Query gi|254780183|ref|YP_003064596.1| single-strand binding protein (ssb) [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 159
No_of_seqs 107 out of 2718
Neff 8.4
Searched_HMMs 39220
Date Mon May 23 15:41:08 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780183.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06958 single-stranded DNA-b 100.0 0 0 301.5 17.8 114 2-116 1-114 (181)
2 PRK06863 single-stranded DNA-b 100.0 0 0 298.4 17.2 157 2-159 1-168 (168)
3 PRK06341 single-stranded DNA-b 100.0 0 0 297.2 15.7 159 1-159 1-165 (165)
4 PRK08763 single-stranded DNA-b 100.0 2.8E-45 0 290.7 17.7 157 1-159 1-160 (160)
5 PRK05733 single-stranded DNA-b 100.0 1.4E-45 0 290.9 16.8 114 1-116 1-117 (172)
6 PRK09010 single-stranded DNA-b 100.0 2.8E-45 0 289.7 17.3 114 1-115 1-118 (178)
7 PRK13732 single-stranded DNA-b 100.0 1.2E-43 0 280.3 17.3 113 1-115 1-117 (175)
8 PRK06642 single-stranded DNA-b 100.0 4.5E-44 0 282.8 14.1 148 1-159 1-152 (152)
9 PRK08486 single-stranded DNA-b 100.0 3.1E-43 0 277.8 17.2 111 5-117 2-112 (180)
10 PRK07772 single-stranded DNA-b 100.0 1E-42 0 274.7 17.3 106 2-108 1-107 (183)
11 PRK07275 single-stranded DNA-b 100.0 2.1E-42 0 272.9 17.0 109 5-117 2-110 (163)
12 PRK06751 single-stranded DNA-b 100.0 2.7E-41 0 266.3 17.1 107 5-115 1-107 (172)
13 PRK06293 single-stranded DNA-b 100.0 1.6E-38 4E-43 249.8 16.0 106 7-119 3-108 (161)
14 PRK07274 single-stranded DNA-b 100.0 5.7E-37 1.5E-41 240.5 15.4 108 5-117 2-109 (131)
15 PRK07459 single-stranded DNA-b 100.0 9.5E-36 2.4E-40 233.2 14.0 106 4-117 2-108 (121)
16 PRK06752 single-stranded DNA-b 100.0 6.2E-34 1.6E-38 222.4 13.5 109 5-117 2-110 (112)
17 COG0629 Ssb Single-stranded DN 100.0 4.2E-33 1.1E-37 217.4 14.4 111 4-115 2-116 (167)
18 PRK08182 single-stranded DNA-b 100.0 1.4E-32 3.6E-37 214.3 14.7 138 6-145 3-145 (148)
19 TIGR00621 ssb single-strand bi 100.0 8.2E-32 2.1E-36 209.8 13.9 111 3-113 1-111 (180)
20 PRK05853 hypothetical protein; 100.0 8.8E-31 2.2E-35 203.6 15.3 101 6-109 4-105 (168)
21 pfam00436 SSB Single-strand bi 100.0 2E-30 5.2E-35 201.5 12.6 104 5-110 1-104 (104)
22 cd04496 SSB_OBF SSB_OBF: A sub 99.9 2.6E-26 6.7E-31 177.0 11.9 100 8-110 1-100 (100)
23 KOG1653 consensus 99.8 7E-19 1.8E-23 132.8 6.0 111 3-113 53-167 (175)
24 PRK05813 single-stranded DNA-b 99.4 5.1E-14 1.3E-18 103.8 3.6 99 4-113 106-208 (217)
25 PRK02801 primosomal replicatio 98.6 1.2E-06 2.9E-11 60.0 11.1 98 5-111 2-101 (101)
26 COG2965 PriB Primosomal replic 97.8 0.00038 9.8E-09 45.0 10.6 100 3-111 2-103 (103)
27 PRK00036 primosomal replicatio 97.7 0.00042 1.1E-08 44.8 9.6 98 5-113 1-99 (107)
28 PRK05813 single-stranded DNA-b 97.3 0.0044 1.1E-07 38.7 10.5 97 4-113 7-103 (217)
29 cd04484 polC_OBF polC_OBF: A s 96.5 0.0081 2.1E-07 37.1 6.1 69 7-90 1-69 (82)
30 PRK07373 DNA polymerase III su 96.1 0.043 1.1E-06 32.8 7.9 81 6-111 279-359 (447)
31 cd04485 DnaE_OBF DnaE_OBF: A s 96.0 0.052 1.3E-06 32.3 7.8 77 10-111 2-78 (84)
32 pfam01336 tRNA_anti OB-fold nu 95.9 0.056 1.4E-06 32.1 7.8 74 8-109 1-74 (75)
33 cd04489 ExoVII_LU_OBF ExoVII_L 95.7 0.13 3.3E-06 30.0 8.9 75 8-109 2-76 (78)
34 PRK00286 xseA exodeoxyribonucl 95.4 0.12 3E-06 30.2 7.9 77 5-108 23-99 (443)
35 PRK07892 consensus 95.2 0.21 5.5E-06 28.7 8.6 80 7-111 1019-1098(1180)
36 PRK08957 consensus 95.1 0.16 4.2E-06 29.3 7.7 80 7-109 992-1071(1159)
37 PRK06826 dnaE DNA polymerase I 95.1 0.21 5.3E-06 28.7 8.2 81 7-111 998-1078(1157)
38 PRK00448 polC DNA polymerase I 94.9 0.13 3.3E-06 30.0 6.7 72 4-91 233-306 (1436)
39 PRK07211 replication factor A; 94.7 0.36 9.1E-06 27.3 8.9 67 6-90 280-350 (473)
40 COG1570 XseA Exonuclease VII, 94.6 0.14 3.4E-06 29.8 6.2 77 5-108 23-99 (440)
41 cd04492 YhaM_OBF_like YhaM_OBF 94.4 0.051 1.3E-06 32.4 3.8 74 13-111 4-77 (83)
42 PRK05673 dnaE DNA polymerase I 94.3 0.42 1.1E-05 26.9 8.3 79 7-110 981-1059(1143)
43 PRK06658 consensus 94.3 0.39 9.8E-06 27.1 8.0 78 6-108 979-1056(1145)
44 PRK06637 consensus 94.1 0.39 1E-05 27.1 7.8 81 6-111 1024-1104(1182)
45 PRK06920 dnaE DNA polymerase I 93.4 0.65 1.7E-05 25.8 8.7 81 6-111 944-1024(1107)
46 PRK09074 consensus 92.7 0.85 2.2E-05 25.1 7.8 81 6-111 988-1068(1149)
47 cd04323 AsnRS_cyto_like_N AsnR 92.5 0.83 2.1E-05 25.2 7.3 82 7-111 1-83 (84)
48 cd03524 RPA2_OBF_family RPA2_O 92.4 0.64 1.6E-05 25.8 6.7 61 10-88 2-63 (75)
49 PRK13480 3'-5' exoribonuclease 92.3 0.18 4.6E-06 29.1 3.7 72 14-110 19-90 (314)
50 PRK07374 dnaE DNA polymerase I 92.1 0.73 1.9E-05 25.5 6.6 79 7-110 1003-1081(1171)
51 PRK07279 dnaE DNA polymerase I 91.7 0.93 2.4E-05 24.9 6.9 78 6-108 885-962 (1033)
52 PRK07012 consensus 91.7 1.1 2.9E-05 24.4 7.6 77 7-107 985-1061(1173)
53 cd04474 RPA1_DBD_A RPA1_DBD_A: 91.3 0.78 2E-05 25.3 6.1 65 4-82 8-75 (104)
54 PRK05672 dnaE2 error-prone DNA 88.5 2 5.2E-05 22.8 7.9 54 49-112 984-1037(1050)
55 PRK12366 replication factor A; 88.1 1.5 3.8E-05 23.7 5.4 66 5-86 73-142 (649)
56 COG2176 PolC DNA polymerase II 87.7 2.2 5.7E-05 22.6 6.2 71 4-90 238-310 (1444)
57 TIGR00643 recG ATP-dependent D 86.9 2 5E-05 22.9 5.5 73 7-91 46-131 (721)
58 pfam11325 DUF3127 Protein of u 86.8 2.5 6.4E-05 22.3 6.0 80 10-107 2-83 (84)
59 COG3390 Uncharacterized protei 84.2 3.5 8.9E-05 21.4 8.1 85 3-107 43-127 (196)
60 TIGR01405 polC_Gram_pos DNA po 83.6 3.7 9.5E-05 21.3 6.0 88 3-111 5-95 (1264)
61 PRK06326 consensus 82.8 4 0.0001 21.1 7.3 65 7-87 1031-1096(1240)
62 cd04322 LysRS_N LysRS_N: N-ter 80.8 4.7 0.00012 20.7 8.5 83 7-113 1-83 (108)
63 cd04316 ND_PkAspRS_like_N ND_P 80.7 4.8 0.00012 20.6 8.9 82 6-114 13-98 (108)
64 cd04488 RecG_wedge_OBF RecG_we 80.0 3.1 7.9E-05 21.8 4.2 62 9-88 1-62 (75)
65 cd04321 ScAspRS_mt_like_N ScAs 79.9 5.1 0.00013 20.5 8.3 86 7-112 1-86 (86)
66 COG1200 RecG RecG-like helicas 78.1 5.8 0.00015 20.1 5.6 64 7-88 62-125 (677)
67 PRK08744 consensus 77.3 6.1 0.00015 20.0 8.0 41 49-90 1049-1089(1195)
68 PRK06461 single-stranded DNA-b 73.0 7.9 0.0002 19.3 5.9 68 3-90 12-82 (130)
69 cd04319 PhAsnRS_like_N PhAsnRS 72.2 8.2 0.00021 19.2 7.6 81 7-113 1-83 (103)
70 PRK08512 consensus 70.9 8.8 0.00022 19.1 6.6 66 6-88 1009-1074(1185)
71 cd04482 RPA2_OBF_like RPA2_OBF 70.5 9 0.00023 19.0 8.1 62 9-88 2-64 (91)
72 PRK10917 ATP-dependent DNA hel 70.0 9.2 0.00023 18.9 6.3 63 6-87 59-121 (677)
73 COG0017 AsnS Aspartyl/asparagi 67.6 10 0.00026 18.6 7.2 82 6-113 17-100 (435)
74 pfam11506 DUF3217 Protein of u 67.3 8.3 0.00021 19.2 3.8 89 5-107 2-90 (104)
75 cd04478 RPA2_DBD_D RPA2_DBD_D: 61.9 13 0.00034 18.0 4.1 75 7-110 1-77 (95)
76 cd04483 hOBFC1_like hOBFC1_lik 60.5 13 0.00033 18.0 3.7 39 50-88 22-79 (92)
77 TIGR01780 SSADH succinic semia 60.0 11 0.00028 18.5 3.3 67 20-87 255-338 (454)
78 COG0587 DnaE DNA polymerase II 58.7 15 0.00039 17.6 6.6 68 7-89 978-1045(1139)
79 cd04318 EcAsnRS_like_N EcAsnRS 57.6 16 0.0004 17.5 3.8 51 55-111 31-81 (82)
80 PRK08402 replication factor A; 56.2 17 0.00043 17.4 5.0 72 2-88 69-146 (357)
81 cd04320 AspRS_cyto_N AspRS_cyt 56.1 17 0.00043 17.4 8.8 85 7-114 1-93 (102)
82 cd04317 EcAspRS_like_N EcAspRS 55.9 17 0.00043 17.4 8.4 87 6-113 15-104 (135)
83 TIGR01922 purO_arch IMP cycloh 54.6 18 0.00045 17.2 4.3 32 22-54 11-42 (209)
84 cd04100 Asp_Lys_Asn_RS_N Asp_L 54.4 18 0.00045 17.2 7.4 81 7-111 1-84 (85)
85 PRK03932 asnC asparaginyl-tRNA 51.6 20 0.00051 16.9 9.4 80 7-113 19-102 (462)
86 TIGR01672 AphA HAD superfamily 51.2 8.4 0.00021 19.2 1.5 58 51-110 94-166 (248)
87 COG0677 WecC UDP-N-acetyl-D-ma 49.2 14 0.00036 17.8 2.4 27 62-88 108-134 (436)
88 TIGR00739 yajC preprotein tran 47.6 13 0.00034 18.0 2.1 26 63-88 29-54 (86)
89 KOG3108 consensus 47.4 23 0.00059 16.5 5.3 39 49-87 92-131 (265)
90 PRK00476 aspS aspartyl-tRNA sy 46.6 24 0.00061 16.5 8.2 86 7-113 19-107 (587)
91 pfam02367 UPF0079 Uncharacteri 46.1 17 0.00043 17.3 2.4 20 65-84 5-24 (123)
92 cd04491 SoSSB_OBF SoSSB_OBF: A 45.7 25 0.00063 16.4 3.7 62 10-90 2-66 (82)
93 cd04487 RecJ_OBF2_like RecJ_OB 44.9 25 0.00064 16.3 4.1 71 8-108 1-71 (73)
94 TIGR00617 rpa1 replication fac 41.7 28 0.00072 16.0 5.4 19 6-24 225-243 (671)
95 PRK05159 aspC aspartyl-tRNA sy 38.4 32 0.00082 15.7 11.0 82 6-114 17-102 (434)
96 PRK12278 50S ribosomal protein 38.0 32 0.00083 15.7 6.7 45 65-111 60-105 (216)
97 PRK12820 bifunctional aspartyl 37.7 33 0.00084 15.6 7.4 86 7-113 20-110 (706)
98 pfam11948 DUF3465 Protein of u 36.5 26 0.00065 16.3 2.1 33 63-99 78-110 (131)
99 PRK00484 lysS lysyl-tRNA synth 36.2 35 0.00089 15.5 9.4 83 6-113 54-136 (491)
100 KOG3873 consensus 35.4 27 0.00068 16.2 2.1 31 56-88 153-183 (422)
101 COG4097 Predicted ferric reduc 34.9 36 0.00093 15.4 3.7 42 53-97 276-317 (438)
102 COG3689 Predicted membrane pro 33.3 39 0.00099 15.2 3.1 86 7-114 177-263 (271)
103 COG1908 FrhD Coenzyme F420-red 33.2 27 0.00069 16.1 1.8 34 51-84 29-63 (132)
104 TIGR00459 aspS_bact aspartyl-t 30.7 43 0.0011 14.9 8.0 68 50-117 44-115 (653)
105 TIGR02824 quinone_pig3 putativ 30.2 30 0.00078 15.8 1.6 23 57-82 130-152 (334)
106 cd04475 RPA1_DBD_B RPA1_DBD_B: 29.3 45 0.0012 14.8 5.6 67 8-90 2-72 (101)
107 COG3649 CRISPR system related 28.7 41 0.001 15.1 2.1 47 53-104 100-146 (283)
108 pfam12101 DUF3577 Protein of u 27.9 48 0.0012 14.7 8.5 95 9-110 15-119 (138)
109 KOG3266 consensus 27.2 42 0.0011 15.0 1.9 82 6-88 42-128 (172)
110 TIGR01758 MDH_euk_cyt malate d 26.8 42 0.0011 15.0 1.9 55 30-86 74-129 (325)
111 TIGR00216 ispH_lytB 4-hydroxy- 26.2 45 0.0011 14.9 1.9 26 69-94 127-152 (354)
112 COG1107 Archaea-specific RecJ- 25.8 52 0.0013 14.4 4.3 74 8-111 216-289 (715)
113 pfam11736 DUF3299 Protein of u 25.4 53 0.0014 14.4 3.6 31 76-108 111-141 (144)
114 TIGR02188 Ac_CoA_lig_AcsA acet 25.0 50 0.0013 14.5 2.0 33 58-94 473-508 (643)
115 TIGR01497 kdpB K+-transporting 24.9 40 0.001 15.1 1.5 13 69-81 121-133 (675)
116 TIGR02823 oxido_YhdH putative 21.9 50 0.0013 14.6 1.5 38 71-111 77-114 (330)
117 PRK06762 hypothetical protein; 20.9 64 0.0016 13.9 1.9 32 55-90 52-83 (166)
118 PRK12445 lysyl-tRNA synthetase 20.9 66 0.0017 13.8 7.8 78 7-113 67-149 (505)
No 1
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=0 Score=301.49 Aligned_cols=114 Identities=55% Similarity=0.952 Sum_probs=110.1
Q ss_pred CCCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf 87783799996425886679869998699999983456420268845301124302110158987722110477159998
Q gi|254780183|r 2 VASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIE 81 (159)
Q Consensus 2 m~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~ 81 (159)
|||||+|+|+|||++|||||+|++|.+||+|+||++++|+|+.+++|+|.|+||+|++||+ +||++++||+||++|+|+
T Consensus 1 Mas~NkV~LiG~L~~DPelr~t~~G~~va~f~lA~~~~~~d~~~ge~~e~t~w~~v~~~gk-~AE~~~~yl~KG~~V~Ve 79 (181)
T PRK06958 1 MASVNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGR-LAEIVGEYLKKGSSVYIE 79 (181)
T ss_pred CCCCCEEEEEEECCCCCEEEECCCCCEEEEEEEEEECCEEECCCCCEEECCEEEEEECCCH-HHHHHHHHCCCCCEEEEE
T ss_conf 9977879998857869658787999779999999863333237883763163778503356-999998644799989997
Q ss_pred ECCCCCCCCCCCCCEEEEEEEEEEEEEECCCCCCC
Q ss_conf 41333332046883768899999776984667776
Q gi|254780183|r 82 GSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDS 116 (159)
Q Consensus 82 Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~~~ 116 (159)
|||++++|+||+|++||++||+|++|+||+++...
T Consensus 80 GrL~~r~w~dkdG~~ry~tEiv~d~~~~l~~r~~~ 114 (181)
T PRK06958 80 GRIRTRKWQGQDGQDRYSTEIVADQMQMLGGRGSG 114 (181)
T ss_pred EEEEECCCCCCCCCEEEEEEEEEEEEEEECCCCCC
T ss_conf 57770645978999899999998688981476666
No 2
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=0 Score=298.38 Aligned_cols=157 Identities=43% Similarity=0.760 Sum_probs=124.7
Q ss_pred CCCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf 87783799996425886679869998699999983456420268845301124302110158987722110477159998
Q gi|254780183|r 2 VASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIE 81 (159)
Q Consensus 2 m~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~ 81 (159)
||+||+|+|+|||++|||||++++|.+||+|+||++++|+++.+++|+|.|+||+|++|+ ++||++++||+||++|+|+
T Consensus 1 Ma~~NkV~LiGnlg~DPElr~t~sG~~v~~fslA~~~~~~~~~~ge~~e~t~w~~v~~wg-k~AE~~~~yl~KG~~V~Ve 79 (168)
T PRK06863 1 MAGINKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYR-RQAEVAGEYLRKGSQVYVE 79 (168)
T ss_pred CCCCCEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCCEECCCCEEEEECHHHHHHHCH-HHHHHHHHHHCCCCEEEEE
T ss_conf 998788999874686854888799987999999961561205887377502032120056-8999999875689879998
Q ss_pred ECCCCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCC--------C---CCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 41333332046883768899999776984667776666777777--------7---766777655666666765445677
Q gi|254780183|r 82 GSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGEEQRSE--------Q---HSNNLKENVVGNRYSSPREESVFS 150 (159)
Q Consensus 82 Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~~~~~~~~~~~~--------~---~~~~~~~~~~~~~~~~~~~~~~~~ 150 (159)
|||++++|+|++|++||.++|+|+.|+||+++............ . ......+.........++...+..
T Consensus 80 GrL~~r~w~dk~G~~r~~teV~~d~~~~l~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (168)
T PRK06863 80 GRLKTRKWQDQNGQDRYTTEIQGDVLQMLGGRNQRNAGGYGNSGPAPQQSYQAGQTNNGNSQQASRPAPQQAAPQAEPPM 159 (168)
T ss_pred EEEEECCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 88875511879999899999998579983577776677766777777777778877888888778998877887678987
Q ss_pred CCCCCCCCC
Q ss_conf 877455798
Q gi|254780183|r 151 DELDDEIPF 159 (159)
Q Consensus 151 ~~~dDdiPF 159 (159)
+.+||||||
T Consensus 160 d~~DDDiPF 168 (168)
T PRK06863 160 DGFDDDIPF 168 (168)
T ss_pred CCCCCCCCC
T ss_conf 777788898
No 3
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=0 Score=297.17 Aligned_cols=159 Identities=53% Similarity=0.928 Sum_probs=127.9
Q ss_pred CCCCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 98778379999642588667986999869999998345642026884530112430211015898772211047715999
Q gi|254780183|r 1 MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 1 mm~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
|+.|||+|+|+|||++|||||++++|.+||+|+||++++|+++.+++|+|+|+||+|++|++.+||++.+||+||++|+|
T Consensus 1 ma~s~NkV~LiG~lg~DPE~r~t~~G~~v~~fslA~~~~~~~~~~ge~~e~T~w~~vv~~~~~lae~~~~yl~KG~~V~V 80 (165)
T PRK06341 1 MAGSVNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYI 80 (165)
T ss_pred CCCCCEEEEEEEECCCCCEEEECCCCCEEEEEEEEEECCEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf 99874289998726779748786999879999999741500256775433526676666528999999997378987988
Q ss_pred EECCCCCCCCCCCCCEEEEEEEEEEE----EEECCCCCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 84133333204688376889999977----6984667776666777777776--67776556666667654456778774
Q gi|254780183|r 81 EGSLQTRKWQDQSGNNRYTTEIIMRS----MVMLDGRRDSLQGEEQRSEQHS--NNLKENVVGNRYSSPREESVFSDELD 154 (159)
Q Consensus 81 ~Grl~~~~~~~kdG~~r~~~~V~a~~----i~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~d 154 (159)
+|||++++|+|++|++||.++|+|++ +.+|+++............... ....+.........+.......+++|
T Consensus 81 eGrL~~r~w~dk~G~~ry~teVv~~~f~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~D 160 (165)
T PRK06341 81 EGQLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRGGGGGGSGGDDSGGGDFGSSGPSSSAPRRGVAAGGGGFSSDMD 160 (165)
T ss_pred ECCEEEEEEECCCCCEEEEEEEEEECCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 32268731187999889899999956766067714667787777666777777788888888988888887888778878
Q ss_pred CCCCC
Q ss_conf 55798
Q gi|254780183|r 155 DEIPF 159 (159)
Q Consensus 155 DdiPF 159 (159)
|||||
T Consensus 161 DDiPF 165 (165)
T PRK06341 161 DDIPF 165 (165)
T ss_pred CCCCC
T ss_conf 88998
No 4
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=2.8e-45 Score=290.70 Aligned_cols=157 Identities=40% Similarity=0.647 Sum_probs=125.7
Q ss_pred CCCCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 98778379999642588667986999869999998345642026884530112430211015898772211047715999
Q gi|254780183|r 1 MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 1 mm~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
||.+||+|+|+|||++|||||++++|.+||+|+||++++|+++. +++++.|+||+|++||+ +||++++||+||++|+|
T Consensus 1 m~~~~NkV~LiG~l~~Dpelr~t~sG~~v~~fslA~~~~~~~~~-g~~~~~t~w~~vv~~gk-~AE~~~~yl~KG~~V~V 78 (160)
T PRK08763 1 MARGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSMRKDRE-GNTQERTEWHRVKFFGK-LGEIAGEYLRKGSQCYI 78 (160)
T ss_pred CCCCCCEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEECCC-CCCEECEEEEEEEEEHH-HHHHHHHHHHCCCEEEE
T ss_conf 98886199998754759758788999879999999778735688-88252105999998368-99999987417998999
Q ss_pred EECCCCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 8413333320468837688999997769846677766667777777766777---6556666667654456778774557
Q gi|254780183|r 81 EGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGEEQRSEQHSNNLK---ENVVGNRYSSPREESVFSDELDDEI 157 (159)
Q Consensus 81 ~Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~dDdi 157 (159)
+|||++++|++|||++||.++|+|+.|+||+++...............+... .....+.+..+..+++..+..||||
T Consensus 79 eGrL~~~~y~dkdG~kr~~teIv~~~v~~l~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~DDDI 158 (160)
T PRK08763 79 EGEIRYDKFTGQDGQERYVTEIVADEMQMLGGRGEGGGGGGGGIRPQRQPAKRQDYAPRRQQPAQQQSAPPMDDFADDDI 158 (160)
T ss_pred EEEEEEEEEECCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 88888855175899889999999988898137787888887887877788777778887789998778988777777789
Q ss_pred CC
Q ss_conf 98
Q gi|254780183|r 158 PF 159 (159)
Q Consensus 158 PF 159 (159)
||
T Consensus 159 PF 160 (160)
T PRK08763 159 PF 160 (160)
T ss_pred CC
T ss_conf 98
No 5
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=1.4e-45 Score=290.88 Aligned_cols=114 Identities=47% Similarity=0.912 Sum_probs=109.0
Q ss_pred CCCCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 98778379999642588667986999869999998345642026884530112430211015898772211047715999
Q gi|254780183|r 1 MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 1 mm~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
|+.+||+|+|+|||++|||||++++|.+||+|+||++++|+++.+++|+|+|+||+|++||+ +||++++||+||++|+|
T Consensus 1 ma~~~NkV~LiG~lg~DPElr~t~~G~~v~~fslAt~~~~~~~~~ge~~e~T~w~~v~~wgk-~AE~~~~yl~KG~~V~V 79 (172)
T PRK05733 1 MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGK-VAEIAGEYLRKGSQVYI 79 (172)
T ss_pred CCCCCCEEEEEEECCCCCEEEECCCCCEEEEEEEEEECCCCCCCCCCEECCCCEEEEEEECH-HHHHHHHHCCCCCEEEE
T ss_conf 98876289997555779638888999879999999725500167875831232289987345-78888865389998999
Q ss_pred EECCCCCCCCCCCCCEEEEEEEEEE---EEEECCCCCCC
Q ss_conf 8413333320468837688999997---76984667776
Q gi|254780183|r 81 EGSLQTRKWQDQSGNNRYTTEIIMR---SMVMLDGRRDS 116 (159)
Q Consensus 81 ~Grl~~~~~~~kdG~~r~~~~V~a~---~i~~l~~~~~~ 116 (159)
+|||++++|+ |||++||.+||+|+ .++||.++...
T Consensus 80 eGrL~tr~we-kdG~kry~teiv~~~~~~~q~lg~r~~~ 117 (172)
T PRK05733 80 EGKLQTREWE-KDGIKRYTTEIVVDMQGTMQLLGGRPQG 117 (172)
T ss_pred EEEEEEECHH-HCCCEEEEEEEEEECCCCEEEECCCCCC
T ss_conf 9888840475-5898798999999457757883277777
No 6
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=2.8e-45 Score=289.72 Aligned_cols=114 Identities=55% Similarity=1.027 Sum_probs=108.0
Q ss_pred CCC-CCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEE
Q ss_conf 987-7837999964258866798699986999999834564202688453011243021101589877221104771599
Q gi|254780183|r 1 MVA-SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVY 79 (159)
Q Consensus 1 mm~-~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~ 79 (159)
|++ +||+|+|+|||++|||||++++|.+||+|+||++++|+|+.+++|+|+|+||+|++|| ++||++++||+||++|+
T Consensus 1 m~~r~~NkV~LiGnLg~DPElr~t~~G~~va~fslAt~~~~kd~~~Ge~~e~t~w~~v~~wg-k~AE~~~~yl~KG~~V~ 79 (178)
T PRK09010 1 MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFG-KLAEVAGEYLRKGSQVY 79 (178)
T ss_pred CCCCCCCEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEECCCEEEEEEEEC-HHHHHHHHHCCCCCEEE
T ss_conf 98678758999886376965888899986999999865871126787150331289999967-68899887617999899
Q ss_pred EEECCCCCCCCCCCCCEEEEEEEEEE---EEEECCCCCC
Q ss_conf 98413333320468837688999997---7698466777
Q gi|254780183|r 80 IEGSLQTRKWQDQSGNNRYTTEIIMR---SMVMLDGRRD 115 (159)
Q Consensus 80 V~Grl~~~~~~~kdG~~r~~~~V~a~---~i~~l~~~~~ 115 (159)
|+|||++++|++|+|++||++||+|+ .|+||+++..
T Consensus 80 VeGrL~~r~w~dk~G~~ry~teiv~~~~~~~q~l~~r~~ 118 (178)
T PRK09010 80 IEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQG 118 (178)
T ss_pred EEEEEECCCCCCCCCCEEEEEEEEECCCCCEEECCCCCC
T ss_conf 998986443375899989899999857884577247777
No 7
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=1.2e-43 Score=280.29 Aligned_cols=113 Identities=50% Similarity=0.950 Sum_probs=106.1
Q ss_pred CC-CCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEE
Q ss_conf 98-77837999964258866798699986999999834564202688453011243021101589877221104771599
Q gi|254780183|r 1 MV-ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVY 79 (159)
Q Consensus 1 mm-~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~ 79 (159)
|+ .+||+|+|+|||++|||||++++|.+||+|+||++++|+|+.+++|+|+|+||+|++||+ +||++++||+||++|+
T Consensus 1 m~~rg~NkViLiG~Lg~DPElr~t~~G~~va~f~lAt~~~~~d~~~ge~~e~t~w~~vv~~gk-~AE~~~~yl~KGs~V~ 79 (175)
T PRK13732 1 MAVRGINKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGK-LAEVAGEYLRKGAQVY 79 (175)
T ss_pred CCCCCCCEEEEEEECCCCCEEEECCCCCEEEEEEEEEECCCCCCCCCCEECCCCEEEEEEEHH-HHHHHHHHHCCCCEEE
T ss_conf 987787589998745779617888999879999999836621277883641335489998648-9999998727999899
Q ss_pred EEECCCCCCCCCCCCCEEEEEEEEEE---EEEECCCCCC
Q ss_conf 98413333320468837688999997---7698466777
Q gi|254780183|r 80 IEGSLQTRKWQDQSGNNRYTTEIIMR---SMVMLDGRRD 115 (159)
Q Consensus 80 V~Grl~~~~~~~kdG~~r~~~~V~a~---~i~~l~~~~~ 115 (159)
|+|||++++|++ +|++||++||+|+ .+++|.++..
T Consensus 80 VeGrL~~r~wed-~G~~ry~tevv~d~~~~~~~lg~~~~ 117 (175)
T PRK13732 80 IEGQLRTRSWED-NGITRYVTEILVKTTGTMQMLGRAAG 117 (175)
T ss_pred EEEEEEECCCCC-CCCEEEEEEEEEECCCCEEECCCCCC
T ss_conf 999877215010-89669899999827874687046777
No 8
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=4.5e-44 Score=282.78 Aligned_cols=148 Identities=50% Similarity=0.935 Sum_probs=121.9
Q ss_pred CCCCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 98778379999642588667986999869999998345642026884530112430211015898772211047715999
Q gi|254780183|r 1 MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 1 mm~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
|+.+||+|+|+||||+|||||++++|.++|+|+||++++|+++.+++|+++|+||+|++||+.+|+++.+||+||++|+|
T Consensus 1 ma~s~NkV~LiG~lg~DPElr~t~~G~~v~~fslA~~~~~k~~~~ge~~e~t~w~~vv~~~k~~ae~~~~yl~KG~~V~V 80 (152)
T PRK06642 1 MAGSLNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYI 80 (152)
T ss_pred CCCCCEEEEEEEECCCCCEEEECCCCCEEEEEEEEEEECEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEE
T ss_conf 99875189998635769658887999768999999730101125776243116888776338999999986568888999
Q ss_pred EECCCCCCCCCCCCCEEEEEEEEEEEEE----ECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 8413333320468837688999997769----846677766667777777766777655666666765445677877455
Q gi|254780183|r 81 EGSLQTRKWQDQSGNNRYTTEIIMRSMV----MLDGRRDSLQGEEQRSEQHSNNLKENVVGNRYSSPREESVFSDELDDE 156 (159)
Q Consensus 81 ~Grl~~~~~~~kdG~~r~~~~V~a~~i~----~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dDd 156 (159)
+|+|++++|++++|++||.++|+|+.|. +++++...........+... .+.+...+...+++|||
T Consensus 81 eG~L~~r~y~dkdG~~r~~teIv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~DDD 149 (152)
T PRK06642 81 EGSLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSNNHTQDSGHSEYK-----------HPETKNHSFDHSDLDDE 149 (152)
T ss_pred EEEEEECCCCCCCCCEEEEEEEEEECCCCEEEECCCCCCCCCCCCCCCCCCC-----------CCCCCCCCCCCCCCCCC
T ss_conf 6678753559899998989999996787636763478887777777777657-----------89887778878877777
Q ss_pred CCC
Q ss_conf 798
Q gi|254780183|r 157 IPF 159 (159)
Q Consensus 157 iPF 159 (159)
|||
T Consensus 150 iPF 152 (152)
T PRK06642 150 IPF 152 (152)
T ss_pred CCC
T ss_conf 899
No 9
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=3.1e-43 Score=277.77 Aligned_cols=111 Identities=41% Similarity=0.625 Sum_probs=104.8
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 83799996425886679869998699999983456420268845301124302110158987722110477159998413
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
||+|+|+|||++|||||+|++|.+||+|+||++++|++ ..++++++|+||+|++|| ++||++++||+||++|+|+|||
T Consensus 2 ~NkViLvGrL~~DpElr~t~~G~~v~~f~lAv~r~~~~-~~Ge~~e~t~f~~v~~wg-k~AE~~~~yl~KGs~V~VeGrL 79 (180)
T PRK08486 2 FNKVILVGNLTRDVELRYLPSGSAIATIGLATSRRFKK-QDGEKGEEVCFIDIRLFG-RTAEIANQYLSKGSKVLIEGRL 79 (180)
T ss_pred CEEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEEC-CCCCCCCCCEEEEEEECC-HHHHHHHHHCCCCCEEEEEEEE
T ss_conf 40699988568686388879998899999986686667-888780223699998816-7898887521899999999998
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCC
Q ss_conf 333320468837688999997769846677766
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSL 117 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~~~~ 117 (159)
++++|++|+|++||.++|+|++|+||+++....
T Consensus 80 ~~r~w~dkdG~~ry~teVv~d~~~fl~~k~~~~ 112 (180)
T PRK08486 80 TFESWMDQNGQKRSKHTITAESMQMLDSKNDNQ 112 (180)
T ss_pred ECCCCCCCCCCEEEEEEEEEEEEEEECCCCCCC
T ss_conf 846451579988999999996889804777777
No 10
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=1e-42 Score=274.73 Aligned_cols=106 Identities=26% Similarity=0.481 Sum_probs=102.4
Q ss_pred CCCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEE-CEEEECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 8778379999642588667986999869999998345642026884530-112430211015898772211047715999
Q gi|254780183|r 2 VASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERRE-KTEWHSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 2 m~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d-~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
||+.|+|+|+|||++|||||++++|.+||+|+||++++|+|+.+++|+| +|+||+|+||| ++||++++||+||++|+|
T Consensus 1 Ma~~~~V~lvGnL~~DPe~r~t~~G~~v~~f~lA~~~r~~d~~~g~~~d~~t~~~~v~~wg-klAe~~~~~l~KG~~V~V 79 (183)
T PRK07772 1 MAGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTYDRQTNEWKDGEALFLRCSIWR-QAAENVAESLTKGMRVIV 79 (183)
T ss_pred CCCCCEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEEECCCCCEECCCEEEEEEEEEH-HHHHHHHHHCCCCCEEEE
T ss_conf 9987889998756879708889999969999998558527268884771624799999817-999998874469989999
Q ss_pred EECCCCCCCCCCCCCEEEEEEEEEEEEE
Q ss_conf 8413333320468837688999997769
Q gi|254780183|r 81 EGSLQTRKWQDQSGNNRYTTEIIMRSMV 108 (159)
Q Consensus 81 ~Grl~~~~~~~kdG~~r~~~~V~a~~i~ 108 (159)
+|||++++|+||+|++||++||+|+.|.
T Consensus 80 ~GrL~tr~w~dk~G~~r~~tei~ad~vg 107 (183)
T PRK07772 80 TGRLKQRSYETREGEKRTVVELEVDEIG 107 (183)
T ss_pred EEEEECCCCCCCCCCEEEEEEEEEEECC
T ss_conf 9887767548689998999999996124
No 11
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=2.1e-42 Score=272.90 Aligned_cols=109 Identities=22% Similarity=0.512 Sum_probs=101.1
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 83799996425886679869998699999983456420268845301124302110158987722110477159998413
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
||+|+|+|||++|||||++++|.+||+|+||++++|+++. ++ .+|+||+|++||+ +||++++||+||++|+|+|||
T Consensus 2 ~NkV~LiGrl~~DpElr~t~~G~~v~~fslAv~r~~k~~~-ge--~~td~~~~v~wg~-~AE~~~~yl~KG~~V~VeGrl 77 (163)
T PRK07275 2 INNVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQN-GE--READFINCVIWRQ-QAENLANWAKKGALIGVTGRI 77 (163)
T ss_pred CEEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEECCC-CC--CCCEEEEEEECCH-HHHHHHHHHCCCCEEEEEEEE
T ss_conf 4069998965888638898999889999998478558788-95--0330899998077-899999874589999999997
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCC
Q ss_conf 333320468837688999997769846677766
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSL 117 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~~~~ 117 (159)
++++|++|+|++||+++|+|+.|+||+++....
T Consensus 78 ~~~~y~dkdG~~r~~teVv~~~~~~l~~~~~~~ 110 (163)
T PRK07275 78 QTRNYENQQGQRVYVTEVVADNFQMLESRATRE 110 (163)
T ss_pred ECCCCCCCCCCEEEEEEEEEEEEEEECCCCCCC
T ss_conf 215537589978999999996889702567776
No 12
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=2.7e-41 Score=266.26 Aligned_cols=107 Identities=30% Similarity=0.604 Sum_probs=100.3
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 83799996425886679869998699999983456420268845301124302110158987722110477159998413
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
||+|+|+|||++|||||+|++|.+||+|+||++++|+++.+ +++|+||+|++||+ +||++++||+||++|+|+|||
T Consensus 1 ~NkV~LiGrL~~DPElr~t~~G~~v~~f~lAv~r~~~~~~g---~~~td~~~vv~wgk-~AE~~~~yl~KG~~V~VeGrl 76 (172)
T PRK06751 1 MNRVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQQG---EREADFINCVIWRK-QAENVANYLKKGSLAGVDGRL 76 (172)
T ss_pred CCEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEECCCC---CEEEEEEEEEEECH-HHHHHHHHHCCCCEEEEEEEE
T ss_conf 97799998768787588889998799999996676026789---76778999997288-899999875789989999986
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEECCCCCC
Q ss_conf 3333204688376889999977698466777
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMVMLDGRRD 115 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~~ 115 (159)
++++|+|++|++||.+||+|++|+||+++..
T Consensus 77 ~~r~yedkdG~~r~~teIv~~~~~~L~~~~~ 107 (172)
T PRK06751 77 QTRNYEGQDGKRVYVTEVLAESVQFLEPRNG 107 (172)
T ss_pred ECCCCCCCCCCEEEEEEEEEEEEEECCCCCC
T ss_conf 2476687899889999999966897146777
No 13
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=1.6e-38 Score=249.79 Aligned_cols=106 Identities=20% Similarity=0.394 Sum_probs=96.3
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
-+.|+|||++|||||+|++|.+||+|+|||++++.+ +++|+||+|++|++ .||++++||+||++|+|+|||++
T Consensus 3 ~~~LvGrLt~DPElR~T~sG~aVa~FtlAvn~~~~~------~~et~fi~~v~W~k-~AE~~~~yl~KGs~V~VeGrl~t 75 (161)
T PRK06293 3 FGYFAGYLGADPEERMTSKGKRVVVLRLGVKSRVGS------KDETVWCRCNIWHN-RYDKMLPYLKKGSGVIVAGDISV 75 (161)
T ss_pred CEEEEEECCCCCCEEECCCCCEEEEEEEEECCCCCC------CCCCEEEEEEEHHH-HHHHHHHHHCCCCEEEEEEEEEE
T ss_conf 045456146687244889998799999998688787------56865999997347-89999998647898999987773
Q ss_pred CCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCC
Q ss_conf 332046883768899999776984667776666
Q gi|254780183|r 87 RKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQG 119 (159)
Q Consensus 87 ~~~~~kdG~~r~~~~V~a~~i~~l~~~~~~~~~ 119 (159)
++|++|+|++||.+||+|++|+||+++......
T Consensus 76 rsyedkdG~kry~tEVvad~~~fl~~~~~~~~~ 108 (161)
T PRK06293 76 ESYMSKDGSPQSSLVVSVDTLKFSPFGNSGSRS 108 (161)
T ss_pred CCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCC
T ss_conf 476878998898999999678965777877668
No 14
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=5.7e-37 Score=240.47 Aligned_cols=108 Identities=33% Similarity=0.644 Sum_probs=99.5
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 83799996425886679869998699999983456420268845301124302110158987722110477159998413
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
||+|+|+|||++|||+|++++|.++++|+||++++|+++. |++ .++||+|++||+ +||++++||+||++|+|+|||
T Consensus 2 mN~V~LiGrL~~Dpel~~t~~G~~v~~fslAv~r~~k~~~-ge~--~td~~~vv~wgk-~Ae~~~~~~~KG~~V~V~G~L 77 (131)
T PRK07274 2 YNKVILIGRLTAKPELVKTATDKSVARVTLAVNRRFKNQN-GER--EADFINVVVWGK-LAETLVSYASKGSLISIDGEL 77 (131)
T ss_pred CCEEEEEEECCCCCEEEECCCCCEEEEEEEEEECCEECCC-CCE--EEEEEEEEECCH-HHHHHHHHCCCCCEEEEEEEE
T ss_conf 6469999977779769998999889999998713068788-978--877999998284-799998751699999999998
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCC
Q ss_conf 333320468837688999997769846677766
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSL 117 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~~~~ 117 (159)
++++| +|||++||.++|+|+.|+||+++....
T Consensus 78 ~~~~y-dkdG~~~~~~eI~v~~~~~L~sk~~~~ 109 (131)
T PRK07274 78 RTRKY-DKDGQTHYVTEVLCQSFQLLESRAQRA 109 (131)
T ss_pred ECCCC-CCCCCEEEEEEEEEEEEEECCCCCCCC
T ss_conf 87487-249979999999997899745777565
No 15
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=9.5e-36 Score=233.20 Aligned_cols=106 Identities=31% Similarity=0.644 Sum_probs=97.9
Q ss_pred CCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf 78379999642588667986999869999998345642026884530112430211015898772211047715999841
Q gi|254780183|r 4 SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGS 83 (159)
Q Consensus 4 ~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Gr 83 (159)
|||+|+|+||||+|||+|++++|.++++|+||+++++++ +.|+||+|++||+ +||++.+||+||++|+|+|+
T Consensus 2 smN~V~LiGrLg~DpElr~t~sG~~v~~fslAv~~~~k~-------~~t~w~~v~~wgk-~Ae~~~~yl~KG~~V~V~G~ 73 (121)
T PRK07459 2 SLNSVTLVGRAGRDPEVRYFESGSVVCNLTLAVNRRSRD-------DEPDWFNLEIWGK-TAQVAADYVKKGSLIGITGS 73 (121)
T ss_pred CEEEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCCCC-------CCCCEEEEEEECH-HHHHHHHHHCCCCEEEEEEE
T ss_conf 701899999667696188979997899999984675357-------7874999999890-89999887368989999999
Q ss_pred CCCCCCCCCC-CCEEEEEEEEEEEEEECCCCCCCC
Q ss_conf 3333320468-837688999997769846677766
Q gi|254780183|r 84 LQTRKWQDQS-GNNRYTTEIIMRSMVMLDGRRDSL 117 (159)
Q Consensus 84 l~~~~~~~kd-G~~r~~~~V~a~~i~~l~~~~~~~ 117 (159)
|++++|+||+ |++|+.++|+|++|+||+++....
T Consensus 74 l~~~~w~dk~~G~~r~~~~V~v~~i~fl~~k~~~~ 108 (121)
T PRK07459 74 LKFDRWTDRNTGEDRSKPVIRVDRLELLGSKRDSE 108 (121)
T ss_pred EECCCCEECCCCEEEEEEEEEEEEEEECCCCCCCC
T ss_conf 86542475789989999999996999836886555
No 16
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=100.00 E-value=6.2e-34 Score=222.40 Aligned_cols=109 Identities=27% Similarity=0.568 Sum_probs=101.2
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 83799996425886679869998699999983456420268845301124302110158987722110477159998413
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
||+|+|+|||++|||||++++|.++++|+||++++|++..+ ++.|+||+|++||+ +||++++||+||++|+|+|||
T Consensus 2 mN~V~LiGrl~~dpelr~t~~G~~~~~f~lAv~r~~~~~~g---~~~tdf~~~~~w~k-~Ae~~~~yl~KG~~V~v~Grl 77 (112)
T PRK06752 2 MNRVVLIGRLTKEPELYYTKQGVAYARVCVAVNRGFRNSLG---EQQVDFINCVVWRK-SAENVTEYCTKGSLVGITGRI 77 (112)
T ss_pred CEEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEECCCC---CEEEEEEEEEEECH-HHHHHHHHHCCCCEEEEEEEE
T ss_conf 30899999678686699989997899999961364487889---78789999999965-898999984799999999999
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCC
Q ss_conf 333320468837688999997769846677766
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSL 117 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~~~~ 117 (159)
++++|++++|++|+.++|+|++|.||+++....
T Consensus 78 ~~~~y~~~~G~~~~~~eVvv~~v~fL~~k~~~~ 110 (112)
T PRK06752 78 HTSNYEDDQGKRIYRTEVVIESITFLERRREGA 110 (112)
T ss_pred ECCCEECCCCCEEEEEEEEEEEEEECCCCCCCC
T ss_conf 846109999979999999999999775787778
No 17
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=100.00 E-value=4.2e-33 Score=217.44 Aligned_cols=111 Identities=43% Similarity=0.753 Sum_probs=94.8
Q ss_pred CCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf 78379999642588667986999869999998345642026884530112430211015898772211047715999841
Q gi|254780183|r 4 SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGS 83 (159)
Q Consensus 4 ~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Gr 83 (159)
.||+|+|+|||++|||+|++++|..++.+++|++++|.++.+++..+.|+||+|++||+ +|+++++||+||++|+|+|+
T Consensus 2 ~~Nkv~LvG~l~~DPE~r~t~~g~~~v~~~~~a~~r~~~~~~~~~~~~t~~~~vv~wgk-~Ae~~~~yl~KG~~V~VeG~ 80 (167)
T COG0629 2 MMNKVILVGRLTRDPELRYTPNGGAVVALFSAAVNRRFDNQSGERDEETDWIRVVIWGK-LAENAAEYLKKGSLVYVEGR 80 (167)
T ss_pred CCCEEEEEEEECCCHHHEECCCCCCEEEEEEEEECCCCCCCCCCCCCCCCEEEEEEECH-HHHHHHHHHCCCCEEEEEEE
T ss_conf 75339998850468110353688813799998722421156766567652699999823-88999997478878999999
Q ss_pred CCCCCCCCCCCCEE----EEEEEEEEEEEECCCCCC
Q ss_conf 33333204688376----889999977698466777
Q gi|254780183|r 84 LQTRKWQDQSGNNR----YTTEIIMRSMVMLDGRRD 115 (159)
Q Consensus 84 l~~~~~~~kdG~~r----~~~~V~a~~i~~l~~~~~ 115 (159)
|++++|++++|++| +.+++++..+.+|+++..
T Consensus 81 l~~~~~~~~~G~~r~~~~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 81 LQTRKWEDQEGQKRYQTEIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EEEEEEECCCCCCCEEEEEEEEEEECCEEECCCCCC
T ss_conf 888777578898531479988996111154266665
No 18
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=100.00 E-value=1.4e-32 Score=214.33 Aligned_cols=138 Identities=19% Similarity=0.374 Sum_probs=112.1
Q ss_pred CEEEEEEEECCCCEEEECCCCC----EEEEEEEEECCCCCCCCCCCEEEC-EEEECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 3799996425886679869998----699999983456420268845301-12430211015898772211047715999
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGR----KIVNIRIATSDSWKDRVTNERREK-TEWHSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~----~v~~f~va~~~~~~~~~~~~~~d~-t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
|.++=.||||+|||||+|++|. .+++|+||++++|+++. ++|+|. +.||+|+|||+ +||++++||+||++|+|
T Consensus 3 ~~~~~~GNLg~DPElR~tp~G~~~~~~v~~~~va~~~~~~~~~-g~~~d~~~~W~~V~~Wg~-~AE~~a~~L~KG~~V~V 80 (148)
T PRK08182 3 THFIGEGNIGSAPEYREFPNGNDEPRRLLRLNVYFDNPVPTKD-GEYEDRGGFWAPVELWHR-DAEHWARLYQKGMRVLV 80 (148)
T ss_pred CCEECCCCCCCCCCEEECCCCCCCCEEEEEEEEEECCCEECCC-CCEEECCCEEEEEEEEHH-HHHHHHHHHCCCCEEEE
T ss_conf 3267143457897526779998652369999988558518589-988966647999998736-99999998738998999
Q ss_pred EECCCCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 84133333204688376889999977698466777666677777777667776556666667654
Q gi|254780183|r 81 EGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGEEQRSEQHSNNLKENVVGNRYSSPRE 145 (159)
Q Consensus 81 ~Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 145 (159)
+|||++++|+|+||++|++++|+|++|.||.++.......................+...+.|..
T Consensus 81 ~Grl~~~~W~dkdG~~R~~~eV~Ad~v~~l~~r~e~~~~~~~~~~~~~~~~p~~q~~~~~~~p~~ 145 (148)
T PRK08182 81 EGRMERDEWTDNEDNERVTFKVEARRVGILPYRIESVTLSPKPAQTEQEAEPKPQAAQESTAPKE 145 (148)
T ss_pred EEEEEECCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 98986013477999878899999868883467564564288877656778998887878889877
No 19
>TIGR00621 ssb single-strand binding protein; InterPro: IPR011344 All proteins in this family, for which functions are known, are single-stranded DNA-binding proteins that function in many processes including transcription, repair, replication and recombination. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). ; GO: 0003697 single-stranded DNA binding, 0006260 DNA replication.
Probab=99.98 E-value=8.2e-32 Score=209.76 Aligned_cols=111 Identities=46% Similarity=0.855 Sum_probs=104.3
Q ss_pred CCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf 77837999964258866798699986999999834564202688453011243021101589877221104771599984
Q gi|254780183|r 3 ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEG 82 (159)
Q Consensus 3 ~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~G 82 (159)
+++|+|+|+|||++|||||++++|.+|+.|+||++++|+++.+|+++++++||+|++|++.+||.+.+||+||.+|+|+|
T Consensus 1 ~~~n~v~lvG~l~~dpe~ry~~~G~~v~~~~~a~~~~~~~~~~G~~~~~~~~~~~~~~~~~~ae~~~~yl~kG~~v~~eG 80 (180)
T TIGR00621 1 RGVNKVILVGRLGRDPELRYLPSGNAVANFTLATNRRWKDQDTGEWKEETEWHDIVLFGRGLAEVAGQYLKKGSLVYVEG 80 (180)
T ss_pred CCCCEEEEEECCCCCCEEEEECCCCEEEEEEEEECCEEECCCCCCCCCCEEEEEEEEECCHHHHHHHHHHCCCEEEEEEE
T ss_conf 98742788722688804777058971688885310102147777755330378888646514677876522450578720
Q ss_pred CCCCCCCCCCCCCEEEEEEEEEEEEEECCCC
Q ss_conf 1333332046883768899999776984667
Q gi|254780183|r 83 SLQTRKWQDQSGNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 83 rl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~ 113 (159)
+|++++|++++|++|+.++|+|+.+.++...
T Consensus 81 ~l~~~~w~~~~G~~r~~~~i~~~~~~~~~~~ 111 (180)
T TIGR00621 81 RLRTRKWEDQNGQDRSKTEIVADNVQLLDLL 111 (180)
T ss_pred EEECCCCCCCCCCCEEEEEEEECCEEEEEEC
T ss_conf 1102210122687204678886220234323
No 20
>PRK05853 hypothetical protein; Validated
Probab=99.97 E-value=8.8e-31 Score=203.64 Aligned_cols=101 Identities=22% Similarity=0.392 Sum_probs=93.3
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEE-CEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 379999642588667986999869999998345642026884530-1124302110158987722110477159998413
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERRE-KTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d-~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
+.|+|+|||++|||+|++.+ ..+++||||++++|++ ..|+|+| .|.||+|+||| ++|++++.+|+||++|+|+|||
T Consensus 4 t~VTlvGnl~~DPe~R~t~~-~~v~~FrvAsn~Rr~~-~~G~W~dg~t~f~~V~~Wg-~LAenv~~sL~KG~pViV~GRL 80 (168)
T PRK05853 4 TPITVVGHIVNDPQRRKVGD-QEVIKFRVASNSRRRT-ADGGWEPGNSLFITVNCWG-RLVTGVGAALGKGAPVIVVGHV 80 (168)
T ss_pred CEEEEEEECCCCCEEEECCC-CCEEEEEEEECCCEEC-CCCCEEECCCEEEEEEEEH-HHHHHHHHHCCCCCEEEEEEEE
T ss_conf 75999996687977887099-7489999986786787-8898882783699999828-9999998640599989999998
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEE
Q ss_conf 3333204688376889999977698
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMVM 109 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~~ 109 (159)
++++|++++|++|+.++|+|+.|..
T Consensus 81 ~~r~we~kdG~kRs~~eI~A~~VGp 105 (168)
T PRK05853 81 YTSEYEDRDGNRRSSLEMRATSVGP 105 (168)
T ss_pred ECCCCCCCCCCEEEEEEEEEEEECC
T ss_conf 7651286899888899999988754
No 21
>pfam00436 SSB Single-strand binding protein family. This family includes single stranded binding proteins and also the primosomal replication protein N (PriB). PriB forms a complex with PriA, PriC and ssDNA.
Probab=99.97 E-value=2e-30 Score=201.46 Aligned_cols=104 Identities=42% Similarity=0.766 Sum_probs=98.1
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 83799996425886679869998699999983456420268845301124302110158987722110477159998413
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
||+|+|+|||++|||+|++++|.++|+|+||++++|++.. +++++.|+||+|++||+ +|+++++||+||++|+|+|+|
T Consensus 1 mN~v~l~G~l~~dpe~r~~~~g~~~~~f~va~~~~~~~~~-~~~~~~t~~~~v~~~g~-~A~~~~~~l~KG~~V~V~G~l 78 (104)
T pfam00436 1 MNKVILVGRLTRDPELRYTPNGNAVANFTLAVNRRFKDQN-GESDEETDFIRVVVWGK-LAENAAEYLKKGSLVYVEGRL 78 (104)
T ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEEEECCCCCC-CCCCCCCEEEEEEECCH-HHHHHHHCCCCCCEEEEEEEE
T ss_conf 9699999990569899996899889999999960213467-87024558998773054-465431227899799999997
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEEC
Q ss_conf 33332046883768899999776984
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMVML 110 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~~l 110 (159)
+.++|++++|++|+.++|+|++|.||
T Consensus 79 ~~~~~~~~~G~~r~~~~v~~~~i~~l 104 (104)
T pfam00436 79 RTRKYEDQEGQKRYVTEIVADNVQFL 104 (104)
T ss_pred EEEEEECCCCCEEEEEEEEEEEEEEC
T ss_conf 81137999998999999999999949
No 22
>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=99.94 E-value=2.6e-26 Score=176.99 Aligned_cols=100 Identities=42% Similarity=0.809 Sum_probs=93.5
Q ss_pred EEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf 99996425886679869998699999983456420268845301124302110158987722110477159998413333
Q gi|254780183|r 8 VILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTR 87 (159)
Q Consensus 8 v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~ 87 (159)
|+|+|||++||++|++++|..+++|+||++++|+++. ++++.|+||+|++||+ +|+++++||+||++|+|+|+|+++
T Consensus 1 v~l~G~l~~dp~~~~~~~g~~~~~f~va~~~~~~~~~--~~~~~t~~~~v~~wg~-~A~~~~~~l~KG~~V~V~G~l~~~ 77 (100)
T cd04496 1 VILIGRLGKDPELRYTPSGTPVARFSLAVNRRRKDRD--EEEEETDWIRVVAFGK-LAENAAKYLKKGDLVYVEGRLRTR 77 (100)
T ss_pred CEEEEECCCCCEEEECCCCCEEEEEEEEECCCCCCCC--CCCCCCEEEEEEEECH-HHHHHHHHCCCCCEEEEEEEEECC
T ss_conf 9999983889889997999889999999857440467--7213419999999970-898778753799889999998812
Q ss_pred CCCCCCCCEEEEEEEEEEEEEEC
Q ss_conf 32046883768899999776984
Q gi|254780183|r 88 KWQDQSGNNRYTTEIIMRSMVML 110 (159)
Q Consensus 88 ~~~~kdG~~r~~~~V~a~~i~~l 110 (159)
+|++++|++++.++|+|++|.++
T Consensus 78 ~~~~~~g~~~~~~~i~a~~i~~l 100 (100)
T cd04496 78 SWEDKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred EEECCCCCEEEEEEEEEEEEEEC
T ss_conf 37999998999999999999949
No 23
>KOG1653 consensus
Probab=99.76 E-value=7e-19 Score=132.78 Aligned_cols=111 Identities=35% Similarity=0.608 Sum_probs=97.1
Q ss_pred CCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCC--CCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 7783799996425886679869998699999983456420--26884530112430211015898772211047715999
Q gi|254780183|r 3 ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKD--RVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 3 ~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~--~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
.++|+|+|.|++|.||-+|...+|.+|+-|+|+++..|+. ...+.|-..|+||+|.+|+..+|+.+.+|++||++++|
T Consensus 53 ~~vnkv~lvG~VGqdPl~k~~rngrpVtiFsv~T~~~~k~r~~q~g~~~~~tqWHRVsVf~~~L~d~~~k~lkKGsriyv 132 (175)
T KOG1653 53 RGVNKVILVGRVGQDPLQKILRNGRPVTIFSVGTGGMFKQRLYQAGDQPQPTQWHRVSVFNEVLADYALKYLKKGSRIYV 132 (175)
T ss_pred CCCCEEEEECCCCCCHHHHHHCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCEEEEEEEECCHHHHHHHHHHCCCCEEEE
T ss_conf 34116999713352368885237970899995158520145544677678540579986180688999997447977999
Q ss_pred EECCCCCC-CCCCCCCE-EEEEEEEEEEEEECCCC
Q ss_conf 84133333-20468837-68899999776984667
Q gi|254780183|r 81 EGSLQTRK-WQDQSGNN-RYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 81 ~Grl~~~~-~~~kdG~~-r~~~~V~a~~i~~l~~~ 113 (159)
+|+|.++- ++|+.|+. +..+.|+|++|.||...
T Consensus 133 eG~iey~g~~~d~~g~~~r~~t~iIa~~v~Fl~~a 167 (175)
T KOG1653 133 EGKIEYRGENDDIQGNVKRIPTIIIARDVSFLIDA 167 (175)
T ss_pred EEEEEEEEEECCCCCCEEECCEEEEECHHHHHHHH
T ss_conf 65677620003666735531337772011898887
No 24
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.44 E-value=5.1e-14 Score=103.81 Aligned_cols=99 Identities=23% Similarity=0.435 Sum_probs=86.1
Q ss_pred CCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf 78379999642588667986999869999998345642026884530112430211015898772211047715999841
Q gi|254780183|r 4 SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGS 83 (159)
Q Consensus 4 ~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Gr 83 (159)
.-|+|.|-|+|++.|..|.||=|..++-+-|||||.|. +++|++|.|||+ .|.+++ .|..|+.|-|+||
T Consensus 106 ~~NqIfLdGyICK~PVYR~TPlGREIaDiLlAVNR~Y~---------KSDYIPcI~WGr-nArfa~-~l~VG~~i~iwGR 174 (217)
T PRK05813 106 NPNEIFLDGFICKEPVYRTTPFGREIADLLLAVNRPYN---------KSDYIPTIAWGR-NARFCK-TLEVGDNIRVWGR 174 (217)
T ss_pred CCCEEEEEEEECCCCEECCCCCCHHHHHHHHHHCCCCC---------CCCCCEEEEECC-CHHHHH-HCCCCCEEEEEEE
T ss_conf 86649880376278620269884257777645067678---------777301778422-256674-2466875999996
Q ss_pred CCCCCCCCC--CC--CEEEEEEEEEEEEEECCCC
Q ss_conf 333332046--88--3768899999776984667
Q gi|254780183|r 84 LQTRKWQDQ--SG--NNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 84 l~~~~~~~k--dG--~~r~~~~V~a~~i~~l~~~ 113 (159)
|++|.|+.| ++ ++|..++|.+..+..++.-
T Consensus 175 iQSReY~Kki~e~e~~~r~AYEVSvsKmE~~~~~ 208 (217)
T PRK05813 175 LQSREYQKKISEGEVVTKVAYEVSISKMEKVEKE 208 (217)
T ss_pred EECHHHHHHCCCCCEEEEEEEEEEHHHHHHCCHH
T ss_conf 4005567523777368999999983263241333
No 25
>PRK02801 primosomal replication protein N; Provisional
Probab=98.59 E-value=1.2e-06 Score=60.04 Aligned_cols=98 Identities=16% Similarity=0.337 Sum_probs=75.0
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEE--ECCCCCHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf 83799996425886679869998699999983456420268845301124--3021101589877221104771599984
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEW--HSVIVFSEELCRIVEQYLRKGSKVYIEG 82 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~--~~v~~~g~~~Ae~~~~~l~KG~~V~V~G 82 (159)
.|++.|+|.|++.|.+|++|.|.+.+.|.|-... .+...+- .+-.| +.|++.|+. ++.+.+.++-|+.|.|+|
T Consensus 2 ~N~l~Lsg~v~~~~~lr~SPAGIp~~~f~LeH~S-~Q~EAg~---~Rqv~c~i~vv~~G~~-~~~~~~~l~~G~~v~v~G 76 (101)
T PRK02801 2 TNRLVLSGTVCRTPKRKVSPSGIPHCQFVLEHRS-VQEEAGF---LRQAWCQMPVIVSGHQ-FQAITQSITVGSEITVQG 76 (101)
T ss_pred CCEEEEEEEEEECCCEEECCCCCEEEEEEEEEEE-EEEECCC---CEEEEEEEEEEEEHHH-HHHHHHCCCCCCEEEEEE
T ss_conf 7489999999506731058997822899998778-8542798---2789999999996167-898750458998899999
Q ss_pred CCCCCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 13333320468837688999997769846
Q gi|254780183|r 83 SLQTRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 83 rl~~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
=|...+ .++|.. .+.+-|++|++++
T Consensus 77 FLa~~~--~rng~~--~LVLHa~~Ie~i~ 101 (101)
T PRK02801 77 FISCHK--GRNGLS--KLVLHAEQIELID 101 (101)
T ss_pred EEEECC--CCCCCC--CEEEEEEEEEECC
T ss_conf 984125--657874--3999902599819
No 26
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=97.83 E-value=0.00038 Score=45.01 Aligned_cols=100 Identities=20% Similarity=0.322 Sum_probs=73.2
Q ss_pred CCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEE--ECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 7783799996425886679869998699999983456420268845301124--30211015898772211047715999
Q gi|254780183|r 3 ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEW--HSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 3 ~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~--~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
--.|.+.|+|-+.+-|..|++++|-+.|.|-|-. +++...++-. +-.| +.+.+-|++ ++-+-.++..|+.+.|
T Consensus 2 ~~~Nrl~L~g~vak~~~r~~sPsGIphc~f~Leh-rs~q~Eag~~---RQv~~~mpv~vsG~q-a~~lt~~i~~Gs~i~v 76 (103)
T COG2965 2 NMTNRLSLSGTVAKVPVRRYSPSGIPHCQFVLEH-RSWQEEAGFQ---RQVWCEMPVRVSGRQ-AEELTQSITVGSYILV 76 (103)
T ss_pred CCCCEEEEEEEEEECCEEEECCCCCEEEEEEEEE-CCHHHHCCCC---EEEEEECCEEEECHH-HHHHHHCCCCCCEEEE
T ss_conf 7442456776531064050089998468999950-5256567851---169998017760445-5665422356648999
Q ss_pred EECCCCCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 8413333320468837688999997769846
Q gi|254780183|r 81 EGSLQTRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 81 ~Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
+|=|..-+- ++|-- .+.|-++.|.+++
T Consensus 77 ~GFla~~~~--~sg~~--~lvlha~qi~~id 103 (103)
T COG2965 77 VGFLACHKR--RSGLS--KLVLHAEQIEFID 103 (103)
T ss_pred EEEEEEECC--CCCCC--EEEEEEEEEEECC
T ss_conf 997776025--37861--7999800788339
No 27
>PRK00036 primosomal replication protein N; Reviewed
Probab=97.74 E-value=0.00042 Score=44.79 Aligned_cols=98 Identities=14% Similarity=0.239 Sum_probs=70.0
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEE-ECCCCCHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf 83799996425886679869998699999983456420268845301124-30211015898772211047715999841
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEW-HSVIVFSEELCRIVEQYLRKGSKVYIEGS 83 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~-~~v~~~g~~~Ae~~~~~l~KG~~V~V~Gr 83 (159)
||++.|.|.|..--.+||||.|.+++.|+|.... ..... |... ...+ +.++++|+ +|+.++. +.-|+.+.++|=
T Consensus 1 mN~l~Lta~i~e~e~LRYTPAGvPv~~~~L~H~S-~q~EA-G~~R-~V~~ei~Ava~G~-~A~~l~~-~~~G~~~~~~GF 75 (107)
T PRK00036 1 MNTLELSARVLECGAMRHTPAGLPALELLLVHES-EVVEA-GHPR-RVELTISAVALGD-LALLLAD-TPLGTEMQVQGF 75 (107)
T ss_pred CCEEEEEEEEEEECCCCCCCCCCEEEEEEEEEEE-EEEEC-CCEE-EEEEEEEEHHHHH-HHHHHHC-CCCCCEEEEEEE
T ss_conf 9669999999772331228987763898996310-22005-8704-8999987211378-9998625-699988999983
Q ss_pred CCCCCCCCCCCCEEEEEEEEEEEEEECCCC
Q ss_conf 333332046883768899999776984667
Q gi|254780183|r 84 LQTRKWQDQSGNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 84 l~~~~~~~kdG~~r~~~~V~a~~i~~l~~~ 113 (159)
|-..+-..+ .+..-.++++++.+.
T Consensus 76 LA~ks~~s~------~lVfHIq~i~~~~g~ 99 (107)
T PRK00036 76 LAPARKDSV------KVKLHLQQARRIAGS 99 (107)
T ss_pred ECCCCCCCC------CEEEEEEEHHHHCCC
T ss_conf 122325898------479993601132587
No 28
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=97.34 E-value=0.0044 Score=38.71 Aligned_cols=97 Identities=22% Similarity=0.335 Sum_probs=74.7
Q ss_pred CCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf 78379999642588667986999869999998345642026884530112430211015898772211047715999841
Q gi|254780183|r 4 SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGS 83 (159)
Q Consensus 4 ~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Gr 83 (159)
-.|+|+|+|.|.++.+..+..=|--+-.|.|.++|-. +..+-+++.+- +++-+... +..|..|.|+|.
T Consensus 7 enN~V~~~G~i~s~~~fSHE~~GEgFY~~~l~V~RLS---------~~~D~ip~~vS-ERLi~~~~--~~~g~~i~v~GQ 74 (217)
T PRK05813 7 LNNKVYLEGKVVSELEFSHEMYGEGFYTFKLEVPRLS---------DSKDILNITVS-ERLLADMD--LKVGTEIIVEGQ 74 (217)
T ss_pred CCCEEEEEEEECCCCEEEEEEECCEEEEEEEEEECCC---------CCCCEEEEEEE-HHHHHCCC--CCCCCEEEEEEE
T ss_conf 1178999999835735734663342589999851146---------87433778977-43420011--357978999852
Q ss_pred CCCCCCCCCCCCEEEEEEEEEEEEEECCCC
Q ss_conf 333332046883768899999776984667
Q gi|254780183|r 84 LQTRKWQDQSGNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 84 l~~~~~~~kdG~~r~~~~V~a~~i~~l~~~ 113 (159)
+++-.-- .++..|-.+.|.|..+.+++..
T Consensus 75 ~RSYN~~-~~~~NrLiLtvF~Rei~~~~e~ 103 (217)
T PRK05813 75 LRSYNKF-IDGSNRLILTVFARNIEYCDER 103 (217)
T ss_pred EEECCCC-CCCCCEEEEEEEEEEEEECCCC
T ss_conf 4403366-7877449999987611621434
No 29
>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=96.53 E-value=0.0081 Score=37.12 Aligned_cols=69 Identities=23% Similarity=0.345 Sum_probs=52.0
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
+|++-|.+-. .|.|.+.+|+.+..|.|. |.|+=+.|+.|.+...+......+||+-|.|.|++..
T Consensus 1 nV~i~G~IF~-~E~relk~gk~i~~~~iT--------------D~t~Si~~K~F~~~~~~~~~~~~~~G~~v~v~G~v~~ 65 (82)
T cd04484 1 NVVVEGEVFD-LEIRELKSGRKILTFKVT--------------DYTSSITVKKFLRKDEKDKEELKSKGDWVRVRGKVQY 65 (82)
T ss_pred CEEEEEEEEE-EEEEECCCCCEEEEEEEE--------------ECCCCEEEEEEECCCHHHHHHHHCCCCEEEEEEEEEE
T ss_conf 9899999997-898972489899999998--------------0889799999835854445665258979999999963
Q ss_pred CCCC
Q ss_conf 3320
Q gi|254780183|r 87 RKWQ 90 (159)
Q Consensus 87 ~~~~ 90 (159)
++|.
T Consensus 66 D~f~ 69 (82)
T cd04484 66 DTFS 69 (82)
T ss_pred CCCC
T ss_conf 1787
No 30
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=96.11 E-value=0.043 Score=32.80 Aligned_cols=81 Identities=19% Similarity=0.325 Sum_probs=54.5
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 37999964258866798699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
.+|.++|-+.. ...+.|..|..++-++| .|.+.=+.|++|.+.++++ ...|.+|..|+|+|++.
T Consensus 279 ~~V~~~g~I~~-vr~~~TKkG~~MAfvtL--------------eD~tG~iEvvvFpe~ye~~-~~~L~~d~ivlv~Gkv~ 342 (447)
T PRK07373 279 TKVSAVVMLNG-VKKIVTKKGDPMAFLQL--------------EDLSGQSEAVVFPKSYERI-QELLQEDSRLIIWGKVD 342 (447)
T ss_pred CEEEEEEEEEE-EEEEECCCCCEEEEEEE--------------EECCCCEEEEEEHHHHHHH-HHHHCCCCEEEEEEEEE
T ss_conf 78999999999-99987048965999999--------------9789748999808999999-88733799899999999
Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 33320468837688999997769846
Q gi|254780183|r 86 TRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 86 ~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
.+ +|. ..++|+.+.-++
T Consensus 343 ~r-----d~~----~~liv~~i~~l~ 359 (447)
T PRK07373 343 RR-----DDQ----VQLIVEDAEPIE 359 (447)
T ss_pred EE-----CCC----EEEEEEECCCHH
T ss_conf 87-----893----789980035588
No 31
>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=95.98 E-value=0.052 Score=32.30 Aligned_cols=77 Identities=22% Similarity=0.410 Sum_probs=55.2
Q ss_pred EEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCC
Q ss_conf 99642588667986999869999998345642026884530112430211015898772211047715999841333332
Q gi|254780183|r 10 LIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKW 89 (159)
Q Consensus 10 l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~~ 89 (159)
|.| +..+...+.+.+|+.++-|+|- |.+..+.|++|.+.+ +....+|.+|..|+|.|++..+.
T Consensus 2 iaG-~I~~~k~~~tk~G~~~a~~tle--------------D~~g~~e~~~F~~~~-~~~~~~l~~~~~v~i~g~v~~~~- 64 (84)
T cd04485 2 VAG-LVTSVRRRRTKKGKRMAFVTLE--------------DLTGSIEVVVFPETY-EKYRDLLKEDALLLVEGKVERRD- 64 (84)
T ss_pred EEE-EEEEEEEEECCCCCEEEEEEEE--------------CCCCCEEEEECHHHH-HHHHHHHCCCCEEEEEEEEEEEC-
T ss_conf 899-9999899855799989999994--------------378749999969999-99888744698899999999969-
Q ss_pred CCCCCCEEEEEEEEEEEEEECC
Q ss_conf 0468837688999997769846
Q gi|254780183|r 90 QDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 90 ~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
| .+.+.|+.+.-|+
T Consensus 65 ----~----~~~l~~~~i~~l~ 78 (84)
T cd04485 65 ----G----GLRLIAERIEDLE 78 (84)
T ss_pred ----C----EEEEEEEEEEEHH
T ss_conf ----9----8999999946789
No 32
>pfam01336 tRNA_anti OB-fold nucleic acid binding domain. This family contains OB-fold domains that bind to nucleic acids. The family includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl -tRNA synthetases (See pfam00152). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule EC:6.1.1.-. This family also includes part of 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.
Probab=95.93 E-value=0.056 Score=32.13 Aligned_cols=74 Identities=20% Similarity=0.416 Sum_probs=50.8
Q ss_pred EEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf 99996425886679869998699999983456420268845301124302110158987722110477159998413333
Q gi|254780183|r 8 VILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTR 87 (159)
Q Consensus 8 v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~ 87 (159)
|+|.|.+.+-. .++..++.|.|. |.+.-+.|++|.+ ........++.|+.|.|.|+++..
T Consensus 1 v~v~G~V~~~~-----~~~~~~~~~~l~--------------D~tg~i~~~~~~~-~~~~~~~~l~~g~~v~v~G~v~~~ 60 (75)
T pfam01336 1 VTVAGRVTSVR-----RSGGKVAFLTLR--------------DGTGSIQVVLFKE-EAEKLAKKLKEGDVVLVTGKVKKR 60 (75)
T ss_pred CEEEEEEEEEE-----ECCCCEEEEEEE--------------ECCEEEEEEEEHH-HHHHHHHCCCCCCEEEEEEEEEEC
T ss_conf 99999999518-----879998999999--------------7993999999523-868886328989899999999997
Q ss_pred CCCCCCCCEEEEEEEEEEEEEE
Q ss_conf 3204688376889999977698
Q gi|254780183|r 88 KWQDQSGNNRYTTEIIMRSMVM 109 (159)
Q Consensus 88 ~~~~kdG~~r~~~~V~a~~i~~ 109 (159)
. .| .++|.++.+..
T Consensus 61 ~----~~----~~~i~~~~i~~ 74 (75)
T pfam01336 61 P----GG----ELELVVEEIEV 74 (75)
T ss_pred C----CC----CEEEEEEEEEE
T ss_conf 4----99----89999989997
No 33
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=95.71 E-value=0.13 Score=29.97 Aligned_cols=75 Identities=15% Similarity=0.274 Sum_probs=51.6
Q ss_pred EEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf 99996425886679869998699999983456420268845301124302110158987722110477159998413333
Q gi|254780183|r 8 VILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTR 87 (159)
Q Consensus 8 v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~ 87 (159)
|-+.|-|.+ ++...+|..+ |+|- |.. .-++|++|.. .+..+..-++-|+.|+|.|++..-
T Consensus 2 vwV~GEIs~---~~~~~sGh~Y--f~Lk------D~~--------a~i~~v~~~~-~~~~~~~~~~~G~~V~v~g~~~~y 61 (78)
T cd04489 2 VWVEGEISN---LKRPSSGHLY--FTLK------DED--------ASIRCVMWRS-NARRLGFPLEEGMEVLVRGKVSFY 61 (78)
T ss_pred EEEEEEECC---CEECCCCEEE--EEEE------CCC--------EEEEEEEEHH-HHHHCCCCCCCCCEEEEEEEEEEE
T ss_conf 899999885---5828996399--9994------788--------1999999667-883279998899899999999999
Q ss_pred CCCCCCCCEEEEEEEEEEEEEE
Q ss_conf 3204688376889999977698
Q gi|254780183|r 88 KWQDQSGNNRYTTEIIMRSMVM 109 (159)
Q Consensus 88 ~~~~kdG~~r~~~~V~a~~i~~ 109 (159)
. +.| .+.+.+++|+.
T Consensus 62 ~---~~G----~~ql~v~~i~~ 76 (78)
T cd04489 62 E---PRG----GYQLIVEEIEP 76 (78)
T ss_pred C---CCC----EEEEEEEEEEE
T ss_conf 8---984----09999999997
No 34
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=95.44 E-value=0.12 Score=30.19 Aligned_cols=77 Identities=17% Similarity=0.347 Sum_probs=55.0
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 83799996425886679869998699999983456420268845301124302110158987722110477159998413
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
+..|-+.|-|.+ ++...+|..| |+| +|.. .=++|++|.. .+..+.-.++-|+.|+|.|++
T Consensus 23 ~~~v~V~GEIS~---~~~~~sGH~Y--F~L------kD~~--------a~i~~v~~~~-~~~~l~~~~~~G~~V~v~g~i 82 (443)
T PRK00286 23 LGQVWVRGEISN---FTRPSSGHWY--FTL------KDEQ--------AQIRCVMFRG-SARRLKFKPEEGMQVLVRGKV 82 (443)
T ss_pred CCCEEEEEEECC---CEECCCCEEE--EEE------EECC--------CEEEEEEECC-HHHHCCCCCCCCCEEEEEEEE
T ss_conf 898999999646---6628996499--999------8189--------2899999928-475289999899999999999
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEE
Q ss_conf 333320468837688999997769
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMV 108 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~ 108 (159)
.. |. +.| .+.+.+++|+
T Consensus 83 ~~--Y~-~~g----~~ql~v~~i~ 99 (443)
T PRK00286 83 SV--YE-PRG----DYQLIVEDIE 99 (443)
T ss_pred EE--EC-CCC----CEEEEEEEEE
T ss_conf 89--86-886----1899997812
No 35
>PRK07892 consensus
Probab=95.18 E-value=0.21 Score=28.65 Aligned_cols=80 Identities=15% Similarity=0.269 Sum_probs=55.0
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
+|.+.|-+.. ...+.|.+|..++-++| .|.|.-+.|++|.+. =+.....|..|..|+|+|++..
T Consensus 1019 ~v~vaG~V~~-~~~~~TkkG~~maf~tl--------------eD~tG~~e~vvFp~~-y~~~~~~l~~~~~l~v~G~v~~ 1082 (1180)
T PRK07892 1019 QVTIGGIITS-VQRRVNKNGNPWAIATL--------------EDLDGSIEVLFFPQT-YSVVGAQLVEDAVVLVKGRVSR 1082 (1180)
T ss_pred EEEEEEEEEE-EEECCCCCCCEEEEEEE--------------EECCCCEEEEECHHH-HHHHHHHHCCCCEEEEEEEEEE
T ss_conf 8999999978-88541789998999999--------------979986899986899-9999998635987999999998
Q ss_pred CCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 3320468837688999997769846
Q gi|254780183|r 87 RKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 87 ~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
+ +| ...++|+.+..++
T Consensus 1083 ~-----~~----~~~li~~~i~~~~ 1098 (1180)
T PRK07892 1083 R-----DD----RISLFANDLTVPD 1098 (1180)
T ss_pred E-----CC----EEEEEEEEEECHH
T ss_conf 8-----99----7899999722545
No 36
>PRK08957 consensus
Probab=95.06 E-value=0.16 Score=29.33 Aligned_cols=80 Identities=18% Similarity=0.300 Sum_probs=52.8
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
.|.+.|-+.. ...+.|..|..++-++| .|.|.-+.|++|-+.+ +.....|.+|..|+|+|++..
T Consensus 992 ~v~v~G~i~~-~~~~~tkkg~~maf~~l--------------eD~tg~~e~vvfp~~~-~~~~~~l~~~~~~~v~G~v~~ 1055 (1159)
T PRK08957 992 VTTAAGLVVA-ARVMVTKRGNRIGICTL--------------DDRSGRLEVMLFTDAL-EKYQHLLEKDRILIVSGQVSF 1055 (1159)
T ss_pred EEEEEEEEEE-EEECCCCCCCEEEEEEE--------------EECCCCEEEEECHHHH-HHHHHHHCCCCEEEEEEEEEE
T ss_conf 8999999999-77557899898899999--------------9899868999978999-999998626987999999986
Q ss_pred CCCCCCCCCEEEEEEEEEEEEEE
Q ss_conf 33204688376889999977698
Q gi|254780183|r 87 RKWQDQSGNNRYTTEIIMRSMVM 109 (159)
Q Consensus 87 ~~~~~kdG~~r~~~~V~a~~i~~ 109 (159)
+.+. |. ..|+|+.+.-
T Consensus 1056 ~~~~---~~----~~~~~~~~~~ 1071 (1159)
T PRK08957 1056 DDFS---GG----LKMTAREVMD 1071 (1159)
T ss_pred ECCC---CC----EEEEEEECCC
T ss_conf 0579---96----2699986576
No 37
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=95.05 E-value=0.21 Score=28.74 Aligned_cols=81 Identities=20% Similarity=0.290 Sum_probs=54.5
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
+|.+.|-+.. ...+.|..|..++-++| .|.|.-+.|++|-+.++++ ...|..|..|+|+|++..
T Consensus 998 ~V~vaG~i~~-~k~~~TkkG~~maf~tl--------------eD~tG~~e~vvFp~~y~~~-~~~l~~~~~l~v~G~v~~ 1061 (1157)
T PRK06826 998 RVIVGGIITE-VKRKVTRNNDMMAFITL--------------EDLYGTIEVIVFPKVYEKY-RSLLNEDEIVLIKGRVSL 1061 (1157)
T ss_pred EEEEEEEEEE-EEECCCCCCCEEEEEEE--------------EECCCCEEEEECHHHHHHH-HHHHCCCCEEEEEEEEEE
T ss_conf 8999999988-77531799997899999--------------9689868999988999999-987425988999999996
Q ss_pred CCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 3320468837688999997769846
Q gi|254780183|r 87 RKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 87 ~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
+. |+ ...|+|++|..|+
T Consensus 1062 r~-----~~---~~~li~~~v~~l~ 1078 (1157)
T PRK06826 1062 RE-----DE---QPKLICEEIEPLE 1078 (1157)
T ss_pred EC-----CC---CEEEEEEECCCHH
T ss_conf 07-----98---4589975133367
No 38
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=94.88 E-value=0.13 Score=29.97 Aligned_cols=72 Identities=22% Similarity=0.363 Sum_probs=54.2
Q ss_pred CCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH--HHHHHHHHHCCCCCEEEEE
Q ss_conf 78379999642588667986999869999998345642026884530112430211015--8987722110477159998
Q gi|254780183|r 4 SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE--ELCRIVEQYLRKGSKVYIE 81 (159)
Q Consensus 4 ~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~--~~Ae~~~~~l~KG~~V~V~ 81 (159)
.+..|++.|.+-. .|+|.+.+|..+.+|.|. |.|+=+.|++|.+ ...+.+ .-++||+-|.|.
T Consensus 233 ~~~~v~v~G~vf~-~e~~~~k~g~~i~~~~it--------------D~t~si~~k~f~~~~~~~~~~-~~i~~g~~v~v~ 296 (1436)
T PRK00448 233 EERRVVVEGYVFK-KEIKELKSGRHILTFKIT--------------DYTSSITVKKFLRDKEDLKKF-DEIKKGDWVKVR 296 (1436)
T ss_pred CCCEEEEEEEEEE-EEEEECCCCCEEEEEEEE--------------ECCCCEEEEEECCCCCHHHHH-HHCCCCCEEEEE
T ss_conf 2581899999986-674431579879999998--------------268868999944763327898-516799789999
Q ss_pred ECCCCCCCCC
Q ss_conf 4133333204
Q gi|254780183|r 82 GSLQTRKWQD 91 (159)
Q Consensus 82 Grl~~~~~~~ 91 (159)
|++..++|..
T Consensus 297 g~~~~d~~~~ 306 (1436)
T PRK00448 297 GSVQNDTFTR 306 (1436)
T ss_pred EEEEECCCCC
T ss_conf 9985126777
No 39
>PRK07211 replication factor A; Reviewed
Probab=94.73 E-value=0.36 Score=27.35 Aligned_cols=67 Identities=19% Similarity=0.297 Sum_probs=29.3
Q ss_pred CEEEEEEEECCCCEEEECC--CCC--EEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf 3799996425886679869--998--699999983456420268845301124302110158987722110477159998
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQ--DGR--KIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIE 81 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~--~g~--~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~ 81 (159)
|++.|.|.+..--++|++. +|. .|.+++|. |.|.=++|.+||++ |. ..+.+|+.|.+.
T Consensus 280 ~t~~IaG~V~~~~~~RtF~r~DGS~G~VRNi~i~--------------DdTG~IRVaLWGek-Ad---~~i~~GD~v~~~ 341 (473)
T PRK07211 280 ETADIAGVVRSADPKRTFDRDDGSEGQVRNVRLQ--------------DDTGDIRVALWGEK-AD---LDIGPGDEVAAA 341 (473)
T ss_pred CEEEEEEEEEECCCCCEEECCCCCCCEEEEEEEE--------------CCCCCEEEEEECCC-CC---CCCCCCCEEEEE
T ss_conf 6677888997368860336589985326769973--------------68884789986410-13---678888579997
Q ss_pred ECCCCCCCC
Q ss_conf 413333320
Q gi|254780183|r 82 GSLQTRKWQ 90 (159)
Q Consensus 82 Grl~~~~~~ 90 (159)
--=..+-|.
T Consensus 342 ~~~~~~G~~ 350 (473)
T PRK07211 342 DVEIQDGWQ 350 (473)
T ss_pred EEEEECCCC
T ss_conf 756533665
No 40
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=94.56 E-value=0.14 Score=29.85 Aligned_cols=77 Identities=18% Similarity=0.318 Sum_probs=54.4
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 83799996425886679869998699999983456420268845301124302110158987722110477159998413
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
|-.|-+.|-|.+ ++...||..+ |+| + |..--++|++|.. ....+.--++-|+.|+|.|++
T Consensus 23 ~~~V~v~GEISn---~t~~~sgH~Y--FtL------K--------D~~A~i~c~mf~~-~~~~l~f~p~eG~~V~v~G~i 82 (440)
T COG1570 23 LGQVWVRGEISN---FTRPASGHLY--FTL------K--------DERAQIRCVMFKG-NNRRLKFRPEEGMQVLVRGKI 82 (440)
T ss_pred CCEEEEEEEECC---CCCCCCCCEE--EEE------C--------CCCCEEEEEEECC-CCCCCCCCCCCCCEEEEEEEE
T ss_conf 785999999637---7668886079--997------1--------6771689999747-000268786679889999778
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEE
Q ss_conf 333320468837688999997769
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMV 108 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~ 108 (159)
.... ..| .+.|+++.+.
T Consensus 83 s~Y~---~rG----~YQi~~~~~~ 99 (440)
T COG1570 83 SLYE---PRG----DYQIVAESME 99 (440)
T ss_pred EEEC---CCC----CEEEEEECCC
T ss_conf 8876---988----5699983278
No 41
>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=94.43 E-value=0.051 Score=32.38 Aligned_cols=74 Identities=12% Similarity=0.267 Sum_probs=53.5
Q ss_pred EECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCC
Q ss_conf 42588667986999869999998345642026884530112430211015898772211047715999841333332046
Q gi|254780183|r 13 NLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQ 92 (159)
Q Consensus 13 ~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~~~~k 92 (159)
.|.++.+++++.+|+++..++|+ |+|--+.+.+|.. ..+. ...+..|+.|.|.|++..-. +
T Consensus 4 fli~~~~~~~tk~G~~Yl~l~L~--------------D~tG~I~ak~W~~-~~~~-~~~~~~g~~V~v~G~v~~y~--g- 64 (83)
T cd04492 4 FLIKSKELRTAKNGKPYLALTLQ--------------DKTGEIEAKLWDA-SEED-EEKFKPGDIVHVKGRVEEYR--G- 64 (83)
T ss_pred EEEEEHHHHCCCCCCCEEEEEEE--------------CCCCEEEEEECCC-CHHH-HHCCCCCCEEEEEEEEEEEC--C-
T ss_conf 99998010005799917899998--------------7887688888578-8678-83078999999999998889--9-
Q ss_pred CCCEEEEEEEEEEEEEECC
Q ss_conf 8837688999997769846
Q gi|254780183|r 93 SGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 93 dG~~r~~~~V~a~~i~~l~ 111 (159)
.+.|.+.+|..+.
T Consensus 65 ------~~Ql~I~~i~~~~ 77 (83)
T cd04492 65 ------RLQLKIQRIRLVT 77 (83)
T ss_pred ------CEEEEEEEEEECC
T ss_conf ------5108998968998
No 42
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=94.31 E-value=0.42 Score=26.89 Aligned_cols=79 Identities=20% Similarity=0.301 Sum_probs=54.5
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
.|.+.|-+.. ...+.|..|..++-++| .|.|.-+.|++|-+. -+.....|..|..|+|+|++..
T Consensus 981 ~v~vaG~v~~-~~~~~TkkG~~maf~tl--------------eD~tg~~e~vvfp~~-~~~~~~~l~~~~~~~v~G~v~~ 1044 (1143)
T PRK05673 981 AVTVAGLIVS-VRVRVTKRGNKMAIVTL--------------EDRSGRIEVMLFSEA-LEEYRDLLEEDRIVVVKGQVSF 1044 (1143)
T ss_pred EEEEEEEEEE-EEECCCCCCCEEEEEEE--------------EECCCCEEEEECHHH-HHHHHHHHCCCCEEEEEEEEEE
T ss_conf 9999999989-78511799898999999--------------989984899997999-9999998526987999999996
Q ss_pred CCCCCCCCCEEEEEEEEEEEEEEC
Q ss_conf 332046883768899999776984
Q gi|254780183|r 87 RKWQDQSGNNRYTTEIIMRSMVML 110 (159)
Q Consensus 87 ~~~~~kdG~~r~~~~V~a~~i~~l 110 (159)
+ +| ...|+|+++.-|
T Consensus 1045 ~-----~~----~~~l~~~~i~~l 1059 (1143)
T PRK05673 1045 D-----DF----GLRLTAREVMDL 1059 (1143)
T ss_pred E-----CC----EEEEEEEECCCH
T ss_conf 0-----98----689999974048
No 43
>PRK06658 consensus
Probab=94.26 E-value=0.39 Score=27.14 Aligned_cols=78 Identities=17% Similarity=0.229 Sum_probs=53.1
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 37999964258866798699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
..|.+.|-|.. ...+.|.+|..++-++| .|.|.-+.|++|.+. =+.....|.+|..|+|+|++.
T Consensus 979 ~~v~v~G~i~~-~~~~~tk~g~~maf~~l--------------eD~tg~~e~~~fp~~-~~~~~~~l~~~~~~~v~g~~~ 1042 (1145)
T PRK06658 979 SIYQFVGILNS-VKVIQTKRGAKMAFGVF--------------EDLKGAIDIVVFPES-WERHRAFLLPETVIGVVGRLT 1042 (1145)
T ss_pred CEEEEEEEEEE-EEECCCCCCCEEEEEEE--------------EECCCCEEEEECHHH-HHHHHHHHCCCCEEEEEEEEE
T ss_conf 88999999988-67435799997899999--------------968986899997899-999999853499899999999
Q ss_pred CCCCCCCCCCEEEEEEEEEEEEE
Q ss_conf 33320468837688999997769
Q gi|254780183|r 86 TRKWQDQSGNNRYTTEIIMRSMV 108 (159)
Q Consensus 86 ~~~~~~kdG~~r~~~~V~a~~i~ 108 (159)
.+. + ...++++.+.
T Consensus 1043 ~~~-----~----~~~~~~~~~~ 1056 (1145)
T PRK06658 1043 FNR-----E----KFSFLVDKVV 1056 (1145)
T ss_pred EEC-----C----EEEEEEEECC
T ss_conf 518-----8----3689986535
No 44
>PRK06637 consensus
Probab=94.13 E-value=0.39 Score=27.10 Aligned_cols=81 Identities=22% Similarity=0.358 Sum_probs=53.2
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 37999964258866798699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
++|.+.|=+.. ...+.|..|. ++-|+| .|.|.-+.|++|.+.+-+.....|.++..|+|+|+++
T Consensus 1024 ~~v~vaG~v~~-~q~~~t~~G~-~~~~~l--------------eD~tG~~e~~vf~~~~~~~~~~ll~~~~~~vv~g~~~ 1087 (1182)
T PRK06637 1024 NRVNLAGVIQK-KDSRMSARGR-FVTLVL--------------SDPENIFELSIFSEEVLKDYVHLLDVKSLVVVNCDIV 1087 (1182)
T ss_pred EEEEEEEEEEE-EEEECCCCCC-EEEEEE--------------EECCCCEEEEEECHHHHHHHHHHHCCCCEEEEEEEEE
T ss_conf 07999999966-1443278886-899999--------------9689868999958799999999855598799999988
Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 33320468837688999997769846
Q gi|254780183|r 86 TRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 86 ~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
.+. | .+.++|+.|.-|+
T Consensus 1088 ~~~-----g----~~~~~a~~~~~l~ 1104 (1182)
T PRK06637 1088 KDE-----G----GIKLTAKSFSSIE 1104 (1182)
T ss_pred ECC-----C----CEEEEEEECCCHH
T ss_conf 648-----9----4289997538899
No 45
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=93.41 E-value=0.65 Score=25.77 Aligned_cols=81 Identities=20% Similarity=0.329 Sum_probs=53.9
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 37999964258866798699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
..+.+.|.|.. .....|.+|..++-++|. |.|.-+.|++|-+.+ +.....|++|..|+|+|++.
T Consensus 944 ~~~~~~g~i~~-~~~~~tk~g~~maf~~le--------------D~tg~~e~vvFp~~~-~~~~~~l~~~~~~~v~G~v~ 1007 (1107)
T PRK06920 944 KVQRAIVYITS-VKVIRTKKGQKMAFITFC--------------DQNDEMEAVVFPETY-IHFSDKLQEGAIVLVDGTIE 1007 (1107)
T ss_pred CEEEEEEEEEE-EEEEECCCCCEEEEEEEE--------------ECCCCEEEEECHHHH-HHHHHHHCCCCEEEEEEEEE
T ss_conf 88999999988-898636889969999999--------------799868999997999-99999853698799999999
Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 33320468837688999997769846
Q gi|254780183|r 86 TRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 86 ~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
.+. +. ..++++.+..++
T Consensus 1008 ~~~-----~~----~~~~~~~~~~~~ 1024 (1107)
T PRK06920 1008 LRN-----HK----LQWIVNGLYPLE 1024 (1107)
T ss_pred EEC-----CC----CEEEEEEEEEHH
T ss_conf 767-----95----307988643067
No 46
>PRK09074 consensus
Probab=92.65 E-value=0.85 Score=25.10 Aligned_cols=81 Identities=22% Similarity=0.302 Sum_probs=56.1
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 37999964258866798699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
..|.+.|-+.. ...+.|.+|..++-++| .|.|.-+.|++|.+.+ +.....|..|..|+|+|++.
T Consensus 988 ~~v~vaG~v~~-~~~~~tk~G~~maf~tl--------------eD~tg~~e~vvfp~~~-~~~~~~l~~~~~~~v~g~v~ 1051 (1149)
T PRK09074 988 TAGRLAGTVVS-RQERKTKTGNKMGIVQL--------------SDPTGQFEAVLFSEGL-AQYRDLLEPGKAVLITVDAE 1051 (1149)
T ss_pred EEEEEEEEEEE-EEECCCCCCCEEEEEEE--------------EECCCCEEEEECHHHH-HHHHHHHCCCCEEEEEEEEE
T ss_conf 49999999999-88535899997899999--------------9799858999988999-99999862799899999999
Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 33320468837688999997769846
Q gi|254780183|r 86 TRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 86 ~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
.+. + .+.++|++|.-|+
T Consensus 1052 ~~~-----~----~~~~~~~~~~~l~ 1068 (1149)
T PRK09074 1052 LRG-----E----GVRLRIQTVEPLD 1068 (1149)
T ss_pred ECC-----C----CEEEEEEEEECHH
T ss_conf 549-----9----3699998703499
No 47
>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with
Probab=92.47 E-value=0.83 Score=25.15 Aligned_cols=82 Identities=12% Similarity=0.193 Sum_probs=51.0
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHH-HHHHHCCCCCEEEEEECCC
Q ss_conf 799996425886679869998699999983456420268845301124302110158987-7221104771599984133
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCR-IVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae-~~~~~l~KG~~V~V~Grl~ 85 (159)
+|+|.|.+-+ +|.. .+..++.+| |++..+.|++-.+...+ ..+..|+.++.|.|+|.++
T Consensus 1 kV~l~GWV~~---~R~~-g~l~Fi~LR----------------D~~G~iQ~V~~~~~~~~~~~~~~l~~Es~v~V~G~v~ 60 (84)
T cd04323 1 RVKVFGWVHR---LRSQ-KKLMFLVLR----------------DGTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVK 60 (84)
T ss_pred CEEEEEEEEE---EECC-CCCEEEEEE----------------ECCEEEEEEECCCCCCHHHHHHHCCCCEEEEEEEEEE
T ss_conf 9999998998---6238-992899995----------------0887999998886573689997388835999999999
Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 33320468837688999997769846
Q gi|254780183|r 86 TRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 86 ~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
.+. +..+.-..+||.++.+..|.
T Consensus 61 ~~~---~~~~~~~~~Ei~~~~i~vl~ 83 (84)
T cd04323 61 EDP---RAKQAPGGYELQVDYLEIIG 83 (84)
T ss_pred ECC---CCCCCCCCEEEEEEEEEEEC
T ss_conf 789---77779975999943999963
No 48
>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=92.40 E-value=0.64 Score=25.82 Aligned_cols=61 Identities=26% Similarity=0.468 Sum_probs=43.8
Q ss_pred EEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECE-EEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf 9964258866798699986999999834564202688453011-243021101589877221104771599984133333
Q gi|254780183|r 10 LIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKT-EWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRK 88 (159)
Q Consensus 10 l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t-~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~ 88 (159)
+.|.+..-.+.+. +..++.|.|. |.+ ..+.|.+|++ .++.....++.|..|.|.|.++...
T Consensus 2 i~g~V~~~~~~~~---~~~~~~~~l~--------------D~t~~~i~v~~~~~-~~~~~~~~~~~g~~v~i~g~v~~~~ 63 (75)
T cd03524 2 IVGIVVAVEEIRT---EGKVLIFTLT--------------DGTGGTIRVTLFGE-LAEELENLLKEGQVVYIKGKVKKFR 63 (75)
T ss_pred EEEEEEEEEEEEC---CCEEEEEEEE--------------CCCCCEEEEEEEEE-HHHHHHHHHHCCCEEEEEEEEEECC
T ss_conf 7899999842003---8649999997--------------69997999999988-2576877874782999980365236
No 49
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=92.29 E-value=0.18 Score=29.09 Aligned_cols=72 Identities=11% Similarity=0.207 Sum_probs=49.1
Q ss_pred ECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCC
Q ss_conf 25886679869998699999983456420268845301124302110158987722110477159998413333320468
Q gi|254780183|r 14 LGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQS 93 (159)
Q Consensus 14 l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~~~~kd 93 (159)
|.++-+++++.+|+++..++|+ | +|--+++.+|.. .+.....+..|+.|.|.|++. .|.
T Consensus 19 lv~~~~~~~tknG~~Yl~l~L~------D--------~tG~I~ak~W~~--~~~~~~~~~~g~~V~v~G~v~--~y~--- 77 (314)
T PRK13480 19 LIKSATKGVASNGKPFLTLILQ------D--------KSGDIEAKLWDV--SKEDEATYVPETIVHVKGDII--NYR--- 77 (314)
T ss_pred EEEECHHHCCCCCCCEEEEEEE------C--------CCCEEEEEECCC--CHHHHHHCCCCCEEEEEEEEE--EEC---
T ss_conf 9987143318999814799998------3--------787688996789--866686378998899999998--768---
Q ss_pred CCEEEEEEEEEEEEEEC
Q ss_conf 83768899999776984
Q gi|254780183|r 94 GNNRYTTEIIMRSMVML 110 (159)
Q Consensus 94 G~~r~~~~V~a~~i~~l 110 (159)
| .+.+.+..+..+
T Consensus 78 g----~~Ql~i~~i~~~ 90 (314)
T PRK13480 78 G----RKQLKVNQIRLA 90 (314)
T ss_pred C----CCCEEEEEEEEC
T ss_conf 9----862588885767
No 50
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=92.07 E-value=0.73 Score=25.48 Aligned_cols=79 Identities=14% Similarity=0.247 Sum_probs=51.5
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
+|.+.|-+.. .....|.+|..++-++| .|.|.-+.|++|.+. =+.....|.+|..|+|+|++..
T Consensus 1003 ~v~v~g~v~~-~~~~~Tk~G~~maf~tl--------------eD~tg~~evvvFp~~-y~~~~~~l~~~~~l~v~G~v~~ 1066 (1171)
T PRK07374 1003 KVSVIAMIPE-MRQVTTRKGDRMAILQL--------------EDLTGSCEAVVFPKT-YARLSDHLMTDTRLLVWASVDR 1066 (1171)
T ss_pred EEEEEEEEEE-EEECCCCCCCEEEEEEE--------------EECCCCEEEEECHHH-HHHHHHHHCCCCEEEEEEEEEE
T ss_conf 8999999976-25267789996899999--------------989986899997899-9999998512987999999997
Q ss_pred CCCCCCCCCEEEEEEEEEEEEEEC
Q ss_conf 332046883768899999776984
Q gi|254780183|r 87 RKWQDQSGNNRYTTEIIMRSMVML 110 (159)
Q Consensus 87 ~~~~~kdG~~r~~~~V~a~~i~~l 110 (159)
.+| .+.++|+.+.-+
T Consensus 1067 -----~~~----~~~li~~~~~~~ 1081 (1171)
T PRK07374 1067 -----RDD----RVQLIIDDCREI 1081 (1171)
T ss_pred -----ECC----EEEEEEHHHCCH
T ss_conf -----899----899995431259
No 51
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=91.73 E-value=0.93 Score=24.85 Aligned_cols=78 Identities=17% Similarity=0.420 Sum_probs=52.1
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 37999964258866798699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
..+.+.|.+.. ...+.|.+|..++-++| .|.|.-+.|++|.+. =+.....|..|..|+|+|++.
T Consensus 885 ~~~~~~g~i~~-v~~~~tk~g~~maf~tl--------------eD~tg~ie~vvFp~~-y~~~~~~l~~~~~v~v~G~v~ 948 (1033)
T PRK07279 885 SEATILVQIQS-IRIIRTKTGQQMAFLSV--------------NDTKKKLDVTLFPET-YRQYKDELKEGKFYYLKGKIQ 948 (1033)
T ss_pred CCCEEEEEEEE-EEEEECCCCCEEEEEEE--------------EECCCCEEEEECHHH-HHHHHHHHCCCCEEEEEEEEE
T ss_conf 96279999988-89987798996999999--------------989986899986799-999999853598899999999
Q ss_pred CCCCCCCCCCEEEEEEEEEEEEE
Q ss_conf 33320468837688999997769
Q gi|254780183|r 86 TRKWQDQSGNNRYTTEIIMRSMV 108 (159)
Q Consensus 86 ~~~~~~kdG~~r~~~~V~a~~i~ 108 (159)
.+ +|+ ..++++.+.
T Consensus 949 ~r-----~~~----~~li~~~i~ 962 (1033)
T PRK07279 949 ER-----DGR----LQMVLQQIQ 962 (1033)
T ss_pred EE-----CCE----EEEEHHHHH
T ss_conf 65-----998----999876412
No 52
>PRK07012 consensus
Probab=91.65 E-value=1.1 Score=24.38 Aligned_cols=77 Identities=16% Similarity=0.316 Sum_probs=47.0
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
.+++.|-|.. ...+.|..|+ ++-++| .|.|.-+.|++|.+. =+.....|.++..|+|+|+++.
T Consensus 985 ~~~vaG~v~~-~~~~~tk~G~-maf~tl--------------eD~tg~~ev~vfp~~-~~~~~~~l~~~~~l~v~G~v~~ 1047 (1173)
T PRK07012 985 DKVVAGVIAS-LRTQMTQRGK-MVIALL--------------DDGTGQCEITVFNEQ-FEANRALFKEDELLIVQGQARN 1047 (1173)
T ss_pred EEEEEEEEEE-EEECCCCCCC-EEEEEE--------------EECCCCEEEEECHHH-HHHHHHHHCCCCEEEEEEEEEE
T ss_conf 1699999988-6878888777-899999--------------979987899997899-9999998621987999999996
Q ss_pred CCCCCCCCCEEEEEEEEEEEE
Q ss_conf 332046883768899999776
Q gi|254780183|r 87 RKWQDQSGNNRYTTEIIMRSM 107 (159)
Q Consensus 87 ~~~~~kdG~~r~~~~V~a~~i 107 (159)
+.|. |. ..++|+.|
T Consensus 1048 d~~~---g~----~~~~a~~i 1061 (1173)
T PRK07012 1048 DAFT---GG----IRFTAESV 1061 (1173)
T ss_pred ECCC---CC----EEEEEEEC
T ss_conf 0578---86----58997301
No 53
>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=91.32 E-value=0.78 Score=25.33 Aligned_cols=65 Identities=17% Similarity=0.203 Sum_probs=47.5
Q ss_pred CCCEEEEEEEECCCCEEEECCCC---CEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 78379999642588667986999---869999998345642026884530112430211015898772211047715999
Q gi|254780183|r 4 SLNKVILIGNLGADPDVRHTQDG---RKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 4 ~mN~v~l~G~l~~dPelr~~~~g---~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
-+++-+|-||++.--++|...++ ..+.+|.| .|..++ =++|++|++ +++.....|..|.--++
T Consensus 8 ~~~~w~Ik~RV~~Ks~ir~~~n~~g~gk~f~~~L------~De~g~-------eI~at~f~~-~~dkf~~~l~~G~vY~i 73 (104)
T cd04474 8 YQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDL------LDEDGG-------EIRATFFND-AVDKFYDLLEVGKVYYI 73 (104)
T ss_pred CCCCEEEEEEEEECCCCCCEECCCCCCEEEEEEE------EECCCC-------EEEEEEEHH-HHHHHHHHCCCCCEEEE
T ss_conf 8674599999971577503506899735999999------989989-------899999069-99987733432879999
Q ss_pred EE
Q ss_conf 84
Q gi|254780183|r 81 EG 82 (159)
Q Consensus 81 ~G 82 (159)
.+
T Consensus 74 s~ 75 (104)
T cd04474 74 SK 75 (104)
T ss_pred EC
T ss_conf 56
No 54
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=88.54 E-value=2 Score=22.82 Aligned_cols=54 Identities=15% Similarity=0.239 Sum_probs=39.7
Q ss_pred EECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCEEEEEEEEEEEEEECCC
Q ss_conf 3011243021101589877221104771599984133333204688376889999977698466
Q gi|254780183|r 49 REKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDG 112 (159)
Q Consensus 49 ~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~~ 112 (159)
.|.|..+.|++|-+ .-+.....|++|..|+|+|++.. ++| ...|+|+.|.=|+.
T Consensus 984 eD~tG~ievvvFp~-~y~~~~~~l~~~~vllV~G~v~~-----~~~----~~~lia~~i~~l~~ 1037 (1050)
T PRK05672 984 EDETGMVNVVVWPG-LWERQRREALGARLLLVRGRVQN-----AEG----VRHLVADRLEDLSP 1037 (1050)
T ss_pred EECCCCEEEEECHH-HHHHHHHHHCCCCEEEEEEEEEE-----ECC----EEEEEEEEEECHHH
T ss_conf 86897389999889-99999998522987999999997-----699----79999834024146
No 55
>PRK12366 replication factor A; Reviewed
Probab=88.10 E-value=1.5 Score=23.67 Aligned_cols=66 Identities=20% Similarity=0.397 Sum_probs=28.4
Q ss_pred CCEEEEEEEECCCCEEEECC--CCC--EEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 83799996425886679869--998--69999998345642026884530112430211015898772211047715999
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQ--DGR--KIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~--~g~--~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
|..|.++|++..=-++|++. .|. .|+++.+|= .|--++++.|.+ .|+.+. -+++|+-+-|
T Consensus 73 ~~~V~~~gkV~~Isd~rtF~r~dGs~GrV~nl~VaD--------------eTG~iRltLWdd-~a~li~-~le~GdvikI 136 (649)
T PRK12366 73 QKNVEITGKIIEISNIKEFNRKDGSTGKVASITIGD--------------NTGIIRLTLWND-KTKLIE-GLKEGDVIKI 136 (649)
T ss_pred CCCEEEEEEEEEEECCCEEECCCCCCCEEEEEEEEC--------------CCCCEEEEEECC-HHHHHH-CCCCCCEEEE
T ss_conf 652389999988505610442689852489999973--------------789689998603-345763-5677758998
Q ss_pred EECCCC
Q ss_conf 841333
Q gi|254780183|r 81 EGSLQT 86 (159)
Q Consensus 81 ~Grl~~ 86 (159)
.|+..-
T Consensus 137 ~g~~~r 142 (649)
T PRK12366 137 ENAFSR 142 (649)
T ss_pred CCCCCC
T ss_conf 463121
No 56
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=87.66 E-value=2.2 Score=22.58 Aligned_cols=71 Identities=21% Similarity=0.292 Sum_probs=53.0
Q ss_pred CCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH--HHHHHHHHHCCCCCEEEEE
Q ss_conf 78379999642588667986999869999998345642026884530112430211015--8987722110477159998
Q gi|254780183|r 4 SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE--ELCRIVEQYLRKGSKVYIE 81 (159)
Q Consensus 4 ~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~--~~Ae~~~~~l~KG~~V~V~ 81 (159)
.|+.|++.|.|=. .|.+.+.||..+.+|.|- | .+.=+.|..|-+ ..++.. ..++||+.|-|.
T Consensus 238 ~~~~v~v~G~IF~-~e~~~~ksGr~l~~i~vT------D--------~t~Sl~~k~f~~~~ed~~~~-~~ik~g~wvk~~ 301 (1444)
T COG2176 238 EETRVKVEGYIFK-IEIKELKSGRTLLNIKVT------D--------YTSSLILKKFLRDEEDEKKF-DGIKKGMWVKAR 301 (1444)
T ss_pred CCCCEEEEEEEEE-EEEEECCCCCEEEEEEEE------C--------CCHHEEEHHHCCCCCCHHHH-HHCCCCCEEEEE
T ss_conf 1110589999988-764322468679999986------2--------71003202122666318888-623338479999
Q ss_pred ECCCCCCCC
Q ss_conf 413333320
Q gi|254780183|r 82 GSLQTRKWQ 90 (159)
Q Consensus 82 Grl~~~~~~ 90 (159)
|.+..+.+.
T Consensus 302 g~v~~d~f~ 310 (1444)
T COG2176 302 GNVQLDTFT 310 (1444)
T ss_pred EEEEECCCC
T ss_conf 788733555
No 57
>TIGR00643 recG ATP-dependent DNA helicase RecG; InterPro: IPR004609 The ATP-dependent DNA helicase RecG 3.6.1 from EC plays a critical role in recombination and DNA repair. It helps to process Holliday junction intermediates to mature products by catalysing branch migration. RecG has DNA unwinding activity characteristic of a DNA helicase with 3' to 5' polarity.; GO: 0004003 ATP-dependent DNA helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=86.95 E-value=2 Score=22.94 Aligned_cols=73 Identities=19% Similarity=0.429 Sum_probs=48.3
Q ss_pred EEEEEEEEC-----CCC---EEE----ECCC-CCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCC
Q ss_conf 799996425-----886---679----8699-986999999834564202688453011243021101589877221104
Q gi|254780183|r 7 KVILIGNLG-----ADP---DVR----HTQD-GRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLR 73 (159)
Q Consensus 7 ~v~l~G~l~-----~dP---elr----~~~~-g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~ 73 (159)
++++.|.+. ..| .+. .... .....+++|-..+. ...+...+|++....++.+.++
T Consensus 46 ~~~~~~~V~~~~~~~~~~~~~~~Pedl~~~~~~~~~l~~~~~~~~~------------~~~~~~~ffnrGf~~~~~~~f~ 113 (721)
T TIGR00643 46 RVTVVGEVLEVIVSTEPKGRSLKPEDLIFGFKRRKVLKLRLKDGKG------------EKVLELRFFNRGFRAFLKKKFK 113 (721)
T ss_pred EEEEEEEEEEEEEECCCCCCCCCCHHHHHCCCCCCEEEEEEEECCC------------EEEEEEEEECCCHHHHHHHHCC
T ss_conf 9999999999999726788866721211014677536899997141------------4789999616661589997526
Q ss_pred CCCEEEEEECCCCCCCCC
Q ss_conf 771599984133333204
Q gi|254780183|r 74 KGSKVYIEGSLQTRKWQD 91 (159)
Q Consensus 74 KG~~V~V~Grl~~~~~~~ 91 (159)
+|+.|+|.|.++...|++
T Consensus 114 ~G~~v~~yG~~k~~~~~~ 131 (721)
T TIGR00643 114 VGSKVVVYGKVKSSKFED 131 (721)
T ss_pred CCCEEEEEEEEEECCHHH
T ss_conf 697999998776132021
No 58
>pfam11325 DUF3127 Protein of unknown function (DUF3127). This bacterial family of proteins has no known function.
Probab=86.83 E-value=2.5 Score=22.30 Aligned_cols=80 Identities=14% Similarity=0.333 Sum_probs=53.6
Q ss_pred EEEEECCC-CEEEE-CCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf 99642588-66798-69998699999983456420268845301124302110158987722110477159998413333
Q gi|254780183|r 10 LIGNLGAD-PDVRH-TQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTR 87 (159)
Q Consensus 10 l~G~l~~d-Pelr~-~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~ 87 (159)
|.|.|.+- |+... ..+|-..-.|-|-+...| +..+.+.+|+++ .+.+.. ++-|+.|-|.=.|+.|
T Consensus 2 i~Gkii~~l~~~~g~~k~GfkKrefVlet~~qY-----------p~~i~fe~~~dk-~~~~~~-~~vGd~V~V~fnl~gR 68 (84)
T pfam11325 2 IQGKIIKVLPETQGVGKNGWKKREFVLETEGQY-----------PQKICFEFWGDK-IDLLDS-LNVGDEVKVSFDLEGR 68 (84)
T ss_pred CCEEEEEEECCCCCCCCCCCEEEEEEEECCCCC-----------CCEEEEEEECCC-HHHHCC-CCCCCEEEEEEEEECC
T ss_conf 420899995560558489839889999269868-----------973899998367-567706-8999989999982536
Q ss_pred CCCCCCCCEEEEEEEEEEEE
Q ss_conf 32046883768899999776
Q gi|254780183|r 88 KWQDQSGNNRYTTEIIMRSM 107 (159)
Q Consensus 88 ~~~~kdG~~r~~~~V~a~~i 107 (159)
.|++ ||.+.|.|=+|
T Consensus 69 Ew~g-----kyf~~l~aWkI 83 (84)
T pfam11325 69 EWNG-----KWFNSLQAWRV 83 (84)
T ss_pred EECC-----EEEEEEEEEEE
T ss_conf 8154-----15150078971
No 59
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=84.23 E-value=3.5 Score=21.45 Aligned_cols=85 Identities=14% Similarity=0.274 Sum_probs=52.2
Q ss_pred CCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf 77837999964258866798699986999999834564202688453011243021101589877221104771599984
Q gi|254780183|r 3 ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEG 82 (159)
Q Consensus 3 ~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~G 82 (159)
...|.|.++|-|+..+-+ .....+.+++|+= .+| +-|+-.--|..- |..+..-+.+++.|.|.|
T Consensus 43 ~kvnRifivGtltek~~i---~ed~~~~R~rVvD-------pTG-----sF~Vyag~yqPE-a~a~l~~ve~~~~VaViG 106 (196)
T COG3390 43 LKVNRIFIVGTLTEKEGI---GEDREYWRIRVVD-------PTG-----SFYVYAGQYQPE-AKAFLEDVEVPDLVAVIG 106 (196)
T ss_pred HEEEEEEEEEEEEECCCC---CCCCCEEEEEEEC-------CCC-----CEEEECCCCCHH-HHHHHHHCCCCCEEEEEC
T ss_conf 200578999988713676---7753278999956-------886-----189982787957-899998556775477751
Q ss_pred CCCCCCCCCCCCCEEEEEEEEEEEE
Q ss_conf 1333332046883768899999776
Q gi|254780183|r 83 SLQTRKWQDQSGNNRYTTEIIMRSM 107 (159)
Q Consensus 83 rl~~~~~~~kdG~~r~~~~V~a~~i 107 (159)
.++ +|++.+|....+ |..+.|
T Consensus 107 Ki~--~y~~d~g~~~~s--iRpE~v 127 (196)
T COG3390 107 KIR--TYRTDEGVVLFS--IRPELV 127 (196)
T ss_pred CCC--EEECCCCCEEEE--ECHHHH
T ss_conf 321--021488836999--635773
No 60
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha subunit, Gram-positive type; InterPro: IPR006308 These are the polypeptide chains of DNA polymerase III. Full-length homologs of this protein are restricted to the Gram-positive lineages, including the Mycoplasmas. This protein is designated alpha chain and given the gene symbol polC, but is not a full-length homolog of other polC genes. The N-terminal region of about 200 amino acids is rich in low-complexity sequence and poorly alignable. ; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0005737 cytoplasm.
Probab=83.57 E-value=3.7 Score=21.28 Aligned_cols=88 Identities=16% Similarity=0.304 Sum_probs=64.1
Q ss_pred CCCCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH---HHHHHHHHHCCCCCEEE
Q ss_conf 778379999642588667986999869999998345642026884530112430211015---89877221104771599
Q gi|254780183|r 3 ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE---ELCRIVEQYLRKGSKVY 79 (159)
Q Consensus 3 ~~mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~---~~Ae~~~~~l~KG~~V~ 79 (159)
-.|++|.|.|.|=. .|.+.+.||..+.+|.|- |-..| . =+.|..|-+ -..+.+. .++||+.|-
T Consensus 5 ~~e~~~~~~G~iF~-~e~~~~ksgr~~~~i~~t------D~~~G----G--Sl~~k~F~~~~~eD~~~~~-~~K~~~wv~ 70 (1264)
T TIGR01405 5 EEENRVKVEGVIFK-IEIKELKSGRTLLKIKVT------DYTDG----G--SLILKKFLKSEKEDKEKFD-GIKIGKWVR 70 (1264)
T ss_pred CCCCEEEEEEEEEE-EECCCCCCCCEEEEEEEE------ECCCC----C--EEEEEEECCCCCCHHHHHH-HHCCCCCEE
T ss_conf 35344899999863-302335775279999987------31788----6--0688760489972057773-420377359
Q ss_pred EEECCCCCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 98413333320468837688999997769846
Q gi|254780183|r 80 IEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 80 V~Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
|+|.+..+... + .+.+.+..|.-+.
T Consensus 71 ~~g~~~~~~~~-~------~~~~~~~~I~~i~ 95 (1264)
T TIGR01405 71 VRGKIELDKFS-R------DLQMIIKDIEEIE 95 (1264)
T ss_pred EEEEEEEECCC-C------CCEEEEECCCCCC
T ss_conf 99988752212-0------0058775021246
No 61
>PRK06326 consensus
Probab=82.79 E-value=4 Score=21.09 Aligned_cols=65 Identities=8% Similarity=0.160 Sum_probs=42.0
Q ss_pred EEEEEEEECCCCEEEE-CCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 7999964258866798-699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 7 KVILIGNLGADPDVRH-TQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~-~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
.|.+.|-++. ...|. +.+|+.++-++| .|.|.=+.|++|.+.+ +.....|..|..|+|.|++.
T Consensus 1031 ~v~~~g~i~~-v~~r~~~k~~~~maf~tl--------------eD~tg~~e~vvfp~~y-~~~~~~l~~~~~~~v~g~v~ 1094 (1240)
T PRK06326 1031 VIRTVFIIDK-VTTKISSKEQKKFALLRV--------------SDGVDSYELPIWPDMY-AEQQDLLEEDRLIYAILVID 1094 (1240)
T ss_pred EEEEEEEEEE-EEEEEECCCCCEEEEEEE--------------EECCCCEEEEECHHHH-HHHHHHHCCCCEEEEEEEEE
T ss_conf 7999999846-899986799986999999--------------9689858999874999-99999862698899999998
Q ss_pred CC
Q ss_conf 33
Q gi|254780183|r 86 TR 87 (159)
Q Consensus 86 ~~ 87 (159)
.+
T Consensus 1095 ~~ 1096 (1240)
T PRK06326 1095 KR 1096 (1240)
T ss_pred EC
T ss_conf 33
No 62
>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein
Probab=80.77 E-value=4.7 Score=20.65 Aligned_cols=83 Identities=16% Similarity=0.262 Sum_probs=46.3
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
+|+|.|++.+ +| ..|. ++=+.| . |.. +.-| .+++-...+...-+.+...++.|+-|.|+|.+..
T Consensus 1 ~V~v~GrV~~---~R--~~G~-l~FidL-r-----D~~-g~iQ---v~~~~~~~~~~~~~~~~~~~~~gDvv~v~G~v~~ 64 (108)
T cd04322 1 EVSVAGRIMS---KR--GSGK-LSFADL-Q-----DES-GKIQ---VYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFK 64 (108)
T ss_pred CEEEEEEEEE---EE--CCCC-CEEEEE-E-----ECC-CCEE---EEEECCCCCHHHHHHHHHCCCCCEEEEEEEEEEC
T ss_conf 9899999984---70--6798-299999-9-----699-6189---9997564775677777634443449999978751
Q ss_pred CCCCCCCCCEEEEEEEEEEEEEECCCC
Q ss_conf 332046883768899999776984667
Q gi|254780183|r 87 RKWQDQSGNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 87 ~~~~~kdG~~r~~~~V~a~~i~~l~~~ 113 (159)
.+.|+ .+|.|+.+.+|...
T Consensus 65 ----t~tGe----l~v~~~~~~lLsk~ 83 (108)
T cd04322 65 ----TKTGE----LSIFVKEFTLLSKS 83 (108)
T ss_pred ----CCCCE----EEEEEEEHHCCCCC
T ss_conf ----79934----99996491200666
No 63
>cd04316 ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes.
Probab=80.65 E-value=4.8 Score=20.63 Aligned_cols=82 Identities=21% Similarity=0.315 Sum_probs=49.6
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH----HHHHHHHHHCCCCCEEEEE
Q ss_conf 379999642588667986999869999998345642026884530112430211015----8987722110477159998
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE----ELCRIVEQYLRKGSKVYIE 81 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~----~~Ae~~~~~l~KG~~V~V~ 81 (159)
.+|+|.|++-+ +|- .|. + .|-+- + |.+..+.|++-.+ .+-+.+ +.|..++-|.|.
T Consensus 13 ~~V~i~Gwv~~---~R~--~g~-~-~Fi~L-----R--------D~~G~vQ~v~~~~~~~~~~~~~~-~~l~~EsvV~V~ 71 (108)
T cd04316 13 EEVTVAGWVHE---IRD--LGG-I-KFVIL-----R--------DREGIVQVTAPKKKVDKELFKTV-RKLSRESVISVT 71 (108)
T ss_pred CEEEEEEEEEE---EEC--CCC-E-EEEEE-----E--------CCCEEEEEEEECCCCCHHHHHHH-HCCCCCEEEEEE
T ss_conf 99999899982---321--798-7-99999-----8--------09877999993788898999998-659994499999
Q ss_pred ECCCCCCCCCCCCCEEEEEEEEEEEEEECCCCC
Q ss_conf 413333320468837688999997769846677
Q gi|254780183|r 82 GSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRR 114 (159)
Q Consensus 82 Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~ 114 (159)
|.++.+.- .+. .+||.++.+.+|....
T Consensus 72 G~V~~~~~-~~~-----giEi~v~~i~ils~a~ 98 (108)
T cd04316 72 GTVKAEPK-APN-----GVEIIPEEIEVLSEAK 98 (108)
T ss_pred EEEEECCC-CCC-----CEEEEEEEEEEEECCC
T ss_conf 99994898-999-----6758964899985889
No 64
>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=80.03 E-value=3.1 Score=21.75 Aligned_cols=62 Identities=16% Similarity=0.314 Sum_probs=36.3
Q ss_pred EEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf 99964258866798699986999999834564202688453011243021101589877221104771599984133333
Q gi|254780183|r 9 ILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRK 88 (159)
Q Consensus 9 ~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~ 88 (159)
++.|.|.+-... ... +.......|. |.+.-+.|+.|+. -..+.+.++.|..|.|.|++....
T Consensus 1 ti~g~I~~~~~~-~~~-~r~~l~~~v~--------------D~tg~i~l~~Fn~--~~~~~~~~~~G~~v~v~Gkv~~~~ 62 (75)
T cd04488 1 TVEGTVVSVEVV-PRR-GRRRLKVTLS--------------DGTGTLTLVFFNF--QPYLKKQLPPGTRVRVSGKVKRFR 62 (75)
T ss_pred CEEEEEEEEEEE-CCC-CCEEEEEEEE--------------ECCCEEEEEEECC--CHHHHHHCCCCCEEEEEEEEEECC
T ss_conf 999999998854-589-9708999999--------------6998899999899--779995388999999999997139
No 65
>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=79.86 E-value=5.1 Score=20.47 Aligned_cols=86 Identities=17% Similarity=0.247 Sum_probs=49.5
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
+|+|.|.|.+-+.+ -++..++-+| |+.+ . -+.|+...+..+--.++.++.-+.|.|+|.++.
T Consensus 1 kVtL~GWv~~rrd~---~g~l~FidLR--------D~~G-~------~vQiV~~~~~~~~~~~~~~~~E~vV~V~G~V~~ 62 (86)
T cd04321 1 KVTLNGWIDRKPRI---VKKLSFADLR--------DPNG-D------IIQLVSTAKKDAFSLLKSITAESPVQVRGKLQL 62 (86)
T ss_pred CEEEEEEEEEEECC---CCCEEEEEEE--------CCCC-C------EEEEEECCCHHHHHHHHHCCCCCEEEEEEEEEE
T ss_conf 99999738745136---8986999998--------3999-9------999994897778899974899668999999997
Q ss_pred CCCCCCCCCEEEEEEEEEEEEEECCC
Q ss_conf 33204688376889999977698466
Q gi|254780183|r 87 RKWQDQSGNNRYTTEIIMRSMVMLDG 112 (159)
Q Consensus 87 ~~~~~kdG~~r~~~~V~a~~i~~l~~ 112 (159)
+.= ++..+--..||.+++|+.|.+
T Consensus 63 R~~--~~~~~tgeiEi~v~~i~iLNa 86 (86)
T cd04321 63 KEA--KSSEKNDEWELVVDDIQTLNA 86 (86)
T ss_pred CCC--CCCCCCCCEEEEEEEEEEECC
T ss_conf 898--899998789999839998167
No 66
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=78.06 E-value=5.8 Score=20.14 Aligned_cols=64 Identities=17% Similarity=0.266 Sum_probs=41.9
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
.|++.|.+.+-. ... ..++...++++.. .+.-+.+++|+. .| ++.+.+++|..|+|.|++..
T Consensus 62 ~vti~g~V~~~~-~~~-~~~~~~l~v~~~d--------------~~~~l~l~fFn~-~~-~l~~~~~~G~~v~v~Gk~~~ 123 (677)
T COG1200 62 IVTIEGTVLSHE-KFP-FGKRKLLKVTLSD--------------GTGVLTLVFFNF-PA-YLKKKLKVGERVIVYGKVKR 123 (677)
T ss_pred EEEEEEEEEEEE-CCC-CCCCCEEEEEEEC--------------CCEEEEEEEECC-CH-HHHHHCCCCCEEEEEEEEEE
T ss_conf 699999997640-257-7887349999962--------------968999999786-68-88841879988999998950
Q ss_pred CC
Q ss_conf 33
Q gi|254780183|r 87 RK 88 (159)
Q Consensus 87 ~~ 88 (159)
-.
T Consensus 124 ~~ 125 (677)
T COG1200 124 FK 125 (677)
T ss_pred CC
T ss_conf 36
No 67
>PRK08744 consensus
Probab=77.31 E-value=6.1 Score=20.01 Aligned_cols=41 Identities=12% Similarity=0.321 Sum_probs=32.2
Q ss_pred EECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCC
Q ss_conf 301124302110158987722110477159998413333320
Q gi|254780183|r 49 REKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQ 90 (159)
Q Consensus 49 ~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~~~ 90 (159)
.|.|.=+.|++|.+.+++ ....|.+|..|+|+|+++.+.|.
T Consensus 1049 eD~tg~~e~~vF~~~y~~-~~~~l~~d~~l~v~G~v~~d~~~ 1089 (1195)
T PRK08744 1049 EDGRGRVECSAFSDAMAE-FGHLLTRDRILIVKGGLREDEFN 1089 (1195)
T ss_pred EECCCCEEEEECHHHHHH-HHHHHCCCCEEEEEEEEEECCCC
T ss_conf 968973899987899999-99986149889999998603568
No 68
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=72.97 E-value=7.9 Score=19.34 Aligned_cols=68 Identities=16% Similarity=0.303 Sum_probs=44.2
Q ss_pred CCCCEEEEEEEECCCCEEEE--CCCCC-EEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEE
Q ss_conf 77837999964258866798--69998-6999999834564202688453011243021101589877221104771599
Q gi|254780183|r 3 ASLNKVILIGNLGADPDVRH--TQDGR-KIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVY 79 (159)
Q Consensus 3 ~~mN~v~l~G~l~~dPelr~--~~~g~-~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~ 79 (159)
.+|+.|.|+|++..--+.|. +..|. .|+.+.|| |.|-=+++++|+++ |+ .++.|+.|.
T Consensus 12 pg~~~V~v~~rVl~~~~~r~~~~~~g~~~V~~~~V~--------------DeTG~I~~tlWde~-~~----~i~~GD~V~ 72 (130)
T PRK06461 12 PGMRRVNVTGRVLEVGEPKVIQTKGGPRTISEAVVG--------------DETGRVKLTLWGDQ-AG----TLKEGEVVK 72 (130)
T ss_pred CCCCCEEEEEEEEECCCCCEEECCCCCEEEEEEEEE--------------CCCCEEEEEEECCC-CC----CCCCCCEEE
T ss_conf 998982699999976897278628996689999998--------------79986999994564-56----468999999
Q ss_pred EEECCCCCCCC
Q ss_conf 98413333320
Q gi|254780183|r 80 IEGSLQTRKWQ 90 (159)
Q Consensus 80 V~Grl~~~~~~ 90 (159)
|..--. +.|.
T Consensus 73 I~nayv-~~~~ 82 (130)
T PRK06461 73 IENAWT-TLYR 82 (130)
T ss_pred EECCEE-EEEC
T ss_conf 944798-8888
No 69
>cd04319 PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Pyrococcus horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The archeal enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose.
Probab=72.19 E-value=8.2 Score=19.23 Aligned_cols=81 Identities=17% Similarity=0.174 Sum_probs=48.3
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHH--HHHHCCCCCEEEEEECC
Q ss_conf 7999964258866798699986999999834564202688453011243021101589877--22110477159998413
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRI--VEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~--~~~~l~KG~~V~V~Grl 84 (159)
+|+|.|.+-+ +| ..|.. .|-.- .|++-++.|++-.+...+. .+..++.++.|.|.|.+
T Consensus 1 eV~l~GWV~~---~R--~~g~i--~Fi~L-------------RD~tG~iQ~v~~~~~~~~~~~~~~~l~~Es~v~v~G~v 60 (103)
T cd04319 1 KVTLAGWVYR---KR--EVGKK--AFIVL-------------RDSTGIVQAVFSKDLNEEAYREAKKVGIESSVIVEGAV 60 (103)
T ss_pred CEEEEEEEEE---EE--CCCCE--EEEEE-------------CCCCEEEEEEECCCCCHHHHHHHHHCCCEEEEEEEEEE
T ss_conf 9999999967---63--28977--99998-------------26982799998787797999999856863999997798
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEECCCC
Q ss_conf 33332046883768899999776984667
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~~l~~~ 113 (159)
+.+.-. + ...||.++.+++|...
T Consensus 61 ~~~~~~-~-----~giEi~~~~ieIl~~a 83 (103)
T cd04319 61 KADPRA-P-----GGAEVHGEKLEIIQNV 83 (103)
T ss_pred EECCCC-C-----CCEEEEEEEEEEEECC
T ss_conf 868999-9-----8788997289999858
No 70
>PRK08512 consensus
Probab=70.90 E-value=8.8 Score=19.05 Aligned_cols=66 Identities=14% Similarity=0.228 Sum_probs=45.0
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 37999964258866798699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
..|.+.|-|.. ...+.|.+|..++-++| .|.+.-+.|++|.+.++++ .. +.....|++.|++.
T Consensus 1009 ~~v~~~G~i~~-~~~~~tk~G~~~a~~~l--------------eD~~g~~e~~~F~~~y~~~-~~-~~~~~~~~~~~~~~ 1071 (1185)
T PRK08512 1009 SEALFVGKIED-IKKKISKKGKKFGIINI--------------LDFHGNIELMVFEKNLEEL-EE-NDLNKPYAFKVKIS 1071 (1185)
T ss_pred CEEEEEEEEEE-EEECCCCCCCEEEEEEE--------------EECCCCEEEEECCHHHHHH-HH-HCCCCCEEEEEEEE
T ss_conf 88999999978-67521799898999999--------------8489858999811999999-86-43258669999997
Q ss_pred CCC
Q ss_conf 333
Q gi|254780183|r 86 TRK 88 (159)
Q Consensus 86 ~~~ 88 (159)
.+.
T Consensus 1072 ~~~ 1074 (1185)
T PRK08512 1072 KEG 1074 (1185)
T ss_pred ECC
T ss_conf 517
No 71
>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=70.48 E-value=9 Score=18.99 Aligned_cols=62 Identities=19% Similarity=0.290 Sum_probs=41.3
Q ss_pred EEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH-HHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf 999642588667986999869999998345642026884530112430211015-8987722110477159998413333
Q gi|254780183|r 9 ILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE-ELCRIVEQYLRKGSKVYIEGSLQTR 87 (159)
Q Consensus 9 ~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~-~~Ae~~~~~l~KG~~V~V~Grl~~~ 87 (159)
.|.|.+...|+.. ..|..+ |.+-.+ +.-++|.+|-. +--..+.+.|..||.|.|.|-++..
T Consensus 2 ~~~G~V~~~P~~i--~GGHv~--~~v~~~--------------~~~i~~~afepTg~~r~~~r~L~~GD~I~v~G~v~~~ 63 (91)
T cd04482 2 RVTGKVVEEPRTI--EGGHVF--FKISDG--------------TGEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPG 63 (91)
T ss_pred EEEEEEECCEEEE--CCCEEE--EEEEEC--------------CCEEEEEEECCCCHHHHHHHHCCCCCEEEEEEEECCC
T ss_conf 8999997864895--287499--999939--------------9889999998775088999738999999999998789
Q ss_pred C
Q ss_conf 3
Q gi|254780183|r 88 K 88 (159)
Q Consensus 88 ~ 88 (159)
.
T Consensus 64 ~ 64 (91)
T cd04482 64 T 64 (91)
T ss_pred C
T ss_conf 8
No 72
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=70.00 E-value=9.2 Score=18.93 Aligned_cols=63 Identities=16% Similarity=0.289 Sum_probs=37.9
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 37999964258866798699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
..|++.|.+.+-. ....+....++.+. |.+.-+.++.|+. ..++.+.++.|+.|+|.|++.
T Consensus 59 e~vtI~g~V~~~~---~~~~~r~~l~v~v~--------------D~tG~I~lvfFn~--~pyl~k~l~~G~~v~VsGKV~ 119 (677)
T PRK10917 59 EKVTVEGTVLSAE---VYFGPRRRLRVTLS--------------DGTGVLTLVFFNN--QPYLKKQLKVGKRVAVYGKVK 119 (677)
T ss_pred CEEEEEEEEEEEE---CCCCCCCEEEEEEE--------------ECCEEEEEEEECC--CHHHHHHCCCCCEEEEEEEEE
T ss_conf 8799999999984---37789724999999--------------8987999999898--478996389999899999998
Q ss_pred CC
Q ss_conf 33
Q gi|254780183|r 86 TR 87 (159)
Q Consensus 86 ~~ 87 (159)
..
T Consensus 120 ~~ 121 (677)
T PRK10917 120 RG 121 (677)
T ss_pred EE
T ss_conf 55
No 73
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=67.60 E-value=10 Score=18.63 Aligned_cols=82 Identities=15% Similarity=0.188 Sum_probs=50.4
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH-HHHHHH-HHHCCCCCEEEEEEC
Q ss_conf 379999642588667986999869999998345642026884530112430211015-898772-211047715999841
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE-ELCRIV-EQYLRKGSKVYIEGS 83 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~-~~Ae~~-~~~l~KG~~V~V~Gr 83 (159)
-+|+|-|.+-+ +| .+|. ..|-+- .|.+.++.|++-.. ...+.+ +..|..++.|.|+|.
T Consensus 17 ~~V~v~GWV~~---~R--~~g~--i~Fi~l-------------rDgsg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~ 76 (435)
T COG0017 17 QEVTVRGWVHN---KR--DLGK--IIFLVL-------------RDGSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGI 76 (435)
T ss_pred CEEEEEEEEEE---EC--CCCC--EEEEEE-------------ECCCCEEEEEEECCCCCHHHHHHHCCCCCCEEEEEEE
T ss_conf 57999988755---00--1587--089999-------------7588379999977877176766631787658999999
Q ss_pred CCCCCCCCCCCCEEEEEEEEEEEEEECCCC
Q ss_conf 333332046883768899999776984667
Q gi|254780183|r 84 LQTRKWQDQSGNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 84 l~~~~~~~kdG~~r~~~~V~a~~i~~l~~~ 113 (159)
++.+.= ....+||.++.|..+...
T Consensus 77 v~~~~~------a~~g~El~v~~i~Vl~~a 100 (435)
T COG0017 77 VKASPK------APQGFELQVEKIEVLGEA 100 (435)
T ss_pred EECCCC------CCCCEEEEEEEEEEEECC
T ss_conf 974889------998779988788994046
No 74
>pfam11506 DUF3217 Protein of unknown function (DUF3217). This family of proteins with unknown function appears to be restricted to Mycoplasma. Some members in this family of proteins are annotated as MG376 however this cannot be confirmed.
Probab=67.32 E-value=8.3 Score=19.21 Aligned_cols=89 Identities=21% Similarity=0.185 Sum_probs=53.5
Q ss_pred CCEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf 83799996425886679869998699999983456420268845301124302110158987722110477159998413
Q gi|254780183|r 5 LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 5 mN~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
+|.|.|-|-|-+-..- +.. +-|-|....... - | .+--|+|+-+-+-| ++|=-+..|.+|=.-+.|+|.|
T Consensus 2 ln~vflegeies~~ws-~kk-----tgflvtikqkr~--f-g-er~ftd~~v~yang-qla~ele~~t~k~ktisiegil 70 (104)
T pfam11506 2 LNCVFLEGEIESSCWS-HKK-----TGFLVTIKQKRF--F-G-ERLFTDFFVFYANG-QLAFELEAHTKKFKTISIEGIL 70 (104)
T ss_pred CCEEEEECEEHHHHCC-CCC-----CEEEEEEEEHHH--H-C-CEEEEEEEEEEECC-EEEHHHHHHHHHCEEEEEEEEH
T ss_conf 5168662313144222-267-----338999961223--3-2-12101699999888-6203588866430479986521
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEE
Q ss_conf 33332046883768899999776
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSM 107 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i 107 (159)
++.. +.+.+.= .+.|.+..|
T Consensus 71 rtyl-ekks~iw--kttie~vki 90 (104)
T pfam11506 71 RTYL-EKKSEIW--KTTIEIVKI 90 (104)
T ss_pred HHHH-HHHHHHH--HHEEEEEEE
T ss_conf 3787-7766664--424687762
No 75
>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=61.95 E-value=13 Score=17.99 Aligned_cols=75 Identities=19% Similarity=0.220 Sum_probs=43.1
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH--HHHHHHHHHCCCCCEEEEEECC
Q ss_conf 79999642588667986999869999998345642026884530112430211015--8987722110477159998413
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE--ELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~--~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
+|+|+|.+.+ +...+ ..+.|+| .|.|-.+.|..|-. ...+.....++-|+.|-|.|.|
T Consensus 1 ~V~~VG~V~~---v~~~~---t~~~y~i--------------dDgTG~i~~~~w~~~~~~~~~~~~~i~~g~YVrV~G~l 60 (95)
T cd04478 1 QVTLVGVVRN---VEEQS---TNITYTI--------------DDGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNL 60 (95)
T ss_pred CEEEEEEEEE---EEECC---CEEEEEE--------------ECCCCCEEEEEECCCCCCCCCCCCCCCCCCEEEEEEEE
T ss_conf 9899999998---77725---5799999--------------87987399999637787642224433269899999998
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEEC
Q ss_conf 33332046883768899999776984
Q gi|254780183|r 85 QTRKWQDQSGNNRYTTEIIMRSMVML 110 (159)
Q Consensus 85 ~~~~~~~kdG~~r~~~~V~a~~i~~l 110 (159)
+.-. |++. |.+-.|.-+
T Consensus 61 k~f~-----~~~~----I~~~~irpv 77 (95)
T cd04478 61 KSFQ-----GKKS----IMAFSIRPV 77 (95)
T ss_pred EEEC-----CEEE----EEEEEEEEE
T ss_conf 0028-----9137----999999993
No 76
>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=60.46 E-value=13 Score=18.05 Aligned_cols=39 Identities=15% Similarity=0.255 Sum_probs=24.8
Q ss_pred ECEEEECCCCCHHH-------------------HHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf 01124302110158-------------------9877221104771599984133333
Q gi|254780183|r 50 EKTEWHSVIVFSEE-------------------LCRIVEQYLRKGSKVYIEGSLQTRK 88 (159)
Q Consensus 50 d~t~~~~v~~~g~~-------------------~Ae~~~~~l~KG~~V~V~Grl~~~~ 88 (159)
|.|-=++|+||-+. .|...+.-++-|+.+-|.|+|+.-.
T Consensus 22 DgTGcI~Cv~W~~~~~~~~~s~~~~~~~~~~~~~a~~~~~~l~iG~llRVRG~I~~yR 79 (92)
T cd04483 22 DGTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTYR 79 (92)
T ss_pred CCCCEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEEEEE
T ss_conf 8986699899604576776666784454444578887611577523899942688870
No 77
>TIGR01780 SSADH succinic semialdehyde dehydrogenase; InterPro: IPR010102 Succinic semialdehyde dehydrogenase is one of three enzymes constituting 4-aminobutyrate (GABA) degradation in both prokaryotes and eukaryotes, catalysing the (NAD(P)+)-dependent catabolism reaction of succinic semialdehyde to succinate for metabolism by the citric acid cycle. In Escherichia coli, succinic semialdehyde dehydrogenase is located in a unidirectionally transcribed gene cluster encoding enzymes for GABA degradation and is suggested to be co-transcribed with succinic semialdehyde transaminase from a common promoter upstream of SSADH . Similar gene arrangements can be found in characterised Ralstonia eutropha and the genome analysis of Bacillus subtilis. Prokaryotic succinic semialdehyde dehydrogenases (1.2.1.16 from EC) share high sequence homology to characterised succinic semialdehyde dehydrogenases from rat and human (1.2.1.24 from EC), exhibiting conservation of proposed cofactor binding residues, and putative active sites (G-237 and G-242, C-293 and G-259 respectively of rat SSADH) . Eukaryotic SSADH enzymes exclusively utilise NAD+ as a cofactor, exhibiting little to no NADP+ activity . While a NADP+ preference has been detected in prokaryotes in addition to both NADP+- and NAD+-dependencies as in Escherichia coli, Pseudomonas, and Klebsiella pneumoniae . The function of this alternative SSADH currently is unknown, but has been suggested to play a possible role in 4-hydroxyphenylacetic degradation . SSADH enzyme belongs to the aldehyde dehydrogenase family, sharing a common evolutionary origin and enzymatic mechanism with lactaldehyde dehydrogenase . Like in lactaldehyde dehydrogenase and succinate semialdehyde dehydrogenase, the mammalian catalytic glutamic acid and cysteine residues are conserved in all the enzymes of this family. ; GO: 0016620 oxidoreductase activity acting on the aldehyde or oxo group of donors NAD or NADP as acceptor.
Probab=59.99 E-value=11 Score=18.45 Aligned_cols=67 Identities=19% Similarity=0.253 Sum_probs=44.4
Q ss_pred EEECCCCC-EEEEEEEEECCCCCCC-------------CCCCEEECEE---EECCCCCHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf 79869998-6999999834564202-------------6884530112---43021101589877221104771599984
Q gi|254780183|r 20 VRHTQDGR-KIVNIRIATSDSWKDR-------------VTNERREKTE---WHSVIVFSEELCRIVEQYLRKGSKVYIEG 82 (159)
Q Consensus 20 lr~~~~g~-~v~~f~va~~~~~~~~-------------~~~~~~d~t~---~~~v~~~g~~~Ae~~~~~l~KG~~V~V~G 82 (159)
.|+.+-|+ +||.-||-|-++.+|+ .+...++.++ -|+-.+.- +..+|+.+-+.||.+|++.|
T Consensus 255 sKFRn~GQTCVCaNRlyVh~~v~D~Fa~kL~e~V~kl~vG~Gld~g~t~GPlI~~~a~~-KVe~Hi~DAv~KGAkVv~GG 333 (454)
T TIGR01780 255 SKFRNAGQTCVCANRLYVHDSVYDEFAKKLAEAVKKLKVGDGLDEGVTVGPLINEKAVE-KVEKHIADAVEKGAKVVTGG 333 (454)
T ss_pred HHHCCCCCEEECCCEEEEECCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHH-HHHHHHHHHHHCCCEEEECC
T ss_conf 74527996377266346315620488999998633133678758884126643657789-88998998987299898626
Q ss_pred CCCCC
Q ss_conf 13333
Q gi|254780183|r 83 SLQTR 87 (159)
Q Consensus 83 rl~~~ 87 (159)
.....
T Consensus 334 ty~~~ 338 (454)
T TIGR01780 334 TYDRR 338 (454)
T ss_pred CCHHH
T ss_conf 40001
No 78
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=58.73 E-value=15 Score=17.65 Aligned_cols=68 Identities=22% Similarity=0.345 Sum_probs=46.0
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 79999642588667986999869999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
.++++|-|..-...++..+|..++-++|. |.+.=+.|++|-. ..+.....+..+..++|.|+++.
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~--------------D~~g~~e~v~f~~-~~~~~~~~l~~~~~~~v~g~v~~ 1042 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLE--------------DETGILEVVVFPS-EYERYRRLLLEGRLLIVKGKVQR 1042 (1139)
T ss_pred EEEEEEEEEEEEEEECCCCCCEEEEEEEE--------------CCCCCEEEEECHH-HHHHHHHHHCCCCEEEEEEEEEE
T ss_conf 26999999998996326789779999983--------------3788579998689-99999987414837999999861
Q ss_pred CCC
Q ss_conf 332
Q gi|254780183|r 87 RKW 89 (159)
Q Consensus 87 ~~~ 89 (159)
+..
T Consensus 1043 ~~~ 1045 (1139)
T COG0587 1043 RED 1045 (1139)
T ss_pred CCC
T ss_conf 466
No 79
>cd04318 EcAsnRS_like_N EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial
Probab=57.58 E-value=16 Score=17.53 Aligned_cols=51 Identities=22% Similarity=0.126 Sum_probs=32.1
Q ss_pred ECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 302110158987722110477159998413333320468837688999997769846
Q gi|254780183|r 55 HSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 55 ~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
+.|++=...........|+.|+.|.|+|.|+.+.= .+ ...|+.|+.+..+.
T Consensus 31 lQvV~~~~~~~~~~~~~l~~gssv~v~G~l~~s~~---~~---q~~El~~~~i~i~g 81 (82)
T cd04318 31 LQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG---AK---QPFELQAEKIEVLG 81 (82)
T ss_pred EEEEECCCCCCHHHHHCCCCCEEEEEEEEEECCCC---CC---CCEEEEEEEEEEEE
T ss_conf 89998377679779844678539999999990899---99---99999944999995
No 80
>PRK08402 replication factor A; Reviewed
Probab=56.22 E-value=17 Score=17.39 Aligned_cols=72 Identities=11% Similarity=0.211 Sum_probs=47.8
Q ss_pred CCCC--CEEEEEEEECCCCEEEECC----CCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCC
Q ss_conf 8778--3799996425886679869----998699999983456420268845301124302110158987722110477
Q gi|254780183|r 2 VASL--NKVILIGNLGADPDVRHTQ----DGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKG 75 (159)
Q Consensus 2 m~~m--N~v~l~G~l~~dPelr~~~----~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG 75 (159)
+..| -.|.++|++.+--.+|.++ |...++++.++= .|-=.+++.|-.+.++...+ |.-|
T Consensus 69 ~~Gm~~rnVeivgrIi~ky~~REf~kkDGS~GkVASL~I~D--------------eTG~aRLvLWD~~v~~yy~~-l~~G 133 (357)
T PRK08402 69 YPGMDPREVNIVGRILKKYPPREYTKKDGSTGRVASLIIYD--------------DTGRARVVLWDAKVAEYYNK-LEVG 133 (357)
T ss_pred HCCCCCCCCEEEEEEEEECCCHHHHHCCCCCCEEEEEEEEC--------------CCCCEEEEEECHHHHHHHHH-CCCC
T ss_conf 07667567579998733058055300369875378999973--------------78838999833878988975-3768
Q ss_pred CEEEEEECCCCCC
Q ss_conf 1599984133333
Q gi|254780183|r 76 SKVYIEGSLQTRK 88 (159)
Q Consensus 76 ~~V~V~Grl~~~~ 88 (159)
|-|-|----.-++
T Consensus 134 DVIKv~~~~Vres 146 (357)
T PRK08402 134 DVIKVLDAQVRES 146 (357)
T ss_pred CEEEEECHHHHHH
T ss_conf 6699833134431
No 81
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=56.06 E-value=17 Score=17.38 Aligned_cols=85 Identities=13% Similarity=0.209 Sum_probs=51.8
Q ss_pred EEEEEEEECCCCEEEECCCCC--EEEEEEEEECCCCCCCCCCCEEECEEEECCCCCH------HHHHHHHHHHCCCCCEE
Q ss_conf 799996425886679869998--6999999834564202688453011243021101------58987722110477159
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGR--KIVNIRIATSDSWKDRVTNERREKTEWHSVIVFS------EELCRIVEQYLRKGSKV 78 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~--~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g------~~~Ae~~~~~l~KG~~V 78 (159)
+|+|-|++-+ .|. -|. .+.-+| | .+.-+.|++.. +.+.+.+ +.|.+-+-|
T Consensus 1 ~V~~rGwv~~---~R~--~g~kl~Fl~LR--------d--------~~g~iQ~V~~~~~~~~s~~m~~~~-~~l~~ESvV 58 (102)
T cd04320 1 EVLIRARVHT---SRA--QGAKLAFLVLR--------Q--------QGYTIQGVLAASAEGVSKQMVKWA-GSLSKESIV 58 (102)
T ss_pred CEEEEEEEEE---ECC--CCCEEEEEEEE--------C--------CCEEEEEEEEECCCCCCHHHHHHH-HCCCCCEEE
T ss_conf 9899999972---021--79717999991--------5--------871899999807887799999998-559970099
Q ss_pred EEEECCCCCCCCCCCCCEEEEEEEEEEEEEECCCCC
Q ss_conf 998413333320468837688999997769846677
Q gi|254780183|r 79 YIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRR 114 (159)
Q Consensus 79 ~V~Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~ 114 (159)
.|+|.++...=. -.|.....+||.++.+..+....
T Consensus 59 ~V~G~V~~~~~~-i~~~~~~~iEi~i~~i~vls~a~ 93 (102)
T cd04320 59 DVEGTVKKPEEP-IKSCTQQDVELHIEKIYVVSEAA 93 (102)
T ss_pred EEEEEEECCCCC-CCCCCCCCEEEEEEEEEEEECCC
T ss_conf 999999889975-56788687899999999996689
No 82
>cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS. These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh
Probab=55.95 E-value=17 Score=17.37 Aligned_cols=87 Identities=18% Similarity=0.211 Sum_probs=48.1
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHH--HHHHHHCCCCCEEEEEEC
Q ss_conf 379999642588667986999869999998345642026884530112430211015898--772211047715999841
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELC--RIVEQYLRKGSKVYIEGS 83 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~A--e~~~~~l~KG~~V~V~Gr 83 (159)
.+|+|.|++-+ +| ..|+ + .|-.- +| .+.-+.|++-.+... +.+ ..|..++-|.|+|.
T Consensus 15 ~~V~v~GwV~~---~R--~~gk-i-~Fi~L-----RD--------~tg~iQ~v~~~~~~~~~~~~-~~l~~EsvV~V~G~ 73 (135)
T cd04317 15 QEVTLCGWVQR---RR--DHGG-L-IFIDL-----RD--------RYGIVQVVFDPEEAPEFELA-EKLRNESVIQVTGK 73 (135)
T ss_pred CEEEEEEEEEE---EE--ECCC-E-EEEEE-----EC--------CCCEEEEEECCCCCHHHHHH-HHCCCCCEEEEEEE
T ss_conf 99999999999---97--1797-9-99998-----52--------88358899957651678999-71897679999999
Q ss_pred CCCCCCCCCC-CCEEEEEEEEEEEEEECCCC
Q ss_conf 3333320468-83768899999776984667
Q gi|254780183|r 84 LQTRKWQDQS-GNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 84 l~~~~~~~kd-G~~r~~~~V~a~~i~~l~~~ 113 (159)
+..+.-...+ ..+.-..||.|+.+.+|...
T Consensus 74 V~~r~~~~~n~~~~tGeiEi~v~~i~ils~a 104 (135)
T cd04317 74 VRARPEGTVNPKLPTGEIEVVASELEVLNKA 104 (135)
T ss_pred EEECCCCCCCCCCCCCCEEEEEEEEEEEECC
T ss_conf 9967976605665689779999799997728
No 83
>TIGR01922 purO_arch IMP cyclohydrolase; InterPro: IPR010191 This entry represents IMP cyclohydrolase, the final step in the biosynthesis of inosine monophosphate (IMP) in archaea . In bacteria this step is catalysed by a bifunctional enzyme (purH).; GO: 0003937 IMP cyclohydrolase activity, 0006164 purine nucleotide biosynthetic process, 0006188 IMP biosynthetic process.
Probab=54.62 E-value=18 Score=17.24 Aligned_cols=32 Identities=25% Similarity=0.408 Sum_probs=23.8
Q ss_pred ECCCCCEEEEEEEEECCCCCCCCCCCEEECEEE
Q ss_conf 869998699999983456420268845301124
Q gi|254780183|r 22 HTQDGRKIVNIRIATSDSWKDRVTNERREKTEW 54 (159)
Q Consensus 22 ~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~ 54 (159)
.+.+|.+++-.|| +||+|.||......+.+.+
T Consensus 11 k~~~G~p~aaYRV-sSRSFpnR~~~~~~~n~~~ 42 (209)
T TIGR01922 11 KLEDGKPFAAYRV-SSRSFPNRKIEVREENAVA 42 (209)
T ss_pred ECCCCCEEEEEEE-ECCCCCCCEEEECCCCCEE
T ss_conf 8489986999732-2365888715660798379
No 84
>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A
Probab=54.45 E-value=18 Score=17.22 Aligned_cols=81 Identities=23% Similarity=0.224 Sum_probs=46.9
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHH---HHHHHHHCCCCCEEEEEEC
Q ss_conf 7999964258866798699986999999834564202688453011243021101589---8772211047715999841
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEEL---CRIVEQYLRKGSKVYIEGS 83 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~---Ae~~~~~l~KG~~V~V~Gr 83 (159)
+|+|.|++-+ +|. .|. ..|-.- +|. +.-+.|++-.+.. .+.+ ..|+.|+-|.|.|.
T Consensus 1 ~V~v~Gwv~~---~R~--~g~--~~Fi~l-----rD~--------~g~iQvv~~~~~~~~~~~~~-~~l~~es~I~v~G~ 59 (85)
T cd04100 1 EVTLAGWVHS---RRD--HGG--LIFIDL-----RDG--------SGIVQVVVNKEELGEFFEEA-EKLRTESVVGVTGT 59 (85)
T ss_pred CEEEEEEEEE---EEC--CCC--EEEEEE-----ECC--------CCEEEEEECCCCCHHHHHHH-HCCCCCCEEEEEEE
T ss_conf 9999998790---432--898--899585-----038--------95089999177585788776-35898889999999
Q ss_pred CCCCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 3333320468837688999997769846
Q gi|254780183|r 84 LQTRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 84 l~~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
+..+.=. . ...-.+||.++.+.+|.
T Consensus 60 v~~~~~~--~-~~~g~~Ei~~~~i~il~ 84 (85)
T cd04100 60 VVKRPEG--N-LATGEIELQAEELEVLS 84 (85)
T ss_pred EEECCCC--C-CCCCCEEEEEEEEEEEC
T ss_conf 9968877--7-89988999993999986
No 85
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=51.59 E-value=20 Score=16.94 Aligned_cols=80 Identities=20% Similarity=0.284 Sum_probs=44.2
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH-H---HHHHHHHHCCCCCEEEEEE
Q ss_conf 79999642588667986999869999998345642026884530112430211015-8---9877221104771599984
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE-E---LCRIVEQYLRKGSKVYIEG 82 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~-~---~Ae~~~~~l~KG~~V~V~G 82 (159)
+|+|.|+|-. +| ..|+ + .|-.- +| .+.++.+.+... . .-+.+ ..|..|+-|.|+|
T Consensus 19 ~V~v~Grv~~---~R--~~Gk-l-~Fi~L-----rD--------~tg~~qiq~~~~~~~~~~~~~~-~~l~~gd~V~V~G 77 (462)
T PRK03932 19 EVTIRGWVRT---KR--DSGK-I-SFLEL-----ND--------GSCFKQIQVVKNNELPNYGEEV-FKLTTGSSVYVTG 77 (462)
T ss_pred EEEEEEEEEE---EE--CCCC-C-EEEEE-----EC--------CCCCEEEEEEECCCCHHHHHHH-HCCCCCEEEEEEE
T ss_conf 8999897782---78--1798-3-89999-----82--------8987899999679766799999-6699956999999
Q ss_pred CCCCCCCCCCCCCEEEEEEEEEEEEEECCCC
Q ss_conf 1333332046883768899999776984667
Q gi|254780183|r 83 SLQTRKWQDQSGNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 83 rl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~ 113 (159)
.+....- +.| .++|.++.+.+|...
T Consensus 78 ~v~~t~~--~~~----~~El~~~~i~vls~~ 102 (462)
T PRK03932 78 TVVESPG--AGQ----GYELQATKIEVIGED 102 (462)
T ss_pred EEEECCC--CCC----CEEEEEEEEEEEECC
T ss_conf 9992599--997----779998389998379
No 86
>TIGR01672 AphA HAD superfamily (subfamily IIIB) phosphatase, TIGR01672; InterPro: IPR010025 This family of proteins is a member of the IIIB subfamily (IPR001001 from INTERPRO) of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of subfamily III and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs , all of which are found conserved in this family. AphA is a periplasmic acid phosphatase of Escherichia coli belonging to class B bacterial phosphatases , which is part of the DDDD superfamily of phosphohydrolases. The crystal structure of AphA has been determined at 2.2A and its resolution extended to 1.7A. Despite the lack of sequence homology, the AphA structure reveals a haloacid dehalogenase-like fold. This finding suggests that this fold could be conserved among members of the DDDD superfamily of phosphohydrolases. The active enzyme is a homotetramer built by using an extended N-terminal arm intertwining the four monomers. The active site of the native enzyme hosts a magnesium ion, which can be replaced by other metal ions. The structure explains the non-specific behaviour of AphA towards substrates, while a structure-based alignment with other phosphatases provides clues about the catalytic mechanism . ; GO: 0003993 acid phosphatase activity, 0030288 outer membrane-bounded periplasmic space.
Probab=51.15 E-value=8.4 Score=19.16 Aligned_cols=58 Identities=12% Similarity=0.347 Sum_probs=43.0
Q ss_pred CEEEECCCCCHHHHH--------------HHHHHHCCCCCEEE-EEECCCCCCCCCCCCCEEEEEEEEEEEEEEC
Q ss_conf 112430211015898--------------77221104771599-9841333332046883768899999776984
Q gi|254780183|r 51 KTEWHSVIVFSEELC--------------RIVEQYLRKGSKVY-IEGSLQTRKWQDQSGNNRYTTEIIMRSMVML 110 (159)
Q Consensus 51 ~t~~~~v~~~g~~~A--------------e~~~~~l~KG~~V~-V~Grl~~~~~~~kdG~~r~~~~V~a~~i~~l 110 (159)
.-||+.--.||+..+ +.+.-|.+.||.|+ |.||=...-| |.|+.-.+.++.++++.+-
T Consensus 94 s~DyLknq~FW~~vn~g~D~~SIPKe~A~qLI~MH~~RGD~i~F~TGRt~gsmy--kkGk~d~v~k~Lak~F~i~ 166 (248)
T TIGR01672 94 SEDYLKNQKFWEKVNKGGDKYSIPKEVAKQLIDMHQKRGDKIFFVTGRTAGSMY--KKGKVDKVAKILAKDFKID 166 (248)
T ss_pred CCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCEEEEEECCCCCCCC--CCCCCCCCCHHHHHHCCCC
T ss_conf 422246813689986578877775789999999887609879998468764433--2562143330035306876
No 87
>COG0677 WecC UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]
Probab=49.18 E-value=14 Score=17.79 Aligned_cols=27 Identities=26% Similarity=0.389 Sum_probs=22.3
Q ss_pred HHHHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf 589877221104771599984133333
Q gi|254780183|r 62 EELCRIVEQYLRKGSKVYIEGSLQTRK 88 (159)
Q Consensus 62 ~~~Ae~~~~~l~KG~~V~V~Grl~~~~ 88 (159)
..+++.++.+|+||+.|++|-..-..+
T Consensus 108 ~~aa~sIa~~L~kG~LVIlEST~~PGT 134 (436)
T COG0677 108 ESAARSIAPVLKKGDLVILESTTPPGT 134 (436)
T ss_pred HHHHHHHHHHCCCCCEEEEECCCCCCC
T ss_conf 999999997567788899964789985
No 88
>TIGR00739 yajC preprotein translocase, YajC subunit; InterPro: IPR003849 This entry describes proteins of unknown function..
Probab=47.60 E-value=13 Score=17.98 Aligned_cols=26 Identities=23% Similarity=0.302 Sum_probs=18.3
Q ss_pred HHHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf 89877221104771599984133333
Q gi|254780183|r 63 ELCRIVEQYLRKGSKVYIEGSLQTRK 88 (159)
Q Consensus 63 ~~Ae~~~~~l~KG~~V~V~Grl~~~~ 88 (159)
+.-+-+.+.|+|||.|+..|=|.-.-
T Consensus 29 k~~~kl~~~L~KGd~V~T~gGi~G~V 54 (86)
T TIGR00739 29 KAHKKLIESLKKGDKVLTIGGIIGTV 54 (86)
T ss_pred HHHHHHHHCCCCCCEEEECCCEEEEE
T ss_conf 98888885279977899838838999
No 89
>KOG3108 consensus
Probab=47.41 E-value=23 Score=16.55 Aligned_cols=39 Identities=18% Similarity=0.118 Sum_probs=27.6
Q ss_pred EECEEEECCCCCHHHHHHH-HHHHCCCCCEEEEEECCCCC
Q ss_conf 3011243021101589877-22110477159998413333
Q gi|254780183|r 49 REKTEWHSVIVFSEELCRI-VEQYLRKGSKVYIEGSLQTR 87 (159)
Q Consensus 49 ~d~t~~~~v~~~g~~~Ae~-~~~~l~KG~~V~V~Grl~~~ 87 (159)
.|.|.++.|..|-...++. -...|.+|..|-|.|.|+.=
T Consensus 92 ~D~tg~id~r~W~~~~~~~~e~~~l~~~~yVkv~G~Lk~f 131 (265)
T KOG3108 92 EDGTGQIDVRQWFHDNAESEEMPALETGTYVKVYGHLKPF 131 (265)
T ss_pred ECCCCEEEEEECCCCCCHHHHCCCCCCCCEEEEECCCCCC
T ss_conf 2686507888703553022217412447579964010488
No 90
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=46.57 E-value=24 Score=16.47 Aligned_cols=86 Identities=19% Similarity=0.234 Sum_probs=47.2
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH--HHHHHHHHHCCCCCEEEEEECC
Q ss_conf 79999642588667986999869999998345642026884530112430211015--8987722110477159998413
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE--ELCRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~--~~Ae~~~~~l~KG~~V~V~Grl 84 (159)
+|+|.|+|.+ +| ..|+ ++ |-.-- |.. | -+.|++-.+ ..-+.+ ..|..|+.|.|.|.+
T Consensus 19 ~V~v~GwV~~---~R--~~Gk-l~-F~~Lr-----D~~-G-------~iQiv~~~~~~~~~~~~-~~l~~e~iv~V~G~v 77 (587)
T PRK00476 19 TVTLCGWVHR---RR--DHGG-VI-FIDLR-----DRE-G-------IVQVVFDPDDAEAFAVA-ESLRSEYVIQVTGKV 77 (587)
T ss_pred EEEEEEEEEE---EE--CCCC-CE-EEEEE-----ECC-C-------CEEEEECCCCHHHHHHH-HCCCCCCEEEEEEEE
T ss_conf 8999785753---66--4798-29-99998-----389-7-------88999918877899999-669998789999899
Q ss_pred CCCCCCCCCCCEE-EEEEEEEEEEEECCCC
Q ss_conf 3333204688376-8899999776984667
Q gi|254780183|r 85 QTRKWQDQSGNNR-YTTEIIMRSMVMLDGR 113 (159)
Q Consensus 85 ~~~~~~~kdG~~r-~~~~V~a~~i~~l~~~ 113 (159)
..+.-...+.... --++|.|+.+.+|...
T Consensus 78 ~~rp~~~~n~~~~tGeiei~~~~i~iLska 107 (587)
T PRK00476 78 RARPEGTVNPNLATGEIEVLASELEILNKS 107 (587)
T ss_pred EECCCCCCCCCCCCCCEEEEEEEEEEEECC
T ss_conf 935765668778887289997089998768
No 91
>pfam02367 UPF0079 Uncharacterized P-loop hydrolase UPF0079. This uncharacterized family contains a P-loop.
Probab=46.12 E-value=17 Score=17.35 Aligned_cols=20 Identities=30% Similarity=0.534 Sum_probs=7.3
Q ss_pred HHHHHHHCCCCCEEEEEECC
Q ss_conf 87722110477159998413
Q gi|254780183|r 65 CRIVEQYLRKGSKVYIEGSL 84 (159)
Q Consensus 65 Ae~~~~~l~KG~~V~V~Grl 84 (159)
|+.+++.|++|+.|++.|.|
T Consensus 5 g~~ia~~l~~G~vi~L~G~L 24 (123)
T pfam02367 5 GKRLAQLLKAGDVVLLSGDL 24 (123)
T ss_pred HHHHHHHCCCCCEEEEECCC
T ss_conf 99999768999799998887
No 92
>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=45.74 E-value=25 Score=16.39 Aligned_cols=62 Identities=21% Similarity=0.290 Sum_probs=36.9
Q ss_pred EEEEECCCCEEEECC-CCC--EEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 996425886679869-998--69999998345642026884530112430211015898772211047715999841333
Q gi|254780183|r 10 LIGNLGADPDVRHTQ-DGR--KIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 10 l~G~l~~dPelr~~~-~g~--~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
|.|++..--+.|.+. +|. .+.++.|+ |.|-=+++++|++. + ..-++.|+.|-+.+ ...
T Consensus 2 v~~~V~~~~~~r~f~~dg~~~~v~~~~i~--------------D~TG~ir~t~W~~~-~---~~~l~~Gd~v~i~~-~~v 62 (82)
T cd04491 2 VEGKVLSISEPREFTRDGSEGKVQSGLVG--------------DETGTIRFTLWDEK-A---ADDLEPGDVVRIEN-AYV 62 (82)
T ss_pred EEEEEEECCCCEEEEECCCEEEEEEEEEE--------------CCCCEEEEEEECCC-C---CCCCCCCCEEEEEE-EEE
T ss_conf 89999987788799739976899999999--------------89987999996874-4---45558999999968-999
Q ss_pred CCCC
Q ss_conf 3320
Q gi|254780183|r 87 RKWQ 90 (159)
Q Consensus 87 ~~~~ 90 (159)
+.|.
T Consensus 63 ~~~~ 66 (82)
T cd04491 63 REFN 66 (82)
T ss_pred EEEC
T ss_conf 8889
No 93
>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=44.95 E-value=25 Score=16.32 Aligned_cols=71 Identities=20% Similarity=0.265 Sum_probs=45.6
Q ss_pred EEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf 99996425886679869998699999983456420268845301124302110158987722110477159998413333
Q gi|254780183|r 8 VILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTR 87 (159)
Q Consensus 8 v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~ 87 (159)
|.|-|-+.+ +|+| +|- +-|+|. |.+....|-+|- .+.-.+..-+.-||-|-|.|+...+
T Consensus 1 V~i~GeV~q---ikQT-~GP--TIFti~--------------Detg~v~~AAFe-eaGvRAyPev~~gdiV~v~G~V~~r 59 (73)
T cd04487 1 VHIEGEVVQ---IKQT-SGP--TIFTLR--------------DETGTVWAAAFE-EAGVRAYPEVEVGDIVRVTGEVEPR 59 (73)
T ss_pred CEEEEEEEE---EEEC-CCC--EEEEEE--------------CCCCCEEHHHHC-CCCCCCCCCCCCCCEEEEEEEEEEE
T ss_conf 979999999---8988-999--999997--------------599969820513-0674128887889889999899970
Q ss_pred CCCCCCCCEEEEEEEEEEEEE
Q ss_conf 320468837688999997769
Q gi|254780183|r 88 KWQDQSGNNRYTTEIIMRSMV 108 (159)
Q Consensus 88 ~~~~kdG~~r~~~~V~a~~i~ 108 (159)
. | .+.|.+..+.
T Consensus 60 ~-----g----~lQiE~~~~~ 71 (73)
T cd04487 60 D-----G----QLQIEVESLE 71 (73)
T ss_pred C-----C----EEEEEEEEEE
T ss_conf 8-----8----5899973025
No 94
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1); InterPro: IPR004591 All proteins in this family for which functions are known are part of a multiprotein complex made up of homologs of RPA1, RPA2 and RPA3 that bind single-stranded DNA and function in the recognition of DNA damage for nucleotide excision repair. The complex binds to single-stranded DNA sequences participating in DNA replication in addition to those mediating transcriptional repression and activation, and stimulates the activity of cognate strand exchange protein Sep1. It cooperates with T-AG and DNA topoisomerase I to unwind template DNA containing the Simian virus 40 origin of replication. This family is Replication factor-a protein 1 (RPA1); GO: 0003677 DNA binding, 0006260 DNA replication, 0005634 nucleus.
Probab=41.71 E-value=28 Score=16.02 Aligned_cols=19 Identities=16% Similarity=0.239 Sum_probs=9.2
Q ss_pred CEEEEEEEECCCCEEEECC
Q ss_conf 3799996425886679869
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQ 24 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~ 24 (159)
|+=+|-+|+++--+||+..
T Consensus 225 ~~W~IkARVT~K~~irtw~ 243 (671)
T TIGR00617 225 NKWTIKARVTNKSEIRTWS 243 (671)
T ss_pred CCEEEEEEEEEHHCCCCCC
T ss_conf 7328989872000133023
No 95
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=38.43 E-value=32 Score=15.71 Aligned_cols=82 Identities=22% Similarity=0.317 Sum_probs=46.3
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCC----CHHHHHHHHHHHCCCCCEEEEE
Q ss_conf 379999642588667986999869999998345642026884530112430211----0158987722110477159998
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIV----FSEELCRIVEQYLRKGSKVYIE 81 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~----~g~~~Ae~~~~~l~KG~~V~V~ 81 (159)
.+|+|.|+|.+ +|. .|+ +.|-.-- |.. | -+.|++ .+...-+.+ ..|+.|+-|.|+
T Consensus 17 ~~V~v~G~v~~---~R~--~Gk--l~Fi~Lr-----D~~-g-------~iQ~~~~~~~~~~~~~~~~-~~l~~g~~v~v~ 75 (434)
T PRK05159 17 KEVTLAGWVHE---IRD--LGG--IKFLLLR-----DRT-G-------IIQVVVPKKKVDEELFEGI-KKLSRESVVSVT 75 (434)
T ss_pred CEEEEEEEEEE---EEC--CCC--CEEEEEE-----ECC-C-------CEEEEEECCCCCHHHHHHH-HCCCCCEEEEEE
T ss_conf 99999898872---881--798--5999999-----698-0-------2899997998998999998-579996299999
Q ss_pred ECCCCCCCCCCCCCEEEEEEEEEEEEEECCCCC
Q ss_conf 413333320468837688999997769846677
Q gi|254780183|r 82 GSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRR 114 (159)
Q Consensus 82 Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~~ 114 (159)
|.+.... .++ ..++|.|.++.+|....
T Consensus 76 G~v~~~~----~~~--~~~ev~~~~i~ils~a~ 102 (434)
T PRK05159 76 GVVKESE----KAP--NGVEVQPEEIEVLNKAD 102 (434)
T ss_pred EEEECCC----CCC--CCEEEEEEEEEEEECCC
T ss_conf 9998589----999--75899998999983477
No 96
>PRK12278 50S ribosomal protein L21/unknown domain fusion protein; Provisional
Probab=38.03 E-value=32 Score=15.67 Aligned_cols=45 Identities=20% Similarity=0.210 Sum_probs=33.5
Q ss_pred HHHHHHHCCCCCEEEEEECCCCC-CCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 87722110477159998413333-320468837688999997769846
Q gi|254780183|r 65 CRIVEQYLRKGSKVYIEGSLQTR-KWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 65 Ae~~~~~l~KG~~V~V~Grl~~~-~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
|+.+.+ .||..|+|--.-+-+ .|..+.|.++..+.|..+.|-.-.
T Consensus 60 A~Vle~--~kg~KvivfkKkRRkk~yrRk~GHRQ~~T~ikI~~Ila~g 105 (216)
T PRK12278 60 AEVVEQ--IKGRKVIHFVKRRRKHSSRRTKGHRQKLTLVRITEILASG 105 (216)
T ss_pred EEEEEE--CCCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCC
T ss_conf 999850--3685599999822787764777757886479998863588
No 97
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=37.71 E-value=33 Score=15.64 Aligned_cols=86 Identities=21% Similarity=0.339 Sum_probs=48.4
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHH----HHHHHHHHHCCCCCEEEEEE
Q ss_conf 79999642588667986999869999998345642026884530112430211015----89877221104771599984
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE----ELCRIVEQYLRKGSKVYIEG 82 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~----~~Ae~~~~~l~KG~~V~V~G 82 (159)
+|+|.|++-+ +| ..|. ++ |-.- +|+. --+.|++=.+ .+-+. ...|+.++.|.|.|
T Consensus 20 ~V~l~GWV~~---~R--~~G~-l~-FidL-----RD~~--------G~vQvv~~~~~~~~d~~~~-~~~l~~E~vI~V~G 78 (706)
T PRK12820 20 EVCLAGWVDA---FR--DHGE-LL-FIHL-----RDRN--------GFIQAVFSPEAAPADVYEL-AASLRAEFCVALQG 78 (706)
T ss_pred EEEEEEEEEE---EE--CCCC-EE-EEEE-----EECC--------CCEEEEECCCCCCHHHHHH-HHCCCCCCEEEEEE
T ss_conf 8999786878---96--6898-49-9999-----7289--------4589998688688889999-85399867899998
Q ss_pred CCCCCCCCCCCCC-EEEEEEEEEEEEEECCCC
Q ss_conf 1333332046883-768899999776984667
Q gi|254780183|r 83 SLQTRKWQDQSGN-NRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 83 rl~~~~~~~kdG~-~r~~~~V~a~~i~~l~~~ 113 (159)
.++.+.=.+.+-+ +.-..+|.++.+.+|...
T Consensus 79 ~V~~r~~~~~n~~~~tGeiEI~v~~l~iLs~a 110 (706)
T PRK12820 79 EVQKRLEETENPHIETGDIEVFVRELSILAAS 110 (706)
T ss_pred EEEECCCCCCCCCCCCCCEEEEEEEEEEEECC
T ss_conf 99934765668889886189997699998778
No 98
>pfam11948 DUF3465 Protein of unknown function (DUF3465). This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 131 to 151 amino acids in length. This protein has a conserved HWTH sequence motif.
Probab=36.54 E-value=26 Score=16.29 Aligned_cols=33 Identities=27% Similarity=0.565 Sum_probs=24.6
Q ss_pred HHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCEEEE
Q ss_conf 8987722110477159998413333320468837688
Q gi|254780183|r 63 ELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYT 99 (159)
Q Consensus 63 ~~Ae~~~~~l~KG~~V~V~Grl~~~~~~~kdG~~r~~ 99 (159)
-+|..+.. |+||+.|...|+. .|..|-|.-+.+
T Consensus 78 Dlapri~~-l~~GD~v~f~GeY---ewn~kGGviHWT 110 (131)
T pfam11948 78 DLAPRIPG-LQKGDRVEFYGEY---EWNPKGGVIHWT 110 (131)
T ss_pred CCCCCCCC-CCCCCEEEEEEEE---EECCCCCEEEEE
T ss_conf 43444567-7769889997899---985889889720
No 99
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=36.17 E-value=35 Score=15.49 Aligned_cols=83 Identities=18% Similarity=0.231 Sum_probs=46.2
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 37999964258866798699986999999834564202688453011243021101589877221104771599984133
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
..|+|.|+|.+ +| ..|+ +.|-.- +|.. |.-| .+++-...++..-+.+ +.+..|+-|.|.|.+.
T Consensus 54 ~~V~vaGrv~~---~R--~~Gk--~~F~~l-----rD~~-g~iQ---~~~~~~~~~~~~~~~~-~~l~~gd~i~v~G~v~ 116 (491)
T PRK00484 54 IEVSVAGRVML---KR--VMGK--ASFATI-----QDGS-GRIQ---LYVSKDDVGEEAYEAF-KKLDLGDIIGVEGTLF 116 (491)
T ss_pred CEEEEEEEEEE---EE--CCCC--EEEEEE-----EECC-CCEE---EEEECCCCCHHHHHHH-HCCCCCCEEEEEEEEE
T ss_conf 88999987840---50--5698--199999-----9699-4589---9996675899999999-6068666898787998
Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEECCCC
Q ss_conf 3332046883768899999776984667
Q gi|254780183|r 86 TRKWQDQSGNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 86 ~~~~~~kdG~~r~~~~V~a~~i~~l~~~ 113 (159)
.. +.|+ ++|.|..+.+|...
T Consensus 117 ~t----~~Ge----l~v~~~~~~iLsks 136 (491)
T PRK00484 117 KT----KTGE----LSVKVTELTLLTKS 136 (491)
T ss_pred EC----CCCE----EEEECCEEEEECCC
T ss_conf 65----8851----66403317993168
No 100
>KOG3873 consensus
Probab=35.41 E-value=27 Score=16.17 Aligned_cols=31 Identities=13% Similarity=0.313 Sum_probs=26.0
Q ss_pred CCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf 021101589877221104771599984133333
Q gi|254780183|r 56 SVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRK 88 (159)
Q Consensus 56 ~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~ 88 (159)
.+.+| + +|+++.-+-++|+-|+|.|.|..+.
T Consensus 153 ~~QAw-d-laqfi~~t~q~~~vVI~~GDLN~~P 183 (422)
T KOG3873 153 VAQAW-D-LAQFIRATRQNADVVILAGDLNMQP 183 (422)
T ss_pred HHHHH-H-HHHHHHHHHCCCCEEEEECCCCCCC
T ss_conf 89899-9-9999999744786899946778886
No 101
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=34.90 E-value=36 Score=15.37 Aligned_cols=42 Identities=17% Similarity=0.374 Sum_probs=31.8
Q ss_pred EEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCEE
Q ss_conf 243021101589877221104771599984133333204688376
Q gi|254780183|r 53 EWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNR 97 (159)
Q Consensus 53 ~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~~~~kdG~~r 97 (159)
-.|.+++.|+ ....+.+-|+-|++|.|+|---.=.++ +|.+.
T Consensus 276 l~FsIK~LGD-~Tk~l~dnLk~G~k~~vdGPYG~F~~~--~g~~~ 317 (438)
T COG4097 276 LRFSIKALGD-FTKTLKDNLKVGTKLEVDGPYGKFDFE--RGLNT 317 (438)
T ss_pred EEEEEHHHHH-HHHHHHHHCCCCCEEEEECCCCEEECC--CCCCC
T ss_conf 9997033101-667888735688658885685315611--47745
No 102
>COG3689 Predicted membrane protein [Function unknown]
Probab=33.29 E-value=39 Score=15.21 Aligned_cols=86 Identities=12% Similarity=0.099 Sum_probs=51.0
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEE-ECCCCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 799996425886679869998699999983456420268845301124-3021101589877221104771599984133
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEW-HSVIVFSEELCRIVEQYLRKGSKVYIEGSLQ 85 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~-~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~ 85 (159)
+|-++|.+-+|+-+. .|-..++||-+-+- - .|...+ ..|. . + +..+ ++--+-|.|+|+|.
T Consensus 177 ~Ie~tGFVy~~~~~~--~N~lflaRFgiicC----~------ADa~vygl~v~--~---~-~~~~-y~ndtWltvkGtl~ 237 (271)
T COG3689 177 KIEFTGFVYNDESFP--KNYLFLARFGIICC----A------ADAGVYGLLVE--L---D-NQTD-YKNDTWLTVKGTLS 237 (271)
T ss_pred EEEEEEEEECCCCCC--CCEEEHHHHHEEEE----E------CCCEEEEEEEE--C---C-CCCC-CCCCCEEEEEEEEE
T ss_conf 678999997799888--32140553221135----2------26622798997--3---6-4245-89984699973897
Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEECCCCC
Q ss_conf 33320468837688999997769846677
Q gi|254780183|r 86 TRKWQDQSGNNRYTTEIIMRSMVMLDGRR 114 (159)
Q Consensus 86 ~~~~~~kdG~~r~~~~V~a~~i~~l~~~~ 114 (159)
++.+.+. +..-..|.|++++-++...
T Consensus 238 ~e~~~~~---~~~ipvi~v~sv~~I~kP~ 263 (271)
T COG3689 238 SEYLSDF---KKRIPVIEVDSVEVIPKPA 263 (271)
T ss_pred EEECCCH---HHCCCEEEEEEEEECCCCC
T ss_conf 2224753---3237479842336448999
No 103
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=33.17 E-value=27 Score=16.14 Aligned_cols=34 Identities=24% Similarity=0.229 Sum_probs=26.4
Q ss_pred CEEEECCCCCHHHHHHHHHHHCCCC-CEEEEEECC
Q ss_conf 1124302110158987722110477-159998413
Q gi|254780183|r 51 KTEWHSVIVFSEELCRIVEQYLRKG-SKVYIEGSL 84 (159)
Q Consensus 51 ~t~~~~v~~~g~~~Ae~~~~~l~KG-~~V~V~Grl 84 (159)
..--++|-|-|+-.++++.+-|+|| |.|+|.|=-
T Consensus 29 ~vRiIrv~CsGrvn~~fvl~Al~~GaDGV~v~GC~ 63 (132)
T COG1908 29 NVRIIRVMCSGRVNPEFVLKALRKGADGVLVAGCK 63 (132)
T ss_pred CEEEEEEECCCCCCHHHHHHHHHCCCCEEEEECCC
T ss_conf 43799963267418999999997389868993441
No 104
>TIGR00459 aspS_bact aspartyl-tRNA synthetase; InterPro: IPR004524 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Aspartyl tRNA synthetase 6.1.1.12 from EC is an alpha2 dimer that belongs to class IIb. Structural analysis combined with mutagenesis and enzymology data on the yeast enzyme point to a tRNA binding process that starts by a recognition event between the tRNA anticodon loop and the synthetase anticodon binding module . This family represents aspartyl-tRNA synthetases from the bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). ; GO: 0000166 nucleotide binding, 0004815 aspartate-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006422 aspartyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=30.65 E-value=43 Score=14.95 Aligned_cols=68 Identities=15% Similarity=0.221 Sum_probs=47.5
Q ss_pred ECEE-EECCCCCHH--HHHHHHHHHCCCCCEEEEEECCCCCCCCCCCC-CEEEEEEEEEEEEEECCCCCCCC
Q ss_conf 0112-430211015--89877221104771599984133333204688-37688999997769846677766
Q gi|254780183|r 50 EKTE-WHSVIVFSE--ELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSG-NNRYTTEIIMRSMVMLDGRRDSL 117 (159)
Q Consensus 50 d~t~-~~~v~~~g~--~~Ae~~~~~l~KG~~V~V~Grl~~~~~~~kdG-~~r~~~~V~a~~i~~l~~~~~~~ 117 (159)
|++- -+.|+|=-+ ..|..++..|+.=+.|.|.|.|+.+.=...+- -+--..||.++.|.++.++....
T Consensus 44 D~~GdivQv~~~p~~~~~a~~~a~~lr~E~vv~v~G~v~~R~~~~~~~~l~tg~~Ei~~~~i~~~NG~s~~~ 115 (653)
T TIGR00459 44 DRSGDIVQVVCDPDVSKDALELAKGLRNEDVVQVKGKVSARPEGSINRNLDTGEIEILAEEITLLNGKSKTP 115 (653)
T ss_pred CCCCCEEEEEECCCCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCCEEEEECCCEEEEECCCCCC
T ss_conf 588888999867756788999997335522899999998658534465567634889818626861212687
No 105
>TIGR02824 quinone_pig3 putative NAD(P)H quinone oxidoreductase, PIG3 family; InterPro: IPR014189 Members of this family are putative quinone oxidoreductases that belong to the broader superfamily of zinc-dependent alcohol (of medium chain length) dehydrogenases and quinone oxidoreductases. An alignment shows no motif of conserved Cys residues as are found in zinc-binding members of the superfamily, consequently members of this entry are likely to be quinone oxidoreductases. A member of this family in Homo sapiens (Human), PIG3, is induced by p53 but is otherwise uncharacterised..
Probab=30.15 E-value=30 Score=15.83 Aligned_cols=23 Identities=35% Similarity=0.514 Sum_probs=17.5
Q ss_pred CCCCHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf 21101589877221104771599984
Q gi|254780183|r 57 VIVFSEELCRIVEQYLRKGSKVYIEG 82 (159)
Q Consensus 57 v~~~g~~~Ae~~~~~l~KG~~V~V~G 82 (159)
+++|.+ +-+... |++|..|+|+|
T Consensus 130 fTVW~N-LF~~g~--L~~GEtvLiHG 152 (334)
T TIGR02824 130 FTVWSN-LFQRGG--LKAGETVLIHG 152 (334)
T ss_pred HHHHHH-HHHHCC--CCCCCEEEEEE
T ss_conf 888886-872211--37897289971
No 106
>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=29.33 E-value=45 Score=14.81 Aligned_cols=67 Identities=15% Similarity=0.304 Sum_probs=34.9
Q ss_pred EEEEEEECCCCEEEE---CCCCCEEEEEEEEECCCCCCCCCCCEEECEE-EECCCCCHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf 999964258866798---6999869999998345642026884530112-430211015898772211047715999841
Q gi|254780183|r 8 VILIGNLGADPDVRH---TQDGRKIVNIRIATSDSWKDRVTNERREKTE-WHSVIVFSEELCRIVEQYLRKGSKVYIEGS 83 (159)
Q Consensus 8 v~l~G~l~~dPelr~---~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~-~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Gr 83 (159)
|=++|-+..--++.+ ..+|....+-.|-. .|.+. =+.+++||++ |+.... +.+.-|++.|
T Consensus 2 VDviGvv~~i~~~~~i~~k~~~~~~~kR~i~l------------~D~S~~~i~vTLWg~~-a~~~~~--~~~~Vi~~k~- 65 (101)
T cd04475 2 VDVIGVVKSVGPVTTITTKSTGRELDKREITL------------VDESGHSVELTLWGEQ-AELFDG--SENPVIAIKG- 65 (101)
T ss_pred EEEEEEEEECCCCEEEEECCCCCCEEEEEEEE------------ECCCCCEEEEEEEHHH-HHHCCC--CCCCEEEEEC-
T ss_conf 88999999966848999936999413899999------------9699998999997576-655478--9899999964-
Q ss_pred CCCCCCC
Q ss_conf 3333320
Q gi|254780183|r 84 LQTRKWQ 90 (159)
Q Consensus 84 l~~~~~~ 90 (159)
++...|.
T Consensus 66 ~rv~~f~ 72 (101)
T cd04475 66 VKVSEFN 72 (101)
T ss_pred CEEEECC
T ss_conf 1996349
No 107
>COG3649 CRISPR system related protein [Defense mechanisms]
Probab=28.74 E-value=41 Score=15.08 Aligned_cols=47 Identities=17% Similarity=0.246 Sum_probs=29.8
Q ss_pred EEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCEEEEEEEEE
Q ss_conf 2430211015898772211047715999841333332046883768899999
Q gi|254780183|r 53 EWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIM 104 (159)
Q Consensus 53 ~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~~~~kdG~~r~~~~V~a 104 (159)
.|++|..||. . -.+.+||+.+-|.|-++.+.=+.-+-.+-.++.|.+
T Consensus 100 ~w~DvR~FGq-V----f~~~kk~ms~gvrGPVsi~~atSl~pi~i~s~QiT~ 146 (283)
T COG3649 100 KWIDVRLFGQ-V----FPQSKKGMSSGVRGPVSIRYATSLHPIKIMSIQITA 146 (283)
T ss_pred HHHHHHHHHH-H----HHHHCCCCCCCCCCCEEEEEECCCCCEEEEEEEEEE
T ss_conf 7761887653-4----333056862234563589730443636889888763
No 108
>pfam12101 DUF3577 Protein of unknown function (DUF3577). This family of proteins is functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 143 to 307 amino acids in length.
Probab=27.88 E-value=48 Score=14.66 Aligned_cols=95 Identities=17% Similarity=0.221 Sum_probs=57.6
Q ss_pred EEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHH---CCCCCEEEEE---E
Q ss_conf 999642588667986999869999998345642026884530112430211015898772211---0477159998---4
Q gi|254780183|r 9 ILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQY---LRKGSKVYIE---G 82 (159)
Q Consensus 9 ~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~---l~KG~~V~V~---G 82 (159)
.=+|+|-+--|+. ...|.++..-+||.-..-.| ...-.||+|.+-|..+.+.+..+ +....+|+|. |
T Consensus 15 ~GiGYLnriReV~-~rkg~pFlac~IaAL~G~~d------~~~Y~~fD~~V~G~eA~~Lv~rc~~av~~~~KVLv~Frlg 87 (138)
T pfam12101 15 TGIGYLNRIREVE-PRKGQPFLACTIAALRGPSD------NPEYTYFDCRVVGKEAEDLIRRCQKAVDAEKKVLISFVLG 87 (138)
T ss_pred CCEEEECCCEECC-CCCCCEEEEEEHHHHCCCCC------CCCEEEEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEEEC
T ss_conf 2213022413637-89998467888336328988------9836899999816889999999987514567379999926
Q ss_pred CCCCCCCCCC----CCCEEEEEEEEEEEEEEC
Q ss_conf 1333332046----883768899999776984
Q gi|254780183|r 83 SLQTRKWQDQ----SGNNRYTTEIIMRSMVML 110 (159)
Q Consensus 83 rl~~~~~~~k----dG~~r~~~~V~a~~i~~l 110 (159)
.|..+.|+-. .|+.+-+++-..-.|.++
T Consensus 88 Dl~~d~F~~~kG~~~Ge~~~sLK~RLl~i~~I 119 (138)
T pfam12101 88 DLWADTFTYSKGEKAGETGVSLKGRLIKIDWI 119 (138)
T ss_pred CCCCCCEEECCCCCCCCCCEEEEEEEEEEEEE
T ss_conf 86421178516871685330034448988899
No 109
>KOG3266 consensus
Probab=27.21 E-value=42 Score=15.01 Aligned_cols=82 Identities=16% Similarity=0.206 Sum_probs=47.3
Q ss_pred CEEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEEC-----CCCCHHHHHHHHHHHCCCCCEEEE
Q ss_conf 379999642588667986999869999998345642026884530112430-----211015898772211047715999
Q gi|254780183|r 6 NKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHS-----VIVFSEELCRIVEQYLRKGSKVYI 80 (159)
Q Consensus 6 N~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~-----v~~~g~~~Ae~~~~~l~KG~~V~V 80 (159)
|.+.+|+=+-.-|++..-. +..-+.|.+.-..|..++.+|..+..+.+.. |...-..-.+++..++-||+.|.|
T Consensus 42 nricvI~la~~hp~l~~g~-~i~sv~~~ign~dRsqnkVSGK~KkgAl~lq~~s~Lc~~~~a~g~~y~V~scVrG~LvEv 120 (172)
T KOG3266 42 NRICVITLAPSHPALQSGK-TIKSVTFQIGNCDRSQNKVSGKGKKGALILQELSPLCKFKTADGSTYVVRSCVRGTLVEV 120 (172)
T ss_pred CCEEEEEECCCCCHHHCCC-CEEEEECCCCCCHHHHHEECCCCCCCCEEECCCCCCEEEEECCCCEEEEEEEECEEEEEE
T ss_conf 9548999547782021266-233233252442112301225544464760357753157746997599762001068874
Q ss_pred EECCCCCC
Q ss_conf 84133333
Q gi|254780183|r 81 EGSLQTRK 88 (159)
Q Consensus 81 ~Grl~~~~ 88 (159)
.-||....
T Consensus 121 N~rl~~~P 128 (172)
T KOG3266 121 NERLKTTP 128 (172)
T ss_pred EHHHCCCC
T ss_conf 01221481
No 110
>TIGR01758 MDH_euk_cyt malate dehydrogenase, NAD-dependent; InterPro: IPR011274 This entry represents the NAD-dependent cytosolic malate dehydrogenase from eukaryotes. The enzyme from pig has been studied by X-ray crystallography ; GO: 0030060 L-malate dehydrogenase activity, 0006108 malate metabolic process.
Probab=26.85 E-value=42 Score=14.99 Aligned_cols=55 Identities=20% Similarity=0.370 Sum_probs=38.7
Q ss_pred EEEEEEEC-CCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 99999834-5642026884530112430211015898772211047715999841333
Q gi|254780183|r 30 VNIRIATS-DSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQT 86 (159)
Q Consensus 30 ~~f~va~~-~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~ 86 (159)
....+|+- =.++.|.|-+.+|= .==+|.+|..+ ++.+.+|-+|--+|+|.|....
T Consensus 74 ~~v~vA~lvGa~PrK~GmeRkDl-Ls~Nv~IF~~q-G~aL~k~A~k~vkVlVVGNPaN 129 (325)
T TIGR01758 74 TDVDVALLVGAFPRKEGMERKDL-LSKNVKIFKEQ-GEALDKYAKKDVKVLVVGNPAN 129 (325)
T ss_pred CCCCEEEEECCCCCCCCCCHHHH-HHHHHHHHHHH-HHHHHHHCCCCCEEEEECCCCH
T ss_conf 78757997267789888622668-77447999989-9999986389836998408702
No 111
>TIGR00216 ispH_lytB 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants . LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood . Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response .; GO: 0019288 isopentenyl diphosphate biosynthetic process mevalonate-independent pathway.
Probab=26.15 E-value=45 Score=14.85 Aligned_cols=26 Identities=19% Similarity=0.368 Sum_probs=12.0
Q ss_pred HHHCCCCCEEEEEECCCCCCCCCCCC
Q ss_conf 21104771599984133333204688
Q gi|254780183|r 69 EQYLRKGSKVYIEGSLQTRKWQDQSG 94 (159)
Q Consensus 69 ~~~l~KG~~V~V~Grl~~~~~~~kdG 94 (159)
.+|-+||-.|++.|.=....-..=.|
T Consensus 127 ~~~~~~Gy~vIl~G~~nHpEviG~~G 152 (354)
T TIGR00216 127 KKYAKEGYHVILIGKKNHPEVIGTRG 152 (354)
T ss_pred HHHHHCCCEEEEEECCCCCEEEECCH
T ss_conf 99974598899995299941434012
No 112
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=25.82 E-value=52 Score=14.43 Aligned_cols=74 Identities=20% Similarity=0.268 Sum_probs=39.1
Q ss_pred EEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf 99996425886679869998699999983456420268845301124302110158987722110477159998413333
Q gi|254780183|r 8 VILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTR 87 (159)
Q Consensus 8 v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~ 87 (159)
|.|-|-+++ +++| +|- +-|+|- |.|.++.|-+|- .+...+...+.-|+-|-|.|....+
T Consensus 216 V~I~GeV~q---ikqT-~GP--TVFtlt--------------Detg~i~aAAFe-~aGvRAyP~ievGdiV~ViG~V~~r 274 (715)
T COG1107 216 VRIEGEVTQ---IKQT-SGP--TVFTLT--------------DETGAIWAAAFE-EAGVRAYPEIEVGDIVEVIGEVTRR 274 (715)
T ss_pred EEEEEEEEE---EEEC-CCC--EEEEEE--------------CCCCCEEHHHHC-CCCCCCCCCCCCCCEEEEEEEEEEC
T ss_conf 999778999---9975-898--799980--------------688844266643-5774348998778569998777504
Q ss_pred CCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 320468837688999997769846
Q gi|254780183|r 88 KWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 88 ~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
+|+ +.|....|+.|.
T Consensus 275 -----~g~----lQiE~~~me~L~ 289 (715)
T COG1107 275 -----DGR----LQIEIEAMEKLT 289 (715)
T ss_pred -----CCC----EEEEEHHHHHHH
T ss_conf -----782----787624357751
No 113
>pfam11736 DUF3299 Protein of unknown function (DUF3299). This is a family of bacterial proteins of unknown function.
Probab=25.38 E-value=53 Score=14.38 Aligned_cols=31 Identities=16% Similarity=0.254 Sum_probs=23.1
Q ss_pred CEEEEEECCCCCCCCCCCCCEEEEEEEEEEEEE
Q ss_conf 159998413333320468837688999997769
Q gi|254780183|r 76 SKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMV 108 (159)
Q Consensus 76 ~~V~V~Grl~~~~~~~kdG~~r~~~~V~a~~i~ 108 (159)
++|.|+|+|++++.++.=| .+.+.+.++.|.
T Consensus 111 ~pvwv~G~l~~~~~~~~~~--~~~Y~~~a~~i~ 141 (144)
T pfam11736 111 DPVWVEGTLRTESSSSELA--EAGYTMEAEKIE 141 (144)
T ss_pred EEEEEEEEEEEEECCCCCE--EEEEEEEEEEEE
T ss_conf 1099999999764033005--556799730788
No 114
>TIGR02188 Ac_CoA_lig_AcsA acetate--CoA ligase; InterPro: IPR011904 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme) is a ubiquitous enzyme, found in both prokaryotes and eukaryotes, which catalyses the formation of acetyl-CoA from acetate, coenzyme A (CoA) and ATP as shown below : ATP + acetate + CoA = AMP + diphosphate + acetyl-CoA The activity of this enzyme is crucial for maintaining the required levels of acetyl-CoA, a key intermediate in many important biosynthetic and catabolic processes. It is especially important in eukayotic species as it is the only route for the activation of acetate to acetyl-CoA in these organisms (some prokaryotic species can also activate acetate by either acetate kinase/phosphotransacetylase or by ADP-forming acetyl-CoA synthase). Eukaryotes typically have two isoforms of acetyl-CoA synthase, a cytosolic form involved in biosynthetic processes and a mitochondrial form primarily involved in energy generation. The crystal structures of a eukaryotic (Q01574 from SWISSPROT, from yeast) and bacterial (Q8ZKF6 from SWISSPROT, from Salmonella) form of this enzyme have been determined , . The yeast enzyme is trimeric, while the bacterial enzyme is monomeric. The trimeric state of the yeast protein may be unique to this organism however, as the residues involved in the trimer interface are poorly conserved in other sequences. Despite differences in the oligomeric state of the two enzyme, the structures of the monomers are almost identical. A large N-terminal domain (~500 residues) containing two parallel beta sheets is followed by a small (~110 residues) C-terminal domain containing a three-stranded beta sheet with helices. The active site occurs at the domain interface, with its contents determining the orientation of the C-terminal domain.; GO: 0003987 acetate-CoA ligase activity, 0016208 AMP binding.
Probab=24.99 E-value=50 Score=14.53 Aligned_cols=33 Identities=27% Similarity=0.502 Sum_probs=15.7
Q ss_pred CCCHHHHHHHHHHHCCCCC---EEEEEECCCCCCCCCCCC
Q ss_conf 1101589877221104771---599984133333204688
Q gi|254780183|r 58 IVFSEELCRIVEQYLRKGS---KVYIEGSLQTRKWQDQSG 94 (159)
Q Consensus 58 ~~~g~~~Ae~~~~~l~KG~---~V~V~Grl~~~~~~~kdG 94 (159)
.+||+ ...++..|+++=. ..|..|-=-.+- +||
T Consensus 473 tiyGD-h~Rf~~tYf~~~~~~G~~YFtGDGA~rD---~DG 508 (643)
T TIGR02188 473 TIYGD-HERFVETYFSPFPGKGKYYFTGDGARRD---KDG 508 (643)
T ss_pred CCCCC-CHHHHHCCCCCCCCCCCEEEECCCEEEC---CCC
T ss_conf 24688-3256750532478998636736600255---898
No 115
>TIGR01497 kdpB K+-transporting ATPase, B subunit; InterPro: IPR006391 These sequences describe the P-type ATPase subunit of the complex responsible for translocating potassium ions across biological membranes in microbes. In Escherichia coli and other species, this complex consists of the proteins KdpA, KdpB, KdpC and KdpF. KdpB is the ATPase subunit, while KdpA is the potassium-ion translocating subunit . The function of KdpC is unclear, although it has been suggested to couple the ATPase subunit to the ion-translocating subunit , while KdpF serves to stabilize the complex . The potassium P-type ATPases have been characterised as Type IA based on a phylogenetic analysis which places this clade closest to the heavy-metal translocating ATPases (Type IB) . Others place this clade closer to the Na+/K+ antiporter type (Type IIC) based on physical characteristics . ; GO: 0008556 potassium-transporting ATPase activity, 0006813 potassium ion transport, 0016021 integral to membrane.
Probab=24.91 E-value=40 Score=15.12 Aligned_cols=13 Identities=38% Similarity=0.606 Sum_probs=8.9
Q ss_pred HHHCCCCCEEEEE
Q ss_conf 2110477159998
Q gi|254780183|r 69 EQYLRKGSKVYIE 81 (159)
Q Consensus 69 ~~~l~KG~~V~V~ 81 (159)
++.|||||-|+|+
T Consensus 121 a~~LkkGD~VlVe 133 (675)
T TIGR01497 121 ADELKKGDVVLVE 133 (675)
T ss_pred HHHCCCCCEEEEE
T ss_conf 1232578889996
No 116
>TIGR02823 oxido_YhdH putative quinone oxidoreductase, YhdH/YhfP family; InterPro: IPR014188 This entry represents a subfamily of the alcohol dehydrogenase, a superfamily in which some members are zinc-binding medium-chain alcohol dehydrogenases while others are quinone oxidoreductases with no bound zinc. This entry includes YhdH from Escherichia coli and YhfP from Bacillus subtilis both of which bind NADPH or NAD, but not zinc. Both proteins have been studied crystallographically for insight into function. .
Probab=21.88 E-value=50 Score=14.55 Aligned_cols=38 Identities=18% Similarity=0.193 Sum_probs=20.9
Q ss_pred HCCCCCEEEEEECCCCCCCCCCCCCEEEEEEEEEEEEEECC
Q ss_conf 10477159998413333320468837688999997769846
Q gi|254780183|r 71 YLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLD 111 (159)
Q Consensus 71 ~l~KG~~V~V~Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~ 111 (159)
-+++||.|+|.|-=-=.+ -.|=-=.+.+|-++.+--|+
T Consensus 77 ~F~~GD~VivTGyglG~~---H~GGysqyaRVp~dWlVpLP 114 (330)
T TIGR02823 77 RFRPGDEVIVTGYGLGVS---HDGGYSQYARVPADWLVPLP 114 (330)
T ss_pred CCCCCCEEEEEEECCCCC---CCCCCEEEEEECHHHEECCC
T ss_conf 757887189974024565---15762235673323101588
No 117
>PRK06762 hypothetical protein; Provisional
Probab=20.92 E-value=64 Score=13.90 Aligned_cols=32 Identities=28% Similarity=0.407 Sum_probs=21.8
Q ss_pred ECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCC
Q ss_conf 302110158987722110477159998413333320
Q gi|254780183|r 55 HSVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQ 90 (159)
Q Consensus 55 ~~v~~~g~~~Ae~~~~~l~KG~~V~V~Grl~~~~~~ 90 (159)
..+-.. +.++.+. +.+|..|+|||-|..+.|.
T Consensus 52 ~~i~Li-~~~~~yg---~~~~~~VIlEGIL~a~~Yg 83 (166)
T PRK06762 52 LSIDLI-EQLVRYG---LQHCEFVILEGILNSDRYG 83 (166)
T ss_pred CCHHHH-HHHHHHH---HHCCCEEEEEEECCHHHHH
T ss_conf 786899-9999999---8569989997410044899
No 118
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=20.89 E-value=66 Score=13.85 Aligned_cols=78 Identities=18% Similarity=0.175 Sum_probs=44.4
Q ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEECCCCCCCCCCCEEECEEEECCCCC----HHH-HHHHHHHHCCCCCEEEEE
Q ss_conf 799996425886679869998699999983456420268845301124302110----158-987722110477159998
Q gi|254780183|r 7 KVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVF----SEE-LCRIVEQYLRKGSKVYIE 81 (159)
Q Consensus 7 ~v~l~G~l~~dPelr~~~~g~~v~~f~va~~~~~~~~~~~~~~d~t~~~~v~~~----g~~-~Ae~~~~~l~KG~~V~V~ 81 (159)
.|+|.|+|.+ +| ..|+. .|-.- +|.. .-+.|++- ++. ..+.+ +.+.-|+-|-|.
T Consensus 67 ~V~vaGrv~~---~R--~~Gk~--~F~~L-----rD~~--------G~iQ~~~~~~~~~~~~~~~~~-~~~~~gdii~v~ 125 (505)
T PRK12445 67 EVSVAGRMMT---RR--IMGKA--SFVTL-----QDVG--------GRIQLYVARDSLPEGVYNDQF-KKWDLGDIIGAR 125 (505)
T ss_pred EEEEEEEEEE---EE--CCCCE--EEEEE-----EECC--------EEEEEEEECCCCCHHHHHHHH-HHCCCCEEEEEE
T ss_conf 8999988987---87--47983--99999-----8598--------439999958868668999997-512153499996
Q ss_pred ECCCCCCCCCCCCCEEEEEEEEEEEEEECCCC
Q ss_conf 41333332046883768899999776984667
Q gi|254780183|r 82 GSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGR 113 (159)
Q Consensus 82 Grl~~~~~~~kdG~~r~~~~V~a~~i~~l~~~ 113 (159)
|.+.. ++.|+ ++|.|..+.+|...
T Consensus 126 G~~~~----t~tGe----~~i~~~~~~ilsks 149 (505)
T PRK12445 126 GTLFK----TQTGE----LSIHCTELRLLTKA 149 (505)
T ss_pred EEEEC----CCCCC----CCEEEEEEEEECCC
T ss_conf 36604----78776----21257899993477
Done!