPGDFVRIY 86 (123)
T ss_pred EEEEEEEEcchHHHHhh-CCCCCEEEEE
Confidence 67999999999998887 9999999886
No 118
>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=50.43 E-value=47 Score=25.58 Aligned_cols=32 Identities=28% Similarity=0.296 Sum_probs=24.4
Q ss_pred CeeEEEEEe--ccHHHHHHhhcCCCCeEEEEEEee
Q 021789 106 SLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLT 138 (307)
Q Consensus 106 T~wI~Vv~w--GklAE~~a~yLkKGD~V~VsGrL~ 138 (307)
..-|-|... |.....+. .|+.||.|.|.|=+.
T Consensus 62 ~~~~~ik~~~~G~~S~~L~-~l~~Gd~v~i~gP~G 95 (99)
T PF00970_consen 62 YLEFAIKRYPNGRVSRYLH-QLKPGDEVEIRGPYG 95 (99)
T ss_dssp EEEEEEEECTTSHHHHHHH-TSCTTSEEEEEEEES
T ss_pred cEEEEEEeccCCHHHHHHH-hCCCCCEEEEEEccc
Confidence 344555666 88888885 499999999999664
No 119
>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=50.14 E-value=1.6e+02 Score=30.60 Aligned_cols=78 Identities=21% Similarity=0.230 Sum_probs=49.4
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc-HHH----HHHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAH----IASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk-lAE----~~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
.|.+-|||.. +| ..|+ ++.+.|- +. +.-|+|++-.+ +.+ .+...|..||.|.|+|.+....
T Consensus 55 ~v~v~Grv~~---~R--~~gk-~~F~~l~-D~---~g~iQ~~~~~~~~~~~~~~~~~~~l~~gd~V~v~G~~~~t~---- 120 (496)
T TIGR00499 55 EVSIAGRIMA---RR--SMGK-ATFITLQ-DE---SGQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFKTK---- 120 (496)
T ss_pred EEEEEEEEEE---Ee--cCCC-eEEEEEE-cC---CccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEECC----
Confidence 4889999975 44 3455 3333333 32 23477776432 222 2233489999999999996421
Q ss_pred CeEEEEEEEeEEEeeccC
Q 021789 146 GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 146 ~rs~~eViVe~I~FL~~k 163 (307)
.-.++|.|+++..|.+.
T Consensus 121 -~gelel~~~~i~ilsk~ 137 (496)
T TIGR00499 121 -TGELSVHVTELQILTKA 137 (496)
T ss_pred -CCcEEEEeeEEEEEecC
Confidence 23489999999998765
No 120
>cd05898 Ig5_KIRREL3 Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein (also known as Neph2). Ig5_KIRREL3: the fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein (also known as Neph2). This protein has five Ig-like domains, one transmembrane domain, and a cytoplasmic tail. Included in this group is mammalian Kirrel (Neph1). These proteins contain multiple Ig domains, have properties of cell adhesion molecules, and are important in organ development. Neph1 and 2 may mediate axonal guidance and synapse formation in certain areas of the CNS. In the kidney, they participate in the formation of the slit diaphragm.
Probab=49.59 E-value=31 Score=27.90 Aligned_cols=84 Identities=13% Similarity=0.084 Sum_probs=47.2
Q ss_pred CccccCCccccccccccCcceeeccCCCCCCCCCccccCccccceEEE-EEEeCCCCeEEECCCCcEEEEEEEEEcCCCC
Q 021789 27 PAHFTRPFSSRAHQFTKATTKTTTSKDVVWPKPSEIPFQVKVANSVNL-IGHVDAPVQFQTSSDGKHWAGTVIVQHAASH 105 (307)
Q Consensus 27 ~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~prP~tI~~~p~l~N~V~L-IGrLg~DPElr~T~sGk~va~fsLAv~~~~~ 105 (307)
|+.|++..|.-+..-..+.+.|... .+|+|..|.|.-+- ..| .|.-+ .-.+.....+.- ....|...+...
T Consensus 2 pP~i~~~~s~~~~~G~~~~L~C~~~---s~P~P~~i~W~w~~---~~i~~~~~~-r~~I~~~~~~~g-~~S~L~I~~~~~ 73 (98)
T cd05898 2 PPIISSEQVQYAVRGERGKVKCFIG---STPPPDRIAWAWKE---NVLESGTSE-RYTVERTSTGSG-VLSTLTINNIME 73 (98)
T ss_pred CCEEecCceEEEeCCCcEEEEEEEc---cCCCCcEEEEEEcc---ccccCCCCC-CEEEEEEccCCC-cEEEEEECCCcc
Confidence 5677888888777756668888764 58899999885541 111 11111 122332221111 234466555333
Q ss_pred Ce---eEEEEEeccHH
Q 021789 106 SL---WIPILFEGDLA 118 (307)
Q Consensus 106 T~---wI~Vv~wGklA 118 (307)
.+ -..|.+++.+.
T Consensus 74 ~d~~g~Y~C~a~N~~G 89 (98)
T cd05898 74 ADFQTHYNCTAWNSFG 89 (98)
T ss_pred ccCCcEEEEEEEeCCc
Confidence 33 57899887654
No 121
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=45.56 E-value=1e+02 Score=32.55 Aligned_cols=77 Identities=12% Similarity=0.248 Sum_probs=49.5
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH------HHHHHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL------AHIASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl------AE~~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
|.+-|||.+- | .+|...+.+.|--+. .=++|++--+- -+...++|++||.|.|+|...-.
T Consensus 107 ~svaGRI~s~---R--~sGsKL~Fydl~~~g----~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgrt----- 172 (560)
T KOG1885|consen 107 VSVAGRIHSK---R--ESGSKLVFYDLHGDG----VKLQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGRT----- 172 (560)
T ss_pred eeeeeeEeee---e--ccCCceEEEEEecCC----eEEEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCcC-----
Confidence 8888998762 2 246666677665332 22555554332 24467889999999999976432
Q ss_pred CeEEEEEEEeEEEeecc
Q 021789 146 GQANVQVMVHSLNLIEP 162 (307)
Q Consensus 146 ~rs~~eViVe~I~FL~~ 162 (307)
+.--..|++++|.+|.+
T Consensus 173 ~~gELSi~~~~~~lLsp 189 (560)
T KOG1885|consen 173 KSGELSIIPNEIILLSP 189 (560)
T ss_pred CCceEEEeecchheecc
Confidence 22256788888877654
No 122
>PLN02532 asparagine-tRNA synthetase
Probab=44.38 E-value=97 Score=33.46 Aligned_cols=56 Identities=16% Similarity=0.279 Sum_probs=41.9
Q ss_pred eeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEEEEEEeEEEeeccCC
Q 021789 107 LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 107 ~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~eViVe~I~FL~~k~ 164 (307)
..++||+-+..+... +.|..|+.|.|+|.+..+.-. .....+||.|++|..|+...
T Consensus 147 ~~lQvVv~~~~~~~~-~~L~~Es~V~V~G~V~~~~~~-~~~g~iEl~v~~i~VLg~a~ 202 (633)
T PLN02532 147 ASLQVVVDSALAPLT-QLMATGTCILAEGVLKLPLPA-QGKHVIELEVEKILHIGTVD 202 (633)
T ss_pred cceEEEEeCCcccHh-hcCCCceEEEEEEEEEecCCC-CCCCcEEEEeeEEEEEecCC
Confidence 359999987755332 679999999999999876211 13456899999999998643
No 123
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=42.68 E-value=32 Score=35.21 Aligned_cols=44 Identities=18% Similarity=0.230 Sum_probs=33.8
Q ss_pred EEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 96 TVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 96 fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
|+||+.+....-.+.|.+-|+-...+.+.|+.|+.+.|+|--.-
T Consensus 265 FTIa~s~~~sel~FsIK~LGD~Tk~l~dnLk~G~k~~vdGPYG~ 308 (438)
T COG4097 265 FTIACSHEGSELRFSIKALGDFTKTLKDNLKVGTKLEVDGPYGK 308 (438)
T ss_pred eeeeeCCCCceEEEEehhhhhhhHHHHHhccCCceEEEecCcce
Confidence 44444432234788999999999999999999999999985433
No 124
>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=40.57 E-value=69 Score=26.52 Aligned_cols=43 Identities=23% Similarity=0.209 Sum_probs=27.9
Q ss_pred EEEEEEEEcCCCCCeeEEEEEecc--HHHHHHhhcCCCCeEEEEE
Q 021789 93 WAGTVIVQHAASHSLWIPILFEGD--LAHIASSHLKKDDHVHIAG 135 (307)
Q Consensus 93 va~fsLAv~~~~~T~wI~Vv~wGk--lAE~~a~yLkKGD~V~VsG 135 (307)
-.|+.-+++....+.-|++++.|. .|-.-+..++.||.|.|.|
T Consensus 68 R~YTvR~~d~~~~~l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~g 112 (117)
T PF08021_consen 68 RTYTVRRFDPETGELDIDFVLHGDEGPASRWARSARPGDRVGVTG 112 (117)
T ss_dssp EEEE--EEETT--EEEEEEE--SS--HHHHHHHH--TT-EEEEEE
T ss_pred CCcCEeeEcCCCCEEEEEEEECCCCCchHHHHhhCCCCCEEEEeC
Confidence 345555677766788999999995 7888888999999999998
No 125
>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=38.71 E-value=1e+02 Score=27.19 Aligned_cols=85 Identities=14% Similarity=0.126 Sum_probs=44.5
Q ss_pred ccceEEEEEEeCCCCeEEECCCCc-EEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhh-cCCCCeEEEEEEeeecCCCcC
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSH-LKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk-~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~y-LkKGD~V~VsGrL~s~syedk 145 (307)
.++.|-++|-|..= . ...|- .+++ || .....++-|.+|+++.+.+.+- ++.|..|+++- |+-+ .+
T Consensus 17 p~~EvD~VG~VvsV--~--~~~~f~~~vY--Ls---D~~~Nll~Ikfw~~l~~~~~eDilk~~~liA~SN-LqwR---~~ 83 (143)
T PF09104_consen 17 PYGEVDTVGFVVSV--S--KKQGFQPLVY--LS---DECHNLLAIKFWTGLNQYGYEDILKPGSLIAASN-LQWR---PE 83 (143)
T ss_dssp CCCEEEEEEEEEEE--E----TTS--EEE--EE----TTS-EEEEEESS-------SS---TT-EEEEEE-EEE----S-
T ss_pred CccccceEEEEEEE--E--ecCCCceeEE--ee---cCCccEEEEEeccCccccchhhhcCcceEEEEee-eEee---cc
Confidence 48999999998763 2 12232 3333 34 3466899999999999987766 69999999983 3333 22
Q ss_pred -CeEEEEEEEeEEEeeccCCc
Q 021789 146 -GQANVQVMVHSLNLIEPTSQ 165 (307)
Q Consensus 146 -~rs~~eViVe~I~FL~~k~~ 165 (307)
......+.|.++..+...+.
T Consensus 84 s~s~iP~~~A~d~S~FS~nPK 104 (143)
T PF09104_consen 84 STSGIPTLFATDLSVFSANPK 104 (143)
T ss_dssp TTSSS-EEEEECCEEEESS-S
T ss_pred cccCCCeeEeccceeeecCcc
Confidence 22334677888877765443
No 126
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=38.15 E-value=1.1e+02 Score=34.65 Aligned_cols=64 Identities=17% Similarity=0.156 Sum_probs=49.5
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecC
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~s 141 (307)
.|.++|-|.. ...+. ..|..+|.++|. +.+.-+.|++|.+.=+.+.. |.+|+.+.|+|+.+.+.
T Consensus 899 ~~~v~g~i~~-~~~~~-K~g~~maf~~~e----D~~~~~e~~~F~~~~~~~~~-l~~~~~~~~~~~~~~~~ 962 (973)
T PRK07135 899 EYRLAIEVKN-VKRLR-KANKEYKKVILS----DDSVEITIFVNDNDYLLFET-LKKGDIYEFLISKSKNN 962 (973)
T ss_pred eEEEEEEEEE-EEEEe-eCCCeEEEEEEE----ECCCcEEEEEcHHHHHHHHH-hhcCCEEEEEEEEcCCC
Confidence 4678887775 44444 778888888776 44567999999998777774 99999999999988753
No 127
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=36.62 E-value=66 Score=28.20 Aligned_cols=78 Identities=12% Similarity=0.174 Sum_probs=53.1
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcC--------CCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCC
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPP 142 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~--------~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~sy 142 (307)
.|.|-|.+.- .+ .++..+..|.|.-.- ....+.|-|.+=+...- -.--+.|.|+|+|+....
T Consensus 57 ~V~i~Gf~vP-le----~~~~~v~eFlLvP~~gaC~h~PpPppNqiV~V~~~~~~~~-----~~~~~pv~V~G~l~~~~~ 126 (146)
T PF11736_consen 57 QVRIPGFMVP-LE----QEEGKVTEFLLVPYFGACIHVPPPPPNQIVHVKMPKPIPV-----DSLYDPVWVEGTLKVERS 126 (146)
T ss_pred EEEEeeEEEe-ec----cCCCcEEEEEEeccCCcCcCCCCCCCccEEEEEeCCCccc-----cccceeEEEEEEEEeccc
Confidence 5777788862 33 234446677665332 22458888887665431 123479999999999988
Q ss_pred CcC-CeEEEEEEEeEEE
Q 021789 143 AIE-GQANVQVMVHSLN 158 (307)
Q Consensus 143 edk-~rs~~eViVe~I~ 158 (307)
+.. +...|.+.+..|.
T Consensus 127 ~~~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 127 SSDLGTSGYSMDADSVE 143 (146)
T ss_pred cchheeEEEEEEeeEEE
Confidence 767 7889999998875
No 128
>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=35.00 E-value=2e+02 Score=30.73 Aligned_cols=69 Identities=20% Similarity=0.136 Sum_probs=43.6
Q ss_pred eEEEEEEeCCCCeEEE---CCCCcEEEEEEEEEcCCCCCe-eEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCc
Q 021789 71 SVNLIGHVDAPVQFQT---SSDGKHWAGTVIVQHAASHSL-WIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~---T~sGk~va~fsLAv~~~~~T~-wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syed 144 (307)
.|-+||-|..-=++.. -.+|+..-.-.|-+. +++. -|.|++||+.|+.+. ...|+.|.+.|-... .|.+
T Consensus 312 ~VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~--D~sg~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V~-~f~g 384 (608)
T TIGR00617 312 LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLV--DDSGKSVRVTLWGDDATKFD--VSVQPVIAIKGVRVS-DFGG 384 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEE--eCCCCEEEEEEEhhhhhhcC--CCCCCEEEEEeEEEE-ecCC
Confidence 6777887775433322 245655444333332 2343 699999999998765 678999999884443 4543
No 129
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=34.62 E-value=3.9e+02 Score=30.76 Aligned_cols=78 Identities=15% Similarity=0.167 Sum_probs=50.5
Q ss_pred eEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccH-H----HHHHhhcCCCCeEEEEEEeeecCCCcC
Q 021789 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-A----HIASSHLKKDDHVHIAGQLTADPPAIE 145 (307)
Q Consensus 71 ~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGkl-A----E~~a~yLkKGD~V~VsGrL~s~syedk 145 (307)
.|.+-|+|.. +|. .|+ ++.+.|- + .+.-|+|++-.+. . +...+.+..||.|.|+|.+.... .
T Consensus 653 ~V~v~Grv~~---~R~--~G~-~~F~~lr-D---~~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t~---~ 719 (1094)
T PRK02983 653 EVSVSGRVLR---IRD--YGG-VLFADLR-D---WSGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTSR---N 719 (1094)
T ss_pred EEEEEEEEEE---Eee--CCC-eEEEEEE-e---CCeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEcC---C
Confidence 5889999953 333 354 4444442 2 3456888775442 1 12234589999999999997642 1
Q ss_pred CeEEEEEEEeEEEeeccC
Q 021789 146 GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 146 ~rs~~eViVe~I~FL~~k 163 (307)
-.++|.|+++.++.+.
T Consensus 720 --ge~ei~~~~i~ll~k~ 735 (1094)
T PRK02983 720 --GTLSLLVTSWRLAGKC 735 (1094)
T ss_pred --CCEEEEEeEEEEEecc
Confidence 2478999999998754
No 130
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=33.84 E-value=3.1e+02 Score=28.29 Aligned_cols=90 Identities=16% Similarity=0.156 Sum_probs=58.8
Q ss_pred CccccCCccccccccccCcceeeccCCCCCCCCCccccCccccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCC
Q 021789 27 PAHFTRPFSSRAHQFTKATTKTTTSKDVVWPKPSEIPFQVKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHS 106 (307)
Q Consensus 27 ~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~prP~tI~~~p~l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T 106 (307)
..+|-.+++|+.|=.-.+- +..| ...-+..+.|++..+|.... +|-.+ |.+- +..
T Consensus 241 ~~if~TNqatD~hl~~~~~-------------l~d~----~~~~~~~v~g~v~~~p~~ie--Gghv~--v~i~----d~~ 295 (421)
T COG1571 241 SAIFETNQATDDHLVDKGK-------------LNDI----EDYSKYRVVGRVEAEPRAIE--GGHVV--VEIT----DGE 295 (421)
T ss_pred EEEEeccchhhhhccccch-------------hhhh----hhccceEEEEEEecccEEee--CCEEE--EEec----CCC
Confidence 3456777788777532221 2222 24667899999999887643 34332 2222 223
Q ss_pred eeEEEEEeccHHHH--HHhhcCCCCeEEEEEEeeecC
Q 021789 107 LWIPILFEGDLAHI--ASSHLKKDDHVHIAGQLTADP 141 (307)
Q Consensus 107 ~wI~Vv~wGklAE~--~a~yLkKGD~V~VsGrL~s~s 141 (307)
--|.+++|-.+.+. ++..|.+||.|.+.|.++...
T Consensus 296 G~I~~~A~eptk~fr~~a~~L~pGD~i~~~G~~~~~~ 332 (421)
T COG1571 296 GEIGAVAFEPTKEFRELARKLIPGDEITVYGSVKPGT 332 (421)
T ss_pred ceEEEEEecccccchHHHHhcCCCCEEEEecCccccc
Confidence 37889998776554 456799999999999988664
No 131
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=31.94 E-value=25 Score=29.82 Aligned_cols=25 Identities=32% Similarity=0.400 Sum_probs=21.8
Q ss_pred cHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 116 klAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
++|+.+++.|++|+.|.+.|.|-..
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 5899999999999999999999874
No 132
>cd06216 FNR_iron_sulfur_binding_2 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to for
Probab=30.03 E-value=1.4e+02 Score=26.74 Aligned_cols=45 Identities=11% Similarity=0.167 Sum_probs=30.8
Q ss_pred EEEEEEcCC--CCCeeEEEEEe--ccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 95 GTVIVQHAA--SHSLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 95 ~fsLAv~~~--~~T~wI~Vv~w--GklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
.++|+.... ....-|.|..- |.....+.+.++.||.|.|.|-+..
T Consensus 66 ~ysi~s~~~~~~~~l~~~ik~~~~G~~s~~l~~~~~~Gd~v~i~gP~G~ 114 (243)
T cd06216 66 SYSLSSSPTQEDGTITLTVKAQPDGLVSNWLVNHLAPGDVVELSQPQGD 114 (243)
T ss_pred EEeccCCCcCCCCeEEEEEEEcCCCcchhHHHhcCCCCCEEEEECCcee
Confidence 356664332 23344555555 7788888888999999999987665
No 133
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=29.16 E-value=2.5e+02 Score=29.66 Aligned_cols=82 Identities=16% Similarity=0.210 Sum_probs=46.9
Q ss_pred EEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEE-EeccHHHHHHhhcCCCCeEEEEEEeeecCCCcCCeEEE
Q 021789 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPIL-FEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (307)
Q Consensus 72 V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv-~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk~rs~~ 150 (307)
|.+-|||-. +|. .|+ ++.+.|--..+.-..|++-. +=....+...+++..||.|.|.|.+-... .--.
T Consensus 64 v~vAGRi~~---~R~--~GK-~~F~~i~d~~gkiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~T~-----~Gel 132 (502)
T COG1190 64 VSVAGRIMT---IRN--MGK-ASFADLQDGSGKIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFKTK-----TGEL 132 (502)
T ss_pred eEEecceee---ecc--cCc-eeEEEEecCCceEEEEEeccccchhhHHHHHhccccCCEEeeeeeeeecC-----CCce
Confidence 888999864 232 354 34444432222222333332 22224444566677899999999987643 1234
Q ss_pred EEEEeEEEeeccCC
Q 021789 151 QVMVHSLNLIEPTS 164 (307)
Q Consensus 151 eViVe~I~FL~~k~ 164 (307)
.|.|+++.+|.+.-
T Consensus 133 Sv~v~~~~lLsKsL 146 (502)
T COG1190 133 SVSVEELRLLSKSL 146 (502)
T ss_pred EEEEEEEeeecccC
Confidence 67888887776543
No 134
>COG1018 Hmp Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]
Probab=27.92 E-value=1.9e+02 Score=27.46 Aligned_cols=34 Identities=21% Similarity=0.238 Sum_probs=27.1
Q ss_pred CeeEEEEEe--ccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 106 SLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 106 T~wI~Vv~w--GklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
..+|.|..- |..-..+.++|+.||.|.|++--..
T Consensus 67 ~~~isVk~~~~G~~S~~Lh~~lk~Gd~l~v~~P~G~ 102 (266)
T COG1018 67 LYRISVKREDGGGGSNWLHDHLKVGDTLEVSAPAGD 102 (266)
T ss_pred eEEEEEEEeCCCcccHHHHhcCCCCCEEEEecCCCC
Confidence 577777766 6788889999999999999754443
No 135
>KOG3056 consensus Protein required for S-phase initiation or completion [Cell cycle control, cell division, chromosome partitioning]
Probab=27.83 E-value=1.8e+02 Score=31.10 Aligned_cols=59 Identities=14% Similarity=0.165 Sum_probs=44.8
Q ss_pred EEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEE
Q 021789 73 NLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA 134 (307)
Q Consensus 73 ~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~Vs 134 (307)
..+|-|..--..+.|.+|+.++.+.|---+. . .-+.|-+||+ |..-.-.++-|+.|.|-
T Consensus 189 vt~GvI~~K~~~K~t~~G~~y~iwkL~dLk~-~-q~vslfLFG~-a~k~~wk~k~GtVialL 247 (578)
T KOG3056|consen 189 VTMGVIVEKSDPKFTSNGNPYSIWKLTDLKD-H-QTVSLFLFGK-AHKRYWKIKLGTVIALL 247 (578)
T ss_pred EEEEEEeecCCcccccCCCceEEEEeeecCc-c-ceeEEEEecH-HHHHHhhhccCcEEEEe
Confidence 4568888888888888898888887764433 2 4678889999 66666668999988763
No 136
>PRK10646 ADP-binding protein; Provisional
Probab=27.80 E-value=45 Score=29.45 Aligned_cols=26 Identities=19% Similarity=0.157 Sum_probs=23.4
Q ss_pred ccHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 115 GDLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 115 GklAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
.++|+.+++.|+.||.|++.|.|-..
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaG 40 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAG 40 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCC
Confidence 36899999999999999999999874
No 137
>cd06191 FNR_iron_sulfur_binding Iron-sulfur binding Ferredoxin Reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with a C-terminal iron-sulfur binding cluster domain. FNR was intially identified as a chloroplast reductase activity catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methnae assimilation in a variety of organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in
Probab=27.53 E-value=1.6e+02 Score=26.17 Aligned_cols=25 Identities=16% Similarity=0.323 Sum_probs=21.1
Q ss_pred ccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 115 GDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 115 GklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
|.....+.++++.||.|.|.|-...
T Consensus 70 G~~s~~l~~~~~~Gd~v~i~gP~G~ 94 (231)
T cd06191 70 GRVSNYLREHIQPGMTVEVMGPQGH 94 (231)
T ss_pred CccchHHHhcCCCCCEEEEeCCccc
Confidence 7778888888999999999997654
No 138
>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]
Probab=27.48 E-value=85 Score=34.17 Aligned_cols=55 Identities=18% Similarity=0.385 Sum_probs=42.8
Q ss_pred CeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC----CeEEEEEEEeEEEeeccCC
Q 021789 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE----GQANVQVMVHSLNLIEPTS 164 (307)
Q Consensus 106 T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk----~rs~~eViVe~I~FL~~k~ 164 (307)
+--|.|++=.+|++ .+|.||+|.|.|-.+.---... +.-+.-|++++|..+....
T Consensus 212 PRSVDvilddDLVD----~~KPGDRV~ivG~yr~Lp~k~~g~tsg~FRTvliaNni~~l~ke~ 270 (818)
T KOG0479|consen 212 PRSVDVILDDDLVD----RVKPGDRVNIVGIYRSLPGKSNGNTSGTFRTVLIANNIELLSKEA 270 (818)
T ss_pred CcceeEEecccccc----cCCCCCeeEEEEEEeeccCccCCcccceeEEEEEeccHHhhcccc
Confidence 46789999998876 5899999999999887543222 4556788999999997654
No 139
>smart00350 MCM minichromosome maintenance proteins.
Probab=27.04 E-value=1.6e+02 Score=30.37 Aligned_cols=52 Identities=17% Similarity=0.351 Sum_probs=37.6
Q ss_pred CeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC-----Ce--EEEEEEEeEEEeec
Q 021789 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE-----GQ--ANVQVMVHSLNLIE 161 (307)
Q Consensus 106 T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk-----~r--s~~eViVe~I~FL~ 161 (307)
+-.+.|++-|+|.+ .++.||+|.|.|-+....|..+ .. ..+.|.|..|..++
T Consensus 103 Prsi~v~l~~dLvd----~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~i~~~~ 161 (509)
T smart00350 103 PRSVDVILDGDLVD----KAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANHVRKLD 161 (509)
T ss_pred CcEEEEEEcccccC----cccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeEEEEcc
Confidence 57899999999987 4789999999999998754322 22 23455666666554
No 140
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=26.32 E-value=7.4e+02 Score=26.76 Aligned_cols=89 Identities=15% Similarity=0.278 Sum_probs=58.2
Q ss_pred cceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEecc---HHHHHHhhcCCCCeEEEEEEeeecCCC--
Q 021789 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD---LAHIASSHLKKDDHVHIAGQLTADPPA-- 143 (307)
Q Consensus 69 ~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGk---lAE~~a~yLkKGD~V~VsGrL~s~sye-- 143 (307)
=.+|+|.|.|.+--.+ |. +....|- + ..-=++|++=.+ -|-..++.|+--+.|.|+|.++-+.-.
T Consensus 15 G~~V~L~GWV~r~Rd~-----Gg-liFiDLR-D---r~GivQvv~~~~~~~~~~~~a~~lr~E~vi~V~G~V~~R~e~~~ 84 (585)
T COG0173 15 GQTVTLSGWVHRRRDH-----GG-LIFIDLR-D---REGIVQVVFDPEDSPEAFEVASRLRNEFVIQVTGTVRARPEGTI 84 (585)
T ss_pred CCEEEEEeeeeecccc-----CC-eEEEEcc-c---CCCeEEEEECCccCHHHHHHHHhcCceEEEEEEEEEEecCcccc
Confidence 4578888987764333 44 3222221 2 223566666653 244467789999999999999988542
Q ss_pred -cC-CeEEEEEEEeEEEeeccCCccc
Q 021789 144 -IE-GQANVQVMVHSLNLIEPTSQKR 167 (307)
Q Consensus 144 -dk-~rs~~eViVe~I~FL~~k~~~~ 167 (307)
.+ .--.+||.|++|..+...+..|
T Consensus 85 N~~l~TGeiEv~a~~i~vln~s~~lP 110 (585)
T COG0173 85 NPNLPTGEIEVLAEEIEVLNASKTLP 110 (585)
T ss_pred CCCCCcceEEEEeeeEEEEecCCCCC
Confidence 22 3457899999999998666543
No 141
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=25.86 E-value=54 Score=29.05 Aligned_cols=25 Identities=32% Similarity=0.393 Sum_probs=22.8
Q ss_pred cHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 116 klAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
.+|+.+++.|++||.|+++|-|-..
T Consensus 13 ~lg~~l~~~l~~g~Vv~L~GdLGAG 37 (149)
T COG0802 13 ALGERLAEALKAGDVVLLSGDLGAG 37 (149)
T ss_pred HHHHHHHhhCCCCCEEEEEcCCcCC
Confidence 5789999999999999999999874
No 142
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=25.37 E-value=52 Score=28.80 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=20.3
Q ss_pred EeccHHHHHHhhcCCCCeEEEEE
Q 021789 113 FEGDLAHIASSHLKKDDHVHIAG 135 (307)
Q Consensus 113 ~wGklAE~~a~yLkKGD~V~VsG 135 (307)
..|+||..++..|.-||.|.|.-
T Consensus 9 vlGRLAs~IA~~L~~Gd~VvViN 31 (142)
T TIGR01077 9 ILGRLASVVAKQLLNGEKVVVVN 31 (142)
T ss_pred chHHHHHHHHHHHhcCCEEEEEe
Confidence 46899999999999999998864
No 143
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=23.72 E-value=64 Score=27.72 Aligned_cols=25 Identities=20% Similarity=0.224 Sum_probs=22.9
Q ss_pred cHHHHHHhhcCCCCeEEEEEEeeec
Q 021789 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 116 klAE~~a~yLkKGD~V~VsGrL~s~ 140 (307)
++|+.+++.|+.|+.|.+.|.|-..
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaG 34 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAG 34 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCC
Confidence 5899999999999999999999874
No 144
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=23.40 E-value=60 Score=28.61 Aligned_cols=23 Identities=26% Similarity=0.351 Sum_probs=19.8
Q ss_pred EeccHHHHHHhhcCCCCeEEEEE
Q 021789 113 FEGDLAHIASSHLKKDDHVHIAG 135 (307)
Q Consensus 113 ~wGklAE~~a~yLkKGD~V~VsG 135 (307)
..|+||..++..|.-||.|.|.-
T Consensus 13 vlGRLAs~IA~~L~~Gd~VVViN 35 (146)
T PRK06394 13 ILGRLASYVAKRLLEGEEVVIVN 35 (146)
T ss_pred chHHHHHHHHHHHhCCCEEEEEe
Confidence 56899999999999999888753
No 145
>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=22.96 E-value=2e+02 Score=25.24 Aligned_cols=33 Identities=24% Similarity=0.298 Sum_probs=25.4
Q ss_pred eeEEEEEeccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 107 LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 107 ~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
.-+-|..-|.....+.++|+.||.|.|.|-+..
T Consensus 56 l~l~vk~~G~~t~~l~~~l~~G~~v~i~gP~G~ 88 (216)
T cd06198 56 LRFTIKALGDYTRRLAERLKPGTRVTVEGPYGR 88 (216)
T ss_pred EEEEEEeCChHHHHHHHhCCCCCEEEEECCCCC
Confidence 334444558888888888999999999997654
No 146
>PRK13289 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional
Probab=22.22 E-value=2.5e+02 Score=27.27 Aligned_cols=44 Identities=14% Similarity=0.204 Sum_probs=29.9
Q ss_pred EEEEEcCCCCCeeEEEEEe--ccHHHHHHhhcCCCCeEEEEEEeee
Q 021789 96 TVIVQHAASHSLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (307)
Q Consensus 96 fsLAv~~~~~T~wI~Vv~w--GklAE~~a~yLkKGD~V~VsGrL~s 139 (307)
++||........-|.|..- |.....+.++|+.||.|.|.|-+..
T Consensus 208 ySias~p~~~~l~~~Vk~~~~G~~S~~L~~~l~~Gd~v~v~gP~G~ 253 (399)
T PRK13289 208 YSLSDAPNGKYYRISVKREAGGKVSNYLHDHVNVGDVLELAAPAGD 253 (399)
T ss_pred EEeeeCCCCCeEEEEEEECCCCeehHHHhhcCCCCCEEEEEcCccc
Confidence 5566433222333444444 8888888889999999999997654
No 147
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=21.61 E-value=9e+02 Score=26.01 Aligned_cols=90 Identities=16% Similarity=0.267 Sum_probs=52.3
Q ss_pred ccceEEEEEEeCCCCeEEECCCCcEEEEEEEEEcCCCCCeeEEEEEeccHH-HHHHhhcCCCCeEEEEEEeeecCCCcC-
Q 021789 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIE- 145 (307)
Q Consensus 68 l~N~V~LIGrLg~DPElr~T~sGk~va~fsLAv~~~~~T~wI~Vv~wGklA-E~~a~yLkKGD~V~VsGrL~s~syedk- 145 (307)
.--.|+|-|.|-. +|.. +++.++.+.| ++.+-..=++|++-...+ ......|..|+.|.|+|.|..+.-...
T Consensus 80 ~g~~Vtl~GWv~~---iR~~-g~~~~~Fv~l--rDgsg~~~iQiVv~~~~~~~~~l~~l~~gs~v~v~G~v~~~~~~~~n 153 (586)
T PTZ00425 80 IDQIITVCGWSKA---VRKQ-GGGRFCFVNL--NDGSCHLNLQIIVDQSIENYEKLLKCGVGCCFRFTGKLIISPVQNEN 153 (586)
T ss_pred CCCEEEEEEEEee---hhhc-CCceEEEEEE--ECCCCCcceEEEECCchHHHHHHhcCCCccEEEEEEEEEcCCccccC
Confidence 3346899999854 2222 2223444333 332222347777654321 223457999999999999987543211
Q ss_pred --C--eEEEEEEE-----eEEEeeccC
Q 021789 146 --G--QANVQVMV-----HSLNLIEPT 163 (307)
Q Consensus 146 --~--rs~~eViV-----e~I~FL~~k 163 (307)
+ ...+||.+ .++..|+..
T Consensus 154 ~~g~~~~~~El~~~~~~~~~~~ilg~~ 180 (586)
T PTZ00425 154 KKGLLKENVELALKDNSIHNFEIYGEN 180 (586)
T ss_pred cCCCCCccEEEEEecCCCceEEEEecc
Confidence 1 24478887 688888644
No 148
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=21.04 E-value=4.1e+02 Score=27.55 Aligned_cols=58 Identities=9% Similarity=0.190 Sum_probs=41.3
Q ss_pred EEEcCCCCCeeEEEEEeccHHHHHHhhcCCCCeEEEEEEeeecCCCcC-CeEEEEEEEeEEEeeccC
Q 021789 98 IVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE-GQANVQVMVHSLNLIEPT 163 (307)
Q Consensus 98 LAv~~~~~T~wI~Vv~wGklAE~~a~yLkKGD~V~VsGrL~s~syedk-~rs~~eViVe~I~FL~~k 163 (307)
+.++++.-..-++|++=- -..+++.-|..|.|+|.|... + .+..+|..|+.|..++.-
T Consensus 41 l~i~DGs~~~~lQvVv~~----~~~q~la~Gt~i~~~g~l~~~----~~~~q~iel~~eki~~vG~v 99 (446)
T KOG0554|consen 41 LDINDGSCPSPLQVVVDS----EQSQLLATGTCISAEGVLKVS----KGAKQQIELNAEKIKVVGTV 99 (446)
T ss_pred EEecCCCCCcceEEEech----HHhhhccccceEEEEeeEEec----cchheeeeeeeeEEEEEeec
Confidence 444544444455555544 457889999999999999987 4 567778888888877643
No 149
>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=20.86 E-value=92 Score=24.14 Aligned_cols=19 Identities=21% Similarity=0.358 Sum_probs=16.1
Q ss_pred HhhcCCCCeEEEEEEeeec
Q 021789 122 SSHLKKDDHVHIAGQLTAD 140 (307)
Q Consensus 122 a~yLkKGD~V~VsGrL~s~ 140 (307)
...++.||+|.|+|++...
T Consensus 42 ~~~~~~Gd~V~vtG~v~ey 60 (78)
T cd04486 42 GADVAVGDLVRVTGTVTEY 60 (78)
T ss_pred CCCCCCCCEEEEEEEEEee
Confidence 3568999999999999864
Done!