Query 028045
Match_columns 214
No_of_seqs 140 out of 1042
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 05:23:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028045.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028045hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06642 single-stranded DNA-b 100.0 5.5E-31 1.2E-35 215.9 16.7 120 81-203 1-122 (152)
2 PRK06752 single-stranded DNA-b 100.0 6.2E-31 1.3E-35 204.8 15.9 109 83-201 1-109 (112)
3 PRK09010 single-stranded DNA-b 100.0 6.3E-31 1.4E-35 220.4 16.4 115 82-200 4-118 (177)
4 PRK06863 single-stranded DNA-b 100.0 9.6E-31 2.1E-35 217.7 16.1 114 81-201 1-114 (168)
5 PRK08763 single-stranded DNA-b 100.0 1.7E-30 3.6E-35 215.5 16.7 113 82-202 3-115 (164)
6 PRK06958 single-stranded DNA-b 100.0 1.6E-30 3.4E-35 218.7 16.6 118 81-205 1-118 (182)
7 PRK07275 single-stranded DNA-b 100.0 1.9E-30 4.1E-35 214.8 16.5 108 83-200 1-108 (162)
8 PRK13732 single-stranded DNA-b 100.0 3.4E-30 7.3E-35 215.7 17.3 118 82-204 4-121 (175)
9 PRK07459 single-stranded DNA-b 100.0 8.7E-30 1.9E-34 201.5 16.1 105 84-202 3-108 (121)
10 PRK08486 single-stranded DNA-b 100.0 8.2E-30 1.8E-34 214.5 16.6 111 83-201 1-111 (182)
11 PRK05733 single-stranded DNA-b 100.0 1.5E-29 3.3E-34 211.2 16.8 117 82-203 3-119 (172)
12 PRK06341 single-stranded DNA-b 100.0 4E-29 8.7E-34 207.6 16.9 115 83-200 4-119 (166)
13 PRK07274 single-stranded DNA-b 100.0 3.6E-29 7.8E-34 200.2 15.5 107 83-200 1-107 (131)
14 PRK06751 single-stranded DNA-b 100.0 4.8E-29 1E-33 208.4 15.6 109 83-201 1-109 (173)
15 TIGR00621 ssb single stranded 100.0 9.1E-29 2E-33 204.7 16.6 112 81-200 1-112 (164)
16 PRK08182 single-stranded DNA-b 100.0 1.9E-28 4E-33 200.1 15.7 111 83-200 1-115 (148)
17 KOG1653 Single-stranded DNA-bi 100.0 3.2E-29 7E-34 205.6 9.3 163 20-202 6-171 (175)
18 PRK06293 single-stranded DNA-b 100.0 2.7E-27 5.8E-32 195.8 15.3 104 84-200 1-104 (161)
19 PF00436 SSB: Single-strand bi 99.9 1.2E-26 2.7E-31 174.9 14.0 104 84-195 1-104 (104)
20 PRK07772 single-stranded DNA-b 99.9 3.2E-26 7E-31 193.3 15.2 105 81-188 1-105 (186)
21 COG0629 Ssb Single-stranded DN 99.9 6.2E-26 1.4E-30 187.8 13.4 114 82-200 1-116 (167)
22 PRK05813 single-stranded DNA-b 99.9 4.5E-24 9.8E-29 184.3 15.2 102 82-200 107-212 (219)
23 PRK05853 hypothetical protein; 99.9 5.4E-24 1.2E-28 176.2 13.3 94 89-187 1-94 (161)
24 PRK02801 primosomal replicatio 99.9 3.7E-23 7.9E-28 158.9 14.7 101 83-196 1-101 (101)
25 cd04496 SSB_OBF SSB_OBF: A sub 99.9 4.9E-22 1.1E-26 148.3 14.8 100 87-195 1-100 (100)
26 PRK05813 single-stranded DNA-b 99.8 9.5E-19 2.1E-23 151.2 14.9 99 83-200 7-105 (219)
27 PRK00036 primosomal replicatio 98.3 1.2E-05 2.7E-10 62.7 10.7 94 84-195 1-96 (107)
28 COG2965 PriB Primosomal replic 98.2 5.8E-05 1.3E-09 58.0 12.1 100 81-195 1-102 (103)
29 PF01336 tRNA_anti-codon: OB-f 97.2 0.0034 7.5E-08 43.6 8.7 75 87-195 1-75 (75)
30 cd04484 polC_OBF polC_OBF: A s 96.5 0.047 1E-06 40.2 10.1 68 87-172 2-70 (82)
31 cd04492 YhaM_OBF_like YhaM_OBF 96.2 0.075 1.6E-06 37.4 9.2 71 95-196 7-77 (83)
32 PRK13480 3'-5' exoribonuclease 96.0 0.058 1.3E-06 49.3 9.8 60 93-172 19-78 (314)
33 cd04489 ExoVII_LU_OBF ExoVII_L 95.9 0.16 3.5E-06 35.8 9.9 62 87-170 2-63 (78)
34 cd04474 RPA1_DBD_A RPA1_DBD_A: 95.7 0.056 1.2E-06 41.2 7.4 67 82-164 7-76 (104)
35 cd04485 DnaE_OBF DnaE_OBF: A s 95.6 0.14 3E-06 35.5 8.4 61 89-167 2-62 (84)
36 cd04487 RecJ_OBF2_like RecJ_OB 95.3 0.16 3.4E-06 36.7 7.9 73 87-195 1-73 (73)
37 PRK15491 replication factor A; 95.2 0.25 5.3E-06 46.2 11.2 91 83-197 175-268 (374)
38 cd03524 RPA2_OBF_family RPA2_O 94.9 0.31 6.7E-06 32.4 8.2 46 105-167 15-61 (75)
39 COG3390 Uncharacterized protei 94.4 0.32 6.9E-06 41.7 8.7 77 83-180 44-120 (196)
40 PRK06461 single-stranded DNA-b 94.3 0.6 1.3E-05 37.1 9.7 84 83-197 13-100 (129)
41 PRK07211 replication factor A; 94.1 0.2 4.3E-06 48.5 7.8 67 82-165 61-132 (485)
42 PRK15491 replication factor A; 94.0 0.52 1.1E-05 44.1 10.3 89 82-197 65-158 (374)
43 cd04491 SoSSB_OBF SoSSB_OBF: A 93.4 1.2 2.5E-05 32.0 9.2 59 89-167 2-64 (82)
44 PRK07211 replication factor A; 93.4 1 2.2E-05 43.8 11.2 91 82-197 169-261 (485)
45 PF11325 DUF3127: Domain of un 92.7 0.98 2.1E-05 33.9 7.9 78 89-187 2-81 (84)
46 PRK14699 replication factor A; 91.8 1.3 2.8E-05 43.0 9.6 71 82-171 65-140 (484)
47 PRK12366 replication factor A; 91.7 1.5 3.3E-05 43.7 10.3 88 82-196 71-162 (637)
48 cd04490 PolII_SU_OBF PolII_SU_ 91.6 4 8.7E-05 29.7 10.2 57 87-165 2-60 (79)
49 cd04482 RPA2_OBF_like RPA2_OBF 89.3 0.91 2E-05 34.0 5.0 75 88-199 2-78 (91)
50 PRK07373 DNA polymerase III su 89.1 3.3 7.1E-05 39.7 9.8 64 86-167 282-345 (449)
51 cd04488 RecG_wedge_OBF RecG_we 88.9 3 6.6E-05 28.1 7.2 60 89-168 2-61 (75)
52 cd04475 RPA1_DBD_B RPA1_DBD_B: 87.6 4.8 0.0001 29.9 8.0 68 87-171 2-72 (101)
53 PRK12366 replication factor A; 87.4 4.5 9.8E-05 40.4 9.9 89 85-194 292-382 (637)
54 cd04478 RPA2_DBD_D RPA2_DBD_D: 87.4 3.9 8.5E-05 29.9 7.3 75 87-197 2-79 (95)
55 TIGR00617 rpa1 replication fac 87.2 4.9 0.00011 40.0 9.9 93 82-196 188-286 (608)
56 PF13742 tRNA_anti_2: OB-fold 87.0 1.5 3.3E-05 33.2 5.0 74 84-187 21-95 (99)
57 PRK05673 dnaE DNA polymerase I 86.7 3.9 8.4E-05 43.6 9.4 65 85-167 978-1042(1135)
58 PF11506 DUF3217: Protein of u 85.3 14 0.00031 28.1 11.4 87 83-184 1-87 (104)
59 TIGR01405 polC_Gram_pos DNA po 85.3 8.7 0.00019 41.4 11.1 74 83-173 6-80 (1213)
60 PRK00448 polC DNA polymerase I 84.4 8.6 0.00019 42.1 10.7 74 83-173 235-309 (1437)
61 PRK08402 replication factor A; 83.9 11 0.00023 35.3 10.0 90 82-196 70-163 (355)
62 PRK14699 replication factor A; 83.6 10 0.00023 36.8 10.1 91 82-196 284-377 (484)
63 PRK06920 dnaE DNA polymerase I 82.2 11 0.00023 40.4 10.2 65 86-168 945-1009(1107)
64 PRK06826 dnaE DNA polymerase I 80.6 15 0.00032 39.5 10.6 65 86-168 993-1057(1151)
65 PRK07374 dnaE DNA polymerase I 80.1 15 0.00032 39.6 10.4 65 85-167 1001-1065(1170)
66 PRK00286 xseA exodeoxyribonucl 77.7 2.3 5E-05 40.0 3.4 81 84-197 23-103 (438)
67 TIGR00237 xseA exodeoxyribonuc 77.2 13 0.00028 35.4 8.2 79 84-195 17-95 (432)
68 KOG3416 Predicted nucleic acid 76.4 8.4 0.00018 31.2 5.7 79 83-186 16-100 (134)
69 PRK07279 dnaE DNA polymerase I 76.0 22 0.00049 37.7 10.2 66 85-168 885-951 (1034)
70 PRK05672 dnaE2 error-prone DNA 73.6 25 0.00054 37.4 9.9 79 86-197 955-1033(1046)
71 PF02765 POT1: Telomeric singl 68.7 38 0.00083 27.0 8.1 78 85-173 13-93 (146)
72 PRK07218 replication factor A; 68.4 52 0.0011 31.5 10.0 86 82-198 170-257 (423)
73 PF13567 DUF4131: Domain of un 67.2 39 0.00085 25.8 7.7 70 85-169 76-145 (176)
74 PRK10917 ATP-dependent DNA hel 66.8 26 0.00056 35.1 8.1 61 85-167 60-122 (681)
75 COG1570 XseA Exonuclease VII, 65.9 5.4 0.00012 38.4 2.9 94 82-210 21-114 (440)
76 cd04321 ScAspRS_mt_like_N ScAs 64.6 45 0.00097 24.1 7.1 54 136-196 31-85 (86)
77 cd04497 hPOT1_OB1_like hPOT1_O 63.6 53 0.0012 26.0 7.9 74 85-173 15-88 (138)
78 PRK06386 replication factor A; 62.0 65 0.0014 30.2 9.2 83 82-197 115-199 (358)
79 PRK07218 replication factor A; 55.9 1.2E+02 0.0027 29.0 10.1 66 82-172 66-134 (423)
80 cd04320 AspRS_cyto_N AspRS_cyt 55.3 33 0.00071 25.5 5.1 44 150-198 49-92 (102)
81 TIGR00643 recG ATP-dependent D 54.0 97 0.0021 30.7 9.5 64 85-168 33-96 (630)
82 COG1200 RecG RecG-like helicas 52.5 74 0.0016 32.4 8.3 77 85-186 61-137 (677)
83 PF03983 SHD1: SLA1 homology d 51.9 36 0.00079 24.7 4.6 33 166-199 11-43 (70)
84 cd04498 hPOT1_OB2 hPOT1_OB2: A 51.8 23 0.00051 28.3 3.9 27 134-162 60-86 (123)
85 COG2176 PolC DNA polymerase II 51.5 54 0.0012 35.7 7.4 74 82-172 237-311 (1444)
86 COG4097 Predicted ferric reduc 50.8 23 0.00051 33.8 4.3 37 134-171 276-312 (438)
87 cd04100 Asp_Lys_Asn_RS_N Asp_L 50.0 48 0.001 23.6 5.1 54 136-196 29-84 (85)
88 COG0587 DnaE DNA polymerase II 49.3 78 0.0017 34.2 8.3 67 86-169 978-1044(1139)
89 cd04481 RPA1_DBD_B_like RPA1_D 48.2 54 0.0012 24.5 5.3 37 135-172 36-76 (106)
90 PLN02903 aminoacyl-tRNA ligase 46.3 2.8E+02 0.0061 28.2 11.3 87 86-198 74-163 (652)
91 COG3111 Periplasmic protein wi 45.5 1E+02 0.0022 24.9 6.6 74 81-195 54-127 (128)
92 TIGR00459 aspS_bact aspartyl-t 45.4 3.3E+02 0.0071 27.3 11.7 87 86-198 17-104 (583)
93 cd04317 EcAspRS_like_N EcAspRS 44.8 1E+02 0.0022 24.0 6.6 87 86-198 16-104 (135)
94 cd04318 EcAsnRS_like_N EcAsnRS 44.5 94 0.002 21.9 5.9 51 136-196 31-81 (82)
95 TIGR00458 aspS_arch aspartyl-t 44.3 2.8E+02 0.0061 26.3 10.6 39 151-199 60-98 (428)
96 smart00350 MCM minichromosome 43.5 93 0.002 30.1 7.4 59 132-198 102-163 (509)
97 cd04323 AsnRS_cyto_like_N AsnR 43.2 1.2E+02 0.0026 21.6 7.2 54 136-196 29-83 (84)
98 cd04316 ND_PkAspRS_like_N ND_P 43.1 1.4E+02 0.003 22.3 7.4 54 136-199 42-98 (108)
99 cd04319 PhAsnRS_like_N PhAsnRS 41.5 85 0.0018 23.3 5.5 39 151-199 46-84 (103)
100 PF08021 FAD_binding_9: Sidero 39.3 55 0.0012 25.3 4.2 32 132-163 80-112 (117)
101 cd04322 LysRS_N LysRS_N: N-ter 37.8 1.1E+02 0.0024 22.8 5.7 35 152-198 49-83 (108)
102 PF04076 BOF: Bacterial OB fol 37.3 1.4E+02 0.0031 22.9 6.2 60 82-170 32-91 (103)
103 PF00970 FAD_binding_6: Oxidor 36.8 71 0.0015 22.9 4.3 31 133-165 62-94 (99)
104 TIGR00499 lysS_bact lysyl-tRNA 36.7 3.9E+02 0.0084 26.0 10.4 38 149-198 100-137 (496)
105 TIGR00156 conserved hypothetic 34.6 2.4E+02 0.0052 22.6 7.6 61 82-171 55-115 (126)
106 PRK10053 hypothetical protein; 33.7 2.5E+02 0.0054 22.6 7.2 62 81-171 58-119 (130)
107 PLN02532 asparagine-tRNA synth 31.6 1.7E+02 0.0038 29.6 7.2 54 135-198 148-201 (633)
108 PF02367 UPF0079: Uncharacteri 31.3 30 0.00064 27.4 1.5 22 144-165 3-24 (123)
109 PF12101 DUF3577: Protein of u 29.7 3.1E+02 0.0068 22.4 10.0 75 87-171 14-95 (137)
110 cd04483 hOBFC1_like hOBFC1_lik 29.2 64 0.0014 24.0 3.0 20 149-168 59-78 (92)
111 PRK10646 ADP-binding protein; 29.1 45 0.00097 27.5 2.3 21 145-165 17-37 (153)
112 COG0017 AsnS Aspartyl/asparagi 28.2 1.9E+02 0.004 28.0 6.6 82 85-198 17-100 (435)
113 COG0802 Predicted ATPase or ki 27.8 53 0.0011 27.1 2.5 22 145-166 14-35 (149)
114 PTZ00385 lysyl-tRNA synthetase 27.3 6.8E+02 0.015 25.6 12.1 78 86-197 109-191 (659)
115 KOG0479 DNA replication licens 27.3 90 0.002 31.8 4.4 46 149-199 223-270 (818)
116 PLN02603 asparaginyl-tRNA synt 27.2 6.4E+02 0.014 25.2 12.3 38 152-199 157-194 (565)
117 PRK12820 bifunctional aspartyl 26.7 7.2E+02 0.016 25.6 11.6 61 136-199 48-111 (706)
118 TIGR01077 L13_A_E ribosomal pr 26.2 46 0.001 27.2 1.9 23 140-163 9-31 (142)
119 PRK07135 dnaE DNA polymerase I 25.8 3.2E+02 0.007 29.1 8.3 63 86-168 899-961 (973)
120 PF10574 UPF0552: Uncharacteri 24.9 2E+02 0.0044 25.3 5.7 35 152-187 28-65 (224)
121 PRK06394 rpl13p 50S ribosomal 24.2 52 0.0011 27.0 1.8 24 140-164 13-36 (146)
122 COG3649 CRISPR system related 23.5 66 0.0014 28.7 2.4 50 132-187 98-147 (283)
123 TIGR00617 rpa1 replication fac 21.4 7E+02 0.015 24.9 9.4 33 135-171 351-383 (608)
124 PTZ00425 asparagine-tRNA ligas 21.4 8.4E+02 0.018 24.5 11.5 59 136-198 115-180 (586)
125 COG2087 CobU Adenosyl cobinami 20.6 1.4E+02 0.0029 25.5 3.6 32 131-163 52-83 (175)
No 1
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=5.5e-31 Score=215.88 Aligned_cols=120 Identities=27% Similarity=0.495 Sum_probs=107.0
Q ss_pred cc-cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeE
Q 028045 81 FR-GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (214)
Q Consensus 81 m~-~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V 159 (214)
|+ +||+|+|+||||+||++|++++|++++.|+||+++.|+++.+|++ .+.|+||+|++||+.+|+.+.++|+||++|
T Consensus 1 Ma~~~N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~--~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V 78 (152)
T PRK06642 1 MAGSLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSER--KERTEWHRVVIFSEGLVSVVERYVTKGSKL 78 (152)
T ss_pred CCCcceEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCcc--ccceeEEEEEEeChHHHHHHHHhCCCCCEE
Confidence 54 499999999999999999999999999999999999987656876 568999999999965899999999999999
Q ss_pred EEEEEeEEeeeecCCCCeEEEEEEEEEEe-CCcEEEecCCCCCCC
Q 028045 160 YVEGDIEIRVYNDSINGEVKNIPEICIRR-DGTLRLVKSGESISK 203 (214)
Q Consensus 160 ~VeGrL~tr~w~dk~dG~~r~~~eIvv~~-~g~I~~L~~~~~~~~ 203 (214)
+|+|+|+++.|+++ +|++++.++|+|+. ...|+||+++...+.
T Consensus 79 ~V~GrL~~~~y~dk-dG~~r~~~eVvv~~~~~~i~fl~~k~~~~~ 122 (152)
T PRK06642 79 YIEGSLQTRKWNDN-SGQEKYTTEVVLQNFNSQLILLDSKNSNNH 122 (152)
T ss_pred EEEEEEEeCeeECC-CCCEEEEEEEEEEecccceEeccCCCCccc
Confidence 99999999999999 99999999999983 234599987765433
No 2
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.97 E-value=6.2e-31 Score=204.77 Aligned_cols=109 Identities=18% Similarity=0.307 Sum_probs=102.3
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
+||+|+|+|||++||++|++++|.+++.|+||+++.|+++ +|++ .++||+|++||+ +|+.+.++|+||++|+|+
T Consensus 1 MmN~v~liGrl~~dPelr~t~~G~~~~~f~lAv~~~~~~~-~g~~----~t~~~~v~~wg~-~Ae~~~~~l~KG~~V~V~ 74 (112)
T PRK06752 1 MMNRVVLIGRLTKEPELYYTKQGVAYARVCVAVNRGFRNS-LGEQ----QVDFINCVVWRK-SAENVTEYCTKGSLVGIT 74 (112)
T ss_pred CceEEEEEEECcCCCEEEECCCCCEEEEEEEEECCCeEcC-CCCE----EEEEEEEEEehH-HHHHHHHhcCCCCEEEEE
Confidence 4899999999999999999999999999999999999876 4754 699999999999 999999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCCC
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGESI 201 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~~ 201 (214)
|+|+++.|+++ +|++++.++|+|+ +|+||+++...
T Consensus 75 G~l~~~~~~~~-~G~~~~~~ei~a~---~i~~l~~~~~~ 109 (112)
T PRK06752 75 GRIHTRNYEDD-QGKRIYITEVVIE---SITFLERRREG 109 (112)
T ss_pred EEEEeCccCCC-CCcEEEEEEEEEE---EEEECCCCCcc
Confidence 99999999999 9999999999999 99999887653
No 3
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=6.3e-31 Score=220.38 Aligned_cols=115 Identities=26% Similarity=0.544 Sum_probs=108.6
Q ss_pred ccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~V 161 (214)
++||+|+|+||||+||++|++++|..+++|+||+++.|+++.+|++ .+.|+||+|++||+ +|+.+.++|+||++|+|
T Consensus 4 r~~N~V~LiGrLg~DPelR~t~nG~~v~~fsVAvn~~~kd~~~Ge~--~e~t~w~~V~~fgk-~Ae~~~~~L~KGs~V~V 80 (177)
T PRK09010 4 RGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEM--KEQTEWHRVVLFGK-LAEVAGEYLRKGSQVYI 80 (177)
T ss_pred cCceEEEEEEEeCCCceEEEcCCCCEEEEEEEEEcCccccCccccc--ccceEEEEEEEehh-HHHHHHHhcCCCCEEEE
Confidence 6899999999999999999999999999999999999988767876 57899999999998 99999999999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCC
Q 028045 162 EGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGES 200 (214)
Q Consensus 162 eGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~ 200 (214)
+|+|+++.|+|+ +|++++.++|+|+..++|+||+++..
T Consensus 81 eGrL~~~~yedk-dG~~r~~~eVvv~~~~~~~~l~~r~~ 118 (177)
T PRK09010 81 EGQLRTRKWTDQ-SGQDRYTTEVVVNVGGTMQMLGGRQG 118 (177)
T ss_pred EEEEEeccccCC-CCCEEEEEEEEEecCCcEEEccCCCC
Confidence 999999999999 99999999999988899999998754
No 4
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=9.6e-31 Score=217.70 Aligned_cols=114 Identities=29% Similarity=0.486 Sum_probs=107.2
Q ss_pred cccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEE
Q 028045 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 81 m~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~ 160 (214)
|++||+|+|+||||+||++|+++||+.+++|+||+++.|++++.|++ .+.++||+|++||+ +|+++.++|+||++|+
T Consensus 1 M~~~N~V~LiGrLg~DPElR~t~nG~~va~fsVAvn~~~~d~~~Ge~--~e~t~w~~Vv~fgk-~AE~v~~~LkKGs~V~ 77 (168)
T PRK06863 1 MAGINKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGER--REVTEWHRIVFYRR-QAEVAGEYLRKGSQVY 77 (168)
T ss_pred CCCccEEEEEEEcCCCCEEEEcCCCCEEEEEEEEecCcccccCCCcc--cccceEEEEEEEhH-HHHHHHHHCCCCCEEE
Confidence 78899999999999999999999999999999999999987766776 46799999999999 9999999999999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCCC
Q 028045 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGESI 201 (214)
Q Consensus 161 VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~~ 201 (214)
|+|+|+++.|+|+ +|++++.++|+|+ +|+||+++...
T Consensus 78 VeGrL~~r~w~Dk-dG~~r~~~eI~a~---~i~~L~~r~~~ 114 (168)
T PRK06863 78 VEGRLKTRKWQDQ-NGQDRYTTEIQGD---VLQMLGGRNQR 114 (168)
T ss_pred EEEEEEeCCccCC-CCCEEEEEEEEEe---EEEECCCCCcc
Confidence 9999999999999 9999999999999 99999888653
No 5
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=1.7e-30 Score=215.52 Aligned_cols=113 Identities=27% Similarity=0.502 Sum_probs=105.7
Q ss_pred ccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~V 161 (214)
++||+|+|+||||+||++|++++|..++.|+||+++.|+++ .|++ .+.|+||+|++||+ +|+++.++|+||++|+|
T Consensus 3 r~~Nkv~LiGrLg~DPelr~t~~G~~va~fsVA~~~~~k~~-~G~~--~e~t~w~~Vv~fgk-~Ae~v~~~L~KGs~V~V 78 (164)
T PRK08763 3 RGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDR-EGNT--QERTEWHRVKFFGK-LGEIAGEYLRKGSQCYI 78 (164)
T ss_pred CcceEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecC-CCCe--eccceEEEEEEehH-HHHHHHHhcCCCCEEEE
Confidence 47999999999999999999999999999999999999887 4876 56899999999998 99999999999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCCCC
Q 028045 162 EGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGESIS 202 (214)
Q Consensus 162 eGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~~~ 202 (214)
+|+|+++.|+++ +|++++.++|+|+ +|+||+++....
T Consensus 79 eGrL~~~~y~dk-dG~kr~~~eIva~---~i~~L~~~~~~~ 115 (164)
T PRK08763 79 EGSIRYDKFTGQ-DGQERYVTEIVAD---EMQMLGGRGEGG 115 (164)
T ss_pred EEEEEeceeECC-CCCEEEEEEEEEe---EEEECCCCCCCC
Confidence 999999999999 9999999999999 999999875433
No 6
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=1.6e-30 Score=218.66 Aligned_cols=118 Identities=24% Similarity=0.427 Sum_probs=109.8
Q ss_pred cccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEE
Q 028045 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 81 m~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~ 160 (214)
|+.||+|+|+|||++||+++++++|..|++|+||+++.|+++++|++ .+.|+||+|++|++ +|+.+.++|+||++|+
T Consensus 1 Mas~N~V~LiGrLg~DPElr~t~nG~~va~fsVAv~~~~kdk~sGe~--~e~T~w~~V~~fGk-~AE~v~~~LkKGs~V~ 77 (182)
T PRK06958 1 MASVNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEF--KEATEWHRVAFFGR-LAEIVGEYLKKGSSVY 77 (182)
T ss_pred CCcccEEEEEEEecCCCeEEEcCCCCEEEEEEEEeccccccccCCcc--cccceEEEEEEehH-HHHHHHHHhCCCCEEE
Confidence 78899999999999999999999999999999999999998767887 56799999999999 9999999999999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCCCCCCC
Q 028045 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGESISKIS 205 (214)
Q Consensus 161 VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~~~~~s 205 (214)
|+|+|+++.|+|+ +|++++.++|+|+ .|+||.++..+...+
T Consensus 78 VeGrL~~~~yeDk-dG~kr~~~eVvA~---~V~fL~sr~~~~~~~ 118 (182)
T PRK06958 78 IEGRIRTRKWQGQ-DGQDRYSTEIVAD---QMQMLGGRGGSGGGG 118 (182)
T ss_pred EEEEEEeCceECC-CCcEEEEEEEEEe---EEEECCCCccCcCcc
Confidence 9999999999999 9999999999999 999999886654433
No 7
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=1.9e-30 Score=214.81 Aligned_cols=108 Identities=13% Similarity=0.299 Sum_probs=102.1
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
+||+|+|+|||++||++|++++|.+++.|+||+++.|++. .|+. .++||+|++||+ +|+.++++|+||++|+|+
T Consensus 1 M~N~v~LiGrL~~DPElr~t~sG~~v~~ftlAv~r~~~~~-~ge~----~tdfi~vv~wgk-~Ae~~~~~l~KG~~V~Ve 74 (162)
T PRK07275 1 MINNVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQ-NGER----EADFINCVIWRQ-QAENLANWAKKGALIGVT 74 (162)
T ss_pred CeeEEEEEEEECCCCeEEECCCCCEEEEEEEEEcCceecC-CCCE----eeeEEEEEEEcH-HHHHHHHHcCCCCEEEEE
Confidence 4899999999999999999999999999999999999876 4764 699999999999 999999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCC
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGES 200 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~ 200 (214)
|+|+++.|+++ +|++++.+||+|+ +|+||+++..
T Consensus 75 Grl~~r~y~dk-dG~k~~~~evva~---~i~~l~~~~~ 108 (162)
T PRK07275 75 GRIQTRNYENQ-QGQRVYVTEVVAD---NFQMLESRAT 108 (162)
T ss_pred EEEEeceEECC-CCCEEEEEEEEEe---EEEECCCCCc
Confidence 99999999999 9999999999999 9999988864
No 8
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=3.4e-30 Score=215.65 Aligned_cols=118 Identities=26% Similarity=0.546 Sum_probs=109.5
Q ss_pred ccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~V 161 (214)
++||+|+|+||||+||++|++++|..|+.|+||+++.|+++.+|++ .+.|+||+|++||+ +|+.+.++|+||+.|+|
T Consensus 4 r~mN~V~LiGrLg~DPElR~t~nG~~va~fslAvn~~~kd~~~Ge~--~e~t~w~~Vv~wgk-~Ae~v~~~L~KG~~V~V 80 (175)
T PRK13732 4 RGINKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEM--REQTEWHRVVLFGK-LAEVAGEYLRKGAQVYI 80 (175)
T ss_pred cCceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEcCccccCCCCce--ecceeEEEEEEecH-HHHHHHHhcCCCCEEEE
Confidence 4799999999999999999999999999999999999987667887 56899999999999 99999999999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCCCCCC
Q 028045 162 EGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGESISKI 204 (214)
Q Consensus 162 eGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~~~~~ 204 (214)
+|+|+++.|++ +|++++.++|+|+..|+|+||+++......
T Consensus 81 eGrL~~r~ye~--dG~kr~~~eIiv~~~g~~~fL~~~~~~~~~ 121 (175)
T PRK13732 81 EGQLRTRSWED--NGITRYVTEILVKTTGTMQMLGRAPQQNAQ 121 (175)
T ss_pred EEEEEeeeEcc--CCeEEEEEEEEEeecCeEEEecCCCCCCCC
Confidence 99999999986 799999999999988899999998775543
No 9
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=8.7e-30 Score=201.53 Aligned_cols=105 Identities=17% Similarity=0.342 Sum_probs=97.8
Q ss_pred ccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEE
Q 028045 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 84 mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeG 163 (214)
||+|+|+||||+||++|++++|+.++.|+||+++.|++ +.|+||+|++||+ +|+.+.++|+||++|+|+|
T Consensus 3 ~N~v~LiGrL~~DPelr~t~~G~~v~~fslAv~~~~~~---------~~t~w~~v~~wg~-~Ae~~~~~l~KG~~V~V~G 72 (121)
T PRK07459 3 LNSVTLVGRAGRDPEVRYFESGSVVCNLTLAVNRRSRD---------DEPDWFNLEIWGK-TAQVAADYVKKGSLIGITG 72 (121)
T ss_pred ccEEEEEEEccCCCEEEEcCCCCEEEEEEEEecccccC---------CCceEEEEEEehH-HHHHHHHHcCCCCEEEEEE
Confidence 89999999999999999999999999999999987753 2589999999999 9999999999999999999
Q ss_pred EeEEeeeecCCC-CeEEEEEEEEEEeCCcEEEecCCCCCC
Q 028045 164 DIEIRVYNDSIN-GEVKNIPEICIRRDGTLRLVKSGESIS 202 (214)
Q Consensus 164 rL~tr~w~dk~d-G~~r~~~eIvv~~~g~I~~L~~~~~~~ 202 (214)
+|+++.|+|+ + |++++.++|+|+ +|+||++++..+
T Consensus 73 ~l~~~~~~d~-d~G~~r~~~ei~a~---~i~~L~~k~~~~ 108 (121)
T PRK07459 73 SLKFDRWTDR-NTGEDRSKPVIRVD---RLELLGSKRDSE 108 (121)
T ss_pred EEEecceEcC-CCCeEEEEEEEEEe---EEEECcCCCccc
Confidence 9999999998 6 999999999999 999998775533
No 10
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=8.2e-30 Score=214.54 Aligned_cols=111 Identities=21% Similarity=0.343 Sum_probs=104.6
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
+||+|+|+|||++||++|++++|..++.|+||+++.|+++ +|++ .+.|+||+|++||+ +|+.+.++|+||++|+|+
T Consensus 1 m~N~V~LvGrL~~DPElr~t~sG~~va~fslAv~r~~~~~-~Ge~--~e~t~fi~v~~fg~-~AE~~~~~l~KG~~V~Ve 76 (182)
T PRK08486 1 MFNKVILVGNLTRDVELRYLPSGSAIATIGLATSRRFKKQ-DGEK--GEEVCFIDIRLFGR-TAEIANQYLSKGSKVLIE 76 (182)
T ss_pred CeeEEEEEEEecCCCEEEECCCCCEEEEEEEEEecceecC-CCCC--cccceEEEEEEEhH-HHHHHHHHcCCCCEEEEE
Confidence 4799999999999999999999999999999999999876 5886 57899999999999 999999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCCC
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGESI 201 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~~ 201 (214)
|+|+++.|+|+ +|++++.++|+|+ .|+||.++...
T Consensus 77 GrL~~~~y~dk-dG~~r~~~eI~a~---~v~~L~~~~~~ 111 (182)
T PRK08486 77 GRLTFESWMDQ-NGQKRSKHTITAE---SMQMLDSKSDN 111 (182)
T ss_pred EEEEeCcEECC-CCcEEEEEEEEEe---EEEECCCCCCC
Confidence 99999999999 9999999999999 99999887653
No 11
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=1.5e-29 Score=211.22 Aligned_cols=117 Identities=29% Similarity=0.526 Sum_probs=108.1
Q ss_pred ccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~V 161 (214)
++||+|+|+||||+||++|+++||..|++|+||+++.|+++++|++ .+.|+||+|++||+ +|+.+.++|+||++|+|
T Consensus 3 ~~mNkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~--~e~T~w~~Vv~fgk-~Ae~v~~~l~KGs~V~V 79 (172)
T PRK05733 3 RGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQK--VERTEWHRVSLFGK-VAEIAGEYLRKGSQVYI 79 (172)
T ss_pred CcceEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcc--cccceEEEEEEehH-HHHHHHHHhCCCCEEEE
Confidence 5799999999999999999999999999999999999987657877 56899999999998 99999999999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCCCCC
Q 028045 162 EGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGESISK 203 (214)
Q Consensus 162 eGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~~~~ 203 (214)
+|+|+++.|+ + +|++++.++|+|+..|+|+||+++...+.
T Consensus 80 eGrLr~~~y~-k-dG~~r~~~eVvvd~~g~v~~L~~~~~~~~ 119 (172)
T PRK05733 80 EGKLQTREWE-K-DGIKRYTTEIVVDMQGTMQLLGGRPQGDD 119 (172)
T ss_pred EEEEEeCcEe-c-CCEEEEEEEEEEeecCeEEECcCCCCCcC
Confidence 9999999999 7 99999999999998889999987765433
No 12
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=4e-29 Score=207.60 Aligned_cols=115 Identities=24% Similarity=0.498 Sum_probs=105.4
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
.||+|+|+|||++||++|++++|++|+.|+||+++.|+++++|++ .+.|+||+|++|++.+|+.+.++|+||++|+|+
T Consensus 4 ~mN~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~--~e~T~w~~Vv~fg~~~Ae~~~~~LkKG~~V~Ve 81 (166)
T PRK06341 4 SVNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGER--KEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYIE 81 (166)
T ss_pred cceEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcc--cccceEEEEEEeChHHHHHHHHhcCCCCEEEEE
Confidence 499999999999999999999999999999999999998766877 578999999999966899999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEe-CCcEEEecCCCC
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRR-DGTLRLVKSGES 200 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~-~g~I~~L~~~~~ 200 (214)
|+|+++.|+|+ +|++++.++|+|+. ...++||+++.+
T Consensus 82 GrL~~r~w~dk-dG~~r~~~eIiv~~~~~~l~~l~~~~~ 119 (166)
T PRK06341 82 GQLQTRKWTDQ-SGVERYSTEVVLQGFNSTLTMLDGRGE 119 (166)
T ss_pred EEEEeCcEECC-CCCEEEEEEEEEEecccceEEcccCCc
Confidence 99999999999 99999999999983 345799987743
No 13
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=3.6e-29 Score=200.19 Aligned_cols=107 Identities=19% Similarity=0.374 Sum_probs=100.2
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
+||+|+|+||||+||+++++++|..++.|+||+++.|+++ +|++ .++||+|++||+ +|+.+.++|+||++|+|+
T Consensus 1 mmN~v~LiGrL~~dPelr~t~~g~~~~~fslAv~~~~k~~-~g~~----~t~w~~v~~fg~-~Ae~v~~~l~KG~~V~V~ 74 (131)
T PRK07274 1 MYNKVILIGRLTATPELVKTANDKSVARVTLAVNRRFKNQ-NGER----EADFINVVLWGK-LAETLASYASKGSLISID 74 (131)
T ss_pred CeeEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCceecC-CCCE----EEEEEEEEEehH-HHHHHHHHcCCCCEEEEE
Confidence 5899999999999999999999999999999999999876 4764 599999999998 999999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCC
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGES 200 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~ 200 (214)
|+|+++.| ++ +|++++.++|+|+ +|+||+++..
T Consensus 75 Grl~~~~y-~k-dG~~~~~~eviv~---~i~~l~~k~~ 107 (131)
T PRK07274 75 GELRTRKY-EK-DGQTHYVTEVLCQ---SFQLLESRAQ 107 (131)
T ss_pred EEEEeccC-cc-CCcEEEEEEEEEE---EEEECcCCCc
Confidence 99999999 78 9999999999999 9999987644
No 14
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=4.8e-29 Score=208.36 Aligned_cols=109 Identities=17% Similarity=0.347 Sum_probs=102.1
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
+||+|+|+|||++||++|++++|.+|+.|+||+++.|+++ .|++ .++||+|++||+ +|+.++++|+||++|+|+
T Consensus 1 MmN~V~LiGrL~~DpelR~t~sG~~v~~fslAvnr~~~~~-~ge~----~tdwi~~v~wgk-~Ae~~~~~l~KG~~V~Ve 74 (173)
T PRK06751 1 MMNRVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQ-QGER----EADFINCVIWRK-QAENVANYLKKGSLAGVD 74 (173)
T ss_pred CceEEEEEEEECCCCcEEECCCCCEEEEEEEEEccceecC-CCCE----EEEEEEEEEeCc-HHHHHHHHcCCCCEEEEE
Confidence 4899999999999999999999999999999999999866 4654 689999999999 999999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCCC
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGESI 201 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~~ 201 (214)
|+|+++.|+++ +|++++.++|+|+ .|+||++++..
T Consensus 75 GrL~~r~yedk-dG~~~~~~eVva~---~i~~l~~r~~~ 109 (173)
T PRK06751 75 GRLQTRNYEGQ-DGKRVYVTEVLAE---SVQFLEPRNGG 109 (173)
T ss_pred EEEEeCccCCC-CCcEEEEEEEEEE---EEEeCcCCCCC
Confidence 99999999999 9999999999999 99999987554
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=99.96 E-value=9.1e-29 Score=204.65 Aligned_cols=112 Identities=28% Similarity=0.482 Sum_probs=105.8
Q ss_pred cccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEE
Q 028045 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 81 m~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~ 160 (214)
|++||+|+|+|+|++||++|++++|+.++.|+||+++.|++++ |++ .+.++||+|++||+ +|+.+.++|+||++|+
T Consensus 1 m~m~N~V~L~G~l~~dPe~r~t~~G~~v~~fsvA~~~~~~~~~-G~~--~~~t~~~~v~~wg~-~Ae~~~~~l~KG~~V~ 76 (164)
T TIGR00621 1 MRMVNKVILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQD-GEW--KEETEWHDIVIFGR-LAEVAAQYLKKGSLVY 76 (164)
T ss_pred CCcccEEEEEEEeCCCCEEEECCCCCEEEEEEEEEcCceecCC-CCE--eccceEEEEEEehH-HHHHHHHhCCCCCEEE
Confidence 8899999999999999999999999999999999999998874 877 56799999999999 9999999999999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCC
Q 028045 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGES 200 (214)
Q Consensus 161 VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~ 200 (214)
|+|+|+++.|+++ +|++++.++|+|+ +|.+|..+.+
T Consensus 77 V~G~L~~~~~~~k-dG~~~~~~ev~a~---~i~~L~~~~~ 112 (164)
T TIGR00621 77 VEGRLRTRKWEDQ-NGQKRSKTEIIAD---NVQLLDLLGA 112 (164)
T ss_pred EEEEEEeceEECC-CCcEEEEEEEEEE---EEeeccccCC
Confidence 9999999999999 9999999999999 9999987643
No 16
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=1.9e-28 Score=200.12 Aligned_cols=111 Identities=14% Similarity=0.161 Sum_probs=101.9
Q ss_pred cccEEEEEEEeCCCceEEEecCCcE----EEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCe
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKT----VTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSS 158 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~----v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~ 158 (214)
+||+|+|+||||+||++|++++|.. |+.|+||+++.|++. +|++. ...++||+|++||+ +|+.+.++|+||++
T Consensus 1 M~N~V~LiGrLg~DPElr~t~~G~~~~~~va~fslA~~r~~~~~-~Ge~~-~~~t~w~~V~~wg~-~Ae~v~~~l~KG~~ 77 (148)
T PRK08182 1 MSTHFVGEGNIGSAPEYREFPNGNDEPRRLLRLNVYFDNPVPTK-DGEYE-DRGGFWAPVELWHR-DAEHWARLYQKGMR 77 (148)
T ss_pred CccEEEEEEECCCCCeEEECCCCCeeeeeEEEEEEEecCceECC-CCCEE-ecCcEEEEEEEEhH-HHHHHHHhcCCCCE
Confidence 4799999999999999999999986 999999999999876 68763 34699999999999 99999999999999
Q ss_pred EEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCC
Q 028045 159 VYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGES 200 (214)
Q Consensus 159 V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~ 200 (214)
|+|+|+|+++.|+|+ ||++++.++|+|+ .|.||.++..
T Consensus 78 V~V~GrL~~~~w~dk-dG~~r~~~eI~a~---~i~~l~~r~~ 115 (148)
T PRK08182 78 VLVEGRMERDEWTDN-EDNERVTFKVEAR---RVGILPYRIE 115 (148)
T ss_pred EEEEEEEEecccCCC-CCCEEEEEEEEEe---EEEEcCCccc
Confidence 999999999999999 9999999999999 9999876544
No 17
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.96 E-value=3.2e-29 Score=205.57 Aligned_cols=163 Identities=47% Similarity=0.773 Sum_probs=131.8
Q ss_pred CcccceeeeeeecccccccccccCCCCCCCCCCCccccccccccccccccCCCCCCCCccccccccEEEEEEEeCCCceE
Q 028045 20 SHSTSLVLGVQRSSKMWYSSGSFDGKNDDQNMDEVDDVFDDFVVEKQELQPQGVDPRRGWGFRGVHKAIICGKVKDTPVQ 99 (214)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~m~~mNkV~LiGrVg~dPel 99 (214)
+.||++.+.-.+.+..|..+..+ +...+|++.+.++ +..+++|+| -.+++|+|+|+|+||+||.+
T Consensus 6 ssis~~~i~~~~~s~~~~~~~Pi------------~~~v~d~~a~~~~-~~~~~~p~k--~~~~vnkv~lvG~VGqdPl~ 70 (175)
T KOG1653|consen 6 SSISPLAISAERGSKSWMLEGPI------------LQGVRDLFAENSE-TTTGEDPRK--LERGVNKVILVGRVGQDPLQ 70 (175)
T ss_pred ccccccceeccccchhhhhhCch------------hhhhhhhHhhccc-ccCccchhh--hhcccceEEEEcccccchHH
Confidence 34666666666666666655443 3456777777774 578999988 45999999999999999999
Q ss_pred EEecCCcEEEEEEEEECCceeccC--CCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeeecCCCCe
Q 028045 100 KILRNGKTVTIFSVGTGGLFDQRI--VGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYNDSINGE 177 (214)
Q Consensus 100 r~t~nG~~v~~FsVAt~~~~~~~~--~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~dk~dG~ 177 (214)
|...||++|+.|+|+|+.+|+++. .|.+ ...|+||+|.+|++.+|+++.++|+||++|||+|+|+|+-+++.++|.
T Consensus 71 k~~rngrpVtiFsv~T~~~~k~r~~q~g~~--~~~tqWHRVsVf~~~L~d~~~k~lkKGsriyveG~iey~g~~~d~~g~ 148 (175)
T KOG1653|consen 71 KILRNGRPVTIFSVGTGGMFKQRLYQAGDQ--PQPTQWHRVSVFNEVLADYALKYLKKGSRIYVEGKIEYRGENDDIQGN 148 (175)
T ss_pred HhhcCCCeEEEEEeecCccccccccccCCc--CCcceeEEEEeeCchHHHHHHHHhcCCCEEEEeeeEEeeeeeccccCc
Confidence 999999999999999999998332 4655 789999999999988999999999999999999999999998877998
Q ss_pred EEEEE-EEEEEeCCcEEEecCCCCCC
Q 028045 178 VKNIP-EICIRRDGTLRLVKSGESIS 202 (214)
Q Consensus 178 ~r~~~-eIvv~~~g~I~~L~~~~~~~ 202 (214)
.+.+. .|+++ .+.||.......
T Consensus 149 ~~r~~t~iIa~---~v~Fl~~a~~ek 171 (175)
T KOG1653|consen 149 VKRIPTIIIAR---DVSFLIDAIFEK 171 (175)
T ss_pred eeecceEEEec---hhHHHHHHhhhc
Confidence 75544 55566 788886554433
No 18
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=2.7e-27 Score=195.76 Aligned_cols=104 Identities=21% Similarity=0.387 Sum_probs=96.5
Q ss_pred ccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEE
Q 028045 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 84 mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeG 163 (214)
||+|+|+||||+||++|++++|+.+++|+||+++.+ |. .+.|+||+|++||+ +|+.+.++|+||++|+|+|
T Consensus 1 MN~V~LiGrLg~DPElR~t~sG~~v~~FsLAvn~~~-----~~---~~~T~wi~v~awg~-~Ae~v~~yL~KG~~V~VeG 71 (161)
T PRK06293 1 MMFGYIVGRLGADPEERMTSKGKRVVVLRLGVKSRV-----GS---KDETVWCRCNIWGN-RYDKMLPYLKKGSGVIVAG 71 (161)
T ss_pred CeEEEEEEEecCCCeEEEcCCCCEEEEEEEEEeCCC-----CC---ccceEEEEEEEEhH-HHHHHHHhCCCCCEEEEEE
Confidence 899999999999999999999999999999999754 22 24799999999998 9999999999999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCC
Q 028045 164 DIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGES 200 (214)
Q Consensus 164 rL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~ 200 (214)
+|+++.|+++ +|++++.++|+|+ +|+||..+..
T Consensus 72 rL~~~~y~dk-dG~kr~~~eIva~---~I~fl~~~~~ 104 (161)
T PRK06293 72 EMSPESYVDK-DGSPQSSLVVSVD---TIKFSPFGRN 104 (161)
T ss_pred EEEeCccCCC-CCCEEEEEEEEEe---EEEECcCCCc
Confidence 9999999999 9999999999999 9999966654
No 19
>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=99.95 E-value=1.2e-26 Score=174.88 Aligned_cols=104 Identities=24% Similarity=0.472 Sum_probs=94.0
Q ss_pred ccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEE
Q 028045 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 84 mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeG 163 (214)
||+|+|+|+|++||+++++++|++++.|+||++++|++. .+.. ...++||+|.+||+ +|+.++++|+||++|+|+|
T Consensus 1 mN~v~l~G~l~~~p~~~~~~~g~~~~~f~la~~~~~~~~-~~~~--~~~~~~~~v~~~g~-~A~~~~~~l~kG~~V~V~G 76 (104)
T PF00436_consen 1 MNKVTLIGRLGKDPELRYTKNGTPVARFSLAVNRRFKDD-GGEG--DEKTDWINVVAWGK-LAENVAEYLKKGDRVYVEG 76 (104)
T ss_dssp EEEEEEEEEESSSEEEEEETTSEEEEEEEEEEEEEEEET-TSCE--EEEEEEEEEEEEHH-HHHHHHHH--TT-EEEEEE
T ss_pred CcEEEEEEEECCCcEEEECCCCCEEEEEEEEEecEEeee-eccC--ccceEEEEEEeeee-cccccceEEcCCCEEEEEE
Confidence 899999999999999999999999999999999999873 3443 56899999999999 9999999999999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEeCCcEEEe
Q 028045 164 DIEIRVYNDSINGEVKNIPEICIRRDGTLRLV 195 (214)
Q Consensus 164 rL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L 195 (214)
+|+++.|+++ +|++++.++|.|+ +|+||
T Consensus 77 ~l~~~~~~~~-~G~~~~~~~i~a~---~i~fl 104 (104)
T PF00436_consen 77 RLRTRTYEDK-DGQKRYRVEIIAD---NIEFL 104 (104)
T ss_dssp EEEEEEEEST-TSSEEEEEEEEEE---EEEE-
T ss_pred EEEeeEEECC-CCCEEEEEEEEEE---EEEeC
Confidence 9999999999 8999999999999 99987
No 20
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=3.2e-26 Score=193.28 Aligned_cols=105 Identities=18% Similarity=0.297 Sum_probs=96.3
Q ss_pred cccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEE
Q 028045 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 81 m~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~ 160 (214)
|.++|+|+|+|||++||++|++++|..|++|+||++..+.++++|+++ ...++||+|++|++ +|++++++|+|||+|+
T Consensus 1 m~~~~~VtLiGrL~~DPElR~t~sG~~va~FrVAv~~r~~~~~~g~~~-d~~t~fi~V~~Wg~-~Ae~va~~L~KGd~V~ 78 (186)
T PRK07772 1 MAGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNEWK-DGEALFLRCSIWRQ-AAENVAESLTKGMRVI 78 (186)
T ss_pred CCccCEEEEEEEeCCCCeEEEcCCCCEEEEEEEEecCcceecCCCcEe-ccCceEEEEEEecH-HHHHHHHhcCCCCEEE
Confidence 778999999999999999999999999999999998655455568773 34799999999999 9999999999999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEe
Q 028045 161 VEGDIEIRVYNDSINGEVKNIPEICIRR 188 (214)
Q Consensus 161 VeGrL~tr~w~dk~dG~~r~~~eIvv~~ 188 (214)
|+|+|+++.|+++ +|++++.++|+|+.
T Consensus 79 V~GrL~~r~wedk-dG~~rt~~eV~a~~ 105 (186)
T PRK07772 79 VTGRLKQRSYETR-EGEKRTVVELEVDE 105 (186)
T ss_pred EEEEEEcCceECC-CCCEEEEEEEEEEE
Confidence 9999999999999 99999999999984
No 21
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.94 E-value=6.2e-26 Score=187.79 Aligned_cols=114 Identities=27% Similarity=0.487 Sum_probs=92.2
Q ss_pred ccccEEEEEEEeCCCceEEEecCCc-EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGK-TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~-~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~ 160 (214)
.+||+|+|+|||++||++|++++|. .++.|++++++.++ +.+|+. ...++||+|++||+ +|+.+.+||+||++|+
T Consensus 1 ~~~Nkv~LvG~l~~DPE~r~t~~g~~~v~~~~~a~~r~~~-~~~~~~--~~~t~~~~vv~wgk-~Ae~~~~yl~KG~~V~ 76 (167)
T COG0629 1 MMMNKVILVGRLTRDPELRYTPNGGAVVALFSAAVNRRFD-NQSGER--DEETDWIRVVIWGK-LAENAAEYLKKGSLVY 76 (167)
T ss_pred CCcceEEEEeecccCcceeecCCCCeeeEEEEEEeccccc-cCCccc--ccccceEEEEEehH-HHHHHHHHhcCCCEEE
Confidence 0899999999999999999999554 55556666665544 434665 57899999999999 9999999999999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEe-CCcEEEecCCCC
Q 028045 161 VEGDIEIRVYNDSINGEVKNIPEICIRR-DGTLRLVKSGES 200 (214)
Q Consensus 161 VeGrL~tr~w~dk~dG~~r~~~eIvv~~-~g~I~~L~~~~~ 200 (214)
|+|+|+++.|+++ +|+++|.++++++. ...+++|..+..
T Consensus 77 VeG~l~~~~~~~~-~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 77 VEGRLQTRKWEDQ-EGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EEEEEEeeeeecC-CCcceeeEEEEEEEeehhhhhccCccc
Confidence 9999999999999 99766666664432 237888887754
No 22
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.92 E-value=4.5e-24 Score=184.31 Aligned_cols=102 Identities=14% Similarity=0.209 Sum_probs=94.3
Q ss_pred ccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~V 161 (214)
..||+|+|+|||++||++|++++|++++.|+||+++.|+ .++||+|++||+ +|+++. +|+||++|+|
T Consensus 107 ~~~N~V~LiGrL~~DPelR~t~~G~~va~f~lAvnr~~~-----------~td~i~~v~wg~-~Ae~~~-~l~KG~~V~V 173 (219)
T PRK05813 107 KNPNEIFLDGYICKEPVYRTTPFGREIADLLLAVNRPYN-----------KSDYIPCIAWGR-NARFCK-TLEVGDNIRV 173 (219)
T ss_pred CCccEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCCCC-----------CceEEEEEEEhH-HhHHHh-hCCCCCEEEE
Confidence 569999999999999999999999999999999998653 478999999999 999875 6999999999
Q ss_pred EEEeEEeeeecCCC----CeEEEEEEEEEEeCCcEEEecCCCC
Q 028045 162 EGDIEIRVYNDSIN----GEVKNIPEICIRRDGTLRLVKSGES 200 (214)
Q Consensus 162 eGrL~tr~w~dk~d----G~~r~~~eIvv~~~g~I~~L~~~~~ 200 (214)
+|+|+++.|+++ + |++++.+||.|+ +|++|+++..
T Consensus 174 ~GrL~sr~y~~k-~g~~~g~kr~~~eV~v~---~i~~l~~~~~ 212 (219)
T PRK05813 174 WGRVQSREYQKK-LSEGEVVTKVAYEVSIS---KMEKVEKEEA 212 (219)
T ss_pred EEEEEecceEcC-CCCccceEEEEEEEEEE---EEEEcCChhh
Confidence 999999999998 6 489999999999 9999988776
No 23
>PRK05853 hypothetical protein; Validated
Probab=99.91 E-value=5.4e-24 Score=176.16 Aligned_cols=94 Identities=18% Similarity=0.266 Sum_probs=87.6
Q ss_pred EEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEe
Q 028045 89 ICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIR 168 (214)
Q Consensus 89 LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr 168 (214)
|+|||++||++|+++ |..+++|+||+++.|+++ +|+++ ...|+||+|++||+ +|+++.++|+||++|+|+|+|+++
T Consensus 1 ivGrLg~DPelr~~~-g~~va~F~lAvn~r~~~~-~Ge~~-d~~T~wi~V~~wg~-lAe~v~~~L~KG~~V~V~GrL~~~ 76 (161)
T PRK05853 1 VVGHIVNDPQRRKVG-DQEVIKFRVASNSRRRTA-DGGWE-PGNSLFITVNCWGR-LVTGVGAALGKGAPVIVVGHVYTS 76 (161)
T ss_pred CeEcccCCCEEEEEC-CceEEEEEEEECCCeECC-CCCEe-ccCccEEEEEEEhH-HHHHHHHHcCCCCEEEEEEEEEcc
Confidence 689999999999984 789999999999999876 58873 34799999999999 999999999999999999999999
Q ss_pred eeecCCCCeEEEEEEEEEE
Q 028045 169 VYNDSINGEVKNIPEICIR 187 (214)
Q Consensus 169 ~w~dk~dG~~r~~~eIvv~ 187 (214)
.|+++ +|++++.++|+|+
T Consensus 77 ~wedk-dG~~r~~~eV~a~ 94 (161)
T PRK05853 77 EYEDR-DGNRRSSLEMRAT 94 (161)
T ss_pred ceECC-CCCEEEEEEEEEE
Confidence 99999 9999999999998
No 24
>PRK02801 primosomal replication protein N; Provisional
Probab=99.91 E-value=3.7e-23 Score=158.92 Aligned_cols=101 Identities=16% Similarity=0.179 Sum_probs=87.3
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
+||+|+|+|||++||++|+|++|.+++.|+||+.. +....+++ .+.++|++|++||+ +|+.+.+||+||+.|.|+
T Consensus 1 mmN~v~L~Grl~~dpelr~Tp~G~~v~~f~La~~~-~~~ea~~~---r~~~~~i~~va~G~-~Ae~~~~~l~kGs~v~V~ 75 (101)
T PRK02801 1 MTNRLVLSGTVCRTPKRKVSPSGIPHCQFVLEHRS-VQEEAGLH---RQAWCRMPVIVSGN-QFQAITQSITVGSKITVQ 75 (101)
T ss_pred CccEEEEEEEECcCcceEECCCCCeEEEEEEEEeC-eEecCCCc---eeEEEEEEEEEEcH-HHHHHHhhcCCCCEEEEE
Confidence 48999999999999999999999999999999963 33221222 24569999999999 999999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEec
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
|+|++ |+++ +|++++. |+++ .|+||+
T Consensus 76 G~L~~--~~~~-~g~~~~~--v~~~---~i~~l~ 101 (101)
T PRK02801 76 GFISC--HQGR-NGLSKLV--LHAE---QIELID 101 (101)
T ss_pred EEEEE--eECC-CCCEEEE--EEEE---EEEECC
Confidence 99998 6888 9988876 8888 899874
No 25
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=99.89 E-value=4.9e-22 Score=148.27 Aligned_cols=100 Identities=24% Similarity=0.440 Sum_probs=92.3
Q ss_pred EEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeE
Q 028045 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (214)
Q Consensus 87 V~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~ 166 (214)
|+|+|+|+++|+++++++|..++.|+|++++.+++.+ .. ...++||+|.+||+ +|+.++++|+|||.|+|+|+|+
T Consensus 1 v~l~G~l~~~p~~~~~~~g~~~~~~~v~~~~~~~~~~--~~--~~~~~~~~v~~~g~-~a~~~~~~~~kG~~V~v~G~l~ 75 (100)
T cd04496 1 VILIGRLGKDPELRYTPSGTPVARFSLAVNRRRKDRD--EE--EEETDWIRVVAFGK-LAENAAKYLKKGDLVYVEGRLR 75 (100)
T ss_pred CEEEEEecCCCEEEECCCCCEEEEEEEEEcCceeccc--cc--ccccEEEEEEEEhH-HHHHHHHHhCCCCEEEEEEEEE
Confidence 5799999999999999999999999999999987652 22 46899999999999 9999999999999999999999
Q ss_pred EeeeecCCCCeEEEEEEEEEEeCCcEEEe
Q 028045 167 IRVYNDSINGEVKNIPEICIRRDGTLRLV 195 (214)
Q Consensus 167 tr~w~dk~dG~~r~~~eIvv~~~g~I~~L 195 (214)
.+.|+++ +|..++.++|.|+ +|.++
T Consensus 76 ~~~~~~~-~g~~~~~~~i~~~---~i~~~ 100 (100)
T cd04496 76 TRSWEDK-DGQKRYGTEVVAD---RIEFL 100 (100)
T ss_pred eceeECC-CCCEEEEEEEEEE---EEEEC
Confidence 9999998 8999999999999 88875
No 26
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.80 E-value=9.5e-19 Score=151.24 Aligned_cols=99 Identities=19% Similarity=0.194 Sum_probs=91.2
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
-.|+|+|+|+|++||+++++..|..++.|+||+++ +. ..++||+|++|++ +|+.+. |+||+.|+|+
T Consensus 7 ~~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R-~s----------~~~D~i~v~v~~r-lae~~~--l~kG~~v~Ve 72 (219)
T PRK05813 7 ENNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPR-LS----------DSKDILPVTVSER-LLAGMD--LKVGTLVIVE 72 (219)
T ss_pred hcCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeec-cC----------CCccEEEEEEEhh-hhhhhc--ccCCCEEEEE
Confidence 48999999999999999999999999999999999 53 2688999999999 999887 9999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCC
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGES 200 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~ 200 (214)
|+|+ +|++.++|++|+.++|+|+ +|+||++++.
T Consensus 73 Gqlr--sy~~~~~G~~R~vl~V~a~---~i~~l~~~~~ 105 (219)
T PRK05813 73 GQLR--SYNKFIDGKNRLILTVFAR---NIEYCDERSD 105 (219)
T ss_pred EEEE--EeccCCCCcEEEEEEEEEE---EEEEccCCCc
Confidence 9999 8887646999999999999 9999998864
No 27
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.28 E-value=1.2e-05 Score=62.69 Aligned_cols=94 Identities=7% Similarity=0.013 Sum_probs=73.2
Q ss_pred ccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceE--EEEEEeChhHHHHHHhhcCCCCeEEE
Q 028045 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQW--HRIAVHNEILGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 84 mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W--~~V~~~gk~lAe~~~~~LkKGd~V~V 161 (214)
||++.|+|.|.+.|.+|++|.|-+++.|.+.-... ... .|-. .-.| +.+++.|+ +|+.+.+ +..|+.|.|
T Consensus 1 mN~l~Ltg~v~~~~~lryTPAGIp~~~~~LeH~S~-q~E-AG~~----Rqv~~~i~ava~G~-~a~~~~~-l~~Gs~v~v 72 (107)
T PRK00036 1 MNTLELSARVLECGAMRHTPAGLPALELLLVHESE-VVE-AGHP----RRVELTISAVALGD-LALLLAD-TPLGTEMQV 72 (107)
T ss_pred CCEEEEEEEEeccCccccCCCCCceEEEEEEEeEE-eEe-CCCc----ceEEEEEEEEEEhh-HHHHhcc-cCCCCEEEE
Confidence 69999999999999999999999999999986543 222 3542 3334 56789997 9987765 999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEe
Q 028045 162 EGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLV 195 (214)
Q Consensus 162 eGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L 195 (214)
+|-|.. +. .|. ...-+.++ .|+++
T Consensus 73 ~GFLa~----~~-~~~--~~LVLHi~---~Ie~i 96 (107)
T PRK00036 73 QGFLAP----AR-KDS--VKVKLHLQ---QARRI 96 (107)
T ss_pred EEEEEE----CC-CCC--CcEEEEhH---HeEEc
Confidence 999998 22 333 34556677 88888
No 28
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=98.18 E-value=5.8e-05 Score=58.03 Aligned_cols=100 Identities=13% Similarity=0.242 Sum_probs=75.1
Q ss_pred cccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEE--EEEeChhHHHHHHhhcCCCCe
Q 028045 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHR--IAVHNEILGSYAVKQLVKNSS 158 (214)
Q Consensus 81 m~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~--V~~~gk~lAe~~~~~LkKGd~ 158 (214)
|...|++.|+|-|.+-|..|++|+|-+.|.|-+.-.. +.-. .|. ..-.|++ +.+-|+ +|+.+-+.+..|+.
T Consensus 1 ~~~~Nrl~L~g~vak~~~r~~sPsGIphc~f~Lehrs-~q~E-ag~----~RQv~~~mpv~vsG~-qa~~lt~~i~~Gs~ 73 (103)
T COG2965 1 MNMTNRLSLSGTVAKVPVRRYSPSGIPHCQFVLEHRS-WQEE-AGF----QRQVWCEMPVRVSGR-QAEELTQSITVGSY 73 (103)
T ss_pred CCccceEEEEEEeeccceeeeCCCCCeeEEEEEeecc-hhhh-CCc----ceeEEEEccEEeech-hhhhhhhccccccE
Confidence 4568999999999999999999999999999998554 3222 343 2556765 567787 99988888999999
Q ss_pred EEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEe
Q 028045 159 VYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLV 195 (214)
Q Consensus 159 V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L 195 (214)
|.|+|-|.+..-. +|- ...-|.++ .|.++
T Consensus 74 i~v~GFla~~~~~---sg~--~~lvlha~---qi~~i 102 (103)
T COG2965 74 ILVVGFLACHKRR---SGL--SKLVLHAE---QIEFI 102 (103)
T ss_pred EEEEEEEEeeccc---CCc--cEEEEEee---EEEec
Confidence 9999999887643 442 23344555 55554
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=97.24 E-value=0.0034 Score=43.56 Aligned_cols=75 Identities=20% Similarity=0.355 Sum_probs=54.4
Q ss_pred EEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeE
Q 028045 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (214)
Q Consensus 87 V~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~ 166 (214)
|.|.|+|..-. .++..++.|+|.-. +| -++|.+|++ .+....+.|++|+.|.|.|.+.
T Consensus 1 V~v~G~V~~~~-----~~~~~~~~~~l~D~-------tg---------~i~~~~~~~-~~~~~~~~l~~g~~v~v~G~v~ 58 (75)
T PF01336_consen 1 VTVEGRVTSIR-----RSGGKIVFFTLEDG-------TG---------SIQVVFFNE-EYERFREKLKEGDIVRVRGKVK 58 (75)
T ss_dssp EEEEEEEEEEE-----EEETTEEEEEEEET-------TE---------EEEEEEETH-HHHHHHHTS-TTSEEEEEEEEE
T ss_pred CEEEEEEEEEE-----cCCCCEEEEEEEEC-------Cc---------cEEEEEccH-HhhHHhhcCCCCeEEEEEEEEE
Confidence 56888887754 45667787877522 23 489999996 6777888999999999999998
Q ss_pred EeeeecCCCCeEEEEEEEEEEeCCcEEEe
Q 028045 167 IRVYNDSINGEVKNIPEICIRRDGTLRLV 195 (214)
Q Consensus 167 tr~w~dk~dG~~r~~~eIvv~~~g~I~~L 195 (214)
.. + +| ..+|.+. +++.|
T Consensus 59 ~~----~-~~----~~~l~~~---~i~~l 75 (75)
T PF01336_consen 59 RY----N-GG----ELELIVP---KIEIL 75 (75)
T ss_dssp EE----T-TS----SEEEEEE---EEEEE
T ss_pred EE----C-Cc----cEEEEEC---EEEEC
Confidence 87 2 34 3667776 66654
No 30
>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.54 E-value=0.047 Score=40.16 Aligned_cols=68 Identities=18% Similarity=0.260 Sum_probs=51.9
Q ss_pred EEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcC-CCCeEEEEEEe
Q 028045 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLV-KNSSVYVEGDI 165 (214)
Q Consensus 87 V~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~Lk-KGd~V~VeGrL 165 (214)
|+|.|.|-. .+.|.+++|+.+..|.|.- | |+=+.|..|.+..-+. ...|+ +|+-|.|.|++
T Consensus 2 v~i~G~Vf~-~e~re~k~g~~i~~~~itD---~-------------t~Si~~K~F~~~~~~~-~~~ik~~G~~v~v~G~v 63 (82)
T cd04484 2 VVVEGEVFD-LEIRELKSGRKILTFKVTD---Y-------------TSSITVKKFLRKDEKD-KEELKSKGDWVRVRGKV 63 (82)
T ss_pred EEEEEEEEE-EEEEEecCCCEEEEEEEEc---C-------------CCCEEEEEeccCChhH-HhhcccCCCEEEEEEEE
Confidence 789999965 7889999999998888872 1 2236777777313333 36699 99999999999
Q ss_pred EEeeeec
Q 028045 166 EIRVYND 172 (214)
Q Consensus 166 ~tr~w~d 172 (214)
++..|..
T Consensus 64 ~~D~f~~ 70 (82)
T cd04484 64 QYDTFSK 70 (82)
T ss_pred EEccCCC
Confidence 9999964
No 31
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=96.17 E-value=0.075 Score=37.41 Aligned_cols=71 Identities=20% Similarity=0.270 Sum_probs=50.4
Q ss_pred CCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeeecCC
Q 028045 95 DTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYNDSI 174 (214)
Q Consensus 95 ~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~dk~ 174 (214)
.....+.+++|+.++.|+|.-. +| -+.|.+|++.. .....+++|..|+|.|++.. + +
T Consensus 7 ~~~~~~~tk~g~~~~~~~l~D~-------tg---------~i~~~~f~~~~--~~~~~l~~g~~v~v~G~v~~--~-~-- 63 (83)
T cd04492 7 KSKELRTAKNGKPYLALTLQDK-------TG---------EIEAKLWDASE--EDEEKFKPGDIVHVKGRVEE--Y-R-- 63 (83)
T ss_pred EEeeeecccCCCcEEEEEEEcC-------CC---------eEEEEEcCCCh--hhHhhCCCCCEEEEEEEEEE--e-C--
Confidence 3456677888989998888732 23 27899999623 34778999999999999954 2 1
Q ss_pred CCeEEEEEEEEEEeCCcEEEec
Q 028045 175 NGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 175 dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
| ..+|.+. +|..|+
T Consensus 64 -~----~~~l~~~---~i~~l~ 77 (83)
T cd04492 64 -G----RLQLKIQ---RIRLVT 77 (83)
T ss_pred -C----ceeEEEE---EEEECC
Confidence 2 2456666 677665
No 32
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=95.98 E-value=0.058 Score=49.33 Aligned_cols=60 Identities=18% Similarity=0.253 Sum_probs=47.3
Q ss_pred eCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeeec
Q 028045 93 VKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYND 172 (214)
Q Consensus 93 Vg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~d 172 (214)
+.++.+++.++||++|..++++ |+ +|+ ++..+|.. . +.....+.+|+.|.|+|++.. |.+
T Consensus 19 lv~~~~~~~~knG~~yl~l~l~------D~-tG~---------I~ak~W~~-~-~~~~~~~~~g~vv~v~G~v~~--y~g 78 (314)
T PRK13480 19 LIKSATKGVASNGKPFLTLILQ------DK-SGD---------IEAKLWDV-S-PEDEATYVPETIVHVKGDIIN--YRG 78 (314)
T ss_pred EEEEceeeecCCCCeEEEEEEE------cC-CcE---------EEEEeCCC-C-hhhHhhcCCCCEEEEEEEEEE--ECC
Confidence 4556888999999999999998 33 565 77889986 3 444678999999999999974 544
No 33
>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=95.91 E-value=0.16 Score=35.81 Aligned_cols=62 Identities=13% Similarity=0.075 Sum_probs=45.2
Q ss_pred EEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeE
Q 028045 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (214)
Q Consensus 87 V~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~ 166 (214)
+.+.|-|.. .. .+++| ++-|+|.-. +| =+.|++|.+ ..+.+...|++|+.|.|+|++.
T Consensus 2 ~~v~g~v~~-i~--~tk~g--~~~~~L~D~-------~~---------~i~~~~f~~-~~~~~~~~l~~g~~v~v~g~v~ 59 (78)
T cd04489 2 VWVEGEISN-LK--RPSSG--HLYFTLKDE-------DA---------SIRCVMWRS-NARRLGFPLEEGMEVLVRGKVS 59 (78)
T ss_pred EEEEEEEec-CE--ECCCc--EEEEEEEeC-------Ce---------EEEEEEEcc-hhhhCCCCCCCCCEEEEEEEEE
Confidence 456777774 33 36666 777777632 23 288999998 6666778899999999999999
Q ss_pred Eeee
Q 028045 167 IRVY 170 (214)
Q Consensus 167 tr~w 170 (214)
...+
T Consensus 60 ~~~~ 63 (78)
T cd04489 60 FYEP 63 (78)
T ss_pred EECC
Confidence 7543
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=95.74 E-value=0.056 Score=41.23 Aligned_cols=67 Identities=15% Similarity=0.066 Sum_probs=51.5
Q ss_pred ccccEEEEEEEeCCCceEEEecCC---cEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCe
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNG---KTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSS 158 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG---~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~ 158 (214)
.+++.+.|.|||..--+++...+. ..+..|.|+ |.. | .-+++++|++ .|+.....|+.|+.
T Consensus 7 p~~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~------De~-~--------~~I~~t~~~~-~~~~f~~~l~eG~v 70 (104)
T cd04474 7 PYQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLL------DED-G--------GEIRATFFND-AVDKFYDLLEVGKV 70 (104)
T ss_pred CCCCcEEEEEEEeeccccccccCCCCCcEEEEEEEE------ECC-C--------CEEEEEEehH-HHHHhhcccccccE
Confidence 567889999999986666666553 566666664 221 2 2489999998 99999999999999
Q ss_pred EEEEEE
Q 028045 159 VYVEGD 164 (214)
Q Consensus 159 V~VeGr 164 (214)
++|.+=
T Consensus 71 y~i~~~ 76 (104)
T cd04474 71 YYISKG 76 (104)
T ss_pred EEEecc
Confidence 999883
No 35
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=95.56 E-value=0.14 Score=35.55 Aligned_cols=61 Identities=21% Similarity=0.302 Sum_probs=44.2
Q ss_pred EEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEE
Q 028045 89 ICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEI 167 (214)
Q Consensus 89 LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~t 167 (214)
+.|.|.. ...+.+++|+.++.++|. |. +|. +.|.+|++ .-+.....+++|..|.|.|++..
T Consensus 2 i~g~v~~-~~~~~~k~g~~~~~~~l~------D~-tg~---------~~~~~f~~-~~~~~~~~l~~g~~v~v~G~v~~ 62 (84)
T cd04485 2 VAGLVTS-VRRRRTKKGKRMAFVTLE------DL-TGS---------IEVVVFPE-TYEKYRDLLKEDALLLVEGKVER 62 (84)
T ss_pred EEEEEEE-eEEEEcCCCCEEEEEEEE------eC-CCe---------EEEEECHH-HHHHHHHHhcCCCEEEEEEEEEe
Confidence 5566654 444677889888888875 22 232 78999987 43335788999999999999965
No 36
>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=95.27 E-value=0.16 Score=36.73 Aligned_cols=73 Identities=23% Similarity=0.328 Sum_probs=49.4
Q ss_pred EEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeE
Q 028045 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (214)
Q Consensus 87 V~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~ 166 (214)
|.+.|.|...|. ++|..| |++ +|. + .=++|++|.. .+..+...++.||.|.|.|++.
T Consensus 1 v~v~GeVs~~~~----~~GHvy--fsL------kD~--~--------a~i~cv~f~~-~~~~~~~~l~~Gd~V~v~G~v~ 57 (73)
T cd04487 1 VHIEGEVVQIKQ----TSGPTI--FTL------RDE--T--------GTVWAAAFEE-AGVRAYPEVEVGDIVRVTGEVE 57 (73)
T ss_pred CEEEEEEecccc----CCCCEE--EEE------EcC--C--------EEEEEEEEch-hccCCcCCCCCCCEEEEEEEEe
Confidence 357888888763 567654 444 221 1 1289999987 5545667799999999999987
Q ss_pred EeeeecCCCCeEEEEEEEEEEeCCcEEEe
Q 028045 167 IRVYNDSINGEVKNIPEICIRRDGTLRLV 195 (214)
Q Consensus 167 tr~w~dk~dG~~r~~~eIvv~~~g~I~~L 195 (214)
. + .|+ +++.|+ .|+.|
T Consensus 58 ~-----~-~G~----~ql~v~---~i~~~ 73 (73)
T cd04487 58 P-----R-DGQ----LQIEVE---SLEVL 73 (73)
T ss_pred c-----C-CeE----EEEEEe---eEEEC
Confidence 4 3 453 667776 66543
No 37
>PRK15491 replication factor A; Provisional
Probab=95.23 E-value=0.25 Score=46.24 Aligned_cols=91 Identities=23% Similarity=0.315 Sum_probs=63.5
Q ss_pred cccEEEEEEEeCCCceEEEe--cCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEE
Q 028045 83 GVHKAIICGKVKDTPVQKIL--RNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t--~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~ 160 (214)
+...|.|.|+|..--..|.. +.|...-.+++... |. +|. +++++|++ .|+.+ ..|..|+.|+
T Consensus 175 ~~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~----De-tG~---------Ir~t~W~~-~a~~~-~~l~~Gd~V~ 238 (374)
T PRK15491 175 GDSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIG----DE-TGK---------IRVTLWDG-KTDLA-DKLENGDSVE 238 (374)
T ss_pred CCccEEEEEEEEEccCceEEEecCCCeEEEEEEEEE----CC-CCe---------EEEEEecc-hhccc-ccCCCCCEEE
Confidence 34458999999988666554 46765444554432 22 442 89999999 88876 6799999999
Q ss_pred EEE-EeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecC
Q 028045 161 VEG-DIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKS 197 (214)
Q Consensus 161 VeG-rL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~ 197 (214)
|.+ +.+.+.|.. .+||.+...+.|..++.
T Consensus 239 i~~~~~r~~~~~g--------~~El~~~~~s~I~~~~~ 268 (374)
T PRK15491 239 IINGYARTNNYSQ--------EVEIQIGNHGSLRKTDR 268 (374)
T ss_pred EEeceEEEeccCC--------CEEEEeCCCceEEECCc
Confidence 966 677777743 37787776677776643
No 38
>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=94.91 E-value=0.31 Score=32.36 Aligned_cols=46 Identities=22% Similarity=0.336 Sum_probs=36.1
Q ss_pred CcEEEEEEEEECCceeccCCCcccCCCCc-eEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEE
Q 028045 105 GKTVTIFSVGTGGLFDQRIVGSKDLPKPV-QWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEI 167 (214)
Q Consensus 105 G~~v~~FsVAt~~~~~~~~~Ge~~~~~~t-~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~t 167 (214)
|+.++.|+|. | .+ ..+.|.+|.+ ..+.....+++|+.|.|+|++..
T Consensus 15 ~~~~~~~~l~------D----------~~~~~i~~~~~~~-~~~~~~~~~~~g~~v~v~g~v~~ 61 (75)
T cd03524 15 EGKVLIFTLT------D----------GTGGTIRVTLFGE-LAEELENLLKEGQVVYIKGKVKK 61 (75)
T ss_pred CCeEEEEEEE------c----------CCCCEEEEEEEch-HHHHHHhhccCCCEEEEEEEEEe
Confidence 5667777775 1 22 3689999998 66667788999999999999965
No 39
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=94.39 E-value=0.32 Score=41.70 Aligned_cols=77 Identities=17% Similarity=0.143 Sum_probs=57.3
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
.+|++.|+|.|...+.+- ....+.+++|+ |+ +|.+ |.-.--|.+ -|..+.+.+.+++.|.|.
T Consensus 44 k~nRifivGtltek~~i~---ed~~~~R~rVv------Dp-TGsF-------~Vyag~yqP-Ea~a~l~~ve~~~~VaVi 105 (196)
T COG3390 44 KVNRIFIVGTLTEKEGIG---EDREYWRIRVV------DP-TGSF-------YVYAGQYQP-EAKAFLEDVEVPDLVAVI 105 (196)
T ss_pred heeEEEEEEEEEeccCcC---CcccEEEEEEe------cC-CceE-------EEEcCCCCh-HHHHHHHhccCCceEEEe
Confidence 499999999999987661 12678999887 33 4543 554455666 788888999999999999
Q ss_pred EEeEEeeeecCCCCeEEE
Q 028045 163 GDIEIRVYNDSINGEVKN 180 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~ 180 (214)
|.+++ |++. +|....
T Consensus 106 GKi~~--y~~d-~g~~~~ 120 (196)
T COG3390 106 GKIRT--YRTD-EGVVLF 120 (196)
T ss_pred cccce--eecC-CCceEE
Confidence 98865 6665 675443
No 40
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=94.26 E-value=0.6 Score=37.14 Aligned_cols=84 Identities=18% Similarity=0.321 Sum_probs=56.1
Q ss_pred cccEEEEEEEeCCC--ceEEEecCCc-EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeE
Q 028045 83 GVHKAIICGKVKDT--PVQKILRNGK-TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (214)
Q Consensus 83 ~mNkV~LiGrVg~d--Pelr~t~nG~-~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V 159 (214)
+++.|.++|.|-.- +....++++. .|..+.|+ |. +|. +++++|++ .|+ .+++|+.|
T Consensus 13 g~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~------D~-TG~---------I~~tlW~~-~a~----~l~~GdvV 71 (129)
T PRK06461 13 GMERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVG------DE-TGR---------VKLTLWGE-QAG----SLKEGEVV 71 (129)
T ss_pred CCCceEEEEEEEEcCCceEEEeCCCceEEEEEEEE------CC-CCE---------EEEEEeCC-ccc----cCCCCCEE
Confidence 45677788888853 4444555653 47777665 33 452 78999998 553 58999999
Q ss_pred EEE-EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecC
Q 028045 160 YVE-GDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKS 197 (214)
Q Consensus 160 ~Ve-GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~ 197 (214)
.|. |..+ .|. | ..+|.+.+.|.|..++.
T Consensus 72 ~I~na~v~--~f~----G----~lqL~i~~~~~i~~~~~ 100 (129)
T PRK06461 72 EIENAWTT--LYR----G----KVQLNVGKYGSISESDD 100 (129)
T ss_pred EEECcEEe--eeC----C----EEEEEECCCEEEEECCc
Confidence 999 5555 353 3 25677766677777754
No 41
>PRK07211 replication factor A; Reviewed
Probab=94.11 E-value=0.2 Score=48.51 Aligned_cols=67 Identities=21% Similarity=0.251 Sum_probs=54.2
Q ss_pred ccccEEEEEEEeCCCceEEEecC-C----cEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCC
Q 028045 82 RGVHKAIICGKVKDTPVQKILRN-G----KTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKN 156 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~n-G----~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKG 156 (214)
.++++|.|.|||..--.+|+..+ | ..+..+.|+ |. +|+ +++++|++ .|+.....|++|
T Consensus 61 pg~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~------De-TG~---------Ir~TlW~d-~ad~~~~~Le~G 123 (485)
T PRK07211 61 PGMDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVA------DE-TGS---------VRVAFWDE-QAVAAEEELEVG 123 (485)
T ss_pred CCCCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEE------cC-CCe---------EEEEEech-HhHhhhcccCCC
Confidence 67899999999999888777643 2 356666666 22 564 89999999 898888899999
Q ss_pred CeEEEEEEe
Q 028045 157 SSVYVEGDI 165 (214)
Q Consensus 157 d~V~VeGrL 165 (214)
+.++|.|+.
T Consensus 124 dV~~I~~~~ 132 (485)
T PRK07211 124 QVLRIKGRP 132 (485)
T ss_pred CEEEEeceE
Confidence 999999876
No 42
>PRK15491 replication factor A; Provisional
Probab=94.05 E-value=0.52 Score=44.08 Aligned_cols=89 Identities=19% Similarity=0.249 Sum_probs=61.6
Q ss_pred ccccEEEEEEEeCCCceEEEe--cCCc--EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHH-hhcCCC
Q 028045 82 RGVHKAIICGKVKDTPVQKIL--RNGK--TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAV-KQLVKN 156 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t--~nG~--~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~-~~LkKG 156 (214)
.+++.|.|.|+|-.--..|.+ ..|. .+..+.|+ |. +|. +++++|++ .|+.+. ..|.+|
T Consensus 65 ~~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~------De-TG~---------ir~tlW~~-~a~~~~~~~le~G 127 (374)
T PRK15491 65 ESSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVA------DE-TGS---------IRLTLWDD-LADLIKTGDIEVG 127 (374)
T ss_pred CCCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEE------cC-CCe---------EEEEEECc-hhhhhccCCcCCC
Confidence 578999999999988666665 3453 45555555 22 564 89999998 888776 469999
Q ss_pred CeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecC
Q 028045 157 SSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKS 197 (214)
Q Consensus 157 d~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~ 197 (214)
+.|+|.|. +.+.-.| +||.+++.+.|...+.
T Consensus 128 ~v~~I~~~-----~~~~y~g-----~Ei~i~~~~~i~~~~~ 158 (374)
T PRK15491 128 KSLNISGY-----AKEGYSG-----IEVNIGRYGGISESDE 158 (374)
T ss_pred CEEEEeee-----eccCccc-----EEEEeCCCceeeeccc
Confidence 99999985 2111022 4888876666665543
No 43
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=93.45 E-value=1.2 Score=32.04 Aligned_cols=59 Identities=24% Similarity=0.321 Sum_probs=38.1
Q ss_pred EEEEeCCCceEEEe-cCC--cEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE-EE
Q 028045 89 ICGKVKDTPVQKIL-RNG--KTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE-GD 164 (214)
Q Consensus 89 LiGrVg~dPelr~t-~nG--~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve-Gr 164 (214)
|+|+|-.--..+.. .+| ..+..+.|+ |. +|. +++++|+. .+ ...++.|+.|.+. |.
T Consensus 2 v~~~V~~~~~~~~~~~~g~~~~~~~~~l~------D~-TG~---------i~~~~W~~-~~---~~~~~~G~vv~i~~~~ 61 (82)
T cd04491 2 VEGKVLSISEPREFTRDGSEGKVQSGLVG------DE-TGT---------IRFTLWDE-KA---ADDLEPGDVVRIENAY 61 (82)
T ss_pred EEEEEEEccCCeEeccCCCeeEEEEEEEE------CC-CCE---------EEEEEECc-hh---cccCCCCCEEEEEeEE
Confidence 45666544333333 233 456666665 22 453 89999998 55 6779999999999 66
Q ss_pred eEE
Q 028045 165 IEI 167 (214)
Q Consensus 165 L~t 167 (214)
++.
T Consensus 62 v~~ 64 (82)
T cd04491 62 VRE 64 (82)
T ss_pred EEe
Confidence 543
No 44
>PRK07211 replication factor A; Reviewed
Probab=93.40 E-value=1 Score=43.75 Aligned_cols=91 Identities=19% Similarity=0.284 Sum_probs=61.0
Q ss_pred ccccEEEEEEEeCCCceEEEec--CCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeE
Q 028045 82 RGVHKAIICGKVKDTPVQKILR--NGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~--nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V 159 (214)
.+++.+.|+|+|-.--.+|... +|+.--.+++-.. |. +| -+++++|++ .|+.+ ..|.+|+.|
T Consensus 169 ~~~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~----De-TG---------~IR~TlW~d-~Ad~~-~~le~G~Vv 232 (485)
T PRK07211 169 LGLSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVG----DE-TG---------RVRVTLWDD-RADLA-EELDAGESV 232 (485)
T ss_pred CCCCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEE----cC-CC---------eEEEEEech-hhhhh-ccCCCCCEE
Confidence 3578899999999877777653 4544444444432 22 44 299999999 89887 679999999
Q ss_pred EEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecC
Q 028045 160 YVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKS 197 (214)
Q Consensus 160 ~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~ 197 (214)
+|.+ -+.+.|.. .++|.+...+.|..+..
T Consensus 233 ~I~~-a~Vre~~g--------~~ELsl~~~s~I~~~~d 261 (485)
T PRK07211 233 EIVD-GYVRERDG--------SLELHVGDRGAVEEVDE 261 (485)
T ss_pred EEEe-eEEEecCC--------cEEEEECCCceEEECCc
Confidence 9975 23334422 25676666666776644
No 45
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=92.68 E-value=0.98 Score=33.88 Aligned_cols=78 Identities=23% Similarity=0.183 Sum_probs=53.2
Q ss_pred EEEE-eCCCceEE-EecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeE
Q 028045 89 ICGK-VKDTPVQK-ILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (214)
Q Consensus 89 LiGr-Vg~dPelr-~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~ 166 (214)
|.|+ |..-|+.. .++||=.--.|-|-+... .+..+.+.+||+ .++. ...++.|+.|.|.=.|+
T Consensus 2 i~Gkii~~l~~~~g~s~~Gw~Kre~Vlet~~q-------------YP~~i~f~~~~d-k~~~-l~~~~~Gd~V~Vsf~i~ 66 (84)
T PF11325_consen 2 ITGKIIKVLPEQQGVSKNGWKKREFVLETEEQ-------------YPQKICFEFWGD-KIDL-LDNFQVGDEVKVSFNIE 66 (84)
T ss_pred cccEEEEEecCcccCcCCCcEEEEEEEeCCCc-------------CCceEEEEEEcc-hhhh-hccCCCCCEEEEEEEee
Confidence 5677 44445554 345674444455553332 355688999998 5554 35799999999999999
Q ss_pred EeeeecCCCCeEEEEEEEEEE
Q 028045 167 IRVYNDSINGEVKNIPEICIR 187 (214)
Q Consensus 167 tr~w~dk~dG~~r~~~eIvv~ 187 (214)
.|.|+. ++..+|.|=
T Consensus 67 ~RE~~g------r~fn~i~aW 81 (84)
T PF11325_consen 67 GREWNG------RWFNSIRAW 81 (84)
T ss_pred ccEecc------eEeeEeEEE
Confidence 999973 677777664
No 46
>PRK14699 replication factor A; Provisional
Probab=91.78 E-value=1.3 Score=42.96 Aligned_cols=71 Identities=11% Similarity=0.170 Sum_probs=51.9
Q ss_pred ccccEEEEEEEeCCCceEEEe--cCCc--EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHh-hcCCC
Q 028045 82 RGVHKAIICGKVKDTPVQKIL--RNGK--TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVK-QLVKN 156 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t--~nG~--~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~-~LkKG 156 (214)
.++..|.|.|+|-.-...|.+ .+|. .++++.|| |. +|. +++++|.+ +|+.+.. .|++|
T Consensus 65 ~~~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~ia------De-TG~---------ir~tlW~~-~a~~~~~g~l~~G 127 (484)
T PRK14699 65 PESGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVG------DE-TGK---------IKLTLWDN-MADLIKAGKIKAG 127 (484)
T ss_pred CCCceEEEEEEEEEecCceEEecCCCCceEEEEEEEe------cC-CCe---------EEEEEecC-ccchhhhcCCCCC
Confidence 578889999999998767665 2344 34444444 22 564 89999998 8876665 59999
Q ss_pred CeEEEEEEeEEeeee
Q 028045 157 SSVYVEGDIEIRVYN 171 (214)
Q Consensus 157 d~V~VeGrL~tr~w~ 171 (214)
|.|.|.|. .+.|.
T Consensus 128 Dvv~I~~~--~r~~~ 140 (484)
T PRK14699 128 QTLQISGY--AKQGY 140 (484)
T ss_pred CEEEEcce--eccCC
Confidence 99999995 55664
No 47
>PRK12366 replication factor A; Reviewed
Probab=91.70 E-value=1.5 Score=43.71 Aligned_cols=88 Identities=16% Similarity=0.330 Sum_probs=60.4
Q ss_pred ccccEEEEEEEeCCCceEEEe--cCC--cEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCC
Q 028045 82 RGVHKAIICGKVKDTPVQKIL--RNG--KTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNS 157 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t--~nG--~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd 157 (214)
.+++.+.|.|+|.+--.+|.. ..| ..+..+.|+ |. +|+ +++++|++ .|+. ...|.+|+
T Consensus 71 p~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~------De-tG~---------Ir~t~W~~-~~~~-~~~le~G~ 132 (637)
T PRK12366 71 EGQINVEITGRIIEISNIKTFTRKDGSTGKLANITIA------DN-TGT---------IRLTLWND-NAKL-LKGLKEGD 132 (637)
T ss_pred CCCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEE------cC-CCE---------EEEEEEch-hhhh-hccCCCCC
Confidence 678899999999887776655 345 345666665 22 563 89999999 8886 57899999
Q ss_pred eEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEec
Q 028045 158 SVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 158 ~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
.++|.+- ..+.|.+. ++|.+.....|..+.
T Consensus 133 v~~i~~~-~v~~~~~~--------~el~~~~~t~I~~~~ 162 (637)
T PRK12366 133 VIKIENA-RSRKWNND--------VELNSGSETRIDKLE 162 (637)
T ss_pred EEEEecc-EecccCCc--------eEEEcCCcceEEEcc
Confidence 9999985 34456442 345554444455543
No 48
>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=91.60 E-value=4 Score=29.67 Aligned_cols=57 Identities=18% Similarity=0.316 Sum_probs=39.0
Q ss_pred EEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHH--HHHhhcCCCCeEEEEEE
Q 028045 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGS--YAVKQLVKNSSVYVEGD 164 (214)
Q Consensus 87 V~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe--~~~~~LkKGd~V~VeGr 164 (214)
+.+.|-|..- . .+++|+. .|+|. |. +| -+.|++|++ .-+ .....|+.|..|+|.|+
T Consensus 2 v~i~GiI~~v-~--~TK~g~~--~~~le------D~-~G---------~~Ev~~F~~-~~~~~~~~~~l~~d~~v~v~g~ 59 (79)
T cd04490 2 VSIIGMVNDV-R--STKNGHR--IVELE------DT-TG---------RITVLLTKD-KEELFEEAEDILPDEVIGVSGT 59 (79)
T ss_pred EEEEEEEeEE-E--EcCCCCE--EEEEE------CC-CC---------EEEEEEeCc-hhhhhhhhhhccCCCEEEEEEE
Confidence 3455555542 2 5677776 44433 22 34 378999999 444 56788999999999999
Q ss_pred e
Q 028045 165 I 165 (214)
Q Consensus 165 L 165 (214)
+
T Consensus 60 v 60 (79)
T cd04490 60 V 60 (79)
T ss_pred E
Confidence 9
No 49
>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=89.34 E-value=0.91 Score=33.96 Aligned_cols=75 Identities=19% Similarity=0.287 Sum_probs=49.4
Q ss_pred EEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhH--HHHHHhhcCCCCeEEEEEEe
Q 028045 88 IICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEIL--GSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 88 ~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~l--Ae~~~~~LkKGd~V~VeGrL 165 (214)
.+.|.|.+-|.. ..+|..| |+|. |. + .-++|++|.. . +..+...|+.||.|.|.|++
T Consensus 2 ~v~GeVs~~~~~--~~sGH~y--Ftlk------D~-~---------~~i~cv~f~~-~g~~~~~~~~l~~Gd~V~v~G~v 60 (91)
T cd04482 2 RVTGKVVEEPRT--IEGGHVF--FKIS------DG-T---------GEIDCAAYEP-TKEFRDVVRLLIPGDEVTVYGSV 60 (91)
T ss_pred EEEEEEeCCeec--CCCCCEE--EEEE------CC-C---------cEEEEEEECc-ccccccccCCCCCCCEEEEEEEE
Confidence 467888876631 2456643 5542 21 1 2378999987 5 55777889999999999997
Q ss_pred EEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCC
Q 028045 166 EIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGE 199 (214)
Q Consensus 166 ~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~ 199 (214)
.... +|.++ +++.++-+.
T Consensus 61 ~~y~-------------ql~ve---~l~~~glg~ 78 (91)
T cd04482 61 RPGT-------------TLNLE---KLRVIRLAR 78 (91)
T ss_pred ecCC-------------EEEEE---EEEECCCcc
Confidence 5543 46666 666655443
No 50
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=89.07 E-value=3.3 Score=39.75 Aligned_cols=64 Identities=9% Similarity=0.132 Sum_probs=50.8
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEe
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL 165 (214)
+|.+.|-|.. ...+.|++|..++.+++.-. +|. +.|++|.+ .-+.....|++|..|+|+|++
T Consensus 282 ~v~vaG~I~~-ik~~~TKkG~~maf~~leD~-------tG~---------ie~vvFp~-~y~~~~~~l~~~~~v~v~G~v 343 (449)
T PRK07373 282 KVSAVVMLNE-VKKIVTKKGDPMAFLQLEDL-------SGQ---------SEAVVFPK-SYERISELLQVDARLIIWGKV 343 (449)
T ss_pred EEEEEEEEEE-eEecccCCCCEEEEEEEEEC-------CCC---------EEEEECHH-HHHHHHHHhccCCEEEEEEEE
Confidence 5777777776 55667888988887777622 354 78999998 777788899999999999999
Q ss_pred EE
Q 028045 166 EI 167 (214)
Q Consensus 166 ~t 167 (214)
+.
T Consensus 344 ~~ 345 (449)
T PRK07373 344 DR 345 (449)
T ss_pred Ee
Confidence 64
No 51
>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha
Probab=88.95 E-value=3 Score=28.09 Aligned_cols=60 Identities=23% Similarity=0.252 Sum_probs=38.4
Q ss_pred EEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEe
Q 028045 89 ICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIR 168 (214)
Q Consensus 89 LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr 168 (214)
+.|.|...+.. ... +..++.+.+.- . +| -+.++.|+. ..++.+.+++|+.++|.|.+...
T Consensus 2 i~~~V~~~~~~-~~~-~~~~~~~~~~D------~-~g---------~i~~~~F~~--~~~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 2 VEGTVVSVEVV-PRR-GRRRLKVTLSD------G-TG---------TLTLVFFNF--QPYLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred EEEEEEEEEec-cCC-CccEEEEEEEc------C-CC---------EEEEEEECC--CHHHHhcCCCCCEEEEEEEEeec
Confidence 45665443222 222 45677776642 1 23 268888882 14677889999999999999753
No 52
>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=87.55 E-value=4.8 Score=29.90 Aligned_cols=68 Identities=13% Similarity=0.195 Sum_probs=41.4
Q ss_pred EEEEEEeCCCceEE--EecC-CcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEE
Q 028045 87 AIICGKVKDTPVQK--ILRN-GKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 87 V~LiGrVg~dPelr--~t~n-G~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeG 163 (214)
|-++|.|..--..+ .+++ |+......|.... . +|. -+.|++||+ .|+.+.... |+.|.+.|
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D----~-t~~--------~i~vtLWg~-~a~~~~~~~--~~vv~~~~ 65 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLVD----E-SGH--------SVELTLWGE-QAELFDGSE--NPVIAIKG 65 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEEe----C-CCC--------EEEEEEEHH-HhhhcccCC--CCEEEEEe
Confidence 34677776553333 2333 6655544444332 2 332 389999999 887665433 99999988
Q ss_pred EeEEeeee
Q 028045 164 DIEIRVYN 171 (214)
Q Consensus 164 rL~tr~w~ 171 (214)
++...|.
T Consensus 66 -~~i~~~~ 72 (101)
T cd04475 66 -VKVSEFN 72 (101)
T ss_pred -eEEEecC
Confidence 5566664
No 53
>PRK12366 replication factor A; Reviewed
Probab=87.42 E-value=4.5 Score=40.41 Aligned_cols=89 Identities=13% Similarity=0.231 Sum_probs=59.5
Q ss_pred cEEEEEEEeCCCceEEEecC--CcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 85 HKAIICGKVKDTPVQKILRN--GKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~n--G~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
+.+.|.|||..-..+|...+ |. --.|++... |. +|+ +++++|++ .|+.... |..|+.++|.
T Consensus 292 ~~~~I~grV~~~~~~R~f~~~~g~-gkv~s~~l~----D~-tG~---------IR~t~w~~-~~d~~~~-l~~G~vy~is 354 (637)
T PRK12366 292 EEVDVKGRIIAISDKREVERDDRT-AEVQDIELA----DG-TGR---------VRVSFWGE-KAKILEN-LKEGDAVKIE 354 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCc-EEEEEEEEE----cC-CCe---------EEEEEeCc-hhhhhcc-cCCCCEEEEe
Confidence 37889999999988887743 33 344555433 22 453 89999999 7877654 7899999998
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEE
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRRDGTLRL 194 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~ 194 (214)
+- +.+.|.+. +|. +.+||.++....|..
T Consensus 355 ~~-~vk~y~~~-~~~--~~~El~~~~~s~I~~ 382 (637)
T PRK12366 355 NC-KVRTYYDN-EGE--KRVDLNAGYSSEIIK 382 (637)
T ss_pred cC-EEeecccc-CCC--cCEEEEcCCceEEEe
Confidence 82 22356553 443 346777764445554
No 54
>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=87.39 E-value=3.9 Score=29.86 Aligned_cols=75 Identities=15% Similarity=0.212 Sum_probs=47.3
Q ss_pred EEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHH---HHHhhcCCCCeEEEEE
Q 028045 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGS---YAVKQLVKNSSVYVEG 163 (214)
Q Consensus 87 V~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe---~~~~~LkKGd~V~VeG 163 (214)
|.++|.|..- ... ..++.|+|. |+ +|. +.+.+|.. ..+ .....++.|+.|.|.|
T Consensus 2 v~~vG~V~~~---~~~---~~~~~~tL~------D~-TG~---------I~~~~W~~-~~~~~~~~~~~~~~g~~v~v~G 58 (95)
T cd04478 2 VTLVGVVRNV---EEQ---STNITYTID------DG-TGT---------IEVRQWLD-DDNDDSSEVEPIEEGTYVRVFG 58 (95)
T ss_pred EEEEEEEEee---eEc---ccEEEEEEE------CC-CCc---------EEEEEeCC-CCCcccccccccccCCEEEEEE
Confidence 5677877662 111 255667665 33 454 77888876 222 3567899999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecC
Q 028045 164 DIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKS 197 (214)
Q Consensus 164 rL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~ 197 (214)
+++... + + .+|.+. .+++++.
T Consensus 59 ~v~~~~--g----~----~ql~i~---~i~~v~d 79 (95)
T cd04478 59 NLKSFQ--G----K----KSIMAF---SIRPVTD 79 (95)
T ss_pred EEcccC--C----e----eEEEEE---EEEEeCC
Confidence 996543 2 1 345555 6666653
No 55
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=87.16 E-value=4.9 Score=39.98 Aligned_cols=93 Identities=15% Similarity=0.167 Sum_probs=64.1
Q ss_pred ccccEEEEEEEeCCCceEEEecC--C-cEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCe
Q 028045 82 RGVHKAIICGKVKDTPVQKILRN--G-KTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSS 158 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~n--G-~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~ 158 (214)
..+++.+|.|||..--++|...+ | ..+..|.|. | +.|+ +++++|++ .|+.....|+.|+.
T Consensus 188 py~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~------D-egg~---------Irat~f~~-~~dkf~~~l~eG~V 250 (608)
T TIGR00617 188 PYQNKWTIKARVTNKSEIRTWSNARGEGKLFNVELL------D-ESGE---------IRATAFNE-QADKFYDIIQEGKV 250 (608)
T ss_pred CCCCceEEEEEEEeccccceecCCCCCceeeEEEEe------c-CCCe---------EEEEECch-HHHHHhhhcccCCE
Confidence 34678999999999988887644 2 245544443 3 2342 89999999 99999999999999
Q ss_pred EEEEE-EeEEe--eeecCCCCeEEEEEEEEEEeCCcEEEec
Q 028045 159 VYVEG-DIEIR--VYNDSINGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 159 V~VeG-rL~tr--~w~dk~dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
++|.+ +++.. .|.. ....+||..+....|+...
T Consensus 251 Y~Is~~~Vk~an~~y~~-----~~~~yei~f~~~T~I~~~~ 286 (608)
T TIGR00617 251 YYISKGSLKPANKQFTN-----LGNDYEMTLDRDTVIEECE 286 (608)
T ss_pred EEECceEEEEccccccC-----CCCCEEEEECCCeEEEECC
Confidence 99965 55432 3322 1234788777555666654
No 56
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=87.04 E-value=1.5 Score=33.17 Aligned_cols=74 Identities=12% Similarity=0.194 Sum_probs=50.4
Q ss_pred ccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHH-hhcCCCCeEEEE
Q 028045 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAV-KQLVKNSSVYVE 162 (214)
Q Consensus 84 mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~-~~LkKGd~V~Ve 162 (214)
+..+-+.|.|..- +...+|.. =|+|.- ++ .=++|++|.. .+..+. ..++.|++|.|.
T Consensus 21 ~~~vwV~GEIs~~---~~~~~gh~--YftLkD---------~~-------a~i~~~~~~~-~~~~i~~~~l~~G~~V~v~ 78 (99)
T PF13742_consen 21 LPNVWVEGEISNL---KRHSSGHV--YFTLKD---------EE-------ASISCVIFRS-RARRIRGFDLKDGDKVLVR 78 (99)
T ss_pred cCCEEEEEEEeec---EECCCceE--EEEEEc---------CC-------cEEEEEEEHH-HHhhCCCCCCCCCCEEEEE
Confidence 5678899988763 22234544 455542 11 2389999998 677776 789999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEE
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIR 187 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~ 187 (214)
|++.... + .|+ +.+.|+
T Consensus 79 g~~~~y~---~-~G~----~sl~v~ 95 (99)
T PF13742_consen 79 GRVSFYE---P-RGS----LSLIVE 95 (99)
T ss_pred EEEEEEC---C-CcE----EEEEEE
Confidence 9998754 2 563 455555
No 57
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=86.68 E-value=3.9 Score=43.63 Aligned_cols=65 Identities=15% Similarity=0.241 Sum_probs=51.1
Q ss_pred cEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEE
Q 028045 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGD 164 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGr 164 (214)
..|.+.|-|.. ...+.|++|..++.+++.-. +|. +.+++|.+ .-+.....|..|..|+|+|+
T Consensus 978 ~~V~v~G~I~~-vk~~~TKkG~~mafltLeD~-------TG~---------iEvviFp~-~ye~~~~~L~~g~iV~V~Gk 1039 (1135)
T PRK05673 978 SVVTVAGLVVS-VRRRVTKRGNKMAIVTLEDL-------SGR---------IEVMLFSE-ALEKYRDLLEEDRIVVVKGQ 1039 (1135)
T ss_pred ceEEEEEEEEE-EEecccCCCCeEEEEEEEeC-------CCc---------EEEEECHH-HHHHHHHHhccCCEEEEEEE
Confidence 35777777765 66677889999998888732 454 78999998 55667788999999999999
Q ss_pred eEE
Q 028045 165 IEI 167 (214)
Q Consensus 165 L~t 167 (214)
++.
T Consensus 1040 Ve~ 1042 (1135)
T PRK05673 1040 VSF 1042 (1135)
T ss_pred EEe
Confidence 964
No 58
>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=85.31 E-value=14 Score=28.05 Aligned_cols=87 Identities=16% Similarity=0.174 Sum_probs=55.0
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
++|.|.|.|.|-.- +-..+ +.-.-.+|...+.| |+. .-|+|+-+-+-|+ +|=-+.+|.+|=..+.|+
T Consensus 1 MLN~V~LEG~IeS~---kWS~~-KTGF~VTI~QkR~F-----G~r---~FTDyyViYAN~Q-L~~ELEky~~k~k~isie 67 (104)
T PF11506_consen 1 MLNTVFLEGEIESY---KWSKK-KTGFLVTIKQKRKF-----GER---TFTDYYVIYANGQ-LAFELEKYTQKHKTISIE 67 (104)
T ss_dssp --EEEEEEEEEEEE---EE-TT-SSEEEEEEEEEEEE-----TTE---EEEEEEEEEEEHH-HHHHHHHHHTT-SEEEEE
T ss_pred CcceEEEeceeehh---ccccc-CceEEEEEeehhhh-----ccc---cceeEEEEEECCe-eehhHHHhhhhceEEEEe
Confidence 47999999988542 22222 11112233333333 443 4799999999998 999999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEE
Q 028045 163 GDIEIRVYNDSINGEVKNIPEI 184 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eI 184 (214)
|.|++..= .+ .+.-.+..++
T Consensus 68 G~L~TY~e-kk-S~iWKT~I~~ 87 (104)
T PF11506_consen 68 GILRTYLE-KK-SKIWKTTIEA 87 (104)
T ss_dssp EEEEEEEE-TT-TTEEEEEEEE
T ss_pred eehhhHHH-Hh-cccceeeEEE
Confidence 99988643 23 6655444443
No 59
>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=85.27 E-value=8.7 Score=41.36 Aligned_cols=74 Identities=15% Similarity=0.134 Sum_probs=55.1
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhH-HHHHHhhcCCCCeEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEIL-GSYAVKQLVKNSSVYV 161 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~l-Ae~~~~~LkKGd~V~V 161 (214)
..+.|+|.|.|-. .+.|.+++|+.+..|.|.- | |+-+.|..|.+.. -......+++|+-|.|
T Consensus 6 ~~~~~~~~g~i~~-~~~~~~~~~~~~~~~~~~d---~-------------~~s~~~k~f~~~~~~~~~~~~~~~g~~~~~ 68 (1213)
T TIGR01405 6 EENRVKIEGYIFK-IEIKELKSGRTLLKIKVTD---Y-------------TDSLILKKFLKSEEDPEKFDGIKIGKWVRA 68 (1213)
T ss_pred cCCeEEEEEEEEE-EEeEeccCCCEEEEEEEEc---C-------------CCCEEEEEecccccchHHHhhcCCCcEEEE
Confidence 4688999999965 7788899999998888872 1 1226677777311 1123467999999999
Q ss_pred EEEeEEeeeecC
Q 028045 162 EGDIEIRVYNDS 173 (214)
Q Consensus 162 eGrL~tr~w~dk 173 (214)
.|++++..|...
T Consensus 69 ~g~~~~d~~~~~ 80 (1213)
T TIGR01405 69 RGKIELDNFSRD 80 (1213)
T ss_pred EEEEeccCCCCc
Confidence 999999998753
No 60
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=84.36 E-value=8.6 Score=42.09 Aligned_cols=74 Identities=14% Similarity=0.197 Sum_probs=54.7
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChh-HHHHHHhhcCCCCeEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEI-LGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~-lAe~~~~~LkKGd~V~V 161 (214)
..+.|+|.|.|-. .+.|.+++|+.+..|.|. . | |+-+.|..|.+. .-......+++|+-|.|
T Consensus 235 ~~~~v~i~G~if~-~e~~~~k~~~~~~~~~~t-d--~-------------~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~ 297 (1437)
T PRK00448 235 EERRVVVEGYVFK-VEIKELKSGRHILTFKIT-D--Y-------------TSSIIVKKFSRDKEDLKKFDEIKKGDWVKV 297 (1437)
T ss_pred cCCeEEEEEEEEE-EEEEeccCCCEEEEEEEE-c--C-------------CCCEEEEEEecCcchhHHHhcCCCCCEEEE
Confidence 3578999999965 788899999999999884 1 1 122566666631 11234467999999999
Q ss_pred EEEeEEeeeecC
Q 028045 162 EGDIEIRVYNDS 173 (214)
Q Consensus 162 eGrL~tr~w~dk 173 (214)
.|++++..|...
T Consensus 298 ~g~~~~d~~~~~ 309 (1437)
T PRK00448 298 RGSVQNDTFTRD 309 (1437)
T ss_pred EEEEeccCCCCc
Confidence 999999998753
No 61
>PRK08402 replication factor A; Reviewed
Probab=83.92 E-value=11 Score=35.27 Aligned_cols=90 Identities=16% Similarity=0.194 Sum_probs=56.4
Q ss_pred ccccEEEEEEEeCCCceEEE--ecCCc--EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCC
Q 028045 82 RGVHKAIICGKVKDTPVQKI--LRNGK--TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNS 157 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~--t~nG~--~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd 157 (214)
.++..|.++|+|.+--..|. ..+|. .|..+.|+ |. +| .+++++|++ .|......+.+|+
T Consensus 70 ~g~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~------De-TG---------~ir~TlW~~-~a~~~~~~l~~Gd 132 (355)
T PRK08402 70 PGMRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIY------DD-TG---------RARVVLWDA-KVAKYYNKINVGD 132 (355)
T ss_pred CCCceeeEEEEEEEccCCceeeccCCCcceEEEEEEE------cC-CC---------eEEEEEech-hhhhhcccCCCCC
Confidence 46778899999997533332 24554 34445554 22 34 379999999 7775556799999
Q ss_pred eEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEec
Q 028045 158 SVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 158 ~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
.|.|.|---...| .| .++|.+.+.+.|....
T Consensus 133 vi~I~~a~V~e~~----~G----~~eLsvg~~s~i~~~p 163 (355)
T PRK08402 133 VIKVIDAQVRESL----SG----LPELHINFRARIILNP 163 (355)
T ss_pred EEEEECCEEeecC----CC----cEEEEECCCceEEeCC
Confidence 9999854333323 23 2456665555665543
No 62
>PRK14699 replication factor A; Provisional
Probab=83.63 E-value=10 Score=36.75 Aligned_cols=91 Identities=14% Similarity=0.223 Sum_probs=58.2
Q ss_pred ccccEEEEEEEeCCCceEEEe--cCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeE
Q 028045 82 RGVHKAIICGKVKDTPVQKIL--RNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t--~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V 159 (214)
.+++.+.|.|+|..--.+|.. ++|...-.|++-... . +|. +++++|++ .|+ ....+..|+.|
T Consensus 284 ~~~~~v~I~grV~~~~~~r~~~~~~Gseg~v~~~~l~D----e-TG~---------Ir~T~W~~-~a~-~~~~i~~Gd~v 347 (484)
T PRK14699 284 ADMNNINISGRVLDISEVRTFEKKDGSPGRVGNLLLGD----S-TGK---------IRLTLWDE-KTN-FLDEIDFDETV 347 (484)
T ss_pred CCCceeEEEEEEEEcCCCeEEEcCCCCeeEEEEEEEEC----C-CCe---------EEEEEeCc-ccc-cccccCCCceE
Confidence 468899999999977665654 356555556555443 2 452 89999999 774 44568899977
Q ss_pred EEEE-EeEEeeeecCCCCeEEEEEEEEEEeCCcEEEec
Q 028045 160 YVEG-DIEIRVYNDSINGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 160 ~VeG-rL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
.|.+ ..+.+.|. ..++|.+.+.+.|....
T Consensus 348 ~i~~~y~~~~~~~--------~~~eL~~~~~t~I~~~~ 377 (484)
T PRK14699 348 EVLNAYSRENTFS--------QQVELNLGARGIIQKSE 377 (484)
T ss_pred EEEeEEEEeccCC--------ccEEEEecCceeEeecC
Confidence 7654 32322221 24677776555555543
No 63
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=82.21 E-value=11 Score=40.37 Aligned_cols=65 Identities=15% Similarity=0.117 Sum_probs=50.3
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEe
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL 165 (214)
.|.+.|-|.. ...+.|++|..++-+++.-. +|. +.|++|.+ .-+.....|..|..|+|+|++
T Consensus 945 ~v~v~g~i~~-~~~~~tk~g~~maf~~leD~-------tg~---------~e~~vFp~-~y~~~~~~l~~~~~~~v~G~v 1006 (1107)
T PRK06920 945 VQRAIVYITS-VKVIRTKKGQKMAFITFCDQ-------NDE---------MEAVVFPE-TYIHFSDKLQEGAIVLVDGTI 1006 (1107)
T ss_pred EEEEEEEEEE-eEeecCCCCCeEEEEEEeeC-------CCc---------EEEEECHH-HHHHHHHHhccCCEEEEEEEE
Confidence 5778887776 44556788988887777622 343 78999998 667778889999999999999
Q ss_pred EEe
Q 028045 166 EIR 168 (214)
Q Consensus 166 ~tr 168 (214)
+.+
T Consensus 1007 ~~~ 1009 (1107)
T PRK06920 1007 ELR 1009 (1107)
T ss_pred Eec
Confidence 654
No 64
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=80.63 E-value=15 Score=39.47 Aligned_cols=65 Identities=20% Similarity=0.321 Sum_probs=50.2
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEe
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL 165 (214)
.|.+.|-|.. ...+.|++|..++.+++.-. +|. +.|++|.+ .-+.....|+.|..|+|+|++
T Consensus 993 ~v~v~g~i~~-~~~~~tk~G~~maf~~leD~-------~g~---------~e~~vfp~-~~~~~~~~l~~~~~~~v~g~v 1054 (1151)
T PRK06826 993 KVIIGGIITE-VKRKTTRNNEMMAFLTLEDL-------YGT---------VEVIVFPK-VYEKYRSLLNEDNIVLIKGRV 1054 (1151)
T ss_pred EEEEEEEEEE-eEeeccCCCCeEEEEEEEEC-------CCc---------EEEEECHH-HHHHHHHHhccCCEEEEEEEE
Confidence 5677777766 55567788988888877632 343 78999998 666677889999999999999
Q ss_pred EEe
Q 028045 166 EIR 168 (214)
Q Consensus 166 ~tr 168 (214)
+.+
T Consensus 1055 ~~~ 1057 (1151)
T PRK06826 1055 SLR 1057 (1151)
T ss_pred Eec
Confidence 654
No 65
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=80.08 E-value=15 Score=39.57 Aligned_cols=65 Identities=15% Similarity=0.169 Sum_probs=50.7
Q ss_pred cEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEE
Q 028045 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGD 164 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGr 164 (214)
..|.+.|-|.. ...+.|++|..++.+++.-. +|. +.|++|.+ .-+.....|+.|..|+|+|+
T Consensus 1001 ~~v~v~g~i~~-~k~~~Tk~G~~maf~~leD~-------tg~---------~e~vvFp~-~y~~~~~~l~~~~~~~v~g~ 1062 (1170)
T PRK07374 1001 AKVSAIAMIPE-MKQVTTRKGDRMAILQLEDL-------TGS---------CEAVVFPK-SYERLSDHLMTDTRLLVWAK 1062 (1170)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEEEC-------CCC---------EEEEECHH-HHHHHHHHhccCCEEEEEEE
Confidence 45778888876 45567788988887777622 343 78999998 66677788999999999999
Q ss_pred eEE
Q 028045 165 IEI 167 (214)
Q Consensus 165 L~t 167 (214)
++.
T Consensus 1063 v~~ 1065 (1170)
T PRK07374 1063 VDR 1065 (1170)
T ss_pred EEe
Confidence 965
No 66
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=77.69 E-value=2.3 Score=40.04 Aligned_cols=81 Identities=11% Similarity=0.216 Sum_probs=56.4
Q ss_pred ccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEE
Q 028045 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 84 mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeG 163 (214)
+..|-+.|.|.. ++...+|..| |++. |. ..-++|++|.. .+..+.-.++.|+.|.|.|
T Consensus 23 ~~~v~v~gEis~---~~~~~sGH~Y--f~Lk------d~----------~a~i~~~~~~~-~~~~~~~~~~~G~~v~v~g 80 (438)
T PRK00286 23 LGQVWVRGEISN---FTRHSSGHWY--FTLK------DE----------IAQIRCVMFKG-SARRLKFKPEEGMKVLVRG 80 (438)
T ss_pred CCcEEEEEEeCC---CeeCCCCeEE--EEEE------cC----------CcEEEEEEEcC-hhhcCCCCCCCCCEEEEEE
Confidence 567889999877 2333567665 4543 21 22389999997 7777766799999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecC
Q 028045 164 DIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKS 197 (214)
Q Consensus 164 rL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~ 197 (214)
++.. |+. .|. +.|.|+ .|...+.
T Consensus 81 ~~~~--y~~--~g~----~ql~v~---~i~~~g~ 103 (438)
T PRK00286 81 KVSL--YEP--RGD----YQLIVE---EIEPAGI 103 (438)
T ss_pred EEEE--ECC--CCC----EEEEEE---EeeeCCc
Confidence 9987 443 453 667777 6766543
No 67
>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=77.20 E-value=13 Score=35.39 Aligned_cols=79 Identities=13% Similarity=0.125 Sum_probs=55.2
Q ss_pred ccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEE
Q 028045 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 84 mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeG 163 (214)
+..|-+.|.|..- +...+|..|. ++ +|. + .=++|++|.. .+..+.-.++-|+.|.|.|
T Consensus 17 ~~~v~V~GEisn~---~~~~sGH~YF--tL------kD~--~--------a~i~~vmf~~-~~~~l~f~~~~G~~V~v~g 74 (432)
T TIGR00237 17 FLQVWIQGEISNF---TQPVSGHWYF--TL------KDE--N--------AQVRCVMFRG-NNNRLKFRPQNGQQVLVRG 74 (432)
T ss_pred CCcEEEEEEecCC---eeCCCceEEE--EE------EcC--C--------cEEEEEEEcC-hhhCCCCCCCCCCEEEEEE
Confidence 5688899999872 2335676664 43 222 1 2389999998 7777767799999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEeCCcEEEe
Q 028045 164 DIEIRVYNDSINGEVKNIPEICIRRDGTLRLV 195 (214)
Q Consensus 164 rL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L 195 (214)
++... +. .|. +.+.|+ .|+.-
T Consensus 75 ~v~~y--~~--~G~----~ql~v~---~i~~~ 95 (432)
T TIGR00237 75 GISVY--EP--RGD----YQIICF---EMQPA 95 (432)
T ss_pred EEEEE--CC--CCc----EEEEEE---EeccC
Confidence 99864 33 463 667777 66654
No 68
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=76.39 E-value=8.4 Score=31.21 Aligned_cols=79 Identities=23% Similarity=0.376 Sum_probs=52.1
Q ss_pred cccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 83 ~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
.+|-+.|+= .+-....|++|+.|..+.|| |+ +|. +++.+|++ .. ..+++||.|.+.
T Consensus 16 N~~v~fIvl---~~g~~tkTkdg~~v~~~kVa------D~-Tgs---------I~isvW~e-~~----~~~~PGDIirLt 71 (134)
T KOG3416|consen 16 NINVTFIVL---EYGRATKTKDGHEVRSCKVA------DE-TGS---------INISVWDE-EG----CLIQPGDIIRLT 71 (134)
T ss_pred cceEEEEEE---eeceeeeccCCCEEEEEEEe------cc-cce---------EEEEEecC-cC----cccCCccEEEec
Confidence 355444433 33334568899999999998 22 453 88999997 33 468999999877
Q ss_pred EEe------EEeeeecCCCCeEEEEEEEEE
Q 028045 163 GDI------EIRVYNDSINGEVKNIPEICI 186 (214)
Q Consensus 163 GrL------~tr~w~dk~dG~~r~~~eIvv 186 (214)
|=. ...-|..+ .|+....-|.++
T Consensus 72 ~Gy~Si~qg~LtL~~GK-~Ge~~KiGef~~ 100 (134)
T KOG3416|consen 72 GGYASIFQGCLTLYVGK-GGEVQKIGEFCM 100 (134)
T ss_pred ccchhhhcCceEEEecC-CceEeEeeeeEE
Confidence 632 23445667 787666666654
No 69
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=75.96 E-value=22 Score=37.71 Aligned_cols=66 Identities=18% Similarity=0.229 Sum_probs=49.3
Q ss_pred cEEEEEEEeCCCceEEEec-CCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEE
Q 028045 85 HKAIICGKVKDTPVQKILR-NGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~-nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeG 163 (214)
..+.+.|.|..--. +.++ +|..++.+++.-. +|. +.|++|.+ .-+.....|+.|..|+|+|
T Consensus 885 ~~~~~~~~i~~~~~-~~tk~~g~~maf~~leD~-------~g~---------ie~~vFp~-~y~~~~~~l~~~~~~~v~G 946 (1034)
T PRK07279 885 SEATILVQIQSIRV-IRTKTKGQQMAFLSVTDT-------KKK---------LDVTLFPE-TYRQYKDELKEGKFYYLKG 946 (1034)
T ss_pred CcceEEEEEEEEEE-EEEcCCCCeEEEEEEeeC-------CCc---------EEEEECHH-HHHHHHHHhccCCEEEEEE
Confidence 34678888866433 4455 8888888777632 343 78999998 6666778899999999999
Q ss_pred EeEEe
Q 028045 164 DIEIR 168 (214)
Q Consensus 164 rL~tr 168 (214)
+++.+
T Consensus 947 ~v~~~ 951 (1034)
T PRK07279 947 KIQER 951 (1034)
T ss_pred EEEec
Confidence 99664
No 70
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=73.55 E-value=25 Score=37.35 Aligned_cols=79 Identities=15% Similarity=0.225 Sum_probs=54.2
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEe
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL 165 (214)
.|.+.|-|.. ...+.|++| ++-+++. |. +|. +.|++|.+ .-+.....|+.|..|+|+|++
T Consensus 955 ~v~v~g~i~~-~~~~~TkkG--maf~~le------D~-~g~---------~e~~ifp~-~~~~~~~~l~~~~~~~v~g~v 1014 (1046)
T PRK05672 955 RVRVAGVVTH-RQRPGTASG--VTFLTLE------DE-TGM---------VNVVVWPG-LWERQRREALGARLLLVRGRV 1014 (1046)
T ss_pred EEEEEEEEEE-EEEecCCCc--eEEEEEe------cC-CCC---------EEEEECHH-HHHHHHHHhccCCEEEEEEEE
Confidence 4666666655 555567777 5544443 22 343 78999999 777788889999999999999
Q ss_pred EEeeeecCCCCeEEEEEEEEEEeCCcEEEecC
Q 028045 166 EIRVYNDSINGEVKNIPEICIRRDGTLRLVKS 197 (214)
Q Consensus 166 ~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~ 197 (214)
+.+ +|. ..|+|+ +|..|..
T Consensus 1015 ~~~------~~~----~~~~~~---~i~~~~~ 1033 (1046)
T PRK05672 1015 QNA------EGV----RHLVAD---RLEDLSP 1033 (1046)
T ss_pred Eec------CCe----EEEEEe---eeechHH
Confidence 653 232 357777 7766643
No 71
>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=68.71 E-value=38 Score=27.04 Aligned_cols=78 Identities=9% Similarity=0.140 Sum_probs=52.9
Q ss_pred cEEEEEEEeCCCceE--EEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCC-CCeEEE
Q 028045 85 HKAIICGKVKDTPVQ--KILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVK-NSSVYV 161 (214)
Q Consensus 85 NkV~LiGrVg~dPel--r~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkK-Gd~V~V 161 (214)
..|.++|-|...-.. +.+....-++.|+|. ..++.+. . .....+.|.+|-+ ..+.+- .++. ||.|++
T Consensus 13 ~~vnvigVV~~~~~p~~~~t~g~D~~~tl~i~-D~S~~~~---~----~~~~~l~v~iF~~-~~~~LP-~v~~~GDii~l 82 (146)
T PF02765_consen 13 KFVNVIGVVVDFSPPNPKKTRGTDYMCTLTIT-DPSLNDS---N----QKLSGLTVNIFRP-HKESLP-NVKSVGDIIRL 82 (146)
T ss_dssp EEEEEEEEEEEEEEECTEEESSSCEEEEEEEE-BTTCSCS---S----CCCCEEEEEEEES-SHHHSC-TTCSTTHEEEE
T ss_pred CEEEEEEEEEEccCCcceEcCCCcEEEEEEEE-CCCCCcc---c----cccCCEEEEEECC-CHHHCC-CCCCCCCEEEE
Confidence 367788888876444 556667788999993 3332211 0 0116899999977 566664 4666 998888
Q ss_pred EEEeEEeeeecC
Q 028045 162 EGDIEIRVYNDS 173 (214)
Q Consensus 162 eGrL~tr~w~dk 173 (214)
. |++...|+++
T Consensus 83 ~-r~kv~~~~~~ 93 (146)
T PF02765_consen 83 R-RVKVQSYNGK 93 (146)
T ss_dssp E-EEEEEEETTE
T ss_pred E-EEEEEEECCE
Confidence 7 8888888764
No 72
>PRK07218 replication factor A; Provisional
Probab=68.44 E-value=52 Score=31.54 Aligned_cols=86 Identities=15% Similarity=0.224 Sum_probs=54.9
Q ss_pred ccccEEEEEEEeCCCceEEE--ecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeE
Q 028045 82 RGVHKAIICGKVKDTPVQKI--LRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~--t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V 159 (214)
.+.+.|.|.|+|-+... |. .++|... ..+. ...|. +| -+++++|++ +| .|.+|+.|
T Consensus 170 ~g~~~V~v~g~Vl~~~~-r~f~~~dg~~~-v~~g----iigDe-TG---------~Ir~tlW~~-~~-----~l~~Gd~v 227 (423)
T PRK07218 170 PGDRGVNVEARVLELEH-REIDGRDGETT-ILSG----VLADE-TG---------RLPFTDWDP-LP-----EIEIGASI 227 (423)
T ss_pred CCCCceEEEEEEEEecc-eeEEcCCCCeE-EEEE----EEECC-Cc---------eEEEEEecc-cc-----cCCCCCEE
Confidence 45677889999986633 32 2445332 1111 12232 45 489999998 65 38999999
Q ss_pred EEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCC
Q 028045 160 YVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 160 ~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~ 198 (214)
.|.+-.... |.+ .++|.+.+.+.|..++..
T Consensus 228 ~I~na~v~e-~~G--------~~elnv~~~t~I~~~d~~ 257 (423)
T PRK07218 228 RIEDAYVRE-FRG--------VPSVNVSEFTTVEALDRE 257 (423)
T ss_pred EEeeeEEec-cCC--------eEEEEECCceEEEECCCC
Confidence 999854433 533 377888777778877654
No 73
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=67.21 E-value=39 Score=25.80 Aligned_cols=70 Identities=13% Similarity=0.188 Sum_probs=40.6
Q ss_pred cEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEE
Q 028045 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGD 164 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGr 164 (214)
..+++.|.|...|+.. +.. ..|.+.+.... . .+.. .....-+.+.+-.+ ... .++.||.+.++|+
T Consensus 76 ~~~~v~g~V~~~~~~~----~~~-~~~~~~~~~~~-~--~~~~--~~~~~~i~~~~~~~-~~~----~l~~Gd~i~~~g~ 140 (176)
T PF13567_consen 76 KEVTVQGTVESVPQID----GRG-QRFTLRVERVL-A--GGNW--IPVSGKILLYLPKD-SQP----RLQPGDRIRVRGK 140 (176)
T ss_pred ceEEEEEEEccccccc----Cce-EEEEEEEEEee-c--cccc--cccceeeEEEeccc-ccc----ccCCCCEEEEEEE
Confidence 3577999998888873 222 25666554321 1 1221 12333344444443 111 6999999999999
Q ss_pred eEEee
Q 028045 165 IEIRV 169 (214)
Q Consensus 165 L~tr~ 169 (214)
|+.=.
T Consensus 141 l~~~~ 145 (176)
T PF13567_consen 141 LKPPS 145 (176)
T ss_pred EecCC
Confidence 97543
No 74
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=66.75 E-value=26 Score=35.14 Aligned_cols=61 Identities=23% Similarity=0.223 Sum_probs=43.2
Q ss_pred cEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEe--ChhHHHHHHhhcCCCCeEEEE
Q 028045 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVH--NEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~--gk~lAe~~~~~LkKGd~V~Ve 162 (214)
..+++.|.|...+..+. +..++.+.+.. . +| -+.|+.| ++ .++.+.+++|+.++|.
T Consensus 60 ~~vtv~g~V~~~~~~~~---~~~~~~v~l~D------~-tg---------~i~l~~F~~n~---~~~~~~l~~G~~~~v~ 117 (681)
T PRK10917 60 EKVTVEGEVLSAEVVFG---KRRRLTVTVSD------G-TG---------NLTLRFFNFNQ---PYLKKQLKVGKRVAVY 117 (681)
T ss_pred CEEEEEEEEEEEEEccC---CceEEEEEEEE------C-Ce---------EEEEEEEccCc---HHHHhhCCCCCEEEEE
Confidence 47999999987644432 45566665541 1 23 2667777 44 3788899999999999
Q ss_pred EEeEE
Q 028045 163 GDIEI 167 (214)
Q Consensus 163 GrL~t 167 (214)
|.+..
T Consensus 118 Gkv~~ 122 (681)
T PRK10917 118 GKVKR 122 (681)
T ss_pred EEEEe
Confidence 99986
No 75
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=65.92 E-value=5.4 Score=38.35 Aligned_cols=94 Identities=14% Similarity=0.180 Sum_probs=61.1
Q ss_pred ccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~V 161 (214)
..+-.|-+.|.|..- +.-++|..| |++- | ...-++|++|.. ....+.-.++-|+.|.|
T Consensus 21 ~~~~~V~v~GEISn~---t~~~sgH~Y--FtLK------D----------~~A~i~c~mf~~-~~~~l~f~p~eG~~V~v 78 (440)
T COG1570 21 RDLGQVWVRGEISNF---TRPASGHLY--FTLK------D----------ERAQIRCVMFKG-NNRRLKFRPEEGMQVLV 78 (440)
T ss_pred hcCCeEEEEEEecCC---ccCCCccEE--EEEc------c----------CCceEEEEEEcC-cccccCCCccCCCEEEE
Confidence 346788899998772 223455443 3332 1 233599999998 67777777999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCCCCCCCChhhhh
Q 028045 162 EGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGESISKISFDDLR 210 (214)
Q Consensus 162 eGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~~~~~~s~~e~~ 210 (214)
.|++.... . .| .+.|+++ .+++-+- .+-..-+++||
T Consensus 79 ~G~is~Y~--~--rG----~YQi~~~---~~~p~G~--G~L~~~~E~lK 114 (440)
T COG1570 79 RGKISLYE--P--RG----DYQIVAE---SMEPAGL--GALYLAFEQLK 114 (440)
T ss_pred EEEEEEEc--C--CC----ceEEEEe---cCCcCCh--hHHHHHHHHHH
Confidence 99998754 3 45 3778888 6664322 22234455554
No 76
>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=64.61 E-value=45 Score=24.11 Aligned_cols=54 Identities=11% Similarity=0.249 Sum_probs=34.1
Q ss_pred EEEEEeChhHHH-HHHhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEec
Q 028045 136 HRIAVHNEILGS-YAVKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 136 ~~V~~~gk~lAe-~~~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
+.|++-.+ ... ...+.|..|+.|.|+|.+..+.-.. .+. ....||.++ .|+.|.
T Consensus 31 iQvv~~~~-~~~~~~~~~l~~~s~V~V~G~v~~~~~~~--~~~-~~~~Ei~~~---~i~il~ 85 (86)
T cd04321 31 IQLVSTAK-KDAFSLLKSITAESPVQVRGKLQLKEAKS--SEK-NDEWELVVD---DIQTLN 85 (86)
T ss_pred EEEEECCC-HHHHHHHhcCCCCcEEEEEEEEEeCCCcC--CCC-CCCEEEEEE---EEEEec
Confidence 56655433 221 2345699999999999988764221 111 124789998 888875
No 77
>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=63.55 E-value=53 Score=26.04 Aligned_cols=74 Identities=8% Similarity=0.045 Sum_probs=50.5
Q ss_pred cEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEE
Q 028045 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGD 164 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGr 164 (214)
..|.++|-|..-...+.+......+.|+|.-.. +. ...=+.|.+|++ .++.+-. +..||.|++.+
T Consensus 15 ~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S-------~~-----~~~~l~v~~F~~-~~~~LP~-v~~GDVIll~~- 79 (138)
T cd04497 15 GSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPS-------LA-----NSDGLTVKLFRP-NEESLPI-VKVGDIILLRR- 79 (138)
T ss_pred CeEEEEEEEeecCCCcccCCCcEEEEEEEECCC-------CC-----CCCcEEEEEECC-ChhhCCC-CCCCCEEEEEE-
Confidence 356688888776555545434467777777332 11 022388999999 7776654 59999999998
Q ss_pred eEEeeeecC
Q 028045 165 IEIRVYNDS 173 (214)
Q Consensus 165 L~tr~w~dk 173 (214)
++...|.++
T Consensus 80 ~kv~~~~g~ 88 (138)
T cd04497 80 VKIQSYNGK 88 (138)
T ss_pred EEEEEECCc
Confidence 778888765
No 78
>PRK06386 replication factor A; Reviewed
Probab=61.99 E-value=65 Score=30.24 Aligned_cols=83 Identities=19% Similarity=0.206 Sum_probs=51.9
Q ss_pred ccccEEEEEEEeCCCceEEEecCCc--EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGK--TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~--~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V 159 (214)
.++.-|.+.|+|-.-|+-.....|. .+...-|+ |. +| -+++++|++ .|..|+.|
T Consensus 115 ~g~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg------De-TG---------rIr~TlW~~--------~l~eGd~v 170 (358)
T PRK06386 115 LVTPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE------DD-TA---------RVRISSFGK--------PLEDNRFV 170 (358)
T ss_pred CCCCceEEEEEEEEccCceEecCCCccEEEEEEEE------cC-CC---------eEEEEEccc--------cccCCCEE
Confidence 5667777999998766632223332 33333332 22 45 488999997 28899999
Q ss_pred EEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecC
Q 028045 160 YVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKS 197 (214)
Q Consensus 160 ~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~ 197 (214)
.|.+-. .+.|.+ .++|.+.+.+.|..++.
T Consensus 171 ~i~na~-v~e~~G--------~~el~v~~~t~I~~~~~ 199 (358)
T PRK06386 171 RIENAR-VSQYNG--------YIEISVGNKSVIKEVES 199 (358)
T ss_pred EEeeeE-EEccCC--------eEEEEeCCeEEEEECCC
Confidence 999943 555533 46777776666666543
No 79
>PRK07218 replication factor A; Provisional
Probab=55.93 E-value=1.2e+02 Score=29.00 Aligned_cols=66 Identities=12% Similarity=0.249 Sum_probs=42.6
Q ss_pred ccccEEEEEEEeCCCceEEEe-cCCc--EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCe
Q 028045 82 RGVHKAIICGKVKDTPVQKIL-RNGK--TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSS 158 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t-~nG~--~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~ 158 (214)
.++..|.+.|+|-.-.+ |.+ .+|. .+....|| |. +|. +++++|++ .+ |..||.
T Consensus 66 ~~~~~V~v~~kVl~i~~-rt~r~dg~~g~v~~~~ig------De-TG~---------Ir~tlW~~-~~------l~~Gdv 121 (423)
T PRK07218 66 TDDKNVTVTGRVLTIGE-RSIRYQGDDHVIYEGILA------DE-TGT---------ISYTAWKD-FG------LSPGDT 121 (423)
T ss_pred CCCceeEEEEEEEEecc-eeEecCCCceEEEEEEEE------CC-CCe---------EEEEEECC-CC------CCCCCE
Confidence 45677889999877655 432 3343 33333333 22 564 89999997 43 999999
Q ss_pred EEEEEEeEEeeeec
Q 028045 159 VYVEGDIEIRVYND 172 (214)
Q Consensus 159 V~VeGrL~tr~w~d 172 (214)
|.|.+- .++.|.+
T Consensus 122 v~I~na-~vre~~g 134 (423)
T PRK07218 122 VTIGNA-GVREWDG 134 (423)
T ss_pred EEEecc-EeeccCC
Confidence 999863 3444643
No 80
>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=55.27 E-value=33 Score=25.46 Aligned_cols=44 Identities=23% Similarity=0.203 Sum_probs=31.1
Q ss_pred HhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCC
Q 028045 150 VKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 150 ~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~ 198 (214)
.+.|..|+.|.|+|.+....- .. ++......||.++ +|+.|...
T Consensus 49 ~~~l~~es~V~V~G~v~~~~~-~~-~~~~~~~~El~~~---~i~il~~~ 92 (102)
T cd04320 49 AGSLSKESIVDVEGTVKKPEE-PI-KSCTQQDVELHIE---KIYVVSEA 92 (102)
T ss_pred HhcCCCccEEEEEEEEECCCC-cc-cCCCcCcEEEEEE---EEEEEecC
Confidence 356999999999999876421 11 2222245899999 99999754
No 81
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=54.04 E-value=97 Score=30.73 Aligned_cols=64 Identities=19% Similarity=0.208 Sum_probs=42.4
Q ss_pred cEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEE
Q 028045 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGD 164 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGr 164 (214)
..+++.|.|...... ...+..++.+.+... . +| -+.++.|+. .++.+.+++|+.|+|.|.
T Consensus 33 ~~~~~~~~v~~~~~~--~~~~~~~~~~~~~d~-----~-~~---------~~~~~~F~~---~~~~~~~~~g~~~~~~Gk 92 (630)
T TIGR00643 33 ERATIVGEVLSHCIF--GFKRRKVLKLRLKDG-----G-YK---------KLELRFFNR---AFLKKKFKVGSKVVVYGK 92 (630)
T ss_pred CEEEEEEEEEEeEec--cCCCCceEEEEEEEC-----C-CC---------EEEEEEECC---HHHHhhCCCCCEEEEEEE
Confidence 468899998773221 123344555554321 1 23 267888885 378899999999999999
Q ss_pred eEEe
Q 028045 165 IEIR 168 (214)
Q Consensus 165 L~tr 168 (214)
+...
T Consensus 93 ~~~~ 96 (630)
T TIGR00643 93 VKSS 96 (630)
T ss_pred EEee
Confidence 9753
No 82
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=52.47 E-value=74 Score=32.39 Aligned_cols=77 Identities=18% Similarity=0.150 Sum_probs=54.0
Q ss_pred cEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEE
Q 028045 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGD 164 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGr 164 (214)
..|++.|.|...+... ..++....+.+..+ +.-+.++.|+. .| ++.+.+++|..|.|.|.
T Consensus 61 ~~vti~g~V~~~~~~~--~~~~~~l~v~~~d~----------------~~~l~l~fFn~-~~-~l~~~~~~G~~v~v~Gk 120 (677)
T COG1200 61 EIVTIEGTVLSHEKFP--FGKRKLLKVTLSDG----------------TGVLTLVFFNF-PA-YLKKKLKVGERVIVYGK 120 (677)
T ss_pred ceEEEEEEEEeeeccC--CCCCceEEEEEecC----------------cEEEEEEEECc-cH-HHHhhCCCCCEEEEEEE
Confidence 4789999998865543 34566666666531 22378889998 55 89999999999999999
Q ss_pred eEEeeeecCCCCeEEEEEEEEE
Q 028045 165 IEIRVYNDSINGEVKNIPEICI 186 (214)
Q Consensus 165 L~tr~w~dk~dG~~r~~~eIvv 186 (214)
+.... .+......++.+
T Consensus 121 ~~~~~-----~~~~~~hpe~~~ 137 (677)
T COG1200 121 VKRFK-----GGLQITHPEYIV 137 (677)
T ss_pred Eeecc-----CceEEEcceEEe
Confidence 98733 233455555555
No 83
>PF03983 SHD1: SLA1 homology domain 1, SHD1 ; InterPro: IPR007131 The SLA1 homology domain is found in the cytoskeleton assembly control protein SLA1, which is responsible for the correct formation of the actin cytoskeleton.; GO: 0008092 cytoskeletal protein binding, 0030674 protein binding, bridging, 0042802 identical protein binding, 0043130 ubiquitin binding; PDB: 2HBP_A.
Probab=51.92 E-value=36 Score=24.66 Aligned_cols=33 Identities=27% Similarity=0.404 Sum_probs=22.7
Q ss_pred EEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCC
Q 028045 166 EIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGE 199 (214)
Q Consensus 166 ~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~ 199 (214)
..|.|+|. +|.-+-..+++.-.+|+|++....+
T Consensus 11 ~~RtWtD~-tG~f~VeA~fv~~~dgkV~L~k~nG 43 (70)
T PF03983_consen 11 KTRTWTDR-TGKFKVEAEFVGVNDGKVHLHKTNG 43 (70)
T ss_dssp -SEEEEBS-SS--EEEEEEEEEETTEEEEE-TTS
T ss_pred cceEEEeC-CCCEEEEEEEEEeeCCEEEEEecCC
Confidence 57899999 9986666666655699999987543
No 84
>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=51.83 E-value=23 Score=28.27 Aligned_cols=27 Identities=19% Similarity=-0.033 Sum_probs=23.5
Q ss_pred eEEEEEEeChhHHHHHHhhcCCCCeEEEE
Q 028045 134 QWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (214)
Q Consensus 134 ~W~~V~~~gk~lAe~~~~~LkKGd~V~Ve 162 (214)
--+.|.+|.+ .|+++.+ |+.||.|.+.
T Consensus 60 ~ti~It~yD~-H~~~ar~-lK~GdfV~L~ 86 (123)
T cd04498 60 LTIDILVYDN-HVELAKS-LKPGDFVRIY 86 (123)
T ss_pred EEEEEEEEcc-hHHHHhh-CCCCCEEEEE
Confidence 4589999999 8988777 9999999876
No 85
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=51.54 E-value=54 Score=35.68 Aligned_cols=74 Identities=12% Similarity=0.096 Sum_probs=54.8
Q ss_pred ccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCh-hHHHHHHhhcCCCCeEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNE-ILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk-~lAe~~~~~LkKGd~V~ 160 (214)
..+++|.+.|.|=. -+.+.+.+|+..+.|.|.- ++ +-+.|..|-+ ..-+...+.+++|+-|.
T Consensus 237 ~~~~~v~v~G~IF~-~e~~~~ksGr~l~~i~vTD---------~t-------~Sl~~k~f~~~~ed~~~~~~ik~g~wvk 299 (1444)
T COG2176 237 EEETRVKVEGYIFK-IEIKELKSGRTLLNIKVTD---------YT-------SSLILKKFLRDEEDEKKFDGIKKGMWVK 299 (1444)
T ss_pred ccccceEEEEEEEE-EeeeecccCcEEEEEEEec---------Cc-------hheeehhhccccccHHHHhhcccCcEEE
Confidence 45678999999977 7888999999999998862 11 1244444443 02234667899999999
Q ss_pred EEEEeEEeeeec
Q 028045 161 VEGDIEIRVYND 172 (214)
Q Consensus 161 VeGrL~tr~w~d 172 (214)
+.|.++...+..
T Consensus 300 ~~g~v~~d~f~~ 311 (1444)
T COG2176 300 ARGNVQLDTFTR 311 (1444)
T ss_pred EEEEEEeccccc
Confidence 999999997765
No 86
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=50.84 E-value=23 Score=33.77 Aligned_cols=37 Identities=11% Similarity=0.082 Sum_probs=30.9
Q ss_pred eEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeee
Q 028045 134 QWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYN 171 (214)
Q Consensus 134 ~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~ 171 (214)
-.+.|.+-|+ .-..+.+.|+.|++|.|+|---.-.++
T Consensus 276 l~FsIK~LGD-~Tk~l~dnLk~G~k~~vdGPYG~F~~~ 312 (438)
T COG4097 276 LRFSIKALGD-FTKTLKDNLKVGTKLEVDGPYGKFDFE 312 (438)
T ss_pred EEEEehhhhh-hhHHHHHhccCCceEEEecCcceeecc
Confidence 4789999999 888999999999999999965444443
No 87
>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=50.00 E-value=48 Score=23.63 Aligned_cols=54 Identities=22% Similarity=0.245 Sum_probs=33.9
Q ss_pred EEEEEeChhHHH--HHHhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEec
Q 028045 136 HRIAVHNEILGS--YAVKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 136 ~~V~~~gk~lAe--~~~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
+.|++-.+...+ ...+.|..||.|.|+|.+....-.. ......||.++ .++.|.
T Consensus 29 iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~----~~~~~~El~~~---~i~il~ 84 (85)
T cd04100 29 VQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGN----LATGEIELQAE---ELEVLS 84 (85)
T ss_pred EEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCC----CCCCCEEEEEe---EEEEEC
Confidence 555554431221 2346799999999999998765211 01134788888 888774
No 88
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=49.29 E-value=78 Score=34.19 Aligned_cols=67 Identities=12% Similarity=0.246 Sum_probs=52.5
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEe
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL 165 (214)
..++.|-|..-.+.+..++|..++.+++. |. +| -+.|++|.+ ..+.....+..+..++|.|++
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~------D~-~g---------~~e~v~f~~-~~~~~~~~l~~~~~~~v~g~v 1040 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLE------DE-TG---------ILEVVVFPS-EYERYRRLLLEGRLLIVKGKV 1040 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCCEEEEEEEe------cC-CC---------cEEEEEcHH-HHHHHHHHhccCcEEEEEEEE
Confidence 47888888886666555589888888876 22 34 278999987 777778889999999999999
Q ss_pred EEee
Q 028045 166 EIRV 169 (214)
Q Consensus 166 ~tr~ 169 (214)
+.+.
T Consensus 1041 ~~~~ 1044 (1139)
T COG0587 1041 QRRE 1044 (1139)
T ss_pred Eecc
Confidence 8854
No 89
>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=48.22 E-value=54 Score=24.54 Aligned_cols=37 Identities=14% Similarity=0.084 Sum_probs=27.2
Q ss_pred EEEEEEeChhHHHHHHhhcC---CCCeE-EEEEEeEEeeeec
Q 028045 135 WHRIAVHNEILGSYAVKQLV---KNSSV-YVEGDIEIRVYND 172 (214)
Q Consensus 135 W~~V~~~gk~lAe~~~~~Lk---KGd~V-~VeGrL~tr~w~d 172 (214)
-+.|++||+ .|+.....+. ++..| .|-+-.+...|.+
T Consensus 36 ~l~~tlwG~-~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 36 RLKCTLWGE-YAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred EEEEEEEHH-HHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 499999999 9988877663 44444 4556588888864
No 90
>PLN02903 aminoacyl-tRNA ligase
Probab=46.28 E-value=2.8e+02 Score=28.22 Aligned_cols=87 Identities=17% Similarity=0.265 Sum_probs=51.1
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChh--HHHHHHhhcCCCCeEEEEE
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEI--LGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~--lAe~~~~~LkKGd~V~VeG 163 (214)
+|+|.|+|-. +|.. |+ + .|-.-. |. +|. ++|++-.+. .+-...+.|..|+.|.|+|
T Consensus 74 ~V~l~GWV~~---~R~~--G~-l-~FidLR-----D~-~G~---------iQvV~~~~~~~~~~~~~~~L~~esvV~V~G 131 (652)
T PLN02903 74 RVTLCGWVDL---HRDM--GG-L-TFLDVR-----DH-TGI---------VQVVTLPDEFPEAHRTANRLRNEYVVAVEG 131 (652)
T ss_pred EEEEEEEEEE---EecC--CC-c-EEEEEE-----cC-Ccc---------EEEEEeCCccHHHHHHHhcCCCCCEEEEEE
Confidence 6999999965 3332 32 2 333332 22 231 566665331 1222346799999999999
Q ss_pred EeEEeeeecCCCCeEE-EEEEEEEEeCCcEEEecCC
Q 028045 164 DIEIRVYNDSINGEVK-NIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 164 rL~tr~w~dk~dG~~r-~~~eIvv~~~g~I~~L~~~ 198 (214)
.+..+.-... +.+.. -..||.++ +|+.|...
T Consensus 132 ~V~~r~~~~~-n~~~~tGeiEl~~~---~i~VL~~a 163 (652)
T PLN02903 132 TVRSRPQESP-NKKMKTGSVEVVAE---SVDILNVV 163 (652)
T ss_pred EEEeCCCcCc-CCCCCCCCEEEEEe---EEEEEecC
Confidence 9987632221 11111 24899999 99999765
No 91
>COG3111 Periplasmic protein with OB-fold [Function unknown]
Probab=45.52 E-value=1e+02 Score=24.94 Aligned_cols=74 Identities=11% Similarity=0.305 Sum_probs=46.3
Q ss_pred cccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEE
Q 028045 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 81 m~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~ 160 (214)
|+.-..|+|.|+|.+- . .+..|+ |+|. +|+ ++|.+=.+ .+.-+.+.+-++|.
T Consensus 54 ~~Dda~V~l~GnIv~q-----i-~~D~y~---------FrD~-sGe---------I~VeIdd~---~w~g~tv~P~dkV~ 105 (128)
T COG3111 54 LHDDAWVSLEGNIVRQ-----I-GDDRYV---------FRDA-SGE---------INVDIDDK---VWNGQTVTPKDKVR 105 (128)
T ss_pred cccCCeEEEEeeEEEe-----e-CCceEE---------EEcC-Ccc---------EEEEeccc---ccCCcccCcccEEE
Confidence 3456689999998762 2 223332 5555 564 34443222 22235689999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEe
Q 028045 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLV 195 (214)
Q Consensus 161 VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L 195 (214)
|+|.+... |.. +||-|. +|+.+
T Consensus 106 I~GevDk~-~~~---------~eIdV~---~I~k~ 127 (128)
T COG3111 106 IQGEVDKD-WNS---------VEIDVK---HIEKL 127 (128)
T ss_pred EEeEEcCC-Ccc---------ceeEhh---heEec
Confidence 99999766 643 567777 67665
No 92
>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=45.35 E-value=3.3e+02 Score=27.26 Aligned_cols=87 Identities=20% Similarity=0.191 Sum_probs=50.6
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEe
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL 165 (214)
+|+|.|+|-. +|. .|+ +.|-.-. |. +| -++|++-.+..+-...+.|..|+.|.|+|.+
T Consensus 17 ~V~l~GwV~~---~R~--~Gk--l~Fi~Lr-----D~-sg---------~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v 74 (583)
T TIGR00459 17 TVTLAGWVNR---RRD--LGG--LIFIDLR-----DR-SG---------IVQVVCDPDADALKLAKGLRNEDVVQVKGKV 74 (583)
T ss_pred EEEEEEEEEE---EEc--CCC--cEEEEEE-----eC-Cc---------cEEEEEeCCHHHHHHHhcCCCCCEEEEEEEE
Confidence 6899999954 333 243 3343332 22 23 2666554331222235679999999999999
Q ss_pred EEeeeecCCCC-eEEEEEEEEEEeCCcEEEecCC
Q 028045 166 EIRVYNDSING-EVKNIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 166 ~tr~w~dk~dG-~~r~~~eIvv~~~g~I~~L~~~ 198 (214)
..+.=... +- ...-..||.+. +|+.|.+.
T Consensus 75 ~~r~~~~~-n~~~~tg~iEl~~~---~i~iL~~a 104 (583)
T TIGR00459 75 SARPEGNI-NRNLDTGEIEILAE---SITLLNKS 104 (583)
T ss_pred EeCCcccc-CccCCCCcEEEEEe---EEEEeecC
Confidence 86531110 00 11224889998 89998654
No 93
>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=44.76 E-value=1e+02 Score=23.99 Aligned_cols=87 Identities=17% Similarity=0.221 Sum_probs=50.4
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHH--HHHhhcCCCCeEEEEE
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGS--YAVKQLVKNSSVYVEG 163 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe--~~~~~LkKGd~V~VeG 163 (214)
.|.|.|+|..- |. .|+ + .|-.-... +| -+.|++-.+ ... ...+.|+.|+.|.|+|
T Consensus 16 ~V~i~Gwv~~~---R~--~gk-~-~Fi~LrD~------~g---------~~Q~v~~~~-~~~~~~~~~~l~~gs~V~V~G 72 (135)
T cd04317 16 EVTLCGWVQRR---RD--HGG-L-IFIDLRDR------YG---------IVQVVFDPE-EAPEFELAEKLRNESVIQVTG 72 (135)
T ss_pred EEEEEEeEehh---cc--cCC-E-EEEEEecC------Ce---------eEEEEEeCC-chhHHHHHhCCCCccEEEEEE
Confidence 59999999763 22 233 3 34333221 12 256655443 222 2345799999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCC
Q 028045 164 DIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 164 rL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~ 198 (214)
.+....-..++........||.+. .|+.|...
T Consensus 73 ~~~~~~~~~~~~~~~~~~~El~~~---~i~vl~~~ 104 (135)
T cd04317 73 KVRARPEGTVNPKLPTGEIEVVAS---ELEVLNKA 104 (135)
T ss_pred EEECCCccccCCCCCCCcEEEEEe---EEEEEECC
Confidence 988653210101111224789999 89998765
No 94
>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=44.45 E-value=94 Score=21.91 Aligned_cols=51 Identities=18% Similarity=0.179 Sum_probs=32.8
Q ss_pred EEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEec
Q 028045 136 HRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 136 ~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
++|++-.+..+-...+.|..|+.|.|+|.+....- + .| ..||.++ +++.+.
T Consensus 31 lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~--~-~~----~~El~~~---~i~il~ 81 (82)
T cd04318 31 LQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG--A-KQ----PFELQAE---KIEVLG 81 (82)
T ss_pred EEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC--C-CC----CEEEEEE---EEEEec
Confidence 56655443111123467999999999999876541 1 12 4888888 777763
No 95
>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=44.29 E-value=2.8e+02 Score=26.28 Aligned_cols=39 Identities=26% Similarity=0.296 Sum_probs=29.4
Q ss_pred hhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCC
Q 028045 151 KQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGE 199 (214)
Q Consensus 151 ~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~ 199 (214)
..|..||.|.|+|.+....- . .| ..||.+. +|+.|....
T Consensus 60 ~~l~~~s~v~v~G~v~~~~~--~-~~----~~el~~~---~i~vl~~~~ 98 (428)
T TIGR00458 60 KKLNLESVVAVRGIVKIKEK--A-PG----GFEIIPT---KIEVINEAK 98 (428)
T ss_pred hCCCCCcEEEEEEEEEecCC--C-CC----cEEEEEe---EEEEEecCC
Confidence 56999999999999985421 1 22 4888998 899987653
No 96
>smart00350 MCM minichromosome maintenance proteins.
Probab=43.47 E-value=93 Score=30.07 Aligned_cols=59 Identities=14% Similarity=0.024 Sum_probs=41.0
Q ss_pred CceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeeecCC---CCeEEEEEEEEEEeCCcEEEecCC
Q 028045 132 PVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYNDSI---NGEVKNIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 132 ~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~dk~---dG~~r~~~eIvv~~~g~I~~L~~~ 198 (214)
.+..+.|.+.++ +. +.+++||.|.|.|-+..+.|..+. .+...+.+.|.+. .|+.++..
T Consensus 102 ~Prsi~v~l~~d-Lv----d~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~---~i~~~~~~ 163 (509)
T smart00350 102 LPRSVDVILDGD-LV----DKAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEAN---HVRKLDYK 163 (509)
T ss_pred CCcEEEEEEccc-cc----CcccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEe---EEEEcccc
Confidence 456899999998 54 478999999999999988663321 1222345666676 67776543
No 97
>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=43.22 E-value=1.2e+02 Score=21.57 Aligned_cols=54 Identities=19% Similarity=0.273 Sum_probs=33.4
Q ss_pred EEEEEeChhHH-HHHHhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEec
Q 028045 136 HRIAVHNEILG-SYAVKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVK 196 (214)
Q Consensus 136 ~~V~~~gk~lA-e~~~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~ 196 (214)
+.|++-.+... -...+.|..|+.|.|+|.+..+.-.. ......||.++ .|+.|.
T Consensus 29 iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~----~~~~~~Ei~~~---~i~vl~ 83 (84)
T cd04323 29 LQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAK----QAPGGYELQVD---YLEIIG 83 (84)
T ss_pred EEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCccc----CCCCCEEEEEE---EEEEEc
Confidence 56655443111 12335699999999999998754220 01113789888 888774
No 98
>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=43.11 E-value=1.4e+02 Score=22.33 Aligned_cols=54 Identities=15% Similarity=0.248 Sum_probs=35.9
Q ss_pred EEEEEeChhHH-H--HHHhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCC
Q 028045 136 HRIAVHNEILG-S--YAVKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGE 199 (214)
Q Consensus 136 ~~V~~~gk~lA-e--~~~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~ 199 (214)
+.|++-.+... + ...+.|..|+.|.|+|.+..+.- . . ...||.+. .|+.|....
T Consensus 42 iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~--~-~----~~~Ei~~~---~i~il~~~~ 98 (108)
T cd04316 42 VQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEPK--A-P----NGVEIIPE---EIEVLSEAK 98 (108)
T ss_pred EEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCCC--C-C----CCEEEEEe---EEEEEeCCC
Confidence 66766543111 1 12356999999999999887531 1 1 14899999 999997553
No 99
>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=41.51 E-value=85 Score=23.32 Aligned_cols=39 Identities=28% Similarity=0.348 Sum_probs=29.5
Q ss_pred hhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCC
Q 028045 151 KQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGE 199 (214)
Q Consensus 151 ~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~ 199 (214)
+.|..|+.|.|+|.+..+. .. .+ ..||.++ .|+.|....
T Consensus 46 ~~l~~~s~v~V~G~v~~~~--~~-~~----~~Ei~~~---~i~vl~~a~ 84 (103)
T cd04319 46 KKVGIESSVIVEGAVKADP--RA-PG----GAEVHGE---KLEIIQNVE 84 (103)
T ss_pred hCCCCCCEEEEEEEEEECC--CC-CC----CEEEEEE---EEEEEecCC
Confidence 4689999999999988753 22 11 4899999 899987653
No 100
>PF08021 FAD_binding_9: Siderophore-interacting FAD-binding domain; InterPro: IPR013113 Proteins in this entry are siderophore-interacting FAD-binding proteins. This entry includes the vibriobactin utilization protein ViuB, which is involved in the removal of iron from iron-vibriobactin complexes, as well as several hypothetical proteins.; PDB: 2GPJ_A.
Probab=39.27 E-value=55 Score=25.33 Aligned_cols=32 Identities=16% Similarity=-0.009 Sum_probs=22.3
Q ss_pred CceEEEEEEeCh-hHHHHHHhhcCCCCeEEEEE
Q 028045 132 PVQWHRIAVHNE-ILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 132 ~t~W~~V~~~gk-~lAe~~~~~LkKGd~V~VeG 163 (214)
.+..+.+++++. +.|...+..+++||.|.|.|
T Consensus 80 ~~l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~g 112 (117)
T PF08021_consen 80 GELDIDFVLHGDEGPASRWARSARPGDRVGVTG 112 (117)
T ss_dssp -EEEEEEE--SS--HHHHHHHH--TT-EEEEEE
T ss_pred CEEEEEEEECCCCCchHHHHhhCCCCCEEEEeC
Confidence 355799999997 78999999999999999988
No 101
>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=37.82 E-value=1.1e+02 Score=22.83 Aligned_cols=35 Identities=20% Similarity=0.216 Sum_probs=27.1
Q ss_pred hcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCC
Q 028045 152 QLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 152 ~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~ 198 (214)
.|..||.|.|+|.+... + .|. .||.++ .++.|.+.
T Consensus 49 ~l~~g~~V~v~G~v~~~----~-~g~----~El~~~---~~~ils~~ 83 (108)
T cd04322 49 LLDLGDIIGVTGTPFKT----K-TGE----LSIFVK---EFTLLSKS 83 (108)
T ss_pred cCCCCCEEEEEEEEEec----C-CCC----EEEEeC---EeEEeecc
Confidence 39999999999998754 2 332 688888 88888655
No 102
>PF04076 BOF: Bacterial OB fold (BOF) protein; InterPro: IPR005220 Proteins in this entry have an OB-fold fold (oligonucleotide/oligosaccharide binding motif). Analysis of the predicted nucleotide-binding site of the OB-fold suggests that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localise to the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesised for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the OB-fold ligand-binding site may be associated with the presence of members in mobile genetic elements and their potential role in bacterial pathogenicity [].; PDB: 1NNX_A.
Probab=37.31 E-value=1.4e+02 Score=22.88 Aligned_cols=60 Identities=10% Similarity=0.356 Sum_probs=34.3
Q ss_pred ccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~V 161 (214)
..-..|+|.|+|.+- .. +..|. |+|. +|+ +.|.+=.+ . ..-..+.++++|.|
T Consensus 32 ~Dd~~V~L~G~Iv~~-----l~-~d~Y~---------F~D~-TG~---------I~VeId~~-~--w~g~~vt~~~~Vri 83 (103)
T PF04076_consen 32 KDDTPVTLEGNIVKQ-----LG-DDKYL---------FRDA-TGE---------IEVEIDDD-V--WRGQTVTPDDKVRI 83 (103)
T ss_dssp -SSEEEEEEEEEEEE-----EE-TTEEE---------EEET-TEE---------EEEE--GG-G--STT----TTSEEEE
T ss_pred cCCCeEEEEEEEEEE-----ec-CCEEE---------EECC-CCc---------EEEEEChh-h--cCCcccCCCCEEEE
Confidence 446789999999772 22 33333 5665 564 55555333 1 11345889999999
Q ss_pred EEEeEEeee
Q 028045 162 EGDIEIRVY 170 (214)
Q Consensus 162 eGrL~tr~w 170 (214)
.|.+. ..|
T Consensus 84 ~GeVD-k~~ 91 (103)
T PF04076_consen 84 SGEVD-KDW 91 (103)
T ss_dssp EEEEE-EET
T ss_pred EEEEe-CCC
Confidence 99998 434
No 103
>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=36.75 E-value=71 Score=22.93 Aligned_cols=31 Identities=19% Similarity=0.180 Sum_probs=23.6
Q ss_pred ceEEEEEEe--ChhHHHHHHhhcCCCCeEEEEEEe
Q 028045 133 VQWHRIAVH--NEILGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 133 t~W~~V~~~--gk~lAe~~~~~LkKGd~V~VeGrL 165 (214)
.--+.|... |. ...++ ..|++||.|.|.|=+
T Consensus 62 ~~~~~ik~~~~G~-~S~~L-~~l~~Gd~v~i~gP~ 94 (99)
T PF00970_consen 62 YLEFAIKRYPNGR-VSRYL-HQLKPGDEVEIRGPY 94 (99)
T ss_dssp EEEEEEEECTTSH-HHHHH-HTSCTTSEEEEEEEE
T ss_pred cEEEEEEeccCCH-HHHHH-HhCCCCCEEEEEEcc
Confidence 445677777 65 66777 559999999999854
No 104
>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=36.74 E-value=3.9e+02 Score=26.02 Aligned_cols=38 Identities=16% Similarity=0.124 Sum_probs=28.0
Q ss_pred HHhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCC
Q 028045 149 AVKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 149 ~~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~ 198 (214)
+.+.|..||.|.|+|.+.. .+ .|. .+|.+. +|++|.+.
T Consensus 100 ~~~~l~~gd~V~v~G~~~~----t~-~ge----lel~~~---~i~ilsk~ 137 (496)
T TIGR00499 100 DEYLLDLGDIIGVTGYPFK----TK-TGE----LSVHVT---ELQILTKA 137 (496)
T ss_pred HHhcCCCCCEEEEEEEEEE----CC-CCc----EEEEee---EEEEEecC
Confidence 3345899999999999953 23 443 788888 88888655
No 105
>TIGR00156 conserved hypothetical protein TIGR00156. As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae.
Probab=34.60 E-value=2.4e+02 Score=22.60 Aligned_cols=61 Identities=8% Similarity=0.260 Sum_probs=38.7
Q ss_pred ccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEE
Q 028045 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (214)
Q Consensus 82 ~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~V 161 (214)
+.=..|+|.|+|.+- . .+..|. |+|. +|+ +.|.+=.+ ...-..+.++++|.|
T Consensus 55 ~Ddt~V~L~G~Iv~~-----l-~~d~Y~---------F~D~-TG~---------I~VeId~~---~w~G~~v~p~d~V~I 106 (126)
T TIGR00156 55 HDGASVTLRGNIISH-----I-GDDRYV---------FRDK-SGE---------INVVIPAA---VWNGREVQPKDMVNI 106 (126)
T ss_pred CCCCEEEEEEEEEEE-----e-CCceEE---------EECC-CCC---------EEEEECHH---HcCCCcCCCCCEEEE
Confidence 345679999999773 2 222332 6666 565 55655322 122346899999999
Q ss_pred EEEeEEeeee
Q 028045 162 EGDIEIRVYN 171 (214)
Q Consensus 162 eGrL~tr~w~ 171 (214)
.|++. ..|.
T Consensus 107 ~GeVD-k~~~ 115 (126)
T TIGR00156 107 SGSLD-KKSA 115 (126)
T ss_pred EEEEC-CCCC
Confidence 99998 4463
No 106
>PRK10053 hypothetical protein; Provisional
Probab=33.69 E-value=2.5e+02 Score=22.63 Aligned_cols=62 Identities=8% Similarity=0.253 Sum_probs=40.0
Q ss_pred cccccEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEE
Q 028045 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 81 m~~mNkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~ 160 (214)
|..-..|+|.|+|.+- . .+..|. |+|. +|+ +.|.+=.+ ...-+.+.+.++|.
T Consensus 58 ~~Dd~~V~L~G~Iv~~-----l-g~d~Y~---------F~D~-tG~---------I~VeID~~---~w~G~~v~p~~kV~ 109 (130)
T PRK10053 58 MHDGATVSLRGNLIDH-----K-GDDRYV---------FRDK-SGE---------INVIIPAA---VFDGREVQPDQMIN 109 (130)
T ss_pred CcCCCeEEEEEEEEEE-----e-CCceEE---------EECC-CCc---------EEEEeCHH---HcCCCcCCCCCEEE
Confidence 3456789999999763 2 223332 6666 565 55665333 22345799999999
Q ss_pred EEEEeEEeeee
Q 028045 161 VEGDIEIRVYN 171 (214)
Q Consensus 161 VeGrL~tr~w~ 171 (214)
|.|.+... |.
T Consensus 110 I~GevDk~-~~ 119 (130)
T PRK10053 110 INGSLDKK-SA 119 (130)
T ss_pred EEEEECCC-CC
Confidence 99999754 53
No 107
>PLN02532 asparagine-tRNA synthetase
Probab=31.57 E-value=1.7e+02 Score=29.57 Aligned_cols=54 Identities=11% Similarity=0.223 Sum_probs=38.1
Q ss_pred EEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCC
Q 028045 135 WHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 135 W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~ 198 (214)
.++|++-.+ .+... +.|..|+.|.|+|.+..+.- .+ .....||.|+ .|..|...
T Consensus 148 ~lQvVv~~~-~~~~~-~~L~~Es~V~V~G~V~~~~~----~~-~~g~iEl~v~---~i~VLg~a 201 (633)
T PLN02532 148 SLQVVVDSA-LAPLT-QLMATGTCILAEGVLKLPLP----AQ-GKHVIELEVE---KILHIGTV 201 (633)
T ss_pred ceEEEEeCC-cccHh-hcCCCceEEEEEEEEEecCC----CC-CCCcEEEEee---EEEEEecC
Confidence 378887665 44333 67999999999999987621 11 1234889998 89888754
No 108
>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=31.26 E-value=30 Score=27.45 Aligned_cols=22 Identities=18% Similarity=0.295 Sum_probs=18.9
Q ss_pred hHHHHHHhhcCCCCeEEEEEEe
Q 028045 144 ILGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 144 ~lAe~~~~~LkKGd~V~VeGrL 165 (214)
.+|+.+++.|++|+.|++.|.|
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdL 24 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDL 24 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEEST
T ss_pred HHHHHHHHhCCCCCEEEEECCC
Confidence 3788999999999999999985
No 109
>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=29.67 E-value=3.1e+02 Score=22.39 Aligned_cols=75 Identities=15% Similarity=0.204 Sum_probs=52.1
Q ss_pred EEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhh----cCCCCeEEEE
Q 028045 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQ----LVKNSSVYVE 162 (214)
Q Consensus 87 V~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~----LkKGd~V~Ve 162 (214)
+.-+|+|-+.=++. .++|.+++..+|+.=. |..+ ...-.+|.|.+=|+ .|..+.+. +..+.+|+|.
T Consensus 14 t~GiGYLnriR~V~-~~kg~pFlac~I~AL~-------G~~d-~~ey~~fD~~V~G~-eA~~Lv~r~~~av~~~~KVli~ 83 (137)
T PF12101_consen 14 TTGIGYLNRIREVT-PRKGDPFLACTIAALR-------GPAD-NPEYRYFDCRVVGE-EAKELVRRCQKAVDEDKKVLIG 83 (137)
T ss_pred EeeEEEeccceEcc-CCCCCeeEEEEeeeee-------cCCC-CccEEEEEEEEecH-HHHHHHHHHHhhcccCCcEEEE
Confidence 45688888865554 5678888888887654 2211 23467899999998 88766555 4557888865
Q ss_pred ---EEeEEeeee
Q 028045 163 ---GDIEIRVYN 171 (214)
Q Consensus 163 ---GrL~tr~w~ 171 (214)
|.|....|+
T Consensus 84 FrlgDl~~d~f~ 95 (137)
T PF12101_consen 84 FRLGDLWADTFT 95 (137)
T ss_pred EEecCCceeeEE
Confidence 556777777
No 110
>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.
Probab=29.24 E-value=64 Score=24.01 Aligned_cols=20 Identities=25% Similarity=0.223 Sum_probs=17.0
Q ss_pred HHhhcCCCCeEEEEEEeEEe
Q 028045 149 AVKQLVKNSSVYVEGDIEIR 168 (214)
Q Consensus 149 ~~~~LkKGd~V~VeGrL~tr 168 (214)
....+..|+.|.|.|++++.
T Consensus 59 ~~~~i~~G~vvrV~G~i~~f 78 (92)
T cd04483 59 QAKVLEIGDLLRVRGSIRTY 78 (92)
T ss_pred cccccCCCCEEEEEEEEecc
Confidence 44569999999999999875
No 111
>PRK10646 ADP-binding protein; Provisional
Probab=29.11 E-value=45 Score=27.48 Aligned_cols=21 Identities=29% Similarity=0.507 Sum_probs=19.3
Q ss_pred HHHHHHhhcCCCCeEEEEEEe
Q 028045 145 LGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 145 lAe~~~~~LkKGd~V~VeGrL 165 (214)
+|+.+++.|++|+.|++.|.|
T Consensus 17 l~~~la~~l~~g~vi~L~GdL 37 (153)
T PRK10646 17 LGARVAKACDGATVIYLYGDL 37 (153)
T ss_pred HHHHHHHhCCCCcEEEEECCC
Confidence 788899999999999999995
No 112
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=28.23 E-value=1.9e+02 Score=28.04 Aligned_cols=82 Identities=21% Similarity=0.224 Sum_probs=51.7
Q ss_pred cEEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHH--HhhcCCCCeEEEE
Q 028045 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYA--VKQLVKNSSVYVE 162 (214)
Q Consensus 85 NkV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~--~~~LkKGd~V~Ve 162 (214)
.+|.|.|.|-.- | ..|+ +.|-+.- +| +.+++|++-.+...+.+ ++.|..++.|.|+
T Consensus 17 ~~V~v~GWV~~~---R--~~g~--i~Fi~lr--------Dg-------sg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~ 74 (435)
T COG0017 17 QEVTVRGWVHNK---R--DLGK--IIFLVLR--------DG-------SGFIQAVVPKNKVYEELFKAKKLTLESSVVVT 74 (435)
T ss_pred cEEEEEEEeeee---c--ccCC--eEEEEEE--------cC-------CcEEEEEEECCCCcHHHhhhhcCCCccEEEEE
Confidence 689999998663 2 2233 3344331 22 33589988752122222 4589999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCC
Q 028045 163 GDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSG 198 (214)
Q Consensus 163 GrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~ 198 (214)
|.+....-. + . .+||.+. .|..|...
T Consensus 75 G~v~~~~~a-~-~-----g~El~v~---~i~Vl~~a 100 (435)
T COG0017 75 GIVKASPKA-P-Q-----GFELQVE---KIEVLGEA 100 (435)
T ss_pred EEEEcCCCC-C-C-----CEEEEEE---EEEEeecc
Confidence 999876542 2 3 4777777 77777655
No 113
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=27.79 E-value=53 Score=27.13 Aligned_cols=22 Identities=27% Similarity=0.447 Sum_probs=19.6
Q ss_pred HHHHHHhhcCCCCeEEEEEEeE
Q 028045 145 LGSYAVKQLVKNSSVYVEGDIE 166 (214)
Q Consensus 145 lAe~~~~~LkKGd~V~VeGrL~ 166 (214)
+|+.+++.|++|+.|+++|.|-
T Consensus 14 lg~~l~~~l~~g~Vv~L~GdLG 35 (149)
T COG0802 14 LGERLAEALKAGDVVLLSGDLG 35 (149)
T ss_pred HHHHHHhhCCCCCEEEEEcCCc
Confidence 6788899999999999999963
No 114
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=27.32 E-value=6.8e+02 Score=25.56 Aligned_cols=78 Identities=13% Similarity=0.094 Sum_probs=47.8
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEe-----ChhHHHHHHhhcCCCCeEE
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVH-----NEILGSYAVKQLVKNSSVY 160 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~-----gk~lAe~~~~~LkKGd~V~ 160 (214)
.|.|.|+|-. +|. .|+ + .|-.-- |. +|. ++|++- ++.....+.+.|..||.|.
T Consensus 109 ~V~vaGrV~~---~R~--~Gk-~-~F~~Lr-----D~-~G~---------IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~ 166 (659)
T PTZ00385 109 TVRVAGRVTS---VRD--IGK-I-IFVTIR-----SN-GNE---------LQVVGQVGEHFTREDLKKLKVSLRVGDIIG 166 (659)
T ss_pred EEEEEEEEEe---eec--cCC-e-EEEEEE-----EC-Cce---------EEEEEECCccCCHHHHHHHHhCCCCCCEEE
Confidence 4999999965 232 344 2 343332 22 342 555553 3212233445799999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecC
Q 028045 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKS 197 (214)
Q Consensus 161 VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~ 197 (214)
|+|.+... + .|. .+|.+. +|++|.+
T Consensus 167 V~G~v~~t----~-~Ge----leI~~~---~i~lLsk 191 (659)
T PTZ00385 167 ADGVPCRM----Q-RGE----LSVAAS---RMLILSP 191 (659)
T ss_pred EEEEEEec----C-Cce----EEEEee---EEEEech
Confidence 99988743 3 453 788888 8888875
No 115
>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]
Probab=27.26 E-value=90 Score=31.84 Aligned_cols=46 Identities=13% Similarity=0.093 Sum_probs=35.6
Q ss_pred HHhhcCCCCeEEEEEEeEEeeeecCCCCe--EEEEEEEEEEeCCcEEEecCCC
Q 028045 149 AVKQLVKNSSVYVEGDIEIRVYNDSINGE--VKNIPEICIRRDGTLRLVKSGE 199 (214)
Q Consensus 149 ~~~~LkKGd~V~VeGrL~tr~w~dk~dG~--~r~~~eIvv~~~g~I~~L~~~~ 199 (214)
+.+.+|+||+|-|.|..+.-..+. +|. -...+-|+++ +|.+|.+..
T Consensus 223 LVD~~KPGDRV~ivG~yr~Lp~k~--~g~tsg~FRTvliaN---ni~~l~ke~ 270 (818)
T KOG0479|consen 223 LVDRVKPGDRVNIVGIYRSLPGKS--NGNTSGTFRTVLIAN---NIELLSKEA 270 (818)
T ss_pred ccccCCCCCeeEEEEEEeeccCcc--CCcccceeEEEEEec---cHHhhcccc
Confidence 677899999999999988777643 555 3556778888 999996553
No 116
>PLN02603 asparaginyl-tRNA synthetase
Probab=27.24 E-value=6.4e+02 Score=25.17 Aligned_cols=38 Identities=18% Similarity=0.345 Sum_probs=29.1
Q ss_pred hcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCC
Q 028045 152 QLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGE 199 (214)
Q Consensus 152 ~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~ 199 (214)
.|..|+.|.|+|.+... + .+. ...||.|+ +|+.|....
T Consensus 157 ~l~~gs~V~V~G~v~~~----~-~~~--~~~EL~v~---~i~vlg~a~ 194 (565)
T PLN02603 157 LITTGASVLVQGTVVSS----Q-GGK--QKVELKVS---KIVVVGKSD 194 (565)
T ss_pred CCCCCCEEEEEEEEEec----C-CCC--ccEEEEEe---EEEEEECCC
Confidence 48899999999998754 2 222 35899999 999987654
No 117
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=26.75 E-value=7.2e+02 Score=25.61 Aligned_cols=61 Identities=15% Similarity=0.110 Sum_probs=37.1
Q ss_pred EEEEEeChh---HHHHHHhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEEeCCcEEEecCCC
Q 028045 136 HRIAVHNEI---LGSYAVKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIRRDGTLRLVKSGE 199 (214)
Q Consensus 136 ~~V~~~gk~---lAe~~~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~~~g~I~~L~~~~ 199 (214)
++|++-.+. ..-...+.|..|+.|.|+|.++.+.-..+..+...-..||.+. +|..|....
T Consensus 48 iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~~n~~~~tg~iEl~~~---~i~iL~~a~ 111 (706)
T PRK12820 48 IQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEETENPHIETGDIEVFVR---ELSILAASE 111 (706)
T ss_pred EEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCccccCCCCCCCcEEEEee---EEEEEecCC
Confidence 566664331 1112346799999999999998863221101111234889998 899886553
No 118
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=26.21 E-value=46 Score=27.17 Aligned_cols=23 Identities=30% Similarity=0.367 Sum_probs=20.2
Q ss_pred EeChhHHHHHHhhcCCCCeEEEEE
Q 028045 140 VHNEILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 140 ~~gk~lAe~~~~~LkKGd~V~VeG 163 (214)
+.|. +|..+++.|..||.|.|.-
T Consensus 9 vlGR-LAs~IA~~L~~Gd~VvViN 31 (142)
T TIGR01077 9 ILGR-LASVVAKQLLNGEKVVVVN 31 (142)
T ss_pred chHH-HHHHHHHHHhcCCEEEEEe
Confidence 5677 9999999999999999764
No 119
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=25.79 E-value=3.2e+02 Score=29.13 Aligned_cols=63 Identities=11% Similarity=-0.069 Sum_probs=43.4
Q ss_pred EEEEEEEeCCCceEEEecCCcEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEe
Q 028045 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (214)
Q Consensus 86 kV~LiGrVg~dPelr~t~nG~~v~~FsVAt~~~~~~~~~Ge~~~~~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL 165 (214)
.+.+.|-|..--..+ ++|..++.+++.-. +|+ +.|++|.+ .-+.+.. |.+|+.++|+|+.
T Consensus 899 ~~~v~g~i~~~~~~~--K~g~~maf~~~eD~-------~~~---------~e~~~F~~-~~~~~~~-l~~~~~~~~~~~~ 958 (973)
T PRK07135 899 EYRLAIEVKNVKRLR--KANKEYKKVILSDD-------SVE---------ITIFVNDN-DYLLFET-LKKGDIYEFLISK 958 (973)
T ss_pred eEEEEEEEEEEEEEe--eCCCeEEEEEEEEC-------CCc---------EEEEEcHH-HHHHHHH-hhcCCEEEEEEEE
Confidence 456777666644443 67888777776522 343 78999998 4444544 9999999999987
Q ss_pred EEe
Q 028045 166 EIR 168 (214)
Q Consensus 166 ~tr 168 (214)
+.+
T Consensus 959 ~~~ 961 (973)
T PRK07135 959 SKN 961 (973)
T ss_pred cCC
Confidence 654
No 120
>PF10574 UPF0552: Uncharacterised protein family UPF0552; InterPro: IPR018889 This family of proteins has no known function.
Probab=24.92 E-value=2e+02 Score=25.35 Aligned_cols=35 Identities=20% Similarity=0.318 Sum_probs=26.3
Q ss_pred hcCCCCeEEEEEEeE---EeeeecCCCCeEEEEEEEEEE
Q 028045 152 QLVKNSSVYVEGDIE---IRVYNDSINGEVKNIPEICIR 187 (214)
Q Consensus 152 ~LkKGd~V~VeGrL~---tr~w~dk~dG~~r~~~eIvv~ 187 (214)
.++.|+-|++||.|. .....|. .|++.+.+-|.++
T Consensus 28 ~~q~G~GvilEG~l~~~sRH~I~D~-~~~k~Ry~vl~i~ 65 (224)
T PF10574_consen 28 AHQSGDGVILEGELVDVSRHSITDA-SGQKERYYVLYIR 65 (224)
T ss_pred HhcCCCeEEEEEEEEeeeEEEEEcC-CCCceEEEEEEEe
Confidence 389999999999984 4456676 7887666666665
No 121
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=24.15 E-value=52 Score=27.03 Aligned_cols=24 Identities=25% Similarity=0.457 Sum_probs=20.7
Q ss_pred EeChhHHHHHHhhcCCCCeEEEEEE
Q 028045 140 VHNEILGSYAVKQLVKNSSVYVEGD 164 (214)
Q Consensus 140 ~~gk~lAe~~~~~LkKGd~V~VeGr 164 (214)
+.|. +|..+++.|.-||.|.|.--
T Consensus 13 vlGR-LAs~IA~~L~~Gd~VVViNa 36 (146)
T PRK06394 13 ILGR-LASYVAKRLLEGEEVVIVNA 36 (146)
T ss_pred chHH-HHHHHHHHHhCCCEEEEEec
Confidence 5677 99999999999999998654
No 122
>COG3649 CRISPR system related protein [Defense mechanisms]
Probab=23.48 E-value=66 Score=28.69 Aligned_cols=50 Identities=18% Similarity=0.141 Sum_probs=37.2
Q ss_pred CceEEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeeecCCCCeEEEEEEEEEE
Q 028045 132 PVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYNDSINGEVKNIPEICIR 187 (214)
Q Consensus 132 ~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~dk~dG~~r~~~eIvv~ 187 (214)
-..|+.|.+||+ +..+.+||..+-|.|-.+.+.-+.= +-.+...++|.+.
T Consensus 98 cq~w~DvR~FGq-----Vf~~~kk~ms~gvrGPVsi~~atSl-~pi~i~s~QiT~s 147 (283)
T COG3649 98 CQKWIDVRLFGQ-----VFPQSKKGMSSGVRGPVSIRYATSL-HPIKIMSIQITAS 147 (283)
T ss_pred HHHHhhHHHhhh-----hhhhhccCcccccccceEEEeeccc-cceEEEEEEEeee
Confidence 356999999997 4567999999999998777755443 5556666666654
No 123
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.42 E-value=7e+02 Score=24.95 Aligned_cols=33 Identities=6% Similarity=0.183 Sum_probs=24.9
Q ss_pred EEEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeee
Q 028045 135 WHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYN 171 (214)
Q Consensus 135 W~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~ 171 (214)
-++|++||+ .|+.+. ..+|+.|.+.| ++...|.
T Consensus 351 sI~vTLWG~-~A~~~~--~~~~~Vva~kg-~~V~~f~ 383 (608)
T TIGR00617 351 SVRVTLWGD-DATKFD--VSVQPVIAIKG-VRVSDFG 383 (608)
T ss_pred EEEEEEEhh-hhhhcC--CCCCCEEEEEe-EEEEecC
Confidence 389999999 887654 77899888887 4444563
No 124
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=21.37 E-value=8.4e+02 Score=24.51 Aligned_cols=59 Identities=14% Similarity=0.166 Sum_probs=34.6
Q ss_pred EEEEEeChhHHHHHHhhcCCCCeEEEEEEeEEeeeec--CCCCeEEEEEEEEE-----EeCCcEEEecCC
Q 028045 136 HRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYND--SINGEVKNIPEICI-----RRDGTLRLVKSG 198 (214)
Q Consensus 136 ~~V~~~gk~lAe~~~~~LkKGd~V~VeGrL~tr~w~d--k~dG~~r~~~eIvv-----~~~g~I~~L~~~ 198 (214)
++|++-....+-.....|..|+.|.|+|.+..+.-.. + .|......||.+ . +++.|+..
T Consensus 115 iQiVv~~~~~~~~~l~~l~~gs~v~v~G~v~~~~~~~~n~-~g~~~~~~El~~~~~~~~---~~~ilg~~ 180 (586)
T PTZ00425 115 LQIIVDQSIENYEKLLKCGVGCCFRFTGKLIISPVQNENK-KGLLKENVELALKDNSIH---NFEIYGEN 180 (586)
T ss_pred eEEEECCchHHHHHHhcCCCccEEEEEEEEEcCCccccCc-CCCCCccEEEEEecCCCc---eEEEEecc
Confidence 5565543211112345689999999999998765331 2 232233467766 5 67777644
No 125
>COG2087 CobU Adenosyl cobinamide kinase/adenosyl cobinamide phosphate guanylyltransferase [Coenzyme metabolism]
Probab=20.61 E-value=1.4e+02 Score=25.50 Aligned_cols=32 Identities=16% Similarity=0.362 Sum_probs=29.0
Q ss_pred CCceEEEEEEeChhHHHHHHhhcCCCCeEEEEE
Q 028045 131 KPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (214)
Q Consensus 131 ~~t~W~~V~~~gk~lAe~~~~~LkKGd~V~VeG 163 (214)
.+.+|..+.++.. +|..+......|+.|+|..
T Consensus 52 Rp~~W~tvE~~~~-l~~~L~~~~~~~~~VLvDc 83 (175)
T COG2087 52 RPEHWRTVEAPLD-LATLLEALIEPGDVVLVDC 83 (175)
T ss_pred CCCcceEEecccc-HHHHHHhcccCCCEEEEEc
Confidence 4778999999998 9999998888899999986
Done!