Query 024247
Match_columns 270
No_of_seqs 220 out of 1052
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 03:10:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024247.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024247hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK07459 single-stranded DNA-b 100.0 1.1E-28 2.5E-33 203.1 15.4 100 67-166 2-107 (121)
2 PRK06752 single-stranded DNA-b 100.0 1E-28 2.3E-33 199.8 13.8 99 67-165 1-108 (112)
3 PRK07275 single-stranded DNA-b 100.0 2.2E-28 4.8E-33 210.8 14.2 98 67-164 1-107 (162)
4 PRK08486 single-stranded DNA-b 99.9 3.4E-27 7.4E-32 206.9 14.7 99 67-165 1-110 (182)
5 PRK06751 single-stranded DNA-b 99.9 8.1E-27 1.8E-31 203.1 14.0 100 67-166 1-109 (173)
6 PRK07274 single-stranded DNA-b 99.9 1.4E-26 2.9E-31 192.7 13.8 99 67-166 1-108 (131)
7 PRK06293 single-stranded DNA-b 99.9 4E-26 8.7E-31 196.8 14.8 97 68-164 1-103 (161)
8 PRK08763 single-stranded DNA-b 99.9 3.9E-26 8.4E-31 197.4 14.8 100 66-165 3-113 (164)
9 PRK06642 single-stranded DNA-b 99.9 6.9E-26 1.5E-30 193.3 15.7 100 67-166 4-120 (152)
10 PRK08182 single-stranded DNA-b 99.9 5.1E-26 1.1E-30 193.4 14.2 99 67-165 1-115 (148)
11 PRK09010 single-stranded DNA-b 99.9 2.3E-25 5E-30 194.7 14.3 101 66-166 4-119 (177)
12 PRK06958 single-stranded DNA-b 99.9 2.7E-25 5.9E-30 195.0 14.6 99 68-166 4-114 (182)
13 PRK13732 single-stranded DNA-b 99.9 3.6E-25 7.9E-30 193.1 14.6 100 66-166 4-118 (175)
14 PRK06863 single-stranded DNA-b 99.9 4E-25 8.6E-30 191.8 14.5 99 68-166 4-114 (168)
15 TIGR00621 ssb single stranded 99.9 1.8E-24 4E-29 186.1 14.3 99 66-164 2-111 (164)
16 PRK05733 single-stranded DNA-b 99.9 2.9E-24 6.4E-29 187.0 14.4 99 66-165 3-116 (172)
17 PF00436 SSB: Single-strand bi 99.9 2.6E-24 5.6E-29 167.8 12.4 93 68-160 1-104 (104)
18 PRK06341 single-stranded DNA-b 99.9 6.6E-24 1.4E-28 183.8 14.6 100 66-165 3-119 (166)
19 COG0629 Ssb Single-stranded DN 99.9 4.4E-23 9.5E-28 177.5 12.0 99 67-165 2-116 (167)
20 PRK05813 single-stranded DNA-b 99.9 8.8E-23 1.9E-27 183.7 14.2 97 66-164 107-211 (219)
21 PRK07772 single-stranded DNA-b 99.9 1.3E-22 2.9E-27 178.6 13.7 92 67-158 3-107 (186)
22 PRK02801 primosomal replicatio 99.9 2.1E-22 4.5E-27 161.1 13.1 91 67-161 1-101 (101)
23 PRK05853 hypothetical protein; 99.9 1.7E-21 3.7E-26 168.1 11.9 87 73-159 1-98 (161)
24 cd04496 SSB_OBF SSB_OBF: A sub 99.8 5.1E-20 1.1E-24 142.1 13.4 90 71-160 1-100 (100)
25 PRK05813 single-stranded DNA-b 99.8 8.4E-19 1.8E-23 158.0 13.4 94 67-165 7-105 (219)
26 KOG1653 Single-stranded DNA-bi 99.6 1.2E-15 2.5E-20 131.7 9.2 105 57-164 47-168 (175)
27 PRK00036 primosomal replicatio 98.0 6.8E-05 1.5E-09 61.4 9.4 89 68-163 1-99 (107)
28 COG2965 PriB Primosomal replic 97.5 0.0011 2.3E-08 53.7 9.9 92 66-161 2-103 (103)
29 PF01336 tRNA_anti-codon: OB-f 97.4 0.0014 3.1E-08 47.3 8.6 75 71-160 1-75 (75)
30 cd04489 ExoVII_LU_OBF ExoVII_L 96.3 0.056 1.2E-06 39.8 9.6 72 71-158 2-75 (78)
31 cd04487 RecJ_OBF2_like RecJ_OB 96.3 0.022 4.8E-07 43.1 7.4 72 72-160 2-73 (73)
32 cd03524 RPA2_OBF_family RPA2_O 95.6 0.17 3.7E-06 35.0 8.9 47 85-137 15-62 (75)
33 cd04482 RPA2_OBF_like RPA2_OBF 94.9 0.21 4.6E-06 39.1 8.3 70 72-161 2-75 (91)
34 cd04474 RPA1_DBD_A RPA1_DBD_A: 94.4 0.22 4.7E-06 39.6 7.5 63 68-135 9-78 (104)
35 cd04492 YhaM_OBF_like YhaM_OBF 93.3 2.2 4.8E-05 31.0 10.7 65 83-163 15-79 (83)
36 cd04485 DnaE_OBF DnaE_OBF: A s 92.9 0.6 1.3E-05 33.6 7.0 48 83-136 15-62 (84)
37 cd04320 AspRS_cyto_N AspRS_cyt 92.7 2.3 5E-05 33.3 10.5 87 70-164 1-93 (102)
38 cd04317 EcAspRS_like_N EcAspRS 92.2 2.2 4.8E-05 35.0 10.4 86 70-163 16-104 (135)
39 PF13742 tRNA_anti_2: OB-fold 92.2 0.37 8E-06 38.2 5.5 76 68-158 21-98 (99)
40 PRK07211 replication factor A; 91.9 1.1 2.3E-05 45.5 9.5 63 67-135 62-133 (485)
41 cd04100 Asp_Lys_Asn_RS_N Asp_L 91.6 2.9 6.3E-05 31.5 9.7 81 70-161 1-84 (85)
42 cd04475 RPA1_DBD_B RPA1_DBD_B: 91.3 1.2 2.5E-05 34.8 7.4 63 71-139 2-71 (101)
43 PF11506 DUF3217: Protein of u 91.1 1.7 3.7E-05 34.8 8.0 80 67-148 1-83 (104)
44 COG3390 Uncharacterized protei 91.0 1.5 3.3E-05 39.5 8.5 89 65-161 42-131 (196)
45 PLN02903 aminoacyl-tRNA ligase 90.7 4 8.7E-05 42.9 12.7 89 69-165 73-165 (652)
46 cd04484 polC_OBF polC_OBF: A s 89.9 1.9 4.2E-05 33.0 7.3 62 71-140 2-69 (82)
47 cd04319 PhAsnRS_like_N PhAsnRS 89.0 7.6 0.00016 30.5 10.3 81 70-164 1-84 (103)
48 PRK00286 xseA exodeoxyribonucl 88.9 1.7 3.7E-05 42.7 7.9 77 68-160 23-101 (438)
49 cd04322 LysRS_N LysRS_N: N-ter 88.6 8.3 0.00018 30.5 10.3 78 71-164 2-84 (108)
50 TIGR00237 xseA exodeoxyribonuc 88.1 2.1 4.5E-05 42.5 8.0 78 68-160 17-95 (432)
51 cd04490 PolII_SU_OBF PolII_SU_ 87.7 2.9 6.4E-05 31.9 7.0 46 103-159 27-74 (79)
52 PRK07373 DNA polymerase III su 86.7 5.7 0.00012 39.9 10.2 77 70-161 282-361 (449)
53 cd04316 ND_PkAspRS_like_N ND_P 86.0 15 0.00033 29.0 12.6 81 70-164 14-98 (108)
54 PRK15491 replication factor A; 85.4 3.6 7.7E-05 40.3 7.8 65 68-139 176-249 (374)
55 COG1570 XseA Exonuclease VII, 85.3 2.9 6.3E-05 42.0 7.3 77 68-159 23-100 (440)
56 PRK07211 replication factor A; 85.3 2.5 5.3E-05 43.0 6.9 62 68-136 171-241 (485)
57 cd04488 RecG_wedge_OBF RecG_we 84.8 4.3 9.4E-05 28.5 6.3 34 103-137 28-61 (75)
58 cd04491 SoSSB_OBF SoSSB_OBF: A 82.1 8.7 0.00019 28.7 7.2 32 103-137 33-65 (82)
59 PRK15491 replication factor A; 81.7 5.3 0.00012 39.1 7.4 61 67-133 66-135 (374)
60 PRK05673 dnaE DNA polymerase I 81.3 8.2 0.00018 43.1 9.4 78 69-162 978-1059(1135)
61 TIGR00458 aspS_arch aspartyl-t 81.3 15 0.00032 36.4 10.4 83 69-165 13-99 (428)
62 PRK14699 replication factor A; 79.5 5.3 0.00012 40.5 6.7 61 67-133 66-135 (484)
63 PRK08402 replication factor A; 79.4 5.3 0.00011 39.0 6.5 60 68-133 72-139 (355)
64 cd04323 AsnRS_cyto_like_N AsnR 79.4 8.4 0.00018 29.0 6.4 81 70-161 1-83 (84)
65 PRK06461 single-stranded DNA-b 78.4 9.8 0.00021 31.6 7.0 58 68-135 14-79 (129)
66 PLN02850 aspartate-tRNA ligase 78.2 22 0.00049 36.4 10.8 87 69-165 82-174 (530)
67 PRK06826 dnaE DNA polymerase I 77.8 17 0.00036 40.8 10.4 79 70-162 993-1074(1151)
68 PRK12366 replication factor A; 77.3 13 0.00028 38.9 9.0 78 69-156 292-376 (637)
69 PHA01740 putative single-stran 76.9 1.4 3E-05 38.0 1.5 23 210-232 17-41 (158)
70 TIGR00459 aspS_bact aspartyl-t 76.7 23 0.0005 36.9 10.5 88 70-165 17-106 (583)
71 PRK06920 dnaE DNA polymerase I 76.7 17 0.00036 40.6 10.0 77 70-161 945-1024(1107)
72 cd04481 RPA1_DBD_B_like RPA1_D 76.0 30 0.00065 27.2 8.9 38 103-140 34-75 (106)
73 cd04321 ScAspRS_mt_like_N ScAs 75.8 13 0.00028 28.3 6.5 83 70-161 1-85 (86)
74 PF11325 DUF3127: Domain of un 75.0 30 0.00064 27.3 8.4 48 104-157 36-83 (84)
75 PRK07374 dnaE DNA polymerase I 74.5 20 0.00044 40.2 10.0 78 69-161 1001-1081(1170)
76 PRK05159 aspC aspartyl-tRNA sy 74.0 33 0.00072 34.0 10.5 82 69-164 17-101 (437)
77 PF13567 DUF4131: Domain of un 73.8 26 0.00057 27.9 8.3 67 68-139 75-146 (176)
78 cd04483 hOBFC1_like hOBFC1_lik 72.9 24 0.00053 27.6 7.6 36 102-137 23-78 (92)
79 PRK07279 dnaE DNA polymerase I 71.5 23 0.0005 39.4 9.4 78 69-161 885-966 (1034)
80 COG0017 AsnS Aspartyl/asparagi 71.3 35 0.00076 34.4 9.9 81 69-163 17-100 (435)
81 TIGR00457 asnS asparaginyl-tRN 71.1 53 0.0011 32.9 11.2 84 69-164 17-103 (453)
82 PRK12366 replication factor A; 71.0 12 0.00026 39.0 7.0 60 67-133 72-139 (637)
83 PTZ00385 lysyl-tRNA synthetase 70.4 49 0.0011 35.1 11.2 77 70-162 109-191 (659)
84 PRK05672 dnaE2 error-prone DNA 68.6 29 0.00063 38.5 9.5 75 70-161 955-1032(1046)
85 TIGR00499 lysS_bact lysyl-tRNA 68.4 63 0.0014 32.8 11.2 79 70-164 55-138 (496)
86 cd04478 RPA2_DBD_D RPA2_DBD_D: 68.1 13 0.00029 28.2 5.1 77 71-164 2-81 (95)
87 PRK00476 aspS aspartyl-tRNA sy 67.0 50 0.0011 34.4 10.3 86 70-164 19-107 (588)
88 PRK00484 lysS lysyl-tRNA synth 66.5 81 0.0018 32.0 11.6 81 69-165 55-139 (491)
89 PRK12445 lysyl-tRNA synthetase 65.0 85 0.0018 32.1 11.4 79 70-164 67-150 (505)
90 PTZ00401 aspartyl-tRNA synthet 64.9 72 0.0016 33.0 10.9 88 69-165 79-171 (550)
91 PTZ00417 lysine-tRNA ligase; P 64.4 59 0.0013 34.0 10.2 79 71-164 135-220 (585)
92 PRK12820 bifunctional aspartyl 62.8 68 0.0015 34.3 10.5 88 69-164 19-111 (706)
93 PLN02502 lysyl-tRNA synthetase 62.3 89 0.0019 32.4 11.1 79 70-164 110-195 (553)
94 COG1200 RecG RecG-like helicas 61.1 54 0.0012 34.9 9.4 62 69-137 61-124 (677)
95 cd04318 EcAsnRS_like_N EcAsnRS 57.8 48 0.001 24.6 6.4 79 71-161 2-81 (82)
96 cd04497 hPOT1_OB1_like hPOT1_O 55.8 82 0.0018 26.2 8.0 69 67-139 13-85 (138)
97 PRK13480 3'-5' exoribonuclease 55.3 55 0.0012 31.4 7.7 64 83-162 29-92 (314)
98 TIGR00617 rpa1 replication fac 55.3 37 0.00079 35.4 7.0 63 68-136 190-260 (608)
99 PRK14699 replication factor A; 53.8 42 0.00091 34.2 7.0 59 67-132 285-351 (484)
100 TIGR00617 rpa1 replication fac 53.5 44 0.00095 34.8 7.3 64 70-139 312-382 (608)
101 cd04498 hPOT1_OB2 hPOT1_OB2: A 53.1 20 0.00044 30.0 3.9 28 104-132 60-87 (123)
102 TIGR00643 recG ATP-dependent D 51.6 67 0.0015 33.3 8.2 61 69-136 33-95 (630)
103 PRK07218 replication factor A; 50.7 43 0.00094 33.5 6.5 75 68-161 172-252 (423)
104 PRK10917 ATP-dependent DNA hel 48.2 71 0.0015 33.5 7.8 62 69-136 60-122 (681)
105 PRK03932 asnC asparaginyl-tRNA 47.3 1E+02 0.0022 30.8 8.5 81 69-163 17-100 (450)
106 PRK02983 lysS lysyl-tRNA synth 46.9 1.9E+02 0.0041 32.5 11.1 79 70-164 653-736 (1094)
107 PLN02221 asparaginyl-tRNA synt 45.0 2.2E+02 0.0048 29.7 10.7 87 69-164 51-138 (572)
108 COG1190 LysU Lysyl-tRNA synthe 44.5 1.4E+02 0.003 30.8 8.9 80 71-166 64-148 (502)
109 smart00350 MCM minichromosome 42.7 57 0.0012 32.9 6.0 56 103-162 103-162 (509)
110 PRK00448 polC DNA polymerase I 42.7 1.3E+02 0.0029 34.7 9.4 68 66-140 234-307 (1437)
111 PF02765 POT1: Telomeric singl 42.0 88 0.0019 26.1 6.2 70 68-140 12-91 (146)
112 PF10451 Stn1: Telomere regula 41.7 62 0.0014 30.2 5.7 88 58-162 56-149 (256)
113 KOG1885 Lysyl-tRNA synthetase 41.1 80 0.0017 32.6 6.6 78 71-163 107-190 (560)
114 COG1571 Predicted DNA-binding 40.9 1.4E+02 0.003 30.2 8.2 64 67-138 265-332 (421)
115 PLN02532 asparagine-tRNA synth 40.3 77 0.0017 33.5 6.6 55 105-164 148-202 (633)
116 PF02367 UPF0079: Uncharacteri 38.1 19 0.0004 30.0 1.4 24 113-136 3-26 (123)
117 smart00528 HNS Domain in histo 36.6 49 0.0011 23.1 3.2 33 211-244 3-37 (46)
118 PLN02603 asparaginyl-tRNA synt 35.6 1.4E+02 0.0031 31.0 7.7 54 105-164 138-194 (565)
119 COG3689 Predicted membrane pro 34.0 1.8E+02 0.0039 27.7 7.3 84 70-165 177-264 (271)
120 PRK10646 ADP-binding protein; 33.5 32 0.0007 29.7 2.2 26 112-137 15-40 (153)
121 TIGR01405 polC_Gram_pos DNA po 32.3 1.6E+02 0.0034 33.6 7.8 67 67-140 6-78 (1213)
122 COG0802 Predicted ATPase or ki 32.0 38 0.00082 29.4 2.4 25 113-137 13-37 (149)
123 PRK07218 replication factor A; 31.0 1.4E+02 0.003 30.0 6.5 59 68-139 68-132 (423)
124 PTZ00111 DNA replication licen 30.7 1.3E+02 0.0027 33.4 6.5 55 104-162 346-404 (915)
125 PF12869 tRNA_anti-like: tRNA_ 29.2 75 0.0016 25.8 3.7 61 71-137 70-132 (144)
126 PF11736 DUF3299: Protein of u 28.7 3.8E+02 0.0081 23.0 9.9 85 66-158 52-143 (146)
127 COG0587 DnaE DNA polymerase II 28.7 1.8E+02 0.0039 33.0 7.4 63 70-138 978-1044(1139)
128 TIGR00150 HI0065_YjeE ATPase, 28.1 50 0.0011 27.8 2.5 25 113-137 10-34 (133)
129 TIGR01077 L13_A_E ribosomal pr 27.8 45 0.00098 28.6 2.2 23 110-132 9-31 (142)
130 PF12101 DUF3577: Protein of u 26.3 4.2E+02 0.0091 22.8 11.6 94 71-164 14-123 (137)
131 PRK06386 replication factor A; 24.9 2.2E+02 0.0047 28.1 6.5 75 68-163 117-197 (358)
132 PRK06394 rpl13p 50S ribosomal 24.8 60 0.0013 28.0 2.4 23 110-132 13-35 (146)
133 PF00970 FAD_binding_6: Oxidor 24.0 1.7E+02 0.0036 21.9 4.5 32 103-135 62-95 (99)
134 COG0677 WecC UDP-N-acetyl-D-ma 22.6 72 0.0016 32.2 2.8 25 108-132 104-128 (436)
135 cd04486 YhcR_OBF_like YhcR_OBF 22.4 89 0.0019 23.7 2.7 19 119-137 42-60 (78)
136 PRK07135 dnaE DNA polymerase I 21.3 3.1E+02 0.0067 30.6 7.4 61 70-137 899-961 (973)
137 PRK10328 DNA binding protein, 21.3 1E+02 0.0022 26.2 3.1 34 210-243 88-124 (134)
138 cd00392 Ribosomal_L13 Ribosoma 21.2 74 0.0016 26.2 2.2 15 110-124 10-24 (114)
No 1
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=1.1e-28 Score=203.05 Aligned_cols=100 Identities=23% Similarity=0.184 Sum_probs=93.7
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC-CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceec
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH-SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVD 141 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~-~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~d 141 (270)
++|+|+||||||+||| ++|+.++.|+||+++.+ .++++||+|++||++||.+++||+||++|+|+|+|++++|+|
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 4899999999999999 79999999999999766 467999999999999999999999999999999999999999
Q ss_pred CC-CcEEEEEEEEEEEEEeeecCCCC
Q 024247 142 KN-GKLCLCYKVVVEDFNYVRECGQG 166 (270)
Q Consensus 142 kd-G~kr~~~eVvV~~v~Fl~~~~q~ 166 (270)
+| |++++.++|+|++|.||+.+.+.
T Consensus 82 ~d~G~~r~~~ei~a~~i~~L~~k~~~ 107 (121)
T PRK07459 82 RNTGEDRSKPVIRVDRLELLGSKRDS 107 (121)
T ss_pred CCCCeEEEEEEEEEeEEEECcCCCcc
Confidence 87 99999999999999999877644
No 2
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.96 E-value=1e-28 Score=199.75 Aligned_cols=99 Identities=19% Similarity=0.221 Sum_probs=92.9
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC-----CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH-----SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~-----~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
|||+|+|||||++||| ++|+.++.|+||+++.+ ...++||+|++||++||.+++||+||++|+|+|+|+++
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 7999999999999999 89999999999998754 23689999999999999999999999999999999999
Q ss_pred ceecCCCcEEEEEEEEEEEEEeeecCCC
Q 024247 138 SKVDKNGKLCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 138 sy~dkdG~kr~~~eVvV~~v~Fl~~~~q 165 (270)
+|+|+||++++.++|+|++|.||+++.+
T Consensus 81 ~~~~~~G~~~~~~ei~a~~i~~l~~~~~ 108 (112)
T PRK06752 81 NYEDDQGKRIYITEVVIESITFLERRRE 108 (112)
T ss_pred ccCCCCCcEEEEEEEEEEEEEECCCCCc
Confidence 9999999999999999999999987753
No 3
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=2.2e-28 Score=210.85 Aligned_cols=98 Identities=21% Similarity=0.235 Sum_probs=92.9
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC-----CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH-----SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~-----~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
|||+|+|||||++||| ++|..++.|+|||++.+ +.+++||+|++||++||.+++||+||++|+|+|+|+++
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 7999999999999999 79999999999998754 34799999999999999999999999999999999999
Q ss_pred ceecCCCcEEEEEEEEEEEEEeeecCC
Q 024247 138 SKVDKNGKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 138 sy~dkdG~kr~~~eVvV~~v~Fl~~~~ 164 (270)
+|+|++|++++.++|+|++|.||+++.
T Consensus 81 ~y~dkdG~k~~~~evva~~i~~l~~~~ 107 (162)
T PRK07275 81 NYENQQGQRVYVTEVVADNFQMLESRA 107 (162)
T ss_pred eEECCCCCEEEEEEEEEeEEEECCCCC
Confidence 999999999999999999999998775
No 4
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=3.4e-27 Score=206.89 Aligned_cols=99 Identities=18% Similarity=0.184 Sum_probs=93.0
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC-------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEee
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH-------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLH 135 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~-------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~ 135 (270)
|+|+|+|||||++||| ++|..+|.|+|||+++. .++|+||+|++||++||.|++||+||++|+|+|||+
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 7899999999999999 78999999999998643 247999999999999999999999999999999999
Q ss_pred ecceecCCCcEEEEEEEEEEEEEeeecCCC
Q 024247 136 SYSKVDKNGKLCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 136 t~sy~dkdG~kr~~~eVvV~~v~Fl~~~~q 165 (270)
+++|+|+||++++.++|+|++|.||.++..
T Consensus 81 ~~~y~dkdG~~r~~~eI~a~~v~~L~~~~~ 110 (182)
T PRK08486 81 FESWMDQNGQKRSKHTITAESMQMLDSKSD 110 (182)
T ss_pred eCcEECCCCcEEEEEEEEEeEEEECCCCCC
Confidence 999999999999999999999999987754
No 5
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=8.1e-27 Score=203.13 Aligned_cols=100 Identities=18% Similarity=0.203 Sum_probs=93.3
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC-----CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH-----SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~-----~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
|||+|+|||||++||| ++|..++.|+|||++.+ +..++||+|++||++||.+++||+||++|+|+|+|+++
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 7999999999999999 78999999999998753 34689999999999999999999999999999999999
Q ss_pred ceecCCCcEEEEEEEEEEEEEeeecCCCC
Q 024247 138 SKVDKNGKLCLCYKVVVEDFNYVRECGQG 166 (270)
Q Consensus 138 sy~dkdG~kr~~~eVvV~~v~Fl~~~~q~ 166 (270)
.|+|++|++++.++|+|++|.||+.+...
T Consensus 81 ~yedkdG~~~~~~eVva~~i~~l~~r~~~ 109 (173)
T PRK06751 81 NYEGQDGKRVYVTEVLAESVQFLEPRNGG 109 (173)
T ss_pred ccCCCCCcEEEEEEEEEEEEEeCcCCCCC
Confidence 99999999999999999999999977543
No 6
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=1.4e-26 Score=192.72 Aligned_cols=99 Identities=18% Similarity=0.229 Sum_probs=92.0
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC-----CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH-----SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~-----~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
|||+|+|+||||+||| ++|..++.|+||+++.+ ...++||+|++||++|+.+++||+||++|+|+|+|+++
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 7999999999999999 78999999999998754 23689999999999999999999999999999999999
Q ss_pred ceecCCCcEEEEEEEEEEEEEeeecCCCC
Q 024247 138 SKVDKNGKLCLCYKVVVEDFNYVRECGQG 166 (270)
Q Consensus 138 sy~dkdG~kr~~~eVvV~~v~Fl~~~~q~ 166 (270)
+| ++||++++.++|+|++|.||+.+.+.
T Consensus 81 ~y-~kdG~~~~~~eviv~~i~~l~~k~~~ 108 (131)
T PRK07274 81 KY-EKDGQTHYVTEVLCQSFQLLESRAQR 108 (131)
T ss_pred cC-ccCCcEEEEEEEEEEEEEECcCCCcc
Confidence 99 99999999999999999999977544
No 7
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=4e-26 Score=196.81 Aligned_cols=97 Identities=20% Similarity=0.082 Sum_probs=91.7
Q ss_pred cceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC--CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceec
Q 024247 68 ENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH--SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVD 141 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~--~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~d 141 (270)
||.|+||||||+||| ++|+.++.|+||++++. .++|+||+|++||++|+.+++||+||++|+|+|+|++++|+|
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 899999999999999 78999999999998754 457999999999999999999999999999999999999999
Q ss_pred CCCcEEEEEEEEEEEEEeeecCC
Q 024247 142 KNGKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 142 kdG~kr~~~eVvV~~v~Fl~~~~ 164 (270)
+||++++.++|+|++|.|+..+.
T Consensus 81 kdG~kr~~~eIva~~I~fl~~~~ 103 (161)
T PRK06293 81 KDGSPQSSLVVSVDTIKFSPFGR 103 (161)
T ss_pred CCCCEEEEEEEEEeEEEECcCCC
Confidence 99999999999999999996654
No 8
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=3.9e-26 Score=197.38 Aligned_cols=100 Identities=13% Similarity=0.180 Sum_probs=92.8
Q ss_pred CCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC-------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEe
Q 024247 66 QLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH-------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQL 134 (270)
Q Consensus 66 ~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~-------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL 134 (270)
+.+|+|+||||||+||| ++|..++.|+||+++.. .+.++||+|++||++||.|++||+||++|+|+|+|
T Consensus 3 r~~Nkv~LiGrLg~DPelr~t~~G~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~Ae~v~~~L~KGs~V~VeGrL 82 (164)
T PRK08763 3 RGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDREGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEGSI 82 (164)
T ss_pred CcceEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecCCCCeeccceEEEEEEehHHHHHHHHhcCCCCEEEEEEEE
Confidence 45999999999999999 88999999999998543 24689999999999999999999999999999999
Q ss_pred eecceecCCCcEEEEEEEEEEEEEeeecCCC
Q 024247 135 HSYSKVDKNGKLCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 135 ~t~sy~dkdG~kr~~~eVvV~~v~Fl~~~~q 165 (270)
++++|+|+||++++.++|+|++|.||+.+.+
T Consensus 83 ~~~~y~dkdG~kr~~~eIva~~i~~L~~~~~ 113 (164)
T PRK08763 83 RYDKFTGQDGQERYVTEIVADEMQMLGGRGE 113 (164)
T ss_pred EeceeECCCCCEEEEEEEEEeEEEECCCCCC
Confidence 9999999999999999999999999997754
No 9
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=6.9e-26 Score=193.30 Aligned_cols=100 Identities=17% Similarity=0.193 Sum_probs=91.5
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC--------CCCCeeEEEEEech-hHHHHHhhcCCCCeEEEEEE
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH--------SDRGFDILLAVGGD-MAQLCQKHLKPNDFIYVTGQ 133 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~--------~~~t~wI~Vv~wGk-LAE~~~~yLkKGd~V~VsGr 133 (270)
.||+|+||||||+||| ++|+.++.|+||+++.+ .+.|+||+|++||+ +|+.|++||+||++|+|+|+
T Consensus 4 ~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~Gr 83 (152)
T PRK06642 4 SLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIEGS 83 (152)
T ss_pred cceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEEEE
Confidence 4899999999999999 78999999999998643 23699999999996 99999999999999999999
Q ss_pred eeecceecCCCcEEEEEEEEEEEE----EeeecCCCC
Q 024247 134 LHSYSKVDKNGKLCLCYKVVVEDF----NYVRECGQG 166 (270)
Q Consensus 134 L~t~sy~dkdG~kr~~~eVvV~~v----~Fl~~~~q~ 166 (270)
|++++|+|+||++++.++|+|++| .||+++...
T Consensus 84 L~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k~~~ 120 (152)
T PRK06642 84 LQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSN 120 (152)
T ss_pred EEeCeeECCCCCEEEEEEEEEEecccceEeccCCCCc
Confidence 999999999999999999999987 799877544
No 10
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=5.1e-26 Score=193.37 Aligned_cols=99 Identities=11% Similarity=0.014 Sum_probs=90.8
Q ss_pred CcceEEEEEEcCCCCc----cCCee----EEEEEEEEcCCC--------CCCCeeEEEEEechhHHHHHhhcCCCCeEEE
Q 024247 67 LENSVNFIGTVVRPLE----RSNVF----GVYTLLHVKNSH--------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYV 130 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~----va~fsLAV~~~~--------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~V 130 (270)
|+|+|+||||||+||| ++|.. ++.|+||+++++ ...++||+|++||++||.+++||+||++|+|
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 7899999999999999 78875 999999998643 1257899999999999999999999999999
Q ss_pred EEEeeecceecCCCcEEEEEEEEEEEEEeeecCCC
Q 024247 131 TGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 131 sGrL~t~sy~dkdG~kr~~~eVvV~~v~Fl~~~~q 165 (270)
+|+|++++|+|+||++++.++|+|++|.|+..+..
T Consensus 81 ~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r~~ 115 (148)
T PRK08182 81 EGRMERDEWTDNEDNERVTFKVEARRVGILPYRIE 115 (148)
T ss_pred EEEEEecccCCCCCCEEEEEEEEEeEEEEcCCccc
Confidence 99999999999999999999999999999986654
No 11
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=2.3e-25 Score=194.65 Aligned_cols=101 Identities=19% Similarity=0.203 Sum_probs=93.2
Q ss_pred CCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC--------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEE
Q 024247 66 QLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH--------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQ 133 (270)
Q Consensus 66 ~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~--------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGr 133 (270)
+.||+|+||||||+||| ++|..++.|+|||++.+ .+.|+||+|++||++||.+++||+||++|+|+|+
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 57999999999999999 78999999999998642 2469999999999999999999999999999999
Q ss_pred eeecceecCCCcEEEEEEEEEE---EEEeeecCCCC
Q 024247 134 LHSYSKVDKNGKLCLCYKVVVE---DFNYVRECGQG 166 (270)
Q Consensus 134 L~t~sy~dkdG~kr~~~eVvV~---~v~Fl~~~~q~ 166 (270)
|++++|+|++|++++.++|+|+ +|.||++..+.
T Consensus 84 L~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r~~~ 119 (177)
T PRK09010 84 LRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGG 119 (177)
T ss_pred EEeccccCCCCCEEEEEEEEEecCCcEEEccCCCCC
Confidence 9999999999999999999999 89999877544
No 12
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=2.7e-25 Score=194.98 Aligned_cols=99 Identities=16% Similarity=0.178 Sum_probs=91.9
Q ss_pred cceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC--------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEee
Q 024247 68 ENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH--------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLH 135 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~--------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~ 135 (270)
+|+|+|||||++||| ++|+.++.|+||+++.+ .+.|+||+|++|+++||.+++||+||++|+|+|+|+
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 899999999999999 79999999999998643 236899999999999999999999999999999999
Q ss_pred ecceecCCCcEEEEEEEEEEEEEeeecCCCC
Q 024247 136 SYSKVDKNGKLCLCYKVVVEDFNYVRECGQG 166 (270)
Q Consensus 136 t~sy~dkdG~kr~~~eVvV~~v~Fl~~~~q~ 166 (270)
++.|+|+||++++.++|+|++|.||..+.+.
T Consensus 84 ~~~yeDkdG~kr~~~eVvA~~V~fL~sr~~~ 114 (182)
T PRK06958 84 TRKWQGQDGQDRYSTEIVADQMQMLGGRGGS 114 (182)
T ss_pred eCceECCCCcEEEEEEEEEeEEEECCCCccC
Confidence 9999999999999999999999999877543
No 13
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=3.6e-25 Score=193.11 Aligned_cols=100 Identities=18% Similarity=0.186 Sum_probs=91.9
Q ss_pred CCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC--------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEE
Q 024247 66 QLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH--------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQ 133 (270)
Q Consensus 66 ~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~--------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGr 133 (270)
+.||+|+||||||+||| ++|..++.|+||+++.+ .+.|+||+|++||++||.|++||+||++|+|+|+
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 36899999999999999 78999999999998643 2468999999999999999999999999999999
Q ss_pred eeecceecCCCcEEEEEEEEEE---EEEeeecCCCC
Q 024247 134 LHSYSKVDKNGKLCLCYKVVVE---DFNYVRECGQG 166 (270)
Q Consensus 134 L~t~sy~dkdG~kr~~~eVvV~---~v~Fl~~~~q~ 166 (270)
|++++|++ +|++++.++|+|+ +|.||+++.+.
T Consensus 84 L~~r~ye~-dG~kr~~~eIiv~~~g~~~fL~~~~~~ 118 (175)
T PRK13732 84 LRTRSWED-NGITRYVTEILVKTTGTMQMLGRAPQQ 118 (175)
T ss_pred EEeeeEcc-CCeEEEEEEEEEeecCeEEEecCCCCC
Confidence 99999987 7999999999999 99999988764
No 14
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.93 E-value=4e-25 Score=191.78 Aligned_cols=99 Identities=15% Similarity=0.097 Sum_probs=92.1
Q ss_pred cceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC--------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEee
Q 024247 68 ENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH--------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLH 135 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~--------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~ 135 (270)
||+|+|+||||+||| ++|+.++.|+||+++.+ .+.++||+|++||++||.+++||+||++|+|+|+|+
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 799999999999999 79999999999998642 235899999999999999999999999999999999
Q ss_pred ecceecCCCcEEEEEEEEEEEEEeeecCCCC
Q 024247 136 SYSKVDKNGKLCLCYKVVVEDFNYVRECGQG 166 (270)
Q Consensus 136 t~sy~dkdG~kr~~~eVvV~~v~Fl~~~~q~ 166 (270)
+++|+|+||++++.++|+|++|.||+++.+.
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 9999999999999999999999999987664
No 15
>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=99.92 E-value=1.8e-24 Score=186.07 Aligned_cols=99 Identities=19% Similarity=0.254 Sum_probs=92.0
Q ss_pred CCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC-------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEe
Q 024247 66 QLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH-------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQL 134 (270)
Q Consensus 66 ~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~-------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL 134 (270)
.|+|+|+|+|||++||| ++|+.++.|+||+++++ .+.++||+|++||++||.+++||+||++|+|+|+|
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 47899999999999999 78999999999998653 24689999999999999999999999999999999
Q ss_pred eecceecCCCcEEEEEEEEEEEEEeeecCC
Q 024247 135 HSYSKVDKNGKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 135 ~t~sy~dkdG~kr~~~eVvV~~v~Fl~~~~ 164 (270)
++++|++++|++++.++|+|++|.||..+.
T Consensus 82 ~~~~~~~kdG~~~~~~ev~a~~i~~L~~~~ 111 (164)
T TIGR00621 82 RTRKWEDQNGQKRSKTEIIADNVQLLDLLG 111 (164)
T ss_pred EeceEECCCCcEEEEEEEEEEEEeeccccC
Confidence 999999999999999999999999998764
No 16
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=2.9e-24 Score=186.97 Aligned_cols=99 Identities=18% Similarity=0.183 Sum_probs=91.0
Q ss_pred CCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC--------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEE
Q 024247 66 QLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH--------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQ 133 (270)
Q Consensus 66 ~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~--------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGr 133 (270)
+.||+|+|+||||+||| ++|..++.|+||+++.+ .+.|+||+|++||++||.+++||+||++|+|+|+
T Consensus 3 ~~mNkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae~v~~~l~KGs~V~VeGr 82 (172)
T PRK05733 3 RGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIEGK 82 (172)
T ss_pred CcceEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEEE
Confidence 45999999999999999 78999999999997533 2469999999999999999999999999999999
Q ss_pred eeecceecCCCcEEEEEEEEEE---EEEeeecCCC
Q 024247 134 LHSYSKVDKNGKLCLCYKVVVE---DFNYVRECGQ 165 (270)
Q Consensus 134 L~t~sy~dkdG~kr~~~eVvV~---~v~Fl~~~~q 165 (270)
|++++|+ +||++++.++|+|+ +|.||..+.+
T Consensus 83 Lr~~~y~-kdG~~r~~~eVvvd~~g~v~~L~~~~~ 116 (172)
T PRK05733 83 LQTREWE-KDGIKRYTTEIVVDMQGTMQLLGGRPQ 116 (172)
T ss_pred EEeCcEe-cCCEEEEEEEEEEeecCeEEECcCCCC
Confidence 9999999 89999999999999 8999986654
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=99.92 E-value=2.6e-24 Score=167.82 Aligned_cols=93 Identities=22% Similarity=0.307 Sum_probs=84.4
Q ss_pred cceEEEEEEcCCCCc----cCCeeEEEEEEEEcCC-----C--CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeee
Q 024247 68 ENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNS-----H--SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHS 136 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~-----~--~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t 136 (270)
||+|+|+|+|++||+ ++|+.++.|+||++++ . ...++||+|++||++|+.+++||+|||+|+|+|+|++
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 799999999999999 7899999999999872 2 4678999999999999999999999999999999999
Q ss_pred cceecCCCcEEEEEEEEEEEEEee
Q 024247 137 YSKVDKNGKLCLCYKVVVEDFNYV 160 (270)
Q Consensus 137 ~sy~dkdG~kr~~~eVvV~~v~Fl 160 (270)
+.|++++|++++.++|+|++|+||
T Consensus 81 ~~~~~~~G~~~~~~~i~a~~i~fl 104 (104)
T PF00436_consen 81 RTYEDKDGQKRYRVEIIADNIEFL 104 (104)
T ss_dssp EEEESTTSSEEEEEEEEEEEEEE-
T ss_pred eEEECCCCCEEEEEEEEEEEEEeC
Confidence 999999999999999999999997
No 18
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.91 E-value=6.6e-24 Score=183.85 Aligned_cols=100 Identities=17% Similarity=0.212 Sum_probs=90.8
Q ss_pred CCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC--------CCCCeeEEEEEech-hHHHHHhhcCCCCeEEEEE
Q 024247 66 QLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH--------SDRGFDILLAVGGD-MAQLCQKHLKPNDFIYVTG 132 (270)
Q Consensus 66 ~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~--------~~~t~wI~Vv~wGk-LAE~~~~yLkKGd~V~VsG 132 (270)
.+||+|+|||||++||| ++|+.++.|+||+++.+ .++|+||+|++|++ +|+.+++||+||++|+|+|
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 35899999999999999 78999999999998532 35799999999996 9999999999999999999
Q ss_pred EeeecceecCCCcEEEEEEEEEEEE----EeeecCCC
Q 024247 133 QLHSYSKVDKNGKLCLCYKVVVEDF----NYVRECGQ 165 (270)
Q Consensus 133 rL~t~sy~dkdG~kr~~~eVvV~~v----~Fl~~~~q 165 (270)
+|++++|+|++|++++.++|+|++| .|++.+.+
T Consensus 83 rL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~~~ 119 (166)
T PRK06341 83 QLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRGE 119 (166)
T ss_pred EEEeCcEECCCCCEEEEEEEEEEecccceEEcccCCc
Confidence 9999999999999999999999875 89987753
No 19
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.89 E-value=4.4e-23 Score=177.45 Aligned_cols=99 Identities=18% Similarity=0.244 Sum_probs=83.1
Q ss_pred CcceEEEEEEcCCCCc----c-CCeeEEEEEEEEcCCC-------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEe
Q 024247 67 LENSVNFIGTVVRPLE----R-SNVFGVYTLLHVKNSH-------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQL 134 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~-~G~~va~fsLAV~~~~-------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL 134 (270)
|+|+|+|+|||++||| + +|..++.+++|+++.. ...++||+|++||++|+.+.+||+||++|+|+|+|
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 7999999999999999 5 5567777787776542 34679999999999999999999999999999999
Q ss_pred eecceecCCCcEEEEEEE----EEEEEEeeecCCC
Q 024247 135 HSYSKVDKNGKLCLCYKV----VVEDFNYVRECGQ 165 (270)
Q Consensus 135 ~t~sy~dkdG~kr~~~eV----vV~~v~Fl~~~~q 165 (270)
+++.|++++|++|+.+++ ++..+.++.....
T Consensus 82 ~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 82 QTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EeeeeecCCCcceeeEEEEEEEeehhhhhccCccc
Confidence 999999999955555554 6677778877653
No 20
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.89 E-value=8.8e-23 Score=183.67 Aligned_cols=97 Identities=20% Similarity=0.150 Sum_probs=89.7
Q ss_pred CCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceec
Q 024247 66 QLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVD 141 (270)
Q Consensus 66 ~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~d 141 (270)
.-+|+|+|+|||++||| ++|+.+|.|+|||++++. .++||+|++||++||.|+ +|+|||+|+|+|+|++++|++
T Consensus 107 ~~~N~V~LiGrL~~DPelR~t~~G~~va~f~lAvnr~~~-~td~i~~v~wg~~Ae~~~-~l~KG~~V~V~GrL~sr~y~~ 184 (219)
T PRK05813 107 KNPNEIFLDGYICKEPVYRTTPFGREIADLLLAVNRPYN-KSDYIPCIAWGRNARFCK-TLEVGDNIRVWGRVQSREYQK 184 (219)
T ss_pred CCccEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCCCC-CceEEEEEEEhHHhHHHh-hCCCCCEEEEEEEEEecceEc
Confidence 56999999999999999 899999999999997763 589999999999999876 699999999999999999999
Q ss_pred CCC----cEEEEEEEEEEEEEeeecCC
Q 024247 142 KNG----KLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 142 kdG----~kr~~~eVvV~~v~Fl~~~~ 164 (270)
++| ++++.++|+|++|+|++.+.
T Consensus 185 k~g~~~g~kr~~~eV~v~~i~~l~~~~ 211 (219)
T PRK05813 185 KLSEGEVVTKVAYEVSISKMEKVEKEE 211 (219)
T ss_pred CCCCccceEEEEEEEEEEEEEEcCChh
Confidence 874 89999999999999998765
No 21
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.89 E-value=1.3e-22 Score=178.57 Aligned_cols=92 Identities=13% Similarity=0.135 Sum_probs=84.5
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC---------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEE
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH---------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQ 133 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~---------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGr 133 (270)
++|.|+|||||++||| ++|..++.|+||++++. +.+++||+|++|+++||++++||+|||+|+|+||
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 4799999999999999 89999999999997432 1368899999999999999999999999999999
Q ss_pred eeecceecCCCcEEEEEEEEEEEEE
Q 024247 134 LHSYSKVDKNGKLCLCYKVVVEDFN 158 (270)
Q Consensus 134 L~t~sy~dkdG~kr~~~eVvV~~v~ 158 (270)
|++++|+|+||++++.++|+|++|-
T Consensus 83 L~~r~wedkdG~~rt~~eV~a~~Vg 107 (186)
T PRK07772 83 LKQRSYETREGEKRTVVELEVDEIG 107 (186)
T ss_pred EEcCceECCCCCEEEEEEEEEEEcc
Confidence 9999999999999999999999653
No 22
>PRK02801 primosomal replication protein N; Provisional
Probab=99.89 E-value=2.1e-22 Score=161.10 Aligned_cols=91 Identities=19% Similarity=0.231 Sum_probs=81.5
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeee
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHS 136 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t 136 (270)
|||+|+|+|||++||| ++|.+++.|+||+++.. .+.++||+|++||++||.+++||+||++|.|+|+|++
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 6899999999999999 89999999999996321 1234889999999999999999999999999999998
Q ss_pred cceecCCCcEEEEEEEEEEEEEeee
Q 024247 137 YSKVDKNGKLCLCYKVVVEDFNYVR 161 (270)
Q Consensus 137 ~sy~dkdG~kr~~~eVvV~~v~Fl~ 161 (270)
|++++|++++. |+|++|+|+.
T Consensus 81 --~~~~~g~~~~~--v~~~~i~~l~ 101 (101)
T PRK02801 81 --HQGRNGLSKLV--LHAEQIELID 101 (101)
T ss_pred --eECCCCCEEEE--EEEEEEEECC
Confidence 68999999976 9999999973
No 23
>PRK05853 hypothetical protein; Validated
Probab=99.86 E-value=1.7e-21 Score=168.14 Aligned_cols=87 Identities=10% Similarity=0.094 Sum_probs=79.5
Q ss_pred EEEEcCCCCc---cCCeeEEEEEEEEcCCC--------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceec
Q 024247 73 FIGTVVRPLE---RSNVFGVYTLLHVKNSH--------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVD 141 (270)
Q Consensus 73 LIGrLg~DPE---~~G~~va~fsLAV~~~~--------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~d 141 (270)
|||||++||| .+|..++.|+||+++++ ...|+||+|++||++||++++||+||++|+|+|+|++++|+|
T Consensus 1 ivGrLg~DPelr~~~g~~va~F~lAvn~r~~~~~Ge~~d~~T~wi~V~~wg~lAe~v~~~L~KG~~V~V~GrL~~~~wed 80 (161)
T PRK05853 1 VVGHIVNDPQRRKVGDQEVIKFRVASNSRRRTADGGWEPGNSLFITVNCWGRLVTGVGAALGKGAPVIVVGHVYTSEYED 80 (161)
T ss_pred CeEcccCCCEEEEECCceEEEEEEEECCCeECCCCCEeccCccEEEEEEEhHHHHHHHHHcCCCCEEEEEEEEEccceEC
Confidence 6999999999 45789999999998654 135899999999999999999999999999999999999999
Q ss_pred CCCcEEEEEEEEEEEEEe
Q 024247 142 KNGKLCLCYKVVVEDFNY 159 (270)
Q Consensus 142 kdG~kr~~~eVvV~~v~F 159 (270)
++|++++.++|+|+.|-.
T Consensus 81 kdG~~r~~~eV~a~~Vg~ 98 (161)
T PRK05853 81 RDGNRRSSLEMRATSVGP 98 (161)
T ss_pred CCCCEEEEEEEEEEEecc
Confidence 999999999999998744
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=99.84 E-value=5.1e-20 Score=142.13 Aligned_cols=90 Identities=27% Similarity=0.303 Sum_probs=84.2
Q ss_pred EEEEEEcCCCCc----cCCeeEEEEEEEEcCCC------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccee
Q 024247 71 VNFIGTVVRPLE----RSNVFGVYTLLHVKNSH------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKV 140 (270)
Q Consensus 71 V~LIGrLg~DPE----~~G~~va~fsLAV~~~~------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~ 140 (270)
|+|+|+|+++|+ ++|..++.|+|++++.. ...++||+|++||++|+.+++||+|||.|+|+|+|+++.|+
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 589999999999 67999999999998754 35899999999999999999999999999999999999999
Q ss_pred cCCCcEEEEEEEEEEEEEee
Q 024247 141 DKNGKLCLCYKVVVEDFNYV 160 (270)
Q Consensus 141 dkdG~kr~~~eVvV~~v~Fl 160 (270)
+++|+.++.++|+|++|.++
T Consensus 81 ~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 81 DKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred CCCCCEEEEEEEEEEEEEEC
Confidence 99999999999999999875
No 25
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.79 E-value=8.4e-19 Score=157.97 Aligned_cols=94 Identities=27% Similarity=0.206 Sum_probs=88.0
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecC
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDK 142 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dk 142 (270)
..|+|+|+|+|++||| ..|..++.|+|||++ ....++||+|++|++|||.+. |+||++|+|+|+|+ +|.+.
T Consensus 7 ~~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R-~s~~~D~i~v~v~~rlae~~~--l~kG~~v~VeGqlr--sy~~~ 81 (219)
T PRK05813 7 ENNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPR-LSDSKDILPVTVSERLLAGMD--LKVGTLVIVEGQLR--SYNKF 81 (219)
T ss_pred hcCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeec-cCCCccEEEEEEEhhhhhhhc--ccCCCEEEEEEEEE--EeccC
Confidence 4799999999999999 899999999999998 667899999999999999998 99999999999999 78777
Q ss_pred -CCcEEEEEEEEEEEEEeeecCCC
Q 024247 143 -NGKLCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 143 -dG~kr~~~eVvV~~v~Fl~~~~q 165 (270)
+|++|+.++|+|++|.|++.++.
T Consensus 82 ~~G~~R~vl~V~a~~i~~l~~~~~ 105 (219)
T PRK05813 82 IDGKNRLILTVFARNIEYCDERSD 105 (219)
T ss_pred CCCcEEEEEEEEEEEEEEccCCCc
Confidence 79999999999999999998753
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.63 E-value=1.2e-15 Score=131.66 Aligned_cols=105 Identities=17% Similarity=0.154 Sum_probs=89.5
Q ss_pred CCCccccCCCCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC----------CCCCeeEEEEEec-hhHHHHHhh
Q 024247 57 RPTTIKWQPQLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH----------SDRGFDILLAVGG-DMAQLCQKH 121 (270)
Q Consensus 57 rP~~I~~~~~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~----------~~~t~wI~Vv~wG-kLAE~~~~y 121 (270)
+|.+.+ +.+|+|+|+|+||+||. .+|+.|.-|+|++...+ ...|.||+|.+|+ .||+.+.+|
T Consensus 47 ~p~k~~---~~vnkv~lvG~VGqdPl~k~~rngrpVtiFsv~T~~~~k~r~~q~g~~~~~tqWHRVsVf~~~L~d~~~k~ 123 (175)
T KOG1653|consen 47 DPRKLE---RGVNKVILVGRVGQDPLQKILRNGRPVTIFSVGTGGMFKQRLYQAGDQPQPTQWHRVSVFNEVLADYALKY 123 (175)
T ss_pred chhhhh---cccceEEEEcccccchHHHhhcCCCeEEEEEeecCccccccccccCCcCCcceeEEEEeeCchHHHHHHHH
Confidence 344444 88999999999999998 78999999999975311 3689999999999 899999999
Q ss_pred cCCCCeEEEEEEeeeccee-cCCCcE-EEEEEEEEEEEEeeecCC
Q 024247 122 LKPNDFIYVTGQLHSYSKV-DKNGKL-CLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 122 LkKGd~V~VsGrL~t~sy~-dkdG~k-r~~~eVvV~~v~Fl~~~~ 164 (270)
|+||++|||+|+|.++-+. |..|.. +..+-|++++|.|+....
T Consensus 124 lkKGsriyveG~iey~g~~~d~~g~~~r~~t~iIa~~v~Fl~~a~ 168 (175)
T KOG1653|consen 124 LKKGSRIYVEGKIEYRGENDDIQGNVKRIPTIIIARDVSFLIDAI 168 (175)
T ss_pred hcCCCEEEEeeeEEeeeeeccccCceeecceEEEechhHHHHHHh
Confidence 9999999999999996555 577876 788889999999986543
No 27
>PRK00036 primosomal replication protein N; Reviewed
Probab=97.96 E-value=6.8e-05 Score=61.35 Aligned_cols=89 Identities=15% Similarity=0.115 Sum_probs=71.0
Q ss_pred cceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC-----C-CCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 68 ENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH-----S-DRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~-----~-~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
||.+.|+|.|..-|. |.|-+++.|.|.....- . .-..-|++++.|++|+...+ ++.|..|.|+|-|..
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 599999999997766 99999999999765321 1 23566899999999999886 999999999999997
Q ss_pred ceecCCCcEEEEEEEEEEEEEeeecC
Q 024247 138 SKVDKNGKLCLCYKVVVEDFNYVREC 163 (270)
Q Consensus 138 sy~dkdG~kr~~~eVvV~~v~Fl~~~ 163 (270)
..+|.+ ..-+.+++|+|+...
T Consensus 79 ---~~~~~~--~LVLHi~~Ie~i~~~ 99 (107)
T PRK00036 79 ---ARKDSV--KVKLHLQQARRIAGS 99 (107)
T ss_pred ---CCCCCC--cEEEEhHHeEEcccc
Confidence 334443 446789999999544
No 28
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=97.53 E-value=0.0011 Score=53.69 Aligned_cols=92 Identities=16% Similarity=0.244 Sum_probs=72.4
Q ss_pred CCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCC------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEee
Q 024247 66 QLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSH------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLH 135 (270)
Q Consensus 66 ~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~ 135 (270)
.+.|.+.|+|.|.+-|. |+|-+.+.|.|-.+.-- ..-..-+++..-|+.|+...+.+..|..|.|+|-|.
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 46799999999998887 99999999999754211 123455789999999999999999999999999998
Q ss_pred ecceecCCCcEEEEEEEEEEEEEeee
Q 024247 136 SYSKVDKNGKLCLCYKVVVEDFNYVR 161 (270)
Q Consensus 136 t~sy~dkdG~kr~~~eVvV~~v~Fl~ 161 (270)
..+= ++|-. ..-+.++++.|++
T Consensus 82 ~~~~--~sg~~--~lvlha~qi~~id 103 (103)
T COG2965 82 CHKR--RSGLS--KLVLHAEQIEFID 103 (103)
T ss_pred eecc--cCCcc--EEEEEeeEEEecC
Confidence 7542 34443 4567888888764
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=97.41 E-value=0.0014 Score=47.28 Aligned_cols=75 Identities=21% Similarity=0.268 Sum_probs=53.3
Q ss_pred EEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcEEEEE
Q 024247 71 VNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCY 150 (270)
Q Consensus 71 V~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~~~ 150 (270)
|++.|+|.+-. .+|..++.++|. + .+.-+.|++|++.+....+.|+.|+.|.|.|+++.+ ++| .+
T Consensus 1 V~v~G~V~~~~-~~~~~~~~~~l~--D----~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~----~~~----~~ 65 (75)
T PF01336_consen 1 VTVEGRVTSIR-RSGGKIVFFTLE--D----GTGSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRY----NGG----EL 65 (75)
T ss_dssp EEEEEEEEEEE-EEETTEEEEEEE--E----TTEEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEE----TTS----SE
T ss_pred CEEEEEEEEEE-cCCCCEEEEEEE--E----CCccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEE----CCc----cE
Confidence 56777777532 223345555553 3 356799999998888999999999999999999976 233 46
Q ss_pred EEEEEEEEee
Q 024247 151 KVVVEDFNYV 160 (270)
Q Consensus 151 eVvV~~v~Fl 160 (270)
+|.+++++.|
T Consensus 66 ~l~~~~i~~l 75 (75)
T PF01336_consen 66 ELIVPKIEIL 75 (75)
T ss_dssp EEEEEEEEEE
T ss_pred EEEECEEEEC
Confidence 7888887654
No 30
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=96.35 E-value=0.056 Score=39.80 Aligned_cols=72 Identities=22% Similarity=0.290 Sum_probs=51.7
Q ss_pred EEEEEEcCCCCc--cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcEEE
Q 024247 71 VNFIGTVVRPLE--RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCL 148 (270)
Q Consensus 71 V~LIGrLg~DPE--~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~ 148 (270)
+.+.|-|. +.. .+| +++++|. + .+--+.|++|.+..+.+...|+.|+.|.|.|++..+.+ +|
T Consensus 2 ~~v~g~v~-~i~~tk~g--~~~~~L~--D----~~~~i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~~~~~---~~---- 65 (78)
T cd04489 2 VWVEGEIS-NLKRPSSG--HLYFTLK--D----EDASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEP---RG---- 65 (78)
T ss_pred EEEEEEEe-cCEECCCc--EEEEEEE--e----CCeEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECC---CC----
Confidence 45666666 343 455 7777764 2 13458999999998889999999999999999997543 22
Q ss_pred EEEEEEEEEE
Q 024247 149 CYKVVVEDFN 158 (270)
Q Consensus 149 ~~eVvV~~v~ 158 (270)
..+++|+++.
T Consensus 66 ~~~l~v~~i~ 75 (78)
T cd04489 66 GYQLIVEEIE 75 (78)
T ss_pred EEEEEEEEEE
Confidence 2567777764
No 31
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=96.33 E-value=0.022 Score=43.13 Aligned_cols=72 Identities=17% Similarity=0.167 Sum_probs=50.9
Q ss_pred EEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcEEEEEE
Q 024247 72 NFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYK 151 (270)
Q Consensus 72 ~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~~~e 151 (270)
.+-|.|...+..+|. ++|+|- + +.--|+|++|...+..+...++.||.|.|.|++.. + +-.++
T Consensus 2 ~v~GeVs~~~~~~GH--vyfsLk--D----~~a~i~cv~f~~~~~~~~~~l~~Gd~V~v~G~v~~-----~----~G~~q 64 (73)
T cd04487 2 HIEGEVVQIKQTSGP--TIFTLR--D----ETGTVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEP-----R----DGQLQ 64 (73)
T ss_pred EEEEEEeccccCCCC--EEEEEE--c----CCEEEEEEEEchhccCCcCCCCCCCEEEEEEEEec-----C----CeEEE
Confidence 456777665544454 456662 2 22348999999887667788999999999999874 2 34578
Q ss_pred EEEEEEEee
Q 024247 152 VVVEDFNYV 160 (270)
Q Consensus 152 VvV~~v~Fl 160 (270)
++|+++..+
T Consensus 65 l~v~~i~~~ 73 (73)
T cd04487 65 IEVESLEVL 73 (73)
T ss_pred EEEeeEEEC
Confidence 888887753
No 32
>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=95.61 E-value=0.17 Score=34.97 Aligned_cols=47 Identities=17% Similarity=0.277 Sum_probs=36.9
Q ss_pred CeeEEEEEEEEcCCCCCCC-eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 85 NVFGVYTLLHVKNSHSDRG-FDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 85 G~~va~fsLAV~~~~~~~t-~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
|+..+.+.| .+ .+ ..+.|++|.+..+....+++.|+.|.|.|++..+
T Consensus 15 ~~~~~~~~l--~D----~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~~ 62 (75)
T cd03524 15 EGKVLIFTL--TD----GTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKKF 62 (75)
T ss_pred CCeEEEEEE--Ec----CCCCEEEEEEEchHHHHHHhhccCCCEEEEEEEEEec
Confidence 444555554 33 35 6789999999999888999999999999999753
No 33
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende
Probab=94.90 E-value=0.21 Score=39.13 Aligned_cols=70 Identities=19% Similarity=0.189 Sum_probs=51.0
Q ss_pred EEEEEcCCCCc--cCCeeEEEEEEEEcCCCCCCCeeEEEEEechh--HHHHHhhcCCCCeEEEEEEeeecceecCCCcEE
Q 024247 72 NFIGTVVRPLE--RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM--AQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLC 147 (270)
Q Consensus 72 ~LIGrLg~DPE--~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL--AE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr 147 (270)
.+.|.|..-+. .+|. ++|+|. + ++.-|+|++|... +..+...|+.||.|.|.|++..+.
T Consensus 2 ~v~GeVs~~~~~~~sGH--~yFtlk--D----~~~~i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~v~~y~--------- 64 (91)
T cd04482 2 RVTGKVVEEPRTIEGGH--VFFKIS--D----GTGEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT--------- 64 (91)
T ss_pred EEEEEEeCCeecCCCCC--EEEEEE--C----CCcEEEEEEECcccccccccCCCCCCCEEEEEEEEecCC---------
Confidence 46677776665 4554 456663 2 2345899999887 667888899999999999987653
Q ss_pred EEEEEEEEEEEeee
Q 024247 148 LCYKVVVEDFNYVR 161 (270)
Q Consensus 148 ~~~eVvV~~v~Fl~ 161 (270)
++.|+.+..+.
T Consensus 65 ---ql~ve~l~~~g 75 (91)
T cd04482 65 ---TLNLEKLRVIR 75 (91)
T ss_pred ---EEEEEEEEECC
Confidence 57888877654
No 34
>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=94.43 E-value=0.22 Score=39.65 Aligned_cols=63 Identities=13% Similarity=0.027 Sum_probs=46.5
Q ss_pred cceEEEEEEcCC--CCc--cC--C-eeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEee
Q 024247 68 ENSVNFIGTVVR--PLE--RS--N-VFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLH 135 (270)
Q Consensus 68 ~NsV~LIGrLg~--DPE--~~--G-~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~ 135 (270)
++.+++.|||.+ ++. .+ | ..+..+.|+ +. .+.-|.+++|+++|+.....|+.|+.++|+|-..
T Consensus 9 ~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~--De---~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V 78 (104)
T cd04474 9 QNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLL--DE---DGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSV 78 (104)
T ss_pred CCcEEEEEEEeeccccccccCCCCCcEEEEEEEE--EC---CCCEEEEEEehHHHHHhhcccccccEEEEeccEE
Confidence 467999999996 444 22 1 234455553 21 2557999999999999999999999999998443
No 35
>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=93.35 E-value=2.2 Score=30.97 Aligned_cols=65 Identities=15% Similarity=0.220 Sum_probs=44.9
Q ss_pred cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcEEEEEEEEEEEEEeeec
Q 024247 83 RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRE 162 (270)
Q Consensus 83 ~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~~~eVvV~~v~Fl~~ 162 (270)
.+|+.++.++|. + .+--+.|++|++.-+. ...++.|..|.|.|++.. + +| ..++.+.++.-+..
T Consensus 15 k~g~~~~~~~l~--D----~tg~i~~~~f~~~~~~-~~~l~~g~~v~v~G~v~~--~---~~----~~~l~~~~i~~l~~ 78 (83)
T cd04492 15 KNGKPYLALTLQ--D----KTGEIEAKLWDASEED-EEKFKPGDIVHVKGRVEE--Y---RG----RLQLKIQRIRLVTE 78 (83)
T ss_pred cCCCcEEEEEEE--c----CCCeEEEEEcCCChhh-HhhCCCCCEEEEEEEEEE--e---CC----ceeEEEEEEEECCc
Confidence 456666666654 2 2445899999965543 789999999999999964 2 23 24677788776654
Q ss_pred C
Q 024247 163 C 163 (270)
Q Consensus 163 ~ 163 (270)
.
T Consensus 79 ~ 79 (83)
T cd04492 79 E 79 (83)
T ss_pred c
Confidence 4
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=92.91 E-value=0.6 Score=33.55 Aligned_cols=48 Identities=15% Similarity=0.161 Sum_probs=36.3
Q ss_pred cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeee
Q 024247 83 RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHS 136 (270)
Q Consensus 83 ~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t 136 (270)
.+|+.++.++|. + .+.-+.|++|++.-+.+...+++|..|.|.|++..
T Consensus 15 k~g~~~~~~~l~--D----~tg~~~~~~f~~~~~~~~~~l~~g~~v~v~G~v~~ 62 (84)
T cd04485 15 KKGKRMAFVTLE--D----LTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVER 62 (84)
T ss_pred CCCCEEEEEEEE--e----CCCeEEEEECHHHHHHHHHHhcCCCEEEEEEEEEe
Confidence 567666666653 3 23348999998775567889999999999999975
No 37
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=92.68 E-value=2.3 Score=33.28 Aligned_cols=87 Identities=13% Similarity=0.129 Sum_probs=55.8
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh---HHH---HHhhcCCCCeEEEEEEeeecceecCC
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM---AQL---CQKHLKPNDFIYVTGQLHSYSKVDKN 143 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL---AE~---~~~yLkKGd~V~VsGrL~t~sy~dkd 143 (270)
.|.|.|+|.+ ....|+.+++..| ++. +..+.|++-.+. .+. ..+.|+.|+.|.|+|.+....- ..+
T Consensus 1 ~V~i~Gwv~~-~R~~g~k~~Fi~L--rD~----sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~-~~~ 72 (102)
T cd04320 1 EVLIRARVHT-SRAQGAKLAFLVL--RQQ----GYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEE-PIK 72 (102)
T ss_pred CEEEEEEEEE-eecCCCceEEEEE--ecC----CceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCC-ccc
Confidence 3788899875 3344534565555 332 235888886542 122 2357999999999999976421 122
Q ss_pred CcEEEEEEEEEEEEEeeecCC
Q 024247 144 GKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 144 G~kr~~~eVvV~~v~Fl~~~~ 164 (270)
+.....+||.|+++..|....
T Consensus 73 ~~~~~~~El~~~~i~il~~~~ 93 (102)
T cd04320 73 SCTQQDVELHIEKIYVVSEAA 93 (102)
T ss_pred CCCcCcEEEEEEEEEEEecCC
Confidence 222245899999999998664
No 38
>cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS. These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh
Probab=92.22 E-value=2.2 Score=35.04 Aligned_cols=86 Identities=17% Similarity=0.156 Sum_probs=56.0
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHH--HHHhhcCCCCeEEEEEEeeecceecCCCc-E
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGK-L 146 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE--~~~~yLkKGd~V~VsGrL~t~sy~dkdG~-k 146 (270)
.|++.|+|.. ....|+ +++..| ++. +..+.|++-.+..+ .....|+.|+.|.|+|.|....-..++.. .
T Consensus 16 ~V~i~Gwv~~-~R~~gk-~~Fi~L--rD~----~g~~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~~~~~ 87 (135)
T cd04317 16 EVTLCGWVQR-RRDHGG-LIFIDL--RDR----YGIVQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVNPKLP 87 (135)
T ss_pred EEEEEEeEeh-hcccCC-EEEEEE--ecC----CeeEEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccCCCCC
Confidence 5999999986 444455 666555 332 22477877654332 23467999999999999986431101111 1
Q ss_pred EEEEEEEEEEEEeeecC
Q 024247 147 CLCYKVVVEDFNYVREC 163 (270)
Q Consensus 147 r~~~eVvV~~v~Fl~~~ 163 (270)
...+||.|+++..+...
T Consensus 88 ~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 88 TGEIEVVASELEVLNKA 104 (135)
T ss_pred CCcEEEEEeEEEEEECC
Confidence 22489999999999876
No 39
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=92.20 E-value=0.37 Score=38.24 Aligned_cols=76 Identities=24% Similarity=0.281 Sum_probs=54.2
Q ss_pred cceEEEEEEcCCCCc-cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHH-hhcCCCCeEEEEEEeeecceecCCCc
Q 024247 68 ENSVNFIGTVVRPLE-RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQ-KHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE-~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~-~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
+-.|-+.|.|..=-. .+| .++|+|. + +.--++|++|...+..+. .-++.|++|.|.|++..+. +.|
T Consensus 21 ~~~vwV~GEIs~~~~~~~g--h~YftLk--D----~~a~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~~~y~---~~G- 88 (99)
T PF13742_consen 21 LPNVWVEGEISNLKRHSSG--HVYFTLK--D----EEASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYE---PRG- 88 (99)
T ss_pred cCCEEEEEEEeecEECCCc--eEEEEEE--c----CCcEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEEC---CCc-
Confidence 356777887775222 334 4677774 2 124589999999999988 8999999999999998764 345
Q ss_pred EEEEEEEEEEEEE
Q 024247 146 LCLCYKVVVEDFN 158 (270)
Q Consensus 146 kr~~~eVvV~~v~ 158 (270)
.+.+.|++|+
T Consensus 89 ---~~sl~v~~i~ 98 (99)
T PF13742_consen 89 ---SLSLIVEDID 98 (99)
T ss_pred ---EEEEEEEEeE
Confidence 3466666653
No 40
>PRK07211 replication factor A; Reviewed
Probab=91.85 E-value=1.1 Score=45.53 Aligned_cols=63 Identities=13% Similarity=0.156 Sum_probs=48.5
Q ss_pred CcceEEEEEEcCC--CCc----cC--C-eeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEee
Q 024247 67 LENSVNFIGTVVR--PLE----RS--N-VFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLH 135 (270)
Q Consensus 67 l~NsV~LIGrLg~--DPE----~~--G-~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~ 135 (270)
-+|.|++.|||.. +|. ++ + ..+++..|+ + +|--|++++|++.|+.....|+.||.++|.|+.+
T Consensus 62 g~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~--D----eTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~ 133 (485)
T PRK07211 62 GMDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVA--D----ETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK 133 (485)
T ss_pred CCCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEE--c----CCCeEEEEEechHhHhhhcccCCCCEEEEeceEe
Confidence 4699999999985 333 32 1 246666665 2 3556999999999999999999999999999764
No 41
>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A
Probab=91.60 E-value=2.9 Score=31.53 Aligned_cols=81 Identities=12% Similarity=0.095 Sum_probs=52.6
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHH---HHHhhcCCCCeEEEEEEeeecceecCCCcE
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQ---LCQKHLKPNDFIYVTGQLHSYSKVDKNGKL 146 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE---~~~~yLkKGd~V~VsGrL~t~sy~dkdG~k 146 (270)
.|.+-|+|.. ....|+ +++..| ++. +.-+.|++-.+..+ ...+.|+.||.|.|+|.+....-.. ..
T Consensus 1 ~V~i~Gwv~~-~R~~g~-~~Fi~L--rd~----~~~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~---~~ 69 (85)
T cd04100 1 EVTLAGWVHS-RRDHGG-LIFIDL--RDG----SGIVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGN---LA 69 (85)
T ss_pred CEEEEEEEeh-hccCCC-EEEEEE--EeC----CeeEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCC---CC
Confidence 4788999975 444565 666665 332 23467776554322 2346899999999999998654211 11
Q ss_pred EEEEEEEEEEEEeee
Q 024247 147 CLCYKVVVEDFNYVR 161 (270)
Q Consensus 147 r~~~eVvV~~v~Fl~ 161 (270)
...+||.++++..+.
T Consensus 70 ~~~~El~~~~i~il~ 84 (85)
T cd04100 70 TGEIELQAEELEVLS 84 (85)
T ss_pred CCCEEEEEeEEEEEC
Confidence 235799999998874
No 42
>cd04475 RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ functiona
Probab=91.33 E-value=1.2 Score=34.78 Aligned_cols=63 Identities=22% Similarity=0.278 Sum_probs=39.2
Q ss_pred EEEEEEcCC--CCc----cC-CeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecce
Q 024247 71 VNFIGTVVR--PLE----RS-NVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSK 139 (270)
Q Consensus 71 V~LIGrLg~--DPE----~~-G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy 139 (270)
|.++|.|.. ++. .+ |+......+.+.+.. ..-+.|++||+.|+.+.... |+.|.+.| ++...|
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D~t---~~~i~vtLWg~~a~~~~~~~--~~vv~~~~-~~i~~~ 71 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLVDES---GHSVELTLWGEQAELFDGSE--NPVIAIKG-VKVSEF 71 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEEeCC---CCEEEEEEEHHHhhhcccCC--CCEEEEEe-eEEEec
Confidence 567777763 232 23 643333333333321 22589999999999888665 99999998 555555
No 43
>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=91.08 E-value=1.7 Score=34.80 Aligned_cols=80 Identities=15% Similarity=0.098 Sum_probs=50.8
Q ss_pred CcceEEEEEEcCCCCccCCeeEEEEEEEEcCCC--CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceec-CC
Q 024247 67 LENSVNFIGTVVRPLERSNVFGVYTLLHVKNSH--SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVD-KN 143 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~--~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~d-kd 143 (270)
|+|.|-|-|-+..--=...+.--..++...+.. ..=|+|.-+-+-|.||--+.+|.+|=.-|.|+|-|++ |.+ +.
T Consensus 1 MLN~V~LEG~IeS~kWS~~KTGF~VTI~QkR~FG~r~FTDyyViYAN~QL~~ELEky~~k~k~isieG~L~T--Y~ekkS 78 (104)
T PF11506_consen 1 MLNTVFLEGEIESYKWSKKKTGFLVTIKQKRKFGERTFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRT--YLEKKS 78 (104)
T ss_dssp --EEEEEEEEEEEEEE-TTSSEEEEEEEEEEEETTEEEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEE--EEETTT
T ss_pred CcceEEEeceeehhcccccCceEEEEEeehhhhccccceeEEEEEECCeeehhHHHhhhhceEEEEeeehhh--HHHHhc
Confidence 689999999886422221221112223222221 2347888899999999999999999999999999986 455 44
Q ss_pred CcEEE
Q 024247 144 GKLCL 148 (270)
Q Consensus 144 G~kr~ 148 (270)
|.-.+
T Consensus 79 ~iWKT 83 (104)
T PF11506_consen 79 KIWKT 83 (104)
T ss_dssp TEEEE
T ss_pred cccee
Confidence 54444
No 44
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=90.99 E-value=1.5 Score=39.51 Aligned_cols=89 Identities=12% Similarity=0.085 Sum_probs=59.8
Q ss_pred CCCcceEEEEEEcCCCCc-cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCC
Q 024247 65 PQLENSVNFIGTVVRPLE-RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKN 143 (270)
Q Consensus 65 ~~l~NsV~LIGrLg~DPE-~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkd 143 (270)
..-+|.|-++|.|+..+- ....-+..+.++ ++ ..+||+-.--+..=|..+.+.+.++|.|.|.|+++ +|++.+
T Consensus 42 G~k~nRifivGtltek~~i~ed~~~~R~rVv--Dp--TGsF~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~--~y~~d~ 115 (196)
T COG3390 42 GLKVNRIFIVGTLTEKEGIGEDREYWRIRVV--DP--TGSFYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIR--TYRTDE 115 (196)
T ss_pred hhheeEEEEEEEEEeccCcCCcccEEEEEEe--cC--CceEEEEcCCCChHHHHHHHhccCCceEEEecccc--eeecCC
Confidence 356999999999998665 222336666654 32 24666533345556788889999999999999886 466667
Q ss_pred CcEEEEEEEEEEEEEeee
Q 024247 144 GKLCLCYKVVVEDFNYVR 161 (270)
Q Consensus 144 G~kr~~~eVvV~~v~Fl~ 161 (270)
|.... .|.++.++-++
T Consensus 116 g~~~~--siRpE~vs~vd 131 (196)
T COG3390 116 GVVLF--SIRPELVSKVD 131 (196)
T ss_pred CceEE--EechhhhhhcC
Confidence 76644 44555555543
No 45
>PLN02903 aminoacyl-tRNA ligase
Probab=90.74 E-value=4 Score=42.90 Aligned_cols=89 Identities=15% Similarity=0.098 Sum_probs=56.6
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh-HH--HHHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM-AQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL-AE--~~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
..|+|.|+|.+ ....|+ +++..| ++. +-.++|++-.+. .+ ..++.|+.|+.|.|+|.+..+.-...+.+
T Consensus 73 k~V~l~GWV~~-~R~~G~-l~FidL--RD~----~G~iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V~~r~~~~~n~~ 144 (652)
T PLN02903 73 SRVTLCGWVDL-HRDMGG-LTFLDV--RDH----TGIVQVVTLPDEFPEAHRTANRLRNEYVVAVEGTVRSRPQESPNKK 144 (652)
T ss_pred CEEEEEEEEEE-EecCCC-cEEEEE--EcC----CccEEEEEeCCccHHHHHHHhcCCCCCEEEEEEEEEeCCCcCcCCC
Confidence 35999999975 333453 454444 332 223788876442 22 23468999999999999987532222222
Q ss_pred EE-EEEEEEEEEEEeeecCCC
Q 024247 146 LC-LCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 146 kr-~~~eVvV~~v~Fl~~~~q 165 (270)
.. -.+||.|+++..|.....
T Consensus 145 ~~tGeiEl~~~~i~VL~~a~~ 165 (652)
T PLN02903 145 MKTGSVEVVAESVDILNVVTK 165 (652)
T ss_pred CCCCCEEEEEeEEEEEecCCC
Confidence 22 248999999999987643
No 46
>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=89.85 E-value=1.9 Score=33.01 Aligned_cols=62 Identities=19% Similarity=0.081 Sum_probs=44.2
Q ss_pred EEEEEEcCCCCc----cCCeeEEEEEEEEcCCCCCCCeeEEEEEech-hHHHHHhhcC-CCCeEEEEEEeeeccee
Q 024247 71 VNFIGTVVRPLE----RSNVFGVYTLLHVKNSHSDRGFDILLAVGGD-MAQLCQKHLK-PNDFIYVTGQLHSYSKV 140 (270)
Q Consensus 71 V~LIGrLg~DPE----~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGk-LAE~~~~yLk-KGd~V~VsGrL~t~sy~ 140 (270)
|++-|.|-. .| .+|+.+..+.|+ + .|+-|.|..|.+ .-+.. ..++ +|+.|.|.|++..++|.
T Consensus 2 v~i~G~Vf~-~e~re~k~g~~i~~~~it--D----~t~Si~~K~F~~~~~~~~-~~ik~~G~~v~v~G~v~~D~f~ 69 (82)
T cd04484 2 VVVEGEVFD-LEIRELKSGRKILTFKVT--D----YTSSITVKKFLRKDEKDK-EELKSKGDWVRVRGKVQYDTFS 69 (82)
T ss_pred EEEEEEEEE-EEEEEecCCCEEEEEEEE--c----CCCCEEEEEeccCChhHH-hhcccCCCEEEEEEEEEEccCC
Confidence 677888753 33 778777666654 3 244578888873 33333 6699 99999999999999884
No 47
>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=89.00 E-value=7.6 Score=30.49 Aligned_cols=81 Identities=15% Similarity=0.144 Sum_probs=52.8
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHH---HHhhcCCCCeEEEEEEeeecceecCCCcE
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQL---CQKHLKPNDFIYVTGQLHSYSKVDKNGKL 146 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~---~~~yLkKGd~V~VsGrL~t~sy~dkdG~k 146 (270)
.|++.|+|.+ ....|+ +++..| ++. +..+.|++-.++++. ....|..||.|.|+|.+.... ...
T Consensus 1 ~V~v~Gwv~~-~R~~gk-~~Fi~l--rD~----~g~iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~--~~~--- 67 (103)
T cd04319 1 KVTLAGWVYR-KREVGK-KAFIVL--RDS----TGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADP--RAP--- 67 (103)
T ss_pred CEEEEEEEEe-EEcCCC-eEEEEE--ecC----CeeEEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECC--CCC---
Confidence 3788899975 334454 344444 443 234788876543222 224688999999999998642 111
Q ss_pred EEEEEEEEEEEEeeecCC
Q 024247 147 CLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 147 r~~~eVvV~~v~Fl~~~~ 164 (270)
..+||.|+++..+....
T Consensus 68 -~~~Ei~~~~i~vl~~a~ 84 (103)
T cd04319 68 -GGAEVHGEKLEIIQNVE 84 (103)
T ss_pred -CCEEEEEEEEEEEecCC
Confidence 24899999999998664
No 48
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=88.92 E-value=1.7 Score=42.66 Aligned_cols=77 Identities=18% Similarity=0.173 Sum_probs=57.9
Q ss_pred cceEEEEEEcCCCCc--cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 68 ENSVNFIGTVVRPLE--RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE--~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
+-.|-+.|-|.. .. .+| -++|+|.-. .--|+|++|...+..+...++.|+.|.|.|++..+. +.|
T Consensus 23 ~~~v~v~gEis~-~~~~~sG--H~Yf~Lkd~------~a~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~~y~---~~g- 89 (438)
T PRK00286 23 LGQVWVRGEISN-FTRHSSG--HWYFTLKDE------IAQIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLYE---PRG- 89 (438)
T ss_pred CCcEEEEEEeCC-CeeCCCC--eEEEEEEcC------CcEEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEEC---CCC-
Confidence 457889999875 44 466 467887421 335899999999988888899999999999999753 334
Q ss_pred EEEEEEEEEEEEEee
Q 024247 146 LCLCYKVVVEDFNYV 160 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl 160 (270)
.++++|+++.-.
T Consensus 90 ---~~ql~v~~i~~~ 101 (438)
T PRK00286 90 ---DYQLIVEEIEPA 101 (438)
T ss_pred ---CEEEEEEEeeeC
Confidence 367888888744
No 49
>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=88.56 E-value=8.3 Score=30.48 Aligned_cols=78 Identities=23% Similarity=0.276 Sum_probs=51.2
Q ss_pred EEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh--HHH---HHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 71 VNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM--AQL---CQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 71 V~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL--AE~---~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
|+|-|+|-. ....|+ +++..|. +. +.-++|++-.+. .+. +.+.|..||.|.|+|.+... +.|+
T Consensus 2 v~v~GwV~~-~R~~g~-~~Fi~lr--d~----~~~lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~v~~~----~~g~ 69 (108)
T cd04322 2 VSVAGRIMS-KRGSGK-LSFADLQ--DE----SGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKT----KTGE 69 (108)
T ss_pred EEEEEEEEE-EecCCC-eEEEEEE--EC----CeEEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEec----CCCC
Confidence 678888875 444565 5555543 32 235788775432 122 22339999999999998753 2243
Q ss_pred EEEEEEEEEEEEEeeecCC
Q 024247 146 LCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl~~~~ 164 (270)
+||.++.+..+.+..
T Consensus 70 ----~El~~~~~~ils~~~ 84 (108)
T cd04322 70 ----LSIFVKEFTLLSKSL 84 (108)
T ss_pred ----EEEEeCEeEEeeccC
Confidence 699999999997653
No 50
>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=88.05 E-value=2.1 Score=42.46 Aligned_cols=78 Identities=13% Similarity=0.120 Sum_probs=58.5
Q ss_pred cceEEEEEEcCCCCc-cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcE
Q 024247 68 ENSVNFIGTVVRPLE-RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKL 146 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE-~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~k 146 (270)
+..|-+.|-|..=-. .+|. ++|+|- + +.--|+|++|...|..+.-.++-|+.|.|.|++..+.. .|
T Consensus 17 ~~~v~V~GEisn~~~~~sGH--~YFtLk--D----~~a~i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~~y~~---~G-- 83 (432)
T TIGR00237 17 FLQVWIQGEISNFTQPVSGH--WYFTLK--D----ENAQVRCVMFRGNNNRLKFRPQNGQQVLVRGGISVYEP---RG-- 83 (432)
T ss_pred CCcEEEEEEecCCeeCCCce--EEEEEE--c----CCcEEEEEEEcChhhCCCCCCCCCCEEEEEEEEEEECC---CC--
Confidence 457889999885322 5664 678882 2 23458999999999888888999999999999987632 33
Q ss_pred EEEEEEEEEEEEee
Q 024247 147 CLCYKVVVEDFNYV 160 (270)
Q Consensus 147 r~~~eVvV~~v~Fl 160 (270)
.++++|+++.-.
T Consensus 84 --~~ql~v~~i~~~ 95 (432)
T TIGR00237 84 --DYQIICFEMQPA 95 (432)
T ss_pred --cEEEEEEEeccC
Confidence 468889888743
No 51
>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=87.75 E-value=2.9 Score=31.87 Aligned_cols=46 Identities=15% Similarity=0.245 Sum_probs=36.8
Q ss_pred CeeEEEEEechhHH--HHHhhcCCCCeEEEEEEeeecceecCCCcEEEEEEEEEEEEEe
Q 024247 103 GFDILLAVGGDMAQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNY 159 (270)
Q Consensus 103 t~wI~Vv~wGkLAE--~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~~~eVvV~~v~F 159 (270)
+--+.|++|.+.-+ .+...|+.|..|+|.|++.. +++ ++.|+++-+
T Consensus 27 ~G~~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g~v~~-----~~~------~l~~~~I~~ 74 (79)
T cd04490 27 TGRITVLLTKDKEELFEEAEDILPDEVIGVSGTVSK-----DGG------LIFADEIFR 74 (79)
T ss_pred CCEEEEEEeCchhhhhhhhhhccCCCEEEEEEEEec-----CCC------EEEEEEeEc
Confidence 44589999999988 89999999999999999932 122 677777655
No 52
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=86.74 E-value=5.7 Score=39.86 Aligned_cols=77 Identities=10% Similarity=0.017 Sum_probs=57.6
Q ss_pred eEEEEEEcCCCCc---cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcE
Q 024247 70 SVNFIGTVVRPLE---RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKL 146 (270)
Q Consensus 70 sV~LIGrLg~DPE---~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~k 146 (270)
.|.++|-|..==+ .+|+.++.++|--. +--+.|++|.++-+.+...|+.|..|.|+|++..+ +|
T Consensus 282 ~v~vaG~I~~ik~~~TKkG~~maf~~leD~------tG~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~-----~~-- 348 (449)
T PRK07373 282 KVSAVVMLNEVKKIVTKKGDPMAFLQLEDL------SGQSEAVVFPKSYERISELLQVDARLIIWGKVDRR-----DD-- 348 (449)
T ss_pred EEEEEEEEEEeEecccCCCCEEEEEEEEEC------CCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC--
Confidence 5778888774222 67888888777422 33488999999999999999999999999999642 23
Q ss_pred EEEEEEEEEEEEeee
Q 024247 147 CLCYKVVVEDFNYVR 161 (270)
Q Consensus 147 r~~~eVvV~~v~Fl~ 161 (270)
..+++|+++.-+.
T Consensus 349 --~~~liv~~i~~l~ 361 (449)
T PRK07373 349 --QVQLIVEDAEPIE 361 (449)
T ss_pred --eEEEEEeEeecHh
Confidence 2567888876553
No 53
>cd04316 ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes.
Probab=86.02 E-value=15 Score=28.99 Aligned_cols=81 Identities=14% Similarity=0.167 Sum_probs=54.6
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh--HH--HHHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM--AQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL--AE--~~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
.|.+-|+|.+ ....|+ ++++.| ++. +..+.|++-.+. .+ .....|..|+.|.|+|.+.... .+.
T Consensus 14 ~V~v~Gwv~~-~R~~g~-~~Fi~L--rD~----~g~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~----~~~ 81 (108)
T cd04316 14 EVTVAGWVHE-IRDLGG-IKFVIL--RDR----EGIVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEP----KAP 81 (108)
T ss_pred EEEEEEEEEe-eeccCC-eEEEEE--ecC----CeeEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCC----CCC
Confidence 4899999975 444454 565555 332 335888876542 11 1335699999999999998643 111
Q ss_pred EEEEEEEEEEEEEeeecCC
Q 024247 146 LCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl~~~~ 164 (270)
..+||.|++|..+....
T Consensus 82 --~~~Ei~~~~i~il~~~~ 98 (108)
T cd04316 82 --NGVEIIPEEIEVLSEAK 98 (108)
T ss_pred --CCEEEEEeEEEEEeCCC
Confidence 24899999999998764
No 54
>PRK15491 replication factor A; Provisional
Probab=85.36 E-value=3.6 Score=40.29 Aligned_cols=65 Identities=11% Similarity=0.137 Sum_probs=45.4
Q ss_pred cceEEEEEEcCCCC--c----cCCee--EEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEE-Eeeecc
Q 024247 68 ENSVNFIGTVVRPL--E----RSNVF--GVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTG-QLHSYS 138 (270)
Q Consensus 68 ~NsV~LIGrLg~DP--E----~~G~~--va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsG-rL~t~s 138 (270)
.+.|.++|+|..-- . .+|.. +....|+ + +|--|++++|++.|+.+ .-|..||.|+|.+ +.+.+.
T Consensus 176 ~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~--D----etG~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~~~ 248 (374)
T PRK15491 176 DSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIG--D----ETGKIRVTLWDGKTDLA-DKLENGDSVEIINGYARTNN 248 (374)
T ss_pred CccEEEEEEEEEccCceEEEecCCCeEEEEEEEEE--C----CCCeEEEEEecchhccc-ccCCCCCEEEEEeceEEEec
Confidence 34599999998543 3 46653 3333432 2 23349999999999987 6699999999966 576655
Q ss_pred e
Q 024247 139 K 139 (270)
Q Consensus 139 y 139 (270)
|
T Consensus 249 ~ 249 (374)
T PRK15491 249 Y 249 (374)
T ss_pred c
Confidence 5
No 55
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=85.33 E-value=2.9 Score=42.02 Aligned_cols=77 Identities=17% Similarity=0.126 Sum_probs=58.4
Q ss_pred cceEEEEEEcCCCCc-cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcE
Q 024247 68 ENSVNFIGTVVRPLE-RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKL 146 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE-~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~k 146 (270)
+-.|-+-|-|..=-. .+| -.+|+| ++ +.--|.|++|...+..+.--++-|+.|.|.|++..+.-
T Consensus 23 ~~~V~v~GEISn~t~~~sg--H~YFtL--KD----~~A~i~c~mf~~~~~~l~f~p~eG~~V~v~G~is~Y~~------- 87 (440)
T COG1570 23 LGQVWVRGEISNFTRPASG--HLYFTL--KD----ERAQIRCVMFKGNNRRLKFRPEEGMQVLVRGKISLYEP------- 87 (440)
T ss_pred CCeEEEEEEecCCccCCCc--cEEEEE--cc----CCceEEEEEEcCcccccCCCccCCCEEEEEEEEEEEcC-------
Confidence 556788888875332 566 567776 22 24469999999999999989999999999999997632
Q ss_pred EEEEEEEEEEEEe
Q 024247 147 CLCYKVVVEDFNY 159 (270)
Q Consensus 147 r~~~eVvV~~v~F 159 (270)
+-.|+|+++++..
T Consensus 88 rG~YQi~~~~~~p 100 (440)
T COG1570 88 RGDYQIVAESMEP 100 (440)
T ss_pred CCceEEEEecCCc
Confidence 3356889998774
No 56
>PRK07211 replication factor A; Reviewed
Probab=85.28 E-value=2.5 Score=42.98 Aligned_cols=62 Identities=11% Similarity=0.160 Sum_probs=43.9
Q ss_pred cceEEEEEEcCC--CCc----cCCe--eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEE-Eeee
Q 024247 68 ENSVNFIGTVVR--PLE----RSNV--FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTG-QLHS 136 (270)
Q Consensus 68 ~NsV~LIGrLg~--DPE----~~G~--~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsG-rL~t 136 (270)
++.|.++|+|.. ++. .+|+ .+....|+ + +|--|++++|++.|+.+ .-|.+|+.|.|.| +++.
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 LSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVG--D----ETGRVRVTLWDDRADLA-EELDAGESVEIVDGYVRE 241 (485)
T ss_pred CCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEE--c----CCCeEEEEEechhhhhh-ccCCCCCEEEEEeeEEEe
Confidence 688999999983 332 4552 24444443 2 23359999999999998 6799999999974 5543
No 57
>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=84.82 E-value=4.3 Score=28.48 Aligned_cols=34 Identities=18% Similarity=0.233 Sum_probs=26.7
Q ss_pred CeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 103 GFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 103 t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
+--+.|++|+... ...+.+++|+.++|.|++...
T Consensus 28 ~g~i~~~~F~~~~-~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 28 TGTLTLVFFNFQP-YLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred CCEEEEEEECCCH-HHHhcCCCCCEEEEEEEEeec
Confidence 3458999998432 456789999999999999853
No 58
>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=82.10 E-value=8.7 Score=28.71 Aligned_cols=32 Identities=16% Similarity=0.306 Sum_probs=26.5
Q ss_pred CeeEEEEEechhHHHHHhhcCCCCeEEEE-EEeeec
Q 024247 103 GFDILLAVGGDMAQLCQKHLKPNDFIYVT-GQLHSY 137 (270)
Q Consensus 103 t~wI~Vv~wGkLAE~~~~yLkKGd~V~Vs-GrL~t~ 137 (270)
|--|++++|+..| ...++.|+.|.++ |+.+..
T Consensus 33 TG~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~~ 65 (82)
T cd04491 33 TGTIRFTLWDEKA---ADDLEPGDVVRIENAYVREF 65 (82)
T ss_pred CCEEEEEEECchh---cccCCCCCEEEEEeEEEEec
Confidence 3359999999987 7789999999999 777643
No 59
>PRK15491 replication factor A; Provisional
Probab=81.75 E-value=5.3 Score=39.08 Aligned_cols=61 Identities=18% Similarity=0.186 Sum_probs=46.0
Q ss_pred CcceEEEEEEcCCC--Cc----cCC--eeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHH-hhcCCCCeEEEEEE
Q 024247 67 LENSVNFIGTVVRP--LE----RSN--VFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQ-KHLKPNDFIYVTGQ 133 (270)
Q Consensus 67 l~NsV~LIGrLg~D--PE----~~G--~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~-~yLkKGd~V~VsGr 133 (270)
-++.|+|.|+|..- |. .+| ..+.++.|+ + +|--|++++|++.|+.+. .-|..|+.|.|.|.
T Consensus 66 ~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~--D----eTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~ 135 (374)
T PRK15491 66 SSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVA--D----ETGSIRLTLWDDLADLIKTGDIEVGKSLNISGY 135 (374)
T ss_pred CCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEE--c----CCCeEEEEEECchhhhhccCCcCCCCEEEEeee
Confidence 46999999999853 44 445 235555555 2 244599999999999886 47999999999986
No 60
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=81.33 E-value=8.2 Score=43.05 Aligned_cols=78 Identities=15% Similarity=0.158 Sum_probs=59.2
Q ss_pred ceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCC
Q 024247 69 NSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNG 144 (270)
Q Consensus 69 NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG 144 (270)
..|.++|-|.. .+ .+|+.++.++|.-. |--+.+++|.+.=+.+...|+.|..|+|.|++..+ +|
T Consensus 978 ~~V~v~G~I~~-vk~~~TKkG~~mafltLeD~------TG~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~-----~~ 1045 (1135)
T PRK05673 978 SVVTVAGLVVS-VRRRVTKRGNKMAIVTLEDL------SGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFD-----DG 1045 (1135)
T ss_pred ceEEEEEEEEE-EEecccCCCCeEEEEEEEeC------CCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC
Confidence 45788887773 33 77888888887522 33489999999988888999999999999999642 23
Q ss_pred cEEEEEEEEEEEEEeeec
Q 024247 145 KLCLCYKVVVEDFNYVRE 162 (270)
Q Consensus 145 ~kr~~~eVvV~~v~Fl~~ 162 (270)
..+++|+++.-++.
T Consensus 1046 ----~~qlii~~I~~L~~ 1059 (1135)
T PRK05673 1046 ----GLRLTAREVMDLEE 1059 (1135)
T ss_pred ----eEEEEEeecccHHH
Confidence 25788888877753
No 61
>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).
Probab=81.27 E-value=15 Score=36.45 Aligned_cols=83 Identities=16% Similarity=0.229 Sum_probs=54.1
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEech-hHHH---HHhhcCCCCeEEEEEEeeecceecCCC
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGD-MAQL---CQKHLKPNDFIYVTGQLHSYSKVDKNG 144 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGk-LAE~---~~~yLkKGd~V~VsGrL~t~sy~dkdG 144 (270)
..|+|.|+|.+ ....|+ +++..| ++. +.-|+|++-.+ ..+. ....|..||.|.|+|.+....
T Consensus 13 ~~v~i~G~v~~-~R~~g~-~~Fi~l--rd~----~g~iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~------ 78 (428)
T TIGR00458 13 QEVTFMGWVHE-IRDLGG-LIFVLL--RDR----EGLIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKE------ 78 (428)
T ss_pred CEEEEEEEEEE-EecCCC-cEEEEE--EeC----CeeEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecC------
Confidence 56899999964 334565 555554 232 22478877643 1111 235699999999999998432
Q ss_pred cEEEEEEEEEEEEEeeecCCC
Q 024247 145 KLCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 145 ~kr~~~eVvV~~v~Fl~~~~q 165 (270)
.....+||.|+++..+.....
T Consensus 79 ~~~~~~el~~~~i~vl~~~~~ 99 (428)
T TIGR00458 79 KAPGGFEIIPTKIEVINEAKE 99 (428)
T ss_pred CCCCcEEEEEeEEEEEecCCC
Confidence 112248999999999987643
No 62
>PRK14699 replication factor A; Provisional
Probab=79.46 E-value=5.3 Score=40.48 Aligned_cols=61 Identities=21% Similarity=0.247 Sum_probs=45.1
Q ss_pred CcceEEEEEEcCCC--Cc----cCCe--eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHh-hcCCCCeEEEEEE
Q 024247 67 LENSVNFIGTVVRP--LE----RSNV--FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQK-HLKPNDFIYVTGQ 133 (270)
Q Consensus 67 l~NsV~LIGrLg~D--PE----~~G~--~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~-yLkKGd~V~VsGr 133 (270)
-+..|.|.|+|-.= +. .+|. .+++..|| + +|--|++++|.++|+.+.. .|++||.|-|.|.
T Consensus 66 ~~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~ia--D----eTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~ 135 (484)
T PRK14699 66 ESGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVG--D----ETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY 135 (484)
T ss_pred CCceEEEEEEEEEecCceEEecCCCCceEEEEEEEe--c----CCCeEEEEEecCccchhhhcCCCCCCEEEEcce
Confidence 45779999998753 33 3453 24444554 2 3556999999999998887 7999999999995
No 63
>PRK08402 replication factor A; Reviewed
Probab=79.43 E-value=5.3 Score=38.99 Aligned_cols=60 Identities=15% Similarity=0.154 Sum_probs=44.8
Q ss_pred cceEEEEEEcCC--CCc----cCCe--eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEE
Q 024247 68 ENSVNFIGTVVR--PLE----RSNV--FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQ 133 (270)
Q Consensus 68 ~NsV~LIGrLg~--DPE----~~G~--~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGr 133 (270)
+..|+++|+|.+ ++. .+|. .|.+.+|+ + +|-.+++++|++.|......+..||.|.|.|-
T Consensus 72 ~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~--D----eTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a 139 (355)
T PRK08402 72 MRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIY--D----DTGRARVVLWDAKVAKYYNKINVGDVIKVIDA 139 (355)
T ss_pred CceeeEEEEEEEccCCceeeccCCCcceEEEEEEE--c----CCCeEEEEEechhhhhhcccCCCCCEEEEECC
Confidence 488999999986 344 3453 35555654 2 35578999999999876677999999999863
No 64
>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=79.39 E-value=8.4 Score=29.04 Aligned_cols=81 Identities=16% Similarity=0.213 Sum_probs=50.5
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHH--HHHhhcCCCCeEEEEEEeeecceecCCCcEE
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLC 147 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE--~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr 147 (270)
.|+|.|+|.. ....|+ +++..| ++. +.-+.|++-.+... ...+.|..|+.|.|+|.+....-.. ...
T Consensus 1 ~V~v~Gwv~~-~R~~g~-~~Fi~L--rD~----~~~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~---~~~ 69 (84)
T cd04323 1 RVKVFGWVHR-LRSQKK-LMFLVL--RDG----TGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAK---QAP 69 (84)
T ss_pred CEEEEEEEEE-EecCCC-cEEEEE--EcC----CeEEEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCccc---CCC
Confidence 4788899865 332344 455554 332 23477777654322 2336799999999999998643210 111
Q ss_pred EEEEEEEEEEEeee
Q 024247 148 LCYKVVVEDFNYVR 161 (270)
Q Consensus 148 ~~~eVvV~~v~Fl~ 161 (270)
..+||.++++..+.
T Consensus 70 ~~~Ei~~~~i~vl~ 83 (84)
T cd04323 70 GGYELQVDYLEIIG 83 (84)
T ss_pred CCEEEEEEEEEEEc
Confidence 24899999998874
No 65
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=78.39 E-value=9.8 Score=31.55 Aligned_cols=58 Identities=14% Similarity=0.108 Sum_probs=39.2
Q ss_pred cceEEEEEEcCC--CCc----cCCe-eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEE-EEee
Q 024247 68 ENSVNFIGTVVR--PLE----RSNV-FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVT-GQLH 135 (270)
Q Consensus 68 ~NsV~LIGrLg~--DPE----~~G~-~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~Vs-GrL~ 135 (270)
++.|.++|.|-. ++. .+|. .+....|+ + +|--|++++|++.|+ .|++||.|.|. |+.+
T Consensus 14 ~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~--D----~TG~I~~tlW~~~a~----~l~~GdvV~I~na~v~ 79 (129)
T PRK06461 14 MERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVG--D----ETGRVKLTLWGEQAG----SLKEGEVVEIENAWTT 79 (129)
T ss_pred CCceEEEEEEEEcCCceEEEeCCCceEEEEEEEE--C----CCCEEEEEEeCCccc----cCCCCCEEEEECcEEe
Confidence 477888888884 222 4443 35555553 2 243599999998754 58999999999 5555
No 66
>PLN02850 aspartate-tRNA ligase
Probab=78.22 E-value=22 Score=36.41 Aligned_cols=87 Identities=18% Similarity=0.193 Sum_probs=56.1
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh---HHH---HHhhcCCCCeEEEEEEeeecceecC
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM---AQL---CQKHLKPNDFIYVTGQLHSYSKVDK 142 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL---AE~---~~~yLkKGd~V~VsGrL~t~sy~dk 142 (270)
..|.+.|+|.. ....|+ +++..|. +. +.-|+|++-.+. .+. .+..|..|+.|.|+|.+....- ..
T Consensus 82 ~~V~v~Grv~~-~R~~gk-~~Fl~Lr--d~----~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~-~~ 152 (530)
T PLN02850 82 SEVLIRGRVHT-IRGKGK-SAFLVLR--QS----GFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKK-PV 152 (530)
T ss_pred CEEEEEEEEEE-EccCCC-eEEEEEE--eC----CcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccCc-CC
Confidence 46889999864 334465 5655553 22 234788775442 122 2467999999999999985321 11
Q ss_pred CCcEEEEEEEEEEEEEeeecCCC
Q 024247 143 NGKLCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 143 dG~kr~~~eVvV~~v~Fl~~~~q 165 (270)
.|.+. .+||.|+++..|.....
T Consensus 153 ~~~t~-~~El~~~~i~vls~a~~ 174 (530)
T PLN02850 153 KGTTQ-QVEIQVRKIYCVSKALA 174 (530)
T ss_pred CCCCc-cEEEEEeEEEEEeCCCC
Confidence 23333 78999999999987643
No 67
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=77.78 E-value=17 Score=40.77 Aligned_cols=79 Identities=13% Similarity=0.111 Sum_probs=58.2
Q ss_pred eEEEEEEcCCCCc---cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcE
Q 024247 70 SVNFIGTVVRPLE---RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKL 146 (270)
Q Consensus 70 sV~LIGrLg~DPE---~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~k 146 (270)
.|.++|-|..=-+ .+|+.+++++|.- .+--+.|++|.+.-+.+...|+.|..|+|+|++..+. +|
T Consensus 993 ~v~v~g~i~~~~~~~tk~G~~maf~~leD------~~g~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~----~~-- 1060 (1151)
T PRK06826 993 KVIIGGIITEVKRKTTRNNEMMAFLTLED------LYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE----DE-- 1060 (1151)
T ss_pred EEEEEEEEEEeEeeccCCCCeEEEEEEEE------CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC----CC--
Confidence 5777777764222 7788888877742 2334889999999999999999999999999996532 23
Q ss_pred EEEEEEEEEEEEeeec
Q 024247 147 CLCYKVVVEDFNYVRE 162 (270)
Q Consensus 147 r~~~eVvV~~v~Fl~~ 162 (270)
..+++|+++.-+..
T Consensus 1061 --~~~~~~~~~~~l~~ 1074 (1151)
T PRK06826 1061 --EPKLICEEIEPLVI 1074 (1151)
T ss_pred --ceEEEEeeeecHhh
Confidence 25778888876653
No 68
>PRK12366 replication factor A; Reviewed
Probab=77.31 E-value=13 Score=38.86 Aligned_cols=78 Identities=12% Similarity=0.192 Sum_probs=50.3
Q ss_pred ceEEEEEEcCCCCc------cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEE-Eeeecceec
Q 024247 69 NSVNFIGTVVRPLE------RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTG-QLHSYSKVD 141 (270)
Q Consensus 69 NsV~LIGrLg~DPE------~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsG-rL~t~sy~d 141 (270)
+.++|.|||..--+ .+|... .+.+.+.+. +-=|++++|++.|+.... |..||.++|+| +++ .|.+
T Consensus 292 ~~~~I~grV~~~~~~R~f~~~~g~gk-v~s~~l~D~----tG~IR~t~w~~~~d~~~~-l~~G~vy~is~~~vk--~y~~ 363 (637)
T PRK12366 292 EEVDVKGRIIAISDKREVERDDRTAE-VQDIELADG----TGRVRVSFWGEKAKILEN-LKEGDAVKIENCKVR--TYYD 363 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCcEE-EEEEEEEcC----CCeEEEEEeCchhhhhcc-cCCCCEEEEecCEEe--eccc
Confidence 48999999996543 455522 233333332 224999999999998765 78999999998 444 4544
Q ss_pred CCCcEEEEEEEEEEE
Q 024247 142 KNGKLCLCYKVVVED 156 (270)
Q Consensus 142 kdG~kr~~~eVvV~~ 156 (270)
.+|+.. +++.++.
T Consensus 364 ~~~~~~--~El~~~~ 376 (637)
T PRK12366 364 NEGEKR--VDLNAGY 376 (637)
T ss_pred cCCCcC--EEEEcCC
Confidence 445432 4555543
No 69
>PHA01740 putative single-stranded DNA-binding protein
Probab=76.89 E-value=1.4 Score=37.97 Aligned_cols=23 Identities=26% Similarity=0.504 Sum_probs=19.8
Q ss_pred CCCCCCCCCCccCCC--CceeecCC
Q 024247 210 NKLYPGAPDFKHKST--GEALWLDP 232 (270)
Q Consensus 210 ~K~n~~~pDFkhk~t--g~~lwl~~ 232 (270)
.|+|||+|||+-|.+ |.-+||..
T Consensus 17 qkk~dK~PDf~GkInI~G~~yw~SG 41 (158)
T PHA01740 17 QPKNDKSPHFTGKVDIRGTVYWLAG 41 (158)
T ss_pred ccCCCCCCCcCceEeeCCEEEEeec
Confidence 478999999999976 88899874
No 70
>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=76.71 E-value=23 Score=36.88 Aligned_cols=88 Identities=16% Similarity=0.139 Sum_probs=55.4
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEech-hHHHHHhhcCCCCeEEEEEEeeecceecCCC-cEE
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGD-MAQLCQKHLKPNDFIYVTGQLHSYSKVDKNG-KLC 147 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGk-LAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG-~kr 147 (270)
.|+|.|+|-+ ....|+ +++..| ++. +--++|++-.+ -+-...+.|+.||.|.|+|.+..+.-...+- ...
T Consensus 17 ~V~l~GwV~~-~R~~Gk-l~Fi~L--rD~----sg~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~~~~t 88 (583)
T TIGR00459 17 TVTLAGWVNR-RRDLGG-LIFIDL--RDR----SGIVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINRNLDT 88 (583)
T ss_pred EEEEEEEEEE-EEcCCC-cEEEEE--EeC----CccEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCccCCC
Confidence 6999999974 334455 455444 332 22478877654 1122356799999999999998653111111 112
Q ss_pred EEEEEEEEEEEeeecCCC
Q 024247 148 LCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 148 ~~~eVvV~~v~Fl~~~~q 165 (270)
-.+||.|+++..|.....
T Consensus 89 g~iEl~~~~i~iL~~a~~ 106 (583)
T TIGR00459 89 GEIEILAESITLLNKSKT 106 (583)
T ss_pred CcEEEEEeEEEEeecCCC
Confidence 248999999999986543
No 71
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=76.69 E-value=17 Score=40.64 Aligned_cols=77 Identities=9% Similarity=0.049 Sum_probs=58.8
Q ss_pred eEEEEEEcCCC--Cc-cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcE
Q 024247 70 SVNFIGTVVRP--LE-RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKL 146 (270)
Q Consensus 70 sV~LIGrLg~D--PE-~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~k 146 (270)
.|.++|-|..= +. .+|+.+++++|.- .+--+.|++|.+.-+.+...|..|..|.|+|++..+ +|
T Consensus 945 ~v~v~g~i~~~~~~~tk~g~~maf~~leD------~tg~~e~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~-----~~-- 1011 (1107)
T PRK06920 945 VQRAIVYITSVKVIRTKKGQKMAFITFCD------QNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELR-----NH-- 1011 (1107)
T ss_pred EEEEEEEEEEeEeecCCCCCeEEEEEEee------CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC--
Confidence 58888888742 22 7788888877742 244589999999999999999999999999999653 23
Q ss_pred EEEEEEEEEEEEeee
Q 024247 147 CLCYKVVVEDFNYVR 161 (270)
Q Consensus 147 r~~~eVvV~~v~Fl~ 161 (270)
..+++|+++.-+.
T Consensus 1012 --~~~~~~~~i~~l~ 1024 (1107)
T PRK06920 1012 --KLQWIVNGLYPLE 1024 (1107)
T ss_pred --cEEEEEeecccHH
Confidence 2467888887664
No 72
>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=76.00 E-value=30 Score=27.22 Aligned_cols=38 Identities=8% Similarity=-0.011 Sum_probs=27.8
Q ss_pred CeeEEEEEechhHHHHHhhcC---CC-CeEEEEEEeeeccee
Q 024247 103 GFDILLAVGGDMAQLCQKHLK---PN-DFIYVTGQLHSYSKV 140 (270)
Q Consensus 103 t~wI~Vv~wGkLAE~~~~yLk---KG-d~V~VsGrL~t~sy~ 140 (270)
..-+.|++||+.|+....++. ++ -.|.|-+-.+...|.
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~ 75 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYK 75 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEc
Confidence 346899999999999888773 34 345565657777775
No 73
>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=75.83 E-value=13 Score=28.31 Aligned_cols=83 Identities=19% Similarity=0.183 Sum_probs=51.0
Q ss_pred eEEEEEEcCCCCcc-CCeeEEEEEEEEcCCCCCCCeeEEEEEechhH-HHHHhhcCCCCeEEEEEEeeecceecCCCcEE
Q 024247 70 SVNFIGTVVRPLER-SNVFGVYTLLHVKNSHSDRGFDILLAVGGDMA-QLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLC 147 (270)
Q Consensus 70 sV~LIGrLg~DPE~-~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLA-E~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr 147 (270)
+|.|.|+|.. ... .|+ +++..| ++.. ..-++|++-.+.. -...+.|..|+.|.|+|.+..+.-.. ++.+
T Consensus 1 ~V~v~Gwv~~-~R~~~~~-~~Fi~L--rD~~---g~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~-~~~~- 71 (86)
T cd04321 1 KVTLNGWIDR-KPRIVKK-LSFADL--RDPN---GDIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKS-SEKN- 71 (86)
T ss_pred CEEEEEeEee-EeCCCCc-eEEEEE--ECCC---CCEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcC-CCCC-
Confidence 3788898886 332 344 555555 3432 2236777654421 12345799999999999998753211 1111
Q ss_pred EEEEEEEEEEEeee
Q 024247 148 LCYKVVVEDFNYVR 161 (270)
Q Consensus 148 ~~~eVvV~~v~Fl~ 161 (270)
..+||.|+++..|.
T Consensus 72 ~~~Ei~~~~i~il~ 85 (86)
T cd04321 72 DEWELVVDDIQTLN 85 (86)
T ss_pred CCEEEEEEEEEEec
Confidence 24799999998875
No 74
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=74.95 E-value=30 Score=27.29 Aligned_cols=48 Identities=13% Similarity=0.016 Sum_probs=38.4
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcEEEEEEEEEEEE
Q 024247 104 FDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDF 157 (270)
Q Consensus 104 ~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~~~eVvV~~v 157 (270)
..|.+.+||+.++.+. .++.||.|.|+=.|+.|.|. .++...|.|=.|
T Consensus 36 ~~i~f~~~~dk~~~l~-~~~~Gd~V~Vsf~i~~RE~~-----gr~fn~i~aWri 83 (84)
T PF11325_consen 36 QKICFEFWGDKIDLLD-NFQVGDEVKVSFNIEGREWN-----GRWFNSIRAWRI 83 (84)
T ss_pred ceEEEEEEcchhhhhc-cCCCCCEEEEEEEeeccEec-----ceEeeEeEEEEe
Confidence 3588999998877643 58899999999999999996 566777766443
No 75
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=74.48 E-value=20 Score=40.25 Aligned_cols=78 Identities=12% Similarity=0.045 Sum_probs=58.6
Q ss_pred ceEEEEEEcCC--CCc-cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 69 NSVNFIGTVVR--PLE-RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 69 NsV~LIGrLg~--DPE-~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
..|.++|-|.. .+. .+|+.+|+++|.-. +--+.|++|.+.-+.+...|+.|..|+|+|++..+ +|
T Consensus 1001 ~~v~v~g~i~~~k~~~Tk~G~~maf~~leD~------tg~~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~-----~~- 1068 (1170)
T PRK07374 1001 AKVSAIAMIPEMKQVTTRKGDRMAILQLEDL------TGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRR-----DD- 1068 (1170)
T ss_pred CEEEEEEEEEEeEecccCCCCEEEEEEEEEC------CCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC-
Confidence 35888888863 222 78888888777422 33489999999999999999999999999999642 23
Q ss_pred EEEEEEEEEEEEEeee
Q 024247 146 LCLCYKVVVEDFNYVR 161 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl~ 161 (270)
..+++|+++.-+.
T Consensus 1069 ---~~~~~~~~i~~l~ 1081 (1170)
T PRK07374 1069 ---RVQLIIDDCREID 1081 (1170)
T ss_pred ---eEEEEEeeeecHh
Confidence 2577888876553
No 76
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=73.96 E-value=33 Score=34.02 Aligned_cols=82 Identities=18% Similarity=0.183 Sum_probs=54.1
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh---HHHHHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM---AQLCQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL---AE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
+.|.|.|+|.. ....|+ +++..| ++.. .-|+|++-.+. .-...+.|..||.|.|+|.+.... +
T Consensus 17 ~~V~i~GrV~~-~R~~gk-~~Fl~L--rD~~----g~iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~------~ 82 (437)
T PRK05159 17 EEVTLAGWVHE-IRDLGG-IAFLIL--RDRS----GIIQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANP------K 82 (437)
T ss_pred CEEEEEEEeEe-eecCCC-eEEEEE--EcCC----cEEEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCC------C
Confidence 66899999964 334454 444444 3322 23788775542 112346799999999999998642 1
Q ss_pred EEEEEEEEEEEEEeeecCC
Q 024247 146 LCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl~~~~ 164 (270)
....++|.|+++..+.+..
T Consensus 83 ~~~~~el~~~~i~vls~a~ 101 (437)
T PRK05159 83 APGGVEVIPEEIEVLNKAE 101 (437)
T ss_pred CCCCEEEEEeEEEEEeCCC
Confidence 1124799999999998775
No 77
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=73.85 E-value=26 Score=27.89 Aligned_cols=67 Identities=27% Similarity=0.209 Sum_probs=39.6
Q ss_pred cceEEEEEEcCCCCccCCeeEEEEEEEEc----CCC-CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecce
Q 024247 68 ENSVNFIGTVVRPLERSNVFGVYTLLHVK----NSH-SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSK 139 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE~~G~~va~fsLAV~----~~~-~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy 139 (270)
-..|++.|.|...|+.++... .+.+.+. ... .....-+.+.+-.+... .++.||.|.++|+|+.=.-
T Consensus 75 ~~~~~v~g~V~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~l~~Gd~i~~~g~l~~~~~ 146 (176)
T PF13567_consen 75 GKEVTVQGTVESVPQIDGRGQ-RFTLRVERVLAGGNWIPVSGKILLYLPKDSQP----RLQPGDRIRVRGKLKPPSG 146 (176)
T ss_pred CceEEEEEEEcccccccCceE-EEEEEEEEeeccccccccceeeEEEecccccc----ccCCCCEEEEEEEEecCCC
Confidence 346789999999888333222 4444432 111 22333344444333322 6899999999999986443
No 78
>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=72.92 E-value=24 Score=27.62 Aligned_cols=36 Identities=17% Similarity=0.197 Sum_probs=27.4
Q ss_pred CCeeEEEEEechhH--H------------------HHHhhcCCCCeEEEEEEeeec
Q 024247 102 RGFDILLAVGGDMA--Q------------------LCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 102 ~t~wI~Vv~wGkLA--E------------------~~~~yLkKGd~V~VsGrL~t~ 137 (270)
.|--|.|++|.... + .....+..|+.|.|.|+|++.
T Consensus 23 gTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~f 78 (92)
T cd04483 23 GTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTY 78 (92)
T ss_pred CCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEecc
Confidence 34468999998653 1 244569999999999999875
No 79
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=71.51 E-value=23 Score=39.35 Aligned_cols=78 Identities=9% Similarity=0.161 Sum_probs=57.7
Q ss_pred ceEEEEEEcCCCCc---c-CCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCC
Q 024247 69 NSVNFIGTVVRPLE---R-SNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNG 144 (270)
Q Consensus 69 NsV~LIGrLg~DPE---~-~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG 144 (270)
+.+.++|.|..=-. . +|+.++.++|.- .+--+.|++|.+.-+.+...|..|..|.|+|++..+ +|
T Consensus 885 ~~~~~~~~i~~~~~~~tk~~g~~maf~~leD------~~g~ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~-----~~ 953 (1034)
T PRK07279 885 SEATILVQIQSIRVIRTKTKGQQMAFLSVTD------TKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQER-----DG 953 (1034)
T ss_pred CcceEEEEEEEEEEEEEcCCCCeEEEEEEee------CCCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC
Confidence 34778888864222 4 788888777642 233488999999988999999999999999999653 23
Q ss_pred cEEEEEEEEEEEEEeee
Q 024247 145 KLCLCYKVVVEDFNYVR 161 (270)
Q Consensus 145 ~kr~~~eVvV~~v~Fl~ 161 (270)
..+++|+++.-+.
T Consensus 954 ----~~~l~~~~i~~l~ 966 (1034)
T PRK07279 954 ----RLQMVLQQIQEAS 966 (1034)
T ss_pred ----eeEEEEeeeeccc
Confidence 2577888886654
No 80
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=71.27 E-value=35 Score=34.42 Aligned_cols=81 Identities=17% Similarity=0.154 Sum_probs=55.6
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEec-hhHHHH--HhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGG-DMAQLC--QKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wG-kLAE~~--~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
-.|+|-|-|-. ....|+ +++.. ++++ +.+|+|++-. +..+.+ ++.|..++-|.|+|.+.-.. .
T Consensus 17 ~~V~v~GWV~~-~R~~g~-i~Fi~--lrDg----sg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~------~ 82 (435)
T COG0017 17 QEVTVRGWVHN-KRDLGK-IIFLV--LRDG----SGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASP------K 82 (435)
T ss_pred cEEEEEEEeee-ecccCC-eEEEE--EEcC----CcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCC------C
Confidence 57888888864 334454 44433 3443 5569999974 232222 56999999999999998542 2
Q ss_pred EEEEEEEEEEEEEeeecC
Q 024247 146 LCLCYKVVVEDFNYVREC 163 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl~~~ 163 (270)
....+||.|++|..+...
T Consensus 83 a~~g~El~v~~i~Vl~~a 100 (435)
T COG0017 83 APQGFELQVEKIEVLGEA 100 (435)
T ss_pred CCCCEEEEEEEEEEeecc
Confidence 334679999999999876
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=71.11 E-value=53 Score=32.93 Aligned_cols=84 Identities=19% Similarity=0.163 Sum_probs=54.6
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHH---HHHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQ---LCQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE---~~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
..|++.|+|.. ....|+ +++..| ++.. ...-++|++-.+.++ ...+.|+.||.|.|+|.+.... .+.
T Consensus 17 ~~v~v~Gwv~~-~R~~~~-~~F~~l--rD~~--~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~--~~~-- 86 (453)
T TIGR00457 17 DEVTVSGWVRT-KRSSKK-IIFLEL--NDGS--SLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESP--GKG-- 86 (453)
T ss_pred CEEEEEEEeEE-EEcCCC-eEEEEE--ECCC--CCccEEEEEeCCcChHHHHHHHcCCCCcEEEEEEEEEcCC--CCC--
Confidence 45899999964 333343 455554 3321 013578887665222 2346799999999999998632 122
Q ss_pred EEEEEEEEEEEEEeeecCC
Q 024247 146 LCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl~~~~ 164 (270)
..+||.|++++.|....
T Consensus 87 --~~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 87 --QPVELQVKKIEVVGEAE 103 (453)
T ss_pred --CCEEEEEeEEEEEecCC
Confidence 25799999999998764
No 82
>PRK12366 replication factor A; Reviewed
Probab=70.96 E-value=12 Score=39.04 Aligned_cols=60 Identities=20% Similarity=0.215 Sum_probs=44.0
Q ss_pred CcceEEEEEEcCC--CCc----cCCe--eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEE
Q 024247 67 LENSVNFIGTVVR--PLE----RSNV--FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQ 133 (270)
Q Consensus 67 l~NsV~LIGrLg~--DPE----~~G~--~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGr 133 (270)
-++.|+|.|+|.. +|. .+|. .++.+.|+ + +|--|++++|++.|+. ...|..|+.|.|+|.
T Consensus 72 ~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~--D----etG~Ir~t~W~~~~~~-~~~le~G~v~~i~~~ 139 (637)
T PRK12366 72 GQINVEITGRIIEISNIKTFTRKDGSTGKLANITIA--D----NTGTIRLTLWNDNAKL-LKGLKEGDVIKIENA 139 (637)
T ss_pred CCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEE--c----CCCEEEEEEEchhhhh-hccCCCCCEEEEecc
Confidence 4588999999974 344 3442 35555554 2 2335999999999986 578999999999985
No 83
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=70.43 E-value=49 Score=35.11 Aligned_cols=77 Identities=13% Similarity=0.173 Sum_probs=52.2
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEech------hHHHHHhhcCCCCeEEEEEEeeecceecCC
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGD------MAQLCQKHLKPNDFIYVTGQLHSYSKVDKN 143 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGk------LAE~~~~yLkKGd~V~VsGrL~t~sy~dkd 143 (270)
.|.|-|+|.+ ....|+ +++..|- + .+.-|+|++-.+ ....+.+.|..||.|.|+|.+... +.
T Consensus 109 ~V~vaGrV~~-~R~~Gk-~~F~~Lr--D----~~G~IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~v~~t----~~ 176 (659)
T PTZ00385 109 TVRVAGRVTS-VRDIGK-IIFVTIR--S----NGNELQVVGQVGEHFTREDLKKLKVSLRVGDIIGADGVPCRM----QR 176 (659)
T ss_pred EEEEEEEEEe-eeccCC-eEEEEEE--E----CCceEEEEEECCccCCHHHHHHHHhCCCCCCEEEEEEEEEec----CC
Confidence 4999999975 334565 4555542 2 233577777532 223344579999999999988742 34
Q ss_pred CcEEEEEEEEEEEEEeeec
Q 024247 144 GKLCLCYKVVVEDFNYVRE 162 (270)
Q Consensus 144 G~kr~~~eVvV~~v~Fl~~ 162 (270)
|+ ++|.|+++.+|.+
T Consensus 177 Ge----leI~~~~i~lLsk 191 (659)
T PTZ00385 177 GE----LSVAASRMLILSP 191 (659)
T ss_pred ce----EEEEeeEEEEech
Confidence 54 6899999999986
No 84
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=68.56 E-value=29 Score=38.53 Aligned_cols=75 Identities=13% Similarity=0.166 Sum_probs=54.1
Q ss_pred eEEEEEEcCCCC---ccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcE
Q 024247 70 SVNFIGTVVRPL---ERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKL 146 (270)
Q Consensus 70 sV~LIGrLg~DP---E~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~k 146 (270)
.|.+.|-+..-- ..+| +++++|. + .|--+.|++|.++-+.+...|+.|..++|+|+++.+ +|.
T Consensus 955 ~v~v~g~i~~~~~~~TkkG--maf~~le--D----~~g~~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~-----~~~- 1020 (1046)
T PRK05672 955 RVRVAGVVTHRQRPGTASG--VTFLTLE--D----ETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNA-----EGV- 1020 (1046)
T ss_pred EEEEEEEEEEEEEecCCCc--eEEEEEe--c----CCCCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CCe-
Confidence 477777666311 1566 6666553 2 345589999999999999999999999999999753 332
Q ss_pred EEEEEEEEEEEEeee
Q 024247 147 CLCYKVVVEDFNYVR 161 (270)
Q Consensus 147 r~~~eVvV~~v~Fl~ 161 (270)
.+++|+++.-++
T Consensus 1021 ---~~~~~~~i~~~~ 1032 (1046)
T PRK05672 1021 ---RHLVADRLEDLS 1032 (1046)
T ss_pred ---EEEEEeeeechH
Confidence 478888876553
No 85
>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=68.39 E-value=63 Score=32.85 Aligned_cols=79 Identities=22% Similarity=0.288 Sum_probs=50.6
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEech-hHH----HHHhhcCCCCeEEEEEEeeecceecCCC
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGD-MAQ----LCQKHLKPNDFIYVTGQLHSYSKVDKNG 144 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGk-LAE----~~~~yLkKGd~V~VsGrL~t~sy~dkdG 144 (270)
.|++.|+|.+ ....|+ +++..| ++. +--|+|++-.+ +.+ .+.+.|+.||.|.|+|.+.. .+.|
T Consensus 55 ~v~v~Grv~~-~R~~gk-~~F~~l--~D~----~g~iQ~~~~~~~~~~~~~~~~~~~l~~gd~V~v~G~~~~----t~~g 122 (496)
T TIGR00499 55 EVSIAGRIMA-RRSMGK-ATFITL--QDE----SGQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFK----TKTG 122 (496)
T ss_pred EEEEEEEEEE-EecCCC-eEEEEE--EcC----CccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEE----CCCC
Confidence 4899999975 334444 444444 232 12377776432 222 23334899999999999963 2334
Q ss_pred cEEEEEEEEEEEEEeeecCC
Q 024247 145 KLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 145 ~kr~~~eVvV~~v~Fl~~~~ 164 (270)
+ ++|.|+++..|.+..
T Consensus 123 e----lel~~~~i~ilsk~~ 138 (496)
T TIGR00499 123 E----LSVHVTELQILTKAL 138 (496)
T ss_pred c----EEEEeeEEEEEecCC
Confidence 3 799999999998764
No 86
>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=68.09 E-value=13 Score=28.20 Aligned_cols=77 Identities=17% Similarity=0.221 Sum_probs=48.8
Q ss_pred EEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHH---HHHhhcCCCCeEEEEEEeeecceecCCCcEE
Q 024247 71 VNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQ---LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLC 147 (270)
Q Consensus 71 V~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE---~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr 147 (270)
|.++|.|.. .+..+.. ..++| .++ |--|.+.+|..-.+ ...+.++.|+.|.|.|+++... |++
T Consensus 2 v~~vG~V~~-~~~~~~~-~~~tL--~D~----TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~-----g~~- 67 (95)
T cd04478 2 VTLVGVVRN-VEEQSTN-ITYTI--DDG----TGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQ-----GKK- 67 (95)
T ss_pred EEEEEEEEe-eeEcccE-EEEEE--ECC----CCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccC-----Cee-
Confidence 677887775 4422222 22333 332 33489999987653 3577899999999999997642 333
Q ss_pred EEEEEEEEEEEeeecCC
Q 024247 148 LCYKVVVEDFNYVRECG 164 (270)
Q Consensus 148 ~~~eVvV~~v~Fl~~~~ 164 (270)
+|.+..+..+...+
T Consensus 68 ---ql~i~~i~~v~d~n 81 (95)
T cd04478 68 ---SIMAFSIRPVTDFN 81 (95)
T ss_pred ---EEEEEEEEEeCCcc
Confidence 45566666665443
No 87
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=66.96 E-value=50 Score=34.38 Aligned_cols=86 Identities=17% Similarity=0.192 Sum_probs=54.2
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHH--HHhhcCCCCeEEEEEEeeecceecCCCcE-
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQL--CQKHLKPNDFIYVTGQLHSYSKVDKNGKL- 146 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~--~~~yLkKGd~V~VsGrL~t~sy~dkdG~k- 146 (270)
.|+|.|+|.+ ....|+ +++..| ++. +-.++|++-.. .+. ....|+.|+.|.|+|.+..+.-...+-+.
T Consensus 19 ~V~l~GwV~~-~R~~g~-l~Fi~L--rD~----~g~iQ~v~~~~-~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~~~~ 89 (588)
T PRK00476 19 TVTLCGWVHR-RRDHGG-LIFIDL--RDR----EGIVQVVFDPD-AEAFEVAESLRSEYVIQVTGTVRARPEGTVNPNLP 89 (588)
T ss_pred EEEEEEEEEE-EEeCCC-eEEEEE--EeC----CceEEEEEeCC-HHHHHHHhCCCCCCEEEEEEEEEecCCcccCccCC
Confidence 4999999975 334453 455554 332 22477777542 222 34679999999999999865311111111
Q ss_pred EEEEEEEEEEEEeeecCC
Q 024247 147 CLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 147 r~~~eVvV~~v~Fl~~~~ 164 (270)
.-.+||.|+++..|....
T Consensus 90 ~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 90 TGEIEVLASELEVLNKSK 107 (588)
T ss_pred CCcEEEEEeEEEEEecCC
Confidence 124799999999998775
No 88
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=66.48 E-value=81 Score=31.98 Aligned_cols=81 Identities=22% Similarity=0.247 Sum_probs=53.2
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEech-hHHH---HHhhcCCCCeEEEEEEeeecceecCCC
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGD-MAQL---CQKHLKPNDFIYVTGQLHSYSKVDKNG 144 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGk-LAE~---~~~yLkKGd~V~VsGrL~t~sy~dkdG 144 (270)
-.|++.|+|.. ....|+ +++..| ++. +.-|+|++-.+ +.+. ....|..||.|.|+|.+... +.|
T Consensus 55 ~~v~v~G~v~~-~R~~g~-~~Fi~l--rD~----~g~iQ~v~~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~t----~~g 122 (491)
T PRK00484 55 IEVSVAGRVML-KRVMGK-ASFATL--QDG----SGRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKT----KTG 122 (491)
T ss_pred cEEEEEEEEEE-EecCCc-eEEEEE--EcC----CccEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEc----CCC
Confidence 46999999975 334453 455544 332 22477777543 1111 22349999999999999853 334
Q ss_pred cEEEEEEEEEEEEEeeecCCC
Q 024247 145 KLCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 145 ~kr~~~eVvV~~v~Fl~~~~q 165 (270)
.++|.|+++..|.+...
T Consensus 123 ----e~el~~~~~~vls~~~~ 139 (491)
T PRK00484 123 ----ELSVKATELTLLTKSLR 139 (491)
T ss_pred ----cEEEEEeEEEEEeccCC
Confidence 47999999999987643
No 89
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=64.99 E-value=85 Score=32.07 Aligned_cols=79 Identities=16% Similarity=0.220 Sum_probs=52.5
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEec-hhHH----HHHhhcCCCCeEEEEEEeeecceecCCC
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGG-DMAQ----LCQKHLKPNDFIYVTGQLHSYSKVDKNG 144 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wG-kLAE----~~~~yLkKGd~V~VsGrL~t~sy~dkdG 144 (270)
.|++.|+|.. ....|+ +++..| ++. +.-|+|++-. .+.+ .....|..||.|.|+|.+... +.|
T Consensus 67 ~v~v~Grv~~-~R~~Gk-~~F~~l--rD~----~g~iQ~~~~~~~~~~~~~~~~~~~l~~Gd~V~v~G~~~~t----~~g 134 (505)
T PRK12445 67 EVSVAGRMMT-RRIMGK-ASFVTL--QDV----GGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKT----QTG 134 (505)
T ss_pred EEEEEEEEEE-EecCCC-cEEEEE--EeC----CccEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEec----CCC
Confidence 5999999974 334465 345444 332 2237777753 2221 134679999999999999752 345
Q ss_pred cEEEEEEEEEEEEEeeecCC
Q 024247 145 KLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 145 ~kr~~~eVvV~~v~Fl~~~~ 164 (270)
+ ++|.|+++.+|.+..
T Consensus 135 e----lel~~~~~~llsk~~ 150 (505)
T PRK12445 135 E----LSIHCTELRLLTKAL 150 (505)
T ss_pred c----EEEEEeEEEEEecCC
Confidence 3 799999999998764
No 90
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=64.89 E-value=72 Score=33.04 Aligned_cols=88 Identities=10% Similarity=0.119 Sum_probs=55.7
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEe--chhHHHH---HhhcCCCCeEEEEEEeeecceecCC
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVG--GDMAQLC---QKHLKPNDFIYVTGQLHSYSKVDKN 143 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~w--GkLAE~~---~~yLkKGd~V~VsGrL~t~sy~dkd 143 (270)
..|.+.|+|.+ ....|+ +++..| ++. +..|+|++- +...+.+ ...|.+|+.|.|+|.+....-. ..
T Consensus 79 ~~V~v~Grv~~-~R~~Gk-~~Fl~L--Rd~----~~~iQ~v~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~-~~ 149 (550)
T PTZ00401 79 KTVLIRARVST-TRKKGK-MAFMVL--RDG----SDSVQAMAAVEGDVPKEMIDFIGQIPTESIVDVEATVCKVEQP-IT 149 (550)
T ss_pred CEEEEEEEEEE-EecCCC-eEEEEE--EeC----CcCEEEEEECCCccCHHHHHHHhcCCCCCEEEEEEEEEecCcc-CC
Confidence 45999999964 334454 455554 222 224777763 2232322 3469999999999999865321 12
Q ss_pred CcEEEEEEEEEEEEEeeecCCC
Q 024247 144 GKLCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 144 G~kr~~~eVvV~~v~Fl~~~~q 165 (270)
..+...+||.|+++..|.....
T Consensus 150 ~~~~~~~El~v~~i~vls~a~~ 171 (550)
T PTZ00401 150 STSHSDIELKVKKIHTVTESLR 171 (550)
T ss_pred CCCCccEEEEeeEEEEEeCCCC
Confidence 2334468999999999987643
No 91
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=64.35 E-value=59 Score=33.96 Aligned_cols=79 Identities=16% Similarity=0.242 Sum_probs=51.7
Q ss_pred EEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh----H---HHHHhhcCCCCeEEEEEEeeecceecCC
Q 024247 71 VNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM----A---QLCQKHLKPNDFIYVTGQLHSYSKVDKN 143 (270)
Q Consensus 71 V~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL----A---E~~~~yLkKGd~V~VsGrL~t~sy~dkd 143 (270)
|.+.|+|.+ ....|+.+++..|. ++ +.-|+|++-.+. . +.+.+.|..||.|.|+|.+.. .+.
T Consensus 135 v~v~Grv~~-~R~~G~k~~F~~L~-d~-----~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~----t~~ 203 (585)
T PTZ00417 135 LNVTGRIMR-VSASGQKLRFFDLV-GD-----GAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGK----SKK 203 (585)
T ss_pred EEEEEEEEe-eecCCCCCEEEEEE-eC-----CeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcC----CCC
Confidence 889999964 33445446666652 22 224788875321 1 223457999999999998653 234
Q ss_pred CcEEEEEEEEEEEEEeeecCC
Q 024247 144 GKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 144 G~kr~~~eVvV~~v~Fl~~~~ 164 (270)
| -.+|.|+++..+.+..
T Consensus 204 g----el~i~~~~i~llsk~l 220 (585)
T PTZ00417 204 G----ELSIFPKETIILSPCL 220 (585)
T ss_pred c----eEEEEEEEEEEEecCC
Confidence 4 3689999999998654
No 92
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=62.80 E-value=68 Score=34.32 Aligned_cols=88 Identities=13% Similarity=0.087 Sum_probs=55.7
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh--HH--HHHhhcCCCCeEEEEEEeeecceecCC-
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM--AQ--LCQKHLKPNDFIYVTGQLHSYSKVDKN- 143 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL--AE--~~~~yLkKGd~V~VsGrL~t~sy~dkd- 143 (270)
..|+|.|+|.+ ....|+ +++..| ++. +-.++|++-.+. .+ ...+.|..|+.|.|+|.+..+.-..++
T Consensus 19 ~~V~l~GWV~~-~R~~G~-l~FidL--RD~----~G~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~~n~ 90 (706)
T PRK12820 19 REVCLAGWVDA-FRDHGE-LLFIHL--RDR----NGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEETENP 90 (706)
T ss_pred CEEEEEEEEEE-EEcCCC-cEEEEE--EeC----CccEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCccccCC
Confidence 35899999975 333454 455444 332 224788886442 22 234679999999999999875322111
Q ss_pred CcEEEEEEEEEEEEEeeecCC
Q 024247 144 GKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 144 G~kr~~~eVvV~~v~Fl~~~~ 164 (270)
+...-.+||.|+++..|....
T Consensus 91 ~~~tg~iEl~~~~i~iL~~a~ 111 (706)
T PRK12820 91 HIETGDIEVFVRELSILAASE 111 (706)
T ss_pred CCCCCcEEEEeeEEEEEecCC
Confidence 111134899999999998764
No 93
>PLN02502 lysyl-tRNA synthetase
Probab=62.28 E-value=89 Score=32.40 Aligned_cols=79 Identities=19% Similarity=0.254 Sum_probs=51.1
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEech-hH------HHHHhhcCCCCeEEEEEEeeecceecC
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGD-MA------QLCQKHLKPNDFIYVTGQLHSYSKVDK 142 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGk-LA------E~~~~yLkKGd~V~VsGrL~t~sy~dk 142 (270)
.|++.|+|.. ....|+ +++..| ++. +.-|+|++-.+ +. +.+...|+.||.|.|+|.+... +
T Consensus 110 ~V~v~GrV~~-~R~~Gk-~~F~~L--rD~----~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t----~ 177 (553)
T PLN02502 110 SVSVAGRIMA-KRAFGK-LAFYDL--RDD----GGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKT----K 177 (553)
T ss_pred EEEEEEEEEE-EecCCC-eEEEEE--ecC----CccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEec----C
Confidence 4888898875 334454 444444 232 23477776533 21 1233458999999999998752 3
Q ss_pred CCcEEEEEEEEEEEEEeeecCC
Q 024247 143 NGKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 143 dG~kr~~~eVvV~~v~Fl~~~~ 164 (270)
.| .++|.|++|..|.+..
T Consensus 178 ~g----elel~~~~i~vLs~~l 195 (553)
T PLN02502 178 KG----ELSIFPTSFEVLTKCL 195 (553)
T ss_pred CC----CEEEEEeEEEEEeccC
Confidence 45 4799999999998764
No 94
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=61.15 E-value=54 Score=34.87 Aligned_cols=62 Identities=19% Similarity=0.106 Sum_probs=45.1
Q ss_pred ceEEEEEEcCCCCc-cC-CeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 69 NSVNFIGTVVRPLE-RS-NVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 69 NsV~LIGrLg~DPE-~~-G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
-.|++.|.|..-.. +. ++....+++ .+ .+.-+.++||+.-| .+.+.|+.|..|.|+|++...
T Consensus 61 ~~vti~g~V~~~~~~~~~~~~~l~v~~--~d----~~~~l~l~fFn~~~-~l~~~~~~G~~v~v~Gk~~~~ 124 (677)
T COG1200 61 EIVTIEGTVLSHEKFPFGKRKLLKVTL--SD----GTGVLTLVFFNFPA-YLKKKLKVGERVIVYGKVKRF 124 (677)
T ss_pred ceEEEEEEEEeeeccCCCCCceEEEEE--ec----CcEEEEEEEECccH-HHHhhCCCCCEEEEEEEEeec
Confidence 46899999986444 32 233333333 33 35578999999998 888999999999999999863
No 95
>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=57.75 E-value=48 Score=24.59 Aligned_cols=79 Identities=15% Similarity=0.121 Sum_probs=47.1
Q ss_pred EEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechhH-HHHHhhcCCCCeEEEEEEeeecceecCCCcEEEE
Q 024247 71 VNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMA-QLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLC 149 (270)
Q Consensus 71 V~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLA-E~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~~ 149 (270)
|++-|+|-. ....|+ +++..| ++... ..=++|++-.+.. -...+.|+.||.|.|+|.+....-. . ..
T Consensus 2 v~v~Gwv~~-~R~~g~-~~Fi~L--rD~s~--~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~~--~----~~ 69 (82)
T cd04318 2 VTVNGWVRS-VRDSKK-ISFIEL--NDGSC--LKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPGA--K----QP 69 (82)
T ss_pred EEEEEeEEE-EEcCCc-EEEEEE--ECCCC--ccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCCC--C----CC
Confidence 677788853 223343 344333 34321 1126777754422 1244679999999999998864311 1 25
Q ss_pred EEEEEEEEEeee
Q 024247 150 YKVVVEDFNYVR 161 (270)
Q Consensus 150 ~eVvV~~v~Fl~ 161 (270)
+||.++++..+.
T Consensus 70 ~El~~~~i~il~ 81 (82)
T cd04318 70 FELQAEKIEVLG 81 (82)
T ss_pred EEEEEEEEEEec
Confidence 899999988764
No 96
>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=55.77 E-value=82 Score=26.16 Aligned_cols=69 Identities=17% Similarity=0.128 Sum_probs=45.1
Q ss_pred CcceEEEEEEcCC--CCc-cCCe-eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecce
Q 024247 67 LENSVNFIGTVVR--PLE-RSNV-FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSK 139 (270)
Q Consensus 67 l~NsV~LIGrLg~--DPE-~~G~-~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy 139 (270)
.-..|.+||=|.. +|. ..|+ ..+.++| .+..-....=+.|.+|++.++.+-.- ..||.|.+.+ ++...|
T Consensus 13 ~~~~v~vigVV~~~~~p~~s~g~d~~~tl~i--~D~S~~~~~~l~v~~F~~~~~~LP~v-~~GDVIll~~-~kv~~~ 85 (138)
T cd04497 13 SGGSVNVIGVVVDAGPPVRSKGTDYCCTLTI--TDPSLANSDGLTVKLFRPNEESLPIV-KVGDIILLRR-VKIQSY 85 (138)
T ss_pred cCCeEEEEEEEeecCCCcccCCCcEEEEEEE--ECCCCCCCCcEEEEEECCChhhCCCC-CCCCEEEEEE-EEEEEE
Confidence 3456788887763 333 4454 4444444 33321113458999999999987654 9999999987 666667
No 97
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=55.35 E-value=55 Score=31.44 Aligned_cols=64 Identities=14% Similarity=0.174 Sum_probs=42.9
Q ss_pred cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcEEEEEEEEEEEEEeeec
Q 024247 83 RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRE 162 (270)
Q Consensus 83 ~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~~~eVvV~~v~Fl~~ 162 (270)
.+|+....++|+ + .|--|+..+|+..-+ ....+..|+.|.|.|+... | .|+. ++.+..+..+..
T Consensus 29 knG~~yl~l~l~--D----~tG~I~ak~W~~~~~-~~~~~~~g~vv~v~G~v~~--y---~g~~----Ql~i~~i~~~~~ 92 (314)
T PRK13480 29 SNGKPFLTLILQ--D----KSGDIEAKLWDVSPE-DEATYVPETIVHVKGDIIN--Y---RGRK----QLKVNQIRLATE 92 (314)
T ss_pred CCCCeEEEEEEE--c----CCcEEEEEeCCCChh-hHhhcCCCCEEEEEEEEEE--E---CCcc----eEEEEEeEECCC
Confidence 667776666664 2 233488999997644 4677999999999999975 4 3433 345555555543
No 98
>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=55.26 E-value=37 Score=35.41 Aligned_cols=63 Identities=13% Similarity=0.064 Sum_probs=45.8
Q ss_pred cceEEEEEEcCCCCc------cCCe-eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEE-Eeee
Q 024247 68 ENSVNFIGTVVRPLE------RSNV-FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTG-QLHS 136 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE------~~G~-~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsG-rL~t 136 (270)
.|.+++.|||.+--+ ++|. .+..+.|. + ++.-|++++|++.|+.....|+.|+.++|++ +++.
T Consensus 190 ~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~--D----egg~Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~ 260 (608)
T TIGR00617 190 QNKWTIKARVTNKSEIRTWSNARGEGKLFNVELL--D----ESGEIRATAFNEQADKFYDIIQEGKVYYISKGSLKP 260 (608)
T ss_pred CCceEEEEEEEeccccceecCCCCCceeeEEEEe--c----CCCeEEEEECchHHHHHhhhcccCCEEEECceEEEE
Confidence 577999999996444 3332 24344443 2 2345999999999999999999999999976 5543
No 99
>PRK14699 replication factor A; Provisional
Probab=53.82 E-value=42 Score=34.16 Aligned_cols=59 Identities=15% Similarity=0.089 Sum_probs=40.6
Q ss_pred CcceEEEEEEcCCC--Cc----cCCe--eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEE
Q 024247 67 LENSVNFIGTVVRP--LE----RSNV--FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTG 132 (270)
Q Consensus 67 l~NsV~LIGrLg~D--PE----~~G~--~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsG 132 (270)
-+|.|++.|+|..- +. .+|. .+.+..|. + +|--|++++|++.| .....+..||.|-|.+
T Consensus 285 ~~~~v~I~grV~~~~~~r~~~~~~Gseg~v~~~~l~--D----eTG~Ir~T~W~~~a-~~~~~i~~Gd~v~i~~ 351 (484)
T PRK14699 285 DMNNINISGRVLDISEVRTFEKKDGSPGRVGNLLLG--D----STGKIRLTLWDEKT-NFLDEIDFDETVEVLN 351 (484)
T ss_pred CCceeEEEEEEEEcCCCeEEEcCCCCeeEEEEEEEE--C----CCCeEEEEEeCccc-ccccccCCCceEEEEe
Confidence 37999999999833 33 4563 23334443 2 24469999999999 4456788999877765
No 100
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=53.54 E-value=44 Score=34.82 Aligned_cols=64 Identities=19% Similarity=0.168 Sum_probs=39.2
Q ss_pred eEEEEEEcCC--CCc-----cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecce
Q 024247 70 SVNFIGTVVR--PLE-----RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSK 139 (270)
Q Consensus 70 sV~LIGrLg~--DPE-----~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy 139 (270)
.|-+||-|.. ++. .+|+..-.-.|.+.+. ...-|.|++||+.|+.+. ..+|+.|.+.|-.. ..|
T Consensus 312 ~VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~D~---sg~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V-~~f 382 (608)
T TIGR00617 312 LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLVDD---SGKSVRVTLWGDDATKFD--VSVQPVIAIKGVRV-SDF 382 (608)
T ss_pred CccEEEEEeEecCceEEEEcCCCCeeeeEEEEEEeC---CCCEEEEEEEhhhhhhcC--CCCCCEEEEEeEEE-Eec
Confidence 6778887773 222 2344333222222221 122489999999999875 77899999988443 345
No 101
>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=53.11 E-value=20 Score=30.04 Aligned_cols=28 Identities=29% Similarity=0.497 Sum_probs=24.7
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEE
Q 024247 104 FDILLAVGGDMAQLCQKHLKPNDFIYVTG 132 (270)
Q Consensus 104 ~wI~Vv~wGkLAE~~~~yLkKGd~V~VsG 132 (270)
.=|+|++|+.-|+.+.+ ||.||.|.+.=
T Consensus 60 ~ti~It~yD~H~~~ar~-lK~GdfV~L~N 87 (123)
T cd04498 60 LTIDILVYDNHVELAKS-LKPGDFVRIYN 87 (123)
T ss_pred EEEEEEEEcchHHHHhh-CCCCCEEEEEE
Confidence 45899999999998888 99999998864
No 102
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=51.61 E-value=67 Score=33.25 Aligned_cols=61 Identities=16% Similarity=0.102 Sum_probs=40.6
Q ss_pred ceEEEEEEcCCCCc--cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeee
Q 024247 69 NSVNFIGTVVRPLE--RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHS 136 (270)
Q Consensus 69 NsV~LIGrLg~DPE--~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t 136 (270)
..|++.|.|..... ..+..+..+.+ .+. .+.-+.|++|+ . ..+.+.+++|+.|+|.|++..
T Consensus 33 ~~~~~~~~v~~~~~~~~~~~~~~~~~~--~d~---~~~~~~~~~F~-~-~~~~~~~~~g~~~~~~Gk~~~ 95 (630)
T TIGR00643 33 ERATIVGEVLSHCIFGFKRRKVLKLRL--KDG---GYKKLELRFFN-R-AFLKKKFKVGSKVVVYGKVKS 95 (630)
T ss_pred CEEEEEEEEEEeEeccCCCCceEEEEE--EEC---CCCEEEEEEEC-C-HHHHhhCCCCCEEEEEEEEEe
Confidence 36889999876333 22233333333 331 23357899998 2 267789999999999999975
No 103
>PRK07218 replication factor A; Provisional
Probab=50.74 E-value=43 Score=33.53 Aligned_cols=75 Identities=16% Similarity=0.120 Sum_probs=47.7
Q ss_pred cceEEEEEEcCCCCc-----cCCee-EEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceec
Q 024247 68 ENSVNFIGTVVRPLE-----RSNVF-GVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVD 141 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE-----~~G~~-va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~d 141 (270)
.+.|++.|+|..-.. .+|.. +....|+ .+|--|++++|+++|+ |..||.|.|.|--. +.|
T Consensus 172 ~~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giig------DeTG~Ir~tlW~~~~~-----l~~Gd~v~I~na~v-~e~-- 237 (423)
T PRK07218 172 DRGVNVEARVLELEHREIDGRDGETTILSGVLA------DETGRLPFTDWDPLPE-----IEIGASIRIEDAYV-REF-- 237 (423)
T ss_pred CCceEEEEEEEEecceeEEcCCCCeEEEEEEEE------CCCceEEEEEeccccc-----CCCCCEEEEeeeEE-ecc--
Confidence 567999999984322 45533 3333333 2466799999999864 79999999998443 234
Q ss_pred CCCcEEEEEEEEEEEEEeee
Q 024247 142 KNGKLCLCYKVVVEDFNYVR 161 (270)
Q Consensus 142 kdG~kr~~~eVvV~~v~Fl~ 161 (270)
+| ..+|.+.+..-|.
T Consensus 238 -~G----~~elnv~~~t~I~ 252 (423)
T PRK07218 238 -RG----VPSVNVSEFTTVE 252 (423)
T ss_pred -CC----eEEEEECCceEEE
Confidence 23 3466666444443
No 104
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=48.16 E-value=71 Score=33.50 Aligned_cols=62 Identities=15% Similarity=0.067 Sum_probs=41.3
Q ss_pred ceEEEEEEcCCCCc-cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeee
Q 024247 69 NSVNFIGTVVRPLE-RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHS 136 (270)
Q Consensus 69 NsV~LIGrLg~DPE-~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t 136 (270)
..|+++|+|..-.. ..+..+..+.+ .+ .+--+.|++|+--...+.+.|++|+.++|.|++..
T Consensus 60 ~~vtv~g~V~~~~~~~~~~~~~~v~l--~D----~tg~i~l~~F~~n~~~~~~~l~~G~~~~v~Gkv~~ 122 (681)
T PRK10917 60 EKVTVEGEVLSAEVVFGKRRRLTVTV--SD----GTGNLTLRFFNFNQPYLKKQLKVGKRVAVYGKVKR 122 (681)
T ss_pred CEEEEEEEEEEEEEccCCceEEEEEE--EE----CCeEEEEEEEccCcHHHHhhCCCCCEEEEEEEEEe
Confidence 57999999876443 22443333333 22 23358899994112266788999999999999986
No 105
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=47.26 E-value=1e+02 Score=30.85 Aligned_cols=81 Identities=19% Similarity=0.109 Sum_probs=50.0
Q ss_pred ceEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEech---hHHHHHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 69 NSVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGD---MAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGk---LAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
..|++.|+|.. ....|+ +++..| ++. +.-++|++-.+ -+-...+.|+.||.|.|+|.+.... .+.
T Consensus 17 ~~V~i~G~v~~-~R~~g~-~~Fi~l--rD~----~g~iq~~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~----~~~ 84 (450)
T PRK03932 17 QEVTVRGWVRT-KRDSGK-IAFLQL--RDG----SCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVTGTVVESP----RAG 84 (450)
T ss_pred CEEEEEEEEEE-EEeCCC-eEEEEE--ECC----CCcEEEEEEcCCChHHHHHHhcCCCCcEEEEEEEEEcCC----CCC
Confidence 56999999964 333354 344444 332 22344444322 1112235699999999999998532 111
Q ss_pred EEEEEEEEEEEEEeeecC
Q 024247 146 LCLCYKVVVEDFNYVREC 163 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl~~~ 163 (270)
..++|.|+++..|.+.
T Consensus 85 --~~~el~~~~i~vl~~~ 100 (450)
T PRK03932 85 --QGYELQATKIEVIGED 100 (450)
T ss_pred --CCEEEEEEEEEEccCC
Confidence 2469999999999874
No 106
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=46.85 E-value=1.9e+02 Score=32.53 Aligned_cols=79 Identities=16% Similarity=0.306 Sum_probs=51.8
Q ss_pred eEEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh-H----HHHHhhcCCCCeEEEEEEeeecceecCCC
Q 024247 70 SVNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM-A----QLCQKHLKPNDFIYVTGQLHSYSKVDKNG 144 (270)
Q Consensus 70 sV~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL-A----E~~~~yLkKGd~V~VsGrL~t~sy~dkdG 144 (270)
.|++-|+|.+ ....|+ +++..| ++. +.-|+|++-.+. . +...+.+..||.|.|+|.+... +.|
T Consensus 653 ~V~v~Grv~~-~R~~G~-~~F~~l--rD~----~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t----~~g 720 (1094)
T PRK02983 653 EVSVSGRVLR-IRDYGG-VLFADL--RDW----SGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTS----RNG 720 (1094)
T ss_pred EEEEEEEEEE-EeeCCC-eEEEEE--EeC----CeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEc----CCC
Confidence 5889999864 334453 455444 232 234777775442 1 2233568999999999999752 345
Q ss_pred cEEEEEEEEEEEEEeeecCC
Q 024247 145 KLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 145 ~kr~~~eVvV~~v~Fl~~~~ 164 (270)
+ .+|.|+++.++.+..
T Consensus 721 e----~ei~~~~i~ll~k~~ 736 (1094)
T PRK02983 721 T----LSLLVTSWRLAGKCL 736 (1094)
T ss_pred C----EEEEEeEEEEEeccC
Confidence 3 689999999998664
No 107
>PLN02221 asparaginyl-tRNA synthetase
Probab=45.04 E-value=2.2e+02 Score=29.74 Aligned_cols=87 Identities=14% Similarity=0.061 Sum_probs=55.8
Q ss_pred ceEEEEEEcCCCCccCCe-eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcEE
Q 024247 69 NSVNFIGTVVRPLERSNV-FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLC 147 (270)
Q Consensus 69 NsV~LIGrLg~DPE~~G~-~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr 147 (270)
..|.|.|.|-. ....|+ .+++.. ++++. ..-.++|++-.+.. ...+.|+.|+.|.|.|.+..+.- ..|.+.
T Consensus 51 ~~V~I~GWV~~-iR~~Gk~~i~Fl~--LRDgs--~~g~iQvVv~~~~~-~~~~~L~~ES~V~V~G~V~~~~~--~~~~~~ 122 (572)
T PLN02221 51 QKVRIGGWVKT-GREQGKGTFAFLE--VNDGS--CPANLQVMVDSSLY-DLSTLVATGTCVTVDGVLKVPPE--GKGTKQ 122 (572)
T ss_pred CEEEEEEEEEe-hhhCCCceEEEEE--EeCCc--ccccEEEEEcCchh-hHHhcCCCceEEEEEEEEEeCCc--cCCCCc
Confidence 35889998874 443443 244333 34432 11358898865533 23346899999999999986532 123333
Q ss_pred EEEEEEEEEEEeeecCC
Q 024247 148 LCYKVVVEDFNYVRECG 164 (270)
Q Consensus 148 ~~~eVvV~~v~Fl~~~~ 164 (270)
.+||.|++|..|....
T Consensus 123 -~iEl~v~~i~vl~~a~ 138 (572)
T PLN02221 123 -KIELSVEKVIDVGTVD 138 (572)
T ss_pred -cEEEEEeEEEEEecCC
Confidence 7899999999998654
No 108
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=44.52 E-value=1.4e+02 Score=30.84 Aligned_cols=80 Identities=25% Similarity=0.342 Sum_probs=50.3
Q ss_pred EEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEec-----hhHHHHHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 71 VNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGG-----DMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 71 V~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wG-----kLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
|.+.|||-. ....| .++++.|- +.+. -|++.+-. +..+...+++..||.|.|.|.+.. .+.|+
T Consensus 64 v~vAGRi~~-~R~~G-K~~F~~i~-d~~g-----kiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~----T~~Ge 131 (502)
T COG1190 64 VSVAGRIMT-IRNMG-KASFADLQ-DGSG-----KIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFK----TKTGE 131 (502)
T ss_pred eEEecceee-ecccC-ceeEEEEe-cCCc-----eEEEEEeccccchhhHHHHHhccccCCEEeeeeeeee----cCCCc
Confidence 999999974 22456 35555542 2111 23333332 234445666778999999999875 33565
Q ss_pred EEEEEEEEEEEEEeeecCCCC
Q 024247 146 LCLCYKVVVEDFNYVRECGQG 166 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl~~~~q~ 166 (270)
. .|.|+++.++.+.-.+
T Consensus 132 l----Sv~v~~~~lLsKsL~p 148 (502)
T COG1190 132 L----SVSVEELRLLSKSLRP 148 (502)
T ss_pred e----EEEEEEEeeecccCCC
Confidence 4 6789999998877554
No 109
>smart00350 MCM minichromosome maintenance proteins.
Probab=42.75 E-value=57 Score=32.90 Aligned_cols=56 Identities=18% Similarity=0.190 Sum_probs=39.8
Q ss_pred CeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecC----CCcEEEEEEEEEEEEEeeec
Q 024247 103 GFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDK----NGKLCLCYKVVVEDFNYVRE 162 (270)
Q Consensus 103 t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dk----dG~kr~~~eVvV~~v~Fl~~ 162 (270)
.-.+.|++-++|.+ .++.||+|.|.|-+..+.|.-+ .+...+.+-|.|..|..++.
T Consensus 103 Prsi~v~l~~dLvd----~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~i~~~~~ 162 (509)
T smart00350 103 PRSVDVILDGDLVD----KAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANHVRKLDY 162 (509)
T ss_pred CcEEEEEEcccccC----cccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeEEEEccc
Confidence 35689999999976 5789999999999998755221 22223556677777776543
No 110
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=42.68 E-value=1.3e+02 Score=34.72 Aligned_cols=68 Identities=16% Similarity=0.127 Sum_probs=48.4
Q ss_pred CCcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhH--HHHHhhcCCCCeEEEEEEeeecce
Q 024247 66 QLENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMA--QLCQKHLKPNDFIYVTGQLHSYSK 139 (270)
Q Consensus 66 ~l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLA--E~~~~yLkKGd~V~VsGrL~t~sy 139 (270)
.-.+.|++.|.|-. .| .+|+.+..+.|. + .|+-|.|..|.+-. .....-+++|+.|.|.|++..+.|
T Consensus 234 ~~~~~v~i~G~if~-~e~~~~k~~~~~~~~~~t--d----~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~ 306 (1437)
T PRK00448 234 EEERRVVVEGYVFK-VEIKELKSGRHILTFKIT--D----YTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTF 306 (1437)
T ss_pred ccCCeEEEEEEEEE-EEEEeccCCCEEEEEEEE--c----CCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCC
Confidence 34578999999853 44 788777666653 3 24457788777322 123467999999999999999888
Q ss_pred e
Q 024247 140 V 140 (270)
Q Consensus 140 ~ 140 (270)
.
T Consensus 307 ~ 307 (1437)
T PRK00448 307 T 307 (1437)
T ss_pred C
Confidence 5
No 111
>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=42.02 E-value=88 Score=26.13 Aligned_cols=70 Identities=20% Similarity=0.213 Sum_probs=46.1
Q ss_pred cceEEEEEEcCC--CC--c--cCCeeEEEEEEEEcCCCCCCC---eeEEEEEechhHHHHHhhcCC-CCeEEEEEEeeec
Q 024247 68 ENSVNFIGTVVR--PL--E--RSNVFGVYTLLHVKNSHSDRG---FDILLAVGGDMAQLCQKHLKP-NDFIYVTGQLHSY 137 (270)
Q Consensus 68 ~NsV~LIGrLg~--DP--E--~~G~~va~fsLAV~~~~~~~t---~wI~Vv~wGkLAE~~~~yLkK-Gd~V~VsGrL~t~ 137 (270)
-..|.+||=|.. .| . .++..++.++| ++.+..... .-+.|.+|.+..+.+-. ++. ||.|.+. +++..
T Consensus 12 ~~~vnvigVV~~~~~p~~~~t~g~D~~~tl~i-~D~S~~~~~~~~~~l~v~iF~~~~~~LP~-v~~~GDii~l~-r~kv~ 88 (146)
T PF02765_consen 12 GKFVNVIGVVVDFSPPNPKKTRGTDYMCTLTI-TDPSLNDSNQKLSGLTVNIFRPHKESLPN-VKSVGDIIRLR-RVKVQ 88 (146)
T ss_dssp SEEEEEEEEEEEEEEECTEEESSSCEEEEEEE-EBTTCSCSSCCCCEEEEEEEESSHHHSCT-TCSTTHEEEEE-EEEEE
T ss_pred CCEEEEEEEEEEccCCcceEcCCCcEEEEEEE-ECCCCCccccccCCEEEEEECCCHHHCCC-CCCCCCEEEEE-EEEEE
Confidence 346777777762 23 2 34566777776 344332222 67999999888887754 555 9988886 78888
Q ss_pred cee
Q 024247 138 SKV 140 (270)
Q Consensus 138 sy~ 140 (270)
.|.
T Consensus 89 ~~~ 91 (146)
T PF02765_consen 89 SYN 91 (146)
T ss_dssp EET
T ss_pred EEC
Confidence 884
No 112
>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=41.75 E-value=62 Score=30.22 Aligned_cols=88 Identities=16% Similarity=0.097 Sum_probs=52.4
Q ss_pred CCccccCCCCcceEEEEEEcCCCCc---cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHH---HHhhcCCCCeEEEE
Q 024247 58 PTTIKWQPQLENSVNFIGTVVRPLE---RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQL---CQKHLKPNDFIYVT 131 (270)
Q Consensus 58 P~~I~~~~~l~NsV~LIGrLg~DPE---~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~---~~~yLkKGd~V~Vs 131 (270)
..-+=|.-.-+|.|.|+|.|..--+ .+.+ +..+.++++.. ...+.|+++....-. -..-+ -|+.|.|.
T Consensus 56 ~~~~f~~NhPI~~v~i~G~Vv~~~~~~~~~~~---~~~l~iDD~Sg--~~~i~~~~~~~~~~~~~l~~~~~-~G~~V~Vk 129 (256)
T PF10451_consen 56 QNIYFYNNHPIRWVRIVGVVVGIDYKWIENED---RIILTIDDSSG--ANTIECKCSKSSYLSMGLPINDL-IGKVVEVK 129 (256)
T ss_dssp TT-EEETTEEE-EEEEEEEEEEEEEEE-BBTC---EEEEEEE-SSC--S-EEEEEEEHHHHHCCCHHCTT--TT-EEEEE
T ss_pred CCEEEECCcccEEEEEEEEEEEEEEEeecccc---eEEEEEeCCCC--ceeEEEEEEcccccccCCCccCC-CCcEEEEE
Confidence 4445555566899999999987443 2222 24445666541 117899999763211 12334 89999999
Q ss_pred EEeeecceecCCCcEEEEEEEEEEEEEeeec
Q 024247 132 GQLHSYSKVDKNGKLCLCYKVVVEDFNYVRE 162 (270)
Q Consensus 132 GrL~t~sy~dkdG~kr~~~eVvV~~v~Fl~~ 162 (270)
|.+. +-..++.|+.|..+..
T Consensus 130 G~vs-----------r~~~ql~ve~i~~~~~ 149 (256)
T PF10451_consen 130 GTVS-----------RNERQLDVERIELVRD 149 (256)
T ss_dssp EEEE-----------SSSEEEEEEEEEEETS
T ss_pred EEEc-----------cCcEEEEEEEEEccCC
Confidence 9999 1133677777777754
No 113
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=41.15 E-value=80 Score=32.58 Aligned_cols=78 Identities=22% Similarity=0.300 Sum_probs=50.6
Q ss_pred EEEEEEcCCCCccCCeeEEEEEEEEcCCCCCCCeeEEEEEechh------HHHHHhhcCCCCeEEEEEEeeecceecCCC
Q 024247 71 VNFIGTVVRPLERSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM------AQLCQKHLKPNDFIYVTGQLHSYSKVDKNG 144 (270)
Q Consensus 71 V~LIGrLg~DPE~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL------AE~~~~yLkKGd~V~VsGrL~t~sy~dkdG 144 (270)
|++.|||.+- ..+|...+++.|.-. ..-++|++--+- -+...++|++||.|.|+|...- .+-|
T Consensus 107 ~svaGRI~s~-R~sGsKL~Fydl~~~------g~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgr----t~~g 175 (560)
T KOG1885|consen 107 VSVAGRIHSK-RESGSKLVFYDLHGD------GVKLQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGR----TKSG 175 (560)
T ss_pred eeeeeeEeee-eccCCceEEEEEecC------CeEEEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCc----CCCc
Confidence 8899999863 245656777766422 112455544332 2457789999999999996642 2334
Q ss_pred cEEEEEEEEEEEEEeeecC
Q 024247 145 KLCLCYKVVVEDFNYVREC 163 (270)
Q Consensus 145 ~kr~~~eVvV~~v~Fl~~~ 163 (270)
-..|++++|..|...
T Consensus 176 ----ELSi~~~~~~lLspc 190 (560)
T KOG1885|consen 176 ----ELSIIPNEIILLSPC 190 (560)
T ss_pred ----eEEEeecchheecch
Confidence 457888998777554
No 114
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=40.86 E-value=1.4e+02 Score=30.22 Aligned_cols=64 Identities=16% Similarity=0.079 Sum_probs=46.9
Q ss_pred CcceEEEEEEcCCCCc--cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHH--HHhhcCCCCeEEEEEEeeecc
Q 024247 67 LENSVNFIGTVVRPLE--RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQL--CQKHLKPNDFIYVTGQLHSYS 138 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE--~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~--~~~yLkKGd~V~VsGrL~t~s 138 (270)
..-+..+.|++..+|. .+|..+... ++. .--|.|++|-.+.+. ++..|.+||.|.|.|.++...
T Consensus 265 ~~~~~~v~g~v~~~p~~ieGghv~v~i----~d~----~G~I~~~A~eptk~fr~~a~~L~pGD~i~~~G~~~~~~ 332 (421)
T COG1571 265 DYSKYRVVGRVEAEPRAIEGGHVVVEI----TDG----EGEIGAVAFEPTKEFRELARKLIPGDEITVYGSVKPGT 332 (421)
T ss_pred hccceEEEEEEecccEEeeCCEEEEEe----cCC----CceEEEEEecccccchHHHHhcCCCCEEEEecCccccc
Confidence 6778899999999998 666544322 221 225889998877653 557899999999999887543
No 115
>PLN02532 asparagine-tRNA synthetase
Probab=40.29 E-value=77 Score=33.52 Aligned_cols=55 Identities=15% Similarity=0.115 Sum_probs=40.7
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCcEEEEEEEEEEEEEeeecCC
Q 024247 105 DILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 105 wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~~~eVvV~~v~Fl~~~~ 164 (270)
.++||+-+..+... +.|+.|+.|.|+|.++.+. +.+ ....+||.|++|..|....
T Consensus 148 ~lQvVv~~~~~~~~-~~L~~Es~V~V~G~V~~~~---~~~-~~g~iEl~v~~i~VLg~a~ 202 (633)
T PLN02532 148 SLQVVVDSALAPLT-QLMATGTCILAEGVLKLPL---PAQ-GKHVIELEVEKILHIGTVD 202 (633)
T ss_pred ceEEEEeCCcccHh-hcCCCceEEEEEEEEEecC---CCC-CCCcEEEEeeEEEEEecCC
Confidence 38999987765333 7899999999999998751 111 1235899999999998643
No 116
>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=38.12 E-value=19 Score=30.02 Aligned_cols=24 Identities=33% Similarity=0.562 Sum_probs=21.0
Q ss_pred hhHHHHHhhcCCCCeEEEEEEeee
Q 024247 113 DMAQLCQKHLKPNDFIYVTGQLHS 136 (270)
Q Consensus 113 kLAE~~~~yLkKGd~V~VsGrL~t 136 (270)
++|+.+++.|++|+.|+++|.|-.
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGa 26 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGA 26 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTS
T ss_pred HHHHHHHHhCCCCCEEEEECCCCC
Confidence 589999999999999999998864
No 117
>smart00528 HNS Domain in histone-like proteins of HNS family.
Probab=36.60 E-value=49 Score=23.13 Aligned_cols=33 Identities=21% Similarity=0.551 Sum_probs=24.4
Q ss_pred CCCCCCCCCccCC-CCceeecCC-CCCccHHHhhhh
Q 024247 211 KLYPGAPDFKHKS-TGEALWLDP-KDPPWVKKQLQR 244 (270)
Q Consensus 211 K~n~~~pDFkhk~-tg~~lwl~~-~~p~wv~~~l~~ 244 (270)
|+.+..|-|.+.+ +|+ -|=.. ..|.|+.+.|+.
T Consensus 3 ~~~~~~~KYr~p~~~g~-tWsGrGr~P~W~~~~l~~ 37 (46)
T smart00528 3 KRAARPAKYRYPDNNGE-TWSGRGRTPRWLAAALDS 37 (46)
T ss_pred CCCCCCCccCCCCCCCC-cccCCCCCCHHHHHHHHc
Confidence 4455667778765 787 89974 789999988753
No 118
>PLN02603 asparaginyl-tRNA synthetase
Probab=35.62 E-value=1.4e+02 Score=31.00 Aligned_cols=54 Identities=15% Similarity=0.161 Sum_probs=37.7
Q ss_pred eEEEEEechhHH--HH-HhhcCCCCeEEEEEEeeecceecCCCcEEEEEEEEEEEEEeeecCC
Q 024247 105 DILLAVGGDMAQ--LC-QKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 105 wI~Vv~wGkLAE--~~-~~yLkKGd~V~VsGrL~t~sy~dkdG~kr~~~eVvV~~v~Fl~~~~ 164 (270)
-++|++-.+.+. .+ ...|..|+.|.|+|.+... +.|+ ..+||.|+++..|....
T Consensus 138 ~lQ~v~~~~~~~~~~l~~~~l~~gs~V~V~G~v~~~----~~~~--~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 138 NMQCVMTPDAEGYDQVESGLITTGASVLVQGTVVSS----QGGK--QKVELKVSKIVVVGKSD 194 (565)
T ss_pred eEEEEEECcHHHHHHHhhcCCCCCCEEEEEEEEEec----CCCC--ccEEEEEeEEEEEECCC
Confidence 478887544321 11 1248899999999999853 2333 36899999999998764
No 119
>COG3689 Predicted membrane protein [Function unknown]
Probab=33.95 E-value=1.8e+02 Score=27.75 Aligned_cols=84 Identities=17% Similarity=0.173 Sum_probs=54.3
Q ss_pred eEEEEEEcCCCCc-c-CCeeEEEEEEEE--cCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceecCCCc
Q 024247 70 SVNFIGTVVRPLE-R-SNVFGVYTLLHV--KNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGK 145 (270)
Q Consensus 70 sV~LIGrLg~DPE-~-~G~~va~fsLAV--~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~dkdG~ 145 (270)
+|.++|.|-+|.- + +--++++|.|.. -+.. ..=..|.+ + + ..-++..+.|.|+|+|.+..+.+.
T Consensus 177 ~Ie~tGFVy~~~~~~~N~lflaRFgiicC~ADa~---vygl~v~~--~---~-~~~y~ndtWltvkGtl~~e~~~~~--- 244 (271)
T COG3689 177 KIEFTGFVYNDESFPKNYLFLARFGIICCAADAG---VYGLLVEL--D---N-QTDYKNDTWLTVKGTLSSEYLSDF--- 244 (271)
T ss_pred eEEEEEEEECCCCCCcceeehhhhheeeeeccce---eEEEEEEc--c---c-cccCCCCceEEEEeEEEeeecCch---
Confidence 6889999998776 4 445666766532 2222 11112221 1 1 235788999999999999887653
Q ss_pred EEEEEEEEEEEEEeeecCCC
Q 024247 146 LCLCYKVVVEDFNYVRECGQ 165 (270)
Q Consensus 146 kr~~~eVvV~~v~Fl~~~~q 165 (270)
+....-|.|++++-+.++..
T Consensus 245 ~~~ipvi~v~sv~~I~kP~n 264 (271)
T COG3689 245 KKRIPVIEVDSVEVIPKPAN 264 (271)
T ss_pred hhcCcEEEeeeeeecCCCCC
Confidence 34466788999998876653
No 120
>PRK10646 ADP-binding protein; Provisional
Probab=33.45 E-value=32 Score=29.72 Aligned_cols=26 Identities=23% Similarity=0.252 Sum_probs=22.9
Q ss_pred chhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 112 GDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 112 GkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
.++|+.+++.|+.|+.|++.|.|-..
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaG 40 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAG 40 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCC
Confidence 35799999999999999999999753
No 121
>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=32.33 E-value=1.6e+02 Score=33.57 Aligned_cols=67 Identities=13% Similarity=0.082 Sum_probs=47.9
Q ss_pred CcceEEEEEEcCCCCc----cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHH--HHHhhcCCCCeEEEEEEeeeccee
Q 024247 67 LENSVNFIGTVVRPLE----RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQ--LCQKHLKPNDFIYVTGQLHSYSKV 140 (270)
Q Consensus 67 l~NsV~LIGrLg~DPE----~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE--~~~~yLkKGd~V~VsGrL~t~sy~ 140 (270)
-.+.|++-|.|-. .| .+|+.+..+.|. + .|+-|.|..|.+.-+ .....+++|+.|.|.|.+..++|.
T Consensus 6 ~~~~~~~~g~i~~-~~~~~~~~~~~~~~~~~~--d----~~~s~~~k~f~~~~~~~~~~~~~~~g~~~~~~g~~~~d~~~ 78 (1213)
T TIGR01405 6 EENRVKIEGYIFK-IEIKELKSGRTLLKIKVT--D----YTDSLILKKFLKSEEDPEKFDGIKIGKWVRARGKIELDNFS 78 (1213)
T ss_pred cCCeEEEEEEEEE-EEeEeccCCCEEEEEEEE--c----CCCCEEEEEecccccchHHHhhcCCCcEEEEEEEEeccCCC
Confidence 4578999999863 33 788877666653 3 244577888874221 233669999999999999998885
No 122
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=32.00 E-value=38 Score=29.39 Aligned_cols=25 Identities=20% Similarity=0.368 Sum_probs=22.3
Q ss_pred hhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 113 DMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 113 kLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
++|+.+++.|++||.|+++|-|-..
T Consensus 13 ~lg~~l~~~l~~g~Vv~L~GdLGAG 37 (149)
T COG0802 13 ALGERLAEALKAGDVVLLSGDLGAG 37 (149)
T ss_pred HHHHHHHhhCCCCCEEEEEcCCcCC
Confidence 5789999999999999999998753
No 123
>PRK07218 replication factor A; Provisional
Probab=31.03 E-value=1.4e+02 Score=30.04 Aligned_cols=59 Identities=19% Similarity=0.110 Sum_probs=39.9
Q ss_pred cceEEEEEEcCCCCc----cCCe--eEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecce
Q 024247 68 ENSVNFIGTVVRPLE----RSNV--FGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSK 139 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE----~~G~--~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy 139 (270)
+..|.++|+|..=.+ .+|. .+....|+ ++|--|++++|++++ |+.||-|.|.+-- ++.|
T Consensus 68 ~~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~ig------DeTG~Ir~tlW~~~~------l~~Gdvv~I~na~-vre~ 132 (423)
T PRK07218 68 DKNVTVTGRVLTIGERSIRYQGDDHVIYEGILA------DETGTISYTAWKDFG------LSPGDTVTIGNAG-VREW 132 (423)
T ss_pred CceeEEEEEEEEecceeEecCCCceEEEEEEEE------CCCCeEEEEEECCCC------CCCCCEEEEeccE-eecc
Confidence 578999999874332 3342 34444444 246679999999774 9999999998733 2445
No 124
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=30.72 E-value=1.3e+02 Score=33.38 Aligned_cols=55 Identities=22% Similarity=0.157 Sum_probs=38.4
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceec----CCCcEEEEEEEEEEEEEeeec
Q 024247 104 FDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVD----KNGKLCLCYKVVVEDFNYVRE 162 (270)
Q Consensus 104 ~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~d----kdG~kr~~~eVvV~~v~Fl~~ 162 (270)
--+.|++.++|++ .++.||+|.|.|-++...-.. +.....+.+-|.|..++.+..
T Consensus 346 rsi~v~l~dDLVD----~v~PGDrV~VtGIl~~~~~~~~~~~~~~~~~~~~yl~~~~i~~~~~ 404 (915)
T PTZ00111 346 EVINLNLYDDLID----SVKTGDRVTVVGILKVTPIRTSTTRRTLKSLYTYFVNVIHVKVINS 404 (915)
T ss_pred ceEEEEEecchhc----cCCCCCEEEEEEEEEeccccccccccccccccceEEEEEEEEEecc
Confidence 4589999999976 578999999999998653211 112234556677777777654
No 125
>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=29.22 E-value=75 Score=25.81 Aligned_cols=61 Identities=15% Similarity=0.131 Sum_probs=29.0
Q ss_pred EEEEEEcCCCCc-cCCeeEEEEEEEEcCCCCCCCeeEEEEEechh-HHHHHhhcCCCCeEEEEEEeeec
Q 024247 71 VNFIGTVVRPLE-RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDM-AQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 71 V~LIGrLg~DPE-~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkL-AE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
|.+.|.|.. .. ..+..+ +++.... .....+.|.+-.+. .......|+|||.|.|.|.....
T Consensus 70 i~vtG~V~~-I~~~~~~~~--~~~~~~~---~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~ 132 (144)
T PF12869_consen 70 IEVTGTVSS-IDKGFGDNY--VVLLGTE---NGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGY 132 (144)
T ss_dssp EEEEEEEEE-EEE-STT-E--EEEEE-T---T-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE----
T ss_pred EEEEEEEEE-EEEcCCCcE--EEEccCC---CCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEee
Confidence 677787763 33 223322 3332221 22345667776665 33445679999999999998755
No 126
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=28.68 E-value=3.8e+02 Score=22.99 Aligned_cols=85 Identities=16% Similarity=0.103 Sum_probs=53.7
Q ss_pred CCcce-EEEEEEcCCCCccCCeeEEEEEEEEcCCC------CCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecc
Q 024247 66 QLENS-VNFIGTVVRPLERSNVFGVYTLLHVKNSH------SDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYS 138 (270)
Q Consensus 66 ~l~Ns-V~LIGrLg~DPE~~G~~va~fsLAV~~~~------~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~s 138 (270)
.+-++ |.|-|.+. +.+.++..+..|.|.=.-+. ...+..|-|.+=+...- -.--+.|.|+|+|+...
T Consensus 52 ~L~Gk~V~i~Gf~v-Ple~~~~~v~eFlLvP~~gaC~h~PpPppNqiV~V~~~~~~~~-----~~~~~pv~V~G~l~~~~ 125 (146)
T PF11736_consen 52 ALDGKQVRIPGFMV-PLEQEEGKVTEFLLVPYFGACIHVPPPPPNQIVHVKMPKPIPV-----DSLYDPVWVEGTLKVER 125 (146)
T ss_pred HhCCCEEEEeeEEE-eeccCCCcEEEEEEeccCCcCcCCCCCCCccEEEEEeCCCccc-----cccceeEEEEEEEEecc
Confidence 45444 88889987 44544445667776522111 34667788877654321 12347999999999988
Q ss_pred eecCCCcEEEEEEEEEEEEE
Q 024247 139 KVDKNGKLCLCYKVVVEDFN 158 (270)
Q Consensus 139 y~dkdG~kr~~~eVvV~~v~ 158 (270)
..+ +-....|.+.++.|.
T Consensus 126 ~~~--~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 126 SSS--DLGTSGYSMDADSVE 143 (146)
T ss_pred ccc--hheeEEEEEEeeEEE
Confidence 754 444667777777764
No 127
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=28.65 E-value=1.8e+02 Score=32.97 Aligned_cols=63 Identities=13% Similarity=0.105 Sum_probs=48.0
Q ss_pred eEEEEEEcCCCCc---c-CCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecc
Q 024247 70 SVNFIGTVVRPLE---R-SNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYS 138 (270)
Q Consensus 70 sV~LIGrLg~DPE---~-~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~s 138 (270)
.++++|-|..=.+ . +|..++..+|. + ++--+.|++|....+.....+..|..++|.|+++.+.
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~--D----~~g~~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~~ 1044 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLE--D----ETGILEVVVFPSEYERYRRLLLEGRLLIVKGKVQRRE 1044 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCCEEEEEEEe--c----CCCcEEEEEcHHHHHHHHHHhccCcEEEEEEEEEecc
Confidence 4667777765444 3 68778777764 2 1225789999999999999999999999999999753
No 128
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=28.08 E-value=50 Score=27.79 Aligned_cols=25 Identities=16% Similarity=0.234 Sum_probs=22.4
Q ss_pred hhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 113 DMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 113 kLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
++|+.+++.|++|+.|.+.|.|-..
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaG 34 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAG 34 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCC
Confidence 6899999999999999999988753
No 129
>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=27.85 E-value=45 Score=28.59 Aligned_cols=23 Identities=22% Similarity=0.335 Sum_probs=20.3
Q ss_pred EechhHHHHHhhcCCCCeEEEEE
Q 024247 110 VGGDMAQLCQKHLKPNDFIYVTG 132 (270)
Q Consensus 110 ~wGkLAE~~~~yLkKGd~V~VsG 132 (270)
.-|.||..+++.|.-||.|.|.-
T Consensus 9 vlGRLAs~IA~~L~~Gd~VvViN 31 (142)
T TIGR01077 9 ILGRLASVVAKQLLNGEKVVVVN 31 (142)
T ss_pred chHHHHHHHHHHHhcCCEEEEEe
Confidence 45899999999999999998865
No 130
>PF12101 DUF3577: Protein of unknown function (DUF3577); InterPro: IPR021960 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 143 to 307 amino acids in length.
Probab=26.33 E-value=4.2e+02 Score=22.80 Aligned_cols=94 Identities=18% Similarity=0.185 Sum_probs=62.1
Q ss_pred EEEEEEcCCCCc---cCCe-eEEEEEEEEcCC-CCCCCeeEEEEEechhHHH----HHhhcCCCCeEEEEEE---eeecc
Q 024247 71 VNFIGTVVRPLE---RSNV-FGVYTLLHVKNS-HSDRGFDILLAVGGDMAQL----CQKHLKPNDFIYVTGQ---LHSYS 138 (270)
Q Consensus 71 V~LIGrLg~DPE---~~G~-~va~fsLAV~~~-~~~~t~wI~Vv~wGkLAE~----~~~yLkKGd~V~VsGr---L~t~s 138 (270)
++=||.|-+-=+ ..|. ++|-+.-|..-. ...+-.+|.|.+=|+-|.. |.+.+..+..|+|.=+ |..+.
T Consensus 14 t~GiGYLnriR~V~~~kg~pFlac~I~AL~G~~d~~ey~~fD~~V~G~eA~~Lv~r~~~av~~~~KVli~FrlgDl~~d~ 93 (137)
T PF12101_consen 14 TTGIGYLNRIREVTPRKGDPFLACTIAALRGPADNPEYRYFDCRVVGEEAKELVRRCQKAVDEDKKVLIGFRLGDLWADT 93 (137)
T ss_pred EeeEEEeccceEccCCCCCeeEEEEeeeeecCCCCccEEEEEEEEecHHHHHHHHHHHhhcccCCcEEEEEEecCCceee
Confidence 456788875433 5676 555444444321 2334568999999998875 4455667888887644 45666
Q ss_pred ee----cCCCcEEEEEEEEEEEEEeeecCC
Q 024247 139 KV----DKNGKLCLCYKVVVEDFNYVRECG 164 (270)
Q Consensus 139 y~----dkdG~kr~~~eVvV~~v~Fl~~~~ 164 (270)
|+ ++.|+...+.+-..=.|.+|.-..
T Consensus 94 f~~~~G~~~Ge~g~sLKgRLl~i~~iKVdg 123 (137)
T PF12101_consen 94 FTYKKGERAGEPGASLKGRLLKIKWIKVDG 123 (137)
T ss_pred EEeccCCcCCccceeeEEEEEEEEEEEECC
Confidence 66 678998888887777777775443
No 131
>PRK06386 replication factor A; Reviewed
Probab=24.88 E-value=2.2e+02 Score=28.08 Aligned_cols=75 Identities=15% Similarity=0.191 Sum_probs=49.5
Q ss_pred cceEEEEEEcCCCCc----cCC--eeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecceec
Q 024247 68 ENSVNFIGTVVRPLE----RSN--VFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVD 141 (270)
Q Consensus 68 ~NsV~LIGrLg~DPE----~~G--~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~sy~d 141 (270)
+..|++.|+|..-++ .+| ..+....|+ ++|--|++++|++ .|..||-|.|.+-- .+.|.
T Consensus 117 ~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg------DeTGrIr~TlW~~-------~l~eGd~v~i~na~-v~e~~- 181 (358)
T PRK06386 117 TPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE------DDTARVRISSFGK-------PLEDNRFVRIENAR-VSQYN- 181 (358)
T ss_pred CCceEEEEEEEEccCceEecCCCccEEEEEEEE------cCCCeEEEEEccc-------cccCCCEEEEeeeE-EEccC-
Confidence 577899999976555 333 234444443 2466799999996 48999999999843 34442
Q ss_pred CCCcEEEEEEEEEEEEEeeecC
Q 024247 142 KNGKLCLCYKVVVEDFNYVREC 163 (270)
Q Consensus 142 kdG~kr~~~eVvV~~v~Fl~~~ 163 (270)
| .++|.+....-|...
T Consensus 182 --G----~~el~v~~~t~I~~~ 197 (358)
T PRK06386 182 --G----YIEISVGNKSVIKEV 197 (358)
T ss_pred --C----eEEEEeCCeEEEEEC
Confidence 2 456677766666553
No 132
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=24.82 E-value=60 Score=28.00 Aligned_cols=23 Identities=17% Similarity=0.293 Sum_probs=20.3
Q ss_pred EechhHHHHHhhcCCCCeEEEEE
Q 024247 110 VGGDMAQLCQKHLKPNDFIYVTG 132 (270)
Q Consensus 110 ~wGkLAE~~~~yLkKGd~V~VsG 132 (270)
.-|.||..++..|.-||.|.|.-
T Consensus 13 vlGRLAs~IA~~L~~Gd~VVViN 35 (146)
T PRK06394 13 ILGRLASYVAKRLLEGEEVVIVN 35 (146)
T ss_pred chHHHHHHHHHHHhCCCEEEEEe
Confidence 46889999999999999998865
No 133
>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=23.99 E-value=1.7e+02 Score=21.93 Aligned_cols=32 Identities=19% Similarity=0.341 Sum_probs=24.2
Q ss_pred CeeEEEEEe--chhHHHHHhhcCCCCeEEEEEEee
Q 024247 103 GFDILLAVG--GDMAQLCQKHLKPNDFIYVTGQLH 135 (270)
Q Consensus 103 t~wI~Vv~w--GkLAE~~~~yLkKGd~V~VsGrL~ 135 (270)
..-|-|... |.....+. .|+.||.|.|+|=+-
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 444556666 77888784 599999999999653
No 134
>COG0677 WecC UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]
Probab=22.64 E-value=72 Score=32.24 Aligned_cols=25 Identities=20% Similarity=0.212 Sum_probs=21.8
Q ss_pred EEEechhHHHHHhhcCCCCeEEEEE
Q 024247 108 LAVGGDMAQLCQKHLKPNDFIYVTG 132 (270)
Q Consensus 108 Vv~wGkLAE~~~~yLkKGd~V~VsG 132 (270)
+.+-.+.|+.++.+|+|||+|.++-
T Consensus 104 ls~v~~aa~sIa~~L~kG~LVIlES 128 (436)
T COG0677 104 LSYVESAARSIAPVLKKGDLVILES 128 (436)
T ss_pred hHHHHHHHHHHHHhcCCCCEEEEec
Confidence 5566778999999999999999875
No 135
>cd04486 YhcR_OBF_like YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate nucleosides. YhcR appears to be the major Ca2+ activated nuclease of B. subtilis. YhcR may be localized in the cell wall.
Probab=22.45 E-value=89 Score=23.70 Aligned_cols=19 Identities=26% Similarity=0.510 Sum_probs=16.1
Q ss_pred HhhcCCCCeEEEEEEeeec
Q 024247 119 QKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 119 ~~yLkKGd~V~VsGrL~t~ 137 (270)
...++.||+|.|+|++...
T Consensus 42 ~~~~~~Gd~V~vtG~v~ey 60 (78)
T cd04486 42 GADVAVGDLVRVTGTVTEY 60 (78)
T ss_pred CCCCCCCCEEEEEEEEEee
Confidence 4678999999999999754
No 136
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=21.34 E-value=3.1e+02 Score=30.62 Aligned_cols=61 Identities=15% Similarity=0.047 Sum_probs=43.7
Q ss_pred eEEEEEEcCCCCc--cCCeeEEEEEEEEcCCCCCCCeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 024247 70 SVNFIGTVVRPLE--RSNVFGVYTLLHVKNSHSDRGFDILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 137 (270)
Q Consensus 70 sV~LIGrLg~DPE--~~G~~va~fsLAV~~~~~~~t~wI~Vv~wGkLAE~~~~yLkKGd~V~VsGrL~t~ 137 (270)
.|.++|-|..=-. ..|+.++.+++. + .+.-+.|++|.+.-+.+.. |.+|+.++|+|+.+.+
T Consensus 899 ~~~v~g~i~~~~~~~K~g~~maf~~~e--D----~~~~~e~~~F~~~~~~~~~-l~~~~~~~~~~~~~~~ 961 (973)
T PRK07135 899 EYRLAIEVKNVKRLRKANKEYKKVILS--D----DSVEITIFVNDNDYLLFET-LKKGDIYEFLISKSKN 961 (973)
T ss_pred eEEEEEEEEEEEEEeeCCCeEEEEEEE--E----CCCcEEEEEcHHHHHHHHH-hhcCCEEEEEEEEcCC
Confidence 4667776664222 567777777764 2 2334789999998887775 9999999999988754
No 137
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=21.29 E-value=1e+02 Score=26.20 Aligned_cols=34 Identities=21% Similarity=0.481 Sum_probs=26.6
Q ss_pred CCCCCCCCCCccCC-CCc-eeecC-CCCCccHHHhhh
Q 024247 210 NKLYPGAPDFKHKS-TGE-ALWLD-PKDPPWVKKQLQ 243 (270)
Q Consensus 210 ~K~n~~~pDFkhk~-tg~-~lwl~-~~~p~wv~~~l~ 243 (270)
.|+.|+-|-|+|.| +|+ .-|=. ...|.|+...|+
T Consensus 88 ~kr~~~p~KYr~~d~~G~~kTWTGrGR~P~wi~~al~ 124 (134)
T PRK10328 88 KKRQPRPAKYRFTDVNGETKTWTGQGRTPKPIAQALA 124 (134)
T ss_pred cCCCCCCCccCCCCCCCCcCcccCCCCCcHHHHHHHH
Confidence 45678888899854 775 79998 478999998874
No 138
>cd00392 Ribosomal_L13 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.
Probab=21.24 E-value=74 Score=26.20 Aligned_cols=15 Identities=33% Similarity=0.224 Sum_probs=12.6
Q ss_pred EechhHHHHHhhcCC
Q 024247 110 VGGDMAQLCQKHLKP 124 (270)
Q Consensus 110 ~wGkLAE~~~~yLkK 124 (270)
.-|.||..+++.|.-
T Consensus 10 ~lGRlAs~iA~~L~g 24 (114)
T cd00392 10 VLGRLASKVAKLLLG 24 (114)
T ss_pred chHHHHHHHHHHHcC
Confidence 357899999999986
Done!