Query 025801
Match_columns 248
No_of_seqs 166 out of 1155
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 09:41:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025801.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025801hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK07459 single-stranded DNA-b 100.0 6.8E-29 1.5E-33 201.2 16.8 103 85-187 2-107 (121)
2 PRK06752 single-stranded DNA-b 100.0 6E-29 1.3E-33 198.3 15.4 103 85-187 1-109 (112)
3 PRK07275 single-stranded DNA-b 100.0 1.4E-28 3E-33 208.7 16.1 102 85-186 1-108 (162)
4 PRK07274 single-stranded DNA-b 100.0 1.7E-27 3.6E-32 195.2 15.8 102 85-187 1-108 (131)
5 PRK08486 single-stranded DNA-b 100.0 2.3E-27 4.9E-32 204.6 16.5 103 85-187 1-111 (182)
6 PRK06751 single-stranded DNA-b 100.0 1.7E-27 3.6E-32 203.9 14.9 103 85-187 1-109 (173)
7 PRK08763 single-stranded DNA-b 99.9 7E-27 1.5E-31 198.6 17.2 105 83-187 2-114 (164)
8 PRK06642 single-stranded DNA-b 99.9 1.6E-26 3.5E-31 194.1 16.6 105 83-187 2-120 (152)
9 PRK06293 single-stranded DNA-b 99.9 2.1E-26 4.6E-31 195.0 16.6 101 86-186 1-104 (161)
10 PRK06958 single-stranded DNA-b 99.9 3.8E-26 8.2E-31 196.8 17.2 104 84-187 2-114 (182)
11 PRK06863 single-stranded DNA-b 99.9 3.4E-26 7.4E-31 195.0 16.1 104 84-187 2-114 (168)
12 PRK08182 single-stranded DNA-b 99.9 4.5E-26 9.8E-31 190.6 15.4 102 85-186 1-115 (148)
13 PRK13732 single-stranded DNA-b 99.9 1.1E-25 2.3E-30 193.2 17.1 104 84-188 4-119 (175)
14 TIGR00621 ssb single stranded 99.9 1.2E-25 2.6E-30 190.6 17.1 103 83-185 1-111 (164)
15 PRK09010 single-stranded DNA-b 99.9 9.6E-26 2.1E-30 193.7 16.4 103 84-186 4-118 (177)
16 PRK05733 single-stranded DNA-b 99.9 2.9E-25 6.2E-30 190.0 16.9 104 83-187 2-117 (172)
17 PRK06341 single-stranded DNA-b 99.9 6.2E-25 1.3E-29 187.0 16.5 105 82-186 1-119 (166)
18 PF00436 SSB: Single-strand bi 99.9 6.8E-25 1.5E-29 169.4 14.5 96 86-181 1-104 (104)
19 PRK05813 single-stranded DNA-b 99.9 6.6E-24 1.4E-28 187.8 15.5 102 84-186 107-212 (219)
20 PRK02801 primosomal replicatio 99.9 1.8E-23 3.8E-28 164.6 14.1 94 85-182 1-101 (101)
21 PRK07772 single-stranded DNA-b 99.9 4.2E-23 9E-28 178.6 15.2 96 84-179 2-107 (186)
22 COG0629 Ssb Single-stranded DN 99.9 8.8E-23 1.9E-27 173.2 12.7 102 85-186 2-116 (167)
23 cd04496 SSB_OBF SSB_OBF: A sub 99.9 9.5E-21 2.1E-25 144.8 14.9 93 89-181 1-100 (100)
24 PRK05853 hypothetical protein; 99.9 2.3E-21 5E-26 164.4 12.5 89 91-180 1-98 (161)
25 PRK05813 single-stranded DNA-b 99.8 8.4E-19 1.8E-23 155.3 14.8 97 86-186 8-105 (219)
26 KOG1653 Single-stranded DNA-bi 99.7 1.2E-16 2.6E-21 134.6 8.0 102 82-183 51-166 (175)
27 COG2965 PriB Primosomal replic 98.7 2.7E-07 5.7E-12 72.5 11.2 96 83-182 1-103 (103)
28 PRK00036 primosomal replicatio 98.7 1.6E-07 3.4E-12 75.1 9.7 90 86-182 1-97 (107)
29 PF01336 tRNA_anti-codon: OB-f 97.6 0.00055 1.2E-08 48.9 8.6 75 89-181 1-75 (75)
30 cd04489 ExoVII_LU_OBF ExoVII_L 96.9 0.013 2.8E-07 42.6 9.3 74 89-179 2-75 (78)
31 cd04487 RecJ_OBF2_like RecJ_OB 96.5 0.017 3.7E-07 42.8 7.8 73 89-181 1-73 (73)
32 cd04484 polC_OBF polC_OBF: A s 96.4 0.022 4.8E-07 43.0 7.7 66 89-161 2-69 (82)
33 cd04474 RPA1_DBD_A RPA1_DBD_A: 96.3 0.023 4.9E-07 44.6 7.6 69 85-157 8-80 (104)
34 cd03524 RPA2_OBF_family RPA2_O 96.2 0.087 1.9E-06 36.1 9.6 46 107-157 15-61 (75)
35 cd04485 DnaE_OBF DnaE_OBF: A s 96.2 0.058 1.3E-06 38.5 8.8 76 91-181 2-77 (84)
36 cd04492 YhaM_OBF_like YhaM_OBF 96.1 0.067 1.5E-06 38.6 8.7 72 96-182 6-77 (83)
37 cd04482 RPA2_OBF_like RPA2_OBF 95.4 0.1 2.2E-06 40.1 7.8 72 90-182 2-75 (91)
38 cd04490 PolII_SU_OBF PolII_SU_ 94.9 0.75 1.6E-05 34.4 11.0 72 89-181 2-75 (79)
39 PF13742 tRNA_anti_2: OB-fold 94.9 0.45 9.8E-06 37.0 10.2 77 86-179 21-98 (99)
40 PRK07211 replication factor A; 94.6 0.22 4.8E-06 49.4 9.5 67 85-156 62-133 (485)
41 PF11506 DUF3217: Protein of u 94.6 1.5 3.3E-05 34.0 12.0 83 85-175 1-87 (104)
42 PF11325 DUF3127: Domain of un 94.2 0.46 1E-05 36.5 8.5 80 91-178 2-83 (84)
43 cd04320 AspRS_cyto_N AspRS_cyt 92.7 3 6.5E-05 32.0 11.1 86 88-184 1-92 (102)
44 TIGR00237 xseA exodeoxyribonuc 92.6 0.49 1.1E-05 46.1 8.0 78 86-180 17-94 (432)
45 PRK13480 3'-5' exoribonuclease 92.4 0.66 1.4E-05 43.6 8.2 74 95-183 19-92 (314)
46 PRK00286 xseA exodeoxyribonucl 92.0 0.77 1.7E-05 44.4 8.5 79 86-181 23-101 (438)
47 cd04475 RPA1_DBD_B RPA1_DBD_B: 91.9 1.8 4E-05 33.0 8.9 67 89-160 2-71 (101)
48 PRK07373 DNA polymerase III su 91.8 1.6 3.4E-05 43.0 10.5 81 87-182 281-361 (449)
49 PRK06461 single-stranded DNA-b 91.8 0.85 1.9E-05 37.2 7.3 62 86-156 14-79 (129)
50 cd04491 SoSSB_OBF SoSSB_OBF: A 91.0 1.1 2.3E-05 33.1 6.6 59 91-157 2-64 (82)
51 cd04100 Asp_Lys_Asn_RS_N Asp_L 90.1 3.5 7.5E-05 30.5 8.8 81 88-182 1-84 (85)
52 cd04317 EcAspRS_like_N EcAspRS 90.1 4.5 9.9E-05 32.6 10.1 87 87-184 15-104 (135)
53 PRK05673 dnaE DNA polymerase I 89.7 2.1 4.6E-05 46.7 10.0 81 87-182 978-1058(1135)
54 PRK07211 replication factor A; 89.4 1.1 2.4E-05 44.6 7.0 68 85-156 170-240 (485)
55 PRK15491 replication factor A; 89.3 1.5 3.2E-05 42.2 7.6 71 86-160 176-249 (374)
56 COG3390 Uncharacterized protei 89.1 1.8 4E-05 38.0 7.4 88 84-181 43-130 (196)
57 cd04323 AsnRS_cyto_like_N AsnR 88.7 5.2 0.00011 29.6 8.8 81 88-182 1-83 (84)
58 PRK15491 replication factor A; 87.9 1.8 3.9E-05 41.5 7.2 65 85-154 66-135 (374)
59 PRK08402 replication factor A; 87.3 2.2 4.7E-05 40.9 7.3 63 86-153 72-138 (355)
60 cd04488 RecG_wedge_OBF RecG_we 87.2 2.9 6.3E-05 29.0 6.3 59 91-157 2-60 (75)
61 cd04316 ND_PkAspRS_like_N ND_P 86.5 13 0.00029 28.8 11.2 81 87-184 13-97 (108)
62 PRK12366 replication factor A; 85.9 4 8.6E-05 41.9 8.8 84 87-179 292-378 (637)
63 PRK14699 replication factor A; 85.9 2 4.4E-05 42.7 6.5 65 85-154 66-135 (484)
64 PRK06826 dnaE DNA polymerase I 85.0 7.4 0.00016 42.7 10.7 82 87-182 992-1073(1151)
65 PRK07374 dnaE DNA polymerase I 85.0 7.7 0.00017 42.7 10.8 80 87-181 1001-1080(1170)
66 PRK06920 dnaE DNA polymerase I 84.9 6.2 0.00013 43.1 10.0 80 88-182 945-1024(1107)
67 COG1570 XseA Exonuclease VII, 84.8 4.4 9.5E-05 39.9 8.1 77 86-179 23-99 (440)
68 cd04322 LysRS_N LysRS_N: N-ter 84.2 17 0.00037 28.1 10.9 77 89-184 2-83 (108)
69 TIGR01405 polC_Gram_pos DNA po 83.9 9.2 0.0002 42.2 10.9 71 85-161 6-78 (1213)
70 cd04319 PhAsnRS_like_N PhAsnRS 83.4 18 0.0004 27.7 10.2 80 88-184 1-83 (103)
71 PRK00448 polC DNA polymerase I 83.1 7.3 0.00016 43.7 9.9 71 85-161 235-307 (1437)
72 PRK12366 replication factor A; 82.3 4.1 8.8E-05 41.8 7.1 64 85-154 72-139 (637)
73 cd04497 hPOT1_OB1_like hPOT1_O 81.7 6.4 0.00014 32.2 6.9 74 85-161 13-86 (138)
74 TIGR00617 rpa1 replication fac 79.2 6.1 0.00013 40.3 7.1 67 86-157 190-260 (608)
75 cd04321 ScAspRS_mt_like_N ScAs 78.9 24 0.00052 26.2 9.4 84 88-182 1-85 (86)
76 PRK07279 dnaE DNA polymerase I 78.6 17 0.00038 39.5 10.5 81 87-182 885-966 (1034)
77 TIGR00458 aspS_arch aspartyl-t 75.3 40 0.00086 32.9 11.3 81 87-184 13-97 (428)
78 PF02765 POT1: Telomeric singl 75.1 9.9 0.00022 31.3 6.2 75 84-161 10-91 (146)
79 PLN02903 aminoacyl-tRNA ligase 75.0 28 0.00062 36.0 10.5 87 87-184 73-163 (652)
80 cd04481 RPA1_DBD_B_like RPA1_D 74.5 37 0.00081 26.1 9.4 39 124-162 34-76 (106)
81 KOG3416 Predicted nucleic acid 73.7 9.5 0.00021 31.7 5.5 76 86-170 14-95 (134)
82 cd04478 RPA2_DBD_D RPA2_DBD_D: 73.1 27 0.00058 26.0 7.7 74 89-182 2-78 (95)
83 PLN02850 aspartate-tRNA ligase 73.0 41 0.0009 33.9 11.0 85 87-184 82-172 (530)
84 PRK05672 dnaE2 error-prone DNA 72.3 26 0.00056 38.2 9.9 79 88-183 955-1033(1046)
85 PF12101 DUF3577: Protein of u 72.1 58 0.0013 27.3 12.1 92 89-181 14-119 (137)
86 PRK14699 replication factor A; 71.8 8.9 0.00019 38.2 5.9 85 86-183 176-265 (484)
87 PRK05159 aspC aspartyl-tRNA sy 69.6 55 0.0012 31.9 10.8 82 87-185 17-101 (437)
88 TIGR00457 asnS asparaginyl-tRN 67.1 81 0.0018 31.0 11.5 84 87-185 17-103 (453)
89 PTZ00401 aspartyl-tRNA synthet 66.8 64 0.0014 32.8 10.9 87 87-185 79-170 (550)
90 TIGR00459 aspS_bact aspartyl-t 66.3 66 0.0014 32.9 10.9 87 87-184 16-104 (583)
91 cd04318 EcAsnRS_like_N EcAsnRS 65.7 49 0.0011 24.0 8.2 77 89-182 2-81 (82)
92 PTZ00385 lysyl-tRNA synthetase 65.1 77 0.0017 33.0 11.2 77 88-183 109-191 (659)
93 PRK00476 aspS aspartyl-tRNA sy 64.7 71 0.0015 32.6 10.8 88 87-185 18-107 (588)
94 PF13567 DUF4131: Domain of un 63.0 30 0.00064 27.2 6.4 64 86-158 75-144 (176)
95 COG0017 AsnS Aspartyl/asparagi 62.0 71 0.0015 31.6 9.8 81 87-184 17-100 (435)
96 PF10451 Stn1: Telomere regula 60.5 39 0.00084 31.0 7.4 90 76-182 56-148 (256)
97 PRK00484 lysS lysyl-tRNA synth 60.2 1.2E+02 0.0027 30.1 11.4 79 87-184 55-137 (491)
98 COG2176 PolC DNA polymerase II 60.2 26 0.00057 38.8 7.0 72 84-161 237-310 (1444)
99 PTZ00417 lysine-tRNA ligase; P 58.6 1E+02 0.0022 31.6 10.7 79 88-184 134-219 (585)
100 COG4097 Predicted ferric reduc 57.1 15 0.00032 35.9 4.2 37 125-161 276-312 (438)
101 TIGR00499 lysS_bact lysyl-tRNA 56.8 1.4E+02 0.003 29.8 11.1 79 87-184 54-137 (496)
102 PF12869 tRNA_anti-like: tRNA_ 56.1 38 0.00082 27.1 5.9 65 87-159 68-133 (144)
103 COG1200 RecG RecG-like helicas 54.9 50 0.0011 34.4 7.7 63 87-157 61-123 (677)
104 PRK12820 bifunctional aspartyl 54.8 1.2E+02 0.0027 31.8 10.7 88 87-185 19-111 (706)
105 COG0587 DnaE DNA polymerase II 54.6 60 0.0013 35.9 8.7 66 88-158 978-1043(1139)
106 PLN02502 lysyl-tRNA synthetase 54.4 1.4E+02 0.003 30.4 10.7 79 87-184 109-194 (553)
107 cd04483 hOBFC1_like hOBFC1_lik 53.7 69 0.0015 24.5 6.7 45 109-158 14-78 (92)
108 PRK03932 asnC asparaginyl-tRNA 51.7 1.3E+02 0.0028 29.6 9.8 80 87-183 17-99 (450)
109 TIGR00643 recG ATP-dependent D 50.5 96 0.0021 31.6 9.1 63 87-157 33-95 (630)
110 PRK12445 lysyl-tRNA synthetase 49.3 2.5E+02 0.0055 28.1 11.6 79 87-184 66-149 (505)
111 PRK10917 ATP-dependent DNA hel 48.6 58 0.0013 33.6 7.2 64 86-157 59-122 (681)
112 COG1107 Archaea-specific RecJ- 48.4 25 0.00054 36.2 4.4 78 85-182 212-289 (715)
113 PF00970 FAD_binding_6: Oxidor 48.4 57 0.0012 24.1 5.5 47 112-159 50-98 (99)
114 PF10574 UPF0552: Uncharacteri 47.8 39 0.00085 30.5 5.1 44 143-186 29-75 (224)
115 KOG3056 Protein required for S 46.2 68 0.0015 32.8 6.9 69 91-166 190-258 (578)
116 PLN02221 asparaginyl-tRNA synt 45.6 1.8E+02 0.0039 29.8 10.0 87 87-185 51-138 (572)
117 PRK07218 replication factor A; 45.3 68 0.0015 31.6 6.8 57 86-154 68-127 (423)
118 KOG1885 Lysyl-tRNA synthetase 42.4 97 0.0021 31.3 7.3 79 87-183 105-189 (560)
119 PRK07218 replication factor A; 41.5 87 0.0019 30.8 6.8 59 86-155 172-233 (423)
120 PLN02603 asparaginyl-tRNA synt 41.1 4.1E+02 0.0089 27.2 11.8 87 84-185 105-194 (565)
121 PRK02983 lysS lysyl-tRNA synth 38.9 3.3E+02 0.0071 30.2 11.3 79 87-184 652-735 (1094)
122 cd04498 hPOT1_OB2 hPOT1_OB2: A 38.5 44 0.00096 27.4 3.7 27 125-152 60-86 (123)
123 TIGR00617 rpa1 replication fac 36.6 1.3E+02 0.0028 30.8 7.5 67 88-160 312-382 (608)
124 smart00350 MCM minichromosome 34.9 79 0.0017 31.4 5.5 57 124-184 103-163 (509)
125 COG1571 Predicted DNA-binding 34.5 2.3E+02 0.0051 28.0 8.5 67 84-159 264-332 (421)
126 COG1190 LysU Lysyl-tRNA synthe 34.2 3E+02 0.0064 27.9 9.3 81 89-184 64-145 (502)
127 PRK07135 dnaE DNA polymerase I 34.0 1.8E+02 0.0038 31.8 8.2 63 88-158 899-961 (973)
128 KOG3873 Sphingomyelinase famil 33.4 22 0.00049 34.5 1.4 115 40-158 38-182 (422)
129 PRK06386 replication factor A; 29.2 1.8E+02 0.004 28.0 6.8 79 85-183 116-196 (358)
130 COG3689 Predicted membrane pro 27.7 2.4E+02 0.0052 26.3 6.9 88 86-184 175-262 (271)
131 PF02367 UPF0079: Uncharacteri 26.9 43 0.00093 27.2 1.8 24 134-157 3-26 (123)
132 PF08021 FAD_binding_9: Sidero 26.1 1.6E+02 0.0035 23.3 5.0 42 112-153 69-112 (117)
133 cd06198 FNR_like_3 NAD(P) bind 24.9 1.5E+02 0.0033 25.0 5.0 32 129-160 60-91 (216)
134 PRK10646 ADP-binding protein; 24.7 63 0.0014 27.3 2.5 24 134-157 16-39 (153)
135 COG1018 Hmp Flavodoxin reducta 24.6 1.1E+02 0.0025 27.8 4.3 50 113-162 56-107 (266)
136 PLN02532 asparagine-tRNA synth 23.9 1.6E+02 0.0035 30.6 5.6 54 126-184 148-201 (633)
137 PF09104 BRCA-2_OB3: BRCA2, ol 23.5 2.3E+02 0.005 23.9 5.6 84 85-184 17-102 (143)
138 COG0802 Predicted ATPase or ki 23.0 76 0.0016 26.9 2.6 24 134-157 13-36 (149)
139 PF12080 GldM_C: GldM C-termin 21.5 2.2E+02 0.0047 24.5 5.2 42 109-152 132-173 (181)
140 PF11948 DUF3465: Protein of u 21.3 1.3E+02 0.0029 25.0 3.7 68 88-166 38-106 (131)
141 TIGR01077 L13_A_E ribosomal pr 21.1 79 0.0017 26.5 2.4 23 131-153 9-31 (142)
142 PTZ00111 DNA replication licen 20.0 2.8E+02 0.006 30.2 6.6 56 125-184 346-405 (915)
No 1
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=6.8e-29 Score=201.17 Aligned_cols=103 Identities=30% Similarity=0.473 Sum_probs=97.3
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeec
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVES 162 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~--~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~d 162 (248)
+||+|+|+|||++|||++++++|+++++|+||+++.+ ++++||+|++||++|+.+.+||+||++|+|+|+|+++.|+|
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 025801 163 GD-GQQQTYYKVVVQQLNFVERSSPS 187 (248)
Q Consensus 163 kd-G~~r~~~eIva~~I~~L~~k~~~ 187 (248)
+| |++++.++|+|++|.||++++..
T Consensus 82 ~d~G~~r~~~ei~a~~i~~L~~k~~~ 107 (121)
T PRK07459 82 RNTGEDRSKPVIRVDRLELLGSKRDS 107 (121)
T ss_pred CCCCeEEEEEEEEEeEEEECcCCCcc
Confidence 97 99999999999999999866543
No 2
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.96 E-value=6e-29 Score=198.30 Aligned_cols=103 Identities=26% Similarity=0.383 Sum_probs=97.5
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCC------CceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT------QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~------~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~ 158 (248)
|||+|+|+|||++|||++++++|.++++|+||+++.++ +++||+|++||++|+.+.++|+||++|.|+|+|+++
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 025801 159 VVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (248)
Q Consensus 159 ~y~dkdG~~r~~~eIva~~I~~L~~k~~~ 187 (248)
.|+|+||++++.++|+|++|.||+++...
T Consensus 81 ~~~~~~G~~~~~~ei~a~~i~~l~~~~~~ 109 (112)
T PRK06752 81 NYEDDQGKRIYITEVVIESITFLERRREG 109 (112)
T ss_pred ccCCCCCcEEEEEEEEEEEEEECCCCCcc
Confidence 99999999999999999999999877643
No 3
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=1.4e-28 Score=208.68 Aligned_cols=102 Identities=25% Similarity=0.395 Sum_probs=97.5
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCC------CceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT------QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~------~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~ 158 (248)
|||+|+|+|||++|||+|++++|.+++.|+||+++.++ +++||+|++||++||.+.++|+||++|.|+|+|+++
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 79999999999999999999999999999999998652 689999999999999999999999999999999999
Q ss_pred eeecCCCcEEEEEEEEEEEEEEeeCCCC
Q 025801 159 VVESGDGQQQTYYKVVVQQLNFVERSSP 186 (248)
Q Consensus 159 ~y~dkdG~~r~~~eIva~~I~~L~~k~~ 186 (248)
.|+|++|++++.++|+|++|.||+++..
T Consensus 81 ~y~dkdG~k~~~~evva~~i~~l~~~~~ 108 (162)
T PRK07275 81 NYENQQGQRVYVTEVVADNFQMLESRAT 108 (162)
T ss_pred eEECCCCCEEEEEEEEEeEEEECCCCCc
Confidence 9999999999999999999999987763
No 4
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=1.7e-27 Score=195.22 Aligned_cols=102 Identities=27% Similarity=0.405 Sum_probs=96.1
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCC------CceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT------QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~------~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~ 158 (248)
|||+|+|+|||++||+++++++|.++++|+||++++++ +++||+|++||++|+.+.++|+||++|+|+|+|+++
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 025801 159 VVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (248)
Q Consensus 159 ~y~dkdG~~r~~~eIva~~I~~L~~k~~~ 187 (248)
+| |+||++++.++|+|++|.||+.+...
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 89999999999999999999866543
No 5
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=2.3e-27 Score=204.59 Aligned_cols=103 Identities=24% Similarity=0.445 Sum_probs=97.5
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLV 156 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~--------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~ 156 (248)
|||+|+|+|||++|||+|++++|.+++.|+||+++.+ ++++||+|++||++||.+.+||+||++|+|+|+|+
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 025801 157 SDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (248)
Q Consensus 157 ~~~y~dkdG~~r~~~eIva~~I~~L~~k~~~ 187 (248)
.+.|+|+||++++.++|+|++|.||+++...
T Consensus 81 ~~~y~dkdG~~r~~~eI~a~~v~~L~~~~~~ 111 (182)
T PRK08486 81 FESWMDQNGQKRSKHTITAESMQMLDSKSDN 111 (182)
T ss_pred eCcEECCCCcEEEEEEEEEeEEEECCCCCCC
Confidence 9999999999999999999999999876543
No 6
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=1.7e-27 Score=203.93 Aligned_cols=103 Identities=24% Similarity=0.397 Sum_probs=97.5
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~ 158 (248)
|||+|+|+|||++||++|++++|.+++.|+||+++.+ .+++||+|++||++|+.+.++|+||++|.|+|+|+.+
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 7999999999999999999999999999999999865 2689999999999999999999999999999999999
Q ss_pred eeecCCCcEEEEEEEEEEEEEEeeCCCCC
Q 025801 159 VVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (248)
Q Consensus 159 ~y~dkdG~~r~~~eIva~~I~~L~~k~~~ 187 (248)
.|+|++|++++.++|+|++|.||+.++..
T Consensus 81 ~yedkdG~~~~~~eVva~~i~~l~~r~~~ 109 (173)
T PRK06751 81 NYEGQDGKRVYVTEVLAESVQFLEPRNGG 109 (173)
T ss_pred ccCCCCCcEEEEEEEEEEEEEeCcCCCCC
Confidence 99999999999999999999999876544
No 7
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=7e-27 Score=198.58 Aligned_cols=105 Identities=25% Similarity=0.426 Sum_probs=97.8
Q ss_pred CCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEE
Q 025801 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (248)
Q Consensus 83 ~~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~--------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGr 154 (248)
...||+|+|+|||++|||++++++|..+++|+||+++.+ +.++||+|++||++|+.+.+||+||++|+|+|+
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 346999999999999999999999999999999998654 258899999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEEEEEEeeCCCCC
Q 025801 155 LVSDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (248)
Q Consensus 155 L~~~~y~dkdG~~r~~~eIva~~I~~L~~k~~~ 187 (248)
|++++|+|+||++++.++|+|++|.||+++...
T Consensus 82 L~~~~y~dkdG~kr~~~eIva~~i~~L~~~~~~ 114 (164)
T PRK08763 82 IRYDKFTGQDGQERYVTEIVADEMQMLGGRGEG 114 (164)
T ss_pred EEeceeECCCCCEEEEEEEEEeEEEECCCCCCC
Confidence 999999999999999999999999999877543
No 8
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=1.6e-26 Score=194.05 Aligned_cols=105 Identities=28% Similarity=0.419 Sum_probs=96.4
Q ss_pred CCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEeHH-HHHHHHHhcCcCCEEEEE
Q 025801 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDE-LAHVASQHVEKGQQIYIS 152 (248)
Q Consensus 83 ~~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~---------~~t~wi~V~awGk-lAe~~~~~LkKGd~V~Ve 152 (248)
...||+|+|+|||++||+++++++|+++++|+||+++.+ ++|+||+|++||+ +|+.+.+||+||++|+|+
T Consensus 2 a~~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~ 81 (152)
T PRK06642 2 AGSLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIE 81 (152)
T ss_pred CCcceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEE
Confidence 345899999999999999999999999999999999753 2589999999996 999999999999999999
Q ss_pred EEeeeeeeecCCCcEEEEEEEEEEEE----EEeeCCCCC
Q 025801 153 GRLVSDVVESGDGQQQTYYKVVVQQL----NFVERSSPS 187 (248)
Q Consensus 153 GrL~~~~y~dkdG~~r~~~eIva~~I----~~L~~k~~~ 187 (248)
|+|++++|+|++|++++.++|+|++| .||+++...
T Consensus 82 GrL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k~~~ 120 (152)
T PRK06642 82 GSLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSN 120 (152)
T ss_pred EEEEeCeeECCCCCEEEEEEEEEEecccceEeccCCCCc
Confidence 99999999999999999999999987 799866543
No 9
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=2.1e-26 Score=194.99 Aligned_cols=101 Identities=20% Similarity=0.336 Sum_probs=95.9
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeec
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVES 162 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~---~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~d 162 (248)
||.|+|+|||++||++|++++|+++++|+||+++++ ++++||+|++||++|+.+.++|+||++|+|+|+|+.+.|+|
T Consensus 1 MN~V~LiGrLg~DPElR~t~sG~~v~~FsLAvn~~~~~~~~T~wi~v~awg~~Ae~v~~yL~KG~~V~VeGrL~~~~y~d 80 (161)
T PRK06293 1 MMFGYIVGRLGADPEERMTSKGKRVVVLRLGVKSRVGSKDETVWCRCNIWGNRYDKMLPYLKKGSGVIVAGEMSPESYVD 80 (161)
T ss_pred CeEEEEEEEecCCCeEEEcCCCCEEEEEEEEEeCCCCCccceEEEEEEEEhHHHHHHHHhCCCCCEEEEEEEEEeCccCC
Confidence 899999999999999999999999999999999754 47999999999999999999999999999999999999999
Q ss_pred CCCcEEEEEEEEEEEEEEeeCCCC
Q 025801 163 GDGQQQTYYKVVVQQLNFVERSSP 186 (248)
Q Consensus 163 kdG~~r~~~eIva~~I~~L~~k~~ 186 (248)
+||++++.++|+|++|.||..++.
T Consensus 81 kdG~kr~~~eIva~~I~fl~~~~~ 104 (161)
T PRK06293 81 KDGSPQSSLVVSVDTIKFSPFGRN 104 (161)
T ss_pred CCCCEEEEEEEEEeEEEECcCCCc
Confidence 999999999999999999976553
No 10
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=3.8e-26 Score=196.81 Aligned_cols=104 Identities=30% Similarity=0.510 Sum_probs=97.0
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEE
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~---------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGr 154 (248)
.+||+|+|+|||++||+++++++|+.+++|+||+++.+ +.++||+|++|+++|+.+.++|+||++|+|+|+
T Consensus 2 as~N~V~LiGrLg~DPElr~t~nG~~va~fsVAv~~~~kdk~sGe~~e~T~w~~V~~fGk~AE~v~~~LkKGs~V~VeGr 81 (182)
T PRK06958 2 ASVNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYIEGR 81 (182)
T ss_pred CcccEEEEEEEecCCCeEEEcCCCCEEEEEEEEeccccccccCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEEE
Confidence 35899999999999999999999999999999998754 258999999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEEEEEEeeCCCCC
Q 025801 155 LVSDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (248)
Q Consensus 155 L~~~~y~dkdG~~r~~~eIva~~I~~L~~k~~~ 187 (248)
|+.+.|+|+||++++.++|+|++|.||.++...
T Consensus 82 L~~~~yeDkdG~kr~~~eVvA~~V~fL~sr~~~ 114 (182)
T PRK06958 82 IRTRKWQGQDGQDRYSTEIVADQMQMLGGRGGS 114 (182)
T ss_pred EEeCceECCCCcEEEEEEEEEeEEEECCCCccC
Confidence 999999999999999999999999999876543
No 11
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=3.4e-26 Score=195.03 Aligned_cols=104 Identities=25% Similarity=0.428 Sum_probs=97.3
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEE
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~---------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGr 154 (248)
..||+|+|+|||++|||+|++++|+.+++|+||+++.+ +.++||+|++||++|+.+.++|+||++|+|+|+
T Consensus 2 ~~~N~V~LiGrLg~DPElR~t~nG~~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~AE~v~~~LkKGs~V~VeGr 81 (168)
T PRK06863 2 AGINKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEGR 81 (168)
T ss_pred CCccEEEEEEEcCCCCEEEEcCCCCEEEEEEEEecCcccccCCCcccccceEEEEEEEhHHHHHHHHHCCCCCEEEEEEE
Confidence 45899999999999999999999999999999999753 248899999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEEEEEEeeCCCCC
Q 025801 155 LVSDVVESGDGQQQTYYKVVVQQLNFVERSSPS 187 (248)
Q Consensus 155 L~~~~y~dkdG~~r~~~eIva~~I~~L~~k~~~ 187 (248)
|+.+.|+|+||++++.++|+|++|.||+++...
T Consensus 82 L~~r~w~DkdG~~r~~~eI~a~~i~~L~~r~~~ 114 (168)
T PRK06863 82 LKTRKWQDQNGQDRYTTEIQGDVLQMLGGRNQR 114 (168)
T ss_pred EEeCCccCCCCCEEEEEEEEEeEEEECCCCCcc
Confidence 999999999999999999999999999877654
No 12
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=4.5e-26 Score=190.61 Aligned_cols=102 Identities=16% Similarity=0.321 Sum_probs=94.9
Q ss_pred CccEEEEEEEECCCceEEEcCCCcE----EEEEEEEEecCC---------CCceEEEEEEeHHHHHHHHHhcCcCCEEEE
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKV----LAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYI 151 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~----va~fsLAv~r~~---------~~t~wi~V~awGklAe~~~~~LkKGd~V~V 151 (248)
|||+|+|+|||++||+++++++|.. +++|+||+++.+ .+++||+|++||++|+.+.+||+||++|+|
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 999999998654 147899999999999999999999999999
Q ss_pred EEEeeeeeeecCCCcEEEEEEEEEEEEEEeeCCCC
Q 025801 152 SGRLVSDVVESGDGQQQTYYKVVVQQLNFVERSSP 186 (248)
Q Consensus 152 eGrL~~~~y~dkdG~~r~~~eIva~~I~~L~~k~~ 186 (248)
+|+|+++.|+|+||++++.++|+|++|.||..+..
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 99999999999999999999999999999975544
No 13
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=1.1e-25 Score=193.16 Aligned_cols=104 Identities=28% Similarity=0.475 Sum_probs=96.7
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEE
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~---------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGr 154 (248)
+.||+|+|+|||++|||+|++++|..+++|+||+++.+ ++++||+|++||++|+.+.+||+||+.|+|+|+
T Consensus 4 r~mN~V~LiGrLg~DPElR~t~nG~~va~fslAvn~~~kd~~~Ge~~e~t~w~~Vv~wgk~Ae~v~~~L~KG~~V~VeGr 83 (175)
T PRK13732 4 RGINKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAEVAGEYLRKGAQVYIEGQ 83 (175)
T ss_pred cCceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEcCccccCCCCceecceeEEEEEEecHHHHHHHHhcCCCCEEEEEEE
Confidence 36899999999999999999999999999999999754 258899999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEE---EEEEeeCCCCCC
Q 025801 155 LVSDVVESGDGQQQTYYKVVVQ---QLNFVERSSPSM 188 (248)
Q Consensus 155 L~~~~y~dkdG~~r~~~eIva~---~I~~L~~k~~~~ 188 (248)
|++++|++ +|++++.++|+|+ +|.||+++...+
T Consensus 84 L~~r~ye~-dG~kr~~~eIiv~~~g~~~fL~~~~~~~ 119 (175)
T PRK13732 84 LRTRSWED-NGITRYVTEILVKTTGTMQMLGRAPQQN 119 (175)
T ss_pred EEeeeEcc-CCeEEEEEEEEEeecCeEEEecCCCCCC
Confidence 99999986 7999999999999 999998877654
No 14
>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=99.94 E-value=1.2e-25 Score=190.58 Aligned_cols=103 Identities=26% Similarity=0.467 Sum_probs=96.9
Q ss_pred CCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEE
Q 025801 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (248)
Q Consensus 83 ~~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~--------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGr 154 (248)
|.|||+|+|+|+|++||++|++++|+++++|+||+++++ +.++||+|++||++|+.+.++|+||++|+|+|+
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 468999999999999999999999999999999998764 257899999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEEEEEEeeCCC
Q 025801 155 LVSDVVESGDGQQQTYYKVVVQQLNFVERSS 185 (248)
Q Consensus 155 L~~~~y~dkdG~~r~~~eIva~~I~~L~~k~ 185 (248)
|+++.|+|++|++++.++|+|++|.+|+.+.
T Consensus 81 L~~~~~~~kdG~~~~~~ev~a~~i~~L~~~~ 111 (164)
T TIGR00621 81 LRTRKWEDQNGQKRSKTEIIADNVQLLDLLG 111 (164)
T ss_pred EEeceEECCCCcEEEEEEEEEEEEeeccccC
Confidence 9999999999999999999999999998664
No 15
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=9.6e-26 Score=193.73 Aligned_cols=103 Identities=30% Similarity=0.460 Sum_probs=96.6
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEE
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~---------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGr 154 (248)
+.||+|+|+|||++|||+|++++|..+++|+||+++.+ ++++||+|++||++|+.+.++|+||++|+|+|+
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 57999999999999999999999999999999999754 258999999999999999999999999999999
Q ss_pred eeeeeeecCCCcEEEEEEEEEE---EEEEeeCCCC
Q 025801 155 LVSDVVESGDGQQQTYYKVVVQ---QLNFVERSSP 186 (248)
Q Consensus 155 L~~~~y~dkdG~~r~~~eIva~---~I~~L~~k~~ 186 (248)
|+++.|+|++|++++.++|+|+ ++.||+++..
T Consensus 84 L~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r~~ 118 (177)
T PRK09010 84 LRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQG 118 (177)
T ss_pred EEeccccCCCCCEEEEEEEEEecCCcEEEccCCCC
Confidence 9999999999999999999998 8999986643
No 16
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=2.9e-25 Score=190.02 Aligned_cols=104 Identities=26% Similarity=0.467 Sum_probs=96.1
Q ss_pred CCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEE
Q 025801 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDELAHVASQHVEKGQQIYISG 153 (248)
Q Consensus 83 ~~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~---------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeG 153 (248)
...||+|+|+|||++||+++++++|..+++|+||+++.+ +.++||+|++||++|+.+.+||+||++|+|+|
T Consensus 2 a~~mNkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae~v~~~l~KGs~V~VeG 81 (172)
T PRK05733 2 ARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIEG 81 (172)
T ss_pred CCcceEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEE
Confidence 456999999999999999999999999999999998754 25899999999999999999999999999999
Q ss_pred EeeeeeeecCCCcEEEEEEEEEE---EEEEeeCCCCC
Q 025801 154 RLVSDVVESGDGQQQTYYKVVVQ---QLNFVERSSPS 187 (248)
Q Consensus 154 rL~~~~y~dkdG~~r~~~eIva~---~I~~L~~k~~~ 187 (248)
+|+++.|+ ++|++++.++|+|+ +|.||+.+...
T Consensus 82 rLr~~~y~-kdG~~r~~~eVvvd~~g~v~~L~~~~~~ 117 (172)
T PRK05733 82 KLQTREWE-KDGIKRYTTEIVVDMQGTMQLLGGRPQG 117 (172)
T ss_pred EEEeCcEe-cCCEEEEEEEEEEeecCeEEECcCCCCC
Confidence 99999999 89999999999999 89999865543
No 17
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=6.2e-25 Score=186.98 Aligned_cols=105 Identities=27% Similarity=0.436 Sum_probs=95.8
Q ss_pred CCCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC---------CCceEEEEEEeHH-HHHHHHHhcCcCCEEEE
Q 025801 82 DKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA---------TQTSWINLTFWDE-LAHVASQHVEKGQQIYI 151 (248)
Q Consensus 82 ~~~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~---------~~t~wi~V~awGk-lAe~~~~~LkKGd~V~V 151 (248)
|..+||+|+|+|||++|||+|++++|+++++|+||+++++ ++++||+|++|++ +|+.+.++|+||++|+|
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 025801 152 SGRLVSDVVESGDGQQQTYYKVVVQQL----NFVERSSP 186 (248)
Q Consensus 152 eGrL~~~~y~dkdG~~r~~~eIva~~I----~~L~~k~~ 186 (248)
+|+|++++|+|++|++++.++|+|++| .||+.+..
T Consensus 81 eGrL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~~~ 119 (166)
T PRK06341 81 EGQLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRGE 119 (166)
T ss_pred EEEEEeCcEECCCCCEEEEEEEEEEecccceEEcccCCc
Confidence 999999999999999999999999875 89986654
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=99.93 E-value=6.8e-25 Score=169.40 Aligned_cols=96 Identities=31% Similarity=0.583 Sum_probs=88.3
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC--------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeee
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~--------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
||+|+|+|+|++||+++++++|++++.|+|++++++ ..++||+|++||++|+.++++|+|||.|.|+|+|+.
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 899999999999999999999999999999999932 468999999999999999999999999999999999
Q ss_pred eeeecCCCcEEEEEEEEEEEEEEe
Q 025801 158 DVVESGDGQQQTYYKVVVQQLNFV 181 (248)
Q Consensus 158 ~~y~dkdG~~r~~~eIva~~I~~L 181 (248)
+.|+|++|++++.++|+|++|+||
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=99.91 E-value=6.6e-24 Score=187.77 Aligned_cols=102 Identities=22% Similarity=0.309 Sum_probs=96.2
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecC
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG 163 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dk 163 (248)
.-||+|+|+|||++||++|++++|+++++|+||+++.+.+++||+|++||++|+.+. +|+|||+|.|+|+|+++.|+|+
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 6999999999999999999988
Q ss_pred CC----cEEEEEEEEEEEEEEeeCCCC
Q 025801 164 DG----QQQTYYKVVVQQLNFVERSSP 186 (248)
Q Consensus 164 dG----~~r~~~eIva~~I~~L~~k~~ 186 (248)
+| ++++.++|.|++|++|+.+..
T Consensus 186 ~g~~~g~kr~~~eV~v~~i~~l~~~~~ 212 (219)
T PRK05813 186 LSEGEVVTKVAYEVSISKMEKVEKEEA 212 (219)
T ss_pred CCCccceEEEEEEEEEEEEEEcCChhh
Confidence 74 899999999999999987664
No 20
>PRK02801 primosomal replication protein N; Provisional
Probab=99.91 E-value=1.8e-23 Score=164.57 Aligned_cols=94 Identities=18% Similarity=0.234 Sum_probs=85.4
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCC-------ceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQ-------TSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~-------t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
|||+|+|+|||++||++|++++|.++++|+||+++...+ ++||+|++||+.||.+.+||+||+.|.|+|+|..
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 025801 158 DVVESGDGQQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 158 ~~y~dkdG~~r~~~eIva~~I~~L~ 182 (248)
|+|++|++++. |++++|+|++
T Consensus 81 --~~~~~g~~~~~--v~~~~i~~l~ 101 (101)
T PRK02801 81 --HQGRNGLSKLV--LHAEQIELID 101 (101)
T ss_pred --eECCCCCEEEE--EEEEEEEECC
Confidence 68899998866 9999999873
No 21
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=4.2e-23 Score=178.64 Aligned_cols=96 Identities=20% Similarity=0.384 Sum_probs=89.1
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecC-C---------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEE
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKS-A---------TQTSWINLTFWDELAHVASQHVEKGQQIYISG 153 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~-~---------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeG 153 (248)
.++|.|+|+|||+.|||+|++++|.++++|+||++++ + .+++||+|++|+++|+.++++|+|||+|+|+|
T Consensus 2 ~~~~~VtLiGrL~~DPElR~t~sG~~va~FrVAv~~r~~~~~~g~~~d~~t~fi~V~~Wg~~Ae~va~~L~KGd~V~V~G 81 (186)
T PRK07772 2 AGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNEWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVTG 81 (186)
T ss_pred CccCEEEEEEEeCCCCeEEEcCCCCEEEEEEEEecCcceecCCCcEeccCceEEEEEEecHHHHHHHHhcCCCCEEEEEE
Confidence 3589999999999999999999999999999999743 2 25889999999999999999999999999999
Q ss_pred EeeeeeeecCCCcEEEEEEEEEEEEE
Q 025801 154 RLVSDVVESGDGQQQTYYKVVVQQLN 179 (248)
Q Consensus 154 rL~~~~y~dkdG~~r~~~eIva~~I~ 179 (248)
+|+.+.|+|+||++++.++|+|++|.
T Consensus 82 rL~~r~wedkdG~~rt~~eV~a~~Vg 107 (186)
T PRK07772 82 RLKQRSYETREGEKRTVVELEVDEIG 107 (186)
T ss_pred EEEcCceECCCCCEEEEEEEEEEEcc
Confidence 99999999999999999999999764
No 22
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.89 E-value=8.8e-23 Score=173.17 Aligned_cols=102 Identities=27% Similarity=0.503 Sum_probs=87.1
Q ss_pred CccEEEEEEEECCCceEEEcC-CCcEEEEEEEEEecCC--------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEe
Q 025801 85 LTNTVHLIGVVGTPIETKHLP-SGKVLAWTRLAVRKSA--------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRL 155 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~-nG~~va~fsLAv~r~~--------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL 155 (248)
|||+|+|+|||++|||+|+++ +|..++.|++++++.. ..++||+|++||++|+.+.+||+||++|+|+|+|
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 4567777777777753 2569999999999999999999999999999999
Q ss_pred eeeeeecCCCcEEEE----EEEEEEEEEEeeCCCC
Q 025801 156 VSDVVESGDGQQQTY----YKVVVQQLNFVERSSP 186 (248)
Q Consensus 156 ~~~~y~dkdG~~r~~----~eIva~~I~~L~~k~~ 186 (248)
+++.|+|++|++++. .++++..+.+++.+..
T Consensus 82 ~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 82 QTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EeeeeecCCCcceeeEEEEEEEeehhhhhccCccc
Confidence 999999999955554 4556667788876653
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=99.86 E-value=9.5e-21 Score=144.76 Aligned_cols=93 Identities=34% Similarity=0.555 Sum_probs=88.6
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCC-------CCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA-------TQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~-------~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
|+|+|+|+++|+++++++|..++.|+|++++.+ ..++||+|.+||++|+.++++++|||.|+|+|+|+.+.|+
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 579999999999999999999999999999875 3789999999999999999999999999999999999999
Q ss_pred cCCCcEEEEEEEEEEEEEEe
Q 025801 162 SGDGQQQTYYKVVVQQLNFV 181 (248)
Q Consensus 162 dkdG~~r~~~eIva~~I~~L 181 (248)
+++|+.++.++|.|++|.++
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=99.86 E-value=2.3e-21 Score=164.36 Aligned_cols=89 Identities=13% Similarity=0.291 Sum_probs=82.5
Q ss_pred EEEEECCCceEEEcCCCcEEEEEEEEEecCCC---------CceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT---------QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 91 LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~---------~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
|+|||++||+++++. |..+++|+||++++++ .++||+|++||++|+.+.+||+||++|+|+|+|++++|+
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 7899999999987641 489999999999999999999999999999999999999
Q ss_pred cCCCcEEEEEEEEEEEEEE
Q 025801 162 SGDGQQQTYYKVVVQQLNF 180 (248)
Q Consensus 162 dkdG~~r~~~eIva~~I~~ 180 (248)
|++|++++.++|+|+.|..
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=99.80 E-value=8.4e-19 Score=155.29 Aligned_cols=97 Identities=20% Similarity=0.266 Sum_probs=91.6
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecC-C
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG-D 164 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dk-d 164 (248)
.|+|+|+|+|++||+++++..|..++.|+|||+|..+.+|||+|++|+++|+.+. ++||+.|.|+|+|+ +|++. +
T Consensus 8 ~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rlae~~~--l~kG~~v~VeGqlr--sy~~~~~ 83 (219)
T PRK05813 8 NNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERLLAGMD--LKVGTLVIVEGQLR--SYNKFID 83 (219)
T ss_pred cCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhhhhhhc--ccCCCEEEEEEEEE--EeccCCC
Confidence 6999999999999999999999999999999999658999999999999999987 99999999999999 78777 7
Q ss_pred CcEEEEEEEEEEEEEEeeCCCC
Q 025801 165 GQQQTYYKVVVQQLNFVERSSP 186 (248)
Q Consensus 165 G~~r~~~eIva~~I~~L~~k~~ 186 (248)
|++++.++|+|++|.+|+.++.
T Consensus 84 G~~R~vl~V~a~~i~~l~~~~~ 105 (219)
T PRK05813 84 GKNRLILTVFARNIEYCDERSD 105 (219)
T ss_pred CcEEEEEEEEEEEEEEccCCCc
Confidence 9999999999999999987753
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.67 E-value=1.2e-16 Score=134.63 Aligned_cols=102 Identities=21% Similarity=0.314 Sum_probs=91.3
Q ss_pred CCCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCC-----------CCceEEEEEEeH-HHHHHHHHhcCcCCEE
Q 025801 82 DKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA-----------TQTSWINLTFWD-ELAHVASQHVEKGQQI 149 (248)
Q Consensus 82 ~~~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~-----------~~t~wi~V~awG-klAe~~~~~LkKGd~V 149 (248)
-.+..|+++|.|+||.||..|..+||++|+.|+|+++..+ ..++||+|.+|+ .+|+.+.++|+||.+|
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 4477999999999999999999999999999999998765 368999999999 6999999999999999
Q ss_pred EEEEEeeeeeee-cCCCcE-EEEEEEEEEEEEEeeC
Q 025801 150 YISGRLVSDVVE-SGDGQQ-QTYYKVVVQQLNFVER 183 (248)
Q Consensus 150 ~VeGrL~~~~y~-dkdG~~-r~~~eIva~~I~~L~~ 183 (248)
+|+|+|+++-+. |.+|+. +....|++++|.||..
T Consensus 131 yveG~iey~g~~~d~~g~~~r~~t~iIa~~v~Fl~~ 166 (175)
T KOG1653|consen 131 YVEGKIEYRGENDDIQGNVKRIPTIIIARDVSFLID 166 (175)
T ss_pred EEeeeEEeeeeeccccCceeecceEEEechhHHHHH
Confidence 999999996555 557887 7888999999999853
No 27
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=98.70 E-value=2.7e-07 Score=72.46 Aligned_cols=96 Identities=21% Similarity=0.284 Sum_probs=80.2
Q ss_pred CCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCce-----E--EEEEEeHHHHHHHHHhcCcCCEEEEEEEe
Q 025801 83 KELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTS-----W--INLTFWDELAHVASQHVEKGQQIYISGRL 155 (248)
Q Consensus 83 ~~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~-----w--i~V~awGklAe~~~~~LkKGd~V~VeGrL 155 (248)
+.|.|.+.|+|.|++-|..+++++|.+.|.|.|..+....++. | +.+.+-|+.|+..-+.+..|..|.|+|.|
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 3578999999999999999999999999999999887544333 4 56677799999999999999999999999
Q ss_pred eeeeeecCCCcEEEEEEEEEEEEEEee
Q 025801 156 VSDVVESGDGQQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 156 ~~~~y~dkdG~~r~~~eIva~~I~~L~ 182 (248)
....- ++|- ..+.|.+++|+++|
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 88644 4555 55678888888875
No 28
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.69 E-value=1.6e-07 Score=75.08 Aligned_cols=90 Identities=19% Similarity=0.157 Sum_probs=76.1
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCC-----c--eEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeee
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQ-----T--SWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~-----t--~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~ 158 (248)
||.+.|+|.|++.|.+|+++.|.+++.|.|.+.....+ - .-+.+++.|++|+...+ +..|+.|.|+|.|..
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 59999999999999999999999999999998875422 2 23788999999998876 999999999999987
Q ss_pred eeecCCCcEEEEEEEEEEEEEEee
Q 025801 159 VVESGDGQQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 159 ~y~dkdG~~r~~~eIva~~I~~L~ 182 (248)
+.+|. ....+++++|+++.
T Consensus 79 ---~~~~~--~~LVLHi~~Ie~i~ 97 (107)
T PRK00036 79 ---ARKDS--VKVKLHLQQARRIA 97 (107)
T ss_pred ---CCCCC--CcEEEEhHHeEEcc
Confidence 23444 56788999999993
No 29
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=97.61 E-value=0.00055 Score=48.86 Aligned_cols=75 Identities=19% Similarity=0.337 Sum_probs=57.2
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcEE
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~r 168 (248)
|.+.|+|.+-. +++..++.|+|. +.+.-++|.+|++.+....+.++.|+.|.|+|.++.+ ++|
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 57888887733 345567778775 4457899999998888888999999999999999876 233
Q ss_pred EEEEEEEEEEEEe
Q 025801 169 TYYKVVVQQLNFV 181 (248)
Q Consensus 169 ~~~eIva~~I~~L 181 (248)
.++|.+++++.|
T Consensus 64 -~~~l~~~~i~~l 75 (75)
T PF01336_consen 64 -ELELIVPKIEIL 75 (75)
T ss_dssp -SEEEEEEEEEEE
T ss_pred -cEEEEECEEEEC
Confidence 567888887764
No 30
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=96.90 E-value=0.013 Score=42.63 Aligned_cols=74 Identities=20% Similarity=0.348 Sum_probs=54.8
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcEE
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~r 168 (248)
+.+.|.|.. ++.+++| .+.|+|.-. +.=+.|++|.+..+.....|++|+.|.|+|++..+.+ +|
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---LKRPSSG--HLYFTLKDE-----DASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEP---RG--- 65 (78)
T ss_pred EEEEEEEec---CEECCCc--EEEEEEEeC-----CeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECC---CC---
Confidence 567888885 3336677 788888643 3569999999988888889999999999999987533 22
Q ss_pred EEEEEEEEEEE
Q 025801 169 TYYKVVVQQLN 179 (248)
Q Consensus 169 ~~~eIva~~I~ 179 (248)
.+++.++++.
T Consensus 66 -~~~l~v~~i~ 75 (78)
T cd04489 66 -GYQLIVEEIE 75 (78)
T ss_pred -EEEEEEEEEE
Confidence 2566666664
No 31
>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=96.53 E-value=0.017 Score=42.83 Aligned_cols=73 Identities=25% Similarity=0.310 Sum_probs=53.3
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcEE
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~r 168 (248)
|.+.|.|.+.+. ++|. +.|+|.- +..=++|++|...+..+...++.||.|.|.|++.. +.|
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 357899988663 5675 5577732 23458999998876666677999999999999863 333
Q ss_pred EEEEEEEEEEEEe
Q 025801 169 TYYKVVVQQLNFV 181 (248)
Q Consensus 169 ~~~eIva~~I~~L 181 (248)
.+++.|++++.|
T Consensus 62 -~~ql~v~~i~~~ 73 (73)
T cd04487 62 -QLQIEVESLEVL 73 (73)
T ss_pred -EEEEEEeeEEEC
Confidence 478888888764
No 32
>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.36 E-value=0.022 Score=42.96 Aligned_cols=66 Identities=21% Similarity=0.270 Sum_probs=52.0
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH-HHHHHHHhcC-cCCEEEEEEEeeeeeee
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAHVASQHVE-KGQQIYISGRLVSDVVE 161 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk-lAe~~~~~Lk-KGd~V~VeGrL~~~~y~ 161 (248)
|++.|.|-. .+.|.+++|+.+..|.|. +.++=+.|..|.+ .-+. ...++ +|+.|.|.|.++.+.|.
T Consensus 2 v~i~G~Vf~-~e~re~k~g~~i~~~~it-----D~t~Si~~K~F~~~~~~~-~~~ik~~G~~v~v~G~v~~D~f~ 69 (82)
T cd04484 2 VVVEGEVFD-LEIRELKSGRKILTFKVT-----DYTSSITVKKFLRKDEKD-KEELKSKGDWVRVRGKVQYDTFS 69 (82)
T ss_pred EEEEEEEEE-EEEEEecCCCEEEEEEEE-----cCCCCEEEEEeccCChhH-HhhcccCCCEEEEEEEEEEccCC
Confidence 778899865 788999999888888876 3456678888873 3233 35699 99999999999998884
No 33
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=96.28 E-value=0.023 Score=44.55 Aligned_cols=69 Identities=17% Similarity=0.159 Sum_probs=53.7
Q ss_pred CccEEEEEEEECCCceEEEcCCC---cEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEE-Eeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSG---KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVS 157 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG---~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeG-rL~~ 157 (248)
.++.+.|.|||..-=+++...++ ..+..+.|+ .++++-+++++|++.++.....|+.|+.+.|++ +++.
T Consensus 8 ~~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~----De~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V~~ 80 (104)
T cd04474 8 YQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLL----DEDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSVKV 80 (104)
T ss_pred CCCcEEEEEEEeeccccccccCCCCCcEEEEEEEE----ECCCCEEEEEEehHHHHHhhcccccccEEEEeccEEee
Confidence 35789999999986666666553 456666664 234778999999999999999999999999996 4433
No 34
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=96.23 E-value=0.087 Score=36.05 Aligned_cols=46 Identities=26% Similarity=0.385 Sum_probs=38.6
Q ss_pred CcEEEEEEEEEecCCCCc-eEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeee
Q 025801 107 GKVLAWTRLAVRKSATQT-SWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 107 G~~va~fsLAv~r~~~~t-~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
|+.++.|.|. +.+ ..+.|.+|.+..+.....+++|+.|.|+|++..
T Consensus 15 ~~~~~~~~l~-----D~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~ 61 (75)
T cd03524 15 EGKVLIFTLT-----DGTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKK 61 (75)
T ss_pred CCeEEEEEEE-----cCCCCEEEEEEEchHHHHHHhhccCCCEEEEEEEEEe
Confidence 5677777775 456 789999999988887888999999999999955
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=96.18 E-value=0.058 Score=38.50 Aligned_cols=76 Identities=16% Similarity=0.343 Sum_probs=53.7
Q ss_pred EEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcEEEE
Q 025801 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTY 170 (248)
Q Consensus 91 LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~r~~ 170 (248)
+.|.|.. ...+.+++|+.++.++|. +.+.-+.|.+|++.-+...+.+++|+.|.|.|++..+ +| .
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 4566654 455677889888888875 3445589999987655567889999999999999542 23 2
Q ss_pred EEEEEEEEEEe
Q 025801 171 YKVVVQQLNFV 181 (248)
Q Consensus 171 ~eIva~~I~~L 181 (248)
.++.++++..+
T Consensus 67 ~~l~~~~i~~~ 77 (84)
T cd04485 67 LRLIAERIEDL 77 (84)
T ss_pred eEEEeeccccH
Confidence 45566666544
No 36
>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=96.07 E-value=0.067 Score=38.65 Aligned_cols=72 Identities=19% Similarity=0.320 Sum_probs=52.3
Q ss_pred CCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcEEEEEEEEE
Q 025801 96 GTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVVV 175 (248)
Q Consensus 96 g~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~r~~~eIva 175 (248)
....+.+.+++|++++.++|. +.+.-+.+.+|++.- .....++.|..|.|.|++.. + +| ..++.+
T Consensus 6 v~~~~~~~tk~g~~~~~~~l~-----D~tg~i~~~~f~~~~-~~~~~l~~g~~v~v~G~v~~--~---~~----~~~l~~ 70 (83)
T cd04492 6 IKSKELRTAKNGKPYLALTLQ-----DKTGEIEAKLWDASE-EDEEKFKPGDIVHVKGRVEE--Y---RG----RLQLKI 70 (83)
T ss_pred EEEeeeecccCCCcEEEEEEE-----cCCCeEEEEEcCCCh-hhHhhCCCCCEEEEEEEEEE--e---CC----ceeEEE
Confidence 345667788889888888887 344468999998543 33678999999999999954 2 23 246667
Q ss_pred EEEEEee
Q 025801 176 QQLNFVE 182 (248)
Q Consensus 176 ~~I~~L~ 182 (248)
.++..++
T Consensus 71 ~~i~~l~ 77 (83)
T cd04492 71 QRIRLVT 77 (83)
T ss_pred EEEEECC
Confidence 7777665
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=95.42 E-value=0.1 Score=40.11 Aligned_cols=72 Identities=11% Similarity=0.237 Sum_probs=52.9
Q ss_pred EEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH--HHHHHHhcCcCCEEEEEEEeeeeeeecCCCcE
Q 025801 90 HLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (248)
Q Consensus 90 ~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl--Ae~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~ 167 (248)
.+.|.|.+-+. ..++|. +.|+|. +++.-++|++|... +..+...|+.||.|.|.|++..+.
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 46788888553 225675 567774 23457899999876 567778899999999999986653
Q ss_pred EEEEEEEEEEEEEee
Q 025801 168 QTYYKVVVQQLNFVE 182 (248)
Q Consensus 168 r~~~eIva~~I~~L~ 182 (248)
++.++.++.+.
T Consensus 65 ----ql~ve~l~~~g 75 (91)
T cd04482 65 ----TLNLEKLRVIR 75 (91)
T ss_pred ----EEEEEEEEECC
Confidence 68888888764
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=94.90 E-value=0.75 Score=34.43 Aligned_cols=72 Identities=17% Similarity=0.268 Sum_probs=50.8
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHH--HHHHhcCcCCEEEEEEEeeeeeeecCCCc
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe--~~~~~LkKGd~V~VeGrL~~~~y~dkdG~ 166 (248)
+.+.|-|.. .. .+++|+. .++|. +.+.-+.|.+|.+.-+ .....|+.|..|+|+|++.. +++
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 456777765 33 6778887 44443 3455689999999777 78889999999999999922 122
Q ss_pred EEEEEEEEEEEEEEe
Q 025801 167 QQTYYKVVVQQLNFV 181 (248)
Q Consensus 167 ~r~~~eIva~~I~~L 181 (248)
++.+++|-+-
T Consensus 66 -----~l~~~~I~~~ 75 (79)
T cd04490 66 -----LIFADEIFRP 75 (79)
T ss_pred -----EEEEEEeEcC
Confidence 6667766543
No 39
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=94.89 E-value=0.45 Score=37.00 Aligned_cols=77 Identities=17% Similarity=0.287 Sum_probs=58.7
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHH-HhcCcCCEEEEEEEeeeeeeecCC
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVAS-QHVEKGQQIYISGRLVSDVVESGD 164 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~-~~LkKGd~V~VeGrL~~~~y~dkd 164 (248)
+..+-+.|.|.+ ++...+| .+.|+|.- +..=++|++|...+..+. ..++.|+.|.|.|++..+. +.
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 578999999988 5544455 57788875 337799999999888887 7899999999999997752 34
Q ss_pred CcEEEEEEEEEEEEE
Q 025801 165 GQQQTYYKVVVQQLN 179 (248)
Q Consensus 165 G~~r~~~eIva~~I~ 179 (248)
|+ +.+.+++|+
T Consensus 88 G~----~sl~v~~i~ 98 (99)
T PF13742_consen 88 GS----LSLIVEDID 98 (99)
T ss_pred cE----EEEEEEEeE
Confidence 53 566666654
No 40
>PRK07211 replication factor A; Reviewed
Probab=94.61 E-value=0.22 Score=49.44 Aligned_cols=67 Identities=25% Similarity=0.364 Sum_probs=54.8
Q ss_pred CccEEEEEEEECCCceEEEcCC-C----cEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPS-G----KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLV 156 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~n-G----~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~ 156 (248)
-|+++++.|||..--++|+..+ | ..++++.|+ ++|-=+++++|++.|+.....|++|+.+.|.|+..
T Consensus 62 g~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~-----DeTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~ 133 (485)
T PRK07211 62 GMDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVA-----DETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK 133 (485)
T ss_pred CCCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEE-----cCCCeEEEEEechHhHhhhcccCCCCEEEEeceEe
Confidence 4699999999998777666543 1 267777776 46778999999999999999999999999998763
No 41
>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=94.56 E-value=1.5 Score=34.04 Aligned_cols=83 Identities=17% Similarity=0.093 Sum_probs=55.3
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCC---CceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSAT---QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~---~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
|+|.|.|.|.|.. .+...+.+ -...++.-.|.+. =+||+-+-+-|++|-.+.+|.+|=..+.|+|.|++. .
T Consensus 1 MLN~V~LEG~IeS---~kWS~~KT-GF~VTI~QkR~FG~r~FTDyyViYAN~QL~~ELEky~~k~k~isieG~L~TY--~ 74 (104)
T PF11506_consen 1 MLNTVFLEGEIES---YKWSKKKT-GFLVTIKQKRKFGERTFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRTY--L 74 (104)
T ss_dssp --EEEEEEEEEEE---EEE-TTSS-EEEEEEEEEEEETTEEEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEEE--E
T ss_pred CcceEEEeceeeh---hcccccCc-eEEEEEeehhhhccccceeEEEEEECCeeehhHHHhhhhceEEEEeeehhhH--H
Confidence 6899999999876 44443322 2223344444443 478999999999999999999999999999999875 4
Q ss_pred cC-CCcEEEEEEEEE
Q 025801 162 SG-DGQQQTYYKVVV 175 (248)
Q Consensus 162 dk-dG~~r~~~eIva 175 (248)
++ .+... +.|.+
T Consensus 75 ekkS~iWK--T~I~~ 87 (104)
T PF11506_consen 75 EKKSKIWK--TTIEA 87 (104)
T ss_dssp ETTTTEEE--EEEEE
T ss_pred HHhcccce--eeEEE
Confidence 44 55433 34444
No 42
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=94.21 E-value=0.46 Score=36.53 Aligned_cols=80 Identities=11% Similarity=0.154 Sum_probs=54.8
Q ss_pred EEEE-ECCCceEE-EcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcEE
Q 025801 91 LIGV-VGTPIETK-HLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQ 168 (248)
Q Consensus 91 LiGr-Lg~dPelr-~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~r 168 (248)
|.|. |..-|+.. .+++|=.--.|.|-++. .-...+.+.+||+.++.+ ..++.||.|.|+=.|+.+.|+ .+
T Consensus 2 i~Gkii~~l~~~~g~s~~Gw~Kre~Vlet~~--qYP~~i~f~~~~dk~~~l-~~~~~Gd~V~Vsf~i~~RE~~-----gr 73 (84)
T PF11325_consen 2 ITGKIIKVLPEQQGVSKNGWKKREFVLETEE--QYPQKICFEFWGDKIDLL-DNFQVGDEVKVSFNIEGREWN-----GR 73 (84)
T ss_pred cccEEEEEecCcccCcCCCcEEEEEEEeCCC--cCCceEEEEEEcchhhhh-ccCCCCCEEEEEEEeeccEec-----ce
Confidence 4566 34444443 33467344445555333 345678889999877774 458999999999999999996 45
Q ss_pred EEEEEEEEEE
Q 025801 169 TYYKVVVQQL 178 (248)
Q Consensus 169 ~~~eIva~~I 178 (248)
+...|.|-+|
T Consensus 74 ~fn~i~aWri 83 (84)
T PF11325_consen 74 WFNSIRAWRI 83 (84)
T ss_pred EeeEeEEEEe
Confidence 7778877665
No 43
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=92.70 E-value=3 Score=32.04 Aligned_cols=86 Identities=15% Similarity=0.111 Sum_probs=53.4
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH---HH---HHHHhcCcCCEEEEEEEeeeeeee
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL---AH---VASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl---Ae---~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
.|.+.|+|.+ +|.. |+.++.+.|. + .+..+.|++-.+. .+ ...+.|+.|+.|.|+|.+....-
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---SRAQ--GAKLAFLVLR-Q----QGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEE- 69 (102)
T ss_pred CEEEEEEEEE---eecC--CCceEEEEEe-c----CCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCC-
Confidence 3678899866 4433 5346555553 1 2245777775331 11 23356899999999999976421
Q ss_pred cCCCcEEEEEEEEEEEEEEeeCC
Q 025801 162 SGDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 162 dkdG~~r~~~eIva~~I~~L~~k 184 (248)
..++.....+||.++++++|...
T Consensus 70 ~~~~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 70 PIKSCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred cccCCCcCcEEEEEEEEEEEecC
Confidence 11222234689999999999744
No 44
>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=92.59 E-value=0.49 Score=46.07 Aligned_cols=78 Identities=15% Similarity=0.240 Sum_probs=59.9
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
+..|-+.|.|.+ ++...+| .++|+|. ++..=++|++|...+..+...++.|+.|.|.|++..+ + +.|
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 568999999998 5544677 4678884 3456799999998888877789999999999999865 3 345
Q ss_pred cEEEEEEEEEEEEEE
Q 025801 166 QQQTYYKVVVQQLNF 180 (248)
Q Consensus 166 ~~r~~~eIva~~I~~ 180 (248)
. +.+.|++++.
T Consensus 84 ~----~ql~v~~i~~ 94 (432)
T TIGR00237 84 D----YQIICFEMQP 94 (432)
T ss_pred c----EEEEEEEecc
Confidence 4 6777777763
No 45
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=92.38 E-value=0.66 Score=43.61 Aligned_cols=74 Identities=14% Similarity=0.204 Sum_probs=55.6
Q ss_pred ECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcEEEEEEEE
Q 025801 95 VGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVV 174 (248)
Q Consensus 95 Lg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~r~~~eIv 174 (248)
+.++.++++++||+++..++|+ +.|-=++..+|+.. +.....++.|+.|.|+|.+.. |. |+ .++.
T Consensus 19 lv~~~~~~~~knG~~yl~l~l~-----D~tG~I~ak~W~~~-~~~~~~~~~g~vv~v~G~v~~--y~---g~----~Ql~ 83 (314)
T PRK13480 19 LIKSATKGVASNGKPFLTLILQ-----DKSGDIEAKLWDVS-PEDEATYVPETIVHVKGDIIN--YR---GR----KQLK 83 (314)
T ss_pred EEEEceeeecCCCCeEEEEEEE-----cCCcEEEEEeCCCC-hhhHhhcCCCCEEEEEEEEEE--EC---Cc----ceEE
Confidence 5567889999999999999998 34456889999964 444667999999999999964 43 33 2456
Q ss_pred EEEEEEeeC
Q 025801 175 VQQLNFVER 183 (248)
Q Consensus 175 a~~I~~L~~ 183 (248)
+.++..++.
T Consensus 84 i~~i~~~~~ 92 (314)
T PRK13480 84 VNQIRLATE 92 (314)
T ss_pred EEEeEECCC
Confidence 667776643
No 46
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=92.05 E-value=0.77 Score=44.39 Aligned_cols=79 Identities=18% Similarity=0.279 Sum_probs=60.4
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
+..|-+.|.|.+ ++...+| .+.|+|.-. ..-++|++|...+..+...++.|+.|.|.|++..+ + +.|
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 568999999988 5444567 467888633 45799999998887777779999999999999874 3 345
Q ss_pred cEEEEEEEEEEEEEEe
Q 025801 166 QQQTYYKVVVQQLNFV 181 (248)
Q Consensus 166 ~~r~~~eIva~~I~~L 181 (248)
. +.+.|++|+..
T Consensus 90 ~----~ql~v~~i~~~ 101 (438)
T PRK00286 90 D----YQLIVEEIEPA 101 (438)
T ss_pred C----EEEEEEEeeeC
Confidence 4 67788777643
No 47
>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=91.85 E-value=1.8 Score=33.04 Aligned_cols=67 Identities=24% Similarity=0.307 Sum_probs=42.2
Q ss_pred EEEEEEECCCceEE--EcCC-CcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeee
Q 025801 89 VHLIGVVGTPIETK--HLPS-GKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVV 160 (248)
Q Consensus 89 V~LiGrLg~dPelr--~t~n-G~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y 160 (248)
|.++|.|..--+.+ .+++ |.....-.|.+.+. ...-+.|++||+.|+.+.... |+.|.+.| ++...|
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D~--t~~~i~vtLWg~~a~~~~~~~--~~vv~~~~-~~i~~~ 71 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLVDE--SGHSVELTLWGEQAELFDGSE--NPVIAIKG-VKVSEF 71 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEEeC--CCCEEEEEEEHHHhhhcccCC--CCEEEEEe-eEEEec
Confidence 56778777543333 3333 65444444444332 122689999999999877644 99999988 555556
No 48
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=91.85 E-value=1.6 Score=43.05 Aligned_cols=81 Identities=14% Similarity=0.220 Sum_probs=61.9
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCc
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~ 166 (248)
..|.+.|.|.. ...+.|++|+.++.++|. +.+.-+.+++|.+.-+.....|+.|..|.|+|+++.+ +|.
T Consensus 281 ~~v~vaG~I~~-ik~~~TKkG~~maf~~le-----D~tG~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~-----~~~ 349 (449)
T PRK07373 281 TKVSAVVMLNE-VKKIVTKKGDPMAFLQLE-----DLSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRR-----DDQ 349 (449)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEE-----ECCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CCe
Confidence 36788888877 566678889988888876 3445589999999989989999999999999999542 232
Q ss_pred EEEEEEEEEEEEEEee
Q 025801 167 QQTYYKVVVQQLNFVE 182 (248)
Q Consensus 167 ~r~~~eIva~~I~~L~ 182 (248)
..+++++|.-++
T Consensus 350 ----~~liv~~i~~l~ 361 (449)
T PRK07373 350 ----VQLIVEDAEPIE 361 (449)
T ss_pred ----EEEEEeEeecHh
Confidence 456677665553
No 49
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=91.81 E-value=0.85 Score=37.18 Aligned_cols=62 Identities=18% Similarity=0.257 Sum_probs=44.6
Q ss_pred ccEEEEEEEECC--CceEEEcCCCc-EEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEE-EEee
Q 025801 86 TNTVHLIGVVGT--PIETKHLPSGK-VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYIS-GRLV 156 (248)
Q Consensus 86 mN~V~LiGrLg~--dPelr~t~nG~-~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~Ve-GrL~ 156 (248)
++.|.++|.|.. ++....+++|. .+....|+ ++|--+++++|++.|+ .|++||.|.|. |..+
T Consensus 14 ~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~-----D~TG~I~~tlW~~~a~----~l~~GdvV~I~na~v~ 79 (129)
T PRK06461 14 MERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVG-----DETGRVKLTLWGEQAG----SLKEGEVVEIENAWTT 79 (129)
T ss_pred CCceEEEEEEEEcCCceEEEeCCCceEEEEEEEE-----CCCCEEEEEEeCCccc----cCCCCCEEEEECcEEe
Confidence 578999999985 34444555653 36666664 4555699999998654 58899999999 5655
No 50
>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=91.01 E-value=1.1 Score=33.11 Aligned_cols=59 Identities=24% Similarity=0.350 Sum_probs=38.8
Q ss_pred EEEEECCCceEEEc-CCC--cEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEE-EEeee
Q 025801 91 LIGVVGTPIETKHL-PSG--KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYIS-GRLVS 157 (248)
Q Consensus 91 LiGrLg~dPelr~t-~nG--~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~Ve-GrL~~ 157 (248)
++|+|..--+.+.+ .+| ..+..+.|+ +++--+++++|+..+ ...++.|+.|.|+ |+.+.
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 55666553333333 233 355555555 334569999999877 6679999999999 66644
No 51
>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A
Probab=90.15 E-value=3.5 Score=30.54 Aligned_cols=81 Identities=14% Similarity=0.217 Sum_probs=50.7
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHH---HHHHHhcCcCCEEEEEEEeeeeeeecCC
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELA---HVASQHVEKGQQIYISGRLVSDVVESGD 164 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklA---e~~~~~LkKGd~V~VeGrL~~~~y~dkd 164 (248)
+|.+.|+|.+ +|. .|+ ++.+.|. +. +.-+.|++-.+.. -.....|+.||.|.|+|.+....-. .
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-DG----SGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEG--N 67 (85)
T ss_pred CEEEEEEEeh---hcc--CCC-EEEEEEE-eC----CeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCC--C
Confidence 3788899976 443 254 5555552 22 2446665543321 1234579999999999999875421 1
Q ss_pred CcEEEEEEEEEEEEEEee
Q 025801 165 GQQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 165 G~~r~~~eIva~~I~~L~ 182 (248)
.....+||.++++.+|.
T Consensus 68 -~~~~~~El~~~~i~il~ 84 (85)
T cd04100 68 -LATGEIELQAEELEVLS 84 (85)
T ss_pred -CCCCCEEEEEeEEEEEC
Confidence 12245899999999884
No 52
>cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS. These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh
Probab=90.09 E-value=4.5 Score=32.62 Aligned_cols=87 Identities=17% Similarity=0.249 Sum_probs=54.0
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHH--HHHHhcCcCCEEEEEEEeeeeeeecCC
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGD 164 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe--~~~~~LkKGd~V~VeGrL~~~~y~dkd 164 (248)
..|.+.|+|.+ +|.. |+ ++.+.|. +. +..+.|++-.+..+ .....|+.|+.|.|+|.+....-..++
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---RRDH--GG-LIFIDLR-DR----YGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVN 83 (135)
T ss_pred CEEEEEEeEeh---hccc--CC-EEEEEEe-cC----CeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccC
Confidence 46999999987 4433 54 5555552 22 23466766443222 234569999999999999764310011
Q ss_pred -CcEEEEEEEEEEEEEEeeCC
Q 025801 165 -GQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 165 -G~~r~~~eIva~~I~~L~~k 184 (248)
......+||.+++|.+|...
T Consensus 84 ~~~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 84 PKLPTGEIEVVASELEVLNKA 104 (135)
T ss_pred CCCCCCcEEEEEeEEEEEECC
Confidence 11223489999999999755
No 53
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=89.69 E-value=2.1 Score=46.70 Aligned_cols=81 Identities=17% Similarity=0.311 Sum_probs=63.0
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCc
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~ 166 (248)
..|.+.|-|.. .+.+.|++|++++.++|. +.+.-+.+++|.+.-+.....|+.|..|.|+|+++.+ +|
T Consensus 978 ~~V~v~G~I~~-vk~~~TKkG~~mafltLe-----D~TG~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~-----~~- 1045 (1135)
T PRK05673 978 SVVTVAGLVVS-VRRRVTKRGNKMAIVTLE-----DLSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFD-----DG- 1045 (1135)
T ss_pred ceEEEEEEEEE-EEecccCCCCeEEEEEEE-----eCCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC-
Confidence 46777777775 677788899999988887 3445699999999778888889999999999999542 23
Q ss_pred EEEEEEEEEEEEEEee
Q 025801 167 QQTYYKVVVQQLNFVE 182 (248)
Q Consensus 167 ~r~~~eIva~~I~~L~ 182 (248)
..+++++++.-++
T Consensus 1046 ---~~qlii~~I~~L~ 1058 (1135)
T PRK05673 1046 ---GLRLTAREVMDLE 1058 (1135)
T ss_pred ---eEEEEEeecccHH
Confidence 2467778887764
No 54
>PRK07211 replication factor A; Reviewed
Probab=89.40 E-value=1.1 Score=44.63 Aligned_cols=68 Identities=24% Similarity=0.376 Sum_probs=48.0
Q ss_pred CccEEEEEEEECCCceEEEcC--CCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEE-Eee
Q 025801 85 LTNTVHLIGVVGTPIETKHLP--SGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLV 156 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~--nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeG-rL~ 156 (248)
-++.+.|+|+|..--++|.+. +|...-.+++-+- +++--+++++|++.|+.+ ..|.+|+.|.|.+ +++
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 368899999999766666543 4533333333332 234459999999999998 6699999999974 554
No 55
>PRK15491 replication factor A; Provisional
Probab=89.26 E-value=1.5 Score=42.15 Aligned_cols=71 Identities=17% Similarity=0.321 Sum_probs=50.6
Q ss_pred ccEEEEEEEECCCceEEEc--CCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEE-Eeeeeee
Q 025801 86 TNTVHLIGVVGTPIETKHL--PSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVSDVV 160 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t--~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeG-rL~~~~y 160 (248)
...|.+.|+|..--+.|.. ++|...-.+.+..-. ++--+++++|++.|+.+ ..|..|+.|.|.+ +.+.+.|
T Consensus 176 ~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~D---etG~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~~~~ 249 (374)
T PRK15491 176 DSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGD---ETGKIRVTLWDGKTDLA-DKLENGDSVEIINGYARTNNY 249 (374)
T ss_pred CccEEEEEEEEEccCceEEEecCCCeEEEEEEEEEC---CCCeEEEEEecchhccc-ccCCCCCEEEEEeceEEEecc
Confidence 4569999999986555544 467643344444433 33359999999999886 6699999999965 6776655
No 56
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=89.12 E-value=1.8 Score=38.03 Aligned_cols=88 Identities=11% Similarity=0.172 Sum_probs=60.5
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecC
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG 163 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dk 163 (248)
.-+|++.++|.|+..+-+-+ +..+.+++|+- ...+.|+-.--|..-|..+++.+.++|.|.|.|.+++ |++.
T Consensus 43 ~k~nRifivGtltek~~i~e---d~~~~R~rVvD---pTGsF~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~~--y~~d 114 (196)
T COG3390 43 LKVNRIFIVGTLTEKEGIGE---DREYWRIRVVD---PTGSFYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIRT--YRTD 114 (196)
T ss_pred hheeEEEEEEEEEeccCcCC---cccEEEEEEec---CCceEEEEcCCCChHHHHHHHhccCCceEEEecccce--eecC
Confidence 45899999999998665421 24577887762 1345555333455678888899999999999998865 5666
Q ss_pred CCcEEEEEEEEEEEEEEe
Q 025801 164 DGQQQTYYKVVVQQLNFV 181 (248)
Q Consensus 164 dG~~r~~~eIva~~I~~L 181 (248)
+|. +.+.|..+.|..+
T Consensus 115 ~g~--~~~siRpE~vs~v 130 (196)
T COG3390 115 EGV--VLFSIRPELVSKV 130 (196)
T ss_pred CCc--eEEEechhhhhhc
Confidence 787 3445555555444
No 57
>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=88.66 E-value=5.2 Score=29.61 Aligned_cols=81 Identities=16% Similarity=0.260 Sum_probs=49.1
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHH--HHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe--~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
+|.|.|+|-+ .|.. | .++.+.|. + .+..+.+++-.+... ...+.|..|+.|.|+|.+....-..
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--K-KLMFLVLR--D---GTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAK--- 66 (84)
T ss_pred CEEEEEEEEE---EecC--C-CcEEEEEE--c---CCeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCccc---
Confidence 3678899866 4433 3 24545552 2 223366666433221 2335689999999999997643210
Q ss_pred cEEEEEEEEEEEEEEee
Q 025801 166 QQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 166 ~~r~~~eIva~~I~~L~ 182 (248)
.....+||.+++++++.
T Consensus 67 ~~~~~~Ei~~~~i~vl~ 83 (84)
T cd04323 67 QAPGGYELQVDYLEIIG 83 (84)
T ss_pred CCCCCEEEEEEEEEEEc
Confidence 11225899999999885
No 58
>PRK15491 replication factor A; Provisional
Probab=87.89 E-value=1.8 Score=41.54 Aligned_cols=65 Identities=29% Similarity=0.451 Sum_probs=50.2
Q ss_pred CccEEEEEEEECCCceEEEc--CCCc--EEEEEEEEEecCCCCceEEEEEEeHHHHHHHH-HhcCcCCEEEEEEE
Q 025801 85 LTNTVHLIGVVGTPIETKHL--PSGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVAS-QHVEKGQQIYISGR 154 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t--~nG~--~va~fsLAv~r~~~~t~wi~V~awGklAe~~~-~~LkKGd~V~VeGr 154 (248)
.++.+.|.|+|..--..|++ ++|. .+.++.|+ ++|--+++++|++.|+.+. .-|..|+.|.|.|.
T Consensus 66 ~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~-----DeTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~ 135 (374)
T PRK15491 66 SSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVA-----DETGSIRLTLWDDLADLIKTGDIEVGKSLNISGY 135 (374)
T ss_pred CCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEE-----cCCCeEEEEEECchhhhhccCCcCCCCEEEEeee
Confidence 46999999999987566654 3452 45555555 4556799999999998876 46999999999986
No 59
>PRK08402 replication factor A; Reviewed
Probab=87.34 E-value=2.2 Score=40.86 Aligned_cols=63 Identities=16% Similarity=0.225 Sum_probs=46.9
Q ss_pred ccEEEEEEEECCCceEE--EcCCCc--EEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEE
Q 025801 86 TNTVHLIGVVGTPIETK--HLPSGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG 153 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr--~t~nG~--~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeG 153 (248)
+..|.+.|+|..--..| ..++|. .+.+..|+ ++|-.+++++|++.|......+..|+.|.|.|
T Consensus 72 ~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~-----DeTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~ 138 (355)
T PRK08402 72 MRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIY-----DDTGRARVVLWDAKVAKYYNKINVGDVIKVID 138 (355)
T ss_pred CceeeEEEEEEEccCCceeeccCCCcceEEEEEEE-----cCCCeEEEEEechhhhhhcccCCCCCEEEEEC
Confidence 58999999999743333 333553 45555665 46678899999999887666799999999974
No 60
>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha
Probab=87.18 E-value=2.9 Score=28.95 Aligned_cols=59 Identities=17% Similarity=0.204 Sum_probs=38.2
Q ss_pred EEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeee
Q 025801 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 91 LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
+.|+|..... +... +..+..+.+.- ++.-+.++.|+. .....+.+++|+.+.|.|.+..
T Consensus 2 i~~~V~~~~~-~~~~-~~~~~~~~~~D-----~~g~i~~~~F~~-~~~~~~~~~~G~~~~v~Gkv~~ 60 (75)
T cd04488 2 VEGTVVSVEV-VPRR-GRRRLKVTLSD-----GTGTLTLVFFNF-QPYLKKQLPPGTRVRVSGKVKR 60 (75)
T ss_pred EEEEEEEEEe-ccCC-CccEEEEEEEc-----CCCEEEEEEECC-CHHHHhcCCCCCEEEEEEEEee
Confidence 4566654322 2222 45666666642 355688999983 1245677999999999999965
No 61
>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=86.54 E-value=13 Score=28.79 Aligned_cols=81 Identities=11% Similarity=0.253 Sum_probs=52.9
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH--HH--HHHHhcCcCCEEEEEEEeeeeeeec
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AH--VASQHVEKGQQIYISGRLVSDVVES 162 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl--Ae--~~~~~LkKGd~V~VeGrL~~~~y~d 162 (248)
..|.+-|+|.+ +|.. |+ ++.+.|. + .+..+.|++-.+. .+ ...+.|..|+.|.|+|.+....
T Consensus 13 ~~V~v~Gwv~~---~R~~--g~-~~Fi~Lr--D---~~g~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~--- 78 (108)
T cd04316 13 EEVTVAGWVHE---IRDL--GG-IKFVILR--D---REGIVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEP--- 78 (108)
T ss_pred CEEEEEEEEEe---eecc--CC-eEEEEEe--c---CCeeEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCC---
Confidence 45899999976 4443 43 5555552 2 2335777765431 11 2334699999999999987653
Q ss_pred CCCcEEEEEEEEEEEEEEeeCC
Q 025801 163 GDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 163 kdG~~r~~~eIva~~I~~L~~k 184 (248)
... ..+||.+++|.++...
T Consensus 79 -~~~--~~~Ei~~~~i~il~~~ 97 (108)
T cd04316 79 -KAP--NGVEIIPEEIEVLSEA 97 (108)
T ss_pred -CCC--CCEEEEEeEEEEEeCC
Confidence 111 2589999999999754
No 62
>PRK12366 replication factor A; Reviewed
Probab=85.87 E-value=4 Score=41.87 Aligned_cols=84 Identities=12% Similarity=0.276 Sum_probs=57.6
Q ss_pred cEEEEEEEECCCceEEEcC--CCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEE-EeeeeeeecC
Q 025801 87 NTVHLIGVVGTPIETKHLP--SGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVSDVVESG 163 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~--nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeG-rL~~~~y~dk 163 (248)
+.+.|.|||..--.+|++. +|. ---|++...+. +-=+++++|++.|+.... |..|+.+.|++ +++ .|.+.
T Consensus 292 ~~~~I~grV~~~~~~R~f~~~~g~-gkv~s~~l~D~---tG~IR~t~w~~~~d~~~~-l~~G~vy~is~~~vk--~y~~~ 364 (637)
T PRK12366 292 EEVDVKGRIIAISDKREVERDDRT-AEVQDIELADG---TGRVRVSFWGEKAKILEN-LKEGDAVKIENCKVR--TYYDN 364 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCc-EEEEEEEEEcC---CCeEEEEEeCchhhhhcc-cCCCCEEEEecCEEe--ecccc
Confidence 4899999999988888764 333 33344444442 224999999999988765 78999999996 554 56544
Q ss_pred CCcEEEEEEEEEEEEE
Q 025801 164 DGQQQTYYKVVVQQLN 179 (248)
Q Consensus 164 dG~~r~~~eIva~~I~ 179 (248)
+|+ +.+++.+..-.
T Consensus 365 ~~~--~~~El~~~~~s 378 (637)
T PRK12366 365 EGE--KRVDLNAGYSS 378 (637)
T ss_pred CCC--cCEEEEcCCce
Confidence 554 34566665443
No 63
>PRK14699 replication factor A; Provisional
Probab=85.87 E-value=2 Score=42.70 Aligned_cols=65 Identities=28% Similarity=0.458 Sum_probs=50.4
Q ss_pred CccEEEEEEEECCCceEEEcC--CCc--EEEEEEEEEecCCCCceEEEEEEeHHHHHHHHH-hcCcCCEEEEEEE
Q 025801 85 LTNTVHLIGVVGTPIETKHLP--SGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQ-HVEKGQQIYISGR 154 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~--nG~--~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~-~LkKGd~V~VeGr 154 (248)
-+..|.+.|+|..--..|++. +|. .++++.|+ ++|--+++++|.++|+.+.. .|++||.|.|.|.
T Consensus 66 ~~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~ia-----DeTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~ 135 (484)
T PRK14699 66 ESGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVG-----DETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY 135 (484)
T ss_pred CCceEEEEEEEEEecCceEEecCCCCceEEEEEEEe-----cCCCeEEEEEecCccchhhhcCCCCCCEEEEcce
Confidence 368899999999876666552 343 45555555 56778999999999888776 6999999999995
No 64
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=85.03 E-value=7.4 Score=42.71 Aligned_cols=82 Identities=12% Similarity=0.241 Sum_probs=62.4
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCc
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~ 166 (248)
..|.+.|-|.. .+.+.|++|+.++.++|. +.+.-+.+++|.+.-+.....|+.|..|.|+|+++.+ ++|
T Consensus 992 ~~v~v~g~i~~-~~~~~tk~G~~maf~~le-----D~~g~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~----~~~- 1060 (1151)
T PRK06826 992 DKVIIGGIITE-VKRKTTRNNEMMAFLTLE-----DLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLR----EDE- 1060 (1151)
T ss_pred cEEEEEEEEEE-eEeeccCCCCeEEEEEEE-----ECCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CCC-
Confidence 35778888876 566677889989888886 3445689999999888888899999999999999543 123
Q ss_pred EEEEEEEEEEEEEEee
Q 025801 167 QQTYYKVVVQQLNFVE 182 (248)
Q Consensus 167 ~r~~~eIva~~I~~L~ 182 (248)
...++++++.-++
T Consensus 1061 ---~~~~~~~~~~~l~ 1073 (1151)
T PRK06826 1061 ---EPKLICEEIEPLV 1073 (1151)
T ss_pred ---ceEEEEeeeecHh
Confidence 2466777776664
No 65
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=84.98 E-value=7.7 Score=42.68 Aligned_cols=80 Identities=11% Similarity=0.174 Sum_probs=61.2
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCc
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~ 166 (248)
..|.+.|-|.. ...+.|++|+.++.++|. +.+.-+.+++|.+.-+.....|+.|..|.|+|+++.+ +|
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 46888888876 556677889988888876 3445589999999888888999999999999999542 23
Q ss_pred EEEEEEEEEEEEEEe
Q 025801 167 QQTYYKVVVQQLNFV 181 (248)
Q Consensus 167 ~r~~~eIva~~I~~L 181 (248)
...++++++.-+
T Consensus 1069 ---~~~~~~~~i~~l 1080 (1170)
T PRK07374 1069 ---RVQLIIDDCREI 1080 (1170)
T ss_pred ---eEEEEEeeeecH
Confidence 245666766554
No 66
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=84.88 E-value=6.2 Score=43.13 Aligned_cols=80 Identities=14% Similarity=0.209 Sum_probs=61.8
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcE
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~ 167 (248)
.|.+.|-|.. ...+.|++|+.++.++|. +.+.-+.+++|.+.-+.....|..|..|.|+|+++.+ +|
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 6788888876 555677889988888776 4455699999999888888999999999999999543 22
Q ss_pred EEEEEEEEEEEEEee
Q 025801 168 QTYYKVVVQQLNFVE 182 (248)
Q Consensus 168 r~~~eIva~~I~~L~ 182 (248)
...++++++.-++
T Consensus 1012 --~~~~~~~~i~~l~ 1024 (1107)
T PRK06920 1012 --KLQWIVNGLYPLE 1024 (1107)
T ss_pred --cEEEEEeecccHH
Confidence 2467777776664
No 67
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=84.84 E-value=4.4 Score=39.95 Aligned_cols=77 Identities=18% Similarity=0.310 Sum_probs=60.3
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
+-.|-+.|.|.+ ++.-.+| ...|+|- ++..-++|++|......+..-++.|+.|.|.|++..+ + +.|
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 678999999998 5555677 5678886 4567899999998888888889999999999999875 3 345
Q ss_pred cEEEEEEEEEEEEE
Q 025801 166 QQQTYYKVVVQQLN 179 (248)
Q Consensus 166 ~~r~~~eIva~~I~ 179 (248)
. |.|++++++
T Consensus 90 ~----YQi~~~~~~ 99 (440)
T COG1570 90 D----YQIVAESME 99 (440)
T ss_pred c----eEEEEecCC
Confidence 4 466666554
No 68
>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein
Probab=84.24 E-value=17 Score=28.09 Aligned_cols=77 Identities=17% Similarity=0.312 Sum_probs=48.9
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH--H---HHHHHhcCcCCEEEEEEEeeeeeeecC
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--A---HVASQHVEKGQQIYISGRLVSDVVESG 163 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl--A---e~~~~~LkKGd~V~VeGrL~~~~y~dk 163 (248)
|.|.|+|-+ +|.. |+ ++.+.|. +. +.-+.|++-.+. . ..+.+.|..||.|.|+|.+... +
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-DE----SGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKT----K 66 (108)
T ss_pred EEEEEEEEE---EecC--CC-eEEEEEE-EC----CeEEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEec----C
Confidence 678888877 5443 54 5544444 22 245677664321 1 1222339999999999998753 2
Q ss_pred CCcEEEEEEEEEEEEEEeeCC
Q 025801 164 DGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 164 dG~~r~~~eIva~~I~~L~~k 184 (248)
.|+ +||.+++++++...
T Consensus 67 ~g~----~El~~~~~~ils~~ 83 (108)
T cd04322 67 TGE----LSIFVKEFTLLSKS 83 (108)
T ss_pred CCC----EEEEeCEeEEeecc
Confidence 233 69999999999754
No 69
>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=83.90 E-value=9.2 Score=42.24 Aligned_cols=71 Identities=21% Similarity=0.223 Sum_probs=55.1
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHH--HHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELA--HVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklA--e~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
-++.|++.|.|-. .+.+.+++|+.+..|.|. +.++=+.|..|.+.- ......+++|+.|.|.|.+..+.|.
T Consensus 6 ~~~~~~~~g~i~~-~~~~~~~~~~~~~~~~~~-----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~~~~~g~~~~d~~~ 78 (1213)
T TIGR01405 6 EENRVKIEGYIFK-IEIKELKSGRTLLKIKVT-----DYTDSLILKKFLKSEEDPEKFDGIKIGKWVRARGKIELDNFS 78 (1213)
T ss_pred cCCeEEEEEEEEE-EEeEeccCCCEEEEEEEE-----cCCCCEEEEEecccccchHHHhhcCCCcEEEEEEEEeccCCC
Confidence 3589999999955 788899999988888776 345567788887421 2233569999999999999988885
No 70
>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=83.37 E-value=18 Score=27.73 Aligned_cols=80 Identities=21% Similarity=0.300 Sum_probs=49.9
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHH---HHHHhcCcCCEEEEEEEeeeeeeecCC
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH---VASQHVEKGQQIYISGRLVSDVVESGD 164 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe---~~~~~LkKGd~V~VeGrL~~~~y~dkd 164 (248)
+|.+.|+|.+ +|.. |+ ++.+.| ++ .+..+.|++-.+.++ .....|..|+.|.|+|.+..+. +..
T Consensus 1 ~V~v~Gwv~~---~R~~--gk-~~Fi~l--rD---~~g~iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~--~~~ 67 (103)
T cd04319 1 KVTLAGWVYR---KREV--GK-KAFIVL--RD---STGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADP--RAP 67 (103)
T ss_pred CEEEEEEEEe---EEcC--CC-eEEEEE--ec---CCeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECC--CCC
Confidence 3778899876 4433 43 444444 22 223477766543111 1224588999999999987652 111
Q ss_pred CcEEEEEEEEEEEEEEeeCC
Q 025801 165 GQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 165 G~~r~~~eIva~~I~~L~~k 184 (248)
..+||.+++++++...
T Consensus 68 ----~~~Ei~~~~i~vl~~a 83 (103)
T cd04319 68 ----GGAEVHGEKLEIIQNV 83 (103)
T ss_pred ----CCEEEEEEEEEEEecC
Confidence 2589999999999754
No 71
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=83.11 E-value=7.3 Score=43.69 Aligned_cols=71 Identities=21% Similarity=0.231 Sum_probs=55.2
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH--HHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl--Ae~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
..+.|++.|.|-. .+.+.+++|+.+..|.|. +.++=+.|..|.+. -......+++|+.|.|.|++..+.|.
T Consensus 235 ~~~~v~i~G~if~-~e~~~~k~~~~~~~~~~t-----d~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~~ 307 (1437)
T PRK00448 235 EERRVVVEGYVFK-VEIKELKSGRHILTFKIT-----DYTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTFT 307 (1437)
T ss_pred cCCeEEEEEEEEE-EEEEeccCCCEEEEEEEE-----cCCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCCC
Confidence 3578999999955 788899999988888884 34566778888632 12344669999999999999998885
No 72
>PRK12366 replication factor A; Reviewed
Probab=82.25 E-value=4.1 Score=41.79 Aligned_cols=64 Identities=25% Similarity=0.324 Sum_probs=48.3
Q ss_pred CccEEEEEEEECCCceEEEc--CCC--cEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEE
Q 025801 85 LTNTVHLIGVVGTPIETKHL--PSG--KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t--~nG--~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGr 154 (248)
.++.+.|.|+|..--++|.. .+| ..++++.|+ ++|-=+++++|++.|+. ...|.+|+.+.|.+-
T Consensus 72 ~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~-----DetG~Ir~t~W~~~~~~-~~~le~G~v~~i~~~ 139 (637)
T PRK12366 72 GQINVEITGRIIEISNIKTFTRKDGSTGKLANITIA-----DNTGTIRLTLWNDNAKL-LKGLKEGDVIKIENA 139 (637)
T ss_pred CCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEE-----cCCCEEEEEEEchhhhh-hccCCCCCEEEEecc
Confidence 36899999999876555544 345 356666666 24446999999999886 567999999999985
No 73
>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=81.66 E-value=6.4 Score=32.20 Aligned_cols=74 Identities=12% Similarity=0.082 Sum_probs=49.9
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
.-..|.++|-|..-...+.+......+.|+|.-..... ..-+.|.+|++.++.+-. +..||.|.+.+ ++...|.
T Consensus 13 ~~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~-~~~l~v~~F~~~~~~LP~-v~~GDVIll~~-~kv~~~~ 86 (138)
T cd04497 13 SGGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLAN-SDGLTVKLFRPNEESLPI-VKVGDIILLRR-VKIQSYN 86 (138)
T ss_pred cCCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCC-CCcEEEEEECCChhhCCC-CCCCCEEEEEE-EEEEEEC
Confidence 34678899998875554444433455556655332212 455999999998887644 59999999998 6666774
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=79.16 E-value=6.1 Score=40.31 Aligned_cols=67 Identities=24% Similarity=0.266 Sum_probs=52.5
Q ss_pred ccEEEEEEEECCCceEEEcCC--C-cEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEE-EEeee
Q 025801 86 TNTVHLIGVVGTPIETKHLPS--G-KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYIS-GRLVS 157 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~n--G-~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~Ve-GrL~~ 157 (248)
+++.+|.|||..--++|...+ | ..+..+.|. + ++.=|++++|++.++.....|+.|+.++|+ |+++.
T Consensus 190 ~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~--D---egg~Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~ 260 (608)
T TIGR00617 190 QNKWTIKARVTNKSEIRTWSNARGEGKLFNVELL--D---ESGEIRATAFNEQADKFYDIIQEGKVYYISKGSLKP 260 (608)
T ss_pred CCceEEEEEEEeccccceecCCCCCceeeEEEEe--c---CCCeEEEEECchHHHHHhhhcccCCEEEECceEEEE
Confidence 578999999999888887643 2 245555543 2 456799999999999999999999999997 45554
No 75
>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=78.93 E-value=24 Score=26.24 Aligned_cols=84 Identities=18% Similarity=0.266 Sum_probs=49.3
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH-HHHHHHhcCcCCEEEEEEEeeeeeeecCCCc
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-AHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl-Ae~~~~~LkKGd~V~VeGrL~~~~y~dkdG~ 166 (248)
+|.+.|.|-+ +|.. ++.++.+.| ++. ...=+.|++-.+. +-...+.+..|+.|.|+|.+..+.-.. ++
T Consensus 1 ~V~v~Gwv~~---~R~~--~~~~~Fi~L--rD~--~g~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~-~~- 69 (86)
T cd04321 1 KVTLNGWIDR---KPRI--VKKLSFADL--RDP--NGDIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKS-SE- 69 (86)
T ss_pred CEEEEEeEee---EeCC--CCceEEEEE--ECC--CCCEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcC-CC-
Confidence 3678888877 4331 233555555 222 1123566543322 112335689999999999997753211 11
Q ss_pred EEEEEEEEEEEEEEee
Q 025801 167 QQTYYKVVVQQLNFVE 182 (248)
Q Consensus 167 ~r~~~eIva~~I~~L~ 182 (248)
....+||.+++|++|.
T Consensus 70 ~~~~~Ei~~~~i~il~ 85 (86)
T cd04321 70 KNDEWELVVDDIQTLN 85 (86)
T ss_pred CCCCEEEEEEEEEEec
Confidence 1134799999999985
No 76
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=78.60 E-value=17 Score=39.52 Aligned_cols=81 Identities=16% Similarity=0.351 Sum_probs=60.3
Q ss_pred cEEEEEEEECCCceEEEcC-CCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 87 NTVHLIGVVGTPIETKHLP-SGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~-nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
..+.+.|.|.. ...+.++ +|+.++.++|. +.+.-+.+++|.+.-+.....|+.|..|.|+|+++.+ +|
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 45778888876 4444556 88888888776 3445589999999888888889999999999999653 22
Q ss_pred cEEEEEEEEEEEEEEee
Q 025801 166 QQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 166 ~~r~~~eIva~~I~~L~ 182 (248)
...++++++.-++
T Consensus 954 ----~~~l~~~~i~~l~ 966 (1034)
T PRK07279 954 ----RLQMVLQQIQEAS 966 (1034)
T ss_pred ----eeEEEEeeeeccc
Confidence 2466777776554
No 77
>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=75.35 E-value=40 Score=32.88 Aligned_cols=81 Identities=12% Similarity=0.226 Sum_probs=51.5
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH----HHHHHHHhcCcCCEEEEEEEeeeeeeec
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE----LAHVASQHVEKGQQIYISGRLVSDVVES 162 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk----lAe~~~~~LkKGd~V~VeGrL~~~~y~d 162 (248)
..|.|.|+|.+ +|.. |+ ++...|. +.. .-+.|++-.+ ..-.....|..||.|.|+|.+....
T Consensus 13 ~~v~i~G~v~~---~R~~--g~-~~Fi~lr-d~~----g~iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~--- 78 (428)
T TIGR00458 13 QEVTFMGWVHE---IRDL--GG-LIFVLLR-DRE----GLIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKE--- 78 (428)
T ss_pred CEEEEEEEEEE---EecC--CC-cEEEEEE-eCC----eeEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecC---
Confidence 56899999966 4433 54 4444443 222 2467666432 1111235699999999999997431
Q ss_pred CCCcEEEEEEEEEEEEEEeeCC
Q 025801 163 GDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 163 kdG~~r~~~eIva~~I~~L~~k 184 (248)
.....++|.++++++|...
T Consensus 79 ---~~~~~~el~~~~i~vl~~~ 97 (428)
T TIGR00458 79 ---KAPGGFEIIPTKIEVINEA 97 (428)
T ss_pred ---CCCCcEEEEEeEEEEEecC
Confidence 1123589999999999755
No 78
>PF02765 POT1: Telomeric single stranded DNA binding POT1/CDC13; InterPro: IPR011564 This entry represents a domain that binds single stranded telomeric DNA and adopts an OB fold []. It includes the proteins POT1 and CDC13 which have been shown to regulate telomere length, replication and capping [, , ]. ; GO: 0003677 DNA binding, 0000723 telomere maintenance, 0000784 nuclear chromosome, telomeric region; PDB: 1S40_A 1KXL_A 1PH7_A 1PH9_A 1PH2_A 1OTC_A 1PHJ_A 1JB7_A 1PA6_A 1PH1_A ....
Probab=75.09 E-value=9.9 Score=31.29 Aligned_cols=75 Identities=16% Similarity=0.187 Sum_probs=54.0
Q ss_pred CCccEEEEEEEECCCceE--EEcCCCcEEEEEEEEEecCCC-Cc---eEEEEEEeHHHHHHHHHhcCc-CCEEEEEEEee
Q 025801 84 ELTNTVHLIGVVGTPIET--KHLPSGKVLAWTRLAVRKSAT-QT---SWINLTFWDELAHVASQHVEK-GQQIYISGRLV 156 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPel--r~t~nG~~va~fsLAv~r~~~-~t---~wi~V~awGklAe~~~~~LkK-Gd~V~VeGrL~ 156 (248)
..-..+.++|-|...-.. +.+++.+-.+.|+| ++.+.. .. ..+.|.+|.+..+.+- .++. ||.|.+. +++
T Consensus 10 ~~~~~vnvigVV~~~~~p~~~~t~g~D~~~tl~i-~D~S~~~~~~~~~~l~v~iF~~~~~~LP-~v~~~GDii~l~-r~k 86 (146)
T PF02765_consen 10 KFGKFVNVIGVVVDFSPPNPKKTRGTDYMCTLTI-TDPSLNDSNQKLSGLTVNIFRPHKESLP-NVKSVGDIIRLR-RVK 86 (146)
T ss_dssp TSSEEEEEEEEEEEEEEECTEEESSSCEEEEEEE-EBTTCSCSSCCCCEEEEEEEESSHHHSC-TTCSTTHEEEEE-EEE
T ss_pred cCCCEEEEEEEEEEccCCcceEcCCCcEEEEEEE-ECCCCCccccccCCEEEEEECCCHHHCC-CCCCCCCEEEEE-EEE
Confidence 344578999999876555 55556678888888 455443 33 7899999987777664 4666 9998888 777
Q ss_pred eeeee
Q 025801 157 SDVVE 161 (248)
Q Consensus 157 ~~~y~ 161 (248)
...|.
T Consensus 87 v~~~~ 91 (146)
T PF02765_consen 87 VQSYN 91 (146)
T ss_dssp EEEET
T ss_pred EEEEC
Confidence 77885
No 79
>PLN02903 aminoacyl-tRNA ligase
Probab=74.96 E-value=28 Score=36.05 Aligned_cols=87 Identities=17% Similarity=0.271 Sum_probs=54.2
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH---HHHHHHHhcCcCCEEEEEEEeeeeeeecC
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE---LAHVASQHVEKGQQIYISGRLVSDVVESG 163 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk---lAe~~~~~LkKGd~V~VeGrL~~~~y~dk 163 (248)
..|+|.|+|.+ +|.. |+ ++.+.|. ++ +..+.|++-.+ .+....+.|+.|+.|.|+|.+..+.-...
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 46999999976 4443 43 4444442 22 22367766532 22233467999999999999986532222
Q ss_pred CCcEE-EEEEEEEEEEEEeeCC
Q 025801 164 DGQQQ-TYYKVVVQQLNFVERS 184 (248)
Q Consensus 164 dG~~r-~~~eIva~~I~~L~~k 184 (248)
+.+.. -.+||.++++++|...
T Consensus 142 n~~~~tGeiEl~~~~i~VL~~a 163 (652)
T PLN02903 142 NKKMKTGSVEVVAESVDILNVV 163 (652)
T ss_pred CCCCCCCCEEEEEeEEEEEecC
Confidence 22222 2489999999999764
No 80
>cd04481 RPA1_DBD_B_like RPA1_DBD_B_like: A subgroup of uncharacterized, plant OB folds with similarity to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change.
Probab=74.49 E-value=37 Score=26.14 Aligned_cols=39 Identities=10% Similarity=0.117 Sum_probs=29.3
Q ss_pred ceEEEEEEeHHHHHHHHHhcC----cCCEEEEEEEeeeeeeec
Q 025801 124 TSWINLTFWDELAHVASQHVE----KGQQIYISGRLVSDVVES 162 (248)
Q Consensus 124 t~wi~V~awGklAe~~~~~Lk----KGd~V~VeGrL~~~~y~d 162 (248)
..-+.|++||+.|+.+...+. .+-.|.|-+-.+...|.+
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 467999999999999887763 444455667688888853
No 81
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=73.70 E-value=9.5 Score=31.69 Aligned_cols=76 Identities=20% Similarity=0.288 Sum_probs=52.1
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeee------ee
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS------DV 159 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~------~~ 159 (248)
++++.++=.|-.+-+...+++|+.+..+.+| ++|--|++.+|++. -..++.||-|.+.|-.-+ .-
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-----DETGSINISVWDEE----GCLIQPGDIIRLTGGYASIFQGCLTL 84 (134)
T ss_pred hhcceEEEEEEeeceeeeccCCCEEEEEEEe-----cccceEEEEEecCc----CcccCCccEEEecccchhhhcCceEE
Confidence 3445555455555566778899999999988 67778999999953 345789999998864432 12
Q ss_pred eecCCCcEEEE
Q 025801 160 VESGDGQQQTY 170 (248)
Q Consensus 160 y~dkdG~~r~~ 170 (248)
|..|.|+....
T Consensus 85 ~~GK~Ge~~Ki 95 (134)
T KOG3416|consen 85 YVGKGGEVQKI 95 (134)
T ss_pred EecCCceEeEe
Confidence 45566665443
No 82
>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=73.15 E-value=27 Score=26.00 Aligned_cols=74 Identities=20% Similarity=0.264 Sum_probs=47.6
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHH---HHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH---VASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe---~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
|.++|.|.+ +... + .+..|+|. +.|-=+.+..|....+ .....++.|+.|.|.|+++... |
T Consensus 2 v~~vG~V~~---~~~~--~-~~~~~tL~-----D~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~-----g 65 (95)
T cd04478 2 VTLVGVVRN---VEEQ--S-TNITYTID-----DGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQ-----G 65 (95)
T ss_pred EEEEEEEEe---eeEc--c-cEEEEEEE-----CCCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccC-----C
Confidence 677888876 2222 2 45666665 2333488899976432 3466799999999999996642 3
Q ss_pred cEEEEEEEEEEEEEEee
Q 025801 166 QQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 166 ~~r~~~eIva~~I~~L~ 182 (248)
+ ..|.+..+..++
T Consensus 66 ~----~ql~i~~i~~v~ 78 (95)
T cd04478 66 K----KSIMAFSIRPVT 78 (95)
T ss_pred e----eEEEEEEEEEeC
Confidence 3 345566666664
No 83
>PLN02850 aspartate-tRNA ligase
Probab=73.00 E-value=41 Score=33.88 Aligned_cols=85 Identities=15% Similarity=0.161 Sum_probs=53.6
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH------HHHHHHHhcCcCCEEEEEEEeeeeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE------LAHVASQHVEKGQQIYISGRLVSDVV 160 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk------lAe~~~~~LkKGd~V~VeGrL~~~~y 160 (248)
..|.+.|+|.+ +|. -|+ ++.+.|.- . +..+.|++-.+ ..-.....|..|+.|.|+|.+....-
T Consensus 82 ~~V~v~Grv~~---~R~--~gk-~~Fl~Lrd-~----~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~ 150 (530)
T PLN02850 82 SEVLIRGRVHT---IRG--KGK-SAFLVLRQ-S----GFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKK 150 (530)
T ss_pred CEEEEEEEEEE---Ecc--CCC-eEEEEEEe-C----CcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccCc
Confidence 57899999966 433 354 55444432 2 23466766432 11123456999999999999975321
Q ss_pred ecCCCcEEEEEEEEEEEEEEeeCC
Q 025801 161 ESGDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 161 ~dkdG~~r~~~eIva~~I~~L~~k 184 (248)
. ..+.+. .++|.+++|.+|...
T Consensus 151 ~-~~~~t~-~~El~~~~i~vls~a 172 (530)
T PLN02850 151 P-VKGTTQ-QVEIQVRKIYCVSKA 172 (530)
T ss_pred C-CCCCCc-cEEEEEeEEEEEeCC
Confidence 1 123333 799999999999755
No 84
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=72.35 E-value=26 Score=38.25 Aligned_cols=79 Identities=20% Similarity=0.364 Sum_probs=58.9
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcE
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~ 167 (248)
.|.+.|-|.. .+.+.|++| ++.++|. +.+.-+.+++|.+.-+.....|+.|..|.|+|+++.+ +|.
T Consensus 955 ~v~v~g~i~~-~~~~~TkkG--maf~~le-----D~~g~~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~-----~~~- 1020 (1046)
T PRK05672 955 RVRVAGVVTH-RQRPGTASG--VTFLTLE-----DETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNA-----EGV- 1020 (1046)
T ss_pred EEEEEEEEEE-EEEecCCCc--eEEEEEe-----cCCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CCe-
Confidence 4777777766 555567777 5555554 5666799999999999988999999999999999542 332
Q ss_pred EEEEEEEEEEEEEeeC
Q 025801 168 QTYYKVVVQQLNFVER 183 (248)
Q Consensus 168 r~~~eIva~~I~~L~~ 183 (248)
..++|+++.-++.
T Consensus 1021 ---~~~~~~~i~~~~~ 1033 (1046)
T PRK05672 1021 ---RHLVADRLEDLSP 1033 (1046)
T ss_pred ---EEEEEeeeechHH
Confidence 4688888876643
No 85
>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=72.06 E-value=58 Score=27.31 Aligned_cols=92 Identities=15% Similarity=0.219 Sum_probs=63.5
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCC-C--CceEEEEEEeHHHHHHHHH----hcCcCCEEEEE---EEeeee
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSA-T--QTSWINLTFWDELAHVASQ----HVEKGQQIYIS---GRLVSD 158 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~-~--~t~wi~V~awGklAe~~~~----~LkKGd~V~Ve---GrL~~~ 158 (248)
+.-+|+|-+--++. .++|.++..-+|+.=... + +-.||+|.+=|+.|..+.+ .+..+..|+|. |.|..+
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 46689998855543 557888888888776543 2 4568999999998766444 45678899887 555666
Q ss_pred eee----cCCCcEEEEEEEEEEEEEEe
Q 025801 159 VVE----SGDGQQQTYYKVVVQQLNFV 181 (248)
Q Consensus 159 ~y~----dkdG~~r~~~eIva~~I~~L 181 (248)
.|+ ++.|+....++=..-.|.++
T Consensus 93 ~f~~~~G~~~Ge~g~sLKgRLl~i~~i 119 (137)
T PF12101_consen 93 TFTYKKGERAGEPGASLKGRLLKIKWI 119 (137)
T ss_pred eEEeccCCcCCccceeeEEEEEEEEEE
Confidence 666 46787666655444455555
No 86
>PRK14699 replication factor A; Provisional
Probab=71.79 E-value=8.9 Score=38.19 Aligned_cols=85 Identities=15% Similarity=0.257 Sum_probs=59.3
Q ss_pred ccEEEEEEEECCCceEEEcC--CCc--EEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEE-Eeeeeee
Q 025801 86 TNTVHLIGVVGTPIETKHLP--SGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISG-RLVSDVV 160 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~--nG~--~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeG-rL~~~~y 160 (248)
+..|.+.|+|..--+.|.+. +|. .+.++.|+ ++|-=+++++|++.|+ +..-|.+|+.|.|.+ ..+.+.|
T Consensus 176 ~~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~ig-----DeTG~ir~tlW~~~a~-~~~~l~~Gd~v~I~~a~vr~~~~ 249 (484)
T PRK14699 176 MGDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLG-----DETGTLRVTLWDDKTD-FLNQIEYGDTVELINAYARENAF 249 (484)
T ss_pred CCceEEEEEEEeccCceEEecCCCCceEEEEEEEE-----cCCceEEEEEECcccc-cccccCCCCEEEEecceEeeccc
Confidence 56799999999877766553 453 35555555 6677899999999886 444699999999864 4555444
Q ss_pred ecCCCcEEEEEEEEEEEEEEeeC
Q 025801 161 ESGDGQQQTYYKVVVQQLNFVER 183 (248)
Q Consensus 161 ~dkdG~~r~~~eIva~~I~~L~~ 183 (248)
. ..+++.+.+...+..
T Consensus 250 ~-------~~~el~~~~~s~i~~ 265 (484)
T PRK14699 250 T-------QKVELQVGNRSIIRK 265 (484)
T ss_pred C-------CceEEEecCceEeec
Confidence 2 245666666665543
No 87
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=69.55 E-value=55 Score=31.91 Aligned_cols=82 Identities=15% Similarity=0.258 Sum_probs=51.9
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH---HHHHHHHhcCcCCEEEEEEEeeeeeeecC
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE---LAHVASQHVEKGQQIYISGRLVSDVVESG 163 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk---lAe~~~~~LkKGd~V~VeGrL~~~~y~dk 163 (248)
+.|.|.|+|.. +|.. | .++.+.|. +.+ .-+.|++=.+ ......+.|..||.|.|+|.+....-
T Consensus 17 ~~V~i~GrV~~---~R~~--g-k~~Fl~Lr-D~~----g~iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~~--- 82 (437)
T PRK05159 17 EEVTLAGWVHE---IRDL--G-GIAFLILR-DRS----GIIQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANPK--- 82 (437)
T ss_pred CEEEEEEEeEe---eecC--C-CeEEEEEE-cCC----cEEEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCCC---
Confidence 67999999976 4433 4 34444443 222 2366665332 11123356999999999999976421
Q ss_pred CCcEEEEEEEEEEEEEEeeCCC
Q 025801 164 DGQQQTYYKVVVQQLNFVERSS 185 (248)
Q Consensus 164 dG~~r~~~eIva~~I~~L~~k~ 185 (248)
....++|.++++.+|....
T Consensus 83 ---~~~~~el~~~~i~vls~a~ 101 (437)
T PRK05159 83 ---APGGVEVIPEEIEVLNKAE 101 (437)
T ss_pred ---CCCCEEEEEeEEEEEeCCC
Confidence 1235899999999997654
No 88
>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=67.12 E-value=81 Score=31.03 Aligned_cols=84 Identities=15% Similarity=0.227 Sum_probs=52.8
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH---HHHHHHhcCcCCEEEEEEEeeeeeeecC
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL---AHVASQHVEKGQQIYISGRLVSDVVESG 163 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl---Ae~~~~~LkKGd~V~VeGrL~~~~y~dk 163 (248)
..|.|.|+|.+ +|. .| .++.+.| ++. ....-+.|++-.+. .-...+.|..||.|.|+|.+.... .+
T Consensus 17 ~~v~v~Gwv~~---~R~--~~-~~~F~~l--rD~-~~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~--~~ 85 (453)
T TIGR00457 17 DEVTVSGWVRT---KRS--SK-KIIFLEL--NDG-SSLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESP--GK 85 (453)
T ss_pred CEEEEEEEeEE---EEc--CC-CeEEEEE--ECC-CCCccEEEEEeCCcChHHHHHHHcCCCCcEEEEEEEEEcCC--CC
Confidence 56999999976 552 23 4554444 221 11135666665431 112345699999999999997632 12
Q ss_pred CCcEEEEEEEEEEEEEEeeCCC
Q 025801 164 DGQQQTYYKVVVQQLNFVERSS 185 (248)
Q Consensus 164 dG~~r~~~eIva~~I~~L~~k~ 185 (248)
. ..++|.++++++|....
T Consensus 86 ~----~~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 86 G----QPVELQVKKIEVVGEAE 103 (453)
T ss_pred C----CCEEEEEeEEEEEecCC
Confidence 2 35899999999997553
No 89
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=66.80 E-value=64 Score=32.76 Aligned_cols=87 Identities=14% Similarity=0.081 Sum_probs=53.8
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEe--H---HHHHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFW--D---ELAHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~aw--G---klAe~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
..|.+.|+|-+ +|.. |+ ++.+.|.- .+..+.|++- + +..-.....|..|+.|.|+|.+....-.
T Consensus 79 ~~V~v~Grv~~---~R~~--Gk-~~Fl~LRd-----~~~~iQ~v~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~ 147 (550)
T PTZ00401 79 KTVLIRARVST---TRKK--GK-MAFMVLRD-----GSDSVQAMAAVEGDVPKEMIDFIGQIPTESIVDVEATVCKVEQP 147 (550)
T ss_pred CEEEEEEEEEE---EecC--CC-eEEEEEEe-----CCcCEEEEEECCCccCHHHHHHHhcCCCCCEEEEEEEEEecCcc
Confidence 56899999976 4433 53 45444432 2224666652 2 2222233469999999999998764221
Q ss_pred cCCCcEEEEEEEEEEEEEEeeCCC
Q 025801 162 SGDGQQQTYYKVVVQQLNFVERSS 185 (248)
Q Consensus 162 dkdG~~r~~~eIva~~I~~L~~k~ 185 (248)
....+...++|.+++|.+|....
T Consensus 148 -~~~~~~~~~El~v~~i~vls~a~ 170 (550)
T PTZ00401 148 -ITSTSHSDIELKVKKIHTVTESL 170 (550)
T ss_pred -CCCCCCccEEEEeeEEEEEeCCC
Confidence 12233446999999999997553
No 90
>TIGR00459 aspS_bact aspartyl-tRNA synthetase, bacterial type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences.
Probab=66.32 E-value=66 Score=32.93 Aligned_cols=87 Identities=15% Similarity=0.248 Sum_probs=53.4
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH-HHHHHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk-lAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
..|.|.|+|.+ +|.. |+ ++.+.|. +++ .-+.|++-.+ .+-...+.|+.|+.|.|+|.+..+.-...+-
T Consensus 16 ~~V~l~GwV~~---~R~~--Gk-l~Fi~Lr-D~s----g~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~ 84 (583)
T TIGR00459 16 QTVTLAGWVNR---RRDL--GG-LIFIDLR-DRS----GIVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINR 84 (583)
T ss_pred CEEEEEEEEEE---EEcC--CC-cEEEEEE-eCC----ccEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCc
Confidence 47999999976 5543 54 4444442 222 2466765433 2222346699999999999997643111111
Q ss_pred -cEEEEEEEEEEEEEEeeCC
Q 025801 166 -QQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 166 -~~r~~~eIva~~I~~L~~k 184 (248)
...-.+||.++++++|...
T Consensus 85 ~~~tg~iEl~~~~i~iL~~a 104 (583)
T TIGR00459 85 NLDTGEIEILAESITLLNKS 104 (583)
T ss_pred cCCCCcEEEEEeEEEEeecC
Confidence 1223589999999999754
No 91
>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=65.72 E-value=49 Score=24.04 Aligned_cols=77 Identities=16% Similarity=0.273 Sum_probs=45.7
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceE--EEEEEeHHHH-HHHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSW--INLTFWDELA-HVASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~w--i~V~awGklA-e~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
|.+.|+|.+ +|.. |+ ++...|. +. +.. +.|++-.+.. -...+.|..|+.|.|+|.+....- +.
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---VRDS--KK-ISFIELN-DG----SCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG--AK- 67 (82)
T ss_pred EEEEEeEEE---EEcC--Cc-EEEEEEE-CC----CCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC--CC-
Confidence 677888855 4432 32 4333332 22 222 5555533211 123456999999999999876432 11
Q ss_pred cEEEEEEEEEEEEEEee
Q 025801 166 QQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 166 ~~r~~~eIva~~I~~L~ 182 (248)
..+|+.+++++.+.
T Consensus 68 ---~~~El~~~~i~il~ 81 (82)
T cd04318 68 ---QPFELQAEKIEVLG 81 (82)
T ss_pred ---CCEEEEEEEEEEec
Confidence 25899999998874
No 92
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=65.10 E-value=77 Score=32.99 Aligned_cols=77 Identities=14% Similarity=0.170 Sum_probs=50.7
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEe-----HH-HHHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFW-----DE-LAHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~aw-----Gk-lAe~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
.|.|-|+|.. +|.. |+ ++.+.|. + .+.-+.|++- ++ ....+.+.|..||.|.|+|.+...
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 4999999977 5443 54 4444443 2 2335556553 32 223344568999999999988642
Q ss_pred cCCCcEEEEEEEEEEEEEEeeC
Q 025801 162 SGDGQQQTYYKVVVQQLNFVER 183 (248)
Q Consensus 162 dkdG~~r~~~eIva~~I~~L~~ 183 (248)
+.| .++|.|+++.+|..
T Consensus 175 -~~G----eleI~~~~i~lLsk 191 (659)
T PTZ00385 175 -QRG----ELSVAASRMLILSP 191 (659)
T ss_pred -CCc----eEEEEeeEEEEech
Confidence 334 37999999999975
No 93
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=64.66 E-value=71 Score=32.65 Aligned_cols=88 Identities=17% Similarity=0.234 Sum_probs=53.0
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH-HHHHHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-LAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk-lAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
..|.|.|+|.+ +|.. | .++.+.|. +. +..+.|++-.. ..-...+.|+.|+.|.|+|.+..+.-...+-
T Consensus 18 ~~V~l~GwV~~---~R~~--g-~l~Fi~Lr-D~----~g~iQ~v~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~ 86 (588)
T PRK00476 18 QTVTLCGWVHR---RRDH--G-GLIFIDLR-DR----EGIVQVVFDPDAEAFEVAESLRSEYVIQVTGTVRARPEGTVNP 86 (588)
T ss_pred CEEEEEEEEEE---EEeC--C-CeEEEEEE-eC----CceEEEEEeCCHHHHHHHhCCCCCCEEEEEEEEEecCCcccCc
Confidence 45999999976 5543 4 34444443 22 22466655331 1111335699999999999997653111111
Q ss_pred cE-EEEEEEEEEEEEEeeCCC
Q 025801 166 QQ-QTYYKVVVQQLNFVERSS 185 (248)
Q Consensus 166 ~~-r~~~eIva~~I~~L~~k~ 185 (248)
+. .-.+||.|+++++|....
T Consensus 87 ~~~~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 87 NLPTGEIEVLASELEVLNKSK 107 (588)
T ss_pred cCCCCcEEEEEeEEEEEecCC
Confidence 11 124899999999997654
No 94
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=62.99 E-value=30 Score=27.24 Aligned_cols=64 Identities=19% Similarity=0.228 Sum_probs=39.3
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEec----CCC--CceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeee
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRK----SAT--QTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r----~~~--~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~ 158 (248)
-..+++.|.|...|+.. +. ..+|.+.+.+ ... ...-+.+.+-.+... .++.||.|.++|+|+.=
T Consensus 75 ~~~~~v~g~V~~~~~~~----~~-~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~l~~Gd~i~~~g~l~~~ 144 (176)
T PF13567_consen 75 GKEVTVQGTVESVPQID----GR-GQRFTLRVERVLAGGNWIPVSGKILLYLPKDSQP----RLQPGDRIRVRGKLKPP 144 (176)
T ss_pred CceEEEEEEEccccccc----Cc-eEEEEEEEEEeeccccccccceeeEEEecccccc----ccCCCCEEEEEEEEecC
Confidence 35788999999988763 22 2267766542 112 222233333332211 68999999999999764
No 95
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=62.03 E-value=71 Score=31.64 Aligned_cols=81 Identities=12% Similarity=0.251 Sum_probs=55.6
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeH-HHHHHH--HHhcCcCCEEEEEEEeeeeeeecC
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD-ELAHVA--SQHVEKGQQIYISGRLVSDVVESG 163 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awG-klAe~~--~~~LkKGd~V~VeGrL~~~~y~dk 163 (248)
.+|.|-|-|.+ .|.. |+ ++...|. +.+.++.|++-. +..+.+ ++.|..++.|.|+|.+....-
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---KRDL--GK-IIFLVLR-----DGSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASPK--- 82 (435)
T ss_pred cEEEEEEEeee---eccc--CC-eEEEEEE-----cCCcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCCC---
Confidence 68899998876 3332 43 4433332 446679999874 222222 568999999999999966422
Q ss_pred CCcEEEEEEEEEEEEEEeeCC
Q 025801 164 DGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 164 dG~~r~~~eIva~~I~~L~~k 184 (248)
....+||.+++|+++...
T Consensus 83 ---a~~g~El~v~~i~Vl~~a 100 (435)
T COG0017 83 ---APQGFELQVEKIEVLGEA 100 (435)
T ss_pred ---CCCCEEEEEEEEEEeecc
Confidence 345789999999999765
No 96
>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=60.54 E-value=39 Score=30.96 Aligned_cols=90 Identities=12% Similarity=0.110 Sum_probs=53.1
Q ss_pred CCccccCCCCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHH---HHHhcCcCCEEEEE
Q 025801 76 PPEIPWDKELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHV---ASQHVEKGQQIYIS 152 (248)
Q Consensus 76 P~~i~~~~~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~---~~~~LkKGd~V~Ve 152 (248)
....=|....+++|.|+|.|...- .+...+.+ ++.++ +++.-.. +.+.|+++...... -...+ -|+.|.|.
T Consensus 56 ~~~~f~~NhPI~~v~i~G~Vv~~~-~~~~~~~~-~~~l~--iDD~Sg~-~~i~~~~~~~~~~~~~l~~~~~-~G~~V~Vk 129 (256)
T PF10451_consen 56 QNIYFYNNHPIRWVRIVGVVVGID-YKWIENED-RIILT--IDDSSGA-NTIECKCSKSSYLSMGLPINDL-IGKVVEVK 129 (256)
T ss_dssp TT-EEETTEEE-EEEEEEEEEEEE-EEE-BBTC-EEEEE--EE-SSCS--EEEEEEEHHHHHCCCHHCTT--TT-EEEEE
T ss_pred CCEEEECCcccEEEEEEEEEEEEE-EEeecccc-eEEEE--EeCCCCc-eeEEEEEEcccccccCCCccCC-CCcEEEEE
Confidence 344446667899999999999853 33333332 33333 4544332 28999999763221 12224 89999999
Q ss_pred EEeeeeeeecCCCcEEEEEEEEEEEEEEee
Q 025801 153 GRLVSDVVESGDGQQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 153 GrL~~~~y~dkdG~~r~~~eIva~~I~~L~ 182 (248)
|.+. +-..++.++.|..+.
T Consensus 130 G~vs-----------r~~~ql~ve~i~~~~ 148 (256)
T PF10451_consen 130 GTVS-----------RNERQLDVERIELVR 148 (256)
T ss_dssp EEEE-----------SSSEEEEEEEEEEET
T ss_pred EEEc-----------cCcEEEEEEEEEccC
Confidence 9998 223467777787763
No 97
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=60.21 E-value=1.2e+02 Score=30.12 Aligned_cols=79 Identities=23% Similarity=0.280 Sum_probs=50.5
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH----HHHHHHHhcCcCCEEEEEEEeeeeeeec
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE----LAHVASQHVEKGQQIYISGRLVSDVVES 162 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk----lAe~~~~~LkKGd~V~VeGrL~~~~y~d 162 (248)
..|++.|+|.+ +|.. | .++.+.|. +.. .-+.|++-.+ ..-...+.|..||.|.|+|.+...
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--G-KASFATLQ-DGS----GRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKT---- 119 (491)
T ss_pred cEEEEEEEEEE---EecC--C-ceEEEEEE-cCC----ccEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEc----
Confidence 46999999976 4443 5 35444443 222 2356655322 111122349999999999999753
Q ss_pred CCCcEEEEEEEEEEEEEEeeCC
Q 025801 163 GDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 163 kdG~~r~~~eIva~~I~~L~~k 184 (248)
+.| .++|.++++.+|.+.
T Consensus 120 ~~g----e~el~~~~~~vls~~ 137 (491)
T PRK00484 120 KTG----ELSVKATELTLLTKS 137 (491)
T ss_pred CCC----cEEEEEeEEEEEecc
Confidence 334 489999999999754
No 98
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=60.18 E-value=26 Score=38.84 Aligned_cols=72 Identities=24% Similarity=0.225 Sum_probs=54.8
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH--HHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL--AHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl--Ae~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
..+++|.+.|.|=. .+.+.+.+|+..+.|.|. +.++=+.|..|-+. -+...+.+++|+.|.++|.++.+.+.
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 45788999999976 888999999988888775 22334556666552 23455679999999999999988664
No 99
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=58.57 E-value=1e+02 Score=31.58 Aligned_cols=79 Identities=13% Similarity=0.098 Sum_probs=49.6
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH-------HHHHHHHhcCcCCEEEEEEEeeeeee
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-------LAHVASQHVEKGQQIYISGRLVSDVV 160 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk-------lAe~~~~~LkKGd~V~VeGrL~~~~y 160 (248)
.|.+.|+|.. +|.. |+.++.+.|. +. +.-+.|++-.+ ..+...+.|..||.|.|+|.+..
T Consensus 134 ~v~v~Grv~~---~R~~--G~k~~F~~L~-d~----~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~--- 200 (585)
T PTZ00417 134 ILNVTGRIMR---VSAS--GQKLRFFDLV-GD----GAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGK--- 200 (585)
T ss_pred eEEEEEEEEe---eecC--CCCCEEEEEE-eC----CeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcC---
Confidence 3889999976 5443 5445555552 22 22466666411 11223456999999999999543
Q ss_pred ecCCCcEEEEEEEEEEEEEEeeCC
Q 025801 161 ESGDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 161 ~dkdG~~r~~~eIva~~I~~L~~k 184 (248)
.+.| .++|.+++|.+|...
T Consensus 201 -t~~g----el~i~~~~i~llsk~ 219 (585)
T PTZ00417 201 -SKKG----ELSIFPKETIILSPC 219 (585)
T ss_pred -CCCc----eEEEEEEEEEEEecC
Confidence 2234 478999999999744
No 100
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=57.06 E-value=15 Score=35.92 Aligned_cols=37 Identities=8% Similarity=0.155 Sum_probs=31.9
Q ss_pred eEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 125 SWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 125 ~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
-.+.|.+-|+-...+.+.|+.|+.|.|+|---.-.++
T Consensus 276 l~FsIK~LGD~Tk~l~dnLk~G~k~~vdGPYG~F~~~ 312 (438)
T COG4097 276 LRFSIKALGDFTKTLKDNLKVGTKLEVDGPYGKFDFE 312 (438)
T ss_pred EEEEehhhhhhhHHHHHhccCCceEEEecCcceeecc
Confidence 5789999999999999999999999999876555553
No 101
>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=56.77 E-value=1.4e+02 Score=29.83 Aligned_cols=79 Identities=19% Similarity=0.253 Sum_probs=49.1
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeH----HH-HHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD----EL-AHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awG----kl-Ae~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
..|.+.|+|.. +|. .| +++.+.|. +.. .-+.|++-. +. .+.+...|..||.|.|+|.+..
T Consensus 54 ~~v~v~Grv~~---~R~--~g-k~~F~~l~-D~~----g~iQ~~~~~~~~~~~~~~~~~~~l~~gd~V~v~G~~~~---- 118 (496)
T TIGR00499 54 IEVSIAGRIMA---RRS--MG-KATFITLQ-DES----GQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFK---- 118 (496)
T ss_pred CEEEEEEEEEE---Eec--CC-CeEEEEEE-cCC----ccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEE----
Confidence 35899999987 553 34 34444443 332 225554432 21 2223334899999999999953
Q ss_pred cCCCcEEEEEEEEEEEEEEeeCC
Q 025801 162 SGDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 162 dkdG~~r~~~eIva~~I~~L~~k 184 (248)
.+.|+ ++|.++++.+|.+.
T Consensus 119 t~~ge----lel~~~~i~ilsk~ 137 (496)
T TIGR00499 119 TKTGE----LSVHVTELQILTKA 137 (496)
T ss_pred CCCCc----EEEEeeEEEEEecC
Confidence 23343 89999999999754
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=56.14 E-value=38 Score=27.13 Aligned_cols=65 Identities=15% Similarity=0.212 Sum_probs=30.3
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH-HHHHHHhcCcCCEEEEEEEeeeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-AHVASQHVEKGQQIYISGRLVSDV 159 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl-Ae~~~~~LkKGd~V~VeGrL~~~~ 159 (248)
..+.+.|.|.. +.. .++..+ +.+.. .......+.|.+-.+. .......|++||.|.|.|......
T Consensus 68 K~i~vtG~V~~---I~~-~~~~~~--~~~~~--~~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~~ 133 (144)
T PF12869_consen 68 KIIEVTGTVSS---IDK-GFGDNY--VVLLG--TENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGYS 133 (144)
T ss_dssp -EEEEEEEEEE---EEE--STT-E--EEEEE---TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE-----
T ss_pred CEEEEEEEEEE---EEE-cCCCcE--EEEcc--CCCCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEeee
Confidence 45788899975 433 234444 33332 2233445556555443 233444699999999999987653
No 103
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=54.93 E-value=50 Score=34.43 Aligned_cols=63 Identities=17% Similarity=0.244 Sum_probs=47.3
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
-.|++.|.|....... ..++....+.+. . .+.-+.+++|+..| .+.+.+++|..|.|.|.++.
T Consensus 61 ~~vti~g~V~~~~~~~--~~~~~~l~v~~~--d---~~~~l~l~fFn~~~-~l~~~~~~G~~v~v~Gk~~~ 123 (677)
T COG1200 61 EIVTIEGTVLSHEKFP--FGKRKLLKVTLS--D---GTGVLTLVFFNFPA-YLKKKLKVGERVIVYGKVKR 123 (677)
T ss_pred ceEEEEEEEEeeeccC--CCCCceEEEEEe--c---CcEEEEEEEECccH-HHHhhCCCCCEEEEEEEEee
Confidence 5789999998744432 234455555544 2 56788999999877 88888999999999999976
No 104
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=54.82 E-value=1.2e+02 Score=31.76 Aligned_cols=88 Identities=18% Similarity=0.265 Sum_probs=54.3
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH----HHHHHHhcCcCCEEEEEEEeeeeeeec
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL----AHVASQHVEKGQQIYISGRLVSDVVES 162 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl----Ae~~~~~LkKGd~V~VeGrL~~~~y~d 162 (248)
..|.|.|+|.+ +|.. |+ ++.+.|. ++ +..+.|++-.+. .-...+.|+.|+.|.|+|.+..+.-..
T Consensus 19 ~~V~l~GWV~~---~R~~--G~-l~FidLR-D~----~G~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~ 87 (706)
T PRK12820 19 REVCLAGWVDA---FRDH--GE-LLFIHLR-DR----NGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEET 87 (706)
T ss_pred CEEEEEEEEEE---EEcC--CC-cEEEEEE-eC----CccEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCccc
Confidence 46999999976 4443 43 4444443 22 224777664321 122346799999999999998753211
Q ss_pred CC-CcEEEEEEEEEEEEEEeeCCC
Q 025801 163 GD-GQQQTYYKVVVQQLNFVERSS 185 (248)
Q Consensus 163 kd-G~~r~~~eIva~~I~~L~~k~ 185 (248)
++ +...-.+||.++++.+|....
T Consensus 88 ~n~~~~tg~iEl~~~~i~iL~~a~ 111 (706)
T PRK12820 88 ENPHIETGDIEVFVRELSILAASE 111 (706)
T ss_pred cCCCCCCCcEEEEeeEEEEEecCC
Confidence 11 111235899999999997543
No 105
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=54.59 E-value=60 Score=35.88 Aligned_cols=66 Identities=14% Similarity=0.204 Sum_probs=53.0
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeee
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~ 158 (248)
...+.|-|..-.+.++.++|..++.++|.- ++.-+++++|-...+.....+..|..+.|.|.++.+
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~D-----~~g~~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~ 1043 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLED-----ETGILEVVVFPSEYERYRRLLLEGRLLIVKGKVQRR 1043 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCCEEEEEEEec-----CCCcEEEEEcHHHHHHHHHHhccCcEEEEEEEEEec
Confidence 578888888855555544898898888862 333789999988888888999999999999999874
No 106
>PLN02502 lysyl-tRNA synthetase
Probab=54.44 E-value=1.4e+02 Score=30.43 Aligned_cols=79 Identities=16% Similarity=0.230 Sum_probs=50.4
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH-H------HHHHHHhcCcCCEEEEEEEeeeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE-L------AHVASQHVEKGQQIYISGRLVSDV 159 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk-l------Ae~~~~~LkKGd~V~VeGrL~~~~ 159 (248)
..|.+.|+|.. +|.. | .++.+.|. +. +.-+.|++-.+ . -+.+...|..||.|.|+|.+...
T Consensus 109 ~~V~v~GrV~~---~R~~--G-k~~F~~Lr-D~----~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t- 176 (553)
T PLN02502 109 VSVSVAGRIMA---KRAF--G-KLAFYDLR-DD----GGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKT- 176 (553)
T ss_pred CEEEEEEEEEE---EecC--C-CeEEEEEe-cC----CccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEec-
Confidence 45899999987 4443 5 35544443 22 23466655322 1 11233458999999999998643
Q ss_pred eecCCCcEEEEEEEEEEEEEEeeCC
Q 025801 160 VESGDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 160 y~dkdG~~r~~~eIva~~I~~L~~k 184 (248)
+.| .++|.+++|.+|.+.
T Consensus 177 ---~~g----elel~~~~i~vLs~~ 194 (553)
T PLN02502 177 ---KKG----ELSIFPTSFEVLTKC 194 (553)
T ss_pred ---CCC----CEEEEEeEEEEEecc
Confidence 334 489999999999754
No 107
>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.
Probab=53.67 E-value=69 Score=24.46 Aligned_cols=45 Identities=16% Similarity=0.279 Sum_probs=31.0
Q ss_pred EEEEEEEEEecCCCCceEEEEEEeHHHH--H------------------HHHHhcCcCCEEEEEEEeeee
Q 025801 109 VLAWTRLAVRKSATQTSWINLTFWDELA--H------------------VASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 109 ~va~fsLAv~r~~~~t~wi~V~awGklA--e------------------~~~~~LkKGd~V~VeGrL~~~ 158 (248)
.+..|+|. +.|--++|.+|.... + .....++.|+.|.|.|+++..
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 34555554 334458999997632 1 234459999999999999875
No 108
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=51.67 E-value=1.3e+02 Score=29.57 Aligned_cols=80 Identities=18% Similarity=0.314 Sum_probs=49.7
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeH---HHHHHHHHhcCcCCEEEEEEEeeeeeeecC
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD---ELAHVASQHVEKGQQIYISGRLVSDVVESG 163 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awG---klAe~~~~~LkKGd~V~VeGrL~~~~y~dk 163 (248)
..|.+.|+|.. +|.. |+ ++.+.|. + .+.-+.+++-. ...-...+.|..||.|.|+|.+....- +
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 67999999976 5544 43 4434442 2 22334444422 222123356999999999999975321 1
Q ss_pred CCcEEEEEEEEEEEEEEeeC
Q 025801 164 DGQQQTYYKVVVQQLNFVER 183 (248)
Q Consensus 164 dG~~r~~~eIva~~I~~L~~ 183 (248)
. ..++|.|+++.+|..
T Consensus 84 ~----~~~el~~~~i~vl~~ 99 (450)
T PRK03932 84 G----QGYELQATKIEVIGE 99 (450)
T ss_pred C----CCEEEEEEEEEEccC
Confidence 2 257999999999975
No 109
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=50.50 E-value=96 Score=31.59 Aligned_cols=63 Identities=14% Similarity=0.218 Sum_probs=42.6
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
..+++.|.|..... ....+.....+.+. .. .+.-+.+++|+. ..+.+.+++|+.|.|.|.+..
T Consensus 33 ~~~~~~~~v~~~~~--~~~~~~~~~~~~~~--d~--~~~~~~~~~F~~--~~~~~~~~~g~~~~~~Gk~~~ 95 (630)
T TIGR00643 33 ERATIVGEVLSHCI--FGFKRRKVLKLRLK--DG--GYKKLELRFFNR--AFLKKKFKVGSKVVVYGKVKS 95 (630)
T ss_pred CEEEEEEEEEEeEe--ccCCCCceEEEEEE--EC--CCCEEEEEEECC--HHHHhhCCCCCEEEEEEEEEe
Confidence 57899999877322 21233444444443 32 445688999983 366788999999999999965
No 110
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=49.28 E-value=2.5e+02 Score=28.13 Aligned_cols=79 Identities=19% Similarity=0.252 Sum_probs=50.3
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeH-HHH----HHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD-ELA----HVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awG-klA----e~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
..|.+.|+|.. +|.. |+ ++.+.|. +.. .-+.|++-. ... ......+..||.|.|+|.+...
T Consensus 66 ~~v~v~Grv~~---~R~~--Gk-~~F~~lr-D~~----g~iQ~~~~~~~~~~~~~~~~~~~l~~Gd~V~v~G~~~~t--- 131 (505)
T PRK12445 66 IEVSVAGRMMT---RRIM--GK-ASFVTLQ-DVG----GRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKT--- 131 (505)
T ss_pred CEEEEEEEEEE---EecC--CC-cEEEEEE-eCC----ccEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEec---
Confidence 35999999976 5544 54 4444443 322 235565542 111 1123568999999999998653
Q ss_pred cCCCcEEEEEEEEEEEEEEeeCC
Q 025801 162 SGDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 162 dkdG~~r~~~eIva~~I~~L~~k 184 (248)
+.| .++|.|+++.+|.+.
T Consensus 132 -~~g----elel~~~~~~llsk~ 149 (505)
T PRK12445 132 -QTG----ELSIHCTELRLLTKA 149 (505)
T ss_pred -CCC----cEEEEEeEEEEEecC
Confidence 344 489999999999754
No 111
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=48.64 E-value=58 Score=33.58 Aligned_cols=64 Identities=13% Similarity=0.140 Sum_probs=43.7
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeee
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
-..+++.|.|..-..... +.....+.+. +++.-+.|++|+-.-..+.+.+++|+.+.|.|.+..
T Consensus 59 g~~vtv~g~V~~~~~~~~---~~~~~~v~l~-----D~tg~i~l~~F~~n~~~~~~~l~~G~~~~v~Gkv~~ 122 (681)
T PRK10917 59 GEKVTVEGEVLSAEVVFG---KRRRLTVTVS-----DGTGNLTLRFFNFNQPYLKKQLKVGKRVAVYGKVKR 122 (681)
T ss_pred CCEEEEEEEEEEEEEccC---CceEEEEEEE-----ECCeEEEEEEEccCcHHHHhhCCCCCEEEEEEEEEe
Confidence 358999999987533321 4455555553 244468888894112256778999999999999975
No 112
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=48.39 E-value=25 Score=36.20 Aligned_cols=78 Identities=21% Similarity=0.301 Sum_probs=58.1
Q ss_pred CccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCC
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGD 164 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkd 164 (248)
.-..|.+.|.|.+ +++|+ |= +-|+|. ++|.++.+.+|..-..++..++..||.|.|.|.... ++
T Consensus 212 ig~tV~I~GeV~q---ikqT~-GP--TVFtlt-----Detg~i~aAAFe~aGvRAyP~IevGdiV~ViG~V~~-----r~ 275 (715)
T COG1107 212 IGKTVRIEGEVTQ---IKQTS-GP--TVFTLT-----DETGAIWAAAFEEAGVRAYPEIEVGDIVEVIGEVTR-----RD 275 (715)
T ss_pred cCceEEEEEEEEE---EEEcC-CC--EEEEEe-----cCCCceehhhhccCCcccCCCCCCCceEEEEEEEee-----cC
Confidence 3456788899987 77774 42 236664 678889999999888999999999999999999854 46
Q ss_pred CcEEEEEEEEEEEEEEee
Q 025801 165 GQQQTYYKVVVQQLNFVE 182 (248)
Q Consensus 165 G~~r~~~eIva~~I~~L~ 182 (248)
|+. +|.+..++.|.
T Consensus 276 g~l----QiE~~~me~L~ 289 (715)
T COG1107 276 GRL----QIEIEAMEKLT 289 (715)
T ss_pred CcE----EEeehhhHHhh
Confidence 763 44445565554
No 113
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=48.37 E-value=57 Score=24.12 Aligned_cols=47 Identities=9% Similarity=0.041 Sum_probs=29.5
Q ss_pred EEEEEEecCCCCceEEEEEEe--HHHHHHHHHhcCcCCEEEEEEEeeeee
Q 025801 112 WTRLAVRKSATQTSWINLTFW--DELAHVASQHVEKGQQIYISGRLVSDV 159 (248)
Q Consensus 112 ~fsLAv~r~~~~t~wi~V~aw--GklAe~~~~~LkKGd~V~VeGrL~~~~ 159 (248)
.|+++.....+..--+.|... |.....+ ..++.||.|.|+|-+-.-.
T Consensus 50 ~yS~~s~~~~~~~~~~~ik~~~~G~~S~~L-~~l~~Gd~v~i~gP~G~f~ 98 (99)
T PF00970_consen 50 PYSPASSPDDKGYLEFAIKRYPNGRVSRYL-HQLKPGDEVEIRGPYGNFT 98 (99)
T ss_dssp EEEBCSSTTSSSEEEEEEEECTTSHHHHHH-HTSCTTSEEEEEEEESSEE
T ss_pred ceeEeeecCCCCcEEEEEEeccCCHHHHHH-HhCCCCCEEEEEEcccccC
Confidence 344443332222334566667 6677777 5599999999999765433
No 114
>PF10574 UPF0552: Uncharacterised protein family UPF0552; InterPro: IPR018889 This family of proteins has no known function.
Probab=47.83 E-value=39 Score=30.51 Aligned_cols=44 Identities=20% Similarity=0.436 Sum_probs=32.8
Q ss_pred cCcCCEEEEEEEeeee---eeecCCCcEEEEEEEEEEEEEEeeCCCC
Q 025801 143 VEKGQQIYISGRLVSD---VVESGDGQQQTYYKVVVQQLNFVERSSP 186 (248)
Q Consensus 143 LkKGd~V~VeGrL~~~---~y~dkdG~~r~~~eIva~~I~~L~~k~~ 186 (248)
+..|+-|++||.|.-. ...|..|++..++.|.++--..+.++..
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 7899999999999643 3457788888888777776666655444
No 115
>KOG3056 consensus Protein required for S-phase initiation or completion [Cell cycle control, cell division, chromosome partitioning]
Probab=46.15 E-value=68 Score=32.77 Aligned_cols=69 Identities=20% Similarity=0.307 Sum_probs=49.9
Q ss_pred EEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCc
Q 025801 91 LIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (248)
Q Consensus 91 LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~ 166 (248)
.+|-|..--..+.+.+|++|..+.|---+. . .-+.|-+||+ |.-....++.|+.|.| |......|++|-
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 4678889999 6666667999998765 666666667665
No 116
>PLN02221 asparaginyl-tRNA synthetase
Probab=45.57 E-value=1.8e+02 Score=29.81 Aligned_cols=87 Identities=18% Similarity=0.154 Sum_probs=53.7
Q ss_pred cEEEEEEEECCCceEEEcCCCc-EEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 87 NTVHLIGVVGTPIETKHLPSGK-VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~-~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
.+|.|.|.|-+ +|.. |+ .++ |... ++. .....+.|++-.+.. ...+.|+.|+.|.|+|.+..+.-. .+
T Consensus 51 ~~V~I~GWV~~---iR~~--Gk~~i~-Fl~L-RDg-s~~g~iQvVv~~~~~-~~~~~L~~ES~V~V~G~V~~~~~~--~~ 119 (572)
T PLN02221 51 QKVRIGGWVKT---GREQ--GKGTFA-FLEV-NDG-SCPANLQVMVDSSLY-DLSTLVATGTCVTVDGVLKVPPEG--KG 119 (572)
T ss_pred CEEEEEEEEEe---hhhC--CCceEE-EEEE-eCC-cccccEEEEEcCchh-hHHhcCCCceEEEEEEEEEeCCcc--CC
Confidence 46999999977 4332 43 243 3322 222 111357777754322 223468999999999999755321 23
Q ss_pred cEEEEEEEEEEEEEEeeCCC
Q 025801 166 QQQTYYKVVVQQLNFVERSS 185 (248)
Q Consensus 166 ~~r~~~eIva~~I~~L~~k~ 185 (248)
.+ ..+||.+++|.+|....
T Consensus 120 ~~-~~iEl~v~~i~vl~~a~ 138 (572)
T PLN02221 120 TK-QKIELSVEKVIDVGTVD 138 (572)
T ss_pred CC-ccEEEEEeEEEEEecCC
Confidence 22 37999999999997543
No 117
>PRK07218 replication factor A; Provisional
Probab=45.33 E-value=68 Score=31.56 Aligned_cols=57 Identities=26% Similarity=0.369 Sum_probs=40.9
Q ss_pred ccEEEEEEEECCCceEEEcC-CCc--EEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEE
Q 025801 86 TNTVHLIGVVGTPIETKHLP-SGK--VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGR 154 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~-nG~--~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGr 154 (248)
+..|.+.|+|..-.+ |+++ +|. .+....|+ ++|--+++++|++.+ |+.||.|.|.+-
T Consensus 68 ~~~V~v~~kVl~i~~-rt~r~dg~~g~v~~~~ig-----DeTG~Ir~tlW~~~~------l~~Gdvv~I~na 127 (423)
T PRK07218 68 DKNVTVTGRVLTIGE-RSIRYQGDDHVIYEGILA-----DETGTISYTAWKDFG------LSPGDTVTIGNA 127 (423)
T ss_pred CceeEEEEEEEEecc-eeEecCCCceEEEEEEEE-----CCCCeEEEEEECCCC------CCCCCEEEEecc
Confidence 689999999987554 3332 343 34444443 678889999999653 999999999963
No 118
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=42.41 E-value=97 Score=31.28 Aligned_cols=79 Identities=14% Similarity=0.205 Sum_probs=52.8
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHH------HHHHHHHhcCcCCEEEEEEEeeeeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDE------LAHVASQHVEKGQQIYISGRLVSDVV 160 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGk------lAe~~~~~LkKGd~V~VeGrL~~~~y 160 (248)
-.+.+.|||.. .|+ +|.+++.|.|--+. .+ +.|.+--+ .-+...++|++||-|.+.|+.-..
T Consensus 105 ~~~svaGRI~s---~R~--sGsKL~Fydl~~~g-~k----lQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgrt-- 172 (560)
T KOG1885|consen 105 EIVSVAGRIHS---KRE--SGSKLVFYDLHGDG-VK----LQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGRT-- 172 (560)
T ss_pred ceeeeeeeEee---eec--cCCceEEEEEecCC-eE----EEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCcC--
Confidence 34899999987 444 47778888776442 11 44443222 234567889999999999987332
Q ss_pred ecCCCcEEEEEEEEEEEEEEeeC
Q 025801 161 ESGDGQQQTYYKVVVQQLNFVER 183 (248)
Q Consensus 161 ~dkdG~~r~~~eIva~~I~~L~~ 183 (248)
+.| -+.|.+++|.+|..
T Consensus 173 --~~g----ELSi~~~~~~lLsp 189 (560)
T KOG1885|consen 173 --KSG----ELSIIPNEIILLSP 189 (560)
T ss_pred --CCc----eEEEeecchheecc
Confidence 233 57888999987753
No 119
>PRK07218 replication factor A; Provisional
Probab=41.50 E-value=87 Score=30.81 Aligned_cols=59 Identities=24% Similarity=0.276 Sum_probs=40.7
Q ss_pred ccEEEEEEEECCCceEEE--cCCCcE-EEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEe
Q 025801 86 TNTVHLIGVVGTPIETKH--LPSGKV-LAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRL 155 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~--t~nG~~-va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL 155 (248)
++.|++.|+|..-.. |. .++|.. +.+..| .++|--+++++|++++ .|..||.|.|.+-.
T Consensus 172 ~~~V~v~g~Vl~~~~-r~f~~~dg~~~v~~gii-----gDeTG~Ir~tlW~~~~-----~l~~Gd~v~I~na~ 233 (423)
T PRK07218 172 DRGVNVEARVLELEH-REIDGRDGETTILSGVL-----ADETGRLPFTDWDPLP-----EIEIGASIRIEDAY 233 (423)
T ss_pred CCceEEEEEEEEecc-eeEEcCCCCeEEEEEEE-----ECCCceEEEEEecccc-----cCCCCCEEEEeeeE
Confidence 678999999986422 33 234532 222222 3677889999999865 38999999999854
No 120
>PLN02603 asparaginyl-tRNA synthetase
Probab=41.06 E-value=4.1e+02 Score=27.17 Aligned_cols=87 Identities=15% Similarity=0.217 Sum_probs=52.3
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHH-HHHH--hcCcCCEEEEEEEeeeeee
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH-VASQ--HVEKGQQIYISGRLVSDVV 160 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe-~~~~--~LkKGd~V~VeGrL~~~~y 160 (248)
..-..|.|.|.|-. +|.. | .++ |-.. ++. ....-+.|++=.+... .... .|..|+.|.|+|.+...
T Consensus 105 ~~g~~V~v~GwV~~---iR~~--g-~~~-Fi~l-~Dg-s~~~~lQ~v~~~~~~~~~~l~~~~l~~gs~V~V~G~v~~~-- 173 (565)
T PLN02603 105 RVGKTLNVMGWVRT---LRAQ--S-SVT-FIEV-NDG-SCLSNMQCVMTPDAEGYDQVESGLITTGASVLVQGTVVSS-- 173 (565)
T ss_pred cCCCEEEEEEEEEE---EEeC--C-CeE-EEEE-ECC-CCCEeEEEEEECcHHHHHHHhhcCCCCCCEEEEEEEEEec--
Confidence 34567999999974 5543 3 243 3333 221 1123466665332211 1112 48899999999999753
Q ss_pred ecCCCcEEEEEEEEEEEEEEeeCCC
Q 025801 161 ESGDGQQQTYYKVVVQQLNFVERSS 185 (248)
Q Consensus 161 ~dkdG~~r~~~eIva~~I~~L~~k~ 185 (248)
+.++ ..+||.|++|.+|....
T Consensus 174 --~~~~--~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 174 --QGGK--QKVELKVSKIVVVGKSD 194 (565)
T ss_pred --CCCC--ccEEEEEeEEEEEECCC
Confidence 2333 46899999999997654
No 121
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=38.92 E-value=3.3e+02 Score=30.16 Aligned_cols=79 Identities=13% Similarity=0.191 Sum_probs=50.2
Q ss_pred cEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHH-----HHHHHHhcCcCCEEEEEEEeeeeeee
Q 025801 87 NTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDEL-----AHVASQHVEKGQQIYISGRLVSDVVE 161 (248)
Q Consensus 87 N~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGkl-----Ae~~~~~LkKGd~V~VeGrL~~~~y~ 161 (248)
..|.+.|+|.+ +|.. | +++.+.|. +. +.-+.|++=.+. -+...+.+..||.|.|+|.+...
T Consensus 652 ~~V~v~Grv~~---~R~~--G-~~~F~~lr-D~----~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t--- 717 (1094)
T PRK02983 652 EEVSVSGRVLR---IRDY--G-GVLFADLR-DW----SGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTS--- 717 (1094)
T ss_pred CEEEEEEEEEE---EeeC--C-CeEEEEEE-eC----CeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEc---
Confidence 36999999976 5543 4 35444443 22 234666553221 12233458999999999999653
Q ss_pred cCCCcEEEEEEEEEEEEEEeeCC
Q 025801 162 SGDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 162 dkdG~~r~~~eIva~~I~~L~~k 184 (248)
+.| .++|.+++++++.+.
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 379999999999744
No 122
>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=38.52 E-value=44 Score=27.39 Aligned_cols=27 Identities=19% Similarity=0.319 Sum_probs=23.6
Q ss_pred eEEEEEEeHHHHHHHHHhcCcCCEEEEE
Q 025801 125 SWINLTFWDELAHVASQHVEKGQQIYIS 152 (248)
Q Consensus 125 ~wi~V~awGklAe~~~~~LkKGd~V~Ve 152 (248)
.-+.|.+|++=|+.+.+ |+.||.|.+.
T Consensus 60 ~ti~It~yD~H~~~ar~-lK~GdfV~L~ 86 (123)
T cd04498 60 LTIDILVYDNHVELAKS-LKPGDFVRIY 86 (123)
T ss_pred EEEEEEEEcchHHHHhh-CCCCCEEEEE
Confidence 55999999998887776 9999999886
No 123
>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=36.61 E-value=1.3e+02 Score=30.82 Aligned_cols=67 Identities=19% Similarity=0.243 Sum_probs=40.8
Q ss_pred EEEEEEEECCCceEEE---cCCCcEEEEEEEEEecCCCCce-EEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeee
Q 025801 88 TVHLIGVVGTPIETKH---LPSGKVLAWTRLAVRKSATQTS-WINLTFWDELAHVASQHVEKGQQIYISGRLVSDVV 160 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~---t~nG~~va~fsLAv~r~~~~t~-wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y 160 (248)
-|.++|.|..-=++.. -.+|+..-.-.|...+ ++. -++|++||+.|+.+. ..+|+.|.+.|- +...|
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--VSVQPVIAIKGV-RVSDF 382 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEEe---CCCCEEEEEEEhhhhhhcC--CCCCCEEEEEeE-EEEec
Confidence 5677787775322222 1245544333333322 233 589999999998765 678999999873 33445
No 124
>smart00350 MCM minichromosome maintenance proteins.
Probab=34.85 E-value=79 Score=31.37 Aligned_cols=57 Identities=7% Similarity=0.086 Sum_probs=40.9
Q ss_pred ceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecC----CCcEEEEEEEEEEEEEEeeCC
Q 025801 124 TSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESG----DGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 124 t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dk----dG~~r~~~eIva~~I~~L~~k 184 (248)
...+.|.+.+++.+ .++.||+|.|.|-++.+.|..+ .+...+.+.+.+..|..++.+
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 46799999998765 5789999999999998765322 222235567777777777543
No 125
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=34.49 E-value=2.3e+02 Score=27.98 Aligned_cols=67 Identities=13% Similarity=0.212 Sum_probs=46.9
Q ss_pred CCccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHH--HHHHhcCcCCEEEEEEEeeeee
Q 025801 84 ELTNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAH--VASQHVEKGQQIYISGRLVSDV 159 (248)
Q Consensus 84 ~~mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe--~~~~~LkKGd~V~VeGrL~~~~ 159 (248)
...-+..+.|++..+|.... +|..+ |.+. +..--|.|.||-...+ .++..|.+||.|.+.|.++...
T Consensus 264 ~~~~~~~v~g~v~~~p~~ie--Gghv~--v~i~-----d~~G~I~~~A~eptk~fr~~a~~L~pGD~i~~~G~~~~~~ 332 (421)
T COG1571 264 EDYSKYRVVGRVEAEPRAIE--GGHVV--VEIT-----DGEGEIGAVAFEPTKEFRELARKLIPGDEITVYGSVKPGT 332 (421)
T ss_pred hhccceEEEEEEecccEEee--CCEEE--EEec-----CCCceEEEEEecccccchHHHHhcCCCCEEEEecCccccc
Confidence 45778999999999987643 56443 3322 1222788999876433 2456699999999999997654
No 126
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=34.18 E-value=3e+02 Score=27.91 Aligned_cols=81 Identities=21% Similarity=0.339 Sum_probs=50.6
Q ss_pred EEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeH-HHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcE
Q 025801 89 VHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD-ELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQ 167 (248)
Q Consensus 89 V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awG-klAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~ 167 (248)
|.+.|||.. .|.. | +.+.+.|- +.+.+--.|++-..-+ +..+...+.+..||.|.|+|.+-.. +.|+
T Consensus 64 v~vAGRi~~---~R~~--G-K~~F~~i~-d~~gkiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~T----~~Ge- 131 (502)
T COG1190 64 VSVAGRIMT---IRNM--G-KASFADLQ-DGSGKIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFKT----KTGE- 131 (502)
T ss_pred eEEecceee---eccc--C-ceeEEEEe-cCCceEEEEEeccccchhhHHHHHhccccCCEEeeeeeeeec----CCCc-
Confidence 899999876 4433 6 45555554 3333333344433222 2445556778889999999999543 3454
Q ss_pred EEEEEEEEEEEEEeeCC
Q 025801 168 QTYYKVVVQQLNFVERS 184 (248)
Q Consensus 168 r~~~eIva~~I~~L~~k 184 (248)
..|.|+++.+|.+.
T Consensus 132 ---lSv~v~~~~lLsKs 145 (502)
T COG1190 132 ---LSVSVEELRLLSKS 145 (502)
T ss_pred ---eEEEEEEEeeeccc
Confidence 57888889888543
No 127
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=33.99 E-value=1.8e+02 Score=31.81 Aligned_cols=63 Identities=13% Similarity=-0.032 Sum_probs=47.1
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeee
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~ 158 (248)
.+.+.|.|..--.. . ++|+..+.+++. +.+.=+.|++|.+.-+.... +.+|+.+.|+|+...+
T Consensus 899 ~~~v~g~i~~~~~~-~-K~g~~maf~~~e-----D~~~~~e~~~F~~~~~~~~~-l~~~~~~~~~~~~~~~ 961 (973)
T PRK07135 899 EYRLAIEVKNVKRL-R-KANKEYKKVILS-----DDSVEITIFVNDNDYLLFET-LKKGDIYEFLISKSKN 961 (973)
T ss_pred eEEEEEEEEEEEEE-e-eCCCeEEEEEEE-----ECCCcEEEEEcHHHHHHHHH-hhcCCEEEEEEEEcCC
Confidence 46788877764443 3 778888877776 34445889999997777664 9999999999987554
No 128
>KOG3873 consensus Sphingomyelinase family protein [Signal transduction mechanisms]
Probab=33.39 E-value=22 Score=34.53 Aligned_cols=115 Identities=18% Similarity=0.157 Sum_probs=74.8
Q ss_pred ccceeeeeccCCCc-----c--eeeecCCCCcccccccCCC----CCCCccccCCCCccEEEEEEEECCCceEEEcC--C
Q 025801 40 TKQAWFISHRQPLK-----L--RLRCSVDCKDHQYSSQVSY----PKPPEIPWDKELTNTVHLIGVVGTPIETKHLP--S 106 (248)
Q Consensus 40 ~~~~~~~s~~~~~~-----~--~l~cs~~~~~~~~~~~~~~----~rP~~i~~~~~~mN~V~LiGrLg~dPelr~t~--n 106 (248)
....|-+.+-|-.| . .=.|++.|.-.+|-|+... --.+-.|.....+|+..|-|+--. +.... .
T Consensus 38 ~~E~yDiv~LQEvWs~eD~~~L~~~~ss~yPysh~FHSGimGaGL~vfSK~PI~~t~~~~y~lNG~p~~---i~rGDWf~ 114 (422)
T KOG3873|consen 38 ASEKYDIVSLQEVWSQEDFEYLQSGCSSVYPYSHYFHSGIMGAGLCVFSKHPILETLFHRYSLNGYPHA---IHRGDWFG 114 (422)
T ss_pred hhcccchhhHHHHHHHHHHHHHHHhccccCchHHhhhcccccCceEEeecCchhhhhhhccccCCccce---eeeccccc
Confidence 33456666666554 2 3358888887666664443 223445777789999999998544 22222 4
Q ss_pred CcEEEEEEEEEecCC-------------CCce-E--EE-EEEeHHHHHHHHHhcCcCCEEEEEEEeeee
Q 025801 107 GKVLAWTRLAVRKSA-------------TQTS-W--IN-LTFWDELAHVASQHVEKGQQIYISGRLVSD 158 (248)
Q Consensus 107 G~~va~fsLAv~r~~-------------~~t~-w--i~-V~awGklAe~~~~~LkKGd~V~VeGrL~~~ 158 (248)
||.|...+|-+.... +..| | |+ +.+|. +|+.+...-++||.|.+.|.|...
T Consensus 115 GK~Vgl~~l~~~g~~v~~yntHLHAeY~rq~D~YL~HR~~QAwd-laqfi~~t~q~~~vVI~~GDLN~~ 182 (422)
T KOG3873|consen 115 GKGVGLTVLLVGGRMVNLYNTHLHAEYDRQNDEYLCHRVAQAWD-LAQFIRATRQNADVVILAGDLNMQ 182 (422)
T ss_pred cceeEEEEEeeCCEEeeeeehhccccccccCchhhhHHHHHHHH-HHHHHHHHhcCCcEEEEecCCCCC
Confidence 777777777765431 2222 3 33 35676 688888889999999999999775
No 129
>PRK06386 replication factor A; Reviewed
Probab=29.19 E-value=1.8e+02 Score=27.97 Aligned_cols=79 Identities=14% Similarity=0.228 Sum_probs=51.9
Q ss_pred CccEEEEEEEECCCceEEEcCCC--cEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeec
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSG--KVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVES 162 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG--~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~d 162 (248)
-+..|++.|+|..-++-....+| ..+....|+ ++|--++++.|++ .|..|+.|.|.+-. .+.|.
T Consensus 116 g~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg-----DeTGrIr~TlW~~-------~l~eGd~v~i~na~-v~e~~- 181 (358)
T PRK06386 116 VTPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE-----DDTARVRISSFGK-------PLEDNRFVRIENAR-VSQYN- 181 (358)
T ss_pred CCCceEEEEEEEEccCceEecCCCccEEEEEEEE-----cCCCeEEEEEccc-------cccCCCEEEEeeeE-EEccC-
Confidence 36789999999875552222233 234444443 6788899999996 48999999999843 33342
Q ss_pred CCCcEEEEEEEEEEEEEEeeC
Q 025801 163 GDGQQQTYYKVVVQQLNFVER 183 (248)
Q Consensus 163 kdG~~r~~~eIva~~I~~L~~ 183 (248)
-.++|.+.+..-+..
T Consensus 182 ------G~~el~v~~~t~I~~ 196 (358)
T PRK06386 182 ------GYIEISVGNKSVIKE 196 (358)
T ss_pred ------CeEEEEeCCeEEEEE
Confidence 345777766666643
No 130
>COG3689 Predicted membrane protein [Function unknown]
Probab=27.66 E-value=2.4e+02 Score=26.26 Aligned_cols=88 Identities=10% Similarity=0.081 Sum_probs=58.0
Q ss_pred ccEEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCC
Q 025801 86 TNTVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDG 165 (248)
Q Consensus 86 mN~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG 165 (248)
-.++.++|.|-+|..+. +|--.+++|-|.+=-- ++.-+-..+-++ . ...++..+.|.|+|.|.+..+.|.
T Consensus 175 Gk~Ie~tGFVy~~~~~~--~N~lflaRFgiicC~A--Da~vygl~v~~~---~-~~~y~ndtWltvkGtl~~e~~~~~-- 244 (271)
T COG3689 175 GKKIEFTGFVYNDESFP--KNYLFLARFGIICCAA--DAGVYGLLVELD---N-QTDYKNDTWLTVKGTLSSEYLSDF-- 244 (271)
T ss_pred CceEEEEEEEECCCCCC--cceeehhhhheeeeec--cceeEEEEEEcc---c-cccCCCCceEEEEeEEEeeecCch--
Confidence 35799999999987653 2445677776655321 222222223222 2 234789999999999999887643
Q ss_pred cEEEEEEEEEEEEEEeeCC
Q 025801 166 QQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 166 ~~r~~~eIva~~I~~L~~k 184 (248)
+..-..|.|++++.++.+
T Consensus 245 -~~~ipvi~v~sv~~I~kP 262 (271)
T COG3689 245 -KKRIPVIEVDSVEVIPKP 262 (271)
T ss_pred -hhcCcEEEeeeeeecCCC
Confidence 445668889999998543
No 131
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=26.90 E-value=43 Score=27.24 Aligned_cols=24 Identities=33% Similarity=0.440 Sum_probs=20.2
Q ss_pred HHHHHHHHhcCcCCEEEEEEEeee
Q 025801 134 ELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 134 klAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
++|+.+++.|++|+.|.++|.|-.
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 478899999999999999999843
No 132
>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=26.06 E-value=1.6e+02 Score=23.27 Aligned_cols=42 Identities=12% Similarity=0.109 Sum_probs=25.3
Q ss_pred EEEEEEecCCCCceEEEEEEeHH--HHHHHHHhcCcCCEEEEEE
Q 025801 112 WTRLAVRKSATQTSWINLTFWDE--LAHVASQHVEKGQQIYISG 153 (248)
Q Consensus 112 ~fsLAv~r~~~~t~wi~V~awGk--lAe~~~~~LkKGd~V~VeG 153 (248)
.|+|.--+.......|.++..|. -|-..+..++.||.|.|.|
T Consensus 69 ~YTvR~~d~~~~~l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~g 112 (117)
T PF08021_consen 69 TYTVRRFDPETGELDIDFVLHGDEGPASRWARSARPGDRVGVTG 112 (117)
T ss_dssp EEE--EEETT--EEEEEEE--SS--HHHHHHHH--TT-EEEEEE
T ss_pred CcCEeeEcCCCCEEEEEEEECCCCCchHHHHhhCCCCCEEEEeC
Confidence 45665555455677788888885 6777788899999999988
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=24.86 E-value=1.5e+02 Score=24.99 Aligned_cols=32 Identities=6% Similarity=0.178 Sum_probs=23.5
Q ss_pred EEEeHHHHHHHHHhcCcCCEEEEEEEeeeeee
Q 025801 129 LTFWDELAHVASQHVEKGQQIYISGRLVSDVV 160 (248)
Q Consensus 129 V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y 160 (248)
|..-|.....+.+.++.||.|.|.|-.-.-.+
T Consensus 60 vk~~G~~t~~l~~~l~~G~~v~i~gP~G~~~~ 91 (216)
T cd06198 60 IKALGDYTRRLAERLKPGTRVTVEGPYGRFTF 91 (216)
T ss_pred EEeCChHHHHHHHhCCCCCEEEEECCCCCCcc
Confidence 33447767777778999999999997654434
No 134
>PRK10646 ADP-binding protein; Provisional
Probab=24.74 E-value=63 Score=27.32 Aligned_cols=24 Identities=21% Similarity=0.386 Sum_probs=21.3
Q ss_pred HHHHHHHHhcCcCCEEEEEEEeee
Q 025801 134 ELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 134 klAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
++|+.+++.|+.|+.|.++|.|-.
T Consensus 16 ~l~~~la~~l~~g~vi~L~GdLGa 39 (153)
T PRK10646 16 DLGARVAKACDGATVIYLYGDLGA 39 (153)
T ss_pred HHHHHHHHhCCCCcEEEEECCCCC
Confidence 578899999999999999999854
No 135
>COG1018 Hmp Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]
Probab=24.62 E-value=1.1e+02 Score=27.80 Aligned_cols=50 Identities=12% Similarity=0.068 Sum_probs=32.6
Q ss_pred EEEEEecCCCCceEEEEEEe--HHHHHHHHHhcCcCCEEEEEEEeeeeeeec
Q 025801 113 TRLAVRKSATQTSWINLTFW--DELAHVASQHVEKGQQIYISGRLVSDVVES 162 (248)
Q Consensus 113 fsLAv~r~~~~t~wi~V~aw--GklAe~~~~~LkKGd~V~VeGrL~~~~y~d 162 (248)
+||+.....+....|.|..= |.....+.+++++||.|.|.+---.-.+.+
T Consensus 56 YSl~s~p~~~~~~~isVk~~~~G~~S~~Lh~~lk~Gd~l~v~~P~G~F~l~~ 107 (266)
T COG1018 56 YSLSSAPDEDSLYRISVKREDGGGGSNWLHDHLKVGDTLEVSAPAGDFVLDD 107 (266)
T ss_pred EEeccCCCCCceEEEEEEEeCCCcccHHHHhcCCCCCEEEEecCCCCccCCC
Confidence 34443332233566777776 567778888999999999976555445543
No 136
>PLN02532 asparagine-tRNA synthetase
Probab=23.88 E-value=1.6e+02 Score=30.58 Aligned_cols=54 Identities=15% Similarity=0.133 Sum_probs=38.5
Q ss_pred EEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCcEEEEEEEEEEEEEEeeCC
Q 025801 126 WINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVESGDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 126 wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~~r~~~eIva~~I~~L~~k 184 (248)
.+.|++-++.+... +.|+.|+.|.|+|.+..+ ++.+ ....+||.|++|.+|...
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 37787765543322 679999999999999775 1111 234589999999999753
No 137
>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=23.48 E-value=2.3e+02 Score=23.89 Aligned_cols=84 Identities=17% Similarity=0.242 Sum_probs=43.3
Q ss_pred CccEEEEEEEECCCceEEEcCCCc-EEEEEEEEEecCCCCceEEEEEEeHHHHHHHHH-hcCcCCEEEEEEEeeeeeeec
Q 025801 85 LTNTVHLIGVVGTPIETKHLPSGK-VLAWTRLAVRKSATQTSWINLTFWDELAHVASQ-HVEKGQQIYISGRLVSDVVES 162 (248)
Q Consensus 85 ~mN~V~LiGrLg~dPelr~t~nG~-~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~-~LkKGd~V~VeGrL~~~~y~d 162 (248)
+++.|-++|.|..- .+. .|- +++..+ .+..+++-|.+|+.+.+...+ -++.|..|.++= |+.+ .
T Consensus 17 p~~EvD~VG~VvsV--~~~--~~f~~~vYLs------D~~~Nll~Ikfw~~l~~~~~eDilk~~~liA~SN-LqwR---~ 82 (143)
T PF09104_consen 17 PYGEVDTVGFVVSV--SKK--QGFQPLVYLS------DECHNLLAIKFWTGLNQYGYEDILKPGSLIAASN-LQWR---P 82 (143)
T ss_dssp CCCEEEEEEEEEEE--E----TTS--EEEEE-------TTS-EEEEEESS-------SS---TT-EEEEEE-EEE----S
T ss_pred CccccceEEEEEEE--Eec--CCCceeEEee------cCCccEEEEEeccCccccchhhhcCcceEEEEee-eEee---c
Confidence 68999999999873 221 232 323332 567889999999998877544 579999998873 3332 1
Q ss_pred CCCcEEEEEEEEEEEEEEeeCC
Q 025801 163 GDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 163 kdG~~r~~~eIva~~I~~L~~k 184 (248)
+.+...-.+.|.++......
T Consensus 83 --~s~s~iP~~~A~d~S~FS~n 102 (143)
T PF09104_consen 83 --ESTSGIPTLFATDLSVFSAN 102 (143)
T ss_dssp ---TTSSS-EEEEECCEEEESS
T ss_pred --ccccCCCeeEeccceeeecC
Confidence 11122356778888877543
No 138
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=23.00 E-value=76 Score=26.91 Aligned_cols=24 Identities=21% Similarity=0.397 Sum_probs=21.2
Q ss_pred HHHHHHHHhcCcCCEEEEEEEeee
Q 025801 134 ELAHVASQHVEKGQQIYISGRLVS 157 (248)
Q Consensus 134 klAe~~~~~LkKGd~V~VeGrL~~ 157 (248)
++|+.+++.|++|+.|.++|.|-.
T Consensus 13 ~lg~~l~~~l~~g~Vv~L~GdLGA 36 (149)
T COG0802 13 ALGERLAEALKAGDVVLLSGDLGA 36 (149)
T ss_pred HHHHHHHhhCCCCCEEEEEcCCcC
Confidence 478889999999999999999854
No 139
>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=21.49 E-value=2.2e+02 Score=24.52 Aligned_cols=42 Identities=19% Similarity=0.253 Sum_probs=28.6
Q ss_pred EEEEEEEEEecCCCCceEEEEEEeHHHHHHHHHhcCcCCEEEEE
Q 025801 109 VLAWTRLAVRKSATQTSWINLTFWDELAHVASQHVEKGQQIYIS 152 (248)
Q Consensus 109 ~va~fsLAv~r~~~~t~wi~V~awGklAe~~~~~LkKGd~V~Ve 152 (248)
.|..|.+.+-+. .+.-.+=.-|...+..+...+++||+|+|.
T Consensus 132 ~V~~f~~~~~~~--~~~~~~G~~~s~~~~~~l~~~~~Gd~i~I~ 173 (181)
T PF12080_consen 132 RVTSFEVVFPRQ--PPVKVNGNKFSARAKSALRKAKRGDRIYIS 173 (181)
T ss_pred EEEEEEEEecCC--cceecccccccHHHHHHHHhcCCCCEEEEE
Confidence 566777766554 222333344566777788889999999986
No 140
>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=21.33 E-value=1.3e+02 Score=25.00 Aligned_cols=68 Identities=19% Similarity=0.153 Sum_probs=37.5
Q ss_pred EEEEEEEECCCceEEEcCCCcEEEEEEEEEecCCCCceEEEEEEeH-HHHHHHHHhcCcCCEEEEEEEeeeeeeecCCCc
Q 025801 88 TVHLIGVVGTPIETKHLPSGKVLAWTRLAVRKSATQTSWINLTFWD-ELAHVASQHVEKGQQIYISGRLVSDVVESGDGQ 166 (248)
Q Consensus 88 ~V~LiGrLg~dPelr~t~nG~~va~fsLAv~r~~~~t~wi~V~awG-klAe~~~~~LkKGd~V~VeGrL~~~~y~dkdG~ 166 (248)
.|.-.|.|.+--. .-..|..--+|-|..... .+- .| +-+ ++|..+ .-|+|||.|.+.|+. .|.++.|.
T Consensus 38 qv~g~G~V~~vLp--dd~~GsrHQ~Fiv~l~~g--~tl--lI-ahNIDlapri-p~l~~GD~V~f~GeY---e~n~kggv 106 (131)
T PF11948_consen 38 QVSGCGTVVKVLP--DDNKGSRHQRFIVRLSSG--QTL--LI-AHNIDLAPRI-PWLQKGDQVEFYGEY---EWNPKGGV 106 (131)
T ss_pred eEeccEEEEEECc--ccCCCCcceEEEEEeCCC--CEE--EE-EeccCccccC-cCcCCCCEEEEEEEE---EECCCCCE
Confidence 4455777766211 112344455666666442 222 12 222 356555 349999999999998 45544443
No 141
>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=21.12 E-value=79 Score=26.49 Aligned_cols=23 Identities=17% Similarity=0.413 Sum_probs=20.2
Q ss_pred EeHHHHHHHHHhcCcCCEEEEEE
Q 025801 131 FWDELAHVASQHVEKGQQIYISG 153 (248)
Q Consensus 131 awGklAe~~~~~LkKGd~V~VeG 153 (248)
+.|.+|..+++.|.-||.|.|--
T Consensus 9 vlGRLAs~IA~~L~~Gd~VvViN 31 (142)
T TIGR01077 9 ILGRLASVVAKQLLNGEKVVVVN 31 (142)
T ss_pred chHHHHHHHHHHHhcCCEEEEEe
Confidence 46889999999999999999864
No 142
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=20.01 E-value=2.8e+02 Score=30.18 Aligned_cols=56 Identities=23% Similarity=0.361 Sum_probs=38.6
Q ss_pred eEEEEEEeHHHHHHHHHhcCcCCEEEEEEEeeeeeee-c---CCCcEEEEEEEEEEEEEEeeCC
Q 025801 125 SWINLTFWDELAHVASQHVEKGQQIYISGRLVSDVVE-S---GDGQQQTYYKVVVQQLNFVERS 184 (248)
Q Consensus 125 ~wi~V~awGklAe~~~~~LkKGd~V~VeGrL~~~~y~-d---kdG~~r~~~eIva~~I~~L~~k 184 (248)
.-+.|.+.+++.+ .++.||+|.|.|-++...-. . +.....+.+-+.|.+|+.++..
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 5689999998765 57899999999999875321 0 1122345566777778777543
Done!