Query 043474
Match_columns 160
No_of_seqs 119 out of 583
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 05:26:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043474.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043474hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5235 RFA2 Single-stranded D 99.9 3E-25 6.6E-30 169.2 12.9 125 7-150 37-161 (258)
2 cd04478 RPA2_DBD_D RPA2_DBD_D: 99.9 4.7E-24 1E-28 146.3 11.9 94 38-149 1-94 (95)
3 PF10451 Stn1: Telomere regula 99.9 1E-22 2.2E-27 162.4 13.8 134 3-158 21-172 (256)
4 KOG3108 Single-stranded DNA-bi 99.9 2.3E-22 4.9E-27 160.4 10.4 127 6-152 39-165 (265)
5 cd04483 hOBFC1_like hOBFC1_lik 99.8 1.8E-20 3.8E-25 128.4 11.0 91 40-131 1-91 (92)
6 PF01336 tRNA_anti-codon: OB-f 99.4 1E-12 2.3E-17 85.2 8.9 74 39-132 1-75 (75)
7 PRK13480 3'-5' exoribonuclease 99.4 1.4E-12 3E-17 107.2 7.7 87 16-134 4-92 (314)
8 cd04492 YhaM_OBF_like YhaM_OBF 99.2 2.9E-10 6.4E-15 74.9 10.2 63 54-137 19-81 (83)
9 cd03524 RPA2_OBF_family RPA2_O 99.0 1.5E-09 3.2E-14 68.9 7.8 71 40-130 1-74 (75)
10 cd04485 DnaE_OBF DnaE_OBF: A s 99.0 9.8E-10 2.1E-14 72.0 5.9 73 41-133 2-78 (84)
11 cd04489 ExoVII_LU_OBF ExoVII_L 99.0 1.7E-08 3.8E-13 66.1 10.5 73 39-132 2-77 (78)
12 cd04491 SoSSB_OBF SoSSB_OBF: A 98.9 7.6E-09 1.6E-13 68.9 8.3 57 51-130 20-77 (82)
13 PRK06461 single-stranded DNA-b 98.9 3.6E-09 7.7E-14 76.6 7.1 87 37-147 15-113 (129)
14 cd04487 RecJ_OBF2_like RecJ_OB 98.7 2.5E-07 5.4E-12 60.6 9.3 72 39-131 1-72 (73)
15 cd04482 RPA2_OBF_like RPA2_OBF 98.6 4.7E-07 1E-11 61.7 9.8 74 40-134 2-76 (91)
16 cd04488 RecG_wedge_OBF RecG_we 98.6 5.2E-07 1.1E-11 57.8 8.4 67 41-128 2-71 (75)
17 PF13742 tRNA_anti_2: OB-fold 98.5 1.2E-06 2.6E-11 60.6 9.2 76 36-131 21-99 (99)
18 COG3390 Uncharacterized protei 98.4 2.6E-06 5.6E-11 64.7 9.7 120 10-147 11-144 (196)
19 COG1107 Archaea-specific RecJ- 98.4 1.3E-06 2.9E-11 76.2 8.6 78 37-135 214-291 (715)
20 cd04490 PolII_SU_OBF PolII_SU_ 98.3 1.1E-05 2.4E-10 53.5 9.4 71 39-130 2-73 (79)
21 COG4085 Predicted RNA-binding 98.3 4.9E-06 1.1E-10 63.5 7.9 92 32-138 47-142 (204)
22 cd04484 polC_OBF polC_OBF: A s 98.1 3.7E-05 8.1E-10 51.3 9.1 73 39-131 2-81 (82)
23 COG1570 XseA Exonuclease VII, 98.1 3.3E-05 7.2E-10 66.0 10.8 81 36-136 23-105 (440)
24 TIGR00237 xseA exodeoxyribonuc 98.0 0.00011 2.5E-09 63.0 12.5 79 36-134 17-97 (432)
25 cd04321 ScAspRS_mt_like_N ScAs 98.0 0.0001 2.2E-09 49.4 9.7 76 39-133 2-85 (86)
26 PRK00286 xseA exodeoxyribonucl 98.0 0.00016 3.4E-09 62.1 12.9 80 36-135 23-104 (438)
27 PRK05673 dnaE DNA polymerase I 98.0 1.6E-05 3.5E-10 75.3 6.9 78 37-134 978-1059(1135)
28 cd04100 Asp_Lys_Asn_RS_N Asp_L 98.0 0.00014 3.1E-09 48.4 9.4 77 39-133 2-84 (85)
29 cd04316 ND_PkAspRS_like_N ND_P 97.9 0.00019 4.2E-09 50.0 10.1 82 37-135 13-97 (108)
30 KOG3416 Predicted nucleic acid 97.9 7.6E-05 1.6E-09 53.4 7.9 50 54-127 37-87 (134)
31 cd04323 AsnRS_cyto_like_N AsnR 97.9 0.00025 5.5E-09 47.1 10.1 76 39-133 2-83 (84)
32 PRK07373 DNA polymerase III su 97.9 5.1E-05 1.1E-09 65.5 7.9 78 37-134 281-362 (449)
33 cd04320 AspRS_cyto_N AspRS_cyt 97.9 0.00025 5.5E-09 48.8 9.9 82 39-135 2-92 (102)
34 COG3481 Predicted HD-superfami 97.8 1.1E-05 2.4E-10 65.5 2.7 63 52-135 19-81 (287)
35 cd04322 LysRS_N LysRS_N: N-ter 97.8 0.00033 7.1E-09 48.8 9.4 80 39-134 2-82 (108)
36 cd04317 EcAspRS_like_N EcAspRS 97.8 0.00026 5.6E-09 51.3 9.1 80 37-135 15-104 (135)
37 PRK07217 replication factor A; 97.8 0.00013 2.9E-09 59.8 8.1 77 35-134 81-160 (311)
38 PF04076 BOF: Bacterial OB fol 97.8 0.00083 1.8E-08 46.8 10.8 68 37-130 35-102 (103)
39 cd04319 PhAsnRS_like_N PhAsnRS 97.7 0.0006 1.3E-08 47.1 9.9 79 39-135 2-83 (103)
40 PRK07211 replication factor A; 97.7 0.00038 8.3E-09 60.5 9.8 77 37-134 172-261 (485)
41 PRK07218 replication factor A; 97.7 0.00046 1E-08 59.1 10.1 72 37-133 173-255 (423)
42 cd04318 EcAsnRS_like_N EcAsnRS 97.7 0.0015 3.2E-08 43.2 10.5 74 39-132 2-80 (82)
43 PRK14699 replication factor A; 97.6 0.00021 4.5E-09 62.3 7.7 74 36-128 67-149 (484)
44 TIGR00156 conserved hypothetic 97.5 0.0018 4E-08 46.6 9.9 68 37-130 58-125 (126)
45 PRK07211 replication factor A; 97.5 0.00072 1.6E-08 58.8 9.2 79 37-135 64-152 (485)
46 PRK07218 replication factor A; 97.4 0.001 2.3E-08 57.0 8.8 67 36-128 68-142 (423)
47 PRK07374 dnaE DNA polymerase I 97.4 0.00055 1.2E-08 65.2 7.6 78 37-134 1001-1082(1170)
48 PRK06920 dnaE DNA polymerase I 97.4 0.00058 1.3E-08 64.7 7.6 78 37-134 944-1025(1107)
49 PRK05672 dnaE2 error-prone DNA 97.3 0.00068 1.5E-08 64.0 7.5 78 37-134 954-1033(1046)
50 PRK12366 replication factor A; 97.3 0.0011 2.5E-08 59.5 8.6 75 37-134 185-269 (637)
51 TIGR00458 aspS_arch aspartyl-t 97.3 0.0022 4.8E-08 55.1 10.0 81 37-134 13-96 (428)
52 PRK06826 dnaE DNA polymerase I 97.3 0.00073 1.6E-08 64.3 7.6 77 37-133 992-1073(1151)
53 PRK08402 replication factor A; 97.3 0.0017 3.7E-08 54.5 8.9 72 37-128 73-155 (355)
54 PRK05159 aspC aspartyl-tRNA sy 97.3 0.0027 5.8E-08 54.7 9.9 81 37-135 17-100 (437)
55 PRK15491 replication factor A; 97.2 0.0031 6.8E-08 53.3 9.8 77 37-134 177-268 (374)
56 COG0017 AsnS Aspartyl/asparagi 97.2 0.0043 9.4E-08 53.3 10.4 79 37-133 17-98 (435)
57 PRK00484 lysS lysyl-tRNA synth 97.2 0.0033 7.1E-08 55.0 10.0 81 37-134 55-136 (491)
58 PRK03932 asnC asparaginyl-tRNA 97.2 0.0043 9.3E-08 53.7 10.2 80 37-134 17-99 (450)
59 TIGR00457 asnS asparaginyl-tRN 97.1 0.0045 9.6E-08 53.7 9.8 80 37-134 17-101 (453)
60 PRK07279 dnaE DNA polymerase I 97.1 0.0015 3.3E-08 61.5 7.0 76 38-133 886-966 (1034)
61 PRK12445 lysyl-tRNA synthetase 97.1 0.0053 1.1E-07 53.9 9.8 82 37-134 66-148 (505)
62 PRK14699 replication factor A; 97.0 0.0034 7.4E-08 54.8 8.4 78 37-135 177-266 (484)
63 PRK06386 replication factor A; 97.0 0.0032 6.9E-08 52.9 7.8 71 37-134 118-196 (358)
64 TIGR00499 lysS_bact lysyl-tRNA 97.0 0.0061 1.3E-07 53.4 9.8 82 37-134 54-136 (496)
65 PLN02903 aminoacyl-tRNA ligase 97.0 0.0057 1.2E-07 55.1 9.6 80 37-134 73-162 (652)
66 PRK15491 replication factor A; 97.0 0.006 1.3E-07 51.6 9.2 77 37-133 68-157 (374)
67 PRK10053 hypothetical protein; 96.9 0.013 2.8E-07 42.5 9.2 68 37-130 62-129 (130)
68 PLN02221 asparaginyl-tRNA synt 96.9 0.011 2.4E-07 52.6 10.3 98 8-133 29-135 (572)
69 PLN02502 lysyl-tRNA synthetase 96.9 0.011 2.4E-07 52.4 10.2 84 37-134 109-193 (553)
70 PRK06386 replication factor A; 96.8 0.01 2.3E-07 49.9 9.3 68 36-128 12-87 (358)
71 PRK12366 replication factor A; 96.8 0.0048 1.1E-07 55.6 7.7 76 37-133 74-162 (637)
72 TIGR00459 aspS_bact aspartyl-t 96.8 0.0087 1.9E-07 53.4 9.1 78 37-134 16-103 (583)
73 COG3111 Periplasmic protein wi 96.7 0.016 3.5E-07 41.4 8.4 71 36-132 57-127 (128)
74 PRK10917 ATP-dependent DNA hel 96.7 0.012 2.7E-07 53.3 9.8 68 37-125 60-130 (681)
75 PRK12820 bifunctional aspartyl 96.7 0.012 2.7E-07 53.5 9.6 81 37-134 19-109 (706)
76 PTZ00385 lysyl-tRNA synthetase 96.7 0.016 3.4E-07 52.4 9.9 82 38-134 109-191 (659)
77 PTZ00401 aspartyl-tRNA synthet 96.7 0.015 3.3E-07 51.5 9.7 82 37-134 79-168 (550)
78 PRK00476 aspS aspartyl-tRNA sy 96.7 0.014 3.1E-07 52.1 9.6 78 37-134 18-105 (588)
79 cd04497 hPOT1_OB1_like hPOT1_O 96.6 0.022 4.7E-07 41.5 8.8 71 37-128 15-95 (138)
80 cd04479 RPA3 RPA3: A subfamily 96.6 0.081 1.8E-06 36.5 11.1 69 37-139 16-86 (101)
81 PLN02850 aspartate-tRNA ligase 96.6 0.017 3.7E-07 51.0 9.6 83 37-134 82-171 (530)
82 cd04474 RPA1_DBD_A RPA1_DBD_A: 96.6 0.0064 1.4E-07 42.1 5.4 58 37-114 10-76 (104)
83 COG1200 RecG RecG-like helicas 96.6 0.02 4.4E-07 51.5 9.8 76 35-131 59-137 (677)
84 PRK02983 lysS lysyl-tRNA synth 96.5 0.024 5.1E-07 54.1 10.2 81 37-133 652-733 (1094)
85 PTZ00425 asparagine-tRNA ligas 96.4 0.023 4.9E-07 50.8 9.2 95 5-118 48-147 (586)
86 TIGR01405 polC_Gram_pos DNA po 96.4 0.022 4.7E-07 54.8 9.7 81 35-133 6-92 (1213)
87 PRK05813 single-stranded DNA-b 96.4 0.05 1.1E-06 42.8 10.1 79 35-135 7-103 (219)
88 PRK00448 polC DNA polymerase I 96.4 0.023 4.9E-07 55.5 9.8 82 36-135 236-323 (1437)
89 TIGR00643 recG ATP-dependent D 96.4 0.023 4.9E-07 51.1 9.0 67 37-125 33-103 (630)
90 PLN02603 asparaginyl-tRNA synt 96.3 0.032 6.8E-07 49.7 9.4 78 37-134 108-192 (565)
91 PF08661 Rep_fac-A_3: Replicat 96.3 0.11 2.3E-06 36.3 10.2 82 37-148 19-101 (109)
92 cd04475 RPA1_DBD_B RPA1_DBD_B: 96.2 0.048 1E-06 37.2 7.9 66 39-127 2-79 (101)
93 COG1190 LysU Lysyl-tRNA synthe 95.9 0.056 1.2E-06 47.1 8.8 79 39-133 64-143 (502)
94 PRK08402 replication factor A; 95.9 0.024 5.1E-07 47.8 6.2 88 56-147 247-350 (355)
95 PRK07275 single-stranded DNA-b 95.8 0.083 1.8E-06 39.7 8.1 80 36-135 2-106 (162)
96 PRK02801 primosomal replicatio 95.7 0.1 2.2E-06 36.0 8.0 63 37-119 3-82 (101)
97 PRK08486 single-stranded DNA-b 95.7 0.1 2.2E-06 39.9 8.6 79 36-134 2-107 (182)
98 cd04481 RPA1_DBD_B_like RPA1_D 95.7 0.058 1.3E-06 37.2 6.6 63 53-131 22-91 (106)
99 PRK06751 single-stranded DNA-b 95.6 0.11 2.3E-06 39.5 8.2 79 36-134 2-105 (173)
100 PRK08763 single-stranded DNA-b 95.5 0.14 3E-06 38.6 8.5 79 36-134 5-110 (164)
101 PF02765 POT1: Telomeric singl 95.5 0.32 6.9E-06 35.6 10.2 74 35-129 11-101 (146)
102 COG1571 Predicted DNA-binding 95.5 0.068 1.5E-06 45.8 7.4 76 35-132 265-341 (421)
103 PTZ00417 lysine-tRNA ligase; P 95.4 0.15 3.2E-06 45.7 9.6 83 38-133 134-217 (585)
104 PRK07459 single-stranded DNA-b 95.3 0.064 1.4E-06 38.3 5.9 78 36-133 3-102 (121)
105 COG2176 PolC DNA polymerase II 95.2 0.049 1.1E-06 51.9 6.2 81 35-133 238-324 (1444)
106 PRK08182 single-stranded DNA-b 95.2 0.18 3.8E-06 37.3 8.1 47 67-133 56-111 (148)
107 PRK06752 single-stranded DNA-b 95.2 0.19 4E-06 35.2 7.9 79 37-135 3-106 (112)
108 PRK06293 single-stranded DNA-b 95.1 0.23 4.9E-06 37.3 8.5 79 37-135 2-102 (161)
109 cd04486 YhcR_OBF_like YhcR_OBF 94.7 0.051 1.1E-06 35.8 3.7 28 101-128 43-70 (78)
110 PRK05813 single-stranded DNA-b 94.3 0.51 1.1E-05 37.2 9.1 82 34-136 107-211 (219)
111 PF00436 SSB: Single-strand bi 94.3 0.45 9.8E-06 32.0 7.9 46 66-131 49-103 (104)
112 PF03100 CcmE: CcmE; InterPro 94.2 1.3 2.7E-05 32.0 10.4 70 35-131 49-121 (131)
113 PRK06863 single-stranded DNA-b 93.9 0.48 1.1E-05 35.8 8.0 81 36-136 4-112 (168)
114 PF02760 HIN: HIN-200/IF120x d 93.7 0.13 2.7E-06 38.6 4.4 22 54-75 130-151 (170)
115 TIGR00621 ssb single stranded 93.3 0.59 1.3E-05 35.0 7.6 49 64-132 50-107 (164)
116 PRK06958 single-stranded DNA-b 93.3 0.77 1.7E-05 35.2 8.3 79 36-134 4-110 (182)
117 COG0587 DnaE DNA polymerase II 93.3 0.1 2.2E-06 50.0 4.2 77 38-134 978-1061(1139)
118 PF15072 DUF4539: Domain of un 92.9 0.68 1.5E-05 31.1 6.6 58 40-119 6-63 (86)
119 PRK07135 dnaE DNA polymerase I 92.9 0.32 7E-06 46.0 6.8 60 38-118 899-961 (973)
120 PRK07274 single-stranded DNA-b 92.8 0.39 8.5E-06 34.6 5.8 77 37-133 3-103 (131)
121 TIGR00617 rpa1 replication fac 92.7 1.2 2.7E-05 40.1 10.0 66 38-126 312-389 (608)
122 PF08646 Rep_fac-A_C: Replicat 92.6 0.42 9.2E-06 34.7 5.8 80 56-138 56-142 (146)
123 KOG1885 Lysyl-tRNA synthetase 92.3 0.53 1.1E-05 41.0 6.7 82 37-132 105-187 (560)
124 PRK05733 single-stranded DNA-b 91.9 0.61 1.3E-05 35.4 6.0 62 36-117 5-85 (172)
125 PRK07217 replication factor A; 91.8 0.38 8.2E-06 39.8 5.2 70 55-133 218-296 (311)
126 PRK13254 cytochrome c-type bio 91.6 1.4 3.1E-05 32.6 7.6 69 36-131 51-121 (148)
127 PRK06642 single-stranded DNA-b 91.3 0.76 1.6E-05 34.1 6.0 62 36-117 5-86 (152)
128 cd04496 SSB_OBF SSB_OBF: A sub 91.0 1.4 3E-05 29.3 6.6 36 63-118 42-77 (100)
129 PRK13732 single-stranded DNA-b 90.9 0.88 1.9E-05 34.6 6.0 63 35-117 5-86 (175)
130 PRK13159 cytochrome c-type bio 90.4 6 0.00013 29.5 10.0 74 36-137 51-127 (155)
131 KOG0555 Asparaginyl-tRNA synth 89.9 0.52 1.1E-05 40.4 4.3 41 34-75 121-161 (545)
132 PLN02532 asparagine-tRNA synth 89.5 1.8 3.9E-05 39.3 7.7 60 54-134 134-200 (633)
133 COG0173 AspS Aspartyl-tRNA syn 89.2 2.5 5.5E-05 37.6 8.2 79 36-132 15-103 (585)
134 PF12869 tRNA_anti-like: tRNA_ 89.2 2 4.3E-05 30.8 6.6 64 37-119 68-133 (144)
135 KOG0554 Asparaginyl-tRNA synth 88.4 1.3 2.8E-05 37.9 5.6 77 34-135 18-99 (446)
136 cd04476 RPA1_DBD_C RPA1_DBD_C: 88.3 2.1 4.6E-05 31.7 6.4 88 56-146 70-164 (166)
137 PRK13165 cytochrome c-type bio 88.3 9 0.00019 28.8 10.7 74 36-136 57-133 (160)
138 PRK09010 single-stranded DNA-b 87.8 2 4.4E-05 32.7 6.0 66 35-120 5-91 (177)
139 TIGR00617 rpa1 replication fac 87.1 1.6 3.5E-05 39.4 5.9 61 37-117 191-260 (608)
140 PRK04036 DNA polymerase II sma 86.0 4.3 9.3E-05 35.8 7.9 62 37-116 154-215 (504)
141 PRK06341 single-stranded DNA-b 85.6 2.9 6.2E-05 31.6 5.7 65 36-120 5-91 (166)
142 PRK13150 cytochrome c-type bio 85.3 14 0.00029 27.8 11.4 74 36-136 57-133 (159)
143 TIGR00594 polc DNA-directed DN 84.3 2.1 4.6E-05 40.9 5.5 36 37-72 982-1022(1022)
144 TIGR00644 recJ single-stranded 84.1 17 0.00036 32.3 10.8 84 13-127 447-537 (539)
145 KOG2411 Aspartyl-tRNA syntheta 83.4 7.1 0.00015 34.6 7.8 82 36-135 47-138 (628)
146 PRK07772 single-stranded DNA-b 82.4 5.1 0.00011 30.8 6.0 32 66-117 54-85 (186)
147 PRK11070 ssDNA exonuclease Rec 79.3 35 0.00075 30.8 11.0 88 14-132 480-575 (575)
148 KOG0556 Aspartyl-tRNA syntheta 78.0 27 0.00058 30.4 9.3 84 37-134 83-174 (533)
149 PF13567 DUF4131: Domain of un 77.1 15 0.00032 26.1 6.9 18 102-119 128-145 (176)
150 PF09104 BRCA-2_OB3: BRCA2, ol 76.2 14 0.0003 27.3 6.3 92 35-148 17-114 (143)
151 COG0629 Ssb Single-stranded DN 70.5 2.9 6.3E-05 31.2 1.7 35 64-118 50-84 (167)
152 COG1599 RFA1 Single-stranded D 69.7 12 0.00027 31.9 5.6 76 36-134 59-145 (407)
153 COG2332 CcmE Cytochrome c-type 69.7 40 0.00087 25.0 7.5 74 36-136 51-127 (153)
154 PF07076 DUF1344: Protein of u 65.8 28 0.00061 21.9 5.2 45 41-114 5-49 (61)
155 PRK05853 hypothetical protein; 63.3 5.8 0.00013 29.8 2.1 35 63-117 41-75 (161)
156 cd04480 RPA1_DBD_A_like RPA1_D 61.5 38 0.00082 22.0 5.7 40 54-113 19-59 (86)
157 PF15489 CTC1: CST, telomere m 57.8 30 0.00064 33.6 6.1 62 40-133 548-609 (1144)
158 PF15490 Ten1_2: Telomere-capp 57.7 66 0.0014 22.8 11.6 50 102-153 64-115 (118)
159 PF15489 CTC1: CST, telomere m 57.3 8.7 0.00019 37.0 2.6 75 55-147 1015-1089(1144)
160 COG2374 Predicted extracellula 56.1 77 0.0017 29.6 8.2 27 101-127 264-290 (798)
161 PF01588 tRNA_bind: Putative t 54.0 50 0.0011 22.0 5.3 31 41-71 2-34 (95)
162 COG1588 POP4 RNase P/RNase MRP 49.5 43 0.00093 22.9 4.3 54 38-119 30-83 (95)
163 COG1311 HYS2 Archaeal DNA poly 49.4 26 0.00057 30.8 4.1 43 29-74 134-176 (481)
164 KOG3818 DNA polymerase epsilon 48.7 55 0.0012 28.8 5.8 72 33-133 173-244 (525)
165 cd04454 S1_Rrp4_like S1_Rrp4_l 46.8 74 0.0016 20.2 6.2 64 40-127 9-73 (82)
166 PF08696 Dna2: DNA replication 46.3 60 0.0013 25.1 5.4 33 58-113 2-35 (209)
167 cd04498 hPOT1_OB2 hPOT1_OB2: A 44.5 21 0.00046 25.5 2.4 12 101-112 75-86 (123)
168 cd05697 S1_Rrp5_repeat_hs5 S1_ 39.7 64 0.0014 19.7 3.9 20 41-63 4-23 (69)
169 CHL00010 infA translation init 39.1 1.1E+02 0.0023 19.9 7.6 51 38-112 6-56 (78)
170 PF08260 Kinin: Insect kinin p 38.9 14 0.0003 13.8 0.4 7 3-9 1-7 (8)
171 COG4025 Predicted membrane pro 36.3 1.5E+02 0.0032 24.0 6.1 76 27-129 201-280 (284)
172 PF02294 7kD_DNA_binding: 7kD 36.2 37 0.0008 20.6 2.1 16 51-66 24-39 (62)
173 TIGR00638 Mop molybdenum-pteri 35.9 1E+02 0.0022 18.6 5.9 33 40-73 8-41 (69)
174 COG4013 Uncharacterized protei 35.2 1.4E+02 0.003 20.1 4.9 46 101-147 19-77 (91)
175 PF09874 DUF2101: Predicted me 33.3 1.3E+02 0.0027 23.6 5.2 59 40-125 144-204 (206)
176 PF13296 T6SS_Vgr: Putative ty 32.5 35 0.00076 23.9 1.9 21 55-75 9-29 (109)
177 COG1599 RFA1 Single-stranded D 32.4 54 0.0012 28.0 3.4 36 40-75 285-320 (407)
178 PF11495 Regulator_TrmB: Archa 32.1 1.1E+02 0.0025 23.7 5.0 71 3-74 144-219 (233)
179 PRK06763 F0F1 ATP synthase sub 31.4 1.2E+02 0.0027 23.7 4.8 15 101-115 73-87 (213)
180 cd05695 S1_Rrp5_repeat_hs3 S1_ 30.2 1.3E+02 0.0029 18.3 5.7 25 41-68 4-29 (66)
181 cd05706 S1_Rrp5_repeat_sc10 S1 28.4 1.5E+02 0.0032 18.1 7.5 25 41-68 7-32 (73)
182 PRK12329 nusA transcription el 28.1 1.7E+02 0.0037 25.7 5.7 66 41-130 156-225 (449)
183 PF12658 Ten1: Telomere cappin 27.2 2.3E+02 0.0051 20.1 9.9 81 35-136 24-115 (124)
184 PF00575 S1: S1 RNA binding do 25.7 1.3E+02 0.0029 18.3 3.7 50 41-112 8-58 (74)
185 cd04477 RPA1N RPA1N: A subfami 25.3 2.2E+02 0.0048 19.2 5.1 59 54-131 36-95 (97)
186 PF06079 Apyrase: Apyrase; In 24.5 54 0.0012 27.0 1.9 11 57-67 66-76 (291)
187 smart00424 STE STE like transc 24.3 80 0.0017 21.8 2.4 20 57-76 6-25 (111)
188 cd04455 S1_NusA S1_NusA: N-uti 23.7 1.8E+02 0.0039 17.7 5.3 44 41-112 7-50 (67)
189 PF03459 TOBE: TOBE domain; I 23.1 1.8E+02 0.0038 17.3 5.5 34 40-74 6-40 (64)
190 TIGR00849 gutA PTS system, glu 22.2 1.9E+02 0.0042 20.5 4.2 64 26-112 55-119 (121)
191 PF07532 Big_4: Bacterial Ig-l 21.2 2E+02 0.0043 17.1 4.5 41 54-117 18-58 (59)
192 smart00316 S1 Ribosomal protei 21.2 1.8E+02 0.004 16.8 3.8 24 101-126 45-69 (72)
193 PLN00208 translation initiatio 21.1 3.5E+02 0.0076 20.0 6.9 55 40-121 33-87 (145)
194 PRK05807 hypothetical protein; 21.0 3.2E+02 0.007 19.5 7.5 29 101-130 47-76 (136)
195 PF09739 MCM_bind: Mini-chromo 20.6 84 0.0018 22.3 2.1 28 101-128 22-50 (123)
196 PF03843 Slp: Outer membrane l 20.3 3.7E+02 0.0079 19.9 6.0 19 101-119 89-107 (160)
197 smart00739 KOW KOW (Kyprides, 20.1 91 0.002 15.2 1.7 11 103-113 2-12 (28)
198 PRK00276 infA translation init 20.0 2.4E+02 0.0053 17.7 7.8 51 38-112 6-56 (72)
No 1
>COG5235 RFA2 Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair]
Probab=99.93 E-value=3e-25 Score=169.15 Aligned_cols=125 Identities=19% Similarity=0.344 Sum_probs=112.7
Q ss_pred ccccceehhhhhccCCCCCCCceEECCeEeeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCC
Q 043474 7 NTHVKLLAFDLLSLTPTPDPATFSRSGKLLSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDP 86 (160)
Q Consensus 7 ~~~~~l~i~~i~~l~~~~~~~~~~~~~~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~ 86 (160)
+..-|+.||||++.++...++.|++++.++.+|.+||.|+++.... ....|+|+||||.|+|+.|...+..
T Consensus 37 ntLrpvTIKQIl~~~qd~~d~~f~vd~~Ev~~V~fVGvvrni~~~t-tn~~~~iEDGTG~Ievr~W~~~~~~-------- 107 (258)
T COG5235 37 NTLRPVTIKQILSCDQDETDSTFLVDSAEVTNVQFVGVVRNIKTST-TNSMFVIEDGTGSIEVRFWPGNSYE-------- 107 (258)
T ss_pred eeeeeeEHHHhhcccccccCCceeecceEEeeEEEEEEEEeeeecc-cceEEEEecCCceEEEEecCCCchH--------
Confidence 4556899999999999888899999999999999999999999877 5589999999999999999876542
Q ss_pred CccccccccccccccccccCcEEEEEEEeceeCCceEEEEEEEEEcCChhHHHHHHHHHHHHHH
Q 043474 87 STVRLIAGVATDFAAKIKIGLVARVRGRIASYRGDVQITVSDVVIEKDPNMEVLHWLDCLRLAR 150 (160)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~~~~qi~~~~i~~v~d~n~~~~h~le~~~~~~ 150 (160)
.++....+.|.||+|.|.++.|+||+.|....|++++|.||..+|||||+..|-
T Consensus 108 ----------~e~~~d~~~~~yvkV~G~lk~F~GK~~I~~~~i~~I~d~NeV~~HfLe~I~~Hl 161 (258)
T COG5235 108 ----------EEQCKDLEEQNYVKVNGSLKTFNGKRSISASHISAIEDSNEVTYHFLECIYQHL 161 (258)
T ss_pred ----------HHhccccccccEEEEecceeeeCCeeEEehhheeeccccchhHHHHHHHHHHHH
Confidence 235567788999999999999999999999999999999999999999998764
No 2
>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=99.92 E-value=4.7e-24 Score=146.35 Aligned_cols=94 Identities=24% Similarity=0.413 Sum_probs=83.5
Q ss_pred EEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 38 RAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 38 ~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
.|++||.|++++..+ .|+.|+|+|+||+|+|++|...+... ....+.++.|++|+|.|+++.
T Consensus 1 ~v~~vG~V~~~~~~~-~~~~~tL~D~TG~I~~~~W~~~~~~~-----------------~~~~~~~~~g~~v~v~G~v~~ 62 (95)
T cd04478 1 QVTLVGVVRNVEEQS-TNITYTIDDGTGTIEVRQWLDDDNDD-----------------SSEVEPIEEGTYVRVFGNLKS 62 (95)
T ss_pred CEEEEEEEEeeeEcc-cEEEEEEECCCCcEEEEEeCCCCCcc-----------------cccccccccCCEEEEEEEEcc
Confidence 378999999999887 88999999999999999998765310 013467999999999999999
Q ss_pred eCCceEEEEEEEEEcCChhHHHHHHHHHHHHH
Q 043474 118 YRGDVQITVSDVVIEKDPNMEVLHWLDCLRLA 149 (160)
Q Consensus 118 f~~~~qi~~~~i~~v~d~n~~~~h~le~~~~~ 149 (160)
|+|++||.+..++|++|+||.++|+|+|+++|
T Consensus 63 ~~g~~ql~i~~i~~v~d~ne~~~h~l~~~~~~ 94 (95)
T cd04478 63 FQGKKSIMAFSIRPVTDFNEVTYHLLEVIYVH 94 (95)
T ss_pred cCCeeEEEEEEEEEeCCccHHHHhHhhhhhhh
Confidence 99999999999999999999999999999875
No 3
>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=99.90 E-value=1e-22 Score=162.43 Aligned_cols=134 Identities=21% Similarity=0.342 Sum_probs=105.4
Q ss_pred CCcccccc-ceehhhhhc-cCCC----------CCCCceEECCeEeeEEEEEEEEEEeecc----CCceEEEEEeCCCc-
Q 043474 3 HTLQNTHV-KLLAFDLLS-LTPT----------PDPATFSRSGKLLSRAEIVGTITSRDHK----PSKFIKFTVDDGTG- 65 (160)
Q Consensus 3 ~p~~~~~~-~l~i~~i~~-l~~~----------~~~~~~~~~~~~i~~v~ivG~V~~~~~~----~~~~~~~~IdDgTG- 65 (160)
+|++..++ ||||+||+. +..+ ..++.|+++|+||+.|+|+|.|++++.+ . +|+.|+|||+||
T Consensus 21 ~~~~~~~~~PlfI~DI~~~~~~Sr~~~~~y~~~~~~~~~f~~NhPI~~v~i~G~Vv~~~~~~~~~~-~~~~l~iDD~Sg~ 99 (256)
T PF10451_consen 21 SPTYGKVTVPLFISDIHKRLKQSRKVCENYYAPQQQNIYFYNNHPIRWVRIVGVVVGIDYKWIENE-DRIILTIDDSSGA 99 (256)
T ss_dssp STTTTSEE-E--HHHHCT----C--THHHHGGGG-TT-EEETTEEE-EEEEEEEEEEEEEEE-BBT-CEEEEEEE-SSCS
T ss_pred ccccccccCcEEHHHhhhhcccccchhhhhhhhccCCEEEECCcccEEEEEEEEEEEEEEEeeccc-ceEEEEEeCCCCc
Confidence 68888777 999999998 5454 2468999999999999999999999865 4 889999999999
Q ss_pred -eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeCCceEEEEEEEEEcCChhHHHHHHHH
Q 043474 66 -CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYRGDVQITVSDVVIEKDPNMEVLHWLD 144 (160)
Q Consensus 66 -~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~~~~qi~~~~i~~v~d~n~~~~h~le 144 (160)
.|+|++|....... .. ..... +|+.|+|+|.++ ++.+||.+..|..+.+.+.|+.||.+
T Consensus 100 ~~i~~~~~~~~~~~~----------------~l-~~~~~-~G~~V~VkG~vs--r~~~ql~ve~i~~~~~l~~Ei~fW~~ 159 (256)
T PF10451_consen 100 NTIECKCSKSSYLSM----------------GL-PINDL-IGKVVEVKGTVS--RNERQLDVERIELVRDLNAEIEFWKE 159 (256)
T ss_dssp -EEEEEEEHHHHHCC----------------CH-HCTT--TT-EEEEEEEEE--SSSEEEEEEEEEEETSCCHHHHHHHH
T ss_pred eeEEEEEEccccccc----------------CC-CccCC-CCcEEEEEEEEc--cCcEEEEEEEEEccCChHHHHHHHHH
Confidence 89999997653210 00 12334 999999999999 89999999999999999999999999
Q ss_pred HHHHHHhhcccCCC
Q 043474 145 CLRLARKRYDVVVN 158 (160)
Q Consensus 145 ~~~~~~~~~~~p~~ 158 (160)
++++++. +++||.
T Consensus 160 ~~~~R~~-L~~PW~ 172 (256)
T PF10451_consen 160 RMRFRKE-LSKPWV 172 (256)
T ss_dssp HHHHHHH-CCCHHH
T ss_pred HHHHHHH-cCCCcC
Confidence 9999765 899984
No 4
>KOG3108 consensus Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [Replication, recombination and repair]
Probab=99.88 E-value=2.3e-22 Score=160.39 Aligned_cols=127 Identities=21% Similarity=0.352 Sum_probs=111.0
Q ss_pred cccccceehhhhhccCCCCCCCceEECCeEeeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCC
Q 043474 6 QNTHVKLLAFDLLSLTPTPDPATFSRSGKLLSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRD 85 (160)
Q Consensus 6 ~~~~~~l~i~~i~~l~~~~~~~~~~~~~~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~ 85 (160)
....+++.++||.+.+..... .|.++|.++.+|.+||+|++++... ..+.|+|+|+||.|+|+.|......
T Consensus 39 ~~~v~~~ti~qi~s~~~~~~~-~~~i~~~~v~~v~~VGivr~~e~~~-t~i~y~I~D~tg~id~r~W~~~~~~------- 109 (265)
T KOG3108|consen 39 VQGVVPLTIKQILSSTQDDDS-VFKIGGVEVSAVSIVGIVRNIEKSA-TNITYEIEDGTGQIDVRQWFHDNAE------- 109 (265)
T ss_pred eccccccceeeeccccccccc-cEEEccEEEEEEEEEEEEEeceecC-cceEEEEecCcccEEEEEeccccch-------
Confidence 345668899999987765433 9999999999999999999999987 5589999999999999999887642
Q ss_pred CCccccccccccccccccccCcEEEEEEEeceeCCceEEEEEEEEEcCChhHHHHHHHHHHHHHHhh
Q 043474 86 PSTVRLIAGVATDFAAKIKIGLVARVRGRIASYRGDVQITVSDVVIEKDPNMEVLHWLDCLRLARKR 152 (160)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~~~~qi~~~~i~~v~d~n~~~~h~le~~~~~~~~ 152 (160)
..+...++.|.|||+.|.++.|+|++.|.+++|+|+.|+||.+.|+|||++.|.-.
T Consensus 110 -----------~~e~~~l~~~~yVkv~G~Lk~f~Gk~sl~~fkI~pv~D~Nevt~h~LE~i~~hl~~ 165 (265)
T KOG3108|consen 110 -----------SEEMPALETGTYVKVYGHLKPFQGKKSLQVFKIRPVEDFNEVTTHFLEVINAHLSL 165 (265)
T ss_pred -----------hhhCcccccCcEEEeeecccCCCCceeEEEEeeeeeecCCceeEEeehhhHHHHHh
Confidence 12346899999999999999999999999999999999999999999999986543
No 5
>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=99.85 E-value=1.8e-20 Score=128.43 Aligned_cols=91 Identities=40% Similarity=0.584 Sum_probs=68.5
Q ss_pred EEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeC
Q 043474 40 EIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYR 119 (160)
Q Consensus 40 ~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~ 119 (160)
.|||.|++++.++ +|+.|+||||||+|+|++|........++..+.......+.++.+....+++|+||+|+|+++.|+
T Consensus 1 ~ivG~V~sv~~~~-~~~~~tLdDgTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~fr 79 (92)
T cd04483 1 DILGTVVSRRERE-TFYSFGVDDGTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTYR 79 (92)
T ss_pred CeEEEEEEEEecC-CeEEEEEecCCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEeccC
Confidence 4899999999998 889999999999999999987653321111111111112223334557899999999999999999
Q ss_pred CceEEEEEEEEE
Q 043474 120 GDVQITVSDVVI 131 (160)
Q Consensus 120 ~~~qi~~~~i~~ 131 (160)
+++||+++.+.-
T Consensus 80 g~~ql~i~~~~~ 91 (92)
T cd04483 80 GEREINASVVYK 91 (92)
T ss_pred CeeEEEEEEEEe
Confidence 999999998863
No 6
>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=99.44 E-value=1e-12 Score=85.22 Aligned_cols=74 Identities=31% Similarity=0.591 Sum_probs=61.7
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
|.|.|+|.++....++++.++|+|+||.|+|++|..... .....+++|+.|+|.|+++.|
T Consensus 1 V~v~G~V~~~~~~~~~~~~~~l~D~tg~i~~~~~~~~~~--------------------~~~~~l~~g~~v~v~G~v~~~ 60 (75)
T PF01336_consen 1 VTVEGRVTSIRRSGGKIVFFTLEDGTGSIQVVFFNEEYE--------------------RFREKLKEGDIVRVRGKVKRY 60 (75)
T ss_dssp EEEEEEEEEEEEEETTEEEEEEEETTEEEEEEEETHHHH--------------------HHHHTS-TTSEEEEEEEEEEE
T ss_pred CEEEEEEEEEEcCCCCEEEEEEEECCccEEEEEccHHhh--------------------HHhhcCCCCeEEEEEEEEEEE
Confidence 679999999954344899999999999999999982221 244689999999999999999
Q ss_pred CCc-eEEEEEEEEEc
Q 043474 119 RGD-VQITVSDVVIE 132 (160)
Q Consensus 119 ~~~-~qi~~~~i~~v 132 (160)
++. .||.+.+++++
T Consensus 61 ~~~~~~l~~~~i~~l 75 (75)
T PF01336_consen 61 NGGELELIVPKIEIL 75 (75)
T ss_dssp TTSSEEEEEEEEEEE
T ss_pred CCccEEEEECEEEEC
Confidence 997 99999999864
No 7
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=99.37 E-value=1.4e-12 Score=107.16 Aligned_cols=87 Identities=17% Similarity=0.246 Sum_probs=67.3
Q ss_pred hhhccCCCC-CCCceEECCeEeeEEEEEEEEEEeeccC-CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCcccccc
Q 043474 16 DLLSLTPTP-DPATFSRSGKLLSRAEIVGTITSRDHKP-SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIA 93 (160)
Q Consensus 16 ~i~~l~~~~-~~~~~~~~~~~i~~v~ivG~V~~~~~~~-~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~ 93 (160)
.|.+++++. ++++|++....++. .++ .+|+.++|.|+||+|+|++|....+
T Consensus 4 ~i~~l~~g~~v~~~~lv~~~~~~~-----------~knG~~yl~l~l~D~tG~I~ak~W~~~~~---------------- 56 (314)
T PRK13480 4 GIEELEVGEQVDHFLLIKSATKGV-----------ASNGKPFLTLILQDKSGDIEAKLWDVSPE---------------- 56 (314)
T ss_pred hHhhcCCCCEeeEEEEEEEceeee-----------cCCCCeEEEEEEEcCCcEEEEEeCCCChh----------------
Confidence 455555544 44555555444433 333 3799999999999999999987643
Q ss_pred ccccccccccccCcEEEEEEEeceeCCceEEEEEEEEEcCC
Q 043474 94 GVATDFAAKIKIGLVARVRGRIASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 94 ~~~~~~~~~~~~G~~V~V~G~v~~f~~~~qi~~~~i~~v~d 134 (160)
....++.|++|+|.|++..|+|+.|+++..++++++
T Consensus 57 -----~~~~~~~g~vv~v~G~v~~y~g~~Ql~i~~i~~~~~ 92 (314)
T PRK13480 57 -----DEATYVPETIVHVKGDIINYRGRKQLKVNQIRLATE 92 (314)
T ss_pred -----hHhhcCCCCEEEEEEEEEEECCcceEEEEEeEECCC
Confidence 346799999999999999999999999999998765
No 8
>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=99.20 E-value=2.9e-10 Score=74.94 Aligned_cols=63 Identities=25% Similarity=0.507 Sum_probs=55.3
Q ss_pred ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeCCceEEEEEEEEEcC
Q 043474 54 KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYRGDVQITVSDVVIEK 133 (160)
Q Consensus 54 ~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~~~~qi~~~~i~~v~ 133 (160)
+|+.++|+|+||.|+|++|.+... ....++.|.+|.|.|+++.|++..|+.+..+.+++
T Consensus 19 ~~~~~~l~D~tg~i~~~~f~~~~~---------------------~~~~l~~g~~v~v~G~v~~~~~~~~l~~~~i~~l~ 77 (83)
T cd04492 19 PYLALTLQDKTGEIEAKLWDASEE---------------------DEEKFKPGDIVHVKGRVEEYRGRLQLKIQRIRLVT 77 (83)
T ss_pred cEEEEEEEcCCCeEEEEEcCCChh---------------------hHhhCCCCCEEEEEEEEEEeCCceeEEEEEEEECC
Confidence 789999999999999999964432 23578899999999999999999999999999999
Q ss_pred ChhH
Q 043474 134 DPNM 137 (160)
Q Consensus 134 d~n~ 137 (160)
++|.
T Consensus 78 ~~~~ 81 (83)
T cd04492 78 EEDG 81 (83)
T ss_pred cccC
Confidence 8874
No 9
>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=99.04 E-value=1.5e-09 Score=68.88 Aligned_cols=71 Identities=27% Similarity=0.518 Sum_probs=59.1
Q ss_pred EEEEEEEEeeccC--CceEEEEEeCCC-ceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 40 EIVGTITSRDHKP--SKFIKFTVDDGT-GCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 40 ~ivG~V~~~~~~~--~~~~~~~IdDgT-G~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
+++|.|.++..+. ..+..++|+|+| |.++|++|.+.... ....++.|..+.+.|+++
T Consensus 1 ~v~g~v~~~~~~~~~~~~~~~~l~D~~~~~i~~~~~~~~~~~--------------------~~~~~~~g~~v~v~g~v~ 60 (75)
T cd03524 1 TIVGIVVAVEEIRTEGKVLIFTLTDGTGGTIRVTLFGELAEE--------------------LENLLKEGQVVYIKGKVK 60 (75)
T ss_pred CeEEEEEeecccccCCeEEEEEEEcCCCCEEEEEEEchHHHH--------------------HHhhccCCCEEEEEEEEE
Confidence 3789999998765 478999999999 99999999765431 225688999999999999
Q ss_pred eeCCceEEEEEEEE
Q 043474 117 SYRGDVQITVSDVV 130 (160)
Q Consensus 117 ~f~~~~qi~~~~i~ 130 (160)
.|+++.++.+..+.
T Consensus 61 ~~~~~~~l~~~~~~ 74 (75)
T cd03524 61 KFRGRLQLIVESIE 74 (75)
T ss_pred ecCCeEEEEeeeec
Confidence 99999999988665
No 10
>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=99.00 E-value=9.8e-10 Score=71.99 Aligned_cols=73 Identities=18% Similarity=0.316 Sum_probs=57.9
Q ss_pred EEEEEEEeec---cC-CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 41 IVGTITSRDH---KP-SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 41 ivG~V~~~~~---~~-~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
++|.|.++.. +. .+++.++|+|+||.++|++|..... +....+++|.+|.+.|++.
T Consensus 2 i~g~v~~~~~~~~k~g~~~~~~~l~D~tg~~~~~~f~~~~~--------------------~~~~~l~~g~~v~v~G~v~ 61 (84)
T cd04485 2 VAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPETYE--------------------KYRDLLKEDALLLVEGKVE 61 (84)
T ss_pred EEEEEEEeEEEEcCCCCEEEEEEEEeCCCeEEEEECHHHHH--------------------HHHHHhcCCCEEEEEEEEE
Confidence 5677766543 22 2589999999999999999965421 1235788999999999999
Q ss_pred eeCCceEEEEEEEEEcC
Q 043474 117 SYRGDVQITVSDVVIEK 133 (160)
Q Consensus 117 ~f~~~~qi~~~~i~~v~ 133 (160)
.|++..|+.+..+.++.
T Consensus 62 ~~~~~~~l~~~~i~~~~ 78 (84)
T cd04485 62 RRDGGLRLIAERIEDLE 78 (84)
T ss_pred ecCCceEEEeeccccHH
Confidence 99999999999888765
No 11
>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=98.95 E-value=1.7e-08 Score=66.10 Aligned_cols=73 Identities=22% Similarity=0.486 Sum_probs=60.4
Q ss_pred EEEEEEEEEeec-cCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 39 AEIVGTITSRDH-KPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 39 v~ivG~V~~~~~-~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
+.+.|.|.+++. +. .+..++|+|.||.|+|++|.+.... ....++.|+.|.|.|++..
T Consensus 2 ~~v~g~v~~i~~tk~-g~~~~~L~D~~~~i~~~~f~~~~~~--------------------~~~~l~~g~~v~v~g~v~~ 60 (78)
T cd04489 2 VWVEGEISNLKRPSS-GHLYFTLKDEDASIRCVMWRSNARR--------------------LGFPLEEGMEVLVRGKVSF 60 (78)
T ss_pred EEEEEEEecCEECCC-cEEEEEEEeCCeEEEEEEEcchhhh--------------------CCCCCCCCCEEEEEEEEEE
Confidence 468899999875 44 4899999999999999999865431 2367899999999999998
Q ss_pred eC--CceEEEEEEEEEc
Q 043474 118 YR--GDVQITVSDVVIE 132 (160)
Q Consensus 118 f~--~~~qi~~~~i~~v 132 (160)
+. +..++.+.+|.+.
T Consensus 61 ~~~~~~~~l~v~~i~~~ 77 (78)
T cd04489 61 YEPRGGYQLIVEEIEPA 77 (78)
T ss_pred ECCCCEEEEEEEEEEEC
Confidence 74 7899999999874
No 12
>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=98.93 E-value=7.6e-09 Score=68.89 Aligned_cols=57 Identities=21% Similarity=0.384 Sum_probs=49.0
Q ss_pred cCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE-EEeceeCCceEEEEEEE
Q 043474 51 KPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR-GRIASYRGDVQITVSDV 129 (160)
Q Consensus 51 ~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~-G~v~~f~~~~qi~~~~i 129 (160)
++++|..++|.|.||+|.+++|..... ..+++|++|++. |+++.|++..||.+..-
T Consensus 20 ~~~~~~~~~l~D~TG~i~~~~W~~~~~-----------------------~~~~~G~vv~i~~~~v~~~~g~~ql~i~~~ 76 (82)
T cd04491 20 SEGKVQSGLVGDETGTIRFTLWDEKAA-----------------------DDLEPGDVVRIENAYVREFNGRLELSVGKN 76 (82)
T ss_pred CeeEEEEEEEECCCCEEEEEEECchhc-----------------------ccCCCCCEEEEEeEEEEecCCcEEEEeCCc
Confidence 335899999999999999999976531 468899999999 99999999999998764
Q ss_pred E
Q 043474 130 V 130 (160)
Q Consensus 130 ~ 130 (160)
.
T Consensus 77 ~ 77 (82)
T cd04491 77 S 77 (82)
T ss_pred e
Confidence 3
No 13
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=98.93 E-value=3.6e-09 Score=76.64 Aligned_cols=87 Identities=22% Similarity=0.295 Sum_probs=65.2
Q ss_pred eEEEEEEEEEEeec------cC--CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcE
Q 043474 37 SRAEIVGTITSRDH------KP--SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLV 108 (160)
Q Consensus 37 ~~v~ivG~V~~~~~------~~--~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~ 108 (160)
..|.+.|.|.++.. +. ..+..++|.|.||+|.+++|.+.. ..+++|++
T Consensus 15 ~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~D~TG~I~~tlW~~~a------------------------~~l~~Gdv 70 (129)
T PRK06461 15 ERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVGDETGRVKLTLWGEQA------------------------GSLKEGEV 70 (129)
T ss_pred CceEEEEEEEEcCCceEEEeCCCceEEEEEEEECCCCEEEEEEeCCcc------------------------ccCCCCCE
Confidence 45677777775432 22 258899999999999999998632 35789999
Q ss_pred EEEE-EEeceeCCceEEEEE---EEEEcCChhHHHHHHHHHHH
Q 043474 109 ARVR-GRIASYRGDVQITVS---DVVIEKDPNMEVLHWLDCLR 147 (160)
Q Consensus 109 V~V~-G~v~~f~~~~qi~~~---~i~~v~d~n~~~~h~le~~~ 147 (160)
|+|. |.++.|+|+.||++. .|+++++.......++.+.+
T Consensus 71 V~I~na~v~~f~G~lqL~i~~~~~i~~~~~~~v~~~~~i~~~~ 113 (129)
T PRK06461 71 VEIENAWTTLYRGKVQLNVGKYGSISESDDEEVPEAEEIPEET 113 (129)
T ss_pred EEEECcEEeeeCCEEEEEECCCEEEEECCccccCCCCccCccC
Confidence 9999 889999999999999 58888764434444444443
No 14
>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=98.70 E-value=2.5e-07 Score=60.59 Aligned_cols=72 Identities=24% Similarity=0.342 Sum_probs=58.1
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
+.+-|.|.+... .+..+-|+|.|.++.|.|++|...... ....++.|+-|.+.|++...
T Consensus 1 v~v~GeVs~~~~-~~GHvyfsLkD~~a~i~cv~f~~~~~~--------------------~~~~l~~Gd~V~v~G~v~~~ 59 (73)
T cd04487 1 VHIEGEVVQIKQ-TSGPTIFTLRDETGTVWAAAFEEAGVR--------------------AYPEVEVGDIVRVTGEVEPR 59 (73)
T ss_pred CEEEEEEecccc-CCCCEEEEEEcCCEEEEEEEEchhccC--------------------CcCCCCCCCEEEEEEEEecC
Confidence 356788887665 434589999999999999999765421 23568999999999999998
Q ss_pred CCceEEEEEEEEE
Q 043474 119 RGDVQITVSDVVI 131 (160)
Q Consensus 119 ~~~~qi~~~~i~~ 131 (160)
+|+.|+.+..|+.
T Consensus 60 ~G~~ql~v~~i~~ 72 (73)
T cd04487 60 DGQLQIEVESLEV 72 (73)
T ss_pred CeEEEEEEeeEEE
Confidence 8999999999874
No 15
>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=98.64 E-value=4.7e-07 Score=61.73 Aligned_cols=74 Identities=15% Similarity=0.274 Sum_probs=58.3
Q ss_pred EEEEEEEEeecc-CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 40 EIVGTITSRDHK-PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 40 ~ivG~V~~~~~~-~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
.+.|.|.+.... .+..+.|+|.|.++.|.|.+|...... ......++.|+.|.|.|.++.|
T Consensus 2 ~v~GeVs~~~~~~~sGH~yFtlkD~~~~i~cv~f~~~g~~------------------~~~~~~l~~Gd~V~v~G~v~~y 63 (91)
T cd04482 2 RVTGKVVEEPRTIEGGHVFFKISDGTGEIDCAAYEPTKEF------------------RDVVRLLIPGDEVTVYGSVRPG 63 (91)
T ss_pred EEEEEEeCCeecCCCCCEEEEEECCCcEEEEEEECccccc------------------ccccCCCCCCCEEEEEEEEecC
Confidence 477888887653 334489999999999999999766210 0123578999999999999999
Q ss_pred CCceEEEEEEEEEcCC
Q 043474 119 RGDVQITVSDVVIEKD 134 (160)
Q Consensus 119 ~~~~qi~~~~i~~v~d 134 (160)
. ||.++++++...
T Consensus 64 ~---ql~ve~l~~~gl 76 (91)
T cd04482 64 T---TLNLEKLRVIRL 76 (91)
T ss_pred C---EEEEEEEEECCC
Confidence 7 999999998764
No 16
>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=98.59 E-value=5.2e-07 Score=57.76 Aligned_cols=67 Identities=27% Similarity=0.463 Sum_probs=50.1
Q ss_pred EEEEEEEeecc---CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 41 IVGTITSRDHK---PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 41 ivG~V~~~~~~---~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
+.|.|.+.... ..+++.+++.|+||.|+|+.|..... ....++.|+.+.+.|+++.
T Consensus 2 i~~~V~~~~~~~~~~~~~~~~~~~D~~g~i~~~~F~~~~~---------------------~~~~~~~G~~~~v~Gkv~~ 60 (75)
T cd04488 2 VEGTVVSVEVVPRRGRRRLKVTLSDGTGTLTLVFFNFQPY---------------------LKKQLPPGTRVRVSGKVKR 60 (75)
T ss_pred EEEEEEEEEeccCCCccEEEEEEEcCCCEEEEEEECCCHH---------------------HHhcCCCCCEEEEEEEEee
Confidence 45666655422 23689999999999999999963221 2256899999999999999
Q ss_pred eCCceEEEEEE
Q 043474 118 YRGDVQITVSD 128 (160)
Q Consensus 118 f~~~~qi~~~~ 128 (160)
|++.+|+.--.
T Consensus 61 ~~~~~qi~~P~ 71 (75)
T cd04488 61 FRGGLQIVHPE 71 (75)
T ss_pred cCCeeEEeCCc
Confidence 99988876433
No 17
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=98.52 E-value=1.2e-06 Score=60.57 Aligned_cols=76 Identities=25% Similarity=0.444 Sum_probs=64.3
Q ss_pred eeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccc-cccccCcEEEEEEE
Q 043474 36 LSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFA-AKIKIGLVARVRGR 114 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~G~~V~V~G~ 114 (160)
+..+.|.|.|.+.+.+.+..+-|+|-|+.+.|.|++|...... .. ..++.|+-|.+.|+
T Consensus 21 ~~~vwV~GEIs~~~~~~~gh~YftLkD~~a~i~~~~~~~~~~~--------------------i~~~~l~~G~~V~v~g~ 80 (99)
T PF13742_consen 21 LPNVWVEGEISNLKRHSSGHVYFTLKDEEASISCVIFRSRARR--------------------IRGFDLKDGDKVLVRGR 80 (99)
T ss_pred cCCEEEEEEEeecEECCCceEEEEEEcCCcEEEEEEEHHHHhh--------------------CCCCCCCCCCEEEEEEE
Confidence 5889999999999985446789999999999999999876531 12 46899999999999
Q ss_pred eceeC--CceEEEEEEEEE
Q 043474 115 IASYR--GDVQITVSDVVI 131 (160)
Q Consensus 115 v~~f~--~~~qi~~~~i~~ 131 (160)
+..|. |+.|+.+..|+|
T Consensus 81 ~~~y~~~G~~sl~v~~i~P 99 (99)
T PF13742_consen 81 VSFYEPRGSLSLIVEDIDP 99 (99)
T ss_pred EEEECCCcEEEEEEEEeEC
Confidence 99987 578999999986
No 18
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=98.43 E-value=2.6e-06 Score=64.70 Aligned_cols=120 Identities=22% Similarity=0.309 Sum_probs=83.5
Q ss_pred cceehhhhhccCCCC---C---CCce--EECCeEeeEEEEEEEEEEeeccC--CceEEEEEeCCCceEEEEEeecCccCC
Q 043474 10 VKLLAFDLLSLTPTP---D---PATF--SRSGKLLSRAEIVGTITSRDHKP--SKFIKFTVDDGTGCVPCVLWLNHLTSL 79 (160)
Q Consensus 10 ~~l~i~~i~~l~~~~---~---~~~~--~~~~~~i~~v~ivG~V~~~~~~~--~~~~~~~IdDgTG~I~~~~w~~~~~~~ 79 (160)
.++|++++.+++-+. . .-.| .-.|..++++.|+|.++..+..+ ..|...+++|+||++-+ +....+
T Consensus 11 ~rVFa~El~e~~~s~~e~~e~~sp~yliTPlG~k~nRifivGtltek~~i~ed~~~~R~rVvDpTGsF~V--yag~yq-- 86 (196)
T COG3390 11 YRVFAKELRESKFSKKEEDEERSPNYLITPLGLKVNRIFIVGTLTEKEGIGEDREYWRIRVVDPTGSFYV--YAGQYQ-- 86 (196)
T ss_pred HHHHHHHHhhcceeccccccccCCcEEechhhhheeEEEEEEEEEeccCcCCcccEEEEEEecCCceEEE--EcCCCC--
Confidence 478899998877432 1 1123 34678899999999999988765 47899999999997544 222211
Q ss_pred CCCCCCCCccccccccccccccccccCcEEEEEEEeceeCCceEEEEEEEEEc----CChhHHHHHHHHHHH
Q 043474 80 YLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYRGDVQITVSDVVIE----KDPNMEVLHWLDCLR 147 (160)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~~~~qi~~~~i~~v----~d~n~~~~h~le~~~ 147 (160)
.++......++.+++|.|.|+++.|++.--....+|||. .|++.-.+|-+++..
T Consensus 87 --------------PEa~a~l~~ve~~~~VaViGKi~~y~~d~g~~~~siRpE~vs~vde~~r~~Wv~eta~ 144 (196)
T COG3390 87 --------------PEAKAFLEDVEVPDLVAVIGKIRTYRTDEGVVLFSIRPELVSKVDEEARDLWVLETAE 144 (196)
T ss_pred --------------hHHHHHHHhccCCceEEEecccceeecCCCceEEEechhhhhhcCHHHHHHHHHHHHH
Confidence 112234467889999999999999998744555555543 346666677777665
No 19
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=98.40 E-value=1.3e-06 Score=76.18 Aligned_cols=78 Identities=19% Similarity=0.273 Sum_probs=65.9
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
+.|+|-|.|++++..+++ +.|||-|+||.|.|-.+.....- --..+++|++|+|.|.|.
T Consensus 214 ~tV~I~GeV~qikqT~GP-TVFtltDetg~i~aAAFe~aGvR--------------------AyP~IevGdiV~ViG~V~ 272 (715)
T COG1107 214 KTVRIEGEVTQIKQTSGP-TVFTLTDETGAIWAAAFEEAGVR--------------------AYPEIEVGDIVEVIGEVT 272 (715)
T ss_pred ceEEEEEEEEEEEEcCCC-EEEEEecCCCceehhhhccCCcc--------------------cCCCCCCCceEEEEEEEe
Confidence 689999999999998877 79999999998877766544321 125789999999999999
Q ss_pred eeCCceEEEEEEEEEcCCh
Q 043474 117 SYRGDVQITVSDVVIEKDP 135 (160)
Q Consensus 117 ~f~~~~qi~~~~i~~v~d~ 135 (160)
...|+.||-+..|..+...
T Consensus 273 ~r~g~lQiE~~~me~L~G~ 291 (715)
T COG1107 273 RRDGRLQIEIEAMEKLTGD 291 (715)
T ss_pred ecCCcEEEeehhhHHhhCc
Confidence 9999999999999977655
No 20
>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=98.30 E-value=1.1e-05 Score=53.51 Aligned_cols=71 Identities=20% Similarity=0.254 Sum_probs=52.4
Q ss_pred EEEEEEEEEee-ccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 39 AEIVGTITSRD-HKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 39 v~ivG~V~~~~-~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
+.++|+|.++. .+.++. .++|+|.||+++|.+|.+.-.. -+....++.|..|-|.|++..
T Consensus 2 v~i~GiI~~v~~TK~g~~-~~~leD~~G~~Ev~~F~~~~~~------------------~~~~~~l~~d~~v~v~g~v~~ 62 (79)
T cd04490 2 VSIIGMVNDVRSTKNGHR-IVELEDTTGRITVLLTKDKEEL------------------FEEAEDILPDEVIGVSGTVSK 62 (79)
T ss_pred EEEEEEEeEEEEcCCCCE-EEEEECCCCEEEEEEeCchhhh------------------hhhhhhccCCCEEEEEEEEec
Confidence 57889998885 233354 9999999999999999654320 012357889999999999966
Q ss_pred eCCceEEEEEEEE
Q 043474 118 YRGDVQITVSDVV 130 (160)
Q Consensus 118 f~~~~qi~~~~i~ 130 (160)
++. ++.+..|-
T Consensus 63 -~~~-~l~~~~I~ 73 (79)
T cd04490 63 -DGG-LIFADEIF 73 (79)
T ss_pred -CCC-EEEEEEeE
Confidence 444 77777765
No 21
>COG4085 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]
Probab=98.27 E-value=4.9e-06 Score=63.49 Aligned_cols=92 Identities=21% Similarity=0.302 Sum_probs=68.0
Q ss_pred CCeEeeEEEEEEEEEEeeccC-CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEE
Q 043474 32 SGKLLSRAEIVGTITSRDHKP-SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVAR 110 (160)
Q Consensus 32 ~~~~i~~v~ivG~V~~~~~~~-~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~ 110 (160)
+|.-.+.+.+=|.|.+.+... ..-..+.|+||||+|+++......+... .......+..|++|.
T Consensus 47 ~G~l~e~v~vkg~V~~~~n~~~~gi~~l~lndgtGti~vva~~~tee~l~---------------~n~~~p~~~eGe~ve 111 (204)
T COG4085 47 DGRLNEEVTVKGEVTADQNAIGGGIESLVLNDGTGTITVVASRSTEETLE---------------LNEGMPVTVEGEIVE 111 (204)
T ss_pred CceeeccceeeeEEEeeecccccceEEEEEECCCCcEEEEEecChhHhHh---------------hcCCCCccccCcEEE
Confidence 455667788889998887443 2557899999999999999877765321 111235678999999
Q ss_pred EEEEeceeCCceEEEEEE---EEEcCChhHH
Q 043474 111 VRGRIASYRGDVQITVSD---VVIEKDPNME 138 (160)
Q Consensus 111 V~G~v~~f~~~~qi~~~~---i~~v~d~n~~ 138 (160)
|+|++..|||+.+++++. ++|....+.|
T Consensus 112 VtGrv~~yrG~~eVkvnq~~d~~~l~k~~~e 142 (204)
T COG4085 112 VTGRVEEYRGSSEVKVNQPNDSRPLPKHLTE 142 (204)
T ss_pred EEEEEEEeCCCceeeccCcccccccccccch
Confidence 999999999999998876 4555444433
No 22
>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=98.13 E-value=3.7e-05 Score=51.30 Aligned_cols=73 Identities=19% Similarity=0.352 Sum_probs=55.3
Q ss_pred EEEEEEEEEeeccC---C-ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccc-cCcEEEEEE
Q 043474 39 AEIVGTITSRDHKP---S-KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIK-IGLVARVRG 113 (160)
Q Consensus 39 v~ivG~V~~~~~~~---~-~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~G~~V~V~G 113 (160)
|.|-|.|-+.+.++ + ..++|.|-|.|++|.|+.|..... +....++ .|+.|+++|
T Consensus 2 v~i~G~Vf~~e~re~k~g~~i~~~~itD~t~Si~~K~F~~~~~--------------------~~~~~ik~~G~~v~v~G 61 (82)
T cd04484 2 VVVEGEVFDLEIRELKSGRKILTFKVTDYTSSITVKKFLRKDE--------------------KDKEELKSKGDWVRVRG 61 (82)
T ss_pred EEEEEEEEEEEEEEecCCCEEEEEEEEcCCCCEEEEEeccCCh--------------------hHHhhcccCCCEEEEEE
Confidence 66888888887533 3 345899999999999999985111 1235688 999999999
Q ss_pred Eec--eeCCceEEEEEEEEE
Q 043474 114 RIA--SYRGDVQITVSDVVI 131 (160)
Q Consensus 114 ~v~--~f~~~~qi~~~~i~~ 131 (160)
+++ .|.+...+.+..|..
T Consensus 62 ~v~~D~f~~e~~~~i~~i~~ 81 (82)
T cd04484 62 KVQYDTFSKELVLMINDIEE 81 (82)
T ss_pred EEEEccCCCceEEEeeeEEE
Confidence 987 577888888877654
No 23
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=98.12 E-value=3.3e-05 Score=65.98 Aligned_cols=81 Identities=23% Similarity=0.363 Sum_probs=68.8
Q ss_pred eeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEe
Q 043474 36 LSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRI 115 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v 115 (160)
+..|.|-|-|.+.+...+..+-|+|-|..+.|.|++|...... ....++.|+-|-|.|++
T Consensus 23 ~~~V~v~GEISn~t~~~sgH~YFtLKD~~A~i~c~mf~~~~~~--------------------l~f~p~eG~~V~v~G~i 82 (440)
T COG1570 23 LGQVWVRGEISNFTRPASGHLYFTLKDERAQIRCVMFKGNNRR--------------------LKFRPEEGMQVLVRGKI 82 (440)
T ss_pred CCeEEEEEEecCCccCCCccEEEEEccCCceEEEEEEcCcccc--------------------cCCCccCCCEEEEEEEE
Confidence 7889999999999965544689999999999999999877641 33568899999999999
Q ss_pred ceeC--CceEEEEEEEEEcCChh
Q 043474 116 ASYR--GDVQITVSDVVIEKDPN 136 (160)
Q Consensus 116 ~~f~--~~~qi~~~~i~~v~d~n 136 (160)
..|- |.-||.++.|+|....+
T Consensus 83 s~Y~~rG~YQi~~~~~~p~G~G~ 105 (440)
T COG1570 83 SLYEPRGDYQIVAESMEPAGLGA 105 (440)
T ss_pred EEEcCCCceEEEEecCCcCChhH
Confidence 9996 67899999999877554
No 24
>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=98.03 E-value=0.00011 Score=63.04 Aligned_cols=79 Identities=25% Similarity=0.343 Sum_probs=66.0
Q ss_pred eeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEe
Q 043474 36 LSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRI 115 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v 115 (160)
+..+.|.|-|.+.....+..+-|+|-|..+.|.|++|...... ....++.|+-|.|.|++
T Consensus 17 ~~~v~V~GEisn~~~~~sGH~YFtLkD~~a~i~~vmf~~~~~~--------------------l~f~~~~G~~V~v~g~v 76 (432)
T TIGR00237 17 FLQVWIQGEISNFTQPVSGHWYFTLKDENAQVRCVMFRGNNNR--------------------LKFRPQNGQQVLVRGGI 76 (432)
T ss_pred CCcEEEEEEecCCeeCCCceEEEEEEcCCcEEEEEEEcChhhC--------------------CCCCCCCCCEEEEEEEE
Confidence 6789999999998865545689999999999999999876531 23568899999999999
Q ss_pred ceeC--CceEEEEEEEEEcCC
Q 043474 116 ASYR--GDVQITVSDVVIEKD 134 (160)
Q Consensus 116 ~~f~--~~~qi~~~~i~~v~d 134 (160)
..|. |..||.+..|.|...
T Consensus 77 ~~y~~~G~~ql~v~~i~~~G~ 97 (432)
T TIGR00237 77 SVYEPRGDYQIICFEMQPAGE 97 (432)
T ss_pred EEECCCCcEEEEEEEeccCCh
Confidence 9987 668999999998763
No 25
>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=98.02 E-value=0.0001 Score=49.38 Aligned_cols=76 Identities=17% Similarity=0.196 Sum_probs=55.2
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCc-eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTG-CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG-~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
|++.|+|.++....++...+.|.|+|| .++|++ ..... .......+..|+.|.|.|.+..
T Consensus 2 V~v~Gwv~~~R~~~~~~~Fi~LrD~~g~~iQvv~-~~~~~------------------~~~~~~~l~~~s~V~V~G~v~~ 62 (86)
T cd04321 2 VTLNGWIDRKPRIVKKLSFADLRDPNGDIIQLVS-TAKKD------------------AFSLLKSITAESPVQVRGKLQL 62 (86)
T ss_pred EEEEEeEeeEeCCCCceEEEEEECCCCCEEEEEE-CCCHH------------------HHHHHhcCCCCcEEEEEEEEEe
Confidence 689999999887333667889999999 699865 22111 0012246889999999999986
Q ss_pred eC-------CceEEEEEEEEEcC
Q 043474 118 YR-------GDVQITVSDVVIEK 133 (160)
Q Consensus 118 f~-------~~~qi~~~~i~~v~ 133 (160)
-. +...|.+.++..+.
T Consensus 63 ~~~~~~~~~~~~Ei~~~~i~il~ 85 (86)
T cd04321 63 KEAKSSEKNDEWELVVDDIQTLN 85 (86)
T ss_pred CCCcCCCCCCCEEEEEEEEEEec
Confidence 43 56789998888654
No 26
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=98.00 E-value=0.00016 Score=62.10 Aligned_cols=80 Identities=24% Similarity=0.375 Sum_probs=66.9
Q ss_pred eeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEe
Q 043474 36 LSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRI 115 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v 115 (160)
...+.|.|.|.+.....+..+-|+|-|.++.|.|++|...... ....++.|+-|.|.|++
T Consensus 23 ~~~v~v~gEis~~~~~~sGH~Yf~Lkd~~a~i~~~~~~~~~~~--------------------~~~~~~~G~~v~v~g~~ 82 (438)
T PRK00286 23 LGQVWVRGEISNFTRHSSGHWYFTLKDEIAQIRCVMFKGSARR--------------------LKFKPEEGMKVLVRGKV 82 (438)
T ss_pred CCcEEEEEEeCCCeeCCCCeEEEEEEcCCcEEEEEEEcChhhc--------------------CCCCCCCCCEEEEEEEE
Confidence 6889999999998876545689999999999999999865431 23568899999999999
Q ss_pred ceeC--CceEEEEEEEEEcCCh
Q 043474 116 ASYR--GDVQITVSDVVIEKDP 135 (160)
Q Consensus 116 ~~f~--~~~qi~~~~i~~v~d~ 135 (160)
..|. |..||.+..|.|....
T Consensus 83 ~~y~~~g~~ql~v~~i~~~g~G 104 (438)
T PRK00286 83 SLYEPRGDYQLIVEEIEPAGIG 104 (438)
T ss_pred EEECCCCCEEEEEEEeeeCCcc
Confidence 9887 5689999999987753
No 27
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=97.98 E-value=1.6e-05 Score=75.27 Aligned_cols=78 Identities=18% Similarity=0.338 Sum_probs=64.0
Q ss_pred eEEEEEEEEEEeeccC----CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 37 SRAEIVGTITSRDHKP----SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~----~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
..+.++|.|.+++.+. .++..++|+|.||++++++|.+.-. +....++.|.+|.|.
T Consensus 978 ~~V~v~G~I~~vk~~~TKkG~~mafltLeD~TG~iEvviFp~~ye--------------------~~~~~L~~g~iV~V~ 1037 (1135)
T PRK05673 978 SVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGRIEVMLFSEALE--------------------KYRDLLEEDRIVVVK 1037 (1135)
T ss_pred ceEEEEEEEEEEEecccCCCCeEEEEEEEeCCCcEEEEECHHHHH--------------------HHHHHhccCCEEEEE
Confidence 4688999999988533 2688999999999999999965422 133578899999999
Q ss_pred EEeceeCCceEEEEEEEEEcCC
Q 043474 113 GRIASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~d 134 (160)
|+++.+++..|+.+.++.++.+
T Consensus 1038 GkVe~~~~~~qlii~~I~~L~~ 1059 (1135)
T PRK05673 1038 GQVSFDDGGLRLTAREVMDLEE 1059 (1135)
T ss_pred EEEEecCCeEEEEEeecccHHH
Confidence 9999988889999999988753
No 28
>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=97.95 E-value=0.00014 Score=48.42 Aligned_cols=77 Identities=21% Similarity=0.343 Sum_probs=56.6
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
|.|.|+|.++.... +...+.|.|+||.++|++-..... . .......++.|++|.|.|.+..=
T Consensus 2 V~i~Gwv~~~R~~g-~~~Fi~Lrd~~~~iQ~v~~~~~~~----------------~-~~~~~~~l~~~s~V~v~G~~~~~ 63 (85)
T cd04100 2 VTLAGWVHSRRDHG-GLIFIDLRDGSGIVQVVVNKEELG----------------E-FFEEAEKLRTESVVGVTGTVVKR 63 (85)
T ss_pred EEEEEEEehhccCC-CEEEEEEEeCCeeEEEEEECCcCh----------------H-HHHHHhCCCCCCEEEEEeEEEEC
Confidence 78999999988765 678899999999999976332211 0 01123578999999999998763
Q ss_pred ------CCceEEEEEEEEEcC
Q 043474 119 ------RGDVQITVSDVVIEK 133 (160)
Q Consensus 119 ------~~~~qi~~~~i~~v~ 133 (160)
.+...|.+..+..+.
T Consensus 64 ~~~~~~~~~~El~~~~i~il~ 84 (85)
T cd04100 64 PEGNLATGEIELQAEELEVLS 84 (85)
T ss_pred CCCCCCCCCEEEEEeEEEEEC
Confidence 445788888887653
No 29
>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=97.93 E-value=0.00019 Score=50.01 Aligned_cols=82 Identities=12% Similarity=0.106 Sum_probs=60.0
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|++.|+|.++.... +...+.|.|+||.++|++-...... +.......+..|+.|.|.|.+.
T Consensus 13 ~~V~v~Gwv~~~R~~g-~~~Fi~LrD~~g~iQ~v~~~~~~~~----------------~~~~~~~~l~~es~V~V~G~v~ 75 (108)
T cd04316 13 EEVTVAGWVHEIRDLG-GIKFVILRDREGIVQVTAPKKKVDK----------------ELFKTVRKLSRESVISVTGTVK 75 (108)
T ss_pred CEEEEEEEEEeeeccC-CeEEEEEecCCeeEEEEEeCCCCCH----------------HHHHHHhCCCCcCEEEEEEEEE
Confidence 4689999999988766 6788999999999999774221110 0011335688999999999987
Q ss_pred eeCC---ceEEEEEEEEEcCCh
Q 043474 117 SYRG---DVQITVSDVVIEKDP 135 (160)
Q Consensus 117 ~f~~---~~qi~~~~i~~v~d~ 135 (160)
.=.. ...|.+..+..+...
T Consensus 76 ~~~~~~~~~Ei~~~~i~il~~~ 97 (108)
T cd04316 76 AEPKAPNGVEIIPEEIEVLSEA 97 (108)
T ss_pred eCCCCCCCEEEEEeEEEEEeCC
Confidence 6433 478999999877654
No 30
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=97.92 E-value=7.6e-05 Score=53.35 Aligned_cols=50 Identities=22% Similarity=0.379 Sum_probs=40.7
Q ss_pred ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEe-ceeCCceEEEEE
Q 043474 54 KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRI-ASYRGDVQITVS 127 (160)
Q Consensus 54 ~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v-~~f~~~~qi~~~ 127 (160)
++.++.+.|.||+|+..+|++.. ..+++||+||..|-. +.|||.+.|.+-
T Consensus 37 ~v~~~kVaD~TgsI~isvW~e~~------------------------~~~~PGDIirLt~Gy~Si~qg~LtL~~G 87 (134)
T KOG3416|consen 37 EVRSCKVADETGSINISVWDEEG------------------------CLIQPGDIIRLTGGYASIFQGCLTLYVG 87 (134)
T ss_pred EEEEEEEecccceEEEEEecCcC------------------------cccCCccEEEecccchhhhcCceEEEec
Confidence 78899999999999999998432 468999999998776 458887666543
No 31
>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=97.92 E-value=0.00025 Score=47.15 Aligned_cols=76 Identities=20% Similarity=0.244 Sum_probs=55.5
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
|.+.|+|.++.... +...+.|.|+||.++|++-.+... . ......+..|+.|.|.|.+..-
T Consensus 2 V~v~Gwv~~~R~~g-~~~Fi~LrD~~~~iQ~v~~~~~~~-----------------~-~~~~~~l~~es~V~V~G~v~~~ 62 (84)
T cd04323 2 VKVFGWVHRLRSQK-KLMFLVLRDGTGFLQCVLSKKLVT-----------------E-FYDAKSLTQESSVEVTGEVKED 62 (84)
T ss_pred EEEEEEEEEEecCC-CcEEEEEEcCCeEEEEEEcCCcch-----------------h-HHHHhcCCCcCEEEEEEEEEEC
Confidence 78999999988764 778899999999999976222110 0 1123468899999999999875
Q ss_pred CCc------eEEEEEEEEEcC
Q 043474 119 RGD------VQITVSDVVIEK 133 (160)
Q Consensus 119 ~~~------~qi~~~~i~~v~ 133 (160)
... ..|.+.++..+.
T Consensus 63 ~~~~~~~~~~Ei~~~~i~vl~ 83 (84)
T cd04323 63 PRAKQAPGGYELQVDYLEIIG 83 (84)
T ss_pred CcccCCCCCEEEEEEEEEEEc
Confidence 333 678888877653
No 32
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=97.89 E-value=5.1e-05 Score=65.49 Aligned_cols=78 Identities=12% Similarity=0.190 Sum_probs=62.4
Q ss_pred eEEEEEEEEEEeeccC----CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 37 SRAEIVGTITSRDHKP----SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~----~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
..|+++|+|.+++... ..+..++|+|.||.++|++|-+.-. +....++.|..|-|.
T Consensus 281 ~~v~vaG~I~~ik~~~TKkG~~maf~~leD~tG~ie~vvFp~~y~--------------------~~~~~l~~~~~v~v~ 340 (449)
T PRK07373 281 TKVSAVVMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPKSYE--------------------RISELLQVDARLIIW 340 (449)
T ss_pred CEEEEEEEEEEeEecccCCCCEEEEEEEEECCCCEEEEECHHHHH--------------------HHHHHhccCCEEEEE
Confidence 4688999999988533 3678999999999999999965432 134678899999999
Q ss_pred EEeceeCCceEEEEEEEEEcCC
Q 043474 113 GRIASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~d 134 (160)
|+++.-.+..++.+.+|.++.+
T Consensus 341 G~v~~~~~~~~liv~~i~~l~~ 362 (449)
T PRK07373 341 GKVDRRDDQVQLIVEDAEPIEE 362 (449)
T ss_pred EEEEecCCeEEEEEeEeecHhh
Confidence 9998744678999999887754
No 33
>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=97.88 E-value=0.00025 Score=48.85 Aligned_cols=82 Identities=12% Similarity=0.172 Sum_probs=58.8
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCc-cCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHL-TSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
|++.|+|.++.....+...+.|.|+||.|+|++-.... .. ++.......++.|+.|.|.|.+..
T Consensus 2 V~i~Gwv~~~R~~g~k~~Fi~LrD~sg~iQ~v~~~~~~~~~---------------~~~~~~~~~l~~es~V~V~G~v~~ 66 (102)
T cd04320 2 VLIRARVHTSRAQGAKLAFLVLRQQGYTIQGVLAASAEGVS---------------KQMVKWAGSLSKESIVDVEGTVKK 66 (102)
T ss_pred EEEEEEEEEeecCCCceEEEEEecCCceEEEEEeCCcccCC---------------HHHHHHHhcCCCccEEEEEEEEEC
Confidence 78999999988654367889999999999999843321 00 000112346889999999999876
Q ss_pred e-C-------CceEEEEEEEEEcCCh
Q 043474 118 Y-R-------GDVQITVSDVVIEKDP 135 (160)
Q Consensus 118 f-~-------~~~qi~~~~i~~v~d~ 135 (160)
- + +...|.+.+++.+...
T Consensus 67 ~~~~~~~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 67 PEEPIKSCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred CCCcccCCCcCcEEEEEEEEEEEecC
Confidence 2 1 4578999999877643
No 34
>COG3481 Predicted HD-superfamily hydrolase [General function prediction only]
Probab=97.83 E-value=1.1e-05 Score=65.47 Aligned_cols=63 Identities=27% Similarity=0.377 Sum_probs=55.6
Q ss_pred CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeCCceEEEEEEEEE
Q 043474 52 PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYRGDVQITVSDVVI 131 (160)
Q Consensus 52 ~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~~~~qi~~~~i~~ 131 (160)
...|+.++++|.||.|++++|..... ....+..|.+|.+.|....|++.+|+++..+++
T Consensus 19 ~~~~l~l~~~d~~gei~~~~wd~~~~---------------------~~~~~~~~~Vv~~~g~~~~~~~~~q~ki~~~r~ 77 (287)
T COG3481 19 GKDKLKLTLQDKTGEIEAKLWDALKN---------------------DEEAFKPGMVVHVEGVKEVYRGRKQHKIIRIRL 77 (287)
T ss_pred CChhheeeeccccceecccccccccc---------------------cHhhhCcCceeccccceecccccchheeeeccc
Confidence 34889999999999999999987764 236799999999999999999999999999998
Q ss_pred cCCh
Q 043474 132 EKDP 135 (160)
Q Consensus 132 v~d~ 135 (160)
+++.
T Consensus 78 ~~~~ 81 (287)
T COG3481 78 ITDS 81 (287)
T ss_pred cccc
Confidence 7664
No 35
>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=97.79 E-value=0.00033 Score=48.80 Aligned_cols=80 Identities=19% Similarity=0.271 Sum_probs=56.4
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
|++.|+|.++.... +.+.+.|-|+||.++|++-...... .........+..|+.|.|.|.+..=
T Consensus 2 v~v~GwV~~~R~~g-~~~Fi~lrd~~~~lQ~v~~~~~~~~---------------~~~~~~~~~l~~g~~V~v~G~v~~~ 65 (108)
T cd04322 2 VSVAGRIMSKRGSG-KLSFADLQDESGKIQVYVNKDDLGE---------------EEFEDFKKLLDLGDIIGVTGTPFKT 65 (108)
T ss_pred EEEEEEEEEEecCC-CeEEEEEEECCeEEEEEEECCCCCH---------------HHHHHHHhcCCCCCEEEEEEEEEec
Confidence 68999999998876 6789999999999999873221100 0000111238899999999998643
Q ss_pred -CCceEEEEEEEEEcCC
Q 043474 119 -RGDVQITVSDVVIEKD 134 (160)
Q Consensus 119 -~~~~qi~~~~i~~v~d 134 (160)
++...|.+..+..+..
T Consensus 66 ~~g~~El~~~~~~ils~ 82 (108)
T cd04322 66 KTGELSIFVKEFTLLSK 82 (108)
T ss_pred CCCCEEEEeCEeEEeec
Confidence 3567888888876653
No 36
>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=97.79 E-value=0.00026 Score=51.26 Aligned_cols=80 Identities=18% Similarity=0.318 Sum_probs=59.2
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|+|.|+|.++.... +...+.|.|+||.++|++-..... +.+....++.|++|.|.|.+.
T Consensus 15 ~~V~i~Gwv~~~R~~g-k~~Fi~LrD~~g~~Q~v~~~~~~~------------------~~~~~~~l~~gs~V~V~G~~~ 75 (135)
T cd04317 15 QEVTLCGWVQRRRDHG-GLIFIDLRDRYGIVQVVFDPEEAP------------------EFELAEKLRNESVIQVTGKVR 75 (135)
T ss_pred CEEEEEEeEehhcccC-CEEEEEEecCCeeEEEEEeCCchh------------------HHHHHhCCCCccEEEEEEEEE
Confidence 4599999999988765 678899999999999987322111 011235688999999999987
Q ss_pred ee----------CCceEEEEEEEEEcCCh
Q 043474 117 SY----------RGDVQITVSDVVIEKDP 135 (160)
Q Consensus 117 ~f----------~~~~qi~~~~i~~v~d~ 135 (160)
.= .+...|.+..+..+...
T Consensus 76 ~~~~~~~~~~~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 76 ARPEGTVNPKLPTGEIEVVASELEVLNKA 104 (135)
T ss_pred CCCccccCCCCCCCcEEEEEeEEEEEECC
Confidence 52 24578999998877643
No 37
>PRK07217 replication factor A; Reviewed
Probab=97.77 E-value=0.00013 Score=59.80 Aligned_cols=77 Identities=12% Similarity=0.177 Sum_probs=60.3
Q ss_pred EeeEEEEEEEEEEeeccCCceEE--EEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 35 LLSRAEIVGTITSRDHKPSKFIK--FTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~~~~~~~~~--~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
+-.+|.|-|+|+++......-+. =.|.|.||+|....|.++.. ..++.|+.+++.
T Consensus 81 ~~~~VsV~aKVl~l~e~~~~si~qvGllgDETG~IkfT~W~~s~~-----------------------~~leeGd~~rI~ 137 (311)
T PRK07217 81 PEQWVDVTAKVVQLWEPSSDSIAQVGLLGDETGTIKFTKWAKSDL-----------------------PELEEGKSYLLK 137 (311)
T ss_pred CCCcEEEEEEEEEecCCCCCceEEEEEEEcCCceEEEEEccCCCC-----------------------CcccCCCEEEEE
Confidence 35789999999998754432222 37999999999999987542 458899999999
Q ss_pred EE-eceeCCceEEEEEEEEEcCC
Q 043474 113 GR-IASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 113 G~-v~~f~~~~qi~~~~i~~v~d 134 (160)
+- ++.|+|..+|++.+-..+..
T Consensus 138 na~v~ey~G~~~lnlg~~t~I~~ 160 (311)
T PRK07217 138 NVVTDEYQGRFSVKLNRTTSIEE 160 (311)
T ss_pred eEEEeeECCEEEEEeCCceEEEe
Confidence 87 57899999999987665543
No 38
>PF04076 BOF: Bacterial OB fold (BOF) protein; InterPro: IPR005220 Proteins in this entry have an OB-fold fold (oligonucleotide/oligosaccharide binding motif). Analysis of the predicted nucleotide-binding site of the OB-fold suggests that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localise to the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesised for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the OB-fold ligand-binding site may be associated with the presence of members in mobile genetic elements and their potential role in bacterial pathogenicity [].; PDB: 1NNX_A.
Probab=97.75 E-value=0.00083 Score=46.80 Aligned_cols=68 Identities=15% Similarity=0.200 Sum_probs=49.6
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|.+-|.|+..-..+ .|...|+||+|.+-+=.+.-. -..+.+++.|+|.|.|.
T Consensus 35 ~~V~L~G~Iv~~l~~d----~Y~F~D~TG~I~VeId~~~w~----------------------g~~vt~~~~Vri~GeVD 88 (103)
T PF04076_consen 35 TPVTLEGNIVKQLGDD----KYLFRDATGEIEVEIDDDVWR----------------------GQTVTPDDKVRISGEVD 88 (103)
T ss_dssp EEEEEEEEEEEEEETT----EEEEEETTEEEEEE--GGGST----------------------T----TTSEEEEEEEEE
T ss_pred CeEEEEEEEEEEecCC----EEEEECCCCcEEEEEChhhcC----------------------CcccCCCCEEEEEEEEe
Confidence 6788889988877665 689999999999987332211 13567889999999999
Q ss_pred eeCCceEEEEEEEE
Q 043474 117 SYRGDVQITVSDVV 130 (160)
Q Consensus 117 ~f~~~~qi~~~~i~ 130 (160)
..-+...|.+.+|+
T Consensus 89 k~~~~~~IdV~~I~ 102 (103)
T PF04076_consen 89 KDWNKTEIDVDRIE 102 (103)
T ss_dssp EETTEEEEEEEEEE
T ss_pred CCCCceEEEEEEEE
Confidence 76678899998886
No 39
>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=97.74 E-value=0.0006 Score=47.11 Aligned_cols=79 Identities=16% Similarity=0.133 Sum_probs=57.3
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
|++.|+|.++.... +...+.|.|+||.++|++-.+... +. ......+..|+.|.|.|.+..=
T Consensus 2 V~v~Gwv~~~R~~g-k~~Fi~lrD~~g~iQ~v~~~~~~~----------------~~-~~~~~~l~~~s~v~V~G~v~~~ 63 (103)
T cd04319 2 VTLAGWVYRKREVG-KKAFIVLRDSTGIVQAVFSKDLNE----------------EA-YREAKKVGIESSVIVEGAVKAD 63 (103)
T ss_pred EEEEEEEEeEEcCC-CeEEEEEecCCeeEEEEEeCCCCH----------------HH-HHHHhCCCCCCEEEEEEEEEEC
Confidence 78999999988765 668899999999999987332111 00 1122468899999999998763
Q ss_pred CC---ceEEEEEEEEEcCCh
Q 043474 119 RG---DVQITVSDVVIEKDP 135 (160)
Q Consensus 119 ~~---~~qi~~~~i~~v~d~ 135 (160)
.+ ...|.+..+..+...
T Consensus 64 ~~~~~~~Ei~~~~i~vl~~a 83 (103)
T cd04319 64 PRAPGGAEVHGEKLEIIQNV 83 (103)
T ss_pred CCCCCCEEEEEEEEEEEecC
Confidence 32 367888998877654
No 40
>PRK07211 replication factor A; Reviewed
Probab=97.67 E-value=0.00038 Score=60.49 Aligned_cols=77 Identities=23% Similarity=0.413 Sum_probs=60.9
Q ss_pred eEEEEEEEEEEeec------c---CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 37 SRAEIVGTITSRDH------K---PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 37 ~~v~ivG~V~~~~~------~---~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
..+.|.|+|.++.. + +++...++|-|.||.|.+.+|.+... ....+++|+
T Consensus 172 ~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~DeTG~IR~TlW~d~Ad---------------------~~~~le~G~ 230 (485)
T PRK07211 172 SDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVGDETGRVRVTLWDDRAD---------------------LAEELDAGE 230 (485)
T ss_pred CceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEEcCCCeEEEEEechhhh---------------------hhccCCCCC
Confidence 56778888886553 1 23667999999999999999987643 225688999
Q ss_pred EEEEE-EEeceeCCceEEEEE---EEEEcCC
Q 043474 108 VARVR-GRIASYRGDVQITVS---DVVIEKD 134 (160)
Q Consensus 108 ~V~V~-G~v~~f~~~~qi~~~---~i~~v~d 134 (160)
+|+|. |+++.|++.++|++. .|.++.+
T Consensus 231 Vv~I~~a~Vre~~g~~ELsl~~~s~I~~~~d 261 (485)
T PRK07211 231 SVEIVDGYVRERDGSLELHVGDRGAVEEVDE 261 (485)
T ss_pred EEEEEeeEEEecCCcEEEEECCCceEEECCc
Confidence 99996 889999999999887 6777655
No 41
>PRK07218 replication factor A; Provisional
Probab=97.66 E-value=0.00046 Score=59.14 Aligned_cols=72 Identities=21% Similarity=0.370 Sum_probs=58.3
Q ss_pred eEEEEEEEEEEeeccC-------CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEE
Q 043474 37 SRAEIVGTITSRDHKP-------SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVA 109 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~-------~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V 109 (160)
..|.|.|.|.++..++ +......|.|.||+|...+|.+. +.+++|+.|
T Consensus 173 ~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giigDeTG~Ir~tlW~~~-------------------------~~l~~Gd~v 227 (423)
T PRK07218 173 RGVNVEARVLELEHREIDGRDGETTILSGVLADETGRLPFTDWDPL-------------------------PEIEIGASI 227 (423)
T ss_pred CceEEEEEEEEecceeEEcCCCCeEEEEEEEECCCceEEEEEeccc-------------------------ccCCCCCEE
Confidence 5688999999885532 24567899999999999999853 237899999
Q ss_pred EEEE-EeceeCCceEEEEE---EEEEcC
Q 043474 110 RVRG-RIASYRGDVQITVS---DVVIEK 133 (160)
Q Consensus 110 ~V~G-~v~~f~~~~qi~~~---~i~~v~ 133 (160)
+|.| .++.|+|..+|++. .|..++
T Consensus 228 ~I~na~v~e~~G~~elnv~~~t~I~~~d 255 (423)
T PRK07218 228 RIEDAYVREFRGVPSVNVSEFTTVEALD 255 (423)
T ss_pred EEeeeEEeccCCeEEEEECCceEEEECC
Confidence 9999 57899999999999 676654
No 42
>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=97.65 E-value=0.0015 Score=43.16 Aligned_cols=74 Identities=15% Similarity=0.168 Sum_probs=54.4
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCce--EEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTGC--VPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG~--I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
+++.|+|.++.... +...+.|.||||. ++|++-.+... ......++.|+.|.|.|.+.
T Consensus 2 v~v~Gwv~~~R~~g-~~~Fi~LrD~s~~~~lQvv~~~~~~~-------------------~~~~~~l~~gs~V~v~G~v~ 61 (82)
T cd04318 2 VTVNGWVRSVRDSK-KISFIELNDGSCLKNLQVVVDKELTN-------------------FKEILKLSTGSSIRVEGVLV 61 (82)
T ss_pred EEEEEeEEEEEcCC-cEEEEEEECCCCccCEEEEEeCcccC-------------------HHHHhcCCCceEEEEEEEEE
Confidence 68999999998765 6678889999994 99986322110 01235688999999999987
Q ss_pred eeC---CceEEEEEEEEEc
Q 043474 117 SYR---GDVQITVSDVVIE 132 (160)
Q Consensus 117 ~f~---~~~qi~~~~i~~v 132 (160)
.-. +...|.+.++..+
T Consensus 62 ~~~~~~~~~El~~~~i~il 80 (82)
T cd04318 62 KSPGAKQPFELQAEKIEVL 80 (82)
T ss_pred eCCCCCCCEEEEEEEEEEe
Confidence 643 3477888888754
No 43
>PRK14699 replication factor A; Provisional
Probab=97.63 E-value=0.00021 Score=62.28 Aligned_cols=74 Identities=22% Similarity=0.291 Sum_probs=56.2
Q ss_pred eeEEEEEEEEEEee-cc--------CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccC
Q 043474 36 LSRAEIVGTITSRD-HK--------PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIG 106 (160)
Q Consensus 36 i~~v~ivG~V~~~~-~~--------~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G 106 (160)
-..|.+.|+|.++. .+ .+.+..++|.|.||+|...+|.+.... . ....+++|
T Consensus 67 ~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~iaDeTG~ir~tlW~~~a~~----------------~---~~g~l~~G 127 (484)
T PRK14699 67 SGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVGDETGKIKLTLWDNMADL----------------I---KAGKIKAG 127 (484)
T ss_pred CceEEEEEEEEEecCceEEecCCCCceEEEEEEEecCCCeEEEEEecCccch----------------h---hhcCCCCC
Confidence 36788999999885 22 246678899999999999999865421 0 11258999
Q ss_pred cEEEEEEEeceeCCceEEEEEE
Q 043474 107 LVARVRGRIASYRGDVQITVSD 128 (160)
Q Consensus 107 ~~V~V~G~v~~f~~~~qi~~~~ 128 (160)
++|+|.|.++.+.+..+|++..
T Consensus 128 Dvv~I~~~~r~~~~g~el~~~~ 149 (484)
T PRK14699 128 QTLQISGYAKQGYSGVEVNIGN 149 (484)
T ss_pred CEEEEcceeccCCCCceEEeCC
Confidence 9999999997766667888873
No 44
>TIGR00156 conserved hypothetical protein TIGR00156. As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae.
Probab=97.51 E-value=0.0018 Score=46.63 Aligned_cols=68 Identities=12% Similarity=0.231 Sum_probs=49.9
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|.+-|.|+..-..+ .|...|+||+|.+.+=.+.-. -..+.+++-|+|.|.|.
T Consensus 58 t~V~L~G~Iv~~l~~d----~Y~F~D~TG~I~VeId~~~w~----------------------G~~v~p~d~V~I~GeVD 111 (126)
T TIGR00156 58 ASVTLRGNIISHIGDD----RYVFRDKSGEINVVIPAAVWN----------------------GREVQPKDMVNISGSLD 111 (126)
T ss_pred CEEEEEEEEEEEeCCc----eEEEECCCCCEEEEECHHHcC----------------------CCcCCCCCEEEEEEEEC
Confidence 6788888888866554 689999999988877222111 13567899999999998
Q ss_pred eeCCceEEEEEEEE
Q 043474 117 SYRGDVQITVSDVV 130 (160)
Q Consensus 117 ~f~~~~qi~~~~i~ 130 (160)
.--+...|.+.+|+
T Consensus 112 k~~~~~~IdV~~I~ 125 (126)
T TIGR00156 112 KKSAPAEVDVTHIQ 125 (126)
T ss_pred CCCCCeEEEEEEEE
Confidence 64346788888775
No 45
>PRK07211 replication factor A; Reviewed
Probab=97.50 E-value=0.00072 Score=58.81 Aligned_cols=79 Identities=20% Similarity=0.399 Sum_probs=61.2
Q ss_pred eEEEEEEEEEEeec------c----CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccC
Q 043474 37 SRAEIVGTITSRDH------K----PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIG 106 (160)
Q Consensus 37 ~~v~ivG~V~~~~~------~----~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G 106 (160)
.++.|.|+|.++.. + +++...+.|-|.||.|.+.+|.+.... ....+++|
T Consensus 64 ~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~DeTG~Ir~TlW~d~ad~--------------------~~~~Le~G 123 (485)
T PRK07211 64 DEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVADETGSVRVAFWDEQAVA--------------------AEEELEVG 123 (485)
T ss_pred CceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEEcCCCeEEEEEechHhHh--------------------hhcccCCC
Confidence 66888888887653 2 357789999999999999999865421 23578999
Q ss_pred cEEEEEEEeceeCCceEEEEEEEEEcCCh
Q 043474 107 LVARVRGRIASYRGDVQITVSDVVIEKDP 135 (160)
Q Consensus 107 ~~V~V~G~v~~f~~~~qi~~~~i~~v~d~ 135 (160)
++++|.|+++...+..+|.+..+.+..+.
T Consensus 124 dV~~I~~~~~~~ys~~El~i~~ve~~~d~ 152 (485)
T PRK07211 124 QVLRIKGRPKDGYNGLEVSVDKVEPDPDA 152 (485)
T ss_pred CEEEEeceEeccccceEEEEeeEEEcccc
Confidence 99999999865555679999988876553
No 46
>PRK07218 replication factor A; Provisional
Probab=97.39 E-value=0.001 Score=57.01 Aligned_cols=67 Identities=10% Similarity=0.293 Sum_probs=55.4
Q ss_pred eeEEEEEEEEEEeecc-------CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcE
Q 043474 36 LSRAEIVGTITSRDHK-------PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLV 108 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~-------~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~ 108 (160)
-.+|.+.|+|.++..+ ++......|.|.||+|...+|.+. .+++|+.
T Consensus 68 ~~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~igDeTG~Ir~tlW~~~--------------------------~l~~Gdv 121 (423)
T PRK07218 68 DKNVTVTGRVLTIGERSIRYQGDDHVIYEGILADETGTISYTAWKDF--------------------------GLSPGDT 121 (423)
T ss_pred CceeEEEEEEEEecceeEecCCCceEEEEEEEECCCCeEEEEEECCC--------------------------CCCCCCE
Confidence 3789999999998643 246678999999999999999721 2889999
Q ss_pred EEEEE-EeceeCCceEEEEEE
Q 043474 109 ARVRG-RIASYRGDVQITVSD 128 (160)
Q Consensus 109 V~V~G-~v~~f~~~~qi~~~~ 128 (160)
|+|.+ .++.|+|..+|++..
T Consensus 122 v~I~na~vre~~g~~el~ig~ 142 (423)
T PRK07218 122 VTIGNAGVREWDGRPELNIGE 142 (423)
T ss_pred EEEeccEeeccCCceEEeccC
Confidence 99995 789999999999744
No 47
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=97.38 E-value=0.00055 Score=65.21 Aligned_cols=78 Identities=13% Similarity=0.219 Sum_probs=62.4
Q ss_pred eEEEEEEEEEEeeccC----CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 37 SRAEIVGTITSRDHKP----SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~----~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
..|+++|.|.+++... .++..++|+|.||.+++++|-+.-. +....+..|..+-|.
T Consensus 1001 ~~v~v~g~i~~~k~~~Tk~G~~maf~~leD~tg~~e~vvFp~~y~--------------------~~~~~l~~~~~~~v~ 1060 (1170)
T PRK07374 1001 AKVSAIAMIPEMKQVTTRKGDRMAILQLEDLTGSCEAVVFPKSYE--------------------RLSDHLMTDTRLLVW 1060 (1170)
T ss_pred CEEEEEEEEEEeEecccCCCCEEEEEEEEECCCCEEEEECHHHHH--------------------HHHHHhccCCEEEEE
Confidence 4689999999987433 2578899999999999999966543 133568899999999
Q ss_pred EEeceeCCceEEEEEEEEEcCC
Q 043474 113 GRIASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~d 134 (160)
|+++.-.+..++.+.++.++.+
T Consensus 1061 g~v~~~~~~~~~~~~~i~~l~~ 1082 (1170)
T PRK07374 1061 AKVDRRDDRVQLIIDDCREIDD 1082 (1170)
T ss_pred EEEEecCCeEEEEEeeeecHhh
Confidence 9998755778999999887653
No 48
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=97.38 E-value=0.00058 Score=64.71 Aligned_cols=78 Identities=19% Similarity=0.183 Sum_probs=62.4
Q ss_pred eEEEEEEEEEEeeccC----CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 37 SRAEIVGTITSRDHKP----SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~----~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
..++++|.|.+++... .++..++|+|.||.+++++|-+.-. .....+..|..|.|.
T Consensus 944 ~~v~v~g~i~~~~~~~tk~g~~maf~~leD~tg~~e~~vFp~~y~--------------------~~~~~l~~~~~~~v~ 1003 (1107)
T PRK06920 944 KVQRAIVYITSVKVIRTKKGQKMAFITFCDQNDEMEAVVFPETYI--------------------HFSDKLQEGAIVLVD 1003 (1107)
T ss_pred CEEEEEEEEEEeEeecCCCCCeEEEEEEeeCCCcEEEEECHHHHH--------------------HHHHHhccCCEEEEE
Confidence 3689999999986422 3678899999999999999965432 133568899999999
Q ss_pred EEeceeCCceEEEEEEEEEcCC
Q 043474 113 GRIASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~d 134 (160)
|+++.-++..++.+.++.++.+
T Consensus 1004 G~v~~~~~~~~~~~~~i~~l~~ 1025 (1107)
T PRK06920 1004 GTIELRNHKLQWIVNGLYPLEE 1025 (1107)
T ss_pred EEEEecCCcEEEEEeecccHHH
Confidence 9998766778999999987753
No 49
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=97.33 E-value=0.00068 Score=64.01 Aligned_cols=78 Identities=21% Similarity=0.282 Sum_probs=62.3
Q ss_pred eEEEEEEEEEEeeccCC--ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEE
Q 043474 37 SRAEIVGTITSRDHKPS--KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGR 114 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~--~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~ 114 (160)
..|.++|+|..++...+ .+..++|+|.||.++|++|.+.-. +....++.|.++.|+|+
T Consensus 954 ~~v~v~g~i~~~~~~~TkkGmaf~~leD~~g~~e~~ifp~~~~--------------------~~~~~l~~~~~~~v~g~ 1013 (1046)
T PRK05672 954 RRVRVAGVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPGLWE--------------------RQRREALGARLLLVRGR 1013 (1046)
T ss_pred CEEEEEEEEEEEEEecCCCceEEEEEecCCCCEEEEECHHHHH--------------------HHHHHhccCCEEEEEEE
Confidence 35889999998876432 267899999999999999976543 12356889999999999
Q ss_pred eceeCCceEEEEEEEEEcCC
Q 043474 115 IASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 115 v~~f~~~~qi~~~~i~~v~d 134 (160)
++.-++..++.+.++.++.+
T Consensus 1014 v~~~~~~~~~~~~~i~~~~~ 1033 (1046)
T PRK05672 1014 VQNAEGVRHLVADRLEDLSP 1033 (1046)
T ss_pred EEecCCeEEEEEeeeechHH
Confidence 99766778999999987753
No 50
>PRK12366 replication factor A; Reviewed
Probab=97.32 E-value=0.0011 Score=59.54 Aligned_cols=75 Identities=25% Similarity=0.466 Sum_probs=59.8
Q ss_pred eEEEEEEEEEEeecc---------CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 37 SRAEIVGTITSRDHK---------PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~---------~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
..|.|.|.|.++... ++....++|.|.||+|.+.+|.+... ..++.|+
T Consensus 185 ~~v~v~G~V~~~~~~~~f~rkdg~~~~~r~~~l~D~TG~irvTlW~~~a~-----------------------~~~~~g~ 241 (637)
T PRK12366 185 LSATIEGEVTKAYPIKEFTRKDGSEGKLKSFILKDDTGSIRVTLWNDLTD-----------------------IEVNKGD 241 (637)
T ss_pred CeEEEEEEEEEccCcEEEEEcCCCeeEEEEEEEEcCCCcEEEEEEChhhc-----------------------ccCCCCC
Confidence 378999999987641 13557899999999999999987653 2478999
Q ss_pred EEEEEEEe-ceeCCceEEEEEEEEEcCC
Q 043474 108 VARVRGRI-ASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 108 ~V~V~G~v-~~f~~~~qi~~~~i~~v~d 134 (160)
+|+|.|.+ ..|+|.+.|.+.+...+..
T Consensus 242 vv~i~g~~~~~~~~~~el~~~~~~~i~~ 269 (637)
T PRK12366 242 IVRVKGYVKQGYRTGLEISANNIEILEK 269 (637)
T ss_pred EEEEEeEEecCcCCceEEEeCCceeecc
Confidence 99999984 5688899999888776654
No 51
>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=97.32 E-value=0.0022 Score=55.13 Aligned_cols=81 Identities=15% Similarity=0.238 Sum_probs=60.0
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|+|.|+|.++.... +.+.+.|.|+||.|+|++-.+.... +. .+....+..|+.|.|.|.+.
T Consensus 13 ~~v~i~G~v~~~R~~g-~~~Fi~lrd~~g~iQ~v~~~~~~~~---------------~~-~~~~~~l~~~s~v~v~G~v~ 75 (428)
T TIGR00458 13 QEVTFMGWVHEIRDLG-GLIFVLLRDREGLIQITAPAKKVSK---------------NL-FKWAKKLNLESVVAVRGIVK 75 (428)
T ss_pred CEEEEEEEEEEEecCC-CcEEEEEEeCCeeEEEEEECCcCCH---------------HH-HHHHhCCCCCcEEEEEEEEE
Confidence 5689999999998776 5678999999999999874322110 00 11235689999999999998
Q ss_pred eeC---CceEEEEEEEEEcCC
Q 043474 117 SYR---GDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~f~---~~~qi~~~~i~~v~d 134 (160)
.-+ +...|.+.++..+..
T Consensus 76 ~~~~~~~~~el~~~~i~vl~~ 96 (428)
T TIGR00458 76 IKEKAPGGFEIIPTKIEVINE 96 (428)
T ss_pred ecCCCCCcEEEEEeEEEEEec
Confidence 543 567888888887654
No 52
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=97.31 E-value=0.00073 Score=64.31 Aligned_cols=77 Identities=14% Similarity=0.239 Sum_probs=61.3
Q ss_pred eEEEEEEEEEEeeccC----CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 37 SRAEIVGTITSRDHKP----SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~----~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
..++++|.|.+++... .++..++|+|.||.+++++|.+.-. .....++.|..|.|.
T Consensus 992 ~~v~v~g~i~~~~~~~tk~G~~maf~~leD~~g~~e~~vfp~~~~--------------------~~~~~l~~~~~~~v~ 1051 (1151)
T PRK06826 992 DKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGTVEVIVFPKVYE--------------------KYRSLLNEDNIVLIK 1051 (1151)
T ss_pred cEEEEEEEEEEeEeeccCCCCeEEEEEEEECCCcEEEEECHHHHH--------------------HHHHHhccCCEEEEE
Confidence 4688999999988533 2578899999999999999965432 123568899999999
Q ss_pred EEecee-CCceEEEEEEEEEcC
Q 043474 113 GRIASY-RGDVQITVSDVVIEK 133 (160)
Q Consensus 113 G~v~~f-~~~~qi~~~~i~~v~ 133 (160)
|+++.. ++..++.+.++.++.
T Consensus 1052 g~v~~~~~~~~~~~~~~~~~l~ 1073 (1151)
T PRK06826 1052 GRVSLREDEEPKLICEEIEPLV 1073 (1151)
T ss_pred EEEEecCCCceEEEEeeeecHh
Confidence 999865 466899999988765
No 53
>PRK08402 replication factor A; Reviewed
Probab=97.30 E-value=0.0017 Score=54.52 Aligned_cols=72 Identities=21% Similarity=0.377 Sum_probs=55.4
Q ss_pred eEEEEEEEEEEeec-c-----C---CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 37 SRAEIVGTITSRDH-K-----P---SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 37 ~~v~ivG~V~~~~~-~-----~---~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
..|.+.|.|.++.. + . +....++|.|.||.|...+|.+.... ....+++|+
T Consensus 73 ~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~DeTG~ir~TlW~~~a~~--------------------~~~~l~~Gd 132 (355)
T PRK08402 73 RGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIYDDTGRARVVLWDAKVAK--------------------YYNKINVGD 132 (355)
T ss_pred ceeeEEEEEEEccCCceeeccCCCcceEEEEEEEcCCCeEEEEEechhhhh--------------------hcccCCCCC
Confidence 68999999999753 2 1 23445899999999999999876431 124588999
Q ss_pred EEEEE-EEecee-CCceEEEEEE
Q 043474 108 VARVR-GRIASY-RGDVQITVSD 128 (160)
Q Consensus 108 ~V~V~-G~v~~f-~~~~qi~~~~ 128 (160)
+|+|. ++++.| +|..+|++..
T Consensus 133 vi~I~~a~V~e~~~G~~eLsvg~ 155 (355)
T PRK08402 133 VIKVIDAQVRESLSGLPELHINF 155 (355)
T ss_pred EEEEECCEEeecCCCcEEEEECC
Confidence 99997 788875 8888998863
No 54
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=97.26 E-value=0.0027 Score=54.72 Aligned_cols=81 Identities=14% Similarity=0.171 Sum_probs=59.9
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|+|.|+|.++.... +.+-+.|.|++|.|+|++=.+... ...+....+..|++|.|.|.+.
T Consensus 17 ~~V~i~GrV~~~R~~g-k~~Fl~LrD~~g~iQ~v~~~~~~~-----------------~~~~~~~~L~~gs~V~v~G~v~ 78 (437)
T PRK05159 17 EEVTLAGWVHEIRDLG-GIAFLILRDRSGIIQVVVKKKVDE-----------------ELFETIKKLKRESVVSVTGTVK 78 (437)
T ss_pred CEEEEEEEeEeeecCC-CeEEEEEEcCCcEEEEEEeCCccH-----------------HHHHHHhCCCCCcEEEEEEEEE
Confidence 5688999999998765 667899999999999987322110 0011235688999999999998
Q ss_pred eeC---CceEEEEEEEEEcCCh
Q 043474 117 SYR---GDVQITVSDVVIEKDP 135 (160)
Q Consensus 117 ~f~---~~~qi~~~~i~~v~d~ 135 (160)
.-+ +...|.+.++..+...
T Consensus 79 ~~~~~~~~~el~~~~i~vls~a 100 (437)
T PRK05159 79 ANPKAPGGVEVIPEEIEVLNKA 100 (437)
T ss_pred cCCCCCCCEEEEEeEEEEEeCC
Confidence 654 4577999888876544
No 55
>PRK15491 replication factor A; Provisional
Probab=97.23 E-value=0.0031 Score=53.33 Aligned_cols=77 Identities=22% Similarity=0.363 Sum_probs=57.1
Q ss_pred eEEEEEEEEEEeec------cC---CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 37 SRAEIVGTITSRDH------KP---SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 37 ~~v~ivG~V~~~~~------~~---~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
..|.|.|+|.++.. +. ++...+.|-|.||.|.+.+|.+... ....+++|+
T Consensus 177 ~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~DetG~Ir~t~W~~~a~---------------------~~~~l~~Gd 235 (374)
T PRK15491 177 SDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGDETGKIRVTLWDGKTD---------------------LADKLENGD 235 (374)
T ss_pred ccEEEEEEEEEccCceEEEecCCCeEEEEEEEEECCCCeEEEEEecchhc---------------------ccccCCCCC
Confidence 35888999998763 11 2566899999999999999987543 224688999
Q ss_pred EEEEEE-Eec--eeCCceEEEEE---EEEEcCC
Q 043474 108 VARVRG-RIA--SYRGDVQITVS---DVVIEKD 134 (160)
Q Consensus 108 ~V~V~G-~v~--~f~~~~qi~~~---~i~~v~d 134 (160)
.|++.+ .++ .|+|..+|++. .|.++++
T Consensus 236 ~V~i~~~~~r~~~~~g~~El~~~~~s~I~~~~~ 268 (374)
T PRK15491 236 SVEIINGYARTNNYSQEVEIQIGNHGSLRKTDR 268 (374)
T ss_pred EEEEEeceEEEeccCCCEEEEeCCCceEEECCc
Confidence 999966 355 56788888876 4666554
No 56
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=97.21 E-value=0.0043 Score=53.25 Aligned_cols=79 Identities=16% Similarity=0.244 Sum_probs=59.6
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
+.|+|.|+|.++.... +..-+.|-||||.|+|++-.+.... .... ...+..+..|.|.|.|.
T Consensus 17 ~~V~v~GWV~~~R~~g-~i~Fi~lrDgsg~iQ~v~~~~~~~~----------------~~~~-~~~L~~es~v~V~G~v~ 78 (435)
T COG0017 17 QEVTVRGWVHNKRDLG-KIIFLVLRDGSGFIQAVVPKNKVYE----------------ELFK-AKKLTLESSVVVTGIVK 78 (435)
T ss_pred cEEEEEEEeeeecccC-CeEEEEEEcCCcEEEEEEECCCCcH----------------HHhh-hhcCCCccEEEEEEEEE
Confidence 8999999999988776 6788899999999999986432210 0011 34788999999999998
Q ss_pred eeC---CceEEEEEEEEEcC
Q 043474 117 SYR---GDVQITVSDVVIEK 133 (160)
Q Consensus 117 ~f~---~~~qi~~~~i~~v~ 133 (160)
.-. +...|.+.+|..+.
T Consensus 79 ~~~~a~~g~El~v~~i~Vl~ 98 (435)
T COG0017 79 ASPKAPQGFELQVEKIEVLG 98 (435)
T ss_pred cCCCCCCCEEEEEEEEEEee
Confidence 755 34568888877554
No 57
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=97.20 E-value=0.0033 Score=54.99 Aligned_cols=81 Identities=15% Similarity=0.253 Sum_probs=59.2
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|+|.|+|.++.... +..-+.|.|+||.|+|++=.+... .........+..|++|.|.|.+.
T Consensus 55 ~~v~v~G~v~~~R~~g-~~~Fi~lrD~~g~iQ~v~~~~~~~----------------~~~~~~~~~l~~g~~v~v~G~v~ 117 (491)
T PRK00484 55 IEVSVAGRVMLKRVMG-KASFATLQDGSGRIQLYVSKDDVG----------------EEALEAFKKLDLGDIIGVEGTLF 117 (491)
T ss_pred cEEEEEEEEEEEecCC-ceEEEEEEcCCccEEEEEECCcCC----------------HHHHHHHhcCCCCCEEEEEEEEE
Confidence 5699999999998776 678899999999999986322111 00011223489999999999987
Q ss_pred e-eCCceEEEEEEEEEcCC
Q 043474 117 S-YRGDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~-f~~~~qi~~~~i~~v~d 134 (160)
. -.|...|.+.++..+..
T Consensus 118 ~t~~ge~el~~~~~~vls~ 136 (491)
T PRK00484 118 KTKTGELSVKATELTLLTK 136 (491)
T ss_pred EcCCCcEEEEEeEEEEEec
Confidence 4 34678888888876653
No 58
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=97.16 E-value=0.0043 Score=53.69 Aligned_cols=80 Identities=10% Similarity=0.132 Sum_probs=60.6
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|+|.|+|.++.... +..-+.|.|+||.|++++-.+... ...+....+..|++|.|.|.+.
T Consensus 17 ~~V~i~G~v~~~R~~g-~~~Fi~lrD~~g~iq~~~~~~~~~-----------------~~~~~~~~l~~~s~v~v~G~v~ 78 (450)
T PRK03932 17 QEVTVRGWVRTKRDSG-KIAFLQLRDGSCFKQLQVVKDNGE-----------------EYFEEIKKLTTGSSVIVTGTVV 78 (450)
T ss_pred CEEEEEEEEEEEEeCC-CeEEEEEECCCCcEEEEEEcCCCh-----------------HHHHHHhcCCCCcEEEEEEEEE
Confidence 6799999999998774 768899999999988877433211 0011234689999999999998
Q ss_pred eeC---CceEEEEEEEEEcCC
Q 043474 117 SYR---GDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~f~---~~~qi~~~~i~~v~d 134 (160)
.-. +...|.+.++..+..
T Consensus 79 ~~~~~~~~~el~~~~i~vl~~ 99 (450)
T PRK03932 79 ESPRAGQGYELQATKIEVIGE 99 (450)
T ss_pred cCCCCCCCEEEEEEEEEEccC
Confidence 643 357899999987764
No 59
>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=97.11 E-value=0.0045 Score=53.65 Aligned_cols=80 Identities=15% Similarity=0.290 Sum_probs=58.6
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCC--ceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEE
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGT--GCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGR 114 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgT--G~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~ 114 (160)
..|.|.|+|.++.... +..-+.|.|+| |.|+|++-..... ........+..|+.|.|.|.
T Consensus 17 ~~v~v~Gwv~~~R~~~-~~~F~~lrD~~~~g~iQ~v~~~~~~~-----------------~~~~~~~~l~~gs~V~v~G~ 78 (453)
T TIGR00457 17 DEVTVSGWVRTKRSSK-KIIFLELNDGSSLGPIQAVINGEDNP-----------------YLFQLLKSLTTGSSVSVTGK 78 (453)
T ss_pred CEEEEEEEeEEEEcCC-CeEEEEEECCCCCccEEEEEeCCcCh-----------------HHHHHHHcCCCCcEEEEEEE
Confidence 6799999999998554 66788999999 9999987332111 00112356899999999999
Q ss_pred ecee---CCceEEEEEEEEEcCC
Q 043474 115 IASY---RGDVQITVSDVVIEKD 134 (160)
Q Consensus 115 v~~f---~~~~qi~~~~i~~v~d 134 (160)
+..- .+...|.+..+..+..
T Consensus 79 v~~~~~~~~~~El~~~~i~vl~~ 101 (453)
T TIGR00457 79 VVESPGKGQPVELQVKKIEVVGE 101 (453)
T ss_pred EEcCCCCCCCEEEEEeEEEEEec
Confidence 8752 2457788888887664
No 60
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=97.07 E-value=0.0015 Score=61.45 Aligned_cols=76 Identities=18% Similarity=0.275 Sum_probs=59.1
Q ss_pred EEEEEEEEEEeec---c--CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 38 RAEIVGTITSRDH---K--PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 38 ~v~ivG~V~~~~~---~--~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
.+.++|.|.++.. + +..+..++|+|.||.++|++|.+.-. +....+..|..|.|.
T Consensus 886 ~~~~~~~i~~~~~~~tk~~g~~maf~~leD~~g~ie~~vFp~~y~--------------------~~~~~l~~~~~~~v~ 945 (1034)
T PRK07279 886 EATILVQIQSIRVIRTKTKGQQMAFLSVTDTKKKLDVTLFPETYR--------------------QYKDELKEGKFYYLK 945 (1034)
T ss_pred cceEEEEEEEEEEEEEcCCCCeEEEEEEeeCCCcEEEEECHHHHH--------------------HHHHHhccCCEEEEE
Confidence 3567777776552 2 33678999999999999999965432 133568899999999
Q ss_pred EEeceeCCceEEEEEEEEEcC
Q 043474 113 GRIASYRGDVQITVSDVVIEK 133 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~ 133 (160)
|+++.-++..++.+.++.++.
T Consensus 946 G~v~~~~~~~~l~~~~i~~l~ 966 (1034)
T PRK07279 946 GKIQERDGRLQMVLQQIQEAS 966 (1034)
T ss_pred EEEEecCCeeEEEEeeeeccc
Confidence 999976777899999998764
No 61
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=97.06 E-value=0.0053 Score=53.91 Aligned_cols=82 Identities=20% Similarity=0.267 Sum_probs=58.9
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|+|.|+|.++.... +..-+.|.|+||.|+|++-.+.... +........+..|++|.|.|.+.
T Consensus 66 ~~v~v~Grv~~~R~~G-k~~F~~lrD~~g~iQ~~~~~~~~~~---------------~~~~~~~~~l~~Gd~V~v~G~~~ 129 (505)
T PRK12445 66 IEVSVAGRMMTRRIMG-KASFVTLQDVGGRIQLYVARDSLPE---------------GVYNDQFKKWDLGDIIGARGTLF 129 (505)
T ss_pred CEEEEEEEEEEEecCC-CcEEEEEEeCCccEEEEEECCccch---------------hhHHHHHhcCCCCCEEEEEEEEE
Confidence 3599999999998776 6688999999999999774222110 00001124588999999999986
Q ss_pred e-eCCceEEEEEEEEEcCC
Q 043474 117 S-YRGDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~-f~~~~qi~~~~i~~v~d 134 (160)
. -.|...|.+.++..+..
T Consensus 130 ~t~~gelel~~~~~~llsk 148 (505)
T PRK12445 130 KTQTGELSIHCTELRLLTK 148 (505)
T ss_pred ecCCCcEEEEEeEEEEEec
Confidence 4 34778888888876654
No 62
>PRK14699 replication factor A; Provisional
Probab=97.04 E-value=0.0034 Score=54.79 Aligned_cols=78 Identities=17% Similarity=0.336 Sum_probs=58.0
Q ss_pred eEEEEEEEEEEeec-cC--------CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 37 SRAEIVGTITSRDH-KP--------SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 37 ~~v~ivG~V~~~~~-~~--------~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
..|.|.|+|.++.. +. ++...+.|.|.||.|.+.+|.+... ....+++|+
T Consensus 177 ~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~igDeTG~ir~tlW~~~a~---------------------~~~~l~~Gd 235 (484)
T PRK14699 177 GDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLGDETGTLRVTLWDDKTD---------------------FLNQIEYGD 235 (484)
T ss_pred CceEEEEEEEeccCceEEecCCCCceEEEEEEEEcCCceEEEEEECcccc---------------------cccccCCCC
Confidence 45889999988765 21 2455689999999999999987432 224688999
Q ss_pred EEEEEEE-e--ceeCCceEEEEEEEEEcCCh
Q 043474 108 VARVRGR-I--ASYRGDVQITVSDVVIEKDP 135 (160)
Q Consensus 108 ~V~V~G~-v--~~f~~~~qi~~~~i~~v~d~ 135 (160)
+|+|.+. + +.|++..+|++.....+...
T Consensus 236 ~v~I~~a~vr~~~~~~~~el~~~~~s~i~~~ 266 (484)
T PRK14699 236 TVELINAYARENAFTQKVELQVGNRSIIRKS 266 (484)
T ss_pred EEEEecceEeecccCCceEEEecCceEeecc
Confidence 9998744 4 45889999999876665543
No 63
>PRK06386 replication factor A; Reviewed
Probab=97.03 E-value=0.0032 Score=52.94 Aligned_cols=71 Identities=18% Similarity=0.299 Sum_probs=55.7
Q ss_pred eEEEEEEEEEEeeccC-------CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEE
Q 043474 37 SRAEIVGTITSRDHKP-------SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVA 109 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~-------~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V 109 (160)
..+.+.|.|.++..++ +......|.|.||+|...+|.+ .++.|+.+
T Consensus 118 ~~v~V~akVle~~e~e~~~~g~~~~v~sg~lgDeTGrIr~TlW~~---------------------------~l~eGd~v 170 (358)
T PRK06386 118 PYVSVIGKITGITKKEYDSDGTSKIVYQGYIEDDTARVRISSFGK---------------------------PLEDNRFV 170 (358)
T ss_pred CceEEEEEEEEccCceEecCCCccEEEEEEEEcCCCeEEEEEccc---------------------------cccCCCEE
Confidence 4677888888875421 2445899999999999999964 25689999
Q ss_pred EEEEE-eceeCCceEEEEEEEEEcCC
Q 043474 110 RVRGR-IASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 110 ~V~G~-v~~f~~~~qi~~~~i~~v~d 134 (160)
++.+- ++.|+|..+|++.+...+..
T Consensus 171 ~i~na~v~e~~G~~el~v~~~t~I~~ 196 (358)
T PRK06386 171 RIENARVSQYNGYIEISVGNKSVIKE 196 (358)
T ss_pred EEeeeEEEccCCeEEEEeCCeEEEEE
Confidence 99987 56899999999988766654
No 64
>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=97.02 E-value=0.0061 Score=53.39 Aligned_cols=82 Identities=18% Similarity=0.220 Sum_probs=57.1
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|.|.|+|.++.... +..-+.|.|+||.|+|++-.+.... +........+..|++|.|.|.+.
T Consensus 54 ~~v~v~Grv~~~R~~g-k~~F~~l~D~~g~iQ~~~~~~~~~~---------------~~~~~~~~~l~~gd~V~v~G~~~ 117 (496)
T TIGR00499 54 IEVSIAGRIMARRSMG-KATFITLQDESGQIQLYVNKDDLPE---------------DFYEFDEYLLDLGDIIGVTGYPF 117 (496)
T ss_pred CEEEEEEEEEEEecCC-CeEEEEEEcCCccEEEEEECCcCcH---------------HHHHHHHhcCCCCCEEEEEEEEE
Confidence 3589999999998554 7788999999999999873222110 00000112478999999999986
Q ss_pred eeC-CceEEEEEEEEEcCC
Q 043474 117 SYR-GDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~f~-~~~qi~~~~i~~v~d 134 (160)
.=+ |...|.+.++..+..
T Consensus 118 ~t~~gelel~~~~i~ilsk 136 (496)
T TIGR00499 118 KTKTGELSVHVTELQILTK 136 (496)
T ss_pred ECCCCcEEEEeeEEEEEec
Confidence 544 557888888776553
No 65
>PLN02903 aminoacyl-tRNA ligase
Probab=97.00 E-value=0.0057 Score=55.11 Aligned_cols=80 Identities=24% Similarity=0.284 Sum_probs=59.3
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
+.|.|.|+|.++.... +.+-+.|.|+||.++|++-..... ........++.|++|.|.|.|.
T Consensus 73 k~V~l~GWV~~~R~~G-~l~FidLRD~~G~iQvV~~~~~~~-----------------~~~~~~~~L~~esvV~V~G~V~ 134 (652)
T PLN02903 73 SRVTLCGWVDLHRDMG-GLTFLDVRDHTGIVQVVTLPDEFP-----------------EAHRTANRLRNEYVVAVEGTVR 134 (652)
T ss_pred CEEEEEEEEEEEecCC-CcEEEEEEcCCccEEEEEeCCccH-----------------HHHHHHhcCCCCCEEEEEEEEE
Confidence 5699999999998776 668899999999999987322111 0011235789999999999998
Q ss_pred ee----------CCceEEEEEEEEEcCC
Q 043474 117 SY----------RGDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~f----------~~~~qi~~~~i~~v~d 134 (160)
.- .|...|.+.++..+..
T Consensus 135 ~r~~~~~n~~~~tGeiEl~~~~i~VL~~ 162 (652)
T PLN02903 135 SRPQESPNKKMKTGSVEVVAESVDILNV 162 (652)
T ss_pred eCCCcCcCCCCCCCCEEEEEeEEEEEec
Confidence 53 1457888888887654
No 66
>PRK15491 replication factor A; Provisional
Probab=96.98 E-value=0.006 Score=51.62 Aligned_cols=77 Identities=17% Similarity=0.334 Sum_probs=57.5
Q ss_pred eEEEEEEEEEEeec---------cCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 37 SRAEIVGTITSRDH---------KPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 37 ~~v~ivG~V~~~~~---------~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
.++.|.|+|.++.. .+++...+.|-|.||+|.+.+|.+..... ....+++|+
T Consensus 68 ~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~DeTG~ir~tlW~~~a~~~-------------------~~~~le~G~ 128 (374)
T PRK15491 68 SNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVADETGSIRLTLWDDLADLI-------------------KTGDIEVGK 128 (374)
T ss_pred CceEEEEEEeeccCCeeeecCCCCceEEEEEEEEcCCCeEEEEEECchhhhh-------------------ccCCcCCCC
Confidence 77889999998732 12466788999999999999998654310 114588999
Q ss_pred EEEEEEEec-eeCCceEEEEEE---EEEcC
Q 043474 108 VARVRGRIA-SYRGDVQITVSD---VVIEK 133 (160)
Q Consensus 108 ~V~V~G~v~-~f~~~~qi~~~~---i~~v~ 133 (160)
+++|.|..+ .|++ .+|++.. +.+++
T Consensus 129 v~~I~~~~~~~y~g-~Ei~i~~~~~i~~~~ 157 (374)
T PRK15491 129 SLNISGYAKEGYSG-IEVNIGRYGGISESD 157 (374)
T ss_pred EEEEeeeeccCccc-EEEEeCCCceeeecc
Confidence 999999987 5666 7888884 55443
No 67
>PRK10053 hypothetical protein; Provisional
Probab=96.91 E-value=0.013 Score=42.46 Aligned_cols=68 Identities=7% Similarity=0.232 Sum_probs=49.3
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|.+-|.|+..-..+ .|...|+||+|++-+=.+.-. -..+.+.+.|++.|.|.
T Consensus 62 ~~V~L~G~Iv~~lg~d----~Y~F~D~tG~I~VeID~~~w~----------------------G~~v~p~~kV~I~GevD 115 (130)
T PRK10053 62 ATVSLRGNLIDHKGDD----RYVFRDKSGEINVIIPAAVFD----------------------GREVQPDQMININGSLD 115 (130)
T ss_pred CeEEEEEEEEEEeCCc----eEEEECCCCcEEEEeCHHHcC----------------------CCcCCCCCEEEEEEEEC
Confidence 5677888888765554 678899999988876222211 13567899999999998
Q ss_pred eeCCceEEEEEEEE
Q 043474 117 SYRGDVQITVSDVV 130 (160)
Q Consensus 117 ~f~~~~qi~~~~i~ 130 (160)
.=.....|.+.+|+
T Consensus 116 k~~~~~~IdV~~i~ 129 (130)
T PRK10053 116 KKSAPPVVRVTHLQ 129 (130)
T ss_pred CCCCCeEEEEEEEe
Confidence 54456788888775
No 68
>PLN02221 asparaginyl-tRNA synthetase
Probab=96.88 E-value=0.011 Score=52.60 Aligned_cols=98 Identities=14% Similarity=0.198 Sum_probs=65.9
Q ss_pred cccceehhhhhccCCCCCCCceEECCeEeeEEEEEEEEEEeeccCC-ceEEEEEeCCC--ceEEEEEeecCccCCCCCCC
Q 043474 8 THVKLLAFDLLSLTPTPDPATFSRSGKLLSRAEIVGTITSRDHKPS-KFIKFTVDDGT--GCVPCVLWLNHLTSLYLPRR 84 (160)
Q Consensus 8 ~~~~l~i~~i~~l~~~~~~~~~~~~~~~i~~v~ivG~V~~~~~~~~-~~~~~~IdDgT--G~I~~~~w~~~~~~~~~~~~ 84 (160)
...+..|++|+..+.+. ..+.-..|+|.|+|.++..... +...+.|.||| |.|+|++-.....
T Consensus 29 ~~~~~~~~~~~~~~~~~-------~~~~g~~V~I~GWV~~iR~~Gk~~i~Fl~LRDgs~~g~iQvVv~~~~~~------- 94 (572)
T PLN02221 29 FSDRVLIRSILDRPDGG-------AGLAGQKVRIGGWVKTGREQGKGTFAFLEVNDGSCPANLQVMVDSSLYD------- 94 (572)
T ss_pred ccCceEHHHHhccccCC-------hhcCCCEEEEEEEEEehhhCCCceEEEEEEeCCcccccEEEEEcCchhh-------
Confidence 33566788887433221 0112256999999999987653 35678999999 8999987321110
Q ss_pred CCCccccccccccccccccccCcEEEEEEEeceeC------CceEEEEEEEEEcC
Q 043474 85 DPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYR------GDVQITVSDVVIEK 133 (160)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~------~~~qi~~~~i~~v~ 133 (160)
....+..|..|.|.|.|..-. +...|.+..+..+.
T Consensus 95 --------------~~~~L~~ES~V~V~G~V~~~~~~~~~~~~iEl~v~~i~vl~ 135 (572)
T PLN02221 95 --------------LSTLVATGTCVTVDGVLKVPPEGKGTKQKIELSVEKVIDVG 135 (572)
T ss_pred --------------HHhcCCCceEEEEEEEEEeCCccCCCCccEEEEEeEEEEEe
Confidence 112477999999999997532 25788888887665
No 69
>PLN02502 lysyl-tRNA synthetase
Probab=96.85 E-value=0.011 Score=52.41 Aligned_cols=84 Identities=13% Similarity=0.171 Sum_probs=58.7
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|.|.|+|.++.... +...+.|.|+||.|+|++-.+.... + ..........+..|++|.|.|.+.
T Consensus 109 ~~V~v~GrV~~~R~~G-k~~F~~LrD~~g~iQv~~~~~~~~~---------~----~~~~~~~~~~l~~gdiV~V~G~~~ 174 (553)
T PLN02502 109 VSVSVAGRIMAKRAFG-KLAFYDLRDDGGKIQLYADKKRLDL---------D----EEEFEKLHSLVDRGDIVGVTGTPG 174 (553)
T ss_pred CEEEEEEEEEEEecCC-CeEEEEEecCCccEEEEEECccccc---------h----hHHHHHHHhCCCCCcEEEEEEEEE
Confidence 4699999999998776 7789999999999999763222110 0 000001123588999999999986
Q ss_pred ee-CCceEEEEEEEEEcCC
Q 043474 117 SY-RGDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~f-~~~~qi~~~~i~~v~d 134 (160)
.- .+...|.+.++..+..
T Consensus 175 ~t~~gelel~~~~i~vLs~ 193 (553)
T PLN02502 175 KTKKGELSIFPTSFEVLTK 193 (553)
T ss_pred ecCCCCEEEEEeEEEEEec
Confidence 43 3677888888776553
No 70
>PRK06386 replication factor A; Reviewed
Probab=96.82 E-value=0.01 Score=49.86 Aligned_cols=68 Identities=19% Similarity=0.311 Sum_probs=52.4
Q ss_pred eeEEEEEEEEEEeecc-----C--CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcE
Q 043474 36 LSRAEIVGTITSRDHK-----P--SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLV 108 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~-----~--~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~ 108 (160)
-.+|.+.|+|+++..+ . +....-.|.|.||.|....|... ..++.|+.
T Consensus 12 ~~~V~v~akVl~~~~r~i~~~~g~~~~~~gllgDeTG~I~fT~W~~~-------------------------~~l~~Gd~ 66 (358)
T PRK06386 12 RQNVDLKVKVLSLNKRTIKNDRGETIYYYGIIGDETGTVPFTAWEFP-------------------------DAVKSGDV 66 (358)
T ss_pred CCcEEEEEEEEEccceEEecCCCCeEEEEEEEECCcceEEEEecCCc-------------------------ccCCCCCE
Confidence 3667888888876532 2 24456679999999999999732 24789999
Q ss_pred EEEEEE-eceeCCceEEEEEE
Q 043474 109 ARVRGR-IASYRGDVQITVSD 128 (160)
Q Consensus 109 V~V~G~-v~~f~~~~qi~~~~ 128 (160)
+++.+- ++.|+|+.+|++..
T Consensus 67 v~i~na~v~~~~G~~~Lnv~~ 87 (358)
T PRK06386 67 IEIKYCYSKEYNGKIRIYFDS 87 (358)
T ss_pred EEEEeEEEeeECCEEEEEEcC
Confidence 999976 67999999999964
No 71
>PRK12366 replication factor A; Reviewed
Probab=96.82 E-value=0.0048 Score=55.57 Aligned_cols=76 Identities=22% Similarity=0.389 Sum_probs=58.5
Q ss_pred eEEEEEEEEEEeec------c---CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 37 SRAEIVGTITSRDH------K---PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 37 ~~v~ivG~V~~~~~------~---~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
.++.|.|+|.++.. + +++...+.|-|.||+|.+++|.+... ....++.|+
T Consensus 74 ~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~DetG~Ir~t~W~~~~~---------------------~~~~le~G~ 132 (637)
T PRK12366 74 INVEITGRIIEISNIKTFTRKDGSTGKLANITIADNTGTIRLTLWNDNAK---------------------LLKGLKEGD 132 (637)
T ss_pred cceEEEEEEEEccCCeEEECCCCCccEEEEEEEEcCCCEEEEEEEchhhh---------------------hhccCCCCC
Confidence 56888888887642 1 34678999999999999999986532 225789999
Q ss_pred EEEEEEE-eceeCCceEEEEEE---EEEcC
Q 043474 108 VARVRGR-IASYRGDVQITVSD---VVIEK 133 (160)
Q Consensus 108 ~V~V~G~-v~~f~~~~qi~~~~---i~~v~ 133 (160)
++++.|. ++.|++..+|++.. |.+++
T Consensus 133 v~~i~~~~v~~~~~~~el~~~~~t~I~~~~ 162 (637)
T PRK12366 133 VIKIENARSRKWNNDVELNSGSETRIDKLE 162 (637)
T ss_pred EEEEeccEecccCCceEEEcCCcceEEEcc
Confidence 9999887 78999999887653 55554
No 72
>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=96.80 E-value=0.0087 Score=53.38 Aligned_cols=78 Identities=18% Similarity=0.305 Sum_probs=58.6
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|+|.|+|.++.... +.+-+.|.|+||.|+|++-.+ .. ..+....++.|++|.|.|.+.
T Consensus 16 ~~V~l~GwV~~~R~~G-kl~Fi~LrD~sg~iQvv~~~~-~~------------------~~~~~~~L~~esvV~V~G~v~ 75 (583)
T TIGR00459 16 QTVTLAGWVNRRRDLG-GLIFIDLRDRSGIVQVVCDPD-AD------------------ALKLAKGLRNEDVVQVKGKVS 75 (583)
T ss_pred CEEEEEEEEEEEEcCC-CcEEEEEEeCCccEEEEEeCC-HH------------------HHHHHhcCCCCCEEEEEEEEE
Confidence 4799999999998776 668899999999999986322 11 011235688999999999997
Q ss_pred e----------eCCceEEEEEEEEEcCC
Q 043474 117 S----------YRGDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~----------f~~~~qi~~~~i~~v~d 134 (160)
. =.+...|.+..+..+..
T Consensus 76 ~r~~~~~n~~~~tg~iEl~~~~i~iL~~ 103 (583)
T TIGR00459 76 ARPEGNINRNLDTGEIEILAESITLLNK 103 (583)
T ss_pred eCCccccCccCCCCcEEEEEeEEEEeec
Confidence 4 23567889998887543
No 73
>COG3111 Periplasmic protein with OB-fold [Function unknown]
Probab=96.75 E-value=0.016 Score=41.40 Aligned_cols=71 Identities=13% Similarity=0.154 Sum_probs=52.2
Q ss_pred eeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEe
Q 043474 36 LSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRI 115 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v 115 (160)
=..|.+.|-|+..-... .|..-|+||+|.+-+=...-. -..+.+.+.|++.|.+
T Consensus 57 da~V~l~GnIv~qi~~D----~y~FrD~sGeI~VeIdd~~w~----------------------g~tv~P~dkV~I~Gev 110 (128)
T COG3111 57 DAWVSLEGNIVRQIGDD----RYVFRDASGEINVDIDDKVWN----------------------GQTVTPKDKVRIQGEV 110 (128)
T ss_pred CCeEEEEeeEEEeeCCc----eEEEEcCCccEEEEecccccC----------------------CcccCcccEEEEEeEE
Confidence 36788889888865553 788999999988765322221 1356788999999999
Q ss_pred ceeCCceEEEEEEEEEc
Q 043474 116 ASYRGDVQITVSDVVIE 132 (160)
Q Consensus 116 ~~f~~~~qi~~~~i~~v 132 (160)
..=-++..|.+.+|+.+
T Consensus 111 Dk~~~~~eIdV~~I~k~ 127 (128)
T COG3111 111 DKDWNSVEIDVKHIEKL 127 (128)
T ss_pred cCCCccceeEhhheEec
Confidence 87556778888888754
No 74
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=96.74 E-value=0.012 Score=53.33 Aligned_cols=68 Identities=18% Similarity=0.308 Sum_probs=52.0
Q ss_pred eEEEEEEEEEEeecc--CCceEEEEEeCCCceEEEEEeec-CccCCCCCCCCCCccccccccccccccccccCcEEEEEE
Q 043474 37 SRAEIVGTITSRDHK--PSKFIKFTVDDGTGCVPCVLWLN-HLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRG 113 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~--~~~~~~~~IdDgTG~I~~~~w~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G 113 (160)
..+.+.|.|++.... ..+.+.+++.|+||.+.++.|.. ..- ....+++|+.+.|.|
T Consensus 60 ~~vtv~g~V~~~~~~~~~~~~~~v~l~D~tg~i~l~~F~~n~~~---------------------~~~~l~~G~~~~v~G 118 (681)
T PRK10917 60 EKVTVEGEVLSAEVVFGKRRRLTVTVSDGTGNLTLRFFNFNQPY---------------------LKKQLKVGKRVAVYG 118 (681)
T ss_pred CEEEEEEEEEEEEEccCCceEEEEEEEECCeEEEEEEEccCcHH---------------------HHhhCCCCCEEEEEE
Confidence 578899998887533 22568999999999999987731 111 235799999999999
Q ss_pred EeceeCCceEEE
Q 043474 114 RIASYRGDVQIT 125 (160)
Q Consensus 114 ~v~~f~~~~qi~ 125 (160)
+++.+++.+|+.
T Consensus 119 kv~~~~~~~qm~ 130 (681)
T PRK10917 119 KVKRGKYGLEMV 130 (681)
T ss_pred EEEecCCeEEEE
Confidence 999988877763
No 75
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=96.73 E-value=0.012 Score=53.48 Aligned_cols=81 Identities=14% Similarity=0.279 Sum_probs=59.3
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
+.|+|.|+|.++.... +.+-+.|.|+||.|+|++-...... ...+....++.|+.|.|.|.|.
T Consensus 19 ~~V~l~GWV~~~R~~G-~l~FidLRD~~G~iQvV~~~~~~~~----------------~~~~~~~~L~~EsvV~V~G~v~ 81 (706)
T PRK12820 19 REVCLAGWVDAFRDHG-ELLFIHLRDRNGFIQAVFSPEAAPA----------------DVYELAASLRAEFCVALQGEVQ 81 (706)
T ss_pred CEEEEEEEEEEEEcCC-CcEEEEEEeCCccEEEEEeCCcCCH----------------HHHHHHhcCCCCCEEEEEeEEe
Confidence 5699999999998776 6688999999999999873221110 0011235789999999999998
Q ss_pred ee----------CCceEEEEEEEEEcCC
Q 043474 117 SY----------RGDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~f----------~~~~qi~~~~i~~v~d 134 (160)
.- .+...|.+.++..+..
T Consensus 82 ~r~~~~~n~~~~tg~iEl~~~~i~iL~~ 109 (706)
T PRK12820 82 KRLEETENPHIETGDIEVFVRELSILAA 109 (706)
T ss_pred ccCccccCCCCCCCcEEEEeeEEEEEec
Confidence 73 1557888888886644
No 76
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=96.69 E-value=0.016 Score=52.35 Aligned_cols=82 Identities=16% Similarity=0.223 Sum_probs=59.6
Q ss_pred EEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 38 RAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 38 ~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
.|+|.|+|.++...+ +-..+.|.|+||.|+|++-.+...+ .+........+..|++|.|.|.+..
T Consensus 109 ~V~vaGrV~~~R~~G-k~~F~~LrD~~G~IQvv~~~~~~~~--------------~~~~~~~~~~l~~gdiV~V~G~v~~ 173 (659)
T PTZ00385 109 TVRVAGRVTSVRDIG-KIIFVTIRSNGNELQVVGQVGEHFT--------------REDLKKLKVSLRVGDIIGADGVPCR 173 (659)
T ss_pred EEEEEEEEEeeeccC-CeEEEEEEECCceEEEEEECCccCC--------------HHHHHHHHhCCCCCCEEEEEEEEEe
Confidence 499999999988776 6678899999999999985432100 0000011235889999999999876
Q ss_pred e-CCceEEEEEEEEEcCC
Q 043474 118 Y-RGDVQITVSDVVIEKD 134 (160)
Q Consensus 118 f-~~~~qi~~~~i~~v~d 134 (160)
- .|...|.+..+..+..
T Consensus 174 t~~GeleI~~~~i~lLsk 191 (659)
T PTZ00385 174 MQRGELSVAASRMLILSP 191 (659)
T ss_pred cCCceEEEEeeEEEEech
Confidence 5 4778888899887663
No 77
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=96.68 E-value=0.015 Score=51.51 Aligned_cols=82 Identities=15% Similarity=0.259 Sum_probs=60.1
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|.|.|+|.++.... +.+.+.|.|+||.|+|++-.....+ .++ .+....+..|++|.|.|.|.
T Consensus 79 ~~V~v~Grv~~~R~~G-k~~Fl~LRd~~~~iQ~v~~~~~~~~--------------~~~-~~~~~~l~~esiV~V~G~v~ 142 (550)
T PTZ00401 79 KTVLIRARVSTTRKKG-KMAFMVLRDGSDSVQAMAAVEGDVP--------------KEM-IDFIGQIPTESIVDVEATVC 142 (550)
T ss_pred CEEEEEEEEEEEecCC-CeEEEEEEeCCcCEEEEEECCCccC--------------HHH-HHHHhcCCCCCEEEEEEEEE
Confidence 5699999999998876 6688999999999999974322110 001 12335789999999999987
Q ss_pred ee--------CCceEEEEEEEEEcCC
Q 043474 117 SY--------RGDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~f--------~~~~qi~~~~i~~v~d 134 (160)
.- .+...|.+.++..+..
T Consensus 143 ~~~~~~~~~~~~~~El~v~~i~vls~ 168 (550)
T PTZ00401 143 KVEQPITSTSHSDIELKVKKIHTVTE 168 (550)
T ss_pred ecCccCCCCCCccEEEEeeEEEEEeC
Confidence 52 3457888888876643
No 78
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=96.68 E-value=0.014 Score=52.13 Aligned_cols=78 Identities=17% Similarity=0.308 Sum_probs=58.7
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|.+.|+|.++.... +.+-+.|.|+||.++|++-. . .. . .+....+..|++|.|.|.|.
T Consensus 18 ~~V~l~GwV~~~R~~g-~l~Fi~LrD~~g~iQ~v~~~-~-~~----------------~-~~~~~~l~~es~V~V~G~v~ 77 (588)
T PRK00476 18 QTVTLCGWVHRRRDHG-GLIFIDLRDREGIVQVVFDP-D-AE----------------A-FEVAESLRSEYVIQVTGTVR 77 (588)
T ss_pred CEEEEEEEEEEEEeCC-CeEEEEEEeCCceEEEEEeC-C-HH----------------H-HHHHhCCCCCCEEEEEEEEE
Confidence 4599999999998776 67889999999999998732 1 10 0 11235688999999999998
Q ss_pred ee----------CCceEEEEEEEEEcCC
Q 043474 117 SY----------RGDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~f----------~~~~qi~~~~i~~v~d 134 (160)
.- .|...|.+.++..+..
T Consensus 78 ~~~~~~~n~~~~~g~~El~~~~i~il~~ 105 (588)
T PRK00476 78 ARPEGTVNPNLPTGEIEVLASELEVLNK 105 (588)
T ss_pred ecCCcccCccCCCCcEEEEEeEEEEEec
Confidence 63 3457888888876654
No 79
>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=96.64 E-value=0.022 Score=41.48 Aligned_cols=71 Identities=20% Similarity=0.273 Sum_probs=53.9
Q ss_pred eEEEEEEEEEEeec----cCC-ceEEEEEeCCCce----EEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 37 SRAEIVGTITSRDH----KPS-KFIKFTVDDGTGC----VPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 37 ~~v~ivG~V~~~~~----~~~-~~~~~~IdDgTG~----I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
..|.++|.|++... +.+ -...|+|-|.|+. +.+.+|.+..+ ....+..|+
T Consensus 15 ~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~~~~l~v~~F~~~~~---------------------~LP~v~~GD 73 (138)
T cd04497 15 GSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNEE---------------------SLPIVKVGD 73 (138)
T ss_pred CeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCCCCcEEEEEECCChh---------------------hCCCCCCCC
Confidence 66778999998763 111 4478999999873 99999988754 224458999
Q ss_pred EEEEEEE-eceeCCceEEEEEE
Q 043474 108 VARVRGR-IASYRGDVQITVSD 128 (160)
Q Consensus 108 ~V~V~G~-v~~f~~~~qi~~~~ 128 (160)
+|.+++- |+.|+|+.+.....
T Consensus 74 VIll~~~kv~~~~g~~~~~~~~ 95 (138)
T cd04497 74 IILLRRVKIQSYNGKPQGISND 95 (138)
T ss_pred EEEEEEEEEEEECCceEEEECC
Confidence 9999984 78999998876665
No 80
>cd04479 RPA3 RPA3: A subfamily of OB folds similar to human RPA3 (also called RPA14). RPA3 is the smallest 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). RPA3 is believed to have a structural role in assembly of the RPA heterotrimer.
Probab=96.62 E-value=0.081 Score=36.50 Aligned_cols=69 Identities=23% Similarity=0.301 Sum_probs=47.2
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCc-eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEe
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTG-CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRI 115 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG-~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v 115 (160)
+.|+++|.|.+.... .+++.+.-| .++|.+-.+. ....+.+|.|.|++
T Consensus 16 k~V~ivGkV~~~~~~-----~~~~~~~Dg~~v~v~l~~~~--------------------------~~~~~~~vEViG~V 64 (101)
T cd04479 16 KTVRIVGKVEKVDGD-----SLTLISSDGVNVTVELNRPL--------------------------DLPISGYVEVIGKV 64 (101)
T ss_pred CEEEEEEEEEEecCC-----eEEEEcCCCCEEEEEeCCCC--------------------------CcccCCEEEEEEEE
Confidence 789999999997543 344555444 7888753221 34578999999999
Q ss_pred ceeCCceEEEEEEEEEcCCh-hHHH
Q 043474 116 ASYRGDVQITVSDVVIEKDP-NMEV 139 (160)
Q Consensus 116 ~~f~~~~qi~~~~i~~v~d~-n~~~ 139 (160)
.. ...|.+.......+. +.++
T Consensus 65 ~~---~~~I~~~~~~~~g~~~D~~~ 86 (101)
T cd04479 65 SP---DLTIRVLSYIDFGDDFDMDL 86 (101)
T ss_pred CC---CCeEEEEEEEECCCccCHHH
Confidence 85 456777777766653 4443
No 81
>PLN02850 aspartate-tRNA ligase
Probab=96.62 E-value=0.017 Score=51.00 Aligned_cols=83 Identities=20% Similarity=0.291 Sum_probs=59.8
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|.|.|+|.++.... +...+.|.|++|.|+|++-...... ..++ .+....+..|++|.|.|.|.
T Consensus 82 ~~V~v~Grv~~~R~~g-k~~Fl~Lrd~~~~iQ~v~~~~~~~~-------------~~~~-~~~~~~l~~es~V~V~G~v~ 146 (530)
T PLN02850 82 SEVLIRGRVHTIRGKG-KSAFLVLRQSGFTVQCVVFVSEVTV-------------SKGM-VKYAKQLSRESVVDVEGVVS 146 (530)
T ss_pred CEEEEEEEEEEEccCC-CeEEEEEEeCCcCEEEEEECCcccc-------------CHHH-HHHHhCCCCCCEEEEEEEEE
Confidence 6799999999998877 5678999999999999884332110 0011 12235789999999999998
Q ss_pred e-------eCCceEEEEEEEEEcCC
Q 043474 117 S-------YRGDVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~-------f~~~~qi~~~~i~~v~d 134 (160)
. -.+...|.+.++..+..
T Consensus 147 ~~~~~~~~~t~~~El~~~~i~vls~ 171 (530)
T PLN02850 147 VPKKPVKGTTQQVEIQVRKIYCVSK 171 (530)
T ss_pred ccCcCCCCCCccEEEEEeEEEEEeC
Confidence 3 12347888888886654
No 82
>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=96.59 E-value=0.0064 Score=42.12 Aligned_cols=58 Identities=16% Similarity=0.305 Sum_probs=42.8
Q ss_pred eEEEEEEEEEEeec------c--CCceEEEEEeCC-CceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 37 SRAEIVGTITSRDH------K--PSKFIKFTVDDG-TGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 37 ~~v~ivG~V~~~~~------~--~~~~~~~~IdDg-TG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
...+|.|+|++... . +++.+.+.|-|. +|+|.|.+|.+... ...+.++.|+
T Consensus 10 ~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~De~~~~I~~t~~~~~~~--------------------~f~~~l~eG~ 69 (104)
T cd04474 10 NKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLDEDGGEIRATFFNDAVD--------------------KFYDLLEVGK 69 (104)
T ss_pred CcEEEEEEEeeccccccccCCCCCcEEEEEEEEECCCCEEEEEEehHHHH--------------------Hhhccccccc
Confidence 46788888886432 1 246679999999 88999999986532 2446789999
Q ss_pred EEEEEEE
Q 043474 108 VARVRGR 114 (160)
Q Consensus 108 ~V~V~G~ 114 (160)
++.+.|-
T Consensus 70 vy~i~~~ 76 (104)
T cd04474 70 VYYISKG 76 (104)
T ss_pred EEEEecc
Confidence 8888754
No 83
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=96.58 E-value=0.02 Score=51.48 Aligned_cols=76 Identities=28% Similarity=0.439 Sum_probs=60.6
Q ss_pred EeeEEEEEEEEEEeecc---CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEE
Q 043474 35 LLSRAEIVGTITSRDHK---PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARV 111 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~~~---~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V 111 (160)
+-..+.++|.|.+.... ..+.+.+++.|+||.|.++.++.+.. ....++.|.-|.+
T Consensus 59 ~g~~vti~g~V~~~~~~~~~~~~~l~v~~~d~~~~l~l~fFn~~~~---------------------l~~~~~~G~~v~v 117 (677)
T COG1200 59 PGEIVTIEGTVLSHEKFPFGKRKLLKVTLSDGTGVLTLVFFNFPAY---------------------LKKKLKVGERVIV 117 (677)
T ss_pred CCceEEEEEEEEeeeccCCCCCceEEEEEecCcEEEEEEEECccHH---------------------HHhhCCCCCEEEE
Confidence 34688999999888765 34668999999999999998876632 2367899999999
Q ss_pred EEEeceeCCceEEEEEEEEE
Q 043474 112 RGRIASYRGDVQITVSDVVI 131 (160)
Q Consensus 112 ~G~v~~f~~~~qi~~~~i~~ 131 (160)
.|+++.|++..|+.--.+..
T Consensus 118 ~Gk~~~~~~~~~~~hpe~~~ 137 (677)
T COG1200 118 YGKVKRFKGGLQITHPEYIV 137 (677)
T ss_pred EEEEeeccCceEEEcceEEe
Confidence 99999999888776555444
No 84
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=96.48 E-value=0.024 Score=54.11 Aligned_cols=81 Identities=17% Similarity=0.288 Sum_probs=57.4
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..|+|.|+|.++.... +..-+.|.|+||.|+|++=.+.... .........+..|++|.|+|.+.
T Consensus 652 ~~V~v~Grv~~~R~~G-~~~F~~lrD~~g~iQ~v~~~~~~~~---------------~~~~~~~~~l~~gd~V~v~G~v~ 715 (1094)
T PRK02983 652 EEVSVSGRVLRIRDYG-GVLFADLRDWSGELQVLLDASRLEQ---------------GSLADFRAAVDLGDLVEVTGTMG 715 (1094)
T ss_pred CEEEEEEEEEEEeeCC-CeEEEEEEeCCeeEEEEEECCccch---------------hhHHHHHhcCCCCCEEEEEEEEE
Confidence 4699999999998776 6788999999999999873322110 00001123578999999999986
Q ss_pred ee-CCceEEEEEEEEEcC
Q 043474 117 SY-RGDVQITVSDVVIEK 133 (160)
Q Consensus 117 ~f-~~~~qi~~~~i~~v~ 133 (160)
.- ++...|.+.+++.+.
T Consensus 716 ~t~~ge~ei~~~~i~ll~ 733 (1094)
T PRK02983 716 TSRNGTLSLLVTSWRLAG 733 (1094)
T ss_pred EcCCCCEEEEEeEEEEEe
Confidence 43 366778888776554
No 85
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=96.45 E-value=0.023 Score=50.76 Aligned_cols=95 Identities=9% Similarity=0.136 Sum_probs=59.9
Q ss_pred ccccccceehhhhhccCCCC--CCCceEECCeEeeEEEEEEEEEEeeccCC-ceEEEEEeCCCc--eEEEEEeecCccCC
Q 043474 5 LQNTHVKLLAFDLLSLTPTP--DPATFSRSGKLLSRAEIVGTITSRDHKPS-KFIKFTVDDGTG--CVPCVLWLNHLTSL 79 (160)
Q Consensus 5 ~~~~~~~l~i~~i~~l~~~~--~~~~~~~~~~~i~~v~ivG~V~~~~~~~~-~~~~~~IdDgTG--~I~~~~w~~~~~~~ 79 (160)
++.+-.++-|..++....++ ..+--......-..|+|.|+|.++....+ +.+.+.|.|||| .++|++- ....
T Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~Vtl~GWv~~iR~~g~~~~~Fv~lrDgsg~~~iQiVv~-~~~~-- 124 (586)
T PTZ00425 48 DRGCRSRIRICNVLNVPKSEKEFNDNSRKNKYIDQIITVCGWSKAVRKQGGGRFCFVNLNDGSCHLNLQIIVD-QSIE-- 124 (586)
T ss_pred ccccccceeeehhccCccccccccccccccccCCCEEEEEEEEeehhhcCCceEEEEEEECCCCCcceEEEEC-CchH--
Confidence 34444566777777665444 11111111222357999999999987553 467889999999 4998762 1110
Q ss_pred CCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 80 YLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
.......+..|..|+|.|++..-
T Consensus 125 ----------------~~~~l~~l~~gs~v~v~G~v~~~ 147 (586)
T PTZ00425 125 ----------------NYEKLLKCGVGCCFRFTGKLIIS 147 (586)
T ss_pred ----------------HHHHHhcCCCccEEEEEEEEEcC
Confidence 00122457899999999999753
No 86
>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=96.44 E-value=0.022 Score=54.82 Aligned_cols=81 Identities=26% Similarity=0.321 Sum_probs=62.7
Q ss_pred EeeEEEEEEEEEEeeccC---C-ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEE
Q 043474 35 LLSRAEIVGTITSRDHKP---S-KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVAR 110 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~~~~---~-~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~ 110 (160)
+..+|.|.|.|-.++.++ + ..++|.|.|.|++|.|+.|...... .+....++.|+.|+
T Consensus 6 ~~~~~~~~g~i~~~~~~~~~~~~~~~~~~~~d~~~s~~~k~f~~~~~~------------------~~~~~~~~~g~~~~ 67 (1213)
T TIGR01405 6 EENRVKIEGYIFKIEIKELKSGRTLLKIKVTDYTDSLILKKFLKSEED------------------PEKFDGIKIGKWVR 67 (1213)
T ss_pred cCCeEEEEEEEEEEEeEeccCCCEEEEEEEEcCCCCEEEEEecccccc------------------hHHHhhcCCCcEEE
Confidence 346788999998887643 3 4458999999999999999865431 12346789999999
Q ss_pred EEEEec--eeCCceEEEEEEEEEcC
Q 043474 111 VRGRIA--SYRGDVQITVSDVVIEK 133 (160)
Q Consensus 111 V~G~v~--~f~~~~qi~~~~i~~v~ 133 (160)
++|++. .|.+...+.+..|..+.
T Consensus 68 ~~g~~~~d~~~~~~~~~~~~~~~~~ 92 (1213)
T TIGR01405 68 ARGKIELDNFSRDLQMIIKDIEEIP 92 (1213)
T ss_pred EEEEEeccCCCCceEEEeeeeeecC
Confidence 999987 67788888888887653
No 87
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=96.42 E-value=0.05 Score=42.82 Aligned_cols=79 Identities=18% Similarity=0.314 Sum_probs=57.3
Q ss_pred EeeEEEEEEEEEEee-----ccCCceEEEEEe-----CCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccc
Q 043474 35 LLSRAEIVGTITSRD-----HKPSKFIKFTVD-----DGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIK 104 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~-----~~~~~~~~~~Id-----DgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 (160)
+..+|.++|.+++-- .....|..|+|. |.+--|+|++|....+ . ..+.
T Consensus 7 ~~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rlae---------------------~-~~l~ 64 (219)
T PRK05813 7 ENNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERLLA---------------------G-MDLK 64 (219)
T ss_pred hcCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhhhh---------------------h-hccc
Confidence 457888899887622 222366677765 7788899999987754 1 2389
Q ss_pred cCcEEEEEEEeceeC----Cc----eEEEEEEEEEcCCh
Q 043474 105 IGLVARVRGRIASYR----GD----VQITVSDVVIEKDP 135 (160)
Q Consensus 105 ~G~~V~V~G~v~~f~----~~----~qi~~~~i~~v~d~ 135 (160)
.|+.|.|.|++++|+ |+ ..+.+..|..++..
T Consensus 65 kG~~v~VeGqlrsy~~~~~G~~R~vl~V~a~~i~~l~~~ 103 (219)
T PRK05813 65 VGTLVIVEGQLRSYNKFIDGKNRLILTVFARNIEYCDER 103 (219)
T ss_pred CCCEEEEEEEEEEeccCCCCcEEEEEEEEEEEEEEccCC
Confidence 999999999999994 32 35677778877754
No 88
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=96.42 E-value=0.023 Score=55.49 Aligned_cols=82 Identities=20% Similarity=0.282 Sum_probs=63.4
Q ss_pred eeEEEEEEEEEEeeccC---C-ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEE
Q 043474 36 LSRAEIVGTITSRDHKP---S-KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARV 111 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~~---~-~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V 111 (160)
..+|.|-|.|-.++.++ + ..++|.|.|.|++|.|+.|...... .+....++.|++|+|
T Consensus 236 ~~~v~i~G~if~~e~~~~k~~~~~~~~~~td~~~s~~~k~f~~~~~~------------------~~~~~~~~~g~~v~~ 297 (1437)
T PRK00448 236 ERRVVVEGYVFKVEIKELKSGRHILTFKITDYTSSIIVKKFSRDKED------------------LKKFDEIKKGDWVKV 297 (1437)
T ss_pred CCeEEEEEEEEEEEEEeccCCCEEEEEEEEcCCCCEEEEEEecCcch------------------hHHHhcCCCCCEEEE
Confidence 36889999999988644 2 3468999999999999999855431 123467999999999
Q ss_pred EEEec--eeCCceEEEEEEEEEcCCh
Q 043474 112 RGRIA--SYRGDVQITVSDVVIEKDP 135 (160)
Q Consensus 112 ~G~v~--~f~~~~qi~~~~i~~v~d~ 135 (160)
+|++. .|.+...+.+..|..+..+
T Consensus 298 ~g~~~~d~~~~~~~~~~~~~~~~~~~ 323 (1437)
T PRK00448 298 RGSVQNDTFTRDLVMNAQDINEIKHP 323 (1437)
T ss_pred EEEEeccCCCCceEEEeeeeeecCCc
Confidence 99997 4777888888888766544
No 89
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=96.37 E-value=0.023 Score=51.10 Aligned_cols=67 Identities=25% Similarity=0.341 Sum_probs=50.3
Q ss_pred eEEEEEEEEEEeec---cCCceEEEEEeC-CCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 37 SRAEIVGTITSRDH---KPSKFIKFTVDD-GTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 37 ~~v~ivG~V~~~~~---~~~~~~~~~IdD-gTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
..+.+.|.|.+... +..+.+.+.+.| +||.+.++.|.... ....+++|+.+.+.
T Consensus 33 ~~~~~~~~v~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~F~~~~----------------------~~~~~~~g~~~~~~ 90 (630)
T TIGR00643 33 ERATIVGEVLSHCIFGFKRRKVLKLRLKDGGYKKLELRFFNRAF----------------------LKKKFKVGSKVVVY 90 (630)
T ss_pred CEEEEEEEEEEeEeccCCCCceEEEEEEECCCCEEEEEEECCHH----------------------HHhhCCCCCEEEEE
Confidence 56778888776431 112458999999 99999998875221 23578999999999
Q ss_pred EEeceeCCceEEE
Q 043474 113 GRIASYRGDVQIT 125 (160)
Q Consensus 113 G~v~~f~~~~qi~ 125 (160)
|+++.|++..|+.
T Consensus 91 Gk~~~~~~~~~~~ 103 (630)
T TIGR00643 91 GKVKSSKFKAYLI 103 (630)
T ss_pred EEEEeeCCEEEEE
Confidence 9999998877653
No 90
>PLN02603 asparaginyl-tRNA synthetase
Probab=96.31 E-value=0.032 Score=49.71 Aligned_cols=78 Identities=22% Similarity=0.365 Sum_probs=56.0
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCc--eEEEEEeecCccCCCCCCCCCCcccccccccccccc--ccccCcEEEEE
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTG--CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAA--KIKIGLVARVR 112 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG--~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~G~~V~V~ 112 (160)
..|+|.|+|.++.... +..-+.|.|||| .|+|++= ..... ..... .+..|+.|.|.
T Consensus 108 ~~V~v~GwV~~iR~~g-~~~Fi~l~Dgs~~~~lQ~v~~-~~~~~------------------~~~l~~~~l~~gs~V~V~ 167 (565)
T PLN02603 108 KTLNVMGWVRTLRAQS-SVTFIEVNDGSCLSNMQCVMT-PDAEG------------------YDQVESGLITTGASVLVQ 167 (565)
T ss_pred CEEEEEEEEEEEEeCC-CeEEEEEECCCCCEeEEEEEE-CcHHH------------------HHHHhhcCCCCCCEEEEE
Confidence 6799999999998665 667899999997 4999872 21110 00111 38899999999
Q ss_pred EEeceeCC---ceEEEEEEEEEcCC
Q 043474 113 GRIASYRG---DVQITVSDVVIEKD 134 (160)
Q Consensus 113 G~v~~f~~---~~qi~~~~i~~v~d 134 (160)
|.+..=.+ ...|.+.++..+..
T Consensus 168 G~v~~~~~~~~~~EL~v~~i~vlg~ 192 (565)
T PLN02603 168 GTVVSSQGGKQKVELKVSKIVVVGK 192 (565)
T ss_pred EEEEecCCCCccEEEEEeEEEEEEC
Confidence 99976433 26788888876654
No 91
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=96.28 E-value=0.11 Score=36.26 Aligned_cols=82 Identities=17% Similarity=0.175 Sum_probs=46.7
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCc-eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEe
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTG-CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRI 115 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG-~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v 115 (160)
+.|+|+|.|.+....+ . .++++-+.| .+.|..-.+ .....+.+|.|.|++
T Consensus 19 k~VrivGkv~~~~~~g-~--~~~l~~~d~~~V~v~l~~~--------------------------~~~~~~~~vEviG~V 69 (109)
T PF08661_consen 19 KTVRIVGKVESVDPDG-G--SATLSTSDGGQVTVSLNPP--------------------------SDEELSKYVEVIGKV 69 (109)
T ss_dssp SEEEEEEEEEEE-TTS-S--EEEEE-TTS-EEEEEESS----------------------------SS---SEEEEEEEE
T ss_pred CeEEEEEEEeeEcCCC-C--EEEEEcCCCCEEEEEeCCC--------------------------CCCCCCCEEEEEEEE
Confidence 6899999999987444 3 567775553 577765211 123468999999999
Q ss_pred ceeCCceEEEEEEEEEcCChhHHHHHHHHHHHH
Q 043474 116 ASYRGDVQITVSDVVIEKDPNMEVLHWLDCLRL 148 (160)
Q Consensus 116 ~~f~~~~qi~~~~i~~v~d~n~~~~h~le~~~~ 148 (160)
..-.+-..|.........+ +.++.-+-+++.+
T Consensus 70 ~~~~~~~~i~~~~~~~~g~-~~D~~~y~~lv~l 101 (109)
T PF08661_consen 70 NDDGTVLSIRYFSFTDFGD-DFDMDLYNELVQL 101 (109)
T ss_dssp -TTS-EEEEEEEE---SSS----HHHHHHHHHH
T ss_pred cCCCCceEEEEEEeccCCC-CcCHHHHHHHHHH
Confidence 9876656788877776664 4444455555554
No 92
>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=96.17 E-value=0.048 Score=37.17 Aligned_cols=66 Identities=17% Similarity=0.337 Sum_probs=42.7
Q ss_pred EEEEEEEEEeec----------cCCceEEEEEeCCCc-eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCc
Q 043474 39 AEIVGTITSRDH----------KPSKFIKFTVDDGTG-CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGL 107 (160)
Q Consensus 39 v~ivG~V~~~~~----------~~~~~~~~~IdDgTG-~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 107 (160)
|-++|.|.++.. +......++|.|.|| .|+|.+|.+.... . ..+.|+
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D~t~~~i~vtLWg~~a~~--------------------~--~~~~~~ 59 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLVDESGHSVELTLWGEQAEL--------------------F--DGSENP 59 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEEeCCCCEEEEEEEHHHhhh--------------------c--ccCCCC
Confidence 345666666542 223457899999999 8999999876541 0 111288
Q ss_pred EEEEEEE-eceeCCceEEEEE
Q 043474 108 VARVRGR-IASYRGDVQITVS 127 (160)
Q Consensus 108 ~V~V~G~-v~~f~~~~qi~~~ 127 (160)
++.+.|- ++.|+ .+.+...
T Consensus 60 vv~~~~~~i~~~~-~~~l~~~ 79 (101)
T cd04475 60 VIAIKGVKVSEFN-GKSLSTG 79 (101)
T ss_pred EEEEEeeEEEecC-CeEEeec
Confidence 8887774 56777 4566553
No 93
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=95.94 E-value=0.056 Score=47.14 Aligned_cols=79 Identities=16% Similarity=0.290 Sum_probs=58.5
Q ss_pred EEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 39 AEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 39 v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
|.+.|+|..+...+ +-..++|+|.+|.|+.-+-.+.... .........+.+||+|.|.|.+-.-
T Consensus 64 v~vAGRi~~~R~~G-K~~F~~i~d~~gkiQ~yi~k~~~~~---------------~~~~~~~~~~dlGDiigv~G~~~~T 127 (502)
T COG1190 64 VSVAGRIMTIRNMG-KASFADLQDGSGKIQLYVNKDEVGE---------------EVFEALFKKLDLGDIIGVEGPLFKT 127 (502)
T ss_pred eEEecceeeecccC-ceeEEEEecCCceEEEEEeccccch---------------hhHHHHHhccccCCEEeeeeeeeec
Confidence 99999999988776 6678999999999998775443211 0001123456799999999998765
Q ss_pred C-CceEEEEEEEEEcC
Q 043474 119 R-GDVQITVSDVVIEK 133 (160)
Q Consensus 119 ~-~~~qi~~~~i~~v~ 133 (160)
+ |...+.+..++.++
T Consensus 128 ~~GelSv~v~~~~lLs 143 (502)
T COG1190 128 KTGELSVSVEELRLLS 143 (502)
T ss_pred CCCceEEEEEEEeeec
Confidence 5 88888888877554
No 94
>PRK08402 replication factor A; Reviewed
Probab=95.89 E-value=0.024 Score=47.75 Aligned_cols=88 Identities=20% Similarity=0.248 Sum_probs=54.6
Q ss_pred EEEEEeCCCceEEEEEeecCccCCCCCCCCCCccc-ccc---cc--ccc--------cccccccCcEEEEEEEec--eeC
Q 043474 56 IKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVR-LIA---GV--ATD--------FAAKIKIGLVARVRGRIA--SYR 119 (160)
Q Consensus 56 ~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~-~~~---~~--~~~--------~~~~~~~G~~V~V~G~v~--~f~ 119 (160)
+.+.|+|+||.+.|.+|.+....... -+.-.+. +.. +. ..+ ....--.|....++|+++ .|+
T Consensus 247 l~~~l~D~TG~~~vt~f~e~ae~llG--~sa~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~rg~~~~d~y~ 324 (355)
T PRK08402 247 LDFGLDDGTGYIRVTLFGDDAAELLG--VEPEEIAEKLKELIEMGLTPKEAARKLAEEEFYNIIGREIVVRGNVIEDRFL 324 (355)
T ss_pred EEEEEEcCCCcEEEEEecHHHHHHhC--CCHHHHHHHHHHhhhcccchhhhhhhHHHHHHHHhcCeEEEEEEEEEecccC
Confidence 57889999999999999887643110 0000000 000 00 000 000123589999999987 587
Q ss_pred CceEEEEEEEEEcCChhHHHHHHHHHHH
Q 043474 120 GDVQITVSDVVIEKDPNMEVLHWLDCLR 147 (160)
Q Consensus 120 ~~~qi~~~~i~~v~d~n~~~~h~le~~~ 147 (160)
+.. +.+..+.|++ +..|+.+.++-+.
T Consensus 325 ~~~-~~v~~~~~vd-~~~e~~~l~~~i~ 350 (355)
T PRK08402 325 GLI-LKASSWDEVD-YKREIERVRAELE 350 (355)
T ss_pred CeE-EEEEEcccCC-HHHHHHHHHHHHH
Confidence 754 8888899866 8888888887775
No 95
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=95.75 E-value=0.083 Score=39.68 Aligned_cols=80 Identities=21% Similarity=0.447 Sum_probs=53.0
Q ss_pred eeEEEEEEEEEE-ee----ccCCceEEEEEe------C--C---CceEEEEEeecCccCCCCCCCCCCcccccccccccc
Q 043474 36 LSRAEIVGTITS-RD----HKPSKFIKFTVD------D--G---TGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDF 99 (160)
Q Consensus 36 i~~v~ivG~V~~-~~----~~~~~~~~~~Id------D--g---TG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (160)
+..|.|+|.+.. .+ ........|+|. + | |--|.|++|.+..+. .
T Consensus 2 ~N~v~LiGrL~~DPElr~t~sG~~v~~ftlAv~r~~~~~~ge~~tdfi~vv~wgk~Ae~--------------------~ 61 (162)
T PRK07275 2 INNVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQNGEREADFINCVIWRQQAEN--------------------L 61 (162)
T ss_pred eeEEEEEEEECCCCeEEECCCCCEEEEEEEEEcCceecCCCCEeeeEEEEEEEcHHHHH--------------------H
Confidence 456778887775 11 112255666663 2 2 334999999876431 3
Q ss_pred ccccccCcEEEEEEEec--eeCC-------ceEEEEEEEEEcCCh
Q 043474 100 AAKIKIGLVARVRGRIA--SYRG-------DVQITVSDVVIEKDP 135 (160)
Q Consensus 100 ~~~~~~G~~V~V~G~v~--~f~~-------~~qi~~~~i~~v~d~ 135 (160)
...++.|+.|-|.|+++ .|.+ ..+|.+.+|..+...
T Consensus 62 ~~~l~KG~~V~VeGrl~~r~y~dkdG~k~~~~evva~~i~~l~~~ 106 (162)
T PRK07275 62 ANWAKKGALIGVTGRIQTRNYENQQGQRVYVTEVVADNFQMLESR 106 (162)
T ss_pred HHHcCCCCEEEEEEEEEeceEECCCCCEEEEEEEEEeEEEECCCC
Confidence 46789999999999996 4644 246888888877644
No 96
>PRK02801 primosomal replication protein N; Provisional
Probab=95.73 E-value=0.1 Score=36.00 Aligned_cols=63 Identities=19% Similarity=0.353 Sum_probs=40.8
Q ss_pred eEEEEEEEEEEeec-----cCCceEEEEEeC-----CCce-------EEEEEeecCccCCCCCCCCCCcccccccccccc
Q 043474 37 SRAEIVGTITSRDH-----KPSKFIKFTVDD-----GTGC-------VPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDF 99 (160)
Q Consensus 37 ~~v~ivG~V~~~~~-----~~~~~~~~~IdD-----gTG~-------I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (160)
.++.++|.++.-.+ ...+++.|+|.= .+|- |+|+.|.+..+. .
T Consensus 3 N~v~L~Grl~~dpelr~Tp~G~~v~~f~La~~~~~~ea~~~r~~~~~i~~va~G~~Ae~--------------------~ 62 (101)
T PRK02801 3 NRLVLSGTVCRTPKRKVSPSGIPHCQFVLEHRSVQEEAGLHRQAWCRMPVIVSGNQFQA--------------------I 62 (101)
T ss_pred cEEEEEEEECcCcceEECCCCCeEEEEEEEEeCeEecCCCceeEEEEEEEEEEcHHHHH--------------------H
Confidence 56777777766321 112455555542 2233 889999866541 2
Q ss_pred ccccccCcEEEEEEEeceeC
Q 043474 100 AAKIKIGLVARVRGRIASYR 119 (160)
Q Consensus 100 ~~~~~~G~~V~V~G~v~~f~ 119 (160)
...++.|..|.|.|+++.|.
T Consensus 63 ~~~l~kGs~v~V~G~L~~~~ 82 (101)
T PRK02801 63 TQSITVGSKITVQGFISCHQ 82 (101)
T ss_pred HhhcCCCCEEEEEEEEEEeE
Confidence 34689999999999999854
No 97
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=95.70 E-value=0.1 Score=39.94 Aligned_cols=79 Identities=14% Similarity=0.188 Sum_probs=51.2
Q ss_pred eeEEEEEEEEEEee-----ccCCceEEEEEe-------------CCCceEEEEEeecCccCCCCCCCCCCcccccccccc
Q 043474 36 LSRAEIVGTITSRD-----HKPSKFIKFTVD-------------DGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVAT 97 (160)
Q Consensus 36 i~~v~ivG~V~~~~-----~~~~~~~~~~Id-------------DgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (160)
+..|.|+|.+..-- .....++.|+|. +.|--|+|++|....+.
T Consensus 2 ~N~V~LvGrL~~DPElr~t~sG~~va~fslAv~r~~~~~~Ge~~e~t~fi~v~~fg~~AE~------------------- 62 (182)
T PRK08486 2 FNKVILVGNLTRDVELRYLPSGSAIATIGLATSRRFKKQDGEKGEEVCFIDIRLFGRTAEI------------------- 62 (182)
T ss_pred eeEEEEEEEecCCCEEEECCCCCEEEEEEEEEecceecCCCCCcccceEEEEEEEhHHHHH-------------------
Confidence 35677777776521 111255666662 23445899999765431
Q ss_pred ccccccccCcEEEEEEEec--eeCCc-------eEEEEEEEEEcCC
Q 043474 98 DFAAKIKIGLVARVRGRIA--SYRGD-------VQITVSDVVIEKD 134 (160)
Q Consensus 98 ~~~~~~~~G~~V~V~G~v~--~f~~~-------~qi~~~~i~~v~d 134 (160)
....++.|+.|-|.|+|+ .|.++ ..|.+..|..+..
T Consensus 63 -~~~~l~KG~~V~VeGrL~~~~y~dkdG~~r~~~eI~a~~v~~L~~ 107 (182)
T PRK08486 63 -ANQYLSKGSKVLIEGRLTFESWMDQNGQKRSKHTITAESMQMLDS 107 (182)
T ss_pred -HHHHcCCCCEEEEEEEEEeCcEECCCCcEEEEEEEEEeEEEECCC
Confidence 235789999999999996 46442 4688888887654
No 98
>cd04481 RPA1_DBD_B_like RPA1_DBD_B_like: A subgroup of uncharacterized, plant OB folds with similarity to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change.
Probab=95.66 E-value=0.058 Score=37.25 Aligned_cols=63 Identities=25% Similarity=0.396 Sum_probs=39.9
Q ss_pred CceEEEEEeCCCc-eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEE-E-EEeceeCCceEE----E
Q 043474 53 SKFIKFTVDDGTG-CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARV-R-GRIASYRGDVQI----T 125 (160)
Q Consensus 53 ~~~~~~~IdDgTG-~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V-~-G~v~~f~~~~qi----~ 125 (160)
+....|+|.|.+| .++|.+|.+.... . ..........+-+|-+ . .+|+.|+|.+-+ .
T Consensus 22 ~~kr~~~i~D~~~~~l~~tlwG~~A~~----------f------~~~~~~~~~~~~VVav~~~~rV~~~~g~~~ls~~~~ 85 (106)
T cd04481 22 SRKLDFEIRDLSDERLKCTLWGEYAEE----------F------DAKFQSAGNGEPVVAVLRFWKIKEYKGPKSLSNSFG 85 (106)
T ss_pred ceEEEEEEEeCCCCEEEEEEEHHHHHH----------H------HHHHHHhCCCCcEEEEEEeEEEEEEcCCcEEEcCCC
Confidence 3568999999998 5999999876531 0 0000002345666655 3 689999986544 4
Q ss_pred EEEEEE
Q 043474 126 VSDVVI 131 (160)
Q Consensus 126 ~~~i~~ 131 (160)
+.++..
T Consensus 86 ~s~v~i 91 (106)
T cd04481 86 ASKVYI 91 (106)
T ss_pred ceEEEE
Confidence 455553
No 99
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=95.57 E-value=0.11 Score=39.55 Aligned_cols=79 Identities=27% Similarity=0.522 Sum_probs=51.4
Q ss_pred eeEEEEEEEEEE-ee----ccCCceEEEEEe------CCCc-----eEEEEEeecCccCCCCCCCCCCcccccccccccc
Q 043474 36 LSRAEIVGTITS-RD----HKPSKFIKFTVD------DGTG-----CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDF 99 (160)
Q Consensus 36 i~~v~ivG~V~~-~~----~~~~~~~~~~Id------DgTG-----~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (160)
+..|.|+|+|.. .+ .....++.|+|. +..| -+.|++|.+..+ ..
T Consensus 2 mN~V~LiGrL~~DpelR~t~sG~~v~~fslAvnr~~~~~~ge~~tdwi~~v~wgk~Ae--------------------~~ 61 (173)
T PRK06751 2 MNRVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQQGEREADFINCVIWRKQAE--------------------NV 61 (173)
T ss_pred ceEEEEEEEECCCCcEEECCCCCEEEEEEEEEccceecCCCCEEEEEEEEEEeCcHHH--------------------HH
Confidence 356778888775 11 111256677773 3323 499999987543 13
Q ss_pred ccccccCcEEEEEEEece--eCC-------ceEEEEEEEEEcCC
Q 043474 100 AAKIKIGLVARVRGRIAS--YRG-------DVQITVSDVVIEKD 134 (160)
Q Consensus 100 ~~~~~~G~~V~V~G~v~~--f~~-------~~qi~~~~i~~v~d 134 (160)
...++.|+.|.|.|+|+. |.+ ..+|.+..|..++.
T Consensus 62 ~~~l~KG~~V~VeGrL~~r~yedkdG~~~~~~eVva~~i~~l~~ 105 (173)
T PRK06751 62 ANYLKKGSLAGVDGRLQTRNYEGQDGKRVYVTEVLAESVQFLEP 105 (173)
T ss_pred HHHcCCCCEEEEEEEEEeCccCCCCCcEEEEEEEEEEEEEeCcC
Confidence 457899999999999975 643 24677777776653
No 100
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=95.49 E-value=0.14 Score=38.59 Aligned_cols=79 Identities=11% Similarity=0.216 Sum_probs=51.7
Q ss_pred eeEEEEEEEEEEe---e--ccCCceEEEEEe------CCCc-------eEEEEEeecCccCCCCCCCCCCcccccccccc
Q 043474 36 LSRAEIVGTITSR---D--HKPSKFIKFTVD------DGTG-------CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVAT 97 (160)
Q Consensus 36 i~~v~ivG~V~~~---~--~~~~~~~~~~Id------DgTG-------~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (160)
+..|.|+|.+.+- . .....++.|+|. |..| -+.|++|....+
T Consensus 5 ~Nkv~LiGrLg~DPelr~t~~G~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~Ae-------------------- 64 (164)
T PRK08763 5 INKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDREGNTQERTEWHRVKFFGKLGE-------------------- 64 (164)
T ss_pred ceEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecCCCCeeccceEEEEEEehHHHH--------------------
Confidence 6788888988772 1 112366667665 2222 288899975432
Q ss_pred ccccccccCcEEEEEEEece--eCC-------ceEEEEEEEEEcCC
Q 043474 98 DFAAKIKIGLVARVRGRIAS--YRG-------DVQITVSDVVIEKD 134 (160)
Q Consensus 98 ~~~~~~~~G~~V~V~G~v~~--f~~-------~~qi~~~~i~~v~d 134 (160)
.....++.|+.|.|.|+|+. |.+ ..+|.+..|..+..
T Consensus 65 ~v~~~L~KGs~V~VeGrL~~~~y~dkdG~kr~~~eIva~~i~~L~~ 110 (164)
T PRK08763 65 IAGEYLRKGSQCYIEGSIRYDKFTGQDGQERYVTEIVADEMQMLGG 110 (164)
T ss_pred HHHHhcCCCCEEEEEEEEEeceeECCCCCEEEEEEEEEeEEEECCC
Confidence 12356899999999999875 633 24677788876653
No 101
>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=95.46 E-value=0.32 Score=35.60 Aligned_cols=74 Identities=16% Similarity=0.245 Sum_probs=53.9
Q ss_pred EeeEEEEEEEEEEeecc------CCc-eEEEEEeCCCc--------eEEEEEeecCccCCCCCCCCCCcccccccccccc
Q 043474 35 LLSRAEIVGTITSRDHK------PSK-FIKFTVDDGTG--------CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDF 99 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~~~------~~~-~~~~~IdDgTG--------~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (160)
.-..+.++|.|+....- .+. .++++|-|.|- .|.|.++.+..+ .
T Consensus 11 ~~~~vnvigVV~~~~~p~~~~t~g~D~~~tl~i~D~S~~~~~~~~~~l~v~iF~~~~~---------------------~ 69 (146)
T PF02765_consen 11 FGKFVNVIGVVVDFSPPNPKKTRGTDYMCTLTITDPSLNDSNQKLSGLTVNIFRPHKE---------------------S 69 (146)
T ss_dssp SSEEEEEEEEEEEEEEECTEEESSSCEEEEEEEEBTTCSCSSCCCCEEEEEEEESSHH---------------------H
T ss_pred CCCEEEEEEEEEEccCCcceEcCCCcEEEEEEEECCCCCccccccCCEEEEEECCCHH---------------------H
Confidence 34678888999887533 222 36899999983 699999977654 1
Q ss_pred cccccc-CcEEEEE-EEeceeCCceEEEEEEE
Q 043474 100 AAKIKI-GLVARVR-GRIASYRGDVQITVSDV 129 (160)
Q Consensus 100 ~~~~~~-G~~V~V~-G~v~~f~~~~qi~~~~i 129 (160)
...++. ||+|++. =+|+.|+++.|+....-
T Consensus 70 LP~v~~~GDii~l~r~kv~~~~~~~~~~~~~~ 101 (146)
T PF02765_consen 70 LPNVKSVGDIIRLRRVKVQSYNGKPQGLSNST 101 (146)
T ss_dssp SCTTCSTTHEEEEEEEEEEEETTEEEEEEECE
T ss_pred CCCCCCCCCEEEEEEEEEEEECCEEEEEecCC
Confidence 234555 9999998 67999999998776544
No 102
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=95.45 E-value=0.068 Score=45.78 Aligned_cols=76 Identities=16% Similarity=0.229 Sum_probs=58.1
Q ss_pred EeeEEEEEEEEEEeecc-CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEE
Q 043474 35 LLSRAEIVGTITSRDHK-PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRG 113 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~~~-~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G 113 (160)
+.+..+++|.|...-.. ++....+.+.|++|.|.|..+.+.... ......+.+|+.|.+.|
T Consensus 265 ~~~~~~v~g~v~~~p~~ieGghv~v~i~d~~G~I~~~A~eptk~f------------------r~~a~~L~pGD~i~~~G 326 (421)
T COG1571 265 DYSKYRVVGRVEAEPRAIEGGHVVVEITDGEGEIGAVAFEPTKEF------------------RELARKLIPGDEITVYG 326 (421)
T ss_pred hccceEEEEEEecccEEeeCCEEEEEecCCCceEEEEEecccccc------------------hHHHHhcCCCCEEEEec
Confidence 45778888888775432 345579999999999999999877541 23457899999999999
Q ss_pred EeceeCCceEEEEEEEEEc
Q 043474 114 RIASYRGDVQITVSDVVIE 132 (160)
Q Consensus 114 ~v~~f~~~~qi~~~~i~~v 132 (160)
.++... |++++++.+
T Consensus 327 ~~~~~~----~n~ek~~v~ 341 (421)
T COG1571 327 SVKPGT----LNLEKFQVL 341 (421)
T ss_pred Cccccc----eeEEEEEEE
Confidence 998865 777777654
No 103
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=95.38 E-value=0.15 Score=45.73 Aligned_cols=83 Identities=13% Similarity=0.150 Sum_probs=56.1
Q ss_pred EEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 38 RAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 38 ~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
.|+|.|+|.++.....+..-+.|.|.+|.|+|++-.+..... + +........+..|+.|.|.|.+..
T Consensus 134 ~v~v~Grv~~~R~~G~k~~F~~L~d~~g~iQv~~~~~~~~~~--------~-----~~~~~~~~~l~~Gd~V~V~G~~~~ 200 (585)
T PTZ00417 134 ILNVTGRIMRVSASGQKLRFFDLVGDGAKIQVLANFAFHDHT--------K-----SNFAECYDKIRRGDIVGIVGFPGK 200 (585)
T ss_pred eEEEEEEEEeeecCCCCCEEEEEEeCCeeEEEEEECCccCCC--------H-----HHHHHHHhcCCCCCEEEEEeEEcC
Confidence 489999999998765344677887888999998743211100 0 000011245889999999999765
Q ss_pred e-CCceEEEEEEEEEcC
Q 043474 118 Y-RGDVQITVSDVVIEK 133 (160)
Q Consensus 118 f-~~~~qi~~~~i~~v~ 133 (160)
- .|...|.+.++..+.
T Consensus 201 t~~gel~i~~~~i~lls 217 (585)
T PTZ00417 201 SKKGELSIFPKETIILS 217 (585)
T ss_pred CCCceEEEEEEEEEEEe
Confidence 4 477888888887655
No 104
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=95.33 E-value=0.064 Score=38.29 Aligned_cols=78 Identities=17% Similarity=0.246 Sum_probs=52.8
Q ss_pred eeEEEEEEEEEEe---e--ccCCceEEEEEe-------CCCceEEEEEeecCccCCCCCCCCCCcccccccccccccccc
Q 043474 36 LSRAEIVGTITSR---D--HKPSKFIKFTVD-------DGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKI 103 (160)
Q Consensus 36 i~~v~ivG~V~~~---~--~~~~~~~~~~Id-------DgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 103 (160)
+..|.|+|.+..- . ..+..++.|+|. +.|-=++|++|.+..+. ....+
T Consensus 3 ~N~v~LiGrL~~DPelr~t~~G~~v~~fslAv~~~~~~~~t~w~~v~~wg~~Ae~--------------------~~~~l 62 (121)
T PRK07459 3 LNSVTLVGRAGRDPEVRYFESGSVVCNLTLAVNRRSRDDEPDWFNLEIWGKTAQV--------------------AADYV 62 (121)
T ss_pred ccEEEEEEEccCCCEEEEcCCCCEEEEEEEEecccccCCCceEEEEEEehHHHHH--------------------HHHHc
Confidence 3567788887762 1 122256777776 45666999999865431 23568
Q ss_pred ccCcEEEEEEEec--eeCC----c----eEEEEEEEEEcC
Q 043474 104 KIGLVARVRGRIA--SYRG----D----VQITVSDVVIEK 133 (160)
Q Consensus 104 ~~G~~V~V~G~v~--~f~~----~----~qi~~~~i~~v~ 133 (160)
+.|+.|.|.|+++ .|.+ + ..|.+.+|..++
T Consensus 63 ~KG~~V~V~G~l~~~~~~d~d~G~~r~~~ei~a~~i~~L~ 102 (121)
T PRK07459 63 KKGSLIGITGSLKFDRWTDRNTGEDRSKPVIRVDRLELLG 102 (121)
T ss_pred CCCCEEEEEEEEEecceEcCCCCeEEEEEEEEEeEEEECc
Confidence 9999999999987 4643 1 357788888665
No 105
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=95.17 E-value=0.049 Score=51.89 Aligned_cols=81 Identities=19% Similarity=0.257 Sum_probs=64.3
Q ss_pred EeeEEEEEEEEEEeeccC---C-ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEE
Q 043474 35 LLSRAEIVGTITSRDHKP---S-KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVAR 110 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~~~~---~-~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~ 110 (160)
+..+|.+.|.|=.++.++ + .-+.+.+-|+|-++.|+.|.+..+ +.+....++.|+.|+
T Consensus 238 ~~~~v~v~G~IF~~e~~~~ksGr~l~~i~vTD~t~Sl~~k~f~~~~e------------------d~~~~~~ik~g~wvk 299 (1444)
T COG2176 238 EETRVKVEGYIFKIEIKELKSGRTLLNIKVTDYTSSLILKKFLRDEE------------------DEKKFDGIKKGMWVK 299 (1444)
T ss_pred cccceEEEEEEEEEeeeecccCcEEEEEEEecCchheeehhhccccc------------------cHHHHhhcccCcEEE
Confidence 346699999999888544 2 457899999999999999988543 234567899999999
Q ss_pred EEEEece--eCCceEEEEEEEEEcC
Q 043474 111 VRGRIAS--YRGDVQITVSDVVIEK 133 (160)
Q Consensus 111 V~G~v~~--f~~~~qi~~~~i~~v~ 133 (160)
++|.|+. |.+..++.+..|.++.
T Consensus 300 ~~g~v~~d~f~~~l~m~i~~I~ei~ 324 (1444)
T COG2176 300 ARGNVQLDTFTRDLTMIINDINEIE 324 (1444)
T ss_pred EEEEEEecccccceEEEhhhhhhhh
Confidence 9999975 6777888888877664
No 106
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=95.17 E-value=0.18 Score=37.29 Aligned_cols=47 Identities=21% Similarity=0.410 Sum_probs=33.2
Q ss_pred EEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece--eCCc-------eEEEEEEEEEcC
Q 043474 67 VPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS--YRGD-------VQITVSDVVIEK 133 (160)
Q Consensus 67 I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~--f~~~-------~qi~~~~i~~v~ 133 (160)
++|++|....+ .....++.|+.|-|.|+++. |.++ ..|.+..|..+.
T Consensus 56 ~~V~~wg~~Ae--------------------~v~~~l~KG~~V~V~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~ 111 (148)
T PRK08182 56 APVELWHRDAE--------------------HWARLYQKGMRVLVEGRMERDEWTDNEDNERVTFKVEARRVGILP 111 (148)
T ss_pred EEEEEEhHHHH--------------------HHHHhcCCCCEEEEEEEEEecccCCCCCCEEEEEEEEEeEEEEcC
Confidence 88999986543 12356899999999999864 6432 356777777644
No 107
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=95.16 E-value=0.19 Score=35.21 Aligned_cols=79 Identities=16% Similarity=0.447 Sum_probs=49.3
Q ss_pred eEEEEEEEEEEee-----ccCCceEEEEEe------CC-----CceEEEEEeecCccCCCCCCCCCCccccccccccccc
Q 043474 37 SRAEIVGTITSRD-----HKPSKFIKFTVD------DG-----TGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFA 100 (160)
Q Consensus 37 ~~v~ivG~V~~~~-----~~~~~~~~~~Id------Dg-----TG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (160)
..|.|+|.+..-- .....++.|+|. |. |--+.|++|....+. ..
T Consensus 3 N~v~liGrl~~dPelr~t~~G~~~~~f~lAv~~~~~~~~g~~~t~~~~v~~wg~~Ae~--------------------~~ 62 (112)
T PRK06752 3 NRVVLIGRLTKEPELYYTKQGVAYARVCVAVNRGFRNSLGEQQVDFINCVVWRKSAEN--------------------VT 62 (112)
T ss_pred eEEEEEEECcCCCEEEECCCCCEEEEEEEEECCCeEcCCCCEEEEEEEEEEehHHHHH--------------------HH
Confidence 4566777766511 111255566654 22 234889999865431 23
Q ss_pred cccccCcEEEEEEEece--eCCc-------eEEEEEEEEEcCCh
Q 043474 101 AKIKIGLVARVRGRIAS--YRGD-------VQITVSDVVIEKDP 135 (160)
Q Consensus 101 ~~~~~G~~V~V~G~v~~--f~~~-------~qi~~~~i~~v~d~ 135 (160)
..++.|+.|-|.|+++. |.++ .+|.+.+|..++..
T Consensus 63 ~~l~KG~~V~V~G~l~~~~~~~~~G~~~~~~ei~a~~i~~l~~~ 106 (112)
T PRK06752 63 EYCTKGSLVGITGRIHTRNYEDDQGKRIYITEVVIESITFLERR 106 (112)
T ss_pred HhcCCCCEEEEEEEEEeCccCCCCCcEEEEEEEEEEEEEECCCC
Confidence 56899999999999875 5432 35778888766533
No 108
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=95.07 E-value=0.23 Score=37.34 Aligned_cols=79 Identities=19% Similarity=0.320 Sum_probs=51.6
Q ss_pred eEEEEEEEEEEe-e----ccCCceEEEEEe--------CCCceEEEEEeecCccCCCCCCCCCCcccccccccccccccc
Q 043474 37 SRAEIVGTITSR-D----HKPSKFIKFTVD--------DGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKI 103 (160)
Q Consensus 37 ~~v~ivG~V~~~-~----~~~~~~~~~~Id--------DgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 103 (160)
..|.|+|.+..= + .....++.|+|. +.|-=+.|++|.+..+. ....+
T Consensus 2 N~V~LiGrLg~DPElR~t~sG~~v~~FsLAvn~~~~~~~~T~wi~v~awg~~Ae~--------------------v~~yL 61 (161)
T PRK06293 2 MFGYIVGRLGADPEERMTSKGKRVVVLRLGVKSRVGSKDETVWCRCNIWGNRYDK--------------------MLPYL 61 (161)
T ss_pred eEEEEEEEecCCCeEEEcCCCCEEEEEEEEEeCCCCCccceEEEEEEEEhHHHHH--------------------HHHhC
Confidence 356777777651 1 112256666665 23445999999864321 23568
Q ss_pred ccCcEEEEEEEece--eCC-------ceEEEEEEEEEcCCh
Q 043474 104 KIGLVARVRGRIAS--YRG-------DVQITVSDVVIEKDP 135 (160)
Q Consensus 104 ~~G~~V~V~G~v~~--f~~-------~~qi~~~~i~~v~d~ 135 (160)
+.|+.|-|.|+++. |.+ ...|.+..|..+.-+
T Consensus 62 ~KG~~V~VeGrL~~~~y~dkdG~kr~~~eIva~~I~fl~~~ 102 (161)
T PRK06293 62 KKGSGVIVAGEMSPESYVDKDGSPQSSLVVSVDTIKFSPFG 102 (161)
T ss_pred CCCCEEEEEEEEEeCccCCCCCCEEEEEEEEEeEEEECcCC
Confidence 99999999999975 533 246888888877544
No 109
>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=94.71 E-value=0.051 Score=35.80 Aligned_cols=28 Identities=32% Similarity=0.567 Sum_probs=24.8
Q ss_pred cccccCcEEEEEEEeceeCCceEEEEEE
Q 043474 101 AKIKIGLVARVRGRIASYRGDVQITVSD 128 (160)
Q Consensus 101 ~~~~~G~~V~V~G~v~~f~~~~qi~~~~ 128 (160)
..+++|+.|+|.|++.+|++..||....
T Consensus 43 ~~~~~Gd~V~vtG~v~ey~g~tql~~~~ 70 (78)
T cd04486 43 ADVAVGDLVRVTGTVTEYYGLTQLTAVS 70 (78)
T ss_pred CCCCCCCEEEEEEEEEeeCCeEEEccCC
Confidence 5678999999999999999988887754
No 110
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=94.31 E-value=0.51 Score=37.17 Aligned_cols=82 Identities=18% Similarity=0.346 Sum_probs=56.4
Q ss_pred eEeeEEEEEEEEEEee-----ccCCceEEEEEeC-----CCceEEEEEeecCccCCCCCCCCCCcccccccccccccccc
Q 043474 34 KLLSRAEIVGTITSRD-----HKPSKFIKFTVDD-----GTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKI 103 (160)
Q Consensus 34 ~~i~~v~ivG~V~~~~-----~~~~~~~~~~IdD-----gTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 103 (160)
.....|.++|.+..-- ..+..+..|+|.= .|--|+|++|....+ ....+
T Consensus 107 ~~~N~V~LiGrL~~DPelR~t~~G~~va~f~lAvnr~~~~td~i~~v~wg~~Ae---------------------~~~~l 165 (219)
T PRK05813 107 KNPNEIFLDGYICKEPVYRTTPFGREIADLLLAVNRPYNKSDYIPCIAWGRNAR---------------------FCKTL 165 (219)
T ss_pred CCccEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCCCCCceEEEEEEEhHHhH---------------------HHhhC
Confidence 3478888999887621 1223566777762 244699999987543 22459
Q ss_pred ccCcEEEEEEEece--eCC-----------ceEEEEEEEEEcCChh
Q 043474 104 KIGLVARVRGRIAS--YRG-----------DVQITVSDVVIEKDPN 136 (160)
Q Consensus 104 ~~G~~V~V~G~v~~--f~~-----------~~qi~~~~i~~v~d~n 136 (160)
+.|+.|.|.|+++. |.+ ...|.+.+|..++..+
T Consensus 166 ~KG~~V~V~GrL~sr~y~~k~g~~~g~kr~~~eV~v~~i~~l~~~~ 211 (219)
T PRK05813 166 EVGDNIRVWGRVQSREYQKKLSEGEVVTKVAYEVSISKMEKVEKEE 211 (219)
T ss_pred CCCCEEEEEEEEEecceEcCCCCccceEEEEEEEEEEEEEEcCChh
Confidence 99999999999975 543 1367888888776553
No 111
>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=94.27 E-value=0.45 Score=32.04 Aligned_cols=46 Identities=22% Similarity=0.343 Sum_probs=28.2
Q ss_pred eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeC--Cc-------eEEEEEEEEE
Q 043474 66 CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYR--GD-------VQITVSDVVI 131 (160)
Q Consensus 66 ~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~--~~-------~qi~~~~i~~ 131 (160)
-++|.+|.+..+ .....++.|+.|.|.|+++... ++ .+|.+..|..
T Consensus 49 ~~~v~~~g~~A~--------------------~~~~~l~kG~~V~V~G~l~~~~~~~~~G~~~~~~~i~a~~i~f 103 (104)
T PF00436_consen 49 WINVVAWGKLAE--------------------NVAEYLKKGDRVYVEGRLRTRTYEDKDGQKRYRVEIIADNIEF 103 (104)
T ss_dssp EEEEEEEHHHHH--------------------HHHHH--TT-EEEEEEEEEEEEEESTTSSEEEEEEEEEEEEEE
T ss_pred EEEEEeeeeccc--------------------ccceEEcCCCEEEEEEEEEeeEEECCCCCEEEEEEEEEEEEEe
Confidence 388888877432 1335699999999999998643 32 3456665543
No 112
>PF03100 CcmE: CcmE; InterPro: IPR004329 CcmE is the product of one of a cluster of Ccm genes that are necessary for cytochrome c biosynthesis in eubacteria. Expression of these proteins is induced when the organisms are grown under anaerobic conditions with nitrate or nitrite as the final electron acceptor.; GO: 0017003 protein-heme linkage, 0017004 cytochrome complex assembly, 0005886 plasma membrane; PDB: 1SR3_A 2KCT_A 1J6Q_A 1LM0_A.
Probab=94.18 E-value=1.3 Score=31.98 Aligned_cols=70 Identities=19% Similarity=0.267 Sum_probs=46.0
Q ss_pred EeeEEEEEEEEE--Eeecc-CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEE
Q 043474 35 LLSRAEIVGTIT--SRDHK-PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARV 111 (160)
Q Consensus 35 ~i~~v~ivG~V~--~~~~~-~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V 111 (160)
.-+.+++.|.|. +++.. +..-++|.|.|+...|++++-... .+.++.|.-|-|
T Consensus 49 ~~~~vrv~G~V~~gSv~~~~~~~~~~F~i~D~~~~i~V~Y~G~~------------------------Pd~F~eg~~VVv 104 (131)
T PF03100_consen 49 VGRKVRVGGLVVEGSVEYDPDGNTLTFTITDGGKEIPVVYTGPL------------------------PDLFREGQGVVV 104 (131)
T ss_dssp TTSEEEEEEEEECTTEEE-TTSSEEEEEEE-SS-EEEEEEES--------------------------CTT--TTSEEEE
T ss_pred CCceEEEeeEEccCCEEEcCCCCEEEEEEEECCcEEEEEECCCC------------------------CccccCCCeEEE
Confidence 347888999998 55543 235589999999888988764322 257899999999
Q ss_pred EEEeceeCCceEEEEEEEEE
Q 043474 112 RGRIASYRGDVQITVSDVVI 131 (160)
Q Consensus 112 ~G~v~~f~~~~qi~~~~i~~ 131 (160)
+|++ .+...+.+.+|-.
T Consensus 105 ~G~~---~~~g~F~A~~lL~ 121 (131)
T PF03100_consen 105 EGRL---GEDGVFEATELLA 121 (131)
T ss_dssp EEEE---CCTSEEEEEEEEE
T ss_pred EEEE---CCCCEEEEEEEEe
Confidence 9986 3334667776653
No 113
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=93.90 E-value=0.48 Score=35.78 Aligned_cols=81 Identities=17% Similarity=0.267 Sum_probs=51.1
Q ss_pred eeEEEEEEEEEEe---ec-cC-CceEEEEEe------C-CCc-------eEEEEEeecCccCCCCCCCCCCccccccccc
Q 043474 36 LSRAEIVGTITSR---DH-KP-SKFIKFTVD------D-GTG-------CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVA 96 (160)
Q Consensus 36 i~~v~ivG~V~~~---~~-~~-~~~~~~~Id------D-gTG-------~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~ 96 (160)
+.+|.|+|.+..- .. .+ ..++.|+|. | .+| -+.|++|....+
T Consensus 4 ~N~V~LiGrLg~DPElR~t~nG~~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~AE------------------- 64 (168)
T PRK06863 4 INKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAE------------------- 64 (168)
T ss_pred ccEEEEEEEcCCCCEEEEcCCCCEEEEEEEEecCcccccCCCcccccceEEEEEEEhHHHH-------------------
Confidence 4677788877762 11 11 244555543 1 122 378888876432
Q ss_pred cccccccccCcEEEEEEEece--eCC-------ceEEEEEEEEEcCChh
Q 043474 97 TDFAAKIKIGLVARVRGRIAS--YRG-------DVQITVSDVVIEKDPN 136 (160)
Q Consensus 97 ~~~~~~~~~G~~V~V~G~v~~--f~~-------~~qi~~~~i~~v~d~n 136 (160)
.....++.|+.|.|.|+++. |.+ ..+|.+.+|..+...+
T Consensus 65 -~v~~~LkKGs~V~VeGrL~~r~w~DkdG~~r~~~eI~a~~i~~L~~r~ 112 (168)
T PRK06863 65 -VAGEYLRKGSQVYVEGRLKTRKWQDQNGQDRYTTEIQGDVLQMLGGRN 112 (168)
T ss_pred -HHHHHCCCCCEEEEEEEEEeCCccCCCCCEEEEEEEEEeEEEECCCCC
Confidence 13457899999999999975 543 2478888888776554
No 114
>PF02760 HIN: HIN-200/IF120x domain; InterPro: IPR004021 This domain has no known function. It is found in one or two copies per protein, and is found associated with the PAAD/DAPIN domain IPR004020 from INTERPRO.; PDB: 3RN2_A 3RN5_C 2OQ0_A 3B6Y_A 3RLN_A 3RNU_A 3RLO_A.
Probab=93.70 E-value=0.13 Score=38.58 Aligned_cols=22 Identities=23% Similarity=0.362 Sum_probs=19.1
Q ss_pred ceEEEEEeCCCceEEEEEeecC
Q 043474 54 KFIKFTVDDGTGCVPCVLWLNH 75 (160)
Q Consensus 54 ~~~~~~IdDgTG~I~~~~w~~~ 75 (160)
+++.|.|.|.||.|+++....-
T Consensus 130 ~~~~YeI~DnTG~MeVvv~G~~ 151 (170)
T PF02760_consen 130 KNTIYEIQDNTGKMEVVVYGKW 151 (170)
T ss_dssp SEEEEEEEETTEEEEEEEEGGG
T ss_pred CeEEEEEecCCCcEEEEEeccC
Confidence 6799999999999999986554
No 115
>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=93.35 E-value=0.59 Score=35.01 Aligned_cols=49 Identities=20% Similarity=0.253 Sum_probs=33.5
Q ss_pred CceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece--eCC---c----eEEEEEEEEEc
Q 043474 64 TGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS--YRG---D----VQITVSDVVIE 132 (160)
Q Consensus 64 TG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~--f~~---~----~qi~~~~i~~v 132 (160)
|.-+.|++|.+..+ .....++.|+.|.|.|+++. |.+ + .+|.+.+|..+
T Consensus 50 t~~~~v~~wg~~Ae--------------------~~~~~l~KG~~V~V~G~L~~~~~~~kdG~~~~~~ev~a~~i~~L 107 (164)
T TIGR00621 50 TEWHDIVIFGRLAE--------------------VAAQYLKKGSLVYVEGRLRTRKWEDQNGQKRSKTEIIADNVQLL 107 (164)
T ss_pred ceEEEEEEehHHHH--------------------HHHHhCCCCCEEEEEEEEEeceEECCCCcEEEEEEEEEEEEeec
Confidence 45699999987433 12357899999999999974 533 2 35666666433
No 116
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=93.32 E-value=0.77 Score=35.18 Aligned_cols=79 Identities=14% Similarity=0.258 Sum_probs=50.3
Q ss_pred eeEEEEEEEEEEeec----cC-CceEEEEEe------C--------CCceEEEEEeecCccCCCCCCCCCCccccccccc
Q 043474 36 LSRAEIVGTITSRDH----KP-SKFIKFTVD------D--------GTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVA 96 (160)
Q Consensus 36 i~~v~ivG~V~~~~~----~~-~~~~~~~Id------D--------gTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~ 96 (160)
+..|.|+|.+..--+ .+ ..++.|+|. | .|--+.|++|....+
T Consensus 4 ~N~V~LiGrLg~DPElr~t~nG~~va~fsVAv~~~~kdk~sGe~~e~T~w~~V~~fGk~AE------------------- 64 (182)
T PRK06958 4 VNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAE------------------- 64 (182)
T ss_pred ccEEEEEEEecCCCeEEEcCCCCEEEEEEEEeccccccccCCcccccceEEEEEEehHHHH-------------------
Confidence 567788888776211 11 245566663 1 233477888865432
Q ss_pred cccccccccCcEEEEEEEece--eCC-------ceEEEEEEEEEcCC
Q 043474 97 TDFAAKIKIGLVARVRGRIAS--YRG-------DVQITVSDVVIEKD 134 (160)
Q Consensus 97 ~~~~~~~~~G~~V~V~G~v~~--f~~-------~~qi~~~~i~~v~d 134 (160)
.....++.|+.|.|.|+|+. |.+ ..+|.+..|..+..
T Consensus 65 -~v~~~LkKGs~V~VeGrL~~~~yeDkdG~kr~~~eVvA~~V~fL~s 110 (182)
T PRK06958 65 -IVGEYLKKGSSVYIEGRIRTRKWQGQDGQDRYSTEIVADQMQMLGG 110 (182)
T ss_pred -HHHHHhCCCCEEEEEEEEEeCceECCCCcEEEEEEEEEeEEEECCC
Confidence 13357899999999999984 542 24688888887654
No 117
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=93.30 E-value=0.1 Score=49.96 Aligned_cols=77 Identities=19% Similarity=0.383 Sum_probs=54.7
Q ss_pred EEEEEEEEEEeeccCC-----ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 38 RAEIVGTITSRDHKPS-----KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 38 ~v~ivG~V~~~~~~~~-----~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
...++|.|+.+..+.+ ++..++|+|.||.+++++|..... .....+..+..+.|.
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~D~~g~~e~v~f~~~~~--------------------~~~~~l~~~~~~~v~ 1037 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLEDETGILEVVVFPSEYE--------------------RYRRLLLEGRLLIVK 1037 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCCEEEEEEEecCCCcEEEEEcHHHHH--------------------HHHHHhccCcEEEEE
Confidence 4778888888775443 378999999999999999965432 133566777999999
Q ss_pred EEeceeCCce--EEEEEEEEEcCC
Q 043474 113 GRIASYRGDV--QITVSDVVIEKD 134 (160)
Q Consensus 113 G~v~~f~~~~--qi~~~~i~~v~d 134 (160)
|+++.-++.. ++.+..++++..
T Consensus 1038 g~v~~~~~~~~~~~~~~~~~~l~~ 1061 (1139)
T COG0587 1038 GKVQRREDGVGHALILEDLSPLEE 1061 (1139)
T ss_pred EEEEecccccchhhhHHHhhhHHH
Confidence 9998843332 355555554443
No 118
>PF15072 DUF4539: Domain of unknown function (DUF4539)
Probab=92.91 E-value=0.68 Score=31.14 Aligned_cols=58 Identities=16% Similarity=0.216 Sum_probs=42.7
Q ss_pred EEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeC
Q 043474 40 EIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYR 119 (160)
Q Consensus 40 ~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~ 119 (160)
.++|.|.++...+.. ...++-|.||+|+|.+=.+-.+ +....+..|..+-.+ .|..|.
T Consensus 6 ~l~v~Iks~~~~~~D-~~v~l~DpTG~i~~tiH~~v~~--------------------~y~~~l~~GavLlLk-~V~Vf~ 63 (86)
T PF15072_consen 6 CLVVIIKSIVPSSED-AFVVLKDPTGEIRGTIHRKVLE--------------------EYGDELSPGAVLLLK-DVTVFS 63 (86)
T ss_pred EEEEEEEEeeccCCC-eEEEEECCCCcEEEEEeHHHHh--------------------hcCCccccCEEEEEe-eeeEEe
Confidence 578888888876655 6999999999999998655433 133567888877666 555665
No 119
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=92.89 E-value=0.32 Score=46.00 Aligned_cols=60 Identities=10% Similarity=0.055 Sum_probs=45.6
Q ss_pred EEEEEEEEEEeec--c-CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEE
Q 043474 38 RAEIVGTITSRDH--K-PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGR 114 (160)
Q Consensus 38 ~v~ivG~V~~~~~--~-~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~ 114 (160)
.+++.|.|.++.. + +.++..++++|.||.|+|++|.+.-. ....+..|+++.+.|+
T Consensus 899 ~~~v~g~i~~~~~~~K~g~~maf~~~eD~~~~~e~~~F~~~~~---------------------~~~~l~~~~~~~~~~~ 957 (973)
T PRK07135 899 EYRLAIEVKNVKRLRKANKEYKKVILSDDSVEITIFVNDNDYL---------------------LFETLKKGDIYEFLIS 957 (973)
T ss_pred eEEEEEEEEEEEEEeeCCCeEEEEEEEECCCcEEEEEcHHHHH---------------------HHHHhhcCCEEEEEEE
Confidence 4678888888664 2 33778899999999999999965432 1124778889999999
Q ss_pred ecee
Q 043474 115 IASY 118 (160)
Q Consensus 115 v~~f 118 (160)
.+.-
T Consensus 958 ~~~~ 961 (973)
T PRK07135 958 KSKN 961 (973)
T ss_pred EcCC
Confidence 8773
No 120
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=92.83 E-value=0.39 Score=34.62 Aligned_cols=77 Identities=16% Similarity=0.363 Sum_probs=49.1
Q ss_pred eEEEEEEEEEEee----cc-CCceEEEEEe------CCCc-----eEEEEEeecCccCCCCCCCCCCccccccccccccc
Q 043474 37 SRAEIVGTITSRD----HK-PSKFIKFTVD------DGTG-----CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFA 100 (160)
Q Consensus 37 ~~v~ivG~V~~~~----~~-~~~~~~~~Id------DgTG-----~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (160)
..|.|+|.+..-- .. +..++.|+|. |..| -+.|++|....+ ...
T Consensus 3 N~v~LiGrL~~dPelr~t~~g~~~~~fslAv~~~~k~~~g~~~t~w~~v~~fg~~Ae--------------------~v~ 62 (131)
T PRK07274 3 NKVILIGRLTATPELVKTANDKSVARVTLAVNRRFKNQNGEREADFINVVLWGKLAE--------------------TLA 62 (131)
T ss_pred eEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCceecCCCCEEEEEEEEEEehHHHH--------------------HHH
Confidence 5677777776531 11 1256666665 3333 488999975432 133
Q ss_pred cccccCcEEEEEEEece--eC--C----ceEEEEEEEEEcC
Q 043474 101 AKIKIGLVARVRGRIAS--YR--G----DVQITVSDVVIEK 133 (160)
Q Consensus 101 ~~~~~G~~V~V~G~v~~--f~--~----~~qi~~~~i~~v~ 133 (160)
..++.|+.|.|.|+++. |. | ..+|.+..+..++
T Consensus 63 ~~l~KG~~V~V~Grl~~~~y~kdG~~~~~~eviv~~i~~l~ 103 (131)
T PRK07274 63 SYASKGSLISIDGELRTRKYEKDGQTHYVTEVLCQSFQLLE 103 (131)
T ss_pred HHcCCCCEEEEEEEEEeccCccCCcEEEEEEEEEEEEEECc
Confidence 56899999999999875 62 2 2367778887665
No 121
>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=92.68 E-value=1.2 Score=40.07 Aligned_cols=66 Identities=20% Similarity=0.422 Sum_probs=45.4
Q ss_pred EEEEEEEEEEeec------c----CCceEEEEEeCCCc-eEEEEEeecCccCCCCCCCCCCccccccccccccccccccC
Q 043474 38 RAEIVGTITSRDH------K----PSKFIKFTVDDGTG-CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIG 106 (160)
Q Consensus 38 ~v~ivG~V~~~~~------~----~~~~~~~~IdDgTG-~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G 106 (160)
.|-|+|.|.++.. + ....-.++|-|.|| +|++.+|.+.... .....|
T Consensus 312 ~VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~D~sg~sI~vTLWG~~A~~----------------------~~~~~~ 369 (608)
T TIGR00617 312 LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLVDDSGKSVRVTLWGDDATK----------------------FDVSVQ 369 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEEeCCCCEEEEEEEhhhhhh----------------------cCCCCC
Confidence 6677888877642 1 12346899999999 5999999876531 114567
Q ss_pred cEEEEEE-EeceeCCceEEEE
Q 043474 107 LVARVRG-RIASYRGDVQITV 126 (160)
Q Consensus 107 ~~V~V~G-~v~~f~~~~qi~~ 126 (160)
.+|-++| +|+.|++ +.|..
T Consensus 370 ~Vva~kg~~V~~f~g-~sLs~ 389 (608)
T TIGR00617 370 PVIAIKGVRVSDFGG-KSLST 389 (608)
T ss_pred CEEEEEeEEEEecCC-ceEec
Confidence 8888885 5778955 45653
No 122
>PF08646 Rep_fac-A_C: Replication factor-A C terminal domain; InterPro: IPR013955 Replication factor A (RP-A) binds and subsequently stabilises single-stranded DNA intermediates and thus prevents complementary DNA from reannealing. It also plays an essential role in several cellular processes in DNA metabolism including replication, recombination and repair of DNA []. Replication factor-A protein is also known as Replication protein A 70 kDa DNA-binding subunit. This entry is found at the C terminus of Replication factor A.; PDB: 1L1O_F 3U50_C.
Probab=92.59 E-value=0.42 Score=34.74 Aligned_cols=80 Identities=20% Similarity=0.242 Sum_probs=39.4
Q ss_pred EEEEEeCCCceEEEEEeecCccCCCCCCCCCCcccccccccc-----ccccccccCcEEEEEEEeceeCCc--eEEEEEE
Q 043474 56 IKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVAT-----DFAAKIKIGLVARVRGRIASYRGD--VQITVSD 128 (160)
Q Consensus 56 ~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~G~~V~V~G~v~~f~~~--~qi~~~~ 128 (160)
+.+.|.|+||++.+.+|.+..+..- .. +..++....+.+. .....+-..-.++|+++...|+++ ....+.+
T Consensus 56 l~~~i~D~tg~~~~~~F~~~a~~l~-G~-~a~el~~~~~~~~~~~~~~~~~~~~~~~~f~v~~~~~~y~~e~r~~~~v~~ 133 (146)
T PF08646_consen 56 LSLKISDGTGSIWVTLFDEEAEQLL-GM-SADELKELKEEDPEEFPKIIKKLLGKEFVFRVRVKKESYNDESRVKYTVVR 133 (146)
T ss_dssp EEEEEEETTEEEEEEEEHHHHHHHH-CC-HHCCCHHHCCC-HHHHHHHHHCTTT-EEEEEEEEEE--------EEEEEEE
T ss_pred EEEEEEeCCCeEEEEEEhHHHHHHh-CC-CHHHHHHHHhhchhHHHHHHHHhhCcEEEEEEEEEEhhhCCceEEEEEEEE
Confidence 6889999999999999987643210 00 0000000000000 011233344678899999999875 3577888
Q ss_pred EEEcCChhHH
Q 043474 129 VVIEKDPNME 138 (160)
Q Consensus 129 i~~v~d~n~~ 138 (160)
+.|++ ..+|
T Consensus 134 i~~vd-~~~e 142 (146)
T PF08646_consen 134 IEPVD-YAEE 142 (146)
T ss_dssp EEE---HHHH
T ss_pred eEeCC-HHHH
Confidence 88876 4333
No 123
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=92.29 E-value=0.53 Score=41.05 Aligned_cols=82 Identities=16% Similarity=0.236 Sum_probs=58.7
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
-.+.|.|+|.++...+++.+.|.|-++.+.+++..-.+.-.+ .++..+....++.||+|.+.|...
T Consensus 105 ~~~svaGRI~s~R~sGsKL~Fydl~~~g~klQvm~~~~~~~~--------------~~~F~~~~~~lkrGDiig~~G~pg 170 (560)
T KOG1885|consen 105 EIVSVAGRIHSKRESGSKLVFYDLHGDGVKLQVMANAKKITS--------------EEDFEQLHKFLKRGDIIGVSGYPG 170 (560)
T ss_pred ceeeeeeeEeeeeccCCceEEEEEecCCeEEEEEEehhhcCC--------------HHHHHHHHhhhhccCEEeeecCCC
Confidence 448999999999888778899999999888888764332110 112234457899999999999986
Q ss_pred eeC-CceEEEEEEEEEc
Q 043474 117 SYR-GDVQITVSDVVIE 132 (160)
Q Consensus 117 ~f~-~~~qi~~~~i~~v 132 (160)
.-+ +...|.++.+..+
T Consensus 171 rt~~gELSi~~~~~~lL 187 (560)
T KOG1885|consen 171 RTKSGELSIIPNEIILL 187 (560)
T ss_pred cCCCceEEEeecchhee
Confidence 543 5666777666433
No 124
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=91.87 E-value=0.61 Score=35.39 Aligned_cols=62 Identities=13% Similarity=0.228 Sum_probs=40.0
Q ss_pred eeEEEEEEEEEEeec-----cCCceEEEEEe------C-CCc-------eEEEEEeecCccCCCCCCCCCCccccccccc
Q 043474 36 LSRAEIVGTITSRDH-----KPSKFIKFTVD------D-GTG-------CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVA 96 (160)
Q Consensus 36 i~~v~ivG~V~~~~~-----~~~~~~~~~Id------D-gTG-------~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~ 96 (160)
+..|.|+|.|..--+ ....++.|+|. | .+| =+.|++|....+
T Consensus 5 mNkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae------------------- 65 (172)
T PRK05733 5 VNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAE------------------- 65 (172)
T ss_pred ceEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHH-------------------
Confidence 567788888876311 11245555554 1 233 288999976432
Q ss_pred cccccccccCcEEEEEEEece
Q 043474 97 TDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 97 ~~~~~~~~~G~~V~V~G~v~~ 117 (160)
.....++.|+.|.|.|+++.
T Consensus 66 -~v~~~l~KGs~V~VeGrLr~ 85 (172)
T PRK05733 66 -IAGEYLRKGSQVYIEGKLQT 85 (172)
T ss_pred -HHHHHhCCCCEEEEEEEEEe
Confidence 13467899999999999975
No 125
>PRK07217 replication factor A; Reviewed
Probab=91.84 E-value=0.38 Score=39.76 Aligned_cols=70 Identities=19% Similarity=0.095 Sum_probs=42.4
Q ss_pred eEEEEEeCCCceEEEEEeecCccCCCCCCCCCCcccccccccc---------ccccccccCcEEEEEEEeceeCCceEEE
Q 043474 55 FIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVAT---------DFAAKIKIGLVARVRGRIASYRGDVQIT 125 (160)
Q Consensus 55 ~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~G~~V~V~G~v~~f~~~~qi~ 125 (160)
++.+.||||||+++|.+-.......+ ..+ ++-..++.. ......-.|.|++|+|.+ | -+.+.
T Consensus 218 rik~vlDDGt~~~~~~~~~e~te~l~--G~~---l~eak~~a~dald~~vv~~~i~~~llGr~~~v~G~~--~--g~~l~ 288 (311)
T PRK07217 218 RIKGVLDDGEEVQEVIFNREATEELT--GIT---LEEAKQMAMDALDTGVVLDELKEKLLGRYYRVTGPT--L--GRYLL 288 (311)
T ss_pred EEEEEEECCCCeEEEEEChHHhHHHh--CCC---HHHHHHHHHHhhchhhHHHHHHHhhcCceEEEEecc--C--CcEEE
Confidence 48999999999999998765543211 000 000000000 011123589999999976 4 35788
Q ss_pred EEEEEEcC
Q 043474 126 VSDVVIEK 133 (160)
Q Consensus 126 ~~~i~~v~ 133 (160)
+..+.+..
T Consensus 289 ~~~~~~~~ 296 (311)
T PRK07217 289 ADSVEPLT 296 (311)
T ss_pred eeEeeccc
Confidence 88888774
No 126
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=91.64 E-value=1.4 Score=32.59 Aligned_cols=69 Identities=19% Similarity=0.249 Sum_probs=48.5
Q ss_pred eeEEEEEEEEEE--eeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEE
Q 043474 36 LSRAEIVGTITS--RDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRG 113 (160)
Q Consensus 36 i~~v~ivG~V~~--~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G 113 (160)
-+.+++.|.|.. +...++..+.|.|.|+...|.+.+-.. ..+.++.|.-|-++|
T Consensus 51 g~~vrvgG~V~~gSi~~~~~~~~~F~ltD~~~~i~V~Y~G~------------------------lPd~F~eg~~VVv~G 106 (148)
T PRK13254 51 GRRFRLGGLVEKGSVQRGDGLTVRFVVTDGNATVPVVYTGI------------------------LPDLFREGQGVVAEG 106 (148)
T ss_pred CCeEEEeEEEecCcEEeCCCCEEEEEEEeCCeEEEEEECCC------------------------CCccccCCCEEEEEE
Confidence 478899999964 433233558999999988888776322 225789999999999
Q ss_pred EeceeCCceEEEEEEEEE
Q 043474 114 RIASYRGDVQITVSDVVI 131 (160)
Q Consensus 114 ~v~~f~~~~qi~~~~i~~ 131 (160)
++.. .--+.+.+|-.
T Consensus 107 ~~~~---~g~F~A~~vLa 121 (148)
T PRK13254 107 RLQD---GGVFVADEVLA 121 (148)
T ss_pred EECC---CCeEEEEEEEe
Confidence 9752 22466666653
No 127
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=91.33 E-value=0.76 Score=34.07 Aligned_cols=62 Identities=15% Similarity=0.284 Sum_probs=41.6
Q ss_pred eeEEEEEEEEEE---eec--cCCceEEEEEe------CC-Cc-------eEEEEEeec-CccCCCCCCCCCCcccccccc
Q 043474 36 LSRAEIVGTITS---RDH--KPSKFIKFTVD------DG-TG-------CVPCVLWLN-HLTSLYLPRRDPSTVRLIAGV 95 (160)
Q Consensus 36 i~~v~ivG~V~~---~~~--~~~~~~~~~Id------Dg-TG-------~I~~~~w~~-~~~~~~~~~~~~~~~~~~~~~ 95 (160)
+..|.|+|.+.. +.. ....++.|+|. |. +| =+.|++|.+ ..+
T Consensus 5 ~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae------------------ 66 (152)
T PRK06642 5 LNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVS------------------ 66 (152)
T ss_pred ceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHH------------------
Confidence 578889999886 221 12367778776 21 22 388888875 221
Q ss_pred ccccccccccCcEEEEEEEece
Q 043474 96 ATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 96 ~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
.....++.|+.|.|.|+++.
T Consensus 67 --~~~~~l~KG~~V~V~GrL~~ 86 (152)
T PRK06642 67 --VVERYVTKGSKLYIEGSLQT 86 (152)
T ss_pred --HHHHhCCCCCEEEEEEEEEe
Confidence 12356899999999999875
No 128
>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=90.97 E-value=1.4 Score=29.26 Aligned_cols=36 Identities=22% Similarity=0.237 Sum_probs=26.4
Q ss_pred CCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 63 GTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 63 gTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
.+--++|.+|.+... .....++.|+.|.|.|+++..
T Consensus 42 ~~~~~~v~~~g~~a~--------------------~~~~~~~kG~~V~v~G~l~~~ 77 (100)
T cd04496 42 ETDWIRVVAFGKLAE--------------------NAAKYLKKGDLVYVEGRLRTR 77 (100)
T ss_pred ccEEEEEEEEhHHHH--------------------HHHHHhCCCCEEEEEEEEEec
Confidence 444589999987432 123578999999999999763
No 129
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=90.87 E-value=0.88 Score=34.61 Aligned_cols=63 Identities=14% Similarity=0.206 Sum_probs=42.1
Q ss_pred EeeEEEEEEEEEEee-----ccCCceEEEEEeC-------CCc-------eEEEEEeecCccCCCCCCCCCCcccccccc
Q 043474 35 LLSRAEIVGTITSRD-----HKPSKFIKFTVDD-------GTG-------CVPCVLWLNHLTSLYLPRRDPSTVRLIAGV 95 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~-----~~~~~~~~~~IdD-------gTG-------~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~ 95 (160)
.+..|.|+|.+..-- .....++.|+|.- .+| -++|++|....+
T Consensus 5 ~mN~V~LiGrLg~DPElR~t~nG~~va~fslAvn~~~kd~~~Ge~~e~t~w~~Vv~wgk~Ae------------------ 66 (175)
T PRK13732 5 GINKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAE------------------ 66 (175)
T ss_pred CceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEcCccccCCCCceecceeEEEEEEecHHHH------------------
Confidence 367888999888621 1122566676652 234 368899976432
Q ss_pred ccccccccccCcEEEEEEEece
Q 043474 96 ATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 96 ~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
.....++.|+.|.|.|+|+.
T Consensus 67 --~v~~~L~KG~~V~VeGrL~~ 86 (175)
T PRK13732 67 --VAGEYLRKGAQVYIEGQLRT 86 (175)
T ss_pred --HHHHhcCCCCEEEEEEEEEe
Confidence 13356899999999999875
No 130
>PRK13159 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=90.38 E-value=6 Score=29.53 Aligned_cols=74 Identities=14% Similarity=0.143 Sum_probs=52.7
Q ss_pred eeEEEEEEEEE--EeeccCC-ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 36 LSRAEIVGTIT--SRDHKPS-KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 36 i~~v~ivG~V~--~~~~~~~-~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
-+.+++-|.|. ++...+. ..+.|+|-|+.++|.+.+-.- ..+.|+.|.=|-++
T Consensus 51 ~~~~RlGG~V~~GSv~r~~~~~~v~F~vtD~~~~v~V~Y~Gi------------------------lPDlFrEGqgVVae 106 (155)
T PRK13159 51 YQQFRLGGMVKAGSIQRAADSLKVSFTVIDKNAATQVEYTGI------------------------LPDLFRDNQSVIAN 106 (155)
T ss_pred CCeEEEccEEecCcEEEcCCCcEEEEEEEcCCcEEEEEEccC------------------------CCccccCCCeEEEE
Confidence 37788888888 6655432 358999999999998775322 23578999999999
Q ss_pred EEeceeCCceEEEEEEEEEcCChhH
Q 043474 113 GRIASYRGDVQITVSDVVIEKDPNM 137 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~d~n~ 137 (160)
|++. . .-+.+..+-.--|.++
T Consensus 107 G~~~--~--g~F~A~~vLAKHde~Y 127 (155)
T PRK13159 107 GRMQ--G--GRFVANEVLAKHDETY 127 (155)
T ss_pred EEEc--C--CEEEEeEEEecCCCcC
Confidence 9986 2 2567777665555543
No 131
>KOG0555 consensus Asparaginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=89.85 E-value=0.52 Score=40.42 Aligned_cols=41 Identities=24% Similarity=0.370 Sum_probs=33.2
Q ss_pred eEeeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecC
Q 043474 34 KLLSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNH 75 (160)
Q Consensus 34 ~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~ 75 (160)
.--.+|++.|+|-...... +.+...|-||||.++|++-.+-
T Consensus 121 ~r~qrVkv~gWVhrlR~qk-~l~FivLrdg~gflqCVl~~kl 161 (545)
T KOG0555|consen 121 NRGQRVKVFGWVHRLRRQK-SLIFIVLRDGTGFLQCVLSDKL 161 (545)
T ss_pred ccCceEEeehhhHhhhhcC-ceEEEEEecCCceEEEEEcchh
Confidence 3447899999998887664 6678899999999999986544
No 132
>PLN02532 asparagine-tRNA synthetase
Probab=89.51 E-value=1.8 Score=39.25 Aligned_cols=60 Identities=10% Similarity=0.108 Sum_probs=44.2
Q ss_pred ceEEEEEeCCCce--EEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeC-----CceEEEE
Q 043474 54 KFIKFTVDDGTGC--VPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYR-----GDVQITV 126 (160)
Q Consensus 54 ~~~~~~IdDgTG~--I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~-----~~~qi~~ 126 (160)
+...+.|.||||. ++|++-..... ....+..|..|.|+|.|..-+ +...|.+
T Consensus 134 ~i~FI~LrDGSg~~~lQvVv~~~~~~---------------------~~~~L~~Es~V~V~G~V~~~~~~~~~g~iEl~v 192 (633)
T PLN02532 134 SVAYLLISDGSCVASLQVVVDSALAP---------------------LTQLMATGTCILAEGVLKLPLPAQGKHVIELEV 192 (633)
T ss_pred CcEEEEEECCCCccceEEEEeCCccc---------------------HhhcCCCceEEEEEEEEEecCCCCCCCcEEEEe
Confidence 5678899999998 99987322111 114678999999999998752 3468888
Q ss_pred EEEEEcCC
Q 043474 127 SDVVIEKD 134 (160)
Q Consensus 127 ~~i~~v~d 134 (160)
..+..+..
T Consensus 193 ~~i~VLg~ 200 (633)
T PLN02532 193 EKILHIGT 200 (633)
T ss_pred eEEEEEec
Confidence 88887763
No 133
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=89.25 E-value=2.5 Score=37.65 Aligned_cols=79 Identities=16% Similarity=0.283 Sum_probs=56.4
Q ss_pred eeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEe
Q 043474 36 LSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRI 115 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v 115 (160)
-..|++.|+|-.+...+ ..+...|-|.+|.++.++-.+... +..+....++...+|+|.|+|
T Consensus 15 G~~V~L~GWV~r~Rd~G-gliFiDLRDr~GivQvv~~~~~~~-----------------~~~~~a~~lr~E~vi~V~G~V 76 (585)
T COG0173 15 GQTVTLSGWVHRRRDHG-GLIFIDLRDREGIVQVVFDPEDSP-----------------EAFEVASRLRNEFVIQVTGTV 76 (585)
T ss_pred CCEEEEEeeeeeccccC-CeEEEEcccCCCeEEEEECCccCH-----------------HHHHHHHhcCceEEEEEEEEE
Confidence 37899999988877666 567889999999888876332111 112345678888999999999
Q ss_pred ceeC----------CceEEEEEEEEEc
Q 043474 116 ASYR----------GDVQITVSDVVIE 132 (160)
Q Consensus 116 ~~f~----------~~~qi~~~~i~~v 132 (160)
.... |...|.+..|..+
T Consensus 77 ~~R~e~~~N~~l~TGeiEv~a~~i~vl 103 (585)
T COG0173 77 RARPEGTINPNLPTGEIEVLAEEIEVL 103 (585)
T ss_pred EecCccccCCCCCcceEEEEeeeEEEE
Confidence 8752 2457777777654
No 134
>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=89.18 E-value=2 Score=30.79 Aligned_cols=64 Identities=22% Similarity=0.280 Sum_probs=29.8
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeC--CCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEE
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDD--GTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGR 114 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdD--gTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~ 114 (160)
+.+++-|.|.++....+++.....++ +.+.+.|.+-.+... ......++.|+.|.|.|+
T Consensus 68 K~i~vtG~V~~I~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~-------------------~~~~~~l~~G~~Vti~G~ 128 (144)
T PF12869_consen 68 KIIEVTGTVSSIDKGFGDNYVVLLGTENGFAGVQCYFSNDQEK-------------------RASVAKLKKGQKVTIKGI 128 (144)
T ss_dssp -EEEEEEEEEEEEE-STT-EEEEEE-TT-S-S--EEEEEEGGG-------------------HHHHHH--TTSEEEEEEE
T ss_pred CEEEEEEEEEEEEEcCCCcEEEEccCCCCceeEEEEEccchhh-------------------hhhHhcCCCCCEEEEEEE
Confidence 66778899999976333333333333 333466765433311 001235999999999999
Q ss_pred eceeC
Q 043474 115 IASYR 119 (160)
Q Consensus 115 v~~f~ 119 (160)
+..|.
T Consensus 129 ~~g~~ 133 (144)
T PF12869_consen 129 CTGYS 133 (144)
T ss_dssp -----
T ss_pred EEeee
Confidence 99985
No 135
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=88.36 E-value=1.3 Score=37.95 Aligned_cols=77 Identities=13% Similarity=0.168 Sum_probs=57.0
Q ss_pred eEeeEEEEEEEEEEeeccCCceEEEEEeCCCc--eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEE
Q 043474 34 KLLSRAEIVGTITSRDHKPSKFIKFTVDDGTG--CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARV 111 (160)
Q Consensus 34 ~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG--~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V 111 (160)
+.-..+.|-|+|.++.... ++.-+.|+|||- .++|++-. + +...+..|..|.+
T Consensus 18 ~~g~~~~i~GWvKsvr~~~-~~~Fl~i~DGs~~~~lQvVv~~--~----------------------~~q~la~Gt~i~~ 72 (446)
T KOG0554|consen 18 RAGDTISIGGWVKSVRKLK-KVTFLDINDGSCPSPLQVVVDS--E----------------------QSQLLATGTCISA 72 (446)
T ss_pred CCCCceeecchhhhccccc-ceEEEEecCCCCCcceEEEech--H----------------------HhhhccccceEEE
Confidence 3457788899999988665 678899999995 38888633 1 2356889999999
Q ss_pred EEEeceeCC---ceEEEEEEEEEcCCh
Q 043474 112 RGRIASYRG---DVQITVSDVVIEKDP 135 (160)
Q Consensus 112 ~G~v~~f~~---~~qi~~~~i~~v~d~ 135 (160)
.|.++.=++ +..+.+.+|..+..-
T Consensus 73 ~g~l~~~~~~~q~iel~~eki~~vG~v 99 (446)
T KOG0554|consen 73 EGVLKVSKGAKQQIELNAEKIKVVGTV 99 (446)
T ss_pred EeeEEeccchheeeeeeeeEEEEEeec
Confidence 999986553 455777777766533
No 136
>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, 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-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun
Probab=88.35 E-value=2.1 Score=31.70 Aligned_cols=88 Identities=14% Similarity=0.144 Sum_probs=45.5
Q ss_pred EEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccc-c----ccccccccCcEEEEEEEeceeCC--ceEEEEEE
Q 043474 56 IKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVA-T----DFAAKIKIGLVARVRGRIASYRG--DVQITVSD 128 (160)
Q Consensus 56 ~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~-~----~~~~~~~~G~~V~V~G~v~~f~~--~~qi~~~~ 128 (160)
+.+.|.|+||++.+.+|.+..+..-.. +..++--..++. . .....+-.--.+++..+...|++ +....+.+
T Consensus 70 l~~~i~D~Tg~~~~~~F~~~ae~l~G~--sa~el~~~~~~~~~~~~~~i~~~~gk~~~f~v~~~~~~y~~e~~~~~~v~~ 147 (166)
T cd04476 70 LSLNVADHTGEAWLTLFDEVAEQIFGK--SAEELLELKEEDPDAFPDAIQDLVGKTFLFRVSVKEETYNDEGRIRYTVVK 147 (166)
T ss_pred EEEEEEeCCCCEEEEEehHHHHHHhCC--CHHHHHHHhhcCHHHHHHHHHHhhCceEEEEEEEEehhcCCcceEEEEEEE
Confidence 679999999999999997665421100 000000000000 0 00111112235667777788997 44566666
Q ss_pred EEEcCChhHHHHHHHHHH
Q 043474 129 VVIEKDPNMEVLHWLDCL 146 (160)
Q Consensus 129 i~~v~d~n~~~~h~le~~ 146 (160)
+.|+. ...+..+.++-+
T Consensus 148 i~~~~-~~~~~~~l~~~i 164 (166)
T cd04476 148 VAPVD-YKKESKRLIQSI 164 (166)
T ss_pred cccCC-HHHHHHHHHHHh
Confidence 66554 334455555433
No 137
>PRK13165 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=88.33 E-value=9 Score=28.75 Aligned_cols=74 Identities=20% Similarity=0.258 Sum_probs=51.5
Q ss_pred eeEEEEEEEEE--EeeccCC-ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 36 LSRAEIVGTIT--SRDHKPS-KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 36 i~~v~ivG~V~--~~~~~~~-~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
-+.+++-|.|. ++...+. -.+.|+|-|+...|.+.+-.. ..+.|+.|.=|-+.
T Consensus 57 g~~iRvgG~V~~GSi~r~~~~l~v~F~vtD~~~~v~V~Y~Gi------------------------lPDlFrEG~gVVve 112 (160)
T PRK13165 57 GQRLRVGGMVMPGSVQRDPNSLKVSFTLYDAGGSVTVTYEGI------------------------LPDLFREGQGIVAQ 112 (160)
T ss_pred CCEEEEeeEEeCCcEEECCCCeEEEEEEEcCCeEEEEEEccc------------------------CCccccCCCeEEEE
Confidence 47889999998 6665432 247999999999988876321 23578999999999
Q ss_pred EEeceeCCceEEEEEEEEEcCChh
Q 043474 113 GRIASYRGDVQITVSDVVIEKDPN 136 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~d~n 136 (160)
|++.. .--+.+..|-.--|.+
T Consensus 113 G~~~~---~g~F~A~~vLAKhdek 133 (160)
T PRK13165 113 GVLEE---GNHIEAKEVLAKHDEN 133 (160)
T ss_pred EEECC---CCeEEEEEEEecCCCC
Confidence 99853 1245566655434443
No 138
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=87.78 E-value=2 Score=32.72 Aligned_cols=66 Identities=15% Similarity=0.229 Sum_probs=41.3
Q ss_pred EeeEEEEEEEEEEee---c--cCCceEEEEEe------C-CCc-------eEEEEEeecCccCCCCCCCCCCcccccccc
Q 043474 35 LLSRAEIVGTITSRD---H--KPSKFIKFTVD------D-GTG-------CVPCVLWLNHLTSLYLPRRDPSTVRLIAGV 95 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~---~--~~~~~~~~~Id------D-gTG-------~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~ 95 (160)
.+..|.|+|.+..-- . ....++.|+|. | .+| -++|++|....+
T Consensus 5 ~~N~V~LiGrLg~DPelR~t~nG~~v~~fsVAvn~~~kd~~~Ge~~e~t~w~~V~~fgk~Ae------------------ 66 (177)
T PRK09010 5 GVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAE------------------ 66 (177)
T ss_pred CceEEEEEEEeCCCceEEEcCCCCEEEEEEEEEcCccccCcccccccceEEEEEEEehhHHH------------------
Confidence 367778888876621 1 11245555554 2 133 368888876432
Q ss_pred ccccccccccCcEEEEEEEece--eCC
Q 043474 96 ATDFAAKIKIGLVARVRGRIAS--YRG 120 (160)
Q Consensus 96 ~~~~~~~~~~G~~V~V~G~v~~--f~~ 120 (160)
.....++.|+.|.|.|+|+. |.+
T Consensus 67 --~~~~~L~KGs~V~VeGrL~~~~yed 91 (177)
T PRK09010 67 --VAGEYLRKGSQVYIEGQLRTRKWTD 91 (177)
T ss_pred --HHHHhcCCCCEEEEEEEEEeccccC
Confidence 12357899999999999964 643
No 139
>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=87.11 E-value=1.6 Score=39.37 Aligned_cols=61 Identities=16% Similarity=0.290 Sum_probs=44.5
Q ss_pred eEEEEEEEEEEeec--------cCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcE
Q 043474 37 SRAEIVGTITSRDH--------KPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLV 108 (160)
Q Consensus 37 ~~v~ivG~V~~~~~--------~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~ 108 (160)
.+.+|.|+|++... .+++.+.+.|-|.+|.|.|.+|..... ...+.++.|++
T Consensus 191 ~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~Degg~Irat~f~~~~d--------------------kf~~~l~eG~V 250 (608)
T TIGR00617 191 NKWTIKARVTNKSEIRTWSNARGEGKLFNVELLDESGEIRATAFNEQAD--------------------KFYDIIQEGKV 250 (608)
T ss_pred CceEEEEEEEeccccceecCCCCCceeeEEEEecCCCeEEEEECchHHH--------------------HHhhhcccCCE
Confidence 45778888876431 124678999999999999999987543 24467899999
Q ss_pred EEE-EEEece
Q 043474 109 ARV-RGRIAS 117 (160)
Q Consensus 109 V~V-~G~v~~ 117 (160)
+.+ .|+|+.
T Consensus 251 Y~Is~~~Vk~ 260 (608)
T TIGR00617 251 YYISKGSLKP 260 (608)
T ss_pred EEECceEEEE
Confidence 988 456654
No 140
>PRK04036 DNA polymerase II small subunit; Validated
Probab=85.96 E-value=4.3 Score=35.78 Aligned_cols=62 Identities=16% Similarity=0.325 Sum_probs=40.8
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
..+.|+|.|.++.........+.|+|.||.+.+..-.....- ......+-.|.+|-|.|+..
T Consensus 154 ~~~~viG~v~~~~~~~~g~~~~~LED~sgrv~l~~~~~~~~~------------------~~~~~~lvtg~vv~v~G~~~ 215 (504)
T PRK04036 154 EEVSIIGMVSDIRSTKNGHKIVELEDTTGTFPVLIMKDREDL------------------AELADELLLDEVIGVEGTLS 215 (504)
T ss_pred ceEEEEEEEEEeecccCCceEEEEECCCCeEEEEeecchhhh------------------hhhhhcccCceEEEEEEEEc
Confidence 568999999887643323347999999999999763211000 00113567888888888865
No 141
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=85.57 E-value=2.9 Score=31.56 Aligned_cols=65 Identities=9% Similarity=0.255 Sum_probs=40.5
Q ss_pred eeEEEEEEEEEEe---e-ccC-CceEEEEEeCC-------Cc-------eEEEEEeecC-ccCCCCCCCCCCcccccccc
Q 043474 36 LSRAEIVGTITSR---D-HKP-SKFIKFTVDDG-------TG-------CVPCVLWLNH-LTSLYLPRRDPSTVRLIAGV 95 (160)
Q Consensus 36 i~~v~ivG~V~~~---~-~~~-~~~~~~~IdDg-------TG-------~I~~~~w~~~-~~~~~~~~~~~~~~~~~~~~ 95 (160)
+..|.|+|.+..- . ..+ .+++.|+|.=. +| -+.|++|.+. .+
T Consensus 5 mN~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~~Ae------------------ 66 (166)
T PRK06341 5 VNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCK------------------ 66 (166)
T ss_pred ceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChHHHH------------------
Confidence 5778888888762 1 111 25556655321 33 2688888742 21
Q ss_pred ccccccccccCcEEEEEEEec--eeCC
Q 043474 96 ATDFAAKIKIGLVARVRGRIA--SYRG 120 (160)
Q Consensus 96 ~~~~~~~~~~G~~V~V~G~v~--~f~~ 120 (160)
.....++.|+.|.|.|+++ .|.+
T Consensus 67 --~~~~~LkKG~~V~VeGrL~~r~w~d 91 (166)
T PRK06341 67 --VAEQYLKKGAKVYIEGQLQTRKWTD 91 (166)
T ss_pred --HHHHhcCCCCEEEEEEEEEeCcEEC
Confidence 1235789999999999986 4654
No 142
>PRK13150 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=85.34 E-value=14 Score=27.78 Aligned_cols=74 Identities=20% Similarity=0.273 Sum_probs=52.3
Q ss_pred eeEEEEEEEEE--EeeccC-CceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 36 LSRAEIVGTIT--SRDHKP-SKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 36 i~~v~ivG~V~--~~~~~~-~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
-+.+++-|.|. ++...+ +..+.|+|.|+.++|.+.+-.. ..+.|+.|.=|-+.
T Consensus 57 g~~iRvgG~V~~GSv~r~~~~~~v~F~vtD~~~~v~V~Y~Gi------------------------lPDlFrEG~gVVve 112 (159)
T PRK13150 57 GQRLRVGGMVMPGSVRRDPDSLKVNFSLYDAEGSVTVSYEGI------------------------LPDLFREGQGVVVQ 112 (159)
T ss_pred CCEEEEeeEEeCCcEEECCCCcEEEEEEEcCCcEEEEEEecc------------------------CCccccCCCeEEEE
Confidence 47889999998 565433 3358999999999988876322 23578999999999
Q ss_pred EEeceeCCceEEEEEEEEEcCChh
Q 043474 113 GRIASYRGDVQITVSDVVIEKDPN 136 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~d~n 136 (160)
|++.. .--+.+..|-.--|.+
T Consensus 113 G~~~~---~g~F~A~evLAKhdek 133 (159)
T PRK13150 113 GTLEK---GNHVLAHEVLAKHDEN 133 (159)
T ss_pred EEECC---CCEEEEeEEEeCCCCC
Confidence 99853 2246666666444444
No 143
>TIGR00594 polc DNA-directed DNA polymerase III (polc). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=84.33 E-value=2.1 Score=40.92 Aligned_cols=36 Identities=22% Similarity=0.419 Sum_probs=29.3
Q ss_pred eEEEEEEEEEEeecc-----CCceEEEEEeCCCceEEEEEe
Q 043474 37 SRAEIVGTITSRDHK-----PSKFIKFTVDDGTGCVPCVLW 72 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~-----~~~~~~~~IdDgTG~I~~~~w 72 (160)
.+++++|.|.+++.+ +.....++|+|.||.|+|++|
T Consensus 982 ~~v~v~G~i~~~~~~~~tkkG~~maf~tleD~tg~ie~viF 1022 (1022)
T TIGR00594 982 SQVRTLGGLNSVKKKITTKNGKPMAFLQLEDETGSIEVVVF 1022 (1022)
T ss_pred CEEEEEEEEEEEEEecccCCCCEEEEEEEEECCCcEEEEeC
Confidence 468999999876653 125789999999999999987
No 144
>TIGR00644 recJ single-stranded-DNA-specific exonuclease RecJ. All proteins in this family are 5'-3' single-strand DNA exonucleases. These proteins are used in some aspects of mismatch repair, recombination, and recombinational repair.
Probab=84.10 E-value=17 Score=32.31 Aligned_cols=84 Identities=17% Similarity=0.356 Sum_probs=53.8
Q ss_pred ehhhhhccCCCC--CC-CceEECCeEeeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCcc
Q 043474 13 LAFDLLSLTPTP--DP-ATFSRSGKLLSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTV 89 (160)
Q Consensus 13 ~i~~i~~l~~~~--~~-~~~~~~~~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~ 89 (160)
++++|..|.+-+ .+ -.|.+.+..+..++.+| + +.+.+.+.++-..++|..|.....
T Consensus 447 l~~~L~~lePfG~gnp~P~F~~~~~~i~~~~~~g-------~--~h~kl~~~~~~~~~~ai~F~~~~~------------ 505 (539)
T TIGR00644 447 LIEQIEKLEPFGQGNPEPLFLLKNLRVEDIKLLG-------E--NHLKLSLKSGGKNIEAIAFNAGDL------------ 505 (539)
T ss_pred HHHHHHhcCCCCCCCCCCEEEecCeEEEEEEEcC-------C--CEEEEEEecCCEEEEEEEEcCccc------------
Confidence 345555566533 23 46777888888777655 2 457888887623599999965432
Q ss_pred ccccccccccccccccCcEEEEEEEec--eeCCce--EEEEE
Q 043474 90 RLIAGVATDFAAKIKIGLVARVRGRIA--SYRGDV--QITVS 127 (160)
Q Consensus 90 ~~~~~~~~~~~~~~~~G~~V~V~G~v~--~f~~~~--qi~~~ 127 (160)
...+..+..+.+.|+++ .|+|+. |+.+.
T Consensus 506 ----------~~~~~~~~~~~ii~~l~~n~~~g~~~~ql~I~ 537 (539)
T TIGR00644 506 ----------ELELNLGRPLDVAGKLSINEWRGRETPQLIIQ 537 (539)
T ss_pred ----------cccccCCCEEEEEEEEEEEeeCCcceEEEEEE
Confidence 12234567899999987 599864 55544
No 145
>KOG2411 consensus Aspartyl-tRNA synthetase, mitochondrial [Translation, ribosomal structure and biogenesis]
Probab=83.41 E-value=7.1 Score=34.60 Aligned_cols=82 Identities=17% Similarity=0.235 Sum_probs=55.7
Q ss_pred eeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEe
Q 043474 36 LSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRI 115 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v 115 (160)
-..|.++|++..-..+. ....|.|-|.+|.|.+.+-.+... .+......+...++|+|.|.+
T Consensus 47 g~kv~l~GWl~~~~~~k-~~~F~~LRD~~G~vq~lls~~s~~-----------------l~~~~~~~v~~e~vv~v~gtv 108 (628)
T KOG2411|consen 47 GKKVVLCGWLELHRVHK-MLTFFNLRDAYGIVQQLLSPDSFP-----------------LAQKLENDVPLEDVVQVEGTV 108 (628)
T ss_pred CCEEEEeeeeeeeeccc-cceEEEeeccCcceEEEecchhhh-----------------HHhcccCCCChhheEeeeeeE
Confidence 37899999999877654 446789999999999987543321 011123457788999999999
Q ss_pred ceeC----------CceEEEEEEEEEcCCh
Q 043474 116 ASYR----------GDVQITVSDVVIEKDP 135 (160)
Q Consensus 116 ~~f~----------~~~qi~~~~i~~v~d~ 135 (160)
..-- |...+.+.++......
T Consensus 109 v~Rp~~sin~km~tg~vev~~e~~~vln~~ 138 (628)
T KOG2411|consen 109 VSRPNESINSKMKTGFVEVVAEKVEVLNPV 138 (628)
T ss_pred ecccccccCccccccceEEEeeeeEEecCc
Confidence 7751 1235666776655443
No 146
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=82.38 E-value=5.1 Score=30.77 Aligned_cols=32 Identities=22% Similarity=0.540 Sum_probs=25.0
Q ss_pred eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 66 CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 66 ~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
-|+|.+|....+ .....++.|+.|.|.|+++.
T Consensus 54 fi~V~~Wg~~Ae--------------------~va~~L~KGd~V~V~GrL~~ 85 (186)
T PRK07772 54 FLRCSIWRQAAE--------------------NVAESLTKGMRVIVTGRLKQ 85 (186)
T ss_pred EEEEEEecHHHH--------------------HHHHhcCCCCEEEEEEEEEc
Confidence 589999987543 13357999999999999974
No 147
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=79.34 E-value=35 Score=30.77 Aligned_cols=88 Identities=16% Similarity=0.142 Sum_probs=50.6
Q ss_pred hhhhhccCCCC--CCCceEECCeEeeEEEEEEEEEEeeccCCceEEEEEeCCCc--eEEEEEeecCccCCCCCCCCCCcc
Q 043474 14 AFDLLSLTPTP--DPATFSRSGKLLSRAEIVGTITSRDHKPSKFIKFTVDDGTG--CVPCVLWLNHLTSLYLPRRDPSTV 89 (160)
Q Consensus 14 i~~i~~l~~~~--~~~~~~~~~~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG--~I~~~~w~~~~~~~~~~~~~~~~~ 89 (160)
+++|..|.+-+ .+.+.+..+..+..++.+| + +.+.+.+.+++| .+++..|.....
T Consensus 480 ~~~L~~LePfG~gNp~P~F~~~~~v~~~~~~g-------~--~Hlkl~l~~~~~~~~~~ai~F~~~~~------------ 538 (575)
T PRK11070 480 AELLRDAGPWGQMFPEPLFDGRFRLLQQRLVG-------E--RHLKVMVEPVGGGPLLDGIAFNVDTT------------ 538 (575)
T ss_pred HHHHHHcCcCCCCCCCCEEeeccEEEEeEEeC-------C--CEEEEEEEccCCCcEEEEEEECCccc------------
Confidence 44455555533 3343333334444444332 2 346788876544 399999954321
Q ss_pred ccccccccccccccccCcEEEEEEEece--eCCc--eEEEEEEEEEc
Q 043474 90 RLIAGVATDFAAKIKIGLVARVRGRIAS--YRGD--VQITVSDVVIE 132 (160)
Q Consensus 90 ~~~~~~~~~~~~~~~~G~~V~V~G~v~~--f~~~--~qi~~~~i~~v 132 (160)
. .....+..|.+.++++. |+|+ .||.+..++++
T Consensus 539 ---------~-~~~~~~~~v~i~~~l~~n~~~g~~~~ql~i~d~~~~ 575 (575)
T PRK11070 539 ---------L-WPDNSVREVELAYKLDINEFRGNRSLQLIIDHIWPI 575 (575)
T ss_pred ---------c-ccccCCCEEEEEEEEeeEEECCcceEEEEEEeeecC
Confidence 0 11223468889999875 9986 68888888764
No 148
>KOG0556 consensus Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=77.96 E-value=27 Score=30.42 Aligned_cols=84 Identities=20% Similarity=0.309 Sum_probs=59.4
Q ss_pred eEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEec
Q 043474 37 SRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIA 116 (160)
Q Consensus 37 ~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~ 116 (160)
+.|.+-|+|-....+. ++..+.|-++.-+++|.+-.+...+. ++++ .+....+....+|.|+|.|.
T Consensus 83 ~~V~vRgrVhtsr~~G-K~~FlvLRq~~~tVQ~~~~~~~~~~i------------sk~M-vkf~~~is~ESiV~v~g~v~ 148 (533)
T KOG0556|consen 83 SEVLVRGRVHTSRLKG-KLCFLVLRQQGSTVQCLVAVNEDGTI------------SKQM-VKFAGSISKESIVDVRGVVV 148 (533)
T ss_pred ceEEEEEEEeeccccc-eEEEEEEeccCceEEEEEEcCCCchH------------HHHH-HHHHhhcCcceEEEEEEEEe
Confidence 5566677776655555 88899999999999999987765421 1222 23456688889999999997
Q ss_pred eeCC--------ceEEEEEEEEEcCC
Q 043474 117 SYRG--------DVQITVSDVVIEKD 134 (160)
Q Consensus 117 ~f~~--------~~qi~~~~i~~v~d 134 (160)
.-.. ...|.+.+|..++-
T Consensus 149 k~~~~i~scT~qdvEi~v~~iyviS~ 174 (533)
T KOG0556|consen 149 KVKEPIKSCTVQDVEIHVRKIYVISI 174 (533)
T ss_pred cCCCcccccccceeEEEEEEEEEEec
Confidence 6443 35688888876653
No 149
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=77.07 E-value=15 Score=26.05 Aligned_cols=18 Identities=28% Similarity=0.479 Sum_probs=15.3
Q ss_pred ccccCcEEEEEEEeceeC
Q 043474 102 KIKIGLVARVRGRIASYR 119 (160)
Q Consensus 102 ~~~~G~~V~V~G~v~~f~ 119 (160)
.+++|+.++++|+++.-.
T Consensus 128 ~l~~Gd~i~~~g~l~~~~ 145 (176)
T PF13567_consen 128 RLQPGDRIRVRGKLKPPS 145 (176)
T ss_pred ccCCCCEEEEEEEEecCC
Confidence 588999999999987644
No 150
>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=76.25 E-value=14 Score=27.27 Aligned_cols=92 Identities=14% Similarity=0.181 Sum_probs=47.6
Q ss_pred EeeEEEEEEEEEEeeccCCceEE-EEEeCCCc-eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 35 LLSRAEIVGTITSRDHKPSKFIK-FTVDDGTG-CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~~~~~~~~~-~~IdDgTG-~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
+...+-+||.|+++..+. .+-. +-|.|..- -+-.+.|..-..- ...+.+++|.+|-+.
T Consensus 17 p~~EvD~VG~VvsV~~~~-~f~~~vYLsD~~~Nll~Ikfw~~l~~~-------------------~~eDilk~~~liA~S 76 (143)
T PF09104_consen 17 PYGEVDTVGFVVSVSKKQ-GFQPLVYLSDECHNLLAIKFWTGLNQY-------------------GYEDILKPGSLIAAS 76 (143)
T ss_dssp CCCEEEEEEEEEEEE--T-TS--EEEEE-TTS-EEEEEESS--------------------------SS---TT-EEEEE
T ss_pred CccccceEEEEEEEEecC-CCceeEEeecCCccEEEEEeccCcccc-------------------chhhhcCcceEEEEe
Confidence 668899999999997655 4433 56678876 5888889766531 123678999999776
Q ss_pred EEeceeC----CceEEEEEEEEEcCChhHHHHHHHHHHHH
Q 043474 113 GRIASYR----GDVQITVSDVVIEKDPNMEVLHWLDCLRL 148 (160)
Q Consensus 113 G~v~~f~----~~~qi~~~~i~~v~d~n~~~~h~le~~~~ 148 (160)
.++-.. +-.++-+......+. |.--.|+.|....
T Consensus 77 -NLqwR~~s~s~iP~~~A~d~S~FS~-nPK~~hLqe~~~~ 114 (143)
T PF09104_consen 77 -NLQWRPESTSGIPTLFATDLSVFSA-NPKESHLQEAFNK 114 (143)
T ss_dssp -EEEE-S-TTSSS-EEEEECCEEEES-S-SSCCCHHHHHH
T ss_pred -eeEeecccccCCCeeEeccceeeec-CccHHHHHHHHHH
Confidence 333222 235666666654442 3333455555443
No 151
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=70.50 E-value=2.9 Score=31.22 Aligned_cols=35 Identities=26% Similarity=0.403 Sum_probs=26.7
Q ss_pred CceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 64 TGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 64 TG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
|--|.|++|.+..+. ....++.|+.|-|.|+++..
T Consensus 50 t~~~~vv~wgk~Ae~--------------------~~~yl~KG~~V~VeG~l~~~ 84 (167)
T COG0629 50 TDWIRVVIWGKLAEN--------------------AAEYLKKGSLVYVEGRLQTR 84 (167)
T ss_pred cceEEEEEehHHHHH--------------------HHHHhcCCCEEEEEEEEEee
Confidence 345999999885431 23578899999999999863
No 152
>COG1599 RFA1 Single-stranded DNA-binding replication protein A (RPA), large (70 kD) subunit and related ssDNA-binding proteins [DNA replication, recombination, and repair]
Probab=69.69 E-value=12 Score=31.86 Aligned_cols=76 Identities=32% Similarity=0.443 Sum_probs=52.6
Q ss_pred eeEEEEEEEEEEeeccC---------CceEEEEEeCCCceEEE-EEeecCccCCCCCCCCCCcccccccccccccccccc
Q 043474 36 LSRAEIVGTITSRDHKP---------SKFIKFTVDDGTGCVPC-VLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKI 105 (160)
Q Consensus 36 i~~v~ivG~V~~~~~~~---------~~~~~~~IdDgTG~I~~-~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (160)
..++.+.|.|..+.... +++....+-|.||.+.. ..|..... ...+.
T Consensus 59 ~~~~~v~~~V~~~~e~~~~~~k~g~~~~l~~~~v~Detg~v~~~~~~~~~a~-----------------------~~~e~ 115 (407)
T COG1599 59 SSRVNVTGRVLSIGEKKTFDRKRGAEGKLAEVLVGDETGSVKTVTLWNIAAL-----------------------EKLEP 115 (407)
T ss_pred hccccEEEEECccccceeeecccccccceEEEEEecCCCCEEEEeecccccc-----------------------ccCCc
Confidence 34555556665554211 35667779999999888 47766542 35789
Q ss_pred CcEEEEEEEe-ceeCCceEEEEEEEEEcCC
Q 043474 106 GLVARVRGRI-ASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 106 G~~V~V~G~v-~~f~~~~qi~~~~i~~v~d 134 (160)
|++++|.+.- ..|++..++.+....-+..
T Consensus 116 Gdv~~i~~~~~~~~~~~~~~~~~~~~~v~~ 145 (407)
T COG1599 116 GDVIRIRNAYTSLYRGGKRLSVGRVGSVAD 145 (407)
T ss_pred cceEEecCcccccccCceeeeccccccccc
Confidence 9999998874 5788999998877665443
No 153
>COG2332 CcmE Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]
Probab=69.69 E-value=40 Score=25.04 Aligned_cols=74 Identities=18% Similarity=0.201 Sum_probs=49.5
Q ss_pred eeEEEEEEEEEEee-cc--CCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 36 LSRAEIVGTITSRD-HK--PSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 36 i~~v~ivG~V~~~~-~~--~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
-.++++.|.|..-. .| ++..++|++.|+-.++++.+-.. ..+.|+.|+-|-+.
T Consensus 51 G~rlR~GGlV~~GSv~R~~~~~~v~F~vtD~~~~v~V~Y~Gi------------------------LPDLFREGQgVVa~ 106 (153)
T COG2332 51 GQRLRLGGLVEAGSVQRDPGSLKVSFVVTDGNKSVTVSYEGI------------------------LPDLFREGQGVVAE 106 (153)
T ss_pred CcEEEEeeeEeeceEEecCCCcEEEEEEecCCceEEEEEecc------------------------CchhhhcCCeEEEE
Confidence 47888899987532 22 23558999999999999876322 23578999999999
Q ss_pred EEeceeCCceEEEEEEEEEcCChh
Q 043474 113 GRIASYRGDVQITVSDVVIEKDPN 136 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~d~n 136 (160)
|.+..= --+.+.++-.--|.|
T Consensus 107 G~~~~~---~~f~A~~vLAKHdEn 127 (153)
T COG2332 107 GQLQGG---GVFEAKEVLAKHDEN 127 (153)
T ss_pred EEecCC---CEEEeeehhhcCCcc
Confidence 997431 234455544334444
No 154
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=65.78 E-value=28 Score=21.85 Aligned_cols=45 Identities=27% Similarity=0.243 Sum_probs=30.2
Q ss_pred EEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEE
Q 043474 41 IVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGR 114 (160)
Q Consensus 41 ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~ 114 (160)
+=|.|.+++... .+.+||||.- +.-+.+. ..+.+++|.-|.|.=.
T Consensus 5 veG~I~~id~~~---~titLdDGks------y~lp~ef--------------------~~~~L~~G~kV~V~yd 49 (61)
T PF07076_consen 5 VEGTIKSIDPET---MTITLDDGKS------YKLPEEF--------------------DFDGLKPGMKVVVFYD 49 (61)
T ss_pred ceEEEEEEcCCc---eEEEecCCCE------EECCCcc--------------------cccccCCCCEEEEEEE
Confidence 458888887664 6999999974 2222221 2367899998887633
No 155
>PRK05853 hypothetical protein; Validated
Probab=63.31 E-value=5.8 Score=29.75 Aligned_cols=35 Identities=17% Similarity=0.227 Sum_probs=27.0
Q ss_pred CCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 63 GTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 63 gTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
.|--|+|++|....+. ....++.|+.|-|.|+++.
T Consensus 41 ~T~wi~V~~wg~lAe~--------------------v~~~L~KG~~V~V~GrL~~ 75 (161)
T PRK05853 41 NSLFITVNCWGRLVTG--------------------VGAALGKGAPVIVVGHVYT 75 (161)
T ss_pred CccEEEEEEEhHHHHH--------------------HHHHcCCCCEEEEEEEEEc
Confidence 4666999999875431 2356899999999999974
No 156
>cd04480 RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity 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 RPA 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.
Probab=61.49 E-value=38 Score=21.97 Aligned_cols=40 Identities=13% Similarity=0.156 Sum_probs=30.6
Q ss_pred ceEEEEEeCCCc-eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEE
Q 043474 54 KFIKFTVDDGTG-CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRG 113 (160)
Q Consensus 54 ~~~~~~IdDgTG-~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G 113 (160)
..+.+.|-|..| .|.|.++..... .....++.|....+.+
T Consensus 19 ~~~~miL~De~G~~I~a~i~~~~~~--------------------~f~~~L~eg~vy~is~ 59 (86)
T cd04480 19 ESLEMVLVDEKGNRIHATIPKRLAA--------------------KFRPLLKEGKWYTISN 59 (86)
T ss_pred cEEEEEEEcCCCCEEEEEECHHHHH--------------------hhhhhceeCCEEEEee
Confidence 557899999999 699999876532 2456788888877764
No 157
>PF15489 CTC1: CST, telomere maintenance, complex subunit CTC1
Probab=57.79 E-value=30 Score=33.63 Aligned_cols=62 Identities=23% Similarity=0.490 Sum_probs=41.8
Q ss_pred EEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeC
Q 043474 40 EIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYR 119 (160)
Q Consensus 40 ~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~ 119 (160)
.++|..+....+ -.+.|.|+||+++|.+-..+... ..+.--+|.+|+|. .|
T Consensus 548 VLLGVL~~ss~~----G~LqLrD~sGslpCL~l~~~~~p--------------------~~d~~~iGcLVrV~----rf- 598 (1144)
T PF15489_consen 548 VLLGVLVASSRK----GRLQLRDQSGSLPCLILHRDSQP--------------------FIDPALIGCLVRVE----RF- 598 (1144)
T ss_pred eEEEEeeccccc----cEEEEEcCCCceeEEEecccCCC--------------------CCCccccCcEEEEE----EE-
Confidence 577877753333 58999999999999998776542 22345578888554 33
Q ss_pred CceEEEEEEEEEcC
Q 043474 120 GDVQITVSDVVIEK 133 (160)
Q Consensus 120 ~~~qi~~~~i~~v~ 133 (160)
|+.+++...-.
T Consensus 599 ---qLVvER~~~s~ 609 (1144)
T PF15489_consen 599 ---QLVVERFVQSN 609 (1144)
T ss_pred ---EEEEeeeccCC
Confidence 57777666433
No 158
>PF15490 Ten1_2: Telomere-capping, CST complex subunit
Probab=57.68 E-value=66 Score=22.82 Aligned_cols=50 Identities=12% Similarity=0.226 Sum_probs=38.4
Q ss_pred ccccCcEEEEEEEecee--CCceEEEEEEEEEcCChhHHHHHHHHHHHHHHhhc
Q 043474 102 KIKIGLVARVRGRIASY--RGDVQITVSDVVIEKDPNMEVLHWLDCLRLARKRY 153 (160)
Q Consensus 102 ~~~~G~~V~V~G~v~~f--~~~~qi~~~~i~~v~d~n~~~~h~le~~~~~~~~~ 153 (160)
..+.|.++.+.|.+... .+..-|.+.-++.++..|..++ -+++...++.+
T Consensus 64 ~~~~gslyq~iGEl~~~~~~~~~~L~ARV~r~VdG~Dl~Ly--~~al~~rRkf~ 115 (118)
T PF15490_consen 64 QARVGSLYQFIGELEHQPQDGGIVLKARVLRCVDGMDLNLY--EQALQERRKFL 115 (118)
T ss_pred ccCCCCEEEEEEEEEEEcCCCcEEEEEEEEEecCCcCHHHH--HHHHHHHHHHh
Confidence 45799999999999998 3567789999999998886554 45666655544
No 159
>PF15489 CTC1: CST, telomere maintenance, complex subunit CTC1
Probab=57.26 E-value=8.7 Score=37.05 Aligned_cols=75 Identities=17% Similarity=0.185 Sum_probs=41.4
Q ss_pred eEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeCCceEEEEEEEEEcCC
Q 043474 55 FIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYRGDVQITVSDVVIEKD 134 (160)
Q Consensus 55 ~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~~~~qi~~~~i~~v~d 134 (160)
.+.+.++|||| +|++|..+..- ..++. -.....-.+-..|+..|+|..+.--+-.........+
T Consensus 1015 ~ar~~vEDGTa--eA~v~~~~~~V----------~~lLg---L~~~eW~~L~~~v~~~G~V~~~~~g~~~~~~~~~~~~- 1078 (1144)
T PF15489_consen 1015 SARLLVEDGTA--EAVVWCRGHHV----------AALLG---LSPSEWESLLEMVRSPGRVAVQFRGRGAQLESSAKSD- 1078 (1144)
T ss_pred EEEEEEecCCe--eEEEEECCcHH----------HHHhC---CCHHHHHHHHHHhhcCCEEEEEEcCCCcCcCcccCCC-
Confidence 37899999999 67888877531 00000 0001112244789999999876522222333333333
Q ss_pred hhHHHHHHHHHHH
Q 043474 135 PNMEVLHWLDCLR 147 (160)
Q Consensus 135 ~n~~~~h~le~~~ 147 (160)
+-+.+||+++=
T Consensus 1079 --~pl~~~L~~lc 1089 (1144)
T PF15489_consen 1079 --DPLTLFLRTLC 1089 (1144)
T ss_pred --ccHHHHHHHHc
Confidence 34457887763
No 160
>COG2374 Predicted extracellular nuclease [General function prediction only]
Probab=56.11 E-value=77 Score=29.64 Aligned_cols=27 Identities=22% Similarity=0.393 Sum_probs=22.2
Q ss_pred cccccCcEEEEEEEeceeCCceEEEEE
Q 043474 101 AKIKIGLVARVRGRIASYRGDVQITVS 127 (160)
Q Consensus 101 ~~~~~G~~V~V~G~v~~f~~~~qi~~~ 127 (160)
..+.+|++|+|.|+|.+|-+.-|+...
T Consensus 264 ~~l~lGd~V~VtG~V~Ey~~~tq~~~~ 290 (798)
T COG2374 264 SDLSLGDRVTVTGTVSEYYGLTQLFAL 290 (798)
T ss_pred CCCCCCCEEEEEEEEEeeccccccccc
Confidence 348899999999999999987665443
No 161
>PF01588 tRNA_bind: Putative tRNA binding domain; InterPro: IPR002547 This domain is found in prokaryotic methionyl-tRNA synthetases, prokaryotic phenylalanyl tRNA synthetases the yeast GU4 nucleic-binding protein (G4p1 or p42, ARC1) [], human tyrosyl-tRNA synthetase [], and endothelial-monocyte activating polypeptide II. G4p1 binds specifically to tRNA form a complex with methionyl-tRNA synthetases []. In human tyrosyl-tRNA synthetase this domain may direct tRNA to the active site of the enzyme []. This domain may perform a common function in tRNA aminoacylation [].; GO: 0000049 tRNA binding; PDB: 3BU2_C 1PYB_A 2Q2I_A 2Q2H_A 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 2CWP_A ....
Probab=54.04 E-value=50 Score=22.03 Aligned_cols=31 Identities=29% Similarity=0.315 Sum_probs=24.4
Q ss_pred EEEEEEEeeccCC--ceEEEEEeCCCceEEEEE
Q 043474 41 IVGTITSRDHKPS--KFIKFTVDDGTGCVPCVL 71 (160)
Q Consensus 41 ivG~V~~~~~~~~--~~~~~~IdDgTG~I~~~~ 71 (160)
.||.|++.+..++ +-..+++|.|.+.++++.
T Consensus 2 ~vg~I~~~~~hp~sdkL~~~~Vd~G~~~~~Ivs 34 (95)
T PF01588_consen 2 RVGKILEVEPHPNSDKLYVLKVDIGEEERQIVS 34 (95)
T ss_dssp EEEEEEEEEEETTSSSEEEEEEESSSSEEEEEE
T ss_pred EEEEEEEEEECCCCCEEEEEEEEeCCceEEEEe
Confidence 5899999886553 567999999999866654
No 162
>COG1588 POP4 RNase P/RNase MRP subunit p29 [Translation, ribosomal structure and biogenesis]
Probab=49.51 E-value=43 Score=22.92 Aligned_cols=54 Identities=20% Similarity=0.186 Sum_probs=32.0
Q ss_pred EEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 38 RAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 38 ~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
.+=|-|.|+.-+ ++ ++.|++++|.+..-. +.. .+.-..+.|.+|+|.|.+-.
T Consensus 30 ~vGI~G~VVdET----kN-tLvi~t~~~~~~VpK--~~~---------------------vfef~~~~G~~vkVdG~lL~ 81 (95)
T COG1588 30 YVGIEGRVVDET----KN-TLVIDTGSREKVVPK--DGA---------------------VFEFEGPDGEKVKVDGRLLL 81 (95)
T ss_pred ccceeEEEEeee----cc-EEEEECCCceEEEec--CcE---------------------EEEEEcCCCcEEEEcchhhh
Confidence 344567777732 33 788999887643321 111 01123445999999998766
Q ss_pred eC
Q 043474 118 YR 119 (160)
Q Consensus 118 f~ 119 (160)
++
T Consensus 82 ~r 83 (95)
T COG1588 82 GR 83 (95)
T ss_pred cC
Confidence 55
No 163
>COG1311 HYS2 Archaeal DNA polymerase II, small subunit/DNA polymerase delta, subunit B [DNA replication, recombination, and repair]
Probab=49.35 E-value=26 Score=30.80 Aligned_cols=43 Identities=21% Similarity=0.302 Sum_probs=33.5
Q ss_pred eEECCeEeeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeec
Q 043474 29 FSRSGKLLSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLN 74 (160)
Q Consensus 29 ~~~~~~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~ 74 (160)
.+-.|.. ++|+|.|.+..........+.+.|-||++.|.+-.+
T Consensus 134 ~~~~g~d---v~Iig~v~~~r~t~~gh~ii~~ed~tG~v~vvl~k~ 176 (481)
T COG1311 134 DLEGGSD---VKIIGEVNDVRETKNGHFIISLEDTTGVVTVVLGKD 176 (481)
T ss_pred ccccCCC---cEEEEEEccceeeecccEEEEcccccceEEEEeccc
Confidence 4445545 999999999876543446999999999999998763
No 164
>KOG3818 consensus DNA polymerase epsilon, subunit B [Replication, recombination and repair]
Probab=48.72 E-value=55 Score=28.75 Aligned_cols=72 Identities=19% Similarity=0.203 Sum_probs=49.3
Q ss_pred CeEeeEEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 33 GKLLSRAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 33 ~~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
++.+..+-+.|.+.... + -.|-|+|-||+++.-+-.... ...-+-+|.+|-+.
T Consensus 173 t~~~~~~lvLGlLTq~k--~---G~~~lEDpsgsVqlDlsqa~f----------------------h~glf~egC~VL~E 225 (525)
T KOG3818|consen 173 TRALQSFLVLGLLTQLK--E---GKFHLEDPSGSVQLDLSQAKF----------------------HHGLFCEGCFVLVE 225 (525)
T ss_pred cccccceeeeehhhhcc--C---CcEEEeCCCCcEEEeeccccc----------------------ccceeccceEEEEe
Confidence 67788888999988743 3 257899999987765433211 23567799999999
Q ss_pred EEeceeCCceEEEEEEEEEcC
Q 043474 113 GRIASYRGDVQITVSDVVIEK 133 (160)
Q Consensus 113 G~v~~f~~~~qi~~~~i~~v~ 133 (160)
|.-.. |...+....+-|++
T Consensus 226 G~f~~--~vf~V~~lg~PP~E 244 (525)
T KOG3818|consen 226 GTFES--GVFHVNELGFPPVE 244 (525)
T ss_pred eeeec--ceEEEeeccCCCCC
Confidence 98655 55555555555544
No 165
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=46.85 E-value=74 Score=20.21 Aligned_cols=64 Identities=13% Similarity=0.186 Sum_probs=35.3
Q ss_pred EEEEEEEEeeccCCceEEEEEeC-CCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEecee
Q 043474 40 EIVGTITSRDHKPSKFIKFTVDD-GTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASY 118 (160)
Q Consensus 40 ~ivG~V~~~~~~~~~~~~~~IdD-gTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f 118 (160)
.+.|.|.++.... +...|.. ..|.+.......... .+..+.+++|+.+. .+|..+
T Consensus 9 iV~G~V~~v~~~~---~~V~i~~~~~g~l~~~~~~~~~~-------------------~~~~~~~~~GD~i~--~~V~~~ 64 (82)
T cd04454 9 IVIGIVTEVNSRF---WKVDILSRGTARLEDSSATEKDK-------------------KEIRKSLQPGDLIL--AKVISL 64 (82)
T ss_pred EEEEEEEEEcCCE---EEEEeCCCceEEeechhccCcch-------------------HHHHhcCCCCCEEE--EEEEEe
Confidence 4688899986542 5666643 334444443322211 11235689999984 456666
Q ss_pred CCceEEEEE
Q 043474 119 RGDVQITVS 127 (160)
Q Consensus 119 ~~~~qi~~~ 127 (160)
...+++.++
T Consensus 65 ~~~~~i~LS 73 (82)
T cd04454 65 GDDMNVLLT 73 (82)
T ss_pred CCCCCEEEE
Confidence 544445444
No 166
>PF08696 Dna2: DNA replication factor Dna2; InterPro: IPR014808 Dna2 is a DNA replication factor with single-stranded DNA-dependent ATPase, ATP-dependent nuclease, (5'-flap endonuclease) and helicase activities. It is required for Okazaki fragment processing and is involved in DNA repair pathways []. ; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication
Probab=46.34 E-value=60 Score=25.10 Aligned_cols=33 Identities=12% Similarity=0.226 Sum_probs=24.7
Q ss_pred EEEeCCCce-EEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEE
Q 043474 58 FTVDDGTGC-VPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRG 113 (160)
Q Consensus 58 ~~IdDgTG~-I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G 113 (160)
++.+|++|. ..|.+|..=.. ..+++|+.|.|.|
T Consensus 2 l~~~~~~~~~~~v~L~~~W~~-----------------------t~v~~Gd~I~ii~ 35 (209)
T PF08696_consen 2 LVCSESSGETRTVILRDEWCE-----------------------TPVSPGDIIHIIG 35 (209)
T ss_pred eEeecCCCCeEEEEEeCCccc-----------------------CCCcCCCEEEEEE
Confidence 467778874 77877755443 3588999999999
No 167
>cd04498 hPOT1_OB2 hPOT1_OB2: A subfamily of OB folds similar to the second OB fold (OB2) of human protection of telomeres 1 protein (hPOT1). POT1 proteins bind to the single-stranded (ss) 3-prime ends of the telomere. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB2) which cooperate to bind telomeric ssDNA. OB1 makes more extensive contact with the ssDNA than OB2. OB2 protects the 3' end of the ssDNA. hPOT1 is implicated in telomere length regulation.
Probab=44.52 E-value=21 Score=25.53 Aligned_cols=12 Identities=25% Similarity=0.332 Sum_probs=10.3
Q ss_pred cccccCcEEEEE
Q 043474 101 AKIKIGLVARVR 112 (160)
Q Consensus 101 ~~~~~G~~V~V~ 112 (160)
..+++|++|+++
T Consensus 75 r~lK~GdfV~L~ 86 (123)
T cd04498 75 KSLKPGDFVRIY 86 (123)
T ss_pred hhCCCCCEEEEE
Confidence 349999999987
No 168
>cd05697 S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 5 (hs5) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=39.72 E-value=64 Score=19.69 Aligned_cols=20 Identities=25% Similarity=0.265 Sum_probs=13.9
Q ss_pred EEEEEEEeeccCCceEEEEEeCC
Q 043474 41 IVGTITSRDHKPSKFIKFTVDDG 63 (160)
Q Consensus 41 ivG~V~~~~~~~~~~~~~~IdDg 63 (160)
+-|.|.++.... +.+.|+++
T Consensus 4 v~g~V~~v~~~G---v~V~l~~~ 23 (69)
T cd05697 4 VKGTIRKLRPSG---IFVKLSDH 23 (69)
T ss_pred EEEEEEEEeccE---EEEEecCC
Confidence 457888876553 67788765
No 169
>CHL00010 infA translation initiation factor 1
Probab=39.08 E-value=1.1e+02 Score=19.86 Aligned_cols=51 Identities=18% Similarity=0.155 Sum_probs=29.1
Q ss_pred EEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 38 RAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 38 ~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
.+++-|.|+..-.. .+....++|| -.+.|++-..--. ..-.+..||+|.+.
T Consensus 6 ~~~~~G~Vik~lg~--~~y~V~~~~g-~~~~c~~rGklr~---------------------~~i~~~vGD~V~ve 56 (78)
T CHL00010 6 KIEMEGLVTESLPN--GMFRVRLDNG-CQVLGYISGKIRR---------------------NSIRILPGDRVKVE 56 (78)
T ss_pred eEEEEEEEEEEcCC--CEEEEEeCCC-CEEEEEeccceec---------------------CCcccCCCCEEEEE
Confidence 34567888876533 3334455555 3688875322111 11346789999887
No 170
>PF08260 Kinin: Insect kinin peptide; InterPro: IPR013202 This entry represents neuropeptides that are the first members of the insect kinin-family isolated from the American cockroach. Their occurrence in the retrocerebral complex suggests a physiological role as a neurohormone. The C-terminal sequence Phe-X-Ser-Trp-Gly-NH2 characterised the peptides as members of the insect kinin family. Data suggest a possible involvement of insect kinins in water-balance by regulating the osmoregulation. Insect kinins also mediate visceral muscle contractile activity (myotropic activity) []. These peptides have lengths ranging from 6 to 14 amino acids [].
Probab=38.86 E-value=14 Score=13.76 Aligned_cols=7 Identities=14% Similarity=0.060 Sum_probs=4.9
Q ss_pred CCccccc
Q 043474 3 HTLQNTH 9 (160)
Q Consensus 3 ~p~~~~~ 9 (160)
||-|++|
T Consensus 1 ~pafnsw 7 (8)
T PF08260_consen 1 DPAFNSW 7 (8)
T ss_pred Ccccccc
Confidence 5777776
No 171
>COG4025 Predicted membrane protein [Function unknown]
Probab=36.29 E-value=1.5e+02 Score=23.98 Aligned_cols=76 Identities=17% Similarity=0.154 Sum_probs=48.6
Q ss_pred CceEECCeEeeEEEEEEEEEEeeccCCceEEEEEeCCCc--eEEEEEeecCccCCCCCCCCCCccccccccccccccccc
Q 043474 27 ATFSRSGKLLSRAEIVGTITSRDHKPSKFIKFTVDDGTG--CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIK 104 (160)
Q Consensus 27 ~~~~~~~~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG--~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 (160)
+++.+-.+...+-.=.|.|..+++.. ....++|.-. +....+|.+.+ ...+
T Consensus 201 a~~~~fr~kf~RdyTfGiV~EV~E~~---v~V~V~~DIaaNvkPg~YiVe~n------------------------~~~~ 253 (284)
T COG4025 201 AFRYYFRHKFGRDYTFGIVEEVKEDL---VEVFVHDDIAANVKPGYYIVEGN------------------------FHGK 253 (284)
T ss_pred heeeEEEEeecccceeEEEEEEcCCe---EEEEEccchhhcCCCCeEEecCc------------------------ccCC
Confidence 34455556666666678888665542 2333444332 46667776654 2456
Q ss_pred cCcEEE--EEEEeceeCCceEEEEEEE
Q 043474 105 IGLVAR--VRGRIASYRGDVQITVSDV 129 (160)
Q Consensus 105 ~G~~V~--V~G~v~~f~~~~qi~~~~i 129 (160)
.||.|+ |.|...+|+|.+.+.+-.+
T Consensus 254 egd~Vkl~VE~s~~s~rgsrPVRIl~v 280 (284)
T COG4025 254 EGDIVKLLVEHSGRSFRGSRPVRILEV 280 (284)
T ss_pred CCCeEEEEEecccceecCCCceEEEee
Confidence 788765 6788899999988877654
No 172
>PF02294 7kD_DNA_binding: 7kD DNA-binding domain; InterPro: IPR003212 This family contains members of the hyperthermophilic archaebacterium 7kDa DNA-binding/endoribonuclease P2 family. There are five 7kDa DNA-binding proteins, 7a-7e, found as monomers in the cell. Protein 7e shows the tightest DNA-binding ability.; GO: 0003677 DNA binding, 0004521 endoribonuclease activity; PDB: 1SSO_A 2CVR_A 1B4O_A 2XIW_B 1WTV_A 1WTQ_A 1BF4_A 1WVL_B 1WTR_A 1WTP_B ....
Probab=36.22 E-value=37 Score=20.63 Aligned_cols=16 Identities=44% Similarity=0.792 Sum_probs=12.9
Q ss_pred cCCceEEEEEeCCCce
Q 043474 51 KPSKFIKFTVDDGTGC 66 (160)
Q Consensus 51 ~~~~~~~~~IdDgTG~ 66 (160)
+-++.++|+-|||.|.
T Consensus 24 rvgkmvsftyddgngk 39 (62)
T PF02294_consen 24 RVGKMVSFTYDDGNGK 39 (62)
T ss_dssp ECSSEEEEEEECSSSS
T ss_pred hhcceEEEEEecCCCc
Confidence 4457899999998884
No 173
>TIGR00638 Mop molybdenum-pterin binding domain. This model describes a multigene family of molybdenum-pterin binding proteins of about 70 amino acids in Clostridium pasteurianum, as a tandemly-repeated domain C-terminal to an unrelated domain in ModE, a molybdate transport gene repressor of E. coli, and in single or tandemly paired domains in several related proteins.
Probab=35.88 E-value=1e+02 Score=18.61 Aligned_cols=33 Identities=15% Similarity=0.209 Sum_probs=21.9
Q ss_pred EEEEEEEEeeccCCceEEEEEeCCCc-eEEEEEee
Q 043474 40 EIVGTITSRDHKPSKFIKFTVDDGTG-CVPCVLWL 73 (160)
Q Consensus 40 ~ivG~V~~~~~~~~~~~~~~IdDgTG-~I~~~~w~ 73 (160)
.+-|.|.++.... ....+.++=+.| .+.|.+-.
T Consensus 8 ~l~g~I~~i~~~g-~~~~v~l~~~~~~~l~a~i~~ 41 (69)
T TIGR00638 8 QLKGKVVAIEDGD-VNAEVDLLLGGGTKLTAVITL 41 (69)
T ss_pred EEEEEEEEEEECC-CeEEEEEEECCCCEEEEEecH
Confidence 4678899987655 445666665444 78887654
No 174
>COG4013 Uncharacterized protein conserved in archaea [Function unknown]
Probab=35.22 E-value=1.4e+02 Score=20.07 Aligned_cols=46 Identities=13% Similarity=0.315 Sum_probs=32.3
Q ss_pred cccccCcEEE-------EEEEeceeC-CceEEEEEE-----EEEcCChhHHHHHHHHHHH
Q 043474 101 AKIKIGLVAR-------VRGRIASYR-GDVQITVSD-----VVIEKDPNMEVLHWLDCLR 147 (160)
Q Consensus 101 ~~~~~G~~V~-------V~G~v~~f~-~~~qi~~~~-----i~~v~d~n~~~~h~le~~~ 147 (160)
...++|++|+ |-|++-.++ +..||.+.+ |+.++ -+.....+||.+|
T Consensus 19 eeV~~gd~vel~~grVhIpG~vv~~n~g~l~l~~esdmi~Gi~~~d-iEki~~~llEl~H 77 (91)
T COG4013 19 EEVDVGDYVELYFGRVHIPGRVVHYNDGLLRLVHESDMIYGIIEVD-IEKILDDLLELVH 77 (91)
T ss_pred hcCCCCCEEEEEEEEEEeccEEEEeeccEEEEEEeccccCceEEEE-HHHHHHHHHHHhc
Confidence 3566777654 668888877 567888877 55433 5777777788776
No 175
>PF09874 DUF2101: Predicted membrane protein (DUF2101); InterPro: IPR018663 This family of conserved hypothetical proteins has no known function.
Probab=33.29 E-value=1.3e+02 Score=23.60 Aligned_cols=59 Identities=15% Similarity=0.304 Sum_probs=36.3
Q ss_pred EEEEEEEEeeccCCceEEEEEeCCCc--eEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 40 EIVGTITSRDHKPSKFIKFTVDDGTG--CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 40 ~ivG~V~~~~~~~~~~~~~~IdDgTG--~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
.=-|.|..+.+. . ....++|--. +-+...|.+... ..++|+.|++.=.=+.
T Consensus 144 yTyG~VeEv~~~--~-v~V~V~dDI~ANVkPg~YwV~~~~------------------------d~~~G~vVKl~VE~r~ 196 (206)
T PF09874_consen 144 YTYGVVEEVKEN--L-VRVFVHDDIAANVKPGYYWVEAVP------------------------DVEEGDVVKLLVEERT 196 (206)
T ss_pred ceeEEEEEecCC--E-EEEEEccchhhcCCCCeEEecCCC------------------------CCCCCceEEEEEeccc
Confidence 335777665443 2 4555555443 467788877643 4679999886544445
Q ss_pred eCCceEEE
Q 043474 118 YRGDVQIT 125 (160)
Q Consensus 118 f~~~~qi~ 125 (160)
++|.+-++
T Consensus 197 ~rg~~Pvr 204 (206)
T PF09874_consen 197 LRGARPVR 204 (206)
T ss_pred ccCCCCee
Confidence 88876554
No 176
>PF13296 T6SS_Vgr: Putative type VI secretion system Rhs element Vgr
Probab=32.45 E-value=35 Score=23.89 Aligned_cols=21 Identities=24% Similarity=0.422 Sum_probs=17.5
Q ss_pred eEEEEEeCCCceEEEEEeecC
Q 043474 55 FIKFTVDDGTGCVPCVLWLNH 75 (160)
Q Consensus 55 ~~~~~IdDgTG~I~~~~w~~~ 75 (160)
|=.+.+||.+|.+.+.+-.+.
T Consensus 9 ~Nql~~DDt~gQ~~~qL~S~~ 29 (109)
T PF13296_consen 9 YNQLVFDDTPGQIRAQLSSDH 29 (109)
T ss_pred CCEEEEecCCCcceEEEeccc
Confidence 448999999999999986554
No 177
>COG1599 RFA1 Single-stranded DNA-binding replication protein A (RPA), large (70 kD) subunit and related ssDNA-binding proteins [DNA replication, recombination, and repair]
Probab=32.35 E-value=54 Score=28.00 Aligned_cols=36 Identities=17% Similarity=0.199 Sum_probs=23.6
Q ss_pred EEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecC
Q 043474 40 EIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNH 75 (160)
Q Consensus 40 ~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~ 75 (160)
..|..+..............++|+||.+....|...
T Consensus 285 ~~c~~~~~~~~~~~~~~~~~l~D~~g~~rv~~~~~~ 320 (407)
T COG1599 285 PECERVVRKGGCKGHGKDIGLDDLTGKIRVTLWGDA 320 (407)
T ss_pred CCceEEEeCCCcccccccceEecCceEEEEecCCCc
Confidence 334444333332234467889999999999999853
No 178
>PF11495 Regulator_TrmB: Archaeal transcriptional regulator TrmB; InterPro: IPR021586 TrmB is an alpha-glucoside sensing transcriptional regulator. The protein is the transcriptional repressor for gene cluster encoding trehalose/maltose ABC transporter in T.litoralis and P.furiosus []. TrmB has lost its DNA binding domain but retained its sugar recognition site. A nonreducing glucosyl residue is shared by all substrates bound to TrmB which suggests that its a common recognition motif []. ; PDB: 3QPH_A 2F5T_X.
Probab=32.05 E-value=1.1e+02 Score=23.71 Aligned_cols=71 Identities=18% Similarity=0.186 Sum_probs=41.2
Q ss_pred CCccccccceehhhhhccCCCCCCCceEECCeE---eeEEEEEEEEEE--eeccCCceEEEEEeCCCceEEEEEeec
Q 043474 3 HTLQNTHVKLLAFDLLSLTPTPDPATFSRSGKL---LSRAEIVGTITS--RDHKPSKFIKFTVDDGTGCVPCVLWLN 74 (160)
Q Consensus 3 ~p~~~~~~~l~i~~i~~l~~~~~~~~~~~~~~~---i~~v~ivG~V~~--~~~~~~~~~~~~IdDgTG~I~~~~w~~ 74 (160)
-|....+-+..+.||..+-..+..-.-.+.|+. -..+.+-|.|++ .+..+. ..+|+|+...|.+.+-=|..
T Consensus 144 ~p~~y~~~r~~v~~~~~~l~~g~~~~~~v~G~~~~t~~~~~i~G~v~~~~~~~~~~-~~~~~vet~~g~~~VGG~~A 219 (233)
T PF11495_consen 144 LPRTYASIRHAVRDIKLLLREGYPIYATVEGRDVETGEPVTITGRVVDVRFNSFPG-VASFTVETDDGEVTVGGWGA 219 (233)
T ss_dssp T-EEES-HHHHHHHHHHHT-TTS-EEEEEEEEETTT--EEEEEEEEEEEEEETTTT-EEEEEEEETTEEEEEE-TT-
T ss_pred CCeehHHHHHHHHHHHHHhhcCCceEEEEEEEEcCCCCceEEEEEEEEEEeccCCc-eeEEEEEeCCceEEecCccc
Confidence 355566667777887775433222122244443 257888999999 555554 46899999999766654533
No 179
>PRK06763 F0F1 ATP synthase subunit alpha; Validated
Probab=31.43 E-value=1.2e+02 Score=23.67 Aligned_cols=15 Identities=20% Similarity=0.525 Sum_probs=12.3
Q ss_pred cccccCcEEEEEEEe
Q 043474 101 AKIKIGLVARVRGRI 115 (160)
Q Consensus 101 ~~~~~G~~V~V~G~v 115 (160)
...++|++|++.|.+
T Consensus 73 ~nvKVGD~VKaTG~m 87 (213)
T PRK06763 73 SNVKVGDEVKATGSM 87 (213)
T ss_pred CCcccCcEEEEchHH
Confidence 467899999999875
No 180
>cd05695 S1_Rrp5_repeat_hs3 S1_Rrp5_repeat_hs3: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 3 (hs3). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=30.23 E-value=1.3e+02 Score=18.31 Aligned_cols=25 Identities=12% Similarity=0.115 Sum_probs=16.0
Q ss_pred EEEEEEEeeccCCceEEEEEeCC-CceEE
Q 043474 41 IVGTITSRDHKPSKFIKFTVDDG-TGCVP 68 (160)
Q Consensus 41 ivG~V~~~~~~~~~~~~~~IdDg-TG~I~ 68 (160)
+-|.|..+.... +...|.|+ .|.+.
T Consensus 4 V~g~V~~i~~~G---~~v~l~~~v~g~v~ 29 (66)
T cd05695 4 VNARVKKVLSNG---LILDFLSSFTGTVD 29 (66)
T ss_pred EEEEEEEEeCCc---EEEEEcCCceEEEE
Confidence 457888886554 67777765 44443
No 181
>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 10 (sc10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=28.39 E-value=1.5e+02 Score=18.14 Aligned_cols=25 Identities=16% Similarity=0.250 Sum_probs=15.2
Q ss_pred EEEEEEEeeccCCceEEEEEeCC-CceEE
Q 043474 41 IVGTITSRDHKPSKFIKFTVDDG-TGCVP 68 (160)
Q Consensus 41 ivG~V~~~~~~~~~~~~~~IdDg-TG~I~ 68 (160)
+-|.|.++.... +.+.|+.+ +|.+.
T Consensus 7 v~g~V~~v~~~g---i~v~l~~~~~g~v~ 32 (73)
T cd05706 7 LPGRVTKVNDRY---VLVQLGNKVTGPSF 32 (73)
T ss_pred EEEEEEEEeCCe---EEEEeCCCcEEEEE
Confidence 457777775543 67778765 34443
No 182
>PRK12329 nusA transcription elongation factor NusA; Provisional
Probab=28.09 E-value=1.7e+02 Score=25.65 Aligned_cols=66 Identities=15% Similarity=0.122 Sum_probs=40.5
Q ss_pred EEEEEEEeeccCCceEEEEEeCCCce--EEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEE-ece
Q 043474 41 IVGTITSRDHKPSKFIKFTVDDGTGC--VPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGR-IAS 117 (160)
Q Consensus 41 ivG~V~~~~~~~~~~~~~~IdDgTG~--I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~-v~~ 117 (160)
+.|.|...+.++ +.+.|.|+-|. +++.+...... ....++.|+.|++.=. |+.
T Consensus 156 V~G~V~r~e~~~---viv~l~~~~g~~~~EaiLP~~Eqi---------------------p~E~y~~Gdrika~i~~V~~ 211 (449)
T PRK12329 156 LTARVLRFERQS---VIMAVSSGFGQPEVEAELPKREQL---------------------PNDNYRANATFKVFLKEVSE 211 (449)
T ss_pred EEEEEEEEcCCC---EEEEecccCCCcceEEEecHHHcC---------------------CCCcCCCCCEEEEEEEEeec
Confidence 567777765442 56667665564 88888655432 2367999999887633 322
Q ss_pred e-CCceEEEEEEEE
Q 043474 118 Y-RGDVQITVSDVV 130 (160)
Q Consensus 118 f-~~~~qi~~~~i~ 130 (160)
- +.-.||.+++-.
T Consensus 212 ~~~kGpqIilSRt~ 225 (449)
T PRK12329 212 GPRRGPQLFVSRAN 225 (449)
T ss_pred CCCCCCEEEEEcCC
Confidence 2 123577777544
No 183
>PF12658 Ten1: Telomere capping, CST complex subunit; InterPro: IPR024222 Stn1 and Ten1 are DNA-binding proteins with specificity for telomeric DNA substrates and both protect chromosome termini from unregulated resection and regulate telomere length. Stn1 complexes with Ten1 and Cdc13 to function as a telomere-specific replication protein A (RPA)-like complex []. These three interacting proteins associate with the telomeric overhang in budding yeast, whereas a single protein known as Pot1 (protection of telomeres-1) performs this function in fission yeast, and a two-subunit complex consisting of POT1 and TPP1 associates with telomeric ssDNA in humans. S.pombe has Stn1- and Ten1-like proteins that are essential for chromosome end protection. Stn1 orthologues exist in all species that have Pot1, whereas Ten1-like proteins can be found in all fungi. Fission yeast Stn1 and Ten1 localise at telomeres in a manner that correlates with the length of the ssDNA overhang, suggesting that they specifically associate with the telomeric ssDNA. Two separate protein complexes are required for chromosome end protection in fission yeast. Protection of telomeres by multiple proteins with OB-fold domains is conserved in eukaryotic evolution [].; PDB: 3KF8_D 3KF6_B 3K0X_A.
Probab=27.17 E-value=2.3e+02 Score=20.10 Aligned_cols=81 Identities=12% Similarity=0.121 Sum_probs=44.7
Q ss_pred EeeEEEEEEEEEEeeccCCceEEEEEeCCC-----ce-EEEEEeecCccCCCCCCCCCCccccccccccccccccccCcE
Q 043474 35 LLSRAEIVGTITSRDHKPSKFIKFTVDDGT-----GC-VPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLV 108 (160)
Q Consensus 35 ~i~~v~ivG~V~~~~~~~~~~~~~~IdDgT-----G~-I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~ 108 (160)
+-.+|++.|.|.+.+... -.++|...- +. -.+.+....-- .+ -....+++|..
T Consensus 24 ~g~KVRfLgcV~~Y~~~~---~~L~l~h~~p~~~~~~~~~v~VdI~~vL---------------~t---v~~~~~rvG~W 82 (124)
T PF12658_consen 24 PGDKVRFLGCVSSYDTST---GTLTLEHNYPRENDSQPSSVSVDINLVL---------------ET---VSSEELRVGEW 82 (124)
T ss_dssp CTEEEEEEEEEEEEECCC---TEEEEEETCCC---S----EEEE-TTTT---------------TT---S-GGGGSTT-E
T ss_pred CCCEEEEEEEEeEEecCc---cEEEEeecCCCCcCCCCceEEEEHHHHh---------------hh---cCccceecceE
Confidence 348999999999988665 256666621 11 11222222211 01 13357899999
Q ss_pred EEEEEEeceeCC---c--eEEEEEEEEEcCChh
Q 043474 109 ARVRGRIASYRG---D--VQITVSDVVIEKDPN 136 (160)
Q Consensus 109 V~V~G~v~~f~~---~--~qi~~~~i~~v~d~n 136 (160)
|-|.|.++.... . ..+.+-.|.+....+
T Consensus 83 vNV~Gy~~~~~~~~~~~~v~Vqai~i~~ag~~d 115 (124)
T PF12658_consen 83 VNVVGYIRGEKPSQTQSPVYVQAIMIWSAGPID 115 (124)
T ss_dssp EEEEEEEECTT--------EEEEEEEEE-TCGG
T ss_pred EEEEEEecccccccccccceEEEEEEEecCchh
Confidence 999999987652 2 235555566655443
No 184
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=25.71 E-value=1.3e+02 Score=18.29 Aligned_cols=50 Identities=22% Similarity=0.272 Sum_probs=27.9
Q ss_pred EEEEEEEeeccCCceEEEEEe-CCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 41 IVGTITSRDHKPSKFIKFTVD-DGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 41 ivG~V~~~~~~~~~~~~~~Id-DgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
+-|.|.+++... +...|. .-+|.|...-+..... ......+++|+.|++.
T Consensus 8 v~g~V~~v~~~g---~~V~l~~~~~g~ip~~~l~~~~~-------------------~~~~~~~~~G~~v~v~ 58 (74)
T PF00575_consen 8 VEGKVTSVEDFG---VFVDLGNGIEGFIPISELSDDRI-------------------DDPSEVYKIGQTVRVK 58 (74)
T ss_dssp EEEEEEEEETTE---EEEEESTSSEEEEEGGGSSSSEE-------------------SSSHGTCETTCEEEEE
T ss_pred EEEEEEEEECCE---EEEEECCcEEEEEEeehhcCccc-------------------cccccccCCCCEEEEE
Confidence 568888888753 566666 3334444332222100 1133678899988664
No 185
>cd04477 RPA1N RPA1N: A subfamily of OB folds corresponding to the N-terminal OB-fold domain 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). RPA1N is known to specifically interact with the p53 tumor suppressor, DNA polymerase alpha, and transcription factors. In addition to RPA1N, RPA1 contains three other OB folds: ssDNA-binding domain (DBD)-A, DBD-B, and DBD-C.
Probab=25.31 E-value=2.2e+02 Score=19.20 Aligned_cols=59 Identities=14% Similarity=0.161 Sum_probs=36.4
Q ss_pred ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE-EEeceeCCceEEEEEEEEE
Q 043474 54 KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR-GRIASYRGDVQITVSDVVI 131 (160)
Q Consensus 54 ~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~-G~v~~f~~~~qi~~~~i~~ 131 (160)
+...+.|.||+=.+.|.+-..-.. .-....++.|.+|++. -.....++++-|.+..++.
T Consensus 36 ~RyRi~lSDG~~~~~amLatqln~-------------------~v~~g~l~~~sIirl~~y~~~~i~~k~viiIldlev 95 (97)
T cd04477 36 ERYRILLSDGVYYVQAMLATQLNP-------------------LVESGQLQRGSIIRLKRFICNVIKGKRILIILDLEV 95 (97)
T ss_pred ceEEEEEEChhHHHHHHHhhhhhh-------------------HHhcCCccCCcEEEECeEEEEEecCcEEEEEEeeEE
Confidence 345999999986665544211111 1123578999999985 3344556777666666654
No 186
>PF06079 Apyrase: Apyrase; InterPro: IPR009283 This family consists of several eukaryotic apyrase (or adenosine diphosphatase) proteins (3.6.1.5 from EC), and related nucleoside diphosphatases (3.6.1.6 from EC). The salivary apyrases of blood-feeding arthropods are nucleotide hydrolysing enzymes implicated in the inhibition of host platelet aggregation through the hydrolysis of extracellular adenosine diphosphate [].; GO: 0005509 calcium ion binding, 0016462 pyrophosphatase activity; PDB: 2H2N_A 1S18_A 2H2U_A 1S1D_B.
Probab=24.55 E-value=54 Score=27.02 Aligned_cols=11 Identities=45% Similarity=0.740 Sum_probs=8.7
Q ss_pred EEEEeCCCceE
Q 043474 57 KFTVDDGTGCV 67 (160)
Q Consensus 57 ~~~IdDgTG~I 67 (160)
.|++||+||.|
T Consensus 66 Lys~DDrTGiV 76 (291)
T PF06079_consen 66 LYSFDDRTGIV 76 (291)
T ss_dssp EEEEETTT-EE
T ss_pred EeeeeCCCceE
Confidence 79999999974
No 187
>smart00424 STE STE like transcription factors.
Probab=24.30 E-value=80 Score=21.78 Aligned_cols=20 Identities=35% Similarity=0.921 Sum_probs=16.9
Q ss_pred EEEEeCCCceEEEEEeecCc
Q 043474 57 KFTVDDGTGCVPCVLWLNHL 76 (160)
Q Consensus 57 ~~~IdDgTG~I~~~~w~~~~ 76 (160)
.|.|-.+-|-|.|++|..-.
T Consensus 6 ry~l~~~eg~vsCV~Wn~l~ 25 (111)
T smart00424 6 RYYLPNGEGFVSCVFWNNLY 25 (111)
T ss_pred eEecCCCCceEEEEEEccEe
Confidence 57788889999999998764
No 188
>cd04455 S1_NusA S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three RNA binding domains (RBD's). The RBD's include one S1 domain and two KH domains that form an RNA binding surface. DNA transcription by RNA polymerase (RNAP) includes three phases - initiation, elongation, and termination. During initiation, sigma factors bind RNAP and target RNAP to specific promoters. During elongation, N-utilization substances (NusA, B, E, and G) replace sigma factors and regulate pausing, termination, and antitermination. NusA is cold-shock-inducible.
Probab=23.73 E-value=1.8e+02 Score=17.68 Aligned_cols=44 Identities=11% Similarity=0.114 Sum_probs=26.3
Q ss_pred EEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 41 IVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 41 ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
+-|.|+++.... +.+.+. | +++.+...... ..+.++.|+.|++.
T Consensus 7 V~G~V~~~~~~~---~~vdig---~-~eg~lp~~e~~---------------------~~~~~~~Gd~v~v~ 50 (67)
T cd04455 7 VTGIVKRVDRGN---VIVDLG---K-VEAILPKKEQI---------------------PGESYRPGDRIKAY 50 (67)
T ss_pred EEEEEEEEcCCC---EEEEcC---C-eEEEeeHHHCC---------------------CCCcCCCCCEEEEE
Confidence 568888876653 445553 2 67777644321 11357899988654
No 189
>PF03459 TOBE: TOBE domain; InterPro: IPR005116 The TOBE domain [] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. It is probably involved in the recognition of small ligands such as molybdenum (P46930 from SWISSPROT) and sulphate (P16676 from SWISSPROT), and is found in ABC transporters immediately after the ATPase domain.; GO: 0005215 transporter activity, 0005524 ATP binding, 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0006810 transport, 0043190 ATP-binding cassette (ABC) transporter complex; PDB: 1G29_2 1H9M_B 1H9J_A 1H9K_A 1H9R_B 1O7L_C 1H9S_A 1B9N_A 1B9M_A 1GUS_C ....
Probab=23.07 E-value=1.8e+02 Score=17.28 Aligned_cols=34 Identities=21% Similarity=0.274 Sum_probs=22.8
Q ss_pred EEEEEEEEeeccCCceEEEEEeCCCce-EEEEEeec
Q 043474 40 EIVGTITSRDHKPSKFIKFTVDDGTGC-VPCVLWLN 74 (160)
Q Consensus 40 ~ivG~V~~~~~~~~~~~~~~IdDgTG~-I~~~~w~~ 74 (160)
.+-|.|..++..+ ....++++=+.|. |.|.+-..
T Consensus 6 ~l~g~V~~ie~~g-~~~~v~~~~~~~~~l~a~it~~ 40 (64)
T PF03459_consen 6 QLPGTVESIENLG-SEVEVTLDLGGGETLTARITPE 40 (64)
T ss_dssp EEEEEEEEEEESS-SEEEEEEEETTSEEEEEEEEHH
T ss_pred EEEEEEEEEEECC-CeEEEEEEECCCCEEEEEEcHH
Confidence 3568888888766 3356666666666 88887543
No 190
>TIGR00849 gutA PTS system, glucitol/sorbitol-specific IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. This family consists only of glucitol-specific transporters, and occur both in Gram-negative and Gram-positive bacteria.The system in E.Coli consists of a IIA protein, and a IIBC protein. This family is specific for the IIA component.
Probab=22.20 E-value=1.9e+02 Score=20.54 Aligned_cols=64 Identities=17% Similarity=0.196 Sum_probs=41.8
Q ss_pred CCceEECCeEeeEEEEEEEEEEeeccCCceEEEEEeCCCc-eEEEEEeecCccCCCCCCCCCCccccccccccccccccc
Q 043474 26 PATFSRSGKLLSRAEIVGTITSRDHKPSKFIKFTVDDGTG-CVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIK 104 (160)
Q Consensus 26 ~~~~~~~~~~i~~v~ivG~V~~~~~~~~~~~~~~IdDgTG-~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 (160)
.+.+.++++ --.|.-||.+++.+-++-..+++..|..+- .++.-+...... .+.++
T Consensus 55 Gd~l~i~~~-~Y~ItaVG~~a~~NL~~LGHiTi~F~g~~~~~lpG~I~v~~~~----------------------~p~i~ 111 (121)
T TIGR00849 55 GQVFMIGGI-AYPVTAVGDVAEKNLRSLGHITVRFDGSNVAEFPGTVHVEGKE----------------------PPKIK 111 (121)
T ss_pred CCEEEECCE-EEEEEEEhHHHHHHHHhcCCEEEEECCCCCcccCCEEEEcCCC----------------------CCcCC
Confidence 356777776 456677888888776664447777776553 455555544321 25688
Q ss_pred cCcEEEEE
Q 043474 105 IGLVARVR 112 (160)
Q Consensus 105 ~G~~V~V~ 112 (160)
.|+.+++.
T Consensus 112 ~G~~I~i~ 119 (121)
T TIGR00849 112 PGSKFSIV 119 (121)
T ss_pred CCCEEEEE
Confidence 99988775
No 191
>PF07532 Big_4: Bacterial Ig-like domain (group 4); InterPro: IPR011081 This entry represents bacterial domains with an Ig-like fold. These domains are found in a variety of bacterial surface proteins.
Probab=21.22 E-value=2e+02 Score=17.14 Aligned_cols=41 Identities=22% Similarity=0.169 Sum_probs=26.9
Q ss_pred ceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEece
Q 043474 54 KFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIAS 117 (160)
Q Consensus 54 ~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~ 117 (160)
+-+..+..||+-.=.-+.|...+. ...-+.|. ..+.|++.-
T Consensus 18 ~~V~v~~~dGs~~~~~V~W~~~~~----------------------~~~~~~G~-y~v~G~v~G 58 (59)
T PF07532_consen 18 ETVTVTYSDGSTEEVPVTWDPIDP----------------------YDYNKPGT-YTVTGTVEG 58 (59)
T ss_pred CEEEEEECCCCEEEEEeEeCCCCh----------------------hhccCCEE-EEEEEEEec
Confidence 347999999998645566984322 02234666 788888763
No 192
>smart00316 S1 Ribosomal protein S1-like RNA-binding domain.
Probab=21.21 E-value=1.8e+02 Score=16.80 Aligned_cols=24 Identities=21% Similarity=0.318 Sum_probs=14.2
Q ss_pred cccccCcEEEEEEEeceeCC-ceEEEE
Q 043474 101 AKIKIGLVARVRGRIASYRG-DVQITV 126 (160)
Q Consensus 101 ~~~~~G~~V~V~G~v~~f~~-~~qi~~ 126 (160)
..+++|+.+++ +|...+. +.++.+
T Consensus 45 ~~~~~G~~v~~--~V~~~~~~~~~i~l 69 (72)
T smart00316 45 EVLKVGDEVKV--KVLSVDEEKGRIIL 69 (72)
T ss_pred HeecCCCEEEE--EEEEEeCCCCEEEE
Confidence 45899998865 4544442 244443
No 193
>PLN00208 translation initiation factor (eIF); Provisional
Probab=21.07 E-value=3.5e+02 Score=19.96 Aligned_cols=55 Identities=16% Similarity=0.085 Sum_probs=32.1
Q ss_pred EEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEEEEeceeC
Q 043474 40 EIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVRGRIASYR 119 (160)
Q Consensus 40 ~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~G~v~~f~ 119 (160)
.++|.|+..-.. ..+...+.||.= .-|.+-.+- ...-.+..|++|.|. +..|.
T Consensus 33 q~~g~V~~~lGn--~~~~V~c~dG~~-rLa~IpGKm----------------------RKrIWI~~GD~VlVe--l~~~d 85 (145)
T PLN00208 33 QEYAQVLRMLGN--GRCEALCIDGTK-RLCHIRGKM----------------------RKKVWIAAGDIILVG--LRDYQ 85 (145)
T ss_pred cEEEEEEEEcCC--CEEEEEECCCCE-EEEEEeccc----------------------eeeEEecCCCEEEEE--ccCCC
Confidence 466777776544 345666667642 334332111 012467899999998 77776
Q ss_pred Cc
Q 043474 120 GD 121 (160)
Q Consensus 120 ~~ 121 (160)
..
T Consensus 86 ~~ 87 (145)
T PLN00208 86 DD 87 (145)
T ss_pred CC
Confidence 44
No 194
>PRK05807 hypothetical protein; Provisional
Probab=21.00 E-value=3.2e+02 Score=19.52 Aligned_cols=29 Identities=14% Similarity=0.305 Sum_probs=17.9
Q ss_pred cccccCcEEEEE-EEeceeCCceEEEEEEEE
Q 043474 101 AKIKIGLVARVR-GRIASYRGDVQITVSDVV 130 (160)
Q Consensus 101 ~~~~~G~~V~V~-G~v~~f~~~~qi~~~~i~ 130 (160)
..+++|+.|+|. -.+.. .++..|.+..+.
T Consensus 47 ~~~kvGd~V~VkV~~id~-~gkI~LSlk~~~ 76 (136)
T PRK05807 47 EHLKEQDKVKVKVISIDD-NGKISLSIKQAM 76 (136)
T ss_pred ccCCCCCEEEEEEEEECC-CCcEEEEEEecc
Confidence 468999999776 33333 455555555543
No 195
>PF09739 MCM_bind: Mini-chromosome maintenance replisome factor; InterPro: IPR019140 This entry represents a family of proteins which are approximately 600 residues in length and contain alternating regions of conservation and low complexity. They are associated components of the mini-chromosome maintenance (MCM) complex that acts as a regulator of DNA replication. They bind to the MCM complex during late S phase and promotes the disassembly of the MCM complex from chromatin, thereby acting as a key regulator of pre-replication complex (pre-RC) unloading from replicated DNA. Can dissociate the MCM complex without addition of ATP; probably acts by destabilising interactions of each individual subunits of the MCM complex. Required for sister chromatid cohesion [, ].
Probab=20.63 E-value=84 Score=22.33 Aligned_cols=28 Identities=21% Similarity=0.419 Sum_probs=19.6
Q ss_pred cccccCcEEEEEEEece-eCCceEEEEEE
Q 043474 101 AKIKIGLVARVRGRIAS-YRGDVQITVSD 128 (160)
Q Consensus 101 ~~~~~G~~V~V~G~v~~-f~~~~qi~~~~ 128 (160)
..++.|.+||.+|.|+. |.-...+....
T Consensus 22 ~~l~~~sLVRfRgMIQDm~~pE~Y~~~~~ 50 (123)
T PF09739_consen 22 HDLKPGSLVRFRGMIQDMFDPEFYLGAYE 50 (123)
T ss_pred hhCCCCCEEEEEEEeecCCCCEEeeeeee
Confidence 56889999999999985 33334444443
No 196
>PF03843 Slp: Outer membrane lipoprotein Slp family; InterPro: IPR004658 Slp superfamily members are present in the Gram-negative gamma proteobacteria Escherichia coli (which also contains a close paralog), Haemophilus influenzae and Pasteurella multocida and Vibrio cholerae. The known members of the family to date share a motif LX[GA]C near the N terminus, which is compatible with the possibility that the protein is modified into a lipoprotein with Cys as the new N terminus. Slp from E. coli is known to be a lipoprotein of the outer membrane and to be expressed in response to carbon starvation.; GO: 0019867 outer membrane
Probab=20.29 E-value=3.7e+02 Score=19.89 Aligned_cols=19 Identities=21% Similarity=0.261 Sum_probs=16.1
Q ss_pred cccccCcEEEEEEEeceeC
Q 043474 101 AKIKIGLVARVRGRIASYR 119 (160)
Q Consensus 101 ~~~~~G~~V~V~G~v~~f~ 119 (160)
..+..|..|.|.|+|..-.
T Consensus 89 ~~y~~Gr~vTV~G~v~g~~ 107 (160)
T PF03843_consen 89 AIYAPGRLVTVVGTVTGME 107 (160)
T ss_pred HHcCCCCEEEEEEEecceE
Confidence 5788999999999997643
No 197
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=20.09 E-value=91 Score=15.17 Aligned_cols=11 Identities=27% Similarity=0.431 Sum_probs=8.5
Q ss_pred cccCcEEEEEE
Q 043474 103 IKIGLVARVRG 113 (160)
Q Consensus 103 ~~~G~~V~V~G 113 (160)
+++|+.|+|.+
T Consensus 2 ~~~G~~V~I~~ 12 (28)
T smart00739 2 FEVGDTVRVIA 12 (28)
T ss_pred CCCCCEEEEeE
Confidence 46788888876
No 198
>PRK00276 infA translation initiation factor IF-1; Validated
Probab=20.01 E-value=2.4e+02 Score=17.73 Aligned_cols=51 Identities=16% Similarity=0.102 Sum_probs=28.7
Q ss_pred EEEEEEEEEEeeccCCceEEEEEeCCCceEEEEEeecCccCCCCCCCCCCccccccccccccccccccCcEEEEE
Q 043474 38 RAEIVGTITSRDHKPSKFIKFTVDDGTGCVPCVLWLNHLTSLYLPRRDPSTVRLIAGVATDFAAKIKIGLVARVR 112 (160)
Q Consensus 38 ~v~ivG~V~~~~~~~~~~~~~~IdDgTG~I~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~V~V~ 112 (160)
.+++-|.|+..-.. .+....++|| -.+.|++-..--. ....+.+||.|.+.
T Consensus 6 ~~~~~G~Vi~~~~~--~~y~V~~~~g-~~~~c~~~Gklr~---------------------~~i~i~vGD~V~ve 56 (72)
T PRK00276 6 VIEMEGTVVEALPN--AMFRVELENG-HEVLAHISGKMRK---------------------NYIRILPGDKVTVE 56 (72)
T ss_pred eEEEEEEEEEEcCC--CEEEEEeCCC-CEEEEEEccceee---------------------CCcccCCCCEEEEE
Confidence 45667888875433 2334444554 2688875322211 11346789999776
Done!