Query 029355
Match_columns 194
No_of_seqs 129 out of 1030
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 11:35:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029355.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029355hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK09010 single-stranded DNA-b 100.0 1.8E-30 3.9E-35 214.3 14.8 109 82-194 4-112 (177)
2 PRK06642 single-stranded DNA-b 100.0 7.5E-30 1.6E-34 205.9 15.6 111 81-194 1-113 (152)
3 PRK13732 single-stranded DNA-b 100.0 1.6E-29 3.6E-34 208.3 15.6 108 82-194 4-111 (175)
4 PRK05733 single-stranded DNA-b 100.0 5.2E-29 1.1E-33 204.8 15.2 108 82-194 3-110 (172)
5 PRK06863 single-stranded DNA-b 100.0 4.9E-29 1.1E-33 204.2 14.5 106 81-190 1-106 (168)
6 PRK06958 single-stranded DNA-b 100.0 6.8E-29 1.5E-33 205.6 14.7 108 81-192 1-108 (182)
7 PRK08763 single-stranded DNA-b 100.0 1E-28 2.2E-33 201.7 15.3 103 82-189 3-105 (164)
8 PRK06752 single-stranded DNA-b 100.0 1.1E-28 2.3E-33 189.2 14.2 101 84-191 2-102 (112)
9 KOG1653 Single-stranded DNA-bi 100.0 4.8E-29 1E-33 201.7 10.8 153 20-189 6-160 (175)
10 PRK06341 single-stranded DNA-b 100.0 3.5E-28 7.6E-33 198.9 15.7 103 83-188 4-106 (166)
11 PRK07275 single-stranded DNA-b 100.0 3E-28 6.6E-33 198.5 15.1 99 84-189 2-100 (162)
12 PRK08486 single-stranded DNA-b 100.0 6.9E-28 1.5E-32 199.7 15.2 102 83-189 1-102 (182)
13 PRK07459 single-stranded DNA-b 100.0 9.9E-28 2.1E-32 186.8 14.3 97 84-191 3-100 (121)
14 TIGR00621 ssb single stranded 100.0 1.5E-27 3.2E-32 194.2 15.3 107 81-192 1-107 (164)
15 PRK08182 single-stranded DNA-b 100.0 1.6E-27 3.5E-32 191.6 14.4 105 84-192 2-110 (148)
16 PRK07772 single-stranded DNA-b 100.0 2.8E-27 6.1E-32 196.6 15.3 108 81-191 1-108 (186)
17 PRK07274 single-stranded DNA-b 99.9 5.1E-27 1.1E-31 184.8 13.9 99 83-189 1-99 (131)
18 PRK06751 single-stranded DNA-b 99.9 7.6E-27 1.7E-31 192.1 14.1 99 84-189 2-100 (173)
19 PRK06293 single-stranded DNA-b 99.9 1.1E-26 2.5E-31 189.1 13.7 101 84-194 1-101 (161)
20 PF00436 SSB: Single-strand bi 99.9 5.9E-26 1.3E-30 168.3 13.1 104 84-192 1-104 (104)
21 COG0629 Ssb Single-stranded DN 99.9 1.8E-25 3.9E-30 182.1 13.1 104 82-190 1-105 (167)
22 PRK05853 hypothetical protein; 99.9 1.5E-24 3.2E-29 176.8 13.1 98 89-191 1-98 (161)
23 PRK05813 single-stranded DNA-b 99.9 7.6E-23 1.6E-27 173.9 14.8 93 82-188 107-203 (219)
24 PRK02801 primosomal replicatio 99.9 5.7E-22 1.2E-26 150.0 14.1 95 84-188 2-96 (101)
25 cd04496 SSB_OBF SSB_OBF: A sub 99.9 7.2E-22 1.6E-26 145.0 13.9 99 87-191 1-99 (100)
26 PRK05813 single-stranded DNA-b 99.8 1.7E-17 3.6E-22 141.3 13.8 90 83-188 7-96 (219)
27 PRK00036 primosomal replicatio 98.2 1E-05 2.3E-10 62.2 9.4 78 84-167 1-78 (107)
28 COG2965 PriB Primosomal replic 97.9 9E-05 2E-09 56.2 8.7 84 81-171 1-86 (103)
29 PF01336 tRNA_anti-codon: OB-f 96.6 0.032 6.9E-07 37.9 9.0 60 87-168 1-60 (75)
30 cd04484 polC_OBF polC_OBF: A s 96.3 0.038 8.1E-07 40.0 8.4 68 87-172 2-70 (82)
31 cd04489 ExoVII_LU_OBF ExoVII_L 95.6 0.31 6.7E-06 33.7 10.3 62 87-170 2-63 (78)
32 cd04474 RPA1_DBD_A RPA1_DBD_A: 95.6 0.077 1.7E-06 39.8 7.4 67 82-164 7-76 (104)
33 cd04485 DnaE_OBF DnaE_OBF: A s 95.2 0.2 4.2E-06 34.2 8.0 61 89-167 2-62 (84)
34 cd03524 RPA2_OBF_family RPA2_O 94.6 0.43 9.2E-06 31.1 8.2 33 134-167 29-61 (75)
35 cd04492 YhaM_OBF_like YhaM_OBF 94.5 0.21 4.6E-06 34.4 6.7 54 96-167 8-61 (83)
36 PRK13480 3'-5' exoribonuclease 93.9 0.44 9.5E-06 42.9 9.2 60 93-172 19-78 (314)
37 cd04487 RecJ_OBF2_like RecJ_OB 93.7 0.27 5.9E-06 34.9 6.1 58 87-167 1-58 (73)
38 PRK07211 replication factor A; 93.2 0.38 8.2E-06 45.9 7.8 68 82-166 61-133 (485)
39 PRK15491 replication factor A; 92.5 1.2 2.5E-05 41.1 9.9 72 84-171 176-250 (374)
40 COG3390 Uncharacterized protei 92.4 1.1 2.3E-05 38.0 8.6 78 83-181 44-121 (196)
41 cd04482 RPA2_OBF_like RPA2_OBF 91.8 0.9 1.9E-05 33.4 6.8 61 88-169 2-64 (91)
42 PF11325 DUF3127: Domain of un 90.9 2.5 5.4E-05 31.2 8.2 78 89-187 2-81 (84)
43 PRK15491 replication factor A; 90.9 1.7 3.7E-05 40.0 9.1 66 82-164 65-135 (374)
44 cd04488 RecG_wedge_OBF RecG_we 89.1 2.8 6.2E-05 27.8 7.0 31 136-168 31-61 (75)
45 PRK07211 replication factor A; 89.0 4.1 8.9E-05 39.0 10.2 68 83-166 170-240 (485)
46 PRK06461 single-stranded DNA-b 88.9 3.3 7.2E-05 32.3 8.1 63 83-166 13-79 (129)
47 cd04491 SoSSB_OBF SoSSB_OBF: A 88.8 3.9 8.4E-05 28.8 7.8 59 89-167 2-64 (82)
48 cd04490 PolII_SU_OBF PolII_SU_ 87.8 4.3 9.3E-05 29.1 7.5 57 87-165 2-60 (79)
49 PF13742 tRNA_anti_2: OB-fold 87.7 4.3 9.3E-05 30.2 7.7 63 84-168 21-84 (99)
50 PRK00286 xseA exodeoxyribonucl 87.5 4.6 0.0001 37.4 9.4 82 84-191 23-105 (438)
51 PRK07373 DNA polymerase III su 87.1 3.7 8E-05 38.8 8.6 64 86-167 282-345 (449)
52 PRK12366 replication factor A; 85.1 7.2 0.00016 38.3 9.8 82 85-188 292-376 (637)
53 PF11506 DUF3217: Protein of u 84.6 15 0.00032 27.6 10.1 87 84-185 2-88 (104)
54 PRK05673 dnaE DNA polymerase I 84.5 4.9 0.00011 42.1 8.7 65 85-167 978-1042(1135)
55 cd04475 RPA1_DBD_B RPA1_DBD_B: 84.3 9.7 0.00021 27.7 8.1 68 87-171 2-72 (101)
56 PRK14699 replication factor A; 83.9 4.2 9.2E-05 38.8 7.4 71 82-171 65-140 (484)
57 TIGR00237 xseA exodeoxyribonuc 83.1 7 0.00015 36.5 8.4 76 84-185 17-93 (432)
58 TIGR00617 rpa1 replication fac 81.5 9.1 0.0002 37.4 8.9 68 83-167 189-260 (608)
59 PRK12366 replication factor A; 78.4 7.2 0.00016 38.3 7.1 65 82-164 71-139 (637)
60 PRK00448 polC DNA polymerase I 78.1 10 0.00023 40.8 8.6 73 84-173 236-309 (1437)
61 KOG3416 Predicted nucleic acid 78.1 8.2 0.00018 30.8 6.0 69 97-187 27-101 (134)
62 TIGR01405 polC_Gram_pos DNA po 77.6 11 0.00025 39.8 8.6 73 83-173 6-80 (1213)
63 PRK06826 dnaE DNA polymerase I 76.1 14 0.00031 38.9 8.8 65 86-168 993-1057(1151)
64 PRK14699 replication factor A; 75.5 12 0.00025 35.8 7.4 70 83-170 175-249 (484)
65 PRK06920 dnaE DNA polymerase I 75.3 16 0.00034 38.5 8.8 65 86-168 945-1009(1107)
66 PRK07374 dnaE DNA polymerase I 75.0 15 0.00032 38.8 8.6 66 85-168 1001-1066(1170)
67 cd04478 RPA2_DBD_D RPA2_DBD_D: 74.1 14 0.00031 26.4 6.1 59 87-168 2-63 (95)
68 PF02765 POT1: Telomeric singl 71.3 31 0.00068 27.1 7.9 77 86-173 14-93 (146)
69 PRK08402 replication factor A; 70.9 14 0.0003 33.9 6.5 65 83-164 71-139 (355)
70 PF13567 DUF4131: Domain of un 70.4 36 0.00077 25.6 7.9 70 86-170 77-146 (176)
71 COG1570 XseA Exonuclease VII, 69.6 12 0.00027 35.4 6.0 65 82-168 21-85 (440)
72 PRK07279 dnaE DNA polymerase I 68.8 26 0.00057 36.6 8.7 65 86-168 886-951 (1034)
73 PRK10917 ATP-dependent DNA hel 57.5 50 0.0011 32.6 8.0 61 85-167 60-122 (681)
74 PF03983 SHD1: SLA1 homology d 56.9 21 0.00045 25.5 3.9 27 166-193 11-37 (70)
75 PRK05672 dnaE2 error-prone DNA 56.4 50 0.0011 34.6 8.1 63 86-168 955-1017(1046)
76 cd04497 hPOT1_OB1_like hPOT1_O 55.6 97 0.0021 24.1 8.4 73 86-173 16-88 (138)
77 cd04498 hPOT1_OB2 hPOT1_OB2: A 54.6 21 0.00046 28.1 4.0 27 134-162 60-86 (123)
78 COG1200 RecG RecG-like helicas 52.2 1.2E+02 0.0026 30.5 9.5 77 86-187 62-138 (677)
79 cd04481 RPA1_DBD_B_like RPA1_D 50.1 30 0.00065 25.5 4.1 37 135-172 36-76 (106)
80 TIGR00643 recG ATP-dependent D 47.1 1.5E+02 0.0033 28.9 9.5 63 86-168 34-96 (630)
81 COG2176 PolC DNA polymerase II 44.8 76 0.0016 34.1 7.2 73 83-173 238-312 (1444)
82 PRK07218 replication factor A; 43.1 85 0.0018 29.6 6.8 61 83-165 171-233 (423)
83 PF08021 FAD_binding_9: Sidero 40.7 93 0.002 23.6 5.6 46 110-163 66-112 (117)
84 PRK07218 replication factor A; 38.7 1.2E+02 0.0027 28.5 7.1 60 83-164 67-127 (423)
85 cd04483 hOBFC1_like hOBFC1_lik 38.6 41 0.00088 24.7 3.2 20 149-168 59-78 (92)
86 COG0587 DnaE DNA polymerase II 35.4 1.6E+02 0.0034 31.5 7.9 68 86-170 978-1045(1139)
87 COG0802 Predicted ATPase or ki 33.9 35 0.00076 27.7 2.4 22 145-166 14-35 (149)
88 PRK10646 ADP-binding protein; 33.8 32 0.0007 27.8 2.2 21 145-165 17-37 (153)
89 COG4097 Predicted ferric reduc 33.2 62 0.0013 30.5 4.1 37 134-171 276-312 (438)
90 PF02367 UPF0079: Uncharacteri 31.3 23 0.00049 27.7 0.9 21 145-165 4-24 (123)
91 PF00970 FAD_binding_6: Oxidor 30.0 1.3E+02 0.0029 21.1 4.7 30 135-166 64-95 (99)
92 COG1862 YajC Preprotein transl 25.3 1.4E+02 0.003 22.5 4.2 24 147-170 38-61 (97)
93 PRK07135 dnaE DNA polymerase I 22.7 3.8E+02 0.0083 28.1 8.0 63 86-168 899-961 (973)
94 PRK06386 replication factor A; 22.6 3.2E+02 0.007 25.2 6.8 63 83-170 116-180 (358)
95 COG1571 Predicted DNA-binding 22.6 2.2E+02 0.0049 27.0 5.9 79 70-169 247-332 (421)
96 TIGR00150 HI0065_YjeE ATPase, 21.7 81 0.0018 24.8 2.4 21 145-165 11-31 (133)
97 PF06557 DUF1122: Protein of u 21.3 3.4E+02 0.0073 22.6 6.0 61 90-162 12-85 (170)
98 PF05683 Fumerase_C: Fumarase 20.8 1.7E+02 0.0037 25.0 4.3 31 136-167 27-57 (205)
99 TIGR00617 rpa1 replication fac 20.7 3.4E+02 0.0073 26.7 6.9 32 135-170 351-382 (608)
100 cd04321 ScAspRS_mt_like_N ScAs 20.0 3E+02 0.0066 19.3 5.0 33 136-169 31-64 (86)
No 1
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=1.8e-30 Score=214.29 Aligned_cols=109 Identities=27% Similarity=0.529 Sum_probs=103.5
Q ss_pred ccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEE
Q 029355 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~V 161 (194)
|+||+|+|+|+|++||++|+++||.++++|+||+++.|+++++|++ .+.++||+|++|++ +|+.+.++|+||++|+|
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 6899999999999999999999999999999999999988767887 46899999999999 99999999999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEecCeeeC
Q 029355 162 EGDIEIRVYNDSINGEVKNIPEICIRRDGNSYY 194 (194)
Q Consensus 162 eGrL~tr~y~d~~dG~~r~~~EI~v~~~G~~~f 194 (194)
+|+|+++.|+|+ +|++++.+||+|+..|+|.|
T Consensus 81 eGrL~~~~yedk-dG~~r~~~eVvv~~~~~~~~ 112 (177)
T PRK09010 81 EGQLRTRKWTDQ-SGQDRYTTEVVVNVGGTMQM 112 (177)
T ss_pred EEEEEeccccCC-CCCEEEEEEEEEecCCcEEE
Confidence 999999999999 99999999999998888876
No 2
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=7.5e-30 Score=205.90 Aligned_cols=111 Identities=25% Similarity=0.477 Sum_probs=100.6
Q ss_pred cc-cccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeE
Q 029355 81 FR-GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (194)
Q Consensus 81 m~-~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V 159 (194)
|. +||+|+|+|+||+||++|++++|.++++|+||+++.|+++++|++ ...++||+|++|++.+|+.++++|+||++|
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 44 499999999999999999999999999999999999987656887 468999999999965899999999999999
Q ss_pred EEEEEeEEeeeecCCCCeEEEEEEEEEEecC-eeeC
Q 029355 160 YVEGDIEIRVYNDSINGEVKNIPEICIRRDG-NSYY 194 (194)
Q Consensus 160 ~VeGrL~tr~y~d~~dG~~r~~~EI~v~~~G-~~~f 194 (194)
+|+|+|+++.|+|+ ||++++.++|+|+..+ .|.|
T Consensus 79 ~V~GrL~~~~y~dk-dG~~r~~~eVvv~~~~~~i~f 113 (152)
T PRK06642 79 YIEGSLQTRKWNDN-SGQEKYTTEVVLQNFNSQLIL 113 (152)
T ss_pred EEEEEEEeCeeECC-CCCEEEEEEEEEEecccceEe
Confidence 99999999999999 9999999999999753 4443
No 3
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.97 E-value=1.6e-29 Score=208.25 Aligned_cols=108 Identities=28% Similarity=0.566 Sum_probs=102.0
Q ss_pred ccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEE
Q 029355 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~V 161 (194)
++||+|+|+|+||+||++|++++|.++++|+||+++.|.++++|++ .+.++||+|++||+ +|+.+.++|+||+.|+|
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 4799999999999999999999999999999999999988667887 46899999999999 99999999999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEecCeeeC
Q 029355 162 EGDIEIRVYNDSINGEVKNIPEICIRRDGNSYY 194 (194)
Q Consensus 162 eGrL~tr~y~d~~dG~~r~~~EI~v~~~G~~~f 194 (194)
+|+|+++.|++ +|++++.+||+|+.+|+|+|
T Consensus 81 eGrL~~r~ye~--dG~kr~~~eIiv~~~g~~~f 111 (175)
T PRK13732 81 EGQLRTRSWED--NGITRYVTEILVKTTGTMQM 111 (175)
T ss_pred EEEEEeeeEcc--CCeEEEEEEEEEeecCeEEE
Confidence 99999999976 69999999999999999986
No 4
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=5.2e-29 Score=204.81 Aligned_cols=108 Identities=30% Similarity=0.540 Sum_probs=101.7
Q ss_pred ccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEE
Q 029355 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~V 161 (194)
++||+|+|+|+||+||++++++||.++++|+||+++.|.++++|++ .+.++||+|++||+ +|+.+.++|+||++|+|
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 5799999999999999999999999999999999999987667887 46799999999999 99999999999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEecCeeeC
Q 029355 162 EGDIEIRVYNDSINGEVKNIPEICIRRDGNSYY 194 (194)
Q Consensus 162 eGrL~tr~y~d~~dG~~r~~~EI~v~~~G~~~f 194 (194)
+|+|+++.|+ + ||++++.+||+|+.+|.|.|
T Consensus 80 eGrLr~~~y~-k-dG~~r~~~eVvvd~~g~v~~ 110 (172)
T PRK05733 80 EGKLQTREWE-K-DGIKRYTTEIVVDMQGTMQL 110 (172)
T ss_pred EEEEEeCcEe-c-CCEEEEEEEEEEeecCeEEE
Confidence 9999999999 7 99999999999998888875
No 5
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=4.9e-29 Score=204.24 Aligned_cols=106 Identities=30% Similarity=0.479 Sum_probs=99.5
Q ss_pred cccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEE
Q 029355 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 81 m~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~ 160 (194)
|.+||+|+|+|+||+||++|+++||..+++|+||+++.|.++..|++ .+.++||+|++|++ +|+.+.++|+||++|+
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 EEEEeEEeeeecCCCCeEEEEEEEEEEecC
Q 029355 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDG 190 (194)
Q Consensus 161 VeGrL~tr~y~d~~dG~~r~~~EI~v~~~G 190 (194)
|+|+|+++.|+|+ ||++++.++|.|+...
T Consensus 78 VeGrL~~r~w~Dk-dG~~r~~~eI~a~~i~ 106 (168)
T PRK06863 78 VEGRLKTRKWQDQ-NGQDRYTTEIQGDVLQ 106 (168)
T ss_pred EEEEEEeCCccCC-CCCEEEEEEEEEeEEE
Confidence 9999999999999 9999999999999654
No 6
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=6.8e-29 Score=205.60 Aligned_cols=108 Identities=26% Similarity=0.445 Sum_probs=101.3
Q ss_pred cccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEE
Q 029355 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 81 m~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~ 160 (194)
|.+||+|+|+|+|++||+++++++|.++++|+||+++.|+++++|++ ++.++||+|++|++ +|+.++++|+||++|+
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 67899999999999999999999999999999999999998777887 46799999999999 9999999999999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEecCee
Q 029355 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDGNS 192 (194)
Q Consensus 161 VeGrL~tr~y~d~~dG~~r~~~EI~v~~~G~~ 192 (194)
|+|+|+++.|+|+ ||++++.++|+|+....|
T Consensus 78 VeGrL~~~~yeDk-dG~kr~~~eVvA~~V~fL 108 (182)
T PRK06958 78 IEGRIRTRKWQGQ-DGQDRYSTEIVADQMQML 108 (182)
T ss_pred EEEEEEeCceECC-CCcEEEEEEEEEeEEEEC
Confidence 9999999999999 999999999999965443
No 7
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=1e-28 Score=201.70 Aligned_cols=103 Identities=29% Similarity=0.532 Sum_probs=97.1
Q ss_pred ccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEE
Q 029355 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~V 161 (194)
++||+|+|+|+||+||++|++++|.++++|+||+++.|+++. |++ .+.++||+|++||+ +|+.+.++|+||+.|+|
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 RGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDRE-GNT--QERTEWHRVKFFGK-LGEIAGEYLRKGSQCYI 78 (164)
T ss_pred CcceEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecCC-CCe--eccceEEEEEEehH-HHHHHHHhcCCCCEEEE
Confidence 479999999999999999999999999999999999998874 876 46899999999999 99999999999999999
Q ss_pred EEEeEEeeeecCCCCeEEEEEEEEEEec
Q 029355 162 EGDIEIRVYNDSINGEVKNIPEICIRRD 189 (194)
Q Consensus 162 eGrL~tr~y~d~~dG~~r~~~EI~v~~~ 189 (194)
+|+|+++.|+|+ ||++++.+||+|+..
T Consensus 79 eGrL~~~~y~dk-dG~kr~~~eIva~~i 105 (164)
T PRK08763 79 EGSIRYDKFTGQ-DGQERYVTEIVADEM 105 (164)
T ss_pred EEEEEeceeECC-CCCEEEEEEEEEeEE
Confidence 999999999999 999999999999843
No 8
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.96 E-value=1.1e-28 Score=189.16 Aligned_cols=101 Identities=20% Similarity=0.303 Sum_probs=94.5
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
||+|+|+|+|++||+++++++|.++++|+||+++.|+++ +|++ .++||+|++||+ +|+.++++|+||++|+|+|
T Consensus 2 mN~v~liGrl~~dPelr~t~~G~~~~~f~lAv~~~~~~~-~g~~----~t~~~~v~~wg~-~Ae~~~~~l~KG~~V~V~G 75 (112)
T PRK06752 2 MNRVVLIGRLTKEPELYYTKQGVAYARVCVAVNRGFRNS-LGEQ----QVDFINCVVWRK-SAENVTEYCTKGSLVGITG 75 (112)
T ss_pred ceEEEEEEECcCCCEEEECCCCCEEEEEEEEECCCeEcC-CCCE----EEEEEEEEEehH-HHHHHHHhcCCCCEEEEEE
Confidence 899999999999999999999999999999999999876 3754 589999999999 9999999999999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEecCe
Q 029355 164 DIEIRVYNDSINGEVKNIPEICIRRDGN 191 (194)
Q Consensus 164 rL~tr~y~d~~dG~~r~~~EI~v~~~G~ 191 (194)
+|+++.|+|+ ||++++.+||.|++...
T Consensus 76 ~l~~~~~~~~-~G~~~~~~ei~a~~i~~ 102 (112)
T PRK06752 76 RIHTRNYEDD-QGKRIYITEVVIESITF 102 (112)
T ss_pred EEEeCccCCC-CCcEEEEEEEEEEEEEE
Confidence 9999999999 99999999999996543
No 9
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=99.96 E-value=4.8e-29 Score=201.72 Aligned_cols=153 Identities=51% Similarity=0.847 Sum_probs=128.9
Q ss_pred CcccceeeeeeeCCcceeeccccCCCCCCCCCCcccccccccccccccccCCCCCCCCccccccccEEEEEEEeCCCceE
Q 029355 20 SHSTSLVLGVQRSSKMWYSSGSFDGKNDDQNMDEVDDVFDDFVVEKQELQPQGVDPRRGWGFRGVHKAIICGKVKDTPVQ 99 (194)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~m~~mNkV~LiGrVg~dPel 99 (194)
..||++.+.-.+.+..|..+..+. ..++|++.++++ +..+++|+| -.+++|+|+|+|+||+||.+
T Consensus 6 ssis~~~i~~~~~s~~~~~~~Pi~------------~~v~d~~a~~~~-~~~~~~p~k--~~~~vnkv~lvG~VGqdPl~ 70 (175)
T KOG1653|consen 6 SSISPLAISAERGSKSWMLEGPIL------------QGVRDLFAENSE-TTTGEDPRK--LERGVNKVILVGRVGQDPLQ 70 (175)
T ss_pred ccccccceeccccchhhhhhCchh------------hhhhhhHhhccc-ccCccchhh--hhcccceEEEEcccccchHH
Confidence 346666666666666666654443 567888888874 668899977 44999999999999999999
Q ss_pred EEecCCeEEEEEEEEECCceecc--CCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeEEeeeecCCCCe
Q 029355 100 KILRNGKTVTIFSVGTGGLFDQR--IVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYNDSINGE 177 (194)
Q Consensus 100 k~t~nG~~v~~FsVAv~~~~~dr--~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~tr~y~d~~dG~ 177 (194)
|..+||++|+.|+|+|+.+|+++ +.|.+ ..+++||+|++|++.+|+++.++|+||++|||||+|+++-+.|.+.|.
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 99999999999999999999843 24655 789999999999988999999999999999999999998888777999
Q ss_pred EEEEEEEEEEec
Q 029355 178 VKNIPEICIRRD 189 (194)
Q Consensus 178 ~r~~~EI~v~~~ 189 (194)
.+.+.++++.++
T Consensus 149 ~~r~~t~iIa~~ 160 (175)
T KOG1653|consen 149 VKRIPTIIIARD 160 (175)
T ss_pred eeecceEEEech
Confidence 988888888765
No 10
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=3.5e-28 Score=198.86 Aligned_cols=103 Identities=25% Similarity=0.514 Sum_probs=97.4
Q ss_pred cccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEE
Q 029355 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~Ve 162 (194)
.||+|+|+|+|++||++|++++|+++++|+||+++.|+++++|++ .+.++||+|++|++.+|+.+.++|+||++|+|+
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 499999999999999999999999999999999999988767887 578999999999965899999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEe
Q 029355 163 GDIEIRVYNDSINGEVKNIPEICIRR 188 (194)
Q Consensus 163 GrL~tr~y~d~~dG~~r~~~EI~v~~ 188 (194)
|+|+++.|+|+ +|++++.+||+|+.
T Consensus 82 GrL~~r~w~dk-dG~~r~~~eIiv~~ 106 (166)
T PRK06341 82 GQLQTRKWTDQ-SGVERYSTEVVLQG 106 (166)
T ss_pred EEEEeCcEECC-CCCEEEEEEEEEEe
Confidence 99999999999 99999999999985
No 11
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=3e-28 Score=198.52 Aligned_cols=99 Identities=13% Similarity=0.282 Sum_probs=93.6
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
||+|+|+|||++||++|++++|.+++.|+||+++.|+++ .|+. .++||+|++||+ +||.++++|+||++|+|+|
T Consensus 2 ~N~v~LiGrL~~DPElr~t~sG~~v~~ftlAv~r~~~~~-~ge~----~tdfi~vv~wgk-~Ae~~~~~l~KG~~V~VeG 75 (162)
T PRK07275 2 INNVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQ-NGER----EADFINCVIWRQ-QAENLANWAKKGALIGVTG 75 (162)
T ss_pred eeEEEEEEEECCCCeEEECCCCCEEEEEEEEEcCceecC-CCCE----eeeEEEEEEEcH-HHHHHHHHcCCCCEEEEEE
Confidence 799999999999999999999999999999999999876 3753 699999999999 9999999999999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEec
Q 029355 164 DIEIRVYNDSINGEVKNIPEICIRRD 189 (194)
Q Consensus 164 rL~tr~y~d~~dG~~r~~~EI~v~~~ 189 (194)
+|+++.|+|+ ||++++.+||+|+..
T Consensus 76 rl~~r~y~dk-dG~k~~~~evva~~i 100 (162)
T PRK07275 76 RIQTRNYENQ-QGQRVYVTEVVADNF 100 (162)
T ss_pred EEEeceEECC-CCCEEEEEEEEEeEE
Confidence 9999999999 999999999999853
No 12
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.96 E-value=6.9e-28 Score=199.72 Aligned_cols=102 Identities=22% Similarity=0.330 Sum_probs=96.1
Q ss_pred cccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEE
Q 029355 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~Ve 162 (194)
+||+|+|+|+|+.||++|++++|.+++.|+||++++|+++ +|++ .+.++||+|++||+ +||.+.++|+||++|+|+
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 3799999999999999999999999999999999999876 4887 56899999999999 999999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEec
Q 029355 163 GDIEIRVYNDSINGEVKNIPEICIRRD 189 (194)
Q Consensus 163 GrL~tr~y~d~~dG~~r~~~EI~v~~~ 189 (194)
|+|+++.|+|+ ||++++.++|+|+..
T Consensus 77 GrL~~~~y~dk-dG~~r~~~eI~a~~v 102 (182)
T PRK08486 77 GRLTFESWMDQ-NGQKRSKHTITAESM 102 (182)
T ss_pred EEEEeCcEECC-CCcEEEEEEEEEeEE
Confidence 99999999999 999999999999943
No 13
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=9.9e-28 Score=186.85 Aligned_cols=97 Identities=16% Similarity=0.328 Sum_probs=90.4
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
||+|+|+|+||+||+++++++|.++++|+||+++.|.+ ..++||+|++|++ +|+.+.++|+||++|+|+|
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 3589999999999 9999999999999999999
Q ss_pred EeEEeeeecCCC-CeEEEEEEEEEEecCe
Q 029355 164 DIEIRVYNDSIN-GEVKNIPEICIRRDGN 191 (194)
Q Consensus 164 rL~tr~y~d~~d-G~~r~~~EI~v~~~G~ 191 (194)
+|+++.|+|+ | |++++.++|.|++...
T Consensus 73 ~l~~~~~~d~-d~G~~r~~~ei~a~~i~~ 100 (121)
T PRK07459 73 SLKFDRWTDR-NTGEDRSKPVIRVDRLEL 100 (121)
T ss_pred EEEecceEcC-CCCeEEEEEEEEEeEEEE
Confidence 9999999998 6 9999999999996543
No 14
>TIGR00621 ssb single stranded DNA-binding protein (ssb). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.95 E-value=1.5e-27 Score=194.24 Aligned_cols=107 Identities=28% Similarity=0.465 Sum_probs=100.4
Q ss_pred cccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEE
Q 029355 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 81 m~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~ 160 (194)
|++||+|+|+|+|++||++|++++|.+++.|+||++++|.++. |++ ...++||+|++|++ +|+.++++|+||++|+
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 7889999999999999999999999999999999999998875 887 46799999999999 9999999999999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEecCee
Q 029355 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDGNS 192 (194)
Q Consensus 161 VeGrL~tr~y~d~~dG~~r~~~EI~v~~~G~~ 192 (194)
|+|+|+++.|+++ +|++++.++|+|+....|
T Consensus 77 V~G~L~~~~~~~k-dG~~~~~~ev~a~~i~~L 107 (164)
T TIGR00621 77 VEGRLRTRKWEDQ-NGQKRSKTEIIADNVQLL 107 (164)
T ss_pred EEEEEEeceEECC-CCcEEEEEEEEEEEEeec
Confidence 9999999999999 999999999999976443
No 15
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=1.6e-27 Score=191.55 Aligned_cols=105 Identities=16% Similarity=0.195 Sum_probs=96.8
Q ss_pred ccEEEEEEEeCCCceEEEecCCeE----EEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKT----VTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~----v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V 159 (194)
+|+|+|+|||++||+++++++|.. +++|+||+++.|+++ +|+++ +..++||+|++||+ +|+.+.++|+||++|
T Consensus 2 ~N~V~LiGrLg~DPElr~t~~G~~~~~~va~fslA~~r~~~~~-~Ge~~-~~~t~w~~V~~wg~-~Ae~v~~~l~KG~~V 78 (148)
T PRK08182 2 STHFVGEGNIGSAPEYREFPNGNDEPRRLLRLNVYFDNPVPTK-DGEYE-DRGGFWAPVELWHR-DAEHWARLYQKGMRV 78 (148)
T ss_pred ccEEEEEEECCCCCeEEECCCCCeeeeeEEEEEEEecCceECC-CCCEE-ecCcEEEEEEEEhH-HHHHHHHhcCCCCEE
Confidence 699999999999999999999986 999999999999876 58874 35799999999999 999999999999999
Q ss_pred EEEEEeEEeeeecCCCCeEEEEEEEEEEecCee
Q 029355 160 YVEGDIEIRVYNDSINGEVKNIPEICIRRDGNS 192 (194)
Q Consensus 160 ~VeGrL~tr~y~d~~dG~~r~~~EI~v~~~G~~ 192 (194)
+|+|+|+++.|+|+ ||++++.++|.|+..+.|
T Consensus 79 ~V~GrL~~~~w~dk-dG~~r~~~eI~a~~i~~l 110 (148)
T PRK08182 79 LVEGRMERDEWTDN-EDNERVTFKVEARRVGIL 110 (148)
T ss_pred EEEEEEEecccCCC-CCCEEEEEEEEEeEEEEc
Confidence 99999999999999 999999999999966543
No 16
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=2.8e-27 Score=196.63 Aligned_cols=108 Identities=19% Similarity=0.295 Sum_probs=99.6
Q ss_pred cccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEE
Q 029355 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 81 m~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~ 160 (194)
|.++|+|+|+|||++||++|++++|.++++|+||+++++.++++|+|+ +..++||+|++|++ +|++++++|+|||+|+
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 678999999999999999999999999999999998665455568874 45899999999999 9999999999999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEecCe
Q 029355 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDGN 191 (194)
Q Consensus 161 VeGrL~tr~y~d~~dG~~r~~~EI~v~~~G~ 191 (194)
|+|+|+++.|+|+ ||++++.+||.|+.+|.
T Consensus 79 V~GrL~~r~wedk-dG~~rt~~eV~a~~Vg~ 108 (186)
T PRK07772 79 VTGRLKQRSYETR-EGEKRTVVELEVDEIGP 108 (186)
T ss_pred EEEEEEcCceECC-CCCEEEEEEEEEEEccc
Confidence 9999999999999 99999999999998884
No 17
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=5.1e-27 Score=184.80 Aligned_cols=99 Identities=18% Similarity=0.343 Sum_probs=92.5
Q ss_pred cccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEE
Q 029355 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~Ve 162 (194)
+||+|+|+|+||+||+++++++|.+++.|+||+++.|+++ +|++ .++||+|++||+ +|+.++++|+||++|+|+
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 3899999999999999999999999999999999999876 4754 589999999999 999999999999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEec
Q 029355 163 GDIEIRVYNDSINGEVKNIPEICIRRD 189 (194)
Q Consensus 163 GrL~tr~y~d~~dG~~r~~~EI~v~~~ 189 (194)
|+|+++.| ++ ||++++.++|+++..
T Consensus 75 Grl~~~~y-~k-dG~~~~~~eviv~~i 99 (131)
T PRK07274 75 GELRTRKY-EK-DGQTHYVTEVLCQSF 99 (131)
T ss_pred EEEEeccC-cc-CCcEEEEEEEEEEEE
Confidence 99999999 88 999999999999854
No 18
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.95 E-value=7.6e-27 Score=192.12 Aligned_cols=99 Identities=18% Similarity=0.363 Sum_probs=93.3
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
||+|+|+|+|++||++|++++|.+++.|+||+++.|+++ .|++ .++||+|++|++ +|+.++++|+||++|+|+|
T Consensus 2 mN~V~LiGrL~~DpelR~t~sG~~v~~fslAvnr~~~~~-~ge~----~tdwi~~v~wgk-~Ae~~~~~l~KG~~V~VeG 75 (173)
T PRK06751 2 MNRVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQ-QGER----EADFINCVIWRK-QAENVANYLKKGSLAGVDG 75 (173)
T ss_pred ceEEEEEEEECCCCcEEECCCCCEEEEEEEEEccceecC-CCCE----EEEEEEEEEeCc-HHHHHHHHcCCCCEEEEEE
Confidence 799999999999999999999999999999999999866 4653 589999999999 9999999999999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEec
Q 029355 164 DIEIRVYNDSINGEVKNIPEICIRRD 189 (194)
Q Consensus 164 rL~tr~y~d~~dG~~r~~~EI~v~~~ 189 (194)
+|+++.|+|+ +|++++.+||+|+..
T Consensus 76 rL~~r~yedk-dG~~~~~~eVva~~i 100 (173)
T PRK06751 76 RLQTRNYEGQ-DGKRVYVTEVLAESV 100 (173)
T ss_pred EEEeCccCCC-CCcEEEEEEEEEEEE
Confidence 9999999999 999999999999854
No 19
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.94 E-value=1.1e-26 Score=189.10 Aligned_cols=101 Identities=19% Similarity=0.313 Sum_probs=93.1
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
||+|+|+||||+||++|++++|+++++|+||+++++. + ...++||+|++|++ +|+.++++|+||++|+|+|
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 MMFGYIVGRLGADPEERMTSKGKRVVVLRLGVKSRVG----S----KDETVWCRCNIWGN-RYDKMLPYLKKGSGVIVAG 71 (161)
T ss_pred CeEEEEEEEecCCCeEEEcCCCCEEEEEEEEEeCCCC----C----ccceEEEEEEEEhH-HHHHHHHhCCCCCEEEEEE
Confidence 8999999999999999999999999999999997642 1 25799999999999 9999999999999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEecCeeeC
Q 029355 164 DIEIRVYNDSINGEVKNIPEICIRRDGNSYY 194 (194)
Q Consensus 164 rL~tr~y~d~~dG~~r~~~EI~v~~~G~~~f 194 (194)
+|+++.|+|+ ||++++.++|+|+....|.|
T Consensus 72 rL~~~~y~dk-dG~kr~~~eIva~~I~fl~~ 101 (161)
T PRK06293 72 EMSPESYVDK-DGSPQSSLVVSVDTIKFSPF 101 (161)
T ss_pred EEEeCccCCC-CCCEEEEEEEEEeEEEECcC
Confidence 9999999999 99999999999997766644
No 20
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=99.94 E-value=5.9e-26 Score=168.34 Aligned_cols=104 Identities=24% Similarity=0.418 Sum_probs=92.5
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
||+|+|+|+|+.||+++++++|.+++.|+||++++|+++ .+.. ...++||+|++||+ +|+.++++|+||+.|+|+|
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 799999999999999999999999999999999999873 2443 57899999999999 9999999999999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEecCee
Q 029355 164 DIEIRVYNDSINGEVKNIPEICIRRDGNS 192 (194)
Q Consensus 164 rL~tr~y~d~~dG~~r~~~EI~v~~~G~~ 192 (194)
+|+++.|+++ +|++++.++|.|+..+.|
T Consensus 77 ~l~~~~~~~~-~G~~~~~~~i~a~~i~fl 104 (104)
T PF00436_consen 77 RLRTRTYEDK-DGQKRYRVEIIADNIEFL 104 (104)
T ss_dssp EEEEEEEEST-TSSEEEEEEEEEEEEEE-
T ss_pred EEEeeEEECC-CCCEEEEEEEEEEEEEeC
Confidence 9999999999 899999999999966543
No 21
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.93 E-value=1.8e-25 Score=182.07 Aligned_cols=104 Identities=26% Similarity=0.435 Sum_probs=87.9
Q ss_pred ccccEEEEEEEeCCCceEEEecCC-eEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEE
Q 029355 82 RGVHKAIICGKVKDTPVQKILRNG-KTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~nG-~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~ 160 (194)
.+||+|+|+|+|++||++|++++| ..++.|++++++ |.++++|+. +..++||+|++||+ +|+.+.++|+||++|+
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 MMMNKVILVGRLTRDPELRYTPNGGAVVALFSAAVNR-RFDNQSGER--DEETDWIRVVIWGK-LAENAAEYLKKGSLVY 76 (167)
T ss_pred CCcceEEEEeecccCcceeecCCCCeeeEEEEEEecc-ccccCCccc--ccccceEEEEEehH-HHHHHHHHhcCCCEEE
Confidence 079999999999999999999955 555556666655 544444565 57899999999999 9999999999999999
Q ss_pred EEEEeEEeeeecCCCCeEEEEEEEEEEecC
Q 029355 161 VEGDIEIRVYNDSINGEVKNIPEICIRRDG 190 (194)
Q Consensus 161 VeGrL~tr~y~d~~dG~~r~~~EI~v~~~G 190 (194)
|+|+|+++.|+++ +|+.++..++.+...+
T Consensus 77 VeG~l~~~~~~~~-~G~~r~~~~~~~~~v~ 105 (167)
T COG0629 77 VEGRLQTRKWEDQ-EGQKRYQTEIVTEIVA 105 (167)
T ss_pred EEEEEEeeeeecC-CCcceeeEEEEEEEee
Confidence 9999999999999 9988888888777543
No 22
>PRK05853 hypothetical protein; Validated
Probab=99.92 E-value=1.5e-24 Score=176.76 Aligned_cols=98 Identities=18% Similarity=0.269 Sum_probs=90.8
Q ss_pred EEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeEEe
Q 029355 89 ICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIR 168 (194)
Q Consensus 89 LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~tr 168 (194)
|+|||++||+++++ +|.++++|+||++++|+++ +|+|+ +..++||+|++|++ +|+++.++|+||++|+|+|+|+++
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 VVGHIVNDPQRRKV-GDQEVIKFRVASNSRRRTA-DGGWE-PGNSLFITVNCWGR-LVTGVGAALGKGAPVIVVGHVYTS 76 (161)
T ss_pred CeEcccCCCEEEEE-CCceEEEEEEEECCCeECC-CCCEe-ccCccEEEEEEEhH-HHHHHHHHcCCCCEEEEEEEEEcc
Confidence 68999999999998 5789999999999999876 58884 45799999999999 999999999999999999999999
Q ss_pred eeecCCCCeEEEEEEEEEEecCe
Q 029355 169 VYNDSINGEVKNIPEICIRRDGN 191 (194)
Q Consensus 169 ~y~d~~dG~~r~~~EI~v~~~G~ 191 (194)
.|+|+ +|++++.++|.++.+|.
T Consensus 77 ~wedk-dG~~r~~~eV~a~~Vg~ 98 (161)
T PRK05853 77 EYEDR-DGNRRSSLEMRATSVGP 98 (161)
T ss_pred ceECC-CCCEEEEEEEEEEEecc
Confidence 99999 99999999999998764
No 23
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.90 E-value=7.6e-23 Score=173.93 Aligned_cols=93 Identities=13% Similarity=0.203 Sum_probs=85.6
Q ss_pred ccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEE
Q 029355 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~V 161 (194)
.+||+|+|+|+|++||++|++++|.+++.|+||+++.|. .++||+|++||+ +|+.+. +|+||++|.|
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 469999999999999999999999999999999998663 378999999999 999875 6999999999
Q ss_pred EEEeEEeeeecCCC----CeEEEEEEEEEEe
Q 029355 162 EGDIEIRVYNDSIN----GEVKNIPEICIRR 188 (194)
Q Consensus 162 eGrL~tr~y~d~~d----G~~r~~~EI~v~~ 188 (194)
+|+|+++.|+++ + |++++.+||.|+.
T Consensus 174 ~GrL~sr~y~~k-~g~~~g~kr~~~eV~v~~ 203 (219)
T PRK05813 174 WGRVQSREYQKK-LSEGEVVTKVAYEVSISK 203 (219)
T ss_pred EEEEEecceEcC-CCCccceEEEEEEEEEEE
Confidence 999999999998 6 4899999999993
No 24
>PRK02801 primosomal replication protein N; Provisional
Probab=99.89 E-value=5.7e-22 Score=149.97 Aligned_cols=95 Identities=16% Similarity=0.169 Sum_probs=82.0
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
||+|+|+|+|++||++|+|++|.++++|+||+.. +....+++ ...++|++|++||+ +||.+.++|+||+.|.|+|
T Consensus 2 mN~v~L~Grl~~dpelr~Tp~G~~v~~f~La~~~-~~~ea~~~---r~~~~~i~~va~G~-~Ae~~~~~l~kGs~v~V~G 76 (101)
T PRK02801 2 TNRLVLSGTVCRTPKRKVSPSGIPHCQFVLEHRS-VQEEAGLH---RQAWCRMPVIVSGN-QFQAITQSITVGSKITVQG 76 (101)
T ss_pred ccEEEEEEEECcCcceEECCCCCeEEEEEEEEeC-eEecCCCc---eeEEEEEEEEEEcH-HHHHHHhhcCCCCEEEEEE
Confidence 7999999999999999999999999999999953 44332222 24569999999999 9999999999999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEEEEe
Q 029355 164 DIEIRVYNDSINGEVKNIPEICIRR 188 (194)
Q Consensus 164 rL~tr~y~d~~dG~~r~~~EI~v~~ 188 (194)
+|++ |+++ +|++++. |.+++
T Consensus 77 ~L~~--~~~~-~g~~~~~--v~~~~ 96 (101)
T PRK02801 77 FISC--HQGR-NGLSKLV--LHAEQ 96 (101)
T ss_pred EEEE--eECC-CCCEEEE--EEEEE
Confidence 9998 7888 9988876 77764
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=99.88 E-value=7.2e-22 Score=144.96 Aligned_cols=99 Identities=25% Similarity=0.411 Sum_probs=90.8
Q ss_pred EEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeE
Q 029355 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (194)
Q Consensus 87 V~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~ 166 (194)
|+|+|+|+++|+++++++|.+++.|+|++++.++++. .. +..++||+|++||+ +|+.++++++|||+|+|+|+|+
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 5799999999999999999999999999999887652 22 56899999999999 9999999999999999999999
Q ss_pred EeeeecCCCCeEEEEEEEEEEecCe
Q 029355 167 IRVYNDSINGEVKNIPEICIRRDGN 191 (194)
Q Consensus 167 tr~y~d~~dG~~r~~~EI~v~~~G~ 191 (194)
.+.|+++ +|+.++.++|.|+..+.
T Consensus 76 ~~~~~~~-~g~~~~~~~i~~~~i~~ 99 (100)
T cd04496 76 TRSWEDK-DGQKRYGTEVVADRIEF 99 (100)
T ss_pred eceeECC-CCCEEEEEEEEEEEEEE
Confidence 9999998 99999999999986553
No 26
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.75 E-value=1.7e-17 Score=141.30 Aligned_cols=90 Identities=21% Similarity=0.199 Sum_probs=82.6
Q ss_pred cccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEE
Q 029355 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~Ve 162 (194)
..|+|+|+|+|++||+++++..|..+..|+|||++ +. ..+|||+|++|++ +|+.+. ++||+.|+|+
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 38999999999999999999999999999999998 54 3688999999999 999877 9999999999
Q ss_pred EEeEEeeeecCCCCeEEEEEEEEEEe
Q 029355 163 GDIEIRVYNDSINGEVKNIPEICIRR 188 (194)
Q Consensus 163 GrL~tr~y~d~~dG~~r~~~EI~v~~ 188 (194)
|+|+ +|++.++|++|+.++|.|+.
T Consensus 73 Gqlr--sy~~~~~G~~R~vl~V~a~~ 96 (219)
T PRK05813 73 GQLR--SYNKFIDGKNRLILTVFARN 96 (219)
T ss_pred EEEE--EeccCCCCcEEEEEEEEEEE
Confidence 9999 89876469999999999973
No 27
>PRK00036 primosomal replication protein N; Reviewed
Probab=98.24 E-value=1e-05 Score=62.18 Aligned_cols=78 Identities=8% Similarity=-0.005 Sum_probs=62.1
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
||++.|+|.|.+.|.+||+|.|-+.+.|.|.-.. ...+ .|.. ...-.-+.+++.|+ +|+.+. .+..|+.|.|+|
T Consensus 1 mN~l~Ltg~v~~~~~lryTPAGIp~~~~~LeH~S-~q~E-AG~~--Rqv~~~i~ava~G~-~a~~~~-~l~~Gs~v~v~G 74 (107)
T PRK00036 1 MNTLELSARVLECGAMRHTPAGLPALELLLVHES-EVVE-AGHP--RRVELTISAVALGD-LALLLA-DTPLGTEMQVQG 74 (107)
T ss_pred CCEEEEEEEEeccCccccCCCCCceEEEEEEEeE-EeEe-CCCc--ceEEEEEEEEEEhh-HHHHhc-ccCCCCEEEEEE
Confidence 6999999999999999999999999999998644 3333 3542 12233455677897 898766 599999999999
Q ss_pred EeEE
Q 029355 164 DIEI 167 (194)
Q Consensus 164 rL~t 167 (194)
=|..
T Consensus 75 FLa~ 78 (107)
T PRK00036 75 FLAP 78 (107)
T ss_pred EEEE
Confidence 9987
No 28
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=97.91 E-value=9e-05 Score=56.21 Aligned_cols=84 Identities=14% Similarity=0.245 Sum_probs=67.0
Q ss_pred cccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEE--EeCchHHHHHHhcCCCCCe
Q 029355 81 FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIA--VHNEILGSYAVKQLVKNSS 158 (194)
Q Consensus 81 m~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~--~wg~~lAe~v~~~L~KGs~ 158 (194)
|...|++.|.|-|++.|..+++|+|-+.+.|-|-- +++..+ .|. ...-|+++- +-|+ +|+.+-+.+..|+.
T Consensus 1 ~~~~Nrl~L~g~vak~~~r~~sPsGIphc~f~Leh-rs~q~E-ag~----~RQv~~~mpv~vsG~-qa~~lt~~i~~Gs~ 73 (103)
T COG2965 1 MNMTNRLSLSGTVAKVPVRRYSPSGIPHCQFVLEH-RSWQEE-AGF----QRQVWCEMPVRVSGR-QAEELTQSITVGSY 73 (103)
T ss_pred CCccceEEEEEEeeccceeeeCCCCCeeEEEEEee-cchhhh-CCc----ceeEEEEccEEeech-hhhhhhhccccccE
Confidence 34579999999999999999999999999998875 445433 353 356677654 4577 88888888999999
Q ss_pred EEEEEEeEEeeee
Q 029355 159 VYVEGDIEIRVYN 171 (194)
Q Consensus 159 V~VeGrL~tr~y~ 171 (194)
|.|+|=|....-.
T Consensus 74 i~v~GFla~~~~~ 86 (103)
T COG2965 74 ILVVGFLACHKRR 86 (103)
T ss_pred EEEEEEEEeeccc
Confidence 9999998876543
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=96.59 E-value=0.032 Score=37.93 Aligned_cols=60 Identities=22% Similarity=0.341 Sum_probs=45.6
Q ss_pred EEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeE
Q 029355 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (194)
Q Consensus 87 V~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~ 166 (194)
|.+.|.|.+-. +++..++.|+|.-. +| -++|.+|++ .+....+.+++|+.|.|.|.++
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 56888887644 55566777777522 23 489999996 6777889999999999999998
Q ss_pred Ee
Q 029355 167 IR 168 (194)
Q Consensus 167 tr 168 (194)
..
T Consensus 59 ~~ 60 (75)
T PF01336_consen 59 RY 60 (75)
T ss_dssp EE
T ss_pred EE
Confidence 87
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=96.32 E-value=0.038 Score=40.03 Aligned_cols=68 Identities=18% Similarity=0.260 Sum_probs=51.7
Q ss_pred EEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCC-CCCeEEEEEEe
Q 029355 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLV-KNSSVYVEGDI 165 (194)
Q Consensus 87 V~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~-KGs~V~VeGrL 165 (194)
|++.|.|-. .+.|.+++|+.+..|.|.- | ++=+.|..|....-+. ...++ +|+-|.|+|++
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 7999999999888887762 1 1227788887313333 36799 99999999999
Q ss_pred EEeeeec
Q 029355 166 EIRVYND 172 (194)
Q Consensus 166 ~tr~y~d 172 (194)
++..|..
T Consensus 64 ~~D~f~~ 70 (82)
T cd04484 64 QYDTFSK 70 (82)
T ss_pred EEccCCC
Confidence 9999954
No 31
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=95.62 E-value=0.31 Score=33.75 Aligned_cols=62 Identities=15% Similarity=0.105 Sum_probs=45.8
Q ss_pred EEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeE
Q 029355 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (194)
Q Consensus 87 V~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~ 166 (194)
+.+.|-|.+ ++.+++| .+.|+|.-. +| =+.|++|.+ ..+.+...|++|+.|.|+|++.
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---LKRPSSG--HLYFTLKDE-------DA---------SIRCVMWRS-NARRLGFPLEEGMEVLVRGKVS 59 (78)
T ss_pred EEEEEEEec---CEECCCc--EEEEEEEeC-------Ce---------EEEEEEEcc-hhhhCCCCCCCCCEEEEEEEEE
Confidence 457788874 3337777 666666532 13 289999998 6677788999999999999999
Q ss_pred Eeee
Q 029355 167 IRVY 170 (194)
Q Consensus 167 tr~y 170 (194)
...|
T Consensus 60 ~~~~ 63 (78)
T cd04489 60 FYEP 63 (78)
T ss_pred EECC
Confidence 7544
No 32
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=95.55 E-value=0.077 Score=39.82 Aligned_cols=67 Identities=13% Similarity=0.017 Sum_probs=51.2
Q ss_pred ccccEEEEEEEeCCCceEEEecCC---eEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCe
Q 029355 82 RGVHKAIICGKVKDTPVQKILRNG---KTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSS 158 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~nG---~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~ 158 (194)
.+++.+.++|+|..--+++.+++. ..+..|.|+ |.+ +.-+++++|++ .|+.+...|+.|+-
T Consensus 7 p~~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~------De~---------~~~I~~t~~~~-~~~~f~~~l~eG~v 70 (104)
T cd04474 7 PYQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLL------DED---------GGEIRATFFND-AVDKFYDLLEVGKV 70 (104)
T ss_pred CCCCcEEEEEEEeeccccccccCCCCCcEEEEEEEE------ECC---------CCEEEEEEehH-HHHHhhcccccccE
Confidence 357789999999986666777663 456566553 221 22489999999 89999999999999
Q ss_pred EEEEEE
Q 029355 159 VYVEGD 164 (194)
Q Consensus 159 V~VeGr 164 (194)
+++.+=
T Consensus 71 y~i~~~ 76 (104)
T cd04474 71 YYISKG 76 (104)
T ss_pred EEEecc
Confidence 999983
No 33
>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=95.17 E-value=0.2 Score=34.18 Aligned_cols=61 Identities=20% Similarity=0.267 Sum_probs=44.7
Q ss_pred EEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeEE
Q 029355 89 ICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEI 167 (194)
Q Consensus 89 LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~t 167 (194)
+.|.|.. ...+.+++|+.++.++|.- . +| -+.|++|++ .-+.+.+.+.+|..|.|.|.+..
T Consensus 2 i~g~v~~-~~~~~~k~g~~~~~~~l~D------~-tg---------~~~~~~f~~-~~~~~~~~l~~g~~v~v~G~v~~ 62 (84)
T cd04485 2 VAGLVTS-VRRRRTKKGKRMAFVTLED------L-TG---------SIEVVVFPE-TYEKYRDLLKEDALLLVEGKVER 62 (84)
T ss_pred EEEEEEE-eEEEEcCCCCEEEEEEEEe------C-CC---------eEEEEECHH-HHHHHHHHhcCCCEEEEEEEEEe
Confidence 5566655 3456778998888887642 1 23 278999987 33345788999999999999965
No 34
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=94.59 E-value=0.43 Score=31.09 Aligned_cols=33 Identities=21% Similarity=0.339 Sum_probs=28.4
Q ss_pred eEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeEE
Q 029355 134 QWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEI 167 (194)
Q Consensus 134 ~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~t 167 (194)
..+.|.+|.+ ..+.....+.+|+.|.|+|++..
T Consensus 29 ~~i~~~~~~~-~~~~~~~~~~~g~~v~v~g~v~~ 61 (75)
T cd03524 29 GTIRVTLFGE-LAEELENLLKEGQVVYIKGKVKK 61 (75)
T ss_pred CEEEEEEEch-HHHHHHhhccCCCEEEEEEEEEe
Confidence 3689999998 66667788999999999999965
No 35
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=94.46 E-value=0.21 Score=34.43 Aligned_cols=54 Identities=15% Similarity=0.158 Sum_probs=41.6
Q ss_pred CceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeEE
Q 029355 96 TPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEI 167 (194)
Q Consensus 96 dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~t 167 (194)
....+.+++|++++.|+|.-. +| -+.|.+|++.. .....+.+|..|+|.|++..
T Consensus 8 ~~~~~~tk~g~~~~~~~l~D~-------tg---------~i~~~~f~~~~--~~~~~l~~g~~v~v~G~v~~ 61 (83)
T cd04492 8 SKELRTAKNGKPYLALTLQDK-------TG---------EIEAKLWDASE--EDEEKFKPGDIVHVKGRVEE 61 (83)
T ss_pred EeeeecccCCCcEEEEEEEcC-------CC---------eEEEEEcCCCh--hhHhhCCCCCEEEEEEEEEE
Confidence 456678889998988888732 24 27899999623 34778999999999999955
No 36
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=93.91 E-value=0.44 Score=42.92 Aligned_cols=60 Identities=18% Similarity=0.265 Sum_probs=47.2
Q ss_pred eCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeEEeeeec
Q 029355 93 VKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYND 172 (194)
Q Consensus 93 Vg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~tr~y~d 172 (194)
+.++.++++++||++|+.++|+- + +|+ ++..+|+. .+.....+.+|+.|.|+|.+. .|.+
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 LIKSATKGVASNGKPFLTLILQD------K-SGD---------IEAKLWDV--SPEDEATYVPETIVHVKGDII--NYRG 78 (314)
T ss_pred EEEEceeeecCCCCeEEEEEEEc------C-CcE---------EEEEeCCC--ChhhHhhcCCCCEEEEEEEEE--EECC
Confidence 34457889999999999999873 3 564 78899997 344577899999999999997 4644
No 37
>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=93.74 E-value=0.27 Score=34.88 Aligned_cols=58 Identities=24% Similarity=0.272 Sum_probs=42.7
Q ss_pred EEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeE
Q 029355 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (194)
Q Consensus 87 V~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~ 166 (194)
|.+.|.|.+.+. ++|+.| |+|- |. + .=++|++|.. .+..+...++.||.|.|.|++.
T Consensus 1 v~v~GeVs~~~~----~~GHvy--fsLk------D~--~--------a~i~cv~f~~-~~~~~~~~l~~Gd~V~v~G~v~ 57 (73)
T cd04487 1 VHIEGEVVQIKQ----TSGPTI--FTLR------DE--T--------GTVWAAAFEE-AGVRAYPEVEVGDIVRVTGEVE 57 (73)
T ss_pred CEEEEEEecccc----CCCCEE--EEEE------cC--C--------EEEEEEEEch-hccCCcCCCCCCCEEEEEEEEe
Confidence 457899998773 788865 5552 21 1 1289999988 5555677899999999999987
Q ss_pred E
Q 029355 167 I 167 (194)
Q Consensus 167 t 167 (194)
.
T Consensus 58 ~ 58 (73)
T cd04487 58 P 58 (73)
T ss_pred c
Confidence 4
No 38
>PRK07211 replication factor A; Reviewed
Probab=93.18 E-value=0.38 Score=45.88 Aligned_cols=68 Identities=21% Similarity=0.264 Sum_probs=53.9
Q ss_pred ccccEEEEEEEeCCCceEEEecC-C--e--EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCC
Q 029355 82 RGVHKAIICGKVKDTPVQKILRN-G--K--TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKN 156 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~n-G--~--~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KG 156 (194)
.++++|.+.|+|..--++|+..+ | . .+.++.|+ |. +|+ +++++|++ .|+.+...|.+|
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 46899999999999888777754 2 2 56566555 22 574 89999999 898888999999
Q ss_pred CeEEEEEEeE
Q 029355 157 SSVYVEGDIE 166 (194)
Q Consensus 157 s~V~VeGrL~ 166 (194)
+.++|.|+..
T Consensus 124 dV~~I~~~~~ 133 (485)
T PRK07211 124 QVLRIKGRPK 133 (485)
T ss_pred CEEEEeceEe
Confidence 9999998763
No 39
>PRK15491 replication factor A; Provisional
Probab=92.54 E-value=1.2 Score=41.06 Aligned_cols=72 Identities=19% Similarity=0.274 Sum_probs=51.5
Q ss_pred ccEEEEEEEeCCCceEEEe--cCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEE
Q 029355 84 VHKAIICGKVKDTPVQKIL--RNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t--~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~V 161 (194)
...|.+.|+|.+--..|.. ++|.+.-.+++... |. +|. +++++|++ .|+.+ ..|..|+.|++
T Consensus 176 ~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~----De-tG~---------Ir~t~W~~-~a~~~-~~l~~Gd~V~i 239 (374)
T PRK15491 176 DSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIG----DE-TGK---------IRVTLWDG-KTDLA-DKLENGDSVEI 239 (374)
T ss_pred CccEEEEEEEEEccCceEEEecCCCeEEEEEEEEE----CC-CCe---------EEEEEecc-hhccc-ccCCCCCEEEE
Confidence 4458899999988666555 46765444555442 22 452 89999999 88875 67999999999
Q ss_pred EE-EeEEeeee
Q 029355 162 EG-DIEIRVYN 171 (194)
Q Consensus 162 eG-rL~tr~y~ 171 (194)
.+ ..+.+.|.
T Consensus 240 ~~~~~r~~~~~ 250 (374)
T PRK15491 240 INGYARTNNYS 250 (374)
T ss_pred EeceEEEeccC
Confidence 66 57776663
No 40
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=92.36 E-value=1.1 Score=37.95 Aligned_cols=78 Identities=17% Similarity=0.136 Sum_probs=56.7
Q ss_pred cccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEE
Q 029355 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~Ve 162 (194)
.+|++.++|.|...+.. .....+.+++|+- . +|. .|+-.=-|.+ -|..+.+.+.+++.|.|.
T Consensus 44 k~nRifivGtltek~~i---~ed~~~~R~rVvD------p-TGs-------F~Vyag~yqP-Ea~a~l~~ve~~~~VaVi 105 (196)
T COG3390 44 KVNRIFIVGTLTEKEGI---GEDREYWRIRVVD------P-TGS-------FYVYAGQYQP-EAKAFLEDVEVPDLVAVI 105 (196)
T ss_pred heeEEEEEEEEEeccCc---CCcccEEEEEEec------C-Cce-------EEEEcCCCCh-HHHHHHHhccCCceEEEe
Confidence 39999999999987644 2235688998872 2 353 3554445666 677788999999999999
Q ss_pred EEeEEeeeecCCCCeEEEE
Q 029355 163 GDIEIRVYNDSINGEVKNI 181 (194)
Q Consensus 163 GrL~tr~y~d~~dG~~r~~ 181 (194)
|.++ .|++. +|.....
T Consensus 106 GKi~--~y~~d-~g~~~~s 121 (196)
T COG3390 106 GKIR--TYRTD-EGVVLFS 121 (196)
T ss_pred cccc--eeecC-CCceEEE
Confidence 9876 47776 6765553
No 41
>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=91.77 E-value=0.9 Score=33.44 Aligned_cols=61 Identities=20% Similarity=0.244 Sum_probs=43.6
Q ss_pred EEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchH--HHHHHhcCCCCCeEEEEEEe
Q 029355 88 IICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEIL--GSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 88 ~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~l--Ae~v~~~L~KGs~V~VeGrL 165 (194)
.+.|.|.+-|. ...+|+.| |+|. |. + .-++|++|.. . +..+...|+.||.|.|.|++
T Consensus 2 ~v~GeVs~~~~--~~~sGH~y--Ftlk------D~-~---------~~i~cv~f~~-~g~~~~~~~~l~~Gd~V~v~G~v 60 (91)
T cd04482 2 RVTGKVVEEPR--TIEGGHVF--FKIS------DG-T---------GEIDCAAYEP-TKEFRDVVRLLIPGDEVTVYGSV 60 (91)
T ss_pred EEEEEEeCCee--cCCCCCEE--EEEE------CC-C---------cEEEEEEECc-ccccccccCCCCCCCEEEEEEEE
Confidence 47888887663 22678755 5552 21 1 1379999987 5 55778889999999999997
Q ss_pred EEee
Q 029355 166 EIRV 169 (194)
Q Consensus 166 ~tr~ 169 (194)
....
T Consensus 61 ~~y~ 64 (91)
T cd04482 61 RPGT 64 (91)
T ss_pred ecCC
Confidence 6553
No 42
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=90.88 E-value=2.5 Score=31.23 Aligned_cols=78 Identities=23% Similarity=0.183 Sum_probs=52.5
Q ss_pred EEEE-eCCCceEE-EecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeE
Q 029355 89 ICGK-VKDTPVQK-ILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE 166 (194)
Q Consensus 89 LiGr-Vg~dPelk-~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~ 166 (194)
|.|. |..-|+.. ..+||-.--.|-|-+++. .+..+.+.+|++ .++. ...++.|+.|.|.=.|+
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 4566 34445543 345774444555554333 355699999998 5554 45899999999999999
Q ss_pred EeeeecCCCCeEEEEEEEEEE
Q 029355 167 IRVYNDSINGEVKNIPEICIR 187 (194)
Q Consensus 167 tr~y~d~~dG~~r~~~EI~v~ 187 (194)
.|.|+. ++...|.+=
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 999962 566666553
No 43
>PRK15491 replication factor A; Provisional
Probab=90.88 E-value=1.7 Score=39.99 Aligned_cols=66 Identities=18% Similarity=0.231 Sum_probs=49.1
Q ss_pred ccccEEEEEEEeCCCceEEEe--cCCe--EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHH-hcCCCC
Q 029355 82 RGVHKAIICGKVKDTPVQKIL--RNGK--TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAV-KQLVKN 156 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t--~nG~--~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~-~~L~KG 156 (194)
.+++.|.|.|+|.+--..|.+ +.|. .+.++.|+ |. +|. +++++|++ .|+.+. ..|.+|
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 367899999999988667765 3463 34444444 22 563 89999999 888766 469999
Q ss_pred CeEEEEEE
Q 029355 157 SSVYVEGD 164 (194)
Q Consensus 157 s~V~VeGr 164 (194)
+.++|.|.
T Consensus 128 ~v~~I~~~ 135 (374)
T PRK15491 128 KSLNISGY 135 (374)
T ss_pred CEEEEeee
Confidence 99999985
No 44
>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=89.12 E-value=2.8 Score=27.76 Aligned_cols=31 Identities=26% Similarity=0.273 Sum_probs=25.5
Q ss_pred EEEEEeCchHHHHHHhcCCCCCeEEEEEEeEEe
Q 029355 136 HRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIR 168 (194)
Q Consensus 136 ~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~tr 168 (194)
+.++.|+. ..++.+.+++|+.++|.|.+...
T Consensus 31 i~~~~F~~--~~~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 31 LTLVFFNF--QPYLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred EEEEEECC--CHHHHhcCCCCCEEEEEEEEeec
Confidence 78899983 14677889999999999999763
No 45
>PRK07211 replication factor A; Reviewed
Probab=89.04 E-value=4.1 Score=38.99 Aligned_cols=68 Identities=19% Similarity=0.333 Sum_probs=48.8
Q ss_pred cccEEEEEEEeCCCceEEEec--CCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEE
Q 029355 83 GVHKAIICGKVKDTPVQKILR--NGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~--nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~ 160 (194)
+++.+.+.|+|..--.+|.+. +|...-.|++... |. +| -+++++|++ .|+.+ ..|.+|+.|+
T Consensus 170 ~~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~----De-TG---------~IR~TlW~d-~Ad~~-~~le~G~Vv~ 233 (485)
T PRK07211 170 GLSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVG----DE-TG---------RVRVTLWDD-RADLA-EELDAGESVE 233 (485)
T ss_pred CCCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEE----cC-CC---------eEEEEEech-hhhhh-ccCCCCCEEE
Confidence 477889999999877777664 4644444444432 22 45 299999999 89887 6799999999
Q ss_pred EEE-EeE
Q 029355 161 VEG-DIE 166 (194)
Q Consensus 161 VeG-rL~ 166 (194)
|.+ +.+
T Consensus 234 I~~a~Vr 240 (485)
T PRK07211 234 IVDGYVR 240 (485)
T ss_pred EEeeEEE
Confidence 975 443
No 46
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=88.88 E-value=3.3 Score=32.28 Aligned_cols=63 Identities=19% Similarity=0.294 Sum_probs=42.8
Q ss_pred cccEEEEEEEeCCC--ceEEEecCCe-EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeE
Q 029355 83 GVHKAIICGKVKDT--PVQKILRNGK-TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (194)
Q Consensus 83 ~mNkV~LiGrVg~d--Pelk~t~nG~-~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V 159 (194)
+++.|.++|.|-+- +....+++|. .+..+.|+ |+ +|. +++++|++ .|+ .+.+|+.|
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 35667788888853 4444566664 46666664 22 452 88999998 554 58999999
Q ss_pred EEE-EEeE
Q 029355 160 YVE-GDIE 166 (194)
Q Consensus 160 ~Ve-GrL~ 166 (194)
.|. |..+
T Consensus 72 ~I~na~v~ 79 (129)
T PRK06461 72 EIENAWTT 79 (129)
T ss_pred EEECcEEe
Confidence 999 4544
No 47
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=88.76 E-value=3.9 Score=28.79 Aligned_cols=59 Identities=24% Similarity=0.321 Sum_probs=37.2
Q ss_pred EEEEeCCCceEEEe-cCC--eEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEE-EE
Q 029355 89 ICGKVKDTPVQKIL-RNG--KTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE-GD 164 (194)
Q Consensus 89 LiGrVg~dPelk~t-~nG--~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~Ve-Gr 164 (194)
+.|+|-.--+.+.+ .+| ..+..+.|+ |+ +|. +++++|+. .+ ...+..|+.|.++ |.
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 45555544344433 234 355555555 22 453 89999998 55 6679999999999 55
Q ss_pred eEE
Q 029355 165 IEI 167 (194)
Q Consensus 165 L~t 167 (194)
.+.
T Consensus 62 v~~ 64 (82)
T cd04491 62 VRE 64 (82)
T ss_pred EEe
Confidence 533
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=87.76 E-value=4.3 Score=29.05 Aligned_cols=57 Identities=18% Similarity=0.324 Sum_probs=40.5
Q ss_pred EEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHH--HHHhcCCCCCeEEEEEE
Q 029355 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGS--YAVKQLVKNSSVYVEGD 164 (194)
Q Consensus 87 V~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe--~v~~~L~KGs~V~VeGr 164 (194)
+.++|-|..- . .+++|++ .|+|- |. +|. +.|++|.+ .-+ .+...+..|..|+|+|+
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-TGR---------ITVLLTKD-KEELFEEAEDILPDEVIGVSGT 59 (79)
T ss_pred EEEEEEEeEE-E--EcCCCCE--EEEEE------CC-CCE---------EEEEEeCc-hhhhhhhhhhccCCCEEEEEEE
Confidence 4566766642 2 6788887 34333 22 343 78999999 444 56889999999999999
Q ss_pred e
Q 029355 165 I 165 (194)
Q Consensus 165 L 165 (194)
+
T Consensus 60 v 60 (79)
T cd04490 60 V 60 (79)
T ss_pred E
Confidence 9
No 49
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=87.67 E-value=4.3 Score=30.16 Aligned_cols=63 Identities=13% Similarity=0.178 Sum_probs=47.2
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHH-hcCCCCCeEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAV-KQLVKNSSVYVE 162 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~-~~L~KGs~V~Ve 162 (194)
+..+-+.|.|.+ ++.-.+|+.| |+|.- ++ .=++|++|.. .+..+. ..++.|+.|.|.
T Consensus 21 ~~~vwV~GEIs~---~~~~~~gh~Y--ftLkD---------~~-------a~i~~~~~~~-~~~~i~~~~l~~G~~V~v~ 78 (99)
T PF13742_consen 21 LPNVWVEGEISN---LKRHSSGHVY--FTLKD---------EE-------ASISCVIFRS-RARRIRGFDLKDGDKVLVR 78 (99)
T ss_pred cCCEEEEEEEee---cEECCCceEE--EEEEc---------CC-------cEEEEEEEHH-HHhhCCCCCCCCCCEEEEE
Confidence 567889999985 4443677755 66653 11 2389999998 677777 789999999999
Q ss_pred EEeEEe
Q 029355 163 GDIEIR 168 (194)
Q Consensus 163 GrL~tr 168 (194)
|++...
T Consensus 79 g~~~~y 84 (99)
T PF13742_consen 79 GRVSFY 84 (99)
T ss_pred EEEEEE
Confidence 998753
No 50
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=87.52 E-value=4.6 Score=37.36 Aligned_cols=82 Identities=15% Similarity=0.172 Sum_probs=57.8
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
+..|.+.|.|.+ ++...+|+.| |+|.-. ..-++|++|.. .+..+.-.++.|+.|.|.|
T Consensus 23 ~~~v~v~gEis~---~~~~~sGH~Y--f~Lkd~----------------~a~i~~~~~~~-~~~~~~~~~~~G~~v~v~g 80 (438)
T PRK00286 23 LGQVWVRGEISN---FTRHSSGHWY--FTLKDE----------------IAQIRCVMFKG-SARRLKFKPEEGMKVLVRG 80 (438)
T ss_pred CCcEEEEEEeCC---CeeCCCCeEE--EEEEcC----------------CcEEEEEEEcC-hhhcCCCCCCCCCEEEEEE
Confidence 557899999986 4444688877 666421 12389999998 6777777799999999999
Q ss_pred EeEEeeeecCCCC-eEEEEEEEEEEecCe
Q 029355 164 DIEIRVYNDSING-EVKNIPEICIRRDGN 191 (194)
Q Consensus 164 rL~tr~y~d~~dG-~~r~~~EI~v~~~G~ 191 (194)
++.. |+. .| -..+..+|...-.|.
T Consensus 81 ~~~~--y~~--~g~~ql~v~~i~~~g~G~ 105 (438)
T PRK00286 81 KVSL--YEP--RGDYQLIVEEIEPAGIGA 105 (438)
T ss_pred EEEE--ECC--CCCEEEEEEEeeeCCccH
Confidence 9987 554 45 444555555544444
No 51
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=87.13 E-value=3.7 Score=38.75 Aligned_cols=64 Identities=9% Similarity=0.144 Sum_probs=51.3
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
+|.+.|-|.. ...+.|++|..++.+++-- . +|. +.|++|.+ .-+.....|.+|..|+|+|++
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-VKKIVTKKGDPMAFLQLED------L-SGQ---------SEAVVFPK-SYERISELLQVDARLIIWGKV 343 (449)
T ss_pred EEEEEEEEEE-eEecccCCCCEEEEEEEEE------C-CCC---------EEEEECHH-HHHHHHHHhccCCEEEEEEEE
Confidence 5778888876 5667788998888776653 2 354 78999998 777788899999999999999
Q ss_pred EE
Q 029355 166 EI 167 (194)
Q Consensus 166 ~t 167 (194)
+.
T Consensus 344 ~~ 345 (449)
T PRK07373 344 DR 345 (449)
T ss_pred Ee
Confidence 64
No 52
>PRK12366 replication factor A; Reviewed
Probab=85.09 E-value=7.2 Score=38.32 Aligned_cols=82 Identities=13% Similarity=0.247 Sum_probs=54.5
Q ss_pred cEEEEEEEeCCCceEEEecC--CeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEE
Q 029355 85 HKAIICGKVKDTPVQKILRN--GKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (194)
Q Consensus 85 NkV~LiGrVg~dPelk~t~n--G~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~Ve 162 (194)
+.+.|.|+|.+-..+|.+.+ |. --.|++... |. +|+ +++++|++ .|+.+. .|..|+.+++.
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-KAKILE-NLKEGDAVKIE 354 (637)
T ss_pred CEEEEEEEEEecCCceEEEcCCCc-EEEEEEEEE----cC-CCe---------EEEEEeCc-hhhhhc-ccCCCCEEEEe
Confidence 37999999999988888854 33 334555432 22 353 89999999 788765 47899999999
Q ss_pred E-EeEEeeeecCCCCeEEEEEEEEEEe
Q 029355 163 G-DIEIRVYNDSINGEVKNIPEICIRR 188 (194)
Q Consensus 163 G-rL~tr~y~d~~dG~~r~~~EI~v~~ 188 (194)
+ +++ .|.+. +|+ +.+|+.+..
T Consensus 355 ~~~vk--~y~~~-~~~--~~~El~~~~ 376 (637)
T PRK12366 355 NCKVR--TYYDN-EGE--KRVDLNAGY 376 (637)
T ss_pred cCEEe--ecccc-CCC--cCEEEEcCC
Confidence 8 343 56543 443 224444443
No 53
>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=84.58 E-value=15 Score=27.59 Aligned_cols=87 Identities=16% Similarity=0.180 Sum_probs=56.6
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
+|.|.|.|.|-+ .+-..+ +.-.-.++...+.| |+. .-++|+-+-+-|+ +|=.+.++.+|=..+.|+|
T Consensus 2 LN~V~LEG~IeS---~kWS~~-KTGF~VTI~QkR~F-----G~r---~FTDyyViYAN~Q-L~~ELEky~~k~k~isieG 68 (104)
T PF11506_consen 2 LNTVFLEGEIES---YKWSKK-KTGFLVTIKQKRKF-----GER---TFTDYYVIYANGQ-LAFELEKYTQKHKTISIEG 68 (104)
T ss_dssp -EEEEEEEEEEE---EEE-TT-SSEEEEEEEEEEEE-----TTE---EEEEEEEEEEEHH-HHHHHHHHHTT-SEEEEEE
T ss_pred cceEEEeceeeh---hccccc-CceEEEEEeehhhh-----ccc---cceeEEEEEECCe-eehhHHHhhhhceEEEEee
Confidence 689999998864 222222 11222334443433 432 4689999999999 9999999999999999999
Q ss_pred EeEEeeeecCCCCeEEEEEEEE
Q 029355 164 DIEIRVYNDSINGEVKNIPEIC 185 (194)
Q Consensus 164 rL~tr~y~d~~dG~~r~~~EI~ 185 (194)
.|++. .++..+.-++..+++
T Consensus 69 ~L~TY--~ekkS~iWKT~I~~~ 88 (104)
T PF11506_consen 69 ILRTY--LEKKSKIWKTTIEAV 88 (104)
T ss_dssp EEEEE--EETTTTEEEEEEEEE
T ss_pred ehhhH--HHHhcccceeeEEEE
Confidence 99874 444367555555443
No 54
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=84.47 E-value=4.9 Score=42.14 Aligned_cols=65 Identities=15% Similarity=0.241 Sum_probs=51.8
Q ss_pred cEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEE
Q 029355 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGD 164 (194)
Q Consensus 85 NkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGr 164 (194)
..|.+.|-|.. ...+.|++|++++.++|.-. +|+ +.+++|.+ .-+.+...|..|..|+|+|+
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 35778887775 67778899999988877632 353 78999998 55667888999999999999
Q ss_pred eEE
Q 029355 165 IEI 167 (194)
Q Consensus 165 L~t 167 (194)
++.
T Consensus 1040 Ve~ 1042 (1135)
T PRK05673 1040 VSF 1042 (1135)
T ss_pred EEe
Confidence 965
No 55
>cd04475 RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ functiona
Probab=84.28 E-value=9.7 Score=27.73 Aligned_cols=68 Identities=13% Similarity=0.198 Sum_probs=42.2
Q ss_pred EEEEEEeCCCceEEE--ecC-CeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 87 AIICGKVKDTPVQKI--LRN-GKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 87 V~LiGrVg~dPelk~--t~n-G~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
|-++|.|..--+.+. +++ |.......|... |. +|. -+.|++||+ .|+.+.... |+.|.+.|
T Consensus 2 vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~----D~-t~~--------~i~vtLWg~-~a~~~~~~~--~~vv~~~~ 65 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITLV----DE-SGH--------SVELTLWGE-QAELFDGSE--NPVIAIKG 65 (101)
T ss_pred EeEEEEEeEccCcEEEEEecCCCceeEEEEEEE----eC-CCC--------EEEEEEEHH-HhhhcccCC--CCEEEEEe
Confidence 346777765533333 244 766555555442 21 232 489999999 888766444 99999988
Q ss_pred EeEEeeee
Q 029355 164 DIEIRVYN 171 (194)
Q Consensus 164 rL~tr~y~ 171 (194)
++...|.
T Consensus 66 -~~i~~~~ 72 (101)
T cd04475 66 -VKVSEFN 72 (101)
T ss_pred -eEEEecC
Confidence 5566674
No 56
>PRK14699 replication factor A; Provisional
Probab=83.89 E-value=4.2 Score=38.76 Aligned_cols=71 Identities=11% Similarity=0.166 Sum_probs=51.2
Q ss_pred ccccEEEEEEEeCCCceEEEec--CCeE--EEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHh-cCCCC
Q 029355 82 RGVHKAIICGKVKDTPVQKILR--NGKT--VTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVK-QLVKN 156 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~--nG~~--v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~-~L~KG 156 (194)
.++..|.+.|+|-.-...|++. .|.. +.++.|+ |. +|. +++++|.+ +|+.+.. .|++|
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 3677899999999987777662 4543 3333333 22 564 89999999 8876665 59999
Q ss_pred CeEEEEEEeEEeeee
Q 029355 157 SSVYVEGDIEIRVYN 171 (194)
Q Consensus 157 s~V~VeGrL~tr~y~ 171 (194)
|.|.|.|. .+.|.
T Consensus 128 Dvv~I~~~--~r~~~ 140 (484)
T PRK14699 128 QTLQISGY--AKQGY 140 (484)
T ss_pred CEEEEcce--eccCC
Confidence 99999995 45553
No 57
>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=83.05 E-value=7 Score=36.51 Aligned_cols=76 Identities=16% Similarity=0.139 Sum_probs=53.2
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeG 163 (194)
+..|.+.|.|.+ ++.-.+|+.| |+|- |. ..=++|++|.. .+..+.-.++-|+.|.|.|
T Consensus 17 ~~~v~V~GEisn---~~~~~sGH~Y--FtLk------D~----------~a~i~~vmf~~-~~~~l~f~~~~G~~V~v~g 74 (432)
T TIGR00237 17 FLQVWIQGEISN---FTQPVSGHWY--FTLK------DE----------NAQVRCVMFRG-NNNRLKFRPQNGQQVLVRG 74 (432)
T ss_pred CCcEEEEEEecC---CeeCCCceEE--EEEE------cC----------CcEEEEEEEcC-hhhCCCCCCCCCCEEEEEE
Confidence 568999999985 4444789877 5552 21 12389999998 6777777799999999999
Q ss_pred EeEEeeeecCCCC-eEEEEEEEE
Q 029355 164 DIEIRVYNDSING-EVKNIPEIC 185 (194)
Q Consensus 164 rL~tr~y~d~~dG-~~r~~~EI~ 185 (194)
++.. |+. .| -..+..+|.
T Consensus 75 ~v~~--y~~--~G~~ql~v~~i~ 93 (432)
T TIGR00237 75 GISV--YEP--RGDYQIICFEMQ 93 (432)
T ss_pred EEEE--ECC--CCcEEEEEEEec
Confidence 9974 554 46 333333443
No 58
>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=81.46 E-value=9.1 Score=37.44 Aligned_cols=68 Identities=15% Similarity=0.128 Sum_probs=50.7
Q ss_pred cccEEEEEEEeCCCceEEEecC--C-eEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeE
Q 029355 83 GVHKAIICGKVKDTPVQKILRN--G-KTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSV 159 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~n--G-~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V 159 (194)
.+++.++.|||..--++|...+ | ..+..+.|. | ++|+ +++++|++ .|+.+...|+.|+-.
T Consensus 189 y~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~------D-egg~---------Irat~f~~-~~dkf~~~l~eG~VY 251 (608)
T TIGR00617 189 YQNKWTIKARVTNKSEIRTWSNARGEGKLFNVELL------D-ESGE---------IRATAFNE-QADKFYDIIQEGKVY 251 (608)
T ss_pred CCCceEEEEEEEeccccceecCCCCCceeeEEEEe------c-CCCe---------EEEEECch-HHHHHhhhcccCCEE
Confidence 3678999999999888888754 2 244444432 3 2342 89999999 899999999999999
Q ss_pred EEEE-EeEE
Q 029355 160 YVEG-DIEI 167 (194)
Q Consensus 160 ~VeG-rL~t 167 (194)
+|.+ +++.
T Consensus 252 ~Is~~~Vk~ 260 (608)
T TIGR00617 252 YISKGSLKP 260 (608)
T ss_pred EECceEEEE
Confidence 9965 5543
No 59
>PRK12366 replication factor A; Reviewed
Probab=78.42 E-value=7.2 Score=38.31 Aligned_cols=65 Identities=17% Similarity=0.367 Sum_probs=48.8
Q ss_pred ccccEEEEEEEeCCCceEEEe--cCCe--EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCC
Q 029355 82 RGVHKAIICGKVKDTPVQKIL--RNGK--TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNS 157 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t--~nG~--~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs 157 (194)
.+++.+.+.|+|.+--++|.+ ..|. .+..+.|+ |. +|+ +++++|++ .|+. ...|.+|+
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 467889999999987777766 3453 35555554 22 463 89999999 7886 57899999
Q ss_pred eEEEEEE
Q 029355 158 SVYVEGD 164 (194)
Q Consensus 158 ~V~VeGr 164 (194)
.++|.+.
T Consensus 133 v~~i~~~ 139 (637)
T PRK12366 133 VIKIENA 139 (637)
T ss_pred EEEEecc
Confidence 9999985
No 60
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=78.09 E-value=10 Score=40.77 Aligned_cols=73 Identities=14% Similarity=0.203 Sum_probs=54.5
Q ss_pred ccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCch-HHHHHHhcCCCCCeEEEE
Q 029355 84 VHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEI-LGSYAVKQLVKNSSVYVE 162 (194)
Q Consensus 84 mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~-lAe~v~~~L~KGs~V~Ve 162 (194)
.+.|++.|.|-. .+.+.+++|+.+..|.|. + | ++-+.|..|.+. .-......+++|+-|.|.
T Consensus 236 ~~~v~i~G~if~-~e~~~~k~~~~~~~~~~t-d--~-------------~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~ 298 (1437)
T PRK00448 236 ERRVVVEGYVFK-VEIKELKSGRHILTFKIT-D--Y-------------TSSIIVKKFSRDKEDLKKFDEIKKGDWVKVR 298 (1437)
T ss_pred CCeEEEEEEEEE-EEEEeccCCCEEEEEEEE-c--C-------------CCCEEEEEEecCcchhHHHhcCCCCCEEEEE
Confidence 568999999965 788999999988888874 1 2 122667777621 112345679999999999
Q ss_pred EEeEEeeeecC
Q 029355 163 GDIEIRVYNDS 173 (194)
Q Consensus 163 GrL~tr~y~d~ 173 (194)
|++....|...
T Consensus 299 g~~~~d~~~~~ 309 (1437)
T PRK00448 299 GSVQNDTFTRD 309 (1437)
T ss_pred EEEeccCCCCc
Confidence 99999998654
No 61
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=78.05 E-value=8.2 Score=30.80 Aligned_cols=69 Identities=23% Similarity=0.359 Sum_probs=47.8
Q ss_pred ceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeE------Eeee
Q 029355 97 PVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIE------IRVY 170 (194)
Q Consensus 97 Pelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~------tr~y 170 (194)
-....|++|+.|..+-||- + +|. +++.+|++ . -..+++||.|.+.|-.- ..-|
T Consensus 27 g~~tkTkdg~~v~~~kVaD------~-Tgs---------I~isvW~e-~----~~~~~PGDIirLt~Gy~Si~qg~LtL~ 85 (134)
T KOG3416|consen 27 GRATKTKDGHEVRSCKVAD------E-TGS---------INISVWDE-E----GCLIQPGDIIRLTGGYASIFQGCLTLY 85 (134)
T ss_pred ceeeeccCCCEEEEEEEec------c-cce---------EEEEEecC-c----CcccCCccEEEecccchhhhcCceEEE
Confidence 3556789999999998882 2 453 89999997 3 34689999998776421 2335
Q ss_pred ecCCCCeEEEEEEEEEE
Q 029355 171 NDSINGEVKNIPEICIR 187 (194)
Q Consensus 171 ~d~~dG~~r~~~EI~v~ 187 (194)
..+ .|+....-|.++-
T Consensus 86 ~GK-~Ge~~KiGef~~v 101 (134)
T KOG3416|consen 86 VGK-GGEVQKIGEFCMV 101 (134)
T ss_pred ecC-CceEeEeeeeEEe
Confidence 556 6766666666654
No 62
>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=77.60 E-value=11 Score=39.83 Aligned_cols=73 Identities=15% Similarity=0.130 Sum_probs=55.1
Q ss_pred cccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCc--hHHHHHHhcCCCCCeEE
Q 029355 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNE--ILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~--~lAe~v~~~L~KGs~V~ 160 (194)
..+.|++.|.|-. .+.+.+++|+.+..|.|.- |. +-+.|..|.. ...+ ....+++|+-|.
T Consensus 6 ~~~~~~~~g~i~~-~~~~~~~~~~~~~~~~~~d---~~-------------~s~~~k~f~~~~~~~~-~~~~~~~g~~~~ 67 (1213)
T TIGR01405 6 EENRVKIEGYIFK-IEIKELKSGRTLLKIKVTD---YT-------------DSLILKKFLKSEEDPE-KFDGIKIGKWVR 67 (1213)
T ss_pred cCCeEEEEEEEEE-EEeEeccCCCEEEEEEEEc---CC-------------CCEEEEEecccccchH-HHhhcCCCcEEE
Confidence 3678999999965 7889999999888887762 21 2267777763 1222 346799999999
Q ss_pred EEEEeEEeeeecC
Q 029355 161 VEGDIEIRVYNDS 173 (194)
Q Consensus 161 VeGrL~tr~y~d~ 173 (194)
|.|++.+..|..+
T Consensus 68 ~~g~~~~d~~~~~ 80 (1213)
T TIGR01405 68 ARGKIELDNFSRD 80 (1213)
T ss_pred EEEEEeccCCCCc
Confidence 9999999998754
No 63
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=76.09 E-value=14 Score=38.90 Aligned_cols=65 Identities=20% Similarity=0.333 Sum_probs=50.9
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
.|.+.|-|.. ...+.|++|.+++.+++.- . +|. +.|++|.+ .-+.+...|..|..|+|+|++
T Consensus 993 ~v~v~g~i~~-~~~~~tk~G~~maf~~leD------~-~g~---------~e~~vfp~-~~~~~~~~l~~~~~~~v~g~v 1054 (1151)
T PRK06826 993 KVIIGGIITE-VKRKTTRNNEMMAFLTLED------L-YGT---------VEVIVFPK-VYEKYRSLLNEDNIVLIKGRV 1054 (1151)
T ss_pred EEEEEEEEEE-eEeeccCCCCeEEEEEEEE------C-CCc---------EEEEECHH-HHHHHHHHhccCCEEEEEEEE
Confidence 5777888776 5666788998888777763 1 353 78999999 666678899999999999999
Q ss_pred EEe
Q 029355 166 EIR 168 (194)
Q Consensus 166 ~tr 168 (194)
+.+
T Consensus 1055 ~~~ 1057 (1151)
T PRK06826 1055 SLR 1057 (1151)
T ss_pred Eec
Confidence 754
No 64
>PRK14699 replication factor A; Provisional
Probab=75.48 E-value=12 Score=35.82 Aligned_cols=70 Identities=16% Similarity=0.298 Sum_probs=49.0
Q ss_pred cccEEEEEEEeCCCceEEEec--CCeE--EEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCe
Q 029355 83 GVHKAIICGKVKDTPVQKILR--NGKT--VTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSS 158 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~--nG~~--v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~ 158 (194)
++..|.+.|+|.+-.+.|.+. +|.. +..+.|+ |. +|. +++++|++ .|+ +...|.+|+.
T Consensus 175 ~~~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~ig------De-TG~---------ir~tlW~~-~a~-~~~~l~~Gd~ 236 (484)
T PRK14699 175 GMGDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLG------DE-TGT---------LRVTLWDD-KTD-FLNQIEYGDT 236 (484)
T ss_pred CCCceEEEEEEEeccCceEEecCCCCceEEEEEEEE------cC-Cce---------EEEEEECc-ccc-cccccCCCCE
Confidence 455688999999988877663 5644 4444443 22 563 89999999 776 4557999999
Q ss_pred EEEEE-EeEEeee
Q 029355 159 VYVEG-DIEIRVY 170 (194)
Q Consensus 159 V~VeG-rL~tr~y 170 (194)
|.|.+ ..+.+.|
T Consensus 237 v~I~~a~vr~~~~ 249 (484)
T PRK14699 237 VELINAYARENAF 249 (484)
T ss_pred EEEecceEeeccc
Confidence 99865 4555544
No 65
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=75.25 E-value=16 Score=38.50 Aligned_cols=65 Identities=15% Similarity=0.129 Sum_probs=50.8
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
.|.+.|-|.. ...+.|++|+.++.+++.- . +|. +.|++|.+ .-+.+...|..|..|.|+|++
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-VKVIRTKKGQKMAFITFCD------Q-NDE---------MEAVVFPE-TYIHFSDKLQEGAIVLVDGTI 1006 (1107)
T ss_pred EEEEEEEEEE-eEeecCCCCCeEEEEEEee------C-CCc---------EEEEECHH-HHHHHHHHhccCCEEEEEEEE
Confidence 5788888876 4556778998887776652 1 353 78999998 667778899999999999999
Q ss_pred EEe
Q 029355 166 EIR 168 (194)
Q Consensus 166 ~tr 168 (194)
+.+
T Consensus 1007 ~~~ 1009 (1107)
T PRK06920 1007 ELR 1009 (1107)
T ss_pred Eec
Confidence 754
No 66
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=74.98 E-value=15 Score=38.84 Aligned_cols=66 Identities=17% Similarity=0.201 Sum_probs=51.4
Q ss_pred cEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEE
Q 029355 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGD 164 (194)
Q Consensus 85 NkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGr 164 (194)
.+|.+.|-|.. ...+.|++|..++.+++.- . +|. +.|++|.+ .-+.+...|..|..|+|+|+
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-MKQVTTRKGDRMAILQLED------L-TGS---------CEAVVFPK-SYERLSDHLMTDTRLLVWAK 1062 (1170)
T ss_pred CEEEEEEEEEE-eEecccCCCCEEEEEEEEE------C-CCC---------EEEEECHH-HHHHHHHHhccCCEEEEEEE
Confidence 36888888876 4566788999887776652 2 353 78999999 66677889999999999999
Q ss_pred eEEe
Q 029355 165 IEIR 168 (194)
Q Consensus 165 L~tr 168 (194)
++.+
T Consensus 1063 v~~~ 1066 (1170)
T PRK07374 1063 VDRR 1066 (1170)
T ss_pred EEec
Confidence 9653
No 67
>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=74.12 E-value=14 Score=26.38 Aligned_cols=59 Identities=14% Similarity=0.208 Sum_probs=39.4
Q ss_pred EEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHH---HHHhcCCCCCeEEEEE
Q 029355 87 AIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGS---YAVKQLVKNSSVYVEG 163 (194)
Q Consensus 87 V~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe---~v~~~L~KGs~V~VeG 163 (194)
|.++|.|.+ +... ..++.|+|. |+ +|. +++.+|.. ..+ .....+..|+.|.|.|
T Consensus 2 v~~vG~V~~---~~~~---~~~~~~tL~------D~-TG~---------I~~~~W~~-~~~~~~~~~~~~~~g~~v~v~G 58 (95)
T cd04478 2 VTLVGVVRN---VEEQ---STNITYTID------DG-TGT---------IEVRQWLD-DDNDDSSEVEPIEEGTYVRVFG 58 (95)
T ss_pred EEEEEEEEe---eeEc---ccEEEEEEE------CC-CCc---------EEEEEeCC-CCCcccccccccccCCEEEEEE
Confidence 567787775 2111 246667665 22 464 78888976 222 3577899999999999
Q ss_pred EeEEe
Q 029355 164 DIEIR 168 (194)
Q Consensus 164 rL~tr 168 (194)
+++..
T Consensus 59 ~v~~~ 63 (95)
T cd04478 59 NLKSF 63 (95)
T ss_pred EEccc
Confidence 99654
No 68
>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=71.25 E-value=31 Score=27.09 Aligned_cols=77 Identities=10% Similarity=0.155 Sum_probs=52.9
Q ss_pred EEEEEEEeCCCceE--EEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCC-CCeEEEE
Q 029355 86 KAIICGKVKDTPVQ--KILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVK-NSSVYVE 162 (194)
Q Consensus 86 kV~LiGrVg~dPel--k~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~K-Gs~V~Ve 162 (194)
.|.++|-|...-.- +.++...-.++|+| +.+.+.+. . .....+.|.+|.+ ..+.+- .++. ||.|.+.
T Consensus 14 ~vnvigVV~~~~~p~~~~t~g~D~~~tl~i-~D~S~~~~---~----~~~~~l~v~iF~~-~~~~LP-~v~~~GDii~l~ 83 (146)
T PF02765_consen 14 FVNVIGVVVDFSPPNPKKTRGTDYMCTLTI-TDPSLNDS---N----QKLSGLTVNIFRP-HKESLP-NVKSVGDIIRLR 83 (146)
T ss_dssp EEEEEEEEEEEEEECTEEESSSCEEEEEEE-EBTTCSCS---S----CCCCEEEEEEEES-SHHHSC-TTCSTTHEEEEE
T ss_pred EEEEEEEEEEccCCcceEcCCCcEEEEEEE-ECCCCCcc---c----cccCCEEEEEECC-CHHHCC-CCCCCCCEEEEE
Confidence 57788888876444 55666677888888 34444321 1 1117899999987 567665 4555 9988887
Q ss_pred EEeEEeeeecC
Q 029355 163 GDIEIRVYNDS 173 (194)
Q Consensus 163 GrL~tr~y~d~ 173 (194)
+++...|+++
T Consensus 84 -r~kv~~~~~~ 93 (146)
T PF02765_consen 84 -RVKVQSYNGK 93 (146)
T ss_dssp -EEEEEEETTE
T ss_pred -EEEEEEECCE
Confidence 8888888664
No 69
>PRK08402 replication factor A; Reviewed
Probab=70.86 E-value=14 Score=33.95 Aligned_cols=65 Identities=15% Similarity=0.200 Sum_probs=44.5
Q ss_pred cccEEEEEEEeCCCceEEEe--cCCeE--EEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCe
Q 029355 83 GVHKAIICGKVKDTPVQKIL--RNGKT--VTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSS 158 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t--~nG~~--v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~ 158 (194)
++..|.++|+|.+--..|.. ++|.. +.+..|+ |. +| .+++++|++ .|......+.+|+.
T Consensus 71 g~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~------De-TG---------~ir~TlW~~-~a~~~~~~l~~Gdv 133 (355)
T PRK08402 71 GMRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIY------DD-TG---------RARVVLWDA-KVAKYYNKINVGDV 133 (355)
T ss_pred CCceeeEEEEEEEccCCceeeccCCCcceEEEEEEE------cC-CC---------eEEEEEech-hhhhhcccCCCCCE
Confidence 56788999999975333333 45643 4444444 21 45 479999999 77755567999999
Q ss_pred EEEEEE
Q 029355 159 VYVEGD 164 (194)
Q Consensus 159 V~VeGr 164 (194)
|.|.|-
T Consensus 134 i~I~~a 139 (355)
T PRK08402 134 IKVIDA 139 (355)
T ss_pred EEEECC
Confidence 999854
No 70
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=70.38 E-value=36 Score=25.57 Aligned_cols=70 Identities=13% Similarity=0.143 Sum_probs=40.7
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
.+++.|.|...|+.. +... +|.+.+.+- ... +.. .....-+.+.+-.+ ... .++.||.+.++|+|
T Consensus 77 ~~~v~g~V~~~~~~~----~~~~-~~~~~~~~~-~~~--~~~--~~~~~~i~~~~~~~--~~~---~l~~Gd~i~~~g~l 141 (176)
T PF13567_consen 77 EVTVQGTVESVPQID----GRGQ-RFTLRVERV-LAG--GNW--IPVSGKILLYLPKD--SQP---RLQPGDRIRVRGKL 141 (176)
T ss_pred eEEEEEEEccccccc----CceE-EEEEEEEEe-ecc--ccc--cccceeeEEEeccc--ccc---ccCCCCEEEEEEEE
Confidence 677999999888763 2222 666665432 111 221 12333344444443 111 79999999999999
Q ss_pred EEeee
Q 029355 166 EIRVY 170 (194)
Q Consensus 166 ~tr~y 170 (194)
+.=.-
T Consensus 142 ~~~~~ 146 (176)
T PF13567_consen 142 KPPSG 146 (176)
T ss_pred ecCCC
Confidence 86443
No 71
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=69.64 E-value=12 Score=35.38 Aligned_cols=65 Identities=14% Similarity=0.157 Sum_probs=48.3
Q ss_pred ccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEE
Q 029355 82 RGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (194)
Q Consensus 82 ~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~V 161 (194)
+.+-.|-+.|.|.+ ++.-++|+.| |+|-- ...-++|++|.. ....+.-.++-|+.|.|
T Consensus 21 ~~~~~V~v~GEISn---~t~~~sgH~Y--FtLKD----------------~~A~i~c~mf~~-~~~~l~f~p~eG~~V~v 78 (440)
T COG1570 21 RDLGQVWVRGEISN---FTRPASGHLY--FTLKD----------------ERAQIRCVMFKG-NNRRLKFRPEEGMQVLV 78 (440)
T ss_pred hcCCeEEEEEEecC---CccCCCccEE--EEEcc----------------CCceEEEEEEcC-cccccCCCccCCCEEEE
Confidence 34668999999986 4444678666 54431 123499999998 67777777999999999
Q ss_pred EEEeEEe
Q 029355 162 EGDIEIR 168 (194)
Q Consensus 162 eGrL~tr 168 (194)
.|++...
T Consensus 79 ~G~is~Y 85 (440)
T COG1570 79 RGKISLY 85 (440)
T ss_pred EEEEEEE
Confidence 9998753
No 72
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=68.83 E-value=26 Score=36.61 Aligned_cols=65 Identities=17% Similarity=0.192 Sum_probs=49.4
Q ss_pred EEEEEEEeCCCceEEEec-CCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEE
Q 029355 86 KAIICGKVKDTPVQKILR-NGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGD 164 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~-nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGr 164 (194)
.+.+.|.|.. ...+.++ +|+.++.+++.-. +|+ +.|++|.+ .-+.+...|..|..|+|+|+
T Consensus 886 ~~~~~~~i~~-~~~~~tk~~g~~maf~~leD~-------~g~---------ie~~vFp~-~y~~~~~~l~~~~~~~v~G~ 947 (1034)
T PRK07279 886 EATILVQIQS-IRVIRTKTKGQQMAFLSVTDT-------KKK---------LDVTLFPE-TYRQYKDELKEGKFYYLKGK 947 (1034)
T ss_pred cceEEEEEEE-EEEEEEcCCCCeEEEEEEeeC-------CCc---------EEEEECHH-HHHHHHHHhccCCEEEEEEE
Confidence 4678888875 3445566 8988877776532 353 78999998 66667888999999999999
Q ss_pred eEEe
Q 029355 165 IEIR 168 (194)
Q Consensus 165 L~tr 168 (194)
++.+
T Consensus 948 v~~~ 951 (1034)
T PRK07279 948 IQER 951 (1034)
T ss_pred EEec
Confidence 9764
No 73
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=57.49 E-value=50 Score=32.55 Aligned_cols=61 Identities=23% Similarity=0.223 Sum_probs=42.9
Q ss_pred cEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEe--CchHHHHHHhcCCCCCeEEEE
Q 029355 85 HKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVH--NEILGSYAVKQLVKNSSVYVE 162 (194)
Q Consensus 85 NkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~w--g~~lAe~v~~~L~KGs~V~Ve 162 (194)
..+++.|.|...+.... +...+.+.+.. . +| -+.|+.| +. .++.+.+++|+.++|.
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 37999999887544322 55555555532 1 23 2678888 44 3778899999999999
Q ss_pred EEeEE
Q 029355 163 GDIEI 167 (194)
Q Consensus 163 GrL~t 167 (194)
|.+..
T Consensus 118 Gkv~~ 122 (681)
T PRK10917 118 GKVKR 122 (681)
T ss_pred EEEEe
Confidence 99986
No 74
>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=56.94 E-value=21 Score=25.53 Aligned_cols=27 Identities=26% Similarity=0.356 Sum_probs=19.9
Q ss_pred EEeeeecCCCCeEEEEEEEEEEecCeee
Q 029355 166 EIRVYNDSINGEVKNIPEICIRRDGNSY 193 (194)
Q Consensus 166 ~tr~y~d~~dG~~r~~~EI~v~~~G~~~ 193 (194)
..|.|+|. +|.-+--.+++--.+|+|+
T Consensus 11 ~~RtWtD~-tG~f~VeA~fv~~~dgkV~ 37 (70)
T PF03983_consen 11 KTRTWTDR-TGKFKVEAEFVGVNDGKVH 37 (70)
T ss_dssp -SEEEEBS-SS--EEEEEEEEEETTEEE
T ss_pred cceEEEeC-CCCEEEEEEEEEeeCCEEE
Confidence 57899999 9987777777777788886
No 75
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=56.37 E-value=50 Score=34.58 Aligned_cols=63 Identities=16% Similarity=0.232 Sum_probs=45.8
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
+|.+.|-|.. ...+.|++| ++.+++. |. +|. +.|++|.+ .-+.+...|..|..|+|+|++
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 4777777765 455567888 4434333 22 353 88999999 778888899999999999999
Q ss_pred EEe
Q 029355 166 EIR 168 (194)
Q Consensus 166 ~tr 168 (194)
+.+
T Consensus 1015 ~~~ 1017 (1046)
T PRK05672 1015 QNA 1017 (1046)
T ss_pred Eec
Confidence 753
No 76
>cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP). POT1 proteins recognize single-stranded (ss) 3-prime ends of the telomere. A 3-prime ss overhang is conserved in ciliated protozoa, yeast, and mammals. SpPOT1 is essential for telomere maintenance. It binds specifically to the ss G-rich telomeric sequence (GGTTAC) of S. pombe. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. Deletion of the S. pombe pot1+ gene results in a rapid loss of telomere sequences, chromosome mis-segregation and chromosome circularization. hPOT1 is implicated in telomere length regulation. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB
Probab=55.62 E-value=97 Score=24.11 Aligned_cols=73 Identities=8% Similarity=0.052 Sum_probs=48.4
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
.|.++|-|..-...+.+..-...+.|+|.=.. +. ...-+.|.+|++ .++.+-. +..||.|.+.+ +
T Consensus 16 ~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S-------~~-----~~~~l~v~~F~~-~~~~LP~-v~~GDVIll~~-~ 80 (138)
T cd04497 16 SVNVIGVVVDAGPPVRSKGTDYCCTLTITDPS-------LA-----NSDGLTVKLFRP-NEESLPI-VKVGDIILLRR-V 80 (138)
T ss_pred eEEEEEEEeecCCCcccCCCcEEEEEEEECCC-------CC-----CCCcEEEEEECC-ChhhCCC-CCCCCEEEEEE-E
Confidence 46688888776555444333355666665322 11 023489999999 7777554 59999999987 7
Q ss_pred EEeeeecC
Q 029355 166 EIRVYNDS 173 (194)
Q Consensus 166 ~tr~y~d~ 173 (194)
+...|.++
T Consensus 81 kv~~~~g~ 88 (138)
T cd04497 81 KIQSYNGK 88 (138)
T ss_pred EEEEECCc
Confidence 77778654
No 77
>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=54.61 E-value=21 Score=28.06 Aligned_cols=27 Identities=19% Similarity=-0.033 Sum_probs=23.1
Q ss_pred eEEEEEEeCchHHHHHHhcCCCCCeEEEE
Q 029355 134 QWHRIAVHNEILGSYAVKQLVKNSSVYVE 162 (194)
Q Consensus 134 ~w~~V~~wg~~lAe~v~~~L~KGs~V~Ve 162 (194)
-=+.|++|.+ .|+++.+ |+.||.|.+.
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 4588999999 7887666 9999999876
No 78
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=52.19 E-value=1.2e+02 Score=30.51 Aligned_cols=77 Identities=19% Similarity=0.182 Sum_probs=53.6
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
.|++.|.|....... ..++....+.+..+ +| -+.++.|+. .| ++.+.+++|..|.|.|.+
T Consensus 62 ~vti~g~V~~~~~~~--~~~~~~l~v~~~d~-------~~---------~l~l~fFn~-~~-~l~~~~~~G~~v~v~Gk~ 121 (677)
T COG1200 62 IVTIEGTVLSHEKFP--FGKRKLLKVTLSDG-------TG---------VLTLVFFNF-PA-YLKKKLKVGERVIVYGKV 121 (677)
T ss_pred eEEEEEEEEeeeccC--CCCCceEEEEEecC-------cE---------EEEEEEECc-cH-HHHhhCCCCCEEEEEEEE
Confidence 689999998754442 34556666655531 12 478899998 45 899999999999999999
Q ss_pred EEeeeecCCCCeEEEEEEEEEE
Q 029355 166 EIRVYNDSINGEVKNIPEICIR 187 (194)
Q Consensus 166 ~tr~y~d~~dG~~r~~~EI~v~ 187 (194)
.... .+......++.+.
T Consensus 122 ~~~~-----~~~~~~hpe~~~~ 138 (677)
T COG1200 122 KRFK-----GGLQITHPEYIVN 138 (677)
T ss_pred eecc-----CceEEEcceEEec
Confidence 8733 2344555566554
No 79
>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=50.07 E-value=30 Score=25.52 Aligned_cols=37 Identities=14% Similarity=0.094 Sum_probs=27.6
Q ss_pred EEEEEEeCchHHHHHHhcCC---CCCeEE-EEEEeEEeeeec
Q 029355 135 WHRIAVHNEILGSYAVKQLV---KNSSVY-VEGDIEIRVYND 172 (194)
Q Consensus 135 w~~V~~wg~~lAe~v~~~L~---KGs~V~-VeGrL~tr~y~d 172 (194)
-+.|++||+ .|+.+...+. ++.+|. |-+-.+...|.+
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 9998887763 555554 555588888864
No 80
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=47.10 E-value=1.5e+02 Score=28.86 Aligned_cols=63 Identities=19% Similarity=0.228 Sum_probs=42.1
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
.+++.|.|..... ....+...+.+.+... . +| -+.++.|+. .++.+.+++|..++|.|.+
T Consensus 34 ~~~~~~~v~~~~~--~~~~~~~~~~~~~~d~-----~-~~---------~~~~~~F~~---~~~~~~~~~g~~~~~~Gk~ 93 (630)
T TIGR00643 34 RATIVGEVLSHCI--FGFKRRKVLKLRLKDG-----G-YK---------KLELRFFNR---AFLKKKFKVGSKVVVYGKV 93 (630)
T ss_pred EEEEEEEEEEeEe--ccCCCCceEEEEEEEC-----C-CC---------EEEEEEECC---HHHHhhCCCCCEEEEEEEE
Confidence 6889999876322 1123344555544321 1 23 378888985 3788899999999999999
Q ss_pred EEe
Q 029355 166 EIR 168 (194)
Q Consensus 166 ~tr 168 (194)
...
T Consensus 94 ~~~ 96 (630)
T TIGR00643 94 KSS 96 (630)
T ss_pred Eee
Confidence 753
No 81
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=44.78 E-value=76 Score=34.12 Aligned_cols=73 Identities=12% Similarity=0.080 Sum_probs=54.2
Q ss_pred cccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCc--hHHHHHHhcCCCCCeEE
Q 029355 83 GVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNE--ILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~--~lAe~v~~~L~KGs~V~ 160 (194)
.+++|.+.|.|=. -+.+++++|+..+.|.|.-- . +-+.|..|-+ ..+ ...+.+++|+-|.
T Consensus 238 ~~~~v~v~G~IF~-~e~~~~ksGr~l~~i~vTD~---t-------------~Sl~~k~f~~~~ed~-~~~~~ik~g~wvk 299 (1444)
T COG2176 238 EETRVKVEGYIFK-IEIKELKSGRTLLNIKVTDY---T-------------SSLILKKFLRDEEDE-KKFDGIKKGMWVK 299 (1444)
T ss_pred cccceEEEEEEEE-EeeeecccCcEEEEEEEecC---c-------------hheeehhhccccccH-HHHhhcccCcEEE
Confidence 4677999999977 78999999999988887521 1 1244444533 123 4577899999999
Q ss_pred EEEEeEEeeeecC
Q 029355 161 VEGDIEIRVYNDS 173 (194)
Q Consensus 161 VeGrL~tr~y~d~ 173 (194)
|+|.++...+...
T Consensus 300 ~~g~v~~d~f~~~ 312 (1444)
T COG2176 300 ARGNVQLDTFTRD 312 (1444)
T ss_pred EEEEEEecccccc
Confidence 9999999977653
No 82
>PRK07218 replication factor A; Provisional
Probab=43.14 E-value=85 Score=29.59 Aligned_cols=61 Identities=18% Similarity=0.243 Sum_probs=39.4
Q ss_pred cccEEEEEEEeCCCceEEEe--cCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEE
Q 029355 83 GVHKAIICGKVKDTPVQKIL--RNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t--~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~ 160 (194)
+.+.|.+.|+|-+... |.+ ++|... ..+.. .-|. +| -+++++|++ +| .+.+|+.|.
T Consensus 171 g~~~V~v~g~Vl~~~~-r~f~~~dg~~~-v~~gi----igDe-TG---------~Ir~tlW~~-~~-----~l~~Gd~v~ 228 (423)
T PRK07218 171 GDRGVNVEARVLELEH-REIDGRDGETT-ILSGV----LADE-TG---------RLPFTDWDP-LP-----EIEIGASIR 228 (423)
T ss_pred CCCceEEEEEEEEecc-eeEEcCCCCeE-EEEEE----EECC-Cc---------eEEEEEecc-cc-----cCCCCCEEE
Confidence 4667889999987633 333 455432 22222 2232 56 389999998 65 389999999
Q ss_pred EEEEe
Q 029355 161 VEGDI 165 (194)
Q Consensus 161 VeGrL 165 (194)
|.+--
T Consensus 229 I~na~ 233 (423)
T PRK07218 229 IEDAY 233 (423)
T ss_pred EeeeE
Confidence 99853
No 83
>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=40.71 E-value=93 Score=23.61 Aligned_cols=46 Identities=20% Similarity=0.130 Sum_probs=27.0
Q ss_pred EEEEEECCceeccCCCcccCCCCceEEEEEEeCc-hHHHHHHhcCCCCCeEEEEE
Q 029355 110 IFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNE-ILGSYAVKQLVKNSSVYVEG 163 (194)
Q Consensus 110 ~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~-~lAe~v~~~L~KGs~V~VeG 163 (194)
..+.+|=+.|+.. .|+ -.+.+++++. +.|..-+..+++||.|.|.|
T Consensus 66 ~~R~YTvR~~d~~-~~~-------l~iDfv~Hg~~Gpas~WA~~A~pGd~v~v~g 112 (117)
T PF08021_consen 66 VMRTYTVRRFDPE-TGE-------LDIDFVLHGDEGPASRWARSARPGDRVGVTG 112 (117)
T ss_dssp EEEEEE--EEETT---E-------EEEEEE--SS--HHHHHHHH--TT-EEEEEE
T ss_pred CCCCcCEeeEcCC-CCE-------EEEEEEECCCCCchHHHHhhCCCCCEEEEeC
Confidence 3445555556543 344 4699999997 78888899999999999988
No 84
>PRK07218 replication factor A; Provisional
Probab=38.67 E-value=1.2e+02 Score=28.50 Aligned_cols=60 Identities=13% Similarity=0.238 Sum_probs=39.1
Q ss_pred cccEEEEEEEeCCCceEEEe-cCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEE
Q 029355 83 GVHKAIICGKVKDTPVQKIL-RNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYV 161 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t-~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~V 161 (194)
++..|.+.|+|-+-.+ |.+ .+|.+-...++.+. |. +|. +++++|++ ++ +..|+.|.|
T Consensus 67 ~~~~V~v~~kVl~i~~-rt~r~dg~~g~v~~~~ig----De-TG~---------Ir~tlW~~-~~------l~~Gdvv~I 124 (423)
T PRK07218 67 DDKNVTVTGRVLTIGE-RSIRYQGDDHVIYEGILA----DE-TGT---------ISYTAWKD-FG------LSPGDTVTI 124 (423)
T ss_pred CCceeEEEEEEEEecc-eeEecCCCceEEEEEEEE----CC-CCe---------EEEEEECC-CC------CCCCCEEEE
Confidence 4567889999887665 433 34543222222222 22 564 89999997 43 999999999
Q ss_pred EEE
Q 029355 162 EGD 164 (194)
Q Consensus 162 eGr 164 (194)
.+-
T Consensus 125 ~na 127 (423)
T PRK07218 125 GNA 127 (423)
T ss_pred ecc
Confidence 873
No 85
>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=38.59 E-value=41 Score=24.68 Aligned_cols=20 Identities=25% Similarity=0.223 Sum_probs=17.0
Q ss_pred HHhcCCCCCeEEEEEEeEEe
Q 029355 149 AVKQLVKNSSVYVEGDIEIR 168 (194)
Q Consensus 149 v~~~L~KGs~V~VeGrL~tr 168 (194)
....+..|+.|.|.|++++-
T Consensus 59 ~~~~i~~G~vvrV~G~i~~f 78 (92)
T cd04483 59 QAKVLEIGDLLRVRGSIRTY 78 (92)
T ss_pred cccccCCCCEEEEEEEEecc
Confidence 45569999999999999864
No 86
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=35.40 E-value=1.6e+02 Score=31.45 Aligned_cols=68 Identities=12% Similarity=0.224 Sum_probs=50.7
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
.+++.|-|..-...+..++|..++.+++.- . +| -++|++|.. ..+.....+..+..++|.|.+
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~D------~-~g---------~~e~v~f~~-~~~~~~~~l~~~~~~~v~g~v 1040 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLED------E-TG---------ILEVVVFPS-EYERYRRLLLEGRLLIVKGKV 1040 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCCEEEEEEEec------C-CC---------cEEEEEcHH-HHHHHHHHhccCcEEEEEEEE
Confidence 477888888754444444898888777652 2 34 278999987 677778889999999999999
Q ss_pred EEeee
Q 029355 166 EIRVY 170 (194)
Q Consensus 166 ~tr~y 170 (194)
+.+..
T Consensus 1041 ~~~~~ 1045 (1139)
T COG0587 1041 QRRED 1045 (1139)
T ss_pred Eeccc
Confidence 88543
No 87
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=33.90 E-value=35 Score=27.73 Aligned_cols=22 Identities=27% Similarity=0.447 Sum_probs=19.7
Q ss_pred HHHHHHhcCCCCCeEEEEEEeE
Q 029355 145 LGSYAVKQLVKNSSVYVEGDIE 166 (194)
Q Consensus 145 lAe~v~~~L~KGs~V~VeGrL~ 166 (194)
+|+.+++.|.+|+.|+++|.|=
T Consensus 14 lg~~l~~~l~~g~Vv~L~GdLG 35 (149)
T COG0802 14 LGERLAEALKAGDVVLLSGDLG 35 (149)
T ss_pred HHHHHHhhCCCCCEEEEEcCCc
Confidence 7788899999999999999863
No 88
>PRK10646 ADP-binding protein; Provisional
Probab=33.76 E-value=32 Score=27.85 Aligned_cols=21 Identities=29% Similarity=0.507 Sum_probs=19.4
Q ss_pred HHHHHHhcCCCCCeEEEEEEe
Q 029355 145 LGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 145 lAe~v~~~L~KGs~V~VeGrL 165 (194)
+|+.+++.|++|+.|+++|.|
T Consensus 17 l~~~la~~l~~g~vi~L~GdL 37 (153)
T PRK10646 17 LGARVAKACDGATVIYLYGDL 37 (153)
T ss_pred HHHHHHHhCCCCcEEEEECCC
Confidence 788899999999999999986
No 89
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=33.21 E-value=62 Score=30.54 Aligned_cols=37 Identities=11% Similarity=0.082 Sum_probs=30.4
Q ss_pred eEEEEEEeCchHHHHHHhcCCCCCeEEEEEEeEEeeee
Q 029355 134 QWHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVYN 171 (194)
Q Consensus 134 ~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~tr~y~ 171 (194)
-.+.|.+-|+ .-..+.+.|+.|++|.|+|---.-.++
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 4688899999 788999999999999999975444443
No 90
>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=31.27 E-value=23 Score=27.66 Aligned_cols=21 Identities=19% Similarity=0.347 Sum_probs=18.5
Q ss_pred HHHHHHhcCCCCCeEEEEEEe
Q 029355 145 LGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 145 lAe~v~~~L~KGs~V~VeGrL 165 (194)
+|+.+++.|++|+.|.++|.|
T Consensus 4 la~~l~~~l~~g~vi~L~GdL 24 (123)
T PF02367_consen 4 LAKKLAQILKPGDVILLSGDL 24 (123)
T ss_dssp HHHHHHHHHSS-EEEEEEEST
T ss_pred HHHHHHHhCCCCCEEEEECCC
Confidence 789999999999999999985
No 91
>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=29.99 E-value=1.3e+02 Score=21.09 Aligned_cols=30 Identities=20% Similarity=0.207 Sum_probs=22.3
Q ss_pred EEEEEEe--CchHHHHHHhcCCCCCeEEEEEEeE
Q 029355 135 WHRIAVH--NEILGSYAVKQLVKNSSVYVEGDIE 166 (194)
Q Consensus 135 w~~V~~w--g~~lAe~v~~~L~KGs~V~VeGrL~ 166 (194)
-+-|... |. ....+ ..+++||.|.|.|-+-
T Consensus 64 ~~~ik~~~~G~-~S~~L-~~l~~Gd~v~i~gP~G 95 (99)
T PF00970_consen 64 EFAIKRYPNGR-VSRYL-HQLKPGDEVEIRGPYG 95 (99)
T ss_dssp EEEEEECTTSH-HHHHH-HTSCTTSEEEEEEEES
T ss_pred EEEEEeccCCH-HHHHH-HhCCCCCEEEEEEccc
Confidence 4556667 55 56666 5699999999999754
No 92
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=25.25 E-value=1.4e+02 Score=22.54 Aligned_cols=24 Identities=25% Similarity=0.153 Sum_probs=18.3
Q ss_pred HHHHhcCCCCCeEEEEEEeEEeee
Q 029355 147 SYAVKQLVKNSSVYVEGDIEIRVY 170 (194)
Q Consensus 147 e~v~~~L~KGs~V~VeGrL~tr~y 170 (194)
+.+.+.|+|||.|...|=|.-..=
T Consensus 38 ~~ml~sL~kGD~VvT~gGi~G~V~ 61 (97)
T COG1862 38 QELLNSLKKGDEVVTIGGIVGTVT 61 (97)
T ss_pred HHHHHhccCCCEEEEcCCeEEEEE
Confidence 356778999999998886665544
No 93
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=22.73 E-value=3.8e+02 Score=28.11 Aligned_cols=63 Identities=11% Similarity=-0.101 Sum_probs=43.9
Q ss_pred EEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEEEEEEe
Q 029355 86 KAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 86 kV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL 165 (194)
.+.+.|-|..--. +. +.|.+++.+++.- . +|+ +.|++|.+ .-+.+.. +.+|+.++|+|+.
T Consensus 899 ~~~v~g~i~~~~~-~~-K~g~~maf~~~eD------~-~~~---------~e~~~F~~-~~~~~~~-l~~~~~~~~~~~~ 958 (973)
T PRK07135 899 EYRLAIEVKNVKR-LR-KANKEYKKVILSD------D-SVE---------ITIFVNDN-DYLLFET-LKKGDIYEFLISK 958 (973)
T ss_pred eEEEEEEEEEEEE-Ee-eCCCeEEEEEEEE------C-CCc---------EEEEEcHH-HHHHHHH-hhcCCEEEEEEEE
Confidence 4667787776433 33 7888877666652 2 343 78999998 5555554 9999999999987
Q ss_pred EEe
Q 029355 166 EIR 168 (194)
Q Consensus 166 ~tr 168 (194)
+.+
T Consensus 959 ~~~ 961 (973)
T PRK07135 959 SKN 961 (973)
T ss_pred cCC
Confidence 654
No 94
>PRK06386 replication factor A; Reviewed
Probab=22.63 E-value=3.2e+02 Score=25.23 Aligned_cols=63 Identities=17% Similarity=0.170 Sum_probs=38.7
Q ss_pred cccEEEEEEEeCCCceEEEecCCe--EEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCchHHHHHHhcCCCCCeEE
Q 029355 83 GVHKAIICGKVKDTPVQKILRNGK--TVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEILGSYAVKQLVKNSSVY 160 (194)
Q Consensus 83 ~mNkV~LiGrVg~dPelk~t~nG~--~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~lAe~v~~~L~KGs~V~ 160 (194)
++.-|.+.|+|.+-|+-.+...|. .+...-|+ |. +| -+++++|++ .+..|+.|.
T Consensus 116 g~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lg------De-TG---------rIr~TlW~~--------~l~eGd~v~ 171 (358)
T PRK06386 116 VTPYVSVIGKITGITKKEYDSDGTSKIVYQGYIE------DD-TA---------RVRISSFGK--------PLEDNRFVR 171 (358)
T ss_pred CCCceEEEEEEEEccCceEecCCCccEEEEEEEE------cC-CC---------eEEEEEccc--------cccCCCEEE
Confidence 455677888887766532223332 23333222 22 45 389999997 278999999
Q ss_pred EEEEeEEeee
Q 029355 161 VEGDIEIRVY 170 (194)
Q Consensus 161 VeGrL~tr~y 170 (194)
|++-- .+.|
T Consensus 172 i~na~-v~e~ 180 (358)
T PRK06386 172 IENAR-VSQY 180 (358)
T ss_pred EeeeE-EEcc
Confidence 99843 4445
No 95
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=22.60 E-value=2.2e+02 Score=26.95 Aligned_cols=79 Identities=15% Similarity=0.169 Sum_probs=53.2
Q ss_pred CCCCCCCCccc-----cccccEEEEEEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEeCch
Q 029355 70 PQGVDPRRGWG-----FRGVHKAIICGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVHNEI 144 (194)
Q Consensus 70 ~~~~~~~~~~~-----m~~mNkV~LiGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~wg~~ 144 (194)
-|++|.+-.+. +....+..+.|++..+|.. ..+|..++.+ . +. .| -+.|++|-+
T Consensus 247 NqatD~hl~~~~~l~d~~~~~~~~v~g~v~~~p~~--ieGghv~v~i--~------d~-~G---------~I~~~A~ep- 305 (421)
T COG1571 247 NQATDDHLVDKGKLNDIEDYSKYRVVGRVEAEPRA--IEGGHVVVEI--T------DG-EG---------EIGAVAFEP- 305 (421)
T ss_pred cchhhhhccccchhhhhhhccceEEEEEEecccEE--eeCCEEEEEe--c------CC-Cc---------eEEEEEecc-
Confidence 35555444443 3457889999999999865 4577655432 1 11 13 378888876
Q ss_pred HHH--HHHhcCCCCCeEEEEEEeEEee
Q 029355 145 LGS--YAVKQLVKNSSVYVEGDIEIRV 169 (194)
Q Consensus 145 lAe--~v~~~L~KGs~V~VeGrL~tr~ 169 (194)
+.+ .++..|.+||.|.+-|.++...
T Consensus 306 tk~fr~~a~~L~pGD~i~~~G~~~~~~ 332 (421)
T COG1571 306 TKEFRELARKLIPGDEITVYGSVKPGT 332 (421)
T ss_pred cccchHHHHhcCCCCEEEEecCccccc
Confidence 444 4567899999999999876544
No 96
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=21.67 E-value=81 Score=24.85 Aligned_cols=21 Identities=29% Similarity=0.422 Sum_probs=19.2
Q ss_pred HHHHHHhcCCCCCeEEEEEEe
Q 029355 145 LGSYAVKQLVKNSSVYVEGDI 165 (194)
Q Consensus 145 lAe~v~~~L~KGs~V~VeGrL 165 (194)
+|+.+++.|++|+.|.+.|.+
T Consensus 11 l~~~l~~~l~~~~~i~l~G~l 31 (133)
T TIGR00150 11 FGKAFAKPLDFGTVVLLKGDL 31 (133)
T ss_pred HHHHHHHhCCCCCEEEEEcCC
Confidence 788899999999999999985
No 97
>PF06557 DUF1122: Protein of unknown function (DUF1122); InterPro: IPR008304 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 2ARH_C.
Probab=21.34 E-value=3.4e+02 Score=22.65 Aligned_cols=61 Identities=18% Similarity=0.211 Sum_probs=31.1
Q ss_pred EEEeCCCceEEEecCCeEEEEEEEEECCceeccCCCcccCCCCceEEEEEEe---------Cc----hHHHHHHhcCCCC
Q 029355 90 CGKVKDTPVQKILRNGKTVTIFSVGTGGLFDQRIVGSKDLPKPVQWHRIAVH---------NE----ILGSYAVKQLVKN 156 (194)
Q Consensus 90 iGrVg~dPelk~t~nG~~v~~FsVAv~~~~~dr~~Ge~~~~~~t~w~~V~~w---------g~----~lAe~v~~~L~KG 156 (194)
-||+...-.+...-+|+.++...+-+++.| .+-|+.|-=. +. .+-+.+.+++.+|
T Consensus 12 ~Grf~Ee~n~~l~~~~~~l~~~kvF~GR~y------------Y~pW~EiFni~p~~~~~~~~s~~E~~l~~~~~~~l~pg 79 (170)
T PF06557_consen 12 KGRFKEEVNFELYLGGRHLCHVKVFFGRPY------------YRPWAEIFNINPWLRVVFFGSPLEDELYKLFSRYLEPG 79 (170)
T ss_dssp E-SSTTEEEEEEEETTEEEEEEEEE--BTT------------B--EEEEE---GGGHHHHTTSHHHHHHHHHHHTT----
T ss_pred CCcccceeeEEEEECCeeEEEEEEecCCCC------------CcchheeecccchhcccccCChHHHHHHHHHHHHhhhc
Confidence 345555444444457887777777766543 3447777322 32 1234567899999
Q ss_pred CeEEEE
Q 029355 157 SSVYVE 162 (194)
Q Consensus 157 s~V~Ve 162 (194)
++++||
T Consensus 80 ~~lfVe 85 (170)
T PF06557_consen 80 GRLFVE 85 (170)
T ss_dssp SEEEEE
T ss_pred CeEEEE
Confidence 999997
No 98
>PF05683 Fumerase_C: Fumarase C-terminus; InterPro: IPR004647 This entry represents various Fe-S type hydro-lyases, including the beta subunit from both L-tartrate dehydratase (TtdB; EC:4.2.1.32) and class 2 fumarate hydratase (FumC; (4.2.1.2 from EC) []. A number of Fe-S cluster-containing hydro-lyases share a conserved motif, including argininosuccinate lyase, adenylosuccinate lyase, aspartase, class I fumarate hydratase (fumarase), and tartrate dehydratase (see IPR000362 from INTERPRO). Proteins in this group represent a subset of closely related proteins or modules, including the Escherichia coli tartrate dehydratase beta chain and the C-terminal region of the class I fumarase (where the N-terminal region is homologous to the tartrate dehydratase alpha chain). The activity of the archaeal proteins in this group is unknown.; GO: 0016836 hydro-lyase activity; PDB: 2ISB_A.
Probab=20.83 E-value=1.7e+02 Score=25.02 Aligned_cols=31 Identities=23% Similarity=0.403 Sum_probs=19.2
Q ss_pred EEEEEeCchHHHHHHhcCCCCCeEEEEEEeEE
Q 029355 136 HRIAVHNEILGSYAVKQLVKNSSVYVEGDIEI 167 (194)
Q Consensus 136 ~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~t 167 (194)
..+.+--+ +.+...+.|+.||.|++.|.|-+
T Consensus 27 ~~~~L~tP-lt~e~i~~L~vGD~V~LsG~i~t 57 (205)
T PF05683_consen 27 REIELTTP-LTEEDIRKLKVGDTVYLSGTIYT 57 (205)
T ss_dssp -EEEEESS---HHHHHH--TT-EEEEEEEEEE
T ss_pred EEEEcCCC-CCHHHHhhCCCCCEEEEeeEEEE
Confidence 44555555 55666778999999999999866
No 99
>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=20.73 E-value=3.4e+02 Score=26.71 Aligned_cols=32 Identities=6% Similarity=0.184 Sum_probs=24.4
Q ss_pred EEEEEEeCchHHHHHHhcCCCCCeEEEEEEeEEeee
Q 029355 135 WHRIAVHNEILGSYAVKQLVKNSSVYVEGDIEIRVY 170 (194)
Q Consensus 135 w~~V~~wg~~lAe~v~~~L~KGs~V~VeGrL~tr~y 170 (194)
-++|++||+ .|+.+. ..+|+.|.+.| ++...|
T Consensus 351 sI~vTLWG~-~A~~~~--~~~~~Vva~kg-~~V~~f 382 (608)
T TIGR00617 351 SVRVTLWGD-DATKFD--VSVQPVIAIKG-VRVSDF 382 (608)
T ss_pred EEEEEEEhh-hhhhcC--CCCCCEEEEEe-EEEEec
Confidence 389999999 888654 67888888887 444456
No 100
>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=20.00 E-value=3e+02 Score=19.28 Aligned_cols=33 Identities=15% Similarity=0.301 Sum_probs=22.2
Q ss_pred EEEEEeCchHHH-HHHhcCCCCCeEEEEEEeEEee
Q 029355 136 HRIAVHNEILGS-YAVKQLVKNSSVYVEGDIEIRV 169 (194)
Q Consensus 136 ~~V~~wg~~lAe-~v~~~L~KGs~V~VeGrL~tr~ 169 (194)
+.|++-.+ ... ...+.+..|+.|.|+|.+..+.
T Consensus 31 iQvv~~~~-~~~~~~~~~l~~~s~V~V~G~v~~~~ 64 (86)
T cd04321 31 IQLVSTAK-KDAFSLLKSITAESPVQVRGKLQLKE 64 (86)
T ss_pred EEEEECCC-HHHHHHHhcCCCCcEEEEEEEEEeCC
Confidence 55655433 211 2345799999999999988764
Done!