Query 021274
Match_columns 315
No_of_seqs 166 out of 1076
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 08:58:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021274.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021274hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06752 single-stranded DNA-b 99.9 2.8E-26 6.1E-31 189.3 14.4 98 68-165 1-108 (112)
2 PRK07275 single-stranded DNA-b 99.9 4.1E-26 8.9E-31 201.0 13.8 97 68-164 1-107 (162)
3 PRK07459 single-stranded DNA-b 99.9 9.8E-26 2.1E-30 189.6 15.3 99 68-166 2-107 (121)
4 PRK08486 single-stranded DNA-b 99.9 4.5E-25 9.8E-30 197.7 14.4 98 68-165 1-110 (182)
5 PRK06751 single-stranded DNA-b 99.9 1.1E-24 2.3E-29 193.9 14.4 98 68-165 1-108 (173)
6 PRK08182 single-stranded DNA-b 99.9 2E-24 4.4E-29 187.4 15.6 99 68-166 1-116 (148)
7 PRK07274 single-stranded DNA-b 99.9 3.9E-24 8.4E-29 181.6 14.1 99 68-166 1-108 (131)
8 PRK08763 single-stranded DNA-b 99.9 4.7E-24 1E-28 188.4 14.7 99 66-164 2-112 (164)
9 PRK13732 single-stranded DNA-b 99.9 9.1E-24 2E-28 188.4 14.5 100 67-166 4-118 (175)
10 PRK06293 single-stranded DNA-b 99.9 1.1E-23 2.3E-28 185.8 14.7 96 69-164 1-103 (161)
11 PRK06642 single-stranded DNA-b 99.9 1.7E-23 3.8E-28 182.3 15.4 100 67-166 3-120 (152)
12 PRK09010 single-stranded DNA-b 99.9 3E-23 6.4E-28 185.4 14.9 100 67-166 4-119 (177)
13 PRK06863 single-stranded DNA-b 99.9 5.6E-23 1.2E-27 182.3 15.8 98 69-166 4-114 (168)
14 PRK06958 single-stranded DNA-b 99.9 4.6E-23 9.9E-28 185.0 14.2 97 69-165 4-113 (182)
15 PRK05733 single-stranded DNA-b 99.9 1.4E-22 3E-27 180.3 14.8 100 66-165 2-116 (172)
16 TIGR00621 ssb single stranded 99.9 2E-22 4.4E-27 176.9 14.1 98 67-164 2-111 (164)
17 PF00436 SSB: Single-strand bi 99.9 1.9E-22 4E-27 160.1 10.4 92 69-160 1-104 (104)
18 PRK06341 single-stranded DNA-b 99.9 6.1E-22 1.3E-26 175.4 14.6 98 67-164 3-118 (166)
19 PRK05813 single-stranded DNA-b 99.9 1E-21 2.2E-26 180.6 14.3 97 67-164 107-211 (219)
20 PRK02801 primosomal replicatio 99.9 1.7E-21 3.6E-26 159.2 13.2 92 68-161 1-101 (101)
21 COG0629 Ssb Single-stranded DN 99.9 1.3E-21 2.8E-26 171.6 11.6 98 68-165 2-116 (167)
22 PRK07772 single-stranded DNA-b 99.9 6E-21 1.3E-25 171.8 13.5 91 68-158 3-107 (186)
23 PRK05853 hypothetical protein; 99.8 4.6E-19 1E-23 156.4 11.4 85 74-159 1-98 (161)
24 cd04496 SSB_OBF SSB_OBF: A sub 99.8 1.9E-18 4.2E-23 135.6 13.0 89 72-160 1-100 (100)
25 PRK05813 single-stranded DNA-b 99.7 3E-17 6.4E-22 151.2 13.6 94 69-164 8-104 (219)
26 KOG1653 Single-stranded DNA-bi 99.6 7.4E-15 1.6E-19 129.9 7.3 98 67-164 53-168 (175)
27 PRK00036 primosomal replicatio 98.5 1.1E-06 2.3E-11 73.7 9.8 90 69-162 1-98 (107)
28 COG2965 PriB Primosomal replic 98.2 2.4E-05 5.2E-10 64.9 11.7 94 67-161 2-103 (103)
29 PF01336 tRNA_anti-codon: OB-f 97.3 0.0019 4.2E-08 47.6 8.6 75 72-160 1-75 (75)
30 cd04489 ExoVII_LU_OBF ExoVII_L 97.1 0.013 2.8E-07 44.2 10.8 74 72-158 2-75 (78)
31 cd04484 polC_OBF polC_OBF: A s 96.5 0.055 1.2E-06 42.7 10.7 68 72-145 2-71 (82)
32 cd04487 RecJ_OBF2_like RecJ_OB 96.1 0.063 1.4E-06 41.7 9.0 72 72-159 1-72 (73)
33 cd03524 RPA2_OBF_family RPA2_O 96.0 0.13 2.9E-06 36.2 9.7 47 90-140 15-62 (75)
34 cd04492 YhaM_OBF_like YhaM_OBF 95.9 0.086 1.9E-06 39.4 9.0 74 80-164 7-80 (83)
35 cd04474 RPA1_DBD_A RPA1_DBD_A: 95.6 0.07 1.5E-06 43.5 7.7 67 70-139 10-79 (104)
36 cd04485 DnaE_OBF DnaE_OBF: A s 94.6 0.25 5.5E-06 36.3 7.8 74 74-158 2-75 (84)
37 PF13742 tRNA_anti_2: OB-fold 94.3 0.62 1.3E-05 37.9 10.1 77 69-158 21-98 (99)
38 PRK07211 replication factor A; 93.5 0.48 1.1E-05 49.1 9.7 80 69-158 63-147 (485)
39 cd04482 RPA2_OBF_like RPA2_OBF 93.1 0.95 2.1E-05 36.4 9.0 72 73-161 2-75 (91)
40 cd04490 PolII_SU_OBF PolII_SU_ 92.8 2.6 5.7E-05 33.0 10.9 72 72-160 2-75 (79)
41 TIGR00237 xseA exodeoxyribonuc 92.7 0.59 1.3E-05 47.3 8.9 79 69-160 17-95 (432)
42 PRK00286 xseA exodeoxyribonucl 92.5 0.71 1.5E-05 46.3 9.2 80 69-161 23-102 (438)
43 cd04100 Asp_Lys_Asn_RS_N Asp_L 91.9 4.7 0.0001 31.1 11.3 80 72-161 2-84 (85)
44 cd04320 AspRS_cyto_N AspRS_cyt 90.2 8.2 0.00018 30.9 12.1 83 72-163 2-92 (102)
45 PF11506 DUF3217: Protein of u 89.9 7.1 0.00015 32.3 10.8 70 68-141 1-74 (104)
46 PRK15491 replication factor A; 89.9 1.5 3.3E-05 43.8 8.5 72 70-144 177-251 (374)
47 cd04491 SoSSB_OBF SoSSB_OBF: A 89.2 2.6 5.5E-05 32.4 7.6 47 89-140 18-65 (82)
48 PRK07373 DNA polymerase III su 89.2 3.3 7.1E-05 42.6 10.4 80 71-161 282-361 (449)
49 PRK06461 single-stranded DNA-b 89.2 2.4 5.1E-05 36.1 8.0 61 70-138 15-79 (129)
50 cd04317 EcAspRS_like_N EcAspRS 88.8 9.4 0.0002 32.1 11.3 83 71-163 16-104 (135)
51 cd04488 RecG_wedge_OBF RecG_we 88.5 2.6 5.7E-05 30.3 6.9 60 74-140 2-61 (75)
52 PRK15491 replication factor A; 88.2 2.7 5.8E-05 42.1 8.9 64 69-136 67-135 (374)
53 COG3390 Uncharacterized protei 87.7 2.2 4.7E-05 39.6 7.2 90 67-162 43-132 (196)
54 PRK05673 dnaE DNA polymerase I 87.6 3.1 6.6E-05 47.4 9.8 81 70-161 978-1058(1135)
55 cd04323 AsnRS_cyto_like_N AsnR 87.4 12 0.00025 29.0 10.5 80 72-161 2-83 (84)
56 PRK07211 replication factor A; 86.6 2 4.4E-05 44.7 7.2 66 69-139 171-241 (485)
57 PRK12366 replication factor A; 86.4 7 0.00015 41.7 11.2 82 70-157 292-377 (637)
58 PF11325 DUF3127: Domain of un 85.9 9.2 0.0002 31.0 9.1 67 86-156 16-82 (84)
59 cd04316 ND_PkAspRS_like_N ND_P 85.6 18 0.00039 29.3 12.2 81 71-164 14-98 (108)
60 cd04475 RPA1_DBD_B RPA1_DBD_B: 84.8 12 0.00027 29.7 9.5 67 72-143 2-72 (101)
61 PRK14699 replication factor A; 84.7 3.1 6.8E-05 43.1 7.4 68 69-142 67-139 (484)
62 COG1570 XseA Exonuclease VII, 84.4 3.6 7.8E-05 42.4 7.7 79 69-160 23-101 (440)
63 cd04321 ScAspRS_mt_like_N ScAs 84.4 18 0.00038 28.3 11.3 82 72-161 2-85 (86)
64 PRK13480 3'-5' exoribonuclease 83.8 5.9 0.00013 38.9 8.6 58 78-140 19-76 (314)
65 PRK08402 replication factor A; 83.5 5.3 0.00011 39.9 8.3 71 70-144 73-147 (355)
66 cd04322 LysRS_N LysRS_N: N-ter 83.1 23 0.0005 28.6 11.3 77 72-163 2-83 (108)
67 PRK00448 polC DNA polymerase I 83.0 9.9 0.00021 44.5 11.2 74 67-145 234-309 (1437)
68 PRK06826 dnaE DNA polymerase I 82.2 9.1 0.0002 43.8 10.4 81 71-161 993-1073(1151)
69 PRK06920 dnaE DNA polymerase I 81.7 7.8 0.00017 44.2 9.6 80 71-161 945-1024(1107)
70 PRK07374 dnaE DNA polymerase I 79.1 13 0.00027 42.8 10.2 81 70-161 1001-1081(1170)
71 TIGR01405 polC_Gram_pos DNA po 78.6 16 0.00034 42.2 10.8 72 69-145 7-80 (1213)
72 PRK12366 replication factor A; 78.3 10 0.00022 40.6 8.7 63 69-136 73-139 (637)
73 cd04497 hPOT1_OB1_like hPOT1_O 77.7 13 0.00027 31.9 7.6 75 69-145 14-88 (138)
74 cd04478 RPA2_DBD_D RPA2_DBD_D: 75.8 31 0.00067 26.8 8.8 77 72-164 2-81 (95)
75 cd04319 PhAsnRS_like_N PhAsnRS 75.7 40 0.00087 27.0 12.9 80 72-164 2-84 (103)
76 PRK14699 replication factor A; 75.2 15 0.00032 38.3 8.6 82 70-160 177-263 (484)
77 PRK07279 dnaE DNA polymerase I 74.3 21 0.00044 40.7 10.0 81 70-161 885-966 (1034)
78 PRK05672 dnaE2 error-prone DNA 72.6 21 0.00046 40.5 9.7 78 71-161 955-1032(1046)
79 PLN02850 aspartate-tRNA ligase 72.4 53 0.0012 34.6 12.0 84 70-163 82-172 (530)
80 TIGR00458 aspS_arch aspartyl-t 71.9 80 0.0017 32.1 12.9 82 70-164 13-98 (428)
81 TIGR00457 asnS asparaginyl-tRN 68.1 70 0.0015 32.8 11.6 84 70-164 17-103 (453)
82 TIGR00617 rpa1 replication fac 67.5 15 0.00033 39.1 6.9 67 69-139 190-260 (608)
83 PLN02903 aminoacyl-tRNA ligase 65.6 1.4E+02 0.003 32.5 13.6 83 71-163 74-163 (652)
84 PRK05159 aspC aspartyl-tRNA sy 65.1 99 0.0021 31.5 11.9 82 70-164 17-101 (437)
85 PF02765 POT1: Telomeric singl 63.7 28 0.0006 29.9 6.7 75 69-145 12-93 (146)
86 PHA01740 putative single-stran 63.6 3.7 8.1E-05 36.4 1.3 22 217-242 18-41 (158)
87 PTZ00401 aspartyl-tRNA synthet 62.9 1.1E+02 0.0025 32.4 12.2 85 70-164 79-170 (550)
88 TIGR00459 aspS_bact aspartyl-t 62.0 1.2E+02 0.0026 32.5 12.3 83 71-163 17-104 (583)
89 cd04318 EcAsnRS_like_N EcAsnRS 61.7 70 0.0015 24.4 10.1 79 72-161 2-81 (82)
90 PRK07218 replication factor A; 58.5 35 0.00077 35.0 7.4 73 69-155 172-246 (423)
91 PF12869 tRNA_anti-like: tRNA_ 58.4 51 0.0011 27.5 7.3 63 72-141 70-133 (144)
92 PF11736 DUF3299: Protein of u 58.3 1.3E+02 0.0027 26.6 9.9 82 67-158 52-143 (146)
93 PRK03932 asnC asparaginyl-tRNA 56.7 99 0.0022 31.7 10.3 81 70-163 17-100 (450)
94 COG0017 AsnS Aspartyl/asparagi 56.3 1.2E+02 0.0025 31.6 10.7 81 70-163 17-100 (435)
95 PRK10917 ATP-dependent DNA hel 55.8 48 0.001 35.6 8.2 63 70-139 60-122 (681)
96 cd04481 RPA1_DBD_B_like RPA1_D 54.2 36 0.00078 27.4 5.5 39 106-144 34-76 (106)
97 PLN02603 asparaginyl-tRNA synt 53.4 2.1E+02 0.0046 30.6 12.3 84 70-164 108-194 (565)
98 PTZ00385 lysyl-tRNA synthetase 53.2 1.9E+02 0.0041 31.6 12.1 77 71-162 109-191 (659)
99 PF13567 DUF4131: Domain of un 53.0 56 0.0012 26.5 6.5 63 70-141 76-145 (176)
100 PRK00476 aspS aspartyl-tRNA sy 53.0 2.1E+02 0.0045 30.6 12.2 83 71-164 19-107 (588)
101 COG1200 RecG RecG-like helicas 52.7 73 0.0016 34.8 8.9 64 71-141 62-125 (677)
102 PRK12820 bifunctional aspartyl 52.6 1.8E+02 0.0038 32.1 11.8 85 70-164 19-111 (706)
103 cd04483 hOBFC1_like hOBFC1_lik 52.4 89 0.0019 25.1 7.4 37 105-141 23-79 (92)
104 TIGR00643 recG ATP-dependent D 52.3 91 0.002 33.1 9.5 64 70-140 33-96 (630)
105 PF10451 Stn1: Telomere regula 50.8 55 0.0012 31.4 6.9 94 58-164 55-151 (256)
106 PRK06386 replication factor A; 50.4 1E+02 0.0022 31.1 9.0 77 69-161 117-195 (358)
107 COG3689 Predicted membrane pro 49.8 65 0.0014 31.5 7.2 87 71-164 177-263 (271)
108 cd05898 Ig5_KIRREL3 Fifth immu 48.0 32 0.00069 28.0 4.2 85 27-119 2-90 (98)
109 KOG3416 Predicted nucleic acid 47.1 60 0.0013 28.6 5.9 55 77-139 22-76 (134)
110 PTZ00417 lysine-tRNA ligase; P 46.2 2.2E+02 0.0048 30.6 11.2 78 72-163 135-219 (585)
111 PRK12445 lysyl-tRNA synthetase 45.0 3.3E+02 0.0072 28.6 12.1 78 71-163 67-149 (505)
112 PF00970 FAD_binding_6: Oxidor 43.6 53 0.0011 25.4 4.7 32 106-138 62-95 (99)
113 TIGR00499 lysS_bact lysyl-tRNA 43.0 2.6E+02 0.0056 29.2 10.9 78 71-163 55-137 (496)
114 PRK07218 replication factor A; 42.0 87 0.0019 32.2 7.2 65 69-144 68-134 (423)
115 PRK00484 lysS lysyl-tRNA synth 41.0 3.6E+02 0.0078 28.1 11.6 79 70-163 55-137 (491)
116 cd04498 hPOT1_OB2 hPOT1_OB2: A 39.3 46 0.00099 28.8 4.0 28 106-134 59-86 (123)
117 PLN02221 asparaginyl-tRNA synt 38.6 3E+02 0.0066 29.5 10.8 86 70-163 51-137 (572)
118 COG0587 DnaE DNA polymerase II 36.7 1.3E+02 0.0028 34.9 8.1 67 71-142 978-1045(1139)
119 COG2176 PolC DNA polymerase II 36.4 1.2E+02 0.0026 35.6 7.6 86 67-161 237-324 (1444)
120 TIGR00617 rpa1 replication fac 34.9 1.7E+02 0.0036 31.4 8.2 69 71-144 312-384 (608)
121 PLN02502 lysyl-tRNA synthetase 34.7 3.4E+02 0.0074 28.9 10.4 78 71-163 110-194 (553)
122 PLN02532 asparagine-tRNA synth 34.1 1.6E+02 0.0034 32.1 7.9 64 98-163 138-201 (633)
123 PF08021 FAD_binding_9: Sidero 30.9 1.3E+02 0.0028 25.0 5.4 43 93-135 68-112 (117)
124 PRK02983 lysS lysyl-tRNA synth 28.1 7.1E+02 0.015 28.9 12.1 78 71-163 653-735 (1094)
125 COG4097 Predicted ferric reduc 27.6 79 0.0017 32.7 4.1 34 106-139 275-308 (438)
126 COG1190 LysU Lysyl-tRNA synthe 27.5 3.3E+02 0.0072 29.0 8.7 81 72-163 64-145 (502)
127 COG1107 Archaea-specific RecJ- 24.9 1.5E+02 0.0032 32.5 5.6 76 70-161 214-289 (715)
128 PRK07135 dnaE DNA polymerase I 24.7 2.6E+02 0.0056 32.0 7.8 63 71-140 899-961 (973)
129 PF02367 UPF0079: Uncharacteri 24.1 37 0.0008 29.0 1.0 25 116-140 3-27 (123)
130 cd06216 FNR_iron_sulfur_bindin 24.1 2.3E+02 0.005 25.5 6.2 45 95-139 66-114 (243)
131 KOG1885 Lysyl-tRNA synthetase 23.8 2.1E+02 0.0045 30.6 6.4 77 72-162 107-189 (560)
132 KOG3056 Protein required for S 23.4 2.4E+02 0.0051 30.5 6.8 68 70-144 187-254 (578)
133 PRK10646 ADP-binding protein; 22.6 60 0.0013 28.8 2.0 26 115-140 15-40 (153)
134 TIGR01077 L13_A_E ribosomal pr 22.4 57 0.0012 28.7 1.8 23 113-135 9-31 (142)
135 cd06191 FNR_iron_sulfur_bindin 21.9 2.6E+02 0.0056 24.9 6.0 32 108-139 61-94 (231)
136 PRK13289 bifunctional nitric o 21.3 2.9E+02 0.0062 27.0 6.6 44 96-139 208-253 (399)
137 smart00350 MCM minichromosome 20.9 2.5E+02 0.0054 29.1 6.4 52 106-161 103-161 (509)
138 COG0677 WecC UDP-N-acetyl-D-ma 20.3 64 0.0014 33.5 1.9 46 95-144 87-133 (436)
139 cd06198 FNR_like_3 NAD(P) bind 20.1 2.6E+02 0.0056 24.6 5.6 34 106-139 55-88 (216)
140 PRK06394 rpl13p 50S ribosomal 20.1 74 0.0016 28.2 2.1 22 113-134 13-34 (146)
No 1
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.94 E-value=2.8e-26 Score=189.30 Aligned_cols=98 Identities=16% Similarity=0.210 Sum_probs=90.8
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC-------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~-------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
|+|+|+|||||++|||++++++|..++.|+||+++. .+++||+|++||++|+.+++||+|||+|+|+|+|+++
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 789999999999999999999999999999999972 2589999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeEEeeecCCcc
Q 021274 141 PPAIE---GQANVQVMVHSLNLIEPTSQ 165 (315)
Q Consensus 141 s~edk---~rs~~eVvVe~I~FV~~k~q 165 (315)
+|+++ .++.++|+|++|.|++++.+
T Consensus 81 ~~~~~~G~~~~~~ei~a~~i~~l~~~~~ 108 (112)
T PRK06752 81 NYEDDQGKRIYITEVVIESITFLERRRE 108 (112)
T ss_pred ccCCCCCcEEEEEEEEEEEEEECCCCCc
Confidence 99876 46789999999999987653
No 2
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=4.1e-26 Score=200.99 Aligned_cols=97 Identities=12% Similarity=0.183 Sum_probs=90.8
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC-------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~-------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
|+|+|+|||||++|||+|+|++|.++|.|+|||++. .+++||+|++||++||.+++||+||++|+|+|||+++
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 789999999999999999999999999999999971 2589999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeEEeeecCCc
Q 021274 141 PPAIE---GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 141 s~edk---~rs~~eVvVe~I~FV~~k~ 164 (315)
+|+++ .++.++|+|++|.|++++.
T Consensus 81 ~y~dkdG~k~~~~evva~~i~~l~~~~ 107 (162)
T PRK07275 81 NYENQQGQRVYVTEVVADNFQMLESRA 107 (162)
T ss_pred eEECCCCCEEEEEEEEEeEEEECCCCC
Confidence 99876 5788899999999998765
No 3
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=9.8e-26 Score=189.55 Aligned_cols=99 Identities=20% Similarity=0.292 Sum_probs=91.0
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC---CCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA---ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r---~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
++|+|+||||||+|||++++++|+.+|.|+||+++ .++++||+|++||++|+.+++||+||++|+|+|+|++++|++
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 47999999999999999999999999999999997 357999999999999999999999999999999999999987
Q ss_pred C--C--eEEEEEEEeEEeeecCCccc
Q 021274 145 E--G--QANVQVMVHSLNLIEPTSQK 166 (315)
Q Consensus 145 k--~--rs~~eVvVe~I~FV~~k~q~ 166 (315)
+ + ++.++|+|++|.|++++...
T Consensus 82 ~d~G~~r~~~ei~a~~i~~L~~k~~~ 107 (121)
T PRK07459 82 RNTGEDRSKPVIRVDRLELLGSKRDS 107 (121)
T ss_pred CCCCeEEEEEEEEEeEEEECcCCCcc
Confidence 4 3 67889999999999876543
No 4
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=4.5e-25 Score=197.67 Aligned_cols=98 Identities=22% Similarity=0.302 Sum_probs=91.3
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC---------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeE
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~---------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~ 138 (315)
|+|+|+|||||++|||+|++++|..+|.|+||+++. ++++||+|++||++||.|++||+||++|+|+|||+
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 689999999999999999999999999999999861 36899999999999999999999999999999999
Q ss_pred ecCCCcC---CeEEEEEEEeEEeeecCCcc
Q 021274 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQ 165 (315)
Q Consensus 139 srs~edk---~rs~~eVvVe~I~FV~~k~q 165 (315)
+++|+++ .++.++|+|++|.||.++..
T Consensus 81 ~~~y~dkdG~~r~~~eI~a~~v~~L~~~~~ 110 (182)
T PRK08486 81 FESWMDQNGQKRSKHTITAESMQMLDSKSD 110 (182)
T ss_pred eCcEECCCCcEEEEEEEEEeEEEECCCCCC
Confidence 9999886 57889999999999987654
No 5
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=1.1e-24 Score=193.92 Aligned_cols=98 Identities=18% Similarity=0.230 Sum_probs=90.8
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC-------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~-------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
|||+|+|||||++|||+|++++|..++.|+||+++. .+++||+|++||++|+.+++||+||++|+|+|||+++
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 789999999999999999999999999999999972 2579999999999999999999999999999999999
Q ss_pred CCCcC---CeEEEEEEEeEEeeecCCcc
Q 021274 141 PPAIE---GQANVQVMVHSLNLIEPTSQ 165 (315)
Q Consensus 141 s~edk---~rs~~eVvVe~I~FV~~k~q 165 (315)
.|+++ .++.++|+|++|.|++++..
T Consensus 81 ~yedkdG~~~~~~eVva~~i~~l~~r~~ 108 (173)
T PRK06751 81 NYEGQDGKRVYVTEVLAESVQFLEPRNG 108 (173)
T ss_pred ccCCCCCcEEEEEEEEEEEEEeCcCCCC
Confidence 99976 57789999999999987653
No 6
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=2e-24 Score=187.40 Aligned_cols=99 Identities=10% Similarity=0.160 Sum_probs=90.1
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcE----EEEEEEEEcC------C----CCCeEEEEEEecchHHHHHhhcCCCCeEEE
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKH----WAGTVIVQHA------A----SHSLWIPILFEGDLAHIASSHLKKDDHVHI 133 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~----VA~ftLAV~r------~----~~T~wI~Vv~wGkLAE~aakhLKKGD~V~V 133 (315)
|+|+|+||||||+|||++++++|.. ++.|+||+++ . ..++||+|++||++|+.+++||+|||+|+|
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 9999999985 1 147899999999999999999999999999
Q ss_pred EEEeEecCCCcC---CeEEEEEEEeEEeeecCCccc
Q 021274 134 AGQLTADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (315)
Q Consensus 134 eGRL~srs~edk---~rs~~eVvVe~I~FV~~k~q~ 166 (315)
+|+|++++|+++ .++.++|+|++|.|+......
T Consensus 81 ~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r~~~ 116 (148)
T PRK08182 81 EGRMERDEWTDNEDNERVTFKVEARRVGILPYRIES 116 (148)
T ss_pred EEEEEecccCCCCCCEEEEEEEEEeEEEEcCCcccc
Confidence 999999999876 578899999999999876654
No 7
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=3.9e-24 Score=181.63 Aligned_cols=99 Identities=22% Similarity=0.322 Sum_probs=89.8
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC-------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~-------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
|||.|+|+||||+|||++++++|..+|.|+||+++. .+++||+|++||++|+.+++||+||++|+|+|+|+++
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 789999999999999999999999999999999971 1589999999999999999999999999999999999
Q ss_pred CCCcC--CeEEEEEEEeEEeeecCCccc
Q 021274 141 PPAIE--GQANVQVMVHSLNLIEPTSQK 166 (315)
Q Consensus 141 s~edk--~rs~~eVvVe~I~FV~~k~q~ 166 (315)
+|+.+ .++.++|+|++|.|++++.+.
T Consensus 81 ~y~kdG~~~~~~eviv~~i~~l~~k~~~ 108 (131)
T PRK07274 81 KYEKDGQTHYVTEVLCQSFQLLESRAQR 108 (131)
T ss_pred cCccCCcEEEEEEEEEEEEEECcCCCcc
Confidence 99433 467789999999999876544
No 8
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=4.7e-24 Score=188.44 Aligned_cols=99 Identities=16% Similarity=0.291 Sum_probs=91.0
Q ss_pred CCCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC---C------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEE
Q 021274 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA---A------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (315)
Q Consensus 66 p~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r---~------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGR 136 (315)
++.+|+|+||||||+|||++++++|..++.|+||+++ . ++++||+|++||++||.+++||+||++|+|+|+
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 3559999999999999999999999999999999985 1 258999999999999999999999999999999
Q ss_pred eEecCCCcC---CeEEEEEEEeEEeeecCCc
Q 021274 137 LTADPPAIE---GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 137 L~srs~edk---~rs~~eVvVe~I~FV~~k~ 164 (315)
|++++|+++ .++.++|+|++|.|++++.
T Consensus 82 L~~~~y~dkdG~kr~~~eIva~~i~~L~~~~ 112 (164)
T PRK08763 82 IRYDKFTGQDGQERYVTEIVADEMQMLGGRG 112 (164)
T ss_pred EEeceeECCCCCEEEEEEEEEeEEEECCCCC
Confidence 999999876 4788999999999998764
No 9
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=9.1e-24 Score=188.35 Aligned_cols=100 Identities=20% Similarity=0.336 Sum_probs=91.9
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC----------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEE
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~----------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGR 136 (315)
+.+|+|+||||||+|||++++++|..+|.|+||+++. ++++||+|++||++|+.+++||+|||+|+|+|+
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 3589999999999999999999999999999999851 258999999999999999999999999999999
Q ss_pred eEecCCCcC--CeEEEEEEEe---EEeeecCCccc
Q 021274 137 LTADPPAIE--GQANVQVMVH---SLNLIEPTSQK 166 (315)
Q Consensus 137 L~srs~edk--~rs~~eVvVe---~I~FV~~k~q~ 166 (315)
|++++|+++ .++.++|+|+ +|.|++++.+.
T Consensus 84 L~~r~ye~dG~kr~~~eIiv~~~g~~~fL~~~~~~ 118 (175)
T PRK13732 84 LRTRSWEDNGITRYVTEILVKTTGTMQMLGRAPQQ 118 (175)
T ss_pred EEeeeEccCCeEEEEEEEEEeecCeEEEecCCCCC
Confidence 999999887 5788899999 99999887755
No 10
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=1.1e-23 Score=185.83 Aligned_cols=96 Identities=17% Similarity=0.178 Sum_probs=89.4
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC----CCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r----~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
||.|+||||||+|||++++++|+.++.|+||+++ .++++||+|++||++|+.+++||+||++|+|+|+|++++|++
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 7999999999999999999999999999999987 246999999999999999999999999999999999999987
Q ss_pred C---CeEEEEEEEeEEeeecCCc
Q 021274 145 E---GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 145 k---~rs~~eVvVe~I~FV~~k~ 164 (315)
+ .++.++|+|++|.|+....
T Consensus 81 kdG~kr~~~eIva~~I~fl~~~~ 103 (161)
T PRK06293 81 KDGSPQSSLVVSVDTIKFSPFGR 103 (161)
T ss_pred CCCCEEEEEEEEEeEEEECcCCC
Confidence 6 5788999999999996443
No 11
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=1.7e-23 Score=182.30 Aligned_cols=100 Identities=17% Similarity=0.306 Sum_probs=89.8
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC----------CCCeEEEEEEecc-hHHHHHhhcCCCCeEEEEE
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGD-LAHIASSHLKKDDHVHIAG 135 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~----------~~T~wI~Vv~wGk-LAE~aakhLKKGD~V~VeG 135 (315)
..+|+|+||||||+|||++++++|+.++.|+||+++. ++|+||+|++||+ +|+.+++||+|||+|+|+|
T Consensus 3 ~~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~G 82 (152)
T PRK06642 3 GSLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIEG 82 (152)
T ss_pred CcceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEEE
Confidence 3479999999999999999999999999999999961 2589999999996 9999999999999999999
Q ss_pred EeEecCCCcC---CeEEEEEEEeEE----eeecCCccc
Q 021274 136 QLTADPPAIE---GQANVQVMVHSL----NLIEPTSQK 166 (315)
Q Consensus 136 RL~srs~edk---~rs~~eVvVe~I----~FV~~k~q~ 166 (315)
+|++++|+++ .++.++|+|++| .|++++...
T Consensus 83 rL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k~~~ 120 (152)
T PRK06642 83 SLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSN 120 (152)
T ss_pred EEEeCeeECCCCCEEEEEEEEEEecccceEeccCCCCc
Confidence 9999999875 578899999987 799866544
No 12
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=3e-23 Score=185.35 Aligned_cols=100 Identities=20% Similarity=0.339 Sum_probs=91.4
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC----------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEE
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~----------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGR 136 (315)
+.+|+|+|||||++|||+|++++|..+++|+||+++. ++++||+|++||++|+.+++||+||++|+|+|+
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 5699999999999999999999999999999999851 258999999999999999999999999999999
Q ss_pred eEecCCCcC---CeEEEEEEEe---EEeeecCCccc
Q 021274 137 LTADPPAIE---GQANVQVMVH---SLNLIEPTSQK 166 (315)
Q Consensus 137 L~srs~edk---~rs~~eVvVe---~I~FV~~k~q~ 166 (315)
|++++|+++ .++.++|+|+ ++.|+++..+.
T Consensus 84 L~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r~~~ 119 (177)
T PRK09010 84 LRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGG 119 (177)
T ss_pred EEeccccCCCCCEEEEEEEEEecCCcEEEccCCCCC
Confidence 999999986 5788999998 89999877544
No 13
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=5.6e-23 Score=182.27 Aligned_cols=98 Identities=19% Similarity=0.325 Sum_probs=90.5
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC----------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeE
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~----------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~ 138 (315)
+|+|+||||||+|||+|++++|..++.|+||+++. +.++||+|++||++||.+++||+||++|+|+|+|+
T Consensus 4 ~N~V~LiGrLg~DPElR~t~nG~~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~AE~v~~~LkKGs~V~VeGrL~ 83 (168)
T PRK06863 4 INKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEGRLK 83 (168)
T ss_pred ccEEEEEEEcCCCCEEEEcCCCCEEEEEEEEecCcccccCCCcccccceEEEEEEEhHHHHHHHHHCCCCCEEEEEEEEE
Confidence 79999999999999999999999999999999851 14789999999999999999999999999999999
Q ss_pred ecCCCcC---CeEEEEEEEeEEeeecCCccc
Q 021274 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQK 166 (315)
Q Consensus 139 srs~edk---~rs~~eVvVe~I~FV~~k~q~ 166 (315)
++.|+|+ .++.++|+|++|.|++++.+.
T Consensus 84 ~r~w~DkdG~~r~~~eI~a~~i~~L~~r~~~ 114 (168)
T PRK06863 84 TRKWQDQNGQDRYTTEIQGDVLQMLGGRNQR 114 (168)
T ss_pred eCCccCCCCCEEEEEEEEEeEEEECCCCCcc
Confidence 9999876 478899999999999977654
No 14
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=4.6e-23 Score=184.95 Aligned_cols=97 Identities=20% Similarity=0.307 Sum_probs=89.6
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC---C-------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeE
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA---A-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r---~-------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~ 138 (315)
+|+|+|||||++|||++++++|..+|.|+||+++ . +.|+||+|++|+++|+.+++||+||++|+|+|+|+
T Consensus 4 ~N~V~LiGrLg~DPElr~t~nG~~va~fsVAv~~~~kdk~sGe~~e~T~w~~V~~fGk~AE~v~~~LkKGs~V~VeGrL~ 83 (182)
T PRK06958 4 VNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYIEGRIR 83 (182)
T ss_pred ccEEEEEEEecCCCeEEEcCCCCEEEEEEEEeccccccccCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEEEEE
Confidence 7999999999999999999999999999999986 1 24899999999999999999999999999999999
Q ss_pred ecCCCcC---CeEEEEEEEeEEeeecCCcc
Q 021274 139 ADPPAIE---GQANVQVMVHSLNLIEPTSQ 165 (315)
Q Consensus 139 srs~edk---~rs~~eVvVe~I~FV~~k~q 165 (315)
++.|+++ .++.++|+|++|.||..+.+
T Consensus 84 ~~~yeDkdG~kr~~~eVvA~~V~fL~sr~~ 113 (182)
T PRK06958 84 TRKWQGQDGQDRYSTEIVADQMQMLGGRGG 113 (182)
T ss_pred eCceECCCCcEEEEEEEEEeEEEECCCCcc
Confidence 9999866 57889999999999987653
No 15
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.89 E-value=1.4e-22 Score=180.35 Aligned_cols=100 Identities=19% Similarity=0.314 Sum_probs=90.4
Q ss_pred CCCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC---C-------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEE
Q 021274 66 VKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA---A-------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAG 135 (315)
Q Consensus 66 p~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r---~-------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeG 135 (315)
++.+|+|+|+||||+|||++++++|..+++|+||+++ . ++++||+|++||++||.+++||+||++|+|+|
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 3559999999999999999999999999999999985 1 25899999999999999999999999999999
Q ss_pred EeEecCCCcC--CeEEEEEEEe---EEeeecCCcc
Q 021274 136 QLTADPPAIE--GQANVQVMVH---SLNLIEPTSQ 165 (315)
Q Consensus 136 RL~srs~edk--~rs~~eVvVe---~I~FV~~k~q 165 (315)
+|++++|+.+ .++.++|+|+ +|.|++.+.+
T Consensus 82 rLr~~~y~kdG~~r~~~eVvvd~~g~v~~L~~~~~ 116 (172)
T PRK05733 82 KLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQ 116 (172)
T ss_pred EEEeCcEecCCEEEEEEEEEEeecCeEEECcCCCC
Confidence 9999999854 5788899999 8999986654
No 16
>TIGR00621 ssb single stranded DNA-binding protein (ssb). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.89 E-value=2e-22 Score=176.93 Aligned_cols=98 Identities=19% Similarity=0.355 Sum_probs=90.1
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC---------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEe
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA---------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~---------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL 137 (315)
.|+|+|+|+|||++|||++++++|+.+|.|+||+++. +.++||+|++||++|+.+++||+||++|+|+|+|
T Consensus 2 ~m~N~V~L~G~l~~dPe~r~t~~G~~v~~fsvA~~~~~~~~~G~~~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~L 81 (164)
T TIGR00621 2 RMVNKVILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQDGEWKEETEWHDIVIFGRLAEVAAQYLKKGSLVYVEGRL 81 (164)
T ss_pred CcccEEEEEEEeCCCCEEEECCCCCEEEEEEEEEcCceecCCCCEeccceEEEEEEehHHHHHHHHhCCCCCEEEEEEEE
Confidence 4789999999999999999999999999999999861 2478999999999999999999999999999999
Q ss_pred EecCCCcC---CeEEEEEEEeEEeeecCCc
Q 021274 138 TADPPAIE---GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 138 ~srs~edk---~rs~~eVvVe~I~FV~~k~ 164 (315)
++++|+++ .++.++|+|++|.|+..+.
T Consensus 82 ~~~~~~~kdG~~~~~~ev~a~~i~~L~~~~ 111 (164)
T TIGR00621 82 RTRKWEDQNGQKRSKTEIIADNVQLLDLLG 111 (164)
T ss_pred EeceEECCCCcEEEEEEEEEEEEeeccccC
Confidence 99999885 5788999999999998653
No 17
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=99.88 E-value=1.9e-22 Score=160.08 Aligned_cols=92 Identities=23% Similarity=0.399 Sum_probs=82.7
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC-----C----CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-----A----SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r-----~----~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
||+|+|+|+|++||+++++++|+.++.|+||+++ . .+++||+|++||++|+.+++||+|||+|+|+|+|++
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 6999999999999999999999999999999998 1 258999999999999999999999999999999999
Q ss_pred cCCCcC-C--eEEEEEEEeEEeee
Q 021274 140 DPPAIE-G--QANVQVMVHSLNLI 160 (315)
Q Consensus 140 rs~edk-~--rs~~eVvVe~I~FV 160 (315)
+.|+++ + ++.++|+|++|+||
T Consensus 81 ~~~~~~~G~~~~~~~i~a~~i~fl 104 (104)
T PF00436_consen 81 RTYEDKDGQKRYRVEIIADNIEFL 104 (104)
T ss_dssp EEEESTTSSEEEEEEEEEEEEEE-
T ss_pred eEEECCCCCEEEEEEEEEEEEEeC
Confidence 999887 3 78889999999996
No 18
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.88 E-value=6.1e-22 Score=175.41 Aligned_cols=98 Identities=22% Similarity=0.361 Sum_probs=88.5
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC----------CCCCeEEEEEEecc-hHHHHHhhcCCCCeEEEEE
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----------ASHSLWIPILFEGD-LAHIASSHLKKDDHVHIAG 135 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r----------~~~T~wI~Vv~wGk-LAE~aakhLKKGD~V~VeG 135 (315)
..+|+|+|||||++|||++++++|+.+|.|+||+++ .++|+||+|++|++ +|+.+++||+||++|+|+|
T Consensus 3 ~~mN~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~~Ae~~~~~LkKG~~V~VeG 82 (166)
T PRK06341 3 GSVNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYIEG 82 (166)
T ss_pred CcceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChHHHHHHHHhcCCCCEEEEEE
Confidence 458999999999999999999999999999999984 13589999999996 9999999999999999999
Q ss_pred EeEecCCCcC---CeEEEEEEEeEE----eeecCCc
Q 021274 136 QLTADPPAIE---GQANVQVMVHSL----NLIEPTS 164 (315)
Q Consensus 136 RL~srs~edk---~rs~~eVvVe~I----~FV~~k~ 164 (315)
+|++++|+++ .++.++|+|++| .|++++.
T Consensus 83 rL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~~ 118 (166)
T PRK06341 83 QLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRG 118 (166)
T ss_pred EEEeCcEECCCCCEEEEEEEEEEecccceEEcccCC
Confidence 9999999876 578899999875 7887664
No 19
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.87 E-value=1e-21 Score=180.55 Aligned_cols=97 Identities=18% Similarity=0.262 Sum_probs=89.2
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC-CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA-SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~-~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk 145 (315)
.-+|.|+|+|||++|||+|+|++|+.+|.|+||+++. .+++||+|++||++|+.|+ +|+|||+|+|+|||++++|+++
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 5599999999999999999999999999999999984 4689999999999999876 7999999999999999999874
Q ss_pred -------CeEEEEEEEeEEeeecCCc
Q 021274 146 -------GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 146 -------~rs~~eVvVe~I~FV~~k~ 164 (315)
.++.++|.|++|+|++...
T Consensus 186 ~g~~~g~kr~~~eV~v~~i~~l~~~~ 211 (219)
T PRK05813 186 LSEGEVVTKVAYEVSISKMEKVEKEE 211 (219)
T ss_pred CCCccceEEEEEEEEEEEEEEcCChh
Confidence 3788999999999998654
No 20
>PRK02801 primosomal replication protein N; Provisional
Probab=99.87 E-value=1.7e-21 Score=159.20 Aligned_cols=92 Identities=14% Similarity=0.260 Sum_probs=81.4
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC-CC-------CCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-AS-------HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r-~~-------~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
|+|.|+|+|||++|||+|+|++|.+++.|+||+++ .. .++||+|++||++||.+++||+||++|.|+|+|++
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 68999999999999999999999999999999975 11 13789999999999999999999999999999999
Q ss_pred cCCCcC-CeEEEEEEEeEEeeec
Q 021274 140 DPPAIE-GQANVQVMVHSLNLIE 161 (315)
Q Consensus 140 rs~edk-~rs~~eVvVe~I~FV~ 161 (315)
|+++ ++..+.|++++|+|+.
T Consensus 81 --~~~~~g~~~~~v~~~~i~~l~ 101 (101)
T PRK02801 81 --HQGRNGLSKLVLHAEQIELID 101 (101)
T ss_pred --eECCCCCEEEEEEEEEEEECC
Confidence 3444 6566679999999973
No 21
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.86 E-value=1.3e-21 Score=171.61 Aligned_cols=98 Identities=20% Similarity=0.306 Sum_probs=83.5
Q ss_pred CccEEEEEEEeCCCceEEEcC-CCcEEEEEEEEEcC----C-----CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEe
Q 021274 68 VANSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHA----A-----SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~-~Gk~VA~ftLAV~r----~-----~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL 137 (315)
++|+|+|+|||++|||+++++ +|..++.|++|+++ . ..++||+|++||++|+.+++||+||++|+|+|+|
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 789999999999999999999 55777888888876 1 2469999999999999999999999999999999
Q ss_pred EecCCCcC-C--eEE----EEEEEeEEeeecCCcc
Q 021274 138 TADPPAIE-G--QAN----VQVMVHSLNLIEPTSQ 165 (315)
Q Consensus 138 ~srs~edk-~--rs~----~eVvVe~I~FV~~k~q 165 (315)
+++.|+++ + ++. .++++..+.|++..+.
T Consensus 82 ~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 82 QTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EeeeeecCCCcceeeEEEEEEEeehhhhhccCccc
Confidence 99999986 3 333 3557777788876654
No 22
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.85 E-value=6e-21 Score=171.78 Aligned_cols=91 Identities=14% Similarity=0.232 Sum_probs=83.0
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC-----C------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEE
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-----A------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r-----~------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGR 136 (315)
..|.|+|||||++|||+|++++|..+|+|+||+++ . .+++||+|++|+++|+.+++||+|||+|+|+||
T Consensus 3 ~~~~VtLiGrL~~DPElR~t~sG~~va~FrVAv~~r~~~~~~g~~~d~~t~fi~V~~Wg~~Ae~va~~L~KGd~V~V~Gr 82 (186)
T PRK07772 3 GDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNEWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVTGR 82 (186)
T ss_pred ccCEEEEEEEeCCCCeEEEcCCCCEEEEEEEEecCcceecCCCcEeccCceEEEEEEecHHHHHHHHhcCCCCEEEEEEE
Confidence 36999999999999999999999999999999973 1 257899999999999999999999999999999
Q ss_pred eEecCCCcC---CeEEEEEEEeEEe
Q 021274 137 LTADPPAIE---GQANVQVMVHSLN 158 (315)
Q Consensus 137 L~srs~edk---~rs~~eVvVe~I~ 158 (315)
|++++|+++ .++.++|+|++|-
T Consensus 83 L~~r~wedkdG~~rt~~eV~a~~Vg 107 (186)
T PRK07772 83 LKQRSYETREGEKRTVVELEVDEIG 107 (186)
T ss_pred EEcCceECCCCCEEEEEEEEEEEcc
Confidence 999999876 5788999999663
No 23
>PRK05853 hypothetical protein; Validated
Probab=99.79 E-value=4.6e-19 Score=156.43 Aligned_cols=85 Identities=15% Similarity=0.196 Sum_probs=76.5
Q ss_pred EEEEeCCCceEEEcCCCcEEEEEEEEEcCC----------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCC
Q 021274 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAA----------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (315)
Q Consensus 74 LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~----------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~e 143 (315)
|||||++|||+++++ |..+++|+||+++. .+++||+|++||++|+.+++||+||++|+|+|+|++++|+
T Consensus 1 ivGrLg~DPelr~~~-g~~va~F~lAvn~r~~~~~Ge~~d~~T~wi~V~~wg~lAe~v~~~L~KG~~V~V~GrL~~~~we 79 (161)
T PRK05853 1 VVGHIVNDPQRRKVG-DQEVIKFRVASNSRRRTADGGWEPGNSLFITVNCWGRLVTGVGAALGKGAPVIVVGHVYTSEYE 79 (161)
T ss_pred CeEcccCCCEEEEEC-CceEEEEEEEECCCeECCCCCEeccCccEEEEEEEhHHHHHHHHHcCCCCEEEEEEEEEccceE
Confidence 699999999999985 78999999999861 1489999999999999999999999999999999999998
Q ss_pred cC---CeEEEEEEEeEEee
Q 021274 144 IE---GQANVQVMVHSLNL 159 (315)
Q Consensus 144 dk---~rs~~eVvVe~I~F 159 (315)
++ .++.++|+|++|-.
T Consensus 80 dkdG~~r~~~eV~a~~Vg~ 98 (161)
T PRK05853 80 DRDGNRRSSLEMRATSVGP 98 (161)
T ss_pred CCCCCEEEEEEEEEEEecc
Confidence 76 47888999998743
No 24
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=99.79 E-value=1.9e-18 Score=135.61 Aligned_cols=89 Identities=22% Similarity=0.325 Sum_probs=82.7
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCC--------CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCC
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAA--------SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~--------~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~e 143 (315)
|+|+|+|+++|+++++++|..++.|+|++++. .+++||+|++||++|+.+++||+|||.|+|+|+|+.+.|+
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 58999999999999999999999999999972 3689999999999999999999999999999999999998
Q ss_pred cC---CeEEEEEEEeEEeee
Q 021274 144 IE---GQANVQVMVHSLNLI 160 (315)
Q Consensus 144 dk---~rs~~eVvVe~I~FV 160 (315)
++ .++.++|+|++|.++
T Consensus 81 ~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 81 DKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred CCCCCEEEEEEEEEEEEEEC
Confidence 76 578899999999874
No 25
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.74 E-value=3e-17 Score=151.18 Aligned_cols=94 Identities=18% Similarity=0.186 Sum_probs=85.9
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC-CCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec-CCC-cC
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD-PPA-IE 145 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r-~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr-s~e-dk 145 (315)
.|+|+|+|+|++|||++|+..|..++.|+|||+| .+.++||+|++|++||+.+. |+||++|+|+|+|++. .++ ++
T Consensus 8 ~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rlae~~~--l~kG~~v~VeGqlrsy~~~~~G~ 85 (219)
T PRK05813 8 NNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERLLAGMD--LKVGTLVIVEGQLRSYNKFIDGK 85 (219)
T ss_pred cCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhhhhhhc--ccCCCEEEEEEEEEEeccCCCCc
Confidence 6899999999999999999999999999999999 66799999999999999998 9999999999999943 553 33
Q ss_pred CeEEEEEEEeEEeeecCCc
Q 021274 146 GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 146 ~rs~~eVvVe~I~FV~~k~ 164 (315)
.++.++|.|.+|.|++..+
T Consensus 86 ~R~vl~V~a~~i~~l~~~~ 104 (219)
T PRK05813 86 NRLILTVFARNIEYCDERS 104 (219)
T ss_pred EEEEEEEEEEEEEEccCCC
Confidence 6899999999999999865
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.55 E-value=7.4e-15 Score=129.88 Aligned_cols=98 Identities=14% Similarity=0.170 Sum_probs=86.9
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC------------CCCCeEEEEEEec-chHHHHHhhcCCCCeEEE
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA------------ASHSLWIPILFEG-DLAHIASSHLKKDDHVHI 133 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r------------~~~T~wI~Vv~wG-kLAE~aakhLKKGD~V~V 133 (315)
+-+|.|+|+|+||+||..+...+|+.|.-|+|+++. ...++||+|.+|+ .||+.+.+||+||..|||
T Consensus 53 ~~vnkv~lvG~VGqdPl~k~~rngrpVtiFsv~T~~~~k~r~~q~g~~~~~tqWHRVsVf~~~L~d~~~k~lkKGsriyv 132 (175)
T KOG1653|consen 53 RGVNKVILVGRVGQDPLQKILRNGRPVTIFSVGTGGMFKQRLYQAGDQPQPTQWHRVSVFNEVLADYALKYLKKGSRIYV 132 (175)
T ss_pred cccceEEEEcccccchHHHhhcCCCeEEEEEeecCccccccccccCCcCCcceeEEEEeeCchHHHHHHHHhcCCCEEEE
Confidence 779999999999999999999999999999999975 1368999999999 899999999999999999
Q ss_pred EEEeEecCCCcC-----CeEEEEEEEeEEeeecCCc
Q 021274 134 AGQLTADPPAIE-----GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 134 eGRL~srs~edk-----~rs~~eVvVe~I~FV~~k~ 164 (315)
+|+|.++-+.++ .+...-|++.++.|+....
T Consensus 133 eG~iey~g~~~d~~g~~~r~~t~iIa~~v~Fl~~a~ 168 (175)
T KOG1653|consen 133 EGKIEYRGENDDIQGNVKRIPTIIIARDVSFLIDAI 168 (175)
T ss_pred eeeEEeeeeeccccCceeecceEEEechhHHHHHHh
Confidence 999999766554 3555788999999987554
No 27
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.49 E-value=1.1e-06 Score=73.67 Aligned_cols=90 Identities=19% Similarity=0.223 Sum_probs=76.8
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC----C--CC--CeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA----A--SH--SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r----~--~~--T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
+|.+.|.|.|..-+.+||||.|-+++.|.|.+.. . .+ ..-+++++.|++|+.... +..|..|.|+|.|..
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 4999999999999999999999999999999876 1 12 356888999999998876 999999999999998
Q ss_pred CCCcCCeEEEEEEEeEEeeecC
Q 021274 141 PPAIEGQANVQVMVHSLNLIEP 162 (315)
Q Consensus 141 s~edk~rs~~eVvVe~I~FV~~ 162 (315)
...+....-+.+++|+|++.
T Consensus 79 --~~~~~~~LVLHi~~Ie~i~~ 98 (107)
T PRK00036 79 --ARKDSVKVKLHLQQARRIAG 98 (107)
T ss_pred --CCCCCCcEEEEhHHeEEccc
Confidence 22355677889999999954
No 28
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=98.23 E-value=2.4e-05 Score=64.87 Aligned_cols=94 Identities=15% Similarity=0.235 Sum_probs=78.9
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC-CC-----CC--eEEEEEEecchHHHHHhhcCCCCeEEEEEEeE
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-AS-----HS--LWIPILFEGDLAHIASSHLKKDDHVHIAGQLT 138 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r-~~-----~T--~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~ 138 (315)
.+.|.+.|+|.|.+-|..+++|+|-..|.|.|..+. .. +. .-+++.+-|+.|+..-..+..|..|.|+|.|.
T Consensus 2 ~~~Nrl~L~g~vak~~~r~~sPsGIphc~f~Lehrs~q~Eag~~RQv~~~mpv~vsG~qa~~lt~~i~~Gs~i~v~GFla 81 (103)
T COG2965 2 NMTNRLSLSGTVAKVPVRRYSPSGIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSGRQAEELTQSITVGSYILVVGFLA 81 (103)
T ss_pred CccceEEEEEEeeccceeeeCCCCCeeEEEEEeecchhhhCCcceeEEEEccEEeechhhhhhhhccccccEEEEEEEEE
Confidence 467999999999999999999999999999999986 11 22 44778999999999888899999999999999
Q ss_pred ecCCCcCCeEEEEEEEeEEeeec
Q 021274 139 ADPPAIEGQANVQVMVHSLNLIE 161 (315)
Q Consensus 139 srs~edk~rs~~eVvVe~I~FV~ 161 (315)
..+-. .+-...-|.++++.|++
T Consensus 82 ~~~~~-sg~~~lvlha~qi~~id 103 (103)
T COG2965 82 CHKRR-SGLSKLVLHAEQIEFID 103 (103)
T ss_pred eeccc-CCccEEEEEeeEEEecC
Confidence 86532 25667788888888864
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=97.32 E-value=0.0019 Score=47.56 Aligned_cols=75 Identities=16% Similarity=0.225 Sum_probs=55.4
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEEE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~e 151 (315)
|.+.|+|.+-. .+|..++.++|.- .+.-+.|++|++.+....+.++.||.|.|.|++..+.-. .++
T Consensus 1 V~v~G~V~~~~-----~~~~~~~~~~l~D----~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~~~~-----~~~ 66 (75)
T PF01336_consen 1 VTVEGRVTSIR-----RSGGKIVFFTLED----GTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRYNGG-----ELE 66 (75)
T ss_dssp EEEEEEEEEEE-----EEETTEEEEEEEE----TTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEETTS-----SEE
T ss_pred CEEEEEEEEEE-----cCCCCEEEEEEEE----CCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEECCc-----cEE
Confidence 57788887422 3444466666654 578999999998888889999999999999999987321 467
Q ss_pred EEEeEEeee
Q 021274 152 VMVHSLNLI 160 (315)
Q Consensus 152 VvVe~I~FV 160 (315)
|.+++++.|
T Consensus 67 l~~~~i~~l 75 (75)
T PF01336_consen 67 LIVPKIEIL 75 (75)
T ss_dssp EEEEEEEEE
T ss_pred EEECEEEEC
Confidence 777777653
No 30
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=97.06 E-value=0.013 Score=44.20 Aligned_cols=74 Identities=16% Similarity=0.170 Sum_probs=57.4
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEEE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~e 151 (315)
+.+.|-|. +... +.+| .|.++|.- .+.-+.|++|.+..+.+...|+.|+.|.|.|++..+.+. ..++
T Consensus 2 ~~v~g~v~-~i~~--tk~g--~~~~~L~D----~~~~i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~~~~~~----~~~~ 68 (78)
T cd04489 2 VWVEGEIS-NLKR--PSSG--HLYFTLKD----EDASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEPR----GGYQ 68 (78)
T ss_pred EEEEEEEe-cCEE--CCCc--EEEEEEEe----CCeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECCC----CEEE
Confidence 56788887 3444 7777 77777765 346799999999888888899999999999999986543 2367
Q ss_pred EEEeEEe
Q 021274 152 VMVHSLN 158 (315)
Q Consensus 152 VvVe~I~ 158 (315)
+.|+++.
T Consensus 69 l~v~~i~ 75 (78)
T cd04489 69 LIVEEIE 75 (78)
T ss_pred EEEEEEE
Confidence 7777764
No 31
>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.46 E-value=0.055 Score=42.67 Aligned_cols=68 Identities=19% Similarity=0.142 Sum_probs=53.9
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecc-hHHHHHhhcC-CCCeEEEEEEeEecCCCcC
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLK-KDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGk-LAE~aakhLK-KGD~V~VeGRL~srs~edk 145 (315)
|.+-|.|- +.|.|.+.+|+.+..+.|+- .++-+.|..|.+ .-+. ...++ +|+.|.|.|.+..++|..+
T Consensus 2 v~i~G~Vf-~~e~re~k~g~~i~~~~itD----~t~Si~~K~F~~~~~~~-~~~ik~~G~~v~v~G~v~~D~f~~e 71 (82)
T cd04484 2 VVVEGEVF-DLEIRELKSGRKILTFKVTD----YTSSITVKKFLRKDEKD-KEELKSKGDWVRVRGKVQYDTFSKE 71 (82)
T ss_pred EEEEEEEE-EEEEEEecCCCEEEEEEEEc----CCCCEEEEEeccCChhH-HhhcccCCCEEEEEEEEEEccCCCc
Confidence 77889986 47999999999888777663 567788888873 3333 35699 9999999999999999654
No 32
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=96.09 E-value=0.063 Score=41.68 Aligned_cols=72 Identities=18% Similarity=0.175 Sum_probs=53.4
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEEE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQ 151 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~e 151 (315)
|.+-|.|...+. .+|- ++|+|-- ...-|+|++|...+..+...++.||.|.|.|++.. .+-.|+
T Consensus 1 v~v~GeVs~~~~----~~GH--vyfsLkD----~~a~i~cv~f~~~~~~~~~~l~~Gd~V~v~G~v~~------~~G~~q 64 (73)
T cd04487 1 VHIEGEVVQIKQ----TSGP--TIFTLRD----ETGTVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEP------RDGQLQ 64 (73)
T ss_pred CEEEEEEecccc----CCCC--EEEEEEc----CCEEEEEEEEchhccCCcCCCCCCCEEEEEEEEec------CCeEEE
Confidence 356788876653 5565 5677733 33469999999887666678999999999999884 356688
Q ss_pred EEEeEEee
Q 021274 152 VMVHSLNL 159 (315)
Q Consensus 152 VvVe~I~F 159 (315)
+.|++++.
T Consensus 65 l~v~~i~~ 72 (73)
T cd04487 65 IEVESLEV 72 (73)
T ss_pred EEEeeEEE
Confidence 88888764
No 33
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=95.97 E-value=0.13 Score=36.19 Aligned_cols=47 Identities=19% Similarity=0.111 Sum_probs=39.1
Q ss_pred CcEEEEEEEEEcCCCCC-eEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 90 GKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 90 Gk~VA~ftLAV~r~~~T-~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
|+..+.++|. +.+ ..+.|++|.+..+....+++.|+.|.|.|++..+
T Consensus 15 ~~~~~~~~l~----D~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~~ 62 (75)
T cd03524 15 EGKVLIFTLT----DGTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKKF 62 (75)
T ss_pred CCeEEEEEEE----cCCCCEEEEEEEchHHHHHHhhccCCCEEEEEEEEEec
Confidence 5556666664 256 8999999999998888899999999999999764
No 34
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=95.92 E-value=0.086 Score=39.43 Aligned_cols=74 Identities=15% Similarity=0.227 Sum_probs=54.2
Q ss_pred CCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEEEEEEeEEee
Q 021274 80 APVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLNL 159 (315)
Q Consensus 80 ~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~eVvVe~I~F 159 (315)
..++.+.+.+|+.++.++|.- .+--+.|++|++.-+. ...++.|..|.|.|++... .+ ..++.+.++.-
T Consensus 7 ~~~~~~~tk~g~~~~~~~l~D----~tg~i~~~~f~~~~~~-~~~l~~g~~v~v~G~v~~~--~~----~~~l~~~~i~~ 75 (83)
T cd04492 7 KSKELRTAKNGKPYLALTLQD----KTGEIEAKLWDASEED-EEKFKPGDIVHVKGRVEEY--RG----RLQLKIQRIRL 75 (83)
T ss_pred EEeeeecccCCCcEEEEEEEc----CCCeEEEEEcCCChhh-HhhCCCCCEEEEEEEEEEe--CC----ceeEEEEEEEE
Confidence 446677888998777777665 4556999999965543 6789999999999999653 11 35677777776
Q ss_pred ecCCc
Q 021274 160 IEPTS 164 (315)
Q Consensus 160 V~~k~ 164 (315)
+...+
T Consensus 76 l~~~~ 80 (83)
T cd04492 76 VTEED 80 (83)
T ss_pred CCccc
Confidence 66443
No 35
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=95.55 E-value=0.07 Score=43.53 Aligned_cols=67 Identities=13% Similarity=0.014 Sum_probs=52.2
Q ss_pred cEEEEEEEeCCCceEEEcCCC---cEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 70 NSVNLIGHVDAPVQFQTSSDG---KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~G---k~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
+.+.+.|||.+-=+++...++ ..+..+.|+- +++.-|.+++|++.|+.....|+.|+.++|+|-...
T Consensus 10 ~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~D---e~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V~ 79 (104)
T cd04474 10 NKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLD---EDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSVK 79 (104)
T ss_pred CcEEEEEEEeeccccccccCCCCCcEEEEEEEEE---CCCCEEEEEEehHHHHHhhcccccccEEEEeccEEe
Confidence 568999999986666665442 4455666654 237799999999999999999999999999985554
No 36
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=94.65 E-value=0.25 Score=36.33 Aligned_cols=74 Identities=15% Similarity=0.210 Sum_probs=53.0
Q ss_pred EEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEEEEE
Q 021274 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVM 153 (315)
Q Consensus 74 LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~eVv 153 (315)
++|.|. +.+.+.+.+|+..+.++|.- .+.-+.|++|++.-+.+...++.|..|.|.|++..+. ...++.
T Consensus 2 i~g~v~-~~~~~~~k~g~~~~~~~l~D----~tg~~~~~~f~~~~~~~~~~l~~g~~v~v~G~v~~~~------~~~~l~ 70 (84)
T cd04485 2 VAGLVT-SVRRRRTKKGKRMAFVTLED----LTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRD------GGLRLI 70 (84)
T ss_pred EEEEEE-EeEEEEcCCCCEEEEEEEEe----CCCeEEEEECHHHHHHHHHHhcCCCEEEEEEEEEecC------CceEEE
Confidence 456665 35667888898777776644 4556899999876555678899999999999997632 135555
Q ss_pred EeEEe
Q 021274 154 VHSLN 158 (315)
Q Consensus 154 Ve~I~ 158 (315)
++++.
T Consensus 71 ~~~i~ 75 (84)
T cd04485 71 AERIE 75 (84)
T ss_pred eeccc
Confidence 65553
No 37
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=94.35 E-value=0.62 Score=37.88 Aligned_cols=77 Identities=17% Similarity=0.245 Sum_probs=58.9
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHH-hhcCCCCeEEEEEEeEecCCCcCCe
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQLTADPPAIEGQ 147 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aa-khLKKGD~V~VeGRL~srs~edk~r 147 (315)
+-.|-+.|.|. +++...+| .++|+|.- +.--++|++|...+..+. .-++.|+.|.|.|++..+...
T Consensus 21 ~~~vwV~GEIs---~~~~~~~g--h~YftLkD----~~a~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~~~y~~~---- 87 (99)
T PF13742_consen 21 LPNVWVEGEIS---NLKRHSSG--HVYFTLKD----EEASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYEPR---- 87 (99)
T ss_pred cCCEEEEEEEe---ecEECCCc--eEEEEEEc----CCcEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEECCC----
Confidence 35678889887 45454444 37788876 337899999999999888 889999999999999988653
Q ss_pred EEEEEEEeEEe
Q 021274 148 ANVQVMVHSLN 158 (315)
Q Consensus 148 s~~eVvVe~I~ 158 (315)
-.+++.|++|.
T Consensus 88 G~~sl~v~~i~ 98 (99)
T PF13742_consen 88 GSLSLIVEDID 98 (99)
T ss_pred cEEEEEEEEeE
Confidence 34666676653
No 38
>PRK07211 replication factor A; Reviewed
Probab=93.47 E-value=0.48 Score=49.12 Aligned_cols=80 Identities=15% Similarity=0.174 Sum_probs=60.1
Q ss_pred ccEEEEEEEeCCCceEEEcC--C-C--cEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCC
Q 021274 69 ANSVNLIGHVDAPVQFQTSS--D-G--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~--~-G--k~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~e 143 (315)
+|.|++.|||..--++|... + | ..++++.|+- +|--|++++|++.|+.....|+.||-++|.|+.. ..|
T Consensus 63 ~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~D----eTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~-~~y- 136 (485)
T PRK07211 63 MDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVAD----ETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK-DGY- 136 (485)
T ss_pred CCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEEc----CCCeEEEEEechHhHhhhcccCCCCEEEEeceEe-ccc-
Confidence 48899999999877777642 2 1 3567777665 6779999999999999899999999999999764 222
Q ss_pred cCCeEEEEEEEeEEe
Q 021274 144 IEGQANVQVMVHSLN 158 (315)
Q Consensus 144 dk~rs~~eVvVe~I~ 158 (315)
...+|.+..+.
T Consensus 137 ----s~~El~i~~ve 147 (485)
T PRK07211 137 ----NGLEVSVDKVE 147 (485)
T ss_pred ----cceEEEEeeEE
Confidence 22466666544
No 39
>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=93.13 E-value=0.95 Score=36.35 Aligned_cols=72 Identities=17% Similarity=0.092 Sum_probs=51.2
Q ss_pred EEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch--HHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEE
Q 021274 73 NLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (315)
Q Consensus 73 ~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL--AE~aakhLKKGD~V~VeGRL~srs~edk~rs~~ 150 (315)
.+.|.|..-+. ...+|- ++|+|.- .+.-+.|++|... +..+..-|+.||.|.|.|++..+.
T Consensus 2 ~v~GeVs~~~~--~~~sGH--~yFtlkD----~~~~i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~v~~y~--------- 64 (91)
T cd04482 2 RVTGKVVEEPR--TIEGGH--VFFKISD----GTGEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT--------- 64 (91)
T ss_pred EEEEEEeCCee--cCCCCC--EEEEEEC----CCcEEEEEEECcccccccccCCCCCCCEEEEEEEEecCC---------
Confidence 35677765432 224554 5676643 3467999999887 667778899999999999987664
Q ss_pred EEEEeEEeeec
Q 021274 151 QVMVHSLNLIE 161 (315)
Q Consensus 151 eVvVe~I~FV~ 161 (315)
++.|+.+..+.
T Consensus 65 ql~ve~l~~~g 75 (91)
T cd04482 65 TLNLEKLRVIR 75 (91)
T ss_pred EEEEEEEEECC
Confidence 57787777554
No 40
>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=92.81 E-value=2.6 Score=33.02 Aligned_cols=72 Identities=18% Similarity=0.338 Sum_probs=52.9
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHH--HHHhhcCCCCeEEEEEEeEecCCCcCCeEE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE--~aakhLKKGD~V~VeGRL~srs~edk~rs~ 149 (315)
|.++|-|.. .. .|.+|+. .++| . +.+--+.|++|.+.-+ .+...|+.|..|+|.|++..+ + .
T Consensus 2 v~i~GiI~~-v~--~TK~g~~--~~~l--e--D~~G~~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g~v~~~---~-~--- 65 (79)
T cd04490 2 VSIIGMVND-VR--STKNGHR--IVEL--E--DTTGRITVLLTKDKEELFEEAEDILPDEVIGVSGTVSKD---G-G--- 65 (79)
T ss_pred EEEEEEEeE-EE--EcCCCCE--EEEE--E--CCCCEEEEEEeCchhhhhhhhhhccCCCEEEEEEEEecC---C-C---
Confidence 567777763 44 7788886 3333 2 3566799999999888 888999999999999999431 1 2
Q ss_pred EEEEEeEEeee
Q 021274 150 VQVMVHSLNLI 160 (315)
Q Consensus 150 ~eVvVe~I~FV 160 (315)
++.|+++-+-
T Consensus 66 -~l~~~~I~~~ 75 (79)
T cd04490 66 -LIFADEIFRP 75 (79)
T ss_pred -EEEEEEeEcC
Confidence 7778877654
No 41
>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=92.65 E-value=0.59 Score=47.35 Aligned_cols=79 Identities=10% Similarity=0.145 Sum_probs=62.5
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeE
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs 148 (315)
+..|-+.|.|.. ++...+|- ++|+|-- ...-|+|++|...|..+.-.++-|+.|.|.|++..+.. +-
T Consensus 17 ~~~v~V~GEisn---~~~~~sGH--~YFtLkD----~~a~i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~~y~~----~G 83 (432)
T TIGR00237 17 FLQVWIQGEISN---FTQPVSGH--WYFTLKD----ENAQVRCVMFRGNNNRLKFRPQNGQQVLVRGGISVYEP----RG 83 (432)
T ss_pred CCcEEEEEEecC---CeeCCCce--EEEEEEc----CCcEEEEEEEcChhhCCCCCCCCCCEEEEEEEEEEECC----CC
Confidence 457899999984 44445664 7888842 45679999999999888778999999999999998865 44
Q ss_pred EEEEEEeEEeee
Q 021274 149 NVQVMVHSLNLI 160 (315)
Q Consensus 149 ~~eVvVe~I~FV 160 (315)
.|+++|+++.-.
T Consensus 84 ~~ql~v~~i~~~ 95 (432)
T TIGR00237 84 DYQIICFEMQPA 95 (432)
T ss_pred cEEEEEEEeccC
Confidence 588999988854
No 42
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=92.52 E-value=0.71 Score=46.28 Aligned_cols=80 Identities=15% Similarity=0.161 Sum_probs=62.6
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeE
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs 148 (315)
+-.|-+.|-|.. ++...+|- ++|+|.-. ..-++|++|...+..+...++.|+.|.|.|++..+.. +.
T Consensus 23 ~~~v~v~gEis~---~~~~~sGH--~Yf~Lkd~----~a~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~~y~~----~g 89 (438)
T PRK00286 23 LGQVWVRGEISN---FTRHSSGH--WYFTLKDE----IAQIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLYEP----RG 89 (438)
T ss_pred CCcEEEEEEeCC---CeeCCCCe--EEEEEEcC----CcEEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEECC----CC
Confidence 456889999874 44445663 78888653 5579999999999888778999999999999998754 44
Q ss_pred EEEEEEeEEeeec
Q 021274 149 NVQVMVHSLNLIE 161 (315)
Q Consensus 149 ~~eVvVe~I~FV~ 161 (315)
.|+++|++|.-.+
T Consensus 90 ~~ql~v~~i~~~g 102 (438)
T PRK00286 90 DYQLIVEEIEPAG 102 (438)
T ss_pred CEEEEEEEeeeCC
Confidence 5888998887543
No 43
>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=91.90 E-value=4.7 Score=31.14 Aligned_cols=80 Identities=14% Similarity=0.220 Sum_probs=52.9
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHH---HHHhhcCCCCeEEEEEEeEecCCCcCCeE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE---~aakhLKKGD~V~VeGRL~srs~edk~rs 148 (315)
|.+-|+|.+ +|. .|+ ++++.|. + .+.-++|++-.+..+ ....+|+.||-|.|+|.+...........
T Consensus 2 V~i~Gwv~~---~R~--~g~-~~Fi~Lr--d--~~~~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~~~~~ 71 (85)
T cd04100 2 VTLAGWVHS---RRD--HGG-LIFIDLR--D--GSGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGNLATG 71 (85)
T ss_pred EEEEEEEeh---hcc--CCC-EEEEEEE--e--CCeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCCCCCC
Confidence 788899864 333 455 5655553 2 235577776655322 23467999999999999997653212245
Q ss_pred EEEEEEeEEeeec
Q 021274 149 NVQVMVHSLNLIE 161 (315)
Q Consensus 149 ~~eVvVe~I~FV~ 161 (315)
.+||.++++..+.
T Consensus 72 ~~El~~~~i~il~ 84 (85)
T cd04100 72 EIELQAEELEVLS 84 (85)
T ss_pred CEEEEEeEEEEEC
Confidence 5899999998774
No 44
>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=90.24 E-value=8.2 Score=30.87 Aligned_cols=83 Identities=16% Similarity=0.233 Sum_probs=54.0
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch---HHH---HHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL---AE~---aakhLKKGD~V~VeGRL~srs~edk 145 (315)
|.+.|+|.+ +|. .|+.++++.|. + .+..++|++-.+. .+. .++.|+.||.|.|+|.+....-..+
T Consensus 2 V~i~Gwv~~---~R~--~g~k~~Fi~Lr--D--~sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~ 72 (102)
T cd04320 2 VLIRARVHT---SRA--QGAKLAFLVLR--Q--QGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEEPIK 72 (102)
T ss_pred EEEEEEEEE---eec--CCCceEEEEEe--c--CCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCCccc
Confidence 678899863 343 35335555552 2 3456888887553 222 2356999999999999986421111
Q ss_pred --CeEEEEEEEeEEeeecCC
Q 021274 146 --GQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 146 --~rs~~eVvVe~I~FV~~k 163 (315)
....+||.|+++..+...
T Consensus 73 ~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 73 SCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred CCCcCcEEEEEEEEEEEecC
Confidence 225699999999999755
No 45
>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=89.95 E-value=7.1 Score=32.31 Aligned_cols=70 Identities=23% Similarity=0.194 Sum_probs=50.5
Q ss_pred CccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC--CCC--CeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecC
Q 021274 68 VANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--ASH--SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (315)
Q Consensus 68 l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r--~~~--T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs 141 (315)
|+|.|.|-|-+.+. +-+- .+.-...+|...| +++ |+|+-+-+-|.||-.+.+|.+|=..+.|+|-|++..
T Consensus 1 MLN~V~LEG~IeS~---kWS~-~KTGF~VTI~QkR~FG~r~FTDyyViYAN~QL~~ELEky~~k~k~isieG~L~TY~ 74 (104)
T PF11506_consen 1 MLNTVFLEGEIESY---KWSK-KKTGFLVTIKQKRKFGERTFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRTYL 74 (104)
T ss_dssp --EEEEEEEEEEEE---EE-T-TSSEEEEEEEEEEEETTEEEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEEEE
T ss_pred CcceEEEeceeehh---cccc-cCceEEEEEeehhhhccccceeEEEEEECCeeehhHHHhhhhceEEEEeeehhhHH
Confidence 68999999988642 2222 2223344566666 444 689999999999999999999999999999999864
No 46
>PRK15491 replication factor A; Provisional
Probab=89.86 E-value=1.5 Score=43.80 Aligned_cols=72 Identities=18% Similarity=0.172 Sum_probs=50.7
Q ss_pred cEEEEEEEeCCCceEEEc--CCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEE-EeEecCCCc
Q 021274 70 NSVNLIGHVDAPVQFQTS--SDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPAI 144 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T--~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeG-RL~srs~ed 144 (315)
+.|.++|+|..--+.|.. .+|.....+.+..-+ ++--+++++|++.|+.. .-|..||.|+|.+ +.+.+.|.+
T Consensus 177 ~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~D--etG~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~~~~~g 251 (374)
T PRK15491 177 SDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGD--ETGKIRVTLWDGKTDLA-DKLENGDSVEIINGYARTNNYSQ 251 (374)
T ss_pred ccEEEEEEEEEccCceEEEecCCCeEEEEEEEEEC--CCCeEEEEEecchhccc-ccCCCCCEEEEEeceEEEeccCC
Confidence 359999999876655553 577643333333322 34459999999999886 6699999999966 577766644
No 47
>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=89.22 E-value=2.6 Score=32.42 Aligned_cols=47 Identities=17% Similarity=0.060 Sum_probs=32.8
Q ss_pred CCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEE-EEeEec
Q 021274 89 DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLTAD 140 (315)
Q Consensus 89 ~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~Ve-GRL~sr 140 (315)
+|.......+.+.+ +|--+++++|+..| ...++.||.|.+. |+.+..
T Consensus 18 ~g~~~~~~~~~l~D--~TG~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~~ 65 (82)
T cd04491 18 DGSEGKVQSGLVGD--ETGTIRFTLWDEKA---ADDLEPGDVVRIENAYVREF 65 (82)
T ss_pred CCCeeEEEEEEEEC--CCCEEEEEEECchh---cccCCCCCEEEEEeEEEEec
Confidence 44433333333333 45579999999988 6779999999999 776553
No 48
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=89.19 E-value=3.3 Score=42.56 Aligned_cols=80 Identities=19% Similarity=0.112 Sum_probs=64.7
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEE
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~ 150 (315)
.|.++|-|.. .+.+.|.+|..+|.++|.- .+--+.|++|.++-+.....|+.|..|.|+|++..+. ...
T Consensus 282 ~v~vaG~I~~-ik~~~TKkG~~maf~~leD----~tG~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~~------~~~ 350 (449)
T PRK07373 282 KVSAVVMLNE-VKKIVTKKGDPMAFLQLED----LSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRRD------DQV 350 (449)
T ss_pred EEEEEEEEEE-eEecccCCCCEEEEEEEEE----CCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------CeE
Confidence 5788888875 7777889999888888766 4566999999999999999999999999999997531 136
Q ss_pred EEEEeEEeeec
Q 021274 151 QVMVHSLNLIE 161 (315)
Q Consensus 151 eVvVe~I~FV~ 161 (315)
+++|+++.-+.
T Consensus 351 ~liv~~i~~l~ 361 (449)
T PRK07373 351 QLIVEDAEPIE 361 (449)
T ss_pred EEEEeEeecHh
Confidence 77888876554
No 49
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=89.18 E-value=2.4 Score=36.13 Aligned_cols=61 Identities=20% Similarity=0.203 Sum_probs=42.9
Q ss_pred cEEEEEEEeCC--CceEEEcCCCcE-EEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEE-EEeE
Q 021274 70 NSVNLIGHVDA--PVQFQTSSDGKH-WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIA-GQLT 138 (315)
Q Consensus 70 NsV~LIGrLg~--DPElr~T~~Gk~-VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~Ve-GRL~ 138 (315)
+.|.++|.|-. ++....+.+|.. +....|+- +|--|++++|++.|+ .++.||.|.|. |+..
T Consensus 15 ~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~D----~TG~I~~tlW~~~a~----~l~~GdvV~I~na~v~ 79 (129)
T PRK06461 15 ERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVGD----ETGRVKLTLWGEQAG----SLKEGEVVEIENAWTT 79 (129)
T ss_pred CceEEEEEEEEcCCceEEEeCCCceEEEEEEEEC----CCCEEEEEEeCCccc----cCCCCCEEEEECcEEe
Confidence 67888888884 334444556643 55555543 565699999999764 58899999999 5555
No 50
>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=88.75 E-value=9.4 Score=32.07 Aligned_cols=83 Identities=16% Similarity=0.305 Sum_probs=55.6
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHH--HHHhhcCCCCeEEEEEEeEecCC--C-cC
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPP--A-IE 145 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE--~aakhLKKGD~V~VeGRL~srs~--e-dk 145 (315)
.|.+.|+|.+ +|. .|+ ++++.| ++ .+..++|++-.+... .....|+.||.|.|+|.+....- . ..
T Consensus 16 ~V~i~Gwv~~---~R~--~gk-~~Fi~L--rD--~~g~~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~~~ 85 (135)
T cd04317 16 EVTLCGWVQR---RRD--HGG-LIFIDL--RD--RYGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVNPK 85 (135)
T ss_pred EEEEEEeEeh---hcc--cCC-EEEEEE--ec--CCeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccCCC
Confidence 4999999975 333 355 565555 32 234588877655332 23457999999999999987532 1 11
Q ss_pred -CeEEEEEEEeEEeeecCC
Q 021274 146 -GQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 146 -~rs~~eVvVe~I~FV~~k 163 (315)
....+||.+++|..+...
T Consensus 86 ~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 86 LPTGEIEVVASELEVLNKA 104 (135)
T ss_pred CCCCcEEEEEeEEEEEECC
Confidence 233589999999999865
No 51
>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha
Probab=88.52 E-value=2.6 Score=30.31 Aligned_cols=60 Identities=12% Similarity=0.154 Sum_probs=38.6
Q ss_pred EEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 74 LIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 74 LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
+.|+|.+- ...... |.....+.+.. .+--+.+++|+... .....+++|+.++|.|++...
T Consensus 2 i~~~V~~~-~~~~~~-~~~~~~~~~~D----~~g~i~~~~F~~~~-~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 2 VEGTVVSV-EVVPRR-GRRRLKVTLSD----GTGTLTLVFFNFQP-YLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred EEEEEEEE-EeccCC-CccEEEEEEEc----CCCEEEEEEECCCH-HHHhcCCCCCEEEEEEEEeec
Confidence 45665432 222222 44455555533 45678999998433 346779999999999999864
No 52
>PRK15491 replication factor A; Provisional
Probab=88.22 E-value=2.7 Score=42.12 Aligned_cols=64 Identities=17% Similarity=0.270 Sum_probs=49.5
Q ss_pred ccEEEEEEEeCCCceEEEc--CCC--cEEEEEEEEEcCCCCCeEEEEEEecchHHHHH-hhcCCCCeEEEEEE
Q 021274 69 ANSVNLIGHVDAPVQFQTS--SDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIAS-SHLKKDDHVHIAGQ 136 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~~G--k~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aa-khLKKGD~V~VeGR 136 (315)
.+.|.|.|+|.+--++|.. .+| ..++++.|+- +|--+++++|++.|+.+. .-|..||.|.|.|.
T Consensus 67 ~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~D----eTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~ 135 (374)
T PRK15491 67 SSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVAD----ETGSIRLTLWDDLADLIKTGDIEVGKSLNISGY 135 (374)
T ss_pred CCceEEEEEEeeccCCeeeecCCCCceEEEEEEEEc----CCCeEEEEEECchhhhhccCCcCCCCEEEEeee
Confidence 4889999999976566653 455 3355555554 566799999999999876 36999999999986
No 53
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=87.70 E-value=2.2 Score=39.59 Aligned_cols=90 Identities=11% Similarity=0.129 Sum_probs=65.0
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~ 146 (315)
.-+|.|-++|.|..-+-+-. ..-+.+++++ ++..++|+-.--+..-|-.+.+-+..+|.|.|.|++++...+ ++
T Consensus 43 ~k~nRifivGtltek~~i~e---d~~~~R~rVv--DpTGsF~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~~y~~d-~g 116 (196)
T COG3390 43 LKVNRIFIVGTLTEKEGIGE---DREYWRIRVV--DPTGSFYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIRTYRTD-EG 116 (196)
T ss_pred hheeEEEEEEEEEeccCcCC---cccEEEEEEe--cCCceEEEEcCCCChHHHHHHHhccCCceEEEecccceeecC-CC
Confidence 44899999999997654421 1335555544 344568875556667788889999999999999998876542 47
Q ss_pred eEEEEEEEeEEeeecC
Q 021274 147 QANVQVMVHSLNLIEP 162 (315)
Q Consensus 147 rs~~eVvVe~I~FV~~ 162 (315)
...+.|.++.+.-++.
T Consensus 117 ~~~~siRpE~vs~vde 132 (196)
T COG3390 117 VVLFSIRPELVSKVDE 132 (196)
T ss_pred ceEEEechhhhhhcCH
Confidence 7888888888877754
No 54
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=87.61 E-value=3.1 Score=47.39 Aligned_cols=81 Identities=19% Similarity=0.224 Sum_probs=65.4
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEE
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~ 149 (315)
..|.++|-|. ..+.+.|.+|+.++.++|.- .+--+.+++|.+.=+.+...|+.|..|.|.|++..+. ..
T Consensus 978 ~~V~v~G~I~-~vk~~~TKkG~~mafltLeD----~TG~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~~------~~ 1046 (1135)
T PRK05673 978 SVVTVAGLVV-SVRRRVTKRGNKMAIVTLED----LSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDD------GG 1046 (1135)
T ss_pred ceEEEEEEEE-EEEecccCCCCeEEEEEEEe----CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 3578888777 57888899999999888876 5567999999998777888999999999999997531 24
Q ss_pred EEEEEeEEeeec
Q 021274 150 VQVMVHSLNLIE 161 (315)
Q Consensus 150 ~eVvVe~I~FV~ 161 (315)
.+++|+++.-++
T Consensus 1047 ~qlii~~I~~L~ 1058 (1135)
T PRK05673 1047 LRLTAREVMDLE 1058 (1135)
T ss_pred EEEEEeecccHH
Confidence 678888887664
No 55
>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with
Probab=87.45 E-value=12 Score=29.01 Aligned_cols=80 Identities=19% Similarity=0.356 Sum_probs=50.7
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHH--HHHhhcCCCCeEEEEEEeEecCCCcCCeEE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE--~aakhLKKGD~V~VeGRL~srs~edk~rs~ 149 (315)
|.|.|+|.+ .|.. |+ ++++.| ++ .+.-++|++-.+.+. ...+.|..||.|.|+|.+....-.......
T Consensus 2 V~v~Gwv~~---~R~~--g~-~~Fi~L--rD--~~~~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~~ 71 (84)
T cd04323 2 VKVFGWVHR---LRSQ--KK-LMFLVL--RD--GTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAKQAPGG 71 (84)
T ss_pred EEEEEEEEE---EecC--CC-cEEEEE--Ec--CCeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCcccCCCCC
Confidence 678899863 3433 44 354444 32 234488877655332 233568999999999999875321111335
Q ss_pred EEEEEeEEeeec
Q 021274 150 VQVMVHSLNLIE 161 (315)
Q Consensus 150 ~eVvVe~I~FV~ 161 (315)
+||.++++..+.
T Consensus 72 ~Ei~~~~i~vl~ 83 (84)
T cd04323 72 YELQVDYLEIIG 83 (84)
T ss_pred EEEEEEEEEEEc
Confidence 899999998764
No 56
>PRK07211 replication factor A; Reviewed
Probab=86.61 E-value=2 Score=44.65 Aligned_cols=66 Identities=20% Similarity=0.243 Sum_probs=47.4
Q ss_pred ccEEEEEEEeCCCceEEEc--CCCc--EEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEE-EeEe
Q 021274 69 ANSVNLIGHVDAPVQFQTS--SDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTA 139 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~~Gk--~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeG-RL~s 139 (315)
.+.|.++|+|..--++|.. .+|+ .+..+.|+- ++-.|++++|++.|+.+ .-|..|+.|+|.| +.+.
T Consensus 171 ~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~D----eTG~IR~TlW~d~Ad~~-~~le~G~Vv~I~~a~Vre 241 (485)
T PRK07211 171 LSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVGD----ETGRVRVTLWDDRADLA-EELDAGESVEIVDGYVRE 241 (485)
T ss_pred CCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEEc----CCCeEEEEEechhhhhh-ccCCCCCEEEEEeeEEEe
Confidence 4779999999866666653 3553 234444433 45469999999999987 6799999999975 5543
No 57
>PRK12366 replication factor A; Reviewed
Probab=86.43 E-value=7 Score=41.75 Aligned_cols=82 Identities=20% Similarity=0.166 Sum_probs=55.0
Q ss_pred cEEEEEEEeCCCceEEEc--CCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEE-EeEecCCCcC-
Q 021274 70 NSVNLIGHVDAPVQFQTS--SDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTADPPAIE- 145 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T--~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeG-RL~srs~edk- 145 (315)
+.+.+.|||..--++|.. .+|. .-.+.+...+ ++--|+++||++.|+.... |..||-++|+| +++ .|...
T Consensus 292 ~~~~I~grV~~~~~~R~f~~~~g~-gkv~s~~l~D--~tG~IR~t~w~~~~d~~~~-l~~G~vy~is~~~vk--~y~~~~ 365 (637)
T PRK12366 292 EEVDVKGRIIAISDKREVERDDRT-AEVQDIELAD--GTGRVRVSFWGEKAKILEN-LKEGDAVKIENCKVR--TYYDNE 365 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCc-EEEEEEEEEc--CCCeEEEEEeCchhhhhcc-cCCCCEEEEecCEEe--eccccC
Confidence 379999999998888884 3554 3334444444 2335999999999998765 78999999998 444 33321
Q ss_pred CeEEEEEEEeEE
Q 021274 146 GQANVQVMVHSL 157 (315)
Q Consensus 146 ~rs~~eVvVe~I 157 (315)
+...+++.+..-
T Consensus 366 ~~~~~El~~~~~ 377 (637)
T PRK12366 366 GEKRVDLNAGYS 377 (637)
T ss_pred CCcCEEEEcCCc
Confidence 334455555433
No 58
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=85.85 E-value=9.2 Score=31.02 Aligned_cols=67 Identities=15% Similarity=0.102 Sum_probs=47.8
Q ss_pred EcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEEEEEEeE
Q 021274 86 TSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHS 156 (315)
Q Consensus 86 ~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~eVvVe~ 156 (315)
.+.+|=..-.+.|- +.+.....+.+.+||+.++.+. -++.||.|.|+=.|+.|.|. +++...|.|=.
T Consensus 16 ~s~~Gw~Kre~Vle-t~~qYP~~i~f~~~~dk~~~l~-~~~~Gd~V~Vsf~i~~RE~~--gr~fn~i~aWr 82 (84)
T PF11325_consen 16 VSKNGWKKREFVLE-TEEQYPQKICFEFWGDKIDLLD-NFQVGDEVKVSFNIEGREWN--GRWFNSIRAWR 82 (84)
T ss_pred CcCCCcEEEEEEEe-CCCcCCceEEEEEEcchhhhhc-cCCCCCEEEEEEEeeccEec--ceEeeEeEEEE
Confidence 45678222333333 4445567899999998887744 58899999999999999997 46666666543
No 59
>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=85.57 E-value=18 Score=29.35 Aligned_cols=81 Identities=11% Similarity=0.261 Sum_probs=54.4
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch--HH--HHHhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL--AE--~aakhLKKGD~V~VeGRL~srs~edk~ 146 (315)
.|.+-|+|.+ +|. .|+ ++++.| ++ .+-.++|++-.+. .+ .....|..|+.|.|+|.+....- .
T Consensus 14 ~V~v~Gwv~~---~R~--~g~-~~Fi~L--rD--~~g~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~---~ 80 (108)
T cd04316 14 EVTVAGWVHE---IRD--LGG-IKFVIL--RD--REGIVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEPK---A 80 (108)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEE--ec--CCeeEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCCC---C
Confidence 4899999964 444 344 555555 22 2346888876542 11 13346999999999999987531 1
Q ss_pred eEEEEEEEeEEeeecCCc
Q 021274 147 QANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 147 rs~~eVvVe~I~FV~~k~ 164 (315)
...+||.|++|..+....
T Consensus 81 ~~~~Ei~~~~i~il~~~~ 98 (108)
T cd04316 81 PNGVEIIPEEIEVLSEAK 98 (108)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 235999999999998653
No 60
>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=84.79 E-value=12 Score=29.67 Aligned_cols=67 Identities=18% Similarity=0.221 Sum_probs=41.9
Q ss_pred EEEEEEeCCCceEE--EcCC-CcEEEEEEEEEcCCCCC-eEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCC
Q 021274 72 VNLIGHVDAPVQFQ--TSSD-GKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPA 143 (315)
Q Consensus 72 V~LIGrLg~DPElr--~T~~-Gk~VA~ftLAV~r~~~T-~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~e 143 (315)
|.++|.|..--+.+ .+.+ |+....-.|.+-+ .+ .-+.|++||+.|+...... |+.|.+.| +....|.
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D--~t~~~i~vtLWg~~a~~~~~~~--~~vv~~~~-~~i~~~~ 72 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLVD--ESGHSVELTLWGEQAELFDGSE--NPVIAIKG-VKVSEFN 72 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEEe--CCCCEEEEEEEHHHhhhcccCC--CCEEEEEe-eEEEecC
Confidence 56777665433332 2333 6544444444433 33 2789999999999887654 99999988 4455554
No 61
>PRK14699 replication factor A; Provisional
Probab=84.65 E-value=3.1 Score=43.12 Aligned_cols=68 Identities=18% Similarity=0.262 Sum_probs=49.6
Q ss_pred ccEEEEEEEeCCCceEEEc--CCCcE--EEEEEEEEcCCCCCeEEEEEEecchHHHHHh-hcCCCCeEEEEEEeEecCC
Q 021274 69 ANSVNLIGHVDAPVQFQTS--SDGKH--WAGTVIVQHAASHSLWIPILFEGDLAHIASS-HLKKDDHVHIAGQLTADPP 142 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T--~~Gk~--VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aak-hLKKGD~V~VeGRL~srs~ 142 (315)
...|.|.|+|-.=-..|.+ .+|.. +++..||- +|--+++++|+++|+.+.+ .|++||.|.|.|. .+.|
T Consensus 67 ~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~iaD----eTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~--~r~~ 139 (484)
T PRK14699 67 SGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVGD----ETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY--AKQG 139 (484)
T ss_pred CceEEEEEEEEEecCceEEecCCCCceEEEEEEEec----CCCeEEEEEecCccchhhhcCCCCCCEEEEcce--eccC
Confidence 3679999999875445543 34533 34444443 6778999999999998877 6999999999995 4444
No 62
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=84.44 E-value=3.6 Score=42.39 Aligned_cols=79 Identities=13% Similarity=0.163 Sum_probs=61.7
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeE
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs 148 (315)
+-.|-+-|-|.. ++.-.+| -.+|+|-- +.--++|++|...+..+.--++.|+.|.|.|++..+.. +-
T Consensus 23 ~~~V~v~GEISn---~t~~~sg--H~YFtLKD----~~A~i~c~mf~~~~~~l~f~p~eG~~V~v~G~is~Y~~----rG 89 (440)
T COG1570 23 LGQVWVRGEISN---FTRPASG--HLYFTLKD----ERAQIRCVMFKGNNRRLKFRPEEGMQVLVRGKISLYEP----RG 89 (440)
T ss_pred CCeEEEEEEecC---CccCCCc--cEEEEEcc----CCceEEEEEEcCcccccCCCccCCCEEEEEEEEEEEcC----CC
Confidence 445778888763 4444566 46676643 46789999999999999888999999999999999865 55
Q ss_pred EEEEEEeEEeee
Q 021274 149 NVQVMVHSLNLI 160 (315)
Q Consensus 149 ~~eVvVe~I~FV 160 (315)
.|+|+++++..-
T Consensus 90 ~YQi~~~~~~p~ 101 (440)
T COG1570 90 DYQIVAESMEPA 101 (440)
T ss_pred ceEEEEecCCcC
Confidence 689999998854
No 63
>cd04321 ScAspRS_mt_like_N ScAspRS_mt_like_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae mitochondrial (mt) aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this fungal group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Mutations in the gene for
Probab=84.42 E-value=18 Score=28.30 Aligned_cols=82 Identities=12% Similarity=0.142 Sum_probs=50.8
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchH-HHHHhhcCCCCeEEEEEEeEecCCCcC-CeEE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIE-GQAN 149 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLA-E~aakhLKKGD~V~VeGRL~srs~edk-~rs~ 149 (315)
|.+.|+|.+ +|.. .|+ +++..| ++... .-++|++-.+.. -...+.+..||.|.|+|.+..+.-... ....
T Consensus 2 V~v~Gwv~~---~R~~-~~~-~~Fi~L--rD~~g-~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~~~~~~~ 73 (86)
T cd04321 2 VTLNGWIDR---KPRI-VKK-LSFADL--RDPNG-DIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKSSEKNDE 73 (86)
T ss_pred EEEEEeEee---EeCC-CCc-eEEEEE--ECCCC-CEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcCCCCCCC
Confidence 678888874 3332 233 455555 33222 347777654421 123457999999999999998643221 1245
Q ss_pred EEEEEeEEeeec
Q 021274 150 VQVMVHSLNLIE 161 (315)
Q Consensus 150 ~eVvVe~I~FV~ 161 (315)
+||.+++++.+.
T Consensus 74 ~Ei~~~~i~il~ 85 (86)
T cd04321 74 WELVVDDIQTLN 85 (86)
T ss_pred EEEEEEEEEEec
Confidence 899999998875
No 64
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=83.80 E-value=5.9 Score=38.89 Aligned_cols=58 Identities=14% Similarity=0.087 Sum_probs=47.0
Q ss_pred eCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 78 VDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 78 Lg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
|.++.+++.+.+|+....++|+- .|--|+..+|+..-+. ...++.|+.|.|.|+....
T Consensus 19 lv~~~~~~~~knG~~yl~l~l~D----~tG~I~ak~W~~~~~~-~~~~~~g~vv~v~G~v~~y 76 (314)
T PRK13480 19 LIKSATKGVASNGKPFLTLILQD----KSGDIEAKLWDVSPED-EATYVPETIVHVKGDIINY 76 (314)
T ss_pred EEEEceeeecCCCCeEEEEEEEc----CCcEEEEEeCCCChhh-HhhcCCCCEEEEEEEEEEE
Confidence 45578999999999887777765 5667999999976444 6679999999999999854
No 65
>PRK08402 replication factor A; Reviewed
Probab=83.54 E-value=5.3 Score=39.94 Aligned_cols=71 Identities=14% Similarity=0.148 Sum_probs=50.5
Q ss_pred cEEEEEEEeCCCceEE--EcCCCc--EEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 70 NSVNLIGHVDAPVQFQ--TSSDGK--HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 70 NsV~LIGrLg~DPElr--~T~~Gk--~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
..|.++|+|.+--+.| ...+|. .|++.+|+- +|-.+++++|++.|......+..||-|.|.|--..+.|.+
T Consensus 73 ~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~D----eTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a~V~e~~~G 147 (355)
T PRK08402 73 RGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIYD----DTGRARVVLWDAKVAKYYNKINVGDVIKVIDAQVRESLSG 147 (355)
T ss_pred ceeeEEEEEEEccCCceeeccCCCcceEEEEEEEc----CCCeEEEEEechhhhhhcccCCCCCEEEEECCEEeecCCC
Confidence 7899999998743333 234553 456566664 6778899999999987666799999999986544444433
No 66
>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=83.13 E-value=23 Score=28.64 Aligned_cols=77 Identities=16% Similarity=0.203 Sum_probs=50.8
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch--HHH---HHhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHI---ASSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL--AE~---aakhLKKGD~V~VeGRL~srs~edk~ 146 (315)
|.+-|+|-. +|. .|+ ++++.|.- .+.-++|++-.+. .+. +.+.|..||.|.|+|.+....-
T Consensus 2 v~v~GwV~~---~R~--~g~-~~Fi~lrd----~~~~lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~v~~~~~---- 67 (108)
T cd04322 2 VSVAGRIMS---KRG--SGK-LSFADLQD----ESGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKTKT---- 67 (108)
T ss_pred EEEEEEEEE---Eec--CCC-eEEEEEEE----CCeEEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEecCC----
Confidence 678888874 444 355 56555444 3456888775442 121 2223999999999999986432
Q ss_pred eEEEEEEEeEEeeecCC
Q 021274 147 QANVQVMVHSLNLIEPT 163 (315)
Q Consensus 147 rs~~eVvVe~I~FV~~k 163 (315)
..+||.++.+..+++.
T Consensus 68 -g~~El~~~~~~ils~~ 83 (108)
T cd04322 68 -GELSIFVKEFTLLSKS 83 (108)
T ss_pred -CCEEEEeCEeEEeecc
Confidence 2379999999998754
No 67
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=83.04 E-value=9.9 Score=44.49 Aligned_cols=74 Identities=19% Similarity=0.133 Sum_probs=57.5
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchH--HHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA--HIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLA--E~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
+-.+.|.+.|.|- +.|.+.+.+|+.+..|.|.- .++-|.|..|.+-. .....-+++|+.|.|.|++..++|..
T Consensus 234 ~~~~~v~i~G~if-~~e~~~~k~~~~~~~~~~td----~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~~~ 308 (1437)
T PRK00448 234 EEERRVVVEGYVF-KVEIKELKSGRHILTFKITD----YTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTFTR 308 (1437)
T ss_pred ccCCeEEEEEEEE-EEEEEeccCCCEEEEEEEEc----CCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCCCC
Confidence 3457899999996 58999999999888777742 56778888776322 12335699999999999999999976
Q ss_pred C
Q 021274 145 E 145 (315)
Q Consensus 145 k 145 (315)
+
T Consensus 309 ~ 309 (1437)
T PRK00448 309 D 309 (1437)
T ss_pred c
Confidence 5
No 68
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=82.21 E-value=9.1 Score=43.81 Aligned_cols=81 Identities=14% Similarity=0.124 Sum_probs=64.5
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEE
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~ 150 (315)
.|.++|-|.. .+.+.|..|..+|.++|.- .+--+.|++|.+.-+.+...|+.|..|.|+|++..+. + ...
T Consensus 993 ~v~v~g~i~~-~~~~~tk~G~~maf~~leD----~~g~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~--~---~~~ 1062 (1151)
T PRK06826 993 KVIIGGIITE-VKRKTTRNNEMMAFLTLED----LYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE--D---EEP 1062 (1151)
T ss_pred EEEEEEEEEE-eEeeccCCCCeEEEEEEEE----CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC--C---Cce
Confidence 5778888874 7777899999888888775 4556999999999888899999999999999997543 1 136
Q ss_pred EEEEeEEeeec
Q 021274 151 QVMVHSLNLIE 161 (315)
Q Consensus 151 eVvVe~I~FV~ 161 (315)
+++|+++.-+.
T Consensus 1063 ~~~~~~~~~l~ 1073 (1151)
T PRK06826 1063 KLICEEIEPLV 1073 (1151)
T ss_pred EEEEeeeecHh
Confidence 77888886554
No 69
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=81.70 E-value=7.8 Score=44.17 Aligned_cols=80 Identities=15% Similarity=0.127 Sum_probs=64.5
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEE
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~ 150 (315)
.|.++|-|.. .+.+.|..|+.+|.++|.- .+--+.|++|.+.-+.+...|..|..|.|+|++..+ . ...
T Consensus 945 ~v~v~g~i~~-~~~~~tk~g~~maf~~leD----~tg~~e~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~--~----~~~ 1013 (1107)
T PRK06920 945 VQRAIVYITS-VKVIRTKKGQKMAFITFCD----QNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELR--N----HKL 1013 (1107)
T ss_pred EEEEEEEEEE-eEeecCCCCCeEEEEEEee----CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec--C----CcE
Confidence 5888888874 6777789999888887765 566799999999989999999999999999999764 1 135
Q ss_pred EEEEeEEeeec
Q 021274 151 QVMVHSLNLIE 161 (315)
Q Consensus 151 eVvVe~I~FV~ 161 (315)
+++|+++.-+.
T Consensus 1014 ~~~~~~i~~l~ 1024 (1107)
T PRK06920 1014 QWIVNGLYPLE 1024 (1107)
T ss_pred EEEEeecccHH
Confidence 77888886654
No 70
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=79.10 E-value=13 Score=42.77 Aligned_cols=81 Identities=15% Similarity=0.124 Sum_probs=65.0
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEE
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~ 149 (315)
..|.++|-|.. .+.+.|.+|..+|.++|.- .+--+.|++|-+.=+.+...|+.|..|.|+|++..+. ..
T Consensus 1001 ~~v~v~g~i~~-~k~~~Tk~G~~maf~~leD----~tg~~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~~------~~ 1069 (1170)
T PRK07374 1001 AKVSAIAMIPE-MKQVTTRKGDRMAILQLED----LTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRD------DR 1069 (1170)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEEE----CCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------Ce
Confidence 35888888874 6777789999888887765 4566999999999999999999999999999997542 13
Q ss_pred EEEEEeEEeeec
Q 021274 150 VQVMVHSLNLIE 161 (315)
Q Consensus 150 ~eVvVe~I~FV~ 161 (315)
.+++|+++.-+.
T Consensus 1070 ~~~~~~~i~~l~ 1081 (1170)
T PRK07374 1070 VQLIIDDCREID 1081 (1170)
T ss_pred EEEEEeeeecHh
Confidence 577888886554
No 71
>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=78.65 E-value=16 Score=42.18 Aligned_cols=72 Identities=11% Similarity=0.068 Sum_probs=56.7
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHH--HHHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE--~aakhLKKGD~V~VeGRL~srs~edk 145 (315)
.+.|.+.|.|- +.|.+.+.+|+.+..|.|.- .++-|.|..|.+-.+ .....+++|+.|.|.|.+..++|..+
T Consensus 7 ~~~~~~~g~i~-~~~~~~~~~~~~~~~~~~~d----~~~s~~~k~f~~~~~~~~~~~~~~~g~~~~~~g~~~~d~~~~~ 80 (1213)
T TIGR01405 7 ENRVKIEGYIF-KIEIKELKSGRTLLKIKVTD----YTDSLILKKFLKSEEDPEKFDGIKIGKWVRARGKIELDNFSRD 80 (1213)
T ss_pred CCeEEEEEEEE-EEEeEeccCCCEEEEEEEEc----CCCCEEEEEecccccchHHHhhcCCCcEEEEEEEEeccCCCCc
Confidence 57899999996 58999999999888777663 566788888774322 12356999999999999999998755
No 72
>PRK12366 replication factor A; Reviewed
Probab=78.30 E-value=10 Score=40.55 Aligned_cols=63 Identities=22% Similarity=0.271 Sum_probs=47.6
Q ss_pred ccEEEEEEEeCCCceEEE--cCCC--cEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEE
Q 021274 69 ANSVNLIGHVDAPVQFQT--SSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ 136 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~--T~~G--k~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGR 136 (315)
++.|.+.|+|.+--++|. ..+| ..++.+.|+- +|--|++++|++.|+. ...|..||-+.|.|.
T Consensus 73 ~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~D----etG~Ir~t~W~~~~~~-~~~le~G~v~~i~~~ 139 (637)
T PRK12366 73 QINVEITGRIIEISNIKTFTRKDGSTGKLANITIAD----NTGTIRLTLWNDNAKL-LKGLKEGDVIKIENA 139 (637)
T ss_pred CcceEEEEEEEEccCCeEEECCCCCccEEEEEEEEc----CCCEEEEEEEchhhhh-hccCCCCCEEEEecc
Confidence 478999999987656554 3445 3355555554 4446999999999986 578999999999985
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=77.69 E-value=13 Score=31.87 Aligned_cols=75 Identities=15% Similarity=0.031 Sum_probs=50.4
Q ss_pred ccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk 145 (315)
-..|.+||-|..-...+.+.+....+.++|.-.......-+.|.+|++.++.+-. +..||-|.+.+ ++...|.++
T Consensus 14 ~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~~~~l~v~~F~~~~~~LP~-v~~GDVIll~~-~kv~~~~g~ 88 (138)
T cd04497 14 GGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNEESLPI-VKVGDIILLRR-VKIQSYNGK 88 (138)
T ss_pred CCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCCCCcEEEEEECCChhhCCC-CCCCCEEEEEE-EEEEEECCc
Confidence 3458899988765555555444455555554433211456999999999988665 59999999987 566666554
No 74
>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=75.81 E-value=31 Score=26.84 Aligned_cols=77 Identities=17% Similarity=0.113 Sum_probs=48.8
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHH---HHHhhcCCCCeEEEEEEeEecCCCcCCeE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE---~aakhLKKGD~V~VeGRL~srs~edk~rs 148 (315)
|.++|.|.. .+.. + .++++...+ .|--+.+.+|..-.+ .....++.|+.|.|.|+++... +
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---TNITYTIDD--GTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQ--G---- 65 (95)
T ss_pred EEEEEEEEe-eeEc----c---cEEEEEEEC--CCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccC--C----
Confidence 678888774 2222 2 123333333 444699999987654 3567899999999999997653 2
Q ss_pred EEEEEEeEEeeecCCc
Q 021274 149 NVQVMVHSLNLIEPTS 164 (315)
Q Consensus 149 ~~eVvVe~I~FV~~k~ 164 (315)
..+|.+..+..+...+
T Consensus 66 ~~ql~i~~i~~v~d~n 81 (95)
T cd04478 66 KKSIMAFSIRPVTDFN 81 (95)
T ss_pred eeEEEEEEEEEeCCcc
Confidence 2445566666665544
No 75
>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=75.66 E-value=40 Score=27.04 Aligned_cols=80 Identities=24% Similarity=0.308 Sum_probs=52.2
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHH---HHhhcCCCCeEEEEEEeEecCCCcCCeE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI---ASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~---aakhLKKGD~V~VeGRL~srs~edk~rs 148 (315)
|.+.|+|.+ +|. .|+ +++..| ++ .+..++|++-.+.++. ....|..||.|.|+|.+..+.- ...
T Consensus 2 V~v~Gwv~~---~R~--~gk-~~Fi~l--rD--~~g~iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~~---~~~ 68 (103)
T cd04319 2 VTLAGWVYR---KRE--VGK-KAFIVL--RD--STGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADPR---APG 68 (103)
T ss_pred EEEEEEEEe---EEc--CCC-eEEEEE--ec--CCeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECCC---CCC
Confidence 788899863 333 344 344433 33 2345888886553222 2246889999999999987531 123
Q ss_pred EEEEEEeEEeeecCCc
Q 021274 149 NVQVMVHSLNLIEPTS 164 (315)
Q Consensus 149 ~~eVvVe~I~FV~~k~ 164 (315)
.+||.+++++.+....
T Consensus 69 ~~Ei~~~~i~vl~~a~ 84 (103)
T cd04319 69 GAEVHGEKLEIIQNVE 84 (103)
T ss_pred CEEEEEEEEEEEecCC
Confidence 5999999999997653
No 76
>PRK14699 replication factor A; Provisional
Probab=75.19 E-value=15 Score=38.30 Aligned_cols=82 Identities=16% Similarity=0.202 Sum_probs=55.3
Q ss_pred cEEEEEEEeCCCceEEEc--CCCcE--EEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEE-eEecCCCc
Q 021274 70 NSVNLIGHVDAPVQFQTS--SDGKH--WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQ-LTADPPAI 144 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T--~~Gk~--VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGR-L~srs~ed 144 (315)
..|++.|+|..--+.|.. .+|.. +..+.|+- +|--+++++|++.|. +..-|..||.|.|.+- .+.+.|.
T Consensus 177 ~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~igD----eTG~ir~tlW~~~a~-~~~~l~~Gd~v~I~~a~vr~~~~~- 250 (484)
T PRK14699 177 GDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLGD----ETGTLRVTLWDDKTD-FLNQIEYGDTVELINAYARENAFT- 250 (484)
T ss_pred CceEEEEEEEeccCceEEecCCCCceEEEEEEEEc----CCceEEEEEECcccc-cccccCCCCEEEEecceEeecccC-
Confidence 459999999987776653 46643 55555543 788999999999986 4445999999998654 5544453
Q ss_pred CCeEEEEEEEeEEeee
Q 021274 145 EGQANVQVMVHSLNLI 160 (315)
Q Consensus 145 k~rs~~eVvVe~I~FV 160 (315)
..++|.+.+...+
T Consensus 251 ---~~~el~~~~~s~i 263 (484)
T PRK14699 251 ---QKVELQVGNRSII 263 (484)
T ss_pred ---CceEEEecCceEe
Confidence 2445555444444
No 77
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=74.29 E-value=21 Score=40.66 Aligned_cols=81 Identities=7% Similarity=0.180 Sum_probs=62.8
Q ss_pred cEEEEEEEeCCCceEEEcC-CCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeE
Q 021274 70 NSVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~-~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs 148 (315)
+.+.++|.|.. ...+.+. .|+.++.++|.- .+--+.|++|.+.-+.+...|+.|..|.|+|+++.+. .
T Consensus 885 ~~~~~~~~i~~-~~~~~tk~~g~~maf~~leD----~~g~ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~~------~ 953 (1034)
T PRK07279 885 SEATILVQIQS-IRVIRTKTKGQQMAFLSVTD----TKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQERD------G 953 (1034)
T ss_pred CcceEEEEEEE-EEEEEEcCCCCeEEEEEEee----CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC------C
Confidence 34778888864 5555666 898888877765 4566999999998888888999999999999997641 1
Q ss_pred EEEEEEeEEeeec
Q 021274 149 NVQVMVHSLNLIE 161 (315)
Q Consensus 149 ~~eVvVe~I~FV~ 161 (315)
..+++|+++.-+.
T Consensus 954 ~~~l~~~~i~~l~ 966 (1034)
T PRK07279 954 RLQMVLQQIQEAS 966 (1034)
T ss_pred eeEEEEeeeeccc
Confidence 3677888886554
No 78
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=72.63 E-value=21 Score=40.48 Aligned_cols=78 Identities=13% Similarity=0.114 Sum_probs=59.8
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEE
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~ 150 (315)
.|.+.|-+.. .+.+.|..| ++.++|. +.+--+.|++|.++-+.+...|+.|..+.|+|+++.+ ++ ..
T Consensus 955 ~v~v~g~i~~-~~~~~TkkG--maf~~le----D~~g~~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~----~~--~~ 1021 (1046)
T PRK05672 955 RVRVAGVVTH-RQRPGTASG--VTFLTLE----DETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNA----EG--VR 1021 (1046)
T ss_pred EEEEEEEEEE-EEEecCCCc--eEEEEEe----cCCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CC--eE
Confidence 3777777764 666668888 5655554 3567799999999999999999999999999999764 12 25
Q ss_pred EEEEeEEeeec
Q 021274 151 QVMVHSLNLIE 161 (315)
Q Consensus 151 eVvVe~I~FV~ 161 (315)
+++|+++.-+.
T Consensus 1022 ~~~~~~i~~~~ 1032 (1046)
T PRK05672 1022 HLVADRLEDLS 1032 (1046)
T ss_pred EEEEeeeechH
Confidence 78888886554
No 79
>PLN02850 aspartate-tRNA ligase
Probab=72.44 E-value=53 Score=34.56 Aligned_cols=84 Identities=15% Similarity=0.220 Sum_probs=54.9
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch---HHH---HHhhcCCCCeEEEEEEeEecCCC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHI---ASSHLKKDDHVHIAGQLTADPPA 143 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL---AE~---aakhLKKGD~V~VeGRL~srs~e 143 (315)
..|.+.|+|.. +|. .|+ ++.+.|.. .+..++|++-.+. .+. .+..|..||-|.|+|.+....-.
T Consensus 82 ~~V~v~Grv~~---~R~--~gk-~~Fl~Lrd----~~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~ 151 (530)
T PLN02850 82 SEVLIRGRVHT---IRG--KGK-SAFLVLRQ----SGFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKKP 151 (530)
T ss_pred CEEEEEEEEEE---Ecc--CCC-eEEEEEEe----CCcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccCcC
Confidence 45999999962 333 455 56555544 2345888875542 222 24579999999999999853211
Q ss_pred cC-CeEEEEEEEeEEeeecCC
Q 021274 144 IE-GQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 144 dk-~rs~~eVvVe~I~FV~~k 163 (315)
-+ ....++|.|++|..|...
T Consensus 152 ~~~~t~~~El~~~~i~vls~a 172 (530)
T PLN02850 152 VKGTTQQVEIQVRKIYCVSKA 172 (530)
T ss_pred CCCCCccEEEEEeEEEEEeCC
Confidence 11 122799999999988765
No 80
>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).
Probab=71.94 E-value=80 Score=32.11 Aligned_cols=82 Identities=12% Similarity=0.214 Sum_probs=53.7
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecc-hHHH---HHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGk-LAE~---aakhLKKGD~V~VeGRL~srs~edk 145 (315)
..|.+.|+|. .+|. .|+ ++...|.- .+--|+|++-.+ .++. ....|..||-|.|+|.+....-
T Consensus 13 ~~v~i~G~v~---~~R~--~g~-~~Fi~lrd----~~g~iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~~--- 79 (428)
T TIGR00458 13 QEVTFMGWVH---EIRD--LGG-LIFVLLRD----REGLIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKEK--- 79 (428)
T ss_pred CEEEEEEEEE---EEec--CCC-cEEEEEEe----CCeeEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecCC---
Confidence 4589999995 3333 455 45555543 223588877643 2221 2356999999999999985421
Q ss_pred CeEEEEEEEeEEeeecCCc
Q 021274 146 GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 146 ~rs~~eVvVe~I~FV~~k~ 164 (315)
....++|.|+++..+....
T Consensus 80 ~~~~~el~~~~i~vl~~~~ 98 (428)
T TIGR00458 80 APGGFEIIPTKIEVINEAK 98 (428)
T ss_pred CCCcEEEEEeEEEEEecCC
Confidence 2335999999999998653
No 81
>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=68.07 E-value=70 Score=32.84 Aligned_cols=84 Identities=17% Similarity=0.203 Sum_probs=55.0
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHH---HHHhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE---~aakhLKKGD~V~VeGRL~srs~edk~ 146 (315)
..|.+.|+|. .+| ..|+ ++.+.| ++..-..-++|++-.+.++ ...+.|+.||.|.|+|.+.... ..
T Consensus 17 ~~v~v~Gwv~---~~R--~~~~-~~F~~l--rD~~~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~---~~ 85 (453)
T TIGR00457 17 DEVTVSGWVR---TKR--SSKK-IIFLEL--NDGSSLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESP---GK 85 (453)
T ss_pred CEEEEEEEeE---EEE--cCCC-eEEEEE--ECCCCCccEEEEEeCCcChHHHHHHHcCCCCcEEEEEEEEEcCC---CC
Confidence 4599999996 455 2343 454444 3322115688888665322 2345799999999999998632 12
Q ss_pred eEEEEEEEeEEeeecCCc
Q 021274 147 QANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 147 rs~~eVvVe~I~FV~~k~ 164 (315)
...++|.|++++.+....
T Consensus 86 ~~~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 86 GQPVELQVKKIEVVGEAE 103 (453)
T ss_pred CCCEEEEEeEEEEEecCC
Confidence 245889999999997653
No 82
>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=67.51 E-value=15 Score=39.10 Aligned_cols=67 Identities=15% Similarity=0.061 Sum_probs=51.4
Q ss_pred ccEEEEEEEeCCCceEEEcC--CC-cEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEE-EeEe
Q 021274 69 ANSVNLIGHVDAPVQFQTSS--DG-KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAG-QLTA 139 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~--~G-k~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeG-RL~s 139 (315)
.+...+.|||.+--++|... +| ..+..+.|.- ++.-|++++|++.|+.....|+.|+.++|++ +++.
T Consensus 190 ~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~D----egg~Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~ 260 (608)
T TIGR00617 190 QNKWTIKARVTNKSEIRTWSNARGEGKLFNVELLD----ESGEIRATAFNEQADKFYDIIQEGKVYYISKGSLKP 260 (608)
T ss_pred CCceEEEEEEEeccccceecCCCCCceeeEEEEec----CCCeEEEEECchHHHHHhhhcccCCEEEECceEEEE
Confidence 36789999999988888743 33 2344454432 5668999999999999999999999999976 5544
No 83
>PLN02903 aminoacyl-tRNA ligase
Probab=65.60 E-value=1.4e+02 Score=32.54 Aligned_cols=83 Identities=19% Similarity=0.313 Sum_probs=54.3
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch-H--HHHHhhcCCCCeEEEEEEeEecCCCc---
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-A--HIASSHLKKDDHVHIAGQLTADPPAI--- 144 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL-A--E~aakhLKKGD~V~VeGRL~srs~ed--- 144 (315)
.|.|.|+|.+ +|.. |+ ++.+.|.- .+-.++|++-.+. . ...++.|+.|+-|.|+|.+..+.-..
T Consensus 74 ~V~l~GWV~~---~R~~--G~-l~FidLRD----~~G~iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V~~r~~~~~n~ 143 (652)
T PLN02903 74 RVTLCGWVDL---HRDM--GG-LTFLDVRD----HTGIVQVVTLPDEFPEAHRTANRLRNEYVVAVEGTVRSRPQESPNK 143 (652)
T ss_pred EEEEEEEEEE---EecC--CC-cEEEEEEc----CCccEEEEEeCCccHHHHHHHhcCCCCCEEEEEEEEEeCCCcCcCC
Confidence 5999999963 4443 43 44444422 2334788876442 2 22346799999999999998763211
Q ss_pred C-CeEEEEEEEeEEeeecCC
Q 021274 145 E-GQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 145 k-~rs~~eVvVe~I~FV~~k 163 (315)
+ ..-.+||.|++++.+...
T Consensus 144 ~~~tGeiEl~~~~i~VL~~a 163 (652)
T PLN02903 144 KMKTGSVEVVAESVDILNVV 163 (652)
T ss_pred CCCCCCEEEEEeEEEEEecC
Confidence 1 123489999999999865
No 84
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=65.08 E-value=99 Score=31.48 Aligned_cols=82 Identities=20% Similarity=0.337 Sum_probs=53.5
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch---HHHHHhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL---AHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL---AE~aakhLKKGD~V~VeGRL~srs~edk~ 146 (315)
+.|.+.|+|.. +|. .|+ ++...|.. .+--++|++-.+. .....+.|..||.|.|+|.+....- .
T Consensus 17 ~~V~i~GrV~~---~R~--~gk-~~Fl~LrD----~~g~iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~~---~ 83 (437)
T PRK05159 17 EEVTLAGWVHE---IRD--LGG-IAFLILRD----RSGIIQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANPK---A 83 (437)
T ss_pred CEEEEEEEeEe---eec--CCC-eEEEEEEc----CCcEEEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCCC---C
Confidence 56899999963 343 344 44444432 2224888876542 1123357999999999999996531 2
Q ss_pred eEEEEEEEeEEeeecCCc
Q 021274 147 QANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 147 rs~~eVvVe~I~FV~~k~ 164 (315)
...++|.|+++..+....
T Consensus 84 ~~~~el~~~~i~vls~a~ 101 (437)
T PRK05159 84 PGGVEVIPEEIEVLNKAE 101 (437)
T ss_pred CCCEEEEEeEEEEEeCCC
Confidence 245899999999997654
No 85
>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=63.69 E-value=28 Score=29.92 Aligned_cols=75 Identities=11% Similarity=0.053 Sum_probs=53.8
Q ss_pred ccEEEEEEEeCCCceE--EEcCCCcEEEEEEEEEcC-CCCC---eEEEEEEecchHHHHHhhcCC-CCeEEEEEEeEecC
Q 021274 69 ANSVNLIGHVDAPVQF--QTSSDGKHWAGTVIVQHA-ASHS---LWIPILFEGDLAHIASSHLKK-DDHVHIAGQLTADP 141 (315)
Q Consensus 69 ~NsV~LIGrLg~DPEl--r~T~~Gk~VA~ftLAV~r-~~~T---~wI~Vv~wGkLAE~aakhLKK-GD~V~VeGRL~srs 141 (315)
-..|.+||-|...-.. +.+.++...+.++|.-.. .... ..+.|.+|.+..+.+- .++. ||.|.+. |++...
T Consensus 12 ~~~vnvigVV~~~~~p~~~~t~g~D~~~tl~i~D~S~~~~~~~~~~l~v~iF~~~~~~LP-~v~~~GDii~l~-r~kv~~ 89 (146)
T PF02765_consen 12 GKFVNVIGVVVDFSPPNPKKTRGTDYMCTLTITDPSLNDSNQKLSGLTVNIFRPHKESLP-NVKSVGDIIRLR-RVKVQS 89 (146)
T ss_dssp SEEEEEEEEEEEEEEECTEEESSSCEEEEEEEEBTTCSCSSCCCCEEEEEEEESSHHHSC-TTCSTTHEEEEE-EEEEEE
T ss_pred CCEEEEEEEEEEccCCcceEcCCCcEEEEEEEECCCCCccccccCCEEEEEECCCHHHCC-CCCCCCCEEEEE-EEEEEE
Confidence 3468899988866555 566668888888884433 2222 7899999988877765 4666 9988776 777777
Q ss_pred CCcC
Q 021274 142 PAIE 145 (315)
Q Consensus 142 ~edk 145 (315)
|.++
T Consensus 90 ~~~~ 93 (146)
T PF02765_consen 90 YNGK 93 (146)
T ss_dssp ETTE
T ss_pred ECCE
Confidence 7665
No 86
>PHA01740 putative single-stranded DNA-binding protein
Probab=63.65 E-value=3.7 Score=36.45 Aligned_cols=22 Identities=23% Similarity=0.407 Sum_probs=18.7
Q ss_pred cCCCCCCCCCCCCCCCCC--CcceecCC
Q 021274 217 KLKGLVKPRYPDFKRKDG--TLPLWLNS 242 (315)
Q Consensus 217 K~ng~~~pk~PDFKhkd~--~~aLWl~~ 242 (315)
|+| ||||||+-|.+ |.-+||.+
T Consensus 18 kk~----dK~PDf~GkInI~G~~yw~SG 41 (158)
T PHA01740 18 PKN----DKSPHFTGKVDIRGTVYWLAG 41 (158)
T ss_pred cCC----CCCCCcCceEeeCCEEEEeec
Confidence 556 99999999966 88999975
No 87
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=62.92 E-value=1.1e+02 Score=32.38 Aligned_cols=85 Identities=13% Similarity=0.205 Sum_probs=54.9
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEe--cchHHHH---HhhcCCCCeEEEEEEeEecCCC-
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFE--GDLAHIA---SSHLKKDDHVHIAGQLTADPPA- 143 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~w--GkLAE~a---akhLKKGD~V~VeGRL~srs~e- 143 (315)
..|.+.|+|. .+|. .|+ ++.+.|.. .+..|+|++- +...+.+ +..|..||.|.|+|.+....-.
T Consensus 79 ~~V~v~Grv~---~~R~--~Gk-~~Fl~LRd----~~~~iQ~v~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~ 148 (550)
T PTZ00401 79 KTVLIRARVS---TTRK--KGK-MAFMVLRD----GSDSVQAMAAVEGDVPKEMIDFIGQIPTESIVDVEATVCKVEQPI 148 (550)
T ss_pred CEEEEEEEEE---EEec--CCC-eEEEEEEe----CCcCEEEEEECCCccCHHHHHHHhcCCCCCEEEEEEEEEecCccC
Confidence 3499999996 3443 354 45454433 2336787763 2233333 3459999999999999875322
Q ss_pred cC-CeEEEEEEEeEEeeecCCc
Q 021274 144 IE-GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 144 dk-~rs~~eVvVe~I~FV~~k~ 164 (315)
.. ....++|.|++|..|....
T Consensus 149 ~~~~~~~~El~v~~i~vls~a~ 170 (550)
T PTZ00401 149 TSTSHSDIELKVKKIHTVTESL 170 (550)
T ss_pred CCCCCccEEEEeeEEEEEeCCC
Confidence 11 3556999999998887653
No 88
>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=62.02 E-value=1.2e+02 Score=32.47 Aligned_cols=83 Identities=19% Similarity=0.328 Sum_probs=54.0
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecc-hHHHHHhhcCCCCeEEEEEEeEecCCCc---C-
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHIASSHLKKDDHVHIAGQLTADPPAI---E- 145 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGk-LAE~aakhLKKGD~V~VeGRL~srs~ed---k- 145 (315)
.|.|.|+|. .+|. .|+ ++...|.- .+--++|++-.+ -+....+.|+.||.|.|+|.+..+.-.. +
T Consensus 17 ~V~l~GwV~---~~R~--~Gk-l~Fi~LrD----~sg~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~~~ 86 (583)
T TIGR00459 17 TVTLAGWVN---RRRD--LGG-LIFIDLRD----RSGIVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINRNL 86 (583)
T ss_pred EEEEEEEEE---EEEc--CCC-cEEEEEEe----CCccEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCccC
Confidence 599999996 3444 354 44444432 233688877654 1112346799999999999998753211 1
Q ss_pred CeEEEEEEEeEEeeecCC
Q 021274 146 GQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 146 ~rs~~eVvVe~I~FV~~k 163 (315)
..-.+||.|+++..+...
T Consensus 87 ~tg~iEl~~~~i~iL~~a 104 (583)
T TIGR00459 87 DTGEIEILAESITLLNKS 104 (583)
T ss_pred CCCcEEEEEeEEEEeecC
Confidence 233589999999998754
No 89
>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=61.65 E-value=70 Score=24.37 Aligned_cols=79 Identities=13% Similarity=0.212 Sum_probs=48.0
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchH-HHHHhhcCCCCeEEEEEEeEecCCCcCCeEEE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLA-HIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLA-E~aakhLKKGD~V~VeGRL~srs~edk~rs~~ 150 (315)
|.+-|+|. .+|. .|+ +++. ..++.....=++|++-.+.. -...+.|+.||.|.|+|.+....- ....+
T Consensus 2 v~v~Gwv~---~~R~--~g~-~~Fi--~LrD~s~~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~---~~~~~ 70 (82)
T cd04318 2 VTVNGWVR---SVRD--SKK-ISFI--ELNDGSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG---AKQPF 70 (82)
T ss_pred EEEEEeEE---EEEc--CCc-EEEE--EEECCCCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC---CCCCE
Confidence 67788884 3443 343 3433 33332111237777654422 123467999999999999987542 13468
Q ss_pred EEEEeEEeeec
Q 021274 151 QVMVHSLNLIE 161 (315)
Q Consensus 151 eVvVe~I~FV~ 161 (315)
||.++++..+.
T Consensus 71 El~~~~i~il~ 81 (82)
T cd04318 71 ELQAEKIEVLG 81 (82)
T ss_pred EEEEEEEEEec
Confidence 99999988763
No 90
>PRK07218 replication factor A; Provisional
Probab=58.55 E-value=35 Score=35.02 Aligned_cols=73 Identities=15% Similarity=0.093 Sum_probs=46.3
Q ss_pred ccEEEEEEEeCCCce-EEEcCCCcE-EEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 69 ANSVNLIGHVDAPVQ-FQTSSDGKH-WAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 69 ~NsV~LIGrLg~DPE-lr~T~~Gk~-VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~ 146 (315)
.+.|++.|+|-.-.+ .....+|.. +....|+ ++|--+++++|+++|+ +..||.|.|.|--.. .|.
T Consensus 172 ~~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giig----DeTG~Ir~tlW~~~~~-----l~~Gd~v~I~na~v~-e~~--- 238 (423)
T PRK07218 172 DRGVNVEARVLELEHREIDGRDGETTILSGVLA----DETGRLPFTDWDPLPE-----IEIGASIRIEDAYVR-EFR--- 238 (423)
T ss_pred CCceEEEEEEEEecceeEEcCCCCeEEEEEEEE----CCCceEEEEEeccccc-----CCCCCEEEEeeeEEe-ccC---
Confidence 356899999885422 112355643 3333332 4788999999999874 789999999885443 243
Q ss_pred eEEEEEEEe
Q 021274 147 QANVQVMVH 155 (315)
Q Consensus 147 rs~~eVvVe 155 (315)
-.++|.+.
T Consensus 239 -G~~elnv~ 246 (423)
T PRK07218 239 -GVPSVNVS 246 (423)
T ss_pred -CeEEEEEC
Confidence 33455554
No 91
>PF12869 tRNA_anti-like: tRNA_anti-like; InterPro: IPR024422 The function of the proteins in this entry is not known, but they contain a novel variant of the nucleic acid-binding OB fold [].; PDB: 3F1Z_I.
Probab=58.44 E-value=51 Score=27.48 Aligned_cols=63 Identities=21% Similarity=0.320 Sum_probs=32.3
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch-HHHHHhhcCCCCeEEEEEEeEecC
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-AHIASSHLKKDDHVHIAGQLTADP 141 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL-AE~aakhLKKGD~V~VeGRL~srs 141 (315)
|.+.|.|. ++... .+... +.+... .+....+.|.+-.+. .......|++||.|.|.|......
T Consensus 70 i~vtG~V~---~I~~~-~~~~~--~~~~~~-~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~~ 133 (144)
T PF12869_consen 70 IEVTGTVS---SIDKG-FGDNY--VVLLGT-ENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGYS 133 (144)
T ss_dssp EEEEEEEE---EEEE--STT-E--EEEEE--TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE-----
T ss_pred EEEEEEEE---EEEEc-CCCcE--EEEccC-CCCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEeee
Confidence 78889986 45443 33322 333332 344567778877776 333455799999999999987664
No 92
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=58.26 E-value=1.3e+02 Score=26.62 Aligned_cols=82 Identities=12% Similarity=0.202 Sum_probs=57.6
Q ss_pred CCccE-EEEEEEeCCCceEEEcCCCcEEEEEEEEEcC--------CCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEe
Q 021274 67 KVANS-VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA--------ASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137 (315)
Q Consensus 67 ~l~Ns-V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r--------~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL 137 (315)
+|-+. |.|-|.+. +.+ .++..+..|.|.-.- +...+.|.|.+-+.+.-. .--+.|.|+|+|
T Consensus 52 ~L~Gk~V~i~Gf~v-Ple----~~~~~v~eFlLvP~~gaC~h~PpPppNqiV~V~~~~~~~~~-----~~~~pv~V~G~l 121 (146)
T PF11736_consen 52 ALDGKQVRIPGFMV-PLE----QEEGKVTEFLLVPYFGACIHVPPPPPNQIVHVKMPKPIPVD-----SLYDPVWVEGTL 121 (146)
T ss_pred HhCCCEEEEeeEEE-eec----cCCCcEEEEEEeccCCcCcCCCCCCCccEEEEEeCCCcccc-----ccceeEEEEEEE
Confidence 55544 88999987 223 334456777666432 235789999987765422 235799999999
Q ss_pred EecCCCcC-CeEEEEEEEeEEe
Q 021274 138 TADPPAIE-GQANVQVMVHSLN 158 (315)
Q Consensus 138 ~srs~edk-~rs~~eVvVe~I~ 158 (315)
+....+.+ ....|.+.+..|+
T Consensus 122 ~~~~~~~~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 122 KVERSSSDLGTSGYSMDADSVE 143 (146)
T ss_pred EeccccchheeEEEEEEeeEEE
Confidence 99987666 7888999988875
No 93
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=56.65 E-value=99 Score=31.67 Aligned_cols=81 Identities=17% Similarity=0.212 Sum_probs=51.1
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHH---HHHhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH---IASSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE---~aakhLKKGD~V~VeGRL~srs~edk~ 146 (315)
..|.+.|+|. .+|.. |+ ++.+.| ++ .+--++|++-.+-++ .....|+.||.|.|.|.+....- +
T Consensus 17 ~~V~i~G~v~---~~R~~--g~-~~Fi~l--rD--~~g~iq~~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~~---~ 83 (450)
T PRK03932 17 QEVTVRGWVR---TKRDS--GK-IAFLQL--RD--GSCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVTGTVVESPR---A 83 (450)
T ss_pred CEEEEEEEEE---EEEeC--CC-eEEEEE--EC--CCCcEEEEEEcCCChHHHHHHhcCCCCcEEEEEEEEEcCCC---C
Confidence 5699999996 45554 54 343433 22 233455544322111 12356999999999999996431 2
Q ss_pred eEEEEEEEeEEeeecCC
Q 021274 147 QANVQVMVHSLNLIEPT 163 (315)
Q Consensus 147 rs~~eVvVe~I~FV~~k 163 (315)
...++|.|+++..+.+.
T Consensus 84 ~~~~el~~~~i~vl~~~ 100 (450)
T PRK03932 84 GQGYELQATKIEVIGED 100 (450)
T ss_pred CCCEEEEEEEEEEccCC
Confidence 34589999999998863
No 94
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=56.34 E-value=1.2e+02 Score=31.61 Aligned_cols=81 Identities=17% Similarity=0.222 Sum_probs=55.3
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEec-chHHHH--HhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLAHIA--SSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wG-kLAE~a--akhLKKGD~V~VeGRL~srs~edk~ 146 (315)
-.|.+-|.|.. .|. .|+ ++.. .+++ .+-+++|++.. +..+.+ +++|..++-|.|+|.+.-..- .
T Consensus 17 ~~V~v~GWV~~---~R~--~g~-i~Fi--~lrD--gsg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~~---a 83 (435)
T COG0017 17 QEVTVRGWVHN---KRD--LGK-IIFL--VLRD--GSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASPK---A 83 (435)
T ss_pred cEEEEEEEeee---ecc--cCC-eEEE--EEEc--CCcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCCC---C
Confidence 56888898863 333 344 4433 3333 46669999974 233222 568999999999999986643 3
Q ss_pred eEEEEEEEeEEeeecCC
Q 021274 147 QANVQVMVHSLNLIEPT 163 (315)
Q Consensus 147 rs~~eVvVe~I~FV~~k 163 (315)
...+||.|++|+.+...
T Consensus 84 ~~g~El~v~~i~Vl~~a 100 (435)
T COG0017 84 PQGFELQVEKIEVLGEA 100 (435)
T ss_pred CCCEEEEEEEEEEeecc
Confidence 55688999999888655
No 95
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=55.80 E-value=48 Score=35.56 Aligned_cols=63 Identities=13% Similarity=0.094 Sum_probs=42.9
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
..|+++|+|..-... .. +..+..+.+.. .+--+.|++|+--...+.+.++.|+.++|.|++..
T Consensus 60 ~~vtv~g~V~~~~~~-~~--~~~~~~v~l~D----~tg~i~l~~F~~n~~~~~~~l~~G~~~~v~Gkv~~ 122 (681)
T PRK10917 60 EKVTVEGEVLSAEVV-FG--KRRRLTVTVSD----GTGNLTLRFFNFNQPYLKKQLKVGKRVAVYGKVKR 122 (681)
T ss_pred CEEEEEEEEEEEEEc-cC--CceEEEEEEEE----CCeEEEEEEEccCcHHHHhhCCCCCEEEEEEEEEe
Confidence 468999998764322 22 55455454432 45568999994112255678999999999999986
No 96
>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=54.15 E-value=36 Score=27.45 Aligned_cols=39 Identities=8% Similarity=0.006 Sum_probs=29.0
Q ss_pred CeEEEEEEecchHHHHHhhcC---CCCe-EEEEEEeEecCCCc
Q 021274 106 SLWIPILFEGDLAHIASSHLK---KDDH-VHIAGQLTADPPAI 144 (315)
Q Consensus 106 T~wI~Vv~wGkLAE~aakhLK---KGD~-V~VeGRL~srs~ed 144 (315)
..-+.|++||+.|+....++. .+.. |.|-+-.+...|.+
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 468999999999999888763 4444 44556577777765
No 97
>PLN02603 asparaginyl-tRNA synthetase
Probab=53.41 E-value=2.1e+02 Score=30.60 Aligned_cols=84 Identities=14% Similarity=0.224 Sum_probs=53.4
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHH-H-H-HhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAH-I-A-SSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE-~-a-akhLKKGD~V~VeGRL~srs~edk~ 146 (315)
..|.+.|+|- .+|. .|+ ++. |.+++.....-++|++-.+.+. . + ...|..||.|.|+|.+.... .+
T Consensus 108 ~~V~v~GwV~---~iR~--~g~-~~F--i~l~Dgs~~~~lQ~v~~~~~~~~~~l~~~~l~~gs~V~V~G~v~~~~---~~ 176 (565)
T PLN02603 108 KTLNVMGWVR---TLRA--QSS-VTF--IEVNDGSCLSNMQCVMTPDAEGYDQVESGLITTGASVLVQGTVVSSQ---GG 176 (565)
T ss_pred CEEEEEEEEE---EEEe--CCC-eEE--EEEECCCCCEeEEEEEECcHHHHHHHhhcCCCCCCEEEEEEEEEecC---CC
Confidence 4588888886 4553 243 332 3444433334688887544321 1 1 12488999999999998542 23
Q ss_pred eEEEEEEEeEEeeecCCc
Q 021274 147 QANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 147 rs~~eVvVe~I~FV~~k~ 164 (315)
...+||.|+++..++...
T Consensus 177 ~~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 177 KQKVELKVSKIVVVGKSD 194 (565)
T ss_pred CccEEEEEeEEEEEECCC
Confidence 356999999999997654
No 98
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=53.22 E-value=1.9e+02 Score=31.61 Aligned_cols=77 Identities=14% Similarity=0.146 Sum_probs=51.8
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecc------hHHHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD------LAHIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGk------LAE~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
.|.+.|||.+ +|. .|+ ++...|-- .+--|+|++-.+ ....+.+.|..||.|.|+|.+....
T Consensus 109 ~V~vaGrV~~---~R~--~Gk-~~F~~LrD----~~G~IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~v~~t~--- 175 (659)
T PTZ00385 109 TVRVAGRVTS---VRD--IGK-IIFVTIRS----NGNELQVVGQVGEHFTREDLKKLKVSLRVGDIIGADGVPCRMQ--- 175 (659)
T ss_pred EEEEEEEEEe---eec--cCC-eEEEEEEE----CCceEEEEEECCccCCHHHHHHHHhCCCCCCEEEEEEEEEecC---
Confidence 3999999963 444 355 45444432 355788877533 1223345689999999999888542
Q ss_pred CCeEEEEEEEeEEeeecC
Q 021274 145 EGQANVQVMVHSLNLIEP 162 (315)
Q Consensus 145 k~rs~~eVvVe~I~FV~~ 162 (315)
.--++|.|+++..+.+
T Consensus 176 --~GeleI~~~~i~lLsk 191 (659)
T PTZ00385 176 --RGELSVAASRMLILSP 191 (659)
T ss_pred --CceEEEEeeEEEEech
Confidence 2347899999998875
No 99
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=53.02 E-value=56 Score=26.53 Aligned_cols=63 Identities=19% Similarity=0.256 Sum_probs=39.7
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcC-----C--CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHA-----A--SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r-----~--~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs 141 (315)
..+.+.|+|...|+... .+ ..+.+.+.+ . ....-+.+.+-.+-.. .++.||.|.++|+|+.-.
T Consensus 76 ~~~~v~g~V~~~~~~~~--~~---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~l~~Gd~i~~~g~l~~~~ 145 (176)
T PF13567_consen 76 KEVTVQGTVESVPQIDG--RG---QRFTLRVERVLAGGNWIPVSGKILLYLPKDSQP----RLQPGDRIRVRGKLKPPS 145 (176)
T ss_pred ceEEEEEEEcccccccC--ce---EEEEEEEEEeeccccccccceeeEEEecccccc----ccCCCCEEEEEEEEecCC
Confidence 35789999988877642 22 155555431 1 1234444444444333 689999999999999853
No 100
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=52.95 E-value=2.1e+02 Score=30.64 Aligned_cols=83 Identities=17% Similarity=0.338 Sum_probs=53.8
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHH--HHhhcCCCCeEEEEEEeEecCCC--c-C
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI--ASSHLKKDDHVHIAGQLTADPPA--I-E 145 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~--aakhLKKGD~V~VeGRL~srs~e--d-k 145 (315)
.|.|.|+|. .+|.. |+ ++...|.- .+-.++|++-.. .+. .+..|+.|+.|.|+|.+..+.-. . +
T Consensus 19 ~V~l~GwV~---~~R~~--g~-l~Fi~LrD----~~g~iQ~v~~~~-~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~~ 87 (588)
T PRK00476 19 TVTLCGWVH---RRRDH--GG-LIFIDLRD----REGIVQVVFDPD-AEAFEVAESLRSEYVIQVTGTVRARPEGTVNPN 87 (588)
T ss_pred EEEEEEEEE---EEEeC--CC-eEEEEEEe----CCceEEEEEeCC-HHHHHHHhCCCCCCEEEEEEEEEecCCcccCcc
Confidence 499999996 35543 43 45444433 233588877542 221 24579999999999999875321 1 1
Q ss_pred -CeEEEEEEEeEEeeecCCc
Q 021274 146 -GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 146 -~rs~~eVvVe~I~FV~~k~ 164 (315)
..-.+||.|+++..+....
T Consensus 88 ~~~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 88 LPTGEIEVLASELEVLNKSK 107 (588)
T ss_pred CCCCcEEEEEeEEEEEecCC
Confidence 1335899999999987654
No 101
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=52.75 E-value=73 Score=34.81 Aligned_cols=64 Identities=16% Similarity=0.145 Sum_probs=48.0
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecC
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADP 141 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs 141 (315)
.|++.|.|..-.-.. ..++....+++.. .+.-+.++||+.-| .+.+.++.|..|.|+|++....
T Consensus 62 ~vti~g~V~~~~~~~--~~~~~~l~v~~~d----~~~~l~l~fFn~~~-~l~~~~~~G~~v~v~Gk~~~~~ 125 (677)
T COG1200 62 IVTIEGTVLSHEKFP--FGKRKLLKVTLSD----GTGVLTLVFFNFPA-YLKKKLKVGERVIVYGKVKRFK 125 (677)
T ss_pred eEEEEEEEEeeeccC--CCCCceEEEEEec----CcEEEEEEEECccH-HHHhhCCCCCEEEEEEEEeecc
Confidence 589999997643332 3444444444443 57789999999998 7788899999999999998744
No 102
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=52.58 E-value=1.8e+02 Score=32.10 Aligned_cols=85 Identities=21% Similarity=0.355 Sum_probs=55.6
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch--HH--HHHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AH--IASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL--AE--~aakhLKKGD~V~VeGRL~srs~edk 145 (315)
..|.|.|+|.+ +|. .|+ ++...|.- .+-.++|++-.+. .+ ..+..|..|+.|.|+|.+..+.....
T Consensus 19 ~~V~l~GWV~~---~R~--~G~-l~FidLRD----~~G~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~~ 88 (706)
T PRK12820 19 REVCLAGWVDA---FRD--HGE-LLFIHLRD----RNGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEETE 88 (706)
T ss_pred CEEEEEEEEEE---EEc--CCC-cEEEEEEe----CCccEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCcccc
Confidence 35999999963 444 344 45444433 2345888886442 11 23467999999999999988643221
Q ss_pred ----CeEEEEEEEeEEeeecCCc
Q 021274 146 ----GQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 146 ----~rs~~eVvVe~I~FV~~k~ 164 (315)
..-.+||.|+++..+....
T Consensus 89 n~~~~tg~iEl~~~~i~iL~~a~ 111 (706)
T PRK12820 89 NPHIETGDIEVFVRELSILAASE 111 (706)
T ss_pred CCCCCCCcEEEEeeEEEEEecCC
Confidence 1244899999999987653
No 103
>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=52.45 E-value=89 Score=25.12 Aligned_cols=37 Identities=11% Similarity=0.083 Sum_probs=27.6
Q ss_pred CCeEEEEEEecchHH--------------------HHHhhcCCCCeEEEEEEeEecC
Q 021274 105 HSLWIPILFEGDLAH--------------------IASSHLKKDDHVHIAGQLTADP 141 (315)
Q Consensus 105 ~T~wI~Vv~wGkLAE--------------------~aakhLKKGD~V~VeGRL~srs 141 (315)
.|--|.|.+|..... .....+..|+.|.|.|++.+..
T Consensus 23 gTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~fr 79 (92)
T cd04483 23 GTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTYR 79 (92)
T ss_pred CCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEeccC
Confidence 444689999987530 2344699999999999998753
No 104
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=52.35 E-value=91 Score=33.06 Aligned_cols=64 Identities=11% Similarity=0.115 Sum_probs=42.4
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
..|++.|.|... .. ....+..+..+.+.. . .+.-+.+++|+ .. .+.+.+++|+.|+|.|++...
T Consensus 33 ~~~~~~~~v~~~-~~-~~~~~~~~~~~~~~d--~-~~~~~~~~~F~-~~-~~~~~~~~g~~~~~~Gk~~~~ 96 (630)
T TIGR00643 33 ERATIVGEVLSH-CI-FGFKRRKVLKLRLKD--G-GYKKLELRFFN-RA-FLKKKFKVGSKVVVYGKVKSS 96 (630)
T ss_pred CEEEEEEEEEEe-Ee-ccCCCCceEEEEEEE--C-CCCEEEEEEEC-CH-HHHhhCCCCCEEEEEEEEEee
Confidence 358999998763 22 112333344443332 1 45568999998 22 567889999999999999863
No 105
>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=50.77 E-value=55 Score=31.38 Aligned_cols=94 Identities=12% Similarity=0.118 Sum_probs=56.0
Q ss_pred CCCccCCCCCCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHH---HHhhcCCCCeEEEE
Q 021274 58 KPSEIPFQVKVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHI---ASSHLKKDDHVHIA 134 (315)
Q Consensus 58 rP~eI~wqp~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~---aakhLKKGD~V~Ve 134 (315)
...-+=|...-+|.|.++|.|..- +.+...+.. +..+.+.+.+....+.|.++....-. -..-+ -|+.|.|.
T Consensus 55 ~~~~~f~~NhPI~~v~i~G~Vv~~-~~~~~~~~~---~~~l~iDD~Sg~~~i~~~~~~~~~~~~~l~~~~~-~G~~V~Vk 129 (256)
T PF10451_consen 55 QQNIYFYNNHPIRWVRIVGVVVGI-DYKWIENED---RIILTIDDSSGANTIECKCSKSSYLSMGLPINDL-IGKVVEVK 129 (256)
T ss_dssp -TT-EEETTEEE-EEEEEEEEEEE-EEEE-BBTC---EEEEEEE-SSCS-EEEEEEEHHHHHCCCHHCTT--TT-EEEEE
T ss_pred cCCEEEECCcccEEEEEEEEEEEE-EEEeecccc---eEEEEEeCCCCceeEEEEEEcccccccCCCccCC-CCcEEEEE
Confidence 344455666779999999999874 333333333 34556766544448999999663211 12234 89999999
Q ss_pred EEeEecCCCcCCeEEEEEEEeEEeeecCCc
Q 021274 135 GQLTADPPAIEGQANVQVMVHSLNLIEPTS 164 (315)
Q Consensus 135 GRL~srs~edk~rs~~eVvVe~I~FV~~k~ 164 (315)
|.+. +...++.|+.|..+....
T Consensus 130 G~vs--------r~~~ql~ve~i~~~~~l~ 151 (256)
T PF10451_consen 130 GTVS--------RNERQLDVERIELVRDLN 151 (256)
T ss_dssp EEEE--------SSSEEEEEEEEEEETSCC
T ss_pred EEEc--------cCcEEEEEEEEEccCChH
Confidence 9999 223466777777776554
No 106
>PRK06386 replication factor A; Reviewed
Probab=50.37 E-value=1e+02 Score=31.09 Aligned_cols=77 Identities=19% Similarity=0.227 Sum_probs=49.3
Q ss_pred ccEEEEEEEeCCCceEEEcCCC--cEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCC
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEG 146 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~G--k~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~ 146 (315)
...|++.|+|-.-++-.+..+| ..+....|+ ++|--+++++|++ ++..||-|.|.+-- .+.|
T Consensus 117 ~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg----DeTGrIr~TlW~~-------~l~eGd~v~i~na~-v~e~---- 180 (358)
T PRK06386 117 TPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE----DDTARVRISSFGK-------PLEDNRFVRIENAR-VSQY---- 180 (358)
T ss_pred CCceEEEEEEEEccCceEecCCCccEEEEEEEE----cCCCeEEEEEccc-------cccCCCEEEEeeeE-EEcc----
Confidence 3568889988765553333333 334444444 4788999999997 48999999999843 5555
Q ss_pred eEEEEEEEeEEeeec
Q 021274 147 QANVQVMVHSLNLIE 161 (315)
Q Consensus 147 rs~~eVvVe~I~FV~ 161 (315)
+-.++|.+.+..-|.
T Consensus 181 ~G~~el~v~~~t~I~ 195 (358)
T PRK06386 181 NGYIEISVGNKSVIK 195 (358)
T ss_pred CCeEEEEeCCeEEEE
Confidence 334555555544443
No 107
>COG3689 Predicted membrane protein [Function unknown]
Probab=49.80 E-value=65 Score=31.50 Aligned_cols=87 Identities=20% Similarity=0.182 Sum_probs=59.2
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEE
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~ 150 (315)
.|.++|.|-+|.-+. .|--++++|-|.+=-.+-. =+-+.+-.+ . ...++.++.|.|+|+|.+..+.+.++...
T Consensus 177 ~Ie~tGFVy~~~~~~--~N~lflaRFgiicC~ADa~-vygl~v~~~---~-~~~y~ndtWltvkGtl~~e~~~~~~~~ip 249 (271)
T COG3689 177 KIEFTGFVYNDESFP--KNYLFLARFGIICCAADAG-VYGLLVELD---N-QTDYKNDTWLTVKGTLSSEYLSDFKKRIP 249 (271)
T ss_pred eEEEEEEEECCCCCC--cceeehhhhheeeeeccce-eEEEEEEcc---c-cccCCCCceEEEEeEEEeeecCchhhcCc
Confidence 588999999876542 2456778887776543221 122222222 1 13588999999999999998876567777
Q ss_pred EEEEeEEeeecCCc
Q 021274 151 QVMVHSLNLIEPTS 164 (315)
Q Consensus 151 eVvVe~I~FV~~k~ 164 (315)
-|.|++++-|..+.
T Consensus 250 vi~v~sv~~I~kP~ 263 (271)
T COG3689 250 VIEVDSVEVIPKPA 263 (271)
T ss_pred EEEeeeeeecCCCC
Confidence 88899999886543
No 108
>cd05898 Ig5_KIRREL3 Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein (also known as Neph2). Ig5_KIRREL3: the fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein (also known as Neph2). This protein has five Ig-like domains, one transmembrane domain, and a cytoplasmic tail. Included in this group is mammalian Kirrel (Neph1). These proteins contain multiple Ig domains, have properties of cell adhesion molecules, and are important in organ development. Neph1 and 2 may mediate axonal guidance and synapse formation in certain areas of the CNS. In the kidney, they participate in the formation of the slit diaphragm.
Probab=47.97 E-value=32 Score=28.02 Aligned_cols=85 Identities=13% Similarity=0.079 Sum_probs=47.9
Q ss_pred CcccccCccccccccccCCceeeecCCCCCCCCCccCCCCCCccEEEE-EEEeCCCceEEEcCCCcEEEEEEEEEcCCCC
Q 021274 27 PAHFTRPFSSRAHQFTKATTKTTTSKDVVWPKPSEIPFQVKVANSVNL-IGHVDAPVQFQTSSDGKHWAGTVIVQHAASH 105 (315)
Q Consensus 27 ~~~~~~~~st~~~~~~~~~~~~~~~~~~~~prP~eI~wqp~l~NsV~L-IGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~ 105 (315)
|+.|++..|.-+..-..+.+.|... ..|+|..|.|.-+= ..| .|.-+ ...+.....+. -....|...+-.+
T Consensus 2 pP~i~~~~s~~~~~G~~~~L~C~~~---s~P~P~~i~W~w~~---~~i~~~~~~-r~~I~~~~~~~-g~~S~L~I~~~~~ 73 (98)
T cd05898 2 PPIISSEQVQYAVRGERGKVKCFIG---STPPPDRIAWAWKE---NVLESGTSE-RYTVERTSTGS-GVLSTLTINNIME 73 (98)
T ss_pred CCEEecCceEEEeCCCcEEEEEEEc---cCCCCcEEEEEEcc---ccccCCCCC-CEEEEEEccCC-CcEEEEEECCCcc
Confidence 5667888888777767677888763 68999988885441 111 11111 12232221111 1334466665332
Q ss_pred ---CeEEEEEEecchHH
Q 021274 106 ---SLWIPILFEGDLAH 119 (315)
Q Consensus 106 ---T~wI~Vv~wGkLAE 119 (315)
.--..|++++.+..
T Consensus 74 ~d~~g~Y~C~a~N~~G~ 90 (98)
T cd05898 74 ADFQTHYNCTAWNSFGS 90 (98)
T ss_pred ccCCcEEEEEEEeCCcc
Confidence 22578999887654
No 109
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=47.07 E-value=60 Score=28.64 Aligned_cols=55 Identities=13% Similarity=0.108 Sum_probs=41.3
Q ss_pred EeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 77 HVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 77 rLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
-|-.+-+.+.|.+|.-+..+-+|- +|--|.+.+|++.. ..++.||-|..+|-..+
T Consensus 22 Ivl~~g~~tkTkdg~~v~~~kVaD----~TgsI~isvW~e~~----~~~~PGDIirLt~Gy~S 76 (134)
T KOG3416|consen 22 IVLEYGRATKTKDGHEVRSCKVAD----ETGSINISVWDEEG----CLIQPGDIIRLTGGYAS 76 (134)
T ss_pred EEEeeceeeeccCCCEEEEEEEec----ccceEEEEEecCcC----cccCCccEEEecccchh
Confidence 344445666789998888777765 78889999999654 35889999998875544
No 110
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=46.16 E-value=2.2e+02 Score=30.57 Aligned_cols=78 Identities=14% Similarity=0.225 Sum_probs=49.8
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch----HH---HHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL----AH---IASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL----AE---~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
|.+.|+|- .+|. .|+.++.+.|.- .+.-++|++-.+. .+ ...+.|..||.|.|+|.+....
T Consensus 135 v~v~Grv~---~~R~--~G~k~~F~~L~d----~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~t~--- 202 (585)
T PTZ00417 135 LNVTGRIM---RVSA--SGQKLRFFDLVG----DGAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGKSK--- 202 (585)
T ss_pred EEEEEEEE---eeec--CCCCCEEEEEEe----CCeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcCCC---
Confidence 88999995 3444 353355555522 2335888875321 12 2245699999999999965321
Q ss_pred CCeEEEEEEEeEEeeecCC
Q 021274 145 EGQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 145 k~rs~~eVvVe~I~FV~~k 163 (315)
.-.++|.|++|..+.+.
T Consensus 203 --~gel~i~~~~i~llsk~ 219 (585)
T PTZ00417 203 --KGELSIFPKETIILSPC 219 (585)
T ss_pred --CceEEEEEEEEEEEecC
Confidence 22478899999888754
No 111
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=45.02 E-value=3.3e+02 Score=28.56 Aligned_cols=78 Identities=14% Similarity=0.146 Sum_probs=51.1
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEec-chHH----HHHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEG-DLAH----IASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wG-kLAE----~aakhLKKGD~V~VeGRL~srs~edk 145 (315)
.|.+.|+|. .+|.. |+ ++.+.|.- .+.-++|++-. .+.+ .....+..||.|.|+|.+....
T Consensus 67 ~v~v~Grv~---~~R~~--Gk-~~F~~lrD----~~g~iQ~~~~~~~~~~~~~~~~~~~l~~Gd~V~v~G~~~~t~---- 132 (505)
T PRK12445 67 EVSVAGRMM---TRRIM--GK-ASFVTLQD----VGGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQ---- 132 (505)
T ss_pred EEEEEEEEE---EEecC--CC-cEEEEEEe----CCccEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEecC----
Confidence 499999996 34443 55 34444432 23347777653 2221 1235699999999999997543
Q ss_pred CeEEEEEEEeEEeeecCC
Q 021274 146 GQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 146 ~rs~~eVvVe~I~FV~~k 163 (315)
.-.++|.|+++..+++.
T Consensus 133 -~gelel~~~~~~llsk~ 149 (505)
T PRK12445 133 -TGELSIHCTELRLLTKA 149 (505)
T ss_pred -CCcEEEEEeEEEEEecC
Confidence 22489999999998754
No 112
>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=43.59 E-value=53 Score=25.38 Aligned_cols=32 Identities=28% Similarity=0.296 Sum_probs=24.9
Q ss_pred CeEEEEEEe--cchHHHHHhhcCCCCeEEEEEEeE
Q 021274 106 SLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLT 138 (315)
Q Consensus 106 T~wI~Vv~w--GkLAE~aakhLKKGD~V~VeGRL~ 138 (315)
..-+.|... |.....+. .|+.||.|.|+|-+.
T Consensus 62 ~~~~~ik~~~~G~~S~~L~-~l~~Gd~v~i~gP~G 95 (99)
T PF00970_consen 62 YLEFAIKRYPNGRVSRYLH-QLKPGDEVEIRGPYG 95 (99)
T ss_dssp EEEEEEEECTTSHHHHHHH-TSCTTSEEEEEEEES
T ss_pred cEEEEEEeccCCHHHHHHH-hCCCCCEEEEEEccc
Confidence 455666677 78888874 599999999999654
No 113
>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=43.04 E-value=2.6e+02 Score=29.20 Aligned_cols=78 Identities=19% Similarity=0.222 Sum_probs=49.2
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecc-hHH----HHHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAH----IASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGk-LAE----~aakhLKKGD~V~VeGRL~srs~edk 145 (315)
.|.+.|+|- .+| ..|+ ++...|.- .+--++|++-.+ +.+ .+...|..||-|.|+|.+....
T Consensus 55 ~v~v~Grv~---~~R--~~gk-~~F~~l~D----~~g~iQ~~~~~~~~~~~~~~~~~~~l~~gd~V~v~G~~~~t~---- 120 (496)
T TIGR00499 55 EVSIAGRIM---ARR--SMGK-ATFITLQD----ESGQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFKTK---- 120 (496)
T ss_pred EEEEEEEEE---EEe--cCCC-eEEEEEEc----CCccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEECC----
Confidence 489999997 455 3454 34443333 223477766432 222 2223479999999999996422
Q ss_pred CeEEEEEEEeEEeeecCC
Q 021274 146 GQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 146 ~rs~~eVvVe~I~FV~~k 163 (315)
.-.++|.|+++..+.+.
T Consensus 121 -~gelel~~~~i~ilsk~ 137 (496)
T TIGR00499 121 -TGELSVHVTELQILTKA 137 (496)
T ss_pred -CCcEEEEeeEEEEEecC
Confidence 22488999999888755
No 114
>PRK07218 replication factor A; Provisional
Probab=42.00 E-value=87 Score=32.23 Aligned_cols=65 Identities=15% Similarity=0.040 Sum_probs=42.3
Q ss_pred ccEEEEEEEeCCCceEEEcCCC--cEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 69 ANSVNLIGHVDAPVQFQTSSDG--KHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 69 ~NsV~LIGrLg~DPElr~T~~G--k~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
...|.+.|+|-.=.+-.+..+| ..+....|+ ++|=-+++++|++++ |+.||-|.|.+-- ++.|.+
T Consensus 68 ~~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~ig----DeTG~Ir~tlW~~~~------l~~Gdvv~I~na~-vre~~g 134 (423)
T PRK07218 68 DKNVTVTGRVLTIGERSIRYQGDDHVIYEGILA----DETGTISYTAWKDFG------LSPGDTVTIGNAG-VREWDG 134 (423)
T ss_pred CceeEEEEEEEEecceeEecCCCceEEEEEEEE----CCCCeEEEEEECCCC------CCCCCEEEEeccE-eeccCC
Confidence 3678898887643331112344 334444444 378899999999775 9999999998742 334544
No 115
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=40.99 E-value=3.6e+02 Score=28.10 Aligned_cols=79 Identities=20% Similarity=0.209 Sum_probs=51.5
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecc-hHHH---HHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LAHI---ASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGk-LAE~---aakhLKKGD~V~VeGRL~srs~edk 145 (315)
..|.+.|+|. .+|. .|+ ++.+.|.- .+--++|++-.+ +.+. ....|..||.|.|.|.+....
T Consensus 55 ~~v~v~G~v~---~~R~--~g~-~~Fi~lrD----~~g~iQ~v~~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~t~---- 120 (491)
T PRK00484 55 IEVSVAGRVM---LKRV--MGK-ASFATLQD----GSGRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKTK---- 120 (491)
T ss_pred cEEEEEEEEE---EEec--CCc-eEEEEEEc----CCccEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEcC----
Confidence 3589999996 3444 343 44444433 223578777543 2211 223499999999999999653
Q ss_pred CeEEEEEEEeEEeeecCC
Q 021274 146 GQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 146 ~rs~~eVvVe~I~FV~~k 163 (315)
.-.++|.|+++..+.+.
T Consensus 121 -~ge~el~~~~~~vls~~ 137 (491)
T PRK00484 121 -TGELSVKATELTLLTKS 137 (491)
T ss_pred -CCcEEEEEeEEEEEecc
Confidence 12589999999998754
No 116
>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=39.27 E-value=46 Score=28.77 Aligned_cols=28 Identities=39% Similarity=0.417 Sum_probs=24.6
Q ss_pred CeEEEEEEecchHHHHHhhcCCCCeEEEE
Q 021274 106 SLWIPILFEGDLAHIASSHLKKDDHVHIA 134 (315)
Q Consensus 106 T~wI~Vv~wGkLAE~aakhLKKGD~V~Ve 134 (315)
..-|+|++|+.=|+.+-+ ||.||.|.+.
T Consensus 59 ~~ti~It~yD~H~~~ar~-lK~GdfV~L~ 86 (123)
T cd04498 59 QLTIDILVYDNHVELAKS-LKPGDFVRIY 86 (123)
T ss_pred eEEEEEEEEcchHHHHhh-CCCCCEEEEE
Confidence 367999999999998877 9999999885
No 117
>PLN02221 asparaginyl-tRNA synthetase
Probab=38.62 E-value=3e+02 Score=29.50 Aligned_cols=86 Identities=16% Similarity=0.234 Sum_probs=55.2
Q ss_pred cEEEEEEEeCCCceEEEcCCCc-EEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeE
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGK-HWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQA 148 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk-~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs 148 (315)
..|.|-|.|-+ +|. .|+ .++. |.+++..-.-.++|++-.+... ..+.|+.|+.|.|.|.+..+.-......
T Consensus 51 ~~V~I~GWV~~---iR~--~Gk~~i~F--l~LRDgs~~g~iQvVv~~~~~~-~~~~L~~ES~V~V~G~V~~~~~~~~~~~ 122 (572)
T PLN02221 51 QKVRIGGWVKT---GRE--QGKGTFAF--LEVNDGSCPANLQVMVDSSLYD-LSTLVATGTCVTVDGVLKVPPEGKGTKQ 122 (572)
T ss_pred CEEEEEEEEEe---hhh--CCCceEEE--EEEeCCcccccEEEEEcCchhh-HHhcCCCceEEEEEEEEEeCCccCCCCc
Confidence 34899999873 333 343 2442 3444422224689988665432 2346899999999999986643111233
Q ss_pred EEEEEEeEEeeecCC
Q 021274 149 NVQVMVHSLNLIEPT 163 (315)
Q Consensus 149 ~~eVvVe~I~FV~~k 163 (315)
.+||.|++|..|+..
T Consensus 123 ~iEl~v~~i~vl~~a 137 (572)
T PLN02221 123 KIELSVEKVIDVGTV 137 (572)
T ss_pred cEEEEEeEEEEEecC
Confidence 799999999999854
No 118
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=36.68 E-value=1.3e+02 Score=34.88 Aligned_cols=67 Identities=13% Similarity=0.103 Sum_probs=53.5
Q ss_pred EEEEEEEeCCCceEEEcC-CCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCC
Q 021274 71 SVNLIGHVDAPVQFQTSS-DGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPP 142 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~-~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~ 142 (315)
.+.+.|-|.. ...+.|. +|..++..+|.- .+--+.|++|-...+.....+..|..++|.|+++.+..
T Consensus 978 ~~~~~~~i~~-vr~~~tk~~G~~~~f~tl~D----~~g~~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~~~ 1045 (1139)
T COG0587 978 RVVLAGGIVA-VRQRPTKAKGNKMAFLTLED----ETGILEVVVFPSEYERYRRLLLEGRLLIVKGKVQRRED 1045 (1139)
T ss_pred eeEEEEEEEE-EEEeeccCCCCEEEEEEEec----CCCcEEEEEcHHHHHHHHHHhccCcEEEEEEEEEeccc
Confidence 4677777776 4555555 898888887765 33478999999999999999999999999999998643
No 119
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=36.35 E-value=1.2e+02 Score=35.64 Aligned_cols=86 Identities=13% Similarity=0.131 Sum_probs=61.6
Q ss_pred CCccEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch--HHHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 67 KVANSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL--AHIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 67 ~l~NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL--AE~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
+..|.|.+.|.|=. .|.+.+.+|+.+..|.+.- .+.-+.|..|-+. -+...+.+++|+.|-|.|.++.+....
T Consensus 237 ~~~~~v~v~G~IF~-~e~~~~ksGr~l~~i~vTD----~t~Sl~~k~f~~~~ed~~~~~~ik~g~wvk~~g~v~~d~f~~ 311 (1444)
T COG2176 237 EEETRVKVEGYIFK-IEIKELKSGRTLLNIKVTD----YTSSLILKKFLRDEEDEKKFDGIKKGMWVKARGNVQLDTFTR 311 (1444)
T ss_pred ccccceEEEEEEEE-EeeeecccCcEEEEEEEec----CchheeehhhccccccHHHHhhcccCcEEEEEEEEEeccccc
Confidence 45677999999985 8999999998777766543 3445667666663 233566799999999999999997754
Q ss_pred CCeEEEEEEEeEEeeec
Q 021274 145 EGQANVQVMVHSLNLIE 161 (315)
Q Consensus 145 k~rs~~eVvVe~I~FV~ 161 (315)
+ ..+++++|+-|.
T Consensus 312 ~----l~m~i~~I~ei~ 324 (1444)
T COG2176 312 D----LTMIINDINEIE 324 (1444)
T ss_pred c----eEEEhhhhhhhh
Confidence 4 334455555444
No 120
>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=34.90 E-value=1.7e+02 Score=31.38 Aligned_cols=69 Identities=20% Similarity=0.143 Sum_probs=43.4
Q ss_pred EEEEEEEeCCCceEEE---cCCCcEEEEEEEEEcCCCCC-eEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 71 SVNLIGHVDAPVQFQT---SSDGKHWAGTVIVQHAASHS-LWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 71 sV~LIGrLg~DPElr~---T~~Gk~VA~ftLAV~r~~~T-~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
.|-+||-|..-=++.. -.+|+....-.|.+.+ .+ .-|+|++||+.|+.+. ...|+-|.+.|-... .|.+
T Consensus 312 ~VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~D--~sg~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V~-~f~g 384 (608)
T TIGR00617 312 LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLVD--DSGKSVRVTLWGDDATKFD--VSVQPVIAIKGVRVS-DFGG 384 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEEe--CCCCEEEEEEEhhhhhhcC--CCCCCEEEEEeEEEE-ecCC
Confidence 5778887764322222 3456555444444433 23 3699999999998765 778999999884443 4533
No 121
>PLN02502 lysyl-tRNA synthetase
Probab=34.69 E-value=3.4e+02 Score=28.93 Aligned_cols=78 Identities=18% Similarity=0.200 Sum_probs=49.5
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecc-hH------HHHHhhcCCCCeEEEEEEeEecCCC
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGD-LA------HIASSHLKKDDHVHIAGQLTADPPA 143 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGk-LA------E~aakhLKKGD~V~VeGRL~srs~e 143 (315)
.|.+.|+|-+ +|. .|+ ++...|.- .+.-++|++-.+ +. +.+...|..||.|.|+|.+....
T Consensus 110 ~V~v~GrV~~---~R~--~Gk-~~F~~LrD----~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t~-- 177 (553)
T PLN02502 110 SVSVAGRIMA---KRA--FGK-LAFYDLRD----DGGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKTK-- 177 (553)
T ss_pred EEEEEEEEEE---Eec--CCC-eEEEEEec----CCccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEecC--
Confidence 4889999873 444 354 34444332 234577776533 21 12233589999999999987542
Q ss_pred cCCeEEEEEEEeEEeeecCC
Q 021274 144 IEGQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 144 dk~rs~~eVvVe~I~FV~~k 163 (315)
.-.++|.|++|..+.+.
T Consensus 178 ---~gelel~~~~i~vLs~~ 194 (553)
T PLN02502 178 ---KGELSIFPTSFEVLTKC 194 (553)
T ss_pred ---CCCEEEEEeEEEEEecc
Confidence 12588899999888754
No 122
>PLN02532 asparagine-tRNA synthetase
Probab=34.05 E-value=1.6e+02 Score=32.06 Aligned_cols=64 Identities=16% Similarity=0.255 Sum_probs=44.5
Q ss_pred EEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEEEEEEeEEeeecCC
Q 021274 98 IVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 98 LAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~eVvVe~I~FV~~k 163 (315)
|.+++..--..++|++-...+... +.|+.|+.|.|+|.+..+... .....+||.|++|..+...
T Consensus 138 I~LrDGSg~~~lQvVv~~~~~~~~-~~L~~Es~V~V~G~V~~~~~~-~~~g~iEl~v~~i~VLg~a 201 (633)
T PLN02532 138 LLISDGSCVASLQVVVDSALAPLT-QLMATGTCILAEGVLKLPLPA-QGKHVIELEVEKILHIGTV 201 (633)
T ss_pred EEEECCCCccceEEEEeCCcccHh-hcCCCceEEEEEEEEEecCCC-CCCCcEEEEeeEEEEEecC
Confidence 344443233458998877655433 679999999999999877211 1245699999999999854
No 123
>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=30.94 E-value=1.3e+02 Score=25.03 Aligned_cols=43 Identities=23% Similarity=0.209 Sum_probs=27.5
Q ss_pred EEEEEEEEcCCCCCeEEEEEEecc--hHHHHHhhcCCCCeEEEEE
Q 021274 93 WAGTVIVQHAASHSLWIPILFEGD--LAHIASSHLKKDDHVHIAG 135 (315)
Q Consensus 93 VA~ftLAV~r~~~T~wI~Vv~wGk--LAE~aakhLKKGD~V~VeG 135 (315)
-.++.-+++....+.-|.+++-|. .|-..+...+.||.|.|.|
T Consensus 68 R~YTvR~~d~~~~~l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~g 112 (117)
T PF08021_consen 68 RTYTVRRFDPETGELDIDFVLHGDEGPASRWARSARPGDRVGVTG 112 (117)
T ss_dssp EEEE--EEETT--EEEEEEE--SS--HHHHHHHH--TT-EEEEEE
T ss_pred CCcCEeeEcCCCCEEEEEEEECCCCCchHHHHhhCCCCCEEEEeC
Confidence 355655666666688899999996 7778888999999999998
No 124
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=28.15 E-value=7.1e+02 Score=28.87 Aligned_cols=78 Identities=15% Similarity=0.173 Sum_probs=50.5
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch-H----HHHHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL-A----HIASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL-A----E~aakhLKKGD~V~VeGRL~srs~edk 145 (315)
.|.+-|+|- .+|. .|+ ++.+.|.- .+--++|++-.+. . +...+.+..||.|.|+|.+.... +
T Consensus 653 ~V~v~Grv~---~~R~--~G~-~~F~~lrD----~~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t~-~-- 719 (1094)
T PRK02983 653 EVSVSGRVL---RIRD--YGG-VLFADLRD----WSGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTSR-N-- 719 (1094)
T ss_pred EEEEEEEEE---EEee--CCC-eEEEEEEe----CCeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEcC-C--
Confidence 489999995 3444 344 45444432 3456888775442 1 12234589999999999998643 1
Q ss_pred CeEEEEEEEeEEeeecCC
Q 021274 146 GQANVQVMVHSLNLIEPT 163 (315)
Q Consensus 146 ~rs~~eVvVe~I~FV~~k 163 (315)
-.++|.|+++..+.+.
T Consensus 720 --ge~ei~~~~i~ll~k~ 735 (1094)
T PRK02983 720 --GTLSLLVTSWRLAGKC 735 (1094)
T ss_pred --CCEEEEEeEEEEEecc
Confidence 2478888888888644
No 125
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=27.60 E-value=79 Score=32.67 Aligned_cols=34 Identities=21% Similarity=0.309 Sum_probs=29.8
Q ss_pred CeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 106 T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
...+.+.+-||-...+.+-|+.|+.+.|+|--.-
T Consensus 275 el~FsIK~LGD~Tk~l~dnLk~G~k~~vdGPYG~ 308 (438)
T COG4097 275 ELRFSIKALGDFTKTLKDNLKVGTKLEVDGPYGK 308 (438)
T ss_pred eEEEEehhhhhhhHHHHHhccCCceEEEecCcce
Confidence 4788999999999999999999999999985443
No 126
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=27.52 E-value=3.3e+02 Score=28.95 Aligned_cols=81 Identities=16% Similarity=0.203 Sum_probs=46.4
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEE-EecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEEE
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPIL-FEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQANV 150 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv-~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~~ 150 (315)
|.+.|||-. +|. .|+ ++.+.|--....-..|+.-. +-.+..+...+++..||.|.|.|.+-... ++ -.
T Consensus 64 v~vAGRi~~---~R~--~GK-~~F~~i~d~~gkiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~T~-~G----el 132 (502)
T COG1190 64 VSVAGRIMT---IRN--MGK-ASFADLQDGSGKIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFKTK-TG----EL 132 (502)
T ss_pred eEEecceee---ecc--cCc-eeEEEEecCCceEEEEEeccccchhhHHHHHhccccCCEEeeeeeeeecC-CC----ce
Confidence 899999863 344 353 44444433222112333322 12223334455677899999999997553 22 35
Q ss_pred EEEEeEEeeecCC
Q 021274 151 QVMVHSLNLIEPT 163 (315)
Q Consensus 151 eVvVe~I~FV~~k 163 (315)
.|.|+++.++.+.
T Consensus 133 Sv~v~~~~lLsKs 145 (502)
T COG1190 133 SVSVEELRLLSKS 145 (502)
T ss_pred EEEEEEEeeeccc
Confidence 6778888777644
No 127
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=24.87 E-value=1.5e+02 Score=32.46 Aligned_cols=76 Identities=17% Similarity=0.220 Sum_probs=56.2
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcCCeEE
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIEGQAN 149 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk~rs~ 149 (315)
-.|.+-|-|. ++++|++= +.|+|. ++|-++.+.+|..-...+.-++..||-|.|.|....+. ++
T Consensus 214 ~tV~I~GeV~---qikqT~GP---TVFtlt----Detg~i~aAAFe~aGvRAyP~IevGdiV~ViG~V~~r~----g~-- 277 (715)
T COG1107 214 KTVRIEGEVT---QIKQTSGP---TVFTLT----DETGAIWAAAFEEAGVRAYPEIEVGDIVEVIGEVTRRD----GR-- 277 (715)
T ss_pred ceEEEEEEEE---EEEEcCCC---EEEEEe----cCCCceehhhhccCCcccCCCCCCCceEEEEEEEeecC----Cc--
Confidence 4578888886 67777543 234443 37889999999999999999999999999999988663 23
Q ss_pred EEEEEeEEeeec
Q 021274 150 VQVMVHSLNLIE 161 (315)
Q Consensus 150 ~eVvVe~I~FV~ 161 (315)
++|.+..++-+.
T Consensus 278 lQiE~~~me~L~ 289 (715)
T COG1107 278 LQIEIEAMEKLT 289 (715)
T ss_pred EEEeehhhHHhh
Confidence 455555565553
No 128
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=24.70 E-value=2.6e+02 Score=31.97 Aligned_cols=63 Identities=17% Similarity=0.165 Sum_probs=49.1
Q ss_pred EEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 71 SVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 71 sV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
.|.++|-|.. +..+. ..|..+|.++|.- .+.-+.|++|.+.=+.+.. +.+|+.++|+|+.+.+
T Consensus 899 ~~~v~g~i~~-~~~~~-K~g~~maf~~~eD----~~~~~e~~~F~~~~~~~~~-l~~~~~~~~~~~~~~~ 961 (973)
T PRK07135 899 EYRLAIEVKN-VKRLR-KANKEYKKVILSD----DSVEITIFVNDNDYLLFET-LKKGDIYEFLISKSKN 961 (973)
T ss_pred eEEEEEEEEE-EEEEe-eCCCeEEEEEEEE----CCCcEEEEEcHHHHHHHHH-hhcCCEEEEEEEEcCC
Confidence 4678887775 44445 7888888777765 4566999999998777774 9999999999998765
No 129
>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=24.07 E-value=37 Score=29.01 Aligned_cols=25 Identities=32% Similarity=0.400 Sum_probs=21.8
Q ss_pred chHHHHHhhcCCCCeEEEEEEeEec
Q 021274 116 DLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 116 kLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
++|+.+++.|++|+.|..+|.|-+-
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGaG 27 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGAG 27 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTSS
T ss_pred HHHHHHHHhCCCCCEEEEECCCCCC
Confidence 5899999999999999999999874
No 130
>cd06216 FNR_iron_sulfur_binding_2 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to for
Probab=24.06 E-value=2.3e+02 Score=25.47 Aligned_cols=45 Identities=11% Similarity=0.167 Sum_probs=30.8
Q ss_pred EEEEEEcCC--CCCeEEEEEEe--cchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 95 GTVIVQHAA--SHSLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 95 ~ftLAV~r~--~~T~wI~Vv~w--GkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
.++|+.... ....-+.|..- |..+..+.++++.||.|.|.|-+..
T Consensus 66 ~ysi~s~~~~~~~~l~~~ik~~~~G~~s~~l~~~~~~Gd~v~i~gP~G~ 114 (243)
T cd06216 66 SYSLSSSPTQEDGTITLTVKAQPDGLVSNWLVNHLAPGDVVELSQPQGD 114 (243)
T ss_pred EEeccCCCcCCCCeEEEEEEEcCCCcchhHHHhcCCCCCEEEEECCcee
Confidence 345554332 33455555556 7788888888999999999986654
No 131
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=23.83 E-value=2.1e+02 Score=30.56 Aligned_cols=77 Identities=12% Similarity=0.236 Sum_probs=49.1
Q ss_pred EEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecch------HHHHHhhcCCCCeEEEEEEeEecCCCcC
Q 021274 72 VNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDL------AHIASSHLKKDDHVHIAGQLTADPPAIE 145 (315)
Q Consensus 72 V~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkL------AE~aakhLKKGD~V~VeGRL~srs~edk 145 (315)
|++.|||.+ .|+ +|...+.+.|.-. ..-++|.+--+- -+...++|++||.|.|+|...-..
T Consensus 107 ~svaGRI~s---~R~--sGsKL~Fydl~~~----g~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgrt~---- 173 (560)
T KOG1885|consen 107 VSVAGRIHS---KRE--SGSKLVFYDLHGD----GVKLQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGRTK---- 173 (560)
T ss_pred eeeeeeEee---eec--cCCceEEEEEecC----CeEEEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCcCC----
Confidence 899999975 343 4555666665543 222555544333 345677899999999999765321
Q ss_pred CeEEEEEEEeEEeeecC
Q 021274 146 GQANVQVMVHSLNLIEP 162 (315)
Q Consensus 146 ~rs~~eVvVe~I~FV~~ 162 (315)
.--..|.+++|..+.+
T Consensus 174 -~gELSi~~~~~~lLsp 189 (560)
T KOG1885|consen 174 -SGELSIIPNEIILLSP 189 (560)
T ss_pred -CceEEEeecchheecc
Confidence 2256778888866643
No 132
>KOG3056 consensus Protein required for S-phase initiation or completion [Cell cycle control, cell division, chromosome partitioning]
Probab=23.39 E-value=2.4e+02 Score=30.47 Aligned_cols=68 Identities=16% Similarity=0.175 Sum_probs=51.2
Q ss_pred cEEEEEEEeCCCceEEEcCCCcEEEEEEEEEcCCCCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 70 NSVNLIGHVDAPVQFQTSSDGKHWAGTVIVQHAASHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 70 NsV~LIGrLg~DPElr~T~~Gk~VA~ftLAV~r~~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
|.| .+|-|...-..+.|.+|+.++.+.|..-+. + .-+.|-+||+ |..-.--++.|+.|.| |.-....+
T Consensus 187 ~Wv-t~GvI~~K~~~K~t~~G~~y~iwkL~dLk~-~-q~vslfLFG~-a~k~~wk~k~GtVial---LNp~v~k~ 254 (578)
T KOG3056|consen 187 NWV-TMGVIVEKSDPKFTSNGNPYSIWKLTDLKD-H-QTVSLFLFGK-AHKRYWKIKLGTVIAL---LNPEVLKD 254 (578)
T ss_pred CeE-EEEEEeecCCcccccCCCceEEEEeeecCc-c-ceeEEEEecH-HHHHHhhhccCcEEEE---eCccccCC
Confidence 444 579999999999999999999888877664 3 5688899999 6655556899998876 44443333
No 133
>PRK10646 ADP-binding protein; Provisional
Probab=22.56 E-value=60 Score=28.84 Aligned_cols=26 Identities=19% Similarity=0.157 Sum_probs=23.4
Q ss_pred cchHHHHHhhcCCCCeEEEEEEeEec
Q 021274 115 GDLAHIASSHLKKDDHVHIAGQLTAD 140 (315)
Q Consensus 115 GkLAE~aakhLKKGD~V~VeGRL~sr 140 (315)
.++|+.+++.|+.||.|++.|-|-.-
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaG 40 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAG 40 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCC
Confidence 36899999999999999999999875
No 134
>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=22.36 E-value=57 Score=28.74 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=20.2
Q ss_pred EecchHHHHHhhcCCCCeEEEEE
Q 021274 113 FEGDLAHIASSHLKKDDHVHIAG 135 (315)
Q Consensus 113 ~wGkLAE~aakhLKKGD~V~VeG 135 (315)
..|+||..+|+.|.-||.|.|.-
T Consensus 9 vlGRLAs~IA~~L~~Gd~VvViN 31 (142)
T TIGR01077 9 ILGRLASVVAKQLLNGEKVVVVN 31 (142)
T ss_pred chHHHHHHHHHHHhcCCEEEEEe
Confidence 46899999999999999999853
No 135
>cd06191 FNR_iron_sulfur_binding Iron-sulfur binding Ferredoxin Reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with a C-terminal iron-sulfur binding cluster domain. FNR was intially identified as a chloroplast reductase activity catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methnae assimilation in a variety of organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in
Probab=21.91 E-value=2.6e+02 Score=24.86 Aligned_cols=32 Identities=16% Similarity=0.218 Sum_probs=23.8
Q ss_pred EEEEEEe--cchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 108 WIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 108 wI~Vv~w--GkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
-+.|..- |.....+.++++.||.|.|.|-...
T Consensus 61 ~~~v~~~~~G~~s~~l~~~~~~Gd~v~i~gP~G~ 94 (231)
T cd06191 61 SITVKRVPGGRVSNYLREHIQPGMTVEVMGPQGH 94 (231)
T ss_pred EEEEEECCCCccchHHHhcCCCCCEEEEeCCccc
Confidence 3344444 7778888788999999999996644
No 136
>PRK13289 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional
Probab=21.32 E-value=2.9e+02 Score=27.00 Aligned_cols=44 Identities=14% Similarity=0.204 Sum_probs=29.4
Q ss_pred EEEEEcCCCCCeEEEEEEe--cchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 96 TVIVQHAASHSLWIPILFE--GDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 96 ftLAV~r~~~T~wI~Vv~w--GkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
++|+....+...-|.|..- |.....+.++++.||.|.|.|-+..
T Consensus 208 ySias~p~~~~l~~~Vk~~~~G~~S~~L~~~l~~Gd~v~v~gP~G~ 253 (399)
T PRK13289 208 YSLSDAPNGKYYRISVKREAGGKVSNYLHDHVNVGDVLELAAPAGD 253 (399)
T ss_pred EEeeeCCCCCeEEEEEEECCCCeehHHHhhcCCCCCEEEEEcCccc
Confidence 4455433223333444444 8888888889999999999997654
No 137
>smart00350 MCM minichromosome maintenance proteins.
Probab=20.89 E-value=2.5e+02 Score=29.09 Aligned_cols=52 Identities=17% Similarity=0.351 Sum_probs=37.1
Q ss_pred CeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCcC-----Ce--EEEEEEEeEEeeec
Q 021274 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAIE-----GQ--ANVQVMVHSLNLIE 161 (315)
Q Consensus 106 T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~edk-----~r--s~~eVvVe~I~FV~ 161 (315)
...+.|.+-++|.+ .++.||.|.|.|-+..+.|... .. ..+-|.|..|..+.
T Consensus 103 Prsi~v~l~~dLvd----~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~i~~~~ 161 (509)
T smart00350 103 PRSVDVILDGDLVD----KAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANHVRKLD 161 (509)
T ss_pred CcEEEEEEcccccC----cccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeEEEEcc
Confidence 46899999999987 4779999999999998754321 22 23455566665543
No 138
>COG0677 WecC UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]
Probab=20.35 E-value=64 Score=33.46 Aligned_cols=46 Identities=17% Similarity=0.097 Sum_probs=30.6
Q ss_pred EEEEEEcCC-CCCeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEecCCCc
Q 021274 95 GTVIVQHAA-SHSLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTADPPAI 144 (315)
Q Consensus 95 ~ftLAV~r~-~~T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~srs~ed 144 (315)
.|.|+|..+ .+..=-.+.+-.+.|+.++.+|+|||+|.+| +.+|.+
T Consensus 87 v~iI~VPTPl~~~~~pDls~v~~aa~sIa~~L~kG~LVIlE----ST~~PG 133 (436)
T COG0677 87 VFIICVPTPLKKYREPDLSYVESAARSIAPVLKKGDLVILE----STTPPG 133 (436)
T ss_pred EEEEEecCCcCCCCCCChHHHHHHHHHHHHhcCCCCEEEEe----cCCCCC
Confidence 455667542 1112223566678999999999999999985 555543
No 139
>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=20.15 E-value=2.6e+02 Score=24.61 Aligned_cols=34 Identities=24% Similarity=0.287 Sum_probs=26.2
Q ss_pred CeEEEEEEecchHHHHHhhcCCCCeEEEEEEeEe
Q 021274 106 SLWIPILFEGDLAHIASSHLKKDDHVHIAGQLTA 139 (315)
Q Consensus 106 T~wI~Vv~wGkLAE~aakhLKKGD~V~VeGRL~s 139 (315)
..-+.|..-|.....+.++++.||.|.|.|-+..
T Consensus 55 ~l~l~vk~~G~~t~~l~~~l~~G~~v~i~gP~G~ 88 (216)
T cd06198 55 RLRFTIKALGDYTRRLAERLKPGTRVTVEGPYGR 88 (216)
T ss_pred eEEEEEEeCChHHHHHHHhCCCCCEEEEECCCCC
Confidence 3444555568888888888999999999997654
No 140
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=20.11 E-value=74 Score=28.22 Aligned_cols=22 Identities=27% Similarity=0.360 Sum_probs=19.6
Q ss_pred EecchHHHHHhhcCCCCeEEEE
Q 021274 113 FEGDLAHIASSHLKKDDHVHIA 134 (315)
Q Consensus 113 ~wGkLAE~aakhLKKGD~V~Ve 134 (315)
..|+||..++..|.-||.|.|.
T Consensus 13 vlGRLAs~IA~~L~~Gd~VVVi 34 (146)
T PRK06394 13 ILGRLASYVAKRLLEGEEVVIV 34 (146)
T ss_pred chHHHHHHHHHHHhCCCEEEEE
Confidence 5689999999999999999884
Done!