Query 000698
Match_columns 1345
No_of_seqs 504 out of 2223
Neff 6.1
Searched_HMMs 46136
Date Mon Apr 1 22:15:21 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000698.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000698hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1805 DNA replication helica 100.0 7E-188 2E-192 1681.0 70.3 1031 224-1344 1-1077(1100)
2 TIGR00376 DNA helicase, putati 100.0 8E-79 1.7E-83 757.3 50.4 544 742-1344 2-632 (637)
3 KOG1803 DNA helicase [Replicat 100.0 2.6E-78 5.6E-83 708.5 32.8 564 729-1344 3-630 (649)
4 KOG1802 RNA helicase nonsense 100.0 1.1E-68 2.5E-73 623.5 39.6 493 823-1344 295-838 (935)
5 PF08696 Dna2: DNA replication 100.0 1.4E-53 3E-58 464.4 20.7 204 398-601 5-209 (209)
6 COG1112 Superfamily I DNA and 100.0 4.2E-42 9.2E-47 441.1 29.1 392 940-1344 270-751 (767)
7 KOG1807 Helicases [Replication 100.0 5.6E-42 1.2E-46 405.7 25.3 273 1049-1343 697-977 (1025)
8 KOG1804 RNA helicase [RNA proc 100.0 7.7E-32 1.7E-36 332.5 11.1 360 961-1344 327-721 (775)
9 PF13087 AAA_12: AAA domain; P 100.0 1.3E-30 2.8E-35 281.5 12.3 189 1120-1321 1-199 (200)
10 PRK11773 uvrD DNA-dependent he 100.0 3.2E-29 6.9E-34 319.5 27.1 265 942-1247 7-356 (721)
11 TIGR01075 uvrD DNA helicase II 100.0 4.6E-29 1E-33 318.2 26.4 265 942-1247 2-351 (715)
12 PRK11054 helD DNA helicase IV; 100.0 1.9E-28 4E-33 307.6 29.2 344 943-1335 195-675 (684)
13 TIGR01073 pcrA ATP-dependent D 100.0 1.1E-28 2.3E-33 315.5 27.3 264 943-1247 3-353 (726)
14 PRK10919 ATP-dependent DNA hel 100.0 1.9E-28 4.2E-33 309.3 26.2 206 944-1159 2-293 (672)
15 KOG1801 tRNA-splicing endonucl 100.0 9.8E-29 2.1E-33 315.6 21.8 279 1050-1343 514-810 (827)
16 PF13086 AAA_11: AAA domain; P 100.0 2.3E-29 5E-34 275.3 12.9 169 944-1112 1-235 (236)
17 TIGR01074 rep ATP-dependent DN 99.9 5.3E-26 1.2E-30 288.5 26.0 205 944-1158 1-291 (664)
18 TIGR01447 recD exodeoxyribonuc 99.9 4.2E-25 9.2E-30 273.3 24.5 351 947-1324 148-574 (586)
19 PRK10875 recD exonuclease V su 99.9 2.5E-24 5.5E-29 266.8 25.7 198 945-1161 153-381 (615)
20 TIGR01448 recD_rel helicase, p 99.9 5.3E-24 1.1E-28 270.1 27.0 174 943-1162 322-502 (720)
21 COG0210 UvrD Superfamily I DNA 99.9 2.3E-23 5E-28 264.2 25.4 274 944-1258 2-369 (655)
22 TIGR02785 addA_Gpos recombinat 99.9 1.8E-22 3.9E-27 269.4 29.4 83 1069-1158 387-481 (1232)
23 TIGR02768 TraA_Ti Ti-type conj 99.9 4.9E-22 1.1E-26 253.1 26.6 306 943-1328 351-717 (744)
24 KOG1806 DEAD box containing he 99.9 2.3E-23 5E-28 253.9 13.1 370 944-1335 738-1261(1320)
25 TIGR00609 recB exodeoxyribonuc 99.9 2.1E-22 4.7E-27 266.0 22.9 176 1069-1259 295-490 (1087)
26 PRK13889 conjugal transfer rel 99.9 3.8E-21 8.2E-26 247.2 25.8 169 943-1162 345-517 (988)
27 PRK13826 Dtr system oriT relax 99.9 7.3E-21 1.6E-25 245.3 27.9 169 943-1162 380-552 (1102)
28 PRK13909 putative recombinatio 99.9 1.5E-21 3.3E-26 254.5 21.8 150 1069-1255 327-488 (910)
29 COG1074 RecB ATP-dependent exo 99.9 1.1E-20 2.3E-25 250.4 24.5 175 1069-1259 377-575 (1139)
30 PF13604 AAA_30: AAA domain; P 99.8 1E-19 2.3E-24 197.6 13.1 173 944-1162 1-178 (196)
31 COG3973 Superfamily I DNA and 99.7 2.6E-17 5.7E-22 194.8 17.5 199 1069-1320 527-745 (747)
32 PRK13709 conjugal transfer nic 99.7 2.5E-16 5.5E-21 211.1 27.0 172 943-1161 966-1146(1747)
33 TIGR02784 addA_alphas double-s 99.7 1E-16 2.2E-21 214.4 21.1 84 1069-1159 390-496 (1141)
34 PRK14712 conjugal transfer nic 99.7 6.4E-16 1.4E-20 204.7 26.0 168 943-1156 834-1010(1623)
35 PRK10876 recB exonuclease V su 99.7 2.4E-16 5.2E-21 209.5 18.2 178 1068-1259 375-572 (1181)
36 TIGR00372 cas4 CRISPR-associat 99.6 1.7E-15 3.8E-20 161.5 15.8 173 453-714 1-174 (178)
37 PF01443 Viral_helicase1: Vira 99.6 4.4E-16 9.6E-21 172.3 8.5 49 1264-1318 184-233 (234)
38 TIGR02760 TraI_TIGR conjugativ 99.6 7E-15 1.5E-19 202.4 21.5 172 942-1161 1017-1198(1960)
39 PF00580 UvrD-helicase: UvrD/R 99.6 2.4E-15 5.1E-20 172.6 12.0 63 945-1010 1-67 (315)
40 COG3972 Superfamily I DNA and 99.6 3.5E-14 7.5E-19 165.1 16.1 363 943-1335 161-584 (660)
41 PF01930 Cas_Cas4: Domain of u 99.6 3E-14 6.6E-19 150.1 14.3 107 591-716 54-160 (162)
42 PF09848 DUF2075: Uncharacteri 99.5 1.2E-13 2.5E-18 163.4 17.2 165 961-1162 2-184 (352)
43 COG0507 RecD ATP-dependent exo 99.5 7.5E-14 1.6E-18 178.8 14.4 134 943-1114 318-454 (696)
44 PF05970 PIF1: PIF1-like helic 99.3 2.6E-12 5.6E-17 152.6 9.4 139 944-1114 1-161 (364)
45 PF13361 UvrD_C: UvrD-like hel 99.2 1.6E-11 3.4E-16 142.5 10.3 61 1261-1321 286-350 (351)
46 TIGR01896 cas_AF1879 CRISPR-as 99.2 2.6E-10 5.6E-15 128.0 19.4 221 452-714 34-268 (271)
47 TIGR02760 TraI_TIGR conjugativ 99.2 5.2E-11 1.1E-15 164.9 16.7 144 943-1113 428-576 (1960)
48 PF13245 AAA_19: Part of AAA d 99.2 7E-11 1.5E-15 109.4 7.6 58 951-1008 1-62 (76)
49 COG1468 CRISPR-associated prot 99.1 1.2E-09 2.6E-14 118.1 13.0 166 452-714 15-184 (190)
50 PF02562 PhoH: PhoH-like prote 99.0 1.2E-09 2.5E-14 119.4 11.0 146 943-1105 3-157 (205)
51 PHA00619 CRISPR-associated Cas 99.0 3.2E-09 6.9E-14 116.2 14.4 165 458-716 25-197 (201)
52 PF12705 PDDEXK_1: PD-(D/E)XK 99.0 5.5E-10 1.2E-14 123.0 6.5 228 453-712 2-252 (257)
53 PRK10536 hypothetical protein; 98.8 2E-08 4.3E-13 112.7 12.2 149 941-1105 56-214 (262)
54 smart00487 DEXDc DEAD-like hel 98.7 1.1E-07 2.4E-12 100.3 12.7 126 942-1084 6-143 (201)
55 PHA01622 CRISPR-associated Cas 98.7 3.4E-07 7.3E-12 100.5 15.1 114 586-713 80-196 (204)
56 PF06023 DUF911: Archaeal prot 98.7 1.5E-07 3.2E-12 106.7 12.2 201 450-691 42-269 (289)
57 cd00046 DEXDc DEAD-like helica 98.5 5.1E-07 1.1E-11 89.6 8.9 111 962-1087 2-120 (144)
58 PF04851 ResIII: Type III rest 98.4 5.4E-07 1.2E-11 95.2 8.7 64 944-1010 3-72 (184)
59 PF00270 DEAD: DEAD/DEAH box h 98.4 8.8E-07 1.9E-11 92.8 9.5 121 946-1083 1-132 (169)
60 TIGR02773 addB_Gpos ATP-depend 98.4 6.3E-06 1.4E-10 111.9 20.1 157 1070-1270 196-369 (1158)
61 PF13538 UvrD_C_2: UvrD-like h 98.4 2E-07 4.4E-12 90.6 2.8 50 1262-1318 55-104 (104)
62 PRK05580 primosome assembly pr 98.3 8.2E-06 1.8E-10 104.7 15.5 125 943-1083 143-271 (679)
63 KOG2108 3'-5' DNA helicase [Re 98.2 6.4E-07 1.4E-11 112.0 2.9 58 1262-1319 567-624 (853)
64 PRK11192 ATP-dependent RNA hel 98.2 0.00014 3.1E-09 88.7 22.8 122 943-1082 22-159 (434)
65 PRK11776 ATP-dependent RNA hel 98.2 0.00015 3.3E-09 89.2 23.0 123 942-1081 24-158 (460)
66 PHA02558 uvsW UvsW helicase; P 98.1 2.4E-05 5.1E-10 97.4 13.0 121 943-1087 113-239 (501)
67 cd00268 DEADc DEAD-box helicas 98.1 3.2E-05 7E-10 84.0 12.3 123 943-1083 20-156 (203)
68 PRK10590 ATP-dependent RNA hel 98.0 0.00036 7.8E-09 86.0 22.4 124 942-1082 21-161 (456)
69 PF07652 Flavi_DEAD: Flaviviru 98.0 8.1E-06 1.7E-10 84.2 5.5 53 960-1012 4-57 (148)
70 COG1061 SSL2 DNA or RNA helica 98.0 2.5E-05 5.4E-10 95.6 10.7 123 942-1087 34-163 (442)
71 PRK11634 ATP-dependent RNA hel 97.9 0.00068 1.5E-08 86.6 23.2 124 942-1082 26-161 (629)
72 COG1198 PriA Primosomal protei 97.9 4.9E-05 1.1E-09 96.7 11.6 127 942-1084 196-327 (730)
73 PTZ00424 helicase 45; Provisio 97.9 4.4E-05 9.6E-10 91.9 10.8 124 942-1083 48-183 (401)
74 PRK10917 ATP-dependent DNA hel 97.9 8.1E-05 1.8E-09 95.9 13.3 126 944-1084 261-397 (681)
75 TIGR00643 recG ATP-dependent D 97.9 7.8E-05 1.7E-09 95.3 12.9 126 944-1084 235-371 (630)
76 PRK02362 ski2-like helicase; P 97.9 4.9E-05 1.1E-09 98.8 10.8 124 942-1084 21-151 (737)
77 TIGR03623 probable DNA repair 97.8 0.0004 8.7E-09 92.1 19.1 177 453-663 598-798 (874)
78 TIGR00580 mfd transcription-re 97.8 0.0002 4.3E-09 94.4 15.0 125 944-1083 451-586 (926)
79 PRK10689 transcription-repair 97.8 0.00019 4.1E-09 96.5 14.3 125 944-1083 600-735 (1147)
80 TIGR01054 rgy reverse gyrase. 97.8 8.7E-05 1.9E-09 100.0 11.1 129 944-1084 78-213 (1171)
81 COG4343 CRISPR-associated prot 97.8 0.0014 3E-08 72.5 18.1 98 578-692 157-261 (281)
82 PRK00254 ski2-like helicase; P 97.7 0.00013 2.9E-09 94.6 12.2 124 942-1084 21-152 (720)
83 PTZ00110 helicase; Provisional 97.7 0.0021 4.5E-08 81.1 22.0 123 942-1082 150-289 (545)
84 PRK04296 thymidine kinase; Pro 97.7 7.7E-05 1.7E-09 81.2 7.8 35 962-996 4-38 (190)
85 PRK11448 hsdR type I restricti 97.7 0.00018 3.9E-09 96.5 12.4 123 943-1082 412-552 (1123)
86 PRK01172 ski2-like helicase; P 97.7 9.5E-05 2.1E-09 95.3 8.8 119 944-1083 22-148 (674)
87 KOG1804 RNA helicase [RNA proc 97.7 4.4E-05 9.6E-10 96.9 5.6 374 943-1336 119-532 (775)
88 PRK14712 conjugal transfer nic 97.7 0.00024 5.2E-09 96.7 12.7 136 943-1132 280-421 (1623)
89 PRK14974 cell division protein 97.6 0.00035 7.5E-09 82.5 12.4 57 961-1017 141-200 (336)
90 COG1875 NYN ribonuclease and A 97.6 0.00016 3.5E-09 83.8 9.3 154 939-1107 223-391 (436)
91 PRK04837 ATP-dependent RNA hel 97.6 0.00039 8.5E-09 84.7 13.3 126 942-1084 28-171 (423)
92 TIGR00603 rad25 DNA repair hel 97.6 0.00044 9.5E-09 88.4 13.3 141 943-1104 254-412 (732)
93 PLN00206 DEAD-box ATP-dependen 97.6 0.0043 9.4E-08 77.8 21.7 123 942-1082 141-282 (518)
94 COG4096 HsdR Type I site-speci 97.6 0.0001 2.2E-09 92.7 7.0 120 943-1083 164-298 (875)
95 PRK09401 reverse gyrase; Revie 97.6 0.00037 8.1E-09 94.0 12.8 126 944-1083 80-214 (1176)
96 COG4098 comFA Superfamily II D 97.6 0.00029 6.4E-09 80.8 9.8 118 938-1083 91-214 (441)
97 TIGR00595 priA primosomal prot 97.6 0.0003 6.4E-09 87.6 10.8 104 964-1083 1-106 (505)
98 COG1702 PhoH Phosphate starvat 97.5 0.00023 5E-09 82.5 8.9 153 943-1112 127-290 (348)
99 TIGR02786 addB_alphas double-s 97.5 0.00083 1.8E-08 90.3 15.6 163 453-645 749-926 (1021)
100 TIGR00614 recQ_fam ATP-depende 97.5 0.00058 1.2E-08 84.5 13.1 124 942-1083 9-140 (470)
101 TIGR00348 hsdR type I site-spe 97.5 0.00055 1.2E-08 88.1 13.2 123 946-1087 240-382 (667)
102 cd00009 AAA The AAA+ (ATPases 97.5 0.0003 6.5E-09 70.4 8.4 58 947-1004 4-63 (151)
103 PRK04537 ATP-dependent RNA hel 97.5 0.00038 8.2E-09 88.0 11.0 124 942-1084 29-173 (572)
104 KOG0989 Replication factor C, 97.5 0.00019 4.1E-09 81.8 7.0 26 961-986 58-83 (346)
105 TIGR02774 rexB_recomb ATP-depe 97.5 0.0011 2.5E-08 89.1 15.5 192 451-664 743-951 (1076)
106 PRK14701 reverse gyrase; Provi 97.4 0.00077 1.7E-08 93.2 13.2 125 944-1083 79-213 (1638)
107 PF13401 AAA_22: AAA domain; P 97.4 0.00023 4.9E-09 71.6 6.0 49 960-1008 4-58 (131)
108 TIGR01970 DEAH_box_HrpB ATP-de 97.4 0.00048 1E-08 90.0 10.4 62 949-1010 6-67 (819)
109 PF00448 SRP54: SRP54-type pro 97.4 0.00049 1.1E-08 75.4 8.9 57 962-1018 3-62 (196)
110 COG1204 Superfamily II helicas 97.4 0.00054 1.2E-08 88.7 10.6 123 944-1085 31-161 (766)
111 TIGR02773 addB_Gpos ATP-depend 97.4 0.0016 3.4E-08 89.1 15.3 202 451-663 781-1008(1158)
112 PF05127 Helicase_RecD: Helica 97.4 5.5E-05 1.2E-09 81.2 1.1 166 964-1156 1-173 (177)
113 PRK13909 putative recombinatio 97.4 0.0009 1.9E-08 89.1 12.6 67 589-668 843-909 (910)
114 cd03115 SRP The signal recogni 97.4 0.0013 2.8E-08 70.1 11.5 34 962-995 2-35 (173)
115 PRK08181 transposase; Validate 97.4 0.0028 6E-08 72.9 14.9 55 942-996 85-142 (269)
116 PRK00771 signal recognition pa 97.4 0.0013 2.8E-08 80.3 12.7 55 961-1015 96-153 (437)
117 TIGR00064 ftsY signal recognit 97.3 0.0018 3.9E-08 74.6 12.9 59 961-1019 73-134 (272)
118 TIGR01389 recQ ATP-dependent D 97.3 0.0016 3.6E-08 82.8 13.7 124 942-1083 11-140 (591)
119 PRK08084 DNA replication initi 97.3 0.0029 6.2E-08 71.3 14.1 53 945-997 28-82 (235)
120 smart00382 AAA ATPases associa 97.3 0.00042 9.1E-09 68.5 6.6 44 961-1004 3-46 (148)
121 KOG2108 3'-5' DNA helicase [Re 97.3 8.7E-05 1.9E-09 93.5 1.9 72 1069-1148 440-512 (853)
122 COG0552 FtsY Signal recognitio 97.3 0.001 2.2E-08 77.2 10.2 56 962-1017 141-199 (340)
123 TIGR03817 DECH_helic helicase/ 97.3 0.0014 2.9E-08 85.4 12.4 126 942-1082 34-169 (742)
124 PRK07952 DNA replication prote 97.3 0.0013 2.8E-08 74.5 10.6 50 946-995 78-134 (244)
125 PRK13709 conjugal transfer nic 97.3 0.0014 3E-08 90.7 12.6 120 946-1106 415-540 (1747)
126 PRK13766 Hef nuclease; Provisi 97.3 0.0013 2.9E-08 86.1 12.2 122 944-1084 15-145 (773)
127 TIGR03491 RecB family nuclease 97.3 0.0019 4.1E-08 79.7 12.6 120 588-720 83-203 (457)
128 PRK11889 flhF flagellar biosyn 97.2 0.0013 2.8E-08 78.5 10.5 56 961-1016 242-300 (436)
129 TIGR03499 FlhF flagellar biosy 97.2 0.0012 2.5E-08 76.5 10.0 36 961-996 195-232 (282)
130 PRK11664 ATP-dependent RNA hel 97.2 0.00092 2E-08 87.4 10.1 61 950-1010 10-70 (812)
131 PRK10867 signal recognition pa 97.2 0.0017 3.7E-08 79.1 11.6 57 962-1018 102-162 (433)
132 PRK01297 ATP-dependent RNA hel 97.2 0.0022 4.7E-08 79.5 12.8 124 942-1082 107-249 (475)
133 COG1110 Reverse gyrase [DNA re 97.2 0.0019 4E-08 83.0 11.7 123 944-1079 82-212 (1187)
134 PRK11057 ATP-dependent DNA hel 97.2 0.0026 5.6E-08 81.3 13.3 127 942-1084 23-153 (607)
135 PRK12723 flagellar biosynthesi 97.2 0.0016 3.5E-08 78.3 10.5 54 961-1015 175-236 (388)
136 PRK14722 flhF flagellar biosyn 97.2 0.0017 3.6E-08 77.7 10.4 46 960-1005 137-187 (374)
137 PRK06526 transposase; Provisio 97.2 0.0031 6.7E-08 71.9 12.3 54 943-996 79-134 (254)
138 PRK13767 ATP-dependent helicas 97.1 0.0021 4.6E-08 85.2 12.2 66 943-1009 31-105 (876)
139 PRK10416 signal recognition pa 97.1 0.0029 6.4E-08 74.4 11.2 58 961-1018 115-175 (318)
140 PRK05703 flhF flagellar biosyn 97.1 0.0024 5.2E-08 77.9 10.6 45 961-1005 222-271 (424)
141 TIGR00959 ffh signal recogniti 97.0 0.0035 7.5E-08 76.4 11.7 58 962-1019 101-162 (428)
142 TIGR01587 cas3_core CRISPR-ass 97.0 0.0025 5.5E-08 75.7 10.1 49 963-1011 2-52 (358)
143 TIGR02784 addA_alphas double-s 97.0 0.00096 2.1E-08 90.9 7.3 53 958-1010 8-63 (1141)
144 PLN03025 replication factor C 97.0 0.0033 7.2E-08 73.9 10.7 43 946-988 18-62 (319)
145 KOG0952 DNA/RNA helicase MER3/ 97.0 0.0024 5.2E-08 82.0 9.8 122 942-1084 108-252 (1230)
146 KOG0991 Replication factor C, 97.0 0.0011 2.3E-08 73.0 5.7 26 961-986 49-74 (333)
147 PF01695 IstB_IS21: IstB-like 96.9 0.0031 6.7E-08 68.2 9.0 45 960-1009 47-91 (178)
148 PRK12377 putative replication 96.9 0.0052 1.1E-07 69.9 11.2 36 961-996 102-137 (248)
149 PF00176 SNF2_N: SNF2 family N 96.9 0.001 2.3E-08 76.1 5.7 140 949-1105 2-174 (299)
150 TIGR03158 cas3_cyano CRISPR-as 96.9 0.0049 1.1E-07 73.7 11.4 59 949-1010 2-61 (357)
151 PF02399 Herpes_ori_bp: Origin 96.9 0.0014 2.9E-08 83.6 6.8 54 960-1013 49-103 (824)
152 TIGR01425 SRP54_euk signal rec 96.9 0.0079 1.7E-07 73.1 12.9 57 961-1017 101-160 (429)
153 PRK12726 flagellar biosynthesi 96.9 0.0064 1.4E-07 72.5 11.7 56 960-1015 206-264 (407)
154 COG1111 MPH1 ERCC4-like helica 96.9 0.0043 9.2E-08 75.0 10.1 120 946-1084 17-145 (542)
155 cd01983 Fer4_NifH The Fer4_Nif 96.8 0.0054 1.2E-07 57.5 8.9 67 963-1105 2-70 (99)
156 PHA02653 RNA helicase NPH-II; 96.8 0.0068 1.5E-07 77.8 12.4 114 948-1083 168-304 (675)
157 PLN03137 ATP-dependent DNA hel 96.8 0.008 1.7E-07 79.6 12.9 128 942-1083 458-594 (1195)
158 PRK10876 recB exonuclease V su 96.8 0.0015 3.2E-08 88.9 6.4 50 960-1009 17-78 (1181)
159 cd01120 RecA-like_NTPases RecA 96.8 0.0027 5.8E-08 65.5 6.8 42 962-1003 1-42 (165)
160 PRK12727 flagellar biosynthesi 96.8 0.0079 1.7E-07 74.4 11.8 36 960-995 350-387 (559)
161 COG1484 DnaC DNA replication p 96.8 0.0087 1.9E-07 68.3 11.4 51 946-996 85-141 (254)
162 cd01124 KaiC KaiC is a circadi 96.8 0.0022 4.8E-08 68.6 6.3 51 963-1014 2-52 (187)
163 COG0513 SrmB Superfamily II DN 96.8 0.072 1.6E-06 66.9 20.3 162 943-1157 50-227 (513)
164 TIGR03015 pepcterm_ATPase puta 96.7 0.0073 1.6E-07 68.7 10.7 40 946-985 25-68 (269)
165 PRK08116 hypothetical protein; 96.7 0.012 2.7E-07 67.6 12.1 35 962-996 116-150 (268)
166 KOG0987 DNA helicase PIF1/RRM3 96.7 0.0028 6.1E-08 79.7 7.1 60 942-1002 115-179 (540)
167 TIGR01967 DEAH_box_HrpA ATP-de 96.6 0.0037 8E-08 84.3 8.3 63 949-1011 71-134 (1283)
168 TIGR02621 cas3_GSU0051 CRISPR- 96.6 0.0052 1.1E-07 79.8 9.3 67 945-1011 16-85 (844)
169 PF13173 AAA_14: AAA domain 96.6 0.011 2.3E-07 60.1 9.6 42 960-1002 2-43 (128)
170 COG1200 RecG RecG-like helicas 96.6 0.018 3.9E-07 72.2 13.2 197 944-1161 262-474 (677)
171 COG0541 Ffh Signal recognition 96.6 0.017 3.6E-07 69.4 12.0 113 962-1105 102-224 (451)
172 PRK09694 helicase Cas3; Provis 96.5 0.011 2.4E-07 77.8 11.6 67 943-1010 285-353 (878)
173 PRK14956 DNA polymerase III su 96.5 0.0046 1E-07 75.9 7.4 134 952-1114 29-172 (484)
174 PRK12323 DNA polymerase III su 96.5 0.0077 1.7E-07 76.0 9.0 135 950-1115 25-176 (700)
175 PF00004 AAA: ATPase family as 96.4 0.014 3.1E-07 58.3 9.0 61 963-1026 1-72 (132)
176 COG2256 MGS1 ATPase related to 96.4 0.0099 2.1E-07 70.5 8.7 43 1071-1113 105-149 (436)
177 COG1419 FlhF Flagellar GTP-bin 96.4 0.009 1.9E-07 71.4 8.4 36 960-995 203-240 (407)
178 COG1201 Lhr Lhr-like helicases 96.4 0.013 2.9E-07 75.7 10.4 124 942-1083 20-162 (814)
179 PF06745 KaiC: KaiC; InterPro 96.4 0.0058 1.2E-07 68.1 6.4 53 960-1013 19-72 (226)
180 TIGR00708 cobA cob(I)alamin ad 96.3 0.016 3.5E-07 62.3 9.3 58 960-1020 5-66 (173)
181 PRK06893 DNA replication initi 96.3 0.017 3.7E-07 64.8 10.1 37 961-997 40-76 (229)
182 PRK12724 flagellar biosynthesi 96.3 0.014 3E-07 70.7 9.7 36 961-996 224-260 (432)
183 PRK14873 primosome assembly pr 96.3 0.011 2.3E-07 76.0 9.2 105 964-1084 164-271 (665)
184 PRK07994 DNA polymerase III su 96.3 0.011 2.4E-07 75.2 9.3 129 951-1113 26-169 (647)
185 cd01121 Sms Sms (bacterial rad 96.3 0.012 2.6E-07 70.7 8.8 53 960-1013 82-134 (372)
186 PRK08727 hypothetical protein; 96.3 0.012 2.5E-07 66.3 8.2 36 961-996 42-77 (233)
187 PRK07246 bifunctional ATP-depe 96.3 0.031 6.7E-07 73.7 13.2 60 946-1007 247-310 (820)
188 PF05496 RuvB_N: Holliday junc 96.3 0.013 2.8E-07 65.3 8.2 23 961-983 51-73 (233)
189 PRK14958 DNA polymerase III su 96.2 0.012 2.6E-07 73.5 9.0 133 950-1113 25-169 (509)
190 COG4889 Predicted helicase [Ge 96.2 0.014 3E-07 73.7 9.2 141 942-1085 159-319 (1518)
191 TIGR02928 orc1/cdc6 family rep 96.2 0.019 4.2E-07 68.4 10.4 40 947-986 21-66 (365)
192 cd00561 CobA_CobO_BtuR ATP:cor 96.2 0.029 6.3E-07 59.6 10.3 59 961-1021 3-65 (159)
193 KOG0342 ATP-dependent RNA heli 96.2 0.08 1.7E-06 64.0 14.8 120 942-1080 102-240 (543)
194 PF00308 Bac_DnaA: Bacterial d 96.1 0.045 9.7E-07 61.2 11.9 51 946-996 16-72 (219)
195 TIGR03714 secA2 accessory Sec 96.1 0.041 8.9E-07 71.0 13.0 141 944-1104 68-223 (762)
196 PRK12899 secA preprotein trans 96.1 0.03 6.4E-07 73.0 11.6 121 945-1084 93-229 (970)
197 KOG0333 U5 snRNP-like RNA heli 96.1 0.1 2.2E-06 63.4 15.0 263 943-1277 266-556 (673)
198 PRK14960 DNA polymerase III su 96.1 0.017 3.7E-07 73.1 8.9 132 950-1112 24-167 (702)
199 PRK11823 DNA repair protein Ra 96.0 0.017 3.7E-07 71.1 8.8 53 960-1013 80-132 (446)
200 PRK14723 flhF flagellar biosyn 96.0 0.021 4.5E-07 73.7 9.8 47 961-1007 186-237 (767)
201 PRK08939 primosomal protein Dn 96.0 0.018 3.9E-07 67.5 8.5 35 962-996 158-192 (306)
202 PRK12422 chromosomal replicati 96.0 0.051 1.1E-06 67.0 12.7 36 961-996 142-177 (445)
203 PRK08691 DNA polymerase III su 95.9 0.05 1.1E-06 69.5 12.3 135 950-1115 25-171 (709)
204 PRK07003 DNA polymerase III su 95.9 0.025 5.3E-07 72.5 9.5 134 950-1114 25-170 (830)
205 PRK14951 DNA polymerase III su 95.9 0.016 3.6E-07 73.5 8.1 134 950-1113 25-174 (618)
206 PRK05973 replicative DNA helic 95.9 0.013 2.7E-07 66.3 6.3 57 957-1014 61-117 (237)
207 KOG0354 DEAD-box like helicase 95.9 0.026 5.6E-07 71.9 9.6 127 942-1084 60-193 (746)
208 TIGR02785 addA_Gpos recombinat 95.9 0.052 1.1E-06 74.8 13.2 70 588-666 1156-1231(1232)
209 PRK05986 cob(I)alamin adenolsy 95.9 0.029 6.4E-07 61.2 8.7 61 959-1021 21-85 (191)
210 PRK13342 recombination factor 95.9 0.029 6.2E-07 68.6 9.7 23 962-984 38-60 (413)
211 PRK11131 ATP-dependent RNA hel 95.8 0.014 3E-07 78.9 7.2 61 950-1011 79-141 (1294)
212 PRK09183 transposase/IS protei 95.8 0.038 8.2E-07 63.3 9.8 54 942-995 82-137 (259)
213 cd01129 PulE-GspE PulE/GspE Th 95.8 0.018 3.8E-07 66.2 7.1 52 944-995 63-115 (264)
214 PRK06731 flhF flagellar biosyn 95.8 0.049 1.1E-06 62.8 10.6 56 961-1016 76-134 (270)
215 PRK14962 DNA polymerase III su 95.8 0.026 5.6E-07 69.9 8.8 37 950-986 23-62 (472)
216 COG1643 HrpA HrpA-like helicas 95.8 0.033 7.2E-07 72.7 10.0 63 949-1011 54-117 (845)
217 PRK12898 secA preprotein trans 95.8 0.074 1.6E-06 67.9 12.8 64 944-1010 103-166 (656)
218 PF10926 DUF2800: Protein of u 95.7 0.13 2.8E-06 61.7 14.1 194 452-686 3-200 (372)
219 PRK14963 DNA polymerase III su 95.7 0.03 6.5E-07 69.9 9.2 25 963-987 39-63 (504)
220 COG0378 HypB Ni2+-binding GTPa 95.7 0.16 3.5E-06 55.4 13.3 171 962-1152 15-192 (202)
221 PRK14948 DNA polymerase III su 95.7 0.029 6.2E-07 71.8 9.0 134 952-1113 27-171 (620)
222 PRK14949 DNA polymerase III su 95.7 0.018 3.8E-07 75.0 7.2 24 963-986 41-64 (944)
223 TIGR03877 thermo_KaiC_1 KaiC d 95.7 0.016 3.5E-07 65.3 6.0 53 960-1013 21-73 (237)
224 PRK13341 recombination factor 95.6 0.027 5.9E-07 73.0 8.6 35 1070-1104 109-145 (725)
225 PRK08533 flagellar accessory p 95.6 0.019 4.1E-07 64.6 6.3 55 958-1013 22-76 (230)
226 PRK13833 conjugal transfer pro 95.6 0.024 5.3E-07 66.8 7.3 51 943-993 127-179 (323)
227 TIGR02782 TrbB_P P-type conjug 95.6 0.025 5.3E-07 66.2 7.3 54 943-996 115-170 (299)
228 PRK06995 flhF flagellar biosyn 95.6 0.048 1E-06 67.5 10.1 35 961-995 257-293 (484)
229 PHA00729 NTP-binding motif con 95.6 0.041 8.8E-07 61.6 8.5 24 962-985 19-42 (226)
230 PRK14088 dnaA chromosomal repl 95.6 0.092 2E-06 64.7 12.4 35 962-996 132-168 (440)
231 PRK04914 ATP-dependent helicas 95.6 0.15 3.3E-06 67.9 15.0 150 943-1106 151-318 (956)
232 PRK14087 dnaA chromosomal repl 95.5 0.071 1.5E-06 65.9 11.3 36 961-996 142-179 (450)
233 TIGR03878 thermo_KaiC_2 KaiC d 95.5 0.025 5.5E-07 64.7 6.7 39 960-998 36-74 (259)
234 PTZ00112 origin recognition co 95.5 0.087 1.9E-06 68.2 11.7 24 963-986 784-807 (1164)
235 PRK14952 DNA polymerase III su 95.5 0.038 8.1E-07 70.1 8.7 36 951-986 23-61 (584)
236 KOG0328 Predicted ATP-dependen 95.5 0.15 3.2E-06 57.9 12.2 118 944-1079 49-178 (400)
237 TIGR03880 KaiC_arch_3 KaiC dom 95.5 0.027 5.8E-07 62.7 6.7 54 960-1014 16-69 (224)
238 TIGR00416 sms DNA repair prote 95.4 0.047 1E-06 67.5 9.3 52 960-1012 94-145 (454)
239 PRK08451 DNA polymerase III su 95.4 0.053 1.2E-06 67.9 9.6 131 951-1113 24-167 (535)
240 COG0470 HolB ATPase involved i 95.4 0.017 3.8E-07 67.2 5.2 27 961-987 24-51 (325)
241 PRK04328 hypothetical protein; 95.4 0.026 5.6E-07 64.3 6.4 53 960-1013 23-75 (249)
242 PRK14964 DNA polymerase III su 95.4 0.057 1.2E-06 67.0 9.7 132 951-1113 23-166 (491)
243 PRK00149 dnaA chromosomal repl 95.4 0.076 1.6E-06 65.6 10.8 36 961-996 149-186 (450)
244 PRK14969 DNA polymerase III su 95.4 0.06 1.3E-06 67.8 10.0 133 950-1113 25-169 (527)
245 PRK06067 flagellar accessory p 95.3 0.033 7.1E-07 62.5 6.9 54 960-1014 25-78 (234)
246 TIGR00604 rad3 DNA repair heli 95.3 0.045 9.6E-07 71.4 8.9 66 945-1010 11-82 (705)
247 KOG0780 Signal recognition par 95.3 0.081 1.8E-06 62.4 9.9 56 961-1016 102-160 (483)
248 PRK11331 5-methylcytosine-spec 95.3 0.079 1.7E-06 64.8 10.3 41 945-985 179-219 (459)
249 PRK09111 DNA polymerase III su 95.3 0.058 1.3E-06 68.6 9.6 134 949-1113 32-182 (598)
250 PRK13894 conjugal transfer ATP 95.3 0.034 7.4E-07 65.6 7.1 54 944-997 132-187 (319)
251 PF13191 AAA_16: AAA ATPase do 95.3 0.029 6.3E-07 59.6 6.0 48 948-995 7-59 (185)
252 PRK08903 DnaA regulatory inact 95.3 0.057 1.2E-06 60.2 8.5 53 944-996 23-78 (227)
253 PF12684 DUF3799: PDDEXK-like 95.3 0.026 5.7E-07 63.7 5.8 74 590-674 113-201 (237)
254 cd01130 VirB11-like_ATPase Typ 95.2 0.037 8E-07 60.0 6.7 50 942-992 7-56 (186)
255 PRK07133 DNA polymerase III su 95.2 0.048 1E-06 70.2 8.6 37 950-986 27-66 (725)
256 smart00489 DEXDc3 DEAD-like he 95.2 0.062 1.3E-06 62.6 8.8 65 946-1010 10-83 (289)
257 smart00488 DEXDc2 DEAD-like he 95.2 0.062 1.3E-06 62.6 8.8 65 946-1010 10-83 (289)
258 KOG2028 ATPase related to the 95.2 0.031 6.7E-07 65.2 6.1 54 952-1005 152-207 (554)
259 PRK04195 replication factor C 95.2 0.093 2E-06 65.4 10.9 39 946-984 19-63 (482)
260 TIGR00362 DnaA chromosomal rep 95.2 0.054 1.2E-06 65.9 8.6 35 962-996 138-174 (405)
261 PRK00440 rfc replication facto 95.1 0.12 2.7E-06 60.1 11.1 42 947-988 23-66 (319)
262 PRK09112 DNA polymerase III su 95.1 0.1 2.3E-06 62.4 10.5 38 950-987 32-72 (351)
263 PRK06835 DNA replication prote 95.1 0.04 8.6E-07 65.3 6.7 37 960-996 183-219 (329)
264 COG1197 Mfd Transcription-repa 95.1 0.14 3E-06 68.0 12.2 125 944-1083 594-729 (1139)
265 COG3854 SpoIIIAA ncharacterize 95.0 0.11 2.3E-06 57.9 9.3 119 962-1114 139-263 (308)
266 TIGR03881 KaiC_arch_4 KaiC dom 95.0 0.042 9.1E-07 61.3 6.4 52 960-1012 20-71 (229)
267 PRK05896 DNA polymerase III su 95.0 0.062 1.4E-06 67.9 8.5 37 951-987 26-65 (605)
268 TIGR02655 circ_KaiC circadian 95.0 0.032 6.9E-07 69.6 5.9 54 960-1014 263-316 (484)
269 TIGR02688 conserved hypothetic 95.0 0.12 2.7E-06 62.6 10.5 31 958-988 207-238 (449)
270 PRK05563 DNA polymerase III su 94.9 0.1 2.2E-06 66.2 10.2 118 962-1113 40-169 (559)
271 PRK10436 hypothetical protein; 94.9 0.048 1E-06 67.3 7.1 49 944-992 201-250 (462)
272 TIGR02774 rexB_recomb ATP-depe 94.9 0.25 5.5E-06 67.1 14.4 165 1070-1271 185-358 (1076)
273 COG0467 RAD55 RecA-superfamily 94.9 0.041 8.8E-07 62.8 6.0 47 959-1005 22-68 (260)
274 PTZ00293 thymidine kinase; Pro 94.8 0.036 7.8E-07 61.5 5.2 37 961-997 5-41 (211)
275 TIGR01650 PD_CobS cobaltochela 94.8 0.06 1.3E-06 63.4 7.3 42 943-984 47-88 (327)
276 PRK05707 DNA polymerase III su 94.8 0.04 8.8E-07 65.2 5.9 124 962-1113 24-156 (328)
277 KOG0923 mRNA splicing factor A 94.7 0.043 9.3E-07 68.0 5.9 62 950-1011 270-333 (902)
278 TIGR03420 DnaA_homol_Hda DnaA 94.7 0.088 1.9E-06 58.3 8.1 53 946-998 22-76 (226)
279 cd01394 radB RadB. The archaea 94.7 0.038 8.3E-07 61.1 5.2 37 960-996 19-55 (218)
280 PF13481 AAA_25: AAA domain; P 94.7 0.062 1.3E-06 58.0 6.7 51 959-1010 31-91 (193)
281 PRK14959 DNA polymerase III su 94.7 0.093 2E-06 66.7 9.1 37 950-986 25-64 (624)
282 PRK14965 DNA polymerase III su 94.7 0.1 2.2E-06 66.4 9.5 130 950-1113 25-169 (576)
283 PHA03333 putative ATPase subun 94.7 0.32 6.9E-06 61.9 13.3 61 949-1010 177-238 (752)
284 TIGR02655 circ_KaiC circadian 94.6 0.045 9.7E-07 68.2 6.0 54 960-1014 21-75 (484)
285 COG1444 Predicted P-loop ATPas 94.6 0.42 9.1E-06 61.7 14.4 188 943-1157 210-407 (758)
286 PRK06851 hypothetical protein; 94.6 0.029 6.3E-07 67.1 3.9 46 960-1005 30-77 (367)
287 TIGR02237 recomb_radB DNA repa 94.6 0.05 1.1E-06 59.7 5.6 39 960-998 12-50 (209)
288 PRK09200 preprotein translocas 94.6 0.21 4.5E-06 65.3 11.8 118 946-1083 80-212 (790)
289 TIGR02533 type_II_gspE general 94.5 0.052 1.1E-06 67.6 6.3 51 943-993 224-275 (486)
290 PRK06645 DNA polymerase III su 94.5 0.18 3.9E-06 63.1 10.9 121 962-1112 45-177 (507)
291 KOG0951 RNA helicase BRR2, DEA 94.5 0.062 1.3E-06 70.7 6.8 122 942-1082 307-449 (1674)
292 PF02374 ArsA_ATPase: Anion-tr 94.5 0.087 1.9E-06 61.8 7.7 48 961-1008 2-51 (305)
293 cd01122 GP4d_helicase GP4d_hel 94.4 0.058 1.3E-06 61.6 5.9 53 957-1010 27-80 (271)
294 PF13207 AAA_17: AAA domain; P 94.4 0.037 8E-07 55.0 3.7 22 963-984 2-23 (121)
295 KOG0922 DEAH-box RNA helicase 94.3 0.1 2.2E-06 65.3 8.0 62 950-1011 56-118 (674)
296 PF02492 cobW: CobW/HypB/UreG, 94.3 0.053 1.1E-06 58.4 5.0 56 962-1020 2-59 (178)
297 PRK07940 DNA polymerase III su 94.3 0.079 1.7E-06 64.3 6.9 26 962-987 38-63 (394)
298 TIGR02538 type_IV_pilB type IV 94.3 0.078 1.7E-06 67.3 7.0 49 943-991 298-347 (564)
299 PRK09361 radB DNA repair and r 94.3 0.063 1.4E-06 59.7 5.6 38 960-997 23-60 (225)
300 KOG0781 Signal recognition par 94.2 0.18 4E-06 61.0 9.5 43 963-1005 381-426 (587)
301 cd00984 DnaB_C DnaB helicase C 94.2 0.065 1.4E-06 60.1 5.7 49 959-1008 12-61 (242)
302 PF05729 NACHT: NACHT domain 94.2 0.068 1.5E-06 55.4 5.5 27 962-988 2-28 (166)
303 KOG0330 ATP-dependent RNA heli 94.2 0.18 3.9E-06 59.6 9.2 144 943-1104 82-245 (476)
304 COG4581 Superfamily II RNA hel 94.2 0.14 3.1E-06 67.7 9.4 66 943-1009 118-183 (1041)
305 KOG1532 GTPase XAB1, interacts 94.2 0.14 3.1E-06 58.0 8.1 31 961-991 20-50 (366)
306 PF00437 T2SE: Type II/IV secr 94.2 0.057 1.2E-06 61.8 5.1 51 946-996 113-163 (270)
307 PF03205 MobB: Molybdopterin g 94.1 0.061 1.3E-06 56.0 4.8 37 962-998 2-38 (140)
308 PRK14086 dnaA chromosomal repl 94.1 0.17 3.8E-06 64.1 9.6 35 962-996 316-352 (617)
309 PRK06921 hypothetical protein; 94.1 0.07 1.5E-06 61.4 5.7 37 960-996 117-154 (266)
310 TIGR00176 mobB molybdopterin-g 94.1 0.068 1.5E-06 56.6 5.2 36 963-998 2-37 (155)
311 COG0003 ArsA Predicted ATPase 94.1 0.15 3.3E-06 60.1 8.6 48 961-1008 3-52 (322)
312 COG2887 RecB family exonucleas 94.1 0.96 2.1E-05 52.3 14.8 187 454-667 2-202 (269)
313 PRK07471 DNA polymerase III su 94.1 0.13 2.8E-06 61.9 8.0 38 950-987 28-68 (365)
314 PRK09302 circadian clock prote 94.1 0.078 1.7E-06 66.5 6.5 54 960-1014 273-326 (509)
315 PF07728 AAA_5: AAA domain (dy 94.1 0.076 1.7E-06 54.3 5.3 31 963-996 2-32 (139)
316 COG0556 UvrB Helicase subunit 94.0 0.094 2E-06 64.0 6.6 61 948-1011 16-80 (663)
317 PRK05642 DNA replication initi 94.0 0.16 3.4E-06 57.4 8.1 36 961-996 46-81 (234)
318 KOG0331 ATP-dependent RNA heli 94.0 0.94 2E-05 56.4 15.2 127 943-1082 112-251 (519)
319 cd02042 ParA ParA and ParB of 94.0 0.27 5.8E-06 47.7 8.7 71 963-1105 3-73 (104)
320 COG1435 Tdk Thymidine kinase [ 93.9 0.23 5E-06 54.2 8.8 35 962-996 6-40 (201)
321 PRK08769 DNA polymerase III su 93.9 0.19 4E-06 59.4 8.8 127 962-1113 28-163 (319)
322 KOG0744 AAA+-type ATPase [Post 93.9 0.039 8.5E-07 63.7 3.0 28 958-985 175-202 (423)
323 PRK06871 DNA polymerase III su 93.9 0.1 2.2E-06 61.7 6.6 124 962-1113 26-157 (325)
324 TIGR00963 secA preprotein tran 93.9 0.25 5.5E-06 63.7 10.5 103 964-1084 73-190 (745)
325 PRK12402 replication factor C 93.9 0.08 1.7E-06 62.2 5.8 43 946-988 20-64 (337)
326 PRK10865 protein disaggregatio 93.9 0.19 4.1E-06 66.9 9.8 27 960-986 199-225 (857)
327 TIGR03346 chaperone_ClpB ATP-d 93.9 0.2 4.4E-06 66.6 10.1 27 960-986 194-220 (852)
328 COG2804 PulE Type II secretory 93.8 0.1 2.3E-06 64.0 6.6 49 943-991 240-289 (500)
329 PF13177 DNA_pol3_delta2: DNA 93.8 0.13 2.9E-06 54.7 6.7 137 950-1113 6-152 (162)
330 PF03308 ArgK: ArgK protein; 93.8 0.14 3.1E-06 58.2 7.1 47 950-996 16-65 (266)
331 PRK14721 flhF flagellar biosyn 93.8 0.17 3.6E-06 61.8 8.3 34 960-993 191-226 (420)
332 PHA00350 putative assembly pro 93.8 0.13 2.9E-06 62.1 7.3 57 962-1019 3-62 (399)
333 PRK07764 DNA polymerase III su 93.8 0.19 4.1E-06 66.2 9.4 36 951-986 25-63 (824)
334 PHA03368 DNA packaging termina 93.7 0.42 9.2E-06 60.6 11.7 123 960-1103 254-389 (738)
335 PRK13768 GTPase; Provisional 93.7 0.073 1.6E-06 60.8 4.9 35 962-996 4-38 (253)
336 COG1618 Predicted nucleotide k 93.7 0.069 1.5E-06 56.5 4.2 30 962-991 7-36 (179)
337 cd01131 PilT Pilus retraction 93.7 0.081 1.8E-06 58.1 5.0 36 961-996 2-38 (198)
338 PLN03142 Probable chromatin-re 93.7 0.52 1.1E-05 63.4 13.2 148 943-1105 168-331 (1033)
339 PF12846 AAA_10: AAA-like doma 93.7 0.079 1.7E-06 60.6 5.1 55 961-1019 2-56 (304)
340 TIGR02640 gas_vesic_GvpN gas v 93.6 0.13 2.8E-06 59.1 6.5 37 957-996 18-54 (262)
341 PF03029 ATP_bind_1: Conserved 93.5 0.064 1.4E-06 60.8 3.8 31 965-995 1-31 (238)
342 CHL00195 ycf46 Ycf46; Provisio 93.5 0.26 5.7E-06 61.4 9.5 24 961-984 260-283 (489)
343 PRK05564 DNA polymerase III su 93.5 0.18 3.8E-06 59.3 7.7 38 949-986 12-52 (313)
344 TIGR00750 lao LAO/AO transport 93.5 0.096 2.1E-06 61.3 5.4 36 961-996 35-70 (300)
345 PF13671 AAA_33: AAA domain; P 93.4 0.055 1.2E-06 55.3 3.0 23 962-984 1-23 (143)
346 TIGR02012 tigrfam_recA protein 93.4 0.12 2.6E-06 61.0 6.0 44 960-1003 55-98 (321)
347 PRK06851 hypothetical protein; 93.4 0.092 2E-06 62.9 5.1 34 960-993 214-247 (367)
348 KOG0733 Nuclear AAA ATPase (VC 93.4 0.12 2.6E-06 64.1 6.0 23 962-984 225-247 (802)
349 PF01078 Mg_chelatase: Magnesi 93.4 0.081 1.8E-06 58.4 4.2 38 947-984 9-46 (206)
350 TIGR02881 spore_V_K stage V sp 93.3 0.07 1.5E-06 61.0 3.9 27 961-987 43-69 (261)
351 PRK13104 secA preprotein trans 93.3 0.19 4.2E-06 65.7 8.2 103 963-1083 98-215 (896)
352 COG0610 Type I site-specific r 93.3 0.64 1.4E-05 62.6 13.2 127 962-1105 275-415 (962)
353 cd02019 NK Nucleoside/nucleoti 93.3 0.13 2.8E-06 46.8 4.8 30 963-994 2-31 (69)
354 PRK14950 DNA polymerase III su 93.2 0.25 5.4E-06 63.1 8.9 36 950-985 25-63 (585)
355 PF03266 NTPase_1: NTPase; In 93.2 0.085 1.8E-06 56.6 4.0 28 963-990 2-29 (168)
356 PF03796 DnaB_C: DnaB-like hel 93.1 0.14 3E-06 58.4 5.9 49 960-1009 19-68 (259)
357 PRK09435 membrane ATPase/prote 93.1 0.12 2.6E-06 61.3 5.4 35 962-996 58-92 (332)
358 PF00265 TK: Thymidine kinase; 93.1 0.19 4E-06 54.5 6.5 35 962-996 3-37 (176)
359 cd03114 ArgK-like The function 93.1 0.13 2.9E-06 53.9 5.2 35 963-997 2-36 (148)
360 PF13238 AAA_18: AAA domain; P 93.0 0.087 1.9E-06 52.4 3.5 22 963-984 1-22 (129)
361 PRK09751 putative ATP-dependen 93.0 0.23 4.9E-06 68.8 8.4 45 965-1009 1-58 (1490)
362 COG1074 RecB ATP-dependent exo 92.9 0.39 8.5E-06 65.9 10.6 69 588-665 1059-1136(1139)
363 PRK00411 cdc6 cell division co 92.8 0.15 3.2E-06 61.6 5.9 28 961-988 56-83 (394)
364 TIGR00665 DnaB replicative DNA 92.8 0.23 5E-06 61.0 7.7 53 957-1010 192-245 (434)
365 COG1205 Distinct helicase fami 92.8 0.32 7E-06 64.5 9.4 122 944-1080 70-205 (851)
366 PRK14489 putative bifunctional 92.8 0.25 5.4E-06 59.6 7.7 58 961-1018 206-268 (366)
367 PRK10751 molybdopterin-guanine 92.8 0.14 3E-06 55.3 4.9 39 961-999 7-45 (173)
368 PRK00889 adenylylsulfate kinas 92.7 0.15 3.4E-06 54.4 5.2 34 961-994 5-38 (175)
369 PRK09302 circadian clock prote 92.7 0.16 3.6E-06 63.7 6.2 54 960-1014 31-85 (509)
370 COG2805 PilT Tfp pilus assembl 92.7 0.16 3.4E-06 58.7 5.3 31 957-987 122-152 (353)
371 KOG0343 RNA Helicase [RNA proc 92.6 0.23 4.9E-06 60.9 6.9 126 942-1084 89-229 (758)
372 PRK10463 hydrogenase nickel in 92.6 0.39 8.4E-06 55.9 8.5 72 946-1020 88-162 (290)
373 TIGR02525 plasmid_TraJ plasmid 92.5 0.22 4.7E-06 60.1 6.6 37 957-993 146-184 (372)
374 TIGR03600 phage_DnaB phage rep 92.5 0.28 6E-06 60.2 7.6 52 957-1009 191-243 (421)
375 COG1202 Superfamily II helicas 92.5 0.22 4.7E-06 61.3 6.4 130 942-1084 214-352 (830)
376 cd00544 CobU Adenosylcobinamid 92.5 0.14 3.1E-06 55.0 4.5 46 962-1010 1-46 (169)
377 COG0714 MoxR-like ATPases [Gen 92.5 0.18 3.9E-06 59.7 5.8 40 946-985 29-68 (329)
378 TIGR03574 selen_PSTK L-seryl-t 92.4 0.15 3.2E-06 57.9 4.8 32 963-994 2-33 (249)
379 COG4088 Predicted nucleotide k 92.4 0.11 2.4E-06 56.9 3.4 32 962-993 3-34 (261)
380 TIGR03018 pepcterm_TyrKin exop 92.4 0.48 1E-05 52.3 8.6 34 962-995 38-72 (207)
381 PRK06964 DNA polymerase III su 92.3 0.22 4.7E-06 59.4 6.2 45 1069-1113 131-182 (342)
382 cd00983 recA RecA is a bacter 92.3 0.2 4.4E-06 59.1 5.9 52 951-1002 41-97 (325)
383 TIGR00041 DTMP_kinase thymidyl 92.3 0.19 4.2E-06 54.3 5.4 35 962-996 5-39 (195)
384 TIGR01407 dinG_rel DnaQ family 92.3 0.36 7.9E-06 64.4 9.0 62 946-1007 247-311 (850)
385 TIGR02880 cbbX_cfxQ probable R 92.3 0.12 2.6E-06 60.1 3.9 27 962-988 60-86 (284)
386 PF05673 DUF815: Protein of un 92.3 0.48 1E-05 53.8 8.4 58 961-1018 53-111 (249)
387 KOG0335 ATP-dependent RNA heli 92.2 0.26 5.7E-06 60.3 6.8 126 943-1082 95-238 (482)
388 COG1703 ArgK Putative periplas 92.2 0.27 5.8E-06 56.9 6.5 35 962-996 53-87 (323)
389 PRK14493 putative bifunctional 92.2 0.16 3.6E-06 58.7 4.9 36 962-998 3-38 (274)
390 PRK07667 uridine kinase; Provi 92.2 0.2 4.4E-06 54.7 5.4 38 962-999 19-56 (193)
391 PRK05541 adenylylsulfate kinas 92.1 0.19 4.1E-06 53.8 5.0 34 961-994 8-41 (176)
392 PRK06647 DNA polymerase III su 92.1 0.46 9.9E-06 60.4 9.1 36 951-986 26-64 (563)
393 PRK08058 DNA polymerase III su 92.1 0.48 1E-05 56.2 8.8 122 962-1113 30-160 (329)
394 cd02028 UMPK_like Uridine mono 92.1 0.19 4.1E-06 54.3 5.0 34 963-996 2-35 (179)
395 PRK05917 DNA polymerase III su 92.1 0.38 8.1E-06 56.1 7.6 127 951-1113 7-145 (290)
396 PF12775 AAA_7: P-loop contain 92.1 0.19 4.2E-06 58.1 5.2 61 950-1010 23-83 (272)
397 PRK14494 putative molybdopteri 92.0 0.19 4.1E-06 56.6 5.0 40 962-1001 3-42 (229)
398 PRK13900 type IV secretion sys 92.0 0.25 5.4E-06 58.8 6.3 45 948-993 148-192 (332)
399 cd02034 CooC The accessory pro 92.0 0.22 4.9E-06 50.2 4.9 44 963-1009 2-45 (116)
400 PRK07399 DNA polymerase III su 91.9 0.78 1.7E-05 54.2 10.2 44 1070-1113 124-173 (314)
401 PF01583 APS_kinase: Adenylyls 91.9 0.23 5E-06 52.7 5.2 34 962-995 4-37 (156)
402 COG2109 BtuR ATP:corrinoid ade 91.9 1.2 2.6E-05 48.5 10.5 62 958-1020 26-91 (198)
403 PRK13973 thymidylate kinase; P 91.9 0.57 1.2E-05 52.0 8.6 36 961-996 4-39 (213)
404 CHL00181 cbbX CbbX; Provisiona 91.9 0.14 3.1E-06 59.6 3.9 27 962-988 61-87 (287)
405 PF03237 Terminase_6: Terminas 91.9 0.13 2.9E-06 60.3 3.8 43 964-1006 1-46 (384)
406 PRK11747 dinG ATP-dependent DN 91.8 0.39 8.4E-06 62.6 8.2 59 947-1007 28-97 (697)
407 TIGR01420 pilT_fam pilus retra 91.8 0.25 5.5E-06 58.9 6.1 36 959-994 121-157 (343)
408 cd02117 NifH_like This family 91.8 0.21 4.6E-06 55.1 5.1 32 963-994 3-34 (212)
409 cd01672 TMPK Thymidine monopho 91.8 0.24 5.2E-06 53.2 5.4 35 962-996 2-36 (200)
410 cd01393 recA_like RecA is a b 91.8 0.2 4.3E-06 55.6 4.8 39 960-998 19-63 (226)
411 PRK08760 replicative DNA helic 91.8 0.39 8.4E-06 59.9 7.8 53 957-1010 226-279 (476)
412 PF01656 CbiA: CobQ/CobB/MinD/ 91.7 0.23 5.1E-06 53.2 5.2 34 963-996 2-35 (195)
413 COG1763 MobB Molybdopterin-gua 91.7 0.22 4.7E-06 53.2 4.8 39 962-1000 4-42 (161)
414 PRK13764 ATPase; Provisional 91.7 0.29 6.2E-06 62.3 6.6 35 957-991 254-288 (602)
415 COG1222 RPT1 ATP-dependent 26S 91.7 0.2 4.4E-06 59.0 4.8 21 961-981 186-206 (406)
416 cd03116 MobB Molybdenum is an 91.6 0.34 7.5E-06 51.6 6.1 38 962-999 3-40 (159)
417 PRK08506 replicative DNA helic 91.6 0.35 7.6E-06 60.2 7.1 53 957-1010 189-241 (472)
418 PRK09354 recA recombinase A; P 91.5 0.29 6.2E-06 58.4 5.9 52 952-1003 47-103 (349)
419 PRK07993 DNA polymerase III su 91.5 0.17 3.7E-06 60.2 4.1 123 962-1113 26-158 (334)
420 TIGR01241 FtsH_fam ATP-depende 91.5 0.53 1.2E-05 59.0 8.6 31 962-995 90-120 (495)
421 KOG0925 mRNA splicing factor A 91.5 0.48 1E-05 57.4 7.6 64 948-1011 50-114 (699)
422 PF04665 Pox_A32: Poxvirus A32 91.4 0.27 5.8E-06 55.8 5.4 35 962-996 15-49 (241)
423 KOG1533 Predicted GTPase [Gene 91.4 0.15 3.2E-06 56.8 3.2 32 963-994 5-36 (290)
424 TIGR02524 dot_icm_DotB Dot/Icm 91.4 0.3 6.6E-06 58.6 6.1 29 958-986 132-160 (358)
425 TIGR00635 ruvB Holliday juncti 91.4 0.25 5.4E-06 57.5 5.4 24 961-984 31-54 (305)
426 PRK06762 hypothetical protein; 91.4 0.31 6.7E-06 51.5 5.6 39 962-1008 4-42 (166)
427 PRK06696 uridine kinase; Valid 91.3 0.26 5.6E-06 55.1 5.1 34 962-995 24-57 (223)
428 TIGR00150 HI0065_YjeE ATPase, 91.3 0.22 4.8E-06 51.5 4.1 39 957-998 19-57 (133)
429 KOG0338 ATP-dependent RNA heli 91.3 0.67 1.4E-05 56.6 8.6 119 946-1083 205-340 (691)
430 KOG0345 ATP-dependent RNA heli 91.2 1.7 3.6E-05 52.9 11.7 124 942-1083 26-170 (567)
431 PRK13851 type IV secretion sys 91.2 0.29 6.2E-06 58.5 5.6 47 946-993 148-194 (344)
432 PRK05595 replicative DNA helic 91.2 0.6 1.3E-05 57.7 8.6 52 957-1009 198-250 (444)
433 PF08433 KTI12: Chromatin asso 91.2 0.25 5.4E-06 57.1 4.9 36 961-996 2-37 (270)
434 TIGR01359 UMP_CMP_kin_fam UMP- 91.2 0.16 3.5E-06 54.4 3.2 22 963-984 2-23 (183)
435 PRK00080 ruvB Holliday junctio 91.2 0.26 5.6E-06 58.3 5.2 24 961-984 52-75 (328)
436 cd02027 APSK Adenosine 5'-phos 91.1 0.28 6E-06 51.4 4.8 32 963-994 2-33 (149)
437 TIGR01360 aden_kin_iso1 adenyl 91.1 0.19 4E-06 53.9 3.5 24 961-984 4-27 (188)
438 PRK09165 replicative DNA helic 91.1 0.58 1.3E-05 58.7 8.3 53 957-1010 214-281 (497)
439 cd00550 ArsA_ATPase Oxyanion-t 91.0 0.25 5.4E-06 56.4 4.7 35 962-996 2-36 (254)
440 cd02037 MRP-like MRP (Multiple 91.0 0.26 5.7E-06 52.3 4.6 34 962-995 2-35 (169)
441 PF06309 Torsin: Torsin; Inte 91.0 0.36 7.7E-06 49.5 5.2 28 962-989 55-82 (127)
442 cd02040 NifH NifH gene encodes 91.0 0.27 5.8E-06 56.1 4.9 32 962-994 4-35 (270)
443 PHA02544 44 clamp loader, smal 90.9 0.54 1.2E-05 55.0 7.5 49 945-996 25-76 (316)
444 PRK03839 putative kinase; Prov 90.9 0.19 4.1E-06 54.0 3.4 23 962-984 2-24 (180)
445 TIGR01547 phage_term_2 phage t 90.8 0.98 2.1E-05 54.8 9.8 43 961-1003 2-47 (396)
446 cd02025 PanK Pantothenate kina 90.8 0.29 6.2E-06 54.8 4.9 34 963-996 2-37 (220)
447 PF10412 TrwB_AAD_bind: Type I 90.8 0.36 7.8E-06 58.6 6.0 44 961-1004 16-59 (386)
448 cd01123 Rad51_DMC1_radA Rad51_ 90.7 0.3 6.4E-06 54.5 4.9 40 959-998 18-63 (235)
449 PHA02244 ATPase-like protein 90.7 0.34 7.4E-06 58.0 5.6 35 950-984 109-143 (383)
450 PRK08118 topology modulation p 90.7 0.2 4.3E-06 53.6 3.3 23 962-984 3-25 (167)
451 KOG0743 AAA+-type ATPase [Post 90.7 0.14 3.1E-06 61.9 2.4 32 962-996 237-268 (457)
452 KOG0990 Replication factor C, 90.6 0.26 5.7E-06 57.3 4.3 26 961-986 63-88 (360)
453 PHA03311 helicase-primase subu 90.6 0.26 5.6E-06 62.7 4.5 43 962-1009 73-115 (828)
454 PRK08233 hypothetical protein; 90.5 0.19 4E-06 53.6 3.0 23 962-984 5-27 (182)
455 PRK08074 bifunctional ATP-depe 90.5 0.65 1.4E-05 62.6 8.5 59 947-1007 260-324 (928)
456 TIGR02322 phosphon_PhnN phosph 90.5 0.31 6.6E-06 52.2 4.6 24 962-985 3-26 (179)
457 PRK03992 proteasome-activating 90.4 0.35 7.5E-06 58.8 5.4 23 962-984 167-189 (389)
458 TIGR03575 selen_PSTK_euk L-ser 90.4 0.31 6.8E-06 58.0 4.9 36 963-998 2-38 (340)
459 PRK12326 preprotein translocas 90.3 0.81 1.8E-05 58.9 8.7 100 964-1081 90-209 (764)
460 COG1066 Sms Predicted ATP-depe 90.3 0.69 1.5E-05 55.7 7.5 59 952-1012 81-143 (456)
461 PF01935 DUF87: Domain of unkn 90.2 0.36 7.9E-06 53.8 5.1 41 961-1001 24-65 (229)
462 PRK00131 aroK shikimate kinase 90.2 0.24 5.1E-06 52.2 3.4 24 961-984 5-28 (175)
463 cd02023 UMPK Uridine monophosp 90.2 0.35 7.5E-06 52.8 4.7 32 963-996 2-33 (198)
464 KOG0920 ATP-dependent RNA heli 90.2 0.93 2E-05 59.8 9.2 64 948-1011 176-242 (924)
465 PRK08154 anaerobic benzoate ca 90.2 0.37 8E-06 56.7 5.2 48 942-992 105-162 (309)
466 KOG0346 RNA helicase [RNA proc 90.2 1.1 2.3E-05 54.1 8.8 121 946-1080 43-180 (569)
467 cd02036 MinD Bacterial cell di 90.1 0.41 8.8E-06 50.7 5.0 34 962-995 2-35 (179)
468 PRK13531 regulatory ATPase Rav 90.1 0.37 8E-06 59.6 5.2 37 950-986 29-65 (498)
469 TIGR03117 cas_csf4 CRISPR-asso 89.9 0.86 1.9E-05 58.5 8.5 59 951-1009 7-67 (636)
470 COG0593 DnaA ATPase involved i 89.8 1.5 3.2E-05 53.5 9.9 37 960-996 113-151 (408)
471 TIGR03345 VI_ClpV1 type VI sec 89.8 1.3 2.9E-05 59.0 10.5 26 961-986 209-234 (852)
472 KOG0348 ATP-dependent RNA heli 89.8 1.9 4.2E-05 53.1 10.7 68 942-1010 157-233 (708)
473 PRK07261 topology modulation p 89.8 0.26 5.7E-06 52.9 3.3 22 963-984 3-24 (171)
474 TIGR00631 uvrb excinuclease AB 89.7 0.75 1.6E-05 59.5 7.9 63 946-1011 11-77 (655)
475 TIGR03345 VI_ClpV1 type VI sec 89.7 0.83 1.8E-05 60.9 8.5 33 962-994 598-630 (852)
476 TIGR01242 26Sp45 26S proteasom 89.7 0.4 8.8E-06 57.6 5.2 23 962-984 158-180 (364)
477 COG0606 Predicted ATPase with 89.7 0.28 6.1E-06 59.9 3.8 37 948-984 186-222 (490)
478 COG4962 CpaF Flp pilus assembl 89.7 0.49 1.1E-05 55.8 5.6 56 941-997 154-209 (355)
479 COG1203 CRISPR-associated heli 89.7 0.56 1.2E-05 61.6 6.8 68 944-1011 195-269 (733)
480 cd02035 ArsA ArsA ATPase funct 89.6 0.42 9.1E-06 53.2 4.9 35 962-996 1-35 (217)
481 PRK13235 nifH nitrogenase redu 89.6 0.38 8.2E-06 55.3 4.7 32 962-994 4-35 (274)
482 TIGR01243 CDC48 AAA family ATP 89.6 1.1 2.3E-05 59.1 9.2 23 962-984 489-511 (733)
483 TIGR02016 BchX chlorophyllide 89.6 0.41 8.9E-06 56.0 4.9 33 963-996 4-36 (296)
484 COG1102 Cmk Cytidylate kinase 89.5 0.28 6E-06 52.1 3.0 22 963-984 3-24 (179)
485 smart00763 AAA_PrkA PrkA AAA d 89.5 0.48 1E-05 56.6 5.5 27 960-986 78-104 (361)
486 COG1474 CDC6 Cdc6-related prot 89.4 0.48 1E-05 57.1 5.5 62 947-1008 23-93 (366)
487 PF00485 PRK: Phosphoribulokin 89.4 0.45 9.8E-06 51.9 4.8 28 963-990 2-29 (194)
488 PRK14532 adenylate kinase; Pro 89.3 0.27 5.9E-06 53.1 3.0 22 963-984 3-24 (188)
489 cd02021 GntK Gluconate kinase 89.3 0.28 6E-06 50.9 3.0 22 963-984 2-23 (150)
490 PRK05480 uridine/cytidine kina 89.3 0.46 1E-05 52.3 4.9 34 961-996 7-40 (209)
491 PF00406 ADK: Adenylate kinase 89.3 0.29 6.2E-06 51.1 3.0 20 965-984 1-20 (151)
492 CHL00095 clpC Clp protease ATP 89.3 0.69 1.5E-05 61.5 7.3 30 962-991 541-570 (821)
493 TIGR01287 nifH nitrogenase iro 89.2 0.48 1E-05 54.4 5.2 31 964-994 4-34 (275)
494 PRK11034 clpA ATP-dependent Cl 89.2 0.77 1.7E-05 60.3 7.5 23 962-984 490-512 (758)
495 cd01125 repA Hexameric Replica 89.2 0.65 1.4E-05 52.4 6.1 48 962-1010 3-62 (239)
496 PRK14530 adenylate kinase; Pro 89.2 0.34 7.5E-06 53.7 3.8 24 961-984 4-27 (215)
497 PF00931 NB-ARC: NB-ARC domain 89.2 0.8 1.7E-05 52.5 6.9 37 949-985 4-44 (287)
498 cd01428 ADK Adenylate kinase ( 89.1 0.3 6.5E-06 52.6 3.2 22 963-984 2-23 (194)
499 TIGR03346 chaperone_ClpB ATP-d 89.1 0.77 1.7E-05 61.3 7.6 36 961-996 596-631 (852)
500 TIGR00764 lon_rel lon-related 89.0 0.58 1.3E-05 60.1 6.1 59 950-1008 27-86 (608)
No 1
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=7.4e-188 Score=1681.02 Aligned_cols=1031 Identities=39% Similarity=0.600 Sum_probs=888.2
Q ss_pred CCCCCCCCccccccccCccccCCCCCccCcccccccccccccccchhhhhhhhcccccceecccccccccccccccccch
Q 000698 224 PFRTPPSLSYYHDKLANGVACNGASDHLGLRHTKKVLLQTYDFDDIHCLLLINSILHNTIRFISTWYIPYNLQRSFVCHH 303 (1345)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 303 (1345)
++|+|++.+..|.+.+++|+|.+..+.+|+++ +
T Consensus 1 ~~~~~~~k~~~~~~~~~tv~~~~~~g~~~~~~-----------------------------------------------~ 33 (1100)
T KOG1805|consen 1 MGRKPSVKSAPEKEDPRTVDRKIKRGNQGAGS-----------------------------------------------T 33 (1100)
T ss_pred CCCCccccccccccCccchhhhhhhhcccccc-----------------------------------------------c
Confidence 68999999999999999999999999999999 7
Q ss_pred hHHHHHHHHHHhhhhccccccCCCcccccccccCCCCcccccccccccCCCCCCCCC-CcCCCCcceEEEE--EeecccC
Q 000698 304 KQAFLELLDQVKDAISVDASVSSDKEAYLSKSQDKNGAGMLLEANSVVNGVPTDPPE-NVNGTSSCHFLVL--EVSEKNR 380 (1345)
Q Consensus 304 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~r~lv~--~v~e~~~ 380 (1345)
+.|+.+.+++.|+.+..++.+.+.....+...++......-..-.-...+...+.|. ..+.....+|.++ .+...+.
T Consensus 34 ~~~~~~~i~~~en~~~s~~~~~~~~~~~l~e~~~e~e~~~~~~~~~~d~~~iss~~~~~~~~~~~~~~~~~~~~~~~v~~ 113 (1100)
T KOG1805|consen 34 KSALPGDILKNENHDESDDMPQDKTSELLDETRGEVELIDYSDDDDFDEPVISSDPRIINDDSEDSYFPELCDVVNNVHL 113 (1100)
T ss_pred ccccccchhhhcccCcccccchhhhhhhchhhhccccchhccchhhhcccccccCcccccCccccccccceeeEEeeecc
Confidence 777788888888888777777766665555555544331111111122223333444 4566788888433 3333322
Q ss_pred CCCCCCCCCCceEEEEEec-cCCceeEEEEecCcccccCCCCCEEEEeecccCCCceeecCCCcEEEEeCCccccccccc
Q 000698 381 PADPVDAKSPYKVLRLLNE-QSGEERAVHLWEDWFHTVIAPGDTVNVIGEFDDQGKCDVGRENNFLIVHPDVLVSGTRVA 459 (1345)
Q Consensus 381 ~~~~~~~~~~~k~L~~~~~-~~~~~~~v~Lrd~W~~t~v~~GDiIhiig~~~~~~~~ivd~~~n~LIl~PD~LIS~T~Va 459 (1345)
. .-.|+ ++-.++++.+. ..|.+..|+||++|+++++++||+||+||+|+.++.|+||+++||+|+|||.|||||+||
T Consensus 114 ~-~~~~~-k~~~~~~le~~d~~g~~~~~~l~~~W~~~s~e~Gd~I~lig~~~~d~~~vvD~d~g~lIl~PD~Lis~TtVa 191 (1100)
T KOG1805|consen 114 R-SRKGE-KRCCVLRLECGDDEGTTLDVYLRDEWEEMSMEVGDTINLIGAKDSDKTFVVDDDNGLLILHPDDLISGTTVA 191 (1100)
T ss_pred c-ccccc-cceeeeehhccCCCCceEEEEEecCceeecccCCceEEeeecccCCCcEEEeCCCCeEEecCCccccccchh
Confidence 1 11122 22233444333 345688899999999999999999999999999999999999999999999999999999
Q ss_pred cccccCChHHHHHHhccc-ccccchhhhhHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHhcCCCHHHHHHHHHH
Q 000698 460 ASFSCPRRSVLDERLKCS-ERSISALLGTLLHQIFQAGLMKEIPTMKFLEEYARLVLQKNIESLYACGVNENDIHKTLVE 538 (1345)
Q Consensus 460 ~s~~C~RRaVL~erfk~~-~~s~~ml~GtIvHelfQ~al~~~~~~~~~L~~~~~~~l~~~l~~Ly~~~~~~~~~~~~l~~ 538 (1345)
+|++|+||+||++||++. +++++|++||||||+||+||.++.+..+.++..+...+.+|+++||+||+++++++.++.+
T Consensus 192 sS~~C~Rr~VL~erfr~~n~~t~~mllGtIvHevfQ~al~qk~~~~~~~~~~~~~q~~~~~s~l~~~~~~~~~i~~el~~ 271 (1100)
T KOG1805|consen 192 SSLFCLRRTVLNERFRSGNSHTKAMLLGTIVHEVFQKALIQKSFAVDELILQASLQISKYISELYALGVSEDVIRNELEK 271 (1100)
T ss_pred hccccchHHHHHHHhccCCCchhhHHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHcccCHHHHHHHHHH
Confidence 999999999999999985 5567999999999999999999999999999888888899999999999999999999999
Q ss_pred HHHHHHHHHHHhcccCCCCCCccccCCCCccccccchhhhhhhhcccccCCceeeeceEEEEeeecccccCCCeEEEEEE
Q 000698 539 AIPKMLNWIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEMAWAPKYGLKGMIDASIRVKIESKRNEINGMILPLEF 618 (1345)
Q Consensus 539 ~~p~i~~w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEnIwSp~~GLKGkID~tv~~~i~~~~~~~~~~i~PlEl 618 (1345)
|+|+|..|+++|++++.++......++...+.+.|++|+|||||||||+|||||+|||||+++++++ .+.+||||+
T Consensus 272 ~l~~i~~~i~~f~~~~~s~~~~s~~~~~~~~~i~i~ev~DIEEniWsp~fGLKG~iDatv~v~v~~~----~eti~PLEl 347 (1100)
T KOG1805|consen 272 YLPNICLWIEHFVHKPLSGSFPSKRGPLPSKSIQISEVIDIEENIWSPKFGLKGKIDATVRVKVEEG----KETIMPLEL 347 (1100)
T ss_pred HHHHHHHHHHHhhcccccCCcchhcCCCCCCceeeeeeeehhhhhcccccCCcceeeeEEEEEEccC----cccccceee
Confidence 9999999999999999888888877776666799999999999999999999999999999999986 445999999
Q ss_pred ecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEeccCceeeeeCChhHHHHHHHHHHHHHHHHHhcc------
Q 000698 619 KTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQSDQTQGVMVQRSDLVGLIMRRNEFANDIIKAS------ 692 (1345)
Q Consensus 619 KTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~~~~~~V~~~~~elr~li~~RN~la~~i~~~s------ 692 (1345)
||||++. +++|++|++|||||++|||+.++..|+|||++++++++|+..++|+|+|||+||+||..+....
T Consensus 348 KTGk~~~---sieh~~QvlLYtLl~seRy~~~~~~glL~YLk~~~~~~v~~~~~dlr~LL~~RN~lA~~~~h~~~~~~s~ 424 (1100)
T KOG1805|consen 348 KTGKSSS---SIEHVGQVLLYTLLLSERYEIPILPGLLYYLKDGQLVEVPSKHSDLRGLLMLRNRLANDLVHQEDVSASA 424 (1100)
T ss_pred ecCCccc---chHHHHHHHHHHHHHHhhccCCcccceEEEecCCCEeecccchHHHHHHHHHHHHHHhhhhhhccccccc
Confidence 9999986 7999999999999999999999999999999999999999999999999999999997765321
Q ss_pred CCCCCCCcccccCCCccCCCc--------------------ccchhHhhhhhhhhhhHHHHHHHHHHHHHHHHH----HH
Q 000698 693 TTQQLPPMLRAYGGNKECSGL--------------------GNMFDSHIYHLTTAHCSFLRHWDRLIDLEAKEM----QV 748 (1345)
Q Consensus 693 ~~~~LPp~~~~~~g~~~cs~l--------------------~~~~~~~t~HL~~~h~~yf~~w~~Li~lE~~~~----~~ 748 (1345)
+...+|+++..+.-|..|+.. ..++++.+.||.+.|.+|+.+|..++.+|+++. ..
T Consensus 425 ~~~~lpe~~~~d~~C~~cs~~~~c~~~~~~~d~~~~~s~~~~~~~e~~~~hl~q~~~~y~~~w~~~l~le~~~~~~~~~~ 504 (1100)
T KOG1805|consen 425 QGGNLPEPILEDSSCDHCSHKTACSFFQKLEDQLDASSGEEKRLAEEEIAHLSQNHLEYLAGWTLLLGLESKNEHNRLLS 504 (1100)
T ss_pred ccCCCCCccccccccchHHHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHhhHHHHHHHHHHhccchhhhhhhhhhc
Confidence 123689999877777777532 236788999999999999999999999999833 23
Q ss_pred HHhhhhcccCCCcccccccceeEEEcccccccccccCCcEEEEEecccCCCCCCCCCCCCccccccCCCCCCCCCCCCCC
Q 000698 749 VKNEIWCSRGSGGNHFTGCLSSIVLDASNEHQKSYRDNRFVYHFVRQHMPSPNLNASDGDSLIGAAIPTKDMDCTLRSGD 828 (1345)
Q Consensus 749 ~~~eiw~~~~~~re~~g~c~~~l~l~~~~~~~~~~~~~~~~y~F~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GD 828 (1345)
.+..+|++...|+|+.|+|++++.+..... .+...+.|+|.|.+...... + .+.|..||
T Consensus 505 ~~~~~~~k~~~e~~~~g~~l~~L~~~~~~e--~~~~~~~~~~~~~~~~~~~~---------------~----~s~~~~gd 563 (1100)
T KOG1805|consen 505 QNLDFWLKGIIEEEREGRCLSRLSVVSPEE--HEETEGVYIYAFDCFLRAGN---------------S----VSLFHAGD 563 (1100)
T ss_pred cccceeeccHHHHhhcCcceeceeecccee--eEeecceeeehhhhhhccCC---------------c----ccccccCc
Confidence 457799999999999999999998754332 34567899999876542110 0 25789999
Q ss_pred EEEEeeCCCc-ceeEEEEEEEEeceEEEEEeccCCCCCCCCCCcccccccceeEEEecccchhhHHHHHHHHHHHHhhcc
Q 000698 829 YVILSTESDR-LAVASGLITEISRFHVSVSFSKPLRLPGRNSSSDADSLLHEVWRIDKDEIMTSFSVMRYNLVQLFLQSA 907 (1345)
Q Consensus 829 ~V~is~e~~~-~~~~~G~V~~i~~~~I~V~l~~~l~~p~~~~~~~~~~~~~~~~ridkde~~~~~~~~r~nL~~L~~~~~ 907 (1345)
+|+||++.++ ++++.|.+..+....+....++ ..+..+..++|||||++++.+++++|.||..||.++.
T Consensus 564 ~v~iS~e~~~~i~~~~~~~~~~~~~~l~~~~~~----------~~~s~~~~el~ridK~d~~ss~s~~r~nL~~l~~~~~ 633 (1100)
T KOG1805|consen 564 RVIISSEEGHGIGLAMIKVVLINRLRLDRSTPK----------DEQSVLEEELFRIDKEDIMSSASTKRGNLMSLLLNDE 633 (1100)
T ss_pred eEEEecCccceeEeeeeeeecchhhhccccCCc----------chhhccccceeeccHHhhhhhhhhhhhhHHHHhcCCc
Confidence 9999998875 4566666655544433333332 2233445678999999999999999999999999988
Q ss_pred chhhHHHhhccCCCCccCCCCCCCCCccccccccCCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc
Q 000698 908 QSSQLRRMIVDLEAPRFDSGSVFSQDPALSYIWSEKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR 987 (1345)
Q Consensus 908 ~~~~lR~liid~~~P~f~~~~~~~~~~~~~~~~~~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~ 987 (1345)
.+..+|++|+|++||+|.........|++.++ .+..||.+|++|+.+++.+++|++|.|||||||||||+.+|+.|+..
T Consensus 634 ~~~~lRdlivd~~pP~f~~~~~~~~~p~~~~~-~~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~ 712 (1100)
T KOG1805|consen 634 GGKILRDLIVDLKPPKFVDALSKVLIPKIKKI-ILLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVAL 712 (1100)
T ss_pred cchhHHHHhhhcCCchhhcccccccCchhhHH-HHhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHHHHc
Confidence 88999999999999999876555556665554 57899999999999999999999999999999999999999999999
Q ss_pred CCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhh-hcccccccHHHHHHhhccccEEEEEecccccccc
Q 000698 988 GASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHC-LSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLL 1066 (1345)
Q Consensus 988 gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~-l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll 1066 (1345)
|++||++||||+|||||+.||...++.++|+|..+++|+++++++ .......+++++++.+++..||++||.|+++++|
T Consensus 713 gkkVLLtsyThsAVDNILiKL~~~~i~~lRLG~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~plf 792 (1100)
T KOG1805|consen 713 GKKVLLTSYTHSAVDNILIKLKGFGIYILRLGSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGINHPLF 792 (1100)
T ss_pred CCeEEEEehhhHHHHHHHHHHhccCcceeecCCccccchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCCchhh
Confidence 999999999999999999999999999999999999999999999 4555678999999999999999999999999999
Q ss_pred cCCCCCEEEEeCCCCCCHHHHhhhhcccCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCc
Q 000698 1067 TDKKFDVCIMDEAGQTTLPVSLGPLMFASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMC 1146 (1345)
Q Consensus 1067 ~~~~FD~VIVDEASQitep~~L~pL~~a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~ 1146 (1345)
.+++|||||||||||+.+|.+|+||..+.||||||||+||||+|++.+|+..|++.|||+||.+.||++|..|+.|||||
T Consensus 793 ~~R~FD~cIiDEASQI~lP~~LgPL~~s~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~hpeaV~~Lt~QYRMn 872 (1100)
T KOG1805|consen 793 VNRQFDYCIIDEASQILLPLCLGPLSFSNKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEKHPEAVSSLTLQYRMN 872 (1100)
T ss_pred hccccCEEEEccccccccchhhhhhhhcceEEEecccccCCccccchhhhhcCcchHHHHHHhhhCchHHHhHHHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHhhhCCcCCCCchhhhhhhc--------cccCCCCCchhhhhhcCCCCCEEEEeCCCCccccc-cccCCCCC
Q 000698 1147 QGIMELSNALIYGDRLSCGSDEIANAKI--------KVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEA-KDHQTLNN 1217 (1345)
Q Consensus 1147 ~eI~~lsN~lfY~g~L~~~~~~va~~~l--------~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~-~~~~s~~N 1217 (1345)
.+||.++|.+||+|+|+||+.+++.+.. ...+......|+++++.|.++++|+++|.+...++ .+.+...|
T Consensus 873 ~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~~D~~~~ie~~~e~~~i~N 952 (1100)
T KOG1805|consen 873 REIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVNTDTCSTIESQGEKGGITN 952 (1100)
T ss_pred chHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEecCcccchhhhccccCcCc
Confidence 9999999999999999999999986422 11223346789999999999999999999876654 34567889
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCcEEEEecChHHHHHHHHHcCCCCcEEEeccCccccccCEEEEEccCCCCCCCCccccc
Q 000698 1218 PVEACLIAKITQELVKNEIEGKDIGIITPYNSQANLIRHSLSVSSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSL 1297 (1345)
Q Consensus 1218 ~~EA~lV~~lv~~Ll~~gv~~~dIGVITPYraQv~lIr~~L~~~~VeV~TVD~fQGrEkdvVIIS~vrsn~~~~~~~~~f 1297 (1345)
..||.+|.+++..+++.|++++|||||+|||+|+.+|++.+....+||.|||+|||||+|+||+||||+|.. ...+++
T Consensus 953 ~~EA~li~~~~~~fv~sGv~~~dIGIis~YraQv~Li~~~l~~~~lEinTVD~yQGRDKd~IivSfvrsn~~--~~~~eL 1030 (1100)
T KOG1805|consen 953 HGEAKLISELVEDFVKSGVKPSDIGIISPYRAQVELIRKILSSAVLEINTVDRYQGRDKDCIIVSFVRSNKK--SKVGEL 1030 (1100)
T ss_pred hhHHHHHHHHHHHHHHcCCCHHHeeeeehHHHHHHHHHhhccccceeeeehhhhcCCCCCEEEEEEEecCCc--ccHHHH
Confidence 999999999999999999999999999999999999999999888999999999999999999999999976 346799
Q ss_pred ccccchhhHhhhhcccceEEEeecchhccChhHHHHHHHHHhcCCcC
Q 000698 1298 LGDWHRINVALTRAKKKLIMVGSCRTLSKVPLLKLLINKVGEQSGIL 1344 (1345)
Q Consensus 1298 L~d~rRLNVAlTRAK~kLIIVGs~~tL~~~~~~~~li~~~~~~g~i~ 1344 (1345)
|+||||+|||+||||+|||+||+.++|..+|.++.|++++.++.|++
T Consensus 1031 LkD~rRlNVAlTRAK~KLIlvGs~s~l~~~~~~~~l~~~l~~~~~l~ 1077 (1100)
T KOG1805|consen 1031 LKDWRRLNVALTRAKKKLILVGSKSTLESYPPFRQLLKLLENRIELL 1077 (1100)
T ss_pred HHhhHHHHHHHHhhhceEEEEecccccccCchHHHHHhhhhhhhhHH
Confidence 99999999999999999999999999999999999999998887764
No 2
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=100.00 E-value=8e-79 Score=757.28 Aligned_cols=544 Identities=32% Similarity=0.468 Sum_probs=446.4
Q ss_pred HHH-HHHHHHhhhhcccCCCcccccccceeEEEcccccccccccCCcEEEEEecccCCCCCCCCCCCCccccccCCCCCC
Q 000698 742 EAK-EMQVVKNEIWCSRGSGGNHFTGCLSSIVLDASNEHQKSYRDNRFVYHFVRQHMPSPNLNASDGDSLIGAAIPTKDM 820 (1345)
Q Consensus 742 E~~-~~~~~~~eiw~~~~~~re~~g~c~~~l~l~~~~~~~~~~~~~~~~y~F~r~~~~~~~~~~~~~~~~~~~~~~~~~~ 820 (1345)
|++ +++....++++++..+|++.|+|+.+|.+... .+..|+++++|.+... .
T Consensus 2 e~~~e~~~~~~~~~~~s~~~~~~~g~~~~~l~~~~~-----~~~~g~~~~~f~~~~~----------------------~ 54 (637)
T TIGR00376 2 EREAEISAMMNEIRRLSLKQRERRGRAILNLQGKIR-----GGLLGFLLVRFGRRKA----------------------I 54 (637)
T ss_pred chHHHHHHHHHHHHhcCHHHHHhcCceEeceEEEEE-----eCCCCeEEEEEecCCC----------------------C
Confidence 544 56778899999999999999999999987522 2456799999986431 1
Q ss_pred CCCCCCCCEEEEeeCCCcceeEEEEEEEEeceEEEEEeccCCCCCCCCCCcccccccceeEEEecccchhhHHHHHHHHH
Q 000698 821 DCTLRSGDYVILSTESDRLAVASGLITEISRFHVSVSFSKPLRLPGRNSSSDADSLLHEVWRIDKDEIMTSFSVMRYNLV 900 (1345)
Q Consensus 821 ~~~l~~GD~V~is~e~~~~~~~~G~V~~i~~~~I~V~l~~~l~~p~~~~~~~~~~~~~~~~ridkde~~~~~~~~r~nL~ 900 (1345)
++.|.+||.|+|+..++....++|+|.+++.+.|+|+++.. .|.. ....|+||+..+..+|.+|..+|.
T Consensus 55 ~~~~~~GD~v~i~~~~~~~~~~~g~V~~v~~~~i~v~~~~~--~~~~---------~~~~~~i~~~~~~~t~~rm~~aL~ 123 (637)
T TIGR00376 55 ATEISVGDIVLVSRGNPLQSDLTGVVTRVGKRFITVALEES--VPQW---------SLKRVRIDLYANDVTFKRMKEALR 123 (637)
T ss_pred CCcCCCCCEEEEecCCCCCCCcEEEEEEEcCcEEEEEECCC--CCcc---------cCceEEEEEecCccHHHHHHHHHH
Confidence 34788999999998777677889999999999999999875 2221 113499999999999999999999
Q ss_pred HHHhhccchhhHHHhhccCCCCccCCCCCCCCCccccccccCCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHH
Q 000698 901 QLFLQSAQSSQLRRMIVDLEAPRFDSGSVFSQDPALSYIWSEKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHA 980 (1345)
Q Consensus 901 ~L~~~~~~~~~lR~liid~~~P~f~~~~~~~~~~~~~~~~~~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~l 980 (1345)
.|... ...+++++++...|.+... ...+. +....||+.|++||..++.+.++++|+||||||||+|++++
T Consensus 124 ~l~~~---~~~l~~~llg~~~p~~~~~-----~~~~~--~~~~~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~i 193 (637)
T TIGR00376 124 ALTEN---HSRLLEFILGREAPSKASE-----IHDFQ--FFDPNLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVEL 193 (637)
T ss_pred HHHhc---hhhHHHHHhCCCCCCcccc-----ccccc--ccCCCCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHH
Confidence 86432 3479999999988887422 11111 23478999999999999988799999999999999999999
Q ss_pred HHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhhhccccc---------------c------
Q 000698 981 VKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAMNI---------------N------ 1039 (1345)
Q Consensus 981 I~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~~~---------------~------ 1039 (1345)
+.++++.|++||+||+||.|||+|+++|.+.+++++|+|++.++.+.+..+++..... .
T Consensus 194 i~~~~~~g~~VLv~a~sn~Avd~l~e~l~~~~~~vvRlg~~~r~~~~~~~~sl~~~~~~~~~~~~~~~~~~~i~~~~~~~ 273 (637)
T TIGR00376 194 IRQLVKRGLRVLVTAPSNIAVDNLLERLALCDQKIVRLGHPARLLKSNKQHSLDYLIENHPKYQIVADIREKIDELIEER 273 (637)
T ss_pred HHHHHHcCCCEEEEcCcHHHHHHHHHHHHhCCCcEEEeCCchhcchhHHhccHHHHHhcChhHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999988777665544321000 0
Q ss_pred ---------------cH---------------------------------------------HHHHHhhccccEEEEEec
Q 000698 1040 ---------------SV---------------------------------------------EEIKKRLDQVKVVAVTCL 1059 (1345)
Q Consensus 1040 ---------------s~---------------------------------------------~~i~~~l~~~~VV~tT~~ 1059 (1345)
.. ...++.+..++++++|
T Consensus 274 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~a~v~~st-- 351 (637)
T TIGR00376 274 NKKLKPSPQKRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRLLKLLPEIEERIENEILAESDVVQST-- 351 (637)
T ss_pred HhhccchHhHhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhCCEEEec--
Confidence 00 0012335567766555
Q ss_pred ccccccccCCCCCEEEEeCCCCCCHHHHhhhhcccCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecc
Q 000698 1060 GITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLMFASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISAL 1139 (1345)
Q Consensus 1060 ~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~~a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~L 1139 (1345)
+++..+....||+||||||+|+++|.+|+|+..++++||||||+||||+|.+.. ..|++.|+|+||.+.++.....|
T Consensus 352 -~~~~~l~~~~Fd~vIIDEAsQ~~ep~~lipl~~~~~~vLvGD~~QLpP~v~s~~--~~~l~~SlferL~~~~~~~~~~L 428 (637)
T TIGR00376 352 -NSSAGLKGWEFDVAVIDEASQAMEPSCLIPLLKARKLILAGDHKQLPPTILSHD--AEELELTLFERLIKEYPERSRTL 428 (637)
T ss_pred -cCcHhhccCCCCEEEEECccccchHHHHHHHhhCCeEEEecChhhcCCcccccc--ccccchhHHHHHHHhCCCceeec
Confidence 456778888999999999999999999999999999999999999999999865 35789999999999888777899
Q ss_pred cccccCchhHHHHHHHhhhCCcCCCCchhhhhhhcc-ccCCCCCchhhhhhcCCCCCEEEEeCCCCcccc--ccccCCCC
Q 000698 1140 QSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIK-VSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYE--AKDHQTLN 1216 (1345)
Q Consensus 1140 t~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~-~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e--~~~~~s~~ 1216 (1345)
++|||||++|++|+|.+||+|+|+++.. +....+. ++... ..+....+.+..|++|+++.+....+ ...+.++.
T Consensus 429 ~~QYRMh~~I~~f~s~~fY~g~L~~~~~-~~~~~l~~~~~~~--~~~~~~~~~~~~p~~fidt~g~~~~e~~~~~~~S~~ 505 (637)
T TIGR00376 429 NVQYRMNQKIMEFPSREFYNGKLTAHES-VANILLRDLPKVE--ATDSEDDLETEIPLLFIDTSGCELFELKEADSTSKY 505 (637)
T ss_pred chhcCCCHHHHhhhHHhhcCCccccCcc-hhhhhhhhccccc--ccccccccCCCCCEEEEECCCccccccccCCCCCcC
Confidence 9999999999999999999999997653 2222221 11111 11222233456799999998865432 23456899
Q ss_pred CHHHHHHHHHHHHHHHHCCCCCCcEEEEecChHHHHHHHHHcCC--CCcEEEeccCccccccCEEEEEccCCCCCCCCcc
Q 000698 1217 NPVEACLIAKITQELVKNEIEGKDIGIITPYNSQANLIRHSLSV--SSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCT 1294 (1345)
Q Consensus 1217 N~~EA~lV~~lv~~Ll~~gv~~~dIGVITPYraQv~lIr~~L~~--~~VeV~TVD~fQGrEkdvVIIS~vrsn~~~~~~~ 1294 (1345)
|..||..|..++..|++.|+++.+||||+||++|+.+|++.+.. ..++|.|||+|||+|+|+||+|+|++|... .
T Consensus 506 N~~EA~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~L~~~l~~~~~~i~v~TVd~fQG~E~DvIi~S~vrsn~~~---~ 582 (637)
T TIGR00376 506 NPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHRHIDIEVSSVDGFQGREKEVIIISFVRSNRKG---E 582 (637)
T ss_pred CHHHHHHHHHHHHHHHhcCCCcceEEEEcccHHHHHHHHHHHHhhCCCeEEccccccCCccccEEEEEEEecCCCC---C
Confidence 99999999999999999999999999999999999999998853 569999999999999999999999998643 3
Q ss_pred cccccccchhhHhhhhcccceEEEeecchhccChhHHHHHHHHHhcCCcC
Q 000698 1295 SSLLGDWHRINVALTRAKKKLIMVGSCRTLSKVPLLKLLINKVGEQSGIL 1344 (1345)
Q Consensus 1295 ~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~~~~~~~~li~~~~~~g~i~ 1344 (1345)
.+|+.|.||||||+||||++|||||+..+|+.+++|++|++|++++|++.
T Consensus 583 ~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~~~~~~~li~~~~~~~~~~ 632 (637)
T TIGR00376 583 VGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHGEVR 632 (637)
T ss_pred cccccCcceeeeehhhhhCceEEEECHHHhccChHHHHHHHHHHHCCCEE
Confidence 58999999999999999999999999999999999999999999999875
No 3
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=2.6e-78 Score=708.53 Aligned_cols=564 Identities=27% Similarity=0.430 Sum_probs=438.5
Q ss_pred hHHHHHHHHHHHHHHH-HHHHHHhhhhcccCCCcccccccceeEEEcccccccccccCCcEEEEEecccCCCCCCCCCCC
Q 000698 729 CSFLRHWDRLIDLEAK-EMQVVKNEIWCSRGSGGNHFTGCLSSIVLDASNEHQKSYRDNRFVYHFVRQHMPSPNLNASDG 807 (1345)
Q Consensus 729 ~~yf~~w~~Li~lE~~-~~~~~~~eiw~~~~~~re~~g~c~~~l~l~~~~~~~~~~~~~~~~y~F~r~~~~~~~~~~~~~ 807 (1345)
.+|..+...||.+|++ +.+...+.+-..+-+.-.+.|-|+.++.+.. ..++..|+.+..|.....
T Consensus 3 ~~f~sk~~~ll~~er~~ei~~t~~~~~~~~ie~l~~~g~~i~nl~~v~----~~tGl~g~~li~f~~~~~---------- 68 (649)
T KOG1803|consen 3 EEFVSKMSELLDHERKAEISVTEKSLDNVPIEALQRKGLAILNLWLVS----VRTGLGGKSLIVFSKNRE---------- 68 (649)
T ss_pred hHHHHHHHHHHHhhhhcchhhhhHhhhcCCHHHHHhccceeeeEEEEE----EeecccceEEEEeccCcc----------
Confidence 4688899999999987 4444445554444334456788888877643 234566777777754320
Q ss_pred CccccccCCCCCCCCCCCCCCEEEEeeC---CCcceeEEEEEEEEeceEEEEEeccCCCCCCCCCCcccccccceeEEEe
Q 000698 808 DSLIGAAIPTKDMDCTLRSGDYVILSTE---SDRLAVASGLITEISRFHVSVSFSKPLRLPGRNSSSDADSLLHEVWRID 884 (1345)
Q Consensus 808 ~~~~~~~~~~~~~~~~l~~GD~V~is~e---~~~~~~~~G~V~~i~~~~I~V~l~~~l~~p~~~~~~~~~~~~~~~~rid 884 (1345)
..| .+.|.+||.|.|... .+......|+|+.+..+.|+++|+.....|...+ ..++.
T Consensus 69 ------~lp----~~~~~~gd~v~lr~~~~~~~~~~~~~GvV~~~~~~~i~~a~ee~~d~~~~~~----------~l~l~ 128 (649)
T KOG1803|consen 69 ------VLP----SNSFGPGDVVWLRTDKLNNKSKPCTEGVVYRVAEDSIDVAFEEEVDKPLTLS----------SLRLL 128 (649)
T ss_pred ------ccC----cCCCCCCcEEEEEcccccccCcccccceeEeeccchhhHhHHhhhcccchhh----------HHHHH
Confidence 011 346899999999632 2334468999999999999999987655443321 24455
Q ss_pred cccchhhHHHHHHHHHHHHhhc-c-chhhHHHhhccCCCC--ccCCCCCCCCCccccccccCCCCCHHHHHHHHHHHhcC
Q 000698 885 KDEIMTSFSVMRYNLVQLFLQS-A-QSSQLRRMIVDLEAP--RFDSGSVFSQDPALSYIWSEKSLNDDQRRAIIKVLTAK 960 (1345)
Q Consensus 885 kde~~~~~~~~r~nL~~L~~~~-~-~~~~lR~liid~~~P--~f~~~~~~~~~~~~~~~~~~~~LN~eQ~~AI~~~l~~~ 960 (1345)
+-+...++.+++..+..+-... + -...+-..+++-..| .++. ..-......+.||.+|++|+..+++.+
T Consensus 129 kl~n~vty~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~~~~~-------~~~~~~~~~~~ln~SQk~Av~~~~~~k 201 (649)
T KOG1803|consen 129 KLENKVTYRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNI-------EIKKITFFNKNLNSSQKAAVSFAINNK 201 (649)
T ss_pred HhhhhhhheecHHHHhhHhhhcCccchhhhHHHHhccccCCCCchh-------hhcccccCCccccHHHHHHHHHHhccC
Confidence 5555566666665544432211 0 111222223322221 1110 001122346899999999999999988
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhhhcccc---
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAMN--- 1037 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~~--- 1037 (1345)
+.++|+||||||||+|++++|.+|+.+|++|||||+||.|||||.+||.-.+..++|+|++.+..+.+...++....
T Consensus 202 ~l~~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AVdNiverl~~~~~~l~R~g~paRl~~~~~~~sld~~~~t~ 281 (649)
T KOG1803|consen 202 DLLIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAVDNIVERLTHLKLNLVRVGHPARLLESVADHSLDLLSNTK 281 (649)
T ss_pred CceEeeCCCCCCceeeHHHHHHHHHHcCCeEEEEcCchHHHHHHHHHhcccccchhhcCchhhhhhhhhhhHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999887766543110
Q ss_pred --------c--------------c----------------------cHHHHHHhhccccEEEEEecccccccccCCCCCE
Q 000698 1038 --------I--------------N----------------------SVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDV 1073 (1345)
Q Consensus 1038 --------~--------------~----------------------s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~ 1073 (1345)
. . ....+.+.+.+++||++|..++..+++....||+
T Consensus 282 d~~~~~~~~sk~~d~~~~~~~~tk~~~~~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~ga~~~~~~~~~fD~ 361 (649)
T KOG1803|consen 282 DNSQNAKDISKDIDILFQKNTKTKNDKLRKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGGALDRLLRKRTFDL 361 (649)
T ss_pred chhhhhhhhHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccchhhhhhcccCCCE
Confidence 0 0 0012235577899999999999998888899999
Q ss_pred EEEeCCCCCCHHHHhhhhcccCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcc-eecccccccCchhHHHH
Q 000698 1074 CIMDEAGQTTLPVSLGPLMFASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQA-ISALQSQYRMCQGIMEL 1152 (1345)
Q Consensus 1074 VIVDEASQitep~~L~pL~~a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~-v~~Lt~QYRm~~eI~~l 1152 (1345)
||||||+|+.||+||+|+..+++|||+|||+||||+|.+..+...|+..|+|+|+.+.++.. ...|++|||||..||.|
T Consensus 362 vIIDEaaQamE~~cWipvlk~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~w 441 (649)
T KOG1803|consen 362 VIIDEAAQAMEPQCWIPVLKGKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNW 441 (649)
T ss_pred EEEehhhhhccchhhhHHhcCCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhC
Confidence 99999999999999999999999999999999999999999999999999999999998765 34799999999999999
Q ss_pred HHHhhhCCcCCCCchhhhhhhcc-ccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccc----cCCCCCHHHHHHHHHH
Q 000698 1153 SNALIYGDRLSCGSDEIANAKIK-VSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKD----HQTLNNPVEACLIAKI 1227 (1345)
Q Consensus 1153 sN~lfY~g~L~~~~~~va~~~l~-~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~----~~s~~N~~EA~lV~~l 1227 (1345)
+|..||+|+|+++.. ++...+. ++... ..| ....|++|+||.+....|..+ ..+++|.+||++|...
T Consensus 442 sn~~fY~~qlka~~~-v~~~lL~dl~~v~--~t~-----~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~H 513 (649)
T KOG1803|consen 442 SNEVFYNGQLKAASS-VASHLLRDLPNVL--ATE-----STKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEH 513 (649)
T ss_pred cHhhhcCCeeeecch-hhhhhhhcccCCC--Ccc-----ccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHH
Confidence 999999999998764 4433332 11111 111 146899999999876554332 2478999999999999
Q ss_pred HHHHHHCCCCCCcEEEEecChHHHHHHHH--HcCCCCcEEEeccCccccccCEEEEEccCCCCCCCCcccccccccchhh
Q 000698 1228 TQELVKNEIEGKDIGIITPYNSQANLIRH--SLSVSSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRIN 1305 (1345)
Q Consensus 1228 v~~Ll~~gv~~~dIGVITPYraQv~lIr~--~L~~~~VeV~TVD~fQGrEkdvVIIS~vrsn~~~~~~~~~fL~d~rRLN 1305 (1345)
+..|++.|+.+.||||||||++|+.+||+ ..+..+++|+|||+|||+|+|+||+|+||||+.. ..|||.|.||||
T Consensus 514 v~~L~~~gV~p~dIaVIsPY~aQv~llR~~~~~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~---evGFL~e~RRLN 590 (649)
T KOG1803|consen 514 VKRLLEAGVQPSDIAVISPYNAQVSLLREEDEEDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKG---EVGFLGETRRLN 590 (649)
T ss_pred HHHHHHcCCChhHeEEeccchHHHHHHhhcccccCccceeecccccccceeeEEEEEEEeecCcc---cccccCCcceee
Confidence 99999999999999999999999999993 3344679999999999999999999999999764 479999999999
Q ss_pred HhhhhcccceEEEeecchhc-cChhHHHHHHHHHhcCCcC
Q 000698 1306 VALTRAKKKLIMVGSCRTLS-KVPLLKLLINKVGEQSGIL 1344 (1345)
Q Consensus 1306 VAlTRAK~kLIIVGs~~tL~-~~~~~~~li~~~~~~g~i~ 1344 (1345)
||+||||+++.+|||..++. .+.+++++++|+.+++-+.
T Consensus 591 VAiTRaRRh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~ 630 (649)
T KOG1803|consen 591 VAITRARRHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVF 630 (649)
T ss_pred EEEEeccceEEEEcCcHHHHhhHHHHHHHHHHhhhcceec
Confidence 99999999999999999999 8999999999999987654
No 4
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=1.1e-68 Score=623.49 Aligned_cols=493 Identities=31% Similarity=0.415 Sum_probs=382.7
Q ss_pred CCCCCCEEEEeeCCCc--ceeEEEEEEEEec---eEEEEEeccCCCCCCCCCCcccccccceeEEEecccchhhHHHHHH
Q 000698 823 TLRSGDYVILSTESDR--LAVASGLITEISR---FHVSVSFSKPLRLPGRNSSSDADSLLHEVWRIDKDEIMTSFSVMRY 897 (1345)
Q Consensus 823 ~l~~GD~V~is~e~~~--~~~~~G~V~~i~~---~~I~V~l~~~l~~p~~~~~~~~~~~~~~~~ridkde~~~~~~~~r~ 897 (1345)
++..||-+.+..+.+. ..-..|+|..+.. +.+.+.+......|. ....-|-+|.--..++|.+|..
T Consensus 295 kl~~GdE~~L~y~~~~~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~~p~---------e~~~~Ftvd~vwk~ts~drm~~ 365 (935)
T KOG1802|consen 295 KLAIGDEIRLTYSGGLVLPWNGIGSVLKIPDNNGDEVKLELEFSQDPPI---------EVTHGFTVDFVWKSTSFDRMQL 365 (935)
T ss_pred ccccCCeeEEEecCCcCCcccccceEEecCCCCcceeEEEeecCCCCCc---------ccccceEEEEEEcCccHHHHHH
Confidence 5788999888766552 2335688988876 477777655322111 0112355565555778999988
Q ss_pred HHHHHHhhccc--hhhHH-HhhccCCCCccCCCCCCCCCccccccccCCCCCHHHHHHHHHHHhcCCeEEEEccCCCChH
Q 000698 898 NLVQLFLQSAQ--SSQLR-RMIVDLEAPRFDSGSVFSQDPALSYIWSEKSLNDDQRRAIIKVLTAKDYALILGMPGTGKT 974 (1345)
Q Consensus 898 nL~~L~~~~~~--~~~lR-~liid~~~P~f~~~~~~~~~~~~~~~~~~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKT 974 (1345)
.|..|.. +.. ...+- .++....++.+- ...++ ..-....+.+||.+|..||+++|. +..+||+||||||||
T Consensus 366 alk~la~-D~~~vs~y~y~klLgh~~~~~~~-k~~LP---~~~s~~~lpkLN~SQ~~AV~~VL~-rplsLIQGPPGTGKT 439 (935)
T KOG1802|consen 366 ALKLLAV-DEKKVSGYLYHKLLGHPVEDSSL-KKLLP---RRFSVPNLPKLNASQSNAVKHVLQ-RPLSLIQGPPGTGKT 439 (935)
T ss_pred HHHHhhh-ccccchhhhhhHHhcCcchhhhh-cccCc---hhhcCCCchhhchHHHHHHHHHHc-CCceeeecCCCCCce
Confidence 8775543 211 11121 222221111110 01111 111123568999999999999998 589999999999999
Q ss_pred HHHHHHHHHHHhcC-CeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchh-----------hH--------HHHHhhh-
Q 000698 975 STMVHAVKALLMRG-ASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVV-----------HK--------EIQKHCL- 1033 (1345)
Q Consensus 975 ttIa~lI~~Ll~~g-kkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v-----------~~--------~v~~~~l- 1033 (1345)
.|.+.+|.+|++.+ ..||+||++|.|||+|.+|+.+.|++++|+....+- |. +++....
T Consensus 440 vtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tgLKVvRl~aksRE~~~S~vs~L~lh~~~~~~~~pELq~l~kl 519 (935)
T KOG1802|consen 440 VTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTGLKVVRLCAKSREDIESDVSFLSLHEQLRNMDKPELQKLLKL 519 (935)
T ss_pred ehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhcCceEeeeehhhhhhccCCccHHHHHHHHhccCcHHHHHHHhh
Confidence 99999999999874 589999999999999999999999999999765331 11 1111110
Q ss_pred --ccccccc-----HHH-----HHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhccc-CeEEEE
Q 000698 1034 --SAMNINS-----VEE-----IKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLMFA-SKFVLV 1100 (1345)
Q Consensus 1034 --~~~~~~s-----~~~-----i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~~a-~k~VLV 1100 (1345)
+...+.. +.. -++.+..++||+|||.+++...|...+|..|+||||.|.+||+||+||..+ +++|||
T Consensus 520 kde~gelS~sD~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~rl~~~kfr~VLiDEaTQatEpe~LiPlvlG~kq~VlV 599 (935)
T KOG1802|consen 520 KDEGGELSSSDEKKYRKLKRAAEKELLNQADVICCTCVGAGDRRLSKFKFRTVLIDEATQATEPECLIPLVLGAKQLVLV 599 (935)
T ss_pred hhhcccccchhhHHHHHHHHHHHHHHHhhcCEEEEecccccchhhccccccEEEEecccccCCcchhhhhhhcceeEEEe
Confidence 1111111 111 235688999999999999999999899999999999999999999999885 569999
Q ss_pred cCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHhhhCCcCCCCchhhhhhhccccCCC
Q 000698 1101 GDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLS 1180 (1345)
Q Consensus 1101 GDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~ 1180 (1345)
|||+||.|++.-..+...|+..|||+||+..+-.+ ..|.+||||||.|.+|++.+||+|.|..|..........+
T Consensus 600 GDh~QLgpvi~~kK~a~Agl~qsLferli~lg~~P-~~L~vQYRmhP~lSefpsn~fY~G~LqnGVT~~~R~~~g~---- 674 (935)
T KOG1802|consen 600 GDHKQLGPVIMCKKAATAGLSQSLFERLISLGIKP-IRLQVQYRMHPALSEFPSNMFYEGELQNGVTEIERSPLGV---- 674 (935)
T ss_pred ccccccCceeeeHHHHHhHHHHHHHHHHHhccCCc-eEEEEeeeeChhhhhcchhhhccchhhcCcchhhhccCCC----
Confidence 99999999999999999999999999999876544 4899999999999999999999999998876543322211
Q ss_pred CCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecChHHHHHHHHHcCC
Q 000698 1181 SCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITPYNSQANLIRHSLSV 1260 (1345)
Q Consensus 1181 ~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~gv~~~dIGVITPYraQv~lIr~~L~~ 1260 (1345)
..+| +.++.++.|...-+.+.. +..+.++.|..||..+..++..|++.|+.++.|||||||.+|..+|-+.+..
T Consensus 675 -~~pw----p~p~~pl~fy~~~g~eei-sasGtSf~Nr~Ea~~~ekii~~l~~~gv~~~qIGVITpYegQr~~i~~ym~~ 748 (935)
T KOG1802|consen 675 -DFPW----PQPDKPLFFYVCYGQEEI-SASGTSFLNRTEAANCEKIITKLLKSGVKPSQIGVITPYEGQRSYIVNYMQT 748 (935)
T ss_pred -CCCC----CCCCCccceEEeccceee-eccccceecHHHHHHHHHHHHHHHHcCCCHHHeeeecccchhHHHHHHHHHh
Confidence 1233 467889999877654433 4567899999999999999999999999999999999999999999887641
Q ss_pred ---------CCcEEEeccCccccccCEEEEEccCCCCCCCCcccccccccchhhHhhhhcccceEEEeecchhccChhHH
Q 000698 1261 ---------SSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSCRTLSKVPLLK 1331 (1345)
Q Consensus 1261 ---------~~VeV~TVD~fQGrEkdvVIIS~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~~~~~~~ 1331 (1345)
..|+|.|||.|||||+|+||+||||+|... ++||+.|.||||||+||||+.|+|||++..|+++++|.
T Consensus 749 ~gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~q---gIGFl~d~RRlNVaLTRaK~glvivGN~~~L~k~~LW~ 825 (935)
T KOG1802|consen 749 NGSLHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEHQ---GIGFLNDPRRLNVALTRAKYGLVIVGNPKVLRKHPLWG 825 (935)
T ss_pred cCccccchhheeEEEeeccccCcccceEEEEEeeccccc---ccccccCchhhhhhhhhcccceEEecCHHHhhhchHHH
Confidence 457999999999999999999999999763 47999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCcC
Q 000698 1332 LLINKVGEQSGIL 1344 (1345)
Q Consensus 1332 ~li~~~~~~g~i~ 1344 (1345)
+++.|+++++-++
T Consensus 826 ~li~h~~eke~l~ 838 (935)
T KOG1802|consen 826 HLITHYKEKEVLV 838 (935)
T ss_pred HHHHHhhccccee
Confidence 9999999988654
No 5
>PF08696 Dna2: DNA replication factor Dna2; InterPro: IPR014808 Dna2 is a DNA replication factor with single-stranded DNA-dependent ATPase, ATP-dependent nuclease, (5'-flap endonuclease) and helicase activities. It is required for Okazaki fragment processing and is involved in DNA repair pathways []. ; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication
Probab=100.00 E-value=1.4e-53 Score=464.39 Aligned_cols=204 Identities=43% Similarity=0.764 Sum_probs=191.1
Q ss_pred eccCCceeEEEEecCcccccCCCCCEEEEeecccCCCceeecCCCcEEEEeCCccccccccccccccCChHHHHHHhccc
Q 000698 398 NEQSGEERAVHLWEDWFHTVIAPGDTVNVIGEFDDQGKCDVGRENNFLIVHPDVLVSGTRVAASFSCPRRSVLDERLKCS 477 (1345)
Q Consensus 398 ~~~~~~~~~v~Lrd~W~~t~v~~GDiIhiig~~~~~~~~ivd~~~n~LIl~PD~LIS~T~Va~s~~C~RRaVL~erfk~~ 477 (1345)
.++++++++|+|||+|++++|++||+|||+|.|+++++|+||+++||||||||+|||+|+|++|++|+||+||++||++.
T Consensus 5 ~~~~~~~~~v~L~~~W~~t~v~~Gd~I~ii~~~~~~~~~~v~~~~~~lIl~PD~LiS~T~Va~s~~C~RravL~er~~~~ 84 (209)
T PF08696_consen 5 SESSGETRTVILRDEWCETPVSPGDIIHIIGEFDDDDPCIVDNDSNLLILHPDILISATSVASSFFCPRRAVLQERFKGP 84 (209)
T ss_pred ecCCCCeEEEEEeCCcccCCCcCCCEEEEEEEeCCCCCEEEeCCCCEEEEcCCceecceeeecccccccHHHHHHHhcCC
Confidence 35789999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred -ccccchhhhhHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhcccCCC
Q 000698 478 -ERSISALLGTLLHQIFQAGLMKEIPTMKFLEEYARLVLQKNIESLYACGVNENDIHKTLVEAIPKMLNWIILFKDSQDL 556 (1345)
Q Consensus 478 -~~s~~ml~GtIvHelfQ~al~~~~~~~~~L~~~~~~~l~~~l~~Ly~~~~~~~~~~~~l~~~~p~i~~w~~~f~~~~~~ 556 (1345)
+.+.+|++||||||+||+||.++.|+.+++.+.+++++.+|+++||.||++.++++++|++|+|.|.+|+++|+.++++
T Consensus 85 ~~~s~~ml~GtIvHelfQ~~l~~~~~~~~~l~~~~~~~l~~~~~~ly~~~~~~~~~~~~l~~~~~~i~~w~~~~~~~~~~ 164 (209)
T PF08696_consen 85 GESSKPMLIGTIVHELFQKALRTNDFDLEFLEELADRILEKYLEELYALGETEDEAREELEEYLPNIESWAKQYVKKSPS 164 (209)
T ss_pred CCCChhheeeeeHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHccCCCC
Confidence 4567999999999999999999999999999999999999999999999999999999999999999999999987766
Q ss_pred CCCccccCCCCccccccchhhhhhhhcccccCCceeeeceEEEEe
Q 000698 557 NTPTVDFGSDGLKKLKISEVTDIEEMAWAPKYGLKGMIDASIRVK 601 (1345)
Q Consensus 557 ~~~~~~~~~~~~~~~~Is~vlDIEEnIwSp~~GLKGkID~tv~~~ 601 (1345)
.......+.....+++|++++|||||||||+|||||+|||||++|
T Consensus 165 ~~~~~~~~~~~~~~~~I~~vlDIEEnIWSp~~GLKGkIDaTv~vK 209 (209)
T PF08696_consen 165 SSNIVDDRNGEKSRVSISKVLDIEENIWSPRFGLKGKIDATVEVK 209 (209)
T ss_pred ccceeecCCCCccceEEeeehhccccccccccCcceeEEEEEecC
Confidence 655554455667889999999999999999999999999999874
No 6
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=4.2e-42 Score=441.10 Aligned_cols=392 Identities=38% Similarity=0.521 Sum_probs=316.9
Q ss_pred ccCCCCCHHHHHHHHHHHhcCCeEEEE-ccCCCChHH--HHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhhcC--C
Q 000698 940 WSEKSLNDDQRRAIIKVLTAKDYALIL-GMPGTGKTS--TMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKSQS--I 1013 (1345)
Q Consensus 940 ~~~~~LN~eQ~~AI~~~l~~~d~~LI~-GpPGTGKTt--tIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~~~--l 1013 (1345)
.....++..|..++.......+..++. |++|||||. ++.+.+...... +.+++.++.++.++++++.++.+.. .
T Consensus 270 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 349 (767)
T COG1112 270 EINKELDNEQKLAVKRLLSLNDLFLIHQGPFGTGKTRSVTILELIIELLENNKLKILPTAESNAAVDNLLRRLKRTVIKV 349 (767)
T ss_pred ccchhccchhHHHHHHHhcccceeEeecCCCCCCcchHHHHHHHHHHHHHhcccceEEecCcccchhhHHHHHHhhcccc
Confidence 346788999999999988877788777 999999999 777777776666 8899999999999999999998753 4
Q ss_pred cEEEEcccchhhHHHHHhhhc---------c-c------------------------------------------c---c
Q 000698 1014 DFVRIGRHEVVHKEIQKHCLS---------A-M------------------------------------------N---I 1038 (1345)
Q Consensus 1014 ~ilRiG~~~~v~~~v~~~~l~---------~-~------------------------------------------~---~ 1038 (1345)
..++++++......+...++. . . . +
T Consensus 350 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 429 (767)
T COG1112 350 ELLRIGHPSRVLKKLKLDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALRGI 429 (767)
T ss_pred ceEEcCCcchhhhhhhhhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhcch
Confidence 567777654333221111000 0 0 0 0
Q ss_pred -----cc----------------------HHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhh
Q 000698 1039 -----NS----------------------VEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPL 1091 (1345)
Q Consensus 1039 -----~s----------------------~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL 1091 (1345)
.+ ...........++|++|+..+....+....||+||||||+|+++|.+++|+
T Consensus 430 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~~~~fd~viiDEAsQ~~~~~~~~~l 509 (767)
T COG1112 430 LPALNKSEALWISLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILKKYEFDYVIIDEASQATEPSALIAL 509 (767)
T ss_pred hHHHHHHHHHHHhhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhcccccCEEEEcchhcccchhHHHhH
Confidence 00 000011122345899999998888777778999999999999999999999
Q ss_pred cccCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHhhhCCcCCCCchhhhh
Q 000698 1092 MFASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIAN 1171 (1345)
Q Consensus 1092 ~~a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~ 1171 (1345)
..++++|++|||+||||++........++..++|+++...++.....|+.|||||+.|+.|+|..||+|++..+......
T Consensus 510 ~~~~~~il~GD~kQL~p~~~~~~~~~~~~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~ 589 (767)
T COG1112 510 SRAKKVILVGDHKQLPPTVFFKESSPEGLSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAF 589 (767)
T ss_pred hhcCeEEEecCCccCCCeecchhhcccchhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhh
Confidence 99999999999999999998866567789999999999998866779999999999999999999999999987654332
Q ss_pred hhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecChHHH
Q 000698 1172 AKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITPYNSQA 1251 (1345)
Q Consensus 1172 ~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~gv~~~dIGVITPYraQv 1251 (1345)
.... +......+..+..|+++.+... .....+..|..||..+..++..+++.++.+.+||||+||++|+
T Consensus 590 ~~~~---------~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~~igvis~y~~q~ 658 (767)
T COG1112 590 TLLD---------GEIPEVVISNPLEFYDTLGAEE--FFESKSKLNELEAEIVKVIVDELLKDGLEENDIGVISPYRAQV 658 (767)
T ss_pred hhhc---------cccccccccCceEEEEecCccc--ccCccceecHHHHHHHHHHHHHHHHcCCcHHHcceecccHHHH
Confidence 2111 0011111457888888765433 3456778899999999999999999999999999999999999
Q ss_pred HHHHHHcCC--CCcEEEeccCccccccCEEEEEccCCCCCCCCcccccccccchhhHhhhhcccceEEEeecchhccChh
Q 000698 1252 NLIRHSLSV--SSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSCRTLSKVPL 1329 (1345)
Q Consensus 1252 ~lIr~~L~~--~~VeV~TVD~fQGrEkdvVIIS~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~~~~~ 1329 (1345)
.+|++.+.. .+++|.|||+|||+|+|+||+|+|+++... ..++|+.|+||||||+||||++|||||+..++...|.
T Consensus 659 ~~i~~~~~~~~~~v~v~tvd~fQG~EkdvIi~S~v~s~~~~--~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~~~~ 736 (767)
T COG1112 659 SLIRRLLNEAGKGVEVGTVDGFQGREKDVIILSLVRSNDDK--GEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESDPL 736 (767)
T ss_pred HHHHHHHHhcCCceEEeeccccCCccCcEEEEEEEeecCCC--ccccccCchhhhhhhhhcccceEEEEcChhHhhhchh
Confidence 999999864 369999999999999999999999999752 2479999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCcC
Q 000698 1330 LKLLINKVGEQSGIL 1344 (1345)
Q Consensus 1330 ~~~li~~~~~~g~i~ 1344 (1345)
|..++.+++..+++.
T Consensus 737 ~~~~~~~~~~~~~~~ 751 (767)
T COG1112 737 YKRLINDLKRKGLLA 751 (767)
T ss_pred HHHHHHHHHhcCcEe
Confidence 999999999998864
No 7
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=5.6e-42 Score=405.73 Aligned_cols=273 Identities=30% Similarity=0.447 Sum_probs=227.9
Q ss_pred ccccEEEEEeccccc--ccccCCCCCEEEEeCCCCCCHHHHhhhhcc-cCeEEEEcCCCCCCccccchH-HHhcCCcchH
Q 000698 1049 DQVKVVAVTCLGITN--PLLTDKKFDVCIMDEAGQTTLPVSLGPLMF-ASKFVLVGDHYQLPPLVQSTE-ARENGMEISL 1124 (1345)
Q Consensus 1049 ~~~~VV~tT~~~~~~--~ll~~~~FD~VIVDEASQitep~~L~pL~~-a~k~VLVGDh~QLPPvV~s~~-a~~~Gl~~SL 1124 (1345)
..+.||+.|+.|++. .+|..-...+|||.||..+.|+..+.++.. ..++||||||+||.|--.... +...|+..|+
T Consensus 697 R~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal~p~~EhviLIGDHKQLrP~~~vy~L~q~fnL~iSl 776 (1025)
T KOG1807|consen 697 READVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAALTPHTEHVILIGDHKQLRPFSGVYKLPQIFNLSISL 776 (1025)
T ss_pred hccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhhcccceeEEEecchhhcCCCcchhhHhHhcchhHHH
Confidence 467899999999874 466777889999999999999998887765 578999999999999755443 3346899999
Q ss_pred HHHHHHhCCcceecccccccCchhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCC
Q 000698 1125 FRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDML 1204 (1345)
Q Consensus 1125 FerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~ 1204 (1345)
|+||.+..-. ...|+.||||++.|.++...-||++.+.+.+ + ..| .++..-.....|+.+...
T Consensus 777 FERLVe~glp-fsrLn~QhRM~p~IsrllvpsiYddl~d~es--v-------------k~y-edI~gms~nlfFv~hnsp 839 (1025)
T KOG1807|consen 777 FERLVEAGLP-FSRLNLQHRMRPCISRLLVPSIYDDLLDSES--V-------------KEY-EDIRGMSKNLFFVQHNSP 839 (1025)
T ss_pred HHHHHHcCCC-hhhhhHHhhhchHHHHHhhHHHhhhhhcchh--h-------------ccc-cccccccceeeEEecCCc
Confidence 9999997643 4689999999999999999889988664321 1 111 222333445667765432
Q ss_pred ccccccccCCCCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecChHHHHHHHHHcC---CCCcEEEeccCccccccCEEEE
Q 000698 1205 PAYEAKDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITPYNSQANLIRHSLS---VSSVEIHTIDKYQGRDKDCILV 1281 (1345)
Q Consensus 1205 ~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~gv~~~dIGVITPYraQv~lIr~~L~---~~~VeV~TVD~fQGrEkdvVII 1281 (1345)
. +.-++.+..|..||..++++++.|+++++.+.||.|+|+|.+|..+|++.+. ...|.|.|||+|||.|.|+|++
T Consensus 840 e--e~~de~S~~NlhEa~mlv~l~kyli~q~y~psdIviLttY~gQk~ci~rllp~~~~stv~VatVDsfQGeEndIVLl 917 (1025)
T KOG1807|consen 840 E--ECMDEMSIGNLHEAGMLVKLTKYLIQQQYKPSDIVILTTYNGQKECIKRLLPQNYRSTVQVATVDSFQGEENDIVLL 917 (1025)
T ss_pred c--cCcchhhhhhHHHHHHHHHHHHHHHhcCCCccceEEEeechhHHHHHHHHhHHHhcCcceEEEeccccCccccEEEE
Confidence 2 2223368889999999999999999999999999999999999999999986 3679999999999999999999
Q ss_pred EccCCCCCCCCcccccccccchhhHhhhhcccceEEEeecchhcc-ChhHHHHHHHHHhcCCc
Q 000698 1282 SFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSCRTLSK-VPLLKLLINKVGEQSGI 1343 (1345)
Q Consensus 1282 S~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~~-~~~~~~li~~~~~~g~i 1343 (1345)
|+||||..++ +|||...+|+.||+||||+.||||||...+.. .|+|..+++-+.+++.|
T Consensus 918 SLVRsn~~gr---iGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~I 977 (1025)
T KOG1807|consen 918 SLVRSNISGR---IGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAI 977 (1025)
T ss_pred EEEeccCCce---eeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhcccc
Confidence 9999997654 69999999999999999999999999999987 79999999999998865
No 8
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=99.97 E-value=7.7e-32 Score=332.47 Aligned_cols=360 Identities=27% Similarity=0.336 Sum_probs=274.5
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEeccHHHHHHHHHHHhhcCCcEEE-----Ecccc----hhhHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLM--RGASILLTSYTNSAVDNLLIKLKSQSIDFVR-----IGRHE----VVHKEIQ 1029 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilR-----iG~~~----~v~~~v~ 1029 (1345)
...++.||||||||.++++.+.++.- ....+++++++|+|.|....|+. ...-+-+ .+... ...+++.
T Consensus 327 ~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~-~p~~~~~~~~~~~~~~~~~~~~~~~~v~ 405 (775)
T KOG1804|consen 327 EPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLH-YPLTFSTARGEDVRAKSSTAWYNNAEVS 405 (775)
T ss_pred cccccccCCCcCCccchHHHHHHHHhcchHHHhhccccccccccccccccc-ccccccccccccccccchhHHhhhHHHH
Confidence 47899999999999999877766654 45689999999999999998883 2221211 11111 1111111
Q ss_pred HhhhcccccccHHHHHHhhccccEEEEEecccc---cccccCCCCCEEEEeCCCCCCHHHHhhhhccc---CeEEEEcCC
Q 000698 1030 KHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT---NPLLTDKKFDVCIMDEAGQTTLPVSLGPLMFA---SKFVLVGDH 1103 (1345)
Q Consensus 1030 ~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~---~~ll~~~~FD~VIVDEASQitep~~L~pL~~a---~k~VLVGDh 1103 (1345)
..+. ..+++. .....+++.+||..++ ...+...+|.++++|||++.+||+++.|+..- ..+||.|||
T Consensus 406 ~~~~------~~e~~~-~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh 478 (775)
T KOG1804|consen 406 EVVE------KVEELR-KVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDH 478 (775)
T ss_pred HHHH------HHHHHh-hccceEEEEeeccceeeeecccccccceeeeeecccccccCcccccccccccceeEEEEccCc
Confidence 1111 122222 3456688999997654 34566789999999999999999999998653 379999999
Q ss_pred CCCCccccchHHHhcCCcchHHHHHHHhC-----------CcceecccccccCchhHHHHHHHhhhCCcCCCCchhhhhh
Q 000698 1104 YQLPPLVQSTEARENGMEISLFRRLSEEH-----------PQAISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANA 1172 (1345)
Q Consensus 1104 ~QLPPvV~s~~a~~~Gl~~SLFerL~~~~-----------p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~ 1172 (1345)
+||+|++++..+...|++.+||+|+.+.. +..++.|-.+||+|+.|+.+.|++||+|.|........-.
T Consensus 479 ~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL~~~~~~~~v~ 558 (775)
T KOG1804|consen 479 TQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGELTAEASEVDVR 558 (775)
T ss_pred ccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccceeeeccHHHHH
Confidence 99999999999999999999999998641 2234579999999999999999999999997644332211
Q ss_pred hccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHHCC-CCCCcEEEEecChHHH
Q 000698 1173 KIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNE-IEGKDIGIITPYNSQA 1251 (1345)
Q Consensus 1173 ~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~g-v~~~dIGVITPYraQv 1251 (1345)
. ...| ...++|..+.+.... .....++.|..||..|..++..+.... +...||||||||++|+
T Consensus 559 ~--------~~~w-------~~liif~g~~G~~~r-~~~s~S~~n~~Ea~~V~~~~k~l~~~~~~~~~DIgvitpy~aq~ 622 (775)
T KOG1804|consen 559 G--------LELW-------SGLILFYGAPGFTER-AGNSPSWLNLEEAAVVVRMTKALPLGEVAQPQDIGVITPYTAQV 622 (775)
T ss_pred H--------HHhc-------ccceecccccccccc-ccCChhhccHHHHHHHHHHHhccCCCCccccccceeeCcHHHHH
Confidence 1 1112 122666655543322 233457889999999988888876544 4466999999999999
Q ss_pred HHHHHHcCC---CCcEEEeccCccccccCEEEEEccCCCCCCCCc---ccccccccchhhHhhhhcccceEEEeecchhc
Q 000698 1252 NLIRHSLSV---SSVEIHTIDKYQGRDKDCILVSFVRSSENPRNC---TSSLLGDWHRINVALTRAKKKLIMVGSCRTLS 1325 (1345)
Q Consensus 1252 ~lIr~~L~~---~~VeV~TVD~fQGrEkdvVIIS~vrsn~~~~~~---~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~ 1325 (1345)
..|+..+.. .++.|++|..|||+|+.+||+|+|||...+-.. ...|+.+.+++|||+|||+..++++|+...+.
T Consensus 623 ~~i~~~l~~~~~~~~~vgsVe~fqGqE~~viiiStVrS~~~~~~~~~~~~~fls~pk~l~v~V~rp~~l~i~~~~~h~~~ 702 (775)
T KOG1804|consen 623 SEIRKALRRLGVPGVKVGSVEEFQGQEPWVILGSTVRSFALPLLDDRYFGLFLSRPKRLLVAVGRPRALLINLGNPHLLG 702 (775)
T ss_pred HHHHHHhcccCCCCCcccceeeeccccceeeEeecccccCCCcccccccceeecCcccceeeccCccccccccCCccccc
Confidence 999999874 578999999999999999999999998754221 12389999999999999999999999999999
Q ss_pred cChhHHHHHHHHHhcCCcC
Q 000698 1326 KVPLLKLLINKVGEQSGIL 1344 (1345)
Q Consensus 1326 ~~~~~~~li~~~~~~g~i~ 1344 (1345)
..+.|+.++.+..++|++.
T Consensus 703 ~~~~~~~~l~~~~~n~~y~ 721 (775)
T KOG1804|consen 703 GDPPWGLLLLLRVENGRYP 721 (775)
T ss_pred CCCChhhheeeeecCCccc
Confidence 9999999999999888874
No 9
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=99.97 E-value=1.3e-30 Score=281.49 Aligned_cols=189 Identities=34% Similarity=0.587 Sum_probs=132.8
Q ss_pred CcchHHHHHHHhCCcceecccccccCchhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEE
Q 000698 1120 MEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFV 1199 (1345)
Q Consensus 1120 l~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fi 1199 (1345)
++.|||+|+.+.....+..|++||||+++|++|+|.+||+|+|.++...... ...|......+..++.|+
T Consensus 1 ~~~Slferl~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~----------~~~~~~~~~~~~~~~~~i 70 (200)
T PF13087_consen 1 LDRSLFERLIKNGSVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNR----------PAPLLKLLPSPQNPIVFI 70 (200)
T ss_dssp TTS-HHHHHHHCT----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCC----------S-T-----SSTTSSEEEE
T ss_pred CCccHHHHHHHcCCCCceecccccCCCHHHHHHHHHHHhchhcccCcccccc----------cccccccccCCCCceEEE
Confidence 4679999999987445679999999999999999999999999887632110 011334455677889999
Q ss_pred eCCCCccccccccCCCCCHHHHHHHHHHHHHHHHCCCCC---CcEEEEecChHHHHHHHHHcCC---CC----cEEEecc
Q 000698 1200 NTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNEIEG---KDIGIITPYNSQANLIRHSLSV---SS----VEIHTID 1269 (1345)
Q Consensus 1200 dtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~gv~~---~dIGVITPYraQv~lIr~~L~~---~~----VeV~TVD 1269 (1345)
++.+..........++.|..||.+|..+++.|+..+... .+|||||||++|+.+|++.+.. .+ +.|.|||
T Consensus 71 ~v~~~~~~~~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~Tvd 150 (200)
T PF13087_consen 71 DVSGSESSSESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVSTVD 150 (200)
T ss_dssp E----EEEETTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEEEHH
T ss_pred ecccccccccccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEecHH
Confidence 998765443333378999999999999999999988766 8999999999999999998862 22 9999999
Q ss_pred CccccccCEEEEEccCCCCCCCCcccccccccchhhHhhhhcccceEEEeec
Q 000698 1270 KYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSC 1321 (1345)
Q Consensus 1270 ~fQGrEkdvVIIS~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~ 1321 (1345)
+|||+|+|+||+|+|+++... ..+|+.+.+|+|||+||||++|||||++
T Consensus 151 ~~QG~E~diVi~s~v~~~~~~---~~~f~~~~~r~nVA~SRAk~~liiig~~ 199 (200)
T PF13087_consen 151 SFQGQEADIVIVSLVRTNSSS---NIGFLNDPNRLNVALSRAKSGLIIIGNP 199 (200)
T ss_dssp HHTT--EEEEEEEE---STTS----SGGGC-HHHHHHHHTSEEEEEEEEE-H
T ss_pred HhccccceEEEEEeccCCccc---cccccCCcCeeeeeHHHHhcCEEEEecC
Confidence 999999999999999997432 3589999999999999999999999986
No 10
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.97 E-value=3.2e-29 Score=319.55 Aligned_cols=265 Identities=21% Similarity=0.281 Sum_probs=171.1
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc----CCeEEEEeccHHHHHHHHHHHhhc-C--Cc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKSQ-S--ID 1014 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~----gkkVLvtA~TnsAVDnLl~kL~~~-~--l~ 1014 (1345)
+..||++|++||. ...+.++|.|+||||||+||+++|.+|+.. +.+||++||||+|++++.+|+.+. + ..
T Consensus 7 l~~Ln~~Q~~av~---~~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~~~ 83 (721)
T PRK11773 7 LDSLNDKQREAVA---APLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQG 83 (721)
T ss_pred HHhcCHHHHHHHh---CCCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccCCC
Confidence 4579999999985 446799999999999999999999999973 368999999999999999999764 2 22
Q ss_pred EEEEcccchhhHHHHHhhhccc------cc-c----------------------cHHHHHHhh-----------------
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAM------NI-N----------------------SVEEIKKRL----------------- 1048 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~------~~-~----------------------s~~~i~~~l----------------- 1048 (1345)
-+.+|+.+.+.-.+.+...... .+ . ....+...+
T Consensus 84 ~~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~ 163 (721)
T PRK11773 84 GMWVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAQWYINGQKDEGLRPQHIQSYG 163 (721)
T ss_pred CCEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHcCCCHHHHHhcc
Confidence 3456666655444322110000 00 0 000000000
Q ss_pred ------------------ccc------cEEEEEeccc-ccccc---cCCCCCEEEEeCCCCCCHHHH--hhhhc-ccCeE
Q 000698 1049 ------------------DQV------KVVAVTCLGI-TNPLL---TDKKFDVCIMDEAGQTTLPVS--LGPLM-FASKF 1097 (1345)
Q Consensus 1049 ------------------~~~------~VV~tT~~~~-~~~ll---~~~~FD~VIVDEASQitep~~--L~pL~-~a~k~ 1097 (1345)
... +++..++..+ .++.+ -..+|++|+|||+|+.+..+. +..|. ...++
T Consensus 164 ~~~~~~~~~iy~~Y~~~~~~~~~~DfdDll~~~~~lL~~~~~~~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l 243 (721)
T PRK11773 164 DPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAGDTGKV 243 (721)
T ss_pred ChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEchhcCCHHHHHHHHHHhCCCCeE
Confidence 000 0000000000 01111 025899999999988876665 33343 25689
Q ss_pred EEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcc-eecccccccCchhHHHHHHHhhhCCcCCCCchhhhhhhccc
Q 000698 1098 VLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQA-ISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKV 1176 (1345)
Q Consensus 1098 VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~-v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~ 1176 (1345)
++|||++| ++|+|+|++...|.++.+.++.. +..|+.|||++++|++++|.++-.+.-..+..
T Consensus 244 ~vVGD~dQ-------sIY~fRGA~~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k~--------- 307 (721)
T PRK11773 244 MIVGDDDQ-------SIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGKE--------- 307 (721)
T ss_pred EEEecCcc-------cccccCCCChHHHHHHHHhCCCCeEEECCcCCCCCHHHHHHHHHHHHhcccccCcc---------
Confidence 99999999 99999999999999998888654 56899999999999999999985432211100
Q ss_pred cCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecC
Q 000698 1177 SDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITPY 1247 (1345)
Q Consensus 1177 ~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~gv~~~dIGVITPY 1247 (1345)
.|-. ...+.++.++.. .....||..|++.+..++..|++.+||+|+++.
T Consensus 308 -------~~~~--~~~g~~v~~~~~-------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~ 356 (721)
T PRK11773 308 -------LWTD--GGDGEPISLYCA-------------FNELDEARFVVERIKTWQDNGGALSDCAILYRS 356 (721)
T ss_pred -------cccC--CCCCCeeEEEeC-------------CCHHHHHHHHHHHHHHHHHcCCCcccEEEEEec
Confidence 0000 001112222211 123468888888888888888888888887654
No 11
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.96 E-value=4.6e-29 Score=318.17 Aligned_cols=265 Identities=19% Similarity=0.275 Sum_probs=169.4
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc----CCeEEEEeccHHHHHHHHHHHhhc-C--Cc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKSQ-S--ID 1014 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~----gkkVLvtA~TnsAVDnLl~kL~~~-~--l~ 1014 (1345)
+..||++|++||. ...+.++|.|+||||||+||+++|..|+.. ..+||++||||+|++++.+|+.+. + ..
T Consensus 2 l~~Ln~~Q~~av~---~~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~~~~ 78 (715)
T TIGR01075 2 LDGLNDKQREAVA---APPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTSAR 78 (715)
T ss_pred ccccCHHHHHHHc---CCCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhccccc
Confidence 3579999999985 345799999999999999999999999974 368999999999999999999764 1 23
Q ss_pred EEEEcccchhhHHHHHhhhc-----c-cc-ccc------H----------------HHHHHhhcc---------------
Q 000698 1015 FVRIGRHEVVHKEIQKHCLS-----A-MN-INS------V----------------EEIKKRLDQ--------------- 1050 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~-----~-~~-~~s------~----------------~~i~~~l~~--------------- 1050 (1345)
-+.+|+.+.+.-.+.+.... . .. +.. + ..+...+..
T Consensus 79 ~~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~ 158 (715)
T TIGR01075 79 GMWIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAMWYINNQKDEGLRPSHIQAFD 158 (715)
T ss_pred CcEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHCCCCHHHHHhcc
Confidence 35667766554433221100 0 00 000 0 000000000
Q ss_pred --------------------c------cEEEEEeccc-cccccc---CCCCCEEEEeCCCCCCHHHH--hhhhc-ccCeE
Q 000698 1051 --------------------V------KVVAVTCLGI-TNPLLT---DKKFDVCIMDEAGQTTLPVS--LGPLM-FASKF 1097 (1345)
Q Consensus 1051 --------------------~------~VV~tT~~~~-~~~ll~---~~~FD~VIVDEASQitep~~--L~pL~-~a~k~ 1097 (1345)
. +++..+...+ .++.+. ..+|++|+|||+|+.+..+. +..|. .+.++
T Consensus 159 ~~~~~~~~~iy~~Y~~~~~~~~~lDfdDll~~~~~lL~~~~~~~~~~~~~~~~ilVDEfQDtn~~Q~~ll~~L~~~~~~l 238 (715)
T TIGR01075 159 NPVERTWIKIYQAYQEACDRAGLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEFQDTNKIQYAWIRLLAGNTGNV 238 (715)
T ss_pred ChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCCeE
Confidence 0 0000000000 001010 25899999999988877665 33333 24689
Q ss_pred EEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcc-eecccccccCchhHHHHHHHhhhCCcCCCCchhhhhhhccc
Q 000698 1098 VLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQA-ISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKV 1176 (1345)
Q Consensus 1098 VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~-v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~ 1176 (1345)
++|||++| ++|+|+|++...|.++.+.++.. ...|++|||++++|++++|.++-.+.-..+.
T Consensus 239 ~vVGD~~Q-------sIY~fRGA~~~~i~~f~~~~~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~---------- 301 (715)
T TIGR01075 239 MIVGDDDQ-------SIYGWRGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGK---------- 301 (715)
T ss_pred EEEeCCcc-------cccccCCCCHHHHHHHHHhCCCCeEEECcccCCCCHHHHHHHHHHHHhccccccc----------
Confidence 99999999 99999999999999998888753 5689999999999999999998543211100
Q ss_pred cCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecC
Q 000698 1177 SDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITPY 1247 (1345)
Q Consensus 1177 ~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~gv~~~dIGVITPY 1247 (1345)
..|-. .....++.++.. .....||..|++.+..++..|.+.+||+|+++.
T Consensus 302 ------~~~~~--~~~g~~i~~~~~-------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~ 351 (715)
T TIGR01075 302 ------NLWTD--GEVGEPISLYSA-------------FNELDEARFVVSRIKTWQRNGGALDECAVLYRS 351 (715)
T ss_pred ------cccCC--CCCCCceEEEeC-------------CCHHHHHHHHHHHHHHHHHcCCCccCEEEEEec
Confidence 00000 001122333221 112467888888888888778778888886553
No 12
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.96 E-value=1.9e-28 Score=307.65 Aligned_cols=344 Identities=19% Similarity=0.260 Sum_probs=216.7
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc----CCeEEEEeccHHHHHHHHHHHhh-cCCcEEE
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKS-QSIDFVR 1017 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~----gkkVLvtA~TnsAVDnLl~kL~~-~~l~ilR 1017 (1345)
..||++|++||. ...+..+|.|+||||||+|+++++.+|+.. +.+||++|||+.|++++.+||.+ .+..-+.
T Consensus 195 ~~L~~~Q~~av~---~~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg~~~v~ 271 (684)
T PRK11054 195 SPLNPSQARAVV---NGEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLGTEDIT 271 (684)
T ss_pred CCCCHHHHHHHh---CCCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcCCCCcE
Confidence 579999999984 445788999999999999999999999865 46899999999999999999875 2333345
Q ss_pred EcccchhhHHHHHhh------hc-----------------------cc-cccc---------------------------
Q 000698 1018 IGRHEVVHKEIQKHC------LS-----------------------AM-NINS--------------------------- 1040 (1345)
Q Consensus 1018 iG~~~~v~~~v~~~~------l~-----------------------~~-~~~s--------------------------- 1040 (1345)
+++.+.+.-.+.+.. ++ .. ....
T Consensus 272 v~TFHSlal~Il~~~~~~~p~~s~~~~d~~~~~~~l~~~~~~~~~~~~~~~k~~~~wl~~~~~~~~~~~~~~~~~~~~~~ 351 (684)
T PRK11054 272 ARTFHALALHIIQQGSKKVPVISKLENDSKARHALLIAEWRKQCSEKKAQAKGWRQWLTEELQWDVPEGNFWDDEKLQRR 351 (684)
T ss_pred EEeHHHHHHHHHHHhhhcCCCcCccccchHHHHHHHHHHHHHHhhhcccchhhhhhcchHHhhhcccchhhhhhhhHHHH
Confidence 555444332221110 00 00 0000
Q ss_pred -HHHHHHhhcccc--------EEE-----------------EEec----------c---cc------ccccc----CCCC
Q 000698 1041 -VEEIKKRLDQVK--------VVA-----------------VTCL----------G---IT------NPLLT----DKKF 1071 (1345)
Q Consensus 1041 -~~~i~~~l~~~~--------VV~-----------------tT~~----------~---~~------~~ll~----~~~F 1071 (1345)
...+...+...+ +.. ..+. + +. ..++. ...|
T Consensus 352 l~~~l~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~l~~iy~~Ye~~L~~~~~iDf~Dml~~A~~lL~~~~~~~~~ 431 (684)
T PRK11054 352 LASRLERWVSLMRMHGGSQAEMIAQAPEEVRDLFQKRLKLMAPLLKAWKKALKAENAVDFSGLIHQAVNYLEKGRFISPW 431 (684)
T ss_pred HHHHHHHHHHHHHhcCCCHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhhhhhhcc
Confidence 000000000000 000 0000 0 00 00011 1359
Q ss_pred CEEEEeCCCCCCHHHH--hhhhcc---cCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCc-ceecccccccC
Q 000698 1072 DVCIMDEAGQTTLPVS--LGPLMF---ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQ-AISALQSQYRM 1145 (1345)
Q Consensus 1072 D~VIVDEASQitep~~--L~pL~~---a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~-~v~~Lt~QYRm 1145 (1345)
++|+|||+|+++..+. +..+.. ..++++|||+.| ++|+++|.+..++..+.+.++. .+..|+++||+
T Consensus 432 ~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~Q-------sIY~frGa~~~~~~~f~~~f~~~~~~~L~~nYRs 504 (684)
T PRK11054 432 KHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQ-------AIYRFSGADLSLTTAFHERFGEGDRCHLDTTYRF 504 (684)
T ss_pred cEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCc-------cccccCCCChHHHHHHHhhcCCCeEEEeCCCCCC
Confidence 9999999988886665 333432 357999999999 9999999999999999887754 35689999999
Q ss_pred chhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHH
Q 000698 1146 CQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIA 1225 (1345)
Q Consensus 1146 ~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~ 1225 (1345)
+++|++++|.++-.+.-.- . .+ +........+.+.+-.+ .+.+.+.
T Consensus 505 ~~~I~~~An~~i~~n~~~~-----~---------k~----l~s~~~g~~p~v~~~~~----------------~~~~~il 550 (684)
T PRK11054 505 NSRIGEVANRFIQQNPHQL-----K---------KP----LNSLTKGDKKAVTLLPE----------------DQLEALL 550 (684)
T ss_pred CHHHHHHHHHHHHhCcccc-----C---------Cc----ccccCCCCCceEEEeCC----------------HHHHHHH
Confidence 9999999999873321000 0 00 00001112232332111 1333344
Q ss_pred HHHHHHHHCCCCCCcEEEEecChHHHHHHHH----HcCCCCcEEEeccCccccccCEEEEEccCCCC--CCCC-------
Q 000698 1226 KITQELVKNEIEGKDIGIITPYNSQANLIRH----SLSVSSVEIHTIDKYQGRDKDCILVSFVRSSE--NPRN------- 1292 (1345)
Q Consensus 1226 ~lv~~Ll~~gv~~~dIGVITPYraQv~lIr~----~L~~~~VeV~TVD~fQGrEkdvVIIS~vrsn~--~~~~------- 1292 (1345)
..+..+.. +.++|+||++|+.+...+.+ .....+|.+.|+|.+||+|+|.|||..+.... .|..
T Consensus 551 ~~l~~~~~---~~~~I~IL~R~~~~~~~~l~~~~~~~~~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~ 627 (684)
T PRK11054 551 DKLSGYAK---PDERILLLARYHHLRPALLDKAATRWPKLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIME 627 (684)
T ss_pred HHHHHhhc---CCCcEEEEEechhhHHHHHHHHHhhcccCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhh
Confidence 44444433 35799999999987754332 23345899999999999999999998776433 1100
Q ss_pred -------cccccccccchhhHhhhhcccceEEEeecchhccChhHHHHHH
Q 000698 1293 -------CTSSLLGDWHRINVALTRAKKKLIMVGSCRTLSKVPLLKLLIN 1335 (1345)
Q Consensus 1293 -------~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~~~~~~~~li~ 1335 (1345)
.....-+++|++|||+||||++|+|+.+.. ..+++..+|.+
T Consensus 628 ~~~~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~~--~~S~fv~el~~ 675 (684)
T PRK11054 628 EALLPPPEDFPDAEERRLLYVALTRAKHRVWLLFNKG--NPSPFVEELKN 675 (684)
T ss_pred hcccccccccccHHHHHHHHHHhhhhhcEEEEEEcCC--CCCHHHHHHhh
Confidence 001123468889999999999999998744 34677777765
No 13
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.96 E-value=1.1e-28 Score=315.48 Aligned_cols=264 Identities=21% Similarity=0.268 Sum_probs=169.8
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc----CCeEEEEeccHHHHHHHHHHHhhc---CCcE
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKSQ---SIDF 1015 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~----gkkVLvtA~TnsAVDnLl~kL~~~---~l~i 1015 (1345)
..||++|++||. ...++++|.|+||||||+||+++|.+|+.. +.+||++||||+|+.++.+|+.+. ...-
T Consensus 3 ~~Ln~~Q~~av~---~~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~~~~ 79 (726)
T TIGR01073 3 AHLNPEQREAVK---TTEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVAED 79 (726)
T ss_pred cccCHHHHHHHh---CCCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhccccCC
Confidence 579999999995 346799999999999999999999999974 368999999999999999999754 2233
Q ss_pred EEEcccchhhHHHHHhhhc-----cc-c-cc----------------------cHHHHHHhhc-----------------
Q 000698 1016 VRIGRHEVVHKEIQKHCLS-----AM-N-IN----------------------SVEEIKKRLD----------------- 1049 (1345)
Q Consensus 1016 lRiG~~~~v~~~v~~~~l~-----~~-~-~~----------------------s~~~i~~~l~----------------- 1049 (1345)
+.+++.+++.-.+.+.... .. . +. ....+...+.
T Consensus 80 ~~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 159 (726)
T TIGR01073 80 IWISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILGTISNAKNELLPPEDFAKEAT 159 (726)
T ss_pred cEEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHcCCCHHHHHHhhc
Confidence 5677766655444321100 00 0 00 0000000000
Q ss_pred -------------------cc------cEEEEEeccc-ccccc---cCCCCCEEEEeCCCCCCHHHH--hhhhcc-cCeE
Q 000698 1050 -------------------QV------KVVAVTCLGI-TNPLL---TDKKFDVCIMDEAGQTTLPVS--LGPLMF-ASKF 1097 (1345)
Q Consensus 1050 -------------------~~------~VV~tT~~~~-~~~ll---~~~~FD~VIVDEASQitep~~--L~pL~~-a~k~ 1097 (1345)
.. +++..+...+ .++.+ -..+|++|+|||+|+.+..+. +..|.. +.++
T Consensus 160 ~~~~~~~~~iy~~Y~~~l~~~~~lDfdDll~~~~~lL~~~~~v~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l 239 (726)
T TIGR01073 160 NYFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYTLVRLLASRFRNL 239 (726)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCCEE
Confidence 00 0000000000 00101 014899999999988887776 333432 4689
Q ss_pred EEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcc-eecccccccCchhHHHHHHHhhhCCcCCCCchhhhhhhccc
Q 000698 1098 VLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQA-ISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKV 1176 (1345)
Q Consensus 1098 VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~-v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~ 1176 (1345)
++|||++| ++|+|+|++...|.++.+.++.. +..|.+|||++++|++++|.++-.+.-....
T Consensus 240 ~vVGD~~Q-------sIY~fRgA~~~~~~~f~~~~~~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~~---------- 302 (726)
T TIGR01073 240 CVVGDADQ-------SIYGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPK---------- 302 (726)
T ss_pred EEEeCCCc-------cccccCCCChHHHHHHHHhCCCCeEEECccCCCCCHHHHHHHHHHHHhccccccc----------
Confidence 99999999 99999999999999998888754 5689999999999999999998543211100
Q ss_pred cCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHHCC-CCCCcEEEEecC
Q 000698 1177 SDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNE-IEGKDIGIITPY 1247 (1345)
Q Consensus 1177 ~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~g-v~~~dIGVITPY 1247 (1345)
..| .......++.++..+ .-..||..|+..+..++..| ++.+||+||++.
T Consensus 303 ------~l~--~~~~~g~~v~~~~~~-------------~~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~ 353 (726)
T TIGR01073 303 ------NLW--TENSSGDKITYYEAD-------------TERDEAQFVAGEIDKLVKNGERKYGDFAILYRT 353 (726)
T ss_pred ------ccc--cCCCCCcceEEEeCC-------------CHHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeC
Confidence 000 000112233333221 12457778888887777765 577888886654
No 14
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.96 E-value=1.9e-28 Score=309.34 Aligned_cols=206 Identities=20% Similarity=0.291 Sum_probs=140.6
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc-C---CeEEEEeccHHHHHHHHHHHhhc-C---CcE
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR-G---ASILLTSYTNSAVDNLLIKLKSQ-S---IDF 1015 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~-g---kkVLvtA~TnsAVDnLl~kL~~~-~---l~i 1015 (1345)
.||++|++||.. ..+.++|.|+||||||+||+++|.+|+.. | .+||++||||+|++++.+|+... + ..-
T Consensus 2 ~Ln~~Q~~av~~---~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~~~ 78 (672)
T PRK10919 2 RLNPGQQQAVEF---VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARG 78 (672)
T ss_pred CCCHHHHHHHhC---CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcccccC
Confidence 589999999853 46899999999999999999999999964 3 68999999999999999999753 2 123
Q ss_pred EEEcccchhhHHHHHhhhc-----c-ccc-c---------------------cHHHHHHhhc------------------
Q 000698 1016 VRIGRHEVVHKEIQKHCLS-----A-MNI-N---------------------SVEEIKKRLD------------------ 1049 (1345)
Q Consensus 1016 lRiG~~~~v~~~v~~~~l~-----~-~~~-~---------------------s~~~i~~~l~------------------ 1049 (1345)
+.+|+.+.+.-.+.+.... . ..+ . .+..+...+.
T Consensus 79 v~i~TfHS~~~~iLr~~~~~~g~~~~~~i~d~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~~ 158 (672)
T PRK10919 79 LMISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWKNDLKTPAQAAAGAKG 158 (672)
T ss_pred cEEEcHHHHHHHHHHHHHHHhCCCCCCeeCCHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHcCCCHHHHHHHhcc
Confidence 5667766655443221100 0 000 0 0000000000
Q ss_pred ------------------ccc------EEEEEeccc-ccccc---cCCCCCEEEEeCCCCCCHHHH--hhhhcc-cCeEE
Q 000698 1050 ------------------QVK------VVAVTCLGI-TNPLL---TDKKFDVCIMDEAGQTTLPVS--LGPLMF-ASKFV 1098 (1345)
Q Consensus 1050 ------------------~~~------VV~tT~~~~-~~~ll---~~~~FD~VIVDEASQitep~~--L~pL~~-a~k~V 1098 (1345)
... ++..+...+ .++.+ -..+|++|+|||+|+++..+. +..|.. ..+++
T Consensus 159 ~~~~~~~~~~~~Ye~~l~~~~~lDf~Dll~~~~~ll~~~~~~~~~~~~~~~~ilVDE~QDtn~~Q~~ll~~l~~~~~~l~ 238 (672)
T PRK10919 159 ERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFT 238 (672)
T ss_pred hhHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCHHHHHHHHhcCCEEEEEchhcCCHHHHHHHHHHHcCCCEEE
Confidence 000 000000000 00100 025799999999988887666 333332 46899
Q ss_pred EEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcc-eecccccccCchhHHHHHHHhhhC
Q 000698 1099 LVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQA-ISALQSQYRMCQGIMELSNALIYG 1159 (1345)
Q Consensus 1099 LVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~-v~~Lt~QYRm~~eI~~lsN~lfY~ 1159 (1345)
+|||++| ++|+|+|++...|.++.+.++.. +..|++|||++++|+.++|.++-.
T Consensus 239 ~VGD~~Q-------sIY~frGA~~~~~~~f~~~~~~~~~~~L~~NyRs~~~I~~~an~li~~ 293 (672)
T PRK10919 239 VVGDDDQ-------SIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIAN 293 (672)
T ss_pred EEcCCcc-------cccccCCCChHHHHHHHHhCCCCcEEECCCCCCCcHHHHHHHHHHHhh
Confidence 9999999 99999999999999998888753 568999999999999999999843
No 15
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=99.96 E-value=9.8e-29 Score=315.59 Aligned_cols=279 Identities=28% Similarity=0.369 Sum_probs=225.7
Q ss_pred cccEEEEEecccccccc--cCCCCCEEEEeCCCCCCHHHHhhhhccc--CeEEEEcCCCCCCccccchHHHhcCCcchHH
Q 000698 1050 QVKVVAVTCLGITNPLL--TDKKFDVCIMDEAGQTTLPVSLGPLMFA--SKFVLVGDHYQLPPLVQSTEARENGMEISLF 1125 (1345)
Q Consensus 1050 ~~~VV~tT~~~~~~~ll--~~~~FD~VIVDEASQitep~~L~pL~~a--~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLF 1125 (1345)
.+.++++|+.+..+-+. ....||.++||||.|..++..++||... .+.+++||..|||++|.+..+...++..|+|
T Consensus 514 ~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~slf 593 (827)
T KOG1801|consen 514 EAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCFKYMTSLF 593 (827)
T ss_pred cceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccchhccccchhhHH
Confidence 55677888777666433 4568999999999999999999999884 7899999999999999999999999999999
Q ss_pred HHHHHhCCcceecccccccCchhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCc
Q 000698 1126 RRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLP 1205 (1345)
Q Consensus 1126 erL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~ 1205 (1345)
+|+....... ..|++||||||+|..|+|..||+|+|+.+...... .....|. ...+..++.|++.....
T Consensus 594 ~rl~l~~~~~-~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~--------~~~~~~~--~~~~~~~y~f~~v~~g~ 662 (827)
T KOG1801|consen 594 ERLELAGHKT-LLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSES--------NTVKLWH--SGETFGPYPFFNVHYGK 662 (827)
T ss_pred HHHHHccCcc-ceecceeecCCccccCccccccccccccCcccchh--------hccccCc--CCCccCceEEEEecccc
Confidence 9998765432 37999999999999999999999988654321100 0111221 12455788888876422
Q ss_pred cccccccCCCCCHHHHHHHHHHHHHHHHC----CCCCCcEEEEecChHHHHHHHHHcCC---------CCcEEEeccCcc
Q 000698 1206 AYEAKDHQTLNNPVEACLIAKITQELVKN----EIEGKDIGIITPYNSQANLIRHSLSV---------SSVEIHTIDKYQ 1272 (1345)
Q Consensus 1206 ~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~----gv~~~dIGVITPYraQv~lIr~~L~~---------~~VeV~TVD~fQ 1272 (1345)
. +...+.+..|.+|+..+..++..+.+. +..+..+|||+||+.|+..+++.... ..+.+.|||+||
T Consensus 663 e-~~~~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fq 741 (827)
T KOG1801|consen 663 E-RAGGGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQ 741 (827)
T ss_pred c-ccCCCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEeccccc
Confidence 2 223347788999999999999988763 33377899999999999999887641 368899999999
Q ss_pred ccccCEEEEEccCCCCCCCCcccccccccchhhHhhhhcccceEEEeecchhccChh-HHHHHHHHHhcCCc
Q 000698 1273 GRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSCRTLSKVPL-LKLLINKVGEQSGI 1343 (1345)
Q Consensus 1273 GrEkdvVIIS~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~~~~~-~~~li~~~~~~g~i 1343 (1345)
|.|+|+||+|+||++..++ .+|+.+++|+|||+||||+-++++||..+|..... |..++......|..
T Consensus 742 g~e~diii~s~vrs~~~g~---igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~ 810 (827)
T KOG1801|consen 742 GGERDIIIISTVRSIDEGS---IGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCF 810 (827)
T ss_pred CCCCceeEEEEEEecccCc---cchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhcccccc
Confidence 9999999999999986532 58999999999999999999999999999998766 99999988777654
No 16
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.96 E-value=2.3e-29 Score=275.31 Aligned_cols=169 Identities=42% Similarity=0.620 Sum_probs=117.2
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHH--------HhcCCeEEEEeccHHHHHHHHHHHhh-----
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKAL--------LMRGASILLTSYTNSAVDNLLIKLKS----- 1010 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~L--------l~~gkkVLvtA~TnsAVDnLl~kL~~----- 1010 (1345)
+||+.|++||..+++...+++|+||||||||+|++.++..+ ...+++||++|+||.|||+++++|.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~~~~~~ 80 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKKLLDED 80 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC-----
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHhhcccc
Confidence 58999999999999976679999999999999999999999 45689999999999999999999988
Q ss_pred ---cCCcEEEEcccc-hhhHHHHHhhhccc---------------------------------ccc------------cH
Q 000698 1011 ---QSIDFVRIGRHE-VVHKEIQKHCLSAM---------------------------------NIN------------SV 1041 (1345)
Q Consensus 1011 ---~~l~ilRiG~~~-~v~~~v~~~~l~~~---------------------------------~~~------------s~ 1041 (1345)
....++|+|+.. ..++++..+++... ... ..
T Consensus 81 ~~~~~~~~ir~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (236)
T PF13086_consen 81 GKVYKPKIIRLGSEEEKIHEDLQKFSLESKLEQRFESKLKRLREQLEELQQKIRLSELKEEKKKLKKSIKRLRKELEKIR 160 (236)
T ss_dssp ---TT--EEE---GGTTS--TTGGGBHHHHHHTTT-----------THHHCHHHHHHHHHHHCCSSCHHHHHHHHHHHHH
T ss_pred ccccccchhhhcccccccccccccccccccccccccccchhhhHHHHHHHHhhhhhhhhhhhhhcchhcccccccccccc
Confidence 356799999887 55555444431100 000 01
Q ss_pred HHH-HHhhccccEEEEEecccccccccCC--CCCEEEEeCCCCCCHHHHhhhhccc-CeEEEEcCCCCCCccccc
Q 000698 1042 EEI-KKRLDQVKVVAVTCLGITNPLLTDK--KFDVCIMDEAGQTTLPVSLGPLMFA-SKFVLVGDHYQLPPLVQS 1112 (1345)
Q Consensus 1042 ~~i-~~~l~~~~VV~tT~~~~~~~ll~~~--~FD~VIVDEASQitep~~L~pL~~a-~k~VLVGDh~QLPPvV~s 1112 (1345)
+.+ ...+..++||++|+.++....+... .||+||||||+|++++.+|.|+..+ +++||||||+||||+|.+
T Consensus 161 ~~~~~~~l~~~~vi~~T~~~~~~~~~~~~~~~~d~vIvDEAsq~~e~~~l~~l~~~~~~~vlvGD~~QLpP~v~s 235 (236)
T PF13086_consen 161 EELRRFILKEADVIFTTLSSAASPFLSNFKEKFDVVIVDEASQITEPEALIPLSRAPKRIVLVGDPKQLPPVVKS 235 (236)
T ss_dssp HHHHHHHHHT-SEEEEETCGGG-CCGTT-----SEEEETTGGGS-HHHHHHHHTTTBSEEEEEE-TTS-----S-
T ss_pred cchhhhhcccccccccccccchhhHhhhhcccCCEEEEeCCCCcchHHHHHHHHHhCCEEEEECChhhcCCeeCC
Confidence 111 3456788999999999977777655 8999999999999999999999888 999999999999999986
No 17
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.94 E-value=5.3e-26 Score=288.49 Aligned_cols=205 Identities=21% Similarity=0.290 Sum_probs=138.7
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc----CCeEEEEeccHHHHHHHHHHHhhc-C---CcE
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKSQ-S---IDF 1015 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~----gkkVLvtA~TnsAVDnLl~kL~~~-~---l~i 1015 (1345)
.||++|++||. ...+.++|.|+||||||+|++++|..|+.. .++||++|||+.|+.++.+||.+. + ..-
T Consensus 1 ~Ln~~Q~~av~---~~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~~~~~ 77 (664)
T TIGR01074 1 KLNPQQQEAVE---YVTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEARG 77 (664)
T ss_pred CCCHHHHHHHh---CCCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCccccCC
Confidence 48999999985 345799999999999999999999999963 368999999999999999999753 2 233
Q ss_pred EEEcccchhhHHHHHhh-----hccc-c-cc---------------------cHHHHHHhhcccc---------------
Q 000698 1016 VRIGRHEVVHKEIQKHC-----LSAM-N-IN---------------------SVEEIKKRLDQVK--------------- 1052 (1345)
Q Consensus 1016 lRiG~~~~v~~~v~~~~-----l~~~-~-~~---------------------s~~~i~~~l~~~~--------------- 1052 (1345)
+.+++.+++.-.+.+.. +... . .. .+..+...+...+
T Consensus 78 v~v~TfHs~a~~il~~~~~~~g~~~~~~il~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~~ 157 (664)
T TIGR01074 78 LTISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEGLIKDDKDLLDKLISTISNWKNDLLTPEQALASARG 157 (664)
T ss_pred eEEEeHHHHHHHHHHHHHHHhCCCCCCEEeCHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHcCCCHHHHHHhccC
Confidence 56677666554433211 0000 0 00 0000100000000
Q ss_pred ---------------------------EEEEEeccc-cccccc---CCCCCEEEEeCCCCCCHHHH--hhhhcc-cCeEE
Q 000698 1053 ---------------------------VVAVTCLGI-TNPLLT---DKKFDVCIMDEAGQTTLPVS--LGPLMF-ASKFV 1098 (1345)
Q Consensus 1053 ---------------------------VV~tT~~~~-~~~ll~---~~~FD~VIVDEASQitep~~--L~pL~~-a~k~V 1098 (1345)
++...+..+ .++.+. ..+|++|+|||+|+.+..+. +..|.. ...++
T Consensus 158 ~~~~~~~~i~~~Y~~~l~~~~~ldf~Dll~~~~~~L~~~~~i~~~~~~~~~~ilVDEfQD~~~~Q~~ll~~L~~~~~~l~ 237 (664)
T TIGR01074 158 EREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKLLVGDRARFT 237 (664)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhhChHHHHHHHHhCCEEEEeehccCCHHHHHHHHHHhcCCCeEE
Confidence 000000000 011111 25789999999988877665 333332 45799
Q ss_pred EEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcc-eecccccccCchhHHHHHHHhhh
Q 000698 1099 LVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQA-ISALQSQYRMCQGIMELSNALIY 1158 (1345)
Q Consensus 1099 LVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~-v~~Lt~QYRm~~eI~~lsN~lfY 1158 (1345)
+|||++| ++|+|+|++...|.++.+.++.. +..|.+|||++++|++++|.++-
T Consensus 238 ~vGD~~Q-------sIY~frga~~~~~~~~~~~~~~~~~~~L~~NyRs~~~Il~~~n~l~~ 291 (664)
T TIGR01074 238 VVGDDDQ-------SIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIA 291 (664)
T ss_pred EEcCCcc-------cccCCCCCCHHHHHHHHHhCCCCeEEECCCCCCChHHHHHHHHHHHh
Confidence 9999999 99999999999998888777643 55899999999999999999764
No 18
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=99.93 E-value=4.2e-25 Score=273.28 Aligned_cols=351 Identities=21% Similarity=0.250 Sum_probs=188.6
Q ss_pred HHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC-----CeEEEEeccHHHHHHHHHHHhhcCCcEEEEccc
Q 000698 947 DDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG-----ASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 947 ~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g-----kkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~ 1021 (1345)
+.|+.|+..++. ..+++|.|+||||||||++.++..|.+.+ .+|+++|+|++|+++|.+.+..... +++.
T Consensus 148 ~~Qk~A~~~al~-~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~---~l~~- 222 (586)
T TIGR01447 148 NWQKVAVALALK-SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVK---NLAA- 222 (586)
T ss_pred HHHHHHHHHHhh-CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhc---cccc-
Confidence 689999999998 48999999999999999999999887642 4799999999999999998754221 1110
Q ss_pred chhhHHHHHh-hhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHh---hhhcccCeE
Q 000698 1022 EVVHKEIQKH-CLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSL---GPLMFASKF 1097 (1345)
Q Consensus 1022 ~~v~~~v~~~-~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L---~pL~~a~k~ 1097 (1345)
.+++... ...+.+++++..+.. . + ..+.+..-....+|++|||||||++.+.+. ..+..+.|+
T Consensus 223 ---~~~~~~~~~~~a~TiHrlLg~~~---~------~-~~~~~~~~~~l~~dvlIiDEaSMvd~~l~~~ll~al~~~~rl 289 (586)
T TIGR01447 223 ---AEALIAALPSEAVTIHRLLGIKP---D------T-KRFRHHERNPLPLDVLVVDEASMVDLPLMAKLLKALPPNTKL 289 (586)
T ss_pred ---chhhhhccccccchhhhhhcccC---C------c-chhhhcccCCCcccEEEEcccccCCHHHHHHHHHhcCCCCEE
Confidence 0111000 001122222211100 0 0 000000011236899999999999988763 444567899
Q ss_pred EEEcCCCCCCccccchHHHhc------CCcchHHHHHHH--------h--CCcceecccccccCch--hHHHHHHHhhhC
Q 000698 1098 VLVGDHYQLPPLVQSTEAREN------GMEISLFRRLSE--------E--HPQAISALQSQYRMCQ--GIMELSNALIYG 1159 (1345)
Q Consensus 1098 VLVGDh~QLPPvV~s~~a~~~------Gl~~SLFerL~~--------~--~p~~v~~Lt~QYRm~~--eI~~lsN~lfY~ 1159 (1345)
|||||++||||+-.+...+.. |+.......+.. . .+..++.|+++||... .|..+++.+ ..
T Consensus 290 IlvGD~~QLpsV~~G~vl~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~L~~~~R~~~~S~I~~lA~~I-~~ 368 (586)
T TIGR01447 290 ILLGDKNQLPSVEAGAVLGDLCELASIGYLFQSAQAYALCKKINSKTRNPLSDNVCFLKTSHRFGKDSGIGQLAKAI-NS 368 (586)
T ss_pred EEECChhhCCCCCCChhHHHHHHhhccccchhhhhhhcccccccccccCCCCCcEEEeceeecCCCCccHHHHHHHH-Hc
Confidence 999999999999766543321 111100000000 0 2334779999999975 699999875 44
Q ss_pred CcCCCCchhhh-hhhccccCCCCCchh---hhhhcCCCCC---EEEEeCCCCcccccc-c---cC-CCCCHHHHHHHHHH
Q 000698 1160 DRLSCGSDEIA-NAKIKVSDLSSCSPW---LKEALNPCRP---VIFVNTDMLPAYEAK-D---HQ-TLNNPVEACLIAKI 1227 (1345)
Q Consensus 1160 g~L~~~~~~va-~~~l~~~~~~~~~~w---l~~~l~p~~~---v~Fidtd~~~~~e~~-~---~~-s~~N~~EA~lV~~l 1227 (1345)
|.....-.... ...+.+........+ +........+ ...-..+.....+.- . -. ...-+.-+..+-..
T Consensus 369 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~qvL~~~r~G~~Gv~~LN~~ 448 (586)
T TIGR01447 369 GDIEAVLNNLRSGQLIEFEFLNSKEDAIERLKNLFVKYRTFLQKLAALSDIKEILETFDRLRLLTALRDGPFGVLGLNRR 448 (586)
T ss_pred CChhHHHHHhccCCCCceEecCCHHHHHHHHHHHHHHHHHHHHhhhcccchhhhhcccccEEEECeeeCCcHhHHHHHHH
Confidence 43221000000 000000000000000 0000000000 000000000000000 0 00 00011123334444
Q ss_pred HHHHHHC-------------------------CCCCCcEEEEecChHHH-----------HHHHHHcCC-CCcEEEeccC
Q 000698 1228 TQELVKN-------------------------EIEGKDIGIITPYNSQA-----------NLIRHSLSV-SSVEIHTIDK 1270 (1345)
Q Consensus 1228 v~~Ll~~-------------------------gv~~~dIGVITPYraQv-----------~lIr~~L~~-~~VeV~TVD~ 1270 (1345)
++..+.. |+.++|||+|.+....+ ..-...+.. ...-..|||+
T Consensus 449 lq~~l~~~~~~~~~~~~~~Gd~Vm~t~Nd~~~gl~NGdiG~i~~~~~~~~v~f~~~~g~~~~~~~~l~~~~~ayA~TvHK 528 (586)
T TIGR01447 449 IEQELQEKYFDPDEEGWYIGRPIMVTENDYTLGLFNGDIGVLLRDPDGLTVWFHFADGSKAVLPSRLPNYETAFAMTVHK 528 (586)
T ss_pred HHHHhCcccCCCCCceeecCCeEEEeecCcccCcCCCCeEEEEEeCCcEEEEEEcCCCeEEechHHcCccceEEEEEeeH
Confidence 4444321 45678999998632110 000111111 2234799999
Q ss_pred ccccccCEEEEEccCCCCCCCCcccccccccchhhHhhhhcccceEEEeecchh
Q 000698 1271 YQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSCRTL 1324 (1345)
Q Consensus 1271 fQGrEkdvVIIS~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL 1324 (1345)
+||+|++.||+.+..... -+-+++.+|||+||||++++|+|+...+
T Consensus 529 SQGsef~~Vi~~l~~~~~--------~~l~r~llYTaiTRAk~~l~i~~~~~~l 574 (586)
T TIGR01447 529 SQGSEFDHVILILPNGNS--------PVLTRELLYTGITRAKDQLSVWSDKETL 574 (586)
T ss_pred hcCCcCCeEEEECCCCCC--------cccccceeEEEeeehhCeEEEEECHHHH
Confidence 999999999998775421 1235788999999999999999987654
No 19
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.93 E-value=2.5e-24 Score=266.77 Aligned_cols=198 Identities=24% Similarity=0.277 Sum_probs=125.1
Q ss_pred CCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc----CCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcc
Q 000698 945 LNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKSQSIDFVRIGR 1020 (1345)
Q Consensus 945 LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~----gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~ 1020 (1345)
..+.|+.|+..++. ..+++|.|+||||||||+..++..+.+. +.+|+++|+|++|+..|.+.+..... +++-
T Consensus 153 ~~d~Qk~Av~~a~~-~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~---~~~~ 228 (615)
T PRK10875 153 EVDWQKVAAAVALT-RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALR---QLPL 228 (615)
T ss_pred CCHHHHHHHHHHhc-CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhh---cccc
Confidence 35799999998887 4799999999999999999999988763 25899999999999999998753211 1110
Q ss_pred cchhhHHHHHh-hhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcccCe
Q 000698 1021 HEVVHKEIQKH-CLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMFASK 1096 (1345)
Q Consensus 1021 ~~~v~~~v~~~-~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~a~k 1096 (1345)
.+++... ...+. .+.+.+....- . ..+.+..-....+|++|||||||+..+.+ +.++....|
T Consensus 229 ----~~~~~~~~~~~a~------TiHrlLg~~~~--~--~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al~~~~r 294 (615)
T PRK10875 229 ----TDEQKKRIPEEAS------TLHRLLGAQPG--S--QRLRYHAGNPLHLDVLVVDEASMVDLPMMARLIDALPPHAR 294 (615)
T ss_pred ----chhhhhcCCCchH------HHHHHhCcCCC--c--cchhhccccCCCCCeEEEChHhcccHHHHHHHHHhcccCCE
Confidence 0111100 00111 11222211000 0 00000001123689999999999998776 455556789
Q ss_pred EEEEcCCCCCCccccchHHHh------cCCcchHHHHHHHh------------CC---cceecccccccCc--hhHHHHH
Q 000698 1097 FVLVGDHYQLPPLVQSTEARE------NGMEISLFRRLSEE------------HP---QAISALQSQYRMC--QGIMELS 1153 (1345)
Q Consensus 1097 ~VLVGDh~QLPPvV~s~~a~~------~Gl~~SLFerL~~~------------~p---~~v~~Lt~QYRm~--~eI~~ls 1153 (1345)
+|||||++|||||-.+..... .|+.....+.+.+. .| ..++.|+++||.. ..|..+|
T Consensus 295 lIlvGD~~QL~sV~~G~VL~DL~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~Rf~~~SgI~~lA 374 (615)
T PRK10875 295 VIFLGDRDQLASVEAGAVLGDICRFAEAGYSAERAQQLSRLTGCHLPAGTGTEAASVRDSLCLLRKSYRFGSDSGIGQLA 374 (615)
T ss_pred EEEecchhhcCCCCCCchHHHHHHhhhcccchhhhhHHhhhccccccccccccCCccccceeecceeecCCCCCcHHHHH
Confidence 999999999999977754432 23222222222110 01 1246899999985 6799999
Q ss_pred HHhhhCCc
Q 000698 1154 NALIYGDR 1161 (1345)
Q Consensus 1154 N~lfY~g~ 1161 (1345)
+.+ .+|.
T Consensus 375 ~~I-~~G~ 381 (615)
T PRK10875 375 AAV-NRGD 381 (615)
T ss_pred HHH-HCCC
Confidence 875 4444
No 20
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=99.92 E-value=5.3e-24 Score=270.11 Aligned_cols=174 Identities=23% Similarity=0.278 Sum_probs=123.3
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhhcCCcEEEEcc
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKSQSIDFVRIGR 1020 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~ 1020 (1345)
..||++|++|+..+.. ..+++|.|+|||||||++..++..+...| .+|+++|+|++|++.|.+.+ |.
T Consensus 322 ~~l~~~Q~~Ai~~~~~-~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~----------g~ 390 (720)
T TIGR01448 322 KGLSEEQKQALDTAIQ-HKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVT----------GL 390 (720)
T ss_pred CCCCHHHHHHHHHHHh-CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhc----------CC
Confidence 4799999999999876 46999999999999999999999888877 89999999999999887643 11
Q ss_pred cchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhh---hcccCeE
Q 000698 1021 HEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGP---LMFASKF 1097 (1345)
Q Consensus 1021 ~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~p---L~~a~k~ 1097 (1345)
+ +.+++++... .... ......-....+|++|||||||+..+.+... +..+.++
T Consensus 391 ~-------------a~Tih~lL~~---~~~~--------~~~~~~~~~~~~~llIvDEaSMvd~~~~~~Ll~~~~~~~rl 446 (720)
T TIGR01448 391 T-------------ASTIHRLLGY---GPDT--------FRHNHLEDPIDCDLLIVDESSMMDTWLALSLLAALPDHARL 446 (720)
T ss_pred c-------------cccHHHHhhc---cCCc--------cchhhhhccccCCEEEEeccccCCHHHHHHHHHhCCCCCEE
Confidence 1 0111111100 0000 0000000013689999999999998766333 3356899
Q ss_pred EEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCc--hhHHHHHHHhhhCCcC
Q 000698 1098 VLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMC--QGIMELSNALIYGDRL 1162 (1345)
Q Consensus 1098 VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~--~eI~~lsN~lfY~g~L 1162 (1345)
|||||++||||+-.+ ..|..+.......+..|+..||.. ..|+.+++.+ -.|.+
T Consensus 447 ilvGD~~QLpsV~~G----------~v~~dl~~~~~~~~~~L~~i~RQ~~~s~i~~~a~~i-~~g~~ 502 (720)
T TIGR01448 447 LLVGDTDQLPSVGPG----------QVLKDLILSQAIPVTRLTKVYRQAAGSPIITLAHGI-LHGEA 502 (720)
T ss_pred EEECccccccCCCCC----------chHHHHHhcCCCCEEEeCeeeccCCCcHHHHHHHHH-HcCCC
Confidence 999999999999554 345556655444567999999986 4699999875 34444
No 21
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.91 E-value=2.3e-23 Score=264.16 Aligned_cols=274 Identities=21% Similarity=0.279 Sum_probs=183.0
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC----CeEEEEeccHHHHHHHHHHHhhcCC----cE
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG----ASILLTSYTNSAVDNLLIKLKSQSI----DF 1015 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g----kkVLvtA~TnsAVDnLl~kL~~~~l----~i 1015 (1345)
+||++|++|+.. ..+.++|.++||||||+|++++|.+|+..+ .+||+++|||+|+.++.+|+..... ..
T Consensus 2 ~Ln~~Q~~av~~---~~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~~~ 78 (655)
T COG0210 2 KLNPEQREAVLH---PDGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLPAAEG 78 (655)
T ss_pred CCCHHHHHHHhc---CCCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCcccccC
Confidence 699999999954 468999999999999999999999999874 5799999999999999999876422 11
Q ss_pred EEEcccchhhHHHHHhhh-------------------------------cccccc--c----HHH---------------
Q 000698 1016 VRIGRHEVVHKEIQKHCL-------------------------------SAMNIN--S----VEE--------------- 1043 (1345)
Q Consensus 1016 lRiG~~~~v~~~v~~~~l-------------------------------~~~~~~--s----~~~--------------- 1043 (1345)
+.+|+.+.+.-.+.+... +..... . +..
T Consensus 79 ~~v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~ 158 (655)
T COG0210 79 LTVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEASALL 158 (655)
T ss_pred cEEeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhhhhhh
Confidence 455555444333222100 000000 0 000
Q ss_pred -----------HHHh---hccccEEEEEeccc------------ccccc-c--CCCCCEEEEeCCCCCCHHHH--hhhhc
Q 000698 1044 -----------IKKR---LDQVKVVAVTCLGI------------TNPLL-T--DKKFDVCIMDEAGQTTLPVS--LGPLM 1092 (1345)
Q Consensus 1044 -----------i~~~---l~~~~VV~tT~~~~------------~~~ll-~--~~~FD~VIVDEASQitep~~--L~pL~ 1092 (1345)
+... +..... ..-...+ .++.+ . ..+|+||+|||+|+....+. +..+.
T Consensus 159 ~~~~~~~~~~~~~~~y~~Y~~~~~-~~~~~df~dll~~~~~l~~~~~~v~~~~~~rf~~iLvDE~QDtn~~Q~~ll~~la 237 (655)
T COG0210 159 LAAIKSEAEKKLAELYEEYQELLR-LNNALDFDDLLLLALRLLEENPEVLEALQARFRYILVDEFQDTNPLQYELLKLLA 237 (655)
T ss_pred hhccccHHHHHHHHHHHHHHHHHH-HcCCCCHHHHHHHHHHHHhcCHHHHHHHHhhCCEEEEeCcCCCCHHHHHHHHHHh
Confidence 0000 000000 0000000 01100 0 26899999999977776555 34443
Q ss_pred c-cCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCc-ceecccccccCchhHHHHHHHhhhCCcCCCCchhhh
Q 000698 1093 F-ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQ-AISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIA 1170 (1345)
Q Consensus 1093 ~-a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~-~v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va 1170 (1345)
. +..+++|||++| ++|.|+|++...|..|.+.+|. .+..|..|||+.+.|+.++|.++-.+.-.-.
T Consensus 238 ~~~~~l~~VGD~dQ-------sIY~frGA~~~ni~~f~~df~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r~~----- 305 (655)
T COG0210 238 GNAANLFVVGDDDQ-------SIYGFRGADPENILDFEKDFPAAKVIKLEQNYRSTPNILAAANKVIANNKKRQA----- 305 (655)
T ss_pred CCCCCEEEEcCCcc-------ccceeCCCChHHHHHHHhhCCCCcEEEecCCCCCcHHHHHHHHHHHhcCCccCC-----
Confidence 3 357889999999 9999999999999999999986 6789999999999999999999852211100
Q ss_pred hhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHHCC-CCCCcEEEEecChH
Q 000698 1171 NAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNE-IEGKDIGIITPYNS 1249 (1345)
Q Consensus 1171 ~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~g-v~~~dIGVITPYra 1249 (1345)
. .-|... ......+.++. ......||..|+..+..+...| ...+||+|+...+.
T Consensus 306 ---------k--~l~~~~-~~~~~~~~~~~-------------~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~ 360 (655)
T COG0210 306 ---------K--TLRTEV-EGSGEKVVLLL-------------ANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNA 360 (655)
T ss_pred ---------C--cceecc-CCCCCCceEEe-------------CCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCc
Confidence 0 001110 12222233322 2346789999999999999988 88999999999888
Q ss_pred HHHHHHHHc
Q 000698 1250 QANLIRHSL 1258 (1345)
Q Consensus 1250 Qv~lIr~~L 1258 (1345)
|...+...+
T Consensus 361 ~s~~~e~~l 369 (655)
T COG0210 361 QSRLIEEAL 369 (655)
T ss_pred chHHHHHHH
Confidence 887776654
No 22
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=99.90 E-value=1.8e-22 Score=269.42 Aligned_cols=83 Identities=25% Similarity=0.287 Sum_probs=68.3
Q ss_pred CCCCEEEEeCCCCCCHHHH--hhhhccc----CeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCc------ce
Q 000698 1069 KKFDVCIMDEAGQTTLPVS--LGPLMFA----SKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQ------AI 1136 (1345)
Q Consensus 1069 ~~FD~VIVDEASQitep~~--L~pL~~a----~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~------~v 1136 (1345)
.+|++|+|||+|+.+..+. +..+... .++++|||++| ++|+|+|+++++|..+.+.++. ..
T Consensus 387 ~rf~~ILVDEfQDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQ-------SIY~FRGAdp~lf~~~~~~f~~~~~~~~~~ 459 (1232)
T TIGR02785 387 EKFKEVLVDEYQDTNLLQESILQLLKRGEEDEGNLFMVGDVKQ-------SIYRFRQADPSLFLEKYHRFAQEGNEHGKR 459 (1232)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHhccCCCCCeEEEEcCCcc-------hhhhhcCCChHHHHHHHHHhhhhccCCceE
Confidence 3799999999988877664 3333332 57999999999 9999999999999887665532 35
Q ss_pred ecccccccCchhHHHHHHHhhh
Q 000698 1137 SALQSQYRMCQGIMELSNALIY 1158 (1345)
Q Consensus 1137 ~~Lt~QYRm~~eI~~lsN~lfY 1158 (1345)
..|.+|||++++|++++|.+|.
T Consensus 460 i~L~~NfRS~~~Il~~~N~lF~ 481 (1232)
T TIGR02785 460 IDLAENFRSRKEVLDTTNYLFK 481 (1232)
T ss_pred EECCcCCCCcHHHHHHHHHHHH
Confidence 6899999999999999999985
No 23
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=99.89 E-value=4.9e-22 Score=253.08 Aligned_cols=306 Identities=21% Similarity=0.239 Sum_probs=184.5
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccc
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHE 1022 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~ 1022 (1345)
..||++|++|+..++...++++|+|+|||||||++..++..+...|.+|+++|+|+.|+..|.+.. ++.-
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~~---g~~a------- 420 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAES---GIES------- 420 (744)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhcc---CCce-------
Confidence 479999999999998877899999999999999999998888888999999999999999987532 2111
Q ss_pred hhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhc----ccCeEE
Q 000698 1023 VVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLM----FASKFV 1098 (1345)
Q Consensus 1023 ~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~----~a~k~V 1098 (1345)
..++++. ..+ ....-.....|++|||||||+....+...+. .+.++|
T Consensus 421 -------------~Ti~~~~---~~~-------------~~~~~~~~~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kli 471 (744)
T TIGR02768 421 -------------RTLASLE---YAW-------------ANGRDLLSDKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVV 471 (744)
T ss_pred -------------eeHHHHH---hhh-------------ccCcccCCCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEE
Confidence 0111110 000 0000011378999999999999876643332 468899
Q ss_pred EEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHhhhCCcCCCCchhhh-hhhcccc
Q 000698 1099 LVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIA-NAKIKVS 1177 (1345)
Q Consensus 1099 LVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va-~~~l~~~ 1177 (1345)
||||++|||||..+. .|..+.+..+ .+.|+..||...+-..-+...+..|....+-.... ...+...
T Consensus 472 LVGD~~QLpsVgaG~----------~f~~l~~~~~--~~~Lt~I~RQ~~~~~~~aa~~i~~G~~~~~l~~~~~~~~i~~~ 539 (744)
T TIGR02768 472 LVGDPEQLQPIEAGA----------AFRAIAERIG--YAELETIRRQREAWARQASLELARGDVEKALAAYRDHGHITIH 539 (744)
T ss_pred EECChHHccccccCc----------HHHHHHHhhC--eEEeeeEEecCCHHHHHHHHHHHcCCHHHHHHHHhhCCCEeec
Confidence 999999999997653 5555655443 46899999987664444444455554321110000 0000000
Q ss_pred CC-C-----CCchhhhhhc--CCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHH----------------
Q 000698 1178 DL-S-----SCSPWLKEAL--NPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVK---------------- 1233 (1345)
Q Consensus 1178 ~~-~-----~~~~wl~~~l--~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~---------------- 1233 (1345)
.. . -...|..... .+....+.+ ...|. ++..+-..++..+.
T Consensus 540 ~~~~~~~~~i~~~~~~~~~~~~~~~~~lIl--------------a~tn~-~v~~LN~~ir~~L~~~g~l~~~~~~~~~~g 604 (744)
T TIGR02768 540 DTREEAIEQVVADWKQDLREANPAGSQIML--------------AHTRK-DVRALNEAAREALIERGELGESILFQTARG 604 (744)
T ss_pred CCHHHHHHHHHHHHHHhhhhcCcccceEEE--------------cCchH-hHHHHHHHHHHHHHhcCccCcCceeeccCC
Confidence 00 0 0112222111 011110011 01122 34444444443331
Q ss_pred ------------------CCCCCCcEEEEecChHHHHHHHHHcCC--------------CCcEEEeccCccccccCEEEE
Q 000698 1234 ------------------NEIEGKDIGIITPYNSQANLIRHSLSV--------------SSVEIHTIDKYQGRDKDCILV 1281 (1345)
Q Consensus 1234 ------------------~gv~~~dIGVITPYraQv~lIr~~L~~--------------~~VeV~TVD~fQGrEkdvVII 1281 (1345)
.|+.++|+|+|+-..... +.-.+.. .---..|||++||.|+|.||+
T Consensus 605 ~~~~~~GDrV~~~~N~~~~gv~NGd~g~V~~i~~~~--i~v~~~~G~~v~~~~~~~~~l~laYA~TvHKsQGst~~~viv 682 (744)
T TIGR02768 605 ERKFAAGDRIVFLENNRDLGVKNGMLGTVEEIEDGR--LVVQLDSGELVIIPQAEYDALDHGYATTIHKSQGVTVDRAFV 682 (744)
T ss_pred CceecCCCEEEEEecccccCCcCCCEEEEEEecCCe--EEEEECCCCEEEECHHHhCccCceEEeccccccCCccCcEEE
Confidence 034456777766432110 0000100 111269999999999999999
Q ss_pred EccCCCCCCCCcccccccccchhhHhhhhcccceEEEeecchhccCh
Q 000698 1282 SFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSCRTLSKVP 1328 (1345)
Q Consensus 1282 S~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~~~~ 1328 (1345)
... .+-+.+.+|||+||||+.++|+|+...+....
T Consensus 683 ~~~------------~~l~r~llYvAiTRar~~~~l~~~~~~~~~~~ 717 (744)
T TIGR02768 683 LAS------------KSMDRHLAYVAMTRHRESVQLYAGKEDFTDRG 717 (744)
T ss_pred ecC------------CccccchhhhhhhcccceeEEEEchhhccChH
Confidence 721 11367889999999999999999988776543
No 24
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.89 E-value=2.3e-23 Score=253.92 Aligned_cols=370 Identities=26% Similarity=0.375 Sum_probs=265.6
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEeccHHHHHHHHHHHhhcCCc---EEEE
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR--GASILLTSYTNSAVDNLLIKLKSQSID---FVRI 1018 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA~TnsAVDnLl~kL~~~~l~---ilRi 1018 (1345)
.+|+.|.+||..-.. .+.+.+.||||||||.+.+.++..+..+ ..+-|+++.+|.|...+-+|+.+..++ ++|+
T Consensus 738 ~ft~~qveai~sg~q-pgltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqaln~lfeKi~~~d~d~rhLlrl 816 (1320)
T KOG1806|consen 738 KFTPTQVEAILSGMQ-PGLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMALDVDERHLLRL 816 (1320)
T ss_pred ccCHHHHHHHHhcCC-CCceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccchhHHHHHHHhcccchhhHHHh
Confidence 569999999976655 5799999999999999999999998875 678999999999999999998764332 3333
Q ss_pred cccch-----------------------hhHHHHH-----------------------------------hhhcc-----
Q 000698 1019 GRHEV-----------------------VHKEIQK-----------------------------------HCLSA----- 1035 (1345)
Q Consensus 1019 G~~~~-----------------------v~~~v~~-----------------------------------~~l~~----- 1035 (1345)
|+.+. ...++.+ .+-..
T Consensus 817 g~ge~eletd~dfsrygrvn~~l~~r~~ll~ev~rla~sl~~pgdv~ytcetagyf~~~~V~~~wee~l~~v~~~~~~~~ 896 (1320)
T KOG1806|consen 817 GHGEEELETDKDFSRYGRVNYVLSRRLELLREVERLAKSLQAPGDVDYTCETAGYFFLAYVKRRWEEYLAKVDKGCDKDS 896 (1320)
T ss_pred cccHHhhhcccchhheeeEeeeeccchHHHHHHHHhhhhhcCccccccccchhhhhhhhHHHhhhHHHHHHhccCCCchh
Confidence 32100 0000100 00000
Q ss_pred ------------------c-ccc----------------cHHHHHHh---------------------hccccEEEEEec
Q 000698 1036 ------------------M-NIN----------------SVEEIKKR---------------------LDQVKVVAVTCL 1059 (1345)
Q Consensus 1036 ------------------~-~~~----------------s~~~i~~~---------------------l~~~~VV~tT~~ 1059 (1345)
+ ..+ -++.+... .+.++++++||.
T Consensus 897 ~~~~~~~fpf~~~f~d~p~~vfeg~n~~~d~~~a~~cf~hl~~ifqqLee~rafellr~~~dr~~Yll~kqakiiamtct 976 (1320)
T KOG1806|consen 897 VDIVSNRFPFHSYFGDKPKPPFEGYNKENDMDYATGCFRHLEYIFQQLEEFRAFELLRSGEDRELYLLVKQAKIIAMTCT 976 (1320)
T ss_pred hhhHhhhCcchhhhhcCCCccccccchhhhhhhhhhhHHHHHHHHHHHHhcccccccccchhHhhccCcccceeeecccC
Confidence 0 000 00111111 236789999998
Q ss_pred ccccc---cc-cCCCCCEEEEeCCCCCCHHHHhhhhcc---------cCeEEEEcCCCCCCccccchH-HHhcCCcchHH
Q 000698 1060 GITNP---LL-TDKKFDVCIMDEAGQTTLPVSLGPLMF---------ASKFVLVGDHYQLPPLVQSTE-ARENGMEISLF 1125 (1345)
Q Consensus 1060 ~~~~~---ll-~~~~FD~VIVDEASQitep~~L~pL~~---------a~k~VLVGDh~QLPPvV~s~~-a~~~Gl~~SLF 1125 (1345)
...-. ++ ....||-+++.|++|+.+-...+|+.. -+++|++|||.||||++++.. .....++.|+|
T Consensus 977 haalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf 1056 (1320)
T KOG1806|consen 977 HAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLF 1056 (1320)
T ss_pred ChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhh
Confidence 87632 22 246899999999999999887777653 267999999999999996654 45567889999
Q ss_pred HHHHHhCCcceecccccccCchhHHHHHHHhhhCCcCC-CCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCC
Q 000698 1126 RRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLS-CGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDML 1204 (1345)
Q Consensus 1126 erL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L~-~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~ 1204 (1345)
.|+.+.. ...+.|..|+|..+.||++-|-. |.+.-. .+.+ +..+.+ ..--.-...+.|++....
T Consensus 1057 ~r~vRl~-ip~i~lnaqgrar~sI~~Ly~wr-y~lLg~l~~v~--~lp~f~-----------~aNagf~~~~qlinv~Df 1121 (1320)
T KOG1806|consen 1057 TRLVRLG-VPIIDLNAQGRARASIASLYNWR-YPLLGNLPHVS--PLPRFQ-----------YANAGFAYEFQFINVPDF 1121 (1320)
T ss_pred hcceecc-cceecchhhhhHHHHHHHHHHhh-hcccccCcCCc--cchhhh-----------ccccCceeeEEEecchhh
Confidence 9998754 34568999999999999999874 543221 1111 000110 000112345778876654
Q ss_pred ccccc--cccCCCCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecChHHHHHHHHHcCC---------CCcEEEeccCccc
Q 000698 1205 PAYEA--KDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITPYNSQANLIRHSLSV---------SSVEIHTIDKYQG 1273 (1345)
Q Consensus 1205 ~~~e~--~~~~s~~N~~EA~lV~~lv~~Ll~~gv~~~dIGVITPYraQv~lIr~~L~~---------~~VeV~TVD~fQG 1273 (1345)
.+... .....+.|.+||+.++++-..|..-|.+.+.|.|+|.|+.|..+|++.+.. .--.|.|||+|||
T Consensus 1122 ~g~gEt~p~p~fyQnlgeaey~vAly~YMr~Lgypa~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~qg 1201 (1320)
T KOG1806|consen 1122 KGSGETEPSPGFYQNLGEAEYAVALFQYMRLLGYPANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKFQG 1201 (1320)
T ss_pred ccccccCCCcccccCCchhhhHHHHHHHHHHhCCchhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccccccc
Confidence 33222 234467899999999999999999999999999999999999999987742 3446899999999
Q ss_pred cccCEEEEEccCCCCCCCCcccccccccchhhHhhhhcccceEEEeecchhcc----ChhHHHHHH
Q 000698 1274 RDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSCRTLSK----VPLLKLLIN 1335 (1345)
Q Consensus 1274 rEkdvVIIS~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~~----~~~~~~li~ 1335 (1345)
.+.|.||+|.|++.. .|-+.|.||++||++||+-.|++.|....... .|.|+.|..
T Consensus 1202 qqndfiIlslv~tr~------~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k 1261 (1320)
T KOG1806|consen 1202 QQNDFIILSLVRTRE------VGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEK 1261 (1320)
T ss_pred cccceEEeeehhhhh------hhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhh
Confidence 999999999999864 46788999999999999999999998766654 466666544
No 25
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.89 E-value=2.1e-22 Score=265.99 Aligned_cols=176 Identities=16% Similarity=0.174 Sum_probs=106.7
Q ss_pred CCCCEEEEeCCCCCCHHHH--hhhhccc-C--eEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccc
Q 000698 1069 KKFDVCIMDEAGQTTLPVS--LGPLMFA-S--KFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQY 1143 (1345)
Q Consensus 1069 ~~FD~VIVDEASQitep~~--L~pL~~a-~--k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QY 1143 (1345)
.+|++|+|||+|+.+..+. +..+... . .+++|||++| +||+|+|++...|.++.+..+ ....|.+||
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQ-------SIY~FRGAD~~~~~~~~~~~~-~~~~L~~Ny 366 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQ-------AIYSFRGADIFTYLQAKSKAD-ARYTLGTNW 366 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCcc-------ccccCCCCCHHHHHHHHHhcC-cEEECCCCC
Confidence 5899999999977776555 3333322 2 7999999999 999999999999988877666 456899999
Q ss_pred cCchhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHH
Q 000698 1144 RMCQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACL 1223 (1345)
Q Consensus 1144 Rm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~l 1223 (1345)
|++++|++++|.+|-...-... ....-..+.............. .....++.++..... .... .-....+|..
T Consensus 367 RS~~~Iv~~~N~lf~~~~~~~~-~~~~~~~v~a~~~~~~~~~~~~-~~~~~~i~~~~~~~~----~~~~-~~~~~~~a~~ 439 (1087)
T TIGR00609 367 RSTPALVGSLNKLFSLISNPFL-EKPIFIPVLAHQKNSKGSFVIN-GQEQPPIHFFTTEVE----SEGV-DDYRQTIAQK 439 (1087)
T ss_pred CCcHHHHHHHHHHHhccccccc-cCCCCCcccchhhcCCCccccC-CCCCCCeEEeecCCc----cccc-chHHHHHHHH
Confidence 9999999999999843211000 0000000000000000000000 011234455433211 0000 0012245566
Q ss_pred HHHHHHHHHHC---------------CCCCCcEEEEecChHHHHHHHHHcC
Q 000698 1224 IAKITQELVKN---------------EIEGKDIGIITPYNSQANLIRHSLS 1259 (1345)
Q Consensus 1224 V~~lv~~Ll~~---------------gv~~~dIGVITPYraQv~lIr~~L~ 1259 (1345)
++..+..++.. ++.++||+|+++.+.|...+++.|.
T Consensus 440 ~a~~I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~ 490 (1087)
T TIGR00609 440 CAREIALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALK 490 (1087)
T ss_pred HHHHHHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHH
Confidence 66666666532 4678999999999999988887763
No 26
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.87 E-value=3.8e-21 Score=247.18 Aligned_cols=169 Identities=25% Similarity=0.257 Sum_probs=123.2
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccc
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHE 1022 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~ 1022 (1345)
..||++|++||..++...++++|+|+|||||||++..++..+...|.+|+++|+|+.|+.+|.+. .++ ..
T Consensus 345 ~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~---tGi-------~a 414 (988)
T PRK13889 345 LVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGG---SGI-------AS 414 (988)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhc---cCc-------ch
Confidence 46999999999999998889999999999999998887777777899999999999999988642 121 10
Q ss_pred hhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhc----ccCeEE
Q 000698 1023 VVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLM----FASKFV 1098 (1345)
Q Consensus 1023 ~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~----~a~k~V 1098 (1345)
..++++. ..+.. ... .....+++|||||||+...++...+. .+.++|
T Consensus 415 -------------~TI~sll---~~~~~-----------~~~--~l~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvV 465 (988)
T PRK13889 415 -------------RTIASLE---HGWGQ-----------GRD--LLTSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVV 465 (988)
T ss_pred -------------hhHHHHH---hhhcc-----------ccc--ccccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEE
Confidence 1111110 00000 000 12367999999999999887754443 367999
Q ss_pred EEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHhhhCCcC
Q 000698 1099 LVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRL 1162 (1345)
Q Consensus 1099 LVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L 1162 (1345)
||||+.|||||-.+ ..|..|.+..+ .+.|++.+|...+.+.-+...+..|+.
T Consensus 466 LVGD~~QLpsV~aG----------~~f~~L~~~~~--~a~LteI~RQ~~~~~r~aa~~i~~G~~ 517 (988)
T PRK13889 466 LVGDPQQLQAIEAG----------AAFRSIHERHG--GAEIGEVRRQREDWQRDATRDLATGRT 517 (988)
T ss_pred EECCHHHcCCCCCC----------chHHHHHHhcC--eEEeceeecCCCHHHHHHHHHHHcCCc
Confidence 99999999999443 45666666555 358999999987766555556666654
No 27
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.87 E-value=7.3e-21 Score=245.35 Aligned_cols=169 Identities=25% Similarity=0.292 Sum_probs=123.5
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccc
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHE 1022 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~ 1022 (1345)
..||++|++||..+.....+++|+|+|||||||++..++..+-..|.+|+.+|+|++|+..|.+.. |+.-
T Consensus 380 ~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L~e~~---Gi~a------- 449 (1102)
T PRK13826 380 ARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLEKEA---GIQS------- 449 (1102)
T ss_pred CCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHHHHhh---CCCe-------
Confidence 479999999999987777899999999999999999999988889999999999999999986532 2211
Q ss_pred hhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhc----ccCeEE
Q 000698 1023 VVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLM----FASKFV 1098 (1345)
Q Consensus 1023 ~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~----~a~k~V 1098 (1345)
.+++++. -.+.. ... ....-+++|||||||+...++...+. .+.++|
T Consensus 450 -------------~TIas~l---l~~~~-----------~~~--~l~~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvV 500 (1102)
T PRK13826 450 -------------RTLSSWE---LRWNQ-----------GRD--QLDNKTVFVLDEAGMVASRQMALFVEAVTRAGAKLV 500 (1102)
T ss_pred -------------eeHHHHH---hhhcc-----------Ccc--CCCCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEE
Confidence 1111110 00000 000 11246899999999999888754443 367999
Q ss_pred EEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHhhhCCcC
Q 000698 1099 LVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRL 1162 (1345)
Q Consensus 1099 LVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L 1162 (1345)
||||++||||+-.+ ..|..+.+..+ ...|++.||...+-+.-+...+..|..
T Consensus 501 LVGD~~QL~~V~aG----------~~f~~l~~~i~--~a~LteI~RQ~~~~~r~Aa~~i~~G~~ 552 (1102)
T PRK13826 501 LVGDPEQLQPIEAG----------AAFRAIADRIG--YAELETIYRQREQWMRDASLDLARGNV 552 (1102)
T ss_pred EECCHHHcCCCCCC----------cHHHHHHhhcC--EEEeeeeeecCChHHHHHHHHHHcCCc
Confidence 99999999999665 35666665444 468999999887755555555666654
No 28
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.87 E-value=1.5e-21 Score=254.49 Aligned_cols=150 Identities=23% Similarity=0.232 Sum_probs=104.7
Q ss_pred CCCCEEEEeCCCCCCHHHH--hhhhcc----------cCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcce
Q 000698 1069 KKFDVCIMDEAGQTTLPVS--LGPLMF----------ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAI 1136 (1345)
Q Consensus 1069 ~~FD~VIVDEASQitep~~--L~pL~~----------a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v 1136 (1345)
.+|++|+|||+|+.+..++ +.+|.. ...+++|||++| ++|+|+|.+..+|.++...++...
T Consensus 327 ~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQ-------SIY~FRGA~~~~f~~~~~~~~~~~ 399 (910)
T PRK13909 327 SKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQ-------SIYRFRGGKKELFDKVSKDFKQKV 399 (910)
T ss_pred cCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchh-------hhhhhcCCChHHHHHHHHHhhhhh
Confidence 4799999999988777665 444421 246999999999 999999999999999988776556
Q ss_pred ecccccccCchhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCC
Q 000698 1137 SALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLN 1216 (1345)
Q Consensus 1137 ~~Lt~QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~ 1216 (1345)
..|++|||++++|++++|.+|-... ...... . .........+.+...+ ..
T Consensus 400 ~~L~~NyRS~~~Iv~~~N~~f~~~~-~~~~~~-----~------------~~~~~~~g~v~i~~~~------------~~ 449 (910)
T PRK13909 400 DNLDTNYRSAPLIVDFVNEVFKKKY-KNYKTQ-----Y------------AEQHKSGGYVEVVEVA------------DE 449 (910)
T ss_pred cccccCCCCChHHHHHHHHHHHHHH-Hhhhhh-----h------------cccccCCCcEEEEECC------------Cc
Confidence 6899999999999999999883310 000000 0 0000011122222110 01
Q ss_pred CHHHHHHHHHHHHHHHHCCCCCCcEEEEecChHHHHHHH
Q 000698 1217 NPVEACLIAKITQELVKNEIEGKDIGIITPYNSQANLIR 1255 (1345)
Q Consensus 1217 N~~EA~lV~~lv~~Ll~~gv~~~dIGVITPYraQv~lIr 1255 (1345)
...+++.|+..+..++..|+..+||+|+++.+.|+..+.
T Consensus 450 ~~~~a~~ia~~I~~l~~~g~~~~dIaILvR~~~~~~~l~ 488 (910)
T PRK13909 450 SEELLEQLLQEIQFLLEKGIDPDDIAILCWTNDDALEIK 488 (910)
T ss_pred cHHHHHHHHHHHHHHHHcCCCcCCEEEEEecCccHHHHH
Confidence 234678889999999999999999999999876654443
No 29
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.86 E-value=1.1e-20 Score=250.43 Aligned_cols=175 Identities=23% Similarity=0.263 Sum_probs=108.5
Q ss_pred CCCCEEEEeCCCCCCHHHHhhhh---ccc-----CeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHh-CCcceecc
Q 000698 1069 KKFDVCIMDEAGQTTLPVSLGPL---MFA-----SKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEE-HPQAISAL 1139 (1345)
Q Consensus 1069 ~~FD~VIVDEASQitep~~L~pL---~~a-----~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~-~p~~v~~L 1139 (1345)
.+|++++|||| |.|.|+.+..+ ... ..+++|||++| +||+|+|+++.+|....+. .......|
T Consensus 377 ~~~~~iLIDEf-QDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ-------SIY~FRgAD~~~f~~a~~~~~~~~~~~L 448 (1139)
T COG1074 377 EQYPHILIDEF-QDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ-------SIYRFRGADIFTFLEAASSEKAFARITL 448 (1139)
T ss_pred hcCCeEEeecc-ccCCHHHHHHHHHHHhcCCCCCCceEEecCchH-------HhhhhcCCChHHHHHHhhccccCceeec
Confidence 58999999999 55555554333 222 47999999999 9999999999999888773 23345689
Q ss_pred cccccCchhHHHHHHHhhhC------CcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCc-ccccccc
Q 000698 1140 QSQYRMCQGIMELSNALIYG------DRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLP-AYEAKDH 1212 (1345)
Q Consensus 1140 t~QYRm~~eI~~lsN~lfY~------g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~-~~e~~~~ 1212 (1345)
.+|||+.+++++..|.+|-. +..... +++..............| +.....+...+... ..+....
T Consensus 449 ~~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~------~~~~~~~~~~e~~~~~~~~~~~ 520 (1139)
T COG1074 449 ETNYRSTPELLNAVNALFKQAMFAYPGEIDYD--PVAELGARNGSPGSVNGE------PLPALKFWEEEDDWTAPENEED 520 (1139)
T ss_pred ccccCCcHHHHHHHHHHHhhhhhhcCCCCCCc--hhhhhhcccCCCCCCCcc------cchhhhhhcCcccccCCCCchh
Confidence 99999999999999999842 111111 111110000000000111 11111112111100 0001011
Q ss_pred CCCCCHHHHHHHHHHHHHHHH--------CCCCCCcEEEEecChHHHHHHHHHcC
Q 000698 1213 QTLNNPVEACLIAKITQELVK--------NEIEGKDIGIITPYNSQANLIRHSLS 1259 (1345)
Q Consensus 1213 ~s~~N~~EA~lV~~lv~~Ll~--------~gv~~~dIGVITPYraQv~lIr~~L~ 1259 (1345)
.......||..|+..+..+.. ..+.++||+|+++.+.++..|++.|.
T Consensus 521 ~~~~~~~~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~ 575 (1139)
T COG1074 521 EREIADLEARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALK 575 (1139)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHH
Confidence 123355678888888888875 45889999999999999988877764
No 30
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.81 E-value=1e-19 Score=197.59 Aligned_cols=173 Identities=29% Similarity=0.306 Sum_probs=113.1
Q ss_pred CCCHHHHHHHHHHHhcC-CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccc
Q 000698 944 SLNDDQRRAIIKVLTAK-DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHE 1022 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~-d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~ 1022 (1345)
.||++|++|+..++.+. .+.+|+|+|||||||++..++..+...|.+|+++|+||.|+++|.+++. ++...+
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~---~~a~Ti---- 73 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTG---IEAQTI---- 73 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHT---S-EEEH----
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhC---cchhhH----
Confidence 48999999999998765 4899999999999999999999999999999999999999999988742 111111
Q ss_pred hhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhcc----cCeEE
Q 000698 1023 VVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLMF----ASKFV 1098 (1345)
Q Consensus 1023 ~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~~----a~k~V 1098 (1345)
+ .+...... ...........++++|||||||++...+...+.. +.++|
T Consensus 74 --~-----------------~~l~~~~~---------~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~~~~kli 125 (196)
T PF13604_consen 74 --H-----------------SFLYRIPN---------GDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLI 125 (196)
T ss_dssp --H-----------------HHTTEECC---------EECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEE
T ss_pred --H-----------------HHHhcCCc---------ccccccccCCcccEEEEecccccCHHHHHHHHHHHHhcCCEEE
Confidence 0 00000000 0000000024678999999999998887544443 56899
Q ss_pred EEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHhhhCCcC
Q 000698 1099 LVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRL 1162 (1345)
Q Consensus 1099 LVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~L 1162 (1345)
+|||++||||+..+ +.|..+.+..+. .+.|++.+|...+-..-+...+.+|..
T Consensus 126 lvGD~~QL~pV~~g----------~~~~~l~~~~~~-~~~L~~i~Rq~~~~~~~~~~~~~~g~~ 178 (196)
T PF13604_consen 126 LVGDPNQLPPVGAG----------SPFADLQESGGI-TVELTEIRRQKDPELREAAKAIREGDA 178 (196)
T ss_dssp EEE-TTSHHHCSTT----------CHHHHHCGCSTT-EEEE---SCCCCTHHHHHHHHHCTT--
T ss_pred EECCcchhcCCcCC----------cHHHHHHhcCCC-eEEeChhhcCCChHHHHHHHHHHcCCC
Confidence 99999999999654 466666665554 678999999885544445455555543
No 31
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.74 E-value=2.6e-17 Score=194.83 Aligned_cols=199 Identities=20% Similarity=0.220 Sum_probs=140.2
Q ss_pred CCCCEEEEeCCCCCCHHHH--hhhhcccCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhC---Ccceecccccc
Q 000698 1069 KKFDVCIMDEAGQTTLPVS--LGPLMFASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEH---PQAISALQSQY 1143 (1345)
Q Consensus 1069 ~~FD~VIVDEASQitep~~--L~pL~~a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~---p~~v~~Lt~QY 1143 (1345)
..+.++||||||+..-.++ +.-+..+..+..|||-.| .++-..+ ..+.++|....+ +...+.|..+|
T Consensus 527 ~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq-------~i~~~~~-e~~~~e~~~~~fed~~~e~v~l~~sy 598 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQ-------VIYDEAQ-ELSPMERMDVFFEDPSFEYVGLIASY 598 (747)
T ss_pred ccccceeechhhhcchhhhHHHhhhhhhccceEeccCCc-------eehhhhc-ccCHHHHHHHHHhCCCchhhhhhhhh
Confidence 5789999999977765554 455556788999999999 6654433 234555554433 33356899999
Q ss_pred cCchhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHH
Q 000698 1144 RMCQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACL 1223 (1345)
Q Consensus 1144 Rm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~l 1223 (1345)
|+..+|++|+|.++-+ .. +..+..+ ....|. .-.+..|..=.+.
T Consensus 599 rSt~eI~efan~~l~d-~~------------------~~~p~~r---sge~p~--------------~i~~~~ne~l~qr 642 (747)
T COG3973 599 RSTAEIDEFANSLLPD-RF------------------RIHPLTR---SGEKPA--------------VIMSVANEELVQR 642 (747)
T ss_pred cChHHHHHHHHHhccC-CC------------------ccchhhc---CCCCce--------------eeeccchHHHHHh
Confidence 9999999999998631 10 0011100 011111 1123346666777
Q ss_pred HHHHHHHHHHCCCCCCcEEEEecChHHHHHHHHHcC---------------CCCcEEEeccCccccccCEEEEEccCCCC
Q 000698 1224 IAKITQELVKNEIEGKDIGIITPYNSQANLIRHSLS---------------VSSVEIHTIDKYQGRDKDCILVSFVRSSE 1288 (1345)
Q Consensus 1224 V~~lv~~Ll~~gv~~~dIGVITPYraQv~lIr~~L~---------------~~~VeV~TVD~fQGrEkdvVIIS~vrsn~ 1288 (1345)
+.+++.+|-+.| .+.||||++...++..+...|+ ..+..|.-|+-.||.|||+||+.-.- +.
T Consensus 643 ~~~ii~~mkk~~--~etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~ 719 (747)
T COG3973 643 NPDIIPRMKKRG--SETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IV 719 (747)
T ss_pred hHHHHHHHHhcC--CCceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hh
Confidence 788888888876 4789999999999998887775 25777899999999999999987553 22
Q ss_pred CCCCcccccccccchhhHhhhhcccceEEEee
Q 000698 1289 NPRNCTSSLLGDWHRINVALTRAKKKLIMVGS 1320 (1345)
Q Consensus 1289 ~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs 1320 (1345)
. .-..|.|.||||+|||-+.|+|+|-
T Consensus 720 e------~te~~~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 720 E------ETEQDLRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred c------ccccchhhHHHHHHHHHHHHHHhhc
Confidence 1 1234688999999999999999874
No 32
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.73 E-value=2.5e-16 Score=211.14 Aligned_cols=172 Identities=17% Similarity=0.211 Sum_probs=118.7
Q ss_pred CCCCHHHHHHHHHHHhcC-CeEEEEccCCCChHHHHHHHHHHHHh----cCCeEEEEeccHHHHHHHHHHHhhcCCcEEE
Q 000698 943 KSLNDDQRRAIIKVLTAK-DYALILGMPGTGKTSTMVHAVKALLM----RGASILLTSYTNSAVDNLLIKLKSQSIDFVR 1017 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~-d~~LI~GpPGTGKTttIa~lI~~Ll~----~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilR 1017 (1345)
..||+.|++|+..++.+. .+++|+|.|||||||++..++..+.. .|.+|+.+|+|++|+..|.+ .|+.
T Consensus 966 ~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e----~Gi~--- 1038 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS----AGVD--- 1038 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh----cCcc---
Confidence 469999999999999864 59999999999999999888777642 36789999999999998764 2321
Q ss_pred EcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhc----c
Q 000698 1018 IGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLM----F 1093 (1345)
Q Consensus 1018 iG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~----~ 1093 (1345)
+..++++ +..... .... ........+++|||||||+....+...+. .
T Consensus 1039 -----------------A~TI~s~------L~~~~~-----~~~~-~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~ 1089 (1747)
T PRK13709 1039 -----------------AQTLASF------LHDTQL-----QQRS-GETPDFSNTLFLLDESSMVGNTDMARAYALIAAG 1089 (1747)
T ss_pred -----------------hhhHHHH------hccccc-----cccc-ccCCCCCCcEEEEEccccccHHHHHHHHHhhhcC
Confidence 0111111 110000 0000 00111246999999999999877644433 2
Q ss_pred cCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHhhhCCc
Q 000698 1094 ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDR 1161 (1345)
Q Consensus 1094 a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~ 1161 (1345)
+.++|||||.+|||||-.+ ..|..|.+.....+..|+..+|..++ +.-+-..+..|+
T Consensus 1090 garvVLVGD~~QL~sV~aG----------~~f~~l~~~~~i~~~~L~eI~RQ~~~-lr~Av~~~~~g~ 1146 (1747)
T PRK13709 1090 GGRAVSSGDTDQLQAIAPG----------QPFRLMQTRSAADVAIMKEIVRQTPE-LREAVYSLINRD 1146 (1747)
T ss_pred CCEEEEecchHhcCCCCCC----------hHHHHHHHhCCCCeEEeCeEEcCcHH-HHHHHHHHHccC
Confidence 5799999999999999544 57777877554556789999999984 444444455543
No 33
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=99.72 E-value=1e-16 Score=214.43 Aligned_cols=84 Identities=18% Similarity=0.199 Sum_probs=69.0
Q ss_pred CCCCEEEEeCCCCCCHHHH--hhhhcc------------cCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCc
Q 000698 1069 KKFDVCIMDEAGQTTLPVS--LGPLMF------------ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQ 1134 (1345)
Q Consensus 1069 ~~FD~VIVDEASQitep~~--L~pL~~------------a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~ 1134 (1345)
.+|++|+|||+|+.+..++ +.+|.. ...+++|||++| +||+|+|++..+|.++.+.++.
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ-------SIY~FRGAd~~~f~~~~~~~~~ 462 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ-------SIYSFQGADPDRFAEERREFNR 462 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc-------cCccccCCCHHHHHHHHHHHHH
Confidence 5899999999988777665 444432 257999999999 9999999999999987654421
Q ss_pred ---------ceecccccccCchhHHHHHHHhhhC
Q 000698 1135 ---------AISALQSQYRMCQGIMELSNALIYG 1159 (1345)
Q Consensus 1135 ---------~v~~Lt~QYRm~~eI~~lsN~lfY~ 1159 (1345)
....|.+|||+.++|++++|.+|-.
T Consensus 463 ~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~ 496 (1141)
T TIGR02784 463 KVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFAD 496 (1141)
T ss_pred hhhhccCCceEeeCCcCCCChHHHHHHHHHHHhC
Confidence 2458999999999999999999854
No 34
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.71 E-value=6.4e-16 Score=204.67 Aligned_cols=168 Identities=19% Similarity=0.239 Sum_probs=116.9
Q ss_pred CCCCHHHHHHHHHHHhc-CCeEEEEccCCCChHHHHHHHHHHHH----hcCCeEEEEeccHHHHHHHHHHHhhcCCcEEE
Q 000698 943 KSLNDDQRRAIIKVLTA-KDYALILGMPGTGKTSTMVHAVKALL----MRGASILLTSYTNSAVDNLLIKLKSQSIDFVR 1017 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~-~d~~LI~GpPGTGKTttIa~lI~~Ll----~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilR 1017 (1345)
..||+.|++|+..++.+ +.+++|+|.|||||||++..++..+. ..|.+|+.+|||++|+..|.+ .++.
T Consensus 834 ~~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e----~Gi~--- 906 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRS----AGVD--- 906 (1623)
T ss_pred cccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHH----hCch---
Confidence 47999999999999975 45999999999999999877666543 247789999999999999864 1321
Q ss_pred EcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhh---hhc-c
Q 000698 1018 IGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLG---PLM-F 1093 (1345)
Q Consensus 1018 iG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~---pL~-~ 1093 (1345)
+..++++ +....... ..-..+ ....+++|||||||+...++.. .+. .
T Consensus 907 -----------------A~TIasf------L~~~~~~~---~~~~~~---~~~~~llIVDEASMV~~~~m~~ll~~~~~~ 957 (1623)
T PRK14712 907 -----------------AQTLASF------LHDTQLQQ---RSGETP---DFSNTLFLLDESSMVGNTDMARAYALIAAG 957 (1623)
T ss_pred -----------------HhhHHHH------hccccchh---hcccCC---CCCCcEEEEEccccccHHHHHHHHHhhhhC
Confidence 0111111 11000000 000011 1246999999999999877633 222 2
Q ss_pred cCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHh
Q 000698 1094 ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNAL 1156 (1345)
Q Consensus 1094 a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~l 1156 (1345)
+.++|||||++|||||-.+ ..|+.+.+.....+..|+..+|..+++...+..+
T Consensus 958 garvVLVGD~~QL~sV~aG----------~~F~~lq~~~~~~ta~L~eI~RQ~~elr~AV~~~ 1010 (1623)
T PRK14712 958 GGRAVASGDTDQLQAIAPG----------QPFRLQQTRSAADVVIMKEIVRQTPELREAVYSL 1010 (1623)
T ss_pred CCEEEEEcchhhcCCCCCC----------HHHHHHHHcCCCCeEEeCeeecCCHHHHHHHHHH
Confidence 5799999999999999554 5788887764445668999999988766666554
No 35
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.69 E-value=2.4e-16 Score=209.51 Aligned_cols=178 Identities=17% Similarity=0.181 Sum_probs=105.9
Q ss_pred CCCCCEEEEeCCCCCCHHHH--hhhhcc---cCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceeccccc
Q 000698 1068 DKKFDVCIMDEAGQTTLPVS--LGPLMF---ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQ 1142 (1345)
Q Consensus 1068 ~~~FD~VIVDEASQitep~~--L~pL~~---a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~Q 1142 (1345)
+.+|++|+|||+|+.+..+. +..+.. ...+++|||++| ++|+|+|++...|-...... .....|.+|
T Consensus 375 ~~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQ-------sIY~FRGAd~~~~l~~~~~~-~~~~~L~~N 446 (1181)
T PRK10876 375 RTRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQ-------AIYAFRGADIFTYMKARSEV-SAHYTLDTN 446 (1181)
T ss_pred HhCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCcc-------ccccCCCCCchHHHHHHhcc-CCeeECCCC
Confidence 36899999999977776655 344432 246999999999 99999999987665544333 235689999
Q ss_pred ccCchhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHH
Q 000698 1143 YRMCQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEAC 1222 (1345)
Q Consensus 1143 YRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~ 1222 (1345)
||++++|++++|.+|-...-.-....+.-..+.-........+... ..+..++.++-..+ .. .........||+
T Consensus 447 yRS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~-~~~~~~~~l~~~~~-~~----~~~~~~~~~eA~ 520 (1181)
T PRK10876 447 WRSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVK-GETQPAMKFWLMEG-EG----VGVGDYQQTMAQ 520 (1181)
T ss_pred cCcCHHHHHHHHHHHhcccccccCCCCCcccccccccccccccccc-CCCCCceeeeecCC-Cc----cCcchHHHHHHH
Confidence 9999999999999985432100000000000000000000000000 01112222221111 00 000112345788
Q ss_pred HHHHHHHHHHHCC---------------CCCCcEEEEecChHHHHHHHHHcC
Q 000698 1223 LIAKITQELVKNE---------------IEGKDIGIITPYNSQANLIRHSLS 1259 (1345)
Q Consensus 1223 lV~~lv~~Ll~~g---------------v~~~dIGVITPYraQv~lIr~~L~ 1259 (1345)
.|+..|..++..| +.++||||+++.+.|...+++.|.
T Consensus 521 ~iA~~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~ 572 (1181)
T PRK10876 521 QCAAQIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALT 572 (1181)
T ss_pred HHHHHHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHH
Confidence 8888888887543 678999999999999998887764
No 36
>TIGR00372 cas4 CRISPR-associated protein Cas4. This model represents a family of proteins associated with CRISPR repeats in a wide set of prokaryotic genomes. This scope of this model has been broadened since it was first built to describe an archaeal subset only. The function of the protein is undefined. Distantly related proteins, excluded from this model, include ORFs from Mycobacteriophage D29 and Sulfolobus islandicus filamentous virus and a region of the Schizosaccharomyces pombe DNA replication helicase Dna2p.
Probab=99.65 E-value=1.7e-15 Score=161.52 Aligned_cols=173 Identities=21% Similarity=0.281 Sum_probs=136.2
Q ss_pred ccccccccccccCChHHHHHHhccccccc-chhhhhHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHhcCCCHHH
Q 000698 453 VSGTRVAASFSCPRRSVLDERLKCSERSI-SALLGTLLHQIFQAGLMKEIPTMKFLEEYARLVLQKNIESLYACGVNEND 531 (1345)
Q Consensus 453 IS~T~Va~s~~C~RRaVL~erfk~~~~s~-~ml~GtIvHelfQ~al~~~~~~~~~L~~~~~~~l~~~l~~Ly~~~~~~~~ 531 (1345)
|++|.|...++|+||+.|.........++ .|..|+.+||..++.+.. .. .
T Consensus 1 i~~s~i~~~~~CpR~~~~~~~~~~~~~~~~~~~~G~~~h~~~~~~~~~-~~---------------------~------- 51 (178)
T TIGR00372 1 ITVSDVLEYLYCPRKLWYMKKGGSERFSEVRMILGRLIHERAESFLKS-LG---------------------G------- 51 (178)
T ss_pred CChHHhHHHHhChHHHHHHHhhcccccchhHHHHHHHHHHHhhhhhhc-cC---------------------C-------
Confidence 57899999999999999998888776554 499999999998844320 00 0
Q ss_pred HHHHHHHHHHHHHHHHHHhcccCCCCCCccccCCCCccccccchhhhhhhhcccccCCceeeeceEEEEeeecccccCCC
Q 000698 532 IHKTLVEAIPKMLNWIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEMAWAPKYGLKGMIDASIRVKIESKRNEING 611 (1345)
Q Consensus 532 ~~~~l~~~~p~i~~w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEnIwSp~~GLKGkID~tv~~~i~~~~~~~~~ 611 (1345)
. ...-|-.++|++|||.|+||++... .+
T Consensus 52 -------------------~------------------------~~~~~v~l~~~~~~l~G~iD~i~~~---------~~ 79 (178)
T TIGR00372 52 -------------------V------------------------REEKEVPLKSKKLGLKGVIDVVLEA---------DG 79 (178)
T ss_pred -------------------E------------------------EEEEeeEeEcccCCcEEEEEEEEEE---------CC
Confidence 0 0012335799999999999998754 34
Q ss_pred eEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEeccCceeeeeCChhHHHHHHHHHHHHHHHHHhc
Q 000698 612 MILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQSDQTQGVMVQRSDLVGLIMRRNEFANDIIKA 691 (1345)
Q Consensus 612 ~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~~~~~~V~~~~~elr~li~~RN~la~~i~~~ 691 (1345)
.++|+|+|||+... +.+|+.|+++|++|++++++ ++..|+|+|...+...+|+++...++.+....+++...+..
T Consensus 80 ~~~ive~Ktg~~~~---~~~~~~Ql~~Ya~~l~~~~~-~v~~g~l~y~~~~~~~~v~~~~~~~~~~~~~~~~i~~~~~~- 154 (178)
T TIGR00372 80 ELVPVEVKSGKPKL---REAHKYQLLAYAYLLEEMYG-EIVRGYILYIEAGKKLEVEISEELRKKAEKLIEKIRELLEG- 154 (178)
T ss_pred eEEEEEEecCCCCC---ChhHHHHHHHHHHHHHHhhC-CCCcEEEEEEeCCcEEEecCCHHHHHHHHHHHHHHHHHHhC-
Confidence 68999999999764 48999999999999999998 88899999999999889999988888888888888877754
Q ss_pred cCCCCCCCcccccCCCccCCCcc
Q 000698 692 STTQQLPPMLRAYGGNKECSGLG 714 (1345)
Q Consensus 692 s~~~~LPp~~~~~~g~~~cs~l~ 714 (1345)
..+|+.......|..|+...
T Consensus 155 ---~~~P~~~~~~~~C~~C~y~~ 174 (178)
T TIGR00372 155 ---GKPPSPPKSSRKCKFCPYRE 174 (178)
T ss_pred ---CCCCCCCCCCCcCCCCCCcc
Confidence 34664444456788887643
No 37
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=99.63 E-value=4.4e-16 Score=172.28 Aligned_cols=49 Identities=27% Similarity=0.454 Sum_probs=39.8
Q ss_pred EEEeccCccccccCEEEEEccCCCCCCCCcccccc-cccchhhHhhhhcccceEEE
Q 000698 1264 EIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLL-GDWHRINVALTRAKKKLIMV 1318 (1345)
Q Consensus 1264 eV~TVD~fQGrEkdvVIIS~vrsn~~~~~~~~~fL-~d~rRLNVAlTRAK~kLIIV 1318 (1345)
.+.|+|.+||.|+|.|++........ ... .+++++|||+||||+.|+|+
T Consensus 184 ~~~T~~e~qG~tf~~V~l~~~~~~~~------~~~~~~~~~~~VALTR~~~~l~i~ 233 (234)
T PF01443_consen 184 RVFTVHESQGLTFDNVTLVLLSDTDN------ELYSESRNHLYVALTRHTKSLVIL 233 (234)
T ss_pred ceechHHcceEEeCCEEEEECCCccc------ccccCCcccEEEEccccccEEEEE
Confidence 59999999999999998876654321 222 36899999999999999986
No 38
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=99.62 E-value=7e-15 Score=202.43 Aligned_cols=172 Identities=17% Similarity=0.180 Sum_probs=113.2
Q ss_pred CCCCCHHHHHHHHHHHhcC-CeEEEEccCCCChHHHHHHHHHH----HHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEE
Q 000698 942 EKSLNDDQRRAIIKVLTAK-DYALILGMPGTGKTSTMVHAVKA----LLMRGASILLTSYTNSAVDNLLIKLKSQSIDFV 1016 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~-d~~LI~GpPGTGKTttIa~lI~~----Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~il 1016 (1345)
...||++|++|+..++.+. .+++|+|+|||||||++..+++. +-..|.+|+.+|+||+|+.+|.+ .|++-
T Consensus 1017 ~~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~----~g~~a- 1091 (1960)
T TIGR02760 1017 LERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKS----AGVQA- 1091 (1960)
T ss_pred cCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHh----cCCch-
Confidence 3579999999999998754 58899999999999999554433 33468899999999999999863 23210
Q ss_pred EEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhc----
Q 000698 1017 RIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLM---- 1092 (1345)
Q Consensus 1017 RiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~---- 1092 (1345)
..+++ .+.+... ..... .....+++|||||||+...++...+.
T Consensus 1092 -------------------~Ti~s------~l~~~~~------~~~~~--~~~~~~v~ivDEasMv~~~~~~~l~~~~~~ 1138 (1960)
T TIGR02760 1092 -------------------QTLDS------FLTDISL------YRNSG--GDFRNTLFILDESSMVSNFQLTHATELVQK 1138 (1960)
T ss_pred -------------------HhHHH------HhcCccc------ccccC--CCCcccEEEEEccccccHHHHHHHHHhccC
Confidence 01111 1110000 00000 02356899999999999887754443
Q ss_pred ccCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCc-hhHHHHHHHhhhCCc
Q 000698 1093 FASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMC-QGIMELSNALIYGDR 1161 (1345)
Q Consensus 1093 ~a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~-~eI~~lsN~lfY~g~ 1161 (1345)
.+.++|||||++||||+-.+ ..|+-+........+.|+..+|.. ...+.-+...+-.|.
T Consensus 1139 ~~ak~vlvGD~~QL~sV~aG----------~~f~~~~~~~~~~~~~L~~I~RQ~~~~~l~~a~~~~~~~~ 1198 (1960)
T TIGR02760 1139 SGSRAVSLGDIAQLQSLAAG----------KPFELAITFDIIDTAIMKEIVRQNNSAELKAAHNSLDKRS 1198 (1960)
T ss_pred CCCEEEEeCChhhcCCCCCC----------cCHHHHHhcCCCCeEEeeeEecCCCCHHHHHHHHHHhcCc
Confidence 35899999999999998433 345555544333456899999984 333444444343443
No 39
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=99.61 E-value=2.4e-15 Score=172.62 Aligned_cols=63 Identities=32% Similarity=0.535 Sum_probs=55.0
Q ss_pred CCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC----CeEEEEeccHHHHHHHHHHHhh
Q 000698 945 LNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG----ASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 945 LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g----kkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
||++|+++|.. ..+.++|.|+||||||+|+++++..|+..+ .+||++|||+.|+++|.+||..
T Consensus 1 l~~eQ~~~i~~---~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~ 67 (315)
T PF00580_consen 1 LTDEQRRIIRS---TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRE 67 (315)
T ss_dssp S-HHHHHHHHS----SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC---CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHH
Confidence 79999999965 458999999999999999999999998865 6899999999999999999875
No 40
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.56 E-value=3.5e-14 Score=165.08 Aligned_cols=363 Identities=18% Similarity=0.145 Sum_probs=197.1
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEeccHHHHHHHHHHHhhcC--------
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR--GASILLTSYTNSAVDNLLIKLKSQS-------- 1012 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA~TnsAVDnLl~kL~~~~-------- 1012 (1345)
.+|+..|++|.-.. ..+...|+|.+|||||.++++.++.|... ..+|++|.+|......+...+.+.-
T Consensus 161 anfD~~Q~kaa~~~--~~G~qrIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f~~~e~~p 238 (660)
T COG3972 161 ANFDTDQTKAAFQS--GFGKQRIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFFFMRVEKQP 238 (660)
T ss_pred hcccchhheeeeec--CCchhhhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHHHHHhhcCC
Confidence 57888999886433 23567999999999999999999999875 5799999999999999887776531
Q ss_pred ---CcEEEEcc----cchhhHHHHHhh------hcccccccHH-HHHHhhccccEEEEEecccccccccCCCCCEEEEeC
Q 000698 1013 ---IDFVRIGR----HEVVHKEIQKHC------LSAMNINSVE-EIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDE 1078 (1345)
Q Consensus 1013 ---l~ilRiG~----~~~v~~~v~~~~------l~~~~~~s~~-~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDE 1078 (1345)
-..++-+. .....-.....| ++..... +. ..++.+... -....||||+|||
T Consensus 239 dW~~~l~~h~wgG~t~~g~y~~~~~~~~~~~~~fsg~g~~-F~~aC~eli~~~--------------~~~~~yD~ilIDE 303 (660)
T COG3972 239 DWGTKLFCHNWGGLTKEGFYGMYRYICHYYEIPFSGFGNG-FDAACKELIADI--------------NNKKAYDYILIDE 303 (660)
T ss_pred CccceEEEeccCCCCCCcchHHHHHHhcccccccCCCCcc-hHHHHHHHHHhh--------------hccccccEEEecc
Confidence 11222211 011111111111 0100000 11 112222211 1246799999999
Q ss_pred CCCCCHHHH-h--hhhcccCeEEEEcCCCCCCccccc-hHHHhcCCcchH--HHHHHHhCCcceecccccccCchhHHHH
Q 000698 1079 AGQTTLPVS-L--GPLMFASKFVLVGDHYQLPPLVQS-TEARENGMEISL--FRRLSEEHPQAISALQSQYRMCQGIMEL 1152 (1345)
Q Consensus 1079 ASQitep~~-L--~pL~~a~k~VLVGDh~QLPPvV~s-~~a~~~Gl~~SL--FerL~~~~p~~v~~Lt~QYRm~~eI~~l 1152 (1345)
+|+....-. | ....-.+++|.+||.-|=-.-+.- +-+.-.|-+..- --.|.+. +..-..|...||..+...-+
T Consensus 304 ~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~dg~P~V~l~ra-dr~DiVL~kCYRnsp~nLva 382 (660)
T COG3972 304 SQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSDGEPRVNLARA-DRNDIVLKKCYRNSPKNLVA 382 (660)
T ss_pred cccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCCCCcccccccC-ccccchHHHHhcCCchhhhH
Confidence 977654322 2 222335889999999991000000 000001110000 0001011 11124699999999998888
Q ss_pred HHHhh---hCCcCCCCchhhhhhhcccc---CCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHH
Q 000698 1153 SNALI---YGDRLSCGSDEIANAKIKVS---DLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAK 1226 (1345)
Q Consensus 1153 sN~lf---Y~g~L~~~~~~va~~~l~~~---~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~ 1226 (1345)
|..+- |.|...--..+..-..+.+. +.-....-+.-.-+|.....|++....+..-..-...-.-+.|+.+|..
T Consensus 383 AHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~p~~i~~fi~fd~~~deivwi~~ 462 (660)
T COG3972 383 AHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHKPTAIHLFIGFDNGPDEIVWIII 462 (660)
T ss_pred HhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCChhhhheeeccCCcchhhHHHHH
Confidence 87763 32211100000000000000 0000000000011222333333333221110000111123567777777
Q ss_pred HHHHHHHCCCCCCcEEEEecCh----HHHHHHHHHcC---------------------CCCcEEEeccCccccccCEEEE
Q 000698 1227 ITQELVKNEIEGKDIGIITPYN----SQANLIRHSLS---------------------VSSVEIHTIDKYQGRDKDCILV 1281 (1345)
Q Consensus 1227 lv~~Ll~~gv~~~dIGVITPYr----aQv~lIr~~L~---------------------~~~VeV~TVD~fQGrEkdvVII 1281 (1345)
-+..+.+.++.++||.||.+-. .-...+.+.|. ...|.+.+|-+.||.|+.+|+.
T Consensus 463 qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dgkvtis~IyrAKGnEapfV~a 542 (660)
T COG3972 463 QIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDGKVTISRIYRAKGNEAPFVYA 542 (660)
T ss_pred HHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCceEEeeeehhccCCCCcEEEE
Confidence 7777888899999999998642 22333333331 1478899999999999999999
Q ss_pred EccCCCCCCCCcccccccccchhhHhhhhcccceEEEeecchhccChhHHHHHH
Q 000698 1282 SFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSCRTLSKVPLLKLLIN 1335 (1345)
Q Consensus 1282 S~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~~~~~~~~li~ 1335 (1345)
-.+..-. -++-+.++-+++||||.|..+-|+|- .|-..+++.
T Consensus 543 L~a~~ls------~~la~~RN~LfTamTRSkawvrv~gl------gpqmqrLi~ 584 (660)
T COG3972 543 LGAAYLS------TGLADWRNILFTAMTRSKAWVRVVGL------GPQMQRLIT 584 (660)
T ss_pred ehhhhhC------ccchhHHhHHHHHHhhhhhhhhhhcc------ChHHHHHHH
Confidence 8776643 24445556899999999999999993 444555544
No 41
>PF01930 Cas_Cas4: Domain of unknown function DUF83; InterPro: IPR022765 This entry represents an uncharacterised domain found in several proteins, including DNA replication helicase Dna2, clustered regularly interspaced short palindromic repeats (CRISPR)-associated exonuclease Cas4 and putative RecB family exonuclease proteins.
Probab=99.56 E-value=3e-14 Score=150.11 Aligned_cols=107 Identities=24% Similarity=0.366 Sum_probs=92.2
Q ss_pred eeeeceEEEEeeecccccCCCeEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEeccCceeeeeCC
Q 000698 591 KGMIDASIRVKIESKRNEINGMILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQSDQTQGVMVQ 670 (1345)
Q Consensus 591 KGkID~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~~~~~~V~~~ 670 (1345)
.|+||+++.. ++.++|+|+|+|+.. ..+|++|+++|++||+ ++|.++..|+|+|...++...|+++
T Consensus 54 ~G~iD~v~~~---------~~~~~~~E~K~~~~~----~~~~~~Ql~~Y~~lL~-~~g~~v~~G~i~y~~~~~~~~v~~~ 119 (162)
T PF01930_consen 54 SGKIDIVEKG---------GGEIIPVEIKSGRKP----REEHRMQLAAYALLLE-EFGIPVKRGYIYYIEDRKRVRVEIT 119 (162)
T ss_pred cEEEEEEEEe---------CCEEEEEEEecCCCC----cchhHHHHHHHHHHHH-hcCccceeEEEEEecCCeEEEEeCC
Confidence 9999998733 568899999999975 5789999999999999 9999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCCCCcccccCCCccCCCcccc
Q 000698 671 RSDLVGLIMRRNEFANDIIKASTTQQLPPMLRAYGGNKECSGLGNM 716 (1345)
Q Consensus 671 ~~elr~li~~RN~la~~i~~~s~~~~LPp~~~~~~g~~~cs~l~~~ 716 (1345)
..+.+.+..+.+++...+.. ..||.......|..|+...-+
T Consensus 120 ~~~~~~v~~~i~~i~~~~~~-----~~~P~~~~~~~C~~C~y~~~C 160 (162)
T PF01930_consen 120 EELRRKVEKLIEEIRKILEG-----ESPPPPENSKKCRRCSYREFC 160 (162)
T ss_pred HHHHHHHHHHHHHHHHHHhC-----CCcCCCCCCCCCCCCCCcCcC
Confidence 99999999999999887754 356655666689999876544
No 42
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=99.53 E-value=1.2e-13 Score=163.36 Aligned_cols=165 Identities=18% Similarity=0.190 Sum_probs=111.4
Q ss_pred CeEEEEccCCCChHHHHHHHHHHH--HhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhhhccccc
Q 000698 961 DYALILGMPGTGKTSTMVHAVKAL--LMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAMNI 1038 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~L--l~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~~~ 1038 (1345)
..++|.|.||||||.++..+++.| ...+.+++++++++..++.+...+...... ... .
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~-------~~~-------------~ 61 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNP-------KLK-------------K 61 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhccc-------chh-------------h
Confidence 478999999999999999999999 778999999999999999998887543200 000 0
Q ss_pred ccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCH-----------HHHhhhhcccCeEEEEcCCCCCC
Q 000698 1039 NSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTL-----------PVSLGPLMFASKFVLVGDHYQLP 1107 (1345)
Q Consensus 1039 ~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQite-----------p~~L~pL~~a~k~VLVGDh~QLP 1107 (1345)
..+......+.... ........||+||||||+.+.. .+....+..++.+|++-|+.|
T Consensus 62 ~~~~~~~~~i~~~~----------~~~~~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q-- 129 (352)
T PF09848_consen 62 SDFRKPTSFINNYS----------ESDKEKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQ-- 129 (352)
T ss_pred hhhhhhHHHHhhcc----------cccccCCcCCEEEEehhHhhhhccccccccccHHHHHHHHhcCCEEEEEEcccc--
Confidence 00111111111111 1112245899999999998877 233344455678999999999
Q ss_pred ccccchHHHhcCCcchHHHHHHHhCCcce---ecccccccC--chhHHHHHHHhhhCCcC
Q 000698 1108 PLVQSTEARENGMEISLFRRLSEEHPQAI---SALQSQYRM--CQGIMELSNALIYGDRL 1162 (1345)
Q Consensus 1108 PvV~s~~a~~~Gl~~SLFerL~~~~p~~v---~~Lt~QYRm--~~eI~~lsN~lfY~g~L 1162 (1345)
.+....-.....++.+....+... ..|+.|||| ++++.+|.+.+++....
T Consensus 130 -----~i~~~e~~~~~~l~~~~~~~~~~~~~~~~L~~q~R~~~~~~~~~wI~~ll~~~~~ 184 (352)
T PF09848_consen 130 -----SIRPSEIGTLENLEEIAENLGIEVRHFFELKTQFRCHGSKEYIDWIDNLLDNKNI 184 (352)
T ss_pred -----EeecccCCCHHHHHHHHHhcCCccccCcCcCcceecCCCHHHHHHHHHHHhcccc
Confidence 322222123445667666554432 389999999 99999999999875443
No 43
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.51 E-value=7.5e-14 Score=178.78 Aligned_cols=134 Identities=23% Similarity=0.283 Sum_probs=96.2
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccc
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHE 1022 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~ 1022 (1345)
..+++.|++|+..++. +...+|.|+||||||+++...++.+..-+..+++.+.|..|+..+.+.- |..
T Consensus 318 ~~~~~~q~~a~~vl~~-de~smlt~~~~~~~~~~~~~~~~l~~~~~~~~l~aa~tG~a~~~l~e~t----------g~~- 385 (696)
T COG0507 318 LRLSLEQKEALDVLVV-DEVSMLTGGPGTGKTTAIKAIARLIKEGDGDQLLAAPTGKAAKRLNEST----------GLE- 385 (696)
T ss_pred CCcCcccHHHHHHHhc-CCeeEEeccCCcchHHHHHHHHHHHHhcCCcEEeechhhHHHHHHHHhh----------Ccc-
Confidence 4678999999988877 5799999999999999999998888777777999999999998887642 000
Q ss_pred hhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHh---hhhcccCeEEE
Q 000698 1023 VVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSL---GPLMFASKFVL 1099 (1345)
Q Consensus 1023 ~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L---~pL~~a~k~VL 1099 (1345)
+..+++...+ ..... ........|.+||||++++..-... ..+....++|+
T Consensus 386 ------------a~ti~~~~~~---~~~~~-----------~~~~~~~~d~~iiDe~~ml~~~~~~~l~~~i~~~a~~i~ 439 (696)
T COG0507 386 ------------ARTIHRLLGL---WEKTG-----------NNEEPLDGDLLIIDEASMLDTSLAFGLLSAIGKLAKVIL 439 (696)
T ss_pred ------------hhHHHHHHhc---cccCC-----------CCCCccccceeEEehhhhHHHHHhhhhhcccccCCeEEE
Confidence 0111111111 00000 1112247899999999999883332 34455789999
Q ss_pred EcCCCCCCccccchH
Q 000698 1100 VGDHYQLPPLVQSTE 1114 (1345)
Q Consensus 1100 VGDh~QLPPvV~s~~ 1114 (1345)
|||..|||++..+..
T Consensus 440 vGD~~ql~~v~~g~~ 454 (696)
T COG0507 440 VGDVDQLPSVGAGAV 454 (696)
T ss_pred eCCHHhcCCCCCCch
Confidence 999999999987753
No 44
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=99.32 E-value=2.6e-12 Score=152.55 Aligned_cols=139 Identities=28% Similarity=0.349 Sum_probs=90.6
Q ss_pred CCCHHHHHHHHHHHhc-----CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHH-HHHHhhcCCcEEE
Q 000698 944 SLNDDQRRAIIKVLTA-----KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNL-LIKLKSQSIDFVR 1017 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~-----~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnL-l~kL~~~~l~ilR 1017 (1345)
.||++|+++++.++.+ ...+.|.|++|||||+++..++..+...++.|+++|+|..|+-+| -.+-.- .+..
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i~~G~T~h---s~f~ 77 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNIPGGRTIH---SFFG 77 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhccCCcchH---HhcC
Confidence 4899999998888432 347899999999999999999999988899999999999999998 311000 0000
Q ss_pred EcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccc-cccCCCCCEEEEeCCCCCCHHHH------hhh
Q 000698 1018 IGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNP-LLTDKKFDVCIMDEAGQTTLPVS------LGP 1090 (1345)
Q Consensus 1018 iG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~-ll~~~~FD~VIVDEASQitep~~------L~p 1090 (1345)
++- ........ . ...... .-.-...+++||||+|++..-.+ |.-
T Consensus 78 i~~-------------~~~~~~~~-~---------------~~~~~~~~~~l~~~~~lIiDEism~~~~~l~~i~~~lr~ 128 (364)
T PF05970_consen 78 IPI-------------NNNEKSQC-K---------------ISKNSRLRERLRKADVLIIDEISMVSADMLDAIDRRLRD 128 (364)
T ss_pred ccc-------------cccccccc-c---------------ccccchhhhhhhhheeeecccccchhHHHHHHHHHhhhh
Confidence 000 00000000 0 000000 00124679999999999975433 111
Q ss_pred h--------cc-cCeEEEEcCCCCCCccccchH
Q 000698 1091 L--------MF-ASKFVLVGDHYQLPPLVQSTE 1114 (1345)
Q Consensus 1091 L--------~~-a~k~VLVGDh~QLPPvV~s~~ 1114 (1345)
+ .+ +..+||+||..||||++....
T Consensus 129 i~~~~~~~~pFGG~~vil~GDf~QlpPV~~~~~ 161 (364)
T PF05970_consen 129 IRKSKDSDKPFGGKQVILFGDFLQLPPVVPRGE 161 (364)
T ss_pred hhcccchhhhcCcceEEeehhhhhcCCCccccc
Confidence 1 12 356999999999999996654
No 45
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=99.25 E-value=1.6e-11 Score=142.49 Aligned_cols=61 Identities=28% Similarity=0.305 Sum_probs=47.3
Q ss_pred CCcEEEeccCccccccCEEEEEccCCCCCCCC----cccccccccchhhHhhhhcccceEEEeec
Q 000698 1261 SSVEIHTIDKYQGRDKDCILVSFVRSSENPRN----CTSSLLGDWHRINVALTRAKKKLIMVGSC 1321 (1345)
Q Consensus 1261 ~~VeV~TVD~fQGrEkdvVIIS~vrsn~~~~~----~~~~fL~d~rRLNVAlTRAK~kLIIVGs~ 1321 (1345)
.+|.|+|+|++||+|||+|||..+....-|.. ....+.+++|.+|||+||||++|+|++..
T Consensus 286 ~~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 286 DGVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp GSEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred cCcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 47889999999999999999999876643321 11245567889999999999999999864
No 46
>TIGR01896 cas_AF1879 CRISPR-associated protein, Csa1 family. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model describes a particularly strongly conserved family found so only in the APERN subtype of CRISPR/Cas loci and represented by AF1879 from Archaeoglobus fulgidus. This family has four perfectly preserved Cys residues. This subfamily is found in a CRISPR/Cas locus we designate APERN, so the family is designated Csa1, for CRISPR/Cas Subtype Protein 1.
Probab=99.25 E-value=2.6e-10 Score=128.05 Aligned_cols=221 Identities=19% Similarity=0.144 Sum_probs=131.0
Q ss_pred cccccccccccccCChHHHHHHhccc--ccccchhhhhHHHHHHHHHHhccC---CCHHHHHHHHHHHHHHhHHHHHhcC
Q 000698 452 LVSGTRVAASFSCPRRSVLDERLKCS--ERSISALLGTLLHQIFQAGLMKEI---PTMKFLEEYARLVLQKNIESLYACG 526 (1345)
Q Consensus 452 LIS~T~Va~s~~C~RRaVL~erfk~~--~~s~~ml~GtIvHelfQ~al~~~~---~~~~~L~~~~~~~l~~~l~~Ly~~~ 526 (1345)
-+|..-|+++.==.+|-|--.|..+. +.+.+|..|.++||+|-+++..-. .+..-+... ++.+.
T Consensus 34 ~l~v~dva~~yCpt~RdvyLrrv~~~r~~~~~~~~~G~~iH~~~~~~~~~~~~~i~~g~~~~~~--------~~~~~--- 102 (271)
T TIGR01896 34 GLSLSDVAYGYCPTGRDVYLKRVLGIRGEVRGLLVLGQAIHEAFLKALEEVRKLIYSGYDMFSV--------LLRSF--- 102 (271)
T ss_pred CCCHHHHccCCCCCcchhhhhhhhccccCcchhhHhhHHHHHHHHHHHHHHHHHHhcCcchHHH--------HHHHH---
Confidence 35666677665445666666666653 557789999999999999985210 000000000 11110
Q ss_pred CCHHHHHHHHHHHHHHHH-HHHHHhcccCCCCCCccccCCCCccccccchhhhhhhhcccccCCcee--eeceEEEEeee
Q 000698 527 VNENDIHKTLVEAIPKML-NWIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEMAWAPKYGLKG--MIDASIRVKIE 603 (1345)
Q Consensus 527 ~~~~~~~~~l~~~~p~i~-~w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEnIwSp~~GLKG--kID~tv~~~i~ 603 (1345)
...+..-+++-+|...+. .++..-..+.+.. +.++..... ==+-+|-.+=-.-+||.. .+|+.+
T Consensus 103 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~------~~~s~~~~~--~P~~~E~~vDGs~lGLs~~l~~Da~~----- 169 (271)
T TIGR01896 103 RAREFCAKELWKYGVEIYSAVMAYVFEKASFF------SADSLVFLV--IPVAVEYNVDGSPLGLSDRLRVDALV----- 169 (271)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc------ccchhhhhc--cceEEEeccCCccccCccccccchhh-----
Confidence 011111122222322222 1111111111000 000000000 001234444446688877 567632
Q ss_pred cccccCCCeEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEeccCc-----eeeeeCChhHHHHHH
Q 000698 604 SKRNEINGMILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQSDQ-----TQGVMVQRSDLVGLI 678 (1345)
Q Consensus 604 ~~~~~~~~~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~~~-----~~~V~~~~~elr~li 678 (1345)
-...+|+|+|+|+. +..|+.|+++|+||+++.||.+|+.|+|+|...+. ...|.++...++..+
T Consensus 170 ------~~~~~pVEyK~G~~-----~~~hklQLaaYALllEe~yg~pVd~G~I~y~~~~~r~~~~~~~V~I~d~LR~~v~ 238 (271)
T TIGR01896 170 ------GILPVVVEMKVGSY-----QERHELALAGYALAIEADLEVPVDYGLLVYVNVNDGVEIKARLVYISDDLRTEFL 238 (271)
T ss_pred ------cccceeEEEecCCC-----CchhHHHHHHHHHHHHHHHCCCCcceeEEEEeeccccccceEEEECCHHHHHHHH
Confidence 12458999999985 55899999999999999999999999999976544 446999999999999
Q ss_pred HHHHHHHHHHHhccCCCCCCCcccccCCCc-cCCCcc
Q 000698 679 MRRNEFANDIIKASTTQQLPPMLRAYGGNK-ECSGLG 714 (1345)
Q Consensus 679 ~~RN~la~~i~~~s~~~~LPp~~~~~~g~~-~cs~l~ 714 (1345)
..|+++...+.+ ...|++. .+|. .|+...
T Consensus 239 e~~dei~~iI~~----g~~P~ps---~KC~~~C~f~~ 268 (271)
T TIGR01896 239 ERRDEAIRIIEY----GSDPGLP---PKCPPTCPFLE 268 (271)
T ss_pred HHHHHHHHHHhC----CCCCCCc---ccccCCCCCcC
Confidence 999999988876 4678763 3885 888653
No 47
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=99.24 E-value=5.2e-11 Score=164.85 Aligned_cols=144 Identities=17% Similarity=0.210 Sum_probs=101.6
Q ss_pred CCCCHHHHHHHHHHHhc-CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEccc
Q 000698 943 KSLNDDQRRAIIKVLTA-KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~-~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~ 1021 (1345)
..||++|++||..++.+ +.+.+|+|+|||||||++..++..+-..|.+|.++|+|+.|+..|.+......
T Consensus 428 ~~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPTgrAA~~L~e~~g~~A--------- 498 (1960)
T TIGR02760 428 FALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQKIPRLA--------- 498 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHHHHHhcchh---------
Confidence 37999999999999886 46999999999999999999999998899999999999999999987542110
Q ss_pred chhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhc----ccCeE
Q 000698 1022 EVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLM----FASKF 1097 (1345)
Q Consensus 1022 ~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~----~a~k~ 1097 (1345)
..++.-+. ........+++..+ .+.......-|++|||||+|+...++...+. .+.++
T Consensus 499 ~Ti~~~l~-~l~~~~~~~tv~~f-----------------l~~~~~l~~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garv 560 (1960)
T TIGR02760 499 STFITWVK-NLFNDDQDHTVQGL-----------------LDKSSPFSNKDIFVVDEANKLSNNELLKLIDKAEQHNSKL 560 (1960)
T ss_pred hhHHHHHH-hhcccccchhHHHh-----------------hcccCCCCCCCEEEEECCCCCCHHHHHHHHHHHhhcCCEE
Confidence 01111110 00110111111111 1111111357999999999999988865554 36889
Q ss_pred EEEcCCCCCCccccch
Q 000698 1098 VLVGDHYQLPPLVQST 1113 (1345)
Q Consensus 1098 VLVGDh~QLPPvV~s~ 1113 (1345)
|||||+.|||++-.+.
T Consensus 561 VlvGD~~QL~sV~aG~ 576 (1960)
T TIGR02760 561 ILLNDSAQRQGMSAGS 576 (1960)
T ss_pred EEEcChhhcCccccch
Confidence 9999999999985553
No 48
>PF13245 AAA_19: Part of AAA domain
Probab=99.16 E-value=7e-11 Score=109.44 Aligned_cols=58 Identities=33% Similarity=0.514 Sum_probs=52.0
Q ss_pred HHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc----CCeEEEEeccHHHHHHHHHHH
Q 000698 951 RAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKL 1008 (1345)
Q Consensus 951 ~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~----gkkVLvtA~TnsAVDnLl~kL 1008 (1345)
+||..++...+.++|+||||||||+|+++++..+++. +++||+++||+.|+|+|.+++
T Consensus 1 ~av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 1 EAVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CHHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 3666666655788889999999999999999999976 899999999999999999998
No 49
>COG1468 CRISPR-associated protein Cas4 (RecB family exonuclease) [Defense mechanisms]
Probab=99.06 E-value=1.2e-09 Score=118.11 Aligned_cols=166 Identities=22% Similarity=0.261 Sum_probs=124.9
Q ss_pred cccccccccccccCChHHHHHHhcccccc----cchhhhhHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHhcCC
Q 000698 452 LVSGTRVAASFSCPRRSVLDERLKCSERS----ISALLGTLLHQIFQAGLMKEIPTMKFLEEYARLVLQKNIESLYACGV 527 (1345)
Q Consensus 452 LIS~T~Va~s~~C~RRaVL~erfk~~~~s----~~ml~GtIvHelfQ~al~~~~~~~~~L~~~~~~~l~~~l~~Ly~~~~ 527 (1345)
.++++.|...++|+||..+-.+-...+.+ ..+.+|.++|+.....+. ..+..
T Consensus 15 ~i~~~~v~~y~~Cprk~w~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~-~~~~v----------------------- 70 (190)
T COG1468 15 RITGSDVNEYLYCPRKLWLFSRGGPEESPEVYSEGVELGKLIHEKLEKFLR-DEKEV----------------------- 70 (190)
T ss_pred eecHHHHHHHHhcCHHHHHHHhcCccccchhcchhhhhhHHHHHHHHHHhc-ccccc-----------------------
Confidence 57899999999999999998887766553 245688888887766332 10000
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCccccCCCCccccccchhhhhhhhcccccCCceeeeceEEEEeeecccc
Q 000698 528 NENDIHKTLVEAIPKMLNWIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEMAWAPKYGLKGMIDASIRVKIESKRN 607 (1345)
Q Consensus 528 ~~~~~~~~l~~~~p~i~~w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEnIwSp~~GLKGkID~tv~~~i~~~~~ 607 (1345)
. .+-.|...++|||..|+.+
T Consensus 71 --------------------------------------------~-------l~~~~i~~d~lk~~~~~~~--------- 90 (190)
T COG1468 71 --------------------------------------------E-------LEGEWIKIDFLKGRMDLEV--------- 90 (190)
T ss_pred --------------------------------------------e-------ecceeeeeeeecccceeec---------
Confidence 0 0112457889999999875
Q ss_pred cCCCeEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEeccCceeeeeCChhHHHHHHHHHHHHHHH
Q 000698 608 EINGMILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQSDQTQGVMVQRSDLVGLIMRRNEFAND 687 (1345)
Q Consensus 608 ~~~~~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~~~~~~V~~~~~elr~li~~RN~la~~ 687 (1345)
..+|+|+|+|+... ...|++|++ |.|.+.+.+|..+..|+|+|.+.+++++|+++.++++.+...-.++...
T Consensus 91 ----~~~~vEiK~~~~~~---~~~~~~Ql~-~ylyl~e~~g~~v~~g~i~Y~~~~k~~~Vei~~~~~e~v~~~~~ei~~i 162 (190)
T COG1468 91 ----KDVVVEIKKSKKME---KAPHKLQLA-YYLYLEEKLGIAVAKGYIYYPKLKKRVEVELTEELREEVERVLKEIEEI 162 (190)
T ss_pred ----cceeEEEecCcCcc---cchHHHHHH-HHHHHHHhhCceeeeEEEEecccCcEEEEEeCHHHHHHHHHHHHHHHHH
Confidence 23799999999865 333999994 5555555899999999999999999999999999999999999998887
Q ss_pred HHhccCCCCCCCcccccCCCccCCCcc
Q 000698 688 IIKASTTQQLPPMLRAYGGNKECSGLG 714 (1345)
Q Consensus 688 i~~~s~~~~LPp~~~~~~g~~~cs~l~ 714 (1345)
+.. ..||.......|..|+.-.
T Consensus 163 le~-----~~~p~~~~~~~C~~C~y~~ 184 (190)
T COG1468 163 LEG-----GKPPPPKKKKKCKKCAYRE 184 (190)
T ss_pred HhC-----CCCCCCCCCCcCCCCCcce
Confidence 754 3666666667888887643
No 50
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=99.02 E-value=1.2e-09 Score=119.37 Aligned_cols=146 Identities=25% Similarity=0.310 Sum_probs=72.7
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhhcCCcEEEEcc
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKSQSIDFVRIGR 1020 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~ 1020 (1345)
..+|.+|+.+++..+ ..+.+.+.||||||||.+++.....++..| .+|+++-++-.+-+.+- ++- |.
T Consensus 3 ~p~~~~Q~~~~~al~-~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lG---------flp-G~ 71 (205)
T PF02562_consen 3 KPKNEEQKFALDALL-NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLG---------FLP-GD 71 (205)
T ss_dssp ---SHHHHHHHHHHH-H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT-------------SS----
T ss_pred cCCCHHHHHHHHHHH-hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccc---------cCC-CC
Confidence 457999999999888 468999999999999999998888887766 47877766554422211 100 11
Q ss_pred -cchhhHHHHHhhhcc-cccccHHHHHHhhccccEEEEEecccccccccCCCC--CEEEEeCCCCCCHHHHhhhhc---c
Q 000698 1021 -HEVVHKEIQKHCLSA-MNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKF--DVCIMDEAGQTTLPVSLGPLM---F 1093 (1345)
Q Consensus 1021 -~~~v~~~v~~~~l~~-~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~F--D~VIVDEASQitep~~L~pL~---~ 1093 (1345)
.+++.+-+.... +. ......+.+...+++..|...... .++.+.| .+|||||||..+..+.-..+. .
T Consensus 72 ~~eK~~p~~~p~~-d~l~~~~~~~~~~~~~~~~~Ie~~~~~-----~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR~g~ 145 (205)
T PF02562_consen 72 LEEKMEPYLRPIY-DALEELFGKEKLEELIQNGKIEIEPLA-----FIRGRTFDNAFIIVDEAQNLTPEELKMILTRIGE 145 (205)
T ss_dssp ------TTTHHHH-HHHTTTS-TTCHHHHHHTTSEEEEEGG-----GGTT--B-SEEEEE-SGGG--HHHHHHHHTTB-T
T ss_pred HHHHHHHHHHHHH-HHHHHHhChHhHHHHhhcCeEEEEehh-----hhcCccccceEEEEecccCCCHHHHHHHHcccCC
Confidence 112211111110 00 001111223344555555554332 2333344 899999997777666543333 3
Q ss_pred cCeEEEEcCCCC
Q 000698 1094 ASKFVLVGDHYQ 1105 (1345)
Q Consensus 1094 a~k~VLVGDh~Q 1105 (1345)
+.++|+.||..|
T Consensus 146 ~skii~~GD~~Q 157 (205)
T PF02562_consen 146 GSKIIITGDPSQ 157 (205)
T ss_dssp T-EEEEEE----
T ss_pred CcEEEEecCcee
Confidence 579999999999
No 51
>PHA00619 CRISPR-associated Cas4-like protein
Probab=99.02 E-value=3.2e-09 Score=116.19 Aligned_cols=165 Identities=19% Similarity=0.148 Sum_probs=106.5
Q ss_pred cccccccCChHHHHHHhcccc----cccchhhhhHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHhcCCCHHHHH
Q 000698 458 VAASFSCPRRSVLDERLKCSE----RSISALLGTLLHQIFQAGLMKEIPTMKFLEEYARLVLQKNIESLYACGVNENDIH 533 (1345)
Q Consensus 458 Va~s~~C~RRaVL~erfk~~~----~s~~ml~GtIvHelfQ~al~~~~~~~~~L~~~~~~~l~~~l~~Ly~~~~~~~~~~ 533 (1345)
|++-..|+|++.|..+....+ ....|.+|..+||.+++.++...+..
T Consensus 25 ~sd~~~CpRk~w~~~~~~~~~~~~~~~~~~~~G~~iHe~~~~~~~~~sy~~----------------------------- 75 (201)
T PHA00619 25 VTELSRCLRRSWLMRKNGGVKLALEEAMKMHIGSGLHMRLQRILKKHGFET----------------------------- 75 (201)
T ss_pred eeehhcCccHHHHHHhccccccccccchHHHhhHHHHHHHHHHHhhcCcee-----------------------------
Confidence 445568999999999886632 22367999999999999885211100
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCCCccccCCCCccccccchhhhhhhhcccccCCceeeeceEEEEeeecccccCCCeE
Q 000698 534 KTLVEAIPKMLNWIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEMAWAPKYGLKGMIDASIRVKIESKRNEINGMI 613 (1345)
Q Consensus 534 ~~l~~~~p~i~~w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEnIwSp~~GLKGkID~tv~~~i~~~~~~~~~~i 613 (1345)
.. . +|.. ....++|+|+||++. + +..
T Consensus 76 ----------------------------------e~--~------ve~~-i~~~~~i~G~ID~i~-----~------~~~ 101 (201)
T PHA00619 76 ----------------------------------EC--R------VERK-TALGFEIVGKIDVYD-----K------EEN 101 (201)
T ss_pred ----------------------------------EE--E------EEEe-cccceEEEEEEEEEe-----C------CCc
Confidence 00 0 0000 114788999999982 1 234
Q ss_pred EEEEEecCCCCCC--CCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEe-ccCceeeeeCChhHHHHHHHHHHHHHHHHHh
Q 000698 614 LPLEFKTGKIPNG--QSSMEHRAQVILYTLLMSERYLKHIDSGLLYYL-QSDQTQGVMVQRSDLVGLIMRRNEFANDIIK 690 (1345)
Q Consensus 614 ~PlElKTGk~~~~--~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~-k~~~~~~V~~~~~elr~li~~RN~la~~i~~ 690 (1345)
+|+|+|+++...+ .....|+.|+.+|.+||++ ..|.|||. .+++..+|.. ..+...+..+..++-..+..
T Consensus 102 ~vvEiK~s~~~~~~~~~~~~~~~QL~~Yl~lL~~------~~G~l~~~~~~rk~~eV~~-~~~~~~l~~~i~~I~~ii~~ 174 (201)
T PHA00619 102 TIYELKYTHMDDLDKGRLNNYLRQLNYYIEMANA------MAGYLIIVHADGRVEEIKR-DWSETDLENRANAFGISVEE 174 (201)
T ss_pred EEEEEEccCCCcccccchHHHHHHHHHHHHHHHh------cCcEEEEEcCCCceEEeec-cccHHHHHHHHHHHHHHHhc
Confidence 8999999874321 1357999999999999987 68999664 4455666664 34445555555555444433
Q ss_pred ccCCCCCCC-cccccCCCccCCCcccc
Q 000698 691 ASTTQQLPP-MLRAYGGNKECSGLGNM 716 (1345)
Q Consensus 691 ~s~~~~LPp-~~~~~~g~~~cs~l~~~ 716 (1345)
..+|+ .......|..|....-+
T Consensus 175 ----~~~P~~~~~~~~~C~~C~y~~~C 197 (201)
T PHA00619 175 ----NILPPKKSKPDSECIECPFYNVC 197 (201)
T ss_pred ----CcCCCCCCCCcCcCCCCCCcccC
Confidence 35664 33446789999765433
No 52
>PF12705 PDDEXK_1: PD-(D/E)XK nuclease superfamily; PDB: 1W36_B 3K70_B 3U4Q_A 3U44_A.
Probab=98.98 E-value=5.5e-10 Score=123.00 Aligned_cols=228 Identities=23% Similarity=0.264 Sum_probs=117.1
Q ss_pred ccccccccccccCChHHHHHHhccccc-----ccchhhhhHHHHHHHHHHhc---cCC--CHHHHHHHHHHHHHHhHHHH
Q 000698 453 VSGTRVAASFSCPRRSVLDERLKCSER-----SISALLGTLLHQIFQAGLMK---EIP--TMKFLEEYARLVLQKNIESL 522 (1345)
Q Consensus 453 IS~T~Va~s~~C~RRaVL~erfk~~~~-----s~~ml~GtIvHelfQ~al~~---~~~--~~~~L~~~~~~~l~~~l~~L 522 (1345)
+|+|++.....|||+..++..++..+. +.++.+|+++|++|+..... ... ....+.+.++.++.+ +..+
T Consensus 2 ~S~S~l~~~~~CP~~~~~~~~~~l~~~~~~~~~~~~~~G~~~H~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 80 (257)
T PF12705_consen 2 LSASSLETYLRCPRRFYLRYILGLKEPEEKEDSDALEFGTAVHEILERFYRELKEDEFLEDDEELEEQIEELLEE-LEEL 80 (257)
T ss_dssp -BHHHHHHHHH-HHHHHHHTTS--------SS--CHHHHHHHHHHHCCCHTHHHHCT--HCCCCHHHHHHHHHHH-HHCH
T ss_pred CCHHHHHHHHHCHHHHHHHhccCCCCCccccccchhhhhHHHHHHHHHHHHhcccchhhhhHHHHHHHHHHHHHH-HHHH
Confidence 699999999999999999987665432 35789999999999987642 111 111222222222222 2222
Q ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCccccCCCCccccccchhhhhhhhccc--c--cCCceeeeceEE
Q 000698 523 YACGVNENDIHKTLVEAIPKMLNWIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEMAWA--P--KYGLKGMIDASI 598 (1345)
Q Consensus 523 y~~~~~~~~~~~~l~~~~p~i~~w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEnIwS--p--~~GLKGkID~tv 598 (1345)
+..-.......... ......+....... .-..++.+|+.+.. + .+.|+|+||.+.
T Consensus 81 ~~~~~~~~~~~~~~---~~~~~~~~~~~~~~------------------~~~~~~~~E~~~~~~~~~~~~~l~G~iD~i~ 139 (257)
T PF12705_consen 81 FREESDEPKLKERR---ITNAKLFIEEERSL------------------PDFEPIAVEQRFEVEIDDEGVRLRGRIDRID 139 (257)
T ss_dssp GGCSCCTHHHCSHH---HHHHHHHHHHHHCC------------------HSGCEEEEEEEEEEEECCEEEEEEEEEEEEE
T ss_pred hhhhhhhhhhhhhH---HHHHHHHHHHHhhc------------------cCCCeeeeeeeeeeccCCCceEEEEEEeEEE
Confidence 22111110000000 11112222222210 01122333444322 3 789999999986
Q ss_pred EEeeecccccCCCeEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhh-cCCCCeeEEEEeccC---ce--eeeeCChh
Q 000698 599 RVKIESKRNEINGMILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERY-LKHIDSGLLYYLQSD---QT--QGVMVQRS 672 (1345)
Q Consensus 599 ~~~i~~~~~~~~~~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery-~~~v~~GlL~Y~k~~---~~--~~V~~~~~ 672 (1345)
.. . ++.+..+++|||+.........|..|+.+|++++++.+ +.++....++|.... .. ..+.....
T Consensus 140 ~~--~------~g~~~IvDyKt~~~~~~~~~~~~~~Ql~~Y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 211 (257)
T PF12705_consen 140 RD--K------DGRVRIVDYKTGSSPDDKSDLKYDLQLALYALALEQQFPGKPPDKIGLVYLFLRQPKSPRRRKVDFSDE 211 (257)
T ss_dssp EC--E------SSTEEEEEEESSS-SSSHHHHHCHHHHHHHHHHHHHHHHTSHEEEEEEEEEESSS--CC-TT--EE-HH
T ss_pred Ee--C------CCcEEEEEEcCCCCCCccchhhhHHHHHHHHHHHHhccccCCceeEEEEEEEecCCCccccccccCcHH
Confidence 44 2 34588999999998642223348899999999999999 777754445544432 22 34566666
Q ss_pred HHHHHHHHHHHHHHHHHhccCCC---CCCCcccccCCCccCCC
Q 000698 673 DLVGLIMRRNEFANDIIKASTTQ---QLPPMLRAYGGNKECSG 712 (1345)
Q Consensus 673 elr~li~~RN~la~~i~~~s~~~---~LPp~~~~~~g~~~cs~ 712 (1345)
++........+++..|...-... .+|+ .....|..|..
T Consensus 212 ~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~--~~~~~C~~C~~ 252 (257)
T PF12705_consen 212 ELEEFRERIRELLEEIAAGEFDGDIEPFPP--PNSEHCSYCPF 252 (257)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT----EE---SS--TTSS-TT
T ss_pred HHHHHHHHHHHHHHHHHhhhhcCCccCCCC--CCCCCCCCCCC
Confidence 66666655555555554321111 2322 34557777754
No 53
>PRK10536 hypothetical protein; Provisional
Probab=98.83 E-value=2e-08 Score=112.72 Aligned_cols=149 Identities=19% Similarity=0.139 Sum_probs=85.8
Q ss_pred cCCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHH-hcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEc
Q 000698 941 SEKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALL-MRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIG 1019 (1345)
Q Consensus 941 ~~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll-~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG 1019 (1345)
.....|..|..++..+.. .+++++.|+||||||+++..+....+ ....+.++++.+...+++.+.-|. |
T Consensus 56 ~i~p~n~~Q~~~l~al~~-~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLP---------G 125 (262)
T PRK10536 56 PILARNEAQAHYLKAIES-KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLP---------G 125 (262)
T ss_pred cccCCCHHHHHHHHHHhc-CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCC---------C
Confidence 357889999999986655 57999999999999999998887554 433444455555544454432221 2
Q ss_pred c-cchhhHHHHHhhhccc-ccccHHHHHHhh--ccccEEEEEecccccccccCCCC--CEEEEeCCCCCCHHHHhhhh--
Q 000698 1020 R-HEVVHKEIQKHCLSAM-NINSVEEIKKRL--DQVKVVAVTCLGITNPLLTDKKF--DVCIMDEAGQTTLPVSLGPL-- 1091 (1345)
Q Consensus 1020 ~-~~~v~~~v~~~~l~~~-~~~s~~~i~~~l--~~~~VV~tT~~~~~~~ll~~~~F--D~VIVDEASQitep~~L~pL-- 1091 (1345)
. .+++.+-+... .+.. .......+...+ ....|..... + .++.+.| ++|||||||.++..+.-..+
T Consensus 126 ~~~eK~~p~~~pi-~D~L~~~~~~~~~~~~~~~~~~~Iei~~l-~----ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR 199 (262)
T PRK10536 126 DIAEKFAPYFRPV-YDVLVRRLGASFMQYCLRPEIGKVEIAPF-A----YMRGRTFENAVVILDEAQNVTAAQMKMFLTR 199 (262)
T ss_pred CHHHHHHHHHHHH-HHHHHHHhChHHHHHHHHhccCcEEEecH-H----HhcCCcccCCEEEEechhcCCHHHHHHHHhh
Confidence 1 12222221111 1110 001112222222 1223333221 1 2233334 89999999999886653333
Q ss_pred -cccCeEEEEcCCCC
Q 000698 1092 -MFASKFVLVGDHYQ 1105 (1345)
Q Consensus 1092 -~~a~k~VLVGDh~Q 1105 (1345)
....++|++||+.|
T Consensus 200 ~g~~sk~v~~GD~~Q 214 (262)
T PRK10536 200 LGENVTVIVNGDITQ 214 (262)
T ss_pred cCCCCEEEEeCChhh
Confidence 34688999999999
No 54
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.71 E-value=1.1e-07 Score=100.33 Aligned_cols=126 Identities=21% Similarity=0.202 Sum_probs=87.6
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhhcCCc-----
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKSQSID----- 1014 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~~~l~----- 1014 (1345)
...+++.|.+++..++.....++|.|++|||||++++..+...+..+ .++|++++|..++.++..++......
T Consensus 6 ~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~ 85 (201)
T smart00487 6 FEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSLGLKV 85 (201)
T ss_pred CCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccCCeEE
Confidence 35689999999999887536899999999999999888888777765 89999999999999998887654311
Q ss_pred EEEEcccchhhHHHHHhhhcccccccHHHHHHhhccc-cEEEEEecccccc----cccCCCCCEEEEeCCCCCCH
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQV-KVVAVTCLGITNP----LLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~-~VV~tT~~~~~~~----ll~~~~FD~VIVDEASQite 1084 (1345)
...++. ....+.+.+..... .++.+|...+.+. ......++++|||||+.+..
T Consensus 86 ~~~~~~-----------------~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~ 143 (201)
T smart00487 86 VGLYGG-----------------DSKREQLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLD 143 (201)
T ss_pred EEEeCC-----------------cchHHHHHHHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhc
Confidence 111111 01122333333333 6777765433221 13345789999999987764
No 55
>PHA01622 CRISPR-associated Cas4-like protein
Probab=98.67 E-value=3.4e-07 Score=100.50 Aligned_cols=114 Identities=18% Similarity=0.135 Sum_probs=79.7
Q ss_pred ccCCceeeeceEEEEeeecccccCCCeEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEeccC--c
Q 000698 586 PKYGLKGMIDASIRVKIESKRNEINGMILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQSD--Q 663 (1345)
Q Consensus 586 p~~GLKGkID~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~~--~ 663 (1345)
..+.++|+||++.. .+ -+|+||++.........|+.|+++|.++|+ .+|.++..++++|...+ .
T Consensus 80 ~~i~i~GkID~l~~----------~~---iiEvKsS~k~~~~~~~~~~~Qla~Yl~~Lk-~~Gi~v~g~~l~~i~~k~~~ 145 (204)
T PHA01622 80 EGIKISGRIDIVCN----------ND---LLEIKTISYNYFQVKEYHLYQVALYYHILK-KQNYQINNVYIVYLNRNTRE 145 (204)
T ss_pred CCEEEEEEEEEEeC----------Cc---eEEEEecCCCCCcccHhHHHHHHHHHHHHH-HcCCCCCceEEEEecCCCCc
Confidence 66789999998751 11 399999985432346789999999999996 78999998899987643 3
Q ss_pred eeeeeCChhHHHHHHHHHHHHHHHHHhccCCCCCCCccc-ccCCCccCCCc
Q 000698 664 TQGVMVQRSDLVGLIMRRNEFANDIIKASTTQQLPPMLR-AYGGNKECSGL 713 (1345)
Q Consensus 664 ~~~V~~~~~elr~li~~RN~la~~i~~~s~~~~LPp~~~-~~~g~~~cs~l 713 (1345)
...+.....++.+++....+++..+...-.....|++.. ....|..|...
T Consensus 146 v~~~~~~e~~le~~i~~I~~~i~~i~~~~~~~~~p~~~~~~~~~C~~C~Y~ 196 (204)
T PHA01622 146 VKQFKIDEKVLETYYQKVIEWIKKFKEYLKETDYKKVPGVNNYICKSCEFK 196 (204)
T ss_pred eeEEEcChHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCCCcCcCCCCCch
Confidence 556777778888888777777776533211233454422 23477777654
No 56
>PF06023 DUF911: Archaeal protein of unknown function (DUF911); InterPro: IPR009260 This family consists of several archaeal strongly conserved proteins whose genes are associated with CRISPRs (Clustered, Regularly Interspaced Short Palidromic Repeats). The function of these proteins has not been experimentally determined, but computational analysis has suggested that they may function as nucleases in DNA repair, similar to RecB (IPR004586 from INTERPRO) [].
Probab=98.65 E-value=1.5e-07 Score=106.73 Aligned_cols=201 Identities=19% Similarity=0.167 Sum_probs=124.9
Q ss_pred CccccccccccccccCChHHHHHHhcc--cccccchhhhhHHHHHHHHHHhcc--------CCCHHHHHHHHHHHHHHhH
Q 000698 450 DVLVSGTRVAASFSCPRRSVLDERLKC--SERSISALLGTLLHQIFQAGLMKE--------IPTMKFLEEYARLVLQKNI 519 (1345)
Q Consensus 450 D~LIS~T~Va~s~~C~RRaVL~erfk~--~~~s~~ml~GtIvHelfQ~al~~~--------~~~~~~L~~~~~~~l~~~l 519 (1345)
++.+|..-|+++.=+.+|-|--.|... .+.+.+|..|.++|++|-.++..- ....++...+.
T Consensus 42 ~~~LsvsEVa~~yCpT~RDvYLRRV~gvr~e~s~~m~~G~~iH~v~~~a~~~~kr~i~~g~~~~~~~~~~~~-------- 113 (289)
T PF06023_consen 42 YLRLSVSEVAYGYCPTGRDVYLRRVLGVRGEPSEAMSKGRAIHEVFATAFREAKRLIYSGVPPWWDLERILM-------- 113 (289)
T ss_pred ccCCCHHHHhcCCCCCCcceeeeecccccCCcccccchhHHHHHHHHHHHHHHHHHHHcCCCccHHHHHHhh--------
Confidence 356788888888888888877666665 356779999999999999998531 01111111110
Q ss_pred HHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhc--------ccCCCC--CCccccCCCCccccccchhhhhhhhcccccCC
Q 000698 520 ESLYACGVNENDIHKTLVEAIPKMLNWIILFK--------DSQDLN--TPTVDFGSDGLKKLKISEVTDIEEMAWAPKYG 589 (1345)
Q Consensus 520 ~~Ly~~~~~~~~~~~~l~~~~p~i~~w~~~f~--------~~~~~~--~~~~~~~~~~~~~~~Is~vlDIEEnIwSp~~G 589 (1345)
++-+ .+-+++.++...+.+|+..-+ .+.++- .+... ...++ -+|-.|=-.-+|
T Consensus 114 ~~~~-------~~~~~~~~~~~~l~~~~~~~~~a~~~~v~ak~~~~~~dsl~~----~~~P~------~~E~~vDGs~LG 176 (289)
T PF06023_consen 114 EDEF-------EAPEELREKARKLYKYEASRLLAELDEVRAKYPYLTEDSLAS----LAIPI------AVEYPVDGSPLG 176 (289)
T ss_pred hhhh-------hchHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhhh----ccCce------EEEeccCCcccc
Confidence 0001 222233333333333332222 111110 00000 00011 233334345678
Q ss_pred ce--eeeceEEEEeeecccccCCCeEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEeccC-c---
Q 000698 590 LK--GMIDASIRVKIESKRNEINGMILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQSD-Q--- 663 (1345)
Q Consensus 590 LK--GkID~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~~-~--- 663 (1345)
|. -.+|+.+-. .-+.+|+|||+. ..-|+.|++.|+|-||.-|+.+|+.|+|.|..-+ .
T Consensus 177 LS~~lr~Da~~~~-----------~~~Vve~K~G~~-----~~~h~lalaGYALA~Es~~e~PVD~G~lvyv~~~~~~~~ 240 (289)
T PF06023_consen 177 LSDNLRVDAFVLF-----------GPVVVEVKTGEY-----RDFHRLALAGYALAIESWYEVPVDYGCLVYVSFNGGVRI 240 (289)
T ss_pred cccccccceeccc-----------CceEEEEecCCc-----hhHHHHHHHHHHHHHHHhhcCCeeeeeEEEEEeCCCceE
Confidence 87 456774322 227799999996 4579999999999999999999999999999632 2
Q ss_pred -eeeeeCChhHHHHHHHHHHHHHHHHHhc
Q 000698 664 -TQGVMVQRSDLVGLIMRRNEFANDIIKA 691 (1345)
Q Consensus 664 -~~~V~~~~~elr~li~~RN~la~~i~~~ 691 (1345)
...+.+....++.-|..|++.+..+.+.
T Consensus 241 ~~~~~~I~d~lR~~FlE~RDe~~~iv~~~ 269 (289)
T PF06023_consen 241 RWDPVYISDDLRREFLEERDEAAEIVESG 269 (289)
T ss_pred EEEEEEcChHHHHHHHHHHHHHHHHHhcC
Confidence 3356777777788899999999998763
No 57
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=98.47 E-value=5.1e-07 Score=89.64 Aligned_cols=111 Identities=23% Similarity=0.160 Sum_probs=73.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEeccHHHHHHHHHHHhhcCC--cEEEEcccchhhHHHHHhhhcccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLM--RGASILLTSYTNSAVDNLLIKLKSQSI--DFVRIGRHEVVHKEIQKHCLSAMN 1037 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~TnsAVDnLl~kL~~~~l--~ilRiG~~~~v~~~v~~~~l~~~~ 1037 (1345)
..+|.|+||||||+++...+..+.. ..++++++++++.++++..+.+..... .-+.+.....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-------------- 67 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGT-------------- 67 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCc--------------
Confidence 4789999999999999999998876 467999999999999999888765431 1111111110
Q ss_pred cccHHHHHHhhccccEEEEEeccccccc----ccCCCCCEEEEeCCCCCCHHHH
Q 000698 1038 INSVEEIKKRLDQVKVVAVTCLGITNPL----LTDKKFDVCIMDEAGQTTLPVS 1087 (1345)
Q Consensus 1038 ~~s~~~i~~~l~~~~VV~tT~~~~~~~l----l~~~~FD~VIVDEASQitep~~ 1087 (1345)
..............++.+|...+.... +....++++|||||+.+.....
T Consensus 68 -~~~~~~~~~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~ 120 (144)
T cd00046 68 -SIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGF 120 (144)
T ss_pred -chhHHHHHhcCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcch
Confidence 001111223445666666665443322 2245899999999987766543
No 58
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=98.43 E-value=5.4e-07 Score=95.17 Aligned_cols=64 Identities=19% Similarity=0.279 Sum_probs=56.5
Q ss_pred CCCHHHHHHHHHHHhc------CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh
Q 000698 944 SLNDDQRRAIIKVLTA------KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~------~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+|.+.|++|+..+... ....+|.|++|||||.+++.++..+.. ++++++++...++.....+..
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~---~~l~~~p~~~l~~Q~~~~~~~ 72 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR---KVLIVAPNISLLEQWYDEFDD 72 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC---EEEEEESSHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc---ceeEecCHHHHHHHHHHHHHH
Confidence 4789999999999852 578999999999999999999999887 999999999999999888844
No 59
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=98.41 E-value=8.8e-07 Score=92.78 Aligned_cols=121 Identities=18% Similarity=0.237 Sum_probs=81.6
Q ss_pred CHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCC--eEEEEeccHHHHHHHHHHHhhcCC----cEEEEc
Q 000698 946 NDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGA--SILLTSYTNSAVDNLLIKLKSQSI----DFVRIG 1019 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gk--kVLvtA~TnsAVDnLl~kL~~~~l----~ilRiG 1019 (1345)
++.|.+++..++. +..++|.||+|+|||+.+...+...+.+++ ++++++++...++....++..... +...+-
T Consensus 1 t~~Q~~~~~~i~~-~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~ 79 (169)
T PF00270_consen 1 TPLQQEAIEAIIS-GKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLH 79 (169)
T ss_dssp -HHHHHHHHHHHT-TSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEES
T ss_pred CHHHHHHHHHHHc-CCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccccccccccccccc
Confidence 4789999999985 467999999999999999866666555445 999999999999999988866432 222221
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhh-ccccEEEEEecccccccc----cCCCCCEEEEeCCCCCC
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRL-DQVKVVAVTCLGITNPLL----TDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~~~~VV~tT~~~~~~~ll----~~~~FD~VIVDEASQit 1083 (1345)
. ......+....+ .++.|+.+|...+..... .-..++++||||+....
T Consensus 80 ~----------------~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~ 132 (169)
T PF00270_consen 80 G----------------GQSISEDQREVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLS 132 (169)
T ss_dssp T----------------TSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHH
T ss_pred c----------------cccccccccccccccccccccCcchhhccccccccccccceeeccCcccccc
Confidence 1 111111222223 458888888866532211 22349999999995443
No 60
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=98.41 E-value=6.3e-06 Score=111.87 Aligned_cols=157 Identities=17% Similarity=0.082 Sum_probs=93.2
Q ss_pred CCCEEEEeCCCCCCHHHH--hhhhcc-cCeEEEEcCCCCCCccccc----hHHHhcCCcchHHHHHH---HhCCcc---e
Q 000698 1070 KFDVCIMDEAGQTTLPVS--LGPLMF-ASKFVLVGDHYQLPPLVQS----TEARENGMEISLFRRLS---EEHPQA---I 1136 (1345)
Q Consensus 1070 ~FD~VIVDEASQitep~~--L~pL~~-a~k~VLVGDh~QLPPvV~s----~~a~~~Gl~~SLFerL~---~~~p~~---v 1136 (1345)
.+.+|+|||+++.+..+. +..|.. ++.+++|||..|-. .+ .++.+. ...|.++. ..+... .
T Consensus 196 ~~~~I~VDeFqdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~~---~~~~~~~lf~~~---~~~~~~l~~~~~~~~~~~~~~ 269 (1158)
T TIGR02773 196 KGAEIYIDGFHSFTPQEYSVIGALMKKAKKVTVTLTLDGPK---SLEDELSLFRAT---SETYYRLKELAKELGIEVEEP 269 (1158)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCcEEEEEEeCCcc---ccCCccccchhH---HHHHHHHHHHHHHcCCCcccc
Confidence 468999999988887665 444443 67899999999931 00 011111 11222222 211111 1
Q ss_pred ecccccccC--chhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCC
Q 000698 1137 SALQSQYRM--CQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQT 1214 (1345)
Q Consensus 1137 ~~Lt~QYRm--~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s 1214 (1345)
..+..+++. ++++..+...++-.+. . ........+.++...
T Consensus 270 i~~~~~~~~~~~~~l~~Lek~l~~~~~-~------------------------~~~~~~~~I~i~~~~------------ 312 (1158)
T TIGR02773 270 IFLNEYRPNKKNKELAHLEKQFDARPF-N------------------------AYIEEDGSISIFEAN------------ 312 (1158)
T ss_pred cccccccCCCCCHHHHHHHHHHhhCCC-C------------------------CCCCCCCCeEEEEcC------------
Confidence 123444442 5666666665541110 0 000111233333222
Q ss_pred CCCHHHHHHHHHHHHHHHHC-CCCCCcEEEEecC-hHHHHHHHHHcCCCCcEEEeccC
Q 000698 1215 LNNPVEACLIAKITQELVKN-EIEGKDIGIITPY-NSQANLIRHSLSVSSVEIHTIDK 1270 (1345)
Q Consensus 1215 ~~N~~EA~lV~~lv~~Ll~~-gv~~~dIGVITPY-raQv~lIr~~L~~~~VeV~TVD~ 1270 (1345)
+-..|++.|+..|..++.. |+..+||+|+++. +.+...|...|...+|.+...++
T Consensus 313 -~~~~Eae~va~~I~~l~~~~g~~~~DIAVL~R~~~~y~~~i~~~f~~~~IP~~i~~~ 369 (1158)
T TIGR02773 313 -NRRAEVEGVARQILRLTRDKQYRYQDIAILTRDLEDYAKLVEAVFSDYEIPYFIDKK 369 (1158)
T ss_pred -CHHHHHHHHHHHHHHHHHcCCCChhheEEEeCCHHHHHHHHHHHHHhCCCCeEEecC
Confidence 2357999999999998876 8999999999999 89999999999877787765443
No 61
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.35 E-value=2e-07 Score=90.57 Aligned_cols=50 Identities=32% Similarity=0.250 Sum_probs=39.9
Q ss_pred CcEEEeccCccccccCEEEEEccCCCCCCCCcccccccccchhhHhhhhcccceEEE
Q 000698 1262 SVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMV 1318 (1345)
Q Consensus 1262 ~VeV~TVD~fQGrEkdvVIIS~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIV 1318 (1345)
.+.+.|+|++||+|+|.||+........ -....|++|||+||||+.|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~~-------~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSNF-------DELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGSG-------CGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCcccC-------CchhhccEEeeHhHhhhhhCCC
Confidence 6789999999999999999998776511 1235678999999999999997
No 62
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.27 E-value=8.2e-06 Score=104.73 Aligned_cols=125 Identities=21% Similarity=0.276 Sum_probs=90.9
Q ss_pred CCCCHHHHHHHHHHHhc--CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc-CCcEEEEc
Q 000698 943 KSLNDDQRRAIIKVLTA--KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ-SIDFVRIG 1019 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~--~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG 1019 (1345)
..|++.|++|++.+... ...++++|++|||||.+...++...+..|+++|++++|...+..+.+++.+. +..+..+.
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~ 222 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLH 222 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEE
Confidence 47999999999999873 4579999999999999999988888888999999999999999999999763 44433332
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhh-ccccEEEEEecccccccccCCCCCEEEEeCCCCCC
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRL-DQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQit 1083 (1345)
...... ...+.+.+.. ...+||.+|......+ -.++++|||||+.+..
T Consensus 223 s~~s~~-------------~r~~~~~~~~~g~~~IVVgTrsal~~p---~~~l~liVvDEeh~~s 271 (679)
T PRK05580 223 SGLSDG-------------ERLDEWRKAKRGEAKVVIGARSALFLP---FKNLGLIIVDEEHDSS 271 (679)
T ss_pred CCCCHH-------------HHHHHHHHHHcCCCCEEEeccHHhccc---ccCCCEEEEECCCccc
Confidence 111100 1112223332 3468888886554333 3578999999997654
No 63
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=98.20 E-value=6.4e-07 Score=112.03 Aligned_cols=58 Identities=19% Similarity=0.206 Sum_probs=47.9
Q ss_pred CcEEEeccCccccccCEEEEEccCCCCCCCCcccccccccchhhHhhhhcccceEEEe
Q 000698 1262 SVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVG 1319 (1345)
Q Consensus 1262 ~VeV~TVD~fQGrEkdvVIIS~vrsn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVG 1319 (1345)
.+++.|+|+.+|+|+.++++.+.+.+..+.....+.++|.+.|+|+=|||+.++++=+
T Consensus 567 ~~Qi~~l~~~~~le~pv~~i~~~~~n~ip~~~~~e~d~~~q~l~v~~~r~~~l~~ls~ 624 (853)
T KOG2108|consen 567 ELQISTLHSAKGLEWPVVSIGLCRENIIPILFQDEEDEDGQNLVVKDTRARRLLHLSS 624 (853)
T ss_pred hhhhhhcccccccccceeeeccchhhccchhcCchhhhhhcceeccchhHHHHHHHhh
Confidence 3457999999999999999999999876644444567788899999999999887643
No 64
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.18 E-value=0.00014 Score=88.74 Aligned_cols=122 Identities=20% Similarity=0.168 Sum_probs=78.9
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHH-HHHHHHh------cCCeEEEEeccHHHHHHHHHHHhhc----
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVH-AVKALLM------RGASILLTSYTNSAVDNLLIKLKSQ---- 1011 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~-lI~~Ll~------~gkkVLvtA~TnsAVDnLl~kL~~~---- 1011 (1345)
..+++.|++|+..++... -.++.+|+|||||..... ++..+.. .+.++|++++|...+..+.+.+...
T Consensus 22 ~~p~~iQ~~ai~~~~~g~-d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~~~~ 100 (434)
T PRK11192 22 TRPTAIQAEAIPPALDGR-DVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELAKHT 100 (434)
T ss_pred CCCCHHHHHHHHHHhCCC-CEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHHccC
Confidence 467889999999999865 499999999999987543 3334432 1358999999999998887765442
Q ss_pred CCcEEEEcccchhhHHHHHhhhcccccccHHHHHHh-hccccEEEEEecccc----cccccCCCCCEEEEeCCCCC
Q 000698 1012 SIDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKR-LDQVKVVAVTCLGIT----NPLLTDKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1012 ~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~-l~~~~VV~tT~~~~~----~~ll~~~~FD~VIVDEASQi 1082 (1345)
++++..+.... ......+. ....+|+.+|...+. ...+....+++||||||..+
T Consensus 101 ~~~v~~~~gg~-----------------~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah~~ 159 (434)
T PRK11192 101 HLDIATITGGV-----------------AYMNHAEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRM 159 (434)
T ss_pred CcEEEEEECCC-----------------CHHHHHHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHHHH
Confidence 33333322111 11111122 245678888864332 22334467899999999543
No 65
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.17 E-value=0.00015 Score=89.20 Aligned_cols=123 Identities=15% Similarity=0.177 Sum_probs=79.2
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHH-HHHHHHhc--CCeEEEEeccHHHHHHHHHHHhhc-----CC
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVH-AVKALLMR--GASILLTSYTNSAVDNLLIKLKSQ-----SI 1013 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~-lI~~Ll~~--gkkVLvtA~TnsAVDnLl~kL~~~-----~l 1013 (1345)
...+++-|++|+..++.. .-.++.||.|||||.+..- ++..+... +.++|++++|...++.+.+.+... ++
T Consensus 24 ~~~~t~iQ~~ai~~~l~g-~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~ 102 (460)
T PRK11776 24 YTEMTPIQAQSLPAILAG-KDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFIPNI 102 (460)
T ss_pred CCCCCHHHHHHHHHHhcC-CCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHhhCCCc
Confidence 356899999999998875 4699999999999976443 33333222 347999999999999988776543 22
Q ss_pred cEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc----ccccCCCCCEEEEeCCCC
Q 000698 1014 DFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN----PLLTDKKFDVCIMDEAGQ 1081 (1345)
Q Consensus 1014 ~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~----~ll~~~~FD~VIVDEASQ 1081 (1345)
++..+.....+. ..+...-..++|+.+|..-+.+ ..+.-..++++|+|||..
T Consensus 103 ~v~~~~Gg~~~~----------------~~~~~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~ 158 (460)
T PRK11776 103 KVLTLCGGVPMG----------------PQIDSLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADR 158 (460)
T ss_pred EEEEEECCCChH----------------HHHHHhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHH
Confidence 222221111111 1122223567888888754432 222335789999999953
No 66
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.07 E-value=2.4e-05 Score=97.40 Aligned_cols=121 Identities=16% Similarity=0.052 Sum_probs=86.0
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCC-eEEEEeccHHHHHHHHHHHhhcCC----cEEE
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGA-SILLTSYTNSAVDNLLIKLKSQSI----DFVR 1017 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gk-kVLvtA~TnsAVDnLl~kL~~~~l----~ilR 1017 (1345)
..|.+.|++|+..++.. +..++++|.|+|||.+++.+++.+++.++ ++|++++|...++...+++.+... .+..
T Consensus 113 ~~~r~~Q~~av~~~l~~-~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~~ 191 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKN-NRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMHK 191 (501)
T ss_pred CCCCHHHHHHHHHHHhc-CceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhccccccceeE
Confidence 46889999999998874 56799999999999999888887777666 999999999999999999876431 1111
Q ss_pred EcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccccc-ccCCCCCEEEEeCCCCCCHHHH
Q 000698 1018 IGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPL-LTDKKFDVCIMDEAGQTTLPVS 1087 (1345)
Q Consensus 1018 iG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~l-l~~~~FD~VIVDEASQitep~~ 1087 (1345)
+... .. ......|+.+|...+.... ..-..|++||||||..+....+
T Consensus 192 i~~g--------------~~---------~~~~~~I~VaT~qsl~~~~~~~~~~~~~iIvDEaH~~~~~~~ 239 (501)
T PHA02558 192 IYSG--------------TA---------KDTDAPIVVSTWQSAVKQPKEWFDQFGMVIVDECHLFTGKSL 239 (501)
T ss_pred EecC--------------cc---------cCCCCCEEEeeHHHHhhchhhhccccCEEEEEchhcccchhH
Confidence 1100 00 0023567777765543221 0124899999999988876554
No 67
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=98.05 E-value=3.2e-05 Score=83.98 Aligned_cols=123 Identities=20% Similarity=0.193 Sum_probs=80.6
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHH-HHHHHHHHHhc----CCeEEEEeccHHHHHHHHHHHhhcC----C
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTST-MVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKSQS----I 1013 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTtt-Ia~lI~~Ll~~----gkkVLvtA~TnsAVDnLl~kL~~~~----l 1013 (1345)
..+++-|++|+..++. ...++|.+|+|+|||.+ +..++..+... +.+++++++|...+..+...+.+.. +
T Consensus 20 ~~~~~~Q~~~~~~~~~-~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~~~~ 98 (203)
T cd00268 20 EKPTPIQARAIPPLLS-GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKHTNL 98 (203)
T ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhccCCc
Confidence 4578899999999887 46799999999999987 44556665543 5689999999999998887765432 2
Q ss_pred cEEEEcccchhhHHHHHhhhcccccccHHHHHHhh-ccccEEEEEeccccc----ccccCCCCCEEEEeCCCCCC
Q 000698 1014 DFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL-DQVKVVAVTCLGITN----PLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1014 ~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~~~~VV~tT~~~~~~----~ll~~~~FD~VIVDEASQit 1083 (1345)
...-+.. .. ...+....+ .+.+|+.+|...+.. ..+....++++|||||..+.
T Consensus 99 ~~~~~~~----------------~~-~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~ 156 (203)
T cd00268 99 KVVVIYG----------------GT-SIDKQIRKLKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRML 156 (203)
T ss_pred eEEEEEC----------------CC-CHHHHHHHhcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHhh
Confidence 1111100 00 111112223 367888888644321 12333578999999996543
No 68
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.04 E-value=0.00036 Score=85.97 Aligned_cols=124 Identities=18% Similarity=0.180 Sum_probs=79.9
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHH-HHHHHHhc--------CCeEEEEeccHHHHHHHHHHHhhc-
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVH-AVKALLMR--------GASILLTSYTNSAVDNLLIKLKSQ- 1011 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~-lI~~Ll~~--------gkkVLvtA~TnsAVDnLl~kL~~~- 1011 (1345)
...+++.|++||..++..+ -+++++|.|||||.+..- ++..+... +.++|++++|...+..+.+.+...
T Consensus 21 ~~~pt~iQ~~ai~~il~g~-dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~~ 99 (456)
T PRK10590 21 YREPTPIQQQAIPAVLEGR-DLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYS 99 (456)
T ss_pred CCCCCHHHHHHHHHHhCCC-CEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHHh
Confidence 3567899999999988865 489999999999987543 33333321 237999999999999888777653
Q ss_pred ---CCcEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc----cccccCCCCCEEEEeCCCCC
Q 000698 1012 ---SIDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT----NPLLTDKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1012 ---~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~----~~ll~~~~FD~VIVDEASQi 1082 (1345)
++..+.+...... -.+........+|+.+|...+. ...+....++++|||||..+
T Consensus 100 ~~~~~~~~~~~gg~~~----------------~~~~~~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViDEah~l 161 (456)
T PRK10590 100 KYLNIRSLVVFGGVSI----------------NPQMMKLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRM 161 (456)
T ss_pred ccCCCEEEEEECCcCH----------------HHHHHHHcCCCcEEEEChHHHHHHHHcCCcccccceEEEeecHHHH
Confidence 2222222111111 1122223345678888865432 22233457899999999544
No 69
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=97.98 E-value=8.1e-06 Score=84.21 Aligned_cols=53 Identities=21% Similarity=0.319 Sum_probs=43.8
Q ss_pred CCeEEEEccCCCChHH-HHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcC
Q 000698 960 KDYALILGMPGTGKTS-TMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQS 1012 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTt-tIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~ 1012 (1345)
..+..|.=.||+|||+ ++.+++++.++++.||||+++|...++++.+-|....
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~~~ 57 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKGLP 57 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTTSS
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhcCC
Confidence 3578889999999999 6889999999999999999999999999999887544
No 70
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.98 E-value=2.5e-05 Score=95.65 Aligned_cols=123 Identities=23% Similarity=0.205 Sum_probs=86.7
Q ss_pred CCCCCHHHHHHHHHHHhc---CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEE
Q 000698 942 EKSLNDDQRRAIIKVLTA---KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRI 1018 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~---~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRi 1018 (1345)
...|.+.|++|++..... ..-.+|..|+|+|||.+.+++++.+.. ++|++++|...++.-.+++......---+
T Consensus 34 ~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~~---~~Lvlv~~~~L~~Qw~~~~~~~~~~~~~~ 110 (442)
T COG1061 34 EFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELKR---STLVLVPTKELLDQWAEALKKFLLLNDEI 110 (442)
T ss_pred CCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhcC---CEEEEECcHHHHHHHHHHHHHhcCCcccc
Confidence 346899999999998885 678999999999999999999998854 49999999999999987776432210000
Q ss_pred cccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc----ccccCCCCCEEEEeCCCCCCHHHH
Q 000698 1019 GRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN----PLLTDKKFDVCIMDEAGQTTLPVS 1087 (1345)
Q Consensus 1019 G~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~----~ll~~~~FD~VIVDEASQitep~~ 1087 (1345)
|-. . .... ......|+.+|...+.. ..+..+.|+.||+||+....-+..
T Consensus 111 g~~----------~---~~~~-------~~~~~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~~ 163 (442)
T COG1061 111 GIY----------G---GGEK-------ELEPAKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSY 163 (442)
T ss_pred cee----------c---Ccee-------ccCCCcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcHHH
Confidence 100 0 0000 00113466777766654 344556899999999999886554
No 71
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=97.95 E-value=0.00068 Score=86.56 Aligned_cols=124 Identities=16% Similarity=0.134 Sum_probs=80.5
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHH-HHHHHHh--cCCeEEEEeccHHHHHHHHHHHhhc-----CC
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVH-AVKALLM--RGASILLTSYTNSAVDNLLIKLKSQ-----SI 1013 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~-lI~~Ll~--~gkkVLvtA~TnsAVDnLl~kL~~~-----~l 1013 (1345)
...+++.|.+||..++.. .-++++||.|||||.+..- ++..+.. .+.++|+++||...+..+.+.+... ++
T Consensus 26 ~~~ptpiQ~~ai~~ll~g-~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i 104 (629)
T PRK11634 26 YEKPSPIQAECIPHLLNG-RDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSKHMRGV 104 (629)
T ss_pred CCCCCHHHHHHHHHHHcC-CCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHhhcCCc
Confidence 346789999999998875 4589999999999987543 3333332 2458999999999999887766542 23
Q ss_pred cEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccc----cccCCCCCEEEEeCCCCC
Q 000698 1014 DFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNP----LLTDKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1014 ~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~----ll~~~~FD~VIVDEASQi 1082 (1345)
.++.+...... -..+......++||.+|...+.+. .+....+.+||||||..+
T Consensus 105 ~v~~~~gG~~~----------------~~q~~~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~m 161 (629)
T PRK11634 105 NVVALYGGQRY----------------DVQLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEM 161 (629)
T ss_pred eEEEEECCcCH----------------HHHHHHhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHH
Confidence 33322111111 112222334578888887554322 233457889999999544
No 72
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.90 E-value=4.9e-05 Score=96.70 Aligned_cols=127 Identities=23% Similarity=0.327 Sum_probs=93.4
Q ss_pred CCCCCHHHHHHHHHHHhc---CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc-CCcEEE
Q 000698 942 EKSLNDDQRRAIIKVLTA---KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ-SIDFVR 1017 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~---~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~-~l~ilR 1017 (1345)
...||.+|+.|+..+... ...+++.|.+|||||.+..++|+..+++|+.+|++.|--.-...+..|+... +.++.
T Consensus 196 ~~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~- 274 (730)
T COG1198 196 WLALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVA- 274 (730)
T ss_pred ccccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChh-
Confidence 358999999999999887 4689999999999999999999999999999999999666666666666532 11100
Q ss_pred EcccchhhHHHHHhhhcccccccHHHHHHhh-ccccEEEEEecccccccccCCCCCEEEEeCCCCCCH
Q 000698 1018 IGRHEVVHKEIQKHCLSAMNINSVEEIKKRL-DQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1018 iG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQite 1084 (1345)
-+| ..+ .....++.+.+.. .+++||..|-+++.-|+ .+-..|||||=.+.+-
T Consensus 275 -----vlH-----S~L--s~~er~~~W~~~~~G~~~vVIGtRSAlF~Pf---~~LGLIIvDEEHD~sY 327 (730)
T COG1198 275 -----VLH-----SGL--SPGERYRVWRRARRGEARVVIGTRSALFLPF---KNLGLIIVDEEHDSSY 327 (730)
T ss_pred -----hhc-----ccC--ChHHHHHHHHHHhcCCceEEEEechhhcCch---hhccEEEEeccccccc
Confidence 000 001 1122345555554 67899999988877766 4678999999877653
No 73
>PTZ00424 helicase 45; Provisional
Probab=97.90 E-value=4.4e-05 Score=91.86 Aligned_cols=124 Identities=22% Similarity=0.194 Sum_probs=81.1
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh---cCCeEEEEeccHHHHHHHHHHHhhcCC----c
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM---RGASILLTSYTNSAVDNLLIKLKSQSI----D 1014 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~---~gkkVLvtA~TnsAVDnLl~kL~~~~l----~ 1014 (1345)
...+++.|.+|+..++...+ .+|.+|+|||||.+....+...+. .+.++|++++|...+..+...+...+. .
T Consensus 48 ~~~~~~~Q~~ai~~i~~~~d-~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~ 126 (401)
T PTZ00424 48 FEKPSAIQQRGIKPILDGYD-TIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYLKVR 126 (401)
T ss_pred CCCCCHHHHHHHHHHhCCCC-EEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHHhhhcCce
Confidence 35689999999999988654 679999999999876655444443 366899999999999888776654321 1
Q ss_pred EE-EEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc----ccccCCCCCEEEEeCCCCCC
Q 000698 1015 FV-RIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN----PLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1015 il-RiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~----~ll~~~~FD~VIVDEASQit 1083 (1345)
.. ..|.. ...+.+.......+|+.+|...+.. ..+.-..++++|||||..+.
T Consensus 127 ~~~~~g~~-----------------~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~~ 183 (401)
T PTZ00424 127 CHACVGGT-----------------VVRDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEML 183 (401)
T ss_pred EEEEECCc-----------------CHHHHHHHHcCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHHHH
Confidence 10 01110 0112222333456788888754332 22334678999999996554
No 74
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.88 E-value=8.1e-05 Score=95.86 Aligned_cols=126 Identities=21% Similarity=0.211 Sum_probs=85.9
Q ss_pred CCCHHHHHHHHHHHhcC-----CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc----CCc
Q 000698 944 SLNDDQRRAIIKVLTAK-----DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ----SID 1014 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~-----d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~----~l~ 1014 (1345)
.|++.|++|+..+.... ...+++|+.|||||.+....+...+..|.++|+++||...+..+.+++.+. +++
T Consensus 261 ~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~ 340 (681)
T PRK10917 261 ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEPLGIR 340 (681)
T ss_pred CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcCcE
Confidence 69999999999988742 257999999999999988777777778999999999999999998887653 333
Q ss_pred EEEEcccchhhHHHHHhhhcccccccHHHHHHhh-c-cccEEEEEecccccccccCCCCCEEEEeCCCCCCH
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL-D-QVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~-~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQite 1084 (1345)
+.-+...... ..-.+....+ . ...|+.+|...+... ..-.++++|||||+.....
T Consensus 341 v~ll~G~~~~--------------~~r~~~~~~l~~g~~~IvVgT~~ll~~~-v~~~~l~lvVIDE~Hrfg~ 397 (681)
T PRK10917 341 VALLTGSLKG--------------KERREILEAIASGEADIVIGTHALIQDD-VEFHNLGLVIIDEQHRFGV 397 (681)
T ss_pred EEEEcCCCCH--------------HHHHHHHHHHhCCCCCEEEchHHHhccc-chhcccceEEEechhhhhH
Confidence 2222111000 0011122222 2 478888876444332 2235789999999976543
No 75
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.87 E-value=7.8e-05 Score=95.27 Aligned_cols=126 Identities=21% Similarity=0.255 Sum_probs=85.3
Q ss_pred CCCHHHHHHHHHHHhcC--C---eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc----CCc
Q 000698 944 SLNDDQRRAIIKVLTAK--D---YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ----SID 1014 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~--d---~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~----~l~ 1014 (1345)
.|++.|++|+..++... + ..+|+|+.|||||.+....+...+..|.++++++||...+..+.+.+.+. +++
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~ 314 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLAPLGIE 314 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhcccCcE
Confidence 69999999999988742 1 47999999999999887777777778999999999999999988777643 333
Q ss_pred EEEEcccchhhHHHHHhhhcccccccHHHHHHhh--ccccEEEEEecccccccccCCCCCEEEEeCCCCCCH
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL--DQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l--~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQite 1084 (1345)
+.-+..... ...-....+.+ ...+||.+|...+... +.-..+++||||||.....
T Consensus 315 v~lltg~~~--------------~~~r~~~~~~i~~g~~~IiVgT~~ll~~~-~~~~~l~lvVIDEaH~fg~ 371 (630)
T TIGR00643 315 VALLTGSLK--------------GKRRKELLETIASGQIHLVVGTHALIQEK-VEFKRLALVIIDEQHRFGV 371 (630)
T ss_pred EEEEecCCC--------------HHHHHHHHHHHhCCCCCEEEecHHHHhcc-ccccccceEEEechhhccH
Confidence 222211000 00011122222 2467888886544332 2235789999999976543
No 76
>PRK02362 ski2-like helicase; Provisional
Probab=97.85 E-value=4.9e-05 Score=98.84 Aligned_cols=124 Identities=15% Similarity=0.048 Sum_probs=85.0
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc---CCcEEEE
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ---SIDFVRI 1018 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~---~l~ilRi 1018 (1345)
...|++.|.+|+...+.....++|.+|.|||||.+....+...+..|.++++++||...+.+...++.+. ++++..+
T Consensus 21 ~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~~~ 100 (737)
T PRK02362 21 IEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRALASEKFEEFERFEELGVRVGIS 100 (737)
T ss_pred CCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHHHHhhcCCCEEEEE
Confidence 3578999999998866667799999999999999876554444457889999999999999998888754 3333222
Q ss_pred cccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccccc----ccCCCCCEEEEeCCCCCCH
Q 000698 1019 GRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPL----LTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1019 G~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~l----l~~~~FD~VIVDEASQite 1084 (1345)
..... . -.+.+...+|+.+|...+..-+ ..-..+++||||||..+..
T Consensus 101 tGd~~----------------~---~~~~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d 151 (737)
T PRK02362 101 TGDYD----------------S---RDEWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDS 151 (737)
T ss_pred eCCcC----------------c---cccccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccCC
Confidence 11100 0 0112345678888864332110 1124689999999987754
No 77
>TIGR03623 probable DNA repair protein. Members of this protein family are bacterial proteins of about 900 amino acids in length. Members show extended homology to proteins in TIGR02786, the AddB protein of double-strand break repair via homologous recombination. Members of this family, therefore, may be DNA repair proteins.
Probab=97.84 E-value=0.0004 Score=92.14 Aligned_cols=177 Identities=21% Similarity=0.252 Sum_probs=97.4
Q ss_pred ccccccccccccCChHHHHHHhcccc-----cc-cchhhhhHHHHHHHHHHhccC-------CCHHHHHHHHHHHHHHhH
Q 000698 453 VSGTRVAASFSCPRRSVLDERLKCSE-----RS-ISALLGTLLHQIFQAGLMKEI-------PTMKFLEEYARLVLQKNI 519 (1345)
Q Consensus 453 IS~T~Va~s~~C~RRaVL~erfk~~~-----~s-~~ml~GtIvHelfQ~al~~~~-------~~~~~L~~~~~~~l~~~l 519 (1345)
.|.|.+-....||-+++++..++..+ .. .++.+||++|++++...+.-. .+.+.+.+++++.+...+
T Consensus 598 ~SvS~Le~~~~CP~~~f~~~~L~l~~~~~~~~~~~~~~~G~l~H~vLe~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 677 (874)
T TIGR03623 598 GGTGLLKAQAACPFRAFAQHRLGARALEEPVDGLDALERGTLVHRVLELFWERLKNQEALNALDEAELEQLIAEAIEEAL 677 (874)
T ss_pred CcHHHHHHHHhChHHHHHHHhcCCCCCCccccCCChhHhHHHHHHHHHHHHHHhhchhhhhhCCHHHHHHHHHHHHHHHH
Confidence 57899999999999999999988543 22 377899999999999874311 234444444444444333
Q ss_pred HHH---HhcCCCHHHHHHHH-HHHHHHHH-HHHHHhcccCCCCCCccccCCCCccccccchhhhhhhhc--ccccCCcee
Q 000698 520 ESL---YACGVNENDIHKTL-VEAIPKML-NWIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEMA--WAPKYGLKG 592 (1345)
Q Consensus 520 ~~L---y~~~~~~~~~~~~l-~~~~p~i~-~w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEnI--wSp~~GLKG 592 (1345)
... +....+. ...++ ...+..+. .|+..-... .. |. +...|..+ =-+.+-|+|
T Consensus 678 ~~~~~~~~~~~~~--~~~~~~~~rl~~~~~~~l~~e~~r----~~---f~-----------~~~~E~~~~~~~~~~~l~G 737 (874)
T TIGR03623 678 AEERARHSQTFPE--RFLELEQERLLQLLLEWLELERKR----PP---FE-----------VVATEQNHSIEIGGLELKL 737 (874)
T ss_pred HHhhhhccccccH--HHHHHHHHHHHHHHHHHHHhhccC----CC---Cc-----------eEEEeeeecceecCEEEEE
Confidence 322 1111221 12222 22233322 333222110 00 10 11122211 013477999
Q ss_pred eeceEEEEeeecccccCCCeEEEEEEecCCCCCCCCChh---hHHHHHHHHHHHHHhhcCCCCeeEEEEe-ccCc
Q 000698 593 MIDASIRVKIESKRNEINGMILPLEFKTGKIPNGQSSME---HRAQVILYTLLMSERYLKHIDSGLLYYL-QSDQ 663 (1345)
Q Consensus 593 kID~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~~~~~~---H~~Ql~lY~LLl~ery~~~v~~GlL~Y~-k~~~ 663 (1345)
+||-+=.. . ++..+-++||||+.+.. .+.. ...|+.+|+++. + ....|.+||. +.++
T Consensus 738 rIDRID~~---~-----dg~~~VIDYKTG~~~~~-~~~g~~~~~~QL~lYa~a~----~-~~~ag~~y~~v~~~~ 798 (874)
T TIGR03623 738 RIDRIDRL---A-----DGSRLIIDYKTGAPSVK-DWLGERPVEPQLPLYALLA----E-DEVAGVAFAQVRAGK 798 (874)
T ss_pred EEEeeeec---C-----CCCEEEEEeCCCCCCcc-hhhhccccCChHHHHHHhc----C-CCCceEEEEEEeCCC
Confidence 99976322 1 23456899999997532 1221 369999999982 2 2356766655 4443
No 78
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=97.80 E-value=0.0002 Score=94.43 Aligned_cols=125 Identities=19% Similarity=0.211 Sum_probs=83.4
Q ss_pred CCCHHHHHHHHHHHhcC-----CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc----CCc
Q 000698 944 SLNDDQRRAIIKVLTAK-----DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ----SID 1014 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~-----d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~----~l~ 1014 (1345)
.+++.|++||..++... .-.+|+|+.|||||.+.+..+...+..|.++++++||...+....+.+.+. ++.
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~ 530 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFANFPVT 530 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhccCCcE
Confidence 58999999999998731 247999999999999988777666778999999999999999988776653 222
Q ss_pred EEEEcccchhhHHHHHhhhcccccccHHHHHHhh--ccccEEEEEecccccccccCCCCCEEEEeCCCCCC
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL--DQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l--~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQit 1083 (1345)
+.-+.... .......+.+.+ ...+||.+|...+. ..+.-.++.++||||++...
T Consensus 531 v~~Lsg~~--------------~~~e~~~~~~~l~~g~~dIVIGTp~ll~-~~v~f~~L~llVIDEahrfg 586 (926)
T TIGR00580 531 IELLSRFR--------------SAKEQNEILKELASGKIDILIGTHKLLQ-KDVKFKDLGLLIIDEEQRFG 586 (926)
T ss_pred EEEEeccc--------------cHHHHHHHHHHHHcCCceEEEchHHHhh-CCCCcccCCEEEeecccccc
Confidence 22221100 000111112222 24678888864332 22233578999999997653
No 79
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.76 E-value=0.00019 Score=96.52 Aligned_cols=125 Identities=17% Similarity=0.151 Sum_probs=82.8
Q ss_pred CCCHHHHHHHHHHHhcC-----CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc----CCc
Q 000698 944 SLNDDQRRAIIKVLTAK-----DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ----SID 1014 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~-----d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~----~l~ 1014 (1345)
.+++.|++||..++... .-.+++|+.|||||.++...+...+..|.+||+++||...+..+...+.+. ++.
T Consensus 600 ~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~ 679 (1147)
T PRK10689 600 ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFANWPVR 679 (1147)
T ss_pred CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhhccCCce
Confidence 68999999999988741 358999999999999987776666778999999999999999887766542 222
Q ss_pred EEEEcccchhhHHHHHhhhcccccccHHHHHHhh--ccccEEEEEecccccccccCCCCCEEEEeCCCCCC
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL--DQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l--~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQit 1083 (1345)
+.-+..... ...-..+.+.+ ...+||.+|...+. ..+.-.+++++||||+....
T Consensus 680 i~~l~g~~s--------------~~e~~~il~~l~~g~~dIVVgTp~lL~-~~v~~~~L~lLVIDEahrfG 735 (1147)
T PRK10689 680 IEMLSRFRS--------------AKEQTQILAEAAEGKIDILIGTHKLLQ-SDVKWKDLGLLIVDEEHRFG 735 (1147)
T ss_pred EEEEECCCC--------------HHHHHHHHHHHHhCCCCEEEECHHHHh-CCCCHhhCCEEEEechhhcc
Confidence 111100000 00001111112 24678888864332 22233579999999997654
No 80
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=97.76 E-value=8.7e-05 Score=99.98 Aligned_cols=129 Identities=19% Similarity=0.168 Sum_probs=85.1
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc----CCcEEEEc
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ----SIDFVRIG 1019 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~----~l~ilRiG 1019 (1345)
.+.+-|+.++..++... -++++||.|||||+.+.-++..+...|.++|+++||...+..+.+++... ++....++
T Consensus 78 ~p~~iQ~~~i~~il~G~-d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~ 156 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGD-SFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIG 156 (1171)
T ss_pred CCcHHHHHHHHHHhCCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeee
Confidence 57889999999998865 56789999999998776666666667899999999999999998887653 33333332
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhh--ccccEEEEEecccccccccC-CCCCEEEEeCCCCCCH
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRL--DQVKVVAVTCLGITNPLLTD-KKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l--~~~~VV~tT~~~~~~~ll~~-~~FD~VIVDEASQite 1084 (1345)
.... ......-++..+.+ ...+|+.+|...+....... ..|+++|||||..+..
T Consensus 157 ~~~G-----------g~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~l~~~~~~iVvDEaD~~L~ 213 (1171)
T TIGR01054 157 AYHS-----------RLPTKEKKEFMERIENGDFDILITTTMFLSKNYDELGPKFDFIFVDDVDALLK 213 (1171)
T ss_pred eecC-----------CCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHHhcCCCCEEEEeChHhhhh
Confidence 1100 00000111111222 23788888876554322111 2899999999966643
No 81
>COG4343 CRISPR-associated protein, RecB family exonuclease [Defense mechanisms]
Probab=97.76 E-value=0.0014 Score=72.55 Aligned_cols=98 Identities=21% Similarity=0.266 Sum_probs=77.3
Q ss_pred hhhhhcccccCCceeee--ceEEEEeeecccccCCCeEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeE
Q 000698 578 DIEEMAWAPKYGLKGMI--DASIRVKIESKRNEINGMILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGL 655 (1345)
Q Consensus 578 DIEEnIwSp~~GLKGkI--D~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~Gl 655 (1345)
-+|-++=-.=+||.|-+ |+++ ..-+-+|+|+|+. ...|+.=++.|+|-+|.-++.+|++|+
T Consensus 157 ~vE~~vDGspLGlS~lv~~D~~~------------~l~vv~elKvG~~-----~e~hrLalAGYAlAiEa~~eiPVD~G~ 219 (281)
T COG4343 157 LVEFNVDGSPLGLSDLVRVDALV------------GLPVVVELKVGSY-----REVHRLALAGYALAIEADTEIPVDYGV 219 (281)
T ss_pred EEEecCCCCcccccceecchhhc------------cCceEEEEeccch-----hHHHHHHHhhhHhhhhhhhcCCcceeE
Confidence 35556655668888654 4432 1346799999986 678999999999999999999999999
Q ss_pred EEEeccCc-----eeeeeCChhHHHHHHHHHHHHHHHHHhcc
Q 000698 656 LYYLQSDQ-----TQGVMVQRSDLVGLIMRRNEFANDIIKAS 692 (1345)
Q Consensus 656 L~Y~k~~~-----~~~V~~~~~elr~li~~RN~la~~i~~~s 692 (1345)
|.|..-+. ...+.+..+-+.+.+..|++.+..+...+
T Consensus 220 li~vtvN~~vk~~~~l~~i~d~lRseFLe~RD~~~div~~g~ 261 (281)
T COG4343 220 LISVTVNSGVKIKARLVYIDDSLRSEFLEERDRVADIVEYGS 261 (281)
T ss_pred EEEEEEcCceeEEEEEEEcChHHHHHHHHHHHHHHHHHHcCC
Confidence 99996543 34677878888899999999999887644
No 82
>PRK00254 ski2-like helicase; Provisional
Probab=97.75 E-value=0.00013 Score=94.60 Aligned_cols=124 Identities=14% Similarity=0.090 Sum_probs=85.0
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHH-HHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc---CCcEEE
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTM-VHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ---SIDFVR 1017 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttI-a~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~---~l~ilR 1017 (1345)
...|++-|.+|+...+.....++|.+|.|||||.+. ..+++.+...+.++++++|+...++....++... ++++..
T Consensus 21 ~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~~~~~g~~v~~ 100 (720)
T PRK00254 21 IEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKDWEKLGLRVAM 100 (720)
T ss_pred CCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHHHhhcCCEEEE
Confidence 357899999999876666678999999999999988 4566667767889999999999999998877642 333322
Q ss_pred EcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc----ccccCCCCCEEEEeCCCCCCH
Q 000698 1018 IGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN----PLLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1018 iG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~----~ll~~~~FD~VIVDEASQite 1084 (1345)
+.... ..- .+.+...+|+.+|...+.. ....-...++|||||+..+..
T Consensus 101 ~~Gd~----------------~~~---~~~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~~ 152 (720)
T PRK00254 101 TTGDY----------------DST---DEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGS 152 (720)
T ss_pred EeCCC----------------CCc---hhhhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCccCC
Confidence 21100 000 1223556788888543321 000124689999999987653
No 83
>PTZ00110 helicase; Provisional
Probab=97.73 E-value=0.0021 Score=81.09 Aligned_cols=123 Identities=13% Similarity=0.120 Sum_probs=79.1
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHh-------cCCeEEEEeccHHHHHHHHHHHhhcCC
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLM-------RGASILLTSYTNSAVDNLLIKLKSQSI 1013 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~-------~gkkVLvtA~TnsAVDnLl~kL~~~~l 1013 (1345)
...+++-|.+|+..++... -+++.++.|||||.+.+ -++..+.. .|..+|+++||...+..+.+.+.+.+.
T Consensus 150 ~~~pt~iQ~~aip~~l~G~-dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~ 228 (545)
T PTZ00110 150 FTEPTPIQVQGWPIALSGR-DMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGA 228 (545)
T ss_pred CCCCCHHHHHHHHHHhcCC-CEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHhc
Confidence 4678999999999998865 56788999999998632 23333332 256799999999999998877765431
Q ss_pred ----cEE-EEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc----cccccCCCCCEEEEeCCCCC
Q 000698 1014 ----DFV-RIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT----NPLLTDKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1014 ----~il-RiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~----~~ll~~~~FD~VIVDEASQi 1082 (1345)
... ..|. ..............+|+.+|...+. .......+++++|||||-.+
T Consensus 229 ~~~i~~~~~~gg-----------------~~~~~q~~~l~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~lViDEAd~m 289 (545)
T PTZ00110 229 SSKIRNTVAYGG-----------------VPKRGQIYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRM 289 (545)
T ss_pred ccCccEEEEeCC-----------------CCHHHHHHHHHcCCCEEEECHHHHHHHHHcCCCChhhCcEEEeehHHhh
Confidence 111 1111 1111222333445678888874332 12223357899999999543
No 84
>PRK04296 thymidine kinase; Provisional
Probab=97.71 E-value=7.7e-05 Score=81.19 Aligned_cols=35 Identities=20% Similarity=0.350 Sum_probs=31.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..+|.|+||+||||.+..++..+...|++|++..+
T Consensus 4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 67899999999999999999999889999998843
No 85
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.69 E-value=0.00018 Score=96.51 Aligned_cols=123 Identities=24% Similarity=0.235 Sum_probs=84.7
Q ss_pred CCCCHHHHHHHHHHHh----cCCeEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEeccHHHHHHHHHHHhhcCCcEE
Q 000698 943 KSLNDDQRRAIIKVLT----AKDYALILGMPGTGKTSTMVHAVKALLMR--GASILLTSYTNSAVDNLLIKLKSQSIDFV 1016 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~----~~d~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA~TnsAVDnLl~kL~~~~l~il 1016 (1345)
..|-+.|.+||..+.. ...-.+|..+.|||||.|++.++..|.+. .++||++++++..++.....+...++.-.
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~~ 491 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEGD 491 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcccccc
Confidence 3578899999987763 23468999999999999999999888765 47999999999999999988776542111
Q ss_pred -EEcccchhhHHHHHhhhcccccccHHHHHHh--hccccEEEEEeccccccc---------ccCCCCCEEEEeCCCCC
Q 000698 1017 -RIGRHEVVHKEIQKHCLSAMNINSVEEIKKR--LDQVKVVAVTCLGITNPL---------LTDKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1017 -RiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~--l~~~~VV~tT~~~~~~~l---------l~~~~FD~VIVDEASQi 1082 (1345)
.... ..+...+.+. -.+.+|+.+|..++.... +.-..||+||||||...
T Consensus 492 ~~~~~-----------------i~~i~~L~~~~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs 552 (1123)
T PRK11448 492 QTFAS-----------------IYDIKGLEDKFPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRG 552 (1123)
T ss_pred cchhh-----------------hhchhhhhhhcccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCC
Confidence 0000 0011111111 134678888887653322 23357999999999875
No 86
>PRK01172 ski2-like helicase; Provisional
Probab=97.66 E-value=9.5e-05 Score=95.34 Aligned_cols=119 Identities=17% Similarity=0.127 Sum_probs=79.9
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc---CCcEE-EEc
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ---SIDFV-RIG 1019 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~---~l~il-RiG 1019 (1345)
.|++.|++|+..+.. ...++|.+|.|||||.+....+...+..+.++++++|+...+++..+.+.+. +..+. ..|
T Consensus 22 ~l~~~Q~~ai~~l~~-~~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~l~~~g~~v~~~~G 100 (674)
T PRK01172 22 ELYDHQRMAIEQLRK-GENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSRLRSLGMRVKISIG 100 (674)
T ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHHHhhcCCeEEEEeC
Confidence 489999999998655 5689999999999999876555555556889999999999999888776532 33221 112
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc----ccccCCCCCEEEEeCCCCCC
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN----PLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~----~ll~~~~FD~VIVDEASQit 1083 (1345)
.... . .+.+...+++.+|...+.. ....-..+++||||||..+.
T Consensus 101 ~~~~-----------------~---~~~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~ 148 (674)
T PRK01172 101 DYDD-----------------P---PDFIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIG 148 (674)
T ss_pred CCCC-----------------C---hhhhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhcc
Confidence 1110 0 1123456777777633211 11112478999999998775
No 87
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=97.65 E-value=4.4e-05 Score=96.90 Aligned_cols=374 Identities=23% Similarity=0.246 Sum_probs=214.5
Q ss_pred CCCCHHHHHHHHHHHh----cCCeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhhc----CC
Q 000698 943 KSLNDDQRRAIIKVLT----AKDYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKSQ----SI 1013 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~----~~d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~~----~l 1013 (1345)
..++..|..++.+..- .....++.|+ |+|+|..++.-+..+... -.+++++.+++.|+|.....+... +.
T Consensus 119 ~~~~~~~~~~l~~~~~~~l~e~~P~L~~G~-~~~~~~~~~~~~~~~~~~~~~k~~~~l~~~~~~~~~ir~y~~~~v~~~~ 197 (775)
T KOG1804|consen 119 PRLNALQKGALLAITVPLLRELPPSLLIGP-GTGETLELAQAVKSLLQQEEAKILILLHSESAADIYIREYLHPYVEEGL 197 (775)
T ss_pred hhhhhhhcccccceeccccccCCcccccCC-ccccceeecchhhcccccccccceEeechhHHHHHHHHHhhcccccccc
Confidence 4566677666644332 2236788888 999999988777766543 568999999999966655443221 11
Q ss_pred cE---EEEcc----cchhhHHHHHhhhcccccccH--HHHHHhhccccEEEEEecccc-c--ccccCCCCCEEEEeCCCC
Q 000698 1014 DF---VRIGR----HEVVHKEIQKHCLSAMNINSV--EEIKKRLDQVKVVAVTCLGIT-N--PLLTDKKFDVCIMDEAGQ 1081 (1345)
Q Consensus 1014 ~i---lRiG~----~~~v~~~v~~~~l~~~~~~s~--~~i~~~l~~~~VV~tT~~~~~-~--~ll~~~~FD~VIVDEASQ 1081 (1345)
+. .|.-. ....++-+.++++-.....+. ......+. .+|+..|..... . --.....|.+.+.|||.+
T Consensus 198 ~~~~~~r~~~~~r~l~~~~pvv~~~~~if~~~~~~~~pq~~~~~~-Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae 276 (775)
T KOG1804|consen 198 PEATPLRVYSRKRPLAQVNPVVLQYCFIFDSHITFRRPQVEDLFK-HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQ 276 (775)
T ss_pred cccccccceeecccccccCCceeeeeeeccchhhhccchhhhhcc-cceeEeecceeecccccCCCCCceeeeeHHHHHh
Confidence 11 12221 122233333333211110000 11222233 666666655433 1 112346799999999999
Q ss_pred CCHHHHhhhhcc---cCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhC---CcceecccccccCchhHHHHHHH
Q 000698 1082 TTLPVSLGPLMF---ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEH---PQAISALQSQYRMCQGIMELSNA 1155 (1345)
Q Consensus 1082 itep~~L~pL~~---a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~---p~~v~~Lt~QYRm~~eI~~lsN~ 1155 (1345)
..+...+.|+.+ +.+++|.||+.||-|.+.+..+....+. .+-.++..-+ ...-+-.+.|||.+-.+..+...
T Consensus 277 ~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~~~-~~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~ 355 (775)
T KOG1804|consen 277 AMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQALH-LLLCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSP 355 (775)
T ss_pred cCCceeecccccCCCCceeeecccccccccchhhhhhhhhhhh-hcccccccccccccCCCcCCccchHHHHHHHHhcch
Confidence 999999999765 5789999999999999877766554443 2222222211 11233579999999999999999
Q ss_pred hhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHHCC
Q 000698 1156 LIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNE 1235 (1345)
Q Consensus 1156 lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~g 1235 (1345)
.+|......... + ... . . .+. ..+..|-.....+.. ........|..|...++.-++.+.+..
T Consensus 356 ~~~il~~~p~~a--~-~k~--~----~----~rl---~~p~~~~~~~~~~~~-~~~~~~~~~~~~v~~~~~~~e~~~~~~ 418 (775)
T KOG1804|consen 356 HFYILVCAPSNA--S-GKQ--P----A----HRL---HYPLTFSTARGEDVR-AKSSTAWYNNAEVSEVVEKVEELRKVW 418 (775)
T ss_pred HHHhhccccccc--c-ccc--c----c----ccc---ccccccccccccccc-ccchhHHhhhHHHHHHHHHHHHHhhcc
Confidence 998653321110 0 000 0 0 000 123333322211111 112223344555555555555554321
Q ss_pred ------CCCCcEEEEecChHHHHHHHHHcC-CCCcEEEeccCccccccC---EEEEEccCCCCCC---CCcccccccccc
Q 000698 1236 ------IEGKDIGIITPYNSQANLIRHSLS-VSSVEIHTIDKYQGRDKD---CILVSFVRSSENP---RNCTSSLLGDWH 1302 (1345)
Q Consensus 1236 ------v~~~dIGVITPYraQv~lIr~~L~-~~~VeV~TVD~fQGrEkd---vVIIS~vrsn~~~---~~~~~~fL~d~r 1302 (1345)
.....+|.+++|..|+..++..+. ..++.+.-.---+|..+- .|+++.....-.+ ......+.-++.
T Consensus 419 ~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rs 498 (775)
T KOG1804|consen 419 PYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRS 498 (775)
T ss_pred ceEEEEeeccceeeeecccccccceeeeeecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHH
Confidence 224568999999999999888774 233433333333443333 6777765543221 111234445688
Q ss_pred hhhHhhhhcccceEEEeecchhccChhHHHHHHH
Q 000698 1303 RINVALTRAKKKLIMVGSCRTLSKVPLLKLLINK 1336 (1345)
Q Consensus 1303 RLNVAlTRAK~kLIIVGs~~tL~~~~~~~~li~~ 1336 (1345)
.++.|+|||-...-.+|+...+...+..+++-++
T Consensus 499 Ller~l~r~~~~~~~~g~~~~l~~t~l~rnyrsh 532 (775)
T KOG1804|consen 499 LLERALTRAQSLVAVVGDYNALCSTGLCRNYRSH 532 (775)
T ss_pred HHHHHHHHHhhccccCCCcccccchhhHHHHhhh
Confidence 8999999999999999999888876655555443
No 88
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.65 E-value=0.00024 Score=96.74 Aligned_cols=136 Identities=18% Similarity=0.212 Sum_probs=92.5
Q ss_pred CCCCHHHHHHHHHHHhcCC-eEEEEccCC-CChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcc
Q 000698 943 KSLNDDQRRAIIKVLTAKD-YALILGMPG-TGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGR 1020 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d-~~LI~GpPG-TGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~ 1020 (1345)
..++..|..|+..++...+ +.+|.|..| ||||+++..++..+-.+|++|.++|+|+.|+..|.+. .++
T Consensus 280 ~~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~~G~~V~~lApt~~a~~~L~e~---~gi------- 349 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQD---ERL------- 349 (1623)
T ss_pred cccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHHHHhCCcEEEEEeCCHHHHHHHHhc---cCC-------
Confidence 3468899999999997665 445555555 9999999999999999999999999999999988643 111
Q ss_pred cchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhc----ccCe
Q 000698 1021 HEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLM----FASK 1096 (1345)
Q Consensus 1021 ~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~----~a~k 1096 (1345)
.+....++..+ +. ..-+. .=+++|||||++++.-+.+..+. .+.|
T Consensus 350 -------------~a~Tva~~~~~---l~-------------~~~~~--~~~ilIVDEA~~Ls~rdm~~Ll~~A~~~gar 398 (1623)
T PRK14712 350 -------------SGELITGRRQL---LE-------------GMAFT--PGSTVIVDQGEKLSLKETLTLLDGAARHNVQ 398 (1623)
T ss_pred -------------Cchhhhhhhhh---hc-------------ccCCC--CCcEEEEECCCcCCHHHHHHHHHHHHhcCCE
Confidence 11111111000 00 00111 22899999999999888765554 3567
Q ss_pred EEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhC
Q 000698 1097 FVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEH 1132 (1345)
Q Consensus 1097 ~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~ 1132 (1345)
|++||.+|+. + .| ..|.-|.+..
T Consensus 399 -VllgD~~Q~~-------a--AG---~af~~Lq~aG 421 (1623)
T PRK14712 399 -VLITDSGQRT-------G--TG---SALMAMKDAG 421 (1623)
T ss_pred -EEEEechhhh-------h--cc---cHHHHHHHcC
Confidence 7788999941 1 23 5777777654
No 89
>PRK14974 cell division protein FtsY; Provisional
Probab=97.64 E-value=0.00035 Score=82.51 Aligned_cols=57 Identities=23% Similarity=0.369 Sum_probs=43.1
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe-cc--HHHHHHHHHHHhhcCCcEEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTS-YT--NSAVDNLLIKLKSQSIDFVR 1017 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA-~T--nsAVDnLl~kL~~~~l~ilR 1017 (1345)
...++.|+||+|||||++.++..|...|.+|++++ .| ..|++.+.......+++++.
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~ 200 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIK 200 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceec
Confidence 36789999999999999999999988888886654 33 56667766555555665543
No 90
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.64 E-value=0.00016 Score=83.82 Aligned_cols=154 Identities=24% Similarity=0.245 Sum_probs=79.3
Q ss_pred cccCCCCCHHHHHHHHHHHhcC-CeEEEEccCCCChHHHHHH-HHHHHHhc--CCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 939 IWSEKSLNDDQRRAIIKVLTAK-DYALILGMPGTGKTSTMVH-AVKALLMR--GASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 939 ~~~~~~LN~eQ~~AI~~~l~~~-d~~LI~GpPGTGKTttIa~-lI~~Ll~~--gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
.|-....|.+|+-|++..+..+ +.+-+.|.||||||-++.. -+.+-..+ ..+|+|+-++-.--.. +.
T Consensus 223 vwGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~d---------IG 293 (436)
T COG1875 223 VWGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGED---------IG 293 (436)
T ss_pred hhccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccc---------cC
Confidence 4667789999999998877642 3677889999999976532 22222222 4577777664321111 11
Q ss_pred EEEEcccchhhHHHHHh------hhcccccccHHHHHHhhccccEEEEEecccccccccCC--CCCEEEEeCCCCCCHHH
Q 000698 1015 FVRIGRHEVVHKEIQKH------CLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDK--KFDVCIMDEAGQTTLPV 1086 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~------~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~--~FD~VIVDEASQitep~ 1086 (1345)
|+-=-..+++.+=++.. ..+.... .-..+...+....+-.....- ++.+ .=.+|||||||-.+.-+
T Consensus 294 fLPG~eEeKm~PWmq~i~DnLE~L~~~~~~-~~~~l~~~l~~~~iev~alt~-----IRGRSl~~~FiIIDEaQNLTphe 367 (436)
T COG1875 294 FLPGTEEEKMGPWMQAIFDNLEVLFSPNEP-GDRALEEILSRGRIEVEALTY-----IRGRSLPDSFIIIDEAQNLTPHE 367 (436)
T ss_pred cCCCchhhhccchHHHHHhHHHHHhccccc-chHHHHHHHhccceeeeeeee-----ecccccccceEEEehhhccCHHH
Confidence 11100111222211111 1111111 122333444433332221111 1122 23689999996555544
Q ss_pred Hhhhhcc---cCeEEEEcCCCCCC
Q 000698 1087 SLGPLMF---ASKFVLVGDHYQLP 1107 (1345)
Q Consensus 1087 ~L~pL~~---a~k~VLVGDh~QLP 1107 (1345)
..-.+.+ +.|+|+.||+.|.-
T Consensus 368 ikTiltR~G~GsKIVl~gd~aQiD 391 (436)
T COG1875 368 LKTILTRAGEGSKIVLTGDPAQID 391 (436)
T ss_pred HHHHHHhccCCCEEEEcCCHHHcC
Confidence 4333433 67999999999943
No 91
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.64 E-value=0.00039 Score=84.71 Aligned_cols=126 Identities=15% Similarity=0.066 Sum_probs=79.7
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHH-HHHHHHh---------cCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVH-AVKALLM---------RGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~-lI~~Ll~---------~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
...+++-|++|+..++.. .-.++++|.|||||.+.+. ++..+.. .+.++|++++|...+..+.+.+...
T Consensus 28 ~~~pt~iQ~~aip~il~g-~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~l 106 (423)
T PRK04837 28 FHNCTPIQALALPLTLAG-RDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEPL 106 (423)
T ss_pred CCCCCHHHHHHHHHHhCC-CcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHHH
Confidence 356789999999998876 4588999999999987543 3333432 2357999999999999886654432
Q ss_pred ----CCcEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc----cccccCCCCCEEEEeCCCCCC
Q 000698 1012 ----SIDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT----NPLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1012 ----~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~----~~ll~~~~FD~VIVDEASQit 1083 (1345)
++.+.-+...... .......-...+|+.+|...+. ...+....+.++|||||..+.
T Consensus 107 ~~~~~~~v~~~~gg~~~----------------~~~~~~l~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~lViDEad~l~ 170 (423)
T PRK04837 107 AQATGLKLGLAYGGDGY----------------DKQLKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMF 170 (423)
T ss_pred hccCCceEEEEECCCCH----------------HHHHHHhcCCCCEEEECHHHHHHHHHcCCcccccccEEEEecHHHHh
Confidence 3332222111110 0111122234678888875442 223344678999999996654
Q ss_pred H
Q 000698 1084 L 1084 (1345)
Q Consensus 1084 e 1084 (1345)
.
T Consensus 171 ~ 171 (423)
T PRK04837 171 D 171 (423)
T ss_pred h
Confidence 3
No 92
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.60 E-value=0.00044 Score=88.42 Aligned_cols=141 Identities=18% Similarity=0.176 Sum_probs=92.2
Q ss_pred CCCCHHHHHHHHHHHhcC--CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc-CCcEEEEc
Q 000698 943 KSLNDDQRRAIIKVLTAK--DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ-SIDFVRIG 1019 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~--d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG 1019 (1345)
..|=+.|++|+.+.+... +-.+|.-|+|+|||.+.+.++..+ ++++||+++|..++++-...+.+. .++-..++
T Consensus 254 ~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l---~k~tLILvps~~Lv~QW~~ef~~~~~l~~~~I~ 330 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV---KKSCLVLCTSAVSVEQWKQQFKMWSTIDDSQIC 330 (732)
T ss_pred CCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh---CCCEEEEeCcHHHHHHHHHHHHHhcCCCCceEE
Confidence 467889999999988643 357999999999999998887765 578999999999999988877653 22212222
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc------------ccccCCCCCEEEEeCCCCCCHHHH
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN------------PLLTDKKFDVCIMDEAGQTTLPVS 1087 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~------------~ll~~~~FD~VIVDEASQitep~~ 1087 (1345)
... ..... .......|+.+|...+.+ ..+....|++||+|||..+..+.+
T Consensus 331 ~~t------------g~~k~------~~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA~~f 392 (732)
T TIGR00603 331 RFT------------SDAKE------RFHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPAAMF 392 (732)
T ss_pred EEe------------cCccc------ccccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccHHHH
Confidence 100 00000 011235678888765532 124456899999999998876665
Q ss_pred hhhh---cccCeEEEEcCCC
Q 000698 1088 LGPL---MFASKFVLVGDHY 1104 (1345)
Q Consensus 1088 L~pL---~~a~k~VLVGDh~ 1104 (1345)
-..+ ....++-|-|=+.
T Consensus 393 r~il~~l~a~~RLGLTATP~ 412 (732)
T TIGR00603 393 RRVLTIVQAHCKLGLTATLV 412 (732)
T ss_pred HHHHHhcCcCcEEEEeecCc
Confidence 3222 2233555554443
No 93
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.58 E-value=0.0043 Score=77.79 Aligned_cols=123 Identities=15% Similarity=0.118 Sum_probs=77.7
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHh---------cCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLM---------RGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~---------~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
...+++-|.+|+..++.. .-+++.++.|||||..-. -++..+.. .+.++|++++|...+..+...+...
T Consensus 141 ~~~ptpiQ~~aip~il~g-~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l 219 (518)
T PLN00206 141 YEFPTPIQMQAIPAALSG-RSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVL 219 (518)
T ss_pred CCCCCHHHHHHHHHHhcC-CCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHH
Confidence 467899999999998874 579999999999997532 33333321 3568999999999988776555432
Q ss_pred ----CCcEE-EEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc----cccccCCCCCEEEEeCCCCC
Q 000698 1012 ----SIDFV-RIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT----NPLLTDKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1012 ----~l~il-RiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~----~~ll~~~~FD~VIVDEASQi 1082 (1345)
++... -.|.. . ....+........|+.+|...+. ...+.-...+++|||||..+
T Consensus 220 ~~~~~~~~~~~~gG~-~----------------~~~q~~~l~~~~~IiV~TPgrL~~~l~~~~~~l~~v~~lViDEad~m 282 (518)
T PLN00206 220 GKGLPFKTALVVGGD-A----------------MPQQLYRIQQGVELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCM 282 (518)
T ss_pred hCCCCceEEEEECCc-c----------------hHHHHHHhcCCCCEEEECHHHHHHHHHcCCccchheeEEEeecHHHH
Confidence 11111 11210 0 11122233345678888864332 22233457899999999544
No 94
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.57 E-value=0.0001 Score=92.67 Aligned_cols=120 Identities=25% Similarity=0.261 Sum_probs=83.1
Q ss_pred CCCCHHHHHHHHHHHhc----CCeEEEEccCCCChHHHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhhcCCcEE
Q 000698 943 KSLNDDQRRAIIKVLTA----KDYALILGMPGTGKTSTMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKSQSIDFV 1016 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~----~d~~LI~GpPGTGKTttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~~~l~il 1016 (1345)
..+-..|..||.++..+ ..-+||.=.+|||||.|+..+|..|.+.| ||||.+|-.+..++.......+.-.
T Consensus 164 i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P--- 240 (875)
T COG4096 164 IGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLP--- 240 (875)
T ss_pred ccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCC---
Confidence 45677899999887764 34588888999999999999999999976 7999999999999998876654321
Q ss_pred EEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccc---------cccCCCCCEEEEeCCCCCC
Q 000698 1017 RIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNP---------LLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1017 RiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~---------ll~~~~FD~VIVDEASQit 1083 (1345)
.......++ -+....+.+|..+|+..+... -+....||.||||||....
T Consensus 241 -----------------~~~~~n~i~-~~~~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRgi 298 (875)
T COG4096 241 -----------------FGTKMNKIE-DKKGDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRGI 298 (875)
T ss_pred -----------------Cccceeeee-cccCCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhhH
Confidence 000000000 001111457777777654322 2445689999999996543
No 95
>PRK09401 reverse gyrase; Reviewed
Probab=97.57 E-value=0.00037 Score=93.99 Aligned_cols=126 Identities=20% Similarity=0.184 Sum_probs=85.0
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCC----cEEE-E
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSI----DFVR-I 1018 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l----~ilR-i 1018 (1345)
.+++-|+.++..++.. .-+++.+|.|||||+.+.-++..+...|.++|+++||...|..+.+++...+. ...- .
T Consensus 80 ~pt~iQ~~~i~~il~g-~dv~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~ 158 (1176)
T PRK09401 80 KPWSLQRTWAKRLLLG-ESFAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILY 158 (1176)
T ss_pred CCcHHHHHHHHHHHCC-CcEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEE
Confidence 5788999999998875 56788899999999876666666666789999999999999999999876532 1111 1
Q ss_pred cccchhhHHHHHhhhcccccccHHHHHHhh--ccccEEEEEecccccc--cccCCCCCEEEEeCCCCCC
Q 000698 1019 GRHEVVHKEIQKHCLSAMNINSVEEIKKRL--DQVKVVAVTCLGITNP--LLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1019 G~~~~v~~~v~~~~l~~~~~~s~~~i~~~l--~~~~VV~tT~~~~~~~--ll~~~~FD~VIVDEASQit 1083 (1345)
|+.. + .....++..+.+ ...+|+.+|...+.+. .+....|+++|||||-.+.
T Consensus 159 g~~~-~------------~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~~l~~~~~~~lVvDEaD~~L 214 (1176)
T PRK09401 159 YHSS-L------------KKKEKEEFLERLKEGDFDILVTTSQFLSKNFDELPKKKFDFVFVDDVDAVL 214 (1176)
T ss_pred ccCC-c------------chhHHHHHHHHHhcCCCCEEEECHHHHHHHHHhccccccCEEEEEChHHhh
Confidence 1100 0 000112222223 2468888887544322 2445579999999995443
No 96
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.56 E-value=0.00029 Score=80.80 Aligned_cols=118 Identities=22% Similarity=0.320 Sum_probs=85.2
Q ss_pred ccccCCCCCHHHHHHHHHHHh---cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc--C
Q 000698 938 YIWSEKSLNDDQRRAIIKVLT---AKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ--S 1012 (1345)
Q Consensus 938 ~~~~~~~LN~eQ~~AI~~~l~---~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~--~ 1012 (1345)
+......|++.|+.|-...+. .+.-.+|++..|+|||..+-..|...+.+|.+|.+.++--.-+-+|..||.+. +
T Consensus 91 ~L~W~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~~ 170 (441)
T COG4098 91 VLQWKGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFSN 170 (441)
T ss_pred eeeeccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhcc
Confidence 444578999999988766554 45689999999999999999999999999999999999888888888888753 2
Q ss_pred CcEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccccccc-CCCCCEEEEeCCCCCC
Q 000698 1013 IDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLT-DKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1013 l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~-~~~FD~VIVDEASQit 1083 (1345)
.++.-+-.. + ..... +++|.+|.+. +++ ...||++||||. ++.
T Consensus 171 ~~I~~Lyg~------------------S----~~~fr-~plvVaTtHQ----LlrFk~aFD~liIDEV-DAF 214 (441)
T COG4098 171 CDIDLLYGD------------------S----DSYFR-APLVVATTHQ----LLRFKQAFDLLIIDEV-DAF 214 (441)
T ss_pred CCeeeEecC------------------C----chhcc-ccEEEEehHH----HHHHHhhccEEEEecc-ccc
Confidence 233222110 0 01122 5566666543 332 358999999999 443
No 97
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.56 E-value=0.0003 Score=87.65 Aligned_cols=104 Identities=20% Similarity=0.328 Sum_probs=73.0
Q ss_pred EEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc-CCcEEEEcccchhhHHHHHhhhcccccccHH
Q 000698 964 LILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ-SIDFVRIGRHEVVHKEIQKHCLSAMNINSVE 1042 (1345)
Q Consensus 964 LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~ 1042 (1345)
|++|+.|||||.+...++...+..|+++|+++|+...+..+.+++.+. +.++..+.+. +. .....+
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~--~~-----------~~er~~ 67 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSG--LS-----------DSEKLQ 67 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECC--CC-----------HHHHHH
Confidence 578999999999999999988899999999999999999999998753 4333333111 00 001122
Q ss_pred HHHHhh-ccccEEEEEecccccccccCCCCCEEEEeCCCCCC
Q 000698 1043 EIKKRL-DQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1043 ~i~~~l-~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQit 1083 (1345)
.+.+.. ..++||.+|...+..+ -..+++|||||+.+..
T Consensus 68 ~~~~~~~g~~~IVVGTrsalf~p---~~~l~lIIVDEeh~~s 106 (505)
T TIGR00595 68 AWRKVKNGEILVVIGTRSALFLP---FKNLGLIIVDEEHDSS 106 (505)
T ss_pred HHHHHHcCCCCEEECChHHHcCc---ccCCCEEEEECCCccc
Confidence 222322 3567888887655433 3578999999997654
No 98
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=97.55 E-value=0.00023 Score=82.51 Aligned_cols=153 Identities=27% Similarity=0.250 Sum_probs=86.8
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhhcCCcEEEEcc
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKSQSIDFVRIGR 1020 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~ 1020 (1345)
...++.|+.-++.+.. .+..+=.||+|||||.+.+......+..| ++|+++=+ ||+- -+||- ++-|.
T Consensus 127 ~~kt~~Q~~y~eai~~-~di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP---aVEA-GEklG------fLPGd 195 (348)
T COG1702 127 IPKTPGQNMYPEAIEE-HDIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP---AVEA-GEKLG------FLPGD 195 (348)
T ss_pred EecChhHHHHHHHHHh-cCeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc---chhc-CcccC------cCCCc
Confidence 4578999999987766 58999999999999999988777777666 58998888 5542 22221 11121
Q ss_pred -cchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCC--CCCEEEEeCCCCCCHHHHhh----hhcc
Q 000698 1021 -HEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDK--KFDVCIMDEAGQTTLPVSLG----PLMF 1093 (1345)
Q Consensus 1021 -~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~--~FD~VIVDEASQitep~~L~----pL~~ 1093 (1345)
..++.+-++...=.-..+-..+.+...+ ...+|-...... .+.+ .=-+||+||||- +.+.... -|-+
T Consensus 196 l~eKvdPylRPLyDAl~d~l~~~~~~~~~-e~~vIEiAPlAy----MRGRTL~dAfVIlDEaQN-tT~~QmKMfLTRiGf 269 (348)
T COG1702 196 LREKVDPYLRPLYDALYDILGAERVEALD-ERGVIEIAPLAY----MRGRTLNDAFVILDEAQN-TTVGQMKMFLTRIGF 269 (348)
T ss_pred hhhhcccccccHHHHHHHHhhHHHHhhhh-hcCcEEecchhh----hhcCCCCCeEEEEecccc-cchhhhceeeeeecC
Confidence 1222222211100000011111111212 122222222222 2222 235899999966 5555433 3345
Q ss_pred cCeEEEEcCCCC--CCccccc
Q 000698 1094 ASKFVLVGDHYQ--LPPLVQS 1112 (1345)
Q Consensus 1094 a~k~VLVGDh~Q--LPPvV~s 1112 (1345)
..+.|+.||+-| ||.-++|
T Consensus 270 ~skmvItGD~tQiDLp~~vkS 290 (348)
T COG1702 270 ESKMVITGDITQIDLPRGVKS 290 (348)
T ss_pred CceEEEEcCcccccCCCcccc
Confidence 789999999999 6666655
No 99
>TIGR02786 addB_alphas double-strand break repair protein AddB, alphaproteobacterial type. AddAB is a system well described in the Firmicutes as a replacement for RecBCD in many prokaryotes for the repair of double stranded break DNA damage. More recently, a distantly related gene pair conserved in many alphaproteobacteria was shown also to function in double-stranded break repair in Rhizobium etli. This family consists of AddB proteins of the alphaproteobacteial type.
Probab=97.55 E-value=0.00083 Score=90.30 Aligned_cols=163 Identities=19% Similarity=0.231 Sum_probs=93.9
Q ss_pred ccccccccccccCChHHHHHHhccc--cc----ccchhhhhHHHHHHHHHHhcc--CCCH---HHHHHHHHHHHHHhHHH
Q 000698 453 VSGTRVAASFSCPRRSVLDERLKCS--ER----SISALLGTLLHQIFQAGLMKE--IPTM---KFLEEYARLVLQKNIES 521 (1345)
Q Consensus 453 IS~T~Va~s~~C~RRaVL~erfk~~--~~----s~~ml~GtIvHelfQ~al~~~--~~~~---~~L~~~~~~~l~~~l~~ 521 (1345)
+|.|.|-..+.||.+.+++..++.. +. ..++.+||++|+++++..+.- .|.. +.+.+++++.+..
T Consensus 749 ~SvS~le~~~~cPy~~fary~L~L~~~~~~~~~~~a~~~G~l~H~vLe~f~~~~~~~~~~~~~~~l~~~~~~~~~~---- 824 (1021)
T TIGR02786 749 FSVTEIETLRRDPYAIYARHILKLRPLDPLDRDPEAADRGTLIHDILERFVREYPDPLPADAADALRKIGRAEFAS---- 824 (1021)
T ss_pred cCHHHHHHHHhChHHHHHHHhcCCCCCCCCCCCCCHHHhhHHHHHHHHHHHHhccccCCchHHHHHHHHHHHHHHH----
Confidence 5899999999999999999998764 22 247889999999999987642 2322 2333333333222
Q ss_pred HHhcCCCHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCccccCCCCccccccchhhhhhhh--ccc-ccCCceeeeceEE
Q 000698 522 LYACGVNENDIHKTLVEAIPKMLNWIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEM--AWA-PKYGLKGMIDASI 598 (1345)
Q Consensus 522 Ly~~~~~~~~~~~~l~~~~p~i~~w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEn--IwS-p~~GLKGkID~tv 598 (1345)
+ .... ....--...+..+..|+-.+-...... +. .+ ..++|-. +.. ..+-|+|+||-+=
T Consensus 825 ~---~~~~-~~~~l~~~R~~~~~~~~l~~e~~r~~~-----f~-----~~----~~E~~~~~~l~~~~~i~L~GriDRID 886 (1021)
T TIGR02786 825 L---NLPP-TAEALWWPRFARAADWFADWERARRLD-----VR-----RI----FAEARGRKELVGERGFTLSGRADRID 886 (1021)
T ss_pred h---cCCh-HHHHHHHHHHHHHHHHHHHHHHhhccC-----CC-----cc----eEeeecceeeccCCceEEEEEEEEEE
Confidence 1 1111 111111223344555554443211110 00 00 0011111 111 2577999999663
Q ss_pred EEeeecccccCCCeEEEEEEecCCCCCC-CCChhhHHHHHHHHHHHHH
Q 000698 599 RVKIESKRNEINGMILPLEFKTGKIPNG-QSSMEHRAQVILYTLLMSE 645 (1345)
Q Consensus 599 ~~~i~~~~~~~~~~i~PlElKTGk~~~~-~~~~~H~~Ql~lY~LLl~e 645 (1345)
.. . ++.+.-++||||+.+.. .+......|+.+|++|+++
T Consensus 887 ~~---~-----dg~~~IIDYKTG~~p~~~~~~~g~~~QL~lya~~~~~ 926 (1021)
T TIGR02786 887 RT---P-----DGSAAILDYKTGAPPSGKQVRAGLSPQLALEAALLMR 926 (1021)
T ss_pred Ec---C-----CCCEEEEEeCCCCCCChHhhhcchhhHHHHHHHHHHc
Confidence 22 1 23678899999997531 2345678999999999976
No 100
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.54 E-value=0.00058 Score=84.51 Aligned_cols=124 Identities=19% Similarity=0.183 Sum_probs=84.3
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEccc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~ 1021 (1345)
...+++.|++||..++..+ -++|.+|.|||||.+ ..+-.+. .+...||++||...+.....+|...++...-++..
T Consensus 9 ~~~~r~~Q~~ai~~~l~g~-dvlv~apTGsGKTl~--y~lp~l~-~~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~ 84 (470)
T TIGR00614 9 LSSFRPVQLEVINAVLLGR-DCFVVMPTGGGKSLC--YQLPALC-SDGITLVISPLISLMEDQVLQLKASGIPATFLNSS 84 (470)
T ss_pred CCCCCHHHHHHHHHHHcCC-CEEEEcCCCCcHhHH--HHHHHHH-cCCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeCC
Confidence 5678999999999999865 588899999999954 3444444 35678999999999998889998888776655543
Q ss_pred chhhHHHHHhhhcccccccHHHHHHh--hccccEEEEEecccccc-----cc-cCCCCCEEEEeCCCCCC
Q 000698 1022 EVVHKEIQKHCLSAMNINSVEEIKKR--LDQVKVVAVTCLGITNP-----LL-TDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1022 ~~v~~~v~~~~l~~~~~~s~~~i~~~--l~~~~VV~tT~~~~~~~-----ll-~~~~FD~VIVDEASQit 1083 (1345)
....+ ...+... -...+++.+|...+... .+ ....++++|||||..+.
T Consensus 85 ~~~~~--------------~~~i~~~~~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~ 140 (470)
T TIGR00614 85 QSKEQ--------------QKNVLTDLKDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCIS 140 (470)
T ss_pred CCHHH--------------HHHHHHHHhcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccC
Confidence 22111 0011111 12356777776543321 12 34689999999997664
No 101
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=97.54 E-value=0.00055 Score=88.09 Aligned_cols=123 Identities=24% Similarity=0.256 Sum_probs=84.7
Q ss_pred CHHHHHHHHHHHhc---------CCeEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 946 NDDQRRAIIKVLTA---------KDYALILGMPGTGKTSTMVHAVKALLMR--GASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~---------~d~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
-..|.+||.+++.. .+-.+|..+.|||||.|++.+++.|... +.+||+++++...++.+...+...+.+
T Consensus 240 r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~~ 319 (667)
T TIGR00348 240 RYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQKD 319 (667)
T ss_pred HHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCCC
Confidence 45788888887553 2468999999999999999999998753 568999999999999999888765431
Q ss_pred EEEEcccchhhHHHHHhhhcccccccHHHHHHhhc--cccEEEEEeccccccc---c---cCCCC-CEEEEeCCCCCCHH
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLD--QVKVVAVTCLGITNPL---L---TDKKF-DVCIMDEAGQTTLP 1085 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~--~~~VV~tT~~~~~~~l---l---~~~~F-D~VIVDEASQitep 1085 (1345)
.+ ....+...+...+. +..|+.+|...+.... + ....+ .+||||||......
T Consensus 320 ~~-------------------~~~~s~~~L~~~l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~~ 380 (667)
T TIGR00348 320 CA-------------------ERIESIAELKRLLEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQYG 380 (667)
T ss_pred CC-------------------cccCCHHHHHHHHhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccch
Confidence 00 01123344444443 3578888887775421 1 11122 38999999776554
Q ss_pred HH
Q 000698 1086 VS 1087 (1345)
Q Consensus 1086 ~~ 1087 (1345)
.+
T Consensus 381 ~~ 382 (667)
T TIGR00348 381 EL 382 (667)
T ss_pred HH
Confidence 43
No 102
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.51 E-value=0.0003 Score=70.43 Aligned_cols=58 Identities=24% Similarity=0.327 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHhc--CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHH
Q 000698 947 DDQRRAIIKVLTA--KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNL 1004 (1345)
Q Consensus 947 ~eQ~~AI~~~l~~--~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnL 1004 (1345)
..+.+++...+.. ....+|.|+||||||+++..++..+...+..|..+..+..+....
T Consensus 4 ~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~ 63 (151)
T cd00009 4 EEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLV 63 (151)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhH
Confidence 4456666666655 568999999999999999999988877677888777765554443
No 103
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.51 E-value=0.00038 Score=88.05 Aligned_cols=124 Identities=18% Similarity=0.193 Sum_probs=80.5
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHH-HHHHHHhc---------CCeEEEEeccHHHHHHHHHHHhhc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVH-AVKALLMR---------GASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~-lI~~Ll~~---------gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
...+++-|.++|..++..+ -+++++|.|||||.+... ++..|... +.++|++++|...+..+...+...
T Consensus 29 ~~~ptpiQ~~~ip~~l~G~-Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l 107 (572)
T PRK04537 29 FTRCTPIQALTLPVALPGG-DVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKF 107 (572)
T ss_pred CCCCCHHHHHHHHHHhCCC-CEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 3567999999999998864 588999999999987543 44445431 358999999999999988776653
Q ss_pred C----CcEEEE-cccchhhHHHHHhhhcccccccHHHHHHhh-ccccEEEEEeccccc-----ccccCCCCCEEEEeCCC
Q 000698 1012 S----IDFVRI-GRHEVVHKEIQKHCLSAMNINSVEEIKKRL-DQVKVVAVTCLGITN-----PLLTDKKFDVCIMDEAG 1080 (1345)
Q Consensus 1012 ~----l~ilRi-G~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~~~~VV~tT~~~~~~-----~ll~~~~FD~VIVDEAS 1080 (1345)
+ +.+..+ |.. ......+.+ ...+|+.+|...+.+ ..+.....+++|||||.
T Consensus 108 ~~~~~i~v~~l~Gg~------------------~~~~q~~~l~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lViDEAh 169 (572)
T PRK04537 108 GADLGLRFALVYGGV------------------DYDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEAD 169 (572)
T ss_pred hccCCceEEEEECCC------------------CHHHHHHHHhCCCCEEEECHHHHHHHHHhccccchhheeeeEecCHH
Confidence 2 222211 110 111111222 346788888654332 22334567899999996
Q ss_pred CCCH
Q 000698 1081 QTTL 1084 (1345)
Q Consensus 1081 Qite 1084 (1345)
.+..
T Consensus 170 ~lld 173 (572)
T PRK04537 170 RMFD 173 (572)
T ss_pred HHhh
Confidence 5543
No 104
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=97.48 E-value=0.00019 Score=81.75 Aligned_cols=26 Identities=46% Similarity=0.528 Sum_probs=23.3
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
.+++.+||||||||+|+..+.++|.-
T Consensus 58 p~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 58 PHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred ceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 47999999999999999999998854
No 105
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=97.47 E-value=0.0011 Score=89.09 Aligned_cols=192 Identities=13% Similarity=0.185 Sum_probs=106.7
Q ss_pred ccccccccccccccCChHHHHHHhcccccc----cchhhhhHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHH-HHHhc
Q 000698 451 VLVSGTRVAASFSCPRRSVLDERLKCSERS----ISALLGTLLHQIFQAGLMKEIPTMKFLEEYARLVLQKNIE-SLYAC 525 (1345)
Q Consensus 451 ~LIS~T~Va~s~~C~RRaVL~erfk~~~~s----~~ml~GtIvHelfQ~al~~~~~~~~~L~~~~~~~l~~~l~-~Ly~~ 525 (1345)
+=+|+|.+-....||-+.+++..++-.+.. .++-+||++|.+++..... .+.+.+.+.+++++.+... ..|..
T Consensus 743 l~~SvS~le~~~~Cp~~~f~~y~L~l~e~~~~~~~~~~~G~l~H~~le~~~~~--~~~e~~~~~~~~~v~~~~~~~~~~~ 820 (1076)
T TIGR02774 743 LKLSASALTTFYNNQYSYFLRYVLGLEEEESIHPDARHHGNYLHRIFERLMKL--PGEESFDQKLNQAINETSQEREFEA 820 (1076)
T ss_pred ceecHhHHHHHHhCcHHHHHHHhcCCCCCCCCCCChHHhHHHHHHHHHHHHHc--cCHHHHHHHHHHHHHHHHHhhhhhh
Confidence 458999999999999999999988854322 3678999999999998753 2555565555555554432 22222
Q ss_pred C-CCHHHHHHHHHHHHHHHHHHHHHhcccCCCCCC---ccccCCCCccccccchhhhhhhhcccccCCceeeeceEEEEe
Q 000698 526 G-VNENDIHKTLVEAIPKMLNWIILFKDSQDLNTP---TVDFGSDGLKKLKISEVTDIEEMAWAPKYGLKGMIDASIRVK 601 (1345)
Q Consensus 526 ~-~~~~~~~~~l~~~~p~i~~w~~~f~~~~~~~~~---~~~~~~~~~~~~~Is~vlDIEEnIwSp~~GLKGkID~tv~~~ 601 (1345)
- .+.... ..+...+..+...+-.++.....-.+ -..||.. ..+.+ ++.. -...-|+|+||-+ .
T Consensus 821 ~~~s~~r~-~~~~~~l~~~~~~~~~~l~~~~~f~p~~~E~~fg~~--~~~~~----~l~~---g~~v~L~GrIDRI---D 887 (1076)
T TIGR02774 821 LYQEDAEA-RYTLEILLDIARSTAPILRHNSAIQVIKEEENFGGK--DNFQL----QIDN---GRSIFVRGIIDRI---D 887 (1076)
T ss_pred hhccCHHH-HHHHHHHHHHHHHHHHHHHhcCCceEEEEEeecCCC--CceeE----EcCC---CCEEEEeeEEeee---e
Confidence 1 111111 12222222222211112211100000 0011111 01111 0110 1357799999954 2
Q ss_pred eecccccCCCeEEEEEEecCCCCCCCCChhh-----HHHHHHHHHHHHHh---hcCCCCeeEEEEeccCce
Q 000698 602 IESKRNEINGMILPLEFKTGKIPNGQSSMEH-----RAQVILYTLLMSER---YLKHIDSGLLYYLQSDQT 664 (1345)
Q Consensus 602 i~~~~~~~~~~i~PlElKTGk~~~~~~~~~H-----~~Ql~lY~LLl~er---y~~~v~~GlL~Y~k~~~~ 664 (1345)
...+ ++.+.-|++|||+... ..+. ..|+.+|...+.+. ++...+.|.|||.=.+-+
T Consensus 888 ~~~~----~~~lrVIDYKTG~~~~---~l~~~y~Gl~lQL~~Yl~a~~~~~~~~~~~~PaG~lY~~~~~P~ 951 (1076)
T TIGR02774 888 RLSD----GGSLGVVDYKSSATQF---DIPHFYNGLSPQLPTYLAALKRIAPHEGEQPIFGAMYLHMQEPV 951 (1076)
T ss_pred ccCC----CCcEEEEEeCCCCCCC---CHHHhhcchhhHHHHHHHHHHHhHhhcCCCCcceEEEEEecCcc
Confidence 1111 2247889999999642 3444 79999999887663 344457899999865544
No 106
>PRK14701 reverse gyrase; Provisional
Probab=97.43 E-value=0.00077 Score=93.20 Aligned_cols=125 Identities=18% Similarity=0.226 Sum_probs=81.5
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcC------CcEEE
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQS------IDFVR 1017 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~------l~ilR 1017 (1345)
.+++-|++++..++... -+++++|.|||||+...-++..+...|.++|+++||...+..+..++.... +.+..
T Consensus 79 ~pt~iQ~~~i~~il~G~-d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~ 157 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGK-SFSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVY 157 (1638)
T ss_pred CCCHHHHHHHHHHHcCC-CEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEE
Confidence 47889999999999865 568899999999996554444444578899999999999999998887632 11111
Q ss_pred EcccchhhHHHHHhhhcccccccHHHHHHhh-c-cccEEEEEeccccccc--ccCCCCCEEEEeCCCCCC
Q 000698 1018 IGRHEVVHKEIQKHCLSAMNINSVEEIKKRL-D-QVKVVAVTCLGITNPL--LTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1018 iG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~-~~~VV~tT~~~~~~~l--l~~~~FD~VIVDEASQit 1083 (1345)
+... .....-.+..+.+ . ..+|+.+|...+.... +....++++|||||..+.
T Consensus 158 ~~g~--------------~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~l~~~~i~~iVVDEAD~ml 213 (1638)
T PRK14701 158 YHSN--------------LRKKEKEEFLERIENGDFDILVTTAQFLARNFPEMKHLKFDFIFVDDVDAFL 213 (1638)
T ss_pred EeCC--------------CCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHHHhhCCCCEEEEECceecc
Confidence 1100 0000011111222 2 4688888875443221 122679999999997654
No 107
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.41 E-value=0.00023 Score=71.64 Aligned_cols=49 Identities=16% Similarity=0.344 Sum_probs=30.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhc-----CCeEEEEec-cHHHHHHHHHHH
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMR-----GASILLTSY-TNSAVDNLLIKL 1008 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~-----gkkVLvtA~-TnsAVDnLl~kL 1008 (1345)
....+|.|+||+|||+++.++++.+... ...++.+.. .......+...+
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 58 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEI 58 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHH
Confidence 4578999999999999999999988763 334443333 333244555444
No 108
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=97.41 E-value=0.00048 Score=89.95 Aligned_cols=62 Identities=21% Similarity=0.219 Sum_probs=50.5
Q ss_pred HHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh
Q 000698 949 QRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 949 Q~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
.+..|..++..++.++|+|++||||||.+...+..-...+.+|+++.+|+.|+..+..++.+
T Consensus 6 ~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 6 VLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHH
Confidence 35566677777889999999999999988765544334566999999999999999999864
No 109
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=97.40 E-value=0.00049 Score=75.43 Aligned_cols=57 Identities=26% Similarity=0.359 Sum_probs=39.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec-cH--HHHHHHHHHHhhcCCcEEEE
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY-TN--SAVDNLLIKLKSQSIDFVRI 1018 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~-Tn--sAVDnLl~kL~~~~l~ilRi 1018 (1345)
+.++.||+|+|||||++.++.++..+|++|.++|- |. .|++.|..--...++++...
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~ 62 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVA 62 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEES
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchh
Confidence 57899999999999999999999988998866653 33 56666654333345555443
No 110
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.40 E-value=0.00054 Score=88.75 Aligned_cols=123 Identities=19% Similarity=0.159 Sum_probs=88.4
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHH-HHHhcCCeEEEEeccHHHHHHHHHHHh---hcCCcEEEEc
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVK-ALLMRGASILLTSYTNSAVDNLLIKLK---SQSIDFVRIG 1019 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~-~Ll~~gkkVLvtA~TnsAVDnLl~kL~---~~~l~ilRiG 1019 (1345)
.|.+.|+.|+.+.+..+..++|..|.|+|||-++.-.|. .+.+.|.++++++|+++.+.+..+++. ..|+++.-..
T Consensus 31 el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~~T 110 (766)
T COG1204 31 ELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVGIST 110 (766)
T ss_pred HhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEEec
Confidence 688899999999888778999999999999998765444 444457899999999999999998887 4455433221
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccc----cccCCCCCEEEEeCCCCCCHH
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNP----LLTDKKFDVCIMDEAGQTTLP 1085 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~----ll~~~~FD~VIVDEASQitep 1085 (1345)
. .++.-.+.+...+|+.+|.-.+..- -.--...+.|||||+.++...
T Consensus 111 g-------------------D~~~~~~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~ 161 (766)
T COG1204 111 G-------------------DYDLDDERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDR 161 (766)
T ss_pred C-------------------CcccchhhhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCc
Confidence 1 1112224567788888887554321 111247899999999776543
No 111
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=97.38 E-value=0.0016 Score=89.06 Aligned_cols=202 Identities=16% Similarity=0.213 Sum_probs=113.1
Q ss_pred ccccccccccccccCChHHHHHHhcccccc----cchhhhhHHHHHHHHHH---hcc--CC---CHHHHHHHHHHHHHHh
Q 000698 451 VLVSGTRVAASFSCPRRSVLDERLKCSERS----ISALLGTLLHQIFQAGL---MKE--IP---TMKFLEEYARLVLQKN 518 (1345)
Q Consensus 451 ~LIS~T~Va~s~~C~RRaVL~erfk~~~~s----~~ml~GtIvHelfQ~al---~~~--~~---~~~~L~~~~~~~l~~~ 518 (1345)
+=.|+|.+-....||.+++++..++..+.. .++-+||++|++|+... ..+ .| +.+.+++++++++...
T Consensus 781 l~~SvS~le~~~~Cpf~~F~~ygL~l~er~~~~l~~~~~G~~~H~~Le~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~ 860 (1158)
T TIGR02773 781 IQASVSRLEKYNACPFAHFAQYGLKLKERKIYKLEAPDLGQIFHEALKEISDELKEEDLDWSDLTKEQCRALANEAVENL 860 (1158)
T ss_pred cccChHHHHHHHhChHHHHHHHhcCCCcccccCCChhhhHHHHHHHHHHHHHHHHHcCCChHhcCHHHHHHHHHHHHHHH
Confidence 568899999999999999999999876433 35669999999999864 322 22 4456666666555544
Q ss_pred HH----HHHhcCCCHHHHHHHHHHHHHHHHHHHHHhcccCCCCC--CccccCCCCccccccchhhhhhhhccc-ccCCce
Q 000698 519 IE----SLYACGVNENDIHKTLVEAIPKMLNWIILFKDSQDLNT--PTVDFGSDGLKKLKISEVTDIEEMAWA-PKYGLK 591 (1345)
Q Consensus 519 l~----~Ly~~~~~~~~~~~~l~~~~p~i~~w~~~f~~~~~~~~--~~~~~~~~~~~~~~Is~vlDIEEnIwS-p~~GLK 591 (1345)
+. .+....--..-+.+.|...+.....|+.......+-.. .-..||... ..+--++-.++. ...-|+
T Consensus 861 ~~~~~~~~~~~~~r~~~~~~rl~~~~~~~~~~l~~~~~~~~f~p~~~E~~Fg~~~------~~~~~~~~~l~~g~~v~l~ 934 (1158)
T TIGR02773 861 VPKIQHEILLSSKRYRYVQKRLKRIVTRAVKVLSEQAKRSKFVPVGLELGFGFGG------NELPPLKLILKNGEELNLR 934 (1158)
T ss_pred HHHhhhhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCCccceeeeeeecCCC------CCCCCeeEEcCCCCEEEEE
Confidence 33 22222222334455555555555557777653211100 001122210 001011111211 134488
Q ss_pred eeeceEEEEeeecccccCCCeEEEEEEecCCCCCC--CCChhhHHHHHHHHHHHHH---hh-c-CCCCeeEEEEeccCc
Q 000698 592 GMIDASIRVKIESKRNEINGMILPLEFKTGKIPNG--QSSMEHRAQVILYTLLMSE---RY-L-KHIDSGLLYYLQSDQ 663 (1345)
Q Consensus 592 GkID~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~--~~~~~H~~Ql~lY~LLl~e---ry-~-~~v~~GlL~Y~k~~~ 663 (1345)
|+||-+=.. .++ .+..+.-+++|||...-. .++..=..|+.+|..-+.+ ++ + .....|.+||.=.+-
T Consensus 935 G~IDRiD~~--~~~---~~~y~~iIDYKsg~~~~~l~~~~~Gl~lQLl~Yl~~~~~~~~~~~~~~~~pag~~Y~~~~~p 1008 (1158)
T TIGR02773 935 GRIDRVDKA--EKE---DETYLRIIDYKSSSKKLDLTEVYYGLALQMLTYLDIVLTNSQKWGGNQAKPAGVLYFHIHDP 1008 (1158)
T ss_pred eEEcceecc--ccC---CceEEEEEEECCCCCCcCHHHHhccHHHHHHHHHHHHHHHHHhcCCCCCCcceEEEEeccCc
Confidence 999955211 110 122345899999986431 2334568999999533322 22 3 344789999875443
No 112
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=97.38 E-value=5.5e-05 Score=81.23 Aligned_cols=166 Identities=22% Similarity=0.301 Sum_probs=74.8
Q ss_pred EEEccCCCChHHHHHHHHHHHHhcCC-eEEEEeccHHHHHHHHHHHhhcCCcEEEEcccch-hhHHHHHhhhcccccccH
Q 000698 964 LILGMPGTGKTSTMVHAVKALLMRGA-SILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEV-VHKEIQKHCLSAMNINSV 1041 (1345)
Q Consensus 964 LI~GpPGTGKTttIa~lI~~Ll~~gk-kVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~-v~~~v~~~~l~~~~~~s~ 1041 (1345)
+|.|..|.|||+++-..+..++..+. +|+|||++..++..+.+.+... ++- +|.... ........+..
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~~-l~~--~~~~~~~~~~~~~~~~~~------- 70 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEKG-LKA--LGYKEEKKKRIGQIIKLR------- 70 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC----------------------------------
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHhh-ccc--cccccccccccccccccc-------
Confidence 58899999999999999999888876 8999999999999998654321 100 000000 00000000000
Q ss_pred HHHHHhhccccEEEEEeccccccccc-CCCCCEEEEeCCCCCCHHHHhhhhcccCeEEEEcCCCCCCccccchHHHhcCC
Q 000698 1042 EEIKKRLDQVKVVAVTCLGITNPLLT-DKKFDVCIMDEAGQTTLPVSLGPLMFASKFVLVGDHYQLPPLVQSTEARENGM 1120 (1345)
Q Consensus 1042 ~~i~~~l~~~~VV~tT~~~~~~~ll~-~~~FD~VIVDEASQitep~~L~pL~~a~k~VLVGDh~QLPPvV~s~~a~~~Gl 1120 (1345)
.....+.... .+.+.. ....|++|||||..+..|.....+....++|+. -++.+.+..-+|+
T Consensus 71 ------~~~~~i~f~~----Pd~l~~~~~~~DlliVDEAAaIp~p~L~~ll~~~~~vv~s-------tTi~GYEGtGRgF 133 (177)
T PF05127_consen 71 ------FNKQRIEFVA----PDELLAEKPQADLLIVDEAAAIPLPLLKQLLRRFPRVVFS-------TTIHGYEGTGRGF 133 (177)
T ss_dssp --------CCC--B------HHHHCCT----SCEEECTGGGS-HHHHHHHHCCSSEEEEE-------EEBSSTTBB-HHH
T ss_pred ------cccceEEEEC----CHHHHhCcCCCCEEEEechhcCCHHHHHHHHhhCCEEEEE-------eeccccccCCcee
Confidence 0000000000 011111 235699999999999999988888788888884 2444433323333
Q ss_pred cchHHHHHHHhCCcc--eeccccccc--CchhHHHHHHHh
Q 000698 1121 EISLFRRLSEEHPQA--ISALQSQYR--MCQGIMELSNAL 1156 (1345)
Q Consensus 1121 ~~SLFerL~~~~p~~--v~~Lt~QYR--m~~eI~~lsN~l 1156 (1345)
..-+.+.|.+..+.. ...|++-.| .+..+-.+.+.+
T Consensus 134 ~lkf~~~L~~~~~~~~~~~~L~~PIR~~~~DPlE~wl~~~ 173 (177)
T PF05127_consen 134 SLKFLKQLKKHRPRNWRELELSEPIRYAPGDPLEAWLNDL 173 (177)
T ss_dssp HHHHHCT----ST-TEEEEE--S-SSS-TT-HHHHHHHHH
T ss_pred eeehhhhccccCCCccEEEEcCCCccCCCcCcHHHHHHHh
Confidence 333444454434422 335655555 344555555544
No 113
>PRK13909 putative recombination protein RecB; Provisional
Probab=97.38 E-value=0.0009 Score=89.07 Aligned_cols=67 Identities=25% Similarity=0.276 Sum_probs=56.0
Q ss_pred CceeeeceEEEEeeecccccCCCeEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEeccCceeeee
Q 000698 589 GLKGMIDASIRVKIESKRNEINGMILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQSDQTQGVM 668 (1345)
Q Consensus 589 GLKGkID~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~~~~~~V~ 668 (1345)
|..|.||.++.. ++.++-+++|||+.. ...|+.|+..|.-+|++.|+..+-.|+|+|+..++...|.
T Consensus 843 g~~~riDrl~~~---------~~~v~IiDYKTg~~~----~~~y~~Ql~~Y~~~L~~~~~~~~v~~~Lvy~~~~~~~~v~ 909 (910)
T PRK13909 843 GELKQIDLLLEK---------DEEICVIDYKSSKKY----QEEHKAQVSHYKEAIKEILPKKKVEAYIVYLLEDKIEILE 909 (910)
T ss_pred CccccceEEEEc---------CCEEEEEEECCCCCC----hHHHHHHHHHHHHHHHHHcCCCeeEEEEEEecCCceeEEe
Confidence 456999998742 457899999999863 4689999999999999999988899999999987766553
No 114
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=97.37 E-value=0.0013 Score=70.12 Aligned_cols=34 Identities=32% Similarity=0.541 Sum_probs=30.4
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
..++.|+||+||||++..++..+...|.+|+++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 4688999999999999999999998999987765
No 115
>PRK08181 transposase; Validated
Probab=97.37 E-value=0.0028 Score=72.86 Aligned_cols=55 Identities=27% Similarity=0.294 Sum_probs=45.5
Q ss_pred CCCCCHHHHHHHHHH---HhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 942 EKSLNDDQRRAIIKV---LTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~---l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
...++..|..++... +......++.||||||||+++..+...+..+|.+|++++.
T Consensus 85 ~~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~ 142 (269)
T PRK08181 85 VPMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT 142 (269)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH
Confidence 357899999888543 3344579999999999999999999999999999988874
No 116
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=97.37 E-value=0.0013 Score=80.30 Aligned_cols=55 Identities=24% Similarity=0.378 Sum_probs=38.7
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec-c--HHHHHHHHHHHhhcCCcE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY-T--NSAVDNLLIKLKSQSIDF 1015 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~-T--nsAVDnLl~kL~~~~l~i 1015 (1345)
.+.++.|++|+|||||++.++..|...|++|++++- + ..|.+.+..-....++++
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~ 153 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPF 153 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcE
Confidence 367889999999999999999999988999887654 2 234444443223334443
No 117
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=97.34 E-value=0.0018 Score=74.56 Aligned_cols=59 Identities=27% Similarity=0.475 Sum_probs=43.9
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe---ccHHHHHHHHHHHhhcCCcEEEEc
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTS---YTNSAVDNLLIKLKSQSIDFVRIG 1019 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA---~TnsAVDnLl~kL~~~~l~ilRiG 1019 (1345)
...++.|+||+|||||++.++..+...|++|++++ |...|++.+.......++.++..+
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~ 134 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQK 134 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCC
Confidence 35677799999999999999999988899998776 444566666655555565555433
No 118
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=97.33 E-value=0.0016 Score=82.77 Aligned_cols=124 Identities=19% Similarity=0.225 Sum_probs=83.7
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEccc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~ 1021 (1345)
...|++.|++||..++..+ -+++.+|.|+|||.+. .+-.+.. +..++|++|+.+.+.....+|...++....++..
T Consensus 11 ~~~fr~~Q~~~i~~il~g~-dvlv~~PTG~GKTl~y--~lpal~~-~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~s~ 86 (591)
T TIGR01389 11 YDDFRPGQEEIISHVLDGR-DVLVVMPTGGGKSLCY--QVPALLL-KGLTVVISPLISLMKDQVDQLRAAGVAAAYLNST 86 (591)
T ss_pred CCCCCHHHHHHHHHHHcCC-CEEEEcCCCccHhHHH--HHHHHHc-CCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEeCC
Confidence 4578999999999999865 5788899999999664 3444444 4567889999999988888898888766555432
Q ss_pred chhhHHHHHhhhcccccccHHHHHHh--hccccEEEEEecccccc----cccCCCCCEEEEeCCCCCC
Q 000698 1022 EVVHKEIQKHCLSAMNINSVEEIKKR--LDQVKVVAVTCLGITNP----LLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1022 ~~v~~~v~~~~l~~~~~~s~~~i~~~--l~~~~VV~tT~~~~~~~----ll~~~~FD~VIVDEASQit 1083 (1345)
....+ ...+... -...+++..|...+... .+.....+++|||||..+.
T Consensus 87 ~~~~~--------------~~~~~~~l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~ 140 (591)
T TIGR01389 87 LSAKE--------------QQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVS 140 (591)
T ss_pred CCHHH--------------HHHHHHHHhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCcccc
Confidence 11111 0111111 12446666666554332 2344689999999998664
No 119
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.32 E-value=0.0029 Score=71.31 Aligned_cols=53 Identities=21% Similarity=0.292 Sum_probs=42.7
Q ss_pred CCHHHHHHHHHHHhc--CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEecc
Q 000698 945 LNDDQRRAIIKVLTA--KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYT 997 (1345)
Q Consensus 945 LN~eQ~~AI~~~l~~--~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~T 997 (1345)
-|.....++...... ....+|.||||||||+++..+...+...|.+|++++..
T Consensus 28 ~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~ 82 (235)
T PRK08084 28 DNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLD 82 (235)
T ss_pred ccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHH
Confidence 577777777665432 24789999999999999999888888889999988774
No 120
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=97.32 E-value=0.00042 Score=68.51 Aligned_cols=44 Identities=25% Similarity=0.368 Sum_probs=34.2
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNL 1004 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnL 1004 (1345)
...+|.|||||||||++..++..+...+..+++++-+.......
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 46 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVL 46 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCH
Confidence 57899999999999999999988877665677776655544433
No 121
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.31 E-value=8.7e-05 Score=93.54 Aligned_cols=72 Identities=28% Similarity=0.313 Sum_probs=47.0
Q ss_pred CCCCEEEEeCCCCCCHHHH-hhhhcccCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCch
Q 000698 1069 KKFDVCIMDEAGQTTLPVS-LGPLMFASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQ 1147 (1345)
Q Consensus 1069 ~~FD~VIVDEASQitep~~-L~pL~~a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~ 1147 (1345)
.+||+||+||+++.+.-.. |......++.+.+||..| .++.++|....+|. +.......+..|+..||..-
T Consensus 440 a~~d~Ii~D~~~d~t~c~~~li~i~~~~~~~~~gd~~q-------~~~~f~~~~~al~~-~a~l~dt~~~~l~~s~r~~~ 511 (853)
T KOG2108|consen 440 AKFDYIILDEAQDCTPCIQNLILIQKHNIKVFVGDFHQ-------SIYSFRGANSALFN-LATLPDTLVECLTKSFRFGN 511 (853)
T ss_pred cccceeeehhhhcCchHHHHHHhhhhcccccccCchHh-------hhhhhhhHHHHHHh-hcccchhHHHHhHhHHhhhH
Confidence 5899999999977765222 555556677999999999 88888887665553 22211111224566666544
Q ss_pred h
Q 000698 1148 G 1148 (1345)
Q Consensus 1148 e 1148 (1345)
.
T Consensus 512 ~ 512 (853)
T KOG2108|consen 512 E 512 (853)
T ss_pred H
Confidence 3
No 122
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=97.30 E-value=0.001 Score=77.16 Aligned_cols=56 Identities=27% Similarity=0.465 Sum_probs=44.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe---ccHHHHHHHHHHHhhcCCcEEE
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTS---YTNSAVDNLLIKLKSQSIDFVR 1017 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA---~TnsAVDnLl~kL~~~~l~ilR 1017 (1345)
+.++.|.-|+||||||+.+++.+..+|++|++.| |--.|++.|..--.+.+++++.
T Consensus 141 Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~ 199 (340)
T COG0552 141 VILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVIS 199 (340)
T ss_pred EEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEc
Confidence 5789999999999999999999999999988865 3445666666555556777665
No 123
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=97.29 E-value=0.0014 Score=85.43 Aligned_cols=126 Identities=15% Similarity=0.105 Sum_probs=82.6
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHh-cCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLM-RGASILLTSYTNSAVDNLLIKLKSQSIDFVRIG 1019 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~-~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG 1019 (1345)
...|++-|.+|+..++.. ..+++.+|.|||||..-. -++..+.. .+.++|+++||...+..+..++.+.+..-++++
T Consensus 34 ~~~p~~~Q~~ai~~il~G-~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l~~~~i~v~ 112 (742)
T TIGR03817 34 IHRPWQHQARAAELAHAG-RHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRELTLRGVRPA 112 (742)
T ss_pred CCcCCHHHHHHHHHHHCC-CCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHhccCCeEEE
Confidence 357899999999998774 578999999999997654 34444444 356899999999999999998876542112221
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccccccc--------CCCCCEEEEeCCCCC
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLT--------DKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~--------~~~FD~VIVDEASQi 1082 (1345)
. +.. ....++-+.....++||.+|...+...++. -...++||||||...
T Consensus 113 ~------------~~G--dt~~~~r~~i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah~~ 169 (742)
T TIGR03817 113 T------------YDG--DTPTEERRWAREHARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDECHSY 169 (742)
T ss_pred E------------EeC--CCCHHHHHHHhcCCCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeChhhc
Confidence 1 000 011111122334578888887554332221 246799999999765
No 124
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.27 E-value=0.0013 Score=74.49 Aligned_cols=50 Identities=30% Similarity=0.444 Sum_probs=40.7
Q ss_pred CHHHHHHHHHHHh------c-CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 946 NDDQRRAIIKVLT------A-KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 946 N~eQ~~AI~~~l~------~-~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
++.|+.|+..+.. . ...+++.|+||||||++++.++..|...|.+|++++
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it 134 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT 134 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 5677777665543 1 136899999999999999999999999999999885
No 125
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.26 E-value=0.0014 Score=90.74 Aligned_cols=120 Identities=14% Similarity=0.165 Sum_probs=83.0
Q ss_pred CHHHHHHHHHHHhcCC-eEEEEccCCC-ChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccch
Q 000698 946 NDDQRRAIIKVLTAKD-YALILGMPGT-GKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEV 1023 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d-~~LI~GpPGT-GKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~ 1023 (1345)
+..|.+|+..++...+ +.+|.|+.|. |+++++.+++..+-.+|++|.++|+|+.|+..|.+.. ++.
T Consensus 415 ~~~~~~av~~~~q~~~~~~il~g~~G~aG~g~~l~~l~~~a~~~G~~V~glAPt~~a~~~L~~~~---gi~--------- 482 (1747)
T PRK13709 415 TAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQILAADRRSQMNLKQDE---RLS--------- 482 (1747)
T ss_pred chhhhHHHHHHhcccCcEEEEEcCCcchHHHHHHHHHHHHHHhCCcEEEEEeCcHHHHHHHHHhc---CCC---------
Confidence 5688999988877654 7788888884 6667777888878889999999999999999887431 210
Q ss_pred hhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhc----ccCeEEE
Q 000698 1024 VHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLM----FASKFVL 1099 (1345)
Q Consensus 1024 v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~----~a~k~VL 1099 (1345)
...+.+. ..+. .. .....=+++|||||++++.-+....+. .+.|+||
T Consensus 483 -----------~~Tva~~----~~l~-------------~~-~~~~~~~ilIVDEAg~lsar~m~~Ll~~A~~~~arvVl 533 (1747)
T PRK13709 483 -----------GELITGR----RQLQ-------------EG-MAFTPGSTLIVDQAEKLSLKETLTLLDGAARHNVQVLI 533 (1747)
T ss_pred -----------cceeehh----hhhc-------------cc-cCCCCCcEEEEECCCcCCHHHHHHHHHHHHHhCCEEEE
Confidence 0001000 0000 00 011234699999999999888766554 3689999
Q ss_pred EcCCCCC
Q 000698 1100 VGDHYQL 1106 (1345)
Q Consensus 1100 VGDh~QL 1106 (1345)
+||.+|+
T Consensus 534 lgd~~Q~ 540 (1747)
T PRK13709 534 LDSGQRT 540 (1747)
T ss_pred ECCcccc
Confidence 9999995
No 126
>PRK13766 Hef nuclease; Provisional
Probab=97.26 E-value=0.0013 Score=86.14 Aligned_cols=122 Identities=20% Similarity=0.196 Sum_probs=83.0
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHHhhc-CC---cEEEE
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM-RGASILLTSYTNSAVDNLLIKLKSQ-SI---DFVRI 1018 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~-~gkkVLvtA~TnsAVDnLl~kL~~~-~l---~ilRi 1018 (1345)
..-+.|++++..++.. ..+|..|.|+|||.+...++..++. .+.+||++++|...++...+.+.+. ++ ++..+
T Consensus 15 ~~r~yQ~~~~~~~l~~--n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~ 92 (773)
T PRK13766 15 EARLYQQLLAATALKK--NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVF 92 (773)
T ss_pred CccHHHHHHHHHHhcC--CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEE
Confidence 3456789998888874 7899999999999987766665543 5789999999999998887777653 22 22222
Q ss_pred cccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccc----cccCCCCCEEEEeCCCCCCH
Q 000698 1019 GRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNP----LLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1019 G~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~----ll~~~~FD~VIVDEASQite 1084 (1345)
... .+..+-.+.+....|+.+|...+... .+....|++||||||..+..
T Consensus 93 ~g~-----------------~~~~~r~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~ 145 (773)
T PRK13766 93 TGE-----------------VSPEKRAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVG 145 (773)
T ss_pred eCC-----------------CCHHHHHHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCccccc
Confidence 110 01112233455678888887554332 23345799999999987753
No 127
>TIGR03491 RecB family nuclease, putative, TM0106 family. Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.
Probab=97.25 E-value=0.0019 Score=79.72 Aligned_cols=120 Identities=17% Similarity=0.076 Sum_probs=77.8
Q ss_pred CCceeeeceEEEEeeecccccC-CCeEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhcCCCCeeEEEEeccCceee
Q 000698 588 YGLKGMIDASIRVKIESKRNEI-NGMILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQSDQTQG 666 (1345)
Q Consensus 588 ~GLKGkID~tv~~~i~~~~~~~-~~~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~~~~~~ 666 (1345)
.|+.|.+|+++++. +.+.- .-...|+|+|.|+.. ..+|+.|+++|++|+++.+|..+..|.|+|. ++..+.
T Consensus 83 ~~~~~~~DlL~r~~---~~s~~g~~~Y~pve~Kls~~~----k~~~~lqlA~ya~lL~~~~g~~~~~~~l~l~-~~~~~~ 154 (457)
T TIGR03491 83 LPHVSHPDLLVKDP---GRSAWGDWAYEPVLIKLGKRP----KDEYRLVLAFHALLLESFQGVAPKKGLIILR-DGNSLK 154 (457)
T ss_pred CceEEECCEEEecC---CCCCCCCceEEEEEEEecCCC----CHHHHHHHHHHHHHHHHhcCCCCCeEEEEEC-CCceEE
Confidence 57999999998751 11000 123699999999874 6899999999999999999999999999986 554444
Q ss_pred eeCChhHHHHHHHHHHHHHHHHHhccCCCCCCCcccccCCCccCCCcccchhHh
Q 000698 667 VMVQRSDLVGLIMRRNEFANDIIKASTTQQLPPMLRAYGGNKECSGLGNMFDSH 720 (1345)
Q Consensus 667 V~~~~~elr~li~~RN~la~~i~~~s~~~~LPp~~~~~~g~~~cs~l~~~~~~~ 720 (1345)
+... .-...+...+.++...|.. ..-|+.......|..|+....|.+..
T Consensus 155 ~~~~-~~~~~~~~~~~~~~~~L~~----~~~P~~~~~~~~C~~C~~~~~C~~~~ 203 (457)
T TIGR03491 155 VELI-KLLPQLRQDLADFLLTLNA----DLEPEVFISRKKCTLCSWRKDCEAVA 203 (457)
T ss_pred EEhH-hhhHHHHHHHHHHHHHhcC----CCCCCCcCChhhcccCchHHHHHHHH
Confidence 4321 1111222222233333322 22365555457888898766665544
No 128
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.25 E-value=0.0013 Score=78.47 Aligned_cols=56 Identities=16% Similarity=0.249 Sum_probs=41.4
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe-ccHH--HHHHHHHHHhhcCCcEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTS-YTNS--AVDNLLIKLKSQSIDFV 1016 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA-~Tns--AVDnLl~kL~~~~l~il 1016 (1345)
...+|.|++|+||||+++.++..+..+|++|++++ .|.. |++.+..--...++.+.
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~ 300 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVI 300 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEE
Confidence 47789999999999999999999998898886554 4543 66666654333444443
No 129
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=97.24 E-value=0.0012 Score=76.53 Aligned_cols=36 Identities=22% Similarity=0.449 Sum_probs=30.5
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhc-C-CeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMR-G-ASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~-g-kkVLvtA~ 996 (1345)
.+.+|.||.|+|||||++.++..+... | ++|.+++.
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 367899999999999999999999876 5 78877664
No 130
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.23 E-value=0.00092 Score=87.43 Aligned_cols=61 Identities=15% Similarity=0.144 Sum_probs=47.2
Q ss_pred HHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh
Q 000698 950 RRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 950 ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+..|..++.....++|+|++||||||.+...+-.-...+.+|+++.+|+.|+..+..++.+
T Consensus 10 ~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 10 LPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHH
Confidence 4556666766778999999999999998754332222234899999999999999999864
No 131
>PRK10867 signal recognition particle protein; Provisional
Probab=97.22 E-value=0.0017 Score=79.11 Aligned_cols=57 Identities=21% Similarity=0.279 Sum_probs=40.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEe-ccHH--HHHHHHHHHhhcCCcEEEE
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMR-GASILLTS-YTNS--AVDNLLIKLKSQSIDFVRI 1018 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA-~Tns--AVDnLl~kL~~~~l~ilRi 1018 (1345)
..++.|++|+|||||++.++..|... |++|++++ .+.. |++.+.......+++++..
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~ 162 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPS 162 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEec
Confidence 57889999999999999999999988 88887654 3433 4445543334446665543
No 132
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.22 E-value=0.0022 Score=79.49 Aligned_cols=124 Identities=15% Similarity=0.113 Sum_probs=78.2
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHhc---------CCeEEEEeccHHHHHHHHHHHhhc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLMR---------GASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~~---------gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
...+++-|.+|+..++..+ -.+|.++.|||||.... -++..+... +.++|++++|...+..+...+...
T Consensus 107 ~~~~~~iQ~~ai~~~~~G~-dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l 185 (475)
T PRK01297 107 FPYCTPIQAQVLGYTLAGH-DAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAAL 185 (475)
T ss_pred CCCCCHHHHHHHHHHhCCC-CEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHh
Confidence 3568999999999988764 57789999999997643 344455442 357999999999999988776543
Q ss_pred ----CCcEEEEcccchhhHHHHHhhhcccccccHHHHHHhh-ccccEEEEEeccccc----ccccCCCCCEEEEeCCCCC
Q 000698 1012 ----SIDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL-DQVKVVAVTCLGITN----PLLTDKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1012 ----~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~~~~VV~tT~~~~~~----~ll~~~~FD~VIVDEASQi 1082 (1345)
++.+..+..... .....+... ...+|+.+|...+.. ..+.-..+++||||||..+
T Consensus 186 ~~~~~~~v~~~~gg~~----------------~~~~~~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViDEah~l 249 (475)
T PRK01297 186 TKYTGLNVMTFVGGMD----------------FDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRM 249 (475)
T ss_pred hccCCCEEEEEEccCC----------------hHHHHHHHhCCCCCEEEECHHHHHHHHHcCCcccccCceEEechHHHH
Confidence 222222111000 011111221 346788888654321 1122357899999999544
No 133
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.20 E-value=0.0019 Score=83.01 Aligned_cols=123 Identities=20% Similarity=0.204 Sum_probs=87.7
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCC----cEEEEc
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSI----DFVRIG 1019 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l----~ilRiG 1019 (1345)
.+-..|+--..+++.. .-+-|.+|+|.||||..+.+...+..+|++++++-||...|.+..+||.+..- --+++.
T Consensus 82 ~~ws~QR~WakR~~rg-~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~ 160 (1187)
T COG1110 82 RPWSAQRVWAKRLVRG-KSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVV 160 (1187)
T ss_pred CchHHHHHHHHHHHcC-CceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeee
Confidence 3445678777777774 57788899999999999999999999999999999999999999999976531 112222
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhhc--cccEEEEEecccccc--cccCCCCCEEEEeCC
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRLD--QVKVVAVTCLGITNP--LLTDKKFDVCIMDEA 1079 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~--~~~VV~tT~~~~~~~--ll~~~~FD~VIVDEA 1079 (1345)
-+..+ ....-+++.+.+. +.+|+.+|..-..+. .+...+||+|+||..
T Consensus 161 yh~~l------------~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~L~~~kFdfifVDDV 212 (1187)
T COG1110 161 YHSAL------------PTKEKEEALERIESGDFDILITTSQFLSKRFEELSKLKFDFIFVDDV 212 (1187)
T ss_pred ecccc------------chHHHHHHHHHHhcCCccEEEEeHHHHHhhHHHhcccCCCEEEEccH
Confidence 11111 1112234445554 478888887655433 345579999999998
No 134
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.19 E-value=0.0026 Score=81.26 Aligned_cols=127 Identities=16% Similarity=0.170 Sum_probs=80.3
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEccc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~ 1021 (1345)
...+.+.|++|+..++.. .-++|.+|.|+|||.+ ..+-.|.. +..+||++|+.+.+......+...++...-+...
T Consensus 23 ~~~~r~~Q~~ai~~il~g-~dvlv~apTGsGKTl~--y~lpal~~-~g~tlVisPl~sL~~dqv~~l~~~gi~~~~~~s~ 98 (607)
T PRK11057 23 YQQFRPGQQEIIDAVLSG-RDCLVVMPTGGGKSLC--YQIPALVL-DGLTLVVSPLISLMKDQVDQLLANGVAAACLNST 98 (607)
T ss_pred CCCCCHHHHHHHHHHHcC-CCEEEEcCCCchHHHH--HHHHHHHc-CCCEEEEecHHHHHHHHHHHHHHcCCcEEEEcCC
Confidence 457889999999998875 4577889999999954 34444544 4478999999999999888888877665444322
Q ss_pred chhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccc----cccCCCCCEEEEeCCCCCCH
Q 000698 1022 EVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNP----LLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1022 ~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~----ll~~~~FD~VIVDEASQite 1084 (1345)
....+.... +..+. -...+++..|...+... .+....++++|||||..+..
T Consensus 99 ~~~~~~~~~----------~~~~~--~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~ 153 (607)
T PRK11057 99 QTREQQLEV----------MAGCR--TGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQ 153 (607)
T ss_pred CCHHHHHHH----------HHHHh--CCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCcccccc
Confidence 111110000 00000 12345565554433321 12345789999999976553
No 135
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.17 E-value=0.0016 Score=78.31 Aligned_cols=54 Identities=17% Similarity=0.222 Sum_probs=36.9
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHh----cCCeEEEE-ecc--HHHHHHHHHHHhh-cCCcE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLM----RGASILLT-SYT--NSAVDNLLIKLKS-QSIDF 1015 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~----~gkkVLvt-A~T--nsAVDnLl~kL~~-~~l~i 1015 (1345)
.+.++.||.|+|||||++.++..+.. .|++|+++ +-| ..|++.+. .+.+ .++++
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~-~~a~~lgvpv 236 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQ-TYGDIMGIPV 236 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHH-HHhhcCCcce
Confidence 47889999999999999999988763 46777654 444 44555533 3332 35443
No 136
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.17 E-value=0.0017 Score=77.73 Aligned_cols=46 Identities=22% Similarity=0.317 Sum_probs=33.8
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHh-cC-CeEEEEeccH---HHHHHHH
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLM-RG-ASILLTSYTN---SAVDNLL 1005 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~-~g-kkVLvtA~Tn---sAVDnLl 1005 (1345)
...+++.||+|+|||||++.++..++. .| ++|.+++.-. .|++.+.
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~ 187 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLR 187 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHH
Confidence 458899999999999999999988764 45 5776665422 2555544
No 137
>PRK06526 transposase; Provisional
Probab=97.17 E-value=0.0031 Score=71.95 Aligned_cols=54 Identities=28% Similarity=0.377 Sum_probs=40.3
Q ss_pred CCCCHHHHHHHHH--HHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 943 KSLNDDQRRAIIK--VLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~--~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..++..|...+.. .+......+|.||||||||+++..+...+...|.+|++.+.
T Consensus 79 ~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~ 134 (254)
T PRK06526 79 RSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATA 134 (254)
T ss_pred CCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhH
Confidence 4677766554311 12234578999999999999999999999999999877543
No 138
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.14 E-value=0.0021 Score=85.18 Aligned_cols=66 Identities=21% Similarity=0.217 Sum_probs=51.5
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHh--------cCCeEEEEeccHHHHHHHHHHHh
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLM--------RGASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~--------~gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
..|++-|.+|+..++.. ..++|.+|.|||||.... -++..+.. .+.++|+++||...+..+..+|.
T Consensus 31 ~~~tpiQ~~Ai~~il~g-~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEG-KNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred CCCCHHHHHHHHHHHcC-CCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 45899999999988764 589999999999998754 34444543 13469999999999988876654
No 139
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=97.07 E-value=0.0029 Score=74.39 Aligned_cols=58 Identities=22% Similarity=0.343 Sum_probs=42.5
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe-cc--HHHHHHHHHHHhhcCCcEEEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTS-YT--NSAVDNLLIKLKSQSIDFVRI 1018 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA-~T--nsAVDnLl~kL~~~~l~ilRi 1018 (1345)
...++.||+|+|||||++.++..+...|++|++++ .+ ..|++.+...-...++.++..
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~ 175 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQ 175 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEe
Confidence 47788999999999999999999988899988765 33 345566654444445555433
No 140
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.06 E-value=0.0024 Score=77.93 Aligned_cols=45 Identities=24% Similarity=0.343 Sum_probs=33.3
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHH--hcCCeEEEEec-cHH--HHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALL--MRGASILLTSY-TNS--AVDNLL 1005 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll--~~gkkVLvtA~-Tns--AVDnLl 1005 (1345)
...++.||+|+|||||++.++..+. ..|++|.+++. +.. |++.+.
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~ 271 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLK 271 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHH
Confidence 4788999999999999999998887 45778776554 432 444443
No 141
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=97.04 E-value=0.0035 Score=76.44 Aligned_cols=58 Identities=24% Similarity=0.389 Sum_probs=40.6
Q ss_pred eEEEEccCCCChHHHHHHHHHHHH-hcCCeEEEEec-cHH--HHHHHHHHHhhcCCcEEEEc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALL-MRGASILLTSY-TNS--AVDNLLIKLKSQSIDFVRIG 1019 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll-~~gkkVLvtA~-Tns--AVDnLl~kL~~~~l~ilRiG 1019 (1345)
..++.|+||+|||||++.++..+. +.|++|++++. +.. |.+.+...-...++++...+
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~ 162 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALG 162 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecC
Confidence 678999999999999999999987 57888766554 443 44544443344566655443
No 142
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=97.01 E-value=0.0025 Score=75.68 Aligned_cols=49 Identities=14% Similarity=0.205 Sum_probs=41.1
Q ss_pred EEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLM--RGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
++|.||.|||||.+....+...+. .+.++++++|+...++.+.+++.+.
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHH
Confidence 689999999999987766555443 3579999999999999999998875
No 143
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=97.01 E-value=0.00096 Score=90.94 Aligned_cols=53 Identities=28% Similarity=0.430 Sum_probs=45.8
Q ss_pred hcCCeEEEEccCCCChHHHHHHHHHHHHhcC---CeEEEEeccHHHHHHHHHHHhh
Q 000698 958 TAKDYALILGMPGTGKTSTMVHAVKALLMRG---ASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 958 ~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g---kkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
....-++|.++||||||++++..+..++..| .+||+++||++|+.+|.+|+.+
T Consensus 8 dp~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~ 63 (1141)
T TIGR02784 8 DPKTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFD 63 (1141)
T ss_pred CCCCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHH
Confidence 4445688999999999999999998888654 6899999999999999988753
No 144
>PLN03025 replication factor C subunit; Provisional
Probab=96.99 E-value=0.0033 Score=73.92 Aligned_cols=43 Identities=26% Similarity=0.397 Sum_probs=31.6
Q ss_pred CHHHHHHHHHHHhcC--CeEEEEccCCCChHHHHHHHHHHHHhcC
Q 000698 946 NDDQRRAIIKVLTAK--DYALILGMPGTGKTSTMVHAVKALLMRG 988 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~--d~~LI~GpPGTGKTttIa~lI~~Ll~~g 988 (1345)
+++..+.+...+... ...++.|||||||||++..+++.+...+
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~ 62 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPN 62 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccc
Confidence 444555555555543 3689999999999999999999886543
No 145
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=96.98 E-value=0.0024 Score=82.02 Aligned_cols=122 Identities=14% Similarity=0.143 Sum_probs=87.9
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh----------cCCeEEEEeccHHHHHHHHHHHhh-
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM----------RGASILLTSYTNSAVDNLLIKLKS- 1010 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~----------~gkkVLvtA~TnsAVDnLl~kL~~- 1010 (1345)
...||.-|-++..-++.++..+||.+|.|+|||-+..-.|-.+++ .+.||.++||+.+.+.++.++..+
T Consensus 108 f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kk 187 (1230)
T KOG0952|consen 108 FEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKK 187 (1230)
T ss_pred HHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhh
Confidence 467999999999999999999999999999999987665555555 356999999999999999877643
Q ss_pred ---cCCcEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc---------cccccCCCCCEEEEeC
Q 000698 1011 ---QSIDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT---------NPLLTDKKFDVCIMDE 1078 (1345)
Q Consensus 1011 ---~~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~---------~~ll~~~~FD~VIVDE 1078 (1345)
.|+.+..+.. ..+-.+..+.+++|+.+|.--+. ..++ .....|||||
T Consensus 188 l~~~gi~v~ELTG-------------------D~ql~~tei~~tqiiVTTPEKwDvvTRk~~~d~~l~--~~V~LviIDE 246 (1230)
T KOG0952|consen 188 LAPLGISVRELTG-------------------DTQLTKTEIADTQIIVTTPEKWDVVTRKSVGDSALF--SLVRLVIIDE 246 (1230)
T ss_pred cccccceEEEecC-------------------cchhhHHHHHhcCEEEecccceeeeeeeeccchhhh--hheeeEEeee
Confidence 2333333321 11122233667888988885431 1122 3578999999
Q ss_pred CCCCCH
Q 000698 1079 AGQTTL 1084 (1345)
Q Consensus 1079 ASQite 1084 (1345)
...+-+
T Consensus 247 VHlLhd 252 (1230)
T KOG0952|consen 247 VHLLHD 252 (1230)
T ss_pred ehhhcC
Confidence 987754
No 146
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=96.96 E-value=0.0011 Score=73.01 Aligned_cols=26 Identities=38% Similarity=0.599 Sum_probs=23.9
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
+..+|.|||||||||.+..+++.|+.
T Consensus 49 P~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred CceEeeCCCCCchhhHHHHHHHHHhC
Confidence 47899999999999999999999875
No 147
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=96.93 E-value=0.0031 Score=68.17 Aligned_cols=45 Identities=33% Similarity=0.524 Sum_probs=35.0
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHh
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
....++.|+||||||++++.++..++..|.+|+++.. .+++.+|.
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~-----~~L~~~l~ 91 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITA-----SDLLDELK 91 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEH-----HHHHHHHH
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeec-----Cceecccc
Confidence 3468999999999999999999999999999999875 34555554
No 148
>PRK12377 putative replication protein; Provisional
Probab=96.93 E-value=0.0052 Score=69.86 Aligned_cols=36 Identities=28% Similarity=0.452 Sum_probs=32.5
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..+++.|+||||||+++..++..+...|.+|++++.
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~ 137 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTV 137 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEH
Confidence 468999999999999999999999999999977765
No 149
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=96.93 E-value=0.001 Score=76.14 Aligned_cols=140 Identities=21% Similarity=0.174 Sum_probs=79.4
Q ss_pred HHHHHHHHHhcC------------CeEEEEccCCCChHHHHHHHHHHHHhcCC-----eEEEEeccHHHHHHHHHHHhhc
Q 000698 949 QRRAIIKVLTAK------------DYALILGMPGTGKTSTMVHAVKALLMRGA-----SILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 949 Q~~AI~~~l~~~------------d~~LI~GpPGTGKTttIa~lI~~Ll~~gk-----kVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
|.+||...+... .-.++--.+|+|||.+++.++..+...+. ++||++++ +.+.+-...+.+.
T Consensus 2 Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 2 QLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKW 80 (299)
T ss_dssp HHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhccc
Confidence 777777665543 35667778999999999999998876532 59999999 5555554444432
Q ss_pred ----CCcEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc-------cccccCCCCCEEEEeCCC
Q 000698 1012 ----SIDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT-------NPLLTDKKFDVCIMDEAG 1080 (1345)
Q Consensus 1012 ----~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~-------~~ll~~~~FD~VIVDEAS 1080 (1345)
..+++....... .............++.+|...+. ...+....|++||||||+
T Consensus 81 ~~~~~~~v~~~~~~~~----------------~~~~~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH 144 (299)
T PF00176_consen 81 FDPDSLRVIIYDGDSE----------------RRRLSKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAH 144 (299)
T ss_dssp SGT-TS-EEEESSSCH----------------HHHTTSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGG
T ss_pred cccccccccccccccc----------------cccccccccccceeeeccccccccccccccccccccccceeEEEeccc
Confidence 334444433220 00001112344566666665444 123344679999999998
Q ss_pred CCCH-----HHHhhhhcccCeEEEEcCCCC
Q 000698 1081 QTTL-----PVSLGPLMFASKFVLVGDHYQ 1105 (1345)
Q Consensus 1081 Qite-----p~~L~pL~~a~k~VLVGDh~Q 1105 (1345)
.+.. -..+..+....+++|-|-|.+
T Consensus 145 ~~k~~~s~~~~~l~~l~~~~~~lLSgTP~~ 174 (299)
T PF00176_consen 145 RLKNKDSKRYKALRKLRARYRWLLSGTPIQ 174 (299)
T ss_dssp GGTTTTSHHHHHHHCCCECEEEEE-SS-SS
T ss_pred ccccccccccccccccccceEEeecccccc
Confidence 8732 222344444567888898887
No 150
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=96.91 E-value=0.0049 Score=73.71 Aligned_cols=59 Identities=15% Similarity=0.124 Sum_probs=46.3
Q ss_pred HHHHHHHHHhcCC-eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh
Q 000698 949 QRRAIIKVLTAKD-YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 949 Q~~AI~~~l~~~d-~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
|.+|+..+...+. .++|.+|+|+|||..... ..+ ..+.+.++++|+...++...+++.+
T Consensus 2 Q~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~--~~l-~~~~~~~~~~P~~aL~~~~~~~~~~ 61 (357)
T TIGR03158 2 QVATFEALQSKDADIIFNTAPTGAGKTLAWLT--PLL-HGENDTIALYPTNALIEDQTEAIKE 61 (357)
T ss_pred HHHHHHHHHcCCCCEEEEECCCCCCHHHHHHH--HHH-HcCCCEEEEeChHHHHHHHHHHHHH
Confidence 7889988888763 689999999999986543 222 3456789999999999988887765
No 151
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=96.90 E-value=0.0014 Score=83.57 Aligned_cols=54 Identities=24% Similarity=0.335 Sum_probs=48.0
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHH-hcCCeEEEEeccHHHHHHHHHHHhhcCC
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALL-MRGASILLTSYTNSAVDNLLIKLKSQSI 1013 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll-~~gkkVLvtA~TnsAVDnLl~kL~~~~l 1013 (1345)
++..+|.+|=||||||.+...++..+ ..+.+||++|+-.+-+.++..|+...++
T Consensus 49 ~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l 103 (824)
T PF02399_consen 49 RGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGL 103 (824)
T ss_pred CCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCC
Confidence 56889999999999998888887765 5689999999999999999999987765
No 152
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=96.89 E-value=0.0079 Score=73.15 Aligned_cols=57 Identities=25% Similarity=0.295 Sum_probs=40.0
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe-ccH--HHHHHHHHHHhhcCCcEEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTS-YTN--SAVDNLLIKLKSQSIDFVR 1017 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA-~Tn--sAVDnLl~kL~~~~l~ilR 1017 (1345)
.+.++.|++|+|||||++.++..+...|++|++++ .|. .|++.+..--...++++..
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~ 160 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYG 160 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEe
Confidence 36789999999999999999999988898877654 343 4555553222223444443
No 153
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.88 E-value=0.0064 Score=72.50 Aligned_cols=56 Identities=23% Similarity=0.297 Sum_probs=41.2
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEE-EeccH--HHHHHHHHHHhhcCCcE
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILL-TSYTN--SAVDNLLIKLKSQSIDF 1015 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLv-tA~Tn--sAVDnLl~kL~~~~l~i 1015 (1345)
..+.+|.||.|+|||||++.+...+..+|++|.+ ++.|- .|++.+...-...++.+
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv 264 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVEL 264 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCE
Confidence 3588999999999999999999998888988865 44444 34666655444444443
No 154
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=96.86 E-value=0.0043 Score=74.97 Aligned_cols=120 Identities=21% Similarity=0.114 Sum_probs=87.2
Q ss_pred CHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHH-HHHhcCCeEEEEeccHHHHHHHHHHHhhc-CCc---EEEEcc
Q 000698 946 NDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVK-ALLMRGASILLTSYTNSAVDNLLIKLKSQ-SID---FVRIGR 1020 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~-~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~-~l~---ilRiG~ 1020 (1345)
-..|.....+++. ..+||.-|.|=|||++++..+. .|...+++||++|||.-.|..-...+.+. +++ +.-+.
T Consensus 17 R~YQ~~i~a~al~--~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~lt- 93 (542)
T COG1111 17 RLYQLNIAAKALF--KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALT- 93 (542)
T ss_pred HHHHHHHHHHHhh--cCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeeec-
Confidence 3468888888887 4899999999999999988777 55555669999999999998877666542 221 11111
Q ss_pred cchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccc----cCCCCCEEEEeCCCCCCH
Q 000698 1021 HEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLL----TDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1021 ~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll----~~~~FD~VIVDEASQite 1084 (1345)
..-+.++-...+...+|+.+|...+.+.+. ....|++||+|||..++-
T Consensus 94 ----------------Gev~p~~R~~~w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvG 145 (542)
T COG1111 94 ----------------GEVRPEEREELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVG 145 (542)
T ss_pred ----------------CCCChHHHHHHHhhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccC
Confidence 111233445567889999999988765543 446899999999998864
No 155
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=96.85 E-value=0.0054 Score=57.47 Aligned_cols=67 Identities=28% Similarity=0.357 Sum_probs=57.3
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhhhcccccccHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAMNINSVE 1042 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~ 1042 (1345)
.++.|.+|+||||+...++..|.+.|.+|+++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~----------------------------------------------- 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID----------------------------------------------- 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC-----------------------------------------------
Confidence 578899999999999999999999999999888
Q ss_pred HHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH--hhhhcccCeEEEEcCCCC
Q 000698 1043 EIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS--LGPLMFASKFVLVGDHYQ 1105 (1345)
Q Consensus 1043 ~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~--L~pL~~a~k~VLVGDh~Q 1105 (1345)
|++|+|-......+.. ...+..+..++++-++.+
T Consensus 35 -----------------------------d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~~~~ 70 (99)
T cd01983 35 -----------------------------DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPEA 70 (99)
T ss_pred -----------------------------CEEEEeCCCCccchhhhhhhhhhhCCEEEEecCCch
Confidence 8999999988877763 455566788888888877
No 156
>PHA02653 RNA helicase NPH-II; Provisional
Probab=96.84 E-value=0.0068 Score=77.76 Aligned_cols=114 Identities=19% Similarity=0.131 Sum_probs=67.9
Q ss_pred HHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHH----------HHH--h---cCCeEEEEeccHHHHHHHHHHHhhc-
Q 000698 948 DQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVK----------ALL--M---RGASILLTSYTNSAVDNLLIKLKSQ- 1011 (1345)
Q Consensus 948 eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~----------~Ll--~---~gkkVLvtA~TnsAVDnLl~kL~~~- 1011 (1345)
-|++++..++. ....+++|+.|||||+.+-..+. .+. . .+.+|++++||..||..+..++.+.
T Consensus 168 iQ~qil~~i~~-gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~v 246 (675)
T PHA02653 168 VQLKIFEAWIS-RKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKSL 246 (675)
T ss_pred HHHHHHHHHHh-CCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHHh
Confidence 45666665554 56889999999999997643332 111 1 2468999999999998888777542
Q ss_pred CC------c-EEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCC
Q 000698 1012 SI------D-FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1012 ~l------~-ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQit 1083 (1345)
+. . .+|.|... -...........++.+|. +..... -..+++||||||...+
T Consensus 247 g~~~~~g~~v~v~~Gg~~------------------~~~~~t~~k~~~Ilv~T~-~L~l~~--L~~v~~VVIDEaHEr~ 304 (675)
T PHA02653 247 GFDEIDGSPISLKYGSIP------------------DELINTNPKPYGLVFSTH-KLTLNK--LFDYGTVIIDEVHEHD 304 (675)
T ss_pred CccccCCceEEEEECCcc------------------hHHhhcccCCCCEEEEeC-cccccc--cccCCEEEccccccCc
Confidence 11 1 23333211 000011122446766663 222222 3579999999995543
No 157
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.81 E-value=0.008 Score=79.60 Aligned_cols=128 Identities=19% Similarity=0.236 Sum_probs=82.9
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEccc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~ 1021 (1345)
...|.+.|++||..++.. .-+++..|.|+|||. +..+-.|.. +..+||++|+.+.+..-..+|...++....+...
T Consensus 458 ~~sFRp~Q~eaI~aiL~G-rDVLVimPTGSGKSL--cYQLPAL~~-~GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L~s~ 533 (1195)
T PLN03137 458 NHSFRPNQREIINATMSG-YDVFVLMPTGGGKSL--TYQLPALIC-PGITLVISPLVSLIQDQIMNLLQANIPAASLSAG 533 (1195)
T ss_pred CCCCCHHHHHHHHHHHcC-CCEEEEcCCCccHHH--HHHHHHHHc-CCcEEEEeCHHHHHHHHHHHHHhCCCeEEEEECC
Confidence 467899999999999885 459999999999994 444444544 4579999999999987778887777765544322
Q ss_pred chhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccc--c---c----cCCCCCEEEEeCCCCCC
Q 000698 1022 EVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNP--L---L----TDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1022 ~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~--l---l----~~~~FD~VIVDEASQit 1083 (1345)
....+.. ..+.++.......+++.+|...+... + + ....+.+++||||..+.
T Consensus 534 ~s~~eq~----------~ilr~l~s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~LslIVIDEAHcVS 594 (1195)
T PLN03137 534 MEWAEQL----------EILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLARFVIDEAHCVS 594 (1195)
T ss_pred CCHHHHH----------HHHHHHHhcCCCCCEEEEChHHhhcchHHHHHHHhhhhccccceeccCcchhhh
Confidence 1111100 01111222224567887777544321 1 1 12458899999996554
No 158
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=96.80 E-value=0.0015 Score=88.93 Aligned_cols=50 Identities=32% Similarity=0.458 Sum_probs=42.5
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHh-cC-----------CeEEEEeccHHHHHHHHHHHh
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLM-RG-----------ASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~-~g-----------kkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
.+..||-+.||||||.||+.+.-.|+- .| ..|||+|||+.|+.+|.+|+.
T Consensus 17 ~G~~LIEASAGTGKTyTIa~lyLrLlL~~g~~~~~~~~L~~~~ILvvTFT~aAt~Elr~RIr 78 (1181)
T PRK10876 17 QGERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPRPLTVEEILVVTFTEAATEELRGRIR 78 (1181)
T ss_pred CCCEEEEeCCCCcHHHHHHHHHHHHHccCCccccccCCCChhhEEEEechHHHHHHHHHHHH
Confidence 368999999999999999987766654 22 389999999999999998875
No 159
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.78 E-value=0.0027 Score=65.46 Aligned_cols=42 Identities=17% Similarity=0.363 Sum_probs=36.0
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDN 1003 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDn 1003 (1345)
.++|.|+||||||+++..++..+...+.+|++.+......+.
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~ 42 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEEL 42 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHH
Confidence 368999999999999999999998889999999886665443
No 160
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.78 E-value=0.0079 Score=74.40 Aligned_cols=36 Identities=19% Similarity=0.359 Sum_probs=29.6
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEe
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMR--GASILLTS 995 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA 995 (1345)
.+...|.|+.|+||||++..++..+... +++|.+++
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 4578899999999999999999887765 46776654
No 161
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.77 E-value=0.0087 Score=68.34 Aligned_cols=51 Identities=25% Similarity=0.403 Sum_probs=39.7
Q ss_pred CHHHHHHHHHHH------hcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 946 NDDQRRAIIKVL------TAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 946 N~eQ~~AI~~~l------~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
+..+++|+..+. ......++.|+||||||++++.+...|...|.+|++++.
T Consensus 85 ~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~ 141 (254)
T COG1484 85 PGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA 141 (254)
T ss_pred cchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEH
Confidence 334455554443 234578999999999999999999999988999999876
No 162
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=96.76 E-value=0.0022 Score=68.64 Aligned_cols=51 Identities=33% Similarity=0.419 Sum_probs=41.9
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
++|.|+||||||++..+++...+++|++|++.++... .+.+..++...+++
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~-~~~~~~~~~~~g~~ 52 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEES-PEELIENAESLGWD 52 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCC-HHHHHHHHHHcCCC
Confidence 6899999999999999999999899999999998644 56666666655543
No 163
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=96.75 E-value=0.072 Score=66.90 Aligned_cols=162 Identities=20% Similarity=0.181 Sum_probs=99.1
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHH-HHHHHHHH--hcCCe--EEEEeccHHHHHHHHHHHhhcC-----
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTM-VHAVKALL--MRGAS--ILLTSYTNSAVDNLLIKLKSQS----- 1012 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttI-a~lI~~Ll--~~gkk--VLvtA~TnsAVDnLl~kL~~~~----- 1012 (1345)
...++-|.+||-.++.. .-.++++..|||||..- +-++..+. ..... .|+++||+..+..+.+-+...+
T Consensus 50 ~~pt~IQ~~~IP~~l~g-~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~~~~ 128 (513)
T COG0513 50 EEPTPIQLAAIPLILAG-RDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKNLGG 128 (513)
T ss_pred CCCCHHHHHHHHHHhCC-CCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhhcCC
Confidence 45688999999999886 56889999999997643 34555554 22222 8999999999999987765432
Q ss_pred CcE-EEEcccchhhHHHHHhhhcccccccHHHHHHhhc-cccEEEEEecccc----cccccCCCCCEEEEeCCCCCCHHH
Q 000698 1013 IDF-VRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLD-QVKVVAVTCLGIT----NPLLTDKKFDVCIMDEAGQTTLPV 1086 (1345)
Q Consensus 1013 l~i-lRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~-~~~VV~tT~~~~~----~~ll~~~~FD~VIVDEASQitep~ 1086 (1345)
+.+ .-+|. .++..-...+. ..+||.+|..-+. ...+......++|+|||-++...
T Consensus 129 ~~~~~i~GG------------------~~~~~q~~~l~~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEADrmLd~- 189 (513)
T COG0513 129 LRVAVVYGG------------------VSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDM- 189 (513)
T ss_pred ccEEEEECC------------------CCHHHHHHHHhcCCCEEEECccHHHHHHHcCCcchhhcCEEEeccHhhhhcC-
Confidence 221 11221 11111112222 4788888886443 23455568899999999444321
Q ss_pred HhhhhcccCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHhh
Q 000698 1087 SLGPLMFASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALI 1157 (1345)
Q Consensus 1087 ~L~pL~~a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lf 1157 (1345)
|+...++..+....+ ....|-..=-|..+|..++....
T Consensus 190 --------------------------------Gf~~~i~~I~~~~p~-~~qtllfSAT~~~~i~~l~~~~l 227 (513)
T COG0513 190 --------------------------------GFIDDIEKILKALPP-DRQTLLFSATMPDDIRELARRYL 227 (513)
T ss_pred --------------------------------CCHHHHHHHHHhCCc-ccEEEEEecCCCHHHHHHHHHHc
Confidence 333334433333222 22344444456777888888765
No 164
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=96.75 E-value=0.0073 Score=68.67 Aligned_cols=40 Identities=28% Similarity=0.435 Sum_probs=29.5
Q ss_pred CHHHHHHHHHHH---hc-CCeEEEEccCCCChHHHHHHHHHHHH
Q 000698 946 NDDQRRAIIKVL---TA-KDYALILGMPGTGKTSTMVHAVKALL 985 (1345)
Q Consensus 946 N~eQ~~AI~~~l---~~-~d~~LI~GpPGTGKTttIa~lI~~Ll 985 (1345)
+..+++|+.... .. .+..+|.|+||+||||++..+...+.
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 455566665543 22 34789999999999999998877764
No 165
>PRK08116 hypothetical protein; Validated
Probab=96.70 E-value=0.012 Score=67.61 Aligned_cols=35 Identities=26% Similarity=0.470 Sum_probs=31.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
.+++.|+||||||+++..++..|..+|.+|++++.
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~ 150 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNF 150 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEH
Confidence 48999999999999999999999988999988873
No 166
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=96.67 E-value=0.0028 Score=79.69 Aligned_cols=60 Identities=28% Similarity=0.295 Sum_probs=48.2
Q ss_pred CCCCCHHHHHHHH----HHHhcCC-eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHH
Q 000698 942 EKSLNDDQRRAII----KVLTAKD-YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVD 1002 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~----~~l~~~d-~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVD 1002 (1345)
...||++|+.... .+....+ .+. -|++|||||++.-.++..+...|+.++.++.+..|.-
T Consensus 115 ~~~l~~eqk~v~d~~~~~v~~~~g~~ff-~g~~gtgKt~l~~t~~~~~~~~g~~~~~v~~s~ia~~ 179 (540)
T KOG0987|consen 115 PKKLTPEQKRVYDAILEAVENNLGGVFF-YGFGGTGKTYLLKTLIAALRSRGKIVLNVASSGIAAL 179 (540)
T ss_pred hhhcCHHHHHHHHHHHHHHhccccceee-eccCCccceeeHHHHHHHHhcCCceEEEeeecchhhh
Confidence 4689999997776 3333333 344 8999999999999999999999999999999887763
No 167
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=96.64 E-value=0.0037 Score=84.35 Aligned_cols=63 Identities=19% Similarity=0.236 Sum_probs=48.8
Q ss_pred HHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 949 QRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM-RGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 949 Q~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~-~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
.+..|..++..++.++|.|++||||||.+-.++...-. ...+|+++-+-..|+-.+..|+.+.
T Consensus 71 ~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~e 134 (1283)
T TIGR01967 71 KREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEE 134 (1283)
T ss_pred HHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHH
Confidence 35677777887889999999999999987665544321 1237888999999999999998764
No 168
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=96.64 E-value=0.0052 Score=79.75 Aligned_cols=67 Identities=13% Similarity=0.030 Sum_probs=49.7
Q ss_pred CCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh---cCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 945 LNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM---RGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 945 LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~---~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
.++-|.++|..++...+..++++|.|||||.+++.-+..+.. ...+++++++|..-|+.+.+.+.+.
T Consensus 16 PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~ 85 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKI 85 (844)
T ss_pred CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHH
Confidence 678999999999987667889999999999866421111111 1346677889999999998776553
No 169
>PF13173 AAA_14: AAA domain
Probab=96.60 E-value=0.011 Score=60.13 Aligned_cols=42 Identities=24% Similarity=0.407 Sum_probs=34.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHH
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVD 1002 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVD 1002 (1345)
+...+|.||.|+||||++.++++.+. .+++++.+.+......
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~ 43 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDR 43 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHH
Confidence 35789999999999999999999887 5678888877665553
No 170
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=96.60 E-value=0.018 Score=72.25 Aligned_cols=197 Identities=18% Similarity=0.216 Sum_probs=123.4
Q ss_pred CCCHHHHHHHHHHHhc--CC---eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHh----hcCCc
Q 000698 944 SLNDDQRRAIIKVLTA--KD---YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLK----SQSID 1014 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~--~d---~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~----~~~l~ 1014 (1345)
+|+..|++++..+..- .+ .-||+|-=|||||-+++-.+...+..|..+.+.|||-..+..-...+. ..+++
T Consensus 262 ~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~ 341 (677)
T COG1200 262 KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLGIR 341 (677)
T ss_pred CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcCCe
Confidence 7999999999988762 12 359999999999999998888889999999999999988876655554 34554
Q ss_pred EEEEcccchhhHHHHHhhhcccccccHHHHHHhh--ccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhc
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL--DQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLM 1092 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l--~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~ 1092 (1345)
+.-+... .....-.++.+.+ .+.++|..|-.-+.+.. .-.+.-+|||||=.....-+-+....
T Consensus 342 V~lLtG~--------------~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V-~F~~LgLVIiDEQHRFGV~QR~~L~~ 406 (677)
T COG1200 342 VALLTGS--------------LKGKARKEILEQLASGEIDIVVGTHALIQDKV-EFHNLGLVIIDEQHRFGVHQRLALRE 406 (677)
T ss_pred EEEeecc--------------cchhHHHHHHHHHhCCCCCEEEEcchhhhcce-eecceeEEEEeccccccHHHHHHHHH
Confidence 3333211 0111112222222 24678877754444332 22467899999998888777665555
Q ss_pred ccCeEEEEcCCCCC----Cccccc-hHHHhcCCcchHHHHHHHhCCcceecccccccCchhHHHHHHHhhhCCc
Q 000698 1093 FASKFVLVGDHYQL----PPLVQS-TEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDR 1161 (1345)
Q Consensus 1093 ~a~k~VLVGDh~QL----PPvV~s-~~a~~~Gl~~SLFerL~~~~p~~v~~Lt~QYRm~~eI~~lsN~lfY~g~ 1161 (1345)
.+.. -|+|| -|+=.+ ....+..+++|..+.+-.. ...+.+.......-+++.++....+-.|+
T Consensus 407 KG~~-----~Ph~LvMTATPIPRTLAlt~fgDldvS~IdElP~G-RkpI~T~~i~~~~~~~v~e~i~~ei~~Gr 474 (677)
T COG1200 407 KGEQ-----NPHVLVMTATPIPRTLALTAFGDLDVSIIDELPPG-RKPITTVVIPHERRPEVYERIREEIAKGR 474 (677)
T ss_pred hCCC-----CCcEEEEeCCCchHHHHHHHhccccchhhccCCCC-CCceEEEEeccccHHHHHHHHHHHHHcCC
Confidence 5543 23332 111110 1123445677766554221 12355666666777888888887775554
No 171
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=96.56 E-value=0.017 Score=69.37 Aligned_cols=113 Identities=27% Similarity=0.421 Sum_probs=73.0
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe---ccHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhhhccccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTS---YTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAMNI 1038 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA---~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~~~ 1038 (1345)
+.+..|-=|+|||||.+.++.+|.+.|++||++| |--.|+|.|..--.+.++++.-.+....
T Consensus 102 vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~--------------- 166 (451)
T COG0541 102 VILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKD--------------- 166 (451)
T ss_pred EEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCC---------------
Confidence 5678899999999999999999999999988775 4566777776554556777665532110
Q ss_pred ccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH-------hhhhcccCeEEEEcCCCC
Q 000698 1039 NSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS-------LGPLMFASKFVLVGDHYQ 1105 (1345)
Q Consensus 1039 ~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~-------L~pL~~a~k~VLVGDh~Q 1105 (1345)
-++-.++.+.. +....||+||||=|+....-.- +.-......++||=|..-
T Consensus 167 -Pv~Iak~al~~---------------ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~ 224 (451)
T COG0541 167 -PVEIAKAALEK---------------AKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMI 224 (451)
T ss_pred -HHHHHHHHHHH---------------HHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEeccc
Confidence 01111111111 1224799999999997753222 222233566888888653
No 172
>PRK09694 helicase Cas3; Provisional
Probab=96.55 E-value=0.011 Score=77.76 Aligned_cols=67 Identities=19% Similarity=0.198 Sum_probs=55.1
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhh
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
...++-|+.+... ....+.++|.+|.|+|||..+...+..|...| .+|.++.||...++.+.+|+.+
T Consensus 285 ~~p~p~Q~~~~~~-~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~ 353 (878)
T PRK09694 285 YQPRQLQTLVDAL-PLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEA 353 (878)
T ss_pred CCChHHHHHHHhh-ccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHH
Confidence 3568888876432 23457899999999999999988888887765 6999999999999999999864
No 173
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.52 E-value=0.0046 Score=75.88 Aligned_cols=134 Identities=22% Similarity=0.208 Sum_probs=67.4
Q ss_pred HHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhHHH
Q 000698 952 AIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEI 1028 (1345)
Q Consensus 952 AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v 1028 (1345)
.+..++.... .+++.|||||||||++..+++.|......-.-.+.+-.....+... ...+++.+...
T Consensus 29 ~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g---~~~dviEIdaa------- 98 (484)
T PRK14956 29 ALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKG---ISSDVLEIDAA------- 98 (484)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHcc---CCccceeechh-------
Confidence 3444455443 2699999999999999999888754211101111111112222111 11233333211
Q ss_pred HHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEEEcC
Q 000698 1029 QKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVLVGD 1102 (1345)
Q Consensus 1029 ~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VLVGD 1102 (1345)
....++++++..+... ..+ ...+|.++|||||.+++...+ |..+-. ...|||+..
T Consensus 99 --------s~~gVd~IReL~e~l~---------~~p--~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTt 159 (484)
T PRK14956 99 --------SNRGIENIRELRDNVK---------FAP--MGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATT 159 (484)
T ss_pred --------hcccHHHHHHHHHHHH---------hhh--hcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecC
Confidence 1112333333332211 001 124689999999998887544 222211 234665554
Q ss_pred -CCCCCccccchH
Q 000698 1103 -HYQLPPLVQSTE 1114 (1345)
Q Consensus 1103 -h~QLPPvV~s~~ 1114 (1345)
+.+|+|.+.+.-
T Consensus 160 e~~kI~~TI~SRC 172 (484)
T PRK14956 160 EFHKIPETILSRC 172 (484)
T ss_pred ChhhccHHHHhhh
Confidence 577888887763
No 174
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.47 E-value=0.0077 Score=75.95 Aligned_cols=135 Identities=26% Similarity=0.313 Sum_probs=73.2
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhcCC---e-E--EEEeccHHHHHHHHHHHhh-cCCcEEEEc
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMRGA---S-I--LLTSYTNSAVDNLLIKLKS-QSIDFVRIG 1019 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~gk---k-V--LvtA~TnsAVDnLl~kL~~-~~l~ilRiG 1019 (1345)
.+.+..++.... -+|+.|++|+||||++..+++.|.-.+. . + --| -.- .-+.++.. ...+++.+.
T Consensus 25 v~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PC-G~C----~sC~~I~aG~hpDviEId 99 (700)
T PRK12323 25 VRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPC-GQC----RACTEIDAGRFVDYIEMD 99 (700)
T ss_pred HHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCC-ccc----HHHHHHHcCCCCcceEec
Confidence 345555555433 3589999999999999999998864211 0 0 000 000 11222221 123444433
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF--- 1093 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~--- 1093 (1345)
.. ....+++++++++.... .+ ...+|.++||||+.+++...+ |..|-.
T Consensus 100 Aa---------------s~~gVDdIReLie~~~~---------~P--~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~ 153 (700)
T PRK12323 100 AA---------------SNRGVDEMAQLLDKAVY---------AP--TAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPE 153 (700)
T ss_pred cc---------------ccCCHHHHHHHHHHHHh---------ch--hcCCceEEEEEChHhcCHHHHHHHHHhhccCCC
Confidence 21 11234555554442210 01 124789999999998886554 222211
Q ss_pred cCeEEEEc-CCCCCCccccchHH
Q 000698 1094 ASKFVLVG-DHYQLPPLVQSTEA 1115 (1345)
Q Consensus 1094 a~k~VLVG-Dh~QLPPvV~s~~a 1115 (1345)
...|||+. |..+|+|+|.|.-.
T Consensus 154 ~v~FILaTtep~kLlpTIrSRCq 176 (700)
T PRK12323 154 HVKFILATTDPQKIPVTVLSRCL 176 (700)
T ss_pred CceEEEEeCChHhhhhHHHHHHH
Confidence 34677776 56778998887643
No 175
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=96.41 E-value=0.014 Score=58.34 Aligned_cols=61 Identities=21% Similarity=0.279 Sum_probs=38.6
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH----------HHHHHHHHHHhhcC-CcEEEEcccchhhH
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN----------SAVDNLLIKLKSQS-IDFVRIGRHEVVHK 1026 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn----------sAVDnLl~kL~~~~-l~ilRiG~~~~v~~ 1026 (1345)
.+|+||||||||+++..+++.+ +..++-+.... ..+..+..+..+.. ..++-+...+.+..
T Consensus 1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~ 72 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFP 72 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSH
T ss_pred CEEECcCCCCeeHHHHHHHhhc---ccccccccccccccccccccccccccccccccccccceeeeeccchhccc
Confidence 4799999999999999999887 45555555433 33344444443344 45666655444443
No 176
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=96.40 E-value=0.0099 Score=70.46 Aligned_cols=43 Identities=16% Similarity=0.232 Sum_probs=33.8
Q ss_pred CCEEEEeCCCCCCHHHH--hhhhcccCeEEEEcCCCCCCccccch
Q 000698 1071 FDVCIMDEAGQTTLPVS--LGPLMFASKFVLVGDHYQLPPLVQST 1113 (1345)
Q Consensus 1071 FD~VIVDEASQitep~~--L~pL~~a~k~VLVGDh~QLPPvV~s~ 1113 (1345)
=.++||||.....-.+. +.|......++|||=.-.=|....++
T Consensus 105 ~tiLflDEIHRfnK~QQD~lLp~vE~G~iilIGATTENPsF~ln~ 149 (436)
T COG2256 105 RTILFLDEIHRFNKAQQDALLPHVENGTIILIGATTENPSFELNP 149 (436)
T ss_pred ceEEEEehhhhcChhhhhhhhhhhcCCeEEEEeccCCCCCeeecH
Confidence 36899999998876554 78888889999999988866655443
No 177
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.38 E-value=0.009 Score=71.38 Aligned_cols=36 Identities=19% Similarity=0.374 Sum_probs=29.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHH--hcCCeEEEEe
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALL--MRGASILLTS 995 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll--~~gkkVLvtA 995 (1345)
.++..+.||.|.|||||++-+++... ...++|-+++
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiIT 240 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT 240 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEE
Confidence 56899999999999999999998877 4456776654
No 178
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.36 E-value=0.013 Score=75.73 Aligned_cols=124 Identities=23% Similarity=0.281 Sum_probs=82.2
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHhcC-------CeEEEEeccHHHHHHHHHHHhh---
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLMRG-------ASILLTSYTNSAVDNLLIKLKS--- 1010 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~~g-------kkVLvtA~TnsAVDnLl~kL~~--- 1010 (1345)
...+++.|.+|+..+.. ...+||.+|.|||||-++. -++..|+..| -.+|++||-......|..+|..
T Consensus 20 ~~~~t~~Q~~a~~~i~~-G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~~~ 98 (814)
T COG1201 20 FTSLTPPQRYAIPEIHS-GENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEPLR 98 (814)
T ss_pred cCCCCHHHHHHHHHHhC-CCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHHHH
Confidence 45789999999999986 4689999999999998875 4555566552 4699999999888888888764
Q ss_pred -cCCcE-EEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc----ccccc--CCCCCEEEEeCCCCC
Q 000698 1011 -QSIDF-VRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT----NPLLT--DKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1011 -~~l~i-lRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~----~~ll~--~~~FD~VIVDEASQi 1082 (1345)
.|+++ +|-|.. ...+.-+..-+...|+.||.-+.. .+-+. -....+|||||....
T Consensus 99 ~~G~~v~vRhGDT-----------------~~~er~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVDEiHel 161 (814)
T COG1201 99 ELGIEVAVRHGDT-----------------PQSEKQKMLKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHAL 161 (814)
T ss_pred HcCCccceecCCC-----------------ChHHhhhccCCCCcEEEeChhHHHHHhcCHHHHHHhcCCcEEEeehhhhh
Confidence 34443 333321 111121222344567777765432 21111 146789999999665
Q ss_pred C
Q 000698 1083 T 1083 (1345)
Q Consensus 1083 t 1083 (1345)
-
T Consensus 162 ~ 162 (814)
T COG1201 162 A 162 (814)
T ss_pred h
Confidence 4
No 179
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=96.35 E-value=0.0058 Score=68.06 Aligned_cols=53 Identities=28% Similarity=0.441 Sum_probs=42.4
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhhcCC
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKSQSI 1013 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~~~l 1013 (1345)
...++|.|+||||||+...+.+..-+++ |.+++++++.... +.+.+.+...+.
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~-~~l~~~~~s~g~ 72 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP-EELIENMKSFGW 72 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H-HHHHHHHHTTTS
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH-HHHHHHHHHcCC
Confidence 4579999999999999999999888888 9999999986665 777777776664
No 180
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=96.34 E-value=0.016 Score=62.31 Aligned_cols=58 Identities=16% Similarity=0.241 Sum_probs=44.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHH----HHHHHHHHhhcCCcEEEEcc
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSA----VDNLLIKLKSQSIDFVRIGR 1020 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsA----VDnLl~kL~~~~l~ilRiG~ 1020 (1345)
++...|.+++|.||||.+..++...+..|.+|+++=|-... =.++++++ ++.+.+.|.
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~---~~~~~~~g~ 66 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPH---GVEFQVMGT 66 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhc---CcEEEECCC
Confidence 46889999999999999999999999999999999764433 13344443 666776664
No 181
>PRK06893 DNA replication initiation factor; Validated
Probab=96.34 E-value=0.017 Score=64.79 Aligned_cols=37 Identities=14% Similarity=0.266 Sum_probs=32.0
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEecc
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYT 997 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~T 997 (1345)
+.++|.||||||||+++..+...+..++.++.++..+
T Consensus 40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence 3578999999999999999999998888888777663
No 182
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.34 E-value=0.014 Score=70.68 Aligned_cols=36 Identities=25% Similarity=0.421 Sum_probs=30.0
Q ss_pred CeEEEEccCCCChHHHHHHHHHHH-HhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKAL-LMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~L-l~~gkkVLvtA~ 996 (1345)
...+|.||+|+||||+++.++..+ ...|.+|++++.
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~ 260 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTT 260 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecc
Confidence 468899999999999999999765 567888876654
No 183
>PRK14873 primosome assembly protein PriA; Provisional
Probab=96.32 E-value=0.011 Score=75.99 Aligned_cols=105 Identities=19% Similarity=0.201 Sum_probs=75.7
Q ss_pred EEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcC--CcEEEEcccchhhHHHHHhhhcccccccH
Q 000698 964 LILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQS--IDFVRIGRHEVVHKEIQKHCLSAMNINSV 1041 (1345)
Q Consensus 964 LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~--l~ilRiG~~~~v~~~v~~~~l~~~~~~s~ 1041 (1345)
+..+.+|||||.+.+++|+..++.|+.+|++.+....+..+..+|.+.. ..+..+-+.- .....+
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l-------------~~~~R~ 230 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGL-------------GPADRY 230 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCC-------------CHHHHH
Confidence 3445679999999999999999999999999999999999999997542 2333332110 111223
Q ss_pred HHHHHhhc-cccEEEEEecccccccccCCCCCEEEEeCCCCCCH
Q 000698 1042 EEIKKRLD-QVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1042 ~~i~~~l~-~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQite 1084 (1345)
+.+.+... ..+||..|-+++.-|+ .+...|||||=.+.+-
T Consensus 231 ~~w~~~~~G~~~IViGtRSAvFaP~---~~LgLIIvdEEhd~sy 271 (665)
T PRK14873 231 RRWLAVLRGQARVVVGTRSAVFAPV---EDLGLVAIWDDGDDLL 271 (665)
T ss_pred HHHHHHhCCCCcEEEEcceeEEecc---CCCCEEEEEcCCchhh
Confidence 44444443 4689999988877766 4678999999876653
No 184
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=96.31 E-value=0.011 Score=75.23 Aligned_cols=129 Identities=25% Similarity=0.311 Sum_probs=70.4
Q ss_pred HHHHHHHhcCCe---EEEEccCCCChHHHHHHHHHHHHhc-C---CeEEEEeccHHHHHHHHHHHhhc-CCcEEEEcccc
Q 000698 951 RAIIKVLTAKDY---ALILGMPGTGKTSTMVHAVKALLMR-G---ASILLTSYTNSAVDNLLIKLKSQ-SIDFVRIGRHE 1022 (1345)
Q Consensus 951 ~AI~~~l~~~d~---~LI~GpPGTGKTttIa~lI~~Ll~~-g---kkVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG~~~ 1022 (1345)
+++.+++..+.. +|+.|++|+||||++..+++.|.-. + .....| ..+.++... ..+++.+....
T Consensus 26 ~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C--------~~C~~i~~g~~~D~ieidaas 97 (647)
T PRK07994 26 TALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGEC--------DNCREIEQGRFVDLIEIDAAS 97 (647)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCC--------HHHHHHHcCCCCCceeecccc
Confidence 455556665443 6899999999999999998887542 1 011111 233333221 23444332211
Q ss_pred hhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc-cC--e
Q 000698 1023 VVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF-AS--K 1096 (1345)
Q Consensus 1023 ~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~-a~--k 1096 (1345)
...++++++.++... ..+ ...+|.++|||||.+++.... |..|-. .. +
T Consensus 98 ---------------~~~VddiR~li~~~~---------~~p--~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~ 151 (647)
T PRK07994 98 ---------------RTKVEDTRELLDNVQ---------YAP--ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVK 151 (647)
T ss_pred ---------------cCCHHHHHHHHHHHH---------hhh--hcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeE
Confidence 113444444443321 011 124799999999998887544 222222 22 3
Q ss_pred EEEEc-CCCCCCccccch
Q 000698 1097 FVLVG-DHYQLPPLVQST 1113 (1345)
Q Consensus 1097 ~VLVG-Dh~QLPPvV~s~ 1113 (1345)
|||+- |+..|+|++.|.
T Consensus 152 FIL~Tt~~~kLl~TI~SR 169 (647)
T PRK07994 152 FLLATTDPQKLPVTILSR 169 (647)
T ss_pred EEEecCCccccchHHHhh
Confidence 44443 667788887764
No 185
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=96.26 E-value=0.012 Score=70.69 Aligned_cols=53 Identities=26% Similarity=0.417 Sum_probs=42.5
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCC
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSI 1013 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l 1013 (1345)
...++|.|+||+||||++..++..+...|.+||+++...+ .+.+..|..+.++
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs-~~qi~~Ra~rlg~ 134 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEES-PEQIKLRADRLGI 134 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcC-HHHHHHHHHHcCC
Confidence 4588999999999999999999999888899999987654 4566666554443
No 186
>PRK08727 hypothetical protein; Validated
Probab=96.26 E-value=0.012 Score=66.33 Aligned_cols=36 Identities=28% Similarity=0.302 Sum_probs=32.2
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
+..+|.|++|||||+++..+...+...|.++.+++.
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~ 77 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL 77 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeH
Confidence 468999999999999999999999888999888874
No 187
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.25 E-value=0.031 Score=73.74 Aligned_cols=60 Identities=17% Similarity=0.159 Sum_probs=46.9
Q ss_pred CHHHHH---HHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHH
Q 000698 946 NDDQRR---AIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM-RGASILLTSYTNSAVDNLLIK 1007 (1345)
Q Consensus 946 N~eQ~~---AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~-~gkkVLvtA~TnsAVDnLl~k 1007 (1345)
-+.|.+ +|..++......+|.+++|||||.. .++-.+.. .+.+|+|.++|....+.+..+
T Consensus 247 R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~a--yllp~l~~~~~~~vvI~t~T~~Lq~Ql~~~ 310 (820)
T PRK07246 247 RPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYG--YLLPLLAQSDQRQIIVSVPTKILQDQIMAE 310 (820)
T ss_pred CHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHH--HHHHHHHhcCCCcEEEEeCcHHHHHHHHHH
Confidence 456777 7888888788999999999999964 33333333 578999999999999999533
No 188
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=96.25 E-value=0.013 Score=65.27 Aligned_cols=23 Identities=35% Similarity=0.459 Sum_probs=17.4
Q ss_pred CeEEEEccCCCChHHHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKA 983 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~ 983 (1345)
+.++..||||+||||++.-++..
T Consensus 51 ~h~lf~GPPG~GKTTLA~IIA~e 73 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARIIANE 73 (233)
T ss_dssp -EEEEESSTTSSHHHHHHHHHHH
T ss_pred ceEEEECCCccchhHHHHHHHhc
Confidence 57999999999998765544444
No 189
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.25 E-value=0.012 Score=73.53 Aligned_cols=133 Identities=26% Similarity=0.301 Sum_probs=72.1
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhh-cCCcEEEEcccchh
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKS-QSIDFVRIGRHEVV 1024 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~-~~l~ilRiG~~~~v 1024 (1345)
.+++..++.... .+|+.|||||||||++..+++.|.-. +...--|- .- ..+..+.. ...+++.+...
T Consensus 25 ~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg-~C----~~C~~i~~g~~~d~~eidaa--- 96 (509)
T PRK14958 25 VRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCN-DC----ENCREIDEGRFPDLFEVDAA--- 96 (509)
T ss_pred HHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCC-CC----HHHHHHhcCCCceEEEEccc---
Confidence 345555554432 36899999999999999988888542 11110000 00 11222221 12344444321
Q ss_pred hHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEE
Q 000698 1025 HKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFV 1098 (1345)
Q Consensus 1025 ~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~V 1098 (1345)
....++++++.++.... .+ ...+|.++|||||.+++.... |..|-. ...||
T Consensus 97 ------------s~~~v~~iR~l~~~~~~---------~p--~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fI 153 (509)
T PRK14958 97 ------------SRTKVEDTRELLDNIPY---------AP--TKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFI 153 (509)
T ss_pred ------------ccCCHHHHHHHHHHHhh---------cc--ccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEE
Confidence 12234455554443221 01 124799999999988886443 222221 24566
Q ss_pred EE-cCCCCCCccccch
Q 000698 1099 LV-GDHYQLPPLVQST 1113 (1345)
Q Consensus 1099 LV-GDh~QLPPvV~s~ 1113 (1345)
|+ .|+..+||.+.+.
T Consensus 154 lattd~~kl~~tI~SR 169 (509)
T PRK14958 154 LATTDHHKLPVTVLSR 169 (509)
T ss_pred EEECChHhchHHHHHH
Confidence 65 6888999887665
No 190
>COG4889 Predicted helicase [General function prediction only]
Probab=96.25 E-value=0.014 Score=73.75 Aligned_cols=141 Identities=26% Similarity=0.245 Sum_probs=85.4
Q ss_pred CCCCCHHHHHHHHHHHhc---CCe-EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc---CCc
Q 000698 942 EKSLNDDQRRAIIKVLTA---KDY-ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ---SID 1014 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~---~d~-~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~---~l~ 1014 (1345)
-+++-+-|+.||+.++.. ++- -||. .+|||||.|...+...|.+ .+||+++++-+....-+..-... .+.
T Consensus 159 ~kk~R~hQq~Aid~a~~~F~~n~RGkLIM-AcGTGKTfTsLkisEala~--~~iL~LvPSIsLLsQTlrew~~~~~l~~~ 235 (1518)
T COG4889 159 PKKPRPHQQTAIDAAKEGFSDNDRGKLIM-ACGTGKTFTSLKISEALAA--ARILFLVPSISLLSQTLREWTAQKELDFR 235 (1518)
T ss_pred CCCCChhHHHHHHHHHhhcccccCCcEEE-ecCCCccchHHHHHHHHhh--hheEeecchHHHHHHHHHHHhhccCccce
Confidence 357889999999998863 122 3444 4799999999998888876 89999999987766554443322 223
Q ss_pred EEEEcccchhhH---HHHHhhhcccccccHHHHHH------hhccccEEEEEecccccc----cccCCCCCEEEEeCCCC
Q 000698 1015 FVRIGRHEVVHK---EIQKHCLSAMNINSVEEIKK------RLDQVKVVAVTCLGITNP----LLTDKKFDVCIMDEAGQ 1081 (1345)
Q Consensus 1015 ilRiG~~~~v~~---~v~~~~l~~~~~~s~~~i~~------~l~~~~VV~tT~~~~~~~----ll~~~~FD~VIVDEASQ 1081 (1345)
-.-+.+..++.. ++..+-+....-.+.+.+.. .-...-||.+|..++..- ...-..||+||.|||..
T Consensus 236 a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fDliicDEAHR 315 (1518)
T COG4889 236 ASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFDLIICDEAHR 315 (1518)
T ss_pred eEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHHHHHHHHcCCCCccEEEecchhc
Confidence 333444333332 22222221111112222222 233456888888765321 12235899999999987
Q ss_pred CCHH
Q 000698 1082 TTLP 1085 (1345)
Q Consensus 1082 itep 1085 (1345)
.+-.
T Consensus 316 TtGa 319 (1518)
T COG4889 316 TTGA 319 (1518)
T ss_pred cccc
Confidence 7643
No 191
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=96.24 E-value=0.019 Score=68.38 Aligned_cols=40 Identities=33% Similarity=0.414 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHhc------CCeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 947 DDQRRAIIKVLTA------KDYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 947 ~eQ~~AI~~~l~~------~d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
++|.+.+...+.. .+..+|.||||||||+++..++..+..
T Consensus 21 e~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 21 DEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred HHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4455555555431 247899999999999999999888754
No 192
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=96.20 E-value=0.029 Score=59.64 Aligned_cols=59 Identities=20% Similarity=0.269 Sum_probs=46.8
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHH----HHHHHHHHHhhcCCcEEEEccc
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNS----AVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tns----AVDnLl~kL~~~~l~ilRiG~~ 1021 (1345)
+...|.+++|+||||.+..+....+..|.+|+++-|-.. .-.+++.++. ++.+.|.|..
T Consensus 3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~--~v~~~~~g~~ 65 (159)
T cd00561 3 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLP--NIEIHRMGRG 65 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCC--CcEEEECCCC
Confidence 678899999999999999999888899999999666333 3455666663 7888888864
No 193
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=96.18 E-value=0.08 Score=64.03 Aligned_cols=120 Identities=21% Similarity=0.246 Sum_probs=74.3
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHH-HHHHHHHHHh------cCCeEEEEeccHHHHHHHHHHHhh---c
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTST-MVHAVKALLM------RGASILLTSYTNSAVDNLLIKLKS---Q 1011 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTtt-Ia~lI~~Ll~------~gkkVLvtA~TnsAVDnLl~kL~~---~ 1011 (1345)
+..+++-|++.|.-++..+ -++..+..|||||.- +.-.+..++. .|-.|+|+|+|+..+-.+..-+.+ .
T Consensus 102 F~~MT~VQ~~ti~pll~gk-Dvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll~~ 180 (543)
T KOG0342|consen 102 FETMTPVQQKTIPPLLEGK-DVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELLKY 180 (543)
T ss_pred ccchhHHHHhhcCccCCCc-cceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHHHhh
Confidence 4578999999998888765 688999999999973 3344555544 356799999999887776543322 1
Q ss_pred --C--CcEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccc-----cccCCCCCEEEEeCCC
Q 000698 1012 --S--IDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNP-----LLTDKKFDVCIMDEAG 1080 (1345)
Q Consensus 1012 --~--l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~-----ll~~~~FD~VIVDEAS 1080 (1345)
+ +.++--|+..+ .+..+.-..+.++.+|...+.+. .|-.+..++.|+|||-
T Consensus 181 h~~~~v~~viGG~~~~------------------~e~~kl~k~~niliATPGRLlDHlqNt~~f~~r~~k~lvlDEAD 240 (543)
T KOG0342|consen 181 HESITVGIVIGGNNFS------------------VEADKLVKGCNILIATPGRLLDHLQNTSGFLFRNLKCLVLDEAD 240 (543)
T ss_pred CCCcceEEEeCCccch------------------HHHHHhhccccEEEeCCchHHhHhhcCCcchhhccceeEeecch
Confidence 1 12221121111 11222233566777777654322 2223445899999993
No 194
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=96.12 E-value=0.045 Score=61.18 Aligned_cols=51 Identities=18% Similarity=0.174 Sum_probs=36.6
Q ss_pred CHHHHHHHHHHHhcCC----eEEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEec
Q 000698 946 NDDQRRAIIKVLTAKD----YALILGMPGTGKTSTMVHAVKALLM--RGASILLTSY 996 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d----~~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~ 996 (1345)
|..=..|+..+....+ ...|.|++|+|||+++..+...+.+ .+.+|+++..
T Consensus 16 N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~ 72 (219)
T PF00308_consen 16 NELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA 72 (219)
T ss_dssp THHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH
T ss_pred HHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH
Confidence 5444556655555433 5899999999999999988888776 3678887764
No 195
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=96.12 E-value=0.041 Score=71.04 Aligned_cols=141 Identities=13% Similarity=0.097 Sum_probs=83.6
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh----cCCcEEEEc
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS----QSIDFVRIG 1019 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~----~~l~ilRiG 1019 (1345)
++-+.|.+++-......+ .+++-+.|+|||.+.+--+..-...|+.|+|+++|...+....+.+.. .|+...-+-
T Consensus 68 glrpydVQlig~l~l~~G-~Iaem~TGeGKTLta~Lpa~l~aL~g~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~~ 146 (762)
T TIGR03714 68 GMFPYDVQVLGAIVLHQG-NIAEMKTGEGKTLTATMPLYLNALTGKGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLGV 146 (762)
T ss_pred CCCccHHHHHHHHHhcCC-ceeEecCCcchHHHHHHHHHHHhhcCCceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEEE
Confidence 455556666655555555 699999999999987755443344688999999999888877766533 344432211
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccc-----------cCCCCCEEEEeCCCCCCHHHHh
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLL-----------TDKKFDVCIMDEAGQTTLPVSL 1088 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll-----------~~~~FD~VIVDEASQitep~~L 1088 (1345)
.. .. ....-.+.+.....+.|+.+|...+....+ ..+.+.++|||||-.+..-+.
T Consensus 147 ~~-s~------------~~~~~~~~rr~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDea- 212 (762)
T TIGR03714 147 VD-DP------------DEEYDANEKRKIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSA- 212 (762)
T ss_pred CC-CC------------ccccCHHHHHHhCCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccC-
Confidence 00 00 000011223333467888888877642211 135789999999944432221
Q ss_pred hhhcccCeEEEEcCCC
Q 000698 1089 GPLMFASKFVLVGDHY 1104 (1345)
Q Consensus 1089 ~pL~~a~k~VLVGDh~ 1104 (1345)
...+|+-|.+.
T Consensus 213 -----rtpliisg~~~ 223 (762)
T TIGR03714 213 -----QTPLVISGAPR 223 (762)
T ss_pred -----cCCeeeeCCCc
Confidence 12356666654
No 196
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.10 E-value=0.03 Score=73.05 Aligned_cols=121 Identities=17% Similarity=0.104 Sum_probs=76.4
Q ss_pred CCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc----CCcEEEEcc
Q 000698 945 LNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ----SIDFVRIGR 1020 (1345)
Q Consensus 945 LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~----~l~ilRiG~ 1020 (1345)
+++.|.+++-.++...+ .+.+.+.|||||.+.+--+..-+..|..++|+++|...+....+-+... ++.+.-+-.
T Consensus 93 ~tp~qvQ~I~~i~l~~g-vIAeaqTGeGKTLAf~LP~l~~aL~g~~v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~G 171 (970)
T PRK12899 93 MVPYDVQILGAIAMHKG-FITEMQTGEGKTLTAVMPLYLNALTGKPVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVS 171 (970)
T ss_pred CChHHHHHhhhhhcCCC-eEEEeCCCCChHHHHHHHHHHHHhhcCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeC
Confidence 78899999988777655 8899999999998876433322224667999999999888877665442 222211100
Q ss_pred cchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccccccc------------CCCCCEEEEeCCCCCCH
Q 000698 1021 HEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLT------------DKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1021 ~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~------------~~~FD~VIVDEASQite 1084 (1345)
-.+.++-++.+ .++||.+|..-++..++. .+.|.++|||||=.+..
T Consensus 172 -----------------G~~~~eq~~~y-~~DIVygTPgRLgfDyLrd~~~~~~~~~~vqr~~~~~IIDEADsmLi 229 (970)
T PRK12899 172 -----------------GSPLEKRKEIY-QCDVVYGTASEFGFDYLRDNSIATRKEEQVGRGFYFAIIDEVDSILI 229 (970)
T ss_pred -----------------CCCHHHHHHHc-CCCEEEECCChhHHHHhhCCCCCcCHHHhhcccccEEEEechhhhhh
Confidence 01112212233 477888888766211111 24678999999955543
No 197
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=96.07 E-value=0.1 Score=63.42 Aligned_cols=263 Identities=16% Similarity=0.129 Sum_probs=141.6
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChH-HHHHHHHHHHHh-----------cCCeEEEEeccHHHHHHHHHHHhh
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKT-STMVHAVKALLM-----------RGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKT-ttIa~lI~~Ll~-----------~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+.-++-|+.||--.+.. .-.+-.+-.||||| ..+.-++.++.. .|..-+++|||...+..|-+--.+
T Consensus 266 ~eptpIqR~aipl~lQ~-rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~k 344 (673)
T KOG0333|consen 266 KEPTPIQRQAIPLGLQN-RDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNK 344 (673)
T ss_pred CCCchHHHhhccchhcc-CCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHH
Confidence 45588899999766664 45566788999999 444444444433 377889999999999888655333
Q ss_pred c----CCcEEEEcccchhhHHHHHhhhcccccccHHHH-HHhhccccEEEEEecccc----cccccCCCCCEEEEeCCCC
Q 000698 1011 Q----SIDFVRIGRHEVVHKEIQKHCLSAMNINSVEEI-KKRLDQVKVVAVTCLGIT----NPLLTDKKFDVCIMDEAGQ 1081 (1345)
Q Consensus 1011 ~----~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i-~~~l~~~~VV~tT~~~~~----~~ll~~~~FD~VIVDEASQ 1081 (1345)
. ++.++++-.-. ++++. ...-..+.+|.+|..-+- +.+|-...-.||+.|||..
T Consensus 345 f~~~lg~r~vsvigg~-----------------s~EEq~fqls~gceiviatPgrLid~Lenr~lvl~qctyvvldeadr 407 (673)
T KOG0333|consen 345 FGKPLGIRTVSVIGGL-----------------SFEEQGFQLSMGCEIVIATPGRLIDSLENRYLVLNQCTYVVLDEADR 407 (673)
T ss_pred hcccccceEEEEeccc-----------------chhhhhhhhhccceeeecCchHHHHHHHHHHHHhccCceEeccchhh
Confidence 2 45555542222 22221 122234567777765432 2334456788999999975
Q ss_pred C----CHHHHhhhhcccCeEEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCcc---eecccccccCchhHHHHHH
Q 000698 1082 T----TLPVSLGPLMFASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQA---ISALQSQYRMCQGIMELSN 1154 (1345)
Q Consensus 1082 i----tep~~L~pL~~a~k~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~---v~~Lt~QYRm~~eI~~lsN 1154 (1345)
. .||+....| .|+|..-........ .--+++...+... -.++...-=|.|.+-.++.
T Consensus 408 miDmgfE~dv~~iL------------~~mPssn~k~~tde~----~~~~~~~~~~~~~k~yrqT~mftatm~p~verlar 471 (673)
T KOG0333|consen 408 MIDMGFEPDVQKIL------------EQMPSSNAKPDTDEK----EGEERVRKNFSSSKKYRQTVMFTATMPPAVERLAR 471 (673)
T ss_pred hhcccccHHHHHHH------------HhCCccccCCCccch----hhHHHHHhhcccccceeEEEEEecCCChHHHHHHH
Confidence 4 357765544 344443222110000 0111222221111 0112222237888888887
Q ss_pred HhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHHHHHHHHHHHHHHC
Q 000698 1155 ALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKN 1234 (1345)
Q Consensus 1155 ~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~ 1234 (1345)
..+-+- -++.++..+.+.. ...+...-..|-.-...+++. ++.
T Consensus 472 ~ylr~p----------------------------------v~vtig~~gk~~~--rveQ~v~m~~ed~k~kkL~ei-l~~ 514 (673)
T KOG0333|consen 472 SYLRRP----------------------------------VVVTIGSAGKPTP--RVEQKVEMVSEDEKRKKLIEI-LES 514 (673)
T ss_pred HHhhCC----------------------------------eEEEeccCCCCcc--chheEEEEecchHHHHHHHHH-HHh
Confidence 765211 0112211111100 000000001111223333333 333
Q ss_pred CCCCCcEEEEecChHHHHHHHHHcCCCCcEEEeccCccccccC
Q 000698 1235 EIEGKDIGIITPYNSQANLIRHSLSVSSVEIHTIDKYQGRDKD 1277 (1345)
Q Consensus 1235 gv~~~dIGVITPYraQv~lIr~~L~~~~VeV~TVD~fQGrEkd 1277 (1345)
+.. .-|-|.+-+..-+..|.+.|.+.++.+.|.|+.+|+|-.
T Consensus 515 ~~~-ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQR 556 (673)
T KOG0333|consen 515 NFD-PPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQR 556 (673)
T ss_pred CCC-CCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHH
Confidence 333 346677778888899999999999999999999997743
No 198
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.05 E-value=0.017 Score=73.10 Aligned_cols=132 Identities=26% Similarity=0.298 Sum_probs=70.2
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhh-cCCcEEEEcccchh
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKS-QSIDFVRIGRHEVV 1024 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~-~~l~ilRiG~~~~v 1024 (1345)
.+++..++.... .+|+.||||+||||++..+++.|.-. +.....|- .. ..+.++.. ...+++.+...+
T Consensus 24 v~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg-~C----~sC~~I~~g~hpDviEIDAAs-- 96 (702)
T PRK14960 24 SRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCE-VC----ATCKAVNEGRFIDLIEIDAAS-- 96 (702)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCc-cC----HHHHHHhcCCCCceEEecccc--
Confidence 445555555443 45999999999999999998887532 11111110 01 11222222 234555553211
Q ss_pred hHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEE
Q 000698 1025 HKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFV 1098 (1345)
Q Consensus 1025 ~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~V 1098 (1345)
...++++++.+..... .+. ..+|.++||||+.+++.... +..+.. ...||
T Consensus 97 -------------~~~VddIReli~~~~y---------~P~--~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FI 152 (702)
T PRK14960 97 -------------RTKVEDTRELLDNVPY---------APT--QGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFL 152 (702)
T ss_pred -------------cCCHHHHHHHHHHHhh---------hhh--cCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEE
Confidence 1234444444432210 111 23689999999988875443 222222 34677
Q ss_pred EEc-CCCCCCccccc
Q 000698 1099 LVG-DHYQLPPLVQS 1112 (1345)
Q Consensus 1099 LVG-Dh~QLPPvV~s 1112 (1345)
|+. |...+++.+.+
T Consensus 153 LaTtd~~kIp~TIlS 167 (702)
T PRK14960 153 FATTDPQKLPITVIS 167 (702)
T ss_pred EEECChHhhhHHHHH
Confidence 766 66777776554
No 199
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.05 E-value=0.017 Score=71.13 Aligned_cols=53 Identities=23% Similarity=0.389 Sum_probs=42.3
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCC
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSI 1013 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l 1013 (1345)
...++|.|+||+||||++.+++..+.++|.+||+++.-.+ .+.+..|....+.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees-~~qi~~ra~rlg~ 132 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEES-ASQIKLRAERLGL 132 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcccc-HHHHHHHHHHcCC
Confidence 4588999999999999999999988888999999997554 4566666554443
No 200
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.05 E-value=0.021 Score=73.71 Aligned_cols=47 Identities=23% Similarity=0.316 Sum_probs=34.3
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHH-hcC-CeEEEEe-ccHH--HHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALL-MRG-ASILLTS-YTNS--AVDNLLIK 1007 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll-~~g-kkVLvtA-~Tns--AVDnLl~k 1007 (1345)
.++.+.||.|+|||||++.+...+. ..| ++|.+++ .|-. |++.+..-
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~ 237 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIY 237 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHH
Confidence 4789999999999999999998874 455 5775544 3444 55655543
No 201
>PRK08939 primosomal protein DnaI; Reviewed
Probab=96.02 E-value=0.018 Score=67.49 Aligned_cols=35 Identities=23% Similarity=0.304 Sum_probs=32.4
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..++.|+||||||+++..++..+...|.+|+++..
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~ 192 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHF 192 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEH
Confidence 68899999999999999999999999999988766
No 202
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=96.01 E-value=0.051 Score=66.99 Aligned_cols=36 Identities=36% Similarity=0.456 Sum_probs=32.1
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
...+|.|+||+|||+++..+...+...|.+|++++.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeH
Confidence 468999999999999999999998888999988875
No 203
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=95.93 E-value=0.05 Score=69.48 Aligned_cols=135 Identities=22% Similarity=0.260 Sum_probs=71.2
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhcCC-eEEEEeccHHHHHHHHHHHhhc-CCcEEEEcccchh
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMRGA-SILLTSYTNSAVDNLLIKLKSQ-SIDFVRIGRHEVV 1024 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~gk-kVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG~~~~v 1024 (1345)
.+.+...+..+. .+|+.|++|+||||++..+++.|.-... ...-|. ... .+.++... ..+++.+...
T Consensus 25 v~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg-~C~----sCr~i~~g~~~DvlEidaA--- 96 (709)
T PRK08691 25 VKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCG-VCQ----SCTQIDAGRYVDLLEIDAA--- 96 (709)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCc-ccH----HHHHHhccCccceEEEecc---
Confidence 345555555443 3699999999999999999888754321 111111 111 12222111 2234433211
Q ss_pred hHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhc---ccCeEE
Q 000698 1025 HKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLM---FASKFV 1098 (1345)
Q Consensus 1025 ~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~---~a~k~V 1098 (1345)
....++.+++.+.... ..+. ..++.++||||+.+++.... |..|- ....||
T Consensus 97 ------------s~~gVd~IRelle~a~---------~~P~--~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fI 153 (709)
T PRK08691 97 ------------SNTGIDNIREVLENAQ---------YAPT--AGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFI 153 (709)
T ss_pred ------------ccCCHHHHHHHHHHHH---------hhhh--hCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEE
Confidence 1112334444443221 0011 13689999999988876433 33332 134577
Q ss_pred EEc-CCCCCCccccchHH
Q 000698 1099 LVG-DHYQLPPLVQSTEA 1115 (1345)
Q Consensus 1099 LVG-Dh~QLPPvV~s~~a 1115 (1345)
|+. |...+++.+.+.-.
T Consensus 154 LaTtd~~kL~~TIrSRC~ 171 (709)
T PRK08691 154 LATTDPHKVPVTVLSRCL 171 (709)
T ss_pred EEeCCccccchHHHHHHh
Confidence 765 88888888776543
No 204
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=95.93 E-value=0.025 Score=72.50 Aligned_cols=134 Identities=26% Similarity=0.299 Sum_probs=71.0
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhhc-CCcEEEEcccchh
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKSQ-SIDFVRIGRHEVV 1024 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG~~~~v 1024 (1345)
.+.+.+.+..+. .+|+.|++||||||++..+.+.|.-. +....-| + .=..+.++... ..+++.+...
T Consensus 25 v~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PC---G--~C~sCr~I~~G~h~DviEIDAa--- 96 (830)
T PRK07003 25 VRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPC---G--VCRACREIDEGRFVDYVEMDAA--- 96 (830)
T ss_pred HHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCC---c--ccHHHHHHhcCCCceEEEeccc---
Confidence 345555555432 45899999999999999998888532 1110000 0 00112223221 2344444321
Q ss_pred hHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEE
Q 000698 1025 HKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFV 1098 (1345)
Q Consensus 1025 ~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~V 1098 (1345)
....+++++++++... ..+ ...+|.++||||+.+++...+ |..|-. ..+||
T Consensus 97 ------------s~rgVDdIReLIe~a~---------~~P--~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FI 153 (830)
T PRK07003 97 ------------SNRGVDEMAALLERAV---------YAP--VDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFI 153 (830)
T ss_pred ------------ccccHHHHHHHHHHHH---------hcc--ccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEE
Confidence 1123444444443221 001 124789999999998886443 333322 24566
Q ss_pred EEc-CCCCCCccccchH
Q 000698 1099 LVG-DHYQLPPLVQSTE 1114 (1345)
Q Consensus 1099 LVG-Dh~QLPPvV~s~~ 1114 (1345)
|+. |..+++|++.|.-
T Consensus 154 LaTtd~~KIp~TIrSRC 170 (830)
T PRK07003 154 LATTDPQKIPVTVLSRC 170 (830)
T ss_pred EEECChhhccchhhhhe
Confidence 654 6667888887753
No 205
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.92 E-value=0.016 Score=73.53 Aligned_cols=134 Identities=26% Similarity=0.322 Sum_probs=71.6
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhcCC----eEEE-EeccHHHHHHHHHHHhh-cCCcEEEEcc
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMRGA----SILL-TSYTNSAVDNLLIKLKS-QSIDFVRIGR 1020 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~gk----kVLv-tA~TnsAVDnLl~kL~~-~~l~ilRiG~ 1020 (1345)
.+++..++.... .+|+.|++|+||||++..+++.|.-.+. .+-. -|-.-. .+..+.. ...+++.+..
T Consensus 25 v~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~----~C~~i~~g~h~D~~elda 100 (618)
T PRK14951 25 VQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQ----ACRDIDSGRFVDYTELDA 100 (618)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccH----HHHHHHcCCCCceeecCc
Confidence 345555555433 3589999999999999999988864321 0000 001111 1222211 1223333321
Q ss_pred cchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---c
Q 000698 1021 HEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---A 1094 (1345)
Q Consensus 1021 ~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a 1094 (1345)
.....++++++.++... ..+. ..+|.++||||+.+++...+ |..+-. .
T Consensus 101 ---------------as~~~Vd~iReli~~~~---------~~p~--~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~ 154 (618)
T PRK14951 101 ---------------ASNRGVDEVQQLLEQAV---------YKPV--QGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEY 154 (618)
T ss_pred ---------------ccccCHHHHHHHHHHHH---------hCcc--cCCceEEEEEChhhCCHHHHHHHHHhcccCCCC
Confidence 11123455555554321 0111 23799999999998886544 222211 2
Q ss_pred CeEEEE-cCCCCCCccccch
Q 000698 1095 SKFVLV-GDHYQLPPLVQST 1113 (1345)
Q Consensus 1095 ~k~VLV-GDh~QLPPvV~s~ 1113 (1345)
..|||+ .|+..+++.+.+.
T Consensus 155 ~~fIL~Ttd~~kil~TIlSR 174 (618)
T PRK14951 155 LKFVLATTDPQKVPVTVLSR 174 (618)
T ss_pred eEEEEEECCchhhhHHHHHh
Confidence 356665 5888888887654
No 206
>PRK05973 replicative DNA helicase; Provisional
Probab=95.92 E-value=0.013 Score=66.26 Aligned_cols=57 Identities=19% Similarity=0.261 Sum_probs=47.4
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
+...+.++|.|+||+|||++..+++.....+|.++++.++-.. .+.+.+|+...+++
T Consensus 61 l~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes-~~~i~~R~~s~g~d 117 (237)
T PRK05973 61 LKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYT-EQDVRDRLRALGAD 117 (237)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC-HHHHHHHHHHcCCC
Confidence 3445689999999999999999999988888999999998666 47788888766643
No 207
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=95.91 E-value=0.026 Score=71.86 Aligned_cols=127 Identities=17% Similarity=0.163 Sum_probs=87.2
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM--RGASILLTSYTNSAVDNLLIKLKSQSIDFVRIG 1019 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG 1019 (1345)
.-.|=..|.+.+..|| ...++|..|.|+|||.+++.++....+ .+.||+++|+|.-.|..-...+...+...--.|
T Consensus 60 ~~~lR~YQ~eivq~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~~~~T~ 137 (746)
T KOG0354|consen 60 NLELRNYQEELVQPAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIPYSVTG 137 (746)
T ss_pred cccccHHHHHHhHHhh--cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCccccee
Confidence 3467889999999999 368999999999999999988887665 356999999999888877655544443210000
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccc----cC-CCCCEEEEeCCCCCCH
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLL----TD-KKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll----~~-~~FD~VIVDEASQite 1084 (1345)
- ........ .....+...+|+..|+.-.-+.+. .. ..|..+|||||...+-
T Consensus 138 ~-----------l~~~~~~~---~r~~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~k 193 (746)
T KOG0354|consen 138 Q-----------LGDTVPRS---NRGEIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSK 193 (746)
T ss_pred e-----------ccCccCCC---chhhhhcccceEEeChHhhhhhcccccccccceEEEEEEcccccccc
Confidence 0 00000001 111456778899999976544432 22 5699999999988763
No 208
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=95.89 E-value=0.052 Score=74.79 Aligned_cols=70 Identities=24% Similarity=0.393 Sum_probs=55.8
Q ss_pred CCceeeeceEEEEeeecccccCCCeEEEEEEecCCCCCCC------CChhhHHHHHHHHHHHHHhhcCCCCeeEEEEecc
Q 000698 588 YGLKGMIDASIRVKIESKRNEINGMILPLEFKTGKIPNGQ------SSMEHRAQVILYTLLMSERYLKHIDSGLLYYLQS 661 (1345)
Q Consensus 588 ~GLKGkID~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~~------~~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y~k~ 661 (1345)
.=+.|.||+.++- .+.++-|++||-+..... ...-++.|+.+|.--|+..++++|..-+||...-
T Consensus 1156 vlvqGiiD~~f~~---------~d~ivL~DYKTD~v~~~~~~~~~~l~~rY~~Ql~lY~~Ale~i~~~~v~~~~ly~~~~ 1226 (1232)
T TIGR02785 1156 ILVQGIIDGYLES---------EDGIVLFDYKTDHVEGPSFEKINQLKERYRGQLALYEKALEEIYKKKVKGKYLYLLDG 1226 (1232)
T ss_pred EEEEEeEEEEEEE---------CCEEEEEEecCCCcCCcccchHHHHHHHHHHHHHHHHHHHHHHhCCCcceEEEEEEeC
Confidence 3478999999855 457999999999864310 1235799999999999999999999999998877
Q ss_pred Cceee
Q 000698 662 DQTQG 666 (1345)
Q Consensus 662 ~~~~~ 666 (1345)
++...
T Consensus 1227 ~~~i~ 1231 (1232)
T TIGR02785 1227 DVVID 1231 (1232)
T ss_pred CeEEe
Confidence 76543
No 209
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=95.89 E-value=0.029 Score=61.18 Aligned_cols=61 Identities=16% Similarity=0.226 Sum_probs=48.1
Q ss_pred cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHH----HHHHHHHHHhhcCCcEEEEccc
Q 000698 959 AKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNS----AVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 959 ~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tns----AVDnLl~kL~~~~l~ilRiG~~ 1021 (1345)
..+...|.+++|.||||.+..++...+..|.+|+++=|-.. .=.++++++. ++.+.+.|..
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~--~v~~~~~g~~ 85 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGG--GVEFHVMGTG 85 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCC--CcEEEECCCC
Confidence 46799999999999999999999999999999999988443 2344455442 6777877763
No 210
>PRK13342 recombination factor protein RarA; Reviewed
Probab=95.88 E-value=0.029 Score=68.55 Aligned_cols=23 Identities=35% Similarity=0.437 Sum_probs=19.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
..++.|||||||||++..+...+
T Consensus 38 ~ilL~GppGtGKTtLA~~ia~~~ 60 (413)
T PRK13342 38 SMILWGPPGTGKTTLARIIAGAT 60 (413)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 68899999999999988776653
No 211
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=95.84 E-value=0.014 Score=78.90 Aligned_cols=61 Identities=20% Similarity=0.312 Sum_probs=46.6
Q ss_pred HHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhhc
Q 000698 950 RRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 950 ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
+..|..++..++.++|.|.+||||||.+-.++..+- .| ..|.+|-+-..|+-++..++.+.
T Consensus 79 r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~g-~g~~g~I~~TQPRRlAArsLA~RVA~E 141 (1294)
T PRK11131 79 KQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELG-RGVKGLIGHTQPRRLAARTVANRIAEE 141 (1294)
T ss_pred HHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHcC-CCCCCceeeCCCcHHHHHHHHHHHHHH
Confidence 556667777778999999999999997765554432 23 36778889999999999888653
No 212
>PRK09183 transposase/IS protein; Provisional
Probab=95.82 E-value=0.038 Score=63.32 Aligned_cols=54 Identities=17% Similarity=0.281 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHH--HhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 942 EKSLNDDQRRAIIKV--LTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~--l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
...+|..|...+... +.....++|.||||||||+++..+...+...|.+|+++.
T Consensus 82 ~~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~ 137 (259)
T PRK09183 82 ATGAPQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT 137 (259)
T ss_pred CCCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 356777777666432 334457899999999999999999888888899998875
No 213
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=95.81 E-value=0.018 Score=66.24 Aligned_cols=52 Identities=25% Similarity=0.370 Sum_probs=42.0
Q ss_pred CCCHHHHHHHHHHHh-cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 944 SLNDDQRRAIIKVLT-AKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~-~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
.+.++|.+++..++. ..+..+|.|++||||||++..++..+...+.+|+.+-
T Consensus 63 g~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiE 115 (264)
T cd01129 63 GLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVE 115 (264)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEEC
Confidence 467888999888776 4568999999999999999999888766566666543
No 214
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.81 E-value=0.049 Score=62.81 Aligned_cols=56 Identities=16% Similarity=0.258 Sum_probs=40.7
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec-cH--HHHHHHHHHHhhcCCcEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY-TN--SAVDNLLIKLKSQSIDFV 1016 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~-Tn--sAVDnLl~kL~~~~l~il 1016 (1345)
+...+.|++|+||||++..+...+..++.+|.+++. +. .+++.+.......++++.
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~ 134 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVI 134 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEE
Confidence 688999999999999999999888877888876655 33 366666544433444433
No 215
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.78 E-value=0.026 Score=69.93 Aligned_cols=37 Identities=30% Similarity=0.383 Sum_probs=27.1
Q ss_pred HHHHHHHHhcCCe---EEEEccCCCChHHHHHHHHHHHHh
Q 000698 950 RRAIIKVLTAKDY---ALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 950 ~~AI~~~l~~~d~---~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
.+.+..++..... +++.|||||||||++..+++.+..
T Consensus 23 ~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 23 KKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 4455555554433 689999999999999888887743
No 216
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=95.77 E-value=0.033 Score=72.69 Aligned_cols=63 Identities=19% Similarity=0.222 Sum_probs=51.9
Q ss_pred HHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHH-hcCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 949 QRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALL-MRGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 949 Q~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll-~~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
.+..|..++.....++|.|++|+||||-+-..+...- ..+.+|.++=+-.-|+-++..|+.+.
T Consensus 54 ~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAee 117 (845)
T COG1643 54 VRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEE 117 (845)
T ss_pred HHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHH
Confidence 4667777888889999999999999999887665543 33458999999999999999999764
No 217
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=95.76 E-value=0.074 Score=67.89 Aligned_cols=64 Identities=16% Similarity=0.126 Sum_probs=51.2
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
...+-|..++-.++... +.....|+|||.+.+-.+..-...|+.|+|+|+|...+....+.+.+
T Consensus 103 ~p~~VQ~~~~~~ll~G~---Iae~~TGeGKTla~~lp~~~~al~G~~v~VvTptreLA~qdae~~~~ 166 (656)
T PRK12898 103 RHFDVQLMGGLALLSGR---LAEMQTGEGKTLTATLPAGTAALAGLPVHVITVNDYLAERDAELMRP 166 (656)
T ss_pred CCChHHHHHHHHHhCCC---eeeeeCCCCcHHHHHHHHHHHhhcCCeEEEEcCcHHHHHHHHHHHHH
Confidence 44678999987777643 89999999999988766655556799999999999999877766554
No 218
>PF10926 DUF2800: Protein of unknown function (DUF2800); InterPro: IPR021229 This entry is represented by Bacteriophage APSE-1, protein 51. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of uncharacterised proteins found in bacteria and viruses. Some members of this family are annotated as being Phi APSE P51-like proteins.
Probab=95.74 E-value=0.13 Score=61.70 Aligned_cols=194 Identities=18% Similarity=0.204 Sum_probs=116.1
Q ss_pred cccccccccccccCChHHHHHHhcccccccchhhhhHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHhcCCCHHH
Q 000698 452 LVSGTRVAASFSCPRRSVLDERLKCSERSISALLGTLLHQIFQAGLMKEIPTMKFLEEYARLVLQKNIESLYACGVNEND 531 (1345)
Q Consensus 452 LIS~T~Va~s~~C~RRaVL~erfk~~~~s~~ml~GtIvHelfQ~al~~~~~~~~~L~~~~~~~l~~~l~~Ly~~~~~~~~ 531 (1345)
++|+++-.-=+.|+=-+.|.+.|.. ..|..+--||..|++.+.+|+... +.......... +..+...-.--++
T Consensus 3 ~LSaSsa~RWl~Cp~S~~Le~~~pd-~~S~~A~EGT~AH~laE~~L~~~~-~~~~~~~~~~~-----~~~~~~~~~~~~e 75 (372)
T PF10926_consen 3 LLSASSAHRWLNCPPSARLEEGFPD-TSSEAAAEGTAAHELAELKLRKYL-DPESKRPTNIE-----LKKLKKSEEYDDE 75 (372)
T ss_pred cCCcccchhhhcCChhHHhhccCCC-CCCHHHHHhHHHHHHHHHHHHHhc-CCccccccchh-----hccccCCCcCCHH
Confidence 5777777788999999999998865 345566799999999999997432 22111110000 0000010111234
Q ss_pred HHHHHHHHHHHHHHHHHHhcccCCCCCCccccCCCCccccccchhhhhhhhcccccCCceeeeceEEEEeeecccccCCC
Q 000698 532 IHKTLVEAIPKMLNWIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEMAWAPKYGLKGMIDASIRVKIESKRNEING 611 (1345)
Q Consensus 532 ~~~~l~~~~p~i~~w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEnIwSp~~GLKGkID~tv~~~i~~~~~~~~~ 611 (1345)
+.+.++.|+..+.+-+..+. .+ .+.|+.=+|+.. |-|. --|..|+++-. .+
T Consensus 76 M~~~~~~Yvd~v~e~~~~~~------~~----------~v~vEqrvd~s~--~vp~--~fGT~D~vii~---------~~ 126 (372)
T PF10926_consen 76 MADYVDDYVDYVRELIEEAK------DP----------EVLVEQRVDFSR--YVPE--GFGTADCVIIA---------DD 126 (372)
T ss_pred HHHHHHHHHHHHHHHHHhcC------CC----------eEEEEEEecccc--cCCC--CCCceeEEEEe---------CC
Confidence 44455555555544444432 01 122222222221 3344 77999999755 45
Q ss_pred eEEEEEEecCCCCCCCCChhhHHHHHHHHHHHHHhhc----CCCCeeEEEEeccCceeeeeCChhHHHHHHHHHHHHHH
Q 000698 612 MILPLEFKTGKIPNGQSSMEHRAQVILYTLLMSERYL----KHIDSGLLYYLQSDQTQGVMVQRSDLVGLIMRRNEFAN 686 (1345)
Q Consensus 612 ~i~PlElKTGk~~~~~~~~~H~~Ql~lY~LLl~ery~----~~v~~GlL~Y~k~~~~~~V~~~~~elr~li~~RN~la~ 686 (1345)
.+.-++||.|+... +..++--|+.+|+|-.-+.|+ .+.-.-.++-.+-+......++..| |+.-+++++.
T Consensus 127 ~L~IiDlKyG~GV~--V~Ae~NpQl~lYALGAl~~~~~lydi~~V~mtI~QPR~~~is~w~~s~~e---L~~w~e~~~k 200 (372)
T PF10926_consen 127 TLHIIDLKYGKGVP--VSAEENPQLMLYALGALEQFDFLYDIETVRMTIVQPRLDNISTWEISVEE---LLEWAEEVVK 200 (372)
T ss_pred eEEEEECCCCCCCc--ccCCCCHHHHHHHHHHHHHcCCcCCceEEEEEEEcccCCCCceEEEEHHH---HHHHHHHHHH
Confidence 77788999999632 578899999999998877766 3333566666666766666666665 4444545443
No 219
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.73 E-value=0.03 Score=69.94 Aligned_cols=25 Identities=32% Similarity=0.272 Sum_probs=21.7
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhc
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMR 987 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~ 987 (1345)
+++.|||||||||++..+++.+...
T Consensus 39 ~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 39 YLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred EEEECCCCCCHHHHHHHHHHHHhcc
Confidence 4999999999999999888887643
No 220
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=95.72 E-value=0.16 Score=55.42 Aligned_cols=171 Identities=19% Similarity=0.343 Sum_probs=97.9
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec---cHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhhhccccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY---TNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAMNI 1038 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~---TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~~~ 1038 (1345)
..-|-||||||||+++-++++.|..+ .++.|++. |..=++.+... .+.+++-+-+-..+|.+- ....
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~Da~~l~~~---~g~~i~~v~TG~~CH~da------~m~~ 84 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKEDADRLRKL---PGEPIIGVETGKGCHLDA------SMNL 84 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeechhhHHHHHhC---CCCeeEEeccCCccCCcH------HHHH
Confidence 34578999999999999999999876 77777654 54444443321 566666554443443110 1112
Q ss_pred ccHHHHHHhhccccEEEEEecc-ccccc-cc-CCCCCEEEEeCCCCCCHHHHhhhhcccCeEEEEcCCCCCCccccchHH
Q 000698 1039 NSVEEIKKRLDQVKVVAVTCLG-ITNPL-LT-DKKFDVCIMDEAGQTTLPVSLGPLMFASKFVLVGDHYQLPPLVQSTEA 1115 (1345)
Q Consensus 1039 ~s~~~i~~~l~~~~VV~tT~~~-~~~~l-l~-~~~FD~VIVDEASQitep~~L~pL~~a~k~VLVGDh~QLPPvV~s~~a 1115 (1345)
..++++.......+++..-..| ...+. +. ...+.+|+||=++=...|.-.+|.....-++++ -+...+
T Consensus 85 ~ai~~l~~~~~~~Dll~iEs~GNL~~~~sp~L~d~~~v~VidvteGe~~P~K~gP~i~~aDllVI---------nK~DLa 155 (202)
T COG0378 85 EAIEELVLDFPDLDLLFIESVGNLVCPFSPDLGDHLRVVVIDVTEGEDIPRKGGPGIFKADLLVI---------NKTDLA 155 (202)
T ss_pred HHHHHHhhcCCcCCEEEEecCcceecccCcchhhceEEEEEECCCCCCCcccCCCceeEeeEEEE---------ehHHhH
Confidence 3344554444445555554444 21211 11 235889999988777777776676554445554 122456
Q ss_pred HhcCCcchHHHHHHHh-CCcceecccccccCchhHHHH
Q 000698 1116 RENGMEISLFRRLSEE-HPQAISALQSQYRMCQGIMEL 1152 (1345)
Q Consensus 1116 ~~~Gl~~SLFerL~~~-~p~~v~~Lt~QYRm~~eI~~l 1152 (1345)
...|.+.+.|++-.+. .|..- ...++-+..+.+.++
T Consensus 156 ~~v~~dlevm~~da~~~np~~~-ii~~n~ktg~G~~~~ 192 (202)
T COG0378 156 PYVGADLEVMARDAKEVNPEAP-IIFTNLKTGEGLDEW 192 (202)
T ss_pred HHhCccHHHHHHHHHHhCCCCC-EEEEeCCCCcCHHHH
Confidence 6678888888776554 44432 223344444444433
No 221
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.71 E-value=0.029 Score=71.75 Aligned_cols=134 Identities=21% Similarity=0.288 Sum_probs=67.9
Q ss_pred HHHHHHhcC---CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh-cCCcEEEEcccchhhHH
Q 000698 952 AIIKVLTAK---DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS-QSIDFVRIGRHEVVHKE 1027 (1345)
Q Consensus 952 AI~~~l~~~---d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~-~~l~ilRiG~~~~v~~~ 1027 (1345)
.+..++... ..+|+.||||||||+++..+++.|.-.........+.. .-..+..+.. ...+++.+...
T Consensus 27 ~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg--~C~~C~~i~~g~h~D~~ei~~~------ 98 (620)
T PRK14948 27 TLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCG--KCELCRAIAAGNALDVIEIDAA------ 98 (620)
T ss_pred HHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCc--ccHHHHHHhcCCCccEEEEecc------
Confidence 344444443 35689999999999999999998864321000000111 1123333322 23344444211
Q ss_pred HHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH--h-hhhcc-cCe--EEEE-
Q 000698 1028 IQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS--L-GPLMF-ASK--FVLV- 1100 (1345)
Q Consensus 1028 v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~--L-~pL~~-a~k--~VLV- 1100 (1345)
....++.+++.+..+. ..+. ...+.+||||||..++.... | ..+-. ... |||+
T Consensus 99 ---------~~~~vd~IReii~~a~---------~~p~--~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t 158 (620)
T PRK14948 99 ---------SNTGVDNIRELIERAQ---------FAPV--QARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLAT 158 (620)
T ss_pred ---------ccCCHHHHHHHHHHHh---------hChh--cCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEe
Confidence 1123445555443321 0111 13678999999988876433 2 22221 223 4433
Q ss_pred cCCCCCCccccch
Q 000698 1101 GDHYQLPPLVQST 1113 (1345)
Q Consensus 1101 GDh~QLPPvV~s~ 1113 (1345)
.|...|.|.+.+.
T Consensus 159 ~~~~~llpTIrSR 171 (620)
T PRK14948 159 TDPQRVLPTIISR 171 (620)
T ss_pred CChhhhhHHHHhh
Confidence 4777777765543
No 222
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.71 E-value=0.018 Score=74.97 Aligned_cols=24 Identities=38% Similarity=0.326 Sum_probs=21.4
Q ss_pred EEEEccCCCChHHHHHHHHHHHHh
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
+|+.|||||||||++..+++.|..
T Consensus 41 yLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 41 YLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred EEEECCCCCCHHHHHHHHHHhccC
Confidence 589999999999999999988754
No 223
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=95.66 E-value=0.016 Score=65.25 Aligned_cols=53 Identities=17% Similarity=0.163 Sum_probs=43.0
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCC
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSI 1013 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l 1013 (1345)
...++|.|+||||||+...+++..-+.+|.++++++.-. ..+.+.+++...+.
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee-~~~~i~~~~~~~g~ 73 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE-HPVQVRRNMAQFGW 73 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC-CHHHHHHHHHHhCC
Confidence 457899999999999999998888778899999999754 55567777665543
No 224
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=95.65 E-value=0.027 Score=73.03 Aligned_cols=35 Identities=20% Similarity=0.244 Sum_probs=25.0
Q ss_pred CCCEEEEeCCCCCCHHHH--hhhhcccCeEEEEcCCC
Q 000698 1070 KFDVCIMDEAGQTTLPVS--LGPLMFASKFVLVGDHY 1104 (1345)
Q Consensus 1070 ~FD~VIVDEASQitep~~--L~pL~~a~k~VLVGDh~ 1104 (1345)
..+++||||+...+..+. |.+.....+++++|+..
T Consensus 109 ~~~IL~IDEIh~Ln~~qQdaLL~~lE~g~IiLI~aTT 145 (725)
T PRK13341 109 KRTILFIDEVHRFNKAQQDALLPWVENGTITLIGATT 145 (725)
T ss_pred CceEEEEeChhhCCHHHHHHHHHHhcCceEEEEEecC
Confidence 467999999987765433 45555567889998754
No 225
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.63 E-value=0.019 Score=64.63 Aligned_cols=55 Identities=22% Similarity=0.211 Sum_probs=42.8
Q ss_pred hcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCC
Q 000698 958 TAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSI 1013 (1345)
Q Consensus 958 ~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l 1013 (1345)
......+|.|+|||||||++.+++..++.+|.++++++..... +.+++.+...+.
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~-~~~~~~~~~~g~ 76 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTT-TEFIKQMMSLGY 76 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHHHHhCC
Confidence 3346899999999999999999999888899999999965544 555555554443
No 226
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.61 E-value=0.024 Score=66.81 Aligned_cols=51 Identities=18% Similarity=0.309 Sum_probs=41.9
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh--cCCeEEE
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM--RGASILL 993 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLv 993 (1345)
..++++|.+.+..++......+|.|++||||||++..++..+.. .+.+|+.
T Consensus 127 g~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 127 KIMTEAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CCCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 35678889999999998889999999999999999999888754 2455544
No 227
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=95.61 E-value=0.025 Score=66.21 Aligned_cols=54 Identities=17% Similarity=0.281 Sum_probs=44.5
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEec
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR--GASILLTSY 996 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA~ 996 (1345)
..++++|.+.+..++......+|.|++||||||++..++..+... +.+|+++--
T Consensus 115 g~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd 170 (299)
T TIGR02782 115 GIMTAAQRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIED 170 (299)
T ss_pred CCCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECC
Confidence 457788889999888888899999999999999999998887653 567766543
No 228
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.60 E-value=0.048 Score=67.48 Aligned_cols=35 Identities=26% Similarity=0.433 Sum_probs=28.3
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHh-cC-CeEEEEe
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLM-RG-ASILLTS 995 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~-~g-kkVLvtA 995 (1345)
.++++.||.|+|||||++.+...+.. .| ++|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 47889999999999999999988854 45 4776554
No 229
>PHA00729 NTP-binding motif containing protein
Probab=95.58 E-value=0.041 Score=61.64 Aligned_cols=24 Identities=29% Similarity=0.576 Sum_probs=21.2
Q ss_pred eEEEEccCCCChHHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALL 985 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll 985 (1345)
..+|.|+|||||||++..++..+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 578999999999999999888764
No 230
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.56 E-value=0.092 Score=64.70 Aligned_cols=35 Identities=17% Similarity=0.204 Sum_probs=29.4
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMR--GASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA~ 996 (1345)
..+|.|+||+|||+++..+...+... +.+|++++.
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 58999999999999999888888765 568887764
No 231
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=95.55 E-value=0.15 Score=67.92 Aligned_cols=150 Identities=17% Similarity=0.142 Sum_probs=92.4
Q ss_pred CCCCHHHHHHHHHHHhcC-CeEEEEccCCCChHHHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhhcCCcEEEEc
Q 000698 943 KSLNDDQRRAIIKVLTAK-DYALILGMPGTGKTSTMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKSQSIDFVRIG 1019 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~-d~~LI~GpPGTGKTttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG 1019 (1345)
-.|-+-|..++..++... .-++|-=--|.|||-.+..++..+...| ++|||++|+.-.-....+-..+.++.+..++
T Consensus 151 ~~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~QW~~El~~kF~l~~~i~~ 230 (956)
T PRK04914 151 ASLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQHQWLVEMLRRFNLRFSLFD 230 (956)
T ss_pred CCCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHHHHHHHHHHHhCCCeEEEc
Confidence 467889999998877643 3477888999999999988998887776 5999999986554444433344555554443
Q ss_pred ccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc-----ccccCCCCCEEEEeCCCCCC----HH----H
Q 000698 1020 RHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN-----PLLTDKKFDVCIMDEAGQTT----LP----V 1086 (1345)
Q Consensus 1020 ~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~-----~ll~~~~FD~VIVDEASQit----ep----~ 1086 (1345)
... ... .. .... .-+...+++.++...+.. ..+....||+||||||..+. .| .
T Consensus 231 ~~~-~~~-~~-----~~~~-------~pf~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~ 296 (956)
T PRK04914 231 EER-YAE-AQ-----HDAD-------NPFETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQ 296 (956)
T ss_pred Ccc-hhh-hc-----cccc-------CccccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHH
Confidence 211 100 00 0000 112234556555543332 12445689999999998874 12 2
Q ss_pred Hhhhhcc--cCeEEEEcCCCCC
Q 000698 1087 SLGPLMF--ASKFVLVGDHYQL 1106 (1345)
Q Consensus 1087 ~L~pL~~--a~k~VLVGDh~QL 1106 (1345)
.+..+.. ...+.|-|=|.|+
T Consensus 297 ~v~~La~~~~~~LLLTATP~q~ 318 (956)
T PRK04914 297 VVEQLAEVIPGVLLLTATPEQL 318 (956)
T ss_pred HHHHHhhccCCEEEEEcCcccC
Confidence 2333322 2468899999983
No 232
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=95.53 E-value=0.071 Score=65.87 Aligned_cols=36 Identities=22% Similarity=0.199 Sum_probs=28.8
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLM--RGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~ 996 (1345)
...+|.|++|+|||+++..+...+.+ .+.+|++++.
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 35889999999999999888777764 4678877665
No 233
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=95.47 E-value=0.025 Score=64.70 Aligned_cols=39 Identities=21% Similarity=0.267 Sum_probs=35.1
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN 998 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn 998 (1345)
...++|.|+||||||++..+++...+.+|.+++++++-.
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee 74 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES 74 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence 457899999999999999999998888899999999864
No 234
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=95.47 E-value=0.087 Score=68.19 Aligned_cols=24 Identities=46% Similarity=0.682 Sum_probs=21.1
Q ss_pred EEEEccCCCChHHHHHHHHHHHHh
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
+.|.|+||||||.|+..+++.|..
T Consensus 784 LYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 784 LYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH
Confidence 469999999999999999888754
No 235
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.46 E-value=0.038 Score=70.06 Aligned_cols=36 Identities=28% Similarity=0.267 Sum_probs=26.3
Q ss_pred HHHHHHHhcCC--e-EEEEccCCCChHHHHHHHHHHHHh
Q 000698 951 RAIIKVLTAKD--Y-ALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 951 ~AI~~~l~~~d--~-~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
+.+...+.... + +|+.||+||||||++..+++.|.-
T Consensus 23 ~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 23 EPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 33444444432 3 689999999999999999888753
No 236
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=95.46 E-value=0.15 Score=57.87 Aligned_cols=118 Identities=25% Similarity=0.193 Sum_probs=75.5
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhc---CCeEEEEeccHHHHHHHHHHHhhcCC----cE-
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR---GASILLTSYTNSAVDNLLIKLKSQSI----DF- 1015 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~---gkkVLvtA~TnsAVDnLl~kL~~~~l----~i- 1015 (1345)
+-+.-|++||-.++.. .-++.++-.|||||.+..--+.+-+.. ...+|+++||+..+-.+-+-+...+- ..
T Consensus 49 kPS~IQqrAi~~IlkG-rdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~h 127 (400)
T KOG0328|consen 49 KPSAIQQRAIPQILKG-RDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDYMNVQCH 127 (400)
T ss_pred CchHHHhhhhhhhhcc-cceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhcccccceEE
Confidence 3356799999999985 467899999999998876444443333 34699999999998888776655431 11
Q ss_pred EEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc----cccccCCCCCEEEEeCC
Q 000698 1016 VRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT----NPLLTDKKFDVCIMDEA 1079 (1345)
Q Consensus 1016 lRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~----~~ll~~~~FD~VIVDEA 1079 (1345)
.-+|. ..+. +++++.-....||..|..... ...+..+....+++|||
T Consensus 128 acigg-~n~g----------------edikkld~G~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDEa 178 (400)
T KOG0328|consen 128 ACIGG-KNLG----------------EDIKKLDYGQHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEA 178 (400)
T ss_pred EEecC-Cccc----------------hhhhhhcccceEeeCCCchHHHHHHhccccccceeEEEeccH
Confidence 11111 1111 233333334456666654332 33456678899999999
No 237
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=95.46 E-value=0.027 Score=62.73 Aligned_cols=54 Identities=24% Similarity=0.282 Sum_probs=45.8
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
...++|.|+||+|||+...+++...+++|.++++++... ..+.+.+++...+.+
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~~~~~~ 69 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAKSKGWD 69 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHHHcCCC
Confidence 457899999999999999999988888899999999866 578888888766644
No 238
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=95.44 E-value=0.047 Score=67.46 Aligned_cols=52 Identities=21% Similarity=0.302 Sum_probs=42.0
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcC
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQS 1012 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~ 1012 (1345)
...++|.|+||+||||++.+++..+...|.+||+++.-.+ .+.+..|..+.+
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs-~~qi~~ra~rlg 145 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEES-LQQIKMRAIRLG 145 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCC-HHHHHHHHHHcC
Confidence 4588999999999999999999999888889999987654 455666655443
No 239
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=95.40 E-value=0.053 Score=67.91 Aligned_cols=131 Identities=24% Similarity=0.353 Sum_probs=68.8
Q ss_pred HHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhc-CCe--EEEEeccHHHHHHHHHHHhhcCCcEEEEcccchh
Q 000698 951 RAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMR-GAS--ILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVV 1024 (1345)
Q Consensus 951 ~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~-gkk--VLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v 1024 (1345)
+.+...+.... .+|+.|+||+|||+++..+++.|.-. +.. -...+.+-..++ .....+++.++...
T Consensus 24 ~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~------~~~h~dv~eldaas-- 95 (535)
T PRK08451 24 KTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSAL------ENRHIDIIEMDAAS-- 95 (535)
T ss_pred HHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHh------hcCCCeEEEecccc--
Confidence 44444454443 35899999999999999999988642 211 111111111111 11233444443211
Q ss_pred hHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhc---ccCeEE
Q 000698 1025 HKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLM---FASKFV 1098 (1345)
Q Consensus 1025 ~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~---~a~k~V 1098 (1345)
...++++++.+.... ..+.+ ..|.++|||||..++.... |..+- ....||
T Consensus 96 -------------~~gId~IRelie~~~---------~~P~~--~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FI 151 (535)
T PRK08451 96 -------------NRGIDDIRELIEQTK---------YKPSM--ARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFI 151 (535)
T ss_pred -------------ccCHHHHHHHHHHHh---------hCccc--CCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEE
Confidence 112344444443211 01111 3689999999988886443 22221 134577
Q ss_pred EEcC-CCCCCccccch
Q 000698 1099 LVGD-HYQLPPLVQST 1113 (1345)
Q Consensus 1099 LVGD-h~QLPPvV~s~ 1113 (1345)
|++. +..|+|.+.+.
T Consensus 152 L~ttd~~kL~~tI~SR 167 (535)
T PRK08451 152 LATTDPLKLPATILSR 167 (535)
T ss_pred EEECChhhCchHHHhh
Confidence 7664 56788877664
No 240
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=95.40 E-value=0.017 Score=67.18 Aligned_cols=27 Identities=37% Similarity=0.539 Sum_probs=24.1
Q ss_pred Ce-EEEEccCCCChHHHHHHHHHHHHhc
Q 000698 961 DY-ALILGMPGTGKTSTMVHAVKALLMR 987 (1345)
Q Consensus 961 d~-~LI~GpPGTGKTttIa~lI~~Ll~~ 987 (1345)
.+ .|+.||||||||+++..+++.|...
T Consensus 24 ~halL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 24 PHALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred CceeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 35 8999999999999999999999864
No 241
>PRK04328 hypothetical protein; Provisional
Probab=95.39 E-value=0.026 Score=64.26 Aligned_cols=53 Identities=19% Similarity=0.234 Sum_probs=43.1
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCC
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSI 1013 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l 1013 (1345)
...++|.|+||||||++..+++..-+++|.+++++++....-+ +++.+...+.
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~~~-i~~~~~~~g~ 75 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHPVQ-VRRNMRQFGW 75 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCHHH-HHHHHHHcCC
Confidence 4578999999999999999999888888999999998665554 6666655554
No 242
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.38 E-value=0.057 Score=67.03 Aligned_cols=132 Identities=25% Similarity=0.279 Sum_probs=69.2
Q ss_pred HHHHHHHhcC---CeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhh-cCCcEEEEcccchhh
Q 000698 951 RAIIKVLTAK---DYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKS-QSIDFVRIGRHEVVH 1025 (1345)
Q Consensus 951 ~AI~~~l~~~---d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~-~~l~ilRiG~~~~v~ 1025 (1345)
+.+..++..+ ..+|+.||||+||||++..+++.|.-. |...--|-. -..+..+.. ...+++.+...
T Consensus 23 ~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~-----C~~C~~i~~~~~~Dv~eidaa---- 93 (491)
T PRK14964 23 RILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGT-----CHNCISIKNSNHPDVIEIDAA---- 93 (491)
T ss_pred HHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccc-----cHHHHHHhccCCCCEEEEecc----
Confidence 3444444443 258999999999999988888776432 221111100 111222221 23455555321
Q ss_pred HHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEE
Q 000698 1026 KEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVL 1099 (1345)
Q Consensus 1026 ~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VL 1099 (1345)
...+++++++.++.+. ..+.+ ..|.++||||+.+.+.... |..+-. ...||+
T Consensus 94 -----------s~~~vddIR~Iie~~~---------~~P~~--~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIl 151 (491)
T PRK14964 94 -----------SNTSVDDIKVILENSC---------YLPIS--SKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFIL 151 (491)
T ss_pred -----------cCCCHHHHHHHHHHHH---------hcccc--CCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEE
Confidence 1223455555544332 11221 3789999999988876433 222221 245777
Q ss_pred EcC-CCCCCccccch
Q 000698 1100 VGD-HYQLPPLVQST 1113 (1345)
Q Consensus 1100 VGD-h~QLPPvV~s~ 1113 (1345)
+-+ ...+++.+.+.
T Consensus 152 atte~~Kl~~tI~SR 166 (491)
T PRK14964 152 ATTEVKKIPVTIISR 166 (491)
T ss_pred EeCChHHHHHHHHHh
Confidence 664 45677766543
No 243
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=95.36 E-value=0.076 Score=65.59 Aligned_cols=36 Identities=22% Similarity=0.286 Sum_probs=30.3
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMR--GASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA~ 996 (1345)
+.++|.|+||||||+++..+...+.+. +.+|+.++.
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 358999999999999999999888876 677777755
No 244
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.36 E-value=0.06 Score=67.75 Aligned_cols=133 Identities=24% Similarity=0.314 Sum_probs=68.9
Q ss_pred HHHHHHHHhcCC--e-EEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhhc-CCcEEEEcccchh
Q 000698 950 RRAIIKVLTAKD--Y-ALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKSQ-SIDFVRIGRHEVV 1024 (1345)
Q Consensus 950 ~~AI~~~l~~~d--~-~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG~~~~v 1024 (1345)
.+++..++.... + +++.||||+||||++..+++.|.-. +...--| -. -.-+.++... ..+++.+...
T Consensus 25 ~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pc-g~----C~~C~~i~~~~~~d~~ei~~~--- 96 (527)
T PRK14969 25 VRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPC-GV----CSACLEIDSGRFVDLIEVDAA--- 96 (527)
T ss_pred HHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCC-CC----CHHHHHHhcCCCCceeEeecc---
Confidence 345555555432 3 5899999999999998888887432 1100000 00 0112222111 2234333211
Q ss_pred hHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEE
Q 000698 1025 HKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFV 1098 (1345)
Q Consensus 1025 ~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~V 1098 (1345)
....++++++.++.+. ..+. ..+|.++|||||..++.... |..+-. ...||
T Consensus 97 ------------~~~~vd~ir~l~~~~~---------~~p~--~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fI 153 (527)
T PRK14969 97 ------------SNTQVDAMRELLDNAQ---------YAPT--RGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFI 153 (527)
T ss_pred ------------ccCCHHHHHHHHHHHh---------hCcc--cCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEE
Confidence 1123444554444321 0111 23689999999988876432 333322 24577
Q ss_pred EEc-CCCCCCccccch
Q 000698 1099 LVG-DHYQLPPLVQST 1113 (1345)
Q Consensus 1099 LVG-Dh~QLPPvV~s~ 1113 (1345)
|+. |+..++|++.+.
T Consensus 154 L~t~d~~kil~tI~SR 169 (527)
T PRK14969 154 LATTDPQKIPVTVLSR 169 (527)
T ss_pred EEeCChhhCchhHHHH
Confidence 777 677788777654
No 245
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=95.34 E-value=0.033 Score=62.47 Aligned_cols=54 Identities=28% Similarity=0.374 Sum_probs=44.9
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
...++|.|+||||||+...+++...+.+|.++++++.-+.. +.++..+...+++
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~-~~~~~~~~~~g~~ 78 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTS-KSYLKQMESVKID 78 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCH-HHHHHHHHHCCCC
Confidence 45789999999999999999988888889999999997654 6677777666654
No 246
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.30 E-value=0.045 Score=71.37 Aligned_cols=66 Identities=23% Similarity=0.235 Sum_probs=51.5
Q ss_pred CCHHHHHHHHHHH---hcCCeEEEEccCCCChH-HHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhh
Q 000698 945 LNDDQRRAIIKVL---TAKDYALILGMPGTGKT-STMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 945 LN~eQ~~AI~~~l---~~~d~~LI~GpPGTGKT-ttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+=+.|++.++.+. ...+..++.+|.||||| .+++..+++....+ .+|.+++.||+-...+.+-|++
T Consensus 11 ~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 11 IYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 3467877666654 45779999999999999 45666777766566 7999999999988888777765
No 247
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.30 E-value=0.081 Score=62.45 Aligned_cols=56 Identities=23% Similarity=0.342 Sum_probs=42.2
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeE-EEEeccHH--HHHHHHHHHhhcCCcEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASI-LLTSYTNS--AVDNLLIKLKSQSIDFV 1016 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkV-LvtA~Tns--AVDnLl~kL~~~~l~il 1016 (1345)
.+.++.|.-|+||||++..++.++-++|+++ |+|+.|=. |-|.|..--.+.++++.
T Consensus 102 sVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~y 160 (483)
T KOG0780|consen 102 SVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFY 160 (483)
T ss_pred cEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeE
Confidence 4788999999999999999999999999875 56666544 55666554444455554
No 248
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=95.29 E-value=0.079 Score=64.75 Aligned_cols=41 Identities=29% Similarity=0.379 Sum_probs=33.9
Q ss_pred CCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHH
Q 000698 945 LNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALL 985 (1345)
Q Consensus 945 LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll 985 (1345)
..++..+.+...+...+..++.||||||||+++..+...+.
T Consensus 179 i~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 179 IPETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred CCHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhc
Confidence 45666777777888889999999999999999987777664
No 249
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=95.28 E-value=0.058 Score=68.64 Aligned_cols=134 Identities=21% Similarity=0.337 Sum_probs=71.3
Q ss_pred HHHHHHHHHhcC---CeEEEEccCCCChHHHHHHHHHHHHhcCC------eEEEEeccHHHHHHHHHHHh-hcCCcEEEE
Q 000698 949 QRRAIIKVLTAK---DYALILGMPGTGKTSTMVHAVKALLMRGA------SILLTSYTNSAVDNLLIKLK-SQSIDFVRI 1018 (1345)
Q Consensus 949 Q~~AI~~~l~~~---d~~LI~GpPGTGKTttIa~lI~~Ll~~gk------kVLvtA~TnsAVDnLl~kL~-~~~l~ilRi 1018 (1345)
..+.+..++... ..+|++||+|+||||++..+++.|.-.+. .+-.|..- ... ..+. ....+++.+
T Consensus 32 ~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c-~~C----~~i~~g~h~Dv~e~ 106 (598)
T PRK09111 32 MVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVG-EHC----QAIMEGRHVDVLEM 106 (598)
T ss_pred HHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCccc-HHH----HHHhcCCCCceEEe
Confidence 344555555443 25899999999999999999998864321 11122211 111 2221 123444443
Q ss_pred cccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhc---
Q 000698 1019 GRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLM--- 1092 (1345)
Q Consensus 1019 G~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~--- 1092 (1345)
... ....++++++.++... ..+.+ ..+.+|||||+.+++.... |..|-
T Consensus 107 ~a~---------------s~~gvd~IReIie~~~---------~~P~~--a~~KVvIIDEad~Ls~~a~naLLKtLEePp 160 (598)
T PRK09111 107 DAA---------------SHTGVDDIREIIESVR---------YRPVS--ARYKVYIIDEVHMLSTAAFNALLKTLEEPP 160 (598)
T ss_pred ccc---------------ccCCHHHHHHHHHHHH---------hchhc--CCcEEEEEEChHhCCHHHHHHHHHHHHhCC
Confidence 221 1123445555444322 01111 3678999999988875333 22221
Q ss_pred ccCeEEEEc-CCCCCCccccch
Q 000698 1093 FASKFVLVG-DHYQLPPLVQST 1113 (1345)
Q Consensus 1093 ~a~k~VLVG-Dh~QLPPvV~s~ 1113 (1345)
....|||+- +...++|.+.+.
T Consensus 161 ~~~~fIl~tte~~kll~tI~SR 182 (598)
T PRK09111 161 PHVKFIFATTEIRKVPVTVLSR 182 (598)
T ss_pred CCeEEEEEeCChhhhhHHHHhh
Confidence 134577665 456677776553
No 250
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.28 E-value=0.034 Score=65.58 Aligned_cols=54 Identities=24% Similarity=0.423 Sum_probs=43.0
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEecc
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM--RGASILLTSYT 997 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~T 997 (1345)
.++++|.+.+..++......+|.|++||||||++..++..+.. ...+|+++-.+
T Consensus 132 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~ 187 (319)
T PRK13894 132 IMTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDT 187 (319)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCC
Confidence 4677888999888888889999999999999999999887643 34566654443
No 251
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=95.27 E-value=0.029 Score=59.58 Aligned_cols=48 Identities=23% Similarity=0.363 Sum_probs=29.7
Q ss_pred HHHHHHHHHH-----hcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 948 DQRRAIIKVL-----TAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 948 eQ~~AI~~~l-----~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
+|.+.+...+ ......+|.|+||+|||+++.++...+...+.-++.+.
T Consensus 7 ~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~ 59 (185)
T PF13191_consen 7 EEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISIN 59 (185)
T ss_dssp HHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEE
T ss_pred HHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence 4555666666 22357999999999999999999998887643344333
No 252
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.26 E-value=0.057 Score=60.16 Aligned_cols=53 Identities=13% Similarity=0.191 Sum_probs=40.1
Q ss_pred CCCHHHHHHHHHHHh---cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 944 SLNDDQRRAIIKVLT---AKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~---~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
.-|....+++..... ....++|.|+||||||+++..+...+...|..+.++..
T Consensus 23 ~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~ 78 (227)
T PRK08903 23 GENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDA 78 (227)
T ss_pred CCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeh
Confidence 446666666655543 23579999999999999999999988888877776654
No 253
>PF12684 DUF3799: PDDEXK-like domain of unknown function (DUF3799); InterPro: IPR024432 This entry represents a PDDEXK-like domain of unknown function found in proteins from bacteria and viruses. Many of these proteins are annotated as exodeoxyribonuclease 8, which is involved in the RecE pathway of recombination. The PD-(D/E)XK domain is ubiquitously found in enzymes involved in metabolism of nucleic acids, mostly in nucleases []. ; PDB: 3L0A_A 3H4R_A.
Probab=95.26 E-value=0.026 Score=63.75 Aligned_cols=74 Identities=11% Similarity=-0.026 Sum_probs=45.8
Q ss_pred ceeeeceEEEEeeecccccCCCeEEEEEEecCCCCCCCC-------------ChhhHHHHHHHHHHHHHhhcCCCCeeEE
Q 000698 590 LKGMIDASIRVKIESKRNEINGMILPLEFKTGKIPNGQS-------------SMEHRAQVILYTLLMSERYLKHIDSGLL 656 (1345)
Q Consensus 590 LKGkID~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~~~-------------~~~H~~Ql~lY~LLl~ery~~~v~~GlL 656 (1345)
.||++|.... +.-+.++|||-+...... .-.+..|.++|.-+++..+|.++..-|+
T Consensus 113 ~K~R~D~l~~-----------~~~~ivDlKTt~d~~~~~~~~~~~~~~~~i~~~~Y~~Q~A~Y~e~~~~~~g~~~~f~ii 181 (237)
T PF12684_consen 113 CKCRPDCLNP-----------DRGYIVDLKTTADISPKYWNENEGRFVRFIENYGYHLQAAFYQEGLRQNTGKPFRFVII 181 (237)
T ss_dssp EEEEECEEEC-----------CCCEEEEEEEES-CC--EEETTTEHCCHHHHHTTCCHHHHHHHHHHHHHHSS--EEEEE
T ss_pred EEEEeEEEec-----------CCCceEEeeecccCccccccccccHHHHHHHHcCcHHHHHHHHHHHHHHhCCCCcEEEE
Confidence 5999998741 112567999998643111 1257899999999999999988876666
Q ss_pred EEeccCc--eeeeeCChhHH
Q 000698 657 YYLQSDQ--TQGVMVQRSDL 674 (1345)
Q Consensus 657 ~Y~k~~~--~~~V~~~~~el 674 (1345)
--.++.- ..-+.+....+
T Consensus 182 aVeKe~P~~~~v~~i~~~~l 201 (237)
T PF12684_consen 182 AVEKEAPYDVRVIEIDDEAL 201 (237)
T ss_dssp EEESSSC--EEEEEE-HHHH
T ss_pred EEEecCCCceEEEEcCHHHH
Confidence 6666542 33445544333
No 254
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=95.23 E-value=0.037 Score=60.03 Aligned_cols=50 Identities=20% Similarity=0.251 Sum_probs=40.6
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEE
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASIL 992 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVL 992 (1345)
...++++|.+.+...+......+|.|++|+||||++..++..+- ...+++
T Consensus 7 ~g~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i~-~~~~~i 56 (186)
T cd01130 7 QGTFSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAFIP-PDERII 56 (186)
T ss_pred cCCCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhcC-CCCCEE
Confidence 45688999999999999888999999999999999987766543 334443
No 255
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=95.22 E-value=0.048 Score=70.17 Aligned_cols=37 Identities=27% Similarity=0.289 Sum_probs=27.3
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHh
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
.+.+..++.... .+|+.||||+|||+++..+++.|.-
T Consensus 27 v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 27 VQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 344555555432 4689999999999999988888754
No 256
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=95.20 E-value=0.062 Score=62.59 Aligned_cols=65 Identities=22% Similarity=0.231 Sum_probs=48.1
Q ss_pred CHHHHH---HHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHhcCC-----eEEEEeccHHHHHHHHHHHhh
Q 000698 946 NDDQRR---AIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLMRGA-----SILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 946 N~eQ~~---AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~~gk-----kVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
-+.|.+ +|...+...+..+|.+|.|||||..+. ..+..+...+. +|++++.|+.-.+..+..|.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 567877 444556667899999999999997655 44455555554 899999999987777665543
No 257
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=95.20 E-value=0.062 Score=62.59 Aligned_cols=65 Identities=22% Similarity=0.231 Sum_probs=48.1
Q ss_pred CHHHHH---HHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHhcCC-----eEEEEeccHHHHHHHHHHHhh
Q 000698 946 NDDQRR---AIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLMRGA-----SILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 946 N~eQ~~---AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~~gk-----kVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
-+.|.+ +|...+...+..+|.+|.|||||..+. ..+..+...+. +|++++.|+.-.+..+..|.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 567877 444556667899999999999997655 44455555554 899999999987777665543
No 258
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=95.19 E-value=0.031 Score=65.22 Aligned_cols=54 Identities=19% Similarity=0.233 Sum_probs=32.4
Q ss_pred HHHHHHhcC--CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHH
Q 000698 952 AIIKVLTAK--DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLL 1005 (1345)
Q Consensus 952 AI~~~l~~~--d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl 1005 (1345)
.+...+..+ .-.++.|||||||||++.-++..-.....+.+=++-|+.-+..+.
T Consensus 152 llrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR 207 (554)
T KOG2028|consen 152 LLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVR 207 (554)
T ss_pred HHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHH
Confidence 344444433 357888999999998766555443333344555566665555544
No 259
>PRK04195 replication factor C large subunit; Provisional
Probab=95.19 E-value=0.093 Score=65.40 Aligned_cols=39 Identities=26% Similarity=0.404 Sum_probs=28.6
Q ss_pred CHHHHHHHHHHHhc------CCeEEEEccCCCChHHHHHHHHHHH
Q 000698 946 NDDQRRAIIKVLTA------KDYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~------~d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
++.+.+.+...+.. ...++|.|||||||||++..+++.+
T Consensus 19 ~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 19 NEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence 55555555554432 3579999999999999998887765
No 260
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=95.17 E-value=0.054 Score=65.92 Aligned_cols=35 Identities=26% Similarity=0.278 Sum_probs=29.7
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMR--GASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA~ 996 (1345)
..+|.|+||||||+++..+...+.+. +.+|+.++.
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 57899999999999999988888776 677887753
No 261
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=95.13 E-value=0.12 Score=60.06 Aligned_cols=42 Identities=24% Similarity=0.351 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHhcC--CeEEEEccCCCChHHHHHHHHHHHHhcC
Q 000698 947 DDQRRAIIKVLTAK--DYALILGMPGTGKTSTMVHAVKALLMRG 988 (1345)
Q Consensus 947 ~eQ~~AI~~~l~~~--d~~LI~GpPGTGKTttIa~lI~~Ll~~g 988 (1345)
+++.+.+...+... ...+|.|+||||||+++..++..+...+
T Consensus 23 ~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~ 66 (319)
T PRK00440 23 EEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGED 66 (319)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 34455555555443 3589999999999999999888876543
No 262
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=95.11 E-value=0.1 Score=62.38 Aligned_cols=38 Identities=18% Similarity=0.262 Sum_probs=29.5
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhc
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMR 987 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~ 987 (1345)
.+.+..++.... ..+|.|++|+||||++-.+++.|...
T Consensus 32 ~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 32 EAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred HHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 445555555443 48999999999999999999998763
No 263
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.06 E-value=0.04 Score=65.30 Aligned_cols=37 Identities=35% Similarity=0.437 Sum_probs=33.8
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
...+++.|+||||||+++..++..++..|.+|++++.
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~ 219 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTA 219 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEH
Confidence 4679999999999999999999999999999988875
No 264
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=95.06 E-value=0.14 Score=68.01 Aligned_cols=125 Identities=22% Similarity=0.226 Sum_probs=83.3
Q ss_pred CCCHHHHHHHHHHHhc---CCe--EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHH----HHHHHHhhcCCc
Q 000698 944 SLNDDQRRAIIKVLTA---KDY--ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVD----NLLIKLKSQSID 1014 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~---~d~--~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVD----nLl~kL~~~~l~ 1014 (1345)
.-+++|..||+.+..- ... -||+|--|=|||.+++..+-..+..|+.|.|++||--.+. ++.+|+....++
T Consensus 594 eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~ 673 (1139)
T COG1197 594 EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDGKQVAVLVPTTLLAQQHYETFKERFAGFPVR 673 (1139)
T ss_pred cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCCCeEEEEcccHHhHHHHHHHHHHHhcCCCee
Confidence 5699999999988762 122 4999999999999999999999999999999999988876 455666555554
Q ss_pred EEEEcccchhhHHHHHhhhcccccccHHHHHHhh--ccccEEEEEecccccccccCCCCCEEEEeCCCCCC
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL--DQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l--~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQit 1083 (1345)
+-.+.+...- +...++.+.+ ...+||..|-.-.+.. +.-..-..+||||=|...
T Consensus 674 I~~LSRF~s~--------------kE~~~il~~la~G~vDIvIGTHrLL~kd-v~FkdLGLlIIDEEqRFG 729 (1139)
T COG1197 674 IEVLSRFRSA--------------KEQKEILKGLAEGKVDIVIGTHRLLSKD-VKFKDLGLLIIDEEQRFG 729 (1139)
T ss_pred EEEecccCCH--------------HHHHHHHHHHhcCCccEEEechHhhCCC-cEEecCCeEEEechhhcC
Confidence 4333221110 0111222222 3456777764332221 222467899999997665
No 265
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=95.02 E-value=0.11 Score=57.86 Aligned_cols=119 Identities=18% Similarity=0.256 Sum_probs=65.4
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHh-----cCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhhhccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLM-----RGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAM 1036 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~-----~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~ 1036 (1345)
.++|.||||+||||.+..+++-+.. .++||.++--.+.-+. + + .+++-.-.|..- ++..-|+
T Consensus 139 ntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag--~--~--~gvpq~~~g~R~----dVld~cp--- 205 (308)
T COG3854 139 NTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAG--C--L--NGVPQHGRGRRM----DVLDPCP--- 205 (308)
T ss_pred eeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhc--c--c--cCCchhhhhhhh----hhcccch---
Confidence 4899999999999999998887754 2567776655443222 1 1 111111111100 0111111
Q ss_pred ccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH-hhhhcccCeEEEEcCCCCCCccccchH
Q 000698 1037 NINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS-LGPLMFASKFVLVGDHYQLPPLVQSTE 1114 (1345)
Q Consensus 1037 ~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~-L~pL~~a~k~VLVGDh~QLPPvV~s~~ 1114 (1345)
..+.+... .+....+++||||.+--.+... +-++-.+.++|-----+++.-+.+...
T Consensus 206 ---k~~gmmma------------------Irsm~PEViIvDEIGt~~d~~A~~ta~~~GVkli~TaHG~~iedl~krp~ 263 (308)
T COG3854 206 ---KAEGMMMA------------------IRSMSPEVIIVDEIGTEEDALAILTALHAGVKLITTAHGNGIEDLIKRPT 263 (308)
T ss_pred ---HHHHHHHH------------------HHhcCCcEEEEeccccHHHHHHHHHHHhcCcEEEEeeccccHHHhhcChh
Confidence 11111111 1234689999999987666554 344556777777666666555544433
No 266
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=94.99 E-value=0.042 Score=61.27 Aligned_cols=52 Identities=21% Similarity=0.306 Sum_probs=40.3
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcC
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQS 1012 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~ 1012 (1345)
...++|.|+||||||+++.+++...+.+|+++++++.-.. .+.+..+....+
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~~-~~~i~~~~~~~g 71 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEES-RESIIRQAAQFG 71 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccCC-HHHHHHHHHHhC
Confidence 4588999999999999999988777778999999987444 356655544444
No 267
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=94.98 E-value=0.062 Score=67.89 Aligned_cols=37 Identities=22% Similarity=0.246 Sum_probs=27.2
Q ss_pred HHHHHHHhcC---CeEEEEccCCCChHHHHHHHHHHHHhc
Q 000698 951 RAIIKVLTAK---DYALILGMPGTGKTSTMVHAVKALLMR 987 (1345)
Q Consensus 951 ~AI~~~l~~~---d~~LI~GpPGTGKTttIa~lI~~Ll~~ 987 (1345)
+.+..++... ..+|+.||||+||||++..+++.|...
T Consensus 26 ~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~ 65 (605)
T PRK05896 26 KILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCL 65 (605)
T ss_pred HHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 4444444332 246899999999999999999988654
No 268
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=94.98 E-value=0.032 Score=69.56 Aligned_cols=54 Identities=26% Similarity=0.289 Sum_probs=44.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
...++|.|+||||||+++.+.+...+++|.+++++++- ...+.|+.+....+++
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~e-Es~~~i~~~~~~lg~~ 316 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACANKERAILFAYE-ESRAQLLRNAYSWGID 316 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEee-CCHHHHHHHHHHcCCC
Confidence 34789999999999999999999999999999999974 4456677777666543
No 269
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=94.96 E-value=0.12 Score=62.56 Aligned_cols=31 Identities=26% Similarity=0.331 Sum_probs=23.9
Q ss_pred hcCCeEEEEccCCCChHHHHHHHHHH-HHhcC
Q 000698 958 TAKDYALILGMPGTGKTSTMVHAVKA-LLMRG 988 (1345)
Q Consensus 958 ~~~d~~LI~GpPGTGKTttIa~lI~~-Ll~~g 988 (1345)
......+..||+|||||++..++-.. .+..|
T Consensus 207 e~~~Nli~lGp~GTGKThla~~l~~~~a~~sG 238 (449)
T TIGR02688 207 EPNYNLIELGPKGTGKSYIYNNLSPYVILISG 238 (449)
T ss_pred hcCCcEEEECCCCCCHHHHHHHHhHHHHHHcC
Confidence 34567899999999999999886655 45555
No 270
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=94.90 E-value=0.1 Score=66.15 Aligned_cols=118 Identities=26% Similarity=0.297 Sum_probs=64.2
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcC----CeEEEEeccHHHHHHHHHHHhhc-CCcEEEEcccchhhHHHHHhhhccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRG----ASILLTSYTNSAVDNLLIKLKSQ-SIDFVRIGRHEVVHKEIQKHCLSAM 1036 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~g----kkVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG~~~~v~~~v~~~~l~~~ 1036 (1345)
.+|+.||+|||||+++..+++.+.-.. ...-.| ..+..+... ..+++.+...
T Consensus 40 ayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C--------~~C~~i~~g~~~dv~eidaa--------------- 96 (559)
T PRK05563 40 AYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNEC--------EICKAITNGSLMDVIEIDAA--------------- 96 (559)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCcc--------HHHHHHhcCCCCCeEEeecc---------------
Confidence 468899999999999998888875321 111111 123333322 3455555321
Q ss_pred ccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEEEc-CCCCCCcc
Q 000698 1037 NINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVLVG-DHYQLPPL 1109 (1345)
Q Consensus 1037 ~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VLVG-Dh~QLPPv 1109 (1345)
....++++++..+.+.. .+. ...+.++||||+.+++.... |..+-. ...|||+. ++..++|+
T Consensus 97 s~~~vd~ir~i~~~v~~---------~p~--~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~t 165 (559)
T PRK05563 97 SNNGVDEIRDIRDKVKY---------APS--EAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPAT 165 (559)
T ss_pred ccCCHHHHHHHHHHHhh---------Ccc--cCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHH
Confidence 11223444443332210 011 24789999999998887543 222211 22455544 67778888
Q ss_pred ccch
Q 000698 1110 VQST 1113 (1345)
Q Consensus 1110 V~s~ 1113 (1345)
+.+.
T Consensus 166 I~SR 169 (559)
T PRK05563 166 ILSR 169 (559)
T ss_pred HHhH
Confidence 7654
No 271
>PRK10436 hypothetical protein; Provisional
Probab=94.88 E-value=0.048 Score=67.34 Aligned_cols=49 Identities=24% Similarity=0.334 Sum_probs=39.7
Q ss_pred CCCHHHHHHHHHHHh-cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEE
Q 000698 944 SLNDDQRRAIIKVLT-AKDYALILGMPGTGKTSTMVHAVKALLMRGASIL 992 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~-~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVL 992 (1345)
.|.+.|.+.+.+.+. ..+..+|.||.|||||||+..++..+...+.+|+
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~ 250 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLNTAQINIC 250 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEE
Confidence 577888888887765 5679999999999999999988888765555553
No 272
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=94.88 E-value=0.25 Score=67.14 Aligned_cols=165 Identities=10% Similarity=-0.029 Sum_probs=101.6
Q ss_pred CCCEEEEeCCCCCCHHHH--hhhhc-ccCeEEEEcCCCCCCccccchHHHhcCC-----cchHHHHHHHhCCcceecccc
Q 000698 1070 KFDVCIMDEAGQTTLPVS--LGPLM-FASKFVLVGDHYQLPPLVQSTEARENGM-----EISLFRRLSEEHPQAISALQS 1141 (1345)
Q Consensus 1070 ~FD~VIVDEASQitep~~--L~pL~-~a~k~VLVGDh~QLPPvV~s~~a~~~Gl-----~~SLFerL~~~~p~~v~~Lt~ 1141 (1345)
+-..|+|||+++.+..+. +..|. .++++++++|..|-.+ . ..+.+. ....+.++.+.+...+..+..
T Consensus 185 ~~~~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~~~--~---~~~~~~~LF~~s~~~L~~la~~~~i~v~~~~~ 259 (1076)
T TIGR02774 185 KNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAY--K---SSFSEGNLYQASVKFLHDLAQKYQTKAEFISS 259 (1076)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCcccc--c---cCCCcccchHHHHHHHHHHHHHcCCCcccCcc
Confidence 457899999988887665 44443 4788999999888321 0 012221 112333444444444555668
Q ss_pred cccCchhHHHHHHHhhhCCcCCCCchhhhhhhccccCCCCCchhhhhhcCCCCCEEEEeCCCCccccccccCCCCCHHHH
Q 000698 1142 QYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEA 1221 (1345)
Q Consensus 1142 QYRm~~eI~~lsN~lfY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidtd~~~~~e~~~~~s~~N~~EA 1221 (1345)
+||.+++|..+.+.++-....... .+.. ...+...+.++... +-..|+
T Consensus 260 ~~R~~~~L~~Le~~~~~~~~~~~~------------------~~~~-~~~~~~~I~i~~a~-------------n~~~Ev 307 (1076)
T TIGR02774 260 THESKDSFDKLSRLLEASHDFSEL------------------ALDL-DDKDKDNLTIWSCL-------------TQKEEV 307 (1076)
T ss_pred ccccCHHHHHHHHHHhhcccCCcc------------------cccC-CCCCCCceEEEEcC-------------CHHHHH
Confidence 899999999998844311000000 0000 00011123333222 245799
Q ss_pred HHHHHHHHHHHHCCCCCCcEEEEecChHH-HHHHHHHcCCCCcEEEeccCc
Q 000698 1222 CLIAKITQELVKNEIEGKDIGIITPYNSQ-ANLIRHSLSVSSVEIHTIDKY 1271 (1345)
Q Consensus 1222 ~lV~~lv~~Ll~~gv~~~dIGVITPYraQ-v~lIr~~L~~~~VeV~TVD~f 1271 (1345)
+.|+..+..|+..|+..+||+|+++-..+ ...|...+...+|.+.--++-
T Consensus 308 e~va~~I~~lv~~g~ry~DIaVl~rd~~~Y~~~i~~iF~~~~IP~fid~~~ 358 (1076)
T TIGR02774 308 EHVARSIRQKLYEGYRYKDILVLLGDVDSYQLQLGKIFDQYDIPFYLGKAE 358 (1076)
T ss_pred HHHHHHHHHHHHcCCChhheEEEcCCHHHHHHHHHHHHhhcCCCeEeCCcc
Confidence 99999999999889999999999999888 678888887767766544433
No 273
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.85 E-value=0.041 Score=62.84 Aligned_cols=47 Identities=30% Similarity=0.308 Sum_probs=40.7
Q ss_pred cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHH
Q 000698 959 AKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLL 1005 (1345)
Q Consensus 959 ~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl 1005 (1345)
....++|.|+||||||+...+.+...+..|.+++++|....+.+-+.
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~~l~~ 68 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPEELLE 68 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHHHHHH
Confidence 45689999999999999999999999999999999998776655443
No 274
>PTZ00293 thymidine kinase; Provisional
Probab=94.84 E-value=0.036 Score=61.46 Aligned_cols=37 Identities=22% Similarity=0.371 Sum_probs=32.2
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEecc
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYT 997 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~T 997 (1345)
...+|.||-|+||||-|...+......|++++++-|.
T Consensus 5 ~i~vi~GpMfSGKTteLLr~i~~y~~ag~kv~~~kp~ 41 (211)
T PTZ00293 5 TISVIIGPMFSGKTTELMRLVKRFTYSEKKCVVIKYS 41 (211)
T ss_pred EEEEEECCCCChHHHHHHHHHHHHHHcCCceEEEEec
Confidence 3678999999999998888888888889999998873
No 275
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=94.84 E-value=0.06 Score=63.41 Aligned_cols=42 Identities=19% Similarity=0.307 Sum_probs=37.0
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHH
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
-.++++..++|...+......+|.|+||||||+++..+++.|
T Consensus 47 y~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 47 YLFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred ccCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 357888888888888888899999999999999999888876
No 276
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=94.79 E-value=0.04 Score=65.24 Aligned_cols=124 Identities=16% Similarity=0.117 Sum_probs=64.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh-cCCcEEEEcccchhhHHHHHhhhcc-cccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS-QSIDFVRIGRHEVVHKEIQKHCLSA-MNIN 1039 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~-~~l~ilRiG~~~~v~~~v~~~~l~~-~~~~ 1039 (1345)
-.++.||+|+|||+++..+++.|.-.+..-.--+..=. -+.++.. ...++..+-. .. ...-
T Consensus 24 a~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~----sC~~~~~g~HPD~~~i~~-------------~~~~~~i 86 (328)
T PRK05707 24 AYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCK----GCQLLRAGSHPDNFVLEP-------------EEADKTI 86 (328)
T ss_pred eeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCH----HHHHHhcCCCCCEEEEec-------------cCCCCCC
Confidence 47899999999999999999998753211000000001 1112211 1122322211 00 0112
Q ss_pred cHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEEEc-CCCCCCccccc
Q 000698 1040 SVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVLVG-DHYQLPPLVQS 1112 (1345)
Q Consensus 1040 s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VLVG-Dh~QLPPvV~s 1112 (1345)
.++++++..+... ..+. ...+.++|||||..++.... |..|-. ...|||+- ++.+|+|++.|
T Consensus 87 ~id~iR~l~~~~~---------~~~~--~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~S 155 (328)
T PRK05707 87 KVDQVRELVSFVV---------QTAQ--LGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKS 155 (328)
T ss_pred CHHHHHHHHHHHh---------hccc--cCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHh
Confidence 3445544433221 0011 13689999999988887554 333322 24466665 45689999887
Q ss_pred h
Q 000698 1113 T 1113 (1345)
Q Consensus 1113 ~ 1113 (1345)
.
T Consensus 156 R 156 (328)
T PRK05707 156 R 156 (328)
T ss_pred h
Confidence 5
No 277
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.73 E-value=0.043 Score=68.01 Aligned_cols=62 Identities=18% Similarity=0.284 Sum_probs=47.1
Q ss_pred HHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHH--HHhcCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 950 RRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKA--LLMRGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 950 ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~--Ll~~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
+..+.++.....+.+|.|-+||||||-|-..+.. +.+.|++|-+|-+-+.|+-.+..|+.+.
T Consensus 270 kdell~av~e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~E 333 (902)
T KOG0923|consen 270 KDELLKAVKEHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEE 333 (902)
T ss_pred HHHHHHHHHhCcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHH
Confidence 3455555666679999999999999988654432 2334667999999999999999998764
No 278
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=94.73 E-value=0.088 Score=58.26 Aligned_cols=53 Identities=21% Similarity=0.325 Sum_probs=38.4
Q ss_pred CHHHHHHHHHHHh--cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH
Q 000698 946 NDDQRRAIIKVLT--AKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN 998 (1345)
Q Consensus 946 N~eQ~~AI~~~l~--~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn 998 (1345)
|..-.+++...+. .....+|.|+||||||+++..+...+...+.+++.+..++
T Consensus 22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~ 76 (226)
T TIGR03420 22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAE 76 (226)
T ss_pred cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHH
Confidence 4444455555432 2357899999999999999999998887777777765443
No 279
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=94.73 E-value=0.038 Score=61.13 Aligned_cols=37 Identities=22% Similarity=0.325 Sum_probs=33.1
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
...++|.|+||||||+++.+++..+...|.+|++.+.
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~ 55 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT 55 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence 3578999999999999999999999888999988854
No 280
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=94.72 E-value=0.062 Score=57.95 Aligned_cols=51 Identities=29% Similarity=0.469 Sum_probs=38.3
Q ss_pred cCCeEEEEccCCCChHHHHHHHHHHHHh----------cCCeEEEEeccHHHHHHHHHHHhh
Q 000698 959 AKDYALILGMPGTGKTSTMVHAVKALLM----------RGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 959 ~~d~~LI~GpPGTGKTttIa~lI~~Ll~----------~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
..+..+|.|+||+|||+++.+++..+.. .+.+||+++.-.. ...+..|+..
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~ 91 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRA 91 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHH
Confidence 4568999999999999999999998886 4678999998777 4556666654
No 281
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.72 E-value=0.093 Score=66.67 Aligned_cols=37 Identities=24% Similarity=0.236 Sum_probs=27.5
Q ss_pred HHHHHHHHhcC---CeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 950 RRAIIKVLTAK---DYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 950 ~~AI~~~l~~~---d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
.+.+.+++..+ ..+|+.||||+||||++..+++.|.-
T Consensus 25 ~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 25 KAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence 34455555543 34778999999999999999888854
No 282
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.70 E-value=0.1 Score=66.42 Aligned_cols=130 Identities=23% Similarity=0.313 Sum_probs=68.4
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhc-CCe---EEEEeccHHHHHHHHHHHhh-cCCcEEEEccc
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMR-GAS---ILLTSYTNSAVDNLLIKLKS-QSIDFVRIGRH 1021 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~-gkk---VLvtA~TnsAVDnLl~kL~~-~~l~ilRiG~~ 1021 (1345)
.+.+...+..+. .+|+.||+|+||||++..+++.|.-. +.. .-.| ..+..+.. ...+++.+...
T Consensus 25 ~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c--------~~c~~i~~g~~~d~~eid~~ 96 (576)
T PRK14965 25 SRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVC--------PPCVEITEGRSVDVFEIDGA 96 (576)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCcc--------HHHHHHhcCCCCCeeeeecc
Confidence 455555555432 36899999999999999988887532 111 1111 11222211 12334333211
Q ss_pred chhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cC
Q 000698 1022 EVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---AS 1095 (1345)
Q Consensus 1022 ~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~ 1095 (1345)
....++++++.+.... ..+. ...|.++||||+.+++.-.. |..|-. ..
T Consensus 97 ---------------s~~~v~~ir~l~~~~~---------~~p~--~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~ 150 (576)
T PRK14965 97 ---------------SNTGVDDIRELRENVK---------YLPS--RSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHV 150 (576)
T ss_pred ---------------CccCHHHHHHHHHHHH---------hccc--cCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCe
Confidence 1122334443333221 0111 13789999999988876333 222221 34
Q ss_pred eEEEEc-CCCCCCccccch
Q 000698 1096 KFVLVG-DHYQLPPLVQST 1113 (1345)
Q Consensus 1096 k~VLVG-Dh~QLPPvV~s~ 1113 (1345)
.|||+- ++..|++++.+.
T Consensus 151 ~fIl~t~~~~kl~~tI~SR 169 (576)
T PRK14965 151 KFIFATTEPHKVPITILSR 169 (576)
T ss_pred EEEEEeCChhhhhHHHHHh
Confidence 577665 567788877654
No 283
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=94.66 E-value=0.32 Score=61.89 Aligned_cols=61 Identities=16% Similarity=0.169 Sum_probs=47.8
Q ss_pred HHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHHhh
Q 000698 949 QRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM-RGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 949 Q~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~-~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+..++-..+. +.++++..|=|.|||+++.-++..++. .|.+|+++|+.-..+..+..++..
T Consensus 177 ~id~~~~~fk-q~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~ 238 (752)
T PHA03333 177 EIDRIFDEYG-KCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVET 238 (752)
T ss_pred HHHHHHHHHh-hcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHH
Confidence 3344444444 579999999999999999876666665 789999999999999998877653
No 284
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=94.63 E-value=0.045 Score=68.23 Aligned_cols=54 Identities=17% Similarity=0.279 Sum_probs=43.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
...++|.|+||||||+...+.+..-+++ |+++|++++- ...+++.......+.+
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~~G~~ 75 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARSFGWD 75 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHHcCCC
Confidence 4578999999999999999998876665 8999999986 5567777777766653
No 285
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=94.59 E-value=0.42 Score=61.66 Aligned_cols=188 Identities=19% Similarity=0.264 Sum_probs=103.3
Q ss_pred CCCCHHHHHHHHHH---HhcCC-eEEEEccCCCChHHHHHHHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhhcCCcEE
Q 000698 943 KSLNDDQRRAIIKV---LTAKD-YALILGMPGTGKTSTMVHAVKALLMRG--ASILLTSYTNSAVDNLLIKLKSQSIDFV 1016 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~---l~~~d-~~LI~GpPGTGKTttIa~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~~~l~il 1016 (1345)
..++++|.+|++.. +.... ..+|.|.=|=|||..+--.+..+...+ .+|.|||+|-.||+.+.+-+.+ ++++
T Consensus 210 l~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~-~l~~- 287 (758)
T COG1444 210 LCLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGK-GLEF- 287 (758)
T ss_pred hhcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHHHHHHhcCCceEEEeCCCHHHHHHHHHHHHH-hHHH-
Confidence 36788888876543 33333 789999999999999875554444444 4999999999999999866532 1100
Q ss_pred EEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhcccCe
Q 000698 1017 RIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLMFASK 1096 (1345)
Q Consensus 1017 RiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~~a~k 1096 (1345)
+|-...+.++. ...+...-.+.-.| ....|.-....-|+++||||..+..|.....+....+
T Consensus 288 -lg~~~~v~~d~------------~g~~~~~~~~~~~i-----~y~~P~~a~~~~DllvVDEAAaIplplL~~l~~~~~r 349 (758)
T COG1444 288 -LGYKRKVAPDA------------LGEIREVSGDGFRI-----EYVPPDDAQEEADLLVVDEAAAIPLPLLHKLLRRFPR 349 (758)
T ss_pred -hCCcccccccc------------ccceeeecCCceeE-----EeeCcchhcccCCEEEEehhhcCChHHHHHHHhhcCc
Confidence 01000110000 00000000000000 0001111111279999999999999988777777677
Q ss_pred EEEEcCCCCCCccccchHHHhcCCcchHHHHHHHhCCccee--cccc--cccCchhHHHHHHHhh
Q 000698 1097 FVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAIS--ALQS--QYRMCQGIMELSNALI 1157 (1345)
Q Consensus 1097 ~VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~p~~v~--~Lt~--QYRm~~eI~~lsN~lf 1157 (1345)
+++. -+|++-+-.-+|+..-+.++|.+.....+. .|++ -|=....|-.+.+.++
T Consensus 350 v~~s-------TTIhGYEGtGRgF~lkf~~~l~~~~~~~~~~~~l~ePIRya~gDPiE~wl~d~L 407 (758)
T COG1444 350 VLFS-------TTIHGYEGTGRGFSLKFLARLRKQRDTTLHELELEEPIRYAPGDPIEKWLYDAL 407 (758)
T ss_pred eEEE-------eeecccccCChHHHHHHHHHhcccccceEEEEeccCCcccCCCCcHHHHHHHhh
Confidence 7765 344444433333333333444332222122 3433 3446777888887766
No 286
>PRK06851 hypothetical protein; Provisional
Probab=94.57 E-value=0.029 Score=67.12 Aligned_cols=46 Identities=28% Similarity=0.465 Sum_probs=41.3
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCe--EEEEeccHHHHHHHH
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGAS--ILLTSYTNSAVDNLL 1005 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkk--VLvtA~TnsAVDnLl 1005 (1345)
...++|.|+|||||||++..++..+.+.|.. .+.|+..+.++|-+.
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvi 77 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVI 77 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEE
Confidence 4689999999999999999999999988876 678899999999876
No 287
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=94.55 E-value=0.05 Score=59.72 Aligned_cols=39 Identities=21% Similarity=0.309 Sum_probs=34.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN 998 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn 998 (1345)
...+.|.|+||||||+++.+++......|.++++++..+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 357899999999999999999999888899999888864
No 288
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=94.55 E-value=0.21 Score=65.26 Aligned_cols=118 Identities=14% Similarity=0.093 Sum_probs=70.8
Q ss_pred CHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc----CCcEEEEccc
Q 000698 946 NDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ----SIDFVRIGRH 1021 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~----~l~ilRiG~~ 1021 (1345)
.+-|..+.. ....+. +.....|+|||.+.+-.+......|+.|+|+|+|...+....+.+... |+..--+...
T Consensus 80 ~~vQl~~~~--~l~~G~-Iaem~TGeGKTL~a~lp~~l~al~G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl~v~~i~g~ 156 (790)
T PRK09200 80 YDVQLIGAL--VLHEGN-IAEMQTGEGKTLTATMPLYLNALEGKGVHLITVNDYLAKRDAEEMGQVYEFLGLTVGLNFSD 156 (790)
T ss_pred chHHHHhHH--HHcCCc-eeeecCCCcchHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCC
Confidence 334544443 222333 999999999999876555444447999999999999998887766542 3322211110
Q ss_pred chhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc-----ccc------ccCCCCCEEEEeCCCCCC
Q 000698 1022 EVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT-----NPL------LTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1022 ~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~-----~~l------l~~~~FD~VIVDEASQit 1083 (1345)
.+...-++....++|+.+|...++ +.+ ...+.+.++|||||-.+.
T Consensus 157 -----------------~~~~~~r~~~y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiL 212 (790)
T PRK09200 157 -----------------IDDASEKKAIYEADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSIL 212 (790)
T ss_pred -----------------CCcHHHHHHhcCCCEEEECCccccchhHHhccccchhhhcccccceEEEeccccce
Confidence 010112223345788888875552 111 123678999999995443
No 289
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=94.55 E-value=0.052 Score=67.57 Aligned_cols=51 Identities=22% Similarity=0.316 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHHHhc-CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEE
Q 000698 943 KSLNDDQRRAIIKVLTA-KDYALILGMPGTGKTSTMVHAVKALLMRGASILL 993 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~-~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLv 993 (1345)
-.+.++|.+.+...+.. .+..+|.||+|||||||+..++..+...+.+|+.
T Consensus 224 Lg~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiT 275 (486)
T TIGR02533 224 LGMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILT 275 (486)
T ss_pred cCCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEE
Confidence 35788999999887764 4689999999999999998888877554444433
No 290
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=94.54 E-value=0.18 Score=63.05 Aligned_cols=121 Identities=21% Similarity=0.300 Sum_probs=63.4
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCC----eEEEEeccHHHHHHHHHHHhh-cCCcEEEEcccchhhHHHHHhhhccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGA----SILLTSYTNSAVDNLLIKLKS-QSIDFVRIGRHEVVHKEIQKHCLSAM 1036 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gk----kVLvtA~TnsAVDnLl~kL~~-~~l~ilRiG~~~~v~~~v~~~~l~~~ 1036 (1345)
.+++.|||||||||++..+++.|.-... .....+..... +..+.+ ...+++.+...
T Consensus 45 a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~----C~~i~~~~h~Dv~eidaa--------------- 105 (507)
T PRK06645 45 GYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTN----CISFNNHNHPDIIEIDAA--------------- 105 (507)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChH----HHHHhcCCCCcEEEeecc---------------
Confidence 5899999999999999999888854211 11111121111 111211 12344444321
Q ss_pred ccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEEEcCC-CCCCcc
Q 000698 1037 NINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVLVGDH-YQLPPL 1109 (1345)
Q Consensus 1037 ~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VLVGDh-~QLPPv 1109 (1345)
...+++++++.++.+. ..+.+ .++.++||||+.+.+...+ +..+.. ...||++.+. +.+++.
T Consensus 106 s~~~vd~Ir~iie~a~---------~~P~~--~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~t 174 (507)
T PRK06645 106 SKTSVDDIRRIIESAE---------YKPLQ--GKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPAT 174 (507)
T ss_pred CCCCHHHHHHHHHHHH---------hcccc--CCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHH
Confidence 1123455555554321 11222 3688999999988876443 222221 2346666543 346665
Q ss_pred ccc
Q 000698 1110 VQS 1112 (1345)
Q Consensus 1110 V~s 1112 (1345)
+.+
T Consensus 175 I~S 177 (507)
T PRK06645 175 IIS 177 (507)
T ss_pred HHh
Confidence 554
No 291
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=94.50 E-value=0.062 Score=70.67 Aligned_cols=122 Identities=18% Similarity=0.197 Sum_probs=84.2
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHH-HHHHHHhc----------CCeEEEEeccHHHHHHHHH----
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVH-AVKALLMR----------GASILLTSYTNSAVDNLLI---- 1006 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~-lI~~Ll~~----------gkkVLvtA~TnsAVDnLl~---- 1006 (1345)
...||..|-+.-..++......++.||.|+|||-+++. +++.+-.. ..+|.+.|+....|+++..
T Consensus 307 ~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSk 386 (1674)
T KOG0951|consen 307 KQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSK 386 (1674)
T ss_pred chhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHh
Confidence 35699999999999999999999999999999998874 44444321 2489999999999998865
Q ss_pred HHhhcCCcEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc---cccc---cCCCCCEEEEeCCC
Q 000698 1007 KLKSQSIDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT---NPLL---TDKKFDVCIMDEAG 1080 (1345)
Q Consensus 1007 kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~---~~ll---~~~~FD~VIVDEAS 1080 (1345)
||...|+.+......... -+..+..++|+.+|.--.. +.-- ...-|+.+||||..
T Consensus 387 Rla~~GI~V~ElTgD~~l-------------------~~~qieeTqVIV~TPEK~DiITRk~gdraY~qlvrLlIIDEIH 447 (1674)
T KOG0951|consen 387 RLAPLGITVLELTGDSQL-------------------GKEQIEETQVIVTTPEKWDIITRKSGDRAYEQLVRLLIIDEIH 447 (1674)
T ss_pred hccccCcEEEEecccccc-------------------hhhhhhcceeEEeccchhhhhhcccCchhHHHHHHHHhhhhhh
Confidence 566667766544321111 0123456777877764331 1100 11357899999996
Q ss_pred CC
Q 000698 1081 QT 1082 (1345)
Q Consensus 1081 Qi 1082 (1345)
..
T Consensus 448 LL 449 (1674)
T KOG0951|consen 448 LL 449 (1674)
T ss_pred hc
Confidence 65
No 292
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=94.50 E-value=0.087 Score=61.84 Aligned_cols=48 Identities=35% Similarity=0.327 Sum_probs=38.9
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec--cHHHHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY--TNSAVDNLLIKL 1008 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~--TnsAVDnLl~kL 1008 (1345)
.+.++.|.-|.||||+.+..+..+.++|+++|+++. +|+..|-+-.++
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa~~L~d~l~~~~ 51 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLVSTDPAHSLSDVLGQKL 51 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEESSTTTHHHHHHTS--
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEeecCCCccHHHHhCCcC
Confidence 468899999999999999999999999999999864 777777665544
No 293
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=94.41 E-value=0.058 Score=61.65 Aligned_cols=53 Identities=19% Similarity=0.227 Sum_probs=42.3
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhh
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+.....++|.|+||+|||+++.+++..+... |.+|++++.-.. .+.+..|+..
T Consensus 27 ~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~-~~~~~~r~~~ 80 (271)
T cd01122 27 LRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEP-VVRTARRLLG 80 (271)
T ss_pred EcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccC-HHHHHHHHHH
Confidence 3445689999999999999999999988777 999999998553 4556666543
No 294
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=94.37 E-value=0.037 Score=55.02 Aligned_cols=22 Identities=32% Similarity=0.558 Sum_probs=20.0
Q ss_pred EEEEccCCCChHHHHHHHHHHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.+|.|+|||||||++..+.+.+
T Consensus 2 I~I~G~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 5899999999999999998876
No 295
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.34 E-value=0.1 Score=65.28 Aligned_cols=62 Identities=18% Similarity=0.284 Sum_probs=47.4
Q ss_pred HHHHHHHHhcCCeEEEEccCCCChHHHHHHHHH-HHHhcCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 950 RRAIIKVLTAKDYALILGMPGTGKTSTMVHAVK-ALLMRGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 950 ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~-~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
+.-|...+..+.+++|.|..||||||-|-..+. .-.....+|.+|=|-+.|+-.+..|+...
T Consensus 56 r~~il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE 118 (674)
T KOG0922|consen 56 RDQILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEE 118 (674)
T ss_pred HHHHHHHHHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHHH
Confidence 344555566678999999999999998876543 33333345999999999999999998764
No 296
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=94.32 E-value=0.053 Score=58.45 Aligned_cols=56 Identities=23% Similarity=0.393 Sum_probs=38.1
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec--cHHHHHHHHHHHhhcCCcEEEEcc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY--TNSAVDNLLIKLKSQSIDFVRIGR 1020 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~--TnsAVDnLl~kL~~~~l~ilRiG~ 1020 (1345)
.++|.|..||||||+|.++++ ....|.++.++.. -...+|.-+ +.+.+..+..+.+
T Consensus 2 v~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g~~~iD~~~--l~~~~~~v~~l~~ 59 (178)
T PF02492_consen 2 VIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEFGEVNIDAEL--LQEDGVPVVELNN 59 (178)
T ss_dssp EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECSTTSTHHHHHH--HHTTT-EEEEECT
T ss_pred EEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEccccccccchhh--hcccceEEEEecC
Confidence 679999999999999999998 6667888888763 333344322 3344555665543
No 297
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=94.30 E-value=0.079 Score=64.32 Aligned_cols=26 Identities=27% Similarity=0.332 Sum_probs=22.3
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMR 987 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~ 987 (1345)
-+|+.||||+|||+++..+++.|.-.
T Consensus 38 a~Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 38 AWLFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 37899999999999999998887543
No 298
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=94.26 E-value=0.078 Score=67.35 Aligned_cols=49 Identities=22% Similarity=0.408 Sum_probs=38.7
Q ss_pred CCCCHHHHHHHHHHHh-cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeE
Q 000698 943 KSLNDDQRRAIIKVLT-AKDYALILGMPGTGKTSTMVHAVKALLMRGASI 991 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~-~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkV 991 (1345)
-.+.++|.+.+..++. ..+..+|.||.|||||||+..++..+-....+|
T Consensus 298 lg~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i 347 (564)
T TIGR02538 298 LGFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNILNTEEVNI 347 (564)
T ss_pred cCCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhhCCCCceE
Confidence 3578888888888776 467899999999999999988888774434343
No 299
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=94.26 E-value=0.063 Score=59.74 Aligned_cols=38 Identities=21% Similarity=0.349 Sum_probs=34.2
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEecc
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYT 997 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~T 997 (1345)
...++|.|+||||||+++.+++......|.+|++++.-
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 35899999999999999999999988889999888876
No 300
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.24 E-value=0.18 Score=60.96 Aligned_cols=43 Identities=23% Similarity=0.397 Sum_probs=36.0
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec---cHHHHHHHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSY---TNSAVDNLL 1005 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~---TnsAVDnLl 1005 (1345)
..+.|.-|-||+|.++.+..+|+.++.+||+.|- ---||+.|.
T Consensus 381 i~fvGVNGVGKSTNLAKIayWLlqNkfrVLIAACDTFRsGAvEQLr 426 (587)
T KOG0781|consen 381 ISFVGVNGVGKSTNLAKIAYWLLQNKFRVLIAACDTFRSGAVEQLR 426 (587)
T ss_pred EEEEeecCccccchHHHHHHHHHhCCceEEEEeccchhhhHHHHHH
Confidence 3578999999999999999999999999999863 445666664
No 301
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=94.24 E-value=0.065 Score=60.07 Aligned_cols=49 Identities=27% Similarity=0.398 Sum_probs=40.1
Q ss_pred cCCeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHH
Q 000698 959 AKDYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKL 1008 (1345)
Q Consensus 959 ~~d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL 1008 (1345)
....++|.|+||+|||+++.+++..+..+ |.+|++.+.-..+. ++..|+
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~-~~~~r~ 61 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKE-QLLQRL 61 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHH-HHHHHH
Confidence 34589999999999999999999998887 99999999866554 344444
No 302
>PF05729 NACHT: NACHT domain
Probab=94.24 E-value=0.068 Score=55.44 Aligned_cols=27 Identities=26% Similarity=0.405 Sum_probs=24.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcC
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRG 988 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~g 988 (1345)
+++|.|+||+|||+++..++..+...+
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 679999999999999999999988764
No 303
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.24 E-value=0.18 Score=59.56 Aligned_cols=144 Identities=15% Similarity=0.131 Sum_probs=95.1
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHhcC--CeEEEEeccHHHHHHHHHHHhhcC----CcE
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLMRG--ASILLTSYTNSAVDNLLIKLKSQS----IDF 1015 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~~g--kkVLvtA~TnsAVDnLl~kL~~~~----l~i 1015 (1345)
+..++-|++||=.++.. ..++..+-.|||||-.-+ -++..|+... ...||++||+..+-.|.+.....| +..
T Consensus 82 ~~PT~IQ~~aiP~~L~g-~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~iglr~ 160 (476)
T KOG0330|consen 82 KKPTKIQSEAIPVALGG-RDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGIGLRV 160 (476)
T ss_pred CCCchhhhhhcchhhCC-CcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhccccCeEE
Confidence 45688899999988885 578899999999997654 5777787765 479999999999999988776653 221
Q ss_pred -EEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc-----ccccCCCCCEEEEeCCCCCCHHHH--
Q 000698 1016 -VRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN-----PLLTDKKFDVCIMDEAGQTTLPVS-- 1087 (1345)
Q Consensus 1016 -lRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~-----~ll~~~~FD~VIVDEASQitep~~-- 1087 (1345)
+-+|.... ............|+.+|.....+ ..|......+++.|||-.+..-.+
T Consensus 161 ~~lvGG~~m-----------------~~q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADrlLd~dF~~ 223 (476)
T KOG0330|consen 161 AVLVGGMDM-----------------MLQANQLSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLLDMDFEE 223 (476)
T ss_pred EEEecCchH-----------------HHHHHHhhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchHHhhhhhhhHH
Confidence 22232211 12222334556777777755432 344556778999999965544332
Q ss_pred -----hhhhcccCeEEEEcCCC
Q 000698 1088 -----LGPLMFASKFVLVGDHY 1104 (1345)
Q Consensus 1088 -----L~pL~~a~k~VLVGDh~ 1104 (1345)
|..+....+.+|++-..
T Consensus 224 ~ld~ILk~ip~erqt~LfsATM 245 (476)
T KOG0330|consen 224 ELDYILKVIPRERQTFLFSATM 245 (476)
T ss_pred HHHHHHHhcCccceEEEEEeec
Confidence 23333456677776543
No 304
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=94.23 E-value=0.14 Score=67.73 Aligned_cols=66 Identities=23% Similarity=0.202 Sum_probs=55.5
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHh
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
-.|++-|++|+.. +...+-.+|.+|.|+|||.+.-..|..-++.|+++.+||+...........|.
T Consensus 118 F~LD~fQ~~a~~~-Ler~esVlV~ApTssGKTvVaeyAi~~al~~~qrviYTsPIKALsNQKyrdl~ 183 (1041)
T COG4581 118 FELDPFQQEAIAI-LERGESVLVCAPTSSGKTVVAEYAIALALRDGQRVIYTSPIKALSNQKYRDLL 183 (1041)
T ss_pred CCcCHHHHHHHHH-HhCCCcEEEEccCCCCcchHHHHHHHHHHHcCCceEeccchhhhhhhHHHHHH
Confidence 4789999999965 55568899999999999999999999999999999999997776666554443
No 305
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=94.22 E-value=0.14 Score=58.04 Aligned_cols=31 Identities=29% Similarity=0.389 Sum_probs=26.7
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASI 991 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkV 991 (1345)
-..+|.||+||||||.+..+...|.+.+...
T Consensus 20 ~~ilVvGMAGSGKTTF~QrL~~hl~~~~~pp 50 (366)
T KOG1532|consen 20 VIILVVGMAGSGKTTFMQRLNSHLHAKKTPP 50 (366)
T ss_pred cEEEEEecCCCCchhHHHHHHHHHhhccCCC
Confidence 3678999999999999999999998876543
No 306
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=94.16 E-value=0.057 Score=61.85 Aligned_cols=51 Identities=16% Similarity=0.234 Sum_probs=38.5
Q ss_pred CHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 946 NDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
.+...+.+..........+|.|++||||||++..++..+-..+.+|+++--
T Consensus 113 ~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd 163 (270)
T PF00437_consen 113 PEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIED 163 (270)
T ss_dssp HHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEES
T ss_pred HHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhccccccceEEecc
Confidence 345555665555567899999999999999999998876665577766554
No 307
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=94.14 E-value=0.061 Score=56.00 Aligned_cols=37 Identities=22% Similarity=0.352 Sum_probs=30.7
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN 998 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn 998 (1345)
...|.|+.||||||++..++..|.++|.+|.++-.++
T Consensus 2 vv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~~ 38 (140)
T PF03205_consen 2 VVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHTD 38 (140)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-S
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEcc
Confidence 5689999999999999999999999999998776654
No 308
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=94.13 E-value=0.17 Score=64.09 Aligned_cols=35 Identities=23% Similarity=0.186 Sum_probs=30.2
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLM--RGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~ 996 (1345)
.++|.|++|||||+++..+...+.. .|.+|++++.
T Consensus 316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita 352 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS 352 (617)
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence 5799999999999999999888875 4788888875
No 309
>PRK06921 hypothetical protein; Provisional
Probab=94.11 E-value=0.07 Score=61.41 Aligned_cols=37 Identities=32% Similarity=0.640 Sum_probs=33.3
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEec
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSY 996 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~ 996 (1345)
....++.|+||||||+++..++..+..+ |.+|++++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence 3568999999999999999999999988 899998885
No 310
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=94.11 E-value=0.068 Score=56.56 Aligned_cols=36 Identities=31% Similarity=0.364 Sum_probs=32.3
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN 998 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn 998 (1345)
..|.|++||||||++..++..|..+|.+|.++-+.+
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~~ 37 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGYRVATIKHDH 37 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeccc
Confidence 568899999999999999999998899999887654
No 311
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=94.10 E-value=0.15 Score=60.11 Aligned_cols=48 Identities=25% Similarity=0.313 Sum_probs=40.6
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEE--eccHHHHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLT--SYTNSAVDNLLIKL 1008 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt--A~TnsAVDnLl~kL 1008 (1345)
.+.++.|--|.||||+.+..+..+.+.|+++|++ -+.|+-.|.+-..+
T Consensus 3 riv~f~GKGGVGKTT~aaA~A~~lA~~g~kvLlvStDPAhsL~d~f~~el 52 (322)
T COG0003 3 RIVFFTGKGGVGKTTIAAATAVKLAESGKKVLLVSTDPAHSLGDVFDLEL 52 (322)
T ss_pred EEEEEecCCcccHHHHHHHHHHHHHHcCCcEEEEEeCCCCchHhhhcccc
Confidence 4788999999999999999999999999887775 46888888876644
No 312
>COG2887 RecB family exonuclease [DNA replication, recombination, and repair]
Probab=94.09 E-value=0.96 Score=52.29 Aligned_cols=187 Identities=21% Similarity=0.172 Sum_probs=95.9
Q ss_pred cccccccccccCChHHHHHHhcccc------cccchhhhhHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHhcCC
Q 000698 454 SGTRVAASFSCPRRSVLDERLKCSE------RSISALLGTLLHQIFQAGLMKEIPTMKFLEEYARLVLQKNIESLYACGV 527 (1345)
Q Consensus 454 S~T~Va~s~~C~RRaVL~erfk~~~------~s~~ml~GtIvHelfQ~al~~~~~~~~~L~~~~~~~l~~~l~~Ly~~~~ 527 (1345)
|.|.+.....|+........++... .......|+.+|.++...... .....+.... ..+..+...++...+
T Consensus 2 s~s~~~~l~r~p~~~~a~~i~~l~~~~~~~e~~~~~~~g~~~h~~~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~l 78 (269)
T COG2887 2 SVSRAEALRRCPYLFYARRILALPPLGTRAEEPEAAVRGTLLHAILEALVGE--RYHAAAAALA-KLAWLLRKELAEAEL 78 (269)
T ss_pred chhhhhhhccCcHHHHHHHHhccCCCCcccccccccccccHHHHHHHHHhhc--cccccchhHH-HHhhhhhhhhhhhhc
Confidence 6788889999998888876665432 223456799999999998862 2222222211 111222222222222
Q ss_pred C---HHHHHHHHHHHHHHHHH--HHHHhcccCCCCCCccccCCCCccccccchhhhhhhhcccccCCceeeeceEEEEee
Q 000698 528 N---ENDIHKTLVEAIPKMLN--WIILFKDSQDLNTPTVDFGSDGLKKLKISEVTDIEEMAWAPKYGLKGMIDASIRVKI 602 (1345)
Q Consensus 528 ~---~~~~~~~l~~~~p~i~~--w~~~f~~~~~~~~~~~~~~~~~~~~~~Is~vlDIEEnIwSp~~GLKGkID~tv~~~i 602 (1345)
. .+.-...+...-..+.. |-..-. ........+....+..|=.. .-|+|+||-+-..
T Consensus 79 ~~~~~~~~~~r~~~~~~~~~~~~~e~~r~---------------~~~~~~~~e~~~~~~~i~~~-i~l~G~aDRid~~-- 140 (269)
T COG2887 79 PGYTDAEWLDRLRARARAFLVYDWERERG---------------TAFHAWLEEERGAELLIDGG-IRLRGRADRIDKD-- 140 (269)
T ss_pred ccccCchhHHHHHHhHHhhcchhHHHhcc---------------ccceeeeeEeecceeEeccc-ceecceecccccC--
Confidence 1 12222222211111111 222110 00011112222222233222 6689999965211
Q ss_pred ecccccCCCeEEEEEEecCCCC-CCCCChhhHHHHHHHH-HHHHHhhc-CCCCeeEEEEeccCceeee
Q 000698 603 ESKRNEINGMILPLEFKTGKIP-NGQSSMEHRAQVILYT-LLMSERYL-KHIDSGLLYYLQSDQTQGV 667 (1345)
Q Consensus 603 ~~~~~~~~~~i~PlElKTGk~~-~~~~~~~H~~Ql~lY~-LLl~ery~-~~v~~GlL~Y~k~~~~~~V 667 (1345)
..+.+.-+++|||+.+ .......+..|+.+|. .|++-++. .....+-+.|.+.+.....
T Consensus 141 ------~~g~i~ilDYKTG~~p~~a~~~~~~~~ql~~~~~~l~~~~~~~~~p~~l~~v~~~~~~~~~~ 202 (269)
T COG2887 141 ------ADGELEILDYKTGKSPSAARAPAAVSPQLALEALALIEGRFRGVEPGQLRLVYLRKSGRVGE 202 (269)
T ss_pred ------CCCcEEEEEeecCCCCchhcchhhcCcchHHHHHHHHhcCcCccCCCCeEEEEEcCCCccCC
Confidence 2457889999999876 3334567888999999 44455663 3444455477766554433
No 313
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=94.08 E-value=0.13 Score=61.94 Aligned_cols=38 Identities=24% Similarity=0.282 Sum_probs=29.3
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhc
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMR 987 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~ 987 (1345)
.+.+.+++.... -.|+.||+|+||++++..+++.|+-.
T Consensus 28 ~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~ 68 (365)
T PRK07471 28 EAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLAT 68 (365)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCC
Confidence 444555565432 37899999999999999999999753
No 314
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.07 E-value=0.078 Score=66.52 Aligned_cols=54 Identities=31% Similarity=0.381 Sum_probs=45.8
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
...++|.|+||||||+++..++...+.+|.+++++++... .+.+.+++...+++
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~-~~~i~~~~~~~g~~ 326 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES-RAQLIRNARSWGID 326 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC-HHHHHHHHHHcCCC
Confidence 4578999999999999999999998899999999999775 66777777666544
No 315
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=94.06 E-value=0.076 Score=54.33 Aligned_cols=31 Identities=32% Similarity=0.549 Sum_probs=24.3
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
.++.|+||||||+++..+++.+ +.++..+.-
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~---~~~~~~i~~ 32 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL---GRPVIRINC 32 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH---TCEEEEEE-
T ss_pred EEEECCCCCCHHHHHHHHHHHh---hcceEEEEe
Confidence 6899999999999999888887 555544443
No 316
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=94.02 E-value=0.094 Score=64.04 Aligned_cols=61 Identities=25% Similarity=0.369 Sum_probs=51.6
Q ss_pred HHHHHHHHHHh----cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 948 DQRRAIIKVLT----AKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 948 eQ~~AI~~~l~----~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
+|-+||..... ...+..+.|..|||||.|++..|+.+ ++.-||+|++.+.+..|..-+++.
T Consensus 16 DQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~---~rPtLV~AhNKTLAaQLy~Efk~f 80 (663)
T COG0556 16 DQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV---QRPTLVLAHNKTLAAQLYSEFKEF 80 (663)
T ss_pred CcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh---CCCeEEEecchhHHHHHHHHHHHh
Confidence 67788877654 34588999999999999999999886 678999999999999998888764
No 317
>PRK05642 DNA replication initiation factor; Validated
Probab=93.98 E-value=0.16 Score=57.36 Aligned_cols=36 Identities=17% Similarity=0.302 Sum_probs=31.1
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..++|.|++|||||+++..+...+...|.+|++++.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH
Confidence 467899999999999998888888878889988775
No 318
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.97 E-value=0.94 Score=56.37 Aligned_cols=127 Identities=17% Similarity=0.191 Sum_probs=78.3
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHH-HHHHHHHHHh--------cCCeEEEEeccHHHHHHHHHHHhhcCC
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTST-MVHAVKALLM--------RGASILLTSYTNSAVDNLLIKLKSQSI 1013 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTtt-Ia~lI~~Ll~--------~gkkVLvtA~TnsAVDnLl~kL~~~~l 1013 (1345)
...++-|.+.+-.++..+| .+..+--|||||-- +.=.|..|.+ .+.+|||+++|+..+..+..-..+.+-
T Consensus 112 ~~PtpIQaq~wp~~l~GrD-~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~~~ 190 (519)
T KOG0331|consen 112 EKPTPIQAQGWPIALSGRD-LVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFGK 190 (519)
T ss_pred CCCchhhhcccceeccCCc-eEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHHcC
Confidence 3557778888888888654 55668899999963 2223333333 156899999999999988776655421
Q ss_pred cEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc----ccccCCCCCEEEEeCCCCC
Q 000698 1014 DFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN----PLLTDKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1014 ~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~----~ll~~~~FD~VIVDEASQi 1082 (1345)
... ++..|+.. ....-..+++.-..++|+.+|..-+.+ ..+...+..|+++|||-++
T Consensus 191 ~~~-----------~~~~cvyG-G~~~~~Q~~~l~~gvdiviaTPGRl~d~le~g~~~l~~v~ylVLDEADrM 251 (519)
T KOG0331|consen 191 SLR-----------LRSTCVYG-GAPKGPQLRDLERGVDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEADRM 251 (519)
T ss_pred CCC-----------ccEEEEeC-CCCccHHHHHHhcCCcEEEeCChHHHHHHHcCCccccceeEEEeccHHhh
Confidence 100 11112211 122223455555678888888755432 2234468999999999433
No 319
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=93.96 E-value=0.27 Score=47.74 Aligned_cols=71 Identities=27% Similarity=0.313 Sum_probs=54.6
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhhhcccccccHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAMNINSVE 1042 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~ 1042 (1345)
.++.+-.|+||||+..+++..+..+|.+||++--...
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~------------------------------------------- 39 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQ------------------------------------------- 39 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCC-------------------------------------------
Confidence 4556688999999999999999888988888753211
Q ss_pred HHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhhhhcccCeEEEEcCCCC
Q 000698 1043 EIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPLMFASKFVLVGDHYQ 1105 (1345)
Q Consensus 1043 ~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~pL~~a~k~VLVGDh~Q 1105 (1345)
||+||||=...... .....+..+..++++=++.+
T Consensus 40 ----------------------------~d~viiD~p~~~~~-~~~~~l~~ad~viv~~~~~~ 73 (104)
T cd02042 40 ----------------------------YDYIIIDTPPSLGL-LTRNALAAADLVLIPVQPSP 73 (104)
T ss_pred ----------------------------CCEEEEeCcCCCCH-HHHHHHHHCCEEEEeccCCH
Confidence 89999998876544 34466677888888877665
No 320
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=93.93 E-value=0.23 Score=54.21 Aligned_cols=35 Identities=20% Similarity=0.271 Sum_probs=32.7
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..+|.||=.||||+.|..+++.....|.+|++..+
T Consensus 6 l~~i~gpM~SGKT~eLl~r~~~~~~~g~~v~vfkp 40 (201)
T COG1435 6 LEFIYGPMFSGKTEELLRRARRYKEAGMKVLVFKP 40 (201)
T ss_pred EEEEEccCcCcchHHHHHHHHHHHHcCCeEEEEec
Confidence 67899999999999999999999999999999877
No 321
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=93.93 E-value=0.19 Score=59.42 Aligned_cols=127 Identities=17% Similarity=0.167 Sum_probs=69.1
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh-cCCcEEEEc-ccchhhHHHHHhhhcccccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS-QSIDFVRIG-RHEVVHKEIQKHCLSAMNIN 1039 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~-~~l~ilRiG-~~~~v~~~v~~~~l~~~~~~ 1039 (1345)
-.++.||+|+||++++..+++.|+-.+..- + . .-.-+..+.. ...|+..+. .++.-.. .....-
T Consensus 28 A~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~--~-~----~c~~c~~~~~g~HPD~~~i~~~p~~~~~-------k~~~~I 93 (319)
T PRK08769 28 GLLICGPEGLGKRAVALALAEHVLASGPDP--A-A----AQRTRQLIAAGTHPDLQLVSFIPNRTGD-------KLRTEI 93 (319)
T ss_pred eEeeECCCCCCHHHHHHHHHHHHhCCCCCC--C-C----cchHHHHHhcCCCCCEEEEecCCCcccc-------cccccc
Confidence 478999999999999999999887543210 0 0 0111222222 123455442 1211000 000011
Q ss_pred cHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEEEcC-CCCCCccccc
Q 000698 1040 SVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVLVGD-HYQLPPLVQS 1112 (1345)
Q Consensus 1040 s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VLVGD-h~QLPPvV~s 1112 (1345)
.++.+++..+... ..+. ...+.+||||||..+++... |..|-. ...|||+.+ +.+|+|++.|
T Consensus 94 ~idqIR~l~~~~~---------~~p~--~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrS 162 (319)
T PRK08769 94 VIEQVREISQKLA---------LTPQ--YGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRS 162 (319)
T ss_pred cHHHHHHHHHHHh---------hCcc--cCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHh
Confidence 2444444332210 0111 13689999999988887555 333321 356888888 6889999887
Q ss_pred h
Q 000698 1113 T 1113 (1345)
Q Consensus 1113 ~ 1113 (1345)
.
T Consensus 163 R 163 (319)
T PRK08769 163 R 163 (319)
T ss_pred h
Confidence 5
No 322
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=93.91 E-value=0.039 Score=63.73 Aligned_cols=28 Identities=39% Similarity=0.431 Sum_probs=23.7
Q ss_pred hcCCeEEEEccCCCChHHHHHHHHHHHH
Q 000698 958 TAKDYALILGMPGTGKTSTMVHAVKALL 985 (1345)
Q Consensus 958 ~~~d~~LI~GpPGTGKTttIa~lI~~Ll 985 (1345)
.-+...+++||||||||++...++..|-
T Consensus 175 t~NRliLlhGPPGTGKTSLCKaLaQkLS 202 (423)
T KOG0744|consen 175 TWNRLILLHGPPGTGKTSLCKALAQKLS 202 (423)
T ss_pred eeeeEEEEeCCCCCChhHHHHHHHHhhe
Confidence 3357899999999999999988887774
No 323
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=93.88 E-value=0.1 Score=61.69 Aligned_cols=124 Identities=15% Similarity=0.092 Sum_probs=66.3
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh-cCCcEEEEcccchhhHHHHHhhhccccccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS-QSIDFVRIGRHEVVHKEIQKHCLSAMNINS 1040 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~-~~l~ilRiG~~~~v~~~v~~~~l~~~~~~s 1040 (1345)
-.++.||+|+||++++..+++.|+-.+..---.+-.- .-+.++.. ...|+..+.. .....-.
T Consensus 26 A~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C----~sC~~~~~g~HPD~~~i~p-------------~~~~~I~ 88 (325)
T PRK06871 26 ALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQC----HSCHLFQAGNHPDFHILEP-------------IDNKDIG 88 (325)
T ss_pred eEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCC----HHHHHHhcCCCCCEEEEcc-------------ccCCCCC
Confidence 4679999999999999999999875331100000011 11222211 1223332211 0001113
Q ss_pred HHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHHhh---hhcc---cCeEEEEcC-CCCCCccccch
Q 000698 1041 VEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLG---PLMF---ASKFVLVGD-HYQLPPLVQST 1113 (1345)
Q Consensus 1041 ~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~L~---pL~~---a~k~VLVGD-h~QLPPvV~s~ 1113 (1345)
++++++..+... ..+ ....+.++|||+|..++....-. .|-. ..-|||+.+ +.+|+|++.|.
T Consensus 89 id~iR~l~~~~~---------~~~--~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SR 157 (325)
T PRK06871 89 VDQVREINEKVS---------QHA--QQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSR 157 (325)
T ss_pred HHHHHHHHHHHh---------hcc--ccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhh
Confidence 445544332211 001 12368999999998888755532 2221 345788776 56999998875
No 324
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=93.88 E-value=0.25 Score=63.72 Aligned_cols=103 Identities=15% Similarity=0.080 Sum_probs=62.9
Q ss_pred EEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc----CCcEEEEcccchhhHHHHHhhhcccccc
Q 000698 964 LILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ----SIDFVRIGRHEVVHKEIQKHCLSAMNIN 1039 (1345)
Q Consensus 964 LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~----~l~ilRiG~~~~v~~~v~~~~l~~~~~~ 1039 (1345)
+.+...|+|||.+.+-.+..-...|+.|+|+|+|.-.+....+.+... |+.+.-+-.. .
T Consensus 73 Iaem~TGeGKTLva~lpa~l~aL~G~~V~VvTpt~~LA~qdae~~~~l~~~LGLsv~~i~g~-----------------~ 135 (745)
T TIGR00963 73 IAEMKTGEGKTLTATLPAYLNALTGKGVHVVTVNDYLAQRDAEWMGQVYRFLGLSVGLILSG-----------------M 135 (745)
T ss_pred eeeecCCCccHHHHHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHHHHHhccCCCeEEEEeCC-----------------C
Confidence 888999999998765444222235889999999999998887766542 3322211110 0
Q ss_pred cHHHHHHhhccccEEEEEecccccc-----------cccCCCCCEEEEeCCCCCCH
Q 000698 1040 SVEEIKKRLDQVKVVAVTCLGITNP-----------LLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1040 s~~~i~~~l~~~~VV~tT~~~~~~~-----------ll~~~~FD~VIVDEASQite 1084 (1345)
+.++-+..+ .++|+.+|...++-. .+..+.+.++|||||-.+..
T Consensus 136 ~~~~r~~~y-~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LI 190 (745)
T TIGR00963 136 SPEERREAY-ACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILI 190 (745)
T ss_pred CHHHHHHhc-CCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhH
Confidence 111111222 367888887754211 12236799999999955443
No 325
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=93.88 E-value=0.08 Score=62.21 Aligned_cols=43 Identities=21% Similarity=0.371 Sum_probs=34.0
Q ss_pred CHHHHHHHHHHHhcCC--eEEEEccCCCChHHHHHHHHHHHHhcC
Q 000698 946 NDDQRRAIIKVLTAKD--YALILGMPGTGKTSTMVHAVKALLMRG 988 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d--~~LI~GpPGTGKTttIa~lI~~Ll~~g 988 (1345)
+++..+.+..++.... ..++.||||||||+++..+++.+...+
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~ 64 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDP 64 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcc
Confidence 4555666766676655 789999999999999999998887543
No 326
>PRK10865 protein disaggregation chaperone; Provisional
Probab=93.87 E-value=0.19 Score=66.86 Aligned_cols=27 Identities=26% Similarity=0.554 Sum_probs=22.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
+...++.|+||+|||+++..++..+..
T Consensus 199 ~~n~lL~G~pGvGKT~l~~~la~~i~~ 225 (857)
T PRK10865 199 KNNPVLIGEPGVGKTAIVEGLAQRIIN 225 (857)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHhhc
Confidence 347899999999999999888877754
No 327
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=93.86 E-value=0.2 Score=66.65 Aligned_cols=27 Identities=26% Similarity=0.541 Sum_probs=22.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
....++.|+||+|||+++-.++..+..
T Consensus 194 ~~n~lL~G~pGvGKT~l~~~la~~i~~ 220 (852)
T TIGR03346 194 KNNPVLIGEPGVGKTAIVEGLAQRIVN 220 (852)
T ss_pred CCceEEEcCCCCCHHHHHHHHHHHHhc
Confidence 357889999999999999888777754
No 328
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.83 E-value=0.1 Score=63.98 Aligned_cols=49 Identities=24% Similarity=0.366 Sum_probs=40.4
Q ss_pred CCCCHHHHHHHHHHHhc-CCeEEEEccCCCChHHHHHHHHHHHHhcCCeE
Q 000698 943 KSLNDDQRRAIIKVLTA-KDYALILGMPGTGKTSTMVHAVKALLMRGASI 991 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~-~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkV 991 (1345)
..+++.|.+.+.+++.. .+..||.||.|||||||+-.++..+-....+|
T Consensus 240 Lg~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI 289 (500)
T COG2804 240 LGMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTPERNI 289 (500)
T ss_pred hCCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceE
Confidence 35688888888888874 46899999999999999999999887765553
No 329
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=93.83 E-value=0.13 Score=54.71 Aligned_cols=137 Identities=20% Similarity=0.281 Sum_probs=68.4
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhH
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHK 1026 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~ 1026 (1345)
.+.+...+..+. ..++.|++|+||++++..+++.++.....-..|..... ...+.. ....++..+.....
T Consensus 6 ~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~-c~~~~~---~~~~d~~~~~~~~~--- 78 (162)
T PF13177_consen 6 IELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRS-CRRIEE---GNHPDFIIIKPDKK--- 78 (162)
T ss_dssp HHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHH-HHHHHT---T-CTTEEEEETTTS---
T ss_pred HHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHH-HHHHHh---ccCcceEEEecccc---
Confidence 344444455432 46999999999999999999998764322112222221 111111 22345555532211
Q ss_pred HHHHhhhcccccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEEE
Q 000698 1027 EIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVLV 1100 (1345)
Q Consensus 1027 ~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VLV 1100 (1345)
...-..+++++...... ..+. ...+.++|||||..++.... |..|-. ...|||+
T Consensus 79 ---------~~~i~i~~ir~i~~~~~---------~~~~--~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~ 138 (162)
T PF13177_consen 79 ---------KKSIKIDQIREIIEFLS---------LSPS--EGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILI 138 (162)
T ss_dssp ---------SSSBSHHHHHHHHHHCT---------SS-T--TSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEE
T ss_pred ---------cchhhHHHHHHHHHHHH---------HHHh--cCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEE
Confidence 00112344443332210 0111 14689999999988776554 222221 3456665
Q ss_pred c-CCCCCCccccch
Q 000698 1101 G-DHYQLPPLVQST 1113 (1345)
Q Consensus 1101 G-Dh~QLPPvV~s~ 1113 (1345)
- +..+|.|++.|.
T Consensus 139 t~~~~~il~TI~SR 152 (162)
T PF13177_consen 139 TNNPSKILPTIRSR 152 (162)
T ss_dssp ES-GGGS-HHHHTT
T ss_pred ECChHHChHHHHhh
Confidence 4 567788888764
No 330
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=93.80 E-value=0.14 Score=58.23 Aligned_cols=47 Identities=21% Similarity=0.366 Sum_probs=33.0
Q ss_pred HHHHHHHHhcC--C-eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 950 RRAIIKVLTAK--D-YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 950 ~~AI~~~l~~~--d-~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
.+++..++... . ..=|.||||.||+|++-.+++.+.++|++|-|+|-
T Consensus 16 ~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAV 65 (266)
T PF03308_consen 16 RELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAV 65 (266)
T ss_dssp HHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE
T ss_pred HHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEE
Confidence 34444444322 2 34599999999999999999999999999877764
No 331
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.78 E-value=0.17 Score=61.84 Aligned_cols=34 Identities=21% Similarity=0.346 Sum_probs=25.5
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHh-c-CCeEEE
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLM-R-GASILL 993 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~-~-gkkVLv 993 (1345)
.....+.|+.|+|||||++.++..++. . +.+|.+
T Consensus 191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~ 226 (420)
T PRK14721 191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVAL 226 (420)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEE
Confidence 357899999999999999988876543 2 345443
No 332
>PHA00350 putative assembly protein
Probab=93.78 E-value=0.13 Score=62.13 Aligned_cols=57 Identities=21% Similarity=0.282 Sum_probs=34.6
Q ss_pred eEEEEccCCCChHHHHHH-HHHHHHhcCCeEEEEeccHHHHHHHHHHHhh--cCCcEEEEc
Q 000698 962 YALILGMPGTGKTSTMVH-AVKALLMRGASILLTSYTNSAVDNLLIKLKS--QSIDFVRIG 1019 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~-lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~--~~l~ilRiG 1019 (1345)
+.+|+|.||||||.-++. .|...++.|.+| +|=...--.+.|..++.+ ..-+++|+.
T Consensus 3 I~l~tG~pGSGKT~~aV~~~i~palk~GR~V-~TNI~Gl~le~i~~~~~~~p~~~~li~i~ 62 (399)
T PHA00350 3 IYAIVGRPGSYKSYEAVVYHIIPALKDGRKV-ITNIPGLNLDVFEKVFGEFPSTARLIRIV 62 (399)
T ss_pred eEEEecCCCCchhHHHHHHHHHHHHHCCCEE-EECCCCCCHHHHHhhcccCcccceeEEec
Confidence 678999999999999886 566667778644 443222333444444432 112355554
No 333
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=93.78 E-value=0.19 Score=66.23 Aligned_cols=36 Identities=25% Similarity=0.278 Sum_probs=26.8
Q ss_pred HHHHHHHhcC--Ce-EEEEccCCCChHHHHHHHHHHHHh
Q 000698 951 RAIIKVLTAK--DY-ALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 951 ~AI~~~l~~~--d~-~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
+.+.+.+..+ .+ +|+.|++|+||||++..+++.|.-
T Consensus 25 ~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 25 EPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred HHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence 3444555443 23 689999999999999999988853
No 334
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=93.73 E-value=0.42 Score=60.59 Aligned_cols=123 Identities=18% Similarity=0.169 Sum_probs=74.2
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEeccHHHHHHHHHHHhhcC-----CcEEEEcccchhhHHHHHhh
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLM--RGASILLTSYTNSAVDNLLIKLKSQS-----IDFVRIGRHEVVHKEIQKHC 1032 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~TnsAVDnLl~kL~~~~-----l~ilRiG~~~~v~~~v~~~~ 1032 (1345)
+.++++.-|=-.|||++++-+|..++. .|.+|+++|+...+++.+.+++...- -+.++.-.
T Consensus 254 qk~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~vk------------ 321 (738)
T PHA03368 254 QRATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHVK------------ 321 (738)
T ss_pred ccceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeeec------------
Confidence 468999999999999999877766663 59999999999999988888776421 01111100
Q ss_pred hcccccccHHHHHHhhcc--ccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH--hhhhcc--cCeEEEEcCC
Q 000698 1033 LSAMNINSVEEIKKRLDQ--VKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS--LGPLMF--ASKFVLVGDH 1103 (1345)
Q Consensus 1033 l~~~~~~s~~~i~~~l~~--~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~--L~pL~~--a~k~VLVGDh 1103 (1345)
...+ . ...-+. ..+...+| .+..-.+...||.+|||||+-+..... +.|+.. ..++|++.=+
T Consensus 322 --Ge~I-~----i~f~nG~kstI~FaSa--rntNsiRGqtfDLLIVDEAqFIk~~al~~ilp~l~~~n~k~I~ISS~ 389 (738)
T PHA03368 322 --GETI-S----FSFPDGSRSTIVFASS--HNTNGIRGQDFNLLFVDEANFIRPDAVQTIMGFLNQTNCKIIFVSST 389 (738)
T ss_pred --CcEE-E----EEecCCCccEEEEEec--cCCCCccCCcccEEEEechhhCCHHHHHHHHHHHhccCccEEEEecC
Confidence 0000 0 000011 13333333 222234556899999999987776443 345443 3556666443
No 335
>PRK13768 GTPase; Provisional
Probab=93.73 E-value=0.073 Score=60.81 Aligned_cols=35 Identities=23% Similarity=0.345 Sum_probs=31.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..+|.|++|+||||++..++..+...|++|+++..
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~~ 38 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVNL 38 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCCceEEEEC
Confidence 57899999999999999999999999999999754
No 336
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=93.71 E-value=0.069 Score=56.51 Aligned_cols=30 Identities=30% Similarity=0.530 Sum_probs=26.2
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeE
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASI 991 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkV 991 (1345)
-..|.|+||+||||++..++..|...|.+|
T Consensus 7 ki~ITG~PGvGKtTl~~ki~e~L~~~g~kv 36 (179)
T COG1618 7 KIFITGRPGVGKTTLVLKIAEKLREKGYKV 36 (179)
T ss_pred EEEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence 467999999999999999999998877665
No 337
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=93.71 E-value=0.081 Score=58.07 Aligned_cols=36 Identities=22% Similarity=0.340 Sum_probs=28.2
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~ 996 (1345)
+..+|.||+||||||++..++..+... +.+|+..-.
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~ 38 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIED 38 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcC
Confidence 678999999999999999988887654 445555433
No 338
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.69 E-value=0.52 Score=63.42 Aligned_cols=148 Identities=14% Similarity=0.150 Sum_probs=88.4
Q ss_pred CCCCHHHHHHHHHHHh---cCCeEEEEccCCCChHHHHHHHHHHHHhc---CCeEEEEeccHHHHHHHHHHHhhc--CCc
Q 000698 943 KSLNDDQRRAIIKVLT---AKDYALILGMPGTGKTSTMVHAVKALLMR---GASILLTSYTNSAVDNLLIKLKSQ--SID 1014 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~---~~d~~LI~GpPGTGKTttIa~lI~~Ll~~---gkkVLvtA~TnsAVDnLl~kL~~~--~l~ 1014 (1345)
..|=+.|.+++...+. ...-.++-=-.|.|||..+..++..|... ...+||++|... +.+=..-+.+. .+.
T Consensus 168 ~~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~Sl-L~nW~~Ei~kw~p~l~ 246 (1033)
T PLN03142 168 GKMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKST-LGNWMNEIRRFCPVLR 246 (1033)
T ss_pred cchHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHH-HHHHHHHHHHHCCCCc
Confidence 4688899999987754 22234555569999999988888887652 347999999655 44444434332 122
Q ss_pred EEEE-cccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc--ccccCCCCCEEEEeCCCCCCHHHH----
Q 000698 1015 FVRI-GRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN--PLLTDKKFDVCIMDEAGQTTLPVS---- 1087 (1345)
Q Consensus 1015 ilRi-G~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~--~ll~~~~FD~VIVDEASQitep~~---- 1087 (1345)
++.. |.... ........+ ......|+.+|...+.. ..+....|++||||||+.+-.+..
T Consensus 247 v~~~~G~~~e-R~~~~~~~~-------------~~~~~dVvITSYe~l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklsk 312 (1033)
T PLN03142 247 AVKFHGNPEE-RAHQREELL-------------VAGKFDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSK 312 (1033)
T ss_pred eEEEeCCHHH-HHHHHHHHh-------------cccCCCcceecHHHHHHHHHHhccCCCCEEEEcCccccCCHHHHHHH
Confidence 2222 21110 000000000 01234566666554432 345567899999999998866543
Q ss_pred -hhhhcccCeEEEEcCCCC
Q 000698 1088 -LGPLMFASKFVLVGDHYQ 1105 (1345)
Q Consensus 1088 -L~pL~~a~k~VLVGDh~Q 1105 (1345)
+..+....+++|-|=|-|
T Consensus 313 alr~L~a~~RLLLTGTPlq 331 (1033)
T PLN03142 313 TMRLFSTNYRLLITGTPLQ 331 (1033)
T ss_pred HHHHhhcCcEEEEecCCCC
Confidence 333444567999999988
No 339
>PF12846 AAA_10: AAA-like domain
Probab=93.66 E-value=0.079 Score=60.60 Aligned_cols=55 Identities=24% Similarity=0.393 Sum_probs=43.2
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcCCcEEEEc
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIG 1019 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG 1019 (1345)
.+++|.|++|+|||+++..++..++..|..|++.=+...-.+ +.. ..+..++.++
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~~~-~~~---~~~~~~i~~~ 56 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDYSP-LAR---ALGGQYIDID 56 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchHHH-HHH---hcCceEEEee
Confidence 588999999999999999999999999999999977755554 222 2455555544
No 340
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=93.57 E-value=0.13 Score=59.06 Aligned_cols=37 Identities=24% Similarity=0.329 Sum_probs=27.4
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
+......++.|+||||||+++..+.+.+ |..+..+..
T Consensus 18 l~~g~~vLL~G~~GtGKT~lA~~la~~l---g~~~~~i~~ 54 (262)
T TIGR02640 18 LKSGYPVHLRGPAGTGKTTLAMHVARKR---DRPVMLING 54 (262)
T ss_pred HhcCCeEEEEcCCCCCHHHHHHHHHHHh---CCCEEEEeC
Confidence 4456688999999999999998887644 555554443
No 341
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=93.49 E-value=0.064 Score=60.75 Aligned_cols=31 Identities=23% Similarity=0.376 Sum_probs=24.2
Q ss_pred EEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 965 ILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 965 I~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
|.|||||||||....+...+...|.++.++=
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vN 31 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVN 31 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccCCceEEE
Confidence 6899999999999999999988887766553
No 342
>CHL00195 ycf46 Ycf46; Provisional
Probab=93.48 E-value=0.26 Score=61.40 Aligned_cols=24 Identities=29% Similarity=0.400 Sum_probs=19.9
Q ss_pred CeEEEEccCCCChHHHHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.-.|+.||||||||.++..++..+
T Consensus 260 kGILL~GPpGTGKTllAkaiA~e~ 283 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTAKAIANDW 283 (489)
T ss_pred ceEEEECCCCCcHHHHHHHHHHHh
Confidence 458999999999998887776664
No 343
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=93.47 E-value=0.18 Score=59.31 Aligned_cols=38 Identities=18% Similarity=0.236 Sum_probs=27.9
Q ss_pred HHHHHHHHHhcC---CeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 949 QRRAIIKVLTAK---DYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 949 Q~~AI~~~l~~~---d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
..+.+...+..+ ..+++.||+|+|||+++..+++.|..
T Consensus 12 ~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c 52 (313)
T PRK05564 12 IKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILG 52 (313)
T ss_pred HHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcC
Confidence 344455555443 25689999999999999999988754
No 344
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=93.47 E-value=0.096 Score=61.28 Aligned_cols=36 Identities=25% Similarity=0.343 Sum_probs=32.3
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
....|.|+||+||||++..++..+...|.+|.+++.
T Consensus 35 ~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~~ 70 (300)
T TIGR00750 35 HRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIAV 70 (300)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEec
Confidence 477888999999999999999999999999988764
No 345
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=93.43 E-value=0.055 Score=55.27 Aligned_cols=23 Identities=30% Similarity=0.557 Sum_probs=19.4
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
+.++.|+|||||||++..+.+.+
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~ 23 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRL 23 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHS
T ss_pred CEEEECCCCCCHHHHHHHHHHHC
Confidence 36899999999999988887664
No 346
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=93.41 E-value=0.12 Score=61.00 Aligned_cols=44 Identities=18% Similarity=0.194 Sum_probs=37.5
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHH
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDN 1003 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDn 1003 (1345)
...++|.|+|||||||++.+++....+.|.+++++..-+..-..
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~ 98 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV 98 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHH
Confidence 34889999999999999999999998899999988876655444
No 347
>PRK06851 hypothetical protein; Provisional
Probab=93.39 E-value=0.092 Score=62.92 Aligned_cols=34 Identities=32% Similarity=0.492 Sum_probs=30.8
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEE
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGASILL 993 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLv 993 (1345)
+..++|.|+|||||||++..++..+.++|..|.+
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~ 247 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEV 247 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEE
Confidence 4579999999999999999999999999988765
No 348
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=93.37 E-value=0.12 Score=64.13 Aligned_cols=23 Identities=39% Similarity=0.444 Sum_probs=18.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
=+|+|||||+|||.++-.++..|
T Consensus 225 GvLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 225 GVLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred ceeeeCCCCccHHHHHHHHhhhc
Confidence 47999999999998876665543
No 349
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=93.36 E-value=0.081 Score=58.44 Aligned_cols=38 Identities=29% Similarity=0.412 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHH
Q 000698 947 DDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 947 ~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
+.-++|++-+.......++.|+||||||+++..+...|
T Consensus 9 e~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~lL 46 (206)
T PF01078_consen 9 EEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPSLL 46 (206)
T ss_dssp HHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHHhC
Confidence 34578888888877899999999999998776655443
No 350
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=93.32 E-value=0.07 Score=61.01 Aligned_cols=27 Identities=30% Similarity=0.230 Sum_probs=22.8
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhc
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMR 987 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~ 987 (1345)
...++.|||||||||++..+.+.+...
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~~ 69 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKEM 69 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence 368899999999999998888877543
No 351
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=93.31 E-value=0.19 Score=65.74 Aligned_cols=103 Identities=15% Similarity=0.093 Sum_probs=62.8
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc----CCcEEEEcccchhhHHHHHhhhccccc
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ----SIDFVRIGRHEVVHKEIQKHCLSAMNI 1038 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~----~l~ilRiG~~~~v~~~v~~~~l~~~~~ 1038 (1345)
-+...+.|+|||.+.+--+..-...|+.|+|+|+|.-.+....+.+... |+.+--+...
T Consensus 98 ~Iaem~TGeGKTL~a~Lpa~~~al~G~~V~VvTpn~yLA~qd~e~m~~l~~~lGLtv~~i~gg----------------- 160 (896)
T PRK13104 98 NIAEMRTGEGKTLVATLPAYLNAISGRGVHIVTVNDYLAKRDSQWMKPIYEFLGLTVGVIYPD----------------- 160 (896)
T ss_pred ccccccCCCCchHHHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEeCC-----------------
Confidence 3577899999999876544433446889999999999888887766542 3322211110
Q ss_pred ccHHHHHHhhccccEEEEEeccccccccc-----------CCCCCEEEEeCCCCCC
Q 000698 1039 NSVEEIKKRLDQVKVVAVTCLGITNPLLT-----------DKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1039 ~s~~~i~~~l~~~~VV~tT~~~~~~~ll~-----------~~~FD~VIVDEASQit 1083 (1345)
....+-+..+ .++|+.+|..-++-.++. .+.+.++|||||-.+.
T Consensus 161 ~~~~~r~~~y-~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiL 215 (896)
T PRK13104 161 MSHKEKQEAY-KADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSIL 215 (896)
T ss_pred CCHHHHHHHh-CCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhh
Confidence 0111111222 467888887665211111 1588999999994443
No 352
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=93.29 E-value=0.64 Score=62.61 Aligned_cols=127 Identities=22% Similarity=0.200 Sum_probs=85.6
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhc--CCeEEEEeccHHHHHHHHHHHhhcCCcEEEEcccchhhHHHHHhhhcccccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMR--GASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAMNIN 1039 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLvtA~TnsAVDnLl~kL~~~~l~ilRiG~~~~v~~~v~~~~l~~~~~~ 1039 (1345)
--+|+--.|||||-|+..++..|+.. ..+|++++--+..-+.+..-+...+. .+.......
T Consensus 275 ~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~-----------------~~~~~~~~~ 337 (962)
T COG0610 275 GGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGK-----------------VAFNDPKAE 337 (962)
T ss_pred ceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHHHHH-----------------hhhhccccc
Confidence 48999999999999999999998886 45899999988888887766544321 011101345
Q ss_pred cHHHHHHhhccc--cEEEEEeccccccccc------CCCCCEEEEeCCCCCCHHHH--h--hhhcccCeEEEEcCCCC
Q 000698 1040 SVEEIKKRLDQV--KVVAVTCLGITNPLLT------DKKFDVCIMDEAGQTTLPVS--L--GPLMFASKFVLVGDHYQ 1105 (1345)
Q Consensus 1040 s~~~i~~~l~~~--~VV~tT~~~~~~~ll~------~~~FD~VIVDEASQitep~~--L--~pL~~a~k~VLVGDh~Q 1105 (1345)
+..++++.+.+. .||.||...+...... .++==+||+|||...-.... . ..+..+.-|=+-|.|-+
T Consensus 338 s~~~Lk~~l~~~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRSQ~G~~~~~~~~~~~~a~~~gFTGTPi~ 415 (962)
T COG0610 338 STSELKELLEDGKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRSQYGELAKLLKKALKKAIFIGFTGTPIF 415 (962)
T ss_pred CHHHHHHHHhcCCCcEEEEEecccchhhhcccccccCCCcEEEEEechhhccccHHHHHHHHHhccceEEEeeCCccc
Confidence 667777777644 8999999887644322 33445899999965543332 2 22233555667777766
No 353
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=93.26 E-value=0.13 Score=46.79 Aligned_cols=30 Identities=27% Similarity=0.443 Sum_probs=23.5
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
..|.|+|||||||++..+...| .+.++.++
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l--~~~~~~~i 31 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL--GGRSVVVL 31 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh--cCCCEEEE
Confidence 4688999999999999988887 44454444
No 354
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.19 E-value=0.25 Score=63.14 Aligned_cols=36 Identities=28% Similarity=0.261 Sum_probs=26.7
Q ss_pred HHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHH
Q 000698 950 RRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALL 985 (1345)
Q Consensus 950 ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll 985 (1345)
.+.+...+.... .+|+.||||+||||++..+++.|.
T Consensus 25 ~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 25 VQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred HHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence 344555555432 358999999999999999988875
No 355
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=93.15 E-value=0.085 Score=56.62 Aligned_cols=28 Identities=32% Similarity=0.595 Sum_probs=22.9
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCe
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGAS 990 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkk 990 (1345)
.+|.|+||+||||++..++..|...|.+
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~~~~ 29 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKKGLP 29 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHTCGG
T ss_pred EEEECcCCCCHHHHHHHHHHHhhccCCc
Confidence 6899999999999999999998665433
No 356
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=93.11 E-value=0.14 Score=58.40 Aligned_cols=49 Identities=24% Similarity=0.330 Sum_probs=38.4
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHh
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
.++++|-|.||.|||+++.+++..+... |.+|++.+.=...- ++..|+.
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~~-~l~~R~l 68 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSEE-ELAARLL 68 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-HH-HHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCHH-HHHHHHH
Confidence 4589999999999999999999998887 69999999854433 3455543
No 357
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=93.10 E-value=0.12 Score=61.33 Aligned_cols=35 Identities=23% Similarity=0.348 Sum_probs=31.7
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..-|.|+||+||||++..++..+...|.+|.+++-
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~ 92 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAV 92 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe
Confidence 56799999999999999999999988999888775
No 358
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=93.09 E-value=0.19 Score=54.48 Aligned_cols=35 Identities=17% Similarity=0.321 Sum_probs=31.6
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..+|.||=+||||+-+...+..+...|++|++.-+
T Consensus 3 l~~i~GpM~sGKS~eLi~~~~~~~~~~~~v~~~kp 37 (176)
T PF00265_consen 3 LEFITGPMFSGKSTELIRRIHRYEIAGKKVLVFKP 37 (176)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEEE
T ss_pred EEEEECCcCChhHHHHHHHHHHHHhCCCeEEEEEe
Confidence 57899999999999999999999999999999877
No 359
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=93.07 E-value=0.13 Score=53.89 Aligned_cols=35 Identities=29% Similarity=0.475 Sum_probs=31.0
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEecc
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYT 997 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~T 997 (1345)
..+.|++|+||||++..+...+...|.+|+++..-
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~D 36 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGKRVAVLAID 36 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeC
Confidence 46789999999999999999999999999887753
No 360
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=92.98 E-value=0.087 Score=52.39 Aligned_cols=22 Identities=36% Similarity=0.549 Sum_probs=20.0
Q ss_pred EEEEccCCCChHHHHHHHHHHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.+|.|+|||||||++.++.+.+
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 3689999999999999998887
No 361
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=92.96 E-value=0.23 Score=68.77 Aligned_cols=45 Identities=22% Similarity=0.288 Sum_probs=35.4
Q ss_pred EEccCCCChHHHHHH-HHHHHHhc------------CCeEEEEeccHHHHHHHHHHHh
Q 000698 965 ILGMPGTGKTSTMVH-AVKALLMR------------GASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 965 I~GpPGTGKTttIa~-lI~~Ll~~------------gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
|.+|.|||||....- ++..+... +.++|+++++...+..+...|.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~ 58 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQ 58 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHH
Confidence 568999999988754 66666542 4589999999999988887764
No 362
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=92.92 E-value=0.39 Score=65.88 Aligned_cols=69 Identities=20% Similarity=0.208 Sum_probs=48.9
Q ss_pred CCceeeeceEEEEeeecccccCCCeEEEEEEecCCCCCCCC---------ChhhHHHHHHHHHHHHHhhcCCCCeeEEEE
Q 000698 588 YGLKGMIDASIRVKIESKRNEINGMILPLEFKTGKIPNGQS---------SMEHRAQVILYTLLMSERYLKHIDSGLLYY 658 (1345)
Q Consensus 588 ~GLKGkID~tv~~~i~~~~~~~~~~i~PlElKTGk~~~~~~---------~~~H~~Ql~lY~LLl~ery~~~v~~GlL~Y 658 (1345)
+-++|+||++++- .+.++-|++||.+...... ...|..|+.+|+..+...|...+..-.+++
T Consensus 1059 ~~~~G~IDl~f~~---------~~~~yivDYKTn~l~~~~~~y~~~~~~~~~~Y~~Q~~lY~~al~~~l~~r~~~~~~~~ 1129 (1139)
T COG1074 1059 GLLQGIIDLLFRH---------EGRYYILDYKTNRLGDDSAAYSPAEAMLKQRYDLQLQLYAEALHRILRKRVKDYALAR 1129 (1139)
T ss_pred ceeEEEEEEEEEE---------CCEEEEEEccCCCCCCchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhcccccchhhhh
Confidence 4489999999866 5699999999976532110 123678999999999999987776644444
Q ss_pred eccCcee
Q 000698 659 LQSDQTQ 665 (1345)
Q Consensus 659 ~k~~~~~ 665 (1345)
...|..+
T Consensus 1130 ~~gg~~~ 1136 (1139)
T COG1074 1130 HFGGVLY 1136 (1139)
T ss_pred hcCCeEE
Confidence 4444443
No 363
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=92.84 E-value=0.15 Score=61.58 Aligned_cols=28 Identities=39% Similarity=0.466 Sum_probs=24.6
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcC
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRG 988 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~g 988 (1345)
...+|.|+||||||+++..+++.+...+
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 4689999999999999999999887654
No 364
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=92.84 E-value=0.23 Score=61.00 Aligned_cols=53 Identities=23% Similarity=0.380 Sum_probs=40.9
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHHhh
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLM-RGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~-~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+...+..+|-|.||+|||+++.+++..+.. .|.+|++.+.=... +.+..|+..
T Consensus 192 ~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~-~~i~~R~~~ 245 (434)
T TIGR00665 192 LQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSA-EQLAMRMLS 245 (434)
T ss_pred CCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCH-HHHHHHHHH
Confidence 344568999999999999999999988765 68999999986544 345555543
No 365
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=92.83 E-value=0.32 Score=64.47 Aligned_cols=122 Identities=20% Similarity=0.196 Sum_probs=79.6
Q ss_pred CCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHhcC-CeEEEEeccHHHHHHHHHHHhhcCC--c-EEEE
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLMRG-ASILLTSYTNSAVDNLLIKLKSQSI--D-FVRI 1018 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~~g-kkVLvtA~TnsAVDnLl~kL~~~~l--~-ilRi 1018 (1345)
.|=.-|.+|++.+... ..++|.-+.|||||-.-. -++..+++.+ .+-|++-|||..+..=++||.+..- . -++.
T Consensus 70 ~lY~HQ~~A~~~~~~G-~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~ 148 (851)
T COG1205 70 RLYSHQVDALRLIREG-RNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPGKVTF 148 (851)
T ss_pred cccHHHHHHHHHHHCC-CCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCCCccee
Confidence 4778999999887774 689999999999998644 5556666654 3689999999999999999876411 1 1111
Q ss_pred cccchhhHHHHHhhhcccccccHHHHHHhh-ccccEEEEEeccccccccc--------CCCCCEEEEeCCC
Q 000698 1019 GRHEVVHKEIQKHCLSAMNINSVEEIKKRL-DQVKVVAVTCLGITNPLLT--------DKKFDVCIMDEAG 1080 (1345)
Q Consensus 1019 G~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~~~~VV~tT~~~~~~~ll~--------~~~FD~VIVDEAS 1080 (1345)
+.. ... ..-++-+..+ +..+|++|+..++...++. .....+|+|||+.
T Consensus 149 ~~y------------~Gd--t~~~~r~~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElH 205 (851)
T COG1205 149 GRY------------TGD--TPPEERRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELH 205 (851)
T ss_pred eee------------cCC--CChHHHHHHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecce
Confidence 110 000 0111111333 4567888777665443332 2458999999994
No 366
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=92.82 E-value=0.25 Score=59.56 Aligned_cols=58 Identities=26% Similarity=0.339 Sum_probs=44.8
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHH-----HHHHHHhhcCCcEEEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVD-----NLLIKLKSQSIDFVRI 1018 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVD-----nLl~kL~~~~l~ilRi 1018 (1345)
...-|.|++||||||++..++..|..+|.+|.++-+++...| .=..|+.+.|...+-+
T Consensus 206 ~~~~~~g~~~~GKtt~~~~l~~~l~~~g~~v~~iKh~~h~~~~d~~g~Ds~r~~~aGa~~v~~ 268 (366)
T PRK14489 206 PLLGVVGYSGTGKTTLLEKLIPELIARGYRIGLIKHSHHRVDIDKPGKDSHRLRAAGANPTMI 268 (366)
T ss_pred cEEEEecCCCCCHHHHHHHHHHHHHHcCCEEEEEEECCcccCCCCCCChhHHHHhCCCceEEE
Confidence 478899999999999999999999999999999998887653 1134455555544444
No 367
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=92.77 E-value=0.14 Score=55.28 Aligned_cols=39 Identities=31% Similarity=0.313 Sum_probs=33.8
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNS 999 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tns 999 (1345)
....|.|++||||||++..++..|...|.+|-++-+.+.
T Consensus 7 ~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~~ 45 (173)
T PRK10751 7 PLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHH 45 (173)
T ss_pred eEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEEcCC
Confidence 467899999999999999999999888988887777554
No 368
>PRK00889 adenylylsulfate kinase; Provisional
Probab=92.69 E-value=0.15 Score=54.37 Aligned_cols=34 Identities=21% Similarity=0.252 Sum_probs=29.3
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
....|.|+|||||||++..+...+...|.++.++
T Consensus 5 ~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 5 VTVWFTGLSGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 3678999999999999999999998777777665
No 369
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.67 E-value=0.16 Score=63.65 Aligned_cols=54 Identities=19% Similarity=0.284 Sum_probs=43.3
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMR-GASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
....+|.|+||||||++..+++...+.+ |.++|+++... ..+.+.+++...+.+
T Consensus 31 Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee-~~~~i~~~~~~~g~d 85 (509)
T PRK09302 31 GRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE-SPEDIIRNVASFGWD 85 (509)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC-CHHHHHHHHHHcCCC
Confidence 4578999999999999999998877777 99999998866 455666666665543
No 370
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.66 E-value=0.16 Score=58.68 Aligned_cols=31 Identities=19% Similarity=0.391 Sum_probs=26.6
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHhc
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLMR 987 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~ 987 (1345)
-..++..||.||.|||||||++.+|.++=+.
T Consensus 122 ~~~~GLILVTGpTGSGKSTTlAamId~iN~~ 152 (353)
T COG2805 122 ESPRGLILVTGPTGSGKSTTLAAMIDYINKH 152 (353)
T ss_pred hCCCceEEEeCCCCCcHHHHHHHHHHHHhcc
Confidence 3456799999999999999999999987553
No 371
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=92.65 E-value=0.23 Score=60.88 Aligned_cols=126 Identities=24% Similarity=0.254 Sum_probs=86.5
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHH-HHHHHHHHHhc------CCeEEEEeccHHHHHHHHHHHhhcCCc
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTST-MVHAVKALLMR------GASILLTSYTNSAVDNLLIKLKSQSID 1014 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTtt-Ia~lI~~Ll~~------gkkVLvtA~TnsAVDnLl~kL~~~~l~ 1014 (1345)
.-.+++-|+.+|-.+|...| .+=-+-.|||||-. ++-.+..|.+. |--.||+++|+..+-.+.+-|.+.|
T Consensus 89 fv~~teiQ~~~Ip~aL~G~D-vlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvg-- 165 (758)
T KOG0343|consen 89 FVKMTEIQRDTIPMALQGHD-VLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVG-- 165 (758)
T ss_pred CccHHHHHHhhcchhccCcc-cccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHh--
Confidence 34679999999999888654 23345679999963 45677777775 4579999999999998888776543
Q ss_pred EEEEcccchhhHHHHHhhhccc---ccccHHHHHHhhccccEEEEEecccc-----cccccCCCCCEEEEeCCCCCCH
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAM---NINSVEEIKKRLDQVKVVAVTCLGIT-----NPLLTDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1015 ilRiG~~~~v~~~v~~~~l~~~---~~~s~~~i~~~l~~~~VV~tT~~~~~-----~~ll~~~~FD~VIVDEASQite 1084 (1345)
..+ .+++. ....+..-+..+++..|+.||..-+. .+.|......++|+|||-.+..
T Consensus 166 -----k~h---------~fSaGLiiGG~~~k~E~eRi~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDEADR~LD 229 (758)
T KOG0343|consen 166 -----KHH---------DFSAGLIIGGKDVKFELERISQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLD 229 (758)
T ss_pred -----hcc---------ccccceeecCchhHHHHHhhhcCCeEEechHHHHHHhhhcCCCCCCcceEEEeccHHHHHH
Confidence 111 11111 11234444567888899999886542 3456667888999999966543
No 372
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=92.57 E-value=0.39 Score=55.91 Aligned_cols=72 Identities=13% Similarity=0.195 Sum_probs=43.4
Q ss_pred CHHHHHHHHHHHhcCC--eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH-HHHHHHHHHHhhcCCcEEEEcc
Q 000698 946 NDDQRRAIIKVLTAKD--YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN-SAVDNLLIKLKSQSIDFVRIGR 1020 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d--~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn-sAVDnLl~kL~~~~l~ilRiG~ 1020 (1345)
|+...+..+..+...+ ..-|.|+||+||||++..++..|.... ++.++.--- +..| .+++...+++.+.+.+
T Consensus 88 n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~-~~~VI~gD~~t~~D--a~rI~~~g~pvvqi~t 162 (290)
T PRK10463 88 NNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDSV-PCAVIEGDQQTVND--AARIRATGTPAIQVNT 162 (290)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccCC-CEEEECCCcCcHHH--HHHHHhcCCcEEEecC
Confidence 3333444444455444 456899999999999999999986543 444443211 1113 3456666776666543
No 373
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=92.49 E-value=0.22 Score=60.05 Aligned_cols=37 Identities=24% Similarity=0.285 Sum_probs=29.5
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHhc--CCeEEE
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLMR--GASILL 993 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~--gkkVLv 993 (1345)
....+..+|.||+||||||++..++..+... +.+|+.
T Consensus 146 ~~~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 146 LPAAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred HhcCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 4456789999999999999999999988753 345544
No 374
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=92.48 E-value=0.28 Score=60.15 Aligned_cols=52 Identities=23% Similarity=0.308 Sum_probs=41.5
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHH-hcCCeEEEEeccHHHHHHHHHHHh
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALL-MRGASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll-~~gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
+...+.++|-|.||+|||+++..++..+. ..|.+|++.+.=. ..+.+..|+.
T Consensus 191 ~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-~~~~l~~Rl~ 243 (421)
T TIGR03600 191 LVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEM-SAEQLGERLL 243 (421)
T ss_pred CCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCC-CHHHHHHHHH
Confidence 44467899999999999999999998775 6799999998654 5556666654
No 375
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=92.47 E-value=0.22 Score=61.27 Aligned_cols=130 Identities=16% Similarity=0.163 Sum_probs=90.2
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHhcCCeEEEEec----cHHHHHHHHHHHhhcCCcE-
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLMRGASILLTSY----TNSAVDNLLIKLKSQSIDF- 1015 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~~gkkVLvtA~----TnsAVDnLl~kL~~~~l~i- 1015 (1345)
...|-+-|--||+.-|-..+..+|..+.+||||-+.- .=|..++..|+|.|.+.+ -|.--+.+.+|....++..
T Consensus 214 ~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVALANQKy~dF~~rYs~Lglkva 293 (830)
T COG1202 214 IEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKYEDFKERYSKLGLKVA 293 (830)
T ss_pred cceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCCCeEEEEehhHHhhcchHHHHHHHhhcccceEE
Confidence 3578899999999998888899999999999996542 335667778999888776 5555677888888888876
Q ss_pred EEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccccccc---cCCCCCEEEEeCCCCCCH
Q 000698 1016 VRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLL---TDKKFDVCIMDEAGQTTL 1084 (1345)
Q Consensus 1016 lRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll---~~~~FD~VIVDEASQite 1084 (1345)
+|+|.. ++.. .. .. .....-.+++||..|.-|+.+-+- .-.....|+|||......
T Consensus 294 irVG~s-rIk~----~~-------~p-v~~~t~~dADIIVGTYEGiD~lLRtg~~lgdiGtVVIDEiHtL~d 352 (830)
T COG1202 294 IRVGMS-RIKT----RE-------EP-VVVDTSPDADIIVGTYEGIDYLLRTGKDLGDIGTVVIDEIHTLED 352 (830)
T ss_pred EEechh-hhcc----cC-------Cc-cccCCCCCCcEEEeechhHHHHHHcCCcccccceEEeeeeeeccc
Confidence 888842 1100 00 00 000112357899999988754331 125788999999987764
No 376
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=92.47 E-value=0.14 Score=55.02 Aligned_cols=46 Identities=13% Similarity=0.191 Sum_probs=36.9
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
..+|.|+||||||+....++.. .+.++++++-....-+++.+|+..
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHH
Confidence 3689999999999999888765 677898888877666677777654
No 377
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.45 E-value=0.18 Score=59.71 Aligned_cols=40 Identities=28% Similarity=0.304 Sum_probs=32.3
Q ss_pred CHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHH
Q 000698 946 NDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALL 985 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll 985 (1345)
.++...++..++...+..++.|+||+|||+++..+++.+-
T Consensus 29 ~~~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l~ 68 (329)
T COG0714 29 DEEVIELALLALLAGGHVLLEGPPGVGKTLLARALARALG 68 (329)
T ss_pred cHHHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHhC
Confidence 3445566666777789999999999999999988888774
No 378
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=92.42 E-value=0.15 Score=57.90 Aligned_cols=32 Identities=22% Similarity=0.488 Sum_probs=28.0
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
.++.|+|||||||.+..+.+.+-..|.++.++
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i 33 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIIL 33 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEE
Confidence 57899999999999999999987777777666
No 379
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=92.38 E-value=0.11 Score=56.94 Aligned_cols=32 Identities=25% Similarity=0.358 Sum_probs=27.3
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEE
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILL 993 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLv 993 (1345)
..++.|+|||||||...++++.|-.++.++..
T Consensus 3 LiIlTGyPgsGKTtfakeLak~L~~~i~~vi~ 34 (261)
T COG4088 3 LIILTGYPGSGKTTFAKELAKELRQEIWRVIH 34 (261)
T ss_pred eEEEecCCCCCchHHHHHHHHHHHHhhhhccc
Confidence 57889999999999999999999887765543
No 380
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=92.36 E-value=0.48 Score=52.28 Aligned_cols=34 Identities=24% Similarity=0.390 Sum_probs=28.9
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHh-cCCeEEEEe
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLM-RGASILLTS 995 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~-~gkkVLvtA 995 (1345)
++++.+..|+||||+.+.++..|.. .|++||++-
T Consensus 38 i~v~s~kgG~GkSt~a~nLA~~la~~~g~~VLlvD 72 (207)
T TIGR03018 38 IMVTSSLPGEGKSFTAINLAISLAQEYDKTVLLID 72 (207)
T ss_pred EEEECCCCCCCHHHHHHHHHHHHHHhcCCeEEEEE
Confidence 5566678999999999999999986 599998863
No 381
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=92.34 E-value=0.22 Score=59.42 Aligned_cols=45 Identities=22% Similarity=0.251 Sum_probs=32.5
Q ss_pred CCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEEEcCC-CCCCccccch
Q 000698 1069 KKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVLVGDH-YQLPPLVQST 1113 (1345)
Q Consensus 1069 ~~FD~VIVDEASQitep~~---L~pL~~---a~k~VLVGDh-~QLPPvV~s~ 1113 (1345)
..+.++|||+|..++.... |..|-. ...|||+... .+|+|++.|.
T Consensus 131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SR 182 (342)
T PRK06964 131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSR 182 (342)
T ss_pred CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhc
Confidence 4689999999988887655 333321 3458887765 8899998874
No 382
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=92.33 E-value=0.2 Score=59.13 Aligned_cols=52 Identities=17% Similarity=0.183 Sum_probs=40.8
Q ss_pred HHHHHHHh-----cCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHH
Q 000698 951 RAIIKVLT-----AKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVD 1002 (1345)
Q Consensus 951 ~AI~~~l~-----~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVD 1002 (1345)
.+++.++. ....+.|.||||||||+++.+++....+.|.+++++..-+..-.
T Consensus 41 ~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~ 97 (325)
T cd00983 41 LSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDP 97 (325)
T ss_pred HHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHH
Confidence 34445554 23489999999999999999999998888999998887665443
No 383
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=92.30 E-value=0.19 Score=54.34 Aligned_cols=35 Identities=31% Similarity=0.433 Sum_probs=30.7
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
+..|.|++||||||.+..+.+.|-..|.+|+++..
T Consensus 5 ~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~~ 39 (195)
T TIGR00041 5 FIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTRE 39 (195)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence 67899999999999999999999888988876643
No 384
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=92.30 E-value=0.36 Score=64.36 Aligned_cols=62 Identities=23% Similarity=0.287 Sum_probs=45.0
Q ss_pred CHHHHH---HHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHH
Q 000698 946 NDDQRR---AIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIK 1007 (1345)
Q Consensus 946 N~eQ~~---AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~k 1007 (1345)
.+.|.+ +|..++......+|.+|+|||||..-..-+......+++|+|+++|....+.+..+
T Consensus 247 r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 247 RPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAITEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred CHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHH
Confidence 456776 55566666678999999999999654332222222688999999999988888654
No 385
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=92.27 E-value=0.12 Score=60.09 Aligned_cols=27 Identities=33% Similarity=0.448 Sum_probs=23.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcC
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRG 988 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~g 988 (1345)
..++.||||||||+++..+.+.+...|
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 689999999999999988888887654
No 386
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=92.25 E-value=0.48 Score=53.76 Aligned_cols=58 Identities=22% Similarity=0.365 Sum_probs=42.5
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH-HHHHHHHHHHhhcCCcEEEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN-SAVDNLLIKLKSQSIDFVRI 1018 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn-sAVDnLl~kL~~~~l~ilRi 1018 (1345)
..+|+.|..|||||+++..++......|-+++=+.... .....|+..|.....+|+-.
T Consensus 53 nnvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~~l~~~l~~~~~kFIlf 111 (249)
T PF05673_consen 53 NNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLPELLDLLRDRPYKFILF 111 (249)
T ss_pred cceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHHHHHHHHhcCCCCEEEE
Confidence 47899999999999999999999888898866665544 34445555565555555543
No 387
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.25 E-value=0.26 Score=60.29 Aligned_cols=126 Identities=13% Similarity=0.116 Sum_probs=77.8
Q ss_pred CCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHH-HHHHHHHHHhc------------CCeEEEEeccHHHHHHHHHHHh
Q 000698 943 KSLNDDQRRAIIKVLTAKDYALILGMPGTGKTST-MVHAVKALLMR------------GASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 943 ~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTtt-Ia~lI~~Ll~~------------gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
...++-|+-+|..+.... =.++.|+.|+|||.- +.-++.++... .-+.|++|+|+..|+.|-.+-.
T Consensus 95 ~~ptpvQk~sip~i~~Gr-dl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~ 173 (482)
T KOG0335|consen 95 TKPTPVQKYSIPIISGGR-DLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEAR 173 (482)
T ss_pred cCCCcceeeccceeecCC-ceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHH
Confidence 356778888887666643 458999999999974 34566666653 2479999999999999987765
Q ss_pred hcC-CcEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEeccccc----ccccCCCCCEEEEeCCCCC
Q 000698 1010 SQS-IDFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITN----PLLTDKKFDVCIMDEAGQT 1082 (1345)
Q Consensus 1010 ~~~-l~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~~----~ll~~~~FD~VIVDEASQi 1082 (1345)
+.. ..-++..-. .....--...+.......++.+|.-...+ ..+....-.++++|||-..
T Consensus 174 k~~~~s~~~~~~~-------------ygg~~~~~q~~~~~~gcdIlvaTpGrL~d~~e~g~i~l~~~k~~vLDEADrM 238 (482)
T KOG0335|consen 174 KFSYLSGMKSVVV-------------YGGTDLGAQLRFIKRGCDILVATPGRLKDLIERGKISLDNCKFLVLDEADRM 238 (482)
T ss_pred hhcccccceeeee-------------eCCcchhhhhhhhccCccEEEecCchhhhhhhcceeehhhCcEEEecchHHh
Confidence 431 111111000 00111112334445677888888765443 2223344569999999433
No 388
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=92.23 E-value=0.27 Score=56.87 Aligned_cols=35 Identities=26% Similarity=0.395 Sum_probs=31.7
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..=|.|+||+||+|++-.+++.|...|.+|-|+|-
T Consensus 53 viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAV 87 (323)
T COG1703 53 VIGITGVPGAGKSTLIEALGRELRERGHRVAVLAV 87 (323)
T ss_pred EEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEE
Confidence 56699999999999999999999999999888763
No 389
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=92.20 E-value=0.16 Score=58.67 Aligned_cols=36 Identities=28% Similarity=0.293 Sum_probs=31.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN 998 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn 998 (1345)
...|.|++||||||++..++..|..+| +|.++=..+
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKhd~ 38 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKHMD 38 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEEcC
Confidence 567999999999999999999999999 788776654
No 390
>PRK07667 uridine kinase; Provisional
Probab=92.19 E-value=0.2 Score=54.70 Aligned_cols=38 Identities=16% Similarity=0.194 Sum_probs=31.9
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNS 999 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tns 999 (1345)
...|.|+|||||||+...+...|-..|.++.+++.-.-
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~ 56 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDY 56 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCcc
Confidence 56799999999999999999988878888877776543
No 391
>PRK05541 adenylylsulfate kinase; Provisional
Probab=92.15 E-value=0.19 Score=53.76 Aligned_cols=34 Identities=21% Similarity=0.329 Sum_probs=28.4
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
.+.+|.|+|||||||++..+...|...+..+.++
T Consensus 8 ~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 3778999999999999999999887776666555
No 392
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=92.13 E-value=0.46 Score=60.40 Aligned_cols=36 Identities=19% Similarity=0.253 Sum_probs=26.9
Q ss_pred HHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHh
Q 000698 951 RAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 951 ~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
+.+...+..+. .+++.||||+|||+++..+++.|.-
T Consensus 26 ~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c 64 (563)
T PRK06647 26 ETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNC 64 (563)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcc
Confidence 34444454432 4789999999999999999988864
No 393
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=92.12 E-value=0.48 Score=56.24 Aligned_cols=122 Identities=19% Similarity=0.208 Sum_probs=64.0
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcC-CeEEEEeccHHHHHHHHHHHhhc-CCcEEEEcccchhhHHHHHhhhcccccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRG-ASILLTSYTNSAVDNLLIKLKSQ-SIDFVRIGRHEVVHKEIQKHCLSAMNIN 1039 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~g-kkVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG~~~~v~~~v~~~~l~~~~~~ 1039 (1345)
.+++.||+|+|||+++..+++.+.-.. .....|- .= ..+.++... ..++..+.. +. ..-
T Consensus 30 a~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg-~C----~~c~~~~~~~hpD~~~i~~-------------~~-~~i 90 (329)
T PRK08058 30 AYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCG-TC----TNCKRIDSGNHPDVHLVAP-------------DG-QSI 90 (329)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCC-cC----HHHHHHhcCCCCCEEEecc-------------cc-ccC
Confidence 469999999999999999998886432 1100000 00 112222211 122322211 10 111
Q ss_pred cHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEEEc-CCCCCCccccc
Q 000698 1040 SVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVLVG-DHYQLPPLVQS 1112 (1345)
Q Consensus 1040 s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VLVG-Dh~QLPPvV~s 1112 (1345)
.++++++..+... ..+. ...+.++|||||..++.... |..|-. ...|||+. ++.+|+|++.|
T Consensus 91 ~id~ir~l~~~~~---------~~~~--~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrS 159 (329)
T PRK08058 91 KKDQIRYLKEEFS---------KSGV--ESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILS 159 (329)
T ss_pred CHHHHHHHHHHHh---------hCCc--ccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHh
Confidence 2344444332211 0111 13678999999988887544 233321 34577777 56788888776
Q ss_pred h
Q 000698 1113 T 1113 (1345)
Q Consensus 1113 ~ 1113 (1345)
.
T Consensus 160 R 160 (329)
T PRK08058 160 R 160 (329)
T ss_pred h
Confidence 4
No 394
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=92.09 E-value=0.19 Score=54.34 Aligned_cols=34 Identities=26% Similarity=0.314 Sum_probs=28.4
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..|.|+|||||||++..++..+...|.++.+++.
T Consensus 2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~ 35 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISL 35 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEeh
Confidence 5799999999999999999888777777766643
No 395
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=92.08 E-value=0.38 Score=56.08 Aligned_cols=127 Identities=18% Similarity=0.278 Sum_probs=70.3
Q ss_pred HHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc-CCcEEEEcccchhhH
Q 000698 951 RAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ-SIDFVRIGRHEVVHK 1026 (1345)
Q Consensus 951 ~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~-~l~ilRiG~~~~v~~ 1026 (1345)
+.+...+..+. -+++.||.|+||++++..+++.|.-.+.. .+ +.++... ..|+..+..
T Consensus 7 ~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~--------~~----c~~~~~~~HPD~~~i~p------ 68 (290)
T PRK05917 7 EALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSP--------EA----AYKISQKIHPDIHEFSP------ 68 (290)
T ss_pred HHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCc--------cH----HHHHhcCCCCCEEEEec------
Confidence 44444555432 46799999999999999999988643211 11 2333221 233333311
Q ss_pred HHHHhhhccc-ccccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEE
Q 000698 1027 EIQKHCLSAM-NINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVL 1099 (1345)
Q Consensus 1027 ~v~~~~l~~~-~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VL 1099 (1345)
... ..-+++++++...... ..+. ...+.++|||+|..++.... |..|-. ...|||
T Consensus 69 -------~~~~~~I~idqiR~l~~~~~---------~~p~--e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL 130 (290)
T PRK05917 69 -------QGKGRLHSIETPRAIKKQIW---------IHPY--ESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIIL 130 (290)
T ss_pred -------CCCCCcCcHHHHHHHHHHHh---------hCcc--CCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEE
Confidence 110 0112344433322210 0111 24789999999988876554 222221 345888
Q ss_pred EcCC-CCCCccccch
Q 000698 1100 VGDH-YQLPPLVQST 1113 (1345)
Q Consensus 1100 VGDh-~QLPPvV~s~ 1113 (1345)
+.+. .+|+|++.|.
T Consensus 131 ~~~~~~~ll~TI~SR 145 (290)
T PRK05917 131 TSAKPQRLPPTIRSR 145 (290)
T ss_pred EeCChhhCcHHHHhc
Confidence 8877 7899988764
No 396
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=92.06 E-value=0.19 Score=58.06 Aligned_cols=61 Identities=21% Similarity=0.267 Sum_probs=37.8
Q ss_pred HHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh
Q 000698 950 RRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 950 ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
...++..+..+..+++.||+|||||.++...++.+-.....+..+.++.....+.+.++.+
T Consensus 23 ~~ll~~l~~~~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts~~~q~~ie 83 (272)
T PF12775_consen 23 SYLLDLLLSNGRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTSNQLQKIIE 83 (272)
T ss_dssp HHHHHHHHHCTEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHHHHHHHCCC
T ss_pred HHHHHHHHHcCCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCHHHHHHHHh
Confidence 3455555667779999999999999999988776543332344444543333333444433
No 397
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=92.05 E-value=0.19 Score=56.60 Aligned_cols=40 Identities=23% Similarity=0.308 Sum_probs=35.3
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAV 1001 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAV 1001 (1345)
...|.|++|+||||++..++..|..+|.+|.++-++|.-.
T Consensus 3 vi~ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK~~~~~~ 42 (229)
T PRK14494 3 AIGVIGFKDSGKTTLIEKILKNLKERGYRVATAKHTHHEF 42 (229)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHhCCCeEEEEEecccCC
Confidence 4679999999999999999999999999999998766633
No 398
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=92.04 E-value=0.25 Score=58.77 Aligned_cols=45 Identities=18% Similarity=0.217 Sum_probs=34.5
Q ss_pred HHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEE
Q 000698 948 DQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILL 993 (1345)
Q Consensus 948 eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLv 993 (1345)
+....+..+.......+|.|++||||||++..++..+ ....+|+.
T Consensus 148 ~~~~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~i-p~~~ri~t 192 (332)
T PRK13900 148 KIKEFLEHAVISKKNIIISGGTSTGKTTFTNAALREI-PAIERLIT 192 (332)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhC-CCCCeEEE
Confidence 3456666677778899999999999999998887665 33566655
No 399
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=91.95 E-value=0.22 Score=50.15 Aligned_cols=44 Identities=27% Similarity=0.354 Sum_probs=34.8
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHh
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
.++.|.+|+|||++...+...+.++|++|+++.--. +.+.+++.
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~---~~~~~~~~ 45 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP---DDLPERLS 45 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc---hhhHHHHh
Confidence 578999999999999999999988899887665433 55555543
No 400
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=91.93 E-value=0.78 Score=54.22 Aligned_cols=44 Identities=18% Similarity=0.258 Sum_probs=31.4
Q ss_pred CCCEEEEeCCCCCCHHHH---hhhhcc--cCeEEEEc-CCCCCCccccch
Q 000698 1070 KFDVCIMDEAGQTTLPVS---LGPLMF--ASKFVLVG-DHYQLPPLVQST 1113 (1345)
Q Consensus 1070 ~FD~VIVDEASQitep~~---L~pL~~--a~k~VLVG-Dh~QLPPvV~s~ 1113 (1345)
.+.+||||+|..++.... |..|-. ...|||+. ++.+|.|++.|.
T Consensus 124 ~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~~~Ll~TI~SR 173 (314)
T PRK07399 124 PRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSPESLLPTIVSR 173 (314)
T ss_pred CceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECChHhCcHHHHhh
Confidence 689999999988887553 322221 33577776 788999998875
No 401
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=91.92 E-value=0.23 Score=52.74 Aligned_cols=34 Identities=26% Similarity=0.462 Sum_probs=28.9
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
...|.|.|||||||++..+.+.|...|.++.++-
T Consensus 4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD 37 (156)
T PF01583_consen 4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLLD 37 (156)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence 4679999999999999999999999888877764
No 402
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=91.89 E-value=1.2 Score=48.53 Aligned_cols=62 Identities=18% Similarity=0.298 Sum_probs=46.4
Q ss_pred hcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHH----HHHHHHhhcCCcEEEEcc
Q 000698 958 TAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVD----NLLIKLKSQSIDFVRIGR 1020 (1345)
Q Consensus 958 ~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVD----nLl~kL~~~~l~ilRiG~ 1020 (1345)
...++.+|.=.+|=||||-+.-++-..+..|.+|+|+-|-..+.. +.++++ ...+++.+.|.
T Consensus 26 ~~~Gli~V~TG~GKGKTTAAlG~alRa~GhG~rv~vvQFiKg~~~~GE~~~~~~~-~~~v~~~~~~~ 91 (198)
T COG2109 26 EEKGLIIVFTGNGKGKTTAALGLALRALGHGLRVGVVQFIKGGWKYGEEAALEKF-GLGVEFHGMGE 91 (198)
T ss_pred cccCeEEEEecCCCChhHHHHHHHHHHhcCCCEEEEEEEeecCcchhHHHHHHhh-ccceeEEecCC
Confidence 346799999999999999999999999999999999998655532 333333 23456666653
No 403
>PRK13973 thymidylate kinase; Provisional
Probab=91.89 E-value=0.57 Score=52.04 Aligned_cols=36 Identities=22% Similarity=0.330 Sum_probs=31.9
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
-+..|-|++||||||.+..+.+.|...|.+|..+.+
T Consensus 4 ~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~ 39 (213)
T PRK13973 4 RFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTRE 39 (213)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEC
Confidence 367889999999999999999999999999988853
No 404
>CHL00181 cbbX CbbX; Provisional
Probab=91.88 E-value=0.14 Score=59.56 Aligned_cols=27 Identities=33% Similarity=0.473 Sum_probs=23.1
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcC
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRG 988 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~g 988 (1345)
..++.||||||||+++..+...+...|
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~g 87 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKLG 87 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence 578999999999999999988876543
No 405
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=91.86 E-value=0.13 Score=60.27 Aligned_cols=43 Identities=28% Similarity=0.240 Sum_probs=28.4
Q ss_pred EEEccCCCChHHHHHH-HHHHHHhcC--CeEEEEeccHHHHHHHHH
Q 000698 964 LILGMPGTGKTSTMVH-AVKALLMRG--ASILLTSYTNSAVDNLLI 1006 (1345)
Q Consensus 964 LI~GpPGTGKTttIa~-lI~~Ll~~g--kkVLvtA~TnsAVDnLl~ 1006 (1345)
+|.|++|+|||++++. ++..++..+ ..|++++.+..|.+.+..
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~~~~~~~~~~~~~ 46 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIASTYRQARDIFGR 46 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEEESSHHHHHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEecCHHHHHHHHHH
Confidence 5889999999999876 444444444 578888777777777554
No 406
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=91.85 E-value=0.39 Score=62.65 Aligned_cols=59 Identities=20% Similarity=0.293 Sum_probs=46.3
Q ss_pred HHHHH---HHHHHHhc-----CCeEEEEccCCCChHHHHHHHHHHHH---hcCCeEEEEeccHHHHHHHHHH
Q 000698 947 DDQRR---AIIKVLTA-----KDYALILGMPGTGKTSTMVHAVKALL---MRGASILLTSYTNSAVDNLLIK 1007 (1345)
Q Consensus 947 ~eQ~~---AI~~~l~~-----~d~~LI~GpPGTGKTttIa~lI~~Ll---~~gkkVLvtA~TnsAVDnLl~k 1007 (1345)
+.|.+ +|..++.. ...++|.+|.||||| +++++-.+. +.|++|+|.|.|...-+.|..|
T Consensus 28 ~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKT--laYLlPai~~A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 28 AGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKT--LSYLLAGIPIARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred HHHHHHHHHHHHHHhcccccccceEEEECCCCcchh--HHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhh
Confidence 45666 67777775 368999999999999 555555443 4799999999999999999766
No 407
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=91.83 E-value=0.25 Score=58.92 Aligned_cols=36 Identities=19% Similarity=0.405 Sum_probs=28.7
Q ss_pred cCCeEEEEccCCCChHHHHHHHHHHHHhc-CCeEEEE
Q 000698 959 AKDYALILGMPGTGKTSTMVHAVKALLMR-GASILLT 994 (1345)
Q Consensus 959 ~~d~~LI~GpPGTGKTttIa~lI~~Ll~~-gkkVLvt 994 (1345)
..+..+|.||+||||||++..++..+... +.+|+.+
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~ti 157 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITI 157 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEE
Confidence 45799999999999999999988877643 4555554
No 408
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=91.83 E-value=0.21 Score=55.15 Aligned_cols=32 Identities=31% Similarity=0.375 Sum_probs=29.1
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
..|.|-.|+||||+.+.++..|.+.|++||++
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGKKVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCCcEEEE
Confidence 34559999999999999999999999999988
No 409
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=91.82 E-value=0.24 Score=53.20 Aligned_cols=35 Identities=29% Similarity=0.467 Sum_probs=30.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
+..|.|++|+||||.+..+...|-..|.+|..+..
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~ 36 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTRE 36 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence 46789999999999999999999888988877754
No 410
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=91.78 E-value=0.2 Score=55.62 Aligned_cols=39 Identities=18% Similarity=0.263 Sum_probs=32.7
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcC------CeEEEEeccH
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRG------ASILLTSYTN 998 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~g------kkVLvtA~Tn 998 (1345)
...+.|.|+||+|||+++.+++......+ .+|++++.-+
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 46899999999999999999988877766 7787777644
No 411
>PRK08760 replicative DNA helicase; Provisional
Probab=91.76 E-value=0.39 Score=59.90 Aligned_cols=53 Identities=23% Similarity=0.286 Sum_probs=41.8
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHH-hcCCeEEEEeccHHHHHHHHHHHhh
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALL-MRGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll-~~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+...+..+|-|.||.|||+++..++.... ..|++|++.+.=..+ +.+..|+..
T Consensus 226 ~~~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~-~ql~~Rl~a 279 (476)
T PRK08760 226 LQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSA-SQLAMRLIS 279 (476)
T ss_pred CCCCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCH-HHHHHHHHH
Confidence 44457899999999999999999998876 458999999885544 456667654
No 412
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=91.73 E-value=0.23 Score=53.20 Aligned_cols=34 Identities=32% Similarity=0.485 Sum_probs=30.2
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
++..+..|+||||+.+.++..|...|++||++-.
T Consensus 2 ~v~~~kGG~GKTt~a~~la~~la~~g~~VlliD~ 35 (195)
T PF01656_consen 2 AVTSGKGGVGKTTIAANLAQALARKGKKVLLIDL 35 (195)
T ss_dssp EEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEE
T ss_pred EEEcCCCCccHHHHHHHHHhcccccccccccccc
Confidence 5778899999999999999999999999998766
No 413
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=91.72 E-value=0.22 Score=53.17 Aligned_cols=39 Identities=23% Similarity=0.303 Sum_probs=36.6
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSA 1000 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsA 1000 (1345)
+.-|.|+-||||||++-.+++.|.++|.+|.++-++|..
T Consensus 4 Il~ivG~k~SGKTTLie~lv~~L~~~G~rVa~iKH~hh~ 42 (161)
T COG1763 4 ILGIVGYKNSGKTTLIEKLVRKLKARGYRVATVKHAHHD 42 (161)
T ss_pred EEEEEecCCCChhhHHHHHHHHHHhCCcEEEEEEecCCC
Confidence 567999999999999999999999999999999998876
No 414
>PRK13764 ATPase; Provisional
Probab=91.70 E-value=0.29 Score=62.26 Aligned_cols=35 Identities=23% Similarity=0.273 Sum_probs=28.4
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeE
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLMRGASI 991 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkV 991 (1345)
.......+|.|+|||||||++..++..+...+..|
T Consensus 254 ~~~~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV 288 (602)
T PRK13764 254 EERAEGILIAGAPGAGKSTFAQALAEFYADMGKIV 288 (602)
T ss_pred HhcCCEEEEECCCCCCHHHHHHHHHHHHhhCCCEE
Confidence 34456789999999999999999998887666544
No 415
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=91.68 E-value=0.2 Score=58.99 Aligned_cols=21 Identities=38% Similarity=0.480 Sum_probs=15.9
Q ss_pred CeEEEEccCCCChHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAV 981 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI 981 (1345)
.=+|+.||||||||-++...+
T Consensus 186 KGVLLYGPPGTGKTLLAkAVA 206 (406)
T COG1222 186 KGVLLYGPPGTGKTLLAKAVA 206 (406)
T ss_pred CceEeeCCCCCcHHHHHHHHH
Confidence 357899999999996654443
No 416
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=91.58 E-value=0.34 Score=51.57 Aligned_cols=38 Identities=24% Similarity=0.371 Sum_probs=32.7
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNS 999 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tns 999 (1345)
...|.|++||||||++..++..|...|.+|-++-+.+.
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~~g~~V~~iK~~~~ 40 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSARGLRVAVIKHDHH 40 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEecCC
Confidence 56799999999999999999999888988877766544
No 417
>PRK08506 replicative DNA helicase; Provisional
Probab=91.56 E-value=0.35 Score=60.23 Aligned_cols=53 Identities=19% Similarity=0.327 Sum_probs=43.5
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+...+.++|-|.||.|||+++..++......|++|++.+.= -..+.+..|+..
T Consensus 189 ~~~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlE-Ms~~ql~~Rlla 241 (472)
T PRK08506 189 FNKGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSLE-MPAEQLMLRMLS 241 (472)
T ss_pred CCCCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCc-CCHHHHHHHHHH
Confidence 34456899999999999999999999988889999999875 456667777643
No 418
>PRK09354 recA recombinase A; Provisional
Probab=91.51 E-value=0.29 Score=58.42 Aligned_cols=52 Identities=19% Similarity=0.188 Sum_probs=41.4
Q ss_pred HHHHHHh-c----CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHH
Q 000698 952 AIIKVLT-A----KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDN 1003 (1345)
Q Consensus 952 AI~~~l~-~----~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDn 1003 (1345)
.++.+|. . ...+.|.|+||||||++..+++....+.|.+++++..-+..-..
T Consensus 47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~ 103 (349)
T PRK09354 47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV 103 (349)
T ss_pred HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHH
Confidence 4445555 2 34899999999999999999999988889999998887755543
No 419
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=91.49 E-value=0.17 Score=60.21 Aligned_cols=123 Identities=14% Similarity=0.119 Sum_probs=66.1
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCe-EEEEeccHHHHHHHHHHHhh-cCCcEEEEcccchhhHHHHHhhhcc-ccc
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGAS-ILLTSYTNSAVDNLLIKLKS-QSIDFVRIGRHEVVHKEIQKHCLSA-MNI 1038 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkk-VLvtA~TnsAVDnLl~kL~~-~~l~ilRiG~~~~v~~~v~~~~l~~-~~~ 1038 (1345)
-.|+.||+|+||++++..+++.|+-.+.. ---|-. = .-+.++.. ...|+..+.. +. ...
T Consensus 26 A~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~-C----~sC~~~~~g~HPD~~~i~p-------------~~~~~~ 87 (334)
T PRK07993 26 ALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGH-C----RGCQLMQAGTHPDYYTLTP-------------EKGKSS 87 (334)
T ss_pred EEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCC-C----HHHHHHHcCCCCCEEEEec-------------cccccc
Confidence 46799999999999999999998643110 000000 0 11222211 1223333311 10 011
Q ss_pred ccHHHHHHhhccccEEEEEecccccccccCCCCCEEEEeCCCCCCHHHH---hhhhcc---cCeEEEEcC-CCCCCcccc
Q 000698 1039 NSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMF---ASKFVLVGD-HYQLPPLVQ 1111 (1345)
Q Consensus 1039 ~s~~~i~~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIVDEASQitep~~---L~pL~~---a~k~VLVGD-h~QLPPvV~ 1111 (1345)
-+++++++..+... ..+ ....+.++|||+|..+++... |..|-. ..-|||+-+ +.+|+|++.
T Consensus 88 I~idqiR~l~~~~~---------~~~--~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIr 156 (334)
T PRK07993 88 LGVDAVREVTEKLY---------EHA--RLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLR 156 (334)
T ss_pred CCHHHHHHHHHHHh---------hcc--ccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHH
Confidence 23444444433210 001 124789999999988887554 333322 345888876 578999988
Q ss_pred ch
Q 000698 1112 ST 1113 (1345)
Q Consensus 1112 s~ 1113 (1345)
|.
T Consensus 157 SR 158 (334)
T PRK07993 157 SR 158 (334)
T ss_pred hc
Confidence 64
No 420
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=91.48 E-value=0.53 Score=58.97 Aligned_cols=31 Identities=32% Similarity=0.418 Sum_probs=23.3
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
-+++.||||||||+++..++..+ +..++.++
T Consensus 90 giLL~GppGtGKT~la~alA~~~---~~~~~~i~ 120 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAGEA---GVPFFSIS 120 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHHHc---CCCeeecc
Confidence 48999999999999988876653 44444444
No 421
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.45 E-value=0.48 Score=57.41 Aligned_cols=64 Identities=19% Similarity=0.290 Sum_probs=50.2
Q ss_pred HHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHH-HHhcCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 948 DQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKA-LLMRGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 948 eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~-Ll~~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
+|++-..+.+..+...++.|-.||||||-|-+.+.. .......|..|-+-..|+-.+..|+.+.
T Consensus 50 ~~k~~F~~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~~~v~CTQprrvaamsva~RVadE 114 (699)
T KOG0925|consen 50 EQKEEFLKLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSHLTGVACTQPRRVAAMSVAQRVADE 114 (699)
T ss_pred HhHHHHHHHHhcCceEEEEecCCCCccccCcHHHHHHHHhhccceeecCchHHHHHHHHHHHHHH
Confidence 467777788888889999999999999998765544 3444566777778888998999888764
No 422
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=91.44 E-value=0.27 Score=55.78 Aligned_cols=35 Identities=26% Similarity=0.330 Sum_probs=29.9
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
-++|.|++|||||+++..++..+...-..|.+.+.
T Consensus 15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP 49 (241)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence 57899999999999999999888776667777766
No 423
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=91.44 E-value=0.15 Score=56.81 Aligned_cols=32 Identities=22% Similarity=0.420 Sum_probs=28.0
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
.+|.|||||||||-...+-+.|-+.|.++.++
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vV 36 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVV 36 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEE
Confidence 47999999999999999988888888877665
No 424
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=91.42 E-value=0.3 Score=58.62 Aligned_cols=29 Identities=21% Similarity=0.447 Sum_probs=25.6
Q ss_pred hcCCeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 958 TAKDYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 958 ~~~d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
...+..+|.||.||||||++..++..+..
T Consensus 132 ~~~glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 132 PQEGIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred ccCCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 35689999999999999999999988864
No 425
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=91.41 E-value=0.25 Score=57.49 Aligned_cols=24 Identities=33% Similarity=0.497 Sum_probs=20.5
Q ss_pred CeEEEEccCCCChHHHHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
..+++.||||||||+++..+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 358999999999999998877654
No 426
>PRK06762 hypothetical protein; Provisional
Probab=91.40 E-value=0.31 Score=51.50 Aligned_cols=39 Identities=31% Similarity=0.412 Sum_probs=28.1
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKL 1008 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL 1008 (1345)
..+|.|+|||||||++..+.+.+ |..+.+++ .|.+...+
T Consensus 4 li~i~G~~GsGKST~A~~L~~~l---~~~~~~i~-----~D~~r~~l 42 (166)
T PRK06762 4 LIIIRGNSGSGKTTIAKQLQERL---GRGTLLVS-----QDVVRRDM 42 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh---CCCeEEec-----HHHHHHHh
Confidence 67899999999999998888777 33454443 36665443
No 427
>PRK06696 uridine kinase; Validated
Probab=91.33 E-value=0.26 Score=55.07 Aligned_cols=34 Identities=24% Similarity=0.332 Sum_probs=28.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
...|.|++||||||++..++..|-..|..|++++
T Consensus 24 iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~ 57 (223)
T PRK06696 24 RVAIDGITASGKTTFADELAEEIKKRGRPVIRAS 57 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 5779999999999999999998877777777655
No 428
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=91.31 E-value=0.22 Score=51.53 Aligned_cols=39 Identities=28% Similarity=0.181 Sum_probs=29.6
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccH
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTN 998 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~Tn 998 (1345)
+...++.++.|+.|+||||++..+++.|- ..--|.|+|=
T Consensus 19 l~~~~~i~l~G~lGaGKTtl~~~l~~~lg---~~~~v~SPTf 57 (133)
T TIGR00150 19 LDFGTVVLLKGDLGAGKTTLVQGLLQGLG---IQGNVTSPTF 57 (133)
T ss_pred CCCCCEEEEEcCCCCCHHHHHHHHHHHcC---CCCcccCCCe
Confidence 34456899999999999999999998873 2223667763
No 429
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.30 E-value=0.67 Score=56.57 Aligned_cols=119 Identities=21% Similarity=0.265 Sum_probs=67.6
Q ss_pred CHHHHHHHHHHHhcCCeEEEEccCCCChHHHH-HHHHHHHHhcCC-----eEEEEeccHHHHHHHHHH---Hhhc-CCcE
Q 000698 946 NDDQRRAIIKVLTAKDYALILGMPGTGKTSTM-VHAVKALLMRGA-----SILLTSYTNSAVDNLLIK---LKSQ-SIDF 1015 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttI-a~lI~~Ll~~gk-----kVLvtA~TnsAVDnLl~k---L~~~-~l~i 1015 (1345)
++-|..-|--++..+|++ =.+..|||||..- .-++..|+.+++ +|||+.||+..+-.+-.- |... .+.+
T Consensus 205 TpIQ~a~IPvallgkDIc-a~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaqFt~I~~ 283 (691)
T KOG0338|consen 205 TPIQVATIPVALLGKDIC-ACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQFTDITV 283 (691)
T ss_pred CchhhhcccHHhhcchhh-heecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHhhcccee
Confidence 445666665555555532 2466799999743 456677776643 799999999877665432 2211 1111
Q ss_pred -EEEcccchhhHHHHHhhhcccccccHHHHHHhh-ccccEEEEEeccc-----ccccccCCCCCEEEEeCCCCCC
Q 000698 1016 -VRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL-DQVKVVAVTCLGI-----TNPLLTDKKFDVCIMDEAGQTT 1083 (1345)
Q Consensus 1016 -lRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~~~~VV~tT~~~~-----~~~ll~~~~FD~VIVDEASQit 1083 (1345)
+-+|. . ++..-...+ ...+||.+|..-+ +.+-|.-....++|+|||-.+.
T Consensus 284 ~L~vGG-----------------L-~lk~QE~~LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRML 340 (691)
T KOG0338|consen 284 GLAVGG-----------------L-DLKAQEAVLRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRML 340 (691)
T ss_pred eeeecC-----------------c-cHHHHHHHHhhCCCEEEecchhHHHHhccCCCccccceeEEEechHHHHH
Confidence 11221 1 111111222 4567888887654 2344555677899999994443
No 430
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.23 E-value=1.7 Score=52.92 Aligned_cols=124 Identities=17% Similarity=0.213 Sum_probs=76.1
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHH-HHHHHHHHhc-----CC--eEEEEeccHHHHHHHHHHHhhc--
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTM-VHAVKALLMR-----GA--SILLTSYTNSAVDNLLIKLKSQ-- 1011 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttI-a~lI~~Ll~~-----gk--kVLvtA~TnsAVDnLl~kL~~~-- 1011 (1345)
.+.+++-|..+|-..+..+ -+.+.++.|||||..- +-++..+.++ +. --||+|||+..+-.|.+-+...
T Consensus 26 F~~mTpVQa~tIPlll~~K-DVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~~ 104 (567)
T KOG0345|consen 26 FEKMTPVQAATIPLLLKNK-DVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFLE 104 (567)
T ss_pred CcccCHHHHhhhHHHhcCC-ceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHHH
Confidence 4678999999999888865 4678999999999743 3455555443 22 4699999999888886554321
Q ss_pred ---CCc-EEEEcccchhhHHHHHhhhcccccccHHHHHHhh-ccccEEEEEecccc----c--ccccCCCCCEEEEeCCC
Q 000698 1012 ---SID-FVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRL-DQVKVVAVTCLGIT----N--PLLTDKKFDVCIMDEAG 1080 (1345)
Q Consensus 1012 ---~l~-ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l-~~~~VV~tT~~~~~----~--~ll~~~~FD~VIVDEAS 1080 (1345)
++. .+-+|. ..+.+++ +... +...|+.+|..-.. + ..+.-+..+++|+|||-
T Consensus 105 ~l~~l~~~l~vGG-~~v~~Di----------------~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDEAD 167 (567)
T KOG0345|consen 105 HLPNLNCELLVGG-RSVEEDI----------------KTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEAD 167 (567)
T ss_pred hhhccceEEEecC-ccHHHHH----------------HHHHHhCCcEEEeCchhHHHHHhchhhhccccccceEEecchH
Confidence 111 222332 2222222 2222 23456666664332 1 12334578899999995
Q ss_pred CCC
Q 000698 1081 QTT 1083 (1345)
Q Consensus 1081 Qit 1083 (1345)
...
T Consensus 168 rLl 170 (567)
T KOG0345|consen 168 RLL 170 (567)
T ss_pred hHh
Confidence 544
No 431
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=91.22 E-value=0.29 Score=58.48 Aligned_cols=47 Identities=19% Similarity=0.269 Sum_probs=36.2
Q ss_pred CHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEE
Q 000698 946 NDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILL 993 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLv 993 (1345)
+.+..+.+..+..+....+|.|++||||||++..++..+- ...+++.
T Consensus 148 ~~~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i~-~~~rivt 194 (344)
T PRK13851 148 NGDLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAIP-PQERLIT 194 (344)
T ss_pred cHHHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHcccC-CCCCEEE
Confidence 4556677777777888999999999999999988876653 3455554
No 432
>PRK05595 replicative DNA helicase; Provisional
Probab=91.22 E-value=0.6 Score=57.71 Aligned_cols=52 Identities=25% Similarity=0.300 Sum_probs=41.0
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHH-hcCCeEEEEeccHHHHHHHHHHHh
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALL-MRGASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll-~~gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
+...++.+|-|.||.|||+++..++..+. ..|++|++.+.=- ..+.+..|+.
T Consensus 198 ~~~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlEm-s~~~l~~R~~ 250 (444)
T PRK05595 198 FQKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEM-SKEQLAYKLL 250 (444)
T ss_pred CCCCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecCC-CHHHHHHHHH
Confidence 34457899999999999999999998764 5799999998844 4556666654
No 433
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=91.22 E-value=0.25 Score=57.12 Aligned_cols=36 Identities=25% Similarity=0.405 Sum_probs=26.7
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
...+|.|.|||||||...++...+...+.+|.+++.
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~ 37 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVIISD 37 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-T
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcc
Confidence 367899999999999999999999888888888873
No 434
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=91.20 E-value=0.16 Score=54.40 Aligned_cols=22 Identities=32% Similarity=0.659 Sum_probs=19.4
Q ss_pred EEEEccCCCChHHHHHHHHHHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.+|.|+|||||||+...+++.+
T Consensus 2 i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 5899999999999998887765
No 435
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=91.18 E-value=0.26 Score=58.31 Aligned_cols=24 Identities=33% Similarity=0.512 Sum_probs=21.2
Q ss_pred CeEEEEccCCCChHHHHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
+.++|.||||||||+++..++..+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 478999999999999999887765
No 436
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=91.13 E-value=0.28 Score=51.42 Aligned_cols=32 Identities=22% Similarity=0.459 Sum_probs=26.6
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
.+|.|.|||||||++..+...+...|.+++++
T Consensus 2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 57899999999999999999887777665443
No 437
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=91.06 E-value=0.19 Score=53.89 Aligned_cols=24 Identities=29% Similarity=0.515 Sum_probs=21.2
Q ss_pred CeEEEEccCCCChHHHHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.+.+|.|+|||||||++..+++.+
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh
Confidence 478899999999999998888765
No 438
>PRK09165 replicative DNA helicase; Provisional
Probab=91.05 E-value=0.58 Score=58.69 Aligned_cols=53 Identities=25% Similarity=0.309 Sum_probs=40.7
Q ss_pred HhcCCeEEEEccCCCChHHHHHHHHHHHHhc---------------CCeEEEEeccHHHHHHHHHHHhh
Q 000698 957 LTAKDYALILGMPGTGKTSTMVHAVKALLMR---------------GASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 957 l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~---------------gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+...+..+|-|.||+|||+++..++...... |++||+.|.=-++ +.+..|+..
T Consensus 214 ~~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~-~ql~~R~la 281 (497)
T PRK09165 214 LHPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSA-EQLATRILS 281 (497)
T ss_pred CCCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCH-HHHHHHHHH
Confidence 4445689999999999999999988877643 7889999885544 666666643
No 439
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=91.01 E-value=0.25 Score=56.44 Aligned_cols=35 Identities=31% Similarity=0.433 Sum_probs=32.3
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
+.++.|.+|+||||+.+.+...+.+.|++||+++.
T Consensus 2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~ 36 (254)
T cd00550 2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVST 36 (254)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeC
Confidence 67889999999999999999999999999999875
No 440
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=90.99 E-value=0.26 Score=52.33 Aligned_cols=34 Identities=29% Similarity=0.350 Sum_probs=30.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
+++..+-+|+||||+.+.++..+...|++||++-
T Consensus 2 i~v~s~kgG~GKTt~a~~LA~~la~~g~~vllvD 35 (169)
T cd02037 2 IAVMSGKGGVGKSTVAVNLALALAKLGYKVGLLD 35 (169)
T ss_pred EEEecCCCcCChhHHHHHHHHHHHHcCCcEEEEe
Confidence 3567789999999999999999999999999974
No 441
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=90.97 E-value=0.36 Score=49.47 Aligned_cols=28 Identities=25% Similarity=0.236 Sum_probs=24.3
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCC
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGA 989 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gk 989 (1345)
+...+|+||||||.+.-.+++.|...|.
T Consensus 55 VlSfHG~tGtGKn~v~~liA~~ly~~G~ 82 (127)
T PF06309_consen 55 VLSFHGWTGTGKNFVSRLIAEHLYKSGM 82 (127)
T ss_pred EEEeecCCCCcHHHHHHHHHHHHHhccc
Confidence 3458999999999999999999988763
No 442
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=90.96 E-value=0.27 Score=56.07 Aligned_cols=32 Identities=28% Similarity=0.435 Sum_probs=29.1
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
++++ |-.|+||||+.+.++..|...|++||++
T Consensus 4 iav~-~KGGvGKTT~~~nLA~~La~~G~kVlli 35 (270)
T cd02040 4 IAIY-GKGGIGKSTTTQNLSAALAEMGKKVMIV 35 (270)
T ss_pred EEEE-eCCcCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 4555 8999999999999999999999999987
No 443
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=90.94 E-value=0.54 Score=55.02 Aligned_cols=49 Identities=22% Similarity=0.331 Sum_probs=31.7
Q ss_pred CCHHHHHHHHHHHhcCC---eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 945 LNDDQRRAIIKVLTAKD---YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 945 LN~eQ~~AI~~~l~~~d---~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
.+++..+.+...+.... ..++.|+||+|||+++..+.+.+ +..++.+.+
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~~~~i~~ 76 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV---GAEVLFVNG 76 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---CccceEecc
Confidence 35555666665555432 45668999999999988887665 344444433
No 444
>PRK03839 putative kinase; Provisional
Probab=90.88 E-value=0.19 Score=53.97 Aligned_cols=23 Identities=35% Similarity=0.475 Sum_probs=19.7
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
..+|.|+|||||||+...+.+.+
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 36789999999999988887776
No 445
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=90.84 E-value=0.98 Score=54.83 Aligned_cols=43 Identities=19% Similarity=0.281 Sum_probs=33.0
Q ss_pred CeEEEEccCCCChHHHHHH-HHHHHHh--cCCeEEEEeccHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVH-AVKALLM--RGASILLTSYTNSAVDN 1003 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~-lI~~Ll~--~gkkVLvtA~TnsAVDn 1003 (1345)
.+.+..|+-|||||.+++. ++..+.. .+.+++++..|..++..
T Consensus 2 ~~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~ 47 (396)
T TIGR01547 2 EEIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRD 47 (396)
T ss_pred ceEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHH
Confidence 4678899999999999874 4555555 57889999998774443
No 446
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=90.83 E-value=0.29 Score=54.82 Aligned_cols=34 Identities=21% Similarity=0.108 Sum_probs=25.2
Q ss_pred EEEEccCCCChHHHHHHHHHHHHh--cCCeEEEEec
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLM--RGASILLTSY 996 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~--~gkkVLvtA~ 996 (1345)
..|.|++||||||++..+...|.. .+.+|.+++-
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~ 37 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITT 37 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEec
Confidence 468899999999999877776654 3456666443
No 447
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=90.77 E-value=0.36 Score=58.57 Aligned_cols=44 Identities=23% Similarity=0.429 Sum_probs=36.0
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNL 1004 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnL 1004 (1345)
..++|.|.+|||||+++..++.++.++|.+++|.-++..-+..+
T Consensus 16 ~~~li~G~~GsGKT~~i~~ll~~~~~~g~~~iI~D~kg~~~~~f 59 (386)
T PF10412_consen 16 RHILIIGATGSGKTQAIRHLLDQIRARGDRAIIYDPKGEFTERF 59 (386)
T ss_dssp G-EEEEE-TTSSHHHHHHHHHHHHHHTT-EEEEEEETTHHHHHH
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHcCCEEEEEECCchHHHHh
Confidence 48999999999999999999999999999999999986655443
No 448
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=90.74 E-value=0.3 Score=54.55 Aligned_cols=40 Identities=15% Similarity=0.173 Sum_probs=30.9
Q ss_pred cCCeEEEEccCCCChHHHHHHHHHHHHhc------CCeEEEEeccH
Q 000698 959 AKDYALILGMPGTGKTSTMVHAVKALLMR------GASILLTSYTN 998 (1345)
Q Consensus 959 ~~d~~LI~GpPGTGKTttIa~lI~~Ll~~------gkkVLvtA~Tn 998 (1345)
....+.|.|+||||||+++.+++...... +.+|++++.-+
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~ 63 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG 63 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence 34588999999999999999998765443 36777777644
No 449
>PHA02244 ATPase-like protein
Probab=90.74 E-value=0.34 Score=58.04 Aligned_cols=35 Identities=26% Similarity=0.347 Sum_probs=28.3
Q ss_pred HHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHH
Q 000698 950 RRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 950 ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
...+.+++......+|.||||||||+++..+.+.+
T Consensus 109 ~~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~l 143 (383)
T PHA02244 109 TADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEAL 143 (383)
T ss_pred HHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHh
Confidence 44556677777789999999999999998887764
No 450
>PRK08118 topology modulation protein; Reviewed
Probab=90.72 E-value=0.2 Score=53.63 Aligned_cols=23 Identities=22% Similarity=0.400 Sum_probs=19.2
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
-.+|.|+|||||||++..+...+
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 36899999999999887777665
No 451
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=90.69 E-value=0.14 Score=61.87 Aligned_cols=32 Identities=31% Similarity=0.357 Sum_probs=25.3
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
-+|+.||||||||+.|++++..| +..|-.+.-
T Consensus 237 GYLLYGPPGTGKSS~IaAmAn~L---~ydIydLeL 268 (457)
T KOG0743|consen 237 GYLLYGPPGTGKSSFIAAMANYL---NYDIYDLEL 268 (457)
T ss_pred cceeeCCCCCCHHHHHHHHHhhc---CCceEEeee
Confidence 47999999999999999999887 445544433
No 452
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=90.62 E-value=0.26 Score=57.29 Aligned_cols=26 Identities=38% Similarity=0.579 Sum_probs=22.7
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
.+.|.-||||||||+++....+.|..
T Consensus 63 Ph~L~YgPPGtGktsti~a~a~~ly~ 88 (360)
T KOG0990|consen 63 PHLLFYGPPGTGKTSTILANARDFYS 88 (360)
T ss_pred CcccccCCCCCCCCCchhhhhhhhcC
Confidence 47888899999999999999888755
No 453
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=90.56 E-value=0.26 Score=62.73 Aligned_cols=43 Identities=33% Similarity=0.431 Sum_probs=39.9
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHh
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
..+|.|-|||||||.|..+.+.+ +.++++.|..|+.|+-.+|.
T Consensus 73 ~~~itG~AGsGKst~i~~l~~~l-----~cvitg~T~vAAqN~~~~L~ 115 (828)
T PHA03311 73 VYLITGTAGAGKSTSIQTLNENL-----DCVITGATRVAAQNLSAKLS 115 (828)
T ss_pred EEEEecCCCCChHHHHHHHHHhc-----CEEEEcchHHHHHhhhcccc
Confidence 68999999999999999998887 78899999999999998886
No 454
>PRK08233 hypothetical protein; Provisional
Probab=90.55 E-value=0.19 Score=53.58 Aligned_cols=23 Identities=26% Similarity=0.315 Sum_probs=20.4
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
...|.|+|||||||++..++..|
T Consensus 5 iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 5 IITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHhhC
Confidence 56789999999999998888776
No 455
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=90.51 E-value=0.65 Score=62.58 Aligned_cols=59 Identities=25% Similarity=0.345 Sum_probs=46.7
Q ss_pred HHHHH---HHHHHHhcCCeEEEEccCCCChHHHHHHHHHHH---HhcCCeEEEEeccHHHHHHHHHH
Q 000698 947 DDQRR---AIIKVLTAKDYALILGMPGTGKTSTMVHAVKAL---LMRGASILLTSYTNSAVDNLLIK 1007 (1345)
Q Consensus 947 ~eQ~~---AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~L---l~~gkkVLvtA~TnsAVDnLl~k 1007 (1345)
+.|.+ +|..++......+|.+|+|||||. ++++-.+ ...+++|+|.++|....+.|..|
T Consensus 260 ~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTl--aYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 260 EGQQEMMKEVYTALRDSEHALIEAGTGTGKSL--AYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEECCCCCchhH--HHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHh
Confidence 45666 777778877899999999999995 4444333 34689999999999999998775
No 456
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=90.50 E-value=0.31 Score=52.19 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=20.6
Q ss_pred eEEEEccCCCChHHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKALL 985 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll 985 (1345)
..+|.||+|+||||++..+...+-
T Consensus 3 ~~~i~G~sGsGKttl~~~l~~~~~ 26 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLDYARARLA 26 (179)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcC
Confidence 678999999999999988776653
No 457
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=90.39 E-value=0.35 Score=58.80 Aligned_cols=23 Identities=35% Similarity=0.421 Sum_probs=19.7
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
-.++.||||||||+++..+...+
T Consensus 167 gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred ceEEECCCCCChHHHHHHHHHHh
Confidence 48999999999999988877654
No 458
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=90.37 E-value=0.31 Score=57.98 Aligned_cols=36 Identities=22% Similarity=0.478 Sum_probs=31.7
Q ss_pred EEEEccCCCChHHHHHHHHHHHH-hcCCeEEEEeccH
Q 000698 963 ALILGMPGTGKTSTMVHAVKALL-MRGASILLTSYTN 998 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll-~~gkkVLvtA~Tn 998 (1345)
+.+.|+||+||||++..+...|. ..|.+|.++++=.
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd 38 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDD 38 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccc
Confidence 67899999999999999999987 5799999998844
No 459
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=90.35 E-value=0.81 Score=58.88 Aligned_cols=100 Identities=20% Similarity=0.202 Sum_probs=62.2
Q ss_pred EEEccC-----CCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhh----cCCcEEEEcccchhhHHHHHhhhc
Q 000698 964 LILGMP-----GTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKS----QSIDFVRIGRHEVVHKEIQKHCLS 1034 (1345)
Q Consensus 964 LI~GpP-----GTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~----~~l~ilRiG~~~~v~~~v~~~~l~ 1034 (1345)
+.+|-= |.|||.+++..+......|+.|.++|+|.-.+..=.+.+.. .|+.+--+...
T Consensus 90 Ll~G~VaEM~TGEGKTLvA~l~a~l~AL~G~~VhvvT~NdyLA~RDae~m~~ly~~LGLsvg~i~~~------------- 156 (764)
T PRK12326 90 LLAGDVIEMATGEGKTLAGAIAAAGYALQGRRVHVITVNDYLARRDAEWMGPLYEALGLTVGWITEE------------- 156 (764)
T ss_pred HhCCCcccccCCCCHHHHHHHHHHHHHHcCCCeEEEcCCHHHHHHHHHHHHHHHHhcCCEEEEECCC-------------
Confidence 445665 99999998877777677899999999998877766555432 23332222110
Q ss_pred ccccccHHHHHHhhccccEEEEEecccccccc-----------cCCCCCEEEEeCCCC
Q 000698 1035 AMNINSVEEIKKRLDQVKVVAVTCLGITNPLL-----------TDKKFDVCIMDEAGQ 1081 (1345)
Q Consensus 1035 ~~~~~s~~~i~~~l~~~~VV~tT~~~~~~~ll-----------~~~~FD~VIVDEASQ 1081 (1345)
.+.++ ++..-.++|+-+|...++-..| -.+.|+++||||+--
T Consensus 157 ----~~~~e-rr~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~R~~~faIVDEvDS 209 (764)
T PRK12326 157 ----STPEE-RRAAYACDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEADS 209 (764)
T ss_pred ----CCHHH-HHHHHcCCCEEcCCcccccccchhhhccChHhhcCCccceeeecchhh
Confidence 11112 2222346777777765543222 136799999999943
No 460
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=90.28 E-value=0.69 Score=55.65 Aligned_cols=59 Identities=24% Similarity=0.403 Sum_probs=45.2
Q ss_pred HHHHHHhc----CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhcC
Q 000698 952 AIIKVLTA----KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQS 1012 (1345)
Q Consensus 952 AI~~~l~~----~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~~ 1012 (1345)
-+++++.. ....||-|-||-||+|++.++...+..++ +||+++- ..++..+..|-.+.+
T Consensus 81 EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsG-EES~~QiklRA~RL~ 143 (456)
T COG1066 81 ELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSG-EESLQQIKLRADRLG 143 (456)
T ss_pred HHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeC-CcCHHHHHHHHHHhC
Confidence 34455553 34789999999999999999999999888 9999986 445566666655444
No 461
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=90.24 E-value=0.36 Score=53.79 Aligned_cols=41 Identities=24% Similarity=0.412 Sum_probs=36.2
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHH-hcCCeEEEEeccHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALL-MRGASILLTSYTNSAV 1001 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll-~~gkkVLvtA~TnsAV 1001 (1345)
.++.|.|..|||||+|+..++..+. ..+.+|+|.=+.+.=+
T Consensus 24 ~H~~I~G~TGsGKS~~~~~ll~~l~~~~~~~~ii~D~~GEY~ 65 (229)
T PF01935_consen 24 RHIAIFGTTGSGKSNTVKVLLEELLKKKGAKVIIFDPHGEYA 65 (229)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEcCCCcch
Confidence 5999999999999999999999999 7888999988866433
No 462
>PRK00131 aroK shikimate kinase; Reviewed
Probab=90.22 E-value=0.24 Score=52.23 Aligned_cols=24 Identities=25% Similarity=0.387 Sum_probs=21.4
Q ss_pred CeEEEEccCCCChHHHHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
...+|.|+|||||||+...+.+.|
T Consensus 5 ~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHh
Confidence 467899999999999999988887
No 463
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=90.22 E-value=0.35 Score=52.77 Aligned_cols=32 Identities=25% Similarity=0.371 Sum_probs=24.3
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..|.|++||||||++..+...+ .+.++.++..
T Consensus 2 igi~G~~GsGKSTl~~~l~~~l--~~~~~~v~~~ 33 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIEQL--GNPKVVIISQ 33 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHh--CCCCeEEEEe
Confidence 5799999999999998887766 4445555544
No 464
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=90.19 E-value=0.93 Score=59.78 Aligned_cols=64 Identities=16% Similarity=0.260 Sum_probs=52.4
Q ss_pred HHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHH-HHhc--CCeEEEEeccHHHHHHHHHHHhhc
Q 000698 948 DQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKA-LLMR--GASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 948 eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~-Ll~~--gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
.++++|..++..+.+++|.|-.|+||||-+-..|.. .+.. ..+|++|-+-..||-.+.+|+...
T Consensus 176 ~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~E 242 (924)
T KOG0920|consen 176 KMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKE 242 (924)
T ss_pred HHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHH
Confidence 457788888888899999999999999988765544 3333 357999999999999999998764
No 465
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=90.18 E-value=0.37 Score=56.74 Aligned_cols=48 Identities=17% Similarity=0.281 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHHHHhc----------CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEE
Q 000698 942 EKSLNDDQRRAIIKVLTA----------KDYALILGMPGTGKTSTMVHAVKALLMRGASIL 992 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~----------~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVL 992 (1345)
...|+++|++++..++.. .....|.|+|||||||+...+.+.| |..++
T Consensus 105 l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L---g~~~i 162 (309)
T PRK08154 105 LEQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL---GVPFV 162 (309)
T ss_pred HhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc---CCCEE
Confidence 568999999988887653 4578899999999999998887766 55444
No 466
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=90.15 E-value=1.1 Score=54.09 Aligned_cols=121 Identities=22% Similarity=0.194 Sum_probs=72.0
Q ss_pred CHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHh--------cCCeEEEEeccHHHHHHHH---HHHhhcCC
Q 000698 946 NDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLM--------RGASILLTSYTNSAVDNLL---IKLKSQSI 1013 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~--------~gkkVLvtA~TnsAVDnLl---~kL~~~~l 1013 (1345)
|--|..||--+|..+ -.+..+-.|||||-.-+ -++..|+. +|-+-+++++|...+..+. ++|....-
T Consensus 43 TlIQs~aIplaLEgK-DvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL~~~c~ 121 (569)
T KOG0346|consen 43 TLIQSSAIPLALEGK-DVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLVEYCS 121 (569)
T ss_pred chhhhcccchhhcCc-ceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHHHHHHH
Confidence 446788888888865 56789999999997543 34555544 2457899999998877654 44433211
Q ss_pred cEEEEcccchhhHHHHHhhhcccccccHHHHHHhhccccEEEEEecccc-----cccccCCCCCEEEEeCCC
Q 000698 1014 DFVRIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGIT-----NPLLTDKKFDVCIMDEAG 1080 (1345)
Q Consensus 1014 ~ilRiG~~~~v~~~v~~~~l~~~~~~s~~~i~~~l~~~~VV~tT~~~~~-----~~ll~~~~FD~VIVDEAS 1080 (1345)
..+| ...+....-.+... .-.++...||.+|..-+. ..+.......+++||||-
T Consensus 122 k~lr------------~~nl~s~~sdsv~~-~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDEAD 180 (569)
T KOG0346|consen 122 KDLR------------AINLASSMSDSVNS-VALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEAD 180 (569)
T ss_pred Hhhh------------hhhhhcccchHHHH-HHHccCCCeEEeChHHHHHHHhhccchhhhheeeEEechhh
Confidence 1111 11111111111111 234567788888875432 222344678999999993
No 467
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=90.08 E-value=0.41 Score=50.69 Aligned_cols=34 Identities=29% Similarity=0.360 Sum_probs=30.4
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEe
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTS 995 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA 995 (1345)
+++..+..|+||||+.+++...|.++|++||++-
T Consensus 2 i~v~~~kgG~GKtt~a~~la~~l~~~g~~vllvD 35 (179)
T cd02036 2 IVVTSGKGGVGKTTTTANLGTALAQLGYKVVLID 35 (179)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHHHhCCCeEEEEe
Confidence 3567789999999999999999999999999983
No 468
>PRK13531 regulatory ATPase RavA; Provisional
Probab=90.07 E-value=0.37 Score=59.62 Aligned_cols=37 Identities=19% Similarity=0.187 Sum_probs=28.9
Q ss_pred HHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 950 RRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 950 ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
.+.+..++.+...++|.||||||||+++..+...+..
T Consensus 29 I~lll~aalag~hVLL~GpPGTGKT~LAraLa~~~~~ 65 (498)
T PRK13531 29 IRLCLLAALSGESVFLLGPPGIAKSLIARRLKFAFQN 65 (498)
T ss_pred HHHHHHHHccCCCEEEECCCChhHHHHHHHHHHHhcc
Confidence 3455555667889999999999999998877776543
No 469
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=89.93 E-value=0.86 Score=58.49 Aligned_cols=59 Identities=22% Similarity=0.256 Sum_probs=43.0
Q ss_pred HHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHh-cCCeEEEEeccHHHHHHHHHHHh
Q 000698 951 RAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLM-RGASILLTSYTNSAVDNLLIKLK 1009 (1345)
Q Consensus 951 ~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~-~gkkVLvtA~TnsAVDnLl~kL~ 1009 (1345)
++|..++......+|.++.|||||..-. -.+..+.. .+++|+|+++|+...+.+...+.
T Consensus 7 ~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 7 LNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred HHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHH
Confidence 3445555667789999999999995433 33333332 58999999999999999876543
No 470
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=89.85 E-value=1.5 Score=53.46 Aligned_cols=37 Identities=22% Similarity=0.260 Sum_probs=30.0
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHhcCC--eEEEEec
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLMRGA--SILLTSY 996 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~~gk--kVLvtA~ 996 (1345)
..+.+|.|+.|+|||+++-.+.....+.+. +|+.++-
T Consensus 113 ~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~s 151 (408)
T COG0593 113 YNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTS 151 (408)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccH
Confidence 458999999999999999888888877665 6666654
No 471
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=89.82 E-value=1.3 Score=58.99 Aligned_cols=26 Identities=19% Similarity=0.331 Sum_probs=22.1
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
...++.|+||+|||+++-.+++.+..
T Consensus 209 ~n~lLvG~pGvGKTal~~~La~~i~~ 234 (852)
T TIGR03345 209 NNPILTGEAGVGKTAVVEGLALRIAA 234 (852)
T ss_pred CceeEECCCCCCHHHHHHHHHHHHhh
Confidence 47899999999999999888777754
No 472
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.81 E-value=1.9 Score=53.09 Aligned_cols=68 Identities=22% Similarity=0.224 Sum_probs=50.9
Q ss_pred CCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHH-HHHHHHHhc--------CCeEEEEeccHHHHHHHHHHHhh
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMV-HAVKALLMR--------GASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa-~lI~~Ll~~--------gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
...++.-|+++|-.++.. .-++|.+..|||||---+ -+|..|.+. |-=-||+++|+..+-.+-+-+.+
T Consensus 157 i~~pTsVQkq~IP~lL~g-rD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qK 233 (708)
T KOG0348|consen 157 ISAPTSVQKQAIPVLLEG-RDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQK 233 (708)
T ss_pred cCccchHhhcchhhhhcC-cceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHH
Confidence 356788999999988884 568999999999996533 355555543 44579999999998877554443
No 473
>PRK07261 topology modulation protein; Provisional
Probab=89.77 E-value=0.26 Score=52.87 Aligned_cols=22 Identities=23% Similarity=0.419 Sum_probs=18.6
Q ss_pred EEEEccCCCChHHHHHHHHHHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.+|.|+|||||||++..+.+.+
T Consensus 3 i~i~G~~GsGKSTla~~l~~~~ 24 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQHY 24 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 6899999999999998876543
No 474
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=89.73 E-value=0.75 Score=59.51 Aligned_cols=63 Identities=25% Similarity=0.403 Sum_probs=51.2
Q ss_pred CHHHHHHHHHHHhc----CCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHhhc
Q 000698 946 NDDQRRAIIKVLTA----KDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 946 N~eQ~~AI~~~l~~----~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
.-+|.+|+...... ....++.|.+|||||.|++.+++.+ ++.+||++++...+..+..-|...
T Consensus 11 ~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~---~~p~Lvi~~n~~~A~ql~~el~~f 77 (655)
T TIGR00631 11 AGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQV---NRPTLVIAHNKTLAAQLYNEFKEF 77 (655)
T ss_pred ChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHh---CCCEEEEECCHHHHHHHHHHHHHh
Confidence 45788888776543 2266799999999999999988764 678999999999999999888654
No 475
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=89.70 E-value=0.83 Score=60.87 Aligned_cols=33 Identities=24% Similarity=0.342 Sum_probs=26.2
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
.+++.||||+|||.++..+.+.|...+..+..+
T Consensus 598 ~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~ 630 (852)
T TIGR03345 598 VFLLVGPSGVGKTETALALAELLYGGEQNLITI 630 (852)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhCCCcceEEE
Confidence 579999999999999999988887554444433
No 476
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=89.70 E-value=0.4 Score=57.57 Aligned_cols=23 Identities=35% Similarity=0.421 Sum_probs=19.8
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
-.++.||||||||+++..++..+
T Consensus 158 gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 158 GVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred eEEEECCCCCCHHHHHHHHHHhC
Confidence 48999999999999988887765
No 477
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=89.70 E-value=0.28 Score=59.87 Aligned_cols=37 Identities=30% Similarity=0.379 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHH
Q 000698 948 DQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 948 eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.=++|++-+.......++.||||||||.++..+-..|
T Consensus 186 ~AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl~~lL 222 (490)
T COG0606 186 QAKRALEIAAAGGHNLLLVGPPGTGKTMLASRLPGLL 222 (490)
T ss_pred HHHHHHHHHHhcCCcEEEecCCCCchHHhhhhhcccC
Confidence 3477887777777789999999999999887665443
No 478
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=89.69 E-value=0.49 Score=55.83 Aligned_cols=56 Identities=14% Similarity=0.116 Sum_probs=45.2
Q ss_pred cCCCCCHHHHHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEecc
Q 000698 941 SEKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYT 997 (1345)
Q Consensus 941 ~~~~LN~eQ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~T 997 (1345)
....++++|-+.+..+....-..+|.|.-||||||++-.+....-. ..+|+.+=-|
T Consensus 154 ~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~i~~-~eRvItiEDt 209 (355)
T COG4962 154 IFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGFIDS-DERVITIEDT 209 (355)
T ss_pred HcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhcCCC-cccEEEEeeh
Confidence 4578999999999999988778999999999999999887665433 4477776553
No 479
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=89.66 E-value=0.56 Score=61.59 Aligned_cols=68 Identities=16% Similarity=0.196 Sum_probs=56.4
Q ss_pred CCCHHHHHHHHHHHhc--CC-eEEEEccCCCChHHHHHHHHHHHHhc----CCeEEEEeccHHHHHHHHHHHhhc
Q 000698 944 SLNDDQRRAIIKVLTA--KD-YALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKSQ 1011 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~~--~d-~~LI~GpPGTGKTttIa~lI~~Ll~~----gkkVLvtA~TnsAVDnLl~kL~~~ 1011 (1345)
...+.|..|++.++.. .. .+++.+|.|.|||++.+.....+... ..++..+-+++++++.+..|+...
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~ 269 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEI 269 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhh
Confidence 4467888898888764 23 78899999999999998877776665 568999999999999999998764
No 480
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=89.61 E-value=0.42 Score=53.21 Aligned_cols=35 Identities=29% Similarity=0.374 Sum_probs=31.3
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
+.++.|.+|+||||+.+.+...+.+.|+++|++.-
T Consensus 1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~~ 35 (217)
T cd02035 1 VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVST 35 (217)
T ss_pred CEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 35789999999999999999999999999988764
No 481
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=89.60 E-value=0.38 Score=55.35 Aligned_cols=32 Identities=28% Similarity=0.466 Sum_probs=29.1
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
+++. |--|+|||||.+.+...|.+.|+|||++
T Consensus 4 iav~-~KGGVGKTT~~~nLA~~La~~G~rVLlI 35 (274)
T PRK13235 4 VAIY-GKGGIGKSTTTQNTVAGLAEMGKKVMVV 35 (274)
T ss_pred EEEe-CCCCccHHHHHHHHHHHHHHCCCcEEEE
Confidence 3455 8999999999999999999999999998
No 482
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=89.57 E-value=1.1 Score=59.11 Aligned_cols=23 Identities=35% Similarity=0.431 Sum_probs=19.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
-.++.||||||||+++..++..+
T Consensus 489 giLL~GppGtGKT~lakalA~e~ 511 (733)
T TIGR01243 489 GVLLFGPPGTGKTLLAKAVATES 511 (733)
T ss_pred eEEEECCCCCCHHHHHHHHHHhc
Confidence 36889999999999988887664
No 483
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=89.56 E-value=0.41 Score=56.02 Aligned_cols=33 Identities=24% Similarity=0.340 Sum_probs=29.2
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
+++ |-.|+||||+.+.+...|...|+|||++=.
T Consensus 4 av~-gKGGvGKTT~a~nLA~~La~~g~rVLlID~ 36 (296)
T TIGR02016 4 AIY-GKGGSGKSFTTTNLSHMMAEMGKRVLQLGC 36 (296)
T ss_pred EEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEEe
Confidence 344 999999999999999999999999988654
No 484
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=89.48 E-value=0.28 Score=52.13 Aligned_cols=22 Identities=36% Similarity=0.602 Sum_probs=19.3
Q ss_pred EEEEccCCCChHHHHHHHHHHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~L 984 (1345)
..|.|+|||||||+...+.+.+
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 4689999999999999888876
No 485
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=89.47 E-value=0.48 Score=56.62 Aligned_cols=27 Identities=30% Similarity=0.335 Sum_probs=22.8
Q ss_pred CCeEEEEccCCCChHHHHHHHHHHHHh
Q 000698 960 KDYALILGMPGTGKTSTMVHAVKALLM 986 (1345)
Q Consensus 960 ~d~~LI~GpPGTGKTttIa~lI~~Ll~ 986 (1345)
+...++.|||||||||++..+++.|-.
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 357899999999999998888887744
No 486
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=89.44 E-value=0.48 Score=57.11 Aligned_cols=62 Identities=19% Similarity=0.307 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHhc------CCeEEEEccCCCChHHHHHHHHHHHHhcC--C-eEEEEeccHHHHHHHHHHH
Q 000698 947 DDQRRAIIKVLTA------KDYALILGMPGTGKTSTMVHAVKALLMRG--A-SILLTSYTNSAVDNLLIKL 1008 (1345)
Q Consensus 947 ~eQ~~AI~~~l~~------~d~~LI~GpPGTGKTttIa~lI~~Ll~~g--k-kVLvtA~TnsAVDnLl~kL 1008 (1345)
++|.+.+..++.. .+..+|.|+||||||.++..+.+.+...- . -+=+=|..+.....+..++
T Consensus 23 e~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i 93 (366)
T COG1474 23 EEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKI 93 (366)
T ss_pred HHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHH
Confidence 4566666555542 34589999999999999999999987642 2 2333344444444444444
No 487
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=89.41 E-value=0.45 Score=51.90 Aligned_cols=28 Identities=32% Similarity=0.371 Sum_probs=24.2
Q ss_pred EEEEccCCCChHHHHHHHHHHHHhcCCe
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGAS 990 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Ll~~gkk 990 (1345)
..|.|++||||||+...+...|-+.|..
T Consensus 2 IgI~G~sgSGKTTla~~L~~~L~~~~~~ 29 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLAKRLAQILNKRGIP 29 (194)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHTTCTTT
T ss_pred EEEECCCCCCHHHHHHHHHHHhCccCcC
Confidence 5689999999999999999998776654
No 488
>PRK14532 adenylate kinase; Provisional
Probab=89.31 E-value=0.27 Score=53.06 Aligned_cols=22 Identities=23% Similarity=0.439 Sum_probs=19.0
Q ss_pred EEEEccCCCChHHHHHHHHHHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.+|.|+|||||||+...+++.+
T Consensus 3 i~~~G~pGsGKsT~a~~la~~~ 24 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEER 24 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 6789999999999988887654
No 489
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=89.31 E-value=0.28 Score=50.87 Aligned_cols=22 Identities=23% Similarity=0.514 Sum_probs=18.9
Q ss_pred EEEEccCCCChHHHHHHHHHHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.+|.|+|||||||+...+.+.+
T Consensus 2 i~l~G~~GsGKST~a~~l~~~~ 23 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAERL 23 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhhc
Confidence 5789999999999988877763
No 490
>PRK05480 uridine/cytidine kinase; Provisional
Probab=89.29 E-value=0.46 Score=52.30 Aligned_cols=34 Identities=26% Similarity=0.235 Sum_probs=25.4
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
....|.|++||||||++..+...+ .+..|.+++.
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l--~~~~~~~i~~ 40 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEEL--GDESIAVIPQ 40 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh--CCCceEEEeC
Confidence 367899999999999998887776 3445555443
No 491
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=89.27 E-value=0.29 Score=51.08 Aligned_cols=20 Identities=40% Similarity=0.630 Sum_probs=17.8
Q ss_pred EEccCCCChHHHHHHHHHHH
Q 000698 965 ILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 965 I~GpPGTGKTttIa~lI~~L 984 (1345)
|.|||||||||....+...+
T Consensus 1 i~G~PgsGK~t~~~~la~~~ 20 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRY 20 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHHhc
Confidence 68999999999998888765
No 492
>CHL00095 clpC Clp protease ATP binding subunit
Probab=89.26 E-value=0.69 Score=61.53 Aligned_cols=30 Identities=20% Similarity=0.194 Sum_probs=24.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHhcCCeE
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLMRGASI 991 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~~gkkV 991 (1345)
.+++.||+|+|||+++..+++.|...+..+
T Consensus 541 ~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~ 570 (821)
T CHL00095 541 SFLFSGPTGVGKTELTKALASYFFGSEDAM 570 (821)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhcCCccce
Confidence 478999999999999999998887544443
No 493
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=89.24 E-value=0.48 Score=54.43 Aligned_cols=31 Identities=29% Similarity=0.455 Sum_probs=28.8
Q ss_pred EEEccCCCChHHHHHHHHHHHHhcCCeEEEE
Q 000698 964 LILGMPGTGKTSTMVHAVKALLMRGASILLT 994 (1345)
Q Consensus 964 LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvt 994 (1345)
.|.|-.|+||||+.+.++..|.+.|++||++
T Consensus 4 a~~gKGGVGKTT~a~nLA~~La~~G~~Vlli 34 (275)
T TIGR01287 4 AIYGKGGIGKSTTTQNIAAALAEMGKKVMIV 34 (275)
T ss_pred EEeCCCcCcHHHHHHHHHHHHHHCCCeEEEE
Confidence 4569999999999999999999999999997
No 494
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=89.24 E-value=0.77 Score=60.27 Aligned_cols=23 Identities=43% Similarity=0.499 Sum_probs=20.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHH
Q 000698 962 YALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.+++.||||||||+++..+.+.+
T Consensus 490 ~~Lf~GP~GvGKT~lAk~LA~~l 512 (758)
T PRK11034 490 SFLFAGPTGVGKTEVTVQLSKAL 512 (758)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 57999999999999998887776
No 495
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=89.22 E-value=0.65 Score=52.39 Aligned_cols=48 Identities=17% Similarity=0.301 Sum_probs=35.5
Q ss_pred eEEEEccCCCChHHHHHHHHHHHHh------------cCCeEEEEeccHHHHHHHHHHHhh
Q 000698 962 YALILGMPGTGKTSTMVHAVKALLM------------RGASILLTSYTNSAVDNLLIKLKS 1010 (1345)
Q Consensus 962 ~~LI~GpPGTGKTttIa~lI~~Ll~------------~gkkVLvtA~TnsAVDnLl~kL~~ 1010 (1345)
+.+|.|+||+|||+++..++..+.. .+.+||+.+.=..+ +.+..|+..
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~-~~i~~Rl~~ 62 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR-EEIHRRLEA 62 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH-HHHHHHHHH
Confidence 6799999999999999998876542 35688888864433 456666654
No 496
>PRK14530 adenylate kinase; Provisional
Probab=89.21 E-value=0.34 Score=53.68 Aligned_cols=24 Identities=29% Similarity=0.547 Sum_probs=20.9
Q ss_pred CeEEEEccCCCChHHHHHHHHHHH
Q 000698 961 DYALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~L 984 (1345)
...+|.|+|||||||++..+.+.+
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHh
Confidence 357899999999999998887776
No 497
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=89.18 E-value=0.8 Score=52.50 Aligned_cols=37 Identities=24% Similarity=0.295 Sum_probs=27.8
Q ss_pred HHHHHHHHHhc----CCeEEEEccCCCChHHHHHHHHHHHH
Q 000698 949 QRRAIIKVLTA----KDYALILGMPGTGKTSTMVHAVKALL 985 (1345)
Q Consensus 949 Q~~AI~~~l~~----~d~~LI~GpPGTGKTttIa~lI~~Ll 985 (1345)
..+.|...|.. .....|+|++|+|||+++.+.++...
T Consensus 4 ~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~ 44 (287)
T PF00931_consen 4 EIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLR 44 (287)
T ss_dssp HHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHH
T ss_pred HHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccc
Confidence 34555555554 34789999999999999999887744
No 498
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=89.10 E-value=0.3 Score=52.63 Aligned_cols=22 Identities=36% Similarity=0.603 Sum_probs=18.9
Q ss_pred EEEEccCCCChHHHHHHHHHHH
Q 000698 963 ALILGMPGTGKTSTMVHAVKAL 984 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~L 984 (1345)
.+|.|+|||||||++..+...+
T Consensus 2 I~i~G~pGsGKst~a~~La~~~ 23 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKKY 23 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 5899999999999988887764
No 499
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=89.09 E-value=0.77 Score=61.33 Aligned_cols=36 Identities=22% Similarity=0.243 Sum_probs=28.8
Q ss_pred CeEEEEccCCCChHHHHHHHHHHHHhcCCeEEEEec
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLMRGASILLTSY 996 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Ll~~gkkVLvtA~ 996 (1345)
..+++.||+|||||+++..+.+.+...+..++.+-.
T Consensus 596 ~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~ 631 (852)
T TIGR03346 596 GSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDM 631 (852)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEec
Confidence 358899999999999999999888776666665443
No 500
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=89.02 E-value=0.58 Score=60.05 Aligned_cols=59 Identities=20% Similarity=0.253 Sum_probs=40.4
Q ss_pred HHHHHHHHhcCCeEEEEccCCCChHHHHHHHHHHHHhcC-CeEEEEeccHHHHHHHHHHH
Q 000698 950 RRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG-ASILLTSYTNSAVDNLLIKL 1008 (1345)
Q Consensus 950 ~~AI~~~l~~~d~~LI~GpPGTGKTttIa~lI~~Ll~~g-kkVLvtA~TnsAVDnLl~kL 1008 (1345)
.+++..++......++.|+||||||+++..++..+-... ..+++...+.-....++..+
T Consensus 27 ~~~l~~a~~~~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~~~~v 86 (608)
T TIGR00764 27 VEIIKKAAKQKRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPRIVEV 86 (608)
T ss_pred HHHHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHHHHHH
Confidence 345556666667999999999999999988887664433 56666666544444444333
Done!