Query 028557
Match_columns 207
No_of_seqs 162 out of 1139
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 13:22:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028557.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028557hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06752 single-stranded DNA-b 100.0 3.3E-30 7.1E-35 198.9 15.5 103 85-187 1-109 (112)
2 PRK07459 single-stranded DNA-b 100.0 5.6E-30 1.2E-34 200.7 16.8 103 85-187 2-107 (121)
3 PRK07275 single-stranded DNA-b 100.0 6.8E-30 1.5E-34 209.4 16.7 102 85-186 1-108 (162)
4 PRK06751 single-stranded DNA-b 100.0 3.4E-29 7.3E-34 207.2 15.9 104 85-188 1-110 (173)
5 PRK07274 single-stranded DNA-b 100.0 1.1E-28 2.4E-33 195.5 15.7 102 85-187 1-108 (131)
6 PRK08486 single-stranded DNA-b 100.0 1.6E-28 3.5E-33 204.6 16.5 103 85-187 1-111 (182)
7 PRK08763 single-stranded DNA-b 100.0 3.3E-28 7.3E-33 199.7 17.6 106 83-188 2-115 (164)
8 PRK06293 single-stranded DNA-b 100.0 3.7E-28 8.1E-33 198.7 16.6 101 86-186 1-104 (161)
9 PRK06958 single-stranded DNA-b 100.0 8.6E-28 1.9E-32 200.0 16.8 105 83-187 1-114 (182)
10 PRK06642 single-stranded DNA-b 100.0 1.5E-27 3.2E-32 193.7 16.8 104 84-187 3-120 (152)
11 PRK08182 single-stranded DNA-b 100.0 1.5E-27 3.2E-32 193.0 15.6 102 85-186 1-115 (148)
12 PRK06863 single-stranded DNA-b 100.0 1.8E-27 4E-32 196.0 16.2 104 83-186 1-113 (168)
13 TIGR00621 ssb single stranded 100.0 3.8E-27 8.2E-32 193.2 17.3 103 83-185 1-111 (164)
14 PRK13732 single-stranded DNA-b 99.9 7.8E-27 1.7E-31 193.4 17.2 104 85-189 5-120 (175)
15 PRK09010 single-stranded DNA-b 99.9 5.4E-27 1.2E-31 194.6 16.1 104 84-187 4-119 (177)
16 PRK06341 single-stranded DNA-b 99.9 1.4E-26 3.1E-31 190.4 17.2 105 82-186 1-119 (166)
17 PRK05733 single-stranded DNA-b 99.9 1.7E-26 3.6E-31 190.9 16.9 105 82-187 1-117 (172)
18 PF00436 SSB: Single-strand bi 99.9 6.4E-26 1.4E-30 169.8 14.0 96 86-181 1-104 (104)
19 PRK05813 single-stranded DNA-b 99.9 4.5E-25 9.8E-30 188.6 15.6 102 84-186 107-212 (219)
20 PRK07772 single-stranded DNA-b 99.9 2.2E-24 4.8E-29 180.3 15.2 97 83-179 1-107 (186)
21 PRK02801 primosomal replicatio 99.9 3.5E-24 7.6E-29 163.0 14.3 94 85-182 1-101 (101)
22 COG0629 Ssb Single-stranded DN 99.9 7.9E-24 1.7E-28 173.7 12.7 102 85-186 2-116 (167)
23 cd04496 SSB_OBF SSB_OBF: A sub 99.9 8.4E-22 1.8E-26 146.0 15.0 93 89-181 1-100 (100)
24 PRK05853 hypothetical protein; 99.9 2.8E-22 6E-27 164.2 13.3 89 91-180 1-98 (161)
25 PRK05813 single-stranded DNA-b 99.8 2.3E-19 5.1E-24 153.5 15.3 98 85-186 7-105 (219)
26 KOG1653 Single-stranded DNA-bi 99.7 2.6E-17 5.6E-22 133.8 8.3 103 82-184 51-167 (175)
27 COG2965 PriB Primosomal replic 98.7 2.4E-07 5.1E-12 70.1 11.5 96 83-182 1-103 (103)
28 PRK00036 primosomal replicatio 98.7 1.1E-07 2.3E-12 73.3 9.2 90 86-182 1-97 (107)
29 PF01336 tRNA_anti-codon: OB-f 97.9 0.00011 2.4E-09 50.9 8.8 75 89-181 1-75 (75)
30 cd04484 polC_OBF polC_OBF: A s 97.2 0.0031 6.8E-08 46.0 8.1 67 88-161 1-69 (82)
31 cd04489 ExoVII_LU_OBF ExoVII_L 97.1 0.011 2.3E-07 41.6 10.1 74 89-179 2-75 (78)
32 cd04492 YhaM_OBF_like YhaM_OBF 96.9 0.015 3.3E-07 40.7 9.5 73 96-183 6-78 (83)
33 cd03524 RPA2_OBF_family RPA2_O 96.8 0.028 6.2E-07 37.3 9.9 60 91-158 2-62 (75)
34 cd04487 RecJ_OBF2_like RecJ_OB 96.8 0.012 2.7E-07 42.0 8.1 73 89-181 1-73 (73)
35 cd04485 DnaE_OBF DnaE_OBF: A s 96.7 0.018 3.9E-07 39.9 8.5 77 91-182 2-78 (84)
36 cd04474 RPA1_DBD_A RPA1_DBD_A: 96.6 0.012 2.5E-07 44.6 7.4 68 84-155 7-77 (104)
37 cd04482 RPA2_OBF_like RPA2_OBF 96.0 0.072 1.6E-06 39.5 8.8 72 90-182 2-75 (91)
38 cd04490 PolII_SU_OBF PolII_SU_ 96.0 0.19 4.1E-06 36.3 10.7 73 89-182 2-76 (79)
39 PRK07211 replication factor A; 95.8 0.072 1.6E-06 50.9 9.9 68 84-156 61-133 (485)
40 PF13742 tRNA_anti_2: OB-fold 95.5 0.35 7.6E-06 36.3 10.9 77 86-179 21-98 (99)
41 PF11325 DUF3127: Domain of un 94.8 0.37 8.1E-06 35.7 8.9 80 91-178 2-83 (84)
42 COG3390 Uncharacterized protei 94.2 0.26 5.7E-06 41.7 7.7 89 83-181 42-130 (196)
43 PRK06461 single-stranded DNA-b 94.1 0.37 7.9E-06 38.0 8.0 63 85-156 13-79 (129)
44 PRK13480 3'-5' exoribonuclease 94.0 0.34 7.4E-06 43.9 8.8 74 95-183 19-92 (314)
45 PRK07373 DNA polymerase III su 93.8 0.54 1.2E-05 44.6 10.1 81 87-182 281-361 (449)
46 cd04491 SoSSB_OBF SoSSB_OBF: A 93.8 0.37 8.1E-06 34.3 7.0 59 91-157 2-64 (82)
47 cd04320 AspRS_cyto_N AspRS_cyt 93.7 1.9 4E-05 32.0 10.9 86 88-184 1-92 (102)
48 PF11506 DUF3217: Protein of u 93.6 2.1 4.6E-05 32.0 10.6 80 85-169 1-83 (104)
49 cd04475 RPA1_DBD_B RPA1_DBD_B: 93.3 0.96 2.1E-05 33.4 8.8 68 89-161 2-72 (101)
50 PRK15491 replication factor A; 93.1 0.36 7.9E-06 44.7 7.4 66 84-154 65-135 (374)
51 cd04488 RecG_wedge_OBF RecG_we 93.0 0.69 1.5E-05 31.1 7.0 60 91-158 2-61 (75)
52 PRK07211 replication factor A; 92.9 0.34 7.4E-06 46.4 7.2 66 85-156 170-240 (485)
53 PRK15491 replication factor A; 92.7 0.46 9.9E-06 44.0 7.6 72 85-160 175-249 (374)
54 PRK00286 xseA exodeoxyribonucl 92.6 1.2 2.5E-05 41.7 10.2 79 86-181 23-101 (438)
55 PRK05673 dnaE DNA polymerase I 92.5 0.77 1.7E-05 48.3 9.7 81 87-182 978-1058(1135)
56 TIGR00237 xseA exodeoxyribonuc 92.5 1.1 2.4E-05 42.2 9.9 78 86-180 17-94 (432)
57 cd04100 Asp_Lys_Asn_RS_N Asp_L 92.3 2.6 5.6E-05 30.1 9.7 81 88-182 1-84 (85)
58 cd04317 EcAspRS_like_N EcAspRS 92.2 2.8 6E-05 32.7 10.4 87 87-184 15-104 (135)
59 PRK14699 replication factor A; 92.0 0.48 1.1E-05 45.4 6.9 69 85-160 66-139 (484)
60 cd04323 AsnRS_cyto_like_N AsnR 91.6 3 6.6E-05 29.8 9.3 81 88-182 1-83 (84)
61 PRK12366 replication factor A; 91.2 1.3 2.9E-05 43.7 9.2 83 87-178 292-377 (637)
62 PRK00448 polC DNA polymerase I 91.2 1.5 3.2E-05 47.2 10.1 86 85-183 235-322 (1437)
63 PRK08402 replication factor A; 91.1 0.9 2E-05 41.9 7.5 69 85-158 71-143 (355)
64 TIGR01405 polC_Gram_pos DNA po 90.9 2.3 4.9E-05 45.2 11.0 70 86-161 7-78 (1213)
65 PRK06826 dnaE DNA polymerase I 90.1 2.5 5.3E-05 44.7 10.5 81 88-182 993-1073(1151)
66 PRK07374 dnaE DNA polymerase I 89.7 2.7 5.8E-05 44.5 10.4 80 87-181 1001-1080(1170)
67 PRK06920 dnaE DNA polymerase I 89.7 2.5 5.4E-05 44.5 10.0 80 88-182 945-1024(1107)
68 PRK12366 replication factor A; 89.2 1.3 2.7E-05 43.9 7.2 65 84-154 71-139 (637)
69 COG1570 XseA Exonuclease VII, 89.1 2.1 4.5E-05 40.7 8.2 77 86-179 23-99 (440)
70 cd04316 ND_PkAspRS_like_N ND_P 88.6 8.5 0.00018 28.8 11.5 81 88-185 14-98 (108)
71 cd04497 hPOT1_OB1_like hPOT1_O 88.2 3.3 7.1E-05 32.7 7.8 74 85-161 13-86 (138)
72 PRK14699 replication factor A; 87.3 4.2 9E-05 39.1 9.2 86 85-183 175-265 (484)
73 cd04322 LysRS_N LysRS_N: N-ter 86.8 11 0.00024 28.1 10.9 77 89-184 2-83 (108)
74 TIGR00617 rpa1 replication fac 85.8 2.7 5.8E-05 41.4 7.2 68 85-157 189-260 (608)
75 PRK07279 dnaE DNA polymerase I 85.7 6.4 0.00014 41.2 10.2 81 87-182 885-966 (1034)
76 PF02765 POT1: Telomeric singl 85.3 4.5 9.7E-05 32.2 7.2 74 85-161 11-91 (146)
77 PRK05672 dnaE2 error-prone DNA 84.8 7.2 0.00016 40.9 10.1 79 88-183 955-1033(1046)
78 cd04321 ScAspRS_mt_like_N ScAs 83.4 14 0.00031 26.5 10.2 84 88-182 1-85 (86)
79 cd04478 RPA2_DBD_D RPA2_DBD_D: 83.3 11 0.00024 27.2 8.0 76 89-184 2-80 (95)
80 KOG3416 Predicted nucleic acid 82.4 4.4 9.6E-05 32.3 5.8 76 86-170 14-95 (134)
81 cd04319 PhAsnRS_like_N PhAsnRS 82.0 18 0.0004 26.7 11.5 81 88-185 1-84 (103)
82 TIGR00458 aspS_arch aspartyl-t 81.9 21 0.00045 33.6 11.2 81 87-184 13-97 (428)
83 PLN02903 aminoacyl-tRNA ligase 81.8 16 0.00035 36.5 10.7 87 87-184 73-163 (652)
84 PF12101 DUF3577: Protein of u 81.8 26 0.00056 28.3 12.2 94 89-183 14-121 (137)
85 cd04481 RPA1_DBD_B_like RPA1_D 79.1 24 0.00052 26.2 9.1 39 124-162 34-76 (106)
86 PLN02850 aspartate-tRNA ligase 78.9 29 0.00063 33.7 11.3 86 87-185 82-173 (530)
87 TIGR00457 asnS asparaginyl-tRN 78.3 39 0.00084 32.1 11.8 84 87-185 17-103 (453)
88 COG2176 PolC DNA polymerase II 77.4 7.7 0.00017 41.2 7.2 86 84-182 237-324 (1444)
89 COG0017 AsnS Aspartyl/asparagi 76.3 40 0.00087 32.1 11.2 82 87-185 17-101 (435)
90 PF13567 DUF4131: Domain of un 75.7 15 0.00033 28.0 7.1 67 86-159 75-145 (176)
91 COG1200 RecG RecG-like helicas 75.5 15 0.00032 36.8 8.3 64 87-158 61-124 (677)
92 PRK05159 aspC aspartyl-tRNA sy 75.4 36 0.00079 32.0 10.7 82 87-185 17-101 (437)
93 TIGR00459 aspS_bact aspartyl-t 74.6 41 0.00089 33.2 11.1 86 88-184 17-104 (583)
94 PTZ00385 lysyl-tRNA synthetase 73.4 50 0.0011 33.1 11.4 77 88-183 109-191 (659)
95 TIGR00499 lysS_bact lysyl-tRNA 72.5 53 0.0011 31.6 11.2 78 88-184 55-137 (496)
96 PTZ00401 aspartyl-tRNA synthet 71.7 56 0.0012 32.0 11.2 87 87-185 79-170 (550)
97 cd04318 EcAsnRS_like_N EcAsnRS 70.4 34 0.00074 24.0 8.6 77 89-182 2-81 (82)
98 PRK10917 ATP-dependent DNA hel 70.4 19 0.00041 35.8 7.9 63 87-157 60-122 (681)
99 COG4097 Predicted ferric reduc 70.2 6.1 0.00013 37.1 4.1 38 124-161 275-312 (438)
100 PRK00476 aspS aspartyl-tRNA sy 69.9 59 0.0013 32.0 11.0 86 88-185 19-107 (588)
101 PRK00484 lysS lysyl-tRNA synth 68.9 86 0.0019 30.1 11.7 79 87-184 55-137 (491)
102 PF12869 tRNA_anti-like: tRNA_ 68.8 28 0.00061 26.9 7.2 64 88-159 69-133 (144)
103 TIGR00643 recG ATP-dependent D 68.1 41 0.00089 33.0 9.6 64 87-158 33-96 (630)
104 PRK03932 asnC asparaginyl-tRNA 67.6 53 0.0012 31.1 10.0 81 87-184 17-100 (450)
105 PTZ00417 lysine-tRNA ligase; P 65.0 79 0.0017 31.2 10.8 79 88-184 134-219 (585)
106 COG0587 DnaE DNA polymerase II 63.7 34 0.00074 36.4 8.4 66 88-158 978-1043(1139)
107 PLN02502 lysyl-tRNA synthetase 63.7 99 0.0021 30.3 11.1 79 87-184 109-194 (553)
108 PF10451 Stn1: Telomere regula 62.0 38 0.00082 29.9 7.3 91 75-182 55-148 (256)
109 cd04498 hPOT1_OB2 hPOT1_OB2: A 62.0 13 0.00028 29.4 4.0 28 125-153 60-87 (123)
110 cd04483 hOBFC1_like hOBFC1_lik 61.8 62 0.0013 23.8 7.5 45 109-158 14-78 (92)
111 PRK07218 replication factor A; 61.1 38 0.00082 32.1 7.6 63 85-158 171-236 (423)
112 PRK12820 bifunctional aspartyl 59.9 1.2E+02 0.0025 30.8 11.1 88 87-185 19-111 (706)
113 PRK07218 replication factor A; 59.4 43 0.00094 31.7 7.6 60 83-154 65-127 (423)
114 KOG3056 Protein required for S 57.9 37 0.00081 33.3 7.0 69 91-166 190-258 (578)
115 PF00970 FAD_binding_6: Oxidor 57.1 36 0.00077 24.3 5.4 34 125-159 63-98 (99)
116 KOG1885 Lysyl-tRNA synthetase 55.1 70 0.0015 31.1 8.2 78 88-183 106-189 (560)
117 COG1571 Predicted DNA-binding 54.7 91 0.002 29.7 8.9 66 85-159 265-332 (421)
118 PLN02221 asparaginyl-tRNA synt 54.3 1.5E+02 0.0032 29.3 10.6 87 87-185 51-138 (572)
119 TIGR00617 rpa1 replication fac 53.5 57 0.0012 32.2 7.7 67 88-160 312-382 (608)
120 PLN02603 asparaginyl-tRNA synt 53.2 2.4E+02 0.0051 27.9 12.3 85 86-185 107-194 (565)
121 smart00350 MCM minichromosome 50.9 44 0.00095 32.0 6.3 57 124-184 103-163 (509)
122 PRK02983 lysS lysyl-tRNA synth 50.9 2.2E+02 0.0048 30.3 11.8 78 88-184 653-735 (1094)
123 PRK12445 lysyl-tRNA synthetase 49.8 2.1E+02 0.0044 27.7 10.7 78 88-184 67-149 (505)
124 PRK07135 dnaE DNA polymerase I 46.9 81 0.0018 33.1 7.8 63 88-158 899-961 (973)
125 PF10574 UPF0552: Uncharacteri 46.7 84 0.0018 27.4 6.7 44 143-186 29-75 (224)
126 COG3689 Predicted membrane pro 46.2 86 0.0019 28.0 6.9 88 87-185 176-263 (271)
127 COG1190 LysU Lysyl-tRNA synthe 45.2 1.6E+02 0.0034 28.7 9.0 80 89-183 64-144 (502)
128 PLN02532 asparagine-tRNA synth 40.4 75 0.0016 31.7 6.2 54 126-184 148-201 (633)
129 COG1107 Archaea-specific RecJ- 40.4 43 0.00092 33.4 4.4 77 86-182 213-289 (715)
130 PRK06386 replication factor A; 38.2 1.3E+02 0.0028 27.9 7.1 79 84-183 115-196 (358)
131 PF11948 DUF3465: Protein of u 36.6 53 0.0011 26.3 3.7 28 135-166 79-106 (131)
132 PTZ00111 DNA replication licen 34.1 1.3E+02 0.0027 31.5 6.9 56 125-184 346-405 (915)
133 cd06198 FNR_like_3 NAD(P) bind 31.0 1.1E+02 0.0024 24.9 5.1 30 131-160 62-91 (216)
134 COG1018 Hmp Flavodoxin reducta 30.3 99 0.0021 27.2 4.8 40 123-162 66-107 (266)
135 PF02367 UPF0079: Uncharacteri 29.9 32 0.0007 26.9 1.5 24 134-157 3-26 (123)
136 PF08021 FAD_binding_9: Sidero 29.5 1.5E+02 0.0033 22.5 5.3 43 112-154 69-113 (117)
137 COG0802 Predicted ATPase or ki 28.1 53 0.0011 26.8 2.5 25 134-158 13-37 (149)
138 PRK10646 ADP-binding protein; 28.1 48 0.0011 27.0 2.3 24 134-157 16-39 (153)
139 PF09104 BRCA-2_OB3: BRCA2, ol 27.1 2.2E+02 0.0047 23.1 5.9 84 84-183 16-101 (143)
140 TIGR01077 L13_A_E ribosomal pr 26.1 49 0.0011 26.7 2.0 23 131-153 9-31 (142)
141 PF06557 DUF1122: Protein of u 25.9 1.8E+02 0.004 24.3 5.3 60 93-153 13-86 (170)
142 KOG0479 DNA replication licens 25.7 69 0.0015 32.2 3.2 56 124-184 212-269 (818)
143 PTZ00425 asparagine-tRNA ligas 25.6 6.7E+02 0.015 24.9 11.1 93 85-184 80-180 (586)
144 cd04486 YhcR_OBF_like YhcR_OBF 25.3 82 0.0018 22.4 2.9 19 140-158 42-60 (78)
145 PF11736 DUF3299: Protein of u 25.0 1.6E+02 0.0035 23.7 4.8 81 88-180 57-144 (146)
146 PF12080 GldM_C: GldM C-termin 24.7 1.9E+02 0.0041 23.9 5.3 43 109-153 132-174 (181)
147 COG4085 Predicted RNA-binding 24.7 3.7E+02 0.008 23.1 7.0 61 89-158 54-119 (204)
148 cd06189 flavin_oxioreductase N 23.4 1.6E+02 0.0034 24.2 4.7 28 133-160 66-93 (224)
149 PF13511 DUF4124: Domain of un 22.9 69 0.0015 21.1 1.9 16 156-171 14-29 (60)
150 cd06211 phenol_2-monooxygenase 22.8 1.9E+02 0.0041 24.1 5.1 28 133-160 77-104 (238)
151 PRK06394 rpl13p 50S ribosomal 22.6 68 0.0015 26.0 2.2 24 131-154 13-36 (146)
152 cd05828 Sortase_D_4 Sortase D 21.9 2.4E+02 0.0052 21.5 5.1 20 141-160 60-79 (127)
153 TIGR00150 HI0065_YjeE ATPase, 21.1 89 0.0019 24.7 2.5 24 134-157 10-33 (133)
154 cd06216 FNR_iron_sulfur_bindin 21.0 1.6E+02 0.0034 24.6 4.3 34 127-160 82-117 (243)
155 cd06213 oxygenase_e_transfer_s 20.1 1.4E+02 0.003 24.6 3.7 28 133-160 69-96 (227)
No 1
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.97 E-value=3.3e-30 Score=198.90 Aligned_cols=103 Identities=26% Similarity=0.383 Sum_probs=97.8
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCC------CCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT------QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~------~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
|||+|+|+|||++||+++++++|.++++|+||+++.+. +++||+|++||++|+.+.++|+||++|.|+|+|+++
T Consensus 1 MmN~v~liGrl~~dPelr~t~~G~~~~~f~lAv~~~~~~~~g~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~l~~~ 80 (112)
T PRK06752 1 MMNRVVLIGRLTKEPELYYTKQGVAYARVCVAVNRGFRNSLGEQQVDFINCVVWRKSAENVTEYCTKGSLVGITGRIHTR 80 (112)
T ss_pred CceEEEEEEECcCCCEEEECCCCCEEEEEEEEECCCeEcCCCCEEEEEEEEEEehHHHHHHHHhcCCCCEEEEEEEEEeC
Confidence 79999999999999999999999999999999998652 589999999999999999999999999999999999
Q ss_pred eeEcCCCcEEEEEEEEEEEEEEeeCCCCC
Q 028557 159 VVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (207)
Q Consensus 159 ~~~dkdG~~~~~~eIva~~I~~L~~k~~~ 187 (207)
.|+|+||++++.++|+|++|.||+++.+.
T Consensus 81 ~~~~~~G~~~~~~ei~a~~i~~l~~~~~~ 109 (112)
T PRK06752 81 NYEDDQGKRIYITEVVIESITFLERRREG 109 (112)
T ss_pred ccCCCCCcEEEEEEEEEEEEEECCCCCcc
Confidence 99999999999999999999999977644
No 2
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=5.6e-30 Score=200.65 Aligned_cols=103 Identities=30% Similarity=0.473 Sum_probs=97.7
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~--~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
+||+|+|+|||++||++|++++|+++++|+||+++.+ ++++||+|++||++|+.+.++|+||++|+|+|+|+++.|+|
T Consensus 2 ~~N~v~LiGrL~~DPelr~t~~G~~v~~fslAv~~~~~~~~t~w~~v~~wg~~Ae~~~~~l~KG~~V~V~G~l~~~~~~d 81 (121)
T PRK07459 2 SLNSVTLVGRAGRDPEVRYFESGSVVCNLTLAVNRRSRDDEPDWFNLEIWGKTAQVAADYVKKGSLIGITGSLKFDRWTD 81 (121)
T ss_pred CccEEEEEEEccCCCEEEEcCCCCEEEEEEEEecccccCCCceEEEEEEehHHHHHHHHHcCCCCEEEEEEEEEecceEc
Confidence 4899999999999999999999999999999999876 57999999999999999999999999999999999999999
Q ss_pred CC-CcEEEEEEEEEEEEEEeeCCCCC
Q 028557 163 GD-GQQQTYYKVVVQQLNFVERSSPS 187 (207)
Q Consensus 163 kd-G~~~~~~eIva~~I~~L~~k~~~ 187 (207)
+| |++++.++|+|++|.+|+++...
T Consensus 82 ~d~G~~r~~~ei~a~~i~~L~~k~~~ 107 (121)
T PRK07459 82 RNTGEDRSKPVIRVDRLELLGSKRDS 107 (121)
T ss_pred CCCCeEEEEEEEEEeEEEECcCCCcc
Confidence 87 99999999999999999977654
No 3
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=6.8e-30 Score=209.38 Aligned_cols=102 Identities=25% Similarity=0.395 Sum_probs=97.8
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCC------CCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT------QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~------~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
|||+|+|+|||++||++|++++|..++.|+||+++.++ +++||+|++||++|+.+.++|+||++|.|+|+|+++
T Consensus 1 M~N~v~LiGrL~~DPElr~t~sG~~v~~ftlAv~r~~~~~~ge~~tdfi~vv~wgk~Ae~~~~~l~KG~~V~VeGrl~~r 80 (162)
T PRK07275 1 MINNVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQNGEREADFINCVIWRQQAENLANWAKKGALIGVTGRIQTR 80 (162)
T ss_pred CeeEEEEEEEECCCCeEEECCCCCEEEEEEEEEcCceecCCCCEeeeEEEEEEEcHHHHHHHHHcCCCCEEEEEEEEEec
Confidence 79999999999999999999999999999999998752 689999999999999999999999999999999999
Q ss_pred eeEcCCCcEEEEEEEEEEEEEEeeCCCC
Q 028557 159 VVESGDGQQQTYYKVVVQQLNFVERSSP 186 (207)
Q Consensus 159 ~~~dkdG~~~~~~eIva~~I~~L~~k~~ 186 (207)
.|+|+||++++.++|+|++|.||+++..
T Consensus 81 ~y~dkdG~k~~~~evva~~i~~l~~~~~ 108 (162)
T PRK07275 81 NYENQQGQRVYVTEVVADNFQMLESRAT 108 (162)
T ss_pred eEECCCCCEEEEEEEEEeEEEECCCCCc
Confidence 9999999999999999999999998773
No 4
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=3.4e-29 Score=207.19 Aligned_cols=104 Identities=24% Similarity=0.382 Sum_probs=98.2
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
|||+|+|+|||++||++|++++|.+++.|+||+++.+ .+++||+|++||++|+.+.++|+||++|.|+|+|+++
T Consensus 1 MmN~V~LiGrL~~DpelR~t~sG~~v~~fslAvnr~~~~~~ge~~tdwi~~v~wgk~Ae~~~~~l~KG~~V~VeGrL~~r 80 (173)
T PRK06751 1 MMNRVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQQGEREADFINCVIWRKQAENVANYLKKGSLAGVDGRLQTR 80 (173)
T ss_pred CceEEEEEEEECCCCcEEECCCCCEEEEEEEEEccceecCCCCEEEEEEEEEEeCcHHHHHHHHcCCCCEEEEEEEEEeC
Confidence 7999999999999999999999999999999999864 2589999999999999999999999999999999999
Q ss_pred eeEcCCCcEEEEEEEEEEEEEEeeCCCCCC
Q 028557 159 VVESGDGQQQTYYKVVVQQLNFVERSSPSM 188 (207)
Q Consensus 159 ~~~dkdG~~~~~~eIva~~I~~L~~k~~~~ 188 (207)
.|+|++|++++.++|+|++|.||+.+....
T Consensus 81 ~yedkdG~~~~~~eVva~~i~~l~~r~~~~ 110 (173)
T PRK06751 81 NYEGQDGKRVYVTEVLAESVQFLEPRNGGG 110 (173)
T ss_pred ccCCCCCcEEEEEEEEEEEEEeCcCCCCCc
Confidence 999999999999999999999999876543
No 5
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=1.1e-28 Score=195.53 Aligned_cols=102 Identities=27% Similarity=0.405 Sum_probs=96.5
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCC------CCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT------QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~------~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
|||+|+|+|||++||+++++++|..+++|+||++++++ +++||+|++||++|+.+.++|+||++|+|+|+|+++
T Consensus 1 mmN~v~LiGrL~~dPelr~t~~g~~~~~fslAv~~~~k~~~g~~~t~w~~v~~fg~~Ae~v~~~l~KG~~V~V~Grl~~~ 80 (131)
T PRK07274 1 MYNKVILIGRLTATPELVKTANDKSVARVTLAVNRRFKNQNGEREADFINVVLWGKLAETLASYASKGSLISIDGELRTR 80 (131)
T ss_pred CeeEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCceecCCCCEEEEEEEEEEehHHHHHHHHHcCCCCEEEEEEEEEec
Confidence 79999999999999999999999999999999998652 589999999999999999999999999999999999
Q ss_pred eeEcCCCcEEEEEEEEEEEEEEeeCCCCC
Q 028557 159 VVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (207)
Q Consensus 159 ~~~dkdG~~~~~~eIva~~I~~L~~k~~~ 187 (207)
.| ++||++++.++|+|++|.+|+.+...
T Consensus 81 ~y-~kdG~~~~~~eviv~~i~~l~~k~~~ 108 (131)
T PRK07274 81 KY-EKDGQTHYVTEVLCQSFQLLESRAQR 108 (131)
T ss_pred cC-ccCCcEEEEEEEEEEEEEECcCCCcc
Confidence 99 89999999999999999999976554
No 6
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=1.6e-28 Score=204.64 Aligned_cols=103 Identities=24% Similarity=0.445 Sum_probs=97.9
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEee
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLV 156 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~--------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~ 156 (207)
|||+|+|+|||++|||+|++++|..++.|+||+++++ ++++||+|++||++|+.+.++|+||++|+|+|+|+
T Consensus 1 m~N~V~LvGrL~~DPElr~t~sG~~va~fslAv~r~~~~~~Ge~~e~t~fi~v~~fg~~AE~~~~~l~KG~~V~VeGrL~ 80 (182)
T PRK08486 1 MFNKVILVGNLTRDVELRYLPSGSAIATIGLATSRRFKKQDGEKGEEVCFIDIRLFGRTAEIANQYLSKGSKVLIEGRLT 80 (182)
T ss_pred CeeEEEEEEEecCCCEEEECCCCCEEEEEEEEEecceecCCCCCcccceEEEEEEEhHHHHHHHHHcCCCCEEEEEEEEE
Confidence 7899999999999999999999999999999999864 36899999999999999999999999999999999
Q ss_pred eeeeEcCCCcEEEEEEEEEEEEEEeeCCCCC
Q 028557 157 SDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (207)
Q Consensus 157 ~~~~~dkdG~~~~~~eIva~~I~~L~~k~~~ 187 (207)
++.|+|+||++++.++|+|++|.||+++...
T Consensus 81 ~~~y~dkdG~~r~~~eI~a~~v~~L~~~~~~ 111 (182)
T PRK08486 81 FESWMDQNGQKRSKHTITAESMQMLDSKSDN 111 (182)
T ss_pred eCcEECCCCcEEEEEEEEEeEEEECCCCCCC
Confidence 9999999999999999999999999877654
No 7
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=3.3e-28 Score=199.70 Aligned_cols=106 Identities=25% Similarity=0.411 Sum_probs=98.7
Q ss_pred cCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEE
Q 028557 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (207)
Q Consensus 83 ~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~--------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGr 154 (207)
...||+|+|+|||++||++|++++|..+++|+||+++.+ ++++||+|++||++|+.+.++|+||++|+|+|+
T Consensus 2 ar~~Nkv~LiGrLg~DPelr~t~~G~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~Ae~v~~~L~KGs~V~VeGr 81 (164)
T PRK08763 2 ARGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDREGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEGS 81 (164)
T ss_pred CCcceEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecCCCCeeccceEEEEEEehHHHHHHHHhcCCCCEEEEEEE
Confidence 346999999999999999999999999999999999653 258999999999999999999999999999999
Q ss_pred eeeeeeEcCCCcEEEEEEEEEEEEEEeeCCCCCC
Q 028557 155 LVSDVVESGDGQQQTYYKVVVQQLNFVERSSPSM 188 (207)
Q Consensus 155 L~~~~~~dkdG~~~~~~eIva~~I~~L~~k~~~~ 188 (207)
|+++.|+|+||++++.++|+|++|.||+++...+
T Consensus 82 L~~~~y~dkdG~kr~~~eIva~~i~~L~~~~~~~ 115 (164)
T PRK08763 82 IRYDKFTGQDGQERYVTEIVADEMQMLGGRGEGG 115 (164)
T ss_pred EEeceeECCCCCEEEEEEEEEeEEEECCCCCCCC
Confidence 9999999999999999999999999999876543
No 8
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=3.7e-28 Score=198.72 Aligned_cols=101 Identities=20% Similarity=0.336 Sum_probs=96.4
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
||.|+|+|||++||++|++++|+++++|+||+++++ ++++||+|++||++|+.+.++|+||++|+|+|+|+++.|+|
T Consensus 1 MN~V~LiGrLg~DPElR~t~sG~~v~~FsLAvn~~~~~~~~T~wi~v~awg~~Ae~v~~yL~KG~~V~VeGrL~~~~y~d 80 (161)
T PRK06293 1 MMFGYIVGRLGADPEERMTSKGKRVVVLRLGVKSRVGSKDETVWCRCNIWGNRYDKMLPYLKKGSGVIVAGEMSPESYVD 80 (161)
T ss_pred CeEEEEEEEecCCCeEEEcCCCCEEEEEEEEEeCCCCCccceEEEEEEEEhHHHHHHHHhCCCCCEEEEEEEEEeCccCC
Confidence 899999999999999999999999999999999764 47999999999999999999999999999999999999999
Q ss_pred CCCcEEEEEEEEEEEEEEeeCCCC
Q 028557 163 GDGQQQTYYKVVVQQLNFVERSSP 186 (207)
Q Consensus 163 kdG~~~~~~eIva~~I~~L~~k~~ 186 (207)
+||++++.++|+|++|.||..++.
T Consensus 81 kdG~kr~~~eIva~~I~fl~~~~~ 104 (161)
T PRK06293 81 KDGSPQSSLVVSVDTIKFSPFGRN 104 (161)
T ss_pred CCCCEEEEEEEEEeEEEECcCCCc
Confidence 999999999999999999987654
No 9
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=8.6e-28 Score=199.97 Aligned_cols=105 Identities=30% Similarity=0.501 Sum_probs=98.1
Q ss_pred cCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEE
Q 028557 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISG 153 (207)
Q Consensus 83 ~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeG 153 (207)
|.+||+|+|+|||++||+++++++|+.+++|+||+++.+ +.++||+|++|+++|+.+.++|+||++|+|+|
T Consensus 1 Mas~N~V~LiGrLg~DPElr~t~nG~~va~fsVAv~~~~kdk~sGe~~e~T~w~~V~~fGk~AE~v~~~LkKGs~V~VeG 80 (182)
T PRK06958 1 MASVNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYIEG 80 (182)
T ss_pred CCcccEEEEEEEecCCCeEEEcCCCCEEEEEEEEeccccccccCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEE
Confidence 456999999999999999999999999999999998754 25899999999999999999999999999999
Q ss_pred EeeeeeeEcCCCcEEEEEEEEEEEEEEeeCCCCC
Q 028557 154 RLVSDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (207)
Q Consensus 154 rL~~~~~~dkdG~~~~~~eIva~~I~~L~~k~~~ 187 (207)
+|+++.|+|+||++++.++|+|++|.||+++...
T Consensus 81 rL~~~~yeDkdG~kr~~~eVvA~~V~fL~sr~~~ 114 (182)
T PRK06958 81 RIRTRKWQGQDGQDRYSTEIVADQMQMLGGRGGS 114 (182)
T ss_pred EEEeCceECCCCcEEEEEEEEEeEEEECCCCccC
Confidence 9999999999999999999999999999987654
No 10
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=1.5e-27 Score=193.68 Aligned_cols=104 Identities=28% Similarity=0.425 Sum_probs=96.3
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCCeEEEEEEEch-HHHHHHHhcCCCCEEEEEE
Q 028557 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDE-LAHVASQHVEKGQQIYISG 153 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---------~~t~wi~V~awgk-~Ae~~~~~LkKGd~V~VeG 153 (207)
..||+|+|+|||++||++|++++|+++++|+||+++.+ ++++||+|++||+ +|+.+.++|+||++|+|+|
T Consensus 3 ~~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~G 82 (152)
T PRK06642 3 GSLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIEG 82 (152)
T ss_pred CcceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEEE
Confidence 45999999999999999999999999999999999753 2599999999996 9999999999999999999
Q ss_pred EeeeeeeEcCCCcEEEEEEEEEEEE----EEeeCCCCC
Q 028557 154 RLVSDVVESGDGQQQTYYKVVVQQL----NFVERSSPS 187 (207)
Q Consensus 154 rL~~~~~~dkdG~~~~~~eIva~~I----~~L~~k~~~ 187 (207)
+|+++.|+|+||++++.++|+|++| .||+++...
T Consensus 83 rL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k~~~ 120 (152)
T PRK06642 83 SLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSN 120 (152)
T ss_pred EEEeCeeECCCCCEEEEEEEEEEecccceEeccCCCCc
Confidence 9999999999999999999999987 899877553
No 11
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=1.5e-27 Score=192.96 Aligned_cols=102 Identities=16% Similarity=0.321 Sum_probs=95.3
Q ss_pred CccEEEEEEEECCCceEEEcCCCcE----EEEEEEEEecCC---------CCCeEEEEEEEchHHHHHHHhcCCCCEEEE
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKV----LAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYI 151 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~----va~f~LAv~r~~---------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~V 151 (207)
|||+|+|+|||++||++|++++|.. +++|+||+++++ ..++||+|++||++|+.+.++|+||++|+|
T Consensus 1 M~N~V~LiGrLg~DPElr~t~~G~~~~~~va~fslA~~r~~~~~~Ge~~~~~t~w~~V~~wg~~Ae~v~~~l~KG~~V~V 80 (148)
T PRK08182 1 MSTHFVGEGNIGSAPEYREFPNGNDEPRRLLRLNVYFDNPVPTKDGEYEDRGGFWAPVELWHRDAEHWARLYQKGMRVLV 80 (148)
T ss_pred CccEEEEEEECCCCCeEEECCCCCeeeeeEEEEEEEecCceECCCCCEEecCcEEEEEEEEhHHHHHHHHhcCCCCEEEE
Confidence 7899999999999999999999986 999999998653 147899999999999999999999999999
Q ss_pred EEEeeeeeeEcCCCcEEEEEEEEEEEEEEeeCCCC
Q 028557 152 SGRLVSDVVESGDGQQQTYYKVVVQQLNFVERSSP 186 (207)
Q Consensus 152 eGrL~~~~~~dkdG~~~~~~eIva~~I~~L~~k~~ 186 (207)
+|+|+++.|+|+||++++.++|+|++|.||..+..
T Consensus 81 ~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r~~ 115 (148)
T PRK08182 81 EGRMERDEWTDNEDNERVTFKVEARRVGILPYRIE 115 (148)
T ss_pred EEEEEecccCCCCCCEEEEEEEEEeEEEEcCCccc
Confidence 99999999999999999999999999999986554
No 12
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=1.8e-27 Score=195.97 Aligned_cols=104 Identities=25% Similarity=0.424 Sum_probs=97.7
Q ss_pred cCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEE
Q 028557 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISG 153 (207)
Q Consensus 83 ~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeG 153 (207)
|..||+|+|+|||++||++|++++|+.+++|+||+++.+ +.++||+|++||+.|+.+.++|+||++|+|+|
T Consensus 1 M~~~N~V~LiGrLg~DPElR~t~nG~~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~AE~v~~~LkKGs~V~VeG 80 (168)
T PRK06863 1 MAGINKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEG 80 (168)
T ss_pred CCCccEEEEEEEcCCCCEEEEcCCCCEEEEEEEEecCcccccCCCcccccceEEEEEEEhHHHHHHHHHCCCCCEEEEEE
Confidence 456899999999999999999999999999999999753 24889999999999999999999999999999
Q ss_pred EeeeeeeEcCCCcEEEEEEEEEEEEEEeeCCCC
Q 028557 154 RLVSDVVESGDGQQQTYYKVVVQQLNFVERSSP 186 (207)
Q Consensus 154 rL~~~~~~dkdG~~~~~~eIva~~I~~L~~k~~ 186 (207)
+|+.+.|+|+||++++.++|+|++|.||+++..
T Consensus 81 rL~~r~w~DkdG~~r~~~eI~a~~i~~L~~r~~ 113 (168)
T PRK06863 81 RLKTRKWQDQNGQDRYTTEIQGDVLQMLGGRNQ 113 (168)
T ss_pred EEEeCCccCCCCCEEEEEEEEEeEEEECCCCCc
Confidence 999999999999999999999999999998775
No 13
>TIGR00621 ssb single stranded DNA-binding protein (ssb). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.95 E-value=3.8e-27 Score=193.20 Aligned_cols=103 Identities=26% Similarity=0.467 Sum_probs=97.3
Q ss_pred cCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEE
Q 028557 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (207)
Q Consensus 83 ~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~--------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGr 154 (207)
|.|||+|+|+|+|++||++|++++|+++++|+||+++++ +.++||+|++||++|+.+.++|+||++|+|+|+
T Consensus 1 m~m~N~V~L~G~l~~dPe~r~t~~G~~v~~fsvA~~~~~~~~~G~~~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~ 80 (164)
T TIGR00621 1 MRMVNKVILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQDGEWKEETEWHDIVIFGRLAEVAAQYLKKGSLVYVEGR 80 (164)
T ss_pred CCcccEEEEEEEeCCCCEEEECCCCCEEEEEEEEEcCceecCCCCEeccceEEEEEEehHHHHHHHHhCCCCCEEEEEEE
Confidence 578999999999999999999999999999999998764 247899999999999999999999999999999
Q ss_pred eeeeeeEcCCCcEEEEEEEEEEEEEEeeCCC
Q 028557 155 LVSDVVESGDGQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 155 L~~~~~~dkdG~~~~~~eIva~~I~~L~~k~ 185 (207)
|+++.|++++|++++.++|+|++|.+|+.+.
T Consensus 81 L~~~~~~~kdG~~~~~~ev~a~~i~~L~~~~ 111 (164)
T TIGR00621 81 LRTRKWEDQNGQKRSKTEIIADNVQLLDLLG 111 (164)
T ss_pred EEeceEECCCCcEEEEEEEEEEEEeeccccC
Confidence 9999999999999999999999999998764
No 14
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=7.8e-27 Score=193.39 Aligned_cols=104 Identities=28% Similarity=0.477 Sum_probs=97.0
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEe
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRL 155 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL 155 (207)
+||+|+|+|||++|||+|++++|..+++|+||+++.+ ++++||+|++||++|+.+.++|+||+.|+|+|+|
T Consensus 5 ~mN~V~LiGrLg~DPElR~t~nG~~va~fslAvn~~~kd~~~Ge~~e~t~w~~Vv~wgk~Ae~v~~~L~KG~~V~VeGrL 84 (175)
T PRK13732 5 GINKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAEVAGEYLRKGAQVYIEGQL 84 (175)
T ss_pred CceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEcCccccCCCCceecceeEEEEEEecHHHHHHHHhcCCCCEEEEEEEE
Confidence 6999999999999999999999999999999999754 2589999999999999999999999999999999
Q ss_pred eeeeeEcCCCcEEEEEEEEEE---EEEEeeCCCCCCC
Q 028557 156 VSDVVESGDGQQQTYYKVVVQ---QLNFVERSSPSMS 189 (207)
Q Consensus 156 ~~~~~~dkdG~~~~~~eIva~---~I~~L~~k~~~~~ 189 (207)
+++.|++ +|++++.++|+|+ +|.||+++...+.
T Consensus 85 ~~r~ye~-dG~kr~~~eIiv~~~g~~~fL~~~~~~~~ 120 (175)
T PRK13732 85 RTRSWED-NGITRYVTEILVKTTGTMQMLGRAPQQNA 120 (175)
T ss_pred EeeeEcc-CCeEEEEEEEEEeecCeEEEecCCCCCCC
Confidence 9999986 7999999999999 9999998887543
No 15
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=5.4e-27 Score=194.65 Aligned_cols=104 Identities=30% Similarity=0.457 Sum_probs=97.3
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEE
Q 028557 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGr 154 (207)
..||+|+|+|||++||++|++++|..+++|+||+++.+ ++++||+|++||++|+.+.++|+||++|+|+|+
T Consensus 4 r~~N~V~LiGrLg~DPelR~t~nG~~v~~fsVAvn~~~kd~~~Ge~~e~t~w~~V~~fgk~Ae~~~~~L~KGs~V~VeGr 83 (177)
T PRK09010 4 RGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYIEGQ 83 (177)
T ss_pred cCceEEEEEEEeCCCceEEEcCCCCEEEEEEEEEcCccccCcccccccceEEEEEEEehhHHHHHHHhcCCCCEEEEEEE
Confidence 57999999999999999999999999999999999753 258999999999999999999999999999999
Q ss_pred eeeeeeEcCCCcEEEEEEEEEE---EEEEeeCCCCC
Q 028557 155 LVSDVVESGDGQQQTYYKVVVQ---QLNFVERSSPS 187 (207)
Q Consensus 155 L~~~~~~dkdG~~~~~~eIva~---~I~~L~~k~~~ 187 (207)
|+++.|+|++|++++.++|+|+ +|.||+++..+
T Consensus 84 L~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r~~~ 119 (177)
T PRK09010 84 LRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGG 119 (177)
T ss_pred EEeccccCCCCCEEEEEEEEEecCCcEEEccCCCCC
Confidence 9999999999999999999998 89999977543
No 16
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=1.4e-26 Score=190.35 Aligned_cols=105 Identities=27% Similarity=0.436 Sum_probs=96.3
Q ss_pred CcCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCCeEEEEEEEch-HHHHHHHhcCCCCEEEE
Q 028557 82 DKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDE-LAHVASQHVEKGQQIYI 151 (207)
Q Consensus 82 ~~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---------~~t~wi~V~awgk-~Ae~~~~~LkKGd~V~V 151 (207)
|..+||+|+|+|||++||++|++++|+++++|+||+++++ ++++||+|++|++ +|+.+.++|+||++|+|
T Consensus 1 Ma~~mN~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~~Ae~~~~~LkKG~~V~V 80 (166)
T PRK06341 1 MAGSVNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYI 80 (166)
T ss_pred CCCcceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChHHHHHHHHhcCCCCEEEE
Confidence 3456999999999999999999999999999999998653 3689999999996 89999999999999999
Q ss_pred EEEeeeeeeEcCCCcEEEEEEEEEEEE----EEeeCCCC
Q 028557 152 SGRLVSDVVESGDGQQQTYYKVVVQQL----NFVERSSP 186 (207)
Q Consensus 152 eGrL~~~~~~dkdG~~~~~~eIva~~I----~~L~~k~~ 186 (207)
+|+|++++|+|++|++++.++|+|++| .||+.+..
T Consensus 81 eGrL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~~~ 119 (166)
T PRK06341 81 EGQLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRGE 119 (166)
T ss_pred EEEEEeCcEECCCCCEEEEEEEEEEecccceEEcccCCc
Confidence 999999999999999999999999874 89987754
No 17
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=1.7e-26 Score=190.93 Aligned_cols=105 Identities=26% Similarity=0.453 Sum_probs=96.9
Q ss_pred CcCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEE
Q 028557 82 DKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYIS 152 (207)
Q Consensus 82 ~~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~Ve 152 (207)
|...||+|+|+|||+.||+++++++|..+++|+||+++.+ ++++||+|++||++|+.+.++|+||++|+|+
T Consensus 1 ma~~mNkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae~v~~~l~KGs~V~Ve 80 (172)
T PRK05733 1 MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIE 80 (172)
T ss_pred CCCcceEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEE
Confidence 3456999999999999999999999999999999998753 2589999999999999999999999999999
Q ss_pred EEeeeeeeEcCCCcEEEEEEEEEE---EEEEeeCCCCC
Q 028557 153 GRLVSDVVESGDGQQQTYYKVVVQ---QLNFVERSSPS 187 (207)
Q Consensus 153 GrL~~~~~~dkdG~~~~~~eIva~---~I~~L~~k~~~ 187 (207)
|+|+++.|+ +||++++.++|+|+ .|.||+.+...
T Consensus 81 GrLr~~~y~-kdG~~r~~~eVvvd~~g~v~~L~~~~~~ 117 (172)
T PRK05733 81 GKLQTREWE-KDGIKRYTTEIVVDMQGTMQLLGGRPQG 117 (172)
T ss_pred EEEEeCcEe-cCCEEEEEEEEEEeecCeEEECcCCCCC
Confidence 999999999 89999999999999 89999866544
No 18
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=99.94 E-value=6.4e-26 Score=169.79 Aligned_cols=96 Identities=31% Similarity=0.583 Sum_probs=88.4
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeee
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~--------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~ 157 (207)
||+|+|+|+|+.||+++++++|++++.|+|++++++ ..++||+|++||++|+.+.++|+|||+|.|+|+|+.
T Consensus 1 mN~v~l~G~l~~~p~~~~~~~g~~~~~f~la~~~~~~~~~~~~~~~~~~~~v~~~g~~A~~~~~~l~kG~~V~V~G~l~~ 80 (104)
T PF00436_consen 1 MNKVTLIGRLGKDPELRYTKNGTPVARFSLAVNRRFKDDGGEGDEKTDWINVVAWGKLAENVAEYLKKGDRVYVEGRLRT 80 (104)
T ss_dssp EEEEEEEEEESSSEEEEEETTSEEEEEEEEEEEEEEEETTSCEEEEEEEEEEEEEHHHHHHHHHH--TT-EEEEEEEEEE
T ss_pred CcEEEEEEEECCCcEEEECCCCCEEEEEEEEEecEEeeeeccCccceEEEEEEeeeecccccceEEcCCCEEEEEEEEEe
Confidence 899999999999999999999999999999999832 468999999999999999999999999999999999
Q ss_pred eeeEcCCCcEEEEEEEEEEEEEEe
Q 028557 158 DVVESGDGQQQTYYKVVVQQLNFV 181 (207)
Q Consensus 158 ~~~~dkdG~~~~~~eIva~~I~~L 181 (207)
+.|++++|++++.++|+|++|+||
T Consensus 81 ~~~~~~~G~~~~~~~i~a~~i~fl 104 (104)
T PF00436_consen 81 RTYEDKDGQKRYRVEIIADNIEFL 104 (104)
T ss_dssp EEEESTTSSEEEEEEEEEEEEEE-
T ss_pred eEEECCCCCEEEEEEEEEEEEEeC
Confidence 999999999999999999999997
No 19
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=4.5e-25 Score=188.58 Aligned_cols=102 Identities=22% Similarity=0.309 Sum_probs=96.6
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcC
Q 028557 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG 163 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dk 163 (207)
.-||+|+|+|||++||++|++++|++++.|+||+++.+.+++||+|++||++|+.+. +|+|||+|.|+|+|+++.|+|+
T Consensus 107 ~~~N~V~LiGrL~~DPelR~t~~G~~va~f~lAvnr~~~~td~i~~v~wg~~Ae~~~-~l~KG~~V~V~GrL~sr~y~~k 185 (219)
T PRK05813 107 KNPNEIFLDGYICKEPVYRTTPFGREIADLLLAVNRPYNKSDYIPCIAWGRNARFCK-TLEVGDNIRVWGRVQSREYQKK 185 (219)
T ss_pred CCccEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCCCCCceEEEEEEEhHHhHHHh-hCCCCCEEEEEEEEEecceEcC
Confidence 569999999999999999999999999999999999999999999999999999875 6999999999999999999998
Q ss_pred CC----cEEEEEEEEEEEEEEeeCCCC
Q 028557 164 DG----QQQTYYKVVVQQLNFVERSSP 186 (207)
Q Consensus 164 dG----~~~~~~eIva~~I~~L~~k~~ 186 (207)
+| ++++.++|.|++|++|+.+..
T Consensus 186 ~g~~~g~kr~~~eV~v~~i~~l~~~~~ 212 (219)
T PRK05813 186 LSEGEVVTKVAYEVSISKMEKVEKEEA 212 (219)
T ss_pred CCCccceEEEEEEEEEEEEEEcCChhh
Confidence 74 899999999999999987665
No 20
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=2.2e-24 Score=180.27 Aligned_cols=97 Identities=20% Similarity=0.375 Sum_probs=89.8
Q ss_pred cCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecC-C---------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEE
Q 028557 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKS-A---------TQTSWINLTFWDELAHVASQHVEKGQQIYIS 152 (207)
Q Consensus 83 ~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~-~---------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~Ve 152 (207)
|.++|.|+|+|||+.||++|++++|+.+++|+||++++ + .+++||+|++|+++|+.++++|+|||+|+|+
T Consensus 1 m~~~~~VtLiGrL~~DPElR~t~sG~~va~FrVAv~~r~~~~~~g~~~d~~t~fi~V~~Wg~~Ae~va~~L~KGd~V~V~ 80 (186)
T PRK07772 1 MAGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNEWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVT 80 (186)
T ss_pred CCccCEEEEEEEeCCCCeEEEcCCCCEEEEEEEEecCcceecCCCcEeccCceEEEEEEecHHHHHHHHhcCCCCEEEEE
Confidence 44689999999999999999999999999999999743 2 2588999999999999999999999999999
Q ss_pred EEeeeeeeEcCCCcEEEEEEEEEEEEE
Q 028557 153 GRLVSDVVESGDGQQQTYYKVVVQQLN 179 (207)
Q Consensus 153 GrL~~~~~~dkdG~~~~~~eIva~~I~ 179 (207)
|+|+.+.|+|+||++++.++|+|++|.
T Consensus 81 GrL~~r~wedkdG~~rt~~eV~a~~Vg 107 (186)
T PRK07772 81 GRLKQRSYETREGEKRTVVELEVDEIG 107 (186)
T ss_pred EEEEcCceECCCCCEEEEEEEEEEEcc
Confidence 999999999999999999999999664
No 21
>PRK02801 primosomal replication protein N; Provisional
Probab=99.92 E-value=3.5e-24 Score=162.96 Aligned_cols=94 Identities=18% Similarity=0.234 Sum_probs=85.5
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCC-------CeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeee
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQ-------TSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~-------t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~ 157 (207)
|||+|+|+|||++||++|++++|.++++|+||+++...+ ++||+|++||+.|+.+.++|+||+.|.|+|+|++
T Consensus 1 mmN~v~L~Grl~~dpelr~Tp~G~~v~~f~La~~~~~~ea~~~r~~~~~i~~va~G~~Ae~~~~~l~kGs~v~V~G~L~~ 80 (101)
T PRK02801 1 MTNRLVLSGTVCRTPKRKVSPSGIPHCQFVLEHRSVQEEAGLHRQAWCRMPVIVSGNQFQAITQSITVGSKITVQGFISC 80 (101)
T ss_pred CccEEEEEEEECcCcceEECCCCCeEEEEEEEEeCeEecCCCceeEEEEEEEEEEcHHHHHHHhhcCCCCEEEEEEEEEE
Confidence 789999999999999999999999999999999754322 3679999999999999999999999999999998
Q ss_pred eeeEcCCCcEEEEEEEEEEEEEEee
Q 028557 158 DVVESGDGQQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 158 ~~~~dkdG~~~~~~eIva~~I~~L~ 182 (207)
|+|++|++++. |++++|+|+.
T Consensus 81 --~~~~~g~~~~~--v~~~~i~~l~ 101 (101)
T PRK02801 81 --HQGRNGLSKLV--LHAEQIELID 101 (101)
T ss_pred --eECCCCCEEEE--EEEEEEEECC
Confidence 68999998866 9999999874
No 22
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.91 E-value=7.9e-24 Score=173.72 Aligned_cols=102 Identities=27% Similarity=0.509 Sum_probs=87.8
Q ss_pred CccEEEEEEEECCCceEEEcC-CCcEEEEEEEEEecCC--------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEe
Q 028557 85 LTNTVHLIGVVGTPIETKHLP-SGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRL 155 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~-nG~~va~f~LAv~r~~--------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL 155 (207)
|||+|+|+|+|++||++|+++ +|..++.|++++++.. ..++||+|++||++|+.+.++|+||++|+|+|+|
T Consensus 2 ~~Nkv~LvG~l~~DPE~r~t~~g~~~v~~~~~a~~r~~~~~~~~~~~~t~~~~vv~wgk~Ae~~~~yl~KG~~V~VeG~l 81 (167)
T COG0629 2 MMNKVILVGRLTRDPELRYTPNGGAVVALFSAAVNRRFDNQSGERDEETDWIRVVIWGKLAENAAEYLKKGSLVYVEGRL 81 (167)
T ss_pred CcceEEEEeecccCcceeecCCCCeeeEEEEEEeccccccCCcccccccceEEEEEehHHHHHHHHHhcCCCEEEEEEEE
Confidence 899999999999999999999 5556777777777753 2579999999999999999999999999999999
Q ss_pred eeeeeEcCCCcE----EEEEEEEEEEEEEeeCCCC
Q 028557 156 VSDVVESGDGQQ----QTYYKVVVQQLNFVERSSP 186 (207)
Q Consensus 156 ~~~~~~dkdG~~----~~~~eIva~~I~~L~~k~~ 186 (207)
+++.|+|++|++ .+.+++++..+.+++.++.
T Consensus 82 ~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 82 QTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EeeeeecCCCcceeeEEEEEEEeehhhhhccCccc
Confidence 999999999954 4455557778888887754
No 23
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=99.89 E-value=8.4e-22 Score=146.04 Aligned_cols=93 Identities=34% Similarity=0.555 Sum_probs=88.7
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCC-------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA-------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~-------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
|+|+|+|+.+|+++++++|.+++.|+|++++.+ .+++||+|++||++|+.++++|+|||+|+|+|+|+.+.|+
T Consensus 1 v~l~G~l~~~p~~~~~~~g~~~~~~~v~~~~~~~~~~~~~~~~~~~~v~~~g~~a~~~~~~~~kG~~V~v~G~l~~~~~~ 80 (100)
T cd04496 1 VILIGRLGKDPELRYTPSGTPVARFSLAVNRRRKDRDEEEEETDWIRVVAFGKLAENAAKYLKKGDLVYVEGRLRTRSWE 80 (100)
T ss_pred CEEEEEecCCCEEEECCCCCEEEEEEEEEcCceecccccccccEEEEEEEEhHHHHHHHHHhCCCCEEEEEEEEEeceeE
Confidence 589999999999999999999999999999875 3799999999999999999999999999999999999999
Q ss_pred cCCCcEEEEEEEEEEEEEEe
Q 028557 162 SGDGQQQTYYKVVVQQLNFV 181 (207)
Q Consensus 162 dkdG~~~~~~eIva~~I~~L 181 (207)
+++|+.++.++|.|++|.++
T Consensus 81 ~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 81 DKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred CCCCCEEEEEEEEEEEEEEC
Confidence 99999999999999999875
No 24
>PRK05853 hypothetical protein; Validated
Probab=99.88 E-value=2.8e-22 Score=164.23 Aligned_cols=89 Identities=13% Similarity=0.287 Sum_probs=82.6
Q ss_pred EEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 91 LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
|+|||++||+++++. |..+++|+||+++++ .+++||+|++||++|+.+.++|+||++|+|+|+|+++.|+
T Consensus 1 ivGrLg~DPelr~~~-g~~va~F~lAvn~r~~~~~Ge~~d~~T~wi~V~~wg~lAe~v~~~L~KG~~V~V~GrL~~~~we 79 (161)
T PRK05853 1 VVGHIVNDPQRRKVG-DQEVIKFRVASNSRRRTADGGWEPGNSLFITVNCWGRLVTGVGAALGKGAPVIVVGHVYTSEYE 79 (161)
T ss_pred CeEcccCCCEEEEEC-CceEEEEEEEECCCeECCCCCEeccCccEEEEEEEhHHHHHHHHHcCCCCEEEEEEEEEccceE
Confidence 689999999999984 789999999999764 1489999999999999999999999999999999999999
Q ss_pred cCCCcEEEEEEEEEEEEEE
Q 028557 162 SGDGQQQTYYKVVVQQLNF 180 (207)
Q Consensus 162 dkdG~~~~~~eIva~~I~~ 180 (207)
|++|++++.++|+|+.|.+
T Consensus 80 dkdG~~r~~~eV~a~~Vg~ 98 (161)
T PRK05853 80 DRDGNRRSSLEMRATSVGP 98 (161)
T ss_pred CCCCCEEEEEEEEEEEecc
Confidence 9999999999999998744
No 25
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.82 E-value=2.3e-19 Score=153.46 Aligned_cols=98 Identities=19% Similarity=0.254 Sum_probs=92.0
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcC-
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG- 163 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dk- 163 (207)
-.|+|+|+|+|++||++++...|..++.|+|||+|..+.+|||+|++|+++|+.+. ++||+.|.|+|+|+ .|++.
T Consensus 7 ~~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rlae~~~--l~kG~~v~VeGqlr--sy~~~~ 82 (219)
T PRK05813 7 ENNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERLLAGMD--LKVGTLVIVEGQLR--SYNKFI 82 (219)
T ss_pred hcCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhhhhhhc--ccCCCEEEEEEEEE--EeccCC
Confidence 37999999999999999999999999999999999667899999999999999986 99999999999999 78777
Q ss_pred CCcEEEEEEEEEEEEEEeeCCCC
Q 028557 164 DGQQQTYYKVVVQQLNFVERSSP 186 (207)
Q Consensus 164 dG~~~~~~eIva~~I~~L~~k~~ 186 (207)
+|++++.++|+|.+|.+|+.++.
T Consensus 83 ~G~~R~vl~V~a~~i~~l~~~~~ 105 (219)
T PRK05813 83 DGKNRLILTVFARNIEYCDERSD 105 (219)
T ss_pred CCcEEEEEEEEEEEEEEccCCCc
Confidence 79999999999999999998754
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.71 E-value=2.6e-17 Score=133.81 Aligned_cols=103 Identities=20% Similarity=0.314 Sum_probs=92.1
Q ss_pred CcCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC-----------CCCeEEEEEEEc-hHHHHHHHhcCCCCEE
Q 028557 82 DKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA-----------TQTSWINLTFWD-ELAHVASQHVEKGQQI 149 (207)
Q Consensus 82 ~~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~-----------~~t~wi~V~awg-k~Ae~~~~~LkKGd~V 149 (207)
-....|+|+|.|+||.||.+|..+||++|+.|+|+++..+ +.++||+|.+|+ .+|+.+.++|+||++|
T Consensus 51 ~~~~vnkv~lvG~VGqdPl~k~~rngrpVtiFsv~T~~~~k~r~~q~g~~~~~tqWHRVsVf~~~L~d~~~k~lkKGsri 130 (175)
T KOG1653|consen 51 LERGVNKVILVGRVGQDPLQKILRNGRPVTIFSVGTGGMFKQRLYQAGDQPQPTQWHRVSVFNEVLADYALKYLKKGSRI 130 (175)
T ss_pred hhcccceEEEEcccccchHHHhhcCCCeEEEEEeecCccccccccccCCcCCcceeEEEEeeCchHHHHHHHHhcCCCEE
Confidence 4467999999999999999999999999999999998764 368999999999 6999999999999999
Q ss_pred EEEEEeeeeeeE-cCCCcE-EEEEEEEEEEEEEeeCC
Q 028557 150 YISGRLVSDVVE-SGDGQQ-QTYYKVVVQQLNFVERS 184 (207)
Q Consensus 150 ~VeGrL~~~~~~-dkdG~~-~~~~eIva~~I~~L~~k 184 (207)
+|+|+|+++-+. |.+|+. +....|+++++.||...
T Consensus 131 yveG~iey~g~~~d~~g~~~r~~t~iIa~~v~Fl~~a 167 (175)
T KOG1653|consen 131 YVEGKIEYRGENDDIQGNVKRIPTIIIARDVSFLIDA 167 (175)
T ss_pred EEeeeEEeeeeeccccCceeecceEEEechhHHHHHH
Confidence 999999996555 557886 88899999999998653
No 27
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=98.74 E-value=2.4e-07 Score=70.09 Aligned_cols=96 Identities=21% Similarity=0.277 Sum_probs=79.7
Q ss_pred cCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCC-----CeE--EEEEEEchHHHHHHHhcCCCCEEEEEEEe
Q 028557 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQ-----TSW--INLTFWDELAHVASQHVEKGQQIYISGRL 155 (207)
Q Consensus 83 ~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~-----t~w--i~V~awgk~Ae~~~~~LkKGd~V~VeGrL 155 (207)
+.|.|.+.|+|.|++-|..+++++|.+.+.|.|....-..+ -.| +.+..-|+.|+.+...+..|+.|.|+|-|
T Consensus 1 ~~~~Nrl~L~g~vak~~~r~~sPsGIphc~f~Lehrs~q~Eag~~RQv~~~mpv~vsG~qa~~lt~~i~~Gs~i~v~GFl 80 (103)
T COG2965 1 MNMTNRLSLSGTVAKVPVRRYSPSGIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSGRQAEELTQSITVGSYILVVGFL 80 (103)
T ss_pred CCccceEEEEEEeeccceeeeCCCCCeeEEEEEeecchhhhCCcceeEEEEccEEeechhhhhhhhccccccEEEEEEEE
Confidence 46889999999999999999999999999999998765433 345 44566789999998889999999999999
Q ss_pred eeeeeEcCCCcEEEEEEEEEEEEEEee
Q 028557 156 VSDVVESGDGQQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 156 ~~~~~~dkdG~~~~~~eIva~~I~~L~ 182 (207)
....- ++|- ..+.|.+++|.++|
T Consensus 81 a~~~~--~sg~--~~lvlha~qi~~id 103 (103)
T COG2965 81 ACHKR--RSGL--SKLVLHAEQIEFID 103 (103)
T ss_pred Eeecc--cCCc--cEEEEEeeEEEecC
Confidence 88854 4554 56678888888875
No 28
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.71 E-value=1.1e-07 Score=73.33 Aligned_cols=90 Identities=19% Similarity=0.158 Sum_probs=75.6
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCC-----CCeE--EEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT-----QTSW--INLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~-----~t~w--i~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
||.+.|+|.|++.|.+|+++.|.+++.|.|....... ..-| +.+++.|++|+.+.+ +..|+.|.|+|.|..
T Consensus 1 mN~l~Ltg~v~~~~~lryTPAGIp~~~~~LeH~S~q~EAG~~Rqv~~~i~ava~G~~a~~~~~-l~~Gs~v~v~GFLa~- 78 (107)
T PRK00036 1 MNTLELSARVLECGAMRHTPAGLPALELLLVHESEVVEAGHPRRVELTISAVALGDLALLLAD-TPLGTEMQVQGFLAP- 78 (107)
T ss_pred CCEEEEEEEEeccCccccCCCCCceEEEEEEEeEEeEeCCCcceEEEEEEEEEEhhHHHHhcc-cCCCCEEEEEEEEEE-
Confidence 5999999999999999999999999999999877542 2223 677889999998865 999999999999988
Q ss_pred eeEcCCCcEEEEEEEEEEEEEEee
Q 028557 159 VVESGDGQQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 159 ~~~dkdG~~~~~~eIva~~I~~L~ 182 (207)
+.+|. ..+-+.+++|+++.
T Consensus 79 ---~~~~~--~~LVLHi~~Ie~i~ 97 (107)
T PRK00036 79 ---ARKDS--VKVKLHLQQARRIA 97 (107)
T ss_pred ---CCCCC--CcEEEEhHHeEEcc
Confidence 23444 46788999999994
No 29
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=97.93 E-value=0.00011 Score=50.89 Aligned_cols=75 Identities=19% Similarity=0.337 Sum_probs=58.6
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcEE
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~~ 168 (207)
|++.|+|..-. .++..++.|.|. +.+.-++|++|++.+....+.++.|+.|.|.|.++.+ ++|
T Consensus 1 V~v~G~V~~~~-----~~~~~~~~~~l~-----D~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~----~~~--- 63 (75)
T PF01336_consen 1 VTVEGRVTSIR-----RSGGKIVFFTLE-----DGTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRY----NGG--- 63 (75)
T ss_dssp EEEEEEEEEEE-----EEETTEEEEEEE-----ETTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEE----TTS---
T ss_pred CEEEEEEEEEE-----cCCCCEEEEEEE-----ECCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEE----CCc---
Confidence 67888888633 345568888886 4568899999998788888999999999999999887 333
Q ss_pred EEEEEEEEEEEEe
Q 028557 169 TYYKVVVQQLNFV 181 (207)
Q Consensus 169 ~~~eIva~~I~~L 181 (207)
.++|.+++++.|
T Consensus 64 -~~~l~~~~i~~l 75 (75)
T PF01336_consen 64 -ELELIVPKIEIL 75 (75)
T ss_dssp -SEEEEEEEEEEE
T ss_pred -cEEEEECEEEEC
Confidence 568888888765
No 30
>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=97.17 E-value=0.0031 Score=45.96 Aligned_cols=67 Identities=21% Similarity=0.268 Sum_probs=54.0
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch-HHHHHHHhcC-CCCEEEEEEEeeeeeeE
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAHVASQHVE-KGQQIYISGRLVSDVVE 161 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk-~Ae~~~~~Lk-KGd~V~VeGrL~~~~~~ 161 (207)
.|++.|.|-. .+.|.+.+|+.+..|.|. +.++-+.|..|.+ .-+. ...++ +|+.|.|.|.++.+.|.
T Consensus 1 ~v~i~G~Vf~-~e~re~k~g~~i~~~~it-----D~t~Si~~K~F~~~~~~~-~~~ik~~G~~v~v~G~v~~D~f~ 69 (82)
T cd04484 1 NVVVEGEVFD-LEIRELKSGRKILTFKVT-----DYTSSITVKKFLRKDEKD-KEELKSKGDWVRVRGKVQYDTFS 69 (82)
T ss_pred CEEEEEEEEE-EEEEEecCCCEEEEEEEE-----cCCCCEEEEEeccCChhH-HhhcccCCCEEEEEEEEEEccCC
Confidence 3788999964 788999999988888887 4566788888873 3333 36699 99999999999999884
No 31
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=97.10 E-value=0.011 Score=41.60 Aligned_cols=74 Identities=19% Similarity=0.358 Sum_probs=55.3
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcEE
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~~ 168 (207)
+.+.|-|.. .. .+++| ++.|+|.-. +.=+.|++|.+..+.....|++|+.|.|+|++..+.+ +|
T Consensus 2 ~~v~g~v~~-i~--~tk~g--~~~~~L~D~-----~~~i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~~~~~---~~--- 65 (78)
T cd04489 2 VWVEGEISN-LK--RPSSG--HLYFTLKDE-----DASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEP---RG--- 65 (78)
T ss_pred EEEEEEEec-CE--ECCCc--EEEEEEEeC-----CeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECC---CC---
Confidence 467888884 33 36677 888888743 4668999999977777889999999999999997543 22
Q ss_pred EEEEEEEEEEE
Q 028557 169 TYYKVVVQQLN 179 (207)
Q Consensus 169 ~~~eIva~~I~ 179 (207)
.+.+.++++.
T Consensus 66 -~~~l~v~~i~ 75 (78)
T cd04489 66 -GYQLIVEEIE 75 (78)
T ss_pred -EEEEEEEEEE
Confidence 3566676664
No 32
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=96.90 E-value=0.015 Score=40.71 Aligned_cols=73 Identities=19% Similarity=0.328 Sum_probs=54.4
Q ss_pred CCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcEEEEEEEEE
Q 028557 96 GTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVVV 175 (207)
Q Consensus 96 ~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~~~~~eIva 175 (207)
....+.+.+++|++++.++|. +.+.-+.|.+|++.-. ....++.|..|.|.|++.. + +| ..++.+
T Consensus 6 v~~~~~~~tk~g~~~~~~~l~-----D~tg~i~~~~f~~~~~-~~~~l~~g~~v~v~G~v~~--~---~~----~~~l~~ 70 (83)
T cd04492 6 IKSKELRTAKNGKPYLALTLQ-----DKTGEIEAKLWDASEE-DEEKFKPGDIVHVKGRVEE--Y---RG----RLQLKI 70 (83)
T ss_pred EEEeeeecccCCCcEEEEEEE-----cCCCeEEEEEcCCChh-hHhhCCCCCEEEEEEEEEE--e---CC----ceeEEE
Confidence 345667788899999999888 4455689999996443 3678999999999999954 2 22 246777
Q ss_pred EEEEEeeC
Q 028557 176 QQLNFVER 183 (207)
Q Consensus 176 ~~I~~L~~ 183 (207)
.++..++.
T Consensus 71 ~~i~~l~~ 78 (83)
T cd04492 71 QRIRLVTE 78 (83)
T ss_pred EEEEECCc
Confidence 88887764
No 33
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=96.81 E-value=0.028 Score=37.30 Aligned_cols=60 Identities=25% Similarity=0.355 Sum_probs=45.0
Q ss_pred EEEEECCCceEEEcCCCcEEEEEEEEEecCCCCC-eEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQT-SWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 91 LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t-~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
+.|.|..- ..+.+ |+.++.|.|. +.+ ..+.|++|.+..+.....+++|+.|.|+|++..+
T Consensus 2 v~g~v~~~-~~~~~--~~~~~~~~l~-----D~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~~ 62 (75)
T cd03524 2 IVGIVVAV-EEIRT--EGKVLIFTLT-----DGTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKKF 62 (75)
T ss_pred eEEEEEee-ccccc--CCeEEEEEEE-----cCCCCEEEEEEEchHHHHHHhhccCCCEEEEEEEEEec
Confidence 45666642 22222 6678888886 456 8899999999877777889999999999999653
No 34
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=96.77 E-value=0.012 Score=42.03 Aligned_cols=73 Identities=25% Similarity=0.310 Sum_probs=53.5
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcEE
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~~ 168 (207)
|.+.|.|.+.+. ++|. +.|+|.- +..=++|++|...+..+...++.||.|.|.|++.. +.|
T Consensus 1 v~v~GeVs~~~~----~~GH--vyfsLkD-----~~a~i~cv~f~~~~~~~~~~l~~Gd~V~v~G~v~~-----~~G--- 61 (73)
T cd04487 1 VHIEGEVVQIKQ----TSGP--TIFTLRD-----ETGTVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEP-----RDG--- 61 (73)
T ss_pred CEEEEEEecccc----CCCC--EEEEEEc-----CCEEEEEEEEchhccCCcCCCCCCCEEEEEEEEec-----CCe---
Confidence 357788887663 5675 6677742 33458999998876556667999999999999873 344
Q ss_pred EEEEEEEEEEEEe
Q 028557 169 TYYKVVVQQLNFV 181 (207)
Q Consensus 169 ~~~eIva~~I~~L 181 (207)
.+++.|++++.|
T Consensus 62 -~~ql~v~~i~~~ 73 (73)
T cd04487 62 -QLQIEVESLEVL 73 (73)
T ss_pred -EEEEEEeeEEEC
Confidence 578888888764
No 35
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.71 E-value=0.018 Score=39.88 Aligned_cols=77 Identities=17% Similarity=0.355 Sum_probs=55.4
Q ss_pred EEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcEEEE
Q 028557 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTY 170 (207)
Q Consensus 91 LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~~~~ 170 (207)
+.|.|.. ...+.+.+|+.++.++|. +.+.-+.|++|+..-+...+.+++|..|.|.|.+... +| .
T Consensus 2 i~g~v~~-~~~~~~k~g~~~~~~~l~-----D~tg~~~~~~f~~~~~~~~~~l~~g~~v~v~G~v~~~-----~~----~ 66 (84)
T cd04485 2 VAGLVTS-VRRRRTKKGKRMAFVTLE-----DLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERR-----DG----G 66 (84)
T ss_pred EEEEEEE-eEEEEcCCCCEEEEEEEE-----eCCCeEEEEECHHHHHHHHHHhcCCCEEEEEEEEEec-----CC----c
Confidence 5666654 455778889988888886 4455689999987544567889999999999999652 23 2
Q ss_pred EEEEEEEEEEee
Q 028557 171 YKVVVQQLNFVE 182 (207)
Q Consensus 171 ~eIva~~I~~L~ 182 (207)
.++.++++..++
T Consensus 67 ~~l~~~~i~~~~ 78 (84)
T cd04485 67 LRLIAERIEDLE 78 (84)
T ss_pred eEEEeeccccHH
Confidence 456666665553
No 36
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=96.59 E-value=0.012 Score=44.57 Aligned_cols=68 Identities=18% Similarity=0.136 Sum_probs=54.3
Q ss_pred CCccEEEEEEEECCCceEEEcCCC---cEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEe
Q 028557 84 ELTNTVHLIGVVGTPIETKHLPSG---KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRL 155 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t~nG---~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL 155 (207)
..++.+.|.|||..--+++...++ ..+..+.|.- ++++-++|++|++.++...+.|+.|+.+.|++-.
T Consensus 7 p~~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~D----e~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~ 77 (104)
T cd04474 7 PYQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLD----EDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGS 77 (104)
T ss_pred CCCCcEEEEEEEeeccccccccCCCCCcEEEEEEEEE----CCCCEEEEEEehHHHHHhhcccccccEEEEeccE
Confidence 356789999999986666776653 4577777652 2377899999999999999999999999999844
No 37
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende
Probab=96.03 E-value=0.072 Score=39.51 Aligned_cols=72 Identities=11% Similarity=0.237 Sum_probs=52.5
Q ss_pred EEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH--HHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcE
Q 028557 90 HLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (207)
Q Consensus 90 ~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~--Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~ 167 (207)
.+.|.|.+-+. ...+|. +.|+|. ++..-++|++|... +..+...|+.||.|.|.|.+....
T Consensus 2 ~v~GeVs~~~~--~~~sGH--~yFtlk-----D~~~~i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~v~~y~-------- 64 (91)
T cd04482 2 RVTGKVVEEPR--TIEGGH--VFFKIS-----DGTGEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT-------- 64 (91)
T ss_pred EEEEEEeCCee--cCCCCC--EEEEEE-----CCCcEEEEEEECcccccccccCCCCCCCEEEEEEEEecCC--------
Confidence 46788887553 224665 667774 34467899999876 567777899999999999986653
Q ss_pred EEEEEEEEEEEEEee
Q 028557 168 QTYYKVVVQQLNFVE 182 (207)
Q Consensus 168 ~~~~eIva~~I~~L~ 182 (207)
.+.++.++.+.
T Consensus 65 ----ql~ve~l~~~g 75 (91)
T cd04482 65 ----TLNLEKLRVIR 75 (91)
T ss_pred ----EEEEEEEEECC
Confidence 57888887764
No 38
>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=95.99 E-value=0.19 Score=36.31 Aligned_cols=73 Identities=16% Similarity=0.277 Sum_probs=52.8
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHH--HHHHhcCCCCEEEEEEEeeeeeeEcCCCc
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae--~~~~~LkKGd~V~VeGrL~~~~~~dkdG~ 166 (207)
+.+.|-|.. .. .+++|++ .++|- +.+.-+.|++|.+.-+ .....|+.|..|+|.|++.. +++
T Consensus 2 v~i~GiI~~-v~--~TK~g~~--~~~le-----D~~G~~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g~v~~-----~~~- 65 (79)
T cd04490 2 VSIIGMVND-VR--STKNGHR--IVELE-----DTTGRITVLLTKDKEELFEEAEDILPDEVIGVSGTVSK-----DGG- 65 (79)
T ss_pred EEEEEEEeE-EE--EcCCCCE--EEEEE-----CCCCEEEEEEeCchhhhhhhhhhccCCCEEEEEEEEec-----CCC-
Confidence 567777774 33 6778887 44443 4466699999999777 77889999999999999922 122
Q ss_pred EEEEEEEEEEEEEEee
Q 028557 167 QQTYYKVVVQQLNFVE 182 (207)
Q Consensus 167 ~~~~~eIva~~I~~L~ 182 (207)
++.+++|-+-+
T Consensus 66 -----~l~~~~I~~~~ 76 (79)
T cd04490 66 -----LIFADEIFRPD 76 (79)
T ss_pred -----EEEEEEeEcCC
Confidence 67777776544
No 39
>PRK07211 replication factor A; Reviewed
Probab=95.79 E-value=0.072 Score=50.94 Aligned_cols=68 Identities=25% Similarity=0.356 Sum_probs=57.0
Q ss_pred CCccEEEEEEEECCCceEEEcCC-C----cEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEee
Q 028557 84 ELTNTVHLIGVVGTPIETKHLPS-G----KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLV 156 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t~n-G----~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~ 156 (207)
..|++|+|.|||..--++|+..+ | ..++++.|+ +++-=+++++|+..|+.+...|++|+.+.|.|+..
T Consensus 61 pg~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~-----DeTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~ 133 (485)
T PRK07211 61 PGMDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVA-----DETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK 133 (485)
T ss_pred CCCCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEE-----cCCCeEEEEEechHhHhhhcccCCCCEEEEeceEe
Confidence 36899999999998777777653 2 268888887 57778999999999999999999999999998763
No 40
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=95.54 E-value=0.35 Score=36.29 Aligned_cols=77 Identities=17% Similarity=0.278 Sum_probs=59.1
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHH-HhcCCCCEEEEEEEeeeeeeEcCC
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVAS-QHVEKGQQIYISGRLVSDVVESGD 164 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~-~~LkKGd~V~VeGrL~~~~~~dkd 164 (207)
+-.+-+.|.|.+ ++...+| .+.|+|.- +..=++|++|...+..+. ..++.|+.|.|.|++.... +.
T Consensus 21 ~~~vwV~GEIs~---~~~~~~g--h~YftLkD-----~~a~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~~~y~---~~ 87 (99)
T PF13742_consen 21 LPNVWVEGEISN---LKRHSSG--HVYFTLKD-----EEASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYE---PR 87 (99)
T ss_pred cCCEEEEEEEee---cEECCCc--eEEEEEEc-----CCcEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEEC---CC
Confidence 567899999985 5544445 58888885 337799999999888887 7899999999999998763 45
Q ss_pred CcEEEEEEEEEEEEE
Q 028557 165 GQQQTYYKVVVQQLN 179 (207)
Q Consensus 165 G~~~~~~eIva~~I~ 179 (207)
| .+.+.+++|+
T Consensus 88 G----~~sl~v~~i~ 98 (99)
T PF13742_consen 88 G----SLSLIVEDID 98 (99)
T ss_pred c----EEEEEEEEeE
Confidence 5 4566666664
No 41
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=94.82 E-value=0.37 Score=35.66 Aligned_cols=80 Identities=10% Similarity=0.199 Sum_probs=54.4
Q ss_pred EEEE-ECCCceEE-EcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcEE
Q 028557 91 LIGV-VGTPIETK-HLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (207)
Q Consensus 91 LiGr-L~~dPeir-~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~~ 168 (207)
|.|. |..-|+.. .+++| .-+=.+.+.....-+..+.+.+||+.++.+ ..++.||.|.|+=.|+.|.|+ .+
T Consensus 2 i~Gkii~~l~~~~g~s~~G--w~Kre~Vlet~~qYP~~i~f~~~~dk~~~l-~~~~~Gd~V~Vsf~i~~RE~~-----gr 73 (84)
T PF11325_consen 2 ITGKIIKVLPEQQGVSKNG--WKKREFVLETEEQYPQKICFEFWGDKIDLL-DNFQVGDEVKVSFNIEGREWN-----GR 73 (84)
T ss_pred cccEEEEEecCcccCcCCC--cEEEEEEEeCCCcCCceEEEEEEcchhhhh-ccCCCCCEEEEEEEeeccEec-----ce
Confidence 4566 33334433 33467 333333333444457788899999877774 568999999999999999997 45
Q ss_pred EEEEEEEEEE
Q 028557 169 TYYKVVVQQL 178 (207)
Q Consensus 169 ~~~eIva~~I 178 (207)
+...|.|=+|
T Consensus 74 ~fn~i~aWri 83 (84)
T PF11325_consen 74 WFNSIRAWRI 83 (84)
T ss_pred EeeEeEEEEe
Confidence 7777777554
No 42
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=94.21 E-value=0.26 Score=41.66 Aligned_cols=89 Identities=11% Similarity=0.162 Sum_probs=62.0
Q ss_pred cCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 83 ~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
..-+|.|.++|.|...+.+-+ ...+.+++|+-. ..+.|+-.--|..-|..+++.+.++|.|.|.|.+++ |++
T Consensus 42 G~k~nRifivGtltek~~i~e---d~~~~R~rVvDp---TGsF~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~~--y~~ 113 (196)
T COG3390 42 GLKVNRIFIVGTLTEKEGIGE---DREYWRIRVVDP---TGSFYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIRT--YRT 113 (196)
T ss_pred hhheeEEEEEEEEEeccCcCC---cccEEEEEEecC---CceEEEEcCCCChHHHHHHHhccCCceEEEecccce--eec
Confidence 346999999999998665421 245888888832 235555333455678888899999999999998865 566
Q ss_pred CCCcEEEEEEEEEEEEEEe
Q 028557 163 GDGQQQTYYKVVVQQLNFV 181 (207)
Q Consensus 163 kdG~~~~~~eIva~~I~~L 181 (207)
.+|. +.+.|..+.|..+
T Consensus 114 d~g~--~~~siRpE~vs~v 130 (196)
T COG3390 114 DEGV--VLFSIRPELVSKV 130 (196)
T ss_pred CCCc--eEEEechhhhhhc
Confidence 6776 3445555555444
No 43
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=94.07 E-value=0.37 Score=37.95 Aligned_cols=63 Identities=17% Similarity=0.229 Sum_probs=46.2
Q ss_pred CccEEEEEEEECC--CceEEEcCCCc-EEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEE-EEee
Q 028557 85 LTNTVHLIGVVGT--PIETKHLPSGK-VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYIS-GRLV 156 (207)
Q Consensus 85 ~mN~V~LiGrL~~--dPeir~t~nG~-~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~Ve-GrL~ 156 (207)
.++.|.++|.|.. ++....+++|. .+....|+ ++|--+.+++|++.|+ .+++||.|.|. |..+
T Consensus 13 g~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~-----D~TG~I~~tlW~~~a~----~l~~GdvV~I~na~v~ 79 (129)
T PRK06461 13 GMERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVG-----DETGRVKLTLWGEQAG----SLKEGEVVEIENAWTT 79 (129)
T ss_pred CCCceEEEEEEEEcCCceEEEeCCCceEEEEEEEE-----CCCCEEEEEEeCCccc----cCCCCCEEEEECcEEe
Confidence 4678999999985 34444555664 47777776 5566799999998654 58999999999 5555
No 44
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=94.04 E-value=0.34 Score=43.87 Aligned_cols=74 Identities=14% Similarity=0.205 Sum_probs=56.2
Q ss_pred ECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcEEEEEEEE
Q 028557 95 VGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVV 174 (207)
Q Consensus 95 L~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~~~~~eIv 174 (207)
+.++.++++++||++|..++|. +.+-=++..+|+..-+. ...++.|+.|.|+|++.. | +|+ .++.
T Consensus 19 lv~~~~~~~~knG~~yl~l~l~-----D~tG~I~ak~W~~~~~~-~~~~~~g~vv~v~G~v~~--y---~g~----~Ql~ 83 (314)
T PRK13480 19 LIKSATKGVASNGKPFLTLILQ-----DKSGDIEAKLWDVSPED-EATYVPETIVHVKGDIIN--Y---RGR----KQLK 83 (314)
T ss_pred EEEEceeeecCCCCeEEEEEEE-----cCCcEEEEEeCCCChhh-HhhcCCCCEEEEEEEEEE--E---CCc----ceEE
Confidence 5567899999999999999998 45666889999975444 567999999999999974 4 232 2455
Q ss_pred EEEEEEeeC
Q 028557 175 VQQLNFVER 183 (207)
Q Consensus 175 a~~I~~L~~ 183 (207)
+.++..++.
T Consensus 84 i~~i~~~~~ 92 (314)
T PRK13480 84 VNQIRLATE 92 (314)
T ss_pred EEEeEECCC
Confidence 667766543
No 45
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=93.84 E-value=0.54 Score=44.59 Aligned_cols=81 Identities=12% Similarity=0.202 Sum_probs=62.3
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCc
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~ 166 (207)
..|.+.|.|.. ...+.|++|+.++.++|- +.+.-+.|++|.+.-+.....|+.|..|.|+|+++.+ +|
T Consensus 281 ~~v~vaG~I~~-ik~~~TKkG~~maf~~le-----D~tG~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~-----~~- 348 (449)
T PRK07373 281 TKVSAVVMLNE-VKKIVTKKGDPMAFLQLE-----DLSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRR-----DD- 348 (449)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEE-----ECCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC-
Confidence 36788888886 667788899999888887 4455689999999888888999999999999999542 23
Q ss_pred EEEEEEEEEEEEEEee
Q 028557 167 QQTYYKVVVQQLNFVE 182 (207)
Q Consensus 167 ~~~~~eIva~~I~~L~ 182 (207)
...+++++|.-++
T Consensus 349 ---~~~liv~~i~~l~ 361 (449)
T PRK07373 349 ---QVQLIVEDAEPIE 361 (449)
T ss_pred ---eEEEEEeEeecHh
Confidence 2456666665543
No 46
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=93.81 E-value=0.37 Score=34.34 Aligned_cols=59 Identities=24% Similarity=0.356 Sum_probs=40.3
Q ss_pred EEEEECCCceEEEcC-CC--cEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEE-EEeee
Q 028557 91 LIGVVGTPIETKHLP-SG--KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYIS-GRLVS 157 (207)
Q Consensus 91 LiGrL~~dPeir~t~-nG--~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~Ve-GrL~~ 157 (207)
++|+|..--+.+++. +| ..+..+.|+ +++--+++++|+..+ ...++.|+.|.++ |.++.
T Consensus 2 v~~~V~~~~~~~~~~~~g~~~~~~~~~l~-----D~TG~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~ 64 (82)
T cd04491 2 VEGKVLSISEPREFTRDGSEGKVQSGLVG-----DETGTIRFTLWDEKA---ADDLEPGDVVRIENAYVRE 64 (82)
T ss_pred EEEEEEEccCCeEeccCCCeeEEEEEEEE-----CCCCEEEEEEECchh---cccCCCCCEEEEEeEEEEe
Confidence 566665443344332 33 356666666 445579999999877 5679999999999 66644
No 47
>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=93.68 E-value=1.9 Score=32.01 Aligned_cols=86 Identities=15% Similarity=0.112 Sum_probs=53.8
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH---HH---HHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL---AH---VASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~---Ae---~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
.|.|.|+|.. +|. .|+.++-+.|. +.+..+.|++-.+. .+ .....|..|+.|.|+|.+....-
T Consensus 1 ~V~i~Gwv~~---~R~--~g~k~~Fi~Lr-----D~sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~- 69 (102)
T cd04320 1 EVLIRARVHT---SRA--QGAKLAFLVLR-----QQGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEE- 69 (102)
T ss_pred CEEEEEEEEE---eec--CCCceEEEEEe-----cCCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCC-
Confidence 3788899975 443 34345544443 22356888776432 11 22356899999999999976421
Q ss_pred cCCCcEEEEEEEEEEEEEEeeCC
Q 028557 162 SGDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 162 dkdG~~~~~~eIva~~I~~L~~k 184 (207)
..++.....+||.++++.+|...
T Consensus 70 ~~~~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 70 PIKSCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred cccCCCcCcEEEEEEEEEEEecC
Confidence 11222224689999999999754
No 48
>PF11506 DUF3217: Protein of unknown function (DUF3217); InterPro: IPR024506 This family of proteins with unknown function appears to be restricted to Mycoplasma.; PDB: 2HQL_E.
Probab=93.57 E-value=2.1 Score=32.01 Aligned_cols=80 Identities=19% Similarity=0.120 Sum_probs=52.2
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCC---CCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT---QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~---~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
|+|.|.|.|-|.+ .+-..+-. -...+|.-.|.+. -+||+-+-+-|++|-.+.+|.+|=.-|.|+|.|++..=
T Consensus 1 MLN~V~LEG~IeS---~kWS~~KT-GF~VTI~QkR~FG~r~FTDyyViYAN~QL~~ELEky~~k~k~isieG~L~TY~e- 75 (104)
T PF11506_consen 1 MLNTVFLEGEIES---YKWSKKKT-GFLVTIKQKRKFGERTFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRTYLE- 75 (104)
T ss_dssp --EEEEEEEEEEE---EEE-TTSS-EEEEEEEEEEEETTEEEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEEEEE-
T ss_pred CcceEEEeceeeh---hcccccCc-eEEEEEeehhhhccccceeEEEEEECCeeehhHHHhhhhceEEEEeeehhhHHH-
Confidence 7899999999875 23332211 1223344444444 37888888889999999999999999999999987642
Q ss_pred cCCCcEEE
Q 028557 162 SGDGQQQT 169 (207)
Q Consensus 162 dkdG~~~~ 169 (207)
.+.|...+
T Consensus 76 kkS~iWKT 83 (104)
T PF11506_consen 76 KKSKIWKT 83 (104)
T ss_dssp TTTTEEEE
T ss_pred Hhccccee
Confidence 24565433
No 49
>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=93.33 E-value=0.96 Score=33.43 Aligned_cols=68 Identities=24% Similarity=0.312 Sum_probs=42.0
Q ss_pred EEEEEEECCCceEEE--cCC-CcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 89 VHLIGVVGTPIETKH--LPS-GKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 89 V~LiGrL~~dPeir~--t~n-G~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
|.++|.|..--+.+. +.+ |.......|.+-..- ..-+.|++||+.|+.+.... |+.|.+.| ++.+.|.
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D~t--~~~i~vtLWg~~a~~~~~~~--~~vv~~~~-~~i~~~~ 72 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLVDES--GHSVELTLWGEQAELFDGSE--NPVIAIKG-VKVSEFN 72 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEEeCC--CCEEEEEEEHHHhhhcccCC--CCEEEEEe-eEEEecC
Confidence 567787775333322 233 664444444433221 12688999999999876543 99999988 5556563
No 50
>PRK15491 replication factor A; Provisional
Probab=93.07 E-value=0.36 Score=44.66 Aligned_cols=66 Identities=30% Similarity=0.457 Sum_probs=52.8
Q ss_pred CCccEEEEEEEECCCceEEEcC--CC--cEEEEEEEEEecCCCCCeEEEEEEEchHHHHHH-HhcCCCCEEEEEEE
Q 028557 84 ELTNTVHLIGVVGTPIETKHLP--SG--KVLAWTRLAVRKSATQTSWINLTFWDELAHVAS-QHVEKGQQIYISGR 154 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t~--nG--~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~-~~LkKGd~V~VeGr 154 (207)
..++.|+|.|+|..--++|++. +| ..+.++.|+ ++|--+++++|++.|+.+. ..|..|+.|.|.|.
T Consensus 65 ~~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~-----DeTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~ 135 (374)
T PRK15491 65 ESSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVA-----DETGSIRLTLWDDLADLIKTGDIEVGKSLNISGY 135 (374)
T ss_pred CCCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEE-----cCCCeEEEEEECchhhhhccCCcCCCCEEEEeee
Confidence 3579999999999876666653 45 357777777 4666799999999998876 46999999999986
No 51
>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=92.97 E-value=0.69 Score=31.14 Aligned_cols=60 Identities=17% Similarity=0.195 Sum_probs=40.3
Q ss_pred EEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 91 LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
+.|+|.... .+... |..++.+.+. +++.-+.++.|+.. ..+.+.+++|+.+.|.|.+...
T Consensus 2 i~~~V~~~~-~~~~~-~~~~~~~~~~-----D~~g~i~~~~F~~~-~~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 2 VEGTVVSVE-VVPRR-GRRRLKVTLS-----DGTGTLTLVFFNFQ-PYLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred EEEEEEEEE-eccCC-CccEEEEEEE-----cCCCEEEEEEECCC-HHHHhcCCCCCEEEEEEEEeec
Confidence 556665432 22222 5567777775 33556899999832 3556789999999999999754
No 52
>PRK07211 replication factor A; Reviewed
Probab=92.90 E-value=0.34 Score=46.41 Aligned_cols=66 Identities=21% Similarity=0.381 Sum_probs=49.6
Q ss_pred CccEEEEEEEECCCceEEEcC--CCc--EEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEE-Eee
Q 028557 85 LTNTVHLIGVVGTPIETKHLP--SGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLV 156 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~--nG~--~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeG-rL~ 156 (207)
.++.|.|+|+|..--++|++. +|. .+..+.|+ +++--+++++|++.|+.+ ..|.+|+.|.|.+ +++
T Consensus 170 ~~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~-----DeTG~IR~TlW~d~Ad~~-~~le~G~Vv~I~~a~Vr 240 (485)
T PRK07211 170 GLSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVG-----DETGRVRVTLWDDRADLA-EELDAGESVEIVDGYVR 240 (485)
T ss_pred CCCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEE-----cCCCeEEEEEechhhhhh-ccCCCCCEEEEEeeEEE
Confidence 478899999999766666654 453 45555554 345569999999999998 6799999999975 443
No 53
>PRK15491 replication factor A; Provisional
Probab=92.73 E-value=0.46 Score=44.01 Aligned_cols=72 Identities=17% Similarity=0.294 Sum_probs=51.0
Q ss_pred CccEEEEEEEECCCceEEEc--CCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEE-Eeeeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHL--PSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVSDVV 160 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t--~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeG-rL~~~~~ 160 (207)
....|.+.|+|..--+.|+. .+|...-.+.+..- +++--+++++|+..|+.+ +.|..|+.|.|.+ +.+.+.|
T Consensus 175 ~~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~---DetG~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~~~~ 249 (374)
T PRK15491 175 GDSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIG---DETGKIRVTLWDGKTDLA-DKLENGDSVEIINGYARTNNY 249 (374)
T ss_pred CCccEEEEEEEEEccCceEEEecCCCeEEEEEEEEE---CCCCeEEEEEecchhccc-ccCCCCCEEEEEeceEEEecc
Confidence 34569999999986655555 36764333333332 234459999999999886 6799999999966 5776655
No 54
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=92.59 E-value=1.2 Score=41.69 Aligned_cols=79 Identities=18% Similarity=0.263 Sum_probs=60.3
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
+..|-+.|-|.+ ++...+| .+.|+|.-. ..-++|++|...+..+...++.|+.|.|.|++..+ + +.|
T Consensus 23 ~~~v~v~gEis~---~~~~~sG--H~Yf~Lkd~-----~a~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~~y--~-~~g 89 (438)
T PRK00286 23 LGQVWVRGEISN---FTRHSSG--HWYFTLKDE-----IAQIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLY--E-PRG 89 (438)
T ss_pred CCcEEEEEEeCC---CeeCCCC--eEEEEEEcC-----CcEEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEE--C-CCC
Confidence 567899999986 4444566 477888733 56789999998887776779999999999999875 3 455
Q ss_pred cEEEEEEEEEEEEEEe
Q 028557 166 QQQTYYKVVVQQLNFV 181 (207)
Q Consensus 166 ~~~~~~eIva~~I~~L 181 (207)
.+.+.|++|...
T Consensus 90 ----~~ql~v~~i~~~ 101 (438)
T PRK00286 90 ----DYQLIVEEIEPA 101 (438)
T ss_pred ----CEEEEEEEeeeC
Confidence 467788888754
No 55
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=92.53 E-value=0.77 Score=48.29 Aligned_cols=81 Identities=17% Similarity=0.306 Sum_probs=63.5
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCc
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~ 166 (207)
..|.+.|-|. ..+.+.+++|++++.++|. +.+.-+.+++|.+.-+.....|..|..|.|+|+++.+ +|
T Consensus 978 ~~V~v~G~I~-~vk~~~TKkG~~mafltLe-----D~TG~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~-----~~- 1045 (1135)
T PRK05673 978 SVVTVAGLVV-SVRRRVTKRGNKMAIVTLE-----DLSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFD-----DG- 1045 (1135)
T ss_pred ceEEEEEEEE-EEEecccCCCCeEEEEEEE-----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC-
Confidence 4577888877 4777888999999998887 4555699999998767777889999999999999642 23
Q ss_pred EEEEEEEEEEEEEEee
Q 028557 167 QQTYYKVVVQQLNFVE 182 (207)
Q Consensus 167 ~~~~~eIva~~I~~L~ 182 (207)
...++++++.-++
T Consensus 1046 ---~~qlii~~I~~L~ 1058 (1135)
T PRK05673 1046 ---GLRLTAREVMDLE 1058 (1135)
T ss_pred ---eEEEEEeecccHH
Confidence 2467777777664
No 56
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=92.50 E-value=1.1 Score=42.17 Aligned_cols=78 Identities=15% Similarity=0.224 Sum_probs=59.9
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
+..|-+.|-|.+ ++...+| .+.|+|- ++..=++|++|...+..+.-.++.|+.|.|.|++..+ + +.|
T Consensus 17 ~~~v~V~GEisn---~~~~~sG--H~YFtLk-----D~~a~i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~~y--~-~~G 83 (432)
T TIGR00237 17 FLQVWIQGEISN---FTQPVSG--HWYFTLK-----DENAQVRCVMFRGNNNRLKFRPQNGQQVLVRGGISVY--E-PRG 83 (432)
T ss_pred CCcEEEEEEecC---CeeCCCc--eEEEEEE-----cCCcEEEEEEEcChhhCCCCCCCCCCEEEEEEEEEEE--C-CCC
Confidence 457899999986 4444567 4778884 3456789999999887777779999999999999865 3 455
Q ss_pred cEEEEEEEEEEEEEE
Q 028557 166 QQQTYYKVVVQQLNF 180 (207)
Q Consensus 166 ~~~~~~eIva~~I~~ 180 (207)
.+.++|++|+.
T Consensus 84 ----~~ql~v~~i~~ 94 (432)
T TIGR00237 84 ----DYQIICFEMQP 94 (432)
T ss_pred ----cEEEEEEEecc
Confidence 46788887764
No 57
>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A
Probab=92.35 E-value=2.6 Score=30.13 Aligned_cols=81 Identities=14% Similarity=0.195 Sum_probs=51.4
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHH---HHHHhcCCCCEEEEEEEeeeeeeEcCC
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH---VASQHVEKGQQIYISGRLVSDVVESGD 164 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae---~~~~~LkKGd~V~VeGrL~~~~~~dkd 164 (207)
+|.+.|+|.. +|. .|+ ++-+.|. + .+.-+.|++-..... .....|+.||.|.|+|.+....-..
T Consensus 1 ~V~i~Gwv~~---~R~--~g~-~~Fi~Lr-d----~~~~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~-- 67 (85)
T cd04100 1 EVTLAGWVHS---RRD--HGG-LIFIDLR-D----GSGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGN-- 67 (85)
T ss_pred CEEEEEEEeh---hcc--CCC-EEEEEEE-e----CCeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCC--
Confidence 3788999975 443 344 5544442 2 234566766543222 2345799999999999998764211
Q ss_pred CcEEEEEEEEEEEEEEee
Q 028557 165 GQQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 165 G~~~~~~eIva~~I~~L~ 182 (207)
+ ....+||.++++.+|.
T Consensus 68 ~-~~~~~El~~~~i~il~ 84 (85)
T cd04100 68 L-ATGEIELQAEELEVLS 84 (85)
T ss_pred C-CCCCEEEEEeEEEEEC
Confidence 1 1235899999999985
No 58
>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=92.18 E-value=2.8 Score=32.69 Aligned_cols=87 Identities=17% Similarity=0.251 Sum_probs=54.5
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHH--HHHHhcCCCCEEEEEEEeeeeeeEcCC
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGD 164 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae--~~~~~LkKGd~V~VeGrL~~~~~~dkd 164 (207)
..|++.|+|.. +|. .|+ ++.+.|. + .+..+.|++-.+... .....|+.|+.|.|+|.+....-..++
T Consensus 15 ~~V~i~Gwv~~---~R~--~gk-~~Fi~Lr-D----~~g~~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~ 83 (135)
T cd04317 15 QEVTLCGWVQR---RRD--HGG-LIFIDLR-D----RYGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVN 83 (135)
T ss_pred CEEEEEEeEeh---hcc--cCC-EEEEEEe-c----CCeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccC
Confidence 35999999986 443 244 4444442 2 223477776544222 233569999999999999865321011
Q ss_pred -CcEEEEEEEEEEEEEEeeCC
Q 028557 165 -GQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 165 -G~~~~~~eIva~~I~~L~~k 184 (207)
......+||.+++|.+|...
T Consensus 84 ~~~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 84 PKLPTGEIEVVASELEVLNKA 104 (135)
T ss_pred CCCCCCcEEEEEeEEEEEECC
Confidence 11123489999999999865
No 59
>PRK14699 replication factor A; Provisional
Probab=91.95 E-value=0.48 Score=45.35 Aligned_cols=69 Identities=26% Similarity=0.416 Sum_probs=53.7
Q ss_pred CccEEEEEEEECCCceEEEcC--CCc--EEEEEEEEEecCCCCCeEEEEEEEchHHHHHHH-hcCCCCEEEEEEEeeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHLP--SGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQ-HVEKGQQIYISGRLVSDV 159 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~--nG~--~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~-~LkKGd~V~VeGrL~~~~ 159 (207)
-+..|.|.|+|..-...|++. +|. .++++.|+ ++|--+++++|.+.|+.+.. .|++||.|.|.|. .+.
T Consensus 66 ~~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~ia-----DeTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~--~r~ 138 (484)
T PRK14699 66 ESGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVG-----DETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY--AKQ 138 (484)
T ss_pred CCceEEEEEEEEEecCceEEecCCCCceEEEEEEEe-----cCCCeEEEEEecCccchhhhcCCCCCCEEEEcce--ecc
Confidence 578899999999876667663 344 45666666 66778999999999887765 5999999999995 444
Q ss_pred e
Q 028557 160 V 160 (207)
Q Consensus 160 ~ 160 (207)
|
T Consensus 139 ~ 139 (484)
T PRK14699 139 G 139 (484)
T ss_pred C
Confidence 4
No 60
>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with
Probab=91.60 E-value=3 Score=29.79 Aligned_cols=81 Identities=17% Similarity=0.278 Sum_probs=49.8
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHH--HHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae--~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
+|+|.|+|.. +|.. |+ ++-+.|. +.+..+.|++-.+... .....|..|+.|.|+|.+....-..
T Consensus 1 ~V~v~Gwv~~---~R~~--g~-~~Fi~Lr-----D~~~~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~--- 66 (84)
T cd04323 1 RVKVFGWVHR---LRSQ--KK-LMFLVLR-----DGTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAK--- 66 (84)
T ss_pred CEEEEEEEEE---EecC--CC-cEEEEEE-----cCCeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCccc---
Confidence 4788899974 4433 33 4444442 2233477766544221 2335689999999999998754211
Q ss_pred cEEEEEEEEEEEEEEee
Q 028557 166 QQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 166 ~~~~~~eIva~~I~~L~ 182 (207)
.....+||.++++++|.
T Consensus 67 ~~~~~~Ei~~~~i~vl~ 83 (84)
T cd04323 67 QAPGGYELQVDYLEIIG 83 (84)
T ss_pred CCCCCEEEEEEEEEEEc
Confidence 11124899999999885
No 61
>PRK12366 replication factor A; Reviewed
Probab=91.19 E-value=1.3 Score=43.72 Aligned_cols=83 Identities=16% Similarity=0.256 Sum_probs=56.9
Q ss_pred cEEEEEEEECCCceEEEcCC--Cc-EEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcC
Q 028557 87 NTVHLIGVVGTPIETKHLPS--GK-VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG 163 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~n--G~-~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dk 163 (207)
+.++|.|||..--.+|++.+ |. .+..+.|+ . ++-=+++++|++.|+.+.. |..|+.+.|++--. +.|.+.
T Consensus 292 ~~~~I~grV~~~~~~R~f~~~~g~gkv~s~~l~--D---~tG~IR~t~w~~~~d~~~~-l~~G~vy~is~~~v-k~y~~~ 364 (637)
T PRK12366 292 EEVDVKGRIIAISDKREVERDDRTAEVQDIELA--D---GTGRVRVSFWGEKAKILEN-LKEGDAVKIENCKV-RTYYDN 364 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCcEEEEEEEEE--c---CCCeEEEEEeCchhhhhcc-cCCCCEEEEecCEE-eecccc
Confidence 48999999999888888753 33 34444444 3 2234999999999988765 78999999998332 356555
Q ss_pred CCcEEEEEEEEEEEE
Q 028557 164 DGQQQTYYKVVVQQL 178 (207)
Q Consensus 164 dG~~~~~~eIva~~I 178 (207)
.|+ +.+++.+..-
T Consensus 365 ~~~--~~~El~~~~~ 377 (637)
T PRK12366 365 EGE--KRVDLNAGYS 377 (637)
T ss_pred CCC--cCEEEEcCCc
Confidence 554 3356665533
No 62
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=91.16 E-value=1.5 Score=47.25 Aligned_cols=86 Identities=21% Similarity=0.237 Sum_probs=63.3
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHH--HHHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELA--HVASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~A--e~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
-.+.|++.|.|- +.+.|.+.+|+.+..|.|. +.++-+.|..|.+.. ......+++|+.|.|.|.+..+.|.
T Consensus 235 ~~~~v~i~G~if-~~e~~~~k~~~~~~~~~~t-----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~~- 307 (1437)
T PRK00448 235 EERRVVVEGYVF-KVEIKELKSGRHILTFKIT-----DYTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTFT- 307 (1437)
T ss_pred cCCeEEEEEEEE-EEEEEeccCCCEEEEEEEE-----cCCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCCC-
Confidence 357899999996 4888999999988888885 345677788887322 2344679999999999999998885
Q ss_pred CCCcEEEEEEEEEEEEEEeeC
Q 028557 163 GDGQQQTYYKVVVQQLNFVER 183 (207)
Q Consensus 163 kdG~~~~~~eIva~~I~~L~~ 183 (207)
++ ..+.++.|..++.
T Consensus 308 ~~------~~~~~~~~~~~~~ 322 (1437)
T PRK00448 308 RD------LVMNAQDINEIKH 322 (1437)
T ss_pred Cc------eEEEeeeeeecCC
Confidence 22 2344555555443
No 63
>PRK08402 replication factor A; Reviewed
Probab=91.12 E-value=0.9 Score=41.89 Aligned_cols=69 Identities=16% Similarity=0.216 Sum_probs=50.7
Q ss_pred CccEEEEEEEECCCceEEEc--CCCc--EEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHL--PSGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t--~nG~--~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
.+..|.++|+|..--..|+. .+|. .+.+..|+ ++|-.+++++|++.|......+..|+.|.|.|---..
T Consensus 71 g~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~-----DeTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a~V~e 143 (355)
T PRK08402 71 GMRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIY-----DDTGRARVVLWDAKVAKYYNKINVGDVIKVIDAQVRE 143 (355)
T ss_pred CCceeeEEEEEEEccCCceeeccCCCcceEEEEEEE-----cCCCeEEEEEechhhhhhcccCCCCCEEEEECCEEee
Confidence 46889999999974333433 3453 46667776 5677889999999988666779999999998544333
No 64
>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=90.87 E-value=2.3 Score=45.20 Aligned_cols=70 Identities=21% Similarity=0.236 Sum_probs=56.1
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHH--HHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELA--HVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~A--e~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
++.|++.|.|- +.+.+.+.+|+.+..|.|. +.++-+.|..|.+.- ....+.+++|+.|.|.|.+..+.|.
T Consensus 7 ~~~~~~~g~i~-~~~~~~~~~~~~~~~~~~~-----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~~~~~g~~~~d~~~ 78 (1213)
T TIGR01405 7 ENRVKIEGYIF-KIEIKELKSGRTLLKIKVT-----DYTDSLILKKFLKSEEDPEKFDGIKIGKWVRARGKIELDNFS 78 (1213)
T ss_pred CCeEEEEEEEE-EEEeEeccCCCEEEEEEEE-----cCCCCEEEEEecccccchHHHhhcCCCcEEEEEEEEeccCCC
Confidence 57899999996 4888999999988888887 346677888887421 2234679999999999999998885
No 65
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=90.10 E-value=2.5 Score=44.69 Aligned_cols=81 Identities=12% Similarity=0.231 Sum_probs=62.6
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcE
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~ 167 (207)
.|.+.|-|.. .+.+.+++|++++.++|. +.+.-+.|++|.+.-+.....|+.|..|.|+|+++.+. +|
T Consensus 993 ~v~v~g~i~~-~~~~~tk~G~~maf~~le-----D~~g~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~----~~-- 1060 (1151)
T PRK06826 993 KVIIGGIITE-VKRKTTRNNEMMAFLTLE-----DLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE----DE-- 1060 (1151)
T ss_pred EEEEEEEEEE-eEeeccCCCCeEEEEEEE-----ECCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC----CC--
Confidence 5788888875 667778899999988887 44556899999998777888999999999999996431 23
Q ss_pred EEEEEEEEEEEEEee
Q 028557 168 QTYYKVVVQQLNFVE 182 (207)
Q Consensus 168 ~~~~eIva~~I~~L~ 182 (207)
...++++++.-++
T Consensus 1061 --~~~~~~~~~~~l~ 1073 (1151)
T PRK06826 1061 --EPKLICEEIEPLV 1073 (1151)
T ss_pred --ceEEEEeeeecHh
Confidence 2466677776654
No 66
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=89.71 E-value=2.7 Score=44.50 Aligned_cols=80 Identities=11% Similarity=0.174 Sum_probs=61.2
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCc
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~ 166 (207)
..|.+.|-|.. ...+.|++|+.++.++|. +.+.-+.|++|.+.-+.....|+.|..|.|+|+++.+ +|
T Consensus 1001 ~~v~v~g~i~~-~k~~~Tk~G~~maf~~le-----D~tg~~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~-----~~- 1068 (1170)
T PRK07374 1001 AKVSAIAMIPE-MKQVTTRKGDRMAILQLE-----DLTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRR-----DD- 1068 (1170)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEE-----ECCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC-
Confidence 46888888885 666778899999888887 4455689999999888888899999999999999543 22
Q ss_pred EEEEEEEEEEEEEEe
Q 028557 167 QQTYYKVVVQQLNFV 181 (207)
Q Consensus 167 ~~~~~eIva~~I~~L 181 (207)
...++++++.-+
T Consensus 1069 ---~~~~~~~~i~~l 1080 (1170)
T PRK07374 1069 ---RVQLIIDDCREI 1080 (1170)
T ss_pred ---eEEEEEeeeecH
Confidence 235556665544
No 67
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=89.66 E-value=2.5 Score=44.50 Aligned_cols=80 Identities=14% Similarity=0.209 Sum_probs=62.4
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcE
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~ 167 (207)
.|.+.|-|.. ...+.+++|+.++.++|. +.+.-+.|++|.+.-+.....|..|..|.|+|+++.+ +|
T Consensus 945 ~v~v~g~i~~-~~~~~tk~g~~maf~~le-----D~tg~~e~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~-----~~-- 1011 (1107)
T PRK06920 945 VQRAIVYITS-VKVIRTKKGQKMAFITFC-----DQNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELR-----NH-- 1011 (1107)
T ss_pred EEEEEEEEEE-eEeecCCCCCeEEEEEEe-----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC--
Confidence 6788888875 566777899998888886 4566699999999888888899999999999999653 22
Q ss_pred EEEEEEEEEEEEEee
Q 028557 168 QTYYKVVVQQLNFVE 182 (207)
Q Consensus 168 ~~~~eIva~~I~~L~ 182 (207)
...++++++.-++
T Consensus 1012 --~~~~~~~~i~~l~ 1024 (1107)
T PRK06920 1012 --KLQWIVNGLYPLE 1024 (1107)
T ss_pred --cEEEEEeecccHH
Confidence 2456677776654
No 68
>PRK12366 replication factor A; Reviewed
Probab=89.17 E-value=1.3 Score=43.87 Aligned_cols=65 Identities=26% Similarity=0.338 Sum_probs=51.0
Q ss_pred CCccEEEEEEEECCCceEEEc--CCC--cEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEE
Q 028557 84 ELTNTVHLIGVVGTPIETKHL--PSG--KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t--~nG--~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGr 154 (207)
..++.++|.|+|..--++|+. .+| ..+.++.|+ +++-=+++++|++.|+. ...|.+|+.+.|.|.
T Consensus 71 p~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~-----DetG~Ir~t~W~~~~~~-~~~le~G~v~~i~~~ 139 (637)
T PRK12366 71 EGQINVEITGRIIEISNIKTFTRKDGSTGKLANITIA-----DNTGTIRLTLWNDNAKL-LKGLKEGDVIKIENA 139 (637)
T ss_pred CCCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEE-----cCCCEEEEEEEchhhhh-hccCCCCCEEEEecc
Confidence 357899999999876666655 344 357777777 34556999999999886 578999999999985
No 69
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=89.09 E-value=2.1 Score=40.69 Aligned_cols=77 Identities=18% Similarity=0.294 Sum_probs=60.6
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
+-.|-+.|-|.+ ++.-.+| ...|+|- ++..-++|++|......+.-.++.|+.|.|.|++..+ + ..|
T Consensus 23 ~~~V~v~GEISn---~t~~~sg--H~YFtLK-----D~~A~i~c~mf~~~~~~l~f~p~eG~~V~v~G~is~Y--~-~rG 89 (440)
T COG1570 23 LGQVWVRGEISN---FTRPASG--HLYFTLK-----DERAQIRCVMFKGNNRRLKFRPEEGMQVLVRGKISLY--E-PRG 89 (440)
T ss_pred CCeEEEEEEecC---CccCCCc--cEEEEEc-----cCCceEEEEEEcCcccccCCCccCCCEEEEEEEEEEE--c-CCC
Confidence 677899999986 5555577 5778876 5577899999998888877779999999999999876 3 455
Q ss_pred cEEEEEEEEEEEEE
Q 028557 166 QQQTYYKVVVQQLN 179 (207)
Q Consensus 166 ~~~~~~eIva~~I~ 179 (207)
.+.|+++++.
T Consensus 90 ----~YQi~~~~~~ 99 (440)
T COG1570 90 ----DYQIVAESME 99 (440)
T ss_pred ----ceEEEEecCC
Confidence 4567777765
No 70
>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=88.60 E-value=8.5 Score=28.81 Aligned_cols=81 Identities=11% Similarity=0.247 Sum_probs=53.0
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH--HH--HHHHhcCCCCEEEEEEEeeeeeeEcC
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AH--VASQHVEKGQQIYISGRLVSDVVESG 163 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~--Ae--~~~~~LkKGd~V~VeGrL~~~~~~dk 163 (207)
.|.+.|+|.+ +|.. |+ ++-+.|. +.+..+.|++-.+. .+ .....|..|+.|.|+|.+....
T Consensus 14 ~V~v~Gwv~~---~R~~--g~-~~Fi~Lr-----D~~g~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~---- 78 (108)
T cd04316 14 EVTVAGWVHE---IRDL--GG-IKFVILR-----DREGIVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEP---- 78 (108)
T ss_pred EEEEEEEEEe---eecc--CC-eEEEEEe-----cCCeeEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCC----
Confidence 5899999975 4433 44 4544442 22345888776442 11 1234689999999999988763
Q ss_pred CCcEEEEEEEEEEEEEEeeCCC
Q 028557 164 DGQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 164 dG~~~~~~eIva~~I~~L~~k~ 185 (207)
.+. ..+||.+++|.+|....
T Consensus 79 ~~~--~~~Ei~~~~i~il~~~~ 98 (108)
T cd04316 79 KAP--NGVEIIPEEIEVLSEAK 98 (108)
T ss_pred CCC--CCEEEEEeEEEEEeCCC
Confidence 111 24899999999998543
No 71
>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=88.17 E-value=3.3 Score=32.74 Aligned_cols=74 Identities=12% Similarity=0.078 Sum_probs=50.7
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
.-..|.++|-|..-...+.+.+..-.+.|+|.-..... ..-+.|.+|++.++.+ ..+..||.|.+.+ ++...|.
T Consensus 13 ~~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~-~~~l~v~~F~~~~~~L-P~v~~GDVIll~~-~kv~~~~ 86 (138)
T cd04497 13 SGGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLAN-SDGLTVKLFRPNEESL-PIVKVGDIILLRR-VKIQSYN 86 (138)
T ss_pred cCCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCC-CCcEEEEEECCChhhC-CCCCCCCEEEEEE-EEEEEEC
Confidence 34568899998865554544433355666666433322 4568999999988886 4469999999998 6666674
No 72
>PRK14699 replication factor A; Provisional
Probab=87.30 E-value=4.2 Score=39.07 Aligned_cols=86 Identities=15% Similarity=0.237 Sum_probs=61.4
Q ss_pred CccEEEEEEEECCCceEEEcC--CCc--EEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEE-Eeeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHLP--SGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVSDV 159 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~--nG~--~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeG-rL~~~~ 159 (207)
.+..|++.|+|..--+.|++. +|. .+..+.|+ ++|-=+++++|++.|. +...|.+|+.|.|.+ ..+.+.
T Consensus 175 ~~~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~ig-----DeTG~ir~tlW~~~a~-~~~~l~~Gd~v~I~~a~vr~~~ 248 (484)
T PRK14699 175 GMGDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLG-----DETGTLRVTLWDDKTD-FLNQIEYGDTVELINAYARENA 248 (484)
T ss_pred CCCceEEEEEEEeccCceEEecCCCCceEEEEEEEE-----cCCceEEEEEECcccc-cccccCCCCEEEEecceEeecc
Confidence 366799999999877777654 553 46667666 6788899999999886 445699999999865 455554
Q ss_pred eEcCCCcEEEEEEEEEEEEEEeeC
Q 028557 160 VESGDGQQQTYYKVVVQQLNFVER 183 (207)
Q Consensus 160 ~~dkdG~~~~~~eIva~~I~~L~~ 183 (207)
|. ..++|.+.+...+..
T Consensus 249 ~~-------~~~el~~~~~s~i~~ 265 (484)
T PRK14699 249 FT-------QKVELQVGNRSIIRK 265 (484)
T ss_pred cC-------CceEEEecCceEeec
Confidence 42 245666666665554
No 73
>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein
Probab=86.82 E-value=11 Score=28.14 Aligned_cols=77 Identities=17% Similarity=0.314 Sum_probs=49.7
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH--HH---HHHHhcCCCCEEEEEEEeeeeeeEcC
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AH---VASQHVEKGQQIYISGRLVSDVVESG 163 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~--Ae---~~~~~LkKGd~V~VeGrL~~~~~~dk 163 (207)
|+|.|+|-+ +|.. |+ ++-+.|. + .+.-+.|++-.+. .+ .+...|..||.|.|+|.+... +
T Consensus 2 v~v~GwV~~---~R~~--g~-~~Fi~lr-d----~~~~lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~v~~~----~ 66 (108)
T cd04322 2 VSVAGRIMS---KRGS--GK-LSFADLQ-D----ESGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKT----K 66 (108)
T ss_pred EEEEEEEEE---EecC--CC-eEEEEEE-E----CCeEEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEec----C
Confidence 678899875 5543 54 5544444 2 2345777765331 11 222239999999999998764 2
Q ss_pred CCcEEEEEEEEEEEEEEeeCC
Q 028557 164 DGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 164 dG~~~~~~eIva~~I~~L~~k 184 (207)
.|. +||.++++.+|...
T Consensus 67 ~g~----~El~~~~~~ils~~ 83 (108)
T cd04322 67 TGE----LSIFVKEFTLLSKS 83 (108)
T ss_pred CCC----EEEEeCEeEEeecc
Confidence 232 69999999999754
No 74
>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=85.78 E-value=2.7 Score=41.38 Aligned_cols=68 Identities=22% Similarity=0.208 Sum_probs=53.7
Q ss_pred CccEEEEEEEECCCceEEEcCC--C-cEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEE-Eeee
Q 028557 85 LTNTVHLIGVVGTPIETKHLPS--G-KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVS 157 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~n--G-~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeG-rL~~ 157 (207)
.+++.+|.|||..--++|+..+ | ..+..+.|.- +..=|++++|++.++.+.+.|+.|+.++|++ +++.
T Consensus 189 y~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~D-----egg~Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~ 260 (608)
T TIGR00617 189 YQNKWTIKARVTNKSEIRTWSNARGEGKLFNVELLD-----ESGEIRATAFNEQADKFYDIIQEGKVYYISKGSLKP 260 (608)
T ss_pred CCCceEEEEEEEeccccceecCCCCCceeeEEEEec-----CCCeEEEEECchHHHHHhhhcccCCEEEECceEEEE
Confidence 4688999999999888888653 2 2566666642 4567999999999999999999999999965 4443
No 75
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=85.66 E-value=6.4 Score=41.21 Aligned_cols=81 Identities=16% Similarity=0.351 Sum_probs=60.4
Q ss_pred cEEEEEEEECCCceEEEcC-CCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 87 NTVHLIGVVGTPIETKHLP-SGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~-nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
..+.+.|.|.. ...+.++ +|+.++.++|. +.+.-+.|++|.+.-+.....|..|..|.|+|+++.+ +|
T Consensus 885 ~~~~~~~~i~~-~~~~~tk~~g~~maf~~le-----D~~g~ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~-----~~ 953 (1034)
T PRK07279 885 SEATILVQIQS-IRVIRTKTKGQQMAFLSVT-----DTKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQER-----DG 953 (1034)
T ss_pred CcceEEEEEEE-EEEEEEcCCCCeEEEEEEe-----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC
Confidence 34678888875 4455556 89988888887 4455689999999777788889999999999999653 22
Q ss_pred cEEEEEEEEEEEEEEee
Q 028557 166 QQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 166 ~~~~~~eIva~~I~~L~ 182 (207)
...++++++.-++
T Consensus 954 ----~~~l~~~~i~~l~ 966 (1034)
T PRK07279 954 ----RLQMVLQQIQEAS 966 (1034)
T ss_pred ----eeEEEEeeeeccc
Confidence 2456677776554
No 76
>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=85.33 E-value=4.5 Score=32.16 Aligned_cols=74 Identities=16% Similarity=0.182 Sum_probs=53.4
Q ss_pred CccEEEEEEEECCCceE--EEcCCCcEEEEEEEEEecCC-CCC---eEEEEEEEchHHHHHHHhcCC-CCEEEEEEEeee
Q 028557 85 LTNTVHLIGVVGTPIET--KHLPSGKVLAWTRLAVRKSA-TQT---SWINLTFWDELAHVASQHVEK-GQQIYISGRLVS 157 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPei--r~t~nG~~va~f~LAv~r~~-~~t---~wi~V~awgk~Ae~~~~~LkK-Gd~V~VeGrL~~ 157 (207)
.-..|.++|-|...-.. +.+.+++-.++|+|. +.+. ... ..+.|.+|.+..+.+ ..++. ||.|.+. +++.
T Consensus 11 ~~~~vnvigVV~~~~~p~~~~t~g~D~~~tl~i~-D~S~~~~~~~~~~l~v~iF~~~~~~L-P~v~~~GDii~l~-r~kv 87 (146)
T PF02765_consen 11 FGKFVNVIGVVVDFSPPNPKKTRGTDYMCTLTIT-DPSLNDSNQKLSGLTVNIFRPHKESL-PNVKSVGDIIRLR-RVKV 87 (146)
T ss_dssp SSEEEEEEEEEEEEEEECTEEESSSCEEEEEEEE-BTTCSCSSCCCCEEEEEEEESSHHHS-CTTCSTTHEEEEE-EEEE
T ss_pred CCCEEEEEEEEEEccCCcceEcCCCcEEEEEEEE-CCCCCccccccCCEEEEEECCCHHHC-CCCCCCCCEEEEE-EEEE
Confidence 34578999999875444 555566778888884 4443 333 789999998877776 45666 9988887 7777
Q ss_pred eeeE
Q 028557 158 DVVE 161 (207)
Q Consensus 158 ~~~~ 161 (207)
..|.
T Consensus 88 ~~~~ 91 (146)
T PF02765_consen 88 QSYN 91 (146)
T ss_dssp EEET
T ss_pred EEEC
Confidence 7774
No 77
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=84.75 E-value=7.2 Score=40.90 Aligned_cols=79 Identities=20% Similarity=0.365 Sum_probs=60.3
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcE
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~ 167 (207)
.|.+.|-|.. .+.+.|++| ++.++|. +.+.-++|++|.+.-+.....|+.|..|.|+|+++.+ +|
T Consensus 955 ~v~v~g~i~~-~~~~~TkkG--maf~~le-----D~~g~~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~-----~~-- 1019 (1046)
T PRK05672 955 RVRVAGVVTH-RQRPGTASG--VTFLTLE-----DETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNA-----EG-- 1019 (1046)
T ss_pred EEEEEEEEEE-EEEecCCCc--eEEEEEe-----cCCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC--
Confidence 4777777775 555567777 6666655 5677799999999888888899999999999999643 33
Q ss_pred EEEEEEEEEEEEEeeC
Q 028557 168 QTYYKVVVQQLNFVER 183 (207)
Q Consensus 168 ~~~~eIva~~I~~L~~ 183 (207)
...++|+++.-++.
T Consensus 1020 --~~~~~~~~i~~~~~ 1033 (1046)
T PRK05672 1020 --VRHLVADRLEDLSP 1033 (1046)
T ss_pred --eEEEEEeeeechHH
Confidence 24788888887754
No 78
>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=83.44 E-value=14 Score=26.49 Aligned_cols=84 Identities=15% Similarity=0.234 Sum_probs=49.5
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHH-HHHHHhcCCCCEEEEEEEeeeeeeEcCCCc
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELA-HVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~A-e~~~~~LkKGd~V~VeGrL~~~~~~dkdG~ 166 (207)
+|++.|.|.+ +|.. ++.++-+.|. +. . ..=+.|++-.+.. -...+.+..|+.|.|+|.+..+.-.. ++
T Consensus 1 ~V~v~Gwv~~---~R~~--~~~~~Fi~Lr--D~-~-g~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~-~~- 69 (86)
T cd04321 1 KVTLNGWIDR---KPRI--VKKLSFADLR--DP-N-GDIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKS-SE- 69 (86)
T ss_pred CEEEEEeEee---EeCC--CCceEEEEEE--CC-C-CCEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcC-CC-
Confidence 3678898885 4432 2234444442 11 1 1246665533321 12335689999999999998764221 11
Q ss_pred EEEEEEEEEEEEEEee
Q 028557 167 QQTYYKVVVQQLNFVE 182 (207)
Q Consensus 167 ~~~~~eIva~~I~~L~ 182 (207)
....+||.+++|++|.
T Consensus 70 ~~~~~Ei~~~~i~il~ 85 (86)
T cd04321 70 KNDEWELVVDDIQTLN 85 (86)
T ss_pred CCCCEEEEEEEEEEec
Confidence 1135799999999985
No 79
>cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam
Probab=83.32 E-value=11 Score=27.16 Aligned_cols=76 Identities=20% Similarity=0.242 Sum_probs=50.7
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHH---HHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH---VASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae---~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
|.++|.|.+ +... ..+..|+|. +.|-=+.+..|....+ ...+.++.|+.|.|.|+++... |
T Consensus 2 v~~vG~V~~---~~~~---~~~~~~tL~-----D~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~-----g 65 (95)
T cd04478 2 VTLVGVVRN---VEEQ---STNITYTID-----DGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQ-----G 65 (95)
T ss_pred EEEEEEEEe---eeEc---ccEEEEEEE-----CCCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccC-----C
Confidence 678888875 2221 246777776 3344588999986443 3467799999999999997652 3
Q ss_pred cEEEEEEEEEEEEEEeeCC
Q 028557 166 QQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 166 ~~~~~~eIva~~I~~L~~k 184 (207)
+ ..|.+..+..++..
T Consensus 66 ~----~ql~i~~i~~v~d~ 80 (95)
T cd04478 66 K----KSIMAFSIRPVTDF 80 (95)
T ss_pred e----eEEEEEEEEEeCCc
Confidence 2 34556677666543
No 80
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=82.39 E-value=4.4 Score=32.35 Aligned_cols=76 Identities=20% Similarity=0.288 Sum_probs=53.1
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeee------ee
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS------DV 159 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~------~~ 159 (207)
++++.++=-|-.+-+...+++|+.|..+.|| +++--+++.+|++.. ..++.||-|.+.|-..+ .-
T Consensus 14 ~kN~~v~fIvl~~g~~tkTkdg~~v~~~kVa-----D~TgsI~isvW~e~~----~~~~PGDIirLt~Gy~Si~qg~LtL 84 (134)
T KOG3416|consen 14 LKNINVTFIVLEYGRATKTKDGHEVRSCKVA-----DETGSINISVWDEEG----CLIQPGDIIRLTGGYASIFQGCLTL 84 (134)
T ss_pred hhcceEEEEEEeeceeeeccCCCEEEEEEEe-----cccceEEEEEecCcC----cccCCccEEEecccchhhhcCceEE
Confidence 4444444445555566778899999999998 778889999999533 45789999988775433 23
Q ss_pred eEcCCCcEEEE
Q 028557 160 VESGDGQQQTY 170 (207)
Q Consensus 160 ~~dkdG~~~~~ 170 (207)
|..|.|+-...
T Consensus 85 ~~GK~Ge~~Ki 95 (134)
T KOG3416|consen 85 YVGKGGEVQKI 95 (134)
T ss_pred EecCCceEeEe
Confidence 55677764433
No 81
>cd04319 PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Pyrococcus horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The archeal enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose.
Probab=81.97 E-value=18 Score=26.73 Aligned_cols=81 Identities=21% Similarity=0.296 Sum_probs=51.0
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHH---HHHhcCCCCEEEEEEEeeeeeeEcCC
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHV---ASQHVEKGQQIYISGRLVSDVVESGD 164 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~---~~~~LkKGd~V~VeGrL~~~~~~dkd 164 (207)
+|++.|+|.+ +|. .|+ ++-+.|. . .+..+.|++-.+.++. ....|..||.|.|+|.+..+. +..
T Consensus 1 ~V~v~Gwv~~---~R~--~gk-~~Fi~lr--D---~~g~iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~--~~~ 67 (103)
T cd04319 1 KVTLAGWVYR---KRE--VGK-KAFIVLR--D---STGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADP--RAP 67 (103)
T ss_pred CEEEEEEEEe---EEc--CCC-eEEEEEe--c---CCeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECC--CCC
Confidence 3788899975 443 244 3433332 1 2344777775432111 224588999999999998753 112
Q ss_pred CcEEEEEEEEEEEEEEeeCCC
Q 028557 165 GQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 165 G~~~~~~eIva~~I~~L~~k~ 185 (207)
+ .+||.+++++++....
T Consensus 68 ~----~~Ei~~~~i~vl~~a~ 84 (103)
T cd04319 68 G----GAEVHGEKLEIIQNVE 84 (103)
T ss_pred C----CEEEEEEEEEEEecCC
Confidence 1 4899999999998653
No 82
>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=81.89 E-value=21 Score=33.58 Aligned_cols=81 Identities=12% Similarity=0.252 Sum_probs=51.6
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch-HHH---HHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAH---VASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk-~Ae---~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
..|+|.|+|.+ +|. .|+ ++-+.|. +.. .-+.|++-.+ ..+ .....|..||.|.|+|.+....-
T Consensus 13 ~~v~i~G~v~~---~R~--~g~-~~Fi~lr-d~~----g~iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~~-- 79 (428)
T TIGR00458 13 QEVTFMGWVHE---IRD--LGG-LIFVLLR-DRE----GLIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKEK-- 79 (428)
T ss_pred CEEEEEEEEEE---Eec--CCC-cEEEEEE-eCC----eeEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecCC--
Confidence 56899999974 443 344 4433343 222 2477776543 111 12356999999999999984321
Q ss_pred CCCcEEEEEEEEEEEEEEeeCC
Q 028557 163 GDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 163 kdG~~~~~~eIva~~I~~L~~k 184 (207)
..| .++|.++++++|...
T Consensus 80 ~~~----~~el~~~~i~vl~~~ 97 (428)
T TIGR00458 80 APG----GFEIIPTKIEVINEA 97 (428)
T ss_pred CCC----cEEEEEeEEEEEecC
Confidence 122 589999999999865
No 83
>PLN02903 aminoacyl-tRNA ligase
Probab=81.81 E-value=16 Score=36.48 Aligned_cols=87 Identities=17% Similarity=0.271 Sum_probs=54.3
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch---HHHHHHHhcCCCCEEEEEEEeeeeeeEcC
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE---LAHVASQHVEKGQQIYISGRLVSDVVESG 163 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk---~Ae~~~~~LkKGd~V~VeGrL~~~~~~dk 163 (207)
..|+|.|.|.. +|.. |+ ++-+.|. ++ +..+.|++-.+ .+....+.|+.|+.|.|+|.+..+.-...
T Consensus 73 k~V~l~GWV~~---~R~~--G~-l~FidLR-D~----~G~iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V~~r~~~~~ 141 (652)
T PLN02903 73 SRVTLCGWVDL---HRDM--GG-LTFLDVR-DH----TGIVQVVTLPDEFPEAHRTANRLRNEYVVAVEGTVRSRPQESP 141 (652)
T ss_pred CEEEEEEEEEE---EecC--CC-cEEEEEE-cC----CccEEEEEeCCccHHHHHHHhcCCCCCEEEEEEEEEeCCCcCc
Confidence 35999999975 4543 43 3333332 22 23367877543 12223467999999999999987632222
Q ss_pred CCcEE-EEEEEEEEEEEEeeCC
Q 028557 164 DGQQQ-TYYKVVVQQLNFVERS 184 (207)
Q Consensus 164 dG~~~-~~~eIva~~I~~L~~k 184 (207)
+.+.. -.+||.++++++|...
T Consensus 142 n~~~~tGeiEl~~~~i~VL~~a 163 (652)
T PLN02903 142 NKKMKTGSVEVVAESVDILNVV 163 (652)
T ss_pred CCCCCCCCEEEEEeEEEEEecC
Confidence 22211 2489999999999865
No 84
>PF12101 DUF3577: Protein of unknown function (DUF3577); InterPro: IPR021960 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 143 to 307 amino acids in length.
Probab=81.80 E-value=26 Score=28.29 Aligned_cols=94 Identities=15% Similarity=0.212 Sum_probs=67.4
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---CCCeEEEEEEEchHHHHHHH----hcCCCCEEEEE---EEeeee
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---TQTSWINLTFWDELAHVASQ----HVEKGQQIYIS---GRLVSD 158 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~---~~t~wi~V~awgk~Ae~~~~----~LkKGd~V~Ve---GrL~~~ 158 (207)
+.-+|+|-.--++. ..+|.++...+|+.=... .+-.||+|.+=|+.|..+.. .+..+..|+|. |.|..+
T Consensus 14 t~GiGYLnriR~V~-~~kg~pFlac~I~AL~G~~d~~ey~~fD~~V~G~eA~~Lv~r~~~av~~~~KVli~FrlgDl~~d 92 (137)
T PF12101_consen 14 TTGIGYLNRIREVT-PRKGDPFLACTIAALRGPADNPEYRYFDCRVVGEEAKELVRRCQKAVDEDKKVLIGFRLGDLWAD 92 (137)
T ss_pred EeeEEEeccceEcc-CCCCCeeEEEEeeeeecCCCCccEEEEEEEEecHHHHHHHHHHHhhcccCCcEEEEEEecCCcee
Confidence 56689998744443 558999999998876542 35678999999998765444 45668888876 455666
Q ss_pred eeE----cCCCcEEEEEEEEEEEEEEeeC
Q 028557 159 VVE----SGDGQQQTYYKVVVQQLNFVER 183 (207)
Q Consensus 159 ~~~----dkdG~~~~~~eIva~~I~~L~~ 183 (207)
.|+ ++.|+....++=..-.|.+|.-
T Consensus 93 ~f~~~~G~~~Ge~g~sLKgRLl~i~~iKV 121 (137)
T PF12101_consen 93 TFTYKKGERAGEPGASLKGRLLKIKWIKV 121 (137)
T ss_pred eEEeccCCcCCccceeeEEEEEEEEEEEE
Confidence 776 5678888877777777777753
No 85
>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=79.09 E-value=24 Score=26.25 Aligned_cols=39 Identities=13% Similarity=0.212 Sum_probs=29.0
Q ss_pred CeEEEEEEEchHHHHHHHhcC---CCC-EEEEEEEeeeeeeEc
Q 028557 124 TSWINLTFWDELAHVASQHVE---KGQ-QIYISGRLVSDVVES 162 (207)
Q Consensus 124 t~wi~V~awgk~Ae~~~~~Lk---KGd-~V~VeGrL~~~~~~d 162 (207)
..-+.|++||+.|+.+...+. ++. .|.|-+-.+...|.+
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 467899999999999887763 444 445666688888864
No 86
>PLN02850 aspartate-tRNA ligase
Probab=78.88 E-value=29 Score=33.70 Aligned_cols=86 Identities=15% Similarity=0.190 Sum_probs=54.0
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH---HH---HHHHhcCCCCEEEEEEEeeeeee
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL---AH---VASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~---Ae---~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
..|.|.|+|.. +|. -|+ ++-+.|. +. +..+.|++-.+. .. .....|..|+.|.|+|.+....-
T Consensus 82 ~~V~v~Grv~~---~R~--~gk-~~Fl~Lr-d~----~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~ 150 (530)
T PLN02850 82 SEVLIRGRVHT---IRG--KGK-SAFLVLR-QS----GFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKK 150 (530)
T ss_pred CEEEEEEEEEE---Ecc--CCC-eEEEEEE-eC----CcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccCc
Confidence 46888999974 443 354 4433343 22 335777775431 11 22457999999999999985321
Q ss_pred EcCCCcEEEEEEEEEEEEEEeeCCC
Q 028557 161 ESGDGQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 161 ~dkdG~~~~~~eIva~~I~~L~~k~ 185 (207)
.-.+.+. .++|.+++|.+|....
T Consensus 151 -~~~~~t~-~~El~~~~i~vls~a~ 173 (530)
T PLN02850 151 -PVKGTTQ-QVEIQVRKIYCVSKAL 173 (530)
T ss_pred -CCCCCCc-cEEEEEeEEEEEeCCC
Confidence 1123333 7999999999998653
No 87
>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=78.33 E-value=39 Score=32.07 Aligned_cols=84 Identities=15% Similarity=0.219 Sum_probs=53.2
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHH---HHHHHhcCCCCEEEEEEEeeeeeeEcC
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELA---HVASQHVEKGQQIYISGRLVSDVVESG 163 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~A---e~~~~~LkKGd~V~VeGrL~~~~~~dk 163 (207)
..|+|.|+|.. +|. .| .++-+.|. +. ....-+.|++-.+.. -.....|..||.|.|+|.+.... .+
T Consensus 17 ~~v~v~Gwv~~---~R~--~~-~~~F~~lr-D~--~~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~--~~ 85 (453)
T TIGR00457 17 DEVTVSGWVRT---KRS--SK-KIIFLELN-DG--SSLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESP--GK 85 (453)
T ss_pred CEEEEEEEeEE---EEc--CC-CeEEEEEE-CC--CCCccEEEEEeCCcChHHHHHHHcCCCCcEEEEEEEEEcCC--CC
Confidence 56899999974 552 23 34444442 11 111457777755421 12335799999999999998642 12
Q ss_pred CCcEEEEEEEEEEEEEEeeCCC
Q 028557 164 DGQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 164 dG~~~~~~eIva~~I~~L~~k~ 185 (207)
. ..++|.++++++|....
T Consensus 86 ~----~~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 86 G----QPVELQVKKIEVVGEAE 103 (453)
T ss_pred C----CCEEEEEeEEEEEecCC
Confidence 2 25799999999998653
No 88
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=77.45 E-value=7.7 Score=41.24 Aligned_cols=86 Identities=23% Similarity=0.276 Sum_probs=62.7
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH--HHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~--Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
..++.|.+.|.|-. .+.+++.+|+..+.|.|. +.++-+.|..|-+. -+...+.+++|+.|-|+|.++.+.+.
T Consensus 237 ~~~~~v~v~G~IF~-~e~~~~ksGr~l~~i~vT-----D~t~Sl~~k~f~~~~ed~~~~~~ik~g~wvk~~g~v~~d~f~ 310 (1444)
T COG2176 237 EEETRVKVEGYIFK-IEIKELKSGRTLLNIKVT-----DYTSSLILKKFLRDEEDEKKFDGIKKGMWVKARGNVQLDTFT 310 (1444)
T ss_pred ccccceEEEEEEEE-EeeeecccCcEEEEEEEe-----cCchheeehhhccccccHHHHhhcccCcEEEEEEEEEecccc
Confidence 35788999999985 899999999988888886 33445556666552 23455789999999999999998765
Q ss_pred cCCCcEEEEEEEEEEEEEEee
Q 028557 162 SGDGQQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 162 dkdG~~~~~~eIva~~I~~L~ 182 (207)
++ ..+.+++|+-+.
T Consensus 311 -~~------l~m~i~~I~ei~ 324 (1444)
T COG2176 311 -RD------LTMIINDINEIE 324 (1444)
T ss_pred -cc------eEEEhhhhhhhh
Confidence 33 244555555544
No 89
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=76.34 E-value=40 Score=32.11 Aligned_cols=82 Identities=11% Similarity=0.223 Sum_probs=56.8
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch-HHHHH--HHhcCCCCEEEEEEEeeeeeeEcC
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAHVA--SQHVEKGQQIYISGRLVSDVVESG 163 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk-~Ae~~--~~~LkKGd~V~VeGrL~~~~~~dk 163 (207)
.+|+|-|-|.. +|. .|+ ++-..|. +.+.+++|++-.+ ..+.+ ...|..++.|.|+|.+....-
T Consensus 17 ~~V~v~GWV~~---~R~--~g~-i~Fi~lr-----Dgsg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~~--- 82 (435)
T COG0017 17 QEVTVRGWVHN---KRD--LGK-IIFLVLR-----DGSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASPK--- 82 (435)
T ss_pred cEEEEEEEeee---ecc--cCC-eEEEEEE-----cCCcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCCC---
Confidence 68899999875 333 243 3433333 4566799999852 22222 458999999999999987632
Q ss_pred CCcEEEEEEEEEEEEEEeeCCC
Q 028557 164 DGQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 164 dG~~~~~~eIva~~I~~L~~k~ 185 (207)
. ...+||.+++|.++....
T Consensus 83 a---~~g~El~v~~i~Vl~~a~ 101 (435)
T COG0017 83 A---PQGFELQVEKIEVLGEAD 101 (435)
T ss_pred C---CCCEEEEEEEEEEeeccC
Confidence 2 236799999999998763
No 90
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=75.72 E-value=15 Score=27.97 Aligned_cols=67 Identities=15% Similarity=0.177 Sum_probs=39.7
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEec----CCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeee
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRK----SATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDV 159 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r----~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~ 159 (207)
-..+++.|.|...|+.. +. ..+|.+.+.+ ......-..+.++-+..... .++.||.|.++|+|+.=.
T Consensus 75 ~~~~~v~g~V~~~~~~~----~~-~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--~l~~Gd~i~~~g~l~~~~ 145 (176)
T PF13567_consen 75 GKEVTVQGTVESVPQID----GR-GQRFTLRVERVLAGGNWIPVSGKILLYLPKDSQP--RLQPGDRIRVRGKLKPPS 145 (176)
T ss_pred CceEEEEEEEccccccc----Cc-eEEEEEEEEEeeccccccccceeeEEEecccccc--ccCCCCEEEEEEEEecCC
Confidence 34678999999888764 22 2366666542 12222233333332211111 689999999999997653
No 91
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=75.55 E-value=15 Score=36.84 Aligned_cols=64 Identities=17% Similarity=0.214 Sum_probs=48.9
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
-.|++.|.|....... ..++...++.+. +.+.-+.+++|+..| ++.+.+++|..|.|.|.+...
T Consensus 61 ~~vti~g~V~~~~~~~--~~~~~~l~v~~~-----d~~~~l~l~fFn~~~-~l~~~~~~G~~v~v~Gk~~~~ 124 (677)
T COG1200 61 EIVTIEGTVLSHEKFP--FGKRKLLKVTLS-----DGTGVLTLVFFNFPA-YLKKKLKVGERVIVYGKVKRF 124 (677)
T ss_pred ceEEEEEEEEeeeccC--CCCCceEEEEEe-----cCcEEEEEEEECccH-HHHhhCCCCCEEEEEEEEeec
Confidence 4689999998744332 344555556555 257789999999987 888899999999999999874
No 92
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=75.38 E-value=36 Score=31.98 Aligned_cols=82 Identities=15% Similarity=0.293 Sum_probs=51.9
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH---HHHHHHhcCCCCEEEEEEEeeeeeeEcC
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL---AHVASQHVEKGQQIYISGRLVSDVVESG 163 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~---Ae~~~~~LkKGd~V~VeGrL~~~~~~dk 163 (207)
+.|.|.|+|.. +|. .|+ ++-+.|. +.. .-+.|++=.+. .......|..||.|.|+|.+....- .
T Consensus 17 ~~V~i~GrV~~---~R~--~gk-~~Fl~Lr-D~~----g~iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~~--~ 83 (437)
T PRK05159 17 EEVTLAGWVHE---IRD--LGG-IAFLILR-DRS----GIIQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANPK--A 83 (437)
T ss_pred CEEEEEEEeEe---eec--CCC-eEEEEEE-cCC----cEEEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCCC--C
Confidence 56899999974 443 243 3333332 222 23777664331 1122356999999999999986531 1
Q ss_pred CCcEEEEEEEEEEEEEEeeCCC
Q 028557 164 DGQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 164 dG~~~~~~eIva~~I~~L~~k~ 185 (207)
.| .++|.+++|.+|....
T Consensus 84 ~~----~~el~~~~i~vls~a~ 101 (437)
T PRK05159 84 PG----GVEVIPEEIEVLNKAE 101 (437)
T ss_pred CC----CEEEEEeEEEEEeCCC
Confidence 22 5899999999998654
No 93
>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=74.59 E-value=41 Score=33.16 Aligned_cols=86 Identities=13% Similarity=0.177 Sum_probs=53.2
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch-HHHHHHHhcCCCCEEEEEEEeeeeeeEcCCC-
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAHVASQHVEKGQQIYISGRLVSDVVESGDG- 165 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk-~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG- 165 (207)
.|+|.|+|.. +|.. |+ ++ |-..-+. +.-+.|++-.+ .+-...+.|..||.|.|+|.+..+.-...+-
T Consensus 17 ~V~l~GwV~~---~R~~--Gk-l~-Fi~LrD~----sg~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~~ 85 (583)
T TIGR00459 17 TVTLAGWVNR---RRDL--GG-LI-FIDLRDR----SGIVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINRN 85 (583)
T ss_pred EEEEEEEEEE---EEcC--CC-cE-EEEEEeC----CccEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCcc
Confidence 6899999974 4543 44 33 3333222 22577766543 1222346799999999999998653111111
Q ss_pred cEEEEEEEEEEEEEEeeCC
Q 028557 166 QQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 166 ~~~~~~eIva~~I~~L~~k 184 (207)
...-.++|.++++.+|...
T Consensus 86 ~~tg~iEl~~~~i~iL~~a 104 (583)
T TIGR00459 86 LDTGEIEILAESITLLNKS 104 (583)
T ss_pred CCCCcEEEEEeEEEEeecC
Confidence 1123589999999999854
No 94
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=73.45 E-value=50 Score=33.14 Aligned_cols=77 Identities=14% Similarity=0.157 Sum_probs=50.6
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEc-----h-HHHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD-----E-LAHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awg-----k-~Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
.|.|.|+|.. +|.. |+ ++-+.|. + .+.-+.|++-. + ....+...|..||.|.|+|.+...
T Consensus 109 ~V~vaGrV~~---~R~~--Gk-~~F~~Lr-D----~~G~IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~v~~t--- 174 (659)
T PTZ00385 109 TVRVAGRVTS---VRDI--GK-IIFVTIR-S----NGNELQVVGQVGEHFTREDLKKLKVSLRVGDIIGADGVPCRM--- 174 (659)
T ss_pred EEEEEEEEEe---eecc--CC-eEEEEEE-E----CCceEEEEEECCccCCHHHHHHHHhCCCCCCEEEEEEEEEec---
Confidence 4999999985 4443 54 3433333 2 34456666643 2 122334568999999999988743
Q ss_pred cCCCcEEEEEEEEEEEEEEeeC
Q 028557 162 SGDGQQQTYYKVVVQQLNFVER 183 (207)
Q Consensus 162 dkdG~~~~~~eIva~~I~~L~~ 183 (207)
+.| .++|.|++|.+|..
T Consensus 175 -~~G----eleI~~~~i~lLsk 191 (659)
T PTZ00385 175 -QRG----ELSVAASRMLILSP 191 (659)
T ss_pred -CCc----eEEEEeeEEEEech
Confidence 344 47999999999985
No 95
>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=72.53 E-value=53 Score=31.59 Aligned_cols=78 Identities=19% Similarity=0.236 Sum_probs=49.0
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch-H----HHHHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-L----AHVASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk-~----Ae~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
.|.+.|+|.. +|. .|+ ++ |-...+.. .-+.|++-.+ . .+.+...|..||.|.|+|.+.. .
T Consensus 55 ~v~v~Grv~~---~R~--~gk-~~-F~~l~D~~----g~iQ~~~~~~~~~~~~~~~~~~~l~~gd~V~v~G~~~~----t 119 (496)
T TIGR00499 55 EVSIAGRIMA---RRS--MGK-AT-FITLQDES----GQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFK----T 119 (496)
T ss_pred EEEEEEEEEE---Eec--CCC-eE-EEEEEcCC----ccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEE----C
Confidence 4899999985 552 343 43 43333332 2366655322 1 1222234899999999999953 2
Q ss_pred CCCcEEEEEEEEEEEEEEeeCC
Q 028557 163 GDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 163 kdG~~~~~~eIva~~I~~L~~k 184 (207)
+.| .++|.+++|.+|.+.
T Consensus 120 ~~g----elel~~~~i~ilsk~ 137 (496)
T TIGR00499 120 KTG----ELSVHVTELQILTKA 137 (496)
T ss_pred CCC----cEEEEeeEEEEEecC
Confidence 344 389999999999865
No 96
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=71.71 E-value=56 Score=32.00 Aligned_cols=87 Identities=14% Similarity=0.110 Sum_probs=53.7
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEE--c---hHHHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFW--D---ELAHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~aw--g---k~Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
..|.|.|+|.. +|. .|+ ++-+.|. + .+..+.|++- + +..-.....|..|+.|.|+|.+....-.
T Consensus 79 ~~V~v~Grv~~---~R~--~Gk-~~Fl~LR-d----~~~~iQ~v~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~ 147 (550)
T PTZ00401 79 KTVLIRARVST---TRK--KGK-MAFMVLR-D----GSDSVQAMAAVEGDVPKEMIDFIGQIPTESIVDVEATVCKVEQP 147 (550)
T ss_pred CEEEEEEEEEE---Eec--CCC-eEEEEEE-e----CCcCEEEEEECCCccCHHHHHHHhcCCCCCEEEEEEEEEecCcc
Confidence 45899999974 443 354 3433333 2 2335777663 1 2112233469999999999999875321
Q ss_pred cCCCcEEEEEEEEEEEEEEeeCCC
Q 028557 162 SGDGQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 162 dkdG~~~~~~eIva~~I~~L~~k~ 185 (207)
. ...+...++|.+++|.+|....
T Consensus 148 ~-~~~~~~~~El~v~~i~vls~a~ 170 (550)
T PTZ00401 148 I-TSTSHSDIELKVKKIHTVTESL 170 (550)
T ss_pred C-CCCCCccEEEEeeEEEEEeCCC
Confidence 1 1223346899999999998654
No 97
>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=70.40 E-value=34 Score=23.98 Aligned_cols=77 Identities=17% Similarity=0.292 Sum_probs=46.7
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeE--EEEEEEchHH-HHHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSW--INLTFWDELA-HVASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~w--i~V~awgk~A-e~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
|.+.|+|.+ +|. .|+ ++-+.|. + .+.. +.|++-.+.. -...+.|..||.|.|+|.+....- +.
T Consensus 2 v~v~Gwv~~---~R~--~g~-~~Fi~Lr-D----~s~~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~--~~- 67 (82)
T cd04318 2 VTVNGWVRS---VRD--SKK-ISFIELN-D----GSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG--AK- 67 (82)
T ss_pred EEEEEeEEE---EEc--CCc-EEEEEEE-C----CCCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC--CC-
Confidence 678888864 443 233 3323332 2 2233 6665543321 123457999999999999887532 11
Q ss_pred cEEEEEEEEEEEEEEee
Q 028557 166 QQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 166 ~~~~~~eIva~~I~~L~ 182 (207)
..+||.++++.++.
T Consensus 68 ---~~~El~~~~i~il~ 81 (82)
T cd04318 68 ---QPFELQAEKIEVLG 81 (82)
T ss_pred ---CCEEEEEEEEEEec
Confidence 25899999999874
No 98
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=70.38 E-value=19 Score=35.75 Aligned_cols=63 Identities=13% Similarity=0.132 Sum_probs=44.3
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeee
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~ 157 (207)
..+++.|.|..-.... . ++....+.+. +++.-+.|+.|+-...++.+.+++|+.+.|.|.+..
T Consensus 60 ~~vtv~g~V~~~~~~~-~--~~~~~~v~l~-----D~tg~i~l~~F~~n~~~~~~~l~~G~~~~v~Gkv~~ 122 (681)
T PRK10917 60 EKVTVEGEVLSAEVVF-G--KRRRLTVTVS-----DGTGNLTLRFFNFNQPYLKKQLKVGKRVAVYGKVKR 122 (681)
T ss_pred CEEEEEEEEEEEEEcc-C--CceEEEEEEE-----ECCeEEEEEEEccCcHHHHhhCCCCCEEEEEEEEEe
Confidence 4789999998753332 2 5556666554 345568888894112366788999999999999976
No 99
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=70.20 E-value=6.1 Score=37.12 Aligned_cols=38 Identities=8% Similarity=0.150 Sum_probs=32.4
Q ss_pred CeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 124 TSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 124 t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
--.+.|.+-|+....+.+.|+.|+.+.|+|---.-.++
T Consensus 275 el~FsIK~LGD~Tk~l~dnLk~G~k~~vdGPYG~F~~~ 312 (438)
T COG4097 275 ELRFSIKALGDFTKTLKDNLKVGTKLEVDGPYGKFDFE 312 (438)
T ss_pred eEEEEehhhhhhhHHHHHhccCCceEEEecCcceeecc
Confidence 35788999999999999999999999999976655554
No 100
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=69.89 E-value=59 Score=32.05 Aligned_cols=86 Identities=17% Similarity=0.264 Sum_probs=52.8
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHH--HHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae--~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
.|+|.|+|.+ +|.. |+ ++-+.|. +. +..+.|++=.. .+ .....|+.|+.|.|+|.+..+.-...+-
T Consensus 19 ~V~l~GwV~~---~R~~--g~-l~Fi~Lr-D~----~g~iQ~v~~~~-~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~ 86 (588)
T PRK00476 19 TVTLCGWVHR---RRDH--GG-LIFIDLR-DR----EGIVQVVFDPD-AEAFEVAESLRSEYVIQVTGTVRARPEGTVNP 86 (588)
T ss_pred EEEEEEEEEE---EEeC--CC-eEEEEEE-eC----CceEEEEEeCC-HHHHHHHhCCCCCCEEEEEEEEEecCCcccCc
Confidence 5999999975 5543 32 4433342 22 23477766431 11 1235699999999999998753111111
Q ss_pred c-EEEEEEEEEEEEEEeeCCC
Q 028557 166 Q-QQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 166 ~-~~~~~eIva~~I~~L~~k~ 185 (207)
+ ..-.+||.|++|++|....
T Consensus 87 ~~~~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 87 NLPTGEIEVLASELEVLNKSK 107 (588)
T ss_pred cCCCCcEEEEEeEEEEEecCC
Confidence 1 1125899999999998754
No 101
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=68.86 E-value=86 Score=30.12 Aligned_cols=79 Identities=23% Similarity=0.322 Sum_probs=50.8
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch-HH-H--HHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LA-H--VASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk-~A-e--~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
..|+|.|+|.. +|.. |+ ++-+.|. +.. .-+.|++=.+ .. + .....|..||.|.|+|.+...
T Consensus 55 ~~v~v~G~v~~---~R~~--g~-~~Fi~lr-D~~----g~iQ~v~~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~t---- 119 (491)
T PRK00484 55 IEVSVAGRVML---KRVM--GK-ASFATLQ-DGS----GRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKT---- 119 (491)
T ss_pred cEEEEEEEEEE---EecC--Cc-eEEEEEE-cCC----ccEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEc----
Confidence 46899999975 4443 43 4433343 222 2466665432 11 1 122349999999999999864
Q ss_pred CCCcEEEEEEEEEEEEEEeeCC
Q 028557 163 GDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 163 kdG~~~~~~eIva~~I~~L~~k 184 (207)
+.| .++|.++++.+|...
T Consensus 120 ~~g----e~el~~~~~~vls~~ 137 (491)
T PRK00484 120 KTG----ELSVKATELTLLTKS 137 (491)
T ss_pred CCC----cEEEEEeEEEEEecc
Confidence 334 489999999999864
No 102
>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=68.77 E-value=28 Score=26.88 Aligned_cols=64 Identities=16% Similarity=0.211 Sum_probs=30.2
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH-HHHHHHhcCCCCEEEEEEEeeeee
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-AHVASQHVEKGQQIYISGRLVSDV 159 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~-Ae~~~~~LkKGd~V~VeGrL~~~~ 159 (207)
.+.+.|.|.. +.. ..+..+ +.+.. .......+.|.+-... .......|++||.|.|.|......
T Consensus 69 ~i~vtG~V~~---I~~-~~~~~~--~~~~~--~~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~~ 133 (144)
T PF12869_consen 69 IIEVTGTVSS---IDK-GFGDNY--VVLLG--TENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGYS 133 (144)
T ss_dssp EEEEEEEEEE---EEE--STT-E--EEEEE---TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE-----
T ss_pred EEEEEEEEEE---EEE-cCCCcE--EEEcc--CCCCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEeee
Confidence 4677899973 444 344444 33332 2233444556555443 233445699999999999987653
No 103
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=68.08 E-value=41 Score=33.02 Aligned_cols=64 Identities=14% Similarity=0.193 Sum_probs=43.7
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
..+++.|.|..... ....+.....+.+... .+.-+.++.|+. .++.+.+++|+.|.|.|.+...
T Consensus 33 ~~~~~~~~v~~~~~--~~~~~~~~~~~~~~d~----~~~~~~~~~F~~--~~~~~~~~~g~~~~~~Gk~~~~ 96 (630)
T TIGR00643 33 ERATIVGEVLSHCI--FGFKRRKVLKLRLKDG----GYKKLELRFFNR--AFLKKKFKVGSKVVVYGKVKSS 96 (630)
T ss_pred CEEEEEEEEEEeEe--ccCCCCceEEEEEEEC----CCCEEEEEEECC--HHHHhhCCCCCEEEEEEEEEee
Confidence 36899999876322 1123344555555431 455688999983 3677889999999999999753
No 104
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=67.58 E-value=53 Score=31.06 Aligned_cols=81 Identities=17% Similarity=0.308 Sum_probs=50.3
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEc---hHHHHHHHhcCCCCEEEEEEEeeeeeeEcC
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD---ELAHVASQHVEKGQQIYISGRLVSDVVESG 163 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awg---k~Ae~~~~~LkKGd~V~VeGrL~~~~~~dk 163 (207)
..|+|.|+|.. +|.. |+ ++-+.|. + .+.-++|++-. ...-.....|..||.|.|+|.+....- .
T Consensus 17 ~~V~i~G~v~~---~R~~--g~-~~Fi~lr-D----~~g~iq~~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~~--~ 83 (450)
T PRK03932 17 QEVTVRGWVRT---KRDS--GK-IAFLQLR-D----GSCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVTGTVVESPR--A 83 (450)
T ss_pred CEEEEEEEEEE---EEeC--CC-eEEEEEE-C----CCCcEEEEEEcCCChHHHHHHhcCCCCcEEEEEEEEEcCCC--C
Confidence 56999999974 5544 43 3333332 2 23344444432 222122356999999999999986431 1
Q ss_pred CCcEEEEEEEEEEEEEEeeCC
Q 028557 164 DGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 164 dG~~~~~~eIva~~I~~L~~k 184 (207)
.| .++|.|+++.+|...
T Consensus 84 ~~----~~el~~~~i~vl~~~ 100 (450)
T PRK03932 84 GQ----GYELQATKIEVIGED 100 (450)
T ss_pred CC----CEEEEEEEEEEccCC
Confidence 22 579999999999863
No 105
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=65.00 E-value=79 Score=31.22 Aligned_cols=79 Identities=13% Similarity=0.118 Sum_probs=48.9
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch-----HH--HHHHHhcCCCCEEEEEEEeeeeee
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-----LA--HVASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk-----~A--e~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
.|.+.|+|.. +|.. |+.++-+.|. + ++.-++|++-.+ .. ......|..||.|.|+|.+..
T Consensus 134 ~v~v~Grv~~---~R~~--G~k~~F~~L~-d----~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~--- 200 (585)
T PTZ00417 134 ILNVTGRIMR---VSAS--GQKLRFFDLV-G----DGAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGK--- 200 (585)
T ss_pred eEEEEEEEEe---eecC--CCCCEEEEEE-e----CCeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcC---
Confidence 3888899974 4443 4334444442 2 222477766421 11 222456999999999999543
Q ss_pred EcCCCcEEEEEEEEEEEEEEeeCC
Q 028557 161 ESGDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 161 ~dkdG~~~~~~eIva~~I~~L~~k 184 (207)
.+.| .++|.+++|.+|...
T Consensus 201 -t~~g----el~i~~~~i~llsk~ 219 (585)
T PTZ00417 201 -SKKG----ELSIFPKETIILSPC 219 (585)
T ss_pred -CCCc----eEEEEEEEEEEEecC
Confidence 2344 478999999999754
No 106
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=63.70 E-value=34 Score=36.41 Aligned_cols=66 Identities=14% Similarity=0.219 Sum_probs=52.5
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
.+++.|-|..-.+.++..+|..++.++|. +++.=++|++|-...+.....+..|..+.|.|+++.+
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~-----D~~g~~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~ 1043 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLE-----DETGILEVVVFPSEYERYRRLLLEGRLLIVKGKVQRR 1043 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCCEEEEEEEe-----cCCCcEEEEEcHHHHHHHHHHhccCcEEEEEEEEEec
Confidence 57788888875544444489989988887 3334789999988888888889999999999999885
No 107
>PLN02502 lysyl-tRNA synthetase
Probab=63.68 E-value=99 Score=30.31 Aligned_cols=79 Identities=18% Similarity=0.233 Sum_probs=50.2
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch-H------HHHHHHhcCCCCEEEEEEEeeeee
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-L------AHVASQHVEKGQQIYISGRLVSDV 159 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk-~------Ae~~~~~LkKGd~V~VeGrL~~~~ 159 (207)
..|.|.|+|.. +|. .|+ ++-+.|. + .+.-+.|++-.+ . -+.+...|..||.|.|+|.+...
T Consensus 109 ~~V~v~GrV~~---~R~--~Gk-~~F~~Lr-D----~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t- 176 (553)
T PLN02502 109 VSVSVAGRIMA---KRA--FGK-LAFYDLR-D----DGGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKT- 176 (553)
T ss_pred CEEEEEEEEEE---Eec--CCC-eEEEEEe-c----CCccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEec-
Confidence 34889999985 443 353 4434443 2 223467665432 1 11223358999999999998653
Q ss_pred eEcCCCcEEEEEEEEEEEEEEeeCC
Q 028557 160 VESGDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 160 ~~dkdG~~~~~~eIva~~I~~L~~k 184 (207)
+.| .++|.+++|.+|...
T Consensus 177 ---~~g----elel~~~~i~vLs~~ 194 (553)
T PLN02502 177 ---KKG----ELSIFPTSFEVLTKC 194 (553)
T ss_pred ---CCC----CEEEEEeEEEEEecc
Confidence 334 589999999999854
No 108
>PF10451 Stn1: Telomere regulation protein Stn1; InterPro: IPR018856 The budding yeast protein Stn1 is a DNA-binding protein which has specificity for telomeric DNA. Structural profiling has predicted an OB-fold []. This entry represents the N-terminal part of the molecule, which adopts the OB fold. Protection of telomeres by multiple proteins with OB-fold domains is conserved in eukaryotic evolution [].; PDB: 3KF6_A 3KF8_A.
Probab=62.03 E-value=38 Score=29.87 Aligned_cols=91 Identities=12% Similarity=0.116 Sum_probs=53.0
Q ss_pred CCCccccCcCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHH---HHHhcCCCCEEEE
Q 028557 75 KPPEIPWDKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHV---ASQHVEKGQQIYI 151 (207)
Q Consensus 75 rp~~v~~~~~~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~---~~~~LkKGd~V~V 151 (207)
.....-|.-..++.|.|+|.|...- .+...+.+ ++.++| ++.-+ .+.+.|.++...... -...+ -|+.|.|
T Consensus 55 ~~~~~f~~NhPI~~v~i~G~Vv~~~-~~~~~~~~-~~~l~i--DD~Sg-~~~i~~~~~~~~~~~~~l~~~~~-~G~~V~V 128 (256)
T PF10451_consen 55 QQNIYFYNNHPIRWVRIVGVVVGID-YKWIENED-RIILTI--DDSSG-ANTIECKCSKSSYLSMGLPINDL-IGKVVEV 128 (256)
T ss_dssp -TT-EEETTEEE-EEEEEEEEEEEE-EEE-BBTC-EEEEEE--E-SSC-S-EEEEEEEHHHHHCCCHHCTT--TT-EEEE
T ss_pred cCCEEEECCcccEEEEEEEEEEEEE-EEeecccc-eEEEEE--eCCCC-ceeEEEEEEcccccccCCCccCC-CCcEEEE
Confidence 3444556667899999999999853 33333333 444443 33322 228999999762211 12234 8999999
Q ss_pred EEEeeeeeeEcCCCcEEEEEEEEEEEEEEee
Q 028557 152 SGRLVSDVVESGDGQQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 152 eGrL~~~~~~dkdG~~~~~~eIva~~I~~L~ 182 (207)
.|.+. +...++.++.|..+.
T Consensus 129 kG~vs-----------r~~~ql~ve~i~~~~ 148 (256)
T PF10451_consen 129 KGTVS-----------RNERQLDVERIELVR 148 (256)
T ss_dssp EEEEE-----------SSSEEEEEEEEEEET
T ss_pred EEEEc-----------cCcEEEEEEEEEccC
Confidence 99999 123467777777764
No 109
>cd04498 hPOT1_OB2 hPOT1_OB2: A subfamily of OB folds similar to the second OB fold (OB2) of human protection of telomeres 1 protein (hPOT1). POT1 proteins bind to the single-stranded (ss) 3-prime ends of the telomere. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB2) which cooperate to bind telomeric ssDNA. OB1 makes more extensive contact with the ssDNA than OB2. OB2 protects the 3' end of the ssDNA. hPOT1 is implicated in telomere length regulation.
Probab=61.98 E-value=13 Score=29.37 Aligned_cols=28 Identities=18% Similarity=0.312 Sum_probs=24.4
Q ss_pred eEEEEEEEchHHHHHHHhcCCCCEEEEEE
Q 028557 125 SWINLTFWDELAHVASQHVEKGQQIYISG 153 (207)
Q Consensus 125 ~wi~V~awgk~Ae~~~~~LkKGd~V~VeG 153 (207)
.-++|++|..-|+.+.+ |+.||.|.+.=
T Consensus 60 ~ti~It~yD~H~~~ar~-lK~GdfV~L~N 87 (123)
T cd04498 60 LTIDILVYDNHVELAKS-LKPGDFVRIYN 87 (123)
T ss_pred EEEEEEEEcchHHHHhh-CCCCCEEEEEE
Confidence 56899999999998877 99999998864
No 110
>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=61.82 E-value=62 Score=23.81 Aligned_cols=45 Identities=16% Similarity=0.279 Sum_probs=32.5
Q ss_pred EEEEEEEEEecCCCCCeEEEEEEEchHH--H------------------HHHHhcCCCCEEEEEEEeeee
Q 028557 109 VLAWTRLAVRKSATQTSWINLTFWDELA--H------------------VASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 109 ~va~f~LAv~r~~~~t~wi~V~awgk~A--e------------------~~~~~LkKGd~V~VeGrL~~~ 158 (207)
.+..|+|. +.|--++|.+|.... + .....+..|+.|.|.|+++..
T Consensus 14 ~~~~~tLd-----DgTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~f 78 (92)
T cd04483 14 TFYSFGVD-----DGTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTY 78 (92)
T ss_pred CeEEEEEe-----cCCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEecc
Confidence 35666665 345568999997632 1 234569999999999999876
No 111
>PRK07218 replication factor A; Provisional
Probab=61.08 E-value=38 Score=32.09 Aligned_cols=63 Identities=24% Similarity=0.300 Sum_probs=43.5
Q ss_pred CccEEEEEEEECCCceEEEc--CCCcE-EEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHL--PSGKV-LAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t--~nG~~-va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
.++.|++.|+|..-. .|++ .+|.. +....|+ ++|--+++++|+.++ .|..||.|.|.+-....
T Consensus 171 g~~~V~v~g~Vl~~~-~r~f~~~dg~~~v~~giig-----DeTG~Ir~tlW~~~~-----~l~~Gd~v~I~na~v~e 236 (423)
T PRK07218 171 GDRGVNVEARVLELE-HREIDGRDGETTILSGVLA-----DETGRLPFTDWDPLP-----EIEIGASIRIEDAYVRE 236 (423)
T ss_pred CCCceEEEEEEEEec-ceeEEcCCCCeEEEEEEEE-----CCCceEEEEEecccc-----cCCCCCEEEEeeeEEec
Confidence 467799999998542 2332 34532 3333333 678899999999865 38999999999865443
No 112
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=59.88 E-value=1.2e+02 Score=30.85 Aligned_cols=88 Identities=18% Similarity=0.260 Sum_probs=54.5
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH----HHHHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL----AHVASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~----Ae~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
..|+|.|+|.. +|.. |+ ++-+.|. + .+..+.|++-.+. .-.....|..|+.|.|+|.+..+.-..
T Consensus 19 ~~V~l~GWV~~---~R~~--G~-l~FidLR-D----~~G~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~ 87 (706)
T PRK12820 19 REVCLAGWVDA---FRDH--GE-LLFIHLR-D----RNGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEET 87 (706)
T ss_pred CEEEEEEEEEE---EEcC--CC-cEEEEEE-e----CCccEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCccc
Confidence 45899999975 4433 43 3333333 2 2334777775432 112346799999999999998863221
Q ss_pred CC-CcEEEEEEEEEEEEEEeeCCC
Q 028557 163 GD-GQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 163 kd-G~~~~~~eIva~~I~~L~~k~ 185 (207)
++ +...-.+||.++++.+|....
T Consensus 88 ~n~~~~tg~iEl~~~~i~iL~~a~ 111 (706)
T PRK12820 88 ENPHIETGDIEVFVRELSILAASE 111 (706)
T ss_pred cCCCCCCCcEEEEeeEEEEEecCC
Confidence 11 111235899999999998654
No 113
>PRK07218 replication factor A; Provisional
Probab=59.37 E-value=43 Score=31.70 Aligned_cols=60 Identities=25% Similarity=0.329 Sum_probs=43.7
Q ss_pred cCCccEEEEEEEECCCceEEEcC-CCc--EEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEE
Q 028557 83 KELTNTVHLIGVVGTPIETKHLP-SGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (207)
Q Consensus 83 ~~~mN~V~LiGrL~~dPeir~t~-nG~--~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGr 154 (207)
...+..|.+.|+|..-.+ |++. +|. .+....|+ ++|--+++++|++.+ |+.||.|.|.+-
T Consensus 65 ~~~~~~V~v~~kVl~i~~-rt~r~dg~~g~v~~~~ig-----DeTG~Ir~tlW~~~~------l~~Gdvv~I~na 127 (423)
T PRK07218 65 STDDKNVTVTGRVLTIGE-RSIRYQGDDHVIYEGILA-----DETGTISYTAWKDFG------LSPGDTVTIGNA 127 (423)
T ss_pred CCCCceeEEEEEEEEecc-eeEecCCCceEEEEEEEE-----CCCCeEEEEEECCCC------CCCCCEEEEecc
Confidence 344688999999986444 3332 343 45555555 678899999999753 999999999974
No 114
>KOG3056 consensus Protein required for S-phase initiation or completion [Cell cycle control, cell division, chromosome partitioning]
Probab=57.88 E-value=37 Score=33.33 Aligned_cols=69 Identities=20% Similarity=0.307 Sum_probs=49.5
Q ss_pred EEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCc
Q 028557 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (207)
Q Consensus 91 LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~ 166 (207)
.+|-|...-..+.+.+|++|..+.|..=+. . .-+.|-+||+ |.--+..++-|+.|.| |......+++|-
T Consensus 190 t~GvI~~K~~~K~t~~G~~y~iwkL~dLk~--~-q~vslfLFG~-a~k~~wk~k~GtVial---LNp~v~k~~~gs 258 (578)
T KOG3056|consen 190 TMGVIVEKSDPKFTSNGNPYSIWKLTDLKD--H-QTVSLFLFGK-AHKRYWKIKLGTVIAL---LNPEVLKDRPGS 258 (578)
T ss_pred EEEEEeecCCcccccCCCceEEEEeeecCc--c-ceeEEEEecH-HHHHHhhhccCcEEEE---eCccccCCCCCC
Confidence 457777777777788888888887764443 2 4577889999 6555567899987754 777777777765
No 115
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=57.09 E-value=36 Score=24.33 Aligned_cols=34 Identities=9% Similarity=0.167 Sum_probs=24.4
Q ss_pred eEEEEEEE--chHHHHHHHhcCCCCEEEEEEEeeeee
Q 028557 125 SWINLTFW--DELAHVASQHVEKGQQIYISGRLVSDV 159 (207)
Q Consensus 125 ~wi~V~aw--gk~Ae~~~~~LkKGd~V~VeGrL~~~~ 159 (207)
--+.|... |.....+ ..|+.||.|.|+|-+-.-.
T Consensus 63 ~~~~ik~~~~G~~S~~L-~~l~~Gd~v~i~gP~G~f~ 98 (99)
T PF00970_consen 63 LEFAIKRYPNGRVSRYL-HQLKPGDEVEIRGPYGNFT 98 (99)
T ss_dssp EEEEEEECTTSHHHHHH-HTSCTTSEEEEEEEESSEE
T ss_pred EEEEEEeccCCHHHHHH-HhCCCCCEEEEEEcccccC
Confidence 33455556 6677777 5599999999999765443
No 116
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=55.10 E-value=70 Score=31.07 Aligned_cols=78 Identities=14% Similarity=0.192 Sum_probs=51.9
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH------HHHHHHhcCCCCEEEEEEEeeeeeeE
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL------AHVASQHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~------Ae~~~~~LkKGd~V~VeGrL~~~~~~ 161 (207)
.+.+.|||.+ .|. +|.+.+-|.|.-. ..=+.|++=-+. -+...+.|++||-|.|.|..-..
T Consensus 106 ~~svaGRI~s---~R~--sGsKL~Fydl~~~-----g~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgrt--- 172 (560)
T KOG1885|consen 106 IVSVAGRIHS---KRE--SGSKLVFYDLHGD-----GVKLQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGRT--- 172 (560)
T ss_pred eeeeeeeEee---eec--cCCceEEEEEecC-----CeEEEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCcC---
Confidence 3889999986 443 4666777777633 112555443322 24467789999999999987433
Q ss_pred cCCCcEEEEEEEEEEEEEEeeC
Q 028557 162 SGDGQQQTYYKVVVQQLNFVER 183 (207)
Q Consensus 162 dkdG~~~~~~eIva~~I~~L~~ 183 (207)
+.| -+.|.+++|.+|..
T Consensus 173 -~~g----ELSi~~~~~~lLsp 189 (560)
T KOG1885|consen 173 -KSG----ELSIIPNEIILLSP 189 (560)
T ss_pred -CCc----eEEEeecchheecc
Confidence 333 67888999988753
No 117
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=54.70 E-value=91 Score=29.65 Aligned_cols=66 Identities=12% Similarity=0.193 Sum_probs=46.5
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHH--HHHHhcCCCCEEEEEEEeeeee
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDV 159 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae--~~~~~LkKGd~V~VeGrL~~~~ 159 (207)
..-+..+.|++..+|... ++|..++ .+. +..--+.|.+|-...+ .++..|.+||.|.+-|.++...
T Consensus 265 ~~~~~~v~g~v~~~p~~i--eGghv~v--~i~-----d~~G~I~~~A~eptk~fr~~a~~L~pGD~i~~~G~~~~~~ 332 (421)
T COG1571 265 DYSKYRVVGRVEAEPRAI--EGGHVVV--EIT-----DGEGEIGAVAFEPTKEFRELARKLIPGDEITVYGSVKPGT 332 (421)
T ss_pred hccceEEEEEEecccEEe--eCCEEEE--Eec-----CCCceEEEEEecccccchHHHHhcCCCCEEEEecCccccc
Confidence 466789999999988765 3564433 332 2233788999876433 3456799999999999987765
No 118
>PLN02221 asparaginyl-tRNA synthetase
Probab=54.32 E-value=1.5e+02 Score=29.26 Aligned_cols=87 Identities=22% Similarity=0.184 Sum_probs=53.9
Q ss_pred cEEEEEEEECCCceEEEcCCCc-EEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 87 NTVHLIGVVGTPIETKHLPSGK-VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~-~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
..|.|.|.|-+ +|. .|+ .++ |.+.-+.. ....++|++-.+.. ...+.|..|+.|.|+|.+..+.- ..|
T Consensus 51 ~~V~I~GWV~~---iR~--~Gk~~i~-Fl~LRDgs--~~g~iQvVv~~~~~-~~~~~L~~ES~V~V~G~V~~~~~--~~~ 119 (572)
T PLN02221 51 QKVRIGGWVKT---GRE--QGKGTFA-FLEVNDGS--CPANLQVMVDSSLY-DLSTLVATGTCVTVDGVLKVPPE--GKG 119 (572)
T ss_pred CEEEEEEEEEe---hhh--CCCceEE-EEEEeCCc--ccccEEEEEcCchh-hHHhcCCCceEEEEEEEEEeCCc--cCC
Confidence 45899999985 443 243 233 33221111 11468887754422 22346899999999999976542 123
Q ss_pred cEEEEEEEEEEEEEEeeCCC
Q 028557 166 QQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 166 ~~~~~~eIva~~I~~L~~k~ 185 (207)
.++ .+||.+++|.+|....
T Consensus 120 ~~~-~iEl~v~~i~vl~~a~ 138 (572)
T PLN02221 120 TKQ-KIELSVEKVIDVGTVD 138 (572)
T ss_pred CCc-cEEEEEeEEEEEecCC
Confidence 222 7899999999998643
No 119
>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=53.51 E-value=57 Score=32.24 Aligned_cols=67 Identities=21% Similarity=0.264 Sum_probs=42.0
Q ss_pred EEEEEEEECCCceEEE---cCCCcEEEEEEEEEecCCCCCe-EEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeee
Q 028557 88 TVHLIGVVGTPIETKH---LPSGKVLAWTRLAVRKSATQTS-WINLTFWDELAHVASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~---t~nG~~va~f~LAv~r~~~~t~-wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
.|.++|.|..--.+.+ -.+|+..-+-.|.... ++. -++|++||+.|+.+. ..+|+.|.+.|-.- ..|
T Consensus 312 ~VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~D---~sg~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V-~~f 382 (608)
T TIGR00617 312 LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLVD---DSGKSVRVTLWGDDATKFD--VSVQPVIAIKGVRV-SDF 382 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEEe---CCCCEEEEEEEhhhhhhcC--CCCCCEEEEEeEEE-Eec
Confidence 5778888875322222 2356654433333332 233 589999999998764 68899999988443 445
No 120
>PLN02603 asparaginyl-tRNA synthetase
Probab=53.24 E-value=2.4e+02 Score=27.86 Aligned_cols=85 Identities=14% Similarity=0.189 Sum_probs=52.1
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHH--HHH-HhcCCCCEEEEEEEeeeeeeEc
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VAS-QHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae--~~~-~~LkKGd~V~VeGrL~~~~~~d 162 (207)
=..|+|.|.|- .+|.. |+ ++ |-...+. ....-+.|++=.+... .+. ..|..|+.|.|+|.+...
T Consensus 107 g~~V~v~GwV~---~iR~~--g~-~~-Fi~l~Dg--s~~~~lQ~v~~~~~~~~~~l~~~~l~~gs~V~V~G~v~~~---- 173 (565)
T PLN02603 107 GKTLNVMGWVR---TLRAQ--SS-VT-FIEVNDG--SCLSNMQCVMTPDAEGYDQVESGLITTGASVLVQGTVVSS---- 173 (565)
T ss_pred CCEEEEEEEEE---EEEeC--CC-eE-EEEEECC--CCCEeEEEEEECcHHHHHHHhhcCCCCCCEEEEEEEEEec----
Confidence 45788999997 35532 33 33 4333221 1223577776433221 111 138899999999999754
Q ss_pred CCCcEEEEEEEEEEEEEEeeCCC
Q 028557 163 GDGQQQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 163 kdG~~~~~~eIva~~I~~L~~k~ 185 (207)
+.++ ..+||.|++|.+|....
T Consensus 174 ~~~~--~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 174 QGGK--QKVELKVSKIVVVGKSD 194 (565)
T ss_pred CCCC--ccEEEEEeEEEEEECCC
Confidence 2332 36899999999998654
No 121
>smart00350 MCM minichromosome maintenance proteins.
Probab=50.89 E-value=44 Score=32.00 Aligned_cols=57 Identities=7% Similarity=0.086 Sum_probs=42.0
Q ss_pred CeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcC----CCcEEEEEEEEEEEEEEeeCC
Q 028557 124 TSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG----DGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 124 t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dk----dG~~~~~~eIva~~I~~L~~k 184 (207)
+..+.|.+.+++.+ .++.||+|.|.|-++.+.|..+ .+...+.+.+.+.+|..++.+
T Consensus 103 Prsi~v~l~~dLvd----~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~i~~~~~~ 163 (509)
T smart00350 103 PRSVDVILDGDLVD----KAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANHVRKLDYK 163 (509)
T ss_pred CcEEEEEEcccccC----cccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeEEEEcccc
Confidence 57899999988765 5799999999999998865322 222235577888888877643
No 122
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=50.87 E-value=2.2e+02 Score=30.30 Aligned_cols=78 Identities=13% Similarity=0.202 Sum_probs=50.1
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH-----HHHHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-----AHVASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~-----Ae~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
.|++.|+|.. +|.. |+ ++-+.|. + .+.-++|++=.+. -......+..||.|.|+|.+...
T Consensus 653 ~V~v~Grv~~---~R~~--G~-~~F~~lr-D----~~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t---- 717 (1094)
T PRK02983 653 EVSVSGRVLR---IRDY--GG-VLFADLR-D----WSGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTS---- 717 (1094)
T ss_pred EEEEEEEEEE---EeeC--CC-eEEEEEE-e----CCeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEc----
Confidence 5899999974 4543 43 4434442 2 2344677654331 12233458999999999999653
Q ss_pred CCCcEEEEEEEEEEEEEEeeCC
Q 028557 163 GDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 163 kdG~~~~~~eIva~~I~~L~~k 184 (207)
+.| .++|.++++.++.+.
T Consensus 718 ~~g----e~ei~~~~i~ll~k~ 735 (1094)
T PRK02983 718 RNG----TLSLLVTSWRLAGKC 735 (1094)
T ss_pred CCC----CEEEEEeEEEEEecc
Confidence 344 479999999999754
No 123
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=49.81 E-value=2.1e+02 Score=27.73 Aligned_cols=78 Identities=19% Similarity=0.267 Sum_probs=50.3
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEch-HH-H---HHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LA-H---VASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk-~A-e---~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
.|.|.|+|.. +|.. |+ ++-+.|. +.. .-+.|++-.+ .. + .....+..||.|.|+|.+...
T Consensus 67 ~v~v~Grv~~---~R~~--Gk-~~F~~lr-D~~----g~iQ~~~~~~~~~~~~~~~~~~~l~~Gd~V~v~G~~~~t---- 131 (505)
T PRK12445 67 EVSVAGRMMT---RRIM--GK-ASFVTLQ-DVG----GRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKT---- 131 (505)
T ss_pred EEEEEEEEEE---EecC--CC-cEEEEEE-eCC----ccEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEec----
Confidence 5899999974 5543 54 3433333 322 2366655422 11 1 123568999999999998753
Q ss_pred CCCcEEEEEEEEEEEEEEeeCC
Q 028557 163 GDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 163 kdG~~~~~~eIva~~I~~L~~k 184 (207)
+.| .++|.|+++.+|...
T Consensus 132 ~~g----elel~~~~~~llsk~ 149 (505)
T PRK12445 132 QTG----ELSIHCTELRLLTKA 149 (505)
T ss_pred CCC----cEEEEEeEEEEEecC
Confidence 344 489999999999854
No 124
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=46.86 E-value=81 Score=33.11 Aligned_cols=63 Identities=13% Similarity=0.004 Sum_probs=47.7
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
.+.+.|.|.. ...+. ++|++++.+++. +.+.-+.|++|.+.-+.... +.+|+.+.|+|+.+.+
T Consensus 899 ~~~v~g~i~~-~~~~~-K~g~~maf~~~e-----D~~~~~e~~~F~~~~~~~~~-l~~~~~~~~~~~~~~~ 961 (973)
T PRK07135 899 EYRLAIEVKN-VKRLR-KANKEYKKVILS-----DDSVEITIFVNDNDYLLFET-LKKGDIYEFLISKSKN 961 (973)
T ss_pred eEEEEEEEEE-EEEEe-eCCCeEEEEEEE-----ECCCcEEEEEcHHHHHHHHH-hhcCCEEEEEEEEcCC
Confidence 4678887775 44444 788888888876 44556889999986666654 8999999999987655
No 125
>PF10574 UPF0552: Uncharacterised protein family UPF0552; InterPro: IPR018889 This family of proteins has no known function.
Probab=46.65 E-value=84 Score=27.37 Aligned_cols=44 Identities=20% Similarity=0.436 Sum_probs=32.5
Q ss_pred cCCCCEEEEEEEeeee---eeEcCCCcEEEEEEEEEEEEEEeeCCCC
Q 028557 143 VEKGQQIYISGRLVSD---VVESGDGQQQTYYKVVVQQLNFVERSSP 186 (207)
Q Consensus 143 LkKGd~V~VeGrL~~~---~~~dkdG~~~~~~eIva~~I~~L~~k~~ 186 (207)
++.|+-|+++|.|.-. ...|..|++..++.|.++--..+.++-.
T Consensus 29 ~q~G~GvilEG~l~~~sRH~I~D~~~~k~Ry~vl~i~~~~~hrR~fd 75 (224)
T PF10574_consen 29 HQSGDGVILEGELVDVSRHSITDASGQKERYYVLYIRPSRIHRRKFD 75 (224)
T ss_pred hcCCCeEEEEEEEEeeeEEEEEcCCCCceEEEEEEEeechhhhhccc
Confidence 7999999999999533 4557788877777777766666655444
No 126
>COG3689 Predicted membrane protein [Function unknown]
Probab=46.23 E-value=86 Score=28.04 Aligned_cols=88 Identities=10% Similarity=0.089 Sum_probs=58.1
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCc
Q 028557 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (207)
Q Consensus 87 N~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~ 166 (207)
.+|.++|.|-+|..+. .|--.+++|-|.|=-- ++.-+-..+-.+ . ...++..+.|.|+|+|.+..+.|.
T Consensus 176 k~Ie~tGFVy~~~~~~--~N~lflaRFgiicC~A--Da~vygl~v~~~---~-~~~y~ndtWltvkGtl~~e~~~~~--- 244 (271)
T COG3689 176 KKIEFTGFVYNDESFP--KNYLFLARFGIICCAA--DAGVYGLLVELD---N-QTDYKNDTWLTVKGTLSSEYLSDF--- 244 (271)
T ss_pred ceEEEEEEEECCCCCC--cceeehhhhheeeeec--cceeEEEEEEcc---c-cccCCCCceEEEEeEEEeeecCch---
Confidence 4789999999977653 2444566776654322 222222333332 1 245799999999999999988654
Q ss_pred EEEEEEEEEEEEEEeeCCC
Q 028557 167 QQTYYKVVVQQLNFVERSS 185 (207)
Q Consensus 167 ~~~~~eIva~~I~~L~~k~ 185 (207)
+.....|.|++++.++.+.
T Consensus 245 ~~~ipvi~v~sv~~I~kP~ 263 (271)
T COG3689 245 KKRIPVIEVDSVEVIPKPA 263 (271)
T ss_pred hhcCcEEEeeeeeecCCCC
Confidence 3446688999999997654
No 127
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=45.15 E-value=1.6e+02 Score=28.69 Aligned_cols=80 Identities=20% Similarity=0.298 Sum_probs=48.5
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEc-hHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcE
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD-ELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awg-k~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~ 167 (207)
|.+.|||.. +|. .| +.+-+.|- +.+.+-..|++-.--+ ...+...+.+..||.|.|+|.+-.. +.|
T Consensus 64 v~vAGRi~~---~R~--~G-K~~F~~i~-d~~gkiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~T----~~G-- 130 (502)
T COG1190 64 VSVAGRIMT---IRN--MG-KASFADLQ-DGSGKIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFKT----KTG-- 130 (502)
T ss_pred eEEecceee---ecc--cC-ceeEEEEe-cCCceEEEEEeccccchhhHHHHHhccccCCEEeeeeeeeec----CCC--
Confidence 899999975 333 35 34444443 3332333343332222 2334456677889999999998654 345
Q ss_pred EEEEEEEEEEEEEeeC
Q 028557 168 QTYYKVVVQQLNFVER 183 (207)
Q Consensus 168 ~~~~eIva~~I~~L~~ 183 (207)
.+.|.|+.+.+|.+
T Consensus 131 --elSv~v~~~~lLsK 144 (502)
T COG1190 131 --ELSVSVEELRLLSK 144 (502)
T ss_pred --ceEEEEEEEeeecc
Confidence 46788888888864
No 128
>PLN02532 asparagine-tRNA synthetase
Probab=40.43 E-value=75 Score=31.75 Aligned_cols=54 Identities=15% Similarity=0.133 Sum_probs=39.5
Q ss_pred EEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcEEEEEEEEEEEEEEeeCC
Q 028557 126 WINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 126 wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~~~~~eIva~~I~~L~~k 184 (207)
.+.|++-++.+... +.|..|+.|.|+|.+..+ ++.+ ....+||.|++|.+|...
T Consensus 148 ~lQvVv~~~~~~~~-~~L~~Es~V~V~G~V~~~---~~~~-~~g~iEl~v~~i~VLg~a 201 (633)
T PLN02532 148 SLQVVVDSALAPLT-QLMATGTCILAEGVLKLP---LPAQ-GKHVIELEVEKILHIGTV 201 (633)
T ss_pred ceEEEEeCCcccHh-hcCCCceEEEEEEEEEec---CCCC-CCCcEEEEeeEEEEEecC
Confidence 48888876544332 679999999999999876 1221 123589999999999864
No 129
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=40.35 E-value=43 Score=33.38 Aligned_cols=77 Identities=21% Similarity=0.310 Sum_probs=56.9
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCC
Q 028557 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (207)
Q Consensus 86 mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG 165 (207)
=..|.+.|.|. ++++|+ |= +-|+|. +++.++.|.+|-.-...+..++..||-|.|.|....+ +|
T Consensus 213 g~tV~I~GeV~---qikqT~-GP--TVFtlt-----Detg~i~aAAFe~aGvRAyP~IevGdiV~ViG~V~~r-----~g 276 (715)
T COG1107 213 GKTVRIEGEVT---QIKQTS-GP--TVFTLT-----DETGAIWAAAFEEAGVRAYPEIEVGDIVEVIGEVTRR-----DG 276 (715)
T ss_pred CceEEEEEEEE---EEEEcC-CC--EEEEEe-----cCCCceehhhhccCCcccCCCCCCCceEEEEEEEeec-----CC
Confidence 34578889987 477774 32 346665 6788888999998888999999999999999998655 56
Q ss_pred cEEEEEEEEEEEEEEee
Q 028557 166 QQQTYYKVVVQQLNFVE 182 (207)
Q Consensus 166 ~~~~~~eIva~~I~~L~ 182 (207)
+ ++|.+..++.|.
T Consensus 277 ~----lQiE~~~me~L~ 289 (715)
T COG1107 277 R----LQIEIEAMEKLT 289 (715)
T ss_pred c----EEEeehhhHHhh
Confidence 4 344455555554
No 130
>PRK06386 replication factor A; Reviewed
Probab=38.21 E-value=1.3e+02 Score=27.95 Aligned_cols=79 Identities=15% Similarity=0.247 Sum_probs=52.8
Q ss_pred CCccEEEEEEEECCCceEEEcC--CC-cEEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeee
Q 028557 84 ELTNTVHLIGVVGTPIETKHLP--SG-KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t~--nG-~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
..+..|.+.|+|..-++ ++.. ++ ..+....|+ ++|--+++++|++ .|..|+.|.|.+-. .+.|
T Consensus 115 ~g~~~v~V~akVle~~e-~e~~~~g~~~~v~sg~lg-----DeTGrIr~TlW~~-------~l~eGd~v~i~na~-v~e~ 180 (358)
T PRK06386 115 LVTPYVSVIGKITGITK-KEYDSDGTSKIVYQGYIE-----DDTARVRISSFGK-------PLEDNRFVRIENAR-VSQY 180 (358)
T ss_pred CCCCceEEEEEEEEccC-ceEecCCCccEEEEEEEE-----cCCCeEEEEEccc-------cccCCCEEEEeeeE-EEcc
Confidence 35778999999976444 2222 33 245555555 7788999999997 38999999999944 4444
Q ss_pred EcCCCcEEEEEEEEEEEEEEeeC
Q 028557 161 ESGDGQQQTYYKVVVQQLNFVER 183 (207)
Q Consensus 161 ~dkdG~~~~~~eIva~~I~~L~~ 183 (207)
. | .++|.+.+..-+..
T Consensus 181 ~---G----~~el~v~~~t~I~~ 196 (358)
T PRK06386 181 N---G----YIEISVGNKSVIKE 196 (358)
T ss_pred C---C----eEEEEeCCeEEEEE
Confidence 2 2 45666665555543
No 131
>PF11948 DUF3465: Protein of unknown function (DUF3465); InterPro: IPR021856 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 131 to 151 amino acids in length. This protein has a conserved HWTH sequence motif.
Probab=36.61 E-value=53 Score=26.32 Aligned_cols=28 Identities=25% Similarity=0.309 Sum_probs=20.3
Q ss_pred HHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCc
Q 028557 135 LAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (207)
Q Consensus 135 ~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~ 166 (207)
+|..+ ..|+|||.|.+.|+. .|.++.|.
T Consensus 79 lapri-p~l~~GD~V~f~GeY---e~n~kggv 106 (131)
T PF11948_consen 79 LAPRI-PWLQKGDQVEFYGEY---EWNPKGGV 106 (131)
T ss_pred ccccC-cCcCCCCEEEEEEEE---EECCCCCE
Confidence 55555 459999999999998 45445443
No 132
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=34.14 E-value=1.3e+02 Score=31.53 Aligned_cols=56 Identities=21% Similarity=0.347 Sum_probs=40.2
Q ss_pred eEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeE----cCCCcEEEEEEEEEEEEEEeeCC
Q 028557 125 SWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE----SGDGQQQTYYKVVVQQLNFVERS 184 (207)
Q Consensus 125 ~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~----dkdG~~~~~~eIva~~I~~L~~k 184 (207)
.-+.|.+.+++.+ .++.||+|.|.|-++...-. .+.....+.+.+.|.+|+.++..
T Consensus 346 rsi~v~l~dDLVD----~v~PGDrV~VtGIl~~~~~~~~~~~~~~~~~~~~yl~~~~i~~~~~~ 405 (915)
T PTZ00111 346 EVINLNLYDDLID----SVKTGDRVTVVGILKVTPIRTSTTRRTLKSLYTYFVNVIHVKVINST 405 (915)
T ss_pred ceEEEEEecchhc----cCCCCCEEEEEEEEEeccccccccccccccccceEEEEEEEEEeccc
Confidence 6688999988664 57999999999999876421 11223456677888888887653
No 133
>cd06198 FNR_like_3 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=31.04 E-value=1.1e+02 Score=24.92 Aligned_cols=30 Identities=7% Similarity=0.158 Sum_probs=22.6
Q ss_pred EEchHHHHHHHhcCCCCEEEEEEEeeeeee
Q 028557 131 FWDELAHVASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 131 awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
.-|.....+.+.++.||.|.|.|-+-.-.+
T Consensus 62 ~~G~~t~~l~~~l~~G~~v~i~gP~G~~~~ 91 (216)
T cd06198 62 ALGDYTRRLAERLKPGTRVTVEGPYGRFTF 91 (216)
T ss_pred eCChHHHHHHHhCCCCCEEEEECCCCCCcc
Confidence 346667777778999999999997654434
No 134
>COG1018 Hmp Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]
Probab=30.35 E-value=99 Score=27.18 Aligned_cols=40 Identities=13% Similarity=0.073 Sum_probs=29.6
Q ss_pred CCeEEEEEEE--chHHHHHHHhcCCCCEEEEEEEeeeeeeEc
Q 028557 123 QTSWINLTFW--DELAHVASQHVEKGQQIYISGRLVSDVVES 162 (207)
Q Consensus 123 ~t~wi~V~aw--gk~Ae~~~~~LkKGd~V~VeGrL~~~~~~d 162 (207)
....|.|..= |.....+.++|++||.|.|.+---.-.+.+
T Consensus 66 ~~~~isVk~~~~G~~S~~Lh~~lk~Gd~l~v~~P~G~F~l~~ 107 (266)
T COG1018 66 SLYRISVKREDGGGGSNWLHDHLKVGDTLEVSAPAGDFVLDD 107 (266)
T ss_pred ceEEEEEEEeCCCcccHHHHhcCCCCCEEEEecCCCCccCCC
Confidence 3566777666 567788888999999999976655555543
No 135
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=29.93 E-value=32 Score=26.92 Aligned_cols=24 Identities=33% Similarity=0.440 Sum_probs=19.9
Q ss_pred hHHHHHHHhcCCCCEEEEEEEeee
Q 028557 134 ELAHVASQHVEKGQQIYISGRLVS 157 (207)
Q Consensus 134 k~Ae~~~~~LkKGd~V~VeGrL~~ 157 (207)
++|+.+.+.|++|+.|.++|.|-.
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGa 26 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGA 26 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTS
T ss_pred HHHHHHHHhCCCCCEEEEECCCCC
Confidence 478889999999999999998843
No 136
>PF08021 FAD_binding_9: Siderophore-interacting FAD-binding domain; InterPro: IPR013113 Proteins in this entry are siderophore-interacting FAD-binding proteins. This entry includes the vibriobactin utilization protein ViuB, which is involved in the removal of iron from iron-vibriobactin complexes, as well as several hypothetical proteins.; PDB: 2GPJ_A.
Probab=29.54 E-value=1.5e+02 Score=22.53 Aligned_cols=43 Identities=12% Similarity=0.100 Sum_probs=24.6
Q ss_pred EEEEEEecCCCCCeEEEEEEEch--HHHHHHHhcCCCCEEEEEEE
Q 028557 112 WTRLAVRKSATQTSWINLTFWDE--LAHVASQHVEKGQQIYISGR 154 (207)
Q Consensus 112 ~f~LAv~r~~~~t~wi~V~awgk--~Ae~~~~~LkKGd~V~VeGr 154 (207)
.|+|.--+.....-.|++++-|. .|-..+..++.||.|.|.|-
T Consensus 69 ~YTvR~~d~~~~~l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~gP 113 (117)
T PF08021_consen 69 TYTVRRFDPETGELDIDFVLHGDEGPASRWARSARPGDRVGVTGP 113 (117)
T ss_dssp EEE--EEETT--EEEEEEE--SS--HHHHHHHH--TT-EEEEEEE
T ss_pred CcCEeeEcCCCCEEEEEEEECCCCCchHHHHhhCCCCCEEEEeCC
Confidence 45554444445567788888885 67777788999999999983
No 137
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=28.09 E-value=53 Score=26.80 Aligned_cols=25 Identities=20% Similarity=0.383 Sum_probs=21.3
Q ss_pred hHHHHHHHhcCCCCEEEEEEEeeee
Q 028557 134 ELAHVASQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 134 k~Ae~~~~~LkKGd~V~VeGrL~~~ 158 (207)
++++.+.+.|++|+.|.++|.|-.-
T Consensus 13 ~lg~~l~~~l~~g~Vv~L~GdLGAG 37 (149)
T COG0802 13 ALGERLAEALKAGDVVLLSGDLGAG 37 (149)
T ss_pred HHHHHHHhhCCCCCEEEEEcCCcCC
Confidence 4678888999999999999998543
No 138
>PRK10646 ADP-binding protein; Provisional
Probab=28.09 E-value=48 Score=26.95 Aligned_cols=24 Identities=21% Similarity=0.386 Sum_probs=20.9
Q ss_pred hHHHHHHHhcCCCCEEEEEEEeee
Q 028557 134 ELAHVASQHVEKGQQIYISGRLVS 157 (207)
Q Consensus 134 k~Ae~~~~~LkKGd~V~VeGrL~~ 157 (207)
++|+.+.+.|+.|+.|.+.|.|-.
T Consensus 16 ~l~~~la~~l~~g~vi~L~GdLGa 39 (153)
T PRK10646 16 DLGARVAKACDGATVIYLYGDLGA 39 (153)
T ss_pred HHHHHHHHhCCCCcEEEEECCCCC
Confidence 478888999999999999999854
No 139
>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=27.14 E-value=2.2e+02 Score=23.14 Aligned_cols=84 Identities=20% Similarity=0.282 Sum_probs=42.9
Q ss_pred CCccEEEEEEEECCCceEEEcCCCc-EEEEEEEEEecCCCCCeEEEEEEEchHHHHHH-HhcCCCCEEEEEEEeeeeeeE
Q 028557 84 ELTNTVHLIGVVGTPIETKHLPSGK-VLAWTRLAVRKSATQTSWINLTFWDELAHVAS-QHVEKGQQIYISGRLVSDVVE 161 (207)
Q Consensus 84 ~~mN~V~LiGrL~~dPeir~t~nG~-~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~-~~LkKGd~V~VeGrL~~~~~~ 161 (207)
.+.+.|-++|.|..= .+. .|- +++.. + ....+++.|.+|+.+.+... +-++.|..|.++- |+.|. +
T Consensus 16 pp~~EvD~VG~VvsV--~~~--~~f~~~vYL--s----D~~~Nll~Ikfw~~l~~~~~eDilk~~~liA~SN-LqwR~-~ 83 (143)
T PF09104_consen 16 PPYGEVDTVGFVVSV--SKK--QGFQPLVYL--S----DECHNLLAIKFWTGLNQYGYEDILKPGSLIAASN-LQWRP-E 83 (143)
T ss_dssp TCCCEEEEEEEEEEE--E----TTS--EEEE--E-----TTS-EEEEEESS-------SS---TT-EEEEEE-EEE-S--
T ss_pred CCccccceEEEEEEE--Eec--CCCceeEEe--e----cCCccEEEEEeccCccccchhhhcCcceEEEEee-eEeec-c
Confidence 468999999999862 221 232 22333 2 45688999999999988754 4579999998874 43331 1
Q ss_pred cCCCcEEEEEEEEEEEEEEeeC
Q 028557 162 SGDGQQQTYYKVVVQQLNFVER 183 (207)
Q Consensus 162 dkdG~~~~~~eIva~~I~~L~~ 183 (207)
...| .-.+.|.++.....
T Consensus 84 s~s~----iP~~~A~d~S~FS~ 101 (143)
T PF09104_consen 84 STSG----IPTLFATDLSVFSA 101 (143)
T ss_dssp TTSS----S-EEEEECCEEEES
T ss_pred cccC----CCeeEeccceeeec
Confidence 2233 34567777777754
No 140
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=26.12 E-value=49 Score=26.69 Aligned_cols=23 Identities=17% Similarity=0.413 Sum_probs=20.0
Q ss_pred EEchHHHHHHHhcCCCCEEEEEE
Q 028557 131 FWDELAHVASQHVEKGQQIYISG 153 (207)
Q Consensus 131 awgk~Ae~~~~~LkKGd~V~VeG 153 (207)
+.|++|..++..|..||.|.|.-
T Consensus 9 vlGRLAs~IA~~L~~Gd~VvViN 31 (142)
T TIGR01077 9 ILGRLASVVAKQLLNGEKVVVVN 31 (142)
T ss_pred chHHHHHHHHHHHhcCCEEEEEe
Confidence 46889999999999999998864
No 141
>PF06557 DUF1122: Protein of unknown function (DUF1122); InterPro: IPR008304 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 2ARH_C.
Probab=25.91 E-value=1.8e+02 Score=24.26 Aligned_cols=60 Identities=13% Similarity=0.263 Sum_probs=31.7
Q ss_pred EEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEE---------ch-----HHHHHHHhcCCCCEEEEEE
Q 028557 93 GVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFW---------DE-----LAHVASQHVEKGQQIYISG 153 (207)
Q Consensus 93 GrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~aw---------gk-----~Ae~~~~~LkKGd~V~VeG 153 (207)
||+..+..+.-.-+|+.++...+-.-|. --.-|+.+-=. |- +-+.+..+|.+|++++|+-
T Consensus 13 Grf~Ee~n~~l~~~~~~l~~~kvF~GR~-yY~pW~EiFni~p~~~~~~~~s~~E~~l~~~~~~~l~pg~~lfVeY 86 (170)
T PF06557_consen 13 GRFKEEVNFELYLGGRHLCHVKVFFGRP-YYRPWAEIFNINPWLRVVFFGSPLEDELYKLFSRYLEPGGRLFVEY 86 (170)
T ss_dssp -SSTTEEEEEEEETTEEEEEEEEE--BT-TB--EEEEE---GGGHHHHTTSHHHHHHHHHHHTT----SEEEEE-
T ss_pred CcccceeeEEEEECCeeEEEEEEecCCC-CCcchheeecccchhcccccCChHHHHHHHHHHHHhhhcCeEEEEE
Confidence 4444444443334778888888888887 55778666221 32 3356778999999999974
No 142
>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]
Probab=25.67 E-value=69 Score=32.25 Aligned_cols=56 Identities=13% Similarity=0.240 Sum_probs=40.7
Q ss_pred CeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeeeEcCCCcE--EEEEEEEEEEEEEeeCC
Q 028557 124 TSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ--QTYYKVVVQQLNFVERS 184 (207)
Q Consensus 124 t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~~dkdG~~--~~~~eIva~~I~~L~~k 184 (207)
+--+.|++=.+ +.+.+|+||+|-|-|..+.-... .+|+. ...+-|++.+|..|+..
T Consensus 212 PRSVDvilddD----LVD~~KPGDRV~ivG~yr~Lp~k-~~g~tsg~FRTvliaNni~~l~ke 269 (818)
T KOG0479|consen 212 PRSVDVILDDD----LVDRVKPGDRVNIVGIYRSLPGK-SNGNTSGTFRTVLIANNIELLSKE 269 (818)
T ss_pred CcceeEEeccc----ccccCCCCCeeEEEEEEeeccCc-cCCcccceeEEEEEeccHHhhccc
Confidence 44566766554 45678999999999999887664 35543 34567889999999754
No 143
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=25.60 E-value=6.7e+02 Score=24.91 Aligned_cols=93 Identities=10% Similarity=0.166 Sum_probs=53.1
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchH-HHHHHHhcCCCCEEEEEEEeeeeeeE--
Q 028557 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-AHVASQHVEKGQQIYISGRLVSDVVE-- 161 (207)
Q Consensus 85 ~mN~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~-Ae~~~~~LkKGd~V~VeGrL~~~~~~-- 161 (207)
.=..|+|.|-|-+ +|.. +++.++-..|. +.+ ...-+.|++-... +......|..|+.|.|+|.+..+.-.
T Consensus 80 ~g~~Vtl~GWv~~---iR~~-g~~~~~Fv~lr-Dgs--g~~~iQiVv~~~~~~~~~l~~l~~gs~v~v~G~v~~~~~~~~ 152 (586)
T PTZ00425 80 IDQIITVCGWSKA---VRKQ-GGGRFCFVNLN-DGS--CHLNLQIIVDQSIENYEKLLKCGVGCCFRFTGKLIISPVQNE 152 (586)
T ss_pred CCCEEEEEEEEee---hhhc-CCceEEEEEEE-CCC--CCcceEEEECCchHHHHHHhcCCCccEEEEEEEEEcCCcccc
Confidence 3447999999864 4432 22234433332 111 1223566553221 11233568999999999999876432
Q ss_pred cCCCcEEEEEEEEE-----EEEEEeeCC
Q 028557 162 SGDGQQQTYYKVVV-----QQLNFVERS 184 (207)
Q Consensus 162 dkdG~~~~~~eIva-----~~I~~L~~k 184 (207)
++.|.....+||.+ +++.+|...
T Consensus 153 n~~g~~~~~~El~~~~~~~~~~~ilg~~ 180 (586)
T PTZ00425 153 NKKGLLKENVELALKDNSIHNFEIYGEN 180 (586)
T ss_pred CcCCCCCccEEEEEecCCCceEEEEecc
Confidence 23343334578877 799999754
No 144
>cd04486 YhcR_OBF_like YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate nucleosides. YhcR appears to be the major Ca2+ activated nuclease of B. subtilis. YhcR may be localized in the cell wall.
Probab=25.25 E-value=82 Score=22.42 Aligned_cols=19 Identities=16% Similarity=0.347 Sum_probs=16.2
Q ss_pred HHhcCCCCEEEEEEEeeee
Q 028557 140 SQHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 140 ~~~LkKGd~V~VeGrL~~~ 158 (207)
...++.||+|.|.|.+...
T Consensus 42 ~~~~~~Gd~V~vtG~v~ey 60 (78)
T cd04486 42 GADVAVGDLVRVTGTVTEY 60 (78)
T ss_pred CCCCCCCCEEEEEEEEEee
Confidence 3568999999999998765
No 145
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=25.04 E-value=1.6e+02 Score=23.73 Aligned_cols=81 Identities=10% Similarity=0.068 Sum_probs=50.6
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC-------CCCeEEEEEEEchHHHHHHHhcCCCCEEEEEEEeeeeee
Q 028557 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA-------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 88 ~V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~-------~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
.|.|.|.+.- +. .++..+..|.|.-.-.. .-...+.|.+=+...- -.--+.|.|+|.|+....
T Consensus 57 ~V~i~Gf~vP---le--~~~~~v~eFlLvP~~gaC~h~PpPppNqiV~V~~~~~~~~-----~~~~~pv~V~G~l~~~~~ 126 (146)
T PF11736_consen 57 QVRIPGFMVP---LE--QEEGKVTEFLLVPYFGACIHVPPPPPNQIVHVKMPKPIPV-----DSLYDPVWVEGTLKVERS 126 (146)
T ss_pred EEEEeeEEEe---ec--cCCCcEEEEEEeccCCcCcCCCCCCCccEEEEEeCCCccc-----cccceeEEEEEEEEeccc
Confidence 6889999983 21 23345777777622110 2456777765444211 123469999999999987
Q ss_pred EcCCCcEEEEEEEEEEEEEE
Q 028557 161 ESGDGQQQTYYKVVVQQLNF 180 (207)
Q Consensus 161 ~dkdG~~~~~~eIva~~I~~ 180 (207)
.+ +-....+.+.++.|.-
T Consensus 127 ~~--~~~~~~Y~m~a~~v~~ 144 (146)
T PF11736_consen 127 SS--DLGTSGYSMDADSVEP 144 (146)
T ss_pred cc--hheeEEEEEEeeEEEe
Confidence 54 4446677888887753
No 146
>PF12080 GldM_C: GldM C-terminal domain; InterPro: IPR022719 This domain is found in bacteria at the C terminus of the GldM protein. This domain is typically between 169 to 182 amino acids in length and has two completely conserved residues (Y and N) that may be functionally important. GldM, is named for the member from Bacteriodetes Flavobacterium johnsoniae, which is required for a type of rapid gliding motility found in certain members of the Bacteriodetes [].
Probab=24.73 E-value=1.9e+02 Score=23.94 Aligned_cols=43 Identities=19% Similarity=0.248 Sum_probs=28.1
Q ss_pred EEEEEEEEEecCCCCCeEEEEEEEchHHHHHHHhcCCCCEEEEEE
Q 028557 109 VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG 153 (207)
Q Consensus 109 ~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~~~LkKGd~V~VeG 153 (207)
.|..|.+.+-+. .+.-.+-.-|...+..+...+++||+|+|.-
T Consensus 132 ~V~~f~~~~~~~--~~~~~~G~~~s~~~~~~l~~~~~Gd~i~I~~ 174 (181)
T PF12080_consen 132 RVTSFEVVFPRQ--PPVKVNGNKFSARAKSALRKAKRGDRIYISD 174 (181)
T ss_pred EEEEEEEEecCC--cceecccccccHHHHHHHHhcCCCCEEEEEE
Confidence 466677766554 2222233345566777888899999999863
No 147
>COG4085 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]
Probab=24.71 E-value=3.7e+02 Score=23.10 Aligned_cols=61 Identities=16% Similarity=0.134 Sum_probs=39.2
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCCeEEEEEEEchHHHHHH-----HhcCCCCEEEEEEEeeee
Q 028557 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVAS-----QHVEKGQQIYISGRLVSD 158 (207)
Q Consensus 89 V~LiGrL~~dPeir~t~nG~~va~f~LAv~r~~~~t~wi~V~awgk~Ae~~~-----~~LkKGd~V~VeGrL~~~ 158 (207)
+++.|.+.+|-... |.-..+..+ + +.+-=+++++|+.-++.+. .-+.+|+.|.|.|+....
T Consensus 54 v~vkg~V~~~~n~~----~~gi~~l~l--n---dgtGti~vva~~~tee~l~~n~~~p~~~eGe~veVtGrv~~y 119 (204)
T COG4085 54 VTVKGEVTADQNAI----GGGIESLVL--N---DGTGTITVVASRSTEETLELNEGMPVTVEGEIVEVTGRVEEY 119 (204)
T ss_pred ceeeeEEEeeeccc----ccceEEEEE--E---CCCCcEEEEEecChhHhHhhcCCCCccccCcEEEEEEEEEEe
Confidence 67777777654321 111222222 2 3456688999999888876 246799999999987654
No 148
>cd06189 flavin_oxioreductase NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN, or riboflavin via NAD(P)H. Flavin is used as a substrate, rather than a tightly bound prosthetic group as in flavoenzymes; weaker binding is due to the absence of a binding site for the AMP moeity of FAD.
Probab=23.42 E-value=1.6e+02 Score=24.21 Aligned_cols=28 Identities=11% Similarity=0.167 Sum_probs=21.0
Q ss_pred chHHHHHHHhcCCCCEEEEEEEeeeeee
Q 028557 133 DELAHVASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 133 gk~Ae~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
|.....+.+.++.||.|.|.|-.-....
T Consensus 66 G~~s~~l~~~l~~G~~v~i~gP~G~~~~ 93 (224)
T cd06189 66 GSFSDYVFEELKENGLVRIEGPLGDFFL 93 (224)
T ss_pred CccHHHHHHhccCCCEEEEecCCccEEe
Confidence 4456677778999999999996554443
No 149
>PF13511 DUF4124: Domain of unknown function (DUF4124)
Probab=22.88 E-value=69 Score=21.09 Aligned_cols=16 Identities=6% Similarity=-0.242 Sum_probs=12.9
Q ss_pred eeeeeEcCCCcEEEEE
Q 028557 156 VSDVVESGDGQQQTYY 171 (207)
Q Consensus 156 ~~~~~~dkdG~~~~~~ 171 (207)
....|+|++|+.+|.-
T Consensus 14 ~vYk~~D~~G~v~ysd 29 (60)
T PF13511_consen 14 EVYKWVDENGVVHYSD 29 (60)
T ss_pred cEEEEECCCCCEEECc
Confidence 5678999999988754
No 150
>cd06211 phenol_2-monooxygenase_like Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H dependent conversion of phenol and O2 to catechol and H2O. This group is related to the NAD binding ferredoxin reductases.
Probab=22.78 E-value=1.9e+02 Score=24.08 Aligned_cols=28 Identities=18% Similarity=0.235 Sum_probs=20.2
Q ss_pred chHHHHHHHhcCCCCEEEEEEEeeeeee
Q 028557 133 DELAHVASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 133 gk~Ae~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
|.....+.+.++.||.|.|.|-.-.-..
T Consensus 77 G~~s~~l~~~l~~G~~v~i~gP~G~~~~ 104 (238)
T cd06211 77 GIATTYVHKQLKEGDELEISGPYGDFFV 104 (238)
T ss_pred CcchhhHhhcCCCCCEEEEECCccceEe
Confidence 5555666667999999999987654443
No 151
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=22.59 E-value=68 Score=25.99 Aligned_cols=24 Identities=17% Similarity=0.338 Sum_probs=20.3
Q ss_pred EEchHHHHHHHhcCCCCEEEEEEE
Q 028557 131 FWDELAHVASQHVEKGQQIYISGR 154 (207)
Q Consensus 131 awgk~Ae~~~~~LkKGd~V~VeGr 154 (207)
..|++|..++..|.-||.|.|.--
T Consensus 13 vlGRLAs~IA~~L~~Gd~VVViNa 36 (146)
T PRK06394 13 ILGRLASYVAKRLLEGEEVVIVNA 36 (146)
T ss_pred chHHHHHHHHHHHhCCCEEEEEec
Confidence 457899999999999999988653
No 152
>cd05828 Sortase_D_4 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-4. These sortases recognize a unique sorting signal (LPXTA) and they constitute a specialized sorting pathway found in bacilli. Their substrates are predicted to be predominantly enzymes such as 5'-nucleotidases, glycosyl hydrolase, and subtilase.
Probab=21.93 E-value=2.4e+02 Score=21.51 Aligned_cols=20 Identities=15% Similarity=0.027 Sum_probs=14.1
Q ss_pred HhcCCCCEEEEEEEeeeeee
Q 028557 141 QHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 141 ~~LkKGd~V~VeGrL~~~~~ 160 (207)
+.|++||.|+|.-.-....|
T Consensus 60 ~~l~~Gd~i~v~~~~~~~~Y 79 (127)
T cd05828 60 GELEPGDIITLQTLGGTYTY 79 (127)
T ss_pred hcCCCCCEEEEEECCEEEEE
Confidence 45899999999765444444
No 153
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=21.06 E-value=89 Score=24.72 Aligned_cols=24 Identities=13% Similarity=0.335 Sum_probs=20.5
Q ss_pred hHHHHHHHhcCCCCEEEEEEEeee
Q 028557 134 ELAHVASQHVEKGQQIYISGRLVS 157 (207)
Q Consensus 134 k~Ae~~~~~LkKGd~V~VeGrL~~ 157 (207)
++|+.+.+.|++|+.|.+.|.+-.
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGa 33 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGA 33 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCC
Confidence 468888889999999999998754
No 154
>cd06216 FNR_iron_sulfur_binding_2 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to for
Probab=21.01 E-value=1.6e+02 Score=24.55 Aligned_cols=34 Identities=12% Similarity=0.105 Sum_probs=24.3
Q ss_pred EEEEEE--chHHHHHHHhcCCCCEEEEEEEeeeeee
Q 028557 127 INLTFW--DELAHVASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 127 i~V~aw--gk~Ae~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
+.|..- |.....+.+.+++||.|.|.|-.-.-..
T Consensus 82 ~~ik~~~~G~~s~~l~~~~~~Gd~v~i~gP~G~f~l 117 (243)
T cd06216 82 LTVKAQPDGLVSNWLVNHLAPGDVVELSQPQGDFVL 117 (243)
T ss_pred EEEEEcCCCcchhHHHhcCCCCCEEEEECCceeeec
Confidence 444444 6667777777999999999987765333
No 155
>cd06213 oxygenase_e_transfer_subunit The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate while mono-oxygenases add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate.
Probab=20.06 E-value=1.4e+02 Score=24.61 Aligned_cols=28 Identities=7% Similarity=0.052 Sum_probs=20.5
Q ss_pred chHHHHHHHhcCCCCEEEEEEEeeeeee
Q 028557 133 DELAHVASQHVEKGQQIYISGRLVSDVV 160 (207)
Q Consensus 133 gk~Ae~~~~~LkKGd~V~VeGrL~~~~~ 160 (207)
|.....+.+.++.||.|.|.|-.-....
T Consensus 69 G~~s~~l~~~l~~G~~v~i~gP~G~~~~ 96 (227)
T cd06213 69 GAFSGWLFGADRTGERLTVRGPFGDFWL 96 (227)
T ss_pred CcchHHHHhcCCCCCEEEEeCCCcceEe
Confidence 5555667778999999999996654433
Done!