Query 000377
Match_columns 1605
No_of_seqs 485 out of 2710
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 06:24:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000377.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000377hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0386 Chromatin remodeling c 100.0 2E-147 4E-152 1345.9 55.8 767 816-1605 128-905 (1157)
2 KOG0385 Chromatin remodeling c 100.0 1E-107 2E-112 976.4 49.4 506 1077-1604 154-667 (971)
3 KOG0384 Chromodomain-helicase 100.0 5.2E-97 1E-101 917.3 37.6 503 1078-1605 358-886 (1373)
4 KOG0388 SNF2 family DNA-depend 100.0 3.3E-95 7E-100 856.0 40.9 592 947-1566 404-1182(1185)
5 KOG0391 SNF2 family DNA-depend 100.0 3E-92 6.5E-97 856.7 33.8 475 1081-1566 607-1415(1958)
6 KOG0389 SNF2 family DNA-depend 100.0 1.2E-89 2.5E-94 824.9 41.6 493 1079-1584 387-930 (941)
7 PLN03142 Probable chromatin-re 100.0 3.7E-88 8E-93 867.1 53.7 502 1079-1605 159-667 (1033)
8 KOG0387 Transcription-coupled 100.0 4.7E-86 1E-90 795.2 40.7 470 1082-1561 198-681 (923)
9 KOG0392 SNF2 family DNA-depend 100.0 1.1E-79 2.3E-84 758.6 42.9 467 1089-1563 974-1479(1549)
10 KOG0390 DNA repair protein, SN 100.0 3.3E-68 7.2E-73 658.1 41.1 473 1088-1568 236-737 (776)
11 COG0553 HepA Superfamily II DN 100.0 1.9E-64 4.2E-69 650.4 37.9 473 1081-1561 328-845 (866)
12 KOG1002 Nucleotide excision re 100.0 1.8E-64 3.9E-69 581.3 32.1 476 1080-1575 175-787 (791)
13 KOG4439 RNA polymerase II tran 100.0 7E-63 1.5E-67 587.5 33.5 476 1079-1577 315-899 (901)
14 KOG1015 Transcription regulato 100.0 6.2E-63 1.4E-67 594.7 32.6 489 1079-1572 658-1311(1567)
15 KOG1016 Predicted DNA helicase 100.0 8.6E-55 1.9E-59 516.4 29.7 481 1090-1577 254-888 (1387)
16 KOG1000 Chromatin remodeling p 100.0 5.1E-52 1.1E-56 480.5 32.0 420 1089-1559 197-624 (689)
17 PRK04914 ATP-dependent helicas 100.0 7.4E-52 1.6E-56 531.3 36.9 438 1089-1562 151-629 (956)
18 KOG0383 Predicted helicase [Ge 100.0 3.3E-49 7.1E-54 486.4 7.3 391 1080-1492 283-696 (696)
19 KOG1001 Helicase-like transcri 100.0 1.6E-47 3.4E-52 477.1 20.1 443 1093-1560 135-672 (674)
20 PF00176 SNF2_N: SNF2 family N 100.0 5.9E-40 1.3E-44 372.7 22.1 276 1094-1386 1-299 (299)
21 TIGR00603 rad25 DNA repair hel 100.0 5.2E-37 1.1E-41 384.2 35.6 384 1088-1585 253-663 (732)
22 PRK13766 Hef nuclease; Provisi 100.0 1.5E-34 3.3E-39 372.3 36.1 430 1089-1555 14-496 (773)
23 COG1111 MPH1 ERCC4-like helica 100.0 6.9E-30 1.5E-34 301.4 33.6 437 1089-1562 14-505 (542)
24 COG1061 SSL2 DNA or RNA helica 100.0 1.8E-28 4E-33 297.9 32.6 367 1087-1550 33-406 (442)
25 KOG0298 DEAD box-containing he 100.0 2.9E-30 6.2E-35 325.0 14.2 257 1109-1385 374-690 (1394)
26 PHA02558 uvsW UvsW helicase; P 100.0 1.3E-27 2.8E-32 294.7 33.1 340 1088-1540 112-457 (501)
27 KOG0354 DEAD-box like helicase 99.9 3.8E-25 8.3E-30 273.7 34.9 438 1088-1561 60-551 (746)
28 PTZ00110 helicase; Provisional 99.9 1.5E-25 3.2E-30 279.0 29.3 323 1089-1538 151-484 (545)
29 PRK11776 ATP-dependent RNA hel 99.9 4.4E-25 9.6E-30 269.3 30.3 318 1089-1538 25-349 (460)
30 PRK11192 ATP-dependent RNA hel 99.9 5.2E-25 1.1E-29 266.6 27.1 316 1089-1532 22-348 (434)
31 TIGR00614 recQ_fam ATP-depende 99.9 7.8E-25 1.7E-29 268.2 28.7 309 1089-1533 10-330 (470)
32 PRK10590 ATP-dependent RNA hel 99.9 7.2E-25 1.6E-29 267.5 27.6 327 1089-1549 22-361 (456)
33 PRK01297 ATP-dependent RNA hel 99.9 2.1E-24 4.6E-29 264.6 29.5 320 1089-1538 108-442 (475)
34 PLN00206 DEAD-box ATP-dependen 99.9 2.7E-24 5.9E-29 266.4 29.6 321 1089-1538 142-475 (518)
35 PRK04837 ATP-dependent RNA hel 99.9 1.7E-24 3.6E-29 261.7 26.2 317 1090-1537 30-361 (423)
36 PRK04537 ATP-dependent RNA hel 99.9 5.7E-24 1.2E-28 266.0 28.1 318 1089-1537 30-363 (572)
37 PRK11634 ATP-dependent RNA hel 99.9 6.6E-23 1.4E-27 258.5 35.9 312 1089-1529 27-345 (629)
38 PTZ00424 helicase 45; Provisio 99.9 8.4E-24 1.8E-28 252.6 26.3 320 1089-1538 49-374 (401)
39 TIGR01389 recQ ATP-dependent D 99.9 8.4E-24 1.8E-28 265.8 27.1 305 1089-1531 12-326 (591)
40 PRK11057 ATP-dependent DNA hel 99.9 1.1E-23 2.5E-28 265.2 27.9 305 1089-1531 24-338 (607)
41 KOG0331 ATP-dependent RNA heli 99.9 1.8E-23 3.8E-28 252.8 25.4 312 1090-1528 113-440 (519)
42 KOG0330 ATP-dependent RNA heli 99.9 2E-22 4.3E-27 231.4 24.7 321 1090-1541 83-410 (476)
43 PLN03137 ATP-dependent DNA hel 99.9 6.8E-22 1.5E-26 254.1 27.8 310 1089-1533 459-784 (1195)
44 KOG1123 RNA polymerase II tran 99.9 5.1E-22 1.1E-26 232.0 24.0 391 1088-1596 300-720 (776)
45 TIGR00643 recG ATP-dependent D 99.9 2.8E-21 6E-26 244.6 31.2 306 1089-1531 234-561 (630)
46 COG0513 SrmB Superfamily II DN 99.9 1.4E-21 3.1E-26 241.8 27.3 334 1089-1551 50-392 (513)
47 PRK13767 ATP-dependent helicas 99.9 6.3E-21 1.4E-25 248.7 34.6 328 1089-1533 31-395 (876)
48 PRK11448 hsdR type I restricti 99.9 3.4E-21 7.3E-26 254.0 31.3 360 1088-1536 411-816 (1123)
49 TIGR00580 mfd transcription-re 99.9 5.2E-21 1.1E-25 248.4 29.3 308 1088-1537 449-769 (926)
50 TIGR03817 DECH_helic helicase/ 99.9 1.2E-20 2.6E-25 242.2 31.6 335 1090-1546 36-394 (742)
51 PRK10917 ATP-dependent DNA hel 99.9 1.3E-20 2.7E-25 240.5 30.6 303 1089-1530 260-583 (681)
52 PRK10689 transcription-repair 99.9 4E-20 8.6E-25 244.7 28.8 304 1089-1530 599-913 (1147)
53 PRK02362 ski2-like helicase; P 99.9 6.4E-20 1.4E-24 236.2 28.3 322 1089-1537 22-396 (737)
54 PRK01172 ski2-like helicase; P 99.8 3.2E-19 6.9E-24 227.7 30.2 310 1089-1532 21-372 (674)
55 PRK00254 ski2-like helicase; P 99.8 7.9E-19 1.7E-23 225.6 29.0 322 1089-1539 22-389 (720)
56 TIGR01587 cas3_core CRISPR-ass 99.8 9E-19 1.9E-23 206.8 27.0 312 1112-1548 2-351 (358)
57 KOG0350 DEAD-box ATP-dependent 99.8 2.2E-19 4.8E-24 211.3 18.5 376 1089-1554 158-554 (620)
58 KOG0333 U5 snRNP-like RNA heli 99.8 2.1E-18 4.6E-23 203.8 21.7 342 1090-1538 267-624 (673)
59 COG0514 RecQ Superfamily II DN 99.8 1.2E-18 2.6E-23 214.5 20.4 310 1089-1534 16-335 (590)
60 COG1201 Lhr Lhr-like helicases 99.8 3.2E-17 6.8E-22 208.1 27.8 333 1089-1551 21-373 (814)
61 TIGR02621 cas3_GSU0051 CRISPR- 99.8 2E-17 4.3E-22 210.9 25.5 106 1424-1534 270-390 (844)
62 TIGR00348 hsdR type I site-spe 99.8 5.5E-17 1.2E-21 206.7 29.5 368 1089-1536 237-649 (667)
63 KOG0328 Predicted ATP-dependen 99.8 3.3E-18 7.2E-23 190.2 15.3 317 1094-1541 53-376 (400)
64 TIGR03714 secA2 accessory Sec 99.8 7.9E-17 1.7E-21 203.7 29.6 386 1090-1529 68-530 (762)
65 COG4096 HsdR Type I site-speci 99.8 7.4E-18 1.6E-22 209.1 19.7 357 1087-1536 162-546 (875)
66 KOG0338 ATP-dependent RNA heli 99.8 2.9E-17 6.3E-22 193.6 22.3 329 1089-1548 202-541 (691)
67 KOG0335 ATP-dependent RNA heli 99.8 2E-17 4.3E-22 198.1 20.7 326 1088-1533 94-441 (482)
68 KOG0345 ATP-dependent RNA heli 99.8 7E-17 1.5E-21 189.7 24.4 333 1089-1551 27-375 (567)
69 KOG0342 ATP-dependent RNA heli 99.8 6.4E-17 1.4E-21 191.2 23.8 332 1089-1549 103-446 (543)
70 KOG0348 ATP-dependent RNA heli 99.8 2.3E-17 5E-22 195.3 20.1 352 1090-1551 159-565 (708)
71 KOG0340 ATP-dependent RNA heli 99.8 7.5E-17 1.6E-21 184.4 22.9 312 1090-1528 29-353 (442)
72 PRK09751 putative ATP-dependen 99.7 3E-16 6.5E-21 209.7 29.2 96 1425-1523 243-371 (1490)
73 KOG0339 ATP-dependent RNA heli 99.7 8.7E-17 1.9E-21 189.2 20.6 319 1094-1541 249-578 (731)
74 PRK09200 preprotein translocas 99.7 2.1E-15 4.5E-20 192.5 34.6 118 1407-1529 409-534 (790)
75 KOG0343 RNA Helicase [RNA proc 99.7 1.6E-16 3.5E-21 188.7 22.5 333 1089-1552 90-435 (758)
76 COG1200 RecG RecG-like helicas 99.7 4.5E-16 9.7E-21 191.7 26.4 305 1089-1530 261-585 (677)
77 PRK12898 secA preprotein trans 99.7 2.4E-15 5.1E-20 188.6 32.7 130 1408-1547 455-592 (656)
78 PRK09401 reverse gyrase; Revie 99.7 4.8E-16 1E-20 206.7 27.0 329 1088-1524 78-432 (1176)
79 PHA02653 RNA helicase NPH-II; 99.7 7.5E-16 1.6E-20 195.1 27.3 329 1082-1541 152-517 (675)
80 TIGR00963 secA preprotein tran 99.7 8.4E-16 1.8E-20 193.6 25.8 118 1409-1531 388-512 (745)
81 TIGR03158 cas3_cyano CRISPR-as 99.7 2.7E-15 5.8E-20 178.7 27.4 85 1425-1521 271-357 (357)
82 KOG0341 DEAD-box protein abstr 99.7 4.4E-17 9.6E-22 186.6 10.6 324 1090-1546 192-536 (610)
83 COG1204 Superfamily II helicas 99.7 9E-16 2E-20 196.7 23.5 313 1090-1528 31-398 (766)
84 KOG0336 ATP-dependent RNA heli 99.7 4.4E-16 9.6E-21 179.6 17.3 331 1062-1528 222-564 (629)
85 COG1205 Distinct helicase fami 99.7 6.1E-15 1.3E-19 191.3 27.3 336 1090-1549 70-433 (851)
86 PF04851 ResIII: Type III rest 99.7 2.8E-16 6.2E-21 165.9 10.3 157 1089-1253 2-183 (184)
87 PRK05580 primosome assembly pr 99.7 6.4E-15 1.4E-19 188.3 24.1 367 1089-1536 143-549 (679)
88 TIGR01970 DEAH_box_HrpB ATP-de 99.6 1.1E-14 2.5E-19 188.2 26.0 107 1426-1538 209-336 (819)
89 cd00079 HELICc Helicase superf 99.6 1.1E-15 2.4E-20 153.0 12.7 120 1410-1532 12-131 (131)
90 KOG0347 RNA helicase [RNA proc 99.6 3E-15 6.5E-20 178.1 18.0 365 1090-1562 203-615 (731)
91 KOG0326 ATP-dependent RNA heli 99.6 2.1E-16 4.5E-21 178.3 7.6 321 1073-1536 98-427 (459)
92 KOG4284 DEAD box protein [Tran 99.6 3.4E-15 7.4E-20 179.5 18.1 313 1092-1527 49-370 (980)
93 KOG0346 RNA helicase [RNA proc 99.6 1E-14 2.3E-19 170.3 19.2 313 1095-1537 46-409 (569)
94 KOG0334 RNA helicase [RNA proc 99.6 8.2E-15 1.8E-19 185.8 18.9 319 1089-1537 386-719 (997)
95 TIGR01054 rgy reverse gyrase. 99.6 3.4E-14 7.4E-19 189.5 25.1 318 1088-1508 76-409 (1171)
96 PRK11664 ATP-dependent RNA hel 99.6 5.2E-14 1.1E-18 182.3 25.3 108 1425-1538 211-339 (812)
97 TIGR00595 priA primosomal prot 99.6 6.9E-14 1.5E-18 173.4 24.4 129 1113-1253 1-140 (505)
98 PRK14701 reverse gyrase; Provi 99.6 1.7E-14 3.6E-19 196.0 19.7 338 1088-1526 77-446 (1638)
99 COG4889 Predicted helicase [Ge 99.6 8.2E-15 1.8E-19 179.8 13.6 157 1089-1252 160-350 (1518)
100 PRK09694 helicase Cas3; Provis 99.6 1.9E-13 4E-18 177.3 25.4 109 1414-1526 549-665 (878)
101 KOG0344 ATP-dependent RNA heli 99.5 1.4E-13 2.9E-18 166.6 18.7 115 1409-1528 372-487 (593)
102 COG4098 comFA Superfamily II D 99.5 2E-12 4.3E-17 148.2 27.0 309 1088-1536 95-414 (441)
103 TIGR00631 uvrb excinuclease AB 99.5 1.3E-12 2.7E-17 166.3 28.2 133 1408-1546 424-563 (655)
104 KOG0332 ATP-dependent RNA heli 99.5 1.3E-13 2.7E-18 159.0 15.7 120 1411-1537 317-442 (477)
105 PRK13104 secA preprotein trans 99.5 2.6E-12 5.5E-17 164.5 29.1 121 1408-1533 426-584 (896)
106 smart00487 DEXDc DEAD-like hel 99.5 9.4E-14 2E-18 146.1 13.3 161 1088-1256 6-174 (201)
107 PRK12906 secA preprotein trans 99.5 3.3E-12 7.1E-17 162.8 28.1 119 1408-1531 422-548 (796)
108 cd00046 DEXDc DEAD-like helica 99.5 1E-13 2.2E-18 137.5 11.5 138 1111-1252 2-144 (144)
109 COG1197 Mfd Transcription-repa 99.5 3.2E-12 6.9E-17 165.3 27.6 309 1089-1537 593-912 (1139)
110 KOG0351 ATP-dependent DNA heli 99.5 3E-13 6.4E-18 175.3 17.6 313 1089-1536 263-592 (941)
111 PF00271 Helicase_C: Helicase 99.5 6.8E-14 1.5E-18 130.5 7.9 78 1444-1524 1-78 (78)
112 COG1202 Superfamily II helicas 99.5 4.5E-12 9.7E-17 152.0 24.9 314 1089-1538 215-553 (830)
113 PRK05298 excinuclease ABC subu 99.5 2.1E-11 4.4E-16 155.8 32.8 124 1408-1537 428-556 (652)
114 KOG0952 DNA/RNA helicase MER3/ 99.5 3.6E-12 7.8E-17 161.0 22.9 321 1091-1539 111-492 (1230)
115 PRK11131 ATP-dependent RNA hel 99.4 3.3E-12 7.1E-17 169.2 23.2 107 1425-1539 285-412 (1294)
116 KOG0327 Translation initiation 99.4 7.1E-13 1.5E-17 154.2 15.0 313 1092-1538 50-370 (397)
117 PRK13107 preprotein translocas 99.4 6.5E-11 1.4E-15 151.6 31.9 120 1408-1532 431-587 (908)
118 PRK12904 preprotein translocas 99.4 5.5E-11 1.2E-15 152.4 30.9 121 1408-1533 412-570 (830)
119 KOG0352 ATP-dependent DNA heli 99.4 5.3E-12 1.2E-16 147.2 19.2 325 1093-1534 23-360 (641)
120 TIGR01967 DEAH_box_HrpA ATP-de 99.4 2.5E-11 5.5E-16 161.4 23.0 108 1425-1540 278-406 (1283)
121 smart00490 HELICc helicase sup 99.3 2.6E-12 5.6E-17 118.4 8.8 81 1441-1524 2-82 (82)
122 KOG0337 ATP-dependent RNA heli 99.3 3.5E-12 7.5E-17 149.1 11.9 314 1093-1537 46-367 (529)
123 PRK12900 secA preprotein trans 99.3 1.9E-09 4.2E-14 138.8 36.9 116 1409-1529 581-704 (1025)
124 cd00268 DEADc DEAD-box helicas 99.3 1.1E-11 2.4E-16 135.0 14.2 157 1090-1253 21-185 (203)
125 PF00270 DEAD: DEAD/DEAH box h 99.3 7E-12 1.5E-16 131.7 11.6 159 1092-1258 1-167 (169)
126 KOG0353 ATP-dependent DNA heli 99.3 3.7E-10 8.1E-15 129.9 22.7 317 1089-1536 93-467 (695)
127 COG1203 CRISPR-associated heli 99.3 2.5E-10 5.4E-15 147.8 23.8 351 1089-1558 194-572 (733)
128 PRK12899 secA preprotein trans 99.3 2.7E-09 5.9E-14 137.2 32.1 119 1408-1532 550-677 (970)
129 TIGR01407 dinG_rel DnaQ family 99.2 7.6E-09 1.6E-13 136.4 32.3 110 1414-1529 661-807 (850)
130 COG0556 UvrB Helicase subunit 99.2 8.1E-09 1.8E-13 124.5 28.5 133 1411-1547 431-568 (663)
131 KOG0951 RNA helicase BRR2, DEA 99.1 1.3E-09 2.9E-14 139.6 19.3 179 1083-1272 302-502 (1674)
132 PRK12326 preprotein translocas 99.1 4E-08 8.8E-13 124.1 31.2 120 1408-1532 409-543 (764)
133 PRK13103 secA preprotein trans 99.0 2.5E-08 5.4E-13 128.4 25.0 122 1407-1533 430-588 (913)
134 COG4581 Superfamily II RNA hel 99.0 8.6E-09 1.9E-13 134.2 20.4 363 1087-1534 116-533 (1041)
135 COG1110 Reverse gyrase [DNA re 99.0 5.6E-08 1.2E-12 124.1 24.4 321 1088-1507 80-416 (1187)
136 KOG0947 Cytoplasmic exosomal R 98.9 2.5E-08 5.3E-13 125.9 20.0 363 1087-1537 294-722 (1248)
137 PF11496 HDA2-3: Class II hist 98.9 1.2E-08 2.5E-13 119.4 15.8 208 1335-1549 4-256 (297)
138 PRK12903 secA preprotein trans 98.9 4.7E-07 1E-11 116.0 30.2 120 1408-1532 408-535 (925)
139 TIGR00604 rad3 DNA repair heli 98.9 5.9E-07 1.3E-11 116.6 29.6 76 1086-1161 6-82 (705)
140 COG0610 Type I site-specific r 98.9 5.6E-08 1.2E-12 129.0 20.5 144 1109-1259 273-420 (962)
141 PRK08074 bifunctional ATP-depe 98.8 1.5E-06 3.2E-11 116.0 32.3 93 1413-1508 738-835 (928)
142 KOG0329 ATP-dependent RNA heli 98.8 1.8E-08 3.9E-13 112.2 11.2 129 1092-1227 66-198 (387)
143 PRK07246 bifunctional ATP-depe 98.8 2.2E-06 4.8E-11 112.7 30.8 89 1413-1507 634-724 (820)
144 KOG0349 Putative DEAD-box RNA 98.8 3.6E-08 7.9E-13 115.7 12.4 96 1425-1523 504-602 (725)
145 TIGR00596 rad1 DNA repair prot 98.7 2.1E-07 4.6E-12 121.0 19.3 78 1189-1267 6-89 (814)
146 TIGR03117 cas_csf4 CRISPR-asso 98.7 8.5E-06 1.8E-10 103.9 33.0 68 1095-1163 2-70 (636)
147 PRK12901 secA preprotein trans 98.6 3.7E-05 8E-10 100.5 33.7 119 1408-1532 610-737 (1112)
148 COG1199 DinG Rad3-related DNA 98.6 5.1E-06 1.1E-10 107.0 26.3 103 1424-1531 477-612 (654)
149 COG1198 PriA Primosomal protei 98.6 1.9E-06 4.1E-11 110.7 20.9 373 1089-1539 197-606 (730)
150 CHL00122 secA preprotein trans 98.6 2.8E-05 6.1E-10 100.7 30.9 84 1408-1495 406-490 (870)
151 KOG1513 Nuclear helicase MOP-3 98.6 1.6E-06 3.5E-11 107.8 18.5 184 1082-1274 257-472 (1300)
152 PRK11747 dinG ATP-dependent DN 98.6 2.9E-05 6.2E-10 101.0 30.5 90 1412-1508 520-616 (697)
153 PF13872 AAA_34: P-loop contai 98.5 8.5E-07 1.8E-11 103.2 11.8 234 1086-1353 33-302 (303)
154 KOG0949 Predicted helicase, DE 98.5 0.00043 9.3E-09 89.1 35.6 165 1089-1265 510-682 (1330)
155 KOG0948 Nuclear exosomal RNA h 98.4 2E-06 4.4E-11 107.0 15.0 155 1089-1284 128-288 (1041)
156 COG1643 HrpA HrpA-like helicas 98.4 1.5E-05 3.3E-10 103.9 20.9 110 1426-1541 259-390 (845)
157 KOG0922 DEAH-box RNA helicase 98.3 6.4E-05 1.4E-09 94.1 22.5 111 1427-1540 259-392 (674)
158 PRK15483 type III restriction- 98.3 7.3E-06 1.6E-10 107.4 14.9 172 1110-1288 60-278 (986)
159 PRK12902 secA preprotein trans 98.3 0.00048 1E-08 89.7 30.6 84 1408-1495 421-505 (939)
160 KOG0920 ATP-dependent RNA heli 98.3 4E-05 8.7E-10 100.0 20.9 126 1411-1542 396-548 (924)
161 PF07652 Flavi_DEAD: Flaviviru 98.1 7E-06 1.5E-10 86.7 7.8 125 1112-1252 7-136 (148)
162 KOG0950 DNA polymerase theta/e 98.1 5.9E-05 1.3E-09 97.1 17.0 154 1090-1256 223-391 (1008)
163 PF02399 Herpes_ori_bp: Origin 98.0 0.00012 2.5E-09 94.3 18.7 112 1411-1533 268-385 (824)
164 smart00489 DEXDc3 DEAD-like he 98.0 2.7E-05 5.9E-10 91.3 11.1 73 1089-1161 7-83 (289)
165 smart00488 DEXDc2 DEAD-like he 98.0 2.7E-05 5.9E-10 91.3 11.1 73 1089-1161 7-83 (289)
166 PF07529 HSA: HSA; InterPro: 98.0 1.6E-05 3.5E-10 74.4 6.8 70 914-983 4-73 (73)
167 KOG0923 mRNA splicing factor A 98.0 0.0026 5.6E-08 79.7 26.9 80 1451-1538 507-606 (902)
168 KOG0924 mRNA splicing factor A 97.9 0.00032 6.9E-09 87.4 18.3 93 1450-1545 597-704 (1042)
169 PF13871 Helicase_C_4: Helicas 97.9 3.5E-05 7.5E-10 89.6 9.0 92 1467-1561 52-151 (278)
170 COG0653 SecA Preprotein transl 97.9 0.002 4.3E-08 83.8 25.0 114 1407-1525 410-534 (822)
171 smart00573 HSA domain in helic 97.8 6.7E-05 1.4E-09 71.0 7.5 69 915-983 5-73 (73)
172 PF13086 AAA_11: AAA domain; P 97.8 0.00018 4E-09 79.0 12.1 68 1090-1161 1-75 (236)
173 TIGR02562 cas3_yersinia CRISPR 97.7 0.016 3.5E-07 77.2 29.4 47 1479-1528 838-884 (1110)
174 KOG0926 DEAH-box RNA helicase 97.5 0.00056 1.2E-08 86.6 11.0 79 1453-1537 607-703 (1172)
175 PRK10536 hypothetical protein; 97.4 0.00023 5E-09 82.0 7.0 144 1091-1257 60-217 (262)
176 PF02562 PhoH: PhoH-like prote 97.3 0.0013 2.7E-08 74.0 10.1 147 1091-1258 5-161 (205)
177 KOG0953 Mitochondrial RNA heli 97.2 0.0014 3.1E-08 80.7 10.7 101 1424-1528 356-466 (700)
178 COG3587 Restriction endonuclea 97.1 0.0018 3.8E-08 83.2 9.5 169 1105-1287 70-268 (985)
179 PF09848 DUF2075: Uncharacteri 96.5 0.0065 1.4E-07 73.2 8.6 93 1112-1228 4-97 (352)
180 PF13604 AAA_30: AAA domain; P 96.5 0.015 3.2E-07 64.8 10.6 126 1090-1254 1-132 (196)
181 PF07517 SecA_DEAD: SecA DEAD- 96.5 0.022 4.8E-07 66.5 12.3 123 1088-1226 75-209 (266)
182 PF13307 Helicase_C_2: Helicas 96.5 0.01 2.2E-07 64.3 8.9 81 1423-1508 6-92 (167)
183 KOG0925 mRNA splicing factor A 96.5 0.033 7.2E-07 68.3 13.7 59 1480-1540 314-389 (699)
184 KOG1802 RNA helicase nonsense 96.4 0.014 3E-07 73.4 10.5 132 1089-1232 409-586 (935)
185 PRK14873 primosome assembly pr 96.3 0.018 3.9E-07 74.9 11.6 123 1119-1252 170-303 (665)
186 KOG1132 Helicase of the DEAD s 96.3 0.019 4.2E-07 74.4 11.2 40 1089-1128 20-59 (945)
187 COG0553 HepA Superfamily II DN 96.3 0.0017 3.7E-08 85.8 1.8 183 1089-1274 83-289 (866)
188 KOG1131 RNA polymerase II tran 96.3 0.0085 1.8E-07 73.6 7.3 71 1080-1150 6-76 (755)
189 KOG4150 Predicted ATP-dependen 96.2 0.022 4.7E-07 70.4 10.4 114 1409-1525 508-629 (1034)
190 TIGR00376 DNA helicase, putati 96.1 0.049 1.1E-06 70.9 13.8 67 1089-1161 156-223 (637)
191 KOG1803 DNA helicase [Replicat 96.1 0.012 2.5E-07 74.0 7.6 64 1089-1158 184-248 (649)
192 cd00009 AAA The AAA+ (ATPases 95.6 0.051 1.1E-06 54.5 8.9 55 1097-1154 5-61 (151)
193 PF13401 AAA_22: AAA domain; P 95.5 0.017 3.8E-07 58.6 4.8 115 1109-1252 4-125 (131)
194 PF13892 DBINO: DNA-binding do 95.0 0.48 1E-05 50.4 13.8 73 944-1020 62-134 (139)
195 TIGR01448 recD_rel helicase, p 94.9 0.13 2.9E-06 67.9 11.6 134 1088-1254 321-454 (720)
196 TIGR01447 recD exodeoxyribonuc 94.7 0.12 2.5E-06 66.8 9.9 141 1093-1254 148-297 (586)
197 PRK07764 DNA polymerase III su 94.2 0.52 1.1E-05 63.2 14.6 41 1095-1135 20-63 (824)
198 COG1875 NYN ribonuclease and A 94.1 0.17 3.6E-06 61.1 8.7 146 1092-1255 230-390 (436)
199 PRK10875 recD exonuclease V su 93.6 0.24 5.2E-06 64.3 9.6 143 1091-1254 153-303 (615)
200 PRK04296 thymidine kinase; Pro 93.5 0.14 3.1E-06 56.7 6.6 34 1112-1148 5-38 (190)
201 KOG1133 Helicase of the DEAD s 93.5 3.4 7.3E-05 53.6 18.9 77 1427-1509 630-721 (821)
202 PRK12723 flagellar biosynthesi 93.5 1.4 3.1E-05 54.4 15.6 154 1111-1290 176-346 (388)
203 COG3421 Uncharacterized protei 93.5 0.047 1E-06 68.4 2.9 107 1115-1227 3-125 (812)
204 smart00382 AAA ATPases associa 93.4 0.14 3.1E-06 50.6 5.8 46 1110-1158 3-48 (148)
205 KOG0951 RNA helicase BRR2, DEA 93.3 0.15 3.4E-06 68.3 7.3 111 1104-1230 1154-1269(1674)
206 PRK07003 DNA polymerase III su 93.3 0.24 5.1E-06 65.0 8.9 40 1095-1134 21-63 (830)
207 TIGR02881 spore_V_K stage V sp 93.3 0.22 4.7E-06 57.8 7.8 26 1110-1135 43-68 (261)
208 PRK14956 DNA polymerase III su 93.1 0.27 5.8E-06 61.9 8.7 40 1095-1134 23-65 (484)
209 PLN03025 replication factor C 92.7 0.76 1.7E-05 54.9 11.4 40 1095-1134 18-59 (319)
210 KOG1805 DNA replication helica 92.4 0.34 7.4E-06 64.0 8.5 126 1090-1228 669-810 (1100)
211 PRK12402 replication factor C 91.9 0.44 9.6E-06 56.4 8.1 40 1095-1134 20-61 (337)
212 PRK09112 DNA polymerase III su 91.5 0.89 1.9E-05 55.4 10.3 41 1095-1135 28-71 (351)
213 PRK14949 DNA polymerase III su 91.3 0.7 1.5E-05 61.8 9.6 41 1095-1135 21-64 (944)
214 PRK06526 transposase; Provisio 91.2 0.6 1.3E-05 54.4 8.1 36 1097-1136 90-125 (254)
215 smart00492 HELICc3 helicase su 91.2 1.3 2.7E-05 47.4 9.8 53 1453-1508 25-79 (141)
216 PF06862 DUF1253: Protein of u 91.0 2.9 6.3E-05 52.4 14.0 127 1409-1537 280-414 (442)
217 PF13177 DNA_pol3_delta2: DNA 90.8 0.77 1.7E-05 49.8 8.0 141 1095-1258 2-147 (162)
218 PRK12323 DNA polymerase III su 90.4 0.76 1.6E-05 59.8 8.5 41 1095-1135 21-64 (700)
219 PRK07994 DNA polymerase III su 90.4 1.4 3.1E-05 57.5 11.1 42 1095-1136 21-65 (647)
220 smart00491 HELICc2 helicase su 90.1 1.2 2.6E-05 47.6 8.5 54 1454-1508 23-80 (142)
221 PRK07952 DNA replication prote 90.0 4.7 0.0001 47.0 13.8 61 1093-1160 79-143 (244)
222 KOG0989 Replication factor C, 89.6 0.85 1.8E-05 54.3 7.4 42 1094-1135 40-83 (346)
223 PF00448 SRP54: SRP54-type pro 89.5 1.3 2.7E-05 49.8 8.5 131 1113-1267 5-140 (196)
224 PRK08181 transposase; Validate 89.4 2.3 5E-05 50.2 10.9 46 1091-1136 88-133 (269)
225 TIGR03420 DnaA_homol_Hda DnaA 89.2 1.4 3E-05 49.4 8.6 27 1109-1135 38-64 (226)
226 TIGR03015 pepcterm_ATPase puta 88.8 2 4.4E-05 49.4 9.7 40 1092-1131 25-65 (269)
227 CHL00181 cbbX CbbX; Provisiona 88.7 0.42 9.2E-06 56.6 4.3 27 1110-1136 60-86 (287)
228 PRK14958 DNA polymerase III su 88.7 1.9 4.1E-05 55.2 10.2 41 1095-1135 21-64 (509)
229 PRK14960 DNA polymerase III su 88.7 1.3 2.9E-05 57.7 8.9 40 1095-1134 20-62 (702)
230 PRK14961 DNA polymerase III su 88.6 2.4 5.2E-05 51.8 10.7 40 1095-1134 21-63 (363)
231 PHA02533 17 large terminase pr 88.4 5.7 0.00012 51.2 14.2 57 1089-1150 58-114 (534)
232 PF13245 AAA_19: Part of AAA d 88.4 0.96 2.1E-05 43.4 5.7 42 1111-1152 12-54 (76)
233 PRK08769 DNA polymerase III su 88.3 2.2 4.7E-05 51.6 9.9 48 1089-1136 3-53 (319)
234 PRK14952 DNA polymerase III su 88.1 1.6 3.4E-05 56.7 9.1 41 1095-1135 18-61 (584)
235 TIGR02880 cbbX_cfxQ probable R 88.1 0.48 1E-05 55.9 4.2 39 1109-1147 58-97 (284)
236 TIGR02768 TraA_Ti Ti-type conj 88.0 2.2 4.7E-05 57.0 10.6 59 1088-1152 350-408 (744)
237 PRK06835 DNA replication prote 87.8 3 6.6E-05 50.5 10.7 48 1089-1136 159-210 (329)
238 PTZ00112 origin recognition co 87.8 3.9 8.4E-05 54.9 12.1 51 1082-1135 753-807 (1164)
239 PF13173 AAA_14: AAA domain 87.7 2.5 5.5E-05 43.7 8.7 38 1214-1252 61-98 (128)
240 PRK05703 flhF flagellar biosyn 87.7 5 0.00011 50.3 12.8 56 1214-1269 299-359 (424)
241 PRK08116 hypothetical protein; 87.7 2.9 6.2E-05 49.2 10.2 36 1109-1147 114-149 (268)
242 TIGR02928 orc1/cdc6 family rep 87.5 3.1 6.7E-05 50.2 10.7 45 1091-1135 19-66 (365)
243 PRK13889 conjugal transfer rel 87.2 2.8 6.2E-05 57.3 11.0 129 1088-1255 344-473 (988)
244 PRK14963 DNA polymerase III su 87.2 1.8 3.9E-05 55.3 8.7 42 1095-1136 19-63 (504)
245 PF06733 DEAD_2: DEAD_2; Inte 87.0 0.31 6.8E-06 53.0 1.7 40 1189-1228 118-159 (174)
246 PRK07940 DNA polymerase III su 86.9 1.6 3.5E-05 54.1 7.9 41 1095-1135 10-62 (394)
247 PHA02544 44 clamp loader, smal 86.8 2.5 5.3E-05 50.1 9.1 40 1214-1253 100-141 (316)
248 PF00580 UvrD-helicase: UvrD/R 86.6 1.1 2.3E-05 52.1 5.8 56 1091-1152 1-57 (315)
249 PRK14951 DNA polymerase III su 86.5 2 4.4E-05 56.0 8.8 41 1095-1135 21-64 (618)
250 PRK14957 DNA polymerase III su 86.0 3.1 6.7E-05 53.7 9.9 41 1095-1135 21-64 (546)
251 PRK08691 DNA polymerase III su 85.9 2.9 6.3E-05 55.0 9.7 40 1095-1134 21-63 (709)
252 PRK06645 DNA polymerase III su 85.7 3.3 7.1E-05 53.0 9.8 41 1095-1135 26-69 (507)
253 PF12340 DUF3638: Protein of u 85.6 0.83 1.8E-05 52.6 4.2 72 1088-1162 21-92 (229)
254 PRK08727 hypothetical protein; 85.6 5.1 0.00011 46.0 10.6 24 1112-1135 44-67 (233)
255 TIGR00595 priA primosomal prot 85.4 5.4 0.00012 51.1 11.6 95 1407-1505 6-101 (505)
256 PRK05707 DNA polymerase III su 85.3 3.7 7.9E-05 49.8 9.6 46 1090-1136 3-49 (328)
257 PF05876 Terminase_GpA: Phage 85.3 0.59 1.3E-05 60.2 3.1 165 1089-1265 15-192 (557)
258 PRK14948 DNA polymerase III su 85.2 4.1 8.8E-05 53.4 10.6 41 1095-1135 21-64 (620)
259 PRK14962 DNA polymerase III su 84.2 1.6 3.5E-05 55.2 6.3 23 1112-1134 39-61 (472)
260 PRK08451 DNA polymerase III su 84.1 4.6 0.0001 52.0 10.2 41 1095-1135 19-62 (535)
261 PRK05580 primosome assembly pr 84.0 6.7 0.00014 52.0 12.0 95 1407-1505 171-266 (679)
262 PRK00440 rfc replication facto 84.0 6.2 0.00013 46.4 10.6 39 1095-1133 22-62 (319)
263 TIGR00362 DnaA chromosomal rep 84.0 5.6 0.00012 49.2 10.7 42 1095-1136 118-163 (405)
264 PRK00149 dnaA chromosomal repl 83.9 4.6 0.0001 50.7 10.0 43 1094-1136 129-175 (450)
265 KOG0991 Replication factor C, 83.8 1.4 3E-05 50.8 4.8 27 1108-1134 47-73 (333)
266 PRK08084 DNA replication initi 83.6 5 0.00011 46.1 9.4 38 1097-1134 31-70 (235)
267 KOG0442 Structure-specific end 83.5 23 0.0005 47.3 15.9 145 1090-1252 13-164 (892)
268 PRK14950 DNA polymerase III su 83.4 5.3 0.00011 52.1 10.5 40 1095-1134 21-63 (585)
269 PRK14964 DNA polymerase III su 83.3 5.6 0.00012 50.7 10.4 41 1095-1135 18-61 (491)
270 PRK09111 DNA polymerase III su 83.3 4.2 9.1E-05 53.1 9.5 42 1095-1136 29-73 (598)
271 PRK04195 replication factor C 83.2 5 0.00011 50.9 10.1 25 1109-1133 39-63 (482)
272 PRK11889 flhF flagellar biosyn 83.1 14 0.0003 46.3 13.2 147 1112-1289 244-410 (436)
273 KOG1029 Endocytic adaptor prot 82.4 1.5E+02 0.0032 39.7 21.7 22 431-452 114-135 (1118)
274 PRK14955 DNA polymerase III su 82.4 9.7 0.00021 47.2 11.8 41 1095-1135 21-64 (397)
275 PRK00411 cdc6 cell division co 82.2 7.4 0.00016 47.5 10.7 45 1092-1136 35-82 (394)
276 PRK12727 flagellar biosynthesi 81.6 26 0.00057 45.3 15.2 38 1109-1147 350-387 (559)
277 PRK14974 cell division protein 81.6 9.6 0.00021 46.5 11.1 34 1112-1148 143-176 (336)
278 PRK14722 flhF flagellar biosyn 81.5 14 0.0003 45.8 12.5 126 1109-1264 137-269 (374)
279 PRK08058 DNA polymerase III su 81.5 4.2 9E-05 49.2 8.0 43 1094-1136 10-55 (329)
280 KOG0952 DNA/RNA helicase MER3/ 81.1 1.4 3E-05 59.1 4.0 116 1105-1229 939-1061(1230)
281 PHA03368 DNA packaging termina 80.9 17 0.00038 47.8 13.3 143 1112-1269 257-418 (738)
282 PRK05563 DNA polymerase III su 80.7 9.4 0.0002 49.6 11.2 40 1095-1134 21-63 (559)
283 PF05621 TniB: Bacterial TniB 80.5 6.6 0.00014 47.1 9.0 44 1209-1252 140-189 (302)
284 PRK14969 DNA polymerase III su 80.5 7.1 0.00015 50.3 10.0 40 1095-1134 21-63 (527)
285 PRK14088 dnaA chromosomal repl 80.5 15 0.00033 46.3 12.7 35 1112-1147 133-167 (440)
286 COG0470 HolB ATPase involved i 80.3 3 6.6E-05 49.0 6.2 26 1112-1137 27-52 (325)
287 PRK06871 DNA polymerase III su 80.1 6.8 0.00015 47.6 9.1 48 1090-1137 2-52 (325)
288 COG3267 ExeA Type II secretory 79.6 9.8 0.00021 44.7 9.7 47 1111-1161 53-105 (269)
289 PRK10917 ATP-dependent DNA hel 79.4 10 0.00022 50.4 11.2 95 1408-1505 292-391 (681)
290 PRK14959 DNA polymerase III su 79.4 7.3 0.00016 51.0 9.6 41 1095-1135 21-64 (624)
291 PRK14087 dnaA chromosomal repl 79.3 6.9 0.00015 49.5 9.2 37 1112-1149 144-180 (450)
292 PRK07993 DNA polymerase III su 79.3 4.9 0.00011 48.8 7.6 47 1090-1136 2-51 (334)
293 PRK14086 dnaA chromosomal repl 79.0 8.9 0.00019 50.1 10.1 24 1112-1135 317-340 (617)
294 PRK06893 DNA replication initi 79.0 9.9 0.00021 43.5 9.6 25 1112-1136 42-66 (229)
295 PRK14965 DNA polymerase III su 78.9 8.6 0.00019 50.1 10.1 41 1095-1135 21-64 (576)
296 PRK07471 DNA polymerase III su 78.6 3.6 7.8E-05 50.6 6.3 43 1095-1137 24-69 (365)
297 PF00004 AAA: ATPase family as 78.2 6 0.00013 39.9 6.8 36 1113-1154 2-37 (132)
298 TIGR02688 conserved hypothetic 78.0 5 0.00011 50.2 7.2 40 1093-1132 193-232 (449)
299 PRK08903 DnaA regulatory inact 77.3 9.5 0.00021 43.1 8.8 26 1109-1134 42-67 (227)
300 PRK06647 DNA polymerase III su 77.3 7 0.00015 50.8 8.6 41 1095-1135 21-64 (563)
301 PRK00080 ruvB Holliday junctio 77.2 20 0.00043 43.2 11.9 51 1083-1133 21-75 (328)
302 TIGR03345 VI_ClpV1 type VI sec 77.1 9.7 0.00021 51.8 10.2 39 1095-1133 192-232 (852)
303 PRK06090 DNA polymerase III su 77.0 15 0.00032 44.6 10.7 48 1090-1137 3-53 (319)
304 cd01120 RecA-like_NTPases RecA 77.0 7.7 0.00017 40.1 7.4 35 1113-1150 3-37 (165)
305 PRK13342 recombination factor 76.4 8.8 0.00019 47.8 8.9 21 1111-1131 38-58 (413)
306 PF00308 Bac_DnaA: Bacterial d 76.4 17 0.00037 41.5 10.5 37 1214-1250 97-137 (219)
307 PHA03333 putative ATPase subun 75.8 18 0.00038 47.9 11.3 148 1093-1253 172-332 (752)
308 cd01121 Sms Sms (bacterial rad 75.5 13 0.00028 46.0 9.8 43 1112-1157 85-127 (372)
309 KOG0921 Dosage compensation co 75.4 15 0.00032 49.2 10.5 140 1103-1252 387-535 (1282)
310 PRK07399 DNA polymerase III su 75.0 17 0.00037 43.9 10.5 42 1095-1136 9-53 (314)
311 PRK05896 DNA polymerase III su 74.7 16 0.00035 47.8 10.8 41 1095-1135 21-64 (605)
312 PRK12377 putative replication 74.7 21 0.00045 41.9 10.8 26 1110-1135 102-127 (248)
313 PHA03372 DNA packaging termina 74.4 3 6.5E-05 53.8 4.1 111 1105-1229 199-314 (668)
314 KOG1029 Endocytic adaptor prot 74.1 1.1E+02 0.0024 40.9 17.2 17 1210-1226 710-726 (1118)
315 PRK12422 chromosomal replicati 73.9 8.1 0.00018 48.8 7.7 33 1112-1147 144-176 (445)
316 PRK13826 Dtr system oriT relax 73.9 16 0.00035 50.8 11.0 128 1089-1255 380-508 (1102)
317 PRK10865 protein disaggregatio 73.6 10 0.00022 51.6 9.1 40 1095-1134 183-224 (857)
318 PRK07133 DNA polymerase III su 73.2 14 0.00031 49.1 10.0 41 1095-1135 23-66 (725)
319 PRK09183 transposase/IS protei 73.2 14 0.00031 43.2 9.1 28 1107-1134 100-127 (259)
320 PF01443 Viral_helicase1: Vira 73.1 4.8 0.0001 45.2 5.0 41 1213-1256 61-101 (234)
321 PTZ00293 thymidine kinase; Pro 73.0 11 0.00024 43.2 7.7 35 1113-1150 8-42 (211)
322 PRK04132 replication factor C 72.7 7.5 0.00016 52.5 7.4 49 1214-1262 630-679 (846)
323 PRK05642 DNA replication initi 72.5 20 0.00043 41.3 9.9 37 1215-1251 98-138 (234)
324 PRK12726 flagellar biosynthesi 72.3 1.2E+02 0.0027 38.1 16.8 44 1112-1158 209-256 (407)
325 PRK14953 DNA polymerase III su 71.6 20 0.00043 45.9 10.5 40 1095-1134 21-63 (486)
326 PRK05986 cob(I)alamin adenolsy 71.4 20 0.00042 40.6 9.1 134 1109-1267 22-169 (191)
327 COG1484 DnaC DNA replication p 71.2 23 0.00051 41.5 10.2 64 1093-1159 89-152 (254)
328 TIGR00643 recG ATP-dependent D 70.7 21 0.00045 47.1 10.7 96 1408-1505 266-365 (630)
329 PRK14954 DNA polymerase III su 70.5 14 0.00031 48.5 9.1 41 1095-1135 21-64 (620)
330 TIGR03689 pup_AAA proteasome A 70.3 15 0.00032 47.3 8.8 25 1109-1133 216-240 (512)
331 PRK06964 DNA polymerase III su 70.0 24 0.00052 43.3 10.2 47 1091-1137 2-49 (342)
332 TIGR03346 chaperone_ClpB ATP-d 69.9 13 0.00028 50.7 8.8 40 1095-1134 178-219 (852)
333 PRK06305 DNA polymerase III su 68.5 12 0.00027 47.2 7.7 41 1095-1135 22-65 (451)
334 TIGR02640 gas_vesic_GvpN gas v 68.0 13 0.00029 43.4 7.3 50 1092-1147 4-53 (262)
335 KOG0739 AAA+-type ATPase [Post 67.4 1.3E+02 0.0028 36.6 14.8 46 1111-1162 168-213 (439)
336 PF13191 AAA_16: AAA ATPase do 67.1 11 0.00024 40.3 6.0 45 1092-1136 5-51 (185)
337 cd00984 DnaB_C DnaB helicase C 67.1 7.5 0.00016 44.1 5.0 40 1109-1150 13-52 (242)
338 PRK14873 primosome assembly pr 66.6 24 0.00052 46.9 10.0 94 1408-1505 170-265 (665)
339 PF01695 IstB_IS21: IstB-like 66.4 12 0.00026 41.4 6.2 38 1107-1147 45-82 (178)
340 TIGR02397 dnaX_nterm DNA polym 66.2 19 0.00041 43.3 8.3 40 1095-1134 19-61 (355)
341 PRK14721 flhF flagellar biosyn 65.8 67 0.0014 40.6 13.1 76 1214-1290 269-360 (420)
342 TIGR02639 ClpA ATP-dependent C 65.6 15 0.00033 49.1 8.1 28 1108-1135 202-229 (731)
343 TIGR00678 holB DNA polymerase 65.4 21 0.00045 39.2 7.8 25 1112-1136 17-41 (188)
344 CHL00095 clpC Clp protease ATP 65.3 15 0.00033 49.8 8.1 27 1108-1134 199-225 (821)
345 COG1419 FlhF Flagellar GTP-bin 65.1 1.1E+02 0.0023 38.6 14.3 130 1109-1269 203-340 (407)
346 PRK08760 replicative DNA helic 65.0 1.3E+02 0.0027 38.8 15.5 63 1098-1162 218-280 (476)
347 PRK08506 replicative DNA helic 64.9 1.7E+02 0.0036 37.6 16.6 58 1097-1157 180-237 (472)
348 PRK10919 ATP-dependent DNA hel 64.8 7.9 0.00017 51.3 5.2 55 1090-1150 2-57 (672)
349 TIGR00665 DnaB replicative DNA 64.8 1.5E+02 0.0033 37.1 16.1 55 1098-1154 184-238 (434)
350 PRK06995 flhF flagellar biosyn 64.7 37 0.00081 43.5 10.7 24 1113-1136 260-283 (484)
351 TIGR00708 cobA cob(I)alamin ad 64.3 6.1 0.00013 43.9 3.4 56 1209-1267 92-151 (173)
352 TIGR00580 mfd transcription-re 63.8 34 0.00074 47.2 10.8 95 1408-1504 482-580 (926)
353 KOG0780 Signal recognition par 63.2 38 0.00083 42.1 9.8 96 1113-1232 105-201 (483)
354 COG1702 PhoH Phosphate starvat 63.1 11 0.00023 46.0 5.3 47 1091-1141 129-175 (348)
355 TIGR01817 nifA Nif-specific re 63.1 96 0.0021 40.1 14.3 49 1104-1155 214-262 (534)
356 cd01122 GP4d_helicase GP4d_hel 63.0 35 0.00077 39.5 9.5 41 1108-1150 29-69 (271)
357 PF08880 QLQ: QLQ; InterPro: 62.6 7 0.00015 33.0 2.6 27 461-487 2-29 (37)
358 CHL00206 ycf2 Ycf2; Provisiona 62.2 17 0.00037 52.7 7.6 41 1109-1155 1630-1670(2281)
359 PRK11054 helD DNA helicase IV; 62.0 12 0.00027 49.6 6.2 68 1089-1162 195-264 (684)
360 PRK10867 signal recognition pa 61.7 33 0.00072 43.4 9.5 35 1112-1148 103-137 (433)
361 TIGR02974 phageshock_pspF psp 61.4 69 0.0015 39.0 11.9 53 1099-1154 12-64 (329)
362 PRK13709 conjugal transfer nic 61.0 41 0.00088 49.2 11.1 62 1089-1152 966-1028(1747)
363 PRK10923 glnG nitrogen regulat 60.6 1.3E+02 0.0029 37.8 14.6 45 1104-1151 156-200 (469)
364 COG2812 DnaX DNA polymerase II 60.4 11 0.00023 48.4 5.0 39 1095-1133 21-62 (515)
365 PRK11823 DNA repair protein Ra 60.0 27 0.00058 44.2 8.4 46 1112-1160 83-128 (446)
366 PF00265 TK: Thymidine kinase; 59.8 30 0.00066 38.5 7.8 35 1113-1150 5-39 (176)
367 cd01124 KaiC KaiC is a circadi 59.6 17 0.00037 39.3 5.8 48 1112-1162 2-49 (187)
368 PF02456 Adeno_IVa2: Adenoviru 59.1 22 0.00048 42.9 6.8 97 1111-1225 89-207 (369)
369 PRK14712 conjugal transfer nic 58.5 38 0.00083 48.9 10.1 61 1090-1152 835-896 (1623)
370 COG1198 PriA Primosomal protei 58.4 21 0.00045 47.8 7.2 95 1406-1504 225-320 (730)
371 CHL00176 ftsH cell division pr 58.4 49 0.0011 43.9 10.5 23 1109-1131 216-238 (638)
372 PRK08699 DNA polymerase III su 58.3 44 0.00095 40.7 9.4 45 1091-1135 2-47 (325)
373 KOG2543 Origin recognition com 58.0 1.4E+02 0.0031 37.3 13.4 146 1089-1255 8-161 (438)
374 TIGR02903 spore_lon_C ATP-depe 57.7 1.4E+02 0.003 39.6 14.5 21 1110-1130 176-196 (615)
375 COG0464 SpoVK ATPases of the A 57.4 14 0.0003 46.9 5.4 48 1109-1162 276-323 (494)
376 PRK13833 conjugal transfer pro 57.3 22 0.00048 43.2 6.7 44 1088-1134 126-169 (323)
377 TIGR01243 CDC48 AAA family ATP 57.2 22 0.00047 47.7 7.2 42 1109-1156 487-528 (733)
378 TIGR01074 rep ATP-dependent DN 57.1 15 0.00032 48.5 5.6 64 1091-1160 2-67 (664)
379 PRK11034 clpA ATP-dependent Cl 57.0 32 0.00069 46.5 8.6 27 1108-1134 206-232 (758)
380 PRK06904 replicative DNA helic 56.8 61 0.0013 41.5 10.8 60 1098-1159 210-269 (472)
381 PRK14971 DNA polymerase III su 56.6 92 0.002 41.2 12.6 40 1095-1134 22-64 (614)
382 PTZ00266 NIMA-related protein 56.5 98 0.0021 43.2 13.1 44 460-503 113-161 (1021)
383 COG2256 MGS1 ATPase related to 56.3 9.8 0.00021 47.2 3.5 17 1111-1127 50-66 (436)
384 PHA00012 I assembly protein 56.3 32 0.0007 42.0 7.6 24 1113-1136 5-28 (361)
385 PRK10689 transcription-repair 56.2 59 0.0013 46.0 11.3 94 1408-1503 631-728 (1147)
386 PRK14970 DNA polymerase III su 56.1 34 0.00074 41.7 8.2 40 1095-1134 22-64 (367)
387 PRK05595 replicative DNA helic 55.8 1.5E+02 0.0031 37.7 13.8 60 1097-1158 189-248 (444)
388 TIGR01425 SRP54_euk signal rec 55.6 83 0.0018 39.9 11.4 33 1113-1148 104-136 (429)
389 COG1474 CDC6 Cdc6-related prot 55.5 41 0.00088 41.7 8.7 49 1089-1137 19-70 (366)
390 PF05496 RuvB_N: Holliday junc 55.2 49 0.0011 38.6 8.6 16 1111-1126 52-67 (233)
391 TIGR01243 CDC48 AAA family ATP 54.9 40 0.00087 45.2 9.2 23 1109-1131 212-234 (733)
392 PRK11773 uvrD DNA-dependent he 54.5 16 0.00035 48.8 5.4 55 1090-1150 9-64 (721)
393 PF03354 Terminase_1: Phage Te 53.8 29 0.00063 44.1 7.3 58 1093-1150 1-64 (477)
394 TIGR01075 uvrD DNA helicase II 53.4 15 0.00032 49.0 4.9 55 1090-1150 4-59 (715)
395 PF05970 PIF1: PIF1-like helic 53.2 27 0.00058 42.9 6.7 60 1090-1152 1-62 (364)
396 PRK10416 signal recognition pa 52.8 1.5E+02 0.0032 36.2 12.6 32 1113-1147 118-149 (318)
397 KOG1984 Vesicle coat complex C 52.6 3.1E+02 0.0067 37.6 15.8 22 312-333 115-136 (1007)
398 PRK09165 replicative DNA helic 52.4 68 0.0015 41.3 10.2 130 1098-1228 206-355 (497)
399 PF02606 LpxK: Tetraacyldisacc 52.3 69 0.0015 39.1 9.8 125 1119-1254 47-190 (326)
400 PRK00771 signal recognition pa 52.3 41 0.0009 42.6 8.2 25 1111-1135 97-121 (437)
401 KOG0731 AAA+-type ATPase conta 52.1 63 0.0014 43.5 9.9 22 1109-1130 344-365 (774)
402 KOG0733 Nuclear AAA ATPase (VC 52.1 2.9E+02 0.0062 36.8 15.1 46 1109-1160 545-590 (802)
403 COG1435 Tdk Thymidine kinase [ 51.5 36 0.00078 38.8 6.6 35 1113-1150 8-42 (201)
404 KOG0737 AAA+-type ATPase [Post 51.4 26 0.00056 43.2 5.9 48 1108-1161 126-173 (386)
405 cd00561 CobA_CobO_BtuR ATP:cor 51.3 71 0.0015 35.2 8.7 55 1209-1266 90-148 (159)
406 PHA02244 ATPase-like protein 51.0 79 0.0017 39.5 9.9 39 1103-1147 113-151 (383)
407 PRK13894 conjugal transfer ATP 50.7 33 0.00071 41.7 6.7 42 1089-1133 131-172 (319)
408 PRK13900 type IV secretion sys 50.5 33 0.00071 41.9 6.7 35 1099-1133 150-184 (332)
409 PRK13341 recombination factor 50.2 40 0.00086 45.3 7.9 21 1111-1131 54-74 (725)
410 TIGR01241 FtsH_fam ATP-depende 50.1 32 0.0007 44.0 6.9 23 1109-1131 88-110 (495)
411 COG0541 Ffh Signal recognition 50.0 39 0.00083 42.6 7.2 58 1112-1172 103-160 (451)
412 PRK12724 flagellar biosynthesi 49.7 1.2E+02 0.0026 38.6 11.3 76 1213-1289 298-392 (432)
413 PRK06731 flhF flagellar biosyn 49.7 1.6E+02 0.0035 35.2 12.0 54 1214-1267 154-211 (270)
414 COG3973 Superfamily I DNA and 49.3 18 0.00039 46.9 4.3 46 1112-1157 229-277 (747)
415 cd03115 SRP The signal recogni 48.9 1.3E+02 0.0028 32.5 10.4 25 1112-1136 3-27 (173)
416 PF12846 AAA_10: AAA-like doma 48.8 27 0.00058 40.3 5.5 38 1110-1150 2-39 (304)
417 COG1200 RecG RecG-like helicas 48.7 4.1E+02 0.0089 35.7 16.1 91 1409-1503 294-390 (677)
418 PF06068 TIP49: TIP49 C-termin 48.6 31 0.00067 42.8 6.0 53 1095-1151 32-88 (398)
419 TIGR03499 FlhF flagellar biosy 48.4 69 0.0015 38.1 8.8 37 1110-1147 195-231 (282)
420 PRK10263 DNA translocase FtsK; 48.4 58 0.0013 46.1 9.1 41 1110-1150 1011-1052(1355)
421 PRK07276 DNA polymerase III su 47.9 1.1E+02 0.0023 37.0 10.2 46 1090-1136 2-49 (290)
422 COG4626 Phage terminase-like p 47.8 78 0.0017 41.1 9.5 171 1089-1274 60-249 (546)
423 PF05729 NACHT: NACHT domain 47.7 62 0.0013 33.7 7.5 29 1112-1140 3-31 (166)
424 PRK05342 clpX ATP-dependent pr 47.6 52 0.0011 41.4 7.9 23 1110-1132 109-131 (412)
425 PF02702 KdpD: Osmosensitive K 47.3 33 0.00071 39.3 5.5 26 1111-1136 7-32 (211)
426 TIGR02760 TraI_TIGR conjugativ 47.2 67 0.0015 47.9 10.0 61 1089-1151 1018-1079(1960)
427 PF00437 T2SE: Type II/IV secr 47.1 24 0.00051 41.1 4.7 34 1100-1133 118-151 (270)
428 CHL00195 ycf46 Ycf46; Provisio 47.0 36 0.00079 43.7 6.6 41 1109-1155 259-299 (489)
429 TIGR00959 ffh signal recogniti 46.9 69 0.0015 40.6 8.9 23 1112-1134 102-124 (428)
430 PRK14723 flhF flagellar biosyn 46.7 1.4E+02 0.0029 40.7 11.8 23 1113-1135 189-211 (767)
431 TIGR02782 TrbB_P P-type conjug 46.7 37 0.0008 40.8 6.3 42 1089-1133 115-156 (299)
432 cd01129 PulE-GspE PulE/GspE Th 46.3 1.1E+02 0.0024 36.1 10.0 43 1089-1133 62-104 (264)
433 PRK08840 replicative DNA helic 46.3 1.1E+02 0.0023 39.3 10.5 58 1099-1158 207-264 (464)
434 TIGR02639 ClpA ATP-dependent C 46.2 1.3E+02 0.0027 40.8 11.7 22 1112-1133 487-508 (731)
435 PF05127 Helicase_RecD: Helica 45.6 14 0.0003 41.3 2.3 120 1114-1252 2-123 (177)
436 PRK07773 replicative DNA helic 45.5 2.3E+02 0.005 39.3 14.1 59 1097-1157 205-263 (886)
437 PRK05564 DNA polymerase III su 45.4 1E+02 0.0022 36.9 9.8 41 1095-1135 9-52 (313)
438 KOG1807 Helicases [Replication 45.3 27 0.00059 46.3 5.0 68 1089-1160 377-448 (1025)
439 COG0552 FtsY Signal recognitio 45.2 38 0.00082 41.4 6.0 127 1110-1260 139-277 (340)
440 TIGR01818 ntrC nitrogen regula 44.7 1.3E+02 0.0029 37.7 11.0 61 1093-1156 141-201 (463)
441 PF03796 DnaB_C: DnaB-like hel 44.7 34 0.00074 39.7 5.5 40 1111-1152 21-60 (259)
442 TIGR00416 sms DNA repair prote 44.6 55 0.0012 41.7 7.6 47 1112-1161 97-143 (454)
443 TIGR03600 phage_DnaB phage rep 44.5 1.1E+02 0.0024 38.3 10.1 50 1098-1149 183-232 (421)
444 PRK08939 primosomal protein Dn 44.4 40 0.00086 40.7 6.0 38 1098-1135 143-182 (306)
445 PF07015 VirC1: VirC1 protein; 44.2 68 0.0015 37.5 7.6 40 1117-1159 10-51 (231)
446 COG2255 RuvB Holliday junction 43.9 86 0.0019 37.9 8.4 26 1215-1240 104-130 (332)
447 TIGR01073 pcrA ATP-dependent D 43.6 27 0.00058 46.8 4.9 54 1090-1149 4-58 (726)
448 PRK06921 hypothetical protein; 43.3 59 0.0013 38.4 7.1 28 1109-1136 117-144 (266)
449 COG0305 DnaB Replicative DNA h 43.0 3.2E+02 0.0069 35.0 13.6 130 1098-1230 185-322 (435)
450 PF04364 DNA_pol3_chi: DNA pol 42.8 79 0.0017 33.8 7.4 79 1412-1508 15-97 (137)
451 PTZ00266 NIMA-related protein 42.3 1.5E+02 0.0032 41.5 11.5 11 1245-1255 862-872 (1021)
452 TIGR00682 lpxK tetraacyldisacc 42.3 84 0.0018 38.2 8.3 19 1118-1136 39-57 (311)
453 TIGR00767 rho transcription te 41.9 1.1E+02 0.0023 38.7 9.2 25 1107-1131 166-190 (415)
454 TIGR02785 addA_Gpos recombinat 41.7 38 0.00082 48.2 6.1 59 1091-1155 2-60 (1232)
455 PRK05748 replicative DNA helic 41.6 1.4E+02 0.003 37.9 10.5 60 1097-1158 191-250 (448)
456 cd01130 VirB11-like_ATPase Typ 41.2 71 0.0015 35.3 7.0 40 1088-1130 7-46 (186)
457 TIGR01547 phage_term_2 phage t 41.1 46 0.00099 41.1 6.1 38 1113-1150 5-42 (396)
458 PF06745 KaiC: KaiC; InterPro 40.4 51 0.0011 37.2 5.9 51 1111-1163 21-71 (226)
459 PRK08006 replicative DNA helic 40.4 1.5E+02 0.0032 38.2 10.5 59 1098-1158 213-271 (471)
460 TIGR00064 ftsY signal recognit 40.4 1.2E+02 0.0025 36.2 9.0 49 1113-1164 76-124 (272)
461 TIGR02760 TraI_TIGR conjugativ 40.1 1.5E+02 0.0032 44.5 11.7 62 1086-1152 425-486 (1960)
462 PHA00350 putative assembly pro 39.3 47 0.001 41.7 5.7 17 1113-1129 5-21 (399)
463 PRK07004 replicative DNA helic 39.1 91 0.002 39.8 8.3 57 1098-1156 202-258 (460)
464 cd01128 rho_factor Transcripti 38.6 49 0.0011 38.8 5.5 20 1107-1126 14-33 (249)
465 PRK07414 cob(I)yrinic acid a,c 38.6 1.5E+02 0.0033 33.4 8.9 56 1209-1267 110-169 (178)
466 PF01580 FtsK_SpoIIIE: FtsK/Sp 37.9 50 0.0011 36.8 5.2 40 1110-1149 39-79 (205)
467 PRK05973 replicative DNA helic 37.4 46 0.001 38.9 5.0 42 1106-1150 61-102 (237)
468 PRK09376 rho transcription ter 37.4 63 0.0014 40.6 6.3 28 1106-1133 166-193 (416)
469 TIGR00365 monothiol glutaredox 37.3 1.8E+02 0.0039 29.2 8.5 51 1426-1476 11-67 (97)
470 TIGR02237 recomb_radB DNA repa 37.3 1.6E+02 0.0035 32.7 9.2 35 1113-1150 16-50 (209)
471 PF00158 Sigma54_activat: Sigm 36.6 1.2E+02 0.0025 33.5 7.7 56 1097-1155 10-65 (168)
472 PF13481 AAA_25: AAA domain; P 36.0 60 0.0013 35.4 5.4 54 1110-1163 33-93 (193)
473 TIGR00614 recQ_fam ATP-depende 35.9 4.5E+02 0.0098 33.5 13.8 93 1408-1505 36-135 (470)
474 COG4098 comFA Superfamily II D 35.6 83 0.0018 38.7 6.7 96 1125-1227 290-386 (441)
475 PRK05636 replicative DNA helic 35.2 82 0.0018 40.8 7.1 56 1098-1155 254-309 (505)
476 KOG1133 Helicase of the DEAD s 34.6 67 0.0015 42.5 6.1 42 1089-1130 14-55 (821)
477 KOG0734 AAA+-type ATPase conta 34.4 1.4E+02 0.0031 38.7 8.7 22 1109-1130 337-358 (752)
478 COG0593 DnaA ATPase involved i 34.0 1.1E+02 0.0024 38.7 7.7 59 1112-1172 116-182 (408)
479 KOG0740 AAA+-type ATPase [Post 33.9 48 0.001 41.8 4.7 46 1111-1162 188-233 (428)
480 PRK15115 response regulator Gl 33.4 2.7E+02 0.0058 34.8 11.1 47 1106-1155 154-200 (444)
481 TIGR03881 KaiC_arch_4 KaiC dom 33.3 81 0.0018 35.7 6.1 41 1109-1152 20-60 (229)
482 KOG0386 Chromatin remodeling c 32.9 1.1E+03 0.024 33.4 16.5 71 801-874 128-199 (1157)
483 cd00268 DEADc DEAD-box helicas 32.9 6.9E+02 0.015 27.4 13.5 92 1408-1505 46-151 (203)
484 PRK09087 hypothetical protein; 32.8 1.5E+02 0.0032 34.2 8.1 36 1216-1251 89-125 (226)
485 PRK11331 5-methylcytosine-spec 32.5 78 0.0017 40.4 6.1 35 1099-1133 184-218 (459)
486 PTZ00332 paraflagellar rod pro 32.5 1.3E+03 0.027 30.2 19.7 94 913-1014 351-460 (589)
487 PF03808 Glyco_tran_WecB: Glyc 32.4 2.7E+02 0.0058 30.8 9.7 72 1412-1485 34-108 (172)
488 COG0467 RAD55 RecA-superfamily 32.3 85 0.0018 36.5 6.1 43 1109-1154 23-65 (260)
489 PRK06321 replicative DNA helic 32.3 1.9E+02 0.0042 37.1 9.7 127 1098-1227 215-349 (472)
490 cd06533 Glyco_transf_WecG_TagA 32.1 2.7E+02 0.0059 30.7 9.7 72 1412-1485 32-106 (171)
491 TIGR02012 tigrfam_recA protein 32.0 1.7E+02 0.0036 35.9 8.7 40 1112-1154 58-97 (321)
492 PRK14701 reverse gyrase; Provi 31.6 2E+02 0.0043 42.5 10.6 71 1408-1478 104-180 (1638)
493 cd03028 GRX_PICOT_like Glutare 31.2 2E+02 0.0043 28.3 7.6 46 1426-1471 7-58 (90)
494 PF08832 SRC-1: Steroid recept 31.0 25 0.00055 34.3 1.3 21 10-30 54-76 (78)
495 PRK08533 flagellar accessory p 30.7 94 0.002 35.9 6.1 42 1109-1153 24-65 (230)
496 PRK13851 type IV secretion sys 30.7 68 0.0015 39.5 5.1 33 1100-1132 153-185 (344)
497 TIGR02538 type_IV_pilB type IV 30.5 2.2E+02 0.0049 37.3 10.0 45 1087-1133 296-340 (564)
498 cd01125 repA Hexameric Replica 30.5 66 0.0014 36.9 4.8 24 1111-1134 3-26 (239)
499 PHA01747 putative ATP-dependen 30.2 2.2E+02 0.0049 35.7 9.2 32 1095-1126 171-207 (425)
500 CHL00081 chlI Mg-protoporyphyr 29.8 2.8E+02 0.006 34.5 10.1 41 1095-1135 22-64 (350)
No 1
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=2e-147 Score=1345.86 Aligned_cols=767 Identities=49% Similarity=0.799 Sum_probs=692.4
Q ss_pred hhhHHHHH--HHhHHHHHHHHHHHhhhccCCCcChhhhhHHHHHHHHhhchHHHHHHHHHHHHHhhcccccch-hhhhhh
Q 000377 816 VEQNWILK--QQKTKQRMSTCFNKLKESVSSSEDISAKTKSVIELKKLQLLGLQRRLRNDFLNDFFKPITTDM-DRLKSY 892 (1605)
Q Consensus 816 ~~~~~~l~--~~r~~~rI~~ri~eL~e~~~~~~~~~~k~k~~ie~~~l~ll~~Q~~~r~~~~~~~~~~~~~~~-~~~~~~ 892 (1605)
+||++++. +.++..||..+++++++.+... ..+.|++|.+|+++|+|+.+|+++|..+++++....+.+. ....+|
T Consensus 128 l~~~~~~~~q~~~i~~~~~~~lq~~q~~~~~~-~~~~~~~a~~e~~~lrl~~~q~qlr~~~~~~~~~~~~~~~~~n~~~~ 206 (1157)
T KOG0386|consen 128 LDQQNINPMQQARIQFRMQAQLQELQQLARSL-MGELKSSAVGEDQALRLLMLQMQLRNPVSQPLRRDSSSETALNPKAF 206 (1157)
T ss_pred CCcccccHHHHHHHHHHHHHHHHHHHHhhhcc-hHHHhhhhhhhhHHHHhHHHHHHHhhhhhcccccccccccccCHHHH
Confidence 33444433 3489999999999998765544 4467999999999999999999999999998766554432 234566
Q ss_pred hhhch--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhHHhh
Q 000377 893 KKHRH--GRRIKQLEKFEQKMKEERQKRIRERQKEFFSEIEAHKERLDEVFKIKRERWRGVNKYVKEFHKRKERIHREKI 970 (1605)
Q Consensus 893 ~~~~~--~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~ 970 (1605)
++.+. .+.++.+|+||++|+.|.+++++++|.+||.+++.|.+++.++++....+..+++++|..||.+.+|++++++
T Consensus 207 ~R~~~q~~~~~r~te~Le~qqr~e~erk~r~~~~~~l~~~~~h~~e~~~~~q~~~~r~~k~~~~v~~~h~~~er~~~r~~ 286 (1157)
T KOG0386|consen 207 KRGKRQTLSEARLTEKLEKQQRLETERKRRVKHGQFLPGNLIHPKEFPEAQQLVNNRGNKQNKAVQQWHANQERERERRI 286 (1157)
T ss_pred hhhhhhhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 66543 4788999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHhccccHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccC
Q 000377 971 DRIQREKINLLKINDVEGYLRMVQDAKSDRVNKLLKETEKYLQKLGSKLQEAKSMASHFENEMDETQTVSVVEKYEPAVE 1050 (1605)
Q Consensus 971 ~r~~~~r~~~l~~~d~e~y~~l~~~~k~~rl~~LL~qt~~y~~~l~~~~~~~~~~~~~~~~~~d~~~~~~~~e~~e~~~~ 1050 (1605)
+|++++|+++|+.||+|+|++|++++|+.||++||+||++|+.+|+..|..++........+.|.. .+. ..+-+
T Consensus 287 ~r~ek~r~~~Lk~~DeE~Y~kl~dq~Kd~Rl~~LL~qt~~yl~sL~s~Vk~qk~~~~~~~~~~d~~---~i~---~~ak~ 360 (1157)
T KOG0386|consen 287 DRIEKERASALKHNDEEGYRKLQDQKKDNRLSQLLSQTDSYLPSLSSVVKGQKSENPDANSASDIS---GIS---GSAKA 360 (1157)
T ss_pred HHhhHHHHHHHHHhhHHHHHHHHhhccccHHHHhhhhhhHHHHHHHHHHHHhhccccccchhhhhh---hhh---hhhcc
Confidence 999999999999999999999999999999999999999999999999998875211111111110 011 11111
Q ss_pred CcchhHHHHHHHHhhHHHHHhhhhccccccCCCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHH
Q 000377 1051 NEDESDQAKHYLESNEKYYLMAHSIKESVSEQPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALI 1130 (1605)
Q Consensus 1051 ~ede~~~~~~~~e~~~kyy~lah~i~e~v~~qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI 1130 (1605)
++++ ..++..+||.++|.++|.+..||+++.||+|++||+.||+||++||+|++|||||||||||||+|+|++|
T Consensus 361 ~~~d------~~~s~~~Yys~AH~I~E~v~~Qps~l~GG~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsLi 434 (1157)
T KOG0386|consen 361 DVDD------HAESNGSYYSTAHPIKENVAKQPSSLQGGELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISLI 434 (1157)
T ss_pred hhhh------hhhcchhHHHhcchhhhccccCcchhcCCCCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHHH
Confidence 1111 4567889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcc
Q 000377 1131 CYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKL 1210 (1605)
Q Consensus 1131 ~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L 1210 (1605)
+|+++.+...||+|||||+++|.||..||.+|+|++..++|+|++..|..+.. ++..++|+|++|||+++++ |+..|
T Consensus 435 tYLmE~K~~~GP~LvivPlstL~NW~~Ef~kWaPSv~~i~YkGtp~~R~~l~~-qir~gKFnVLlTtyEyiik--dk~lL 511 (1157)
T KOG0386|consen 435 TYLMEHKQMQGPFLIIVPLSTLVNWSSEFPKWAPSVQKIQYKGTPQQRSGLTK-QQRHGKFNVLLTTYEYIIK--DKALL 511 (1157)
T ss_pred HHHHHHcccCCCeEEeccccccCCchhhccccccceeeeeeeCCHHHHhhHHH-HHhcccceeeeeeHHHhcC--CHHHH
Confidence 99999999999999999999999999999999999999999999999988764 5566999999999999999 88999
Q ss_pred cccCccEEEEecCccccCccchHHHHHH-hhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCC
Q 000377 1211 SKIQWHYIIIDEGHRIKNASCKLNADLK-HYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESN 1289 (1605)
Q Consensus 1211 ~ki~wd~VIIDEAHriKN~~SKlsraL~-~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~ 1289 (1605)
.+++|.||||||+|+|||+.|+++..+. .|.+.+||+|||||+||++.|||+|||||.|.||++..+|.+||+.||...
T Consensus 512 sKI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PFant 591 (1157)
T KOG0386|consen 512 SKISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPFANT 591 (1157)
T ss_pred hccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhhhhc
Confidence 9999999999999999999999999998 789999999999999999999999999999999999999999999999998
Q ss_pred CCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhcc-----CCC
Q 000377 1290 GDNSPDEALLSEEENLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSI-----GNS 1364 (1605)
Q Consensus 1290 g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~-----~~~ 1364 (1605)
|+ ..++++++.+++|+|||++|+||+|||+|++|+.+||+|++.+++|.||++|+.+|+.+.+.-... +..
T Consensus 592 Ge----k~eLteEEtlLIIrRLHkVLRPFlLRRlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~~~g~~ 667 (1157)
T KOG0386|consen 592 GE----KVELTEEETLLIIRRLHKVLRPFLLRRLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDTAKGKK 667 (1157)
T ss_pred CC----cccccchHHHHHHHHHHHhhhHHHHHhhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCchhccc
Confidence 83 467899999999999999999999999999999999999999999999999999999998654322 445
Q ss_pred CCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHH
Q 000377 1365 KGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMED 1444 (1605)
Q Consensus 1365 k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~ 1444 (1605)
..+.++|.+|+||++|||||+|....+.+.... ....+|+.|||+++|+++|++|++.|||||+|||||.++++|++
T Consensus 668 g~k~L~N~imqLRKiCNHP~lf~~ve~~~~~~~---~~~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEd 744 (1157)
T KOG0386|consen 668 GYKPLFNTIMQLRKLCNHPYLFANVENSYTLHY---DIKDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILED 744 (1157)
T ss_pred cchhhhhHhHHHHHhcCCchhhhhhcccccccc---ChhHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHH
Confidence 567899999999999999999854433332221 12589999999999999999999999999999999999999999
Q ss_pred HHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccC
Q 000377 1445 YLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIG 1524 (1605)
Q Consensus 1445 ~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIG 1524 (1605)
||..++++|+++||+|+.++|..+++.||.++++||+||+||+|||+|||||+|||||+||++|||+++.||.+||||||
T Consensus 745 yL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahrig 824 (1157)
T KOG0386|consen 745 YLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIG 824 (1157)
T ss_pred HHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHhhhhccCccCCCCCHHHHHHHHHHHHHHHhhhhcCCCCChHHHHHHHhc
Q 000377 1525 QKRDVLVLRFETVQTVEEQVRASAEHKLGVANQSITAGFFDNNTSAEDRREYLESLLRECKKEEAAPVLDDDALNDLLAR 1604 (1605)
Q Consensus 1525 QkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~kVI~aG~fd~~~s~eE~~e~Le~LLee~~~~e~~~v~dDdeln~lLAR 1604 (1605)
|+++|+|+|+++.++|||+|++.+..|++++++||++|.||++++.++|+++|+.+++....++..++.||++||+||||
T Consensus 825 q~~evRv~rl~tv~sveE~il~~a~~Kl~~d~kviqag~fdn~st~~eR~~~Le~~l~~~~~~~~~~v~~~~~ln~~lar 904 (1157)
T KOG0386|consen 825 QKKEVRVLRLITVNSVEEKILAEAFYKLDVDGKVIQAGKFDNKSTAEEREMFLEQLLEMEGDEEEEEVPDDEVLNSMLAR 904 (1157)
T ss_pred chhheeeeeeehhhHHHHHHHHHHHHhcCchHhhhhcccccCCCcHHHHHHHHHHHHhCCCccccccCCcHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999998877777889999999999999
Q ss_pred C
Q 000377 1605 R 1605 (1605)
Q Consensus 1605 ~ 1605 (1605)
+
T Consensus 905 s 905 (1157)
T KOG0386|consen 905 S 905 (1157)
T ss_pred c
Confidence 5
No 2
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=1.1e-107 Score=976.40 Aligned_cols=506 Identities=47% Similarity=0.794 Sum_probs=448.3
Q ss_pred ccccCCCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchH
Q 000377 1077 ESVSEQPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWE 1156 (1605)
Q Consensus 1077 e~v~~qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~ 1156 (1605)
+....+|.++.+++|||||++|++||+++|.|+.||||||+||||||+|+|+++.|+...++..||+|||||.|++.||.
T Consensus 154 ~~~~~sP~~v~~g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~NW~ 233 (971)
T KOG0385|consen 154 NRFEDSPSYVKGGELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLDNWM 233 (971)
T ss_pred ccccCCchhhcCCccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHHHHH
Confidence 34445899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHH
Q 000377 1157 SEINFWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNAD 1236 (1605)
Q Consensus 1157 ~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsra 1236 (1605)
+||.+|+|++.+++|+|+.++|..+.+..+..+.|+||||||+..++ ++..|..+.|.|+|||||||+||..|++++.
T Consensus 234 ~Ef~rf~P~l~~~~~~Gdk~eR~~~~r~~~~~~~fdV~iTsYEi~i~--dk~~lk~~~W~ylvIDEaHRiKN~~s~L~~~ 311 (971)
T KOG0385|consen 234 NEFKRFTPSLNVVVYHGDKEERAALRRDIMLPGRFDVCITSYEIAIK--DKSFLKKFNWRYLVIDEAHRIKNEKSKLSKI 311 (971)
T ss_pred HHHHHhCCCcceEEEeCCHHHHHHHHHHhhccCCCceEeehHHHHHh--hHHHHhcCCceEEEechhhhhcchhhHHHHH
Confidence 99999999999999999999999998888888899999999999999 6789999999999999999999999999999
Q ss_pred HHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhh
Q 000377 1237 LKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLR 1316 (1605)
Q Consensus 1237 L~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLr 1316 (1605)
|+.|.+.+||||||||+|||+.|||+|||||+|.+|++.+.|..||..-.. +.....+.+||.+|+
T Consensus 312 lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~--------------~~~~e~v~~Lh~vL~ 377 (971)
T KOG0385|consen 312 LREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNC--------------EGDQELVSRLHKVLR 377 (971)
T ss_pred HHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHccccc--------------ccCHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999986411 112236889999999
Q ss_pred HHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHH-hhccCCC---CCcchhHHHHHHHHHhcCccccchhhhh
Q 000377 1317 PFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEEN-LGSIGNS---KGRSVHNSVMELRNICNHPYLSQLHAEE 1392 (1605)
Q Consensus 1317 PFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~-l~~~~~~---k~~~lln~L~qLRkicnHP~L~~~~~ee 1392 (1605)
||+|||+|.+|+..||++.|.+++|.|+..|+..|+.+... +...... ....+.|++|+||+||||||||+.. +
T Consensus 378 pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~~~k~kL~NI~mQLRKccnHPYLF~g~-e- 455 (971)
T KOG0385|consen 378 PFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLDALNGEGKGEKTKLQNIMMQLRKCCNHPYLFDGA-E- 455 (971)
T ss_pred HHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcchhhcccccchhhHHHHHHHHHHHhcCCccccCCC-C-
Confidence 99999999999999999999999999999999999986443 3222221 2356899999999999999999652 1
Q ss_pred hhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHH
Q 000377 1393 VDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKF 1472 (1605)
Q Consensus 1393 id~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~F 1472 (1605)
.-.|-.....++..|||+.+|+++|+++++.||||||||||+.++|||++|+..++|.|+||||+|+.++|...|+.|
T Consensus 456 --Pg~pyttdehLv~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~f 533 (971)
T KOG0385|consen 456 --PGPPYTTDEHLVTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAF 533 (971)
T ss_pred --CCCCCCcchHHHhcCcceehHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhc
Confidence 112223346789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHH
Q 000377 1473 NQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKL 1552 (1605)
Q Consensus 1473 N~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl 1552 (1605)
|++++..||||+||+|||+||||++|||||+||++|||+++.||++|||||||+|+|+||||||++||||+|++++..|+
T Consensus 534 n~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLitentVEe~IveRA~~KL 613 (971)
T KOG0385|consen 534 NAPPSEKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLITENTVEEKIVERAAAKL 613 (971)
T ss_pred CCCCcceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEEeccchHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhccCccC-CCCCHHHHHHHHHHHHHHHhhh---hcCCCCChHHHHHHHhc
Q 000377 1553 GVANQSITAGFFD-NNTSAEDRREYLESLLRECKKE---EAAPVLDDDALNDLLAR 1604 (1605)
Q Consensus 1553 ~L~~kVI~aG~fd-~~~s~eE~~e~Le~LLee~~~~---e~~~v~dDdeln~lLAR 1604 (1605)
.|...||+.|... ..... .-+..+-.+++..... ..+..++| +|..+|.|
T Consensus 614 ~Ld~~VIq~g~l~~~~~~~-~~k~~~l~~~r~g~~~~f~~~es~~~d-Did~il~~ 667 (971)
T KOG0385|consen 614 RLDKLVIQQGRLEEQKSNG-LGKDELLNLLRFGADPVFESKESTISD-DIDRILER 667 (971)
T ss_pred chhhhhhccCchhhhhccc-cchHHHHHHHHcCchhhhhhcccccch-hHHHHHHh
Confidence 9999999999433 23332 2233344444433221 11223333 77777765
No 3
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=5.2e-97 Score=917.34 Aligned_cols=503 Identities=45% Similarity=0.759 Sum_probs=447.3
Q ss_pred cccCCCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHH
Q 000377 1078 SVSEQPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWES 1157 (1605)
Q Consensus 1078 ~v~~qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~ 1157 (1605)
.+..+|..+.|.+||+||++||+||+..|.++.+||||||||||||+|+|+++.+++......||||||||.|++.+|..
T Consensus 358 Kle~qp~~~~g~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~fl~~l~~~~~~~gpflvvvplst~~~W~~ 437 (1373)
T KOG0384|consen 358 KLEKQPEYKGGNELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTITFLSYLFHSLQIHGPFLVVVPLSTITAWER 437 (1373)
T ss_pred HhhcCccccccchhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHHHHHHHHHhhhccCCeEEEeehhhhHHHHH
Confidence 44679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCCceEEEEcCChhHHHHHHHhhhhcC------CccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc
Q 000377 1158 EINFWAPRIHKIVYCGPPEERRRLFKEKIVHQ------KFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC 1231 (1605)
Q Consensus 1158 Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~------~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S 1231 (1605)
||..|+ .+.+++|+|+...|.-+........ +|+++||||+++.+ |...|..++|.+++||||||+||..|
T Consensus 438 ef~~w~-~mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~Lk--Dk~~L~~i~w~~~~vDeahrLkN~~~ 514 (1373)
T KOG0384|consen 438 EFETWT-DMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLK--DKAELSKIPWRYLLVDEAHRLKNDES 514 (1373)
T ss_pred HHHHHh-hhceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhc--cHhhhccCCcceeeecHHhhcCchHH
Confidence 999999 9999999999988876654444332 59999999999998 88899999999999999999999999
Q ss_pred hHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHH
Q 000377 1232 KLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRL 1311 (1605)
Q Consensus 1232 KlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL 1311 (1605)
+++..|..|...+||++||||+||++.|||+||+||+|+-|.+...|...|.. +....+..|
T Consensus 515 ~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~~~------------------~~e~~~~~L 576 (1373)
T KOG0384|consen 515 KLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEFDE------------------ETEEQVRKL 576 (1373)
T ss_pred HHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhhcc------------------hhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999887731 123357899
Q ss_pred HHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHH-HHhhccC---CCCCcchhHHHHHHHHHhcCccccc
Q 000377 1312 HQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVE-ENLGSIG---NSKGRSVHNSVMELRNICNHPYLSQ 1387 (1605)
Q Consensus 1312 ~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~-~~l~~~~---~~k~~~lln~L~qLRkicnHP~L~~ 1387 (1605)
|++|+||||||+|+||++.||+|.|.++.++||..|+.+|+.|. +++..+. ......++|++|.|++|||||||+.
T Consensus 577 ~~~L~P~~lRr~kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG~~g~~~~lLNimmELkKccNHpyLi~ 656 (1373)
T KOG0384|consen 577 QQILKPFLLRRLKKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTKGAKGSTPSLLNIMMELKKCCNHPYLIK 656 (1373)
T ss_pred HHHhhHHHHHHHHhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhccCCCCCchHHHHHHHHHHhcCCccccC
Confidence 99999999999999999999999999999999999999999874 4443332 2233579999999999999999998
Q ss_pred hhhhhhhhcCCC----CCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHH
Q 000377 1388 LHAEEVDTLIPK----HYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGG 1463 (1605)
Q Consensus 1388 ~~~eeid~~i~~----~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~e 1463 (1605)
...+.+...... ..+..++..|||+-+|+++|.+|++.||||||||||+.++|||++||..++|+|-||||+++.+
T Consensus 657 gaee~~~~~~~~~~~d~~L~~lI~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrge 736 (1373)
T KOG0384|consen 657 GAEEKILGDFRDKMRDEALQALIQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGE 736 (1373)
T ss_pred cHHHHHHHhhhhcchHHHHHHHHHhcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchH
Confidence 877665444332 3456788999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHH
Q 000377 1464 DRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQ 1543 (1605)
Q Consensus 1464 ERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEk 1543 (1605)
-|+.+|+.||+++++-|||||||+|||+||||++||||||||++|||+.+.||+.|||||||++.|.||||||.+||||.
T Consensus 737 lRq~AIDhFnap~SddFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeE 816 (1373)
T KOG0384|consen 737 LRQQAIDHFNAPDSDDFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEE 816 (1373)
T ss_pred HHHHHHHhccCCCCCceEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEEEecCCchHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhhccCccC------CCCCHHHHHHHHHHHHHHHhhh-----h-cCCCCChHHHHHHHhcC
Q 000377 1544 VRASAEHKLGVANQSITAGFFD------NNTSAEDRREYLESLLRECKKE-----E-AAPVLDDDALNDLLARR 1605 (1605)
Q Consensus 1544 Ilera~~Kl~L~~kVI~aG~fd------~~~s~eE~~e~Le~LLee~~~~-----e-~~~v~dDdeln~lLAR~ 1605 (1605)
|++++..|+.|+..||+-+... +..+.+| |..||+-.+.+ + +.......+|.+||.|+
T Consensus 817 ilERAk~KmvLD~aVIQ~m~t~~~~s~~~~f~K~E----LsaILKfGA~~lfke~ene~s~~~e~DIDeIL~ra 886 (1373)
T KOG0384|consen 817 ILERAKLKMVLDHAVIQRMDTKGKTSKSNPFSKEE----LSAILKFGAYELFKEEENEESKFCEMDIDEILERA 886 (1373)
T ss_pred HHHHHHHHhhhHHHHHHhhccccccCCCCCCCHHH----HHHHHHhchHHhhhccccccccccccCHHHHHhhc
Confidence 9999999999999999977642 2234444 56666643221 1 11233346677888774
No 4
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=3.3e-95 Score=855.95 Aligned_cols=592 Identities=40% Similarity=0.666 Sum_probs=484.8
Q ss_pred HHHHHhHHHHHHHHHHHhhhHHhhhHHHHHHHHHhccccHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 000377 947 RWRGVNKYVKEFHKRKERIHREKIDRIQREKINLLKINDVEGYLRMVQDAKSDRVNKLLKETEKYLQKLGSKLQEAKSMA 1026 (1605)
Q Consensus 947 ~~~~~~~~~~~~~~~~~r~~~~~~~r~~~~r~~~l~~~d~e~y~~l~~~~k~~rl~~LL~qt~~y~~~l~~~~~~~~~~~ 1026 (1605)
+.+++.|.+..||++.+|.++.+...+|||.|++-|.+.+|.--+ ....+|..||.||+-|-++++.+.......+
T Consensus 404 rakr~~Rem~~fwKk~er~~rd~rKK~EkEamer~KrEeEerEsk----RQarklnfLltQTELySHFi~rK~d~n~se~ 479 (1185)
T KOG0388|consen 404 RAKRIYREMYGFWKKNERNMRDLRKKAEKEAMERAKREEEERESK----RQARKLNFLLTQTELYSHFIGRKNDCNLSEA 479 (1185)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHhhHHHHHHHHHHHHHhhcccCCcccc
Confidence 566788899999999999999888899999999998887765432 3456899999999999999998754331111
Q ss_pred hhhhhccccccccccccccccccCCcchhHHHH------------HHHHhhH-HHHHh--hh---------------hcc
Q 000377 1027 SHFENEMDETQTVSVVEKYEPAVENEDESDQAK------------HYLESNE-KYYLM--AH---------------SIK 1076 (1605)
Q Consensus 1027 ~~~~~~~d~~~~~~~~e~~e~~~~~ede~~~~~------------~~~e~~~-kyy~l--ah---------------~i~ 1076 (1605)
...+. ......|... ..+.|++..+.. +...... .|-.. .+ .+.
T Consensus 480 lp~~~-----ne~sa~e~n~-~~d~eea~l~~~~lraAq~Av~a~~~t~afd~e~~~~~ntse~e~~e~e~n~q~~t~i~ 553 (1185)
T KOG0388|consen 480 LPAER-----NEISAGEPNG-MKDYEEAMLQKLRLRAAQDAVSAKQITDAFDTEFGAERNTSEFEGPENEGNFQGPTNID 553 (1185)
T ss_pred CCccc-----ccccccCccc-CCChHHHHHHHHHHHHHHHHHhHHHhhhhhhhhhhhccccccccCccccccccCCcccc
Confidence 11100 0011111111 011111111100 0000000 01100 11 111
Q ss_pred -ccccCCCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch
Q 000377 1077 -ESVSEQPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW 1155 (1605)
Q Consensus 1077 -e~v~~qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW 1155 (1605)
.....||.+|. ++|++||++||+||+.+|+.+.|||||||||||||+|+|+++++|.+.++.+||||||+|.+++.||
T Consensus 554 ~t~tV~qPkil~-ctLKEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsisvlAhLaE~~nIwGPFLVVtpaStL~NW 632 (1185)
T KOG0388|consen 554 TTRTVPQPKILK-CTLKEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSISVLAHLAETHNIWGPFLVVTPASTLHNW 632 (1185)
T ss_pred ceeeccCchhhh-hhhHHHhhccHHHHHHHHHccccceehhhhccchhHHHHHHHHHHHHhccCCCceEEeehHHHHhHH
Confidence 22246888887 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCceEEEEcCChhHHHHHHHhh------hhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCc
Q 000377 1156 ESEINFWAPRIHKIVYCGPPEERRRLFKEK------IVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNA 1229 (1605)
Q Consensus 1156 ~~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~------i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~ 1229 (1605)
..||.+|+|.++++.|.|+..+|+-+.+-. -....|+|+||||+.+.. |...|.+++|.|||+|||+.||..
T Consensus 633 aqEisrFlP~~k~lpywGs~~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVt--Deky~qkvKWQYMILDEAQAIKSS 710 (1185)
T KOG0388|consen 633 AQEISRFLPSFKVLPYWGSPSERKILRKFWNRKNMYRRNAPFHVVITSYQLVVT--DEKYLQKVKWQYMILDEAQAIKSS 710 (1185)
T ss_pred HHHHHHhCccceeecCcCChhhhHHHHHhcchhhhhccCCCceEEEEeeeeeec--hHHHHHhhhhhheehhHHHHhhhh
Confidence 999999999999999999999987654311 124689999999999987 667899999999999999999999
Q ss_pred cchHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHH
Q 000377 1230 SCKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIIN 1309 (1605)
Q Consensus 1230 ~SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~ 1309 (1605)
.|.+++.|..|+|+.||+|||||+||+..|||+||+|++|.+|.+..+|.+||.+-++........ + ...-++
T Consensus 711 sS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFseWFSKdIEshAe~~~t---l----neqqL~ 783 (1185)
T KOG0388|consen 711 SSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSEWFSKDIESHAEMNTT---L----NEQQLQ 783 (1185)
T ss_pred hhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHHHHhhhhHhHHHhcCC---c----CHHHHH
Confidence 999999999999999999999999999999999999999999999999999999988765432211 1 223478
Q ss_pred HHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchh
Q 000377 1310 RLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLH 1389 (1605)
Q Consensus 1310 RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~ 1389 (1605)
|||.+|+||||||.|++|..+|-.|++..+.|+++..|+.+|+.+...+... ...+.+|+||++||||.||...
T Consensus 784 RLH~ILKPFMLRRvKkdV~sELg~Kteidv~CdLs~RQ~~lYq~ik~~iS~~------E~~~~vmQlrKVCNHPdLFer~ 857 (1185)
T KOG0388|consen 784 RLHAILKPFMLRRVKKDVISELGQKTEIDVYCDLSYRQKVLYQEIKRSISSM------EMENLVMQLRKVCNHPDLFERL 857 (1185)
T ss_pred HHHHHHhHHHHHHHHHHHHHHhccceEEEEEechhHHHHHHHHHHHHHhhHH------HHHHHHHHHHHhcCChHHHhhc
Confidence 9999999999999999999999999999999999999999999998766532 2346899999999999885321
Q ss_pred hh---------------------------------h------------------hhh-----------------------
Q 000377 1390 AE---------------------------------E------------------VDT----------------------- 1395 (1605)
Q Consensus 1390 ~e---------------------------------e------------------id~----------------------- 1395 (1605)
.. + +..
T Consensus 858 e~~s~L~~~V~~nl~dv~S~Grnpi~ykiP~L~~~d~le~~~fniye~i~~~~g~~~~v~Geg~~~w~~~l~~e~k~G~~ 937 (1185)
T KOG0388|consen 858 EPRSGLSLEVSDNLGDVVSFGRNPIDYKIPSLVAKDALEMFRFNIYEMIERINGLRRIVNGEGPNAWYLRLSLEFKYGGY 937 (1185)
T ss_pred CCcceeEEEcccCHHHHHhCCCCceeecchHHHHHHHHHHHHHhHHHHHHHHhhhHhhhcCCCcchhcccceeeeccCCc
Confidence 00 0 000
Q ss_pred --------------------------------------------cCCC----------------C---------------
Q 000377 1396 --------------------------------------------LIPK----------------H--------------- 1400 (1605)
Q Consensus 1396 --------------------------------------------~i~~----------------~--------------- 1400 (1605)
+.|. .
T Consensus 938 ~~~n~e~~~Kavtr~ll~p~~~~~e~~~rvi~~e~~~L~~~~y~y~P~v~apPvLI~~ead~PeId~E~~~~pLn~~i~~ 1017 (1185)
T KOG0388|consen 938 VFRNVEEAGKAVTRNLLNPESSLLESMRRVIDEEAYRLQRHVYCYSPVVAAPPVLISNEADLPEIDLENRHIPLNTTIYV 1017 (1185)
T ss_pred ccccHHHHHHHHHHHhcCcccchhHHHHHHhhHHHHHhhhheeeeccccCCCCeeeecccCCCCCCccccCcccccceec
Confidence 0000 0
Q ss_pred -CCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCe
Q 000377 1401 -YLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPF 1479 (1605)
Q Consensus 1401 -~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~ 1479 (1605)
....++..|||+..|+.+|+++++.|||||+|.|||.|+++|++||..++|.|++|||+.+..+|..++.+|+. +++
T Consensus 1018 Ppm~~FitdSgKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~--sdi 1095 (1185)
T KOG0388|consen 1018 PPMNTFITDSGKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQA--SDI 1095 (1185)
T ss_pred CcHHhhhccccceeeHHHHHHHhhcCCceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccC--Cce
Confidence 00113456899999999999999999999999999999999999999999999999999999999999999977 669
Q ss_pred EEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHhhhh
Q 000377 1480 FIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVANQSI 1559 (1605)
Q Consensus 1480 ~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~kVI 1559 (1605)
||||+||+|||.||||++||||||||++|||..+.||++||||+||+++|+||||++.+||||+|++++..|..+...|+
T Consensus 1096 FvFLLSTRAGGLGINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrdvtvyrl~~rgTvEEk~l~rA~qK~~vQq~Vm 1175 (1185)
T KOG0388|consen 1096 FVFLLSTRAGGLGINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRDVTVYRLITRGTVEEKVLERANQKDEVQQMVM 1175 (1185)
T ss_pred EEEEEecccCcccccccccceEEEecCCCCcchhhHHHHHHHhccCccceeeeeecccccHHHHHHHHhhhHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCccCC
Q 000377 1560 TAGFFDN 1566 (1605)
Q Consensus 1560 ~aG~fd~ 1566 (1605)
.++.|..
T Consensus 1176 ~G~~~qg 1182 (1185)
T KOG0388|consen 1176 HGNIFQG 1182 (1185)
T ss_pred cCCcccC
Confidence 8877653
No 5
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=3e-92 Score=856.71 Aligned_cols=475 Identities=44% Similarity=0.778 Sum_probs=423.6
Q ss_pred CCCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHH
Q 000377 1081 EQPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEIN 1160 (1605)
Q Consensus 1081 ~qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~ 1160 (1605)
..|..|- |.||+||..||.||+.+|++++|||||||||||||||+|+|+++|...+.++||+|||||++++-||.-||+
T Consensus 607 pvPsLLr-GqLReYQkiGLdWLatLYeknlNGILADEmGLGKTIQtISllAhLACeegnWGPHLIVVpTsviLnWEMElK 685 (1958)
T KOG0391|consen 607 PVPSLLR-GQLREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQTISLLAHLACEEGNWGPHLIVVPTSVILNWEMELK 685 (1958)
T ss_pred CchHHHH-HHHHHHHHhhHHHHHHHHHhcccceehhhhcccchhHHHHHHHHHHhcccCCCCceEEeechhhhhhhHHHh
Confidence 4566665 999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh
Q 000377 1161 FWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY 1240 (1605)
Q Consensus 1161 KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L 1240 (1605)
+|||+++++.|+|+.++|+...+.+....-|+|+||+|..+.. |...|....|.|+||||||+|||..++.+++|..|
T Consensus 686 RwcPglKILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~q--d~~AFkrkrWqyLvLDEaqnIKnfksqrWQAllnf 763 (1958)
T KOG0391|consen 686 RWCPGLKILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQ--DLTAFKRKRWQYLVLDEAQNIKNFKSQRWQALLNF 763 (1958)
T ss_pred hhCCcceEeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHh--HHHHHHhhccceeehhhhhhhcchhHHHHHHHhcc
Confidence 9999999999999999999888888888899999999999987 66688999999999999999999999999999999
Q ss_pred hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1241 QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
++.+||||||||++|++.|||+|++||+|.+|.+.+.|..||..|+....+.. .+.....+.|||++|+||+|
T Consensus 764 nsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~wfsnPltgmiEgs-------qeyn~klV~RLHkVlrPfiL 836 (1958)
T KOG0391|consen 764 NSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKPWFSNPLTGMIEGS-------QEYNHKLVIRLHKVLRPFIL 836 (1958)
T ss_pred chhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHHHhcCcchhhcccc-------hhhchHHHHHHHHHhHHHHH
Confidence 99999999999999999999999999999999999999999999987654332 22335678999999999999
Q ss_pred HHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhh---ccCCCCCcchhHHHHHHHHHhcCccccchhh-------
Q 000377 1321 RRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLG---SIGNSKGRSVHNSVMELRNICNHPYLSQLHA------- 1390 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~---~~~~~k~~~lln~L~qLRkicnHP~L~~~~~------- 1390 (1605)
||+|.||+++||.|.|++|+|.||..|+.||+.+...-. .+.....-.++|++|+||+|||||.||...-
T Consensus 837 RRlK~dVEKQlpkKyEHvv~CrLSkRQR~LYDDfmsq~~TKetLkSGhfmsVlnilmqLrKvCNHPnLfEpRpv~ssfV~ 916 (1958)
T KOG0391|consen 837 RRLKRDVEKQLPKKYEHVVKCRLSKRQRALYDDFMSQPGTKETLKSGHFMSVLNILMQLRKVCNHPNLFEPRPVGSSFVA 916 (1958)
T ss_pred HHHHHHHHHhcchhhhhheeeehhhhHHHHHHHHhhccchhhHhhcCchhHHHHHHHHHHHHcCCCCcCCCCCCCccccc
Confidence 999999999999999999999999999999998754322 1222334568999999999999987742110
Q ss_pred --------------------------------------------------------------------------------
Q 000377 1391 -------------------------------------------------------------------------------- 1390 (1605)
Q Consensus 1391 -------------------------------------------------------------------------------- 1390 (1605)
T Consensus 917 e~l~~s~as~~~r~l~el~~k~p~~~~ls~~p~~~~vp~v~pas~~~sAspl~s~l~~ls~~~rPp~pt~~g~~F~~~aa 996 (1958)
T KOG0391|consen 917 EPLEYSSASKITRHLAELLSKKPIPRKLSEEPSTSAVPAVRPASAKLSASPLASALPQLSLRGRPPIPTFAGAPFQTSAA 996 (1958)
T ss_pred CceeccccccchhhhhhhccCCCCchhhhcCCCcccccccchhhhhhcccccccccccccCCCCCCCccccccccccchh
Confidence
Q ss_pred -------hh--------------------------------hh-----------------------------hcC--C--
Q 000377 1391 -------EE--------------------------------VD-----------------------------TLI--P-- 1398 (1605)
Q Consensus 1391 -------ee--------------------------------id-----------------------------~~i--~-- 1398 (1605)
++ .. .+. +
T Consensus 997 ~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p~~~veq~n~~k~~~htt~~~p~~~~~svl~~~sv~t~pl~~ap~p 1076 (1958)
T KOG0391|consen 997 SATSPHTEEASASSVARLPSGEVVAIAQLRSLTGPQSRVEQPNTPKTLQHTTAGQPLQLQGSVLQIVSVPTQPLLRAPGP 1076 (1958)
T ss_pred cccCCccccccccchhcccchheeeccccccccCcHhHhhcCCCceeeeeecccCccccccceeeeccccccccccCCCC
Confidence 00 00 000 0
Q ss_pred --------------------------------------------CCCC--------------------------------
Q 000377 1399 --------------------------------------------KHYL-------------------------------- 1402 (1605)
Q Consensus 1399 --------------------------------------------~~~~-------------------------------- 1402 (1605)
.++.
T Consensus 1077 ~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gtat~~~g~~pr~~~~klee~Rkrql~erl~ri~~~~APvyg~e~l~ 1156 (1958)
T KOG0391|consen 1077 VVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGTATLAVGEPPRAIGGKLEEERKRQLKERLDRIYLVNAPVYGRELLR 1156 (1958)
T ss_pred cceecchhhccCCCCCCCCccccccccCCCCCcchhhhccCCCccccccchhhHHHHHHHHHHHHHhhccCcccchhhhh
Confidence 0000
Q ss_pred ------------C-------------------------------------------------------------------
Q 000377 1403 ------------P------------------------------------------------------------------- 1403 (1605)
Q Consensus 1403 ------------~------------------------------------------------------------------- 1403 (1605)
.
T Consensus 1157 ~c~lp~e~i~p~~~ea~~e~~l~~~r~le~l~~iIdrfafv~ppvva~ppslra~~ppp~~~~r~r~~~~qlrsel~p~~ 1236 (1958)
T KOG0391|consen 1157 ICALPSEGIVPWRSEAPSELMLTLCRCLESLQDIIDRFAFVIPPVVAAPPSLRAPRPPPLYSHRMRILRQQLRSELAPYF 1236 (1958)
T ss_pred hhccchhhhccccccCchhhhhhHHHHHHHHHHHHHHheeecccccCCChhhcCCCCCcccchHHHHHHHHHHHHhcccc
Confidence 0
Q ss_pred -----------------hhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHH
Q 000377 1404 -----------------PIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRG 1466 (1605)
Q Consensus 1404 -----------------~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERq 1466 (1605)
.+.-.|||++.|.-+|..|+..|||||||+||+.|+|+|+.+|...||-|+||||.|+.++|+
T Consensus 1237 ~~~q~~~~r~lqFPelrLiqyDcGKLQtLAiLLqQLk~eghRvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQ 1316 (1958)
T KOG0391|consen 1237 QQRQTTAPRLLQFPELRLIQYDCGKLQTLAILLQQLKSEGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQ 1316 (1958)
T ss_pred chhhccchhhhcCcchheeecccchHHHHHHHHHHHHhcCceEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHH
Confidence 000125899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHH
Q 000377 1467 ALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRA 1546 (1605)
Q Consensus 1467 eiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIle 1546 (1605)
.++++||. |..+||||+||++||+||||+.||||||||.+|||.++.||.+|+|||||+++|+|||||...||||+|+.
T Consensus 1317 aLmerFNa-D~RIfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQAQDrChRIGqtRDVHIYRLISe~TIEeniLk 1395 (1958)
T KOG0391|consen 1317 ALMERFNA-DRRIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTRDVHIYRLISERTIEENILK 1395 (1958)
T ss_pred HHHHHhcC-CCceEEEEEeccCCccccccccCceEEEecCCCCchhhhHHHHHHHhhcCccceEEEEeeccchHHHHHHh
Confidence 99999977 55699999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhhccCccCC
Q 000377 1547 SAEHKLGVANQSITAGFFDN 1566 (1605)
Q Consensus 1547 ra~~Kl~L~~kVI~aG~fd~ 1566 (1605)
.+..|+.|.+-+|++|.|..
T Consensus 1396 kanqKr~L~evaiqggdfTt 1415 (1958)
T KOG0391|consen 1396 KANQKRMLDEVAIQGGDFTT 1415 (1958)
T ss_pred hhhHHHHHHHHhhccCCccH
Confidence 99999999999999998864
No 6
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=1.2e-89 Score=824.95 Aligned_cols=493 Identities=43% Similarity=0.674 Sum_probs=420.5
Q ss_pred ccCCCCccC-CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHH
Q 000377 1079 VSEQPTCLQ-GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWES 1157 (1605)
Q Consensus 1079 v~~qP~~L~-gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~ 1157 (1605)
+.+||..+. +.+|+|||+.||+||.-+|+++.+||||||||||||+|+||+++||.+.+. .||+|||||.|++.||.+
T Consensus 387 ~~~qp~~l~s~i~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~-~gpHLVVvPsSTleNWlr 465 (941)
T KOG0389|consen 387 ITEQPKLLSSGIQLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGN-PGPHLVVVPSSTLENWLR 465 (941)
T ss_pred cccCccccCCCCcccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCC-CCCcEEEecchhHHHHHH
Confidence 456888775 579999999999999999999999999999999999999999999988765 899999999999999999
Q ss_pred HHHHhCCCceEEEEcCChhHHHHHHHhhhhc--CCccEEEEcHHHHhhc-cCCCcccccCccEEEEecCccccCccchHH
Q 000377 1158 EINFWAPRIHKIVYCGPPEERRRLFKEKIVH--QKFNVLLTTYEYLMNK-HDRPKLSKIQWHYIIIDEGHRIKNASCKLN 1234 (1605)
Q Consensus 1158 Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~--~~fdVVITTYe~L~k~-~D~~~L~ki~wd~VIIDEAHriKN~~SKls 1234 (1605)
||.+|||.+++..|+|+..+|+++. ..+.. .+|+|++|||..+... .|+..|...+|+|+|+||+|.+||..|.++
T Consensus 466 Ef~kwCPsl~Ve~YyGSq~ER~~lR-~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy 544 (941)
T KOG0389|consen 466 EFAKWCPSLKVEPYYGSQDERRELR-ERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERY 544 (941)
T ss_pred HHHHhCCceEEEeccCcHHHHHHHH-HHHhccCCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhhhccchHHH
Confidence 9999999999999999999998774 33333 3899999999998643 367789999999999999999999999999
Q ss_pred HHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCC-hHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHH
Q 000377 1235 ADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNS-SEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQ 1313 (1605)
Q Consensus 1235 raL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s-~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~k 1313 (1605)
+-|+.+++.+||+|||||+||++.|||+||.|++|.+|.+ .+++...|..--.. +...+...+.++ -|.|-..
T Consensus 545 ~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~~--d~d~e~~~l~qe----rIsrAK~ 618 (941)
T KOG0389|consen 545 KHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKTS--DGDIENALLSQE----RISRAKT 618 (941)
T ss_pred HHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCCc--cchhhHHHHHHH----HHHHHHH
Confidence 9999999999999999999999999999999999999976 46677777653322 222334444443 4889999
Q ss_pred HhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhcc----CCCCCcchhHHHHHHHHHhcCccccchh
Q 000377 1314 VLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSI----GNSKGRSVHNSVMELRNICNHPYLSQLH 1389 (1605)
Q Consensus 1314 vLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~----~~~k~~~lln~L~qLRkicnHP~L~~~~ 1389 (1605)
++.||+|||+|.+|..+||+|..++.+|+|+..|+.+|..+.+.+... .......-.+.+|+||++++||.|+...
T Consensus 619 im~PFILRR~K~qVL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~ns~~~~~~vlmqlRK~AnHPLL~R~~ 698 (941)
T KOG0389|consen 619 IMKPFILRRLKSQVLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVSKNSELKSGNVLMQLRKAANHPLLFRSI 698 (941)
T ss_pred hhhHHHHHHHHHHHHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhccccccccccccchHHHHHHHHhcChhHHHHh
Confidence 999999999999999999999999999999999999999887665211 1111122256999999999999997533
Q ss_pred hhh--hh----h------------------------------------cCCCCCCChhhhhccHHHHHHHHHHHhhcCCC
Q 000377 1390 AEE--VD----T------------------------------------LIPKHYLPPIVRLCGKLEMLDRLLPKLKATDH 1427 (1605)
Q Consensus 1390 ~ee--id----~------------------------------------~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~ 1427 (1605)
..+ +. . +.........|-.|||++.|..+|++++..|+
T Consensus 699 Y~de~L~~mak~il~e~ay~~~n~qyIfEDm~~msDfelHqLc~~f~~~~~f~L~d~~~mdSgK~r~L~~LLp~~k~~G~ 778 (941)
T KOG0389|consen 699 YTDEKLRKMAKRILNEPAYKKANEQYIFEDMEVMSDFELHQLCCQFRHLSKFQLKDDLWMDSGKCRKLKELLPKIKKKGD 778 (941)
T ss_pred ccHHHHHHHHHHHhCchhhhhcCHHHHHHHHHhhhHHHHHHHHHhcCCCcccccCCchhhhhhhHhHHHHHHHHHhhcCC
Confidence 211 00 0 00011123457789999999999999999999
Q ss_pred eEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCC
Q 000377 1428 RVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTD 1507 (1605)
Q Consensus 1428 KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~ 1507 (1605)
|||||||||.++|||+.+|.-.+++|+||||+|...+|+.+|+.||.. .+++|||+||+|||.||||++||+||++|.+
T Consensus 779 RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d-~difVFLLSTKAGG~GINLt~An~VIihD~d 857 (941)
T KOG0389|consen 779 RVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTD-KDIFVFLLSTKAGGFGINLTCANTVIIHDID 857 (941)
T ss_pred EEEEeeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccC-CceEEEEEeeccCcceecccccceEEEeecC
Confidence 999999999999999999999999999999999999999999999765 4599999999999999999999999999999
Q ss_pred CChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHhhhhccCccCCCCCHHHHHHHHHHHHHHH
Q 000377 1508 WNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVANQSITAGFFDNNTSAEDRREYLESLLREC 1584 (1605)
Q Consensus 1508 WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~kVI~aG~fd~~~s~eE~~e~Le~LLee~ 1584 (1605)
+||..+.||.|||||+||+|+|+|||||+++||||.|+++++.|+.|...+-..+.-. .++.+..+-.+|+..
T Consensus 858 FNP~dD~QAEDRcHRvGQtkpVtV~rLItk~TIEE~I~~lA~~KL~Le~~lt~~~k~~----~~e~~~~v~~lL~~~ 930 (941)
T KOG0389|consen 858 FNPYDDKQAEDRCHRVGQTKPVTVYRLITKSTIEEGILRLAKTKLALEADLTEDGKGV----EDEGEKTVGKLLETE 930 (941)
T ss_pred CCCcccchhHHHHHhhCCcceeEEEEEEecCcHHHHHHHHHHHhhhhhhhhccCccch----hhhhhhHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999998888765432 223344555555543
No 7
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=3.7e-88 Score=867.13 Aligned_cols=502 Identities=46% Similarity=0.803 Sum_probs=440.7
Q ss_pred ccCCCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHH
Q 000377 1079 VSEQPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESE 1158 (1605)
Q Consensus 1079 v~~qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~E 1158 (1605)
+..+|..+. ++|||||++||+||+.++.++.||||||+||||||+|+|+++.++.......+|+|||||.+++.||..|
T Consensus 159 l~~qP~~i~-~~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL~nW~~E 237 (1033)
T PLN03142 159 LLVQPSCIK-GKMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTLGNWMNE 237 (1033)
T ss_pred eccCChHhc-cchHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHHHHHHHH
Confidence 457899888 8999999999999999999999999999999999999999999998877788999999999999999999
Q ss_pred HHHhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHH
Q 000377 1159 INFWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLK 1238 (1605)
Q Consensus 1159 f~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~ 1238 (1605)
|.+|+|.+.+++|+|+...|............++|+||||+++.+ +...|.++.|++|||||||++||..++++++++
T Consensus 238 i~kw~p~l~v~~~~G~~~eR~~~~~~~~~~~~~dVvITSYe~l~~--e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr 315 (1033)
T PLN03142 238 IRRFCPVLRAVKFHGNPEERAHQREELLVAGKFDVCVTSFEMAIK--EKTALKRFSWRYIIIDEAHRIKNENSLLSKTMR 315 (1033)
T ss_pred HHHHCCCCceEEEeCCHHHHHHHHHHHhcccCCCcceecHHHHHH--HHHHhccCCCCEEEEcCccccCCHHHHHHHHHH
Confidence 999999999999999998887666555556789999999999988 456789999999999999999999999999999
Q ss_pred hhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHH
Q 000377 1239 HYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPF 1318 (1605)
Q Consensus 1239 ~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPF 1318 (1605)
.+.+.+||+|||||++|++.|||++|+||.|++|++...|..||..+... .....+.+|+.+|+||
T Consensus 316 ~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~--------------~~~e~i~~L~~~L~pf 381 (1033)
T PLN03142 316 LFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGEN--------------DQQEVVQQLHKVLRPF 381 (1033)
T ss_pred HhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHcccccc--------------chHHHHHHHHHHhhHH
Confidence 99999999999999999999999999999999999999999999863211 1123578899999999
Q ss_pred HHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHh-hccC-CCCCcchhHHHHHHHHHhcCccccchhhhhhhhc
Q 000377 1319 VLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENL-GSIG-NSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTL 1396 (1605)
Q Consensus 1319 lLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l-~~~~-~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~ 1396 (1605)
++||+|.+|...||++.+.++.|.|++.|+.+|+.+.... ..+. ......+++.+++||++|+||+|+......
T Consensus 382 ~LRR~KsdV~~~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~~g~~~~~LlnilmqLRk~cnHP~L~~~~ep~---- 457 (1033)
T PLN03142 382 LLRRLKSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVVNAGGERKRLLNIAMQLRKCCNHPYLFQGAEPG---- 457 (1033)
T ss_pred HhhhhHHHHhhhCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhCCHHhhhccccc----
Confidence 9999999999999999999999999999999999875432 1111 122345789999999999999997532211
Q ss_pred CCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCC
Q 000377 1397 IPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQD 1476 (1605)
Q Consensus 1397 i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gd 1476 (1605)
.+......++..|+|+.+|+++|..+...|+||||||||+.++++|+++|..+|+.|++|+|+++.++|+.+++.||.++
T Consensus 458 ~~~~~~e~lie~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~ 537 (1033)
T PLN03142 458 PPYTTGEHLVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPG 537 (1033)
T ss_pred CcccchhHHhhhhhHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhcccc
Confidence 01112235677899999999999999999999999999999999999999999999999999999999999999999888
Q ss_pred CCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHh
Q 000377 1477 SPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVAN 1556 (1605)
Q Consensus 1477 s~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~ 1556 (1605)
+..+|||+||+|||+||||+.||+||+||+||||+.+.||+||||||||+++|.|||||+.+||||+|++++..|+.++.
T Consensus 538 s~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyRLIt~gTIEEkIlera~~Kl~Ld~ 617 (1033)
T PLN03142 538 SEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDA 617 (1033)
T ss_pred CCceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEEEEeCCcHHHHHHHHHHHHHHHHH
Confidence 88899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccCccCCC--CCHHHHHHHHHHHHHHHhh---hhcCCCCChHHHHHHHhcC
Q 000377 1557 QSITAGFFDNN--TSAEDRREYLESLLRECKK---EEAAPVLDDDALNDLLARR 1605 (1605)
Q Consensus 1557 kVI~aG~fd~~--~s~eE~~e~Le~LLee~~~---~e~~~v~dDdeln~lLAR~ 1605 (1605)
.||+.|.+... .+.++ |..|++.... ......+.|++|+.||+|.
T Consensus 618 ~Vi~~g~~~~~~~~~~~e----L~~ll~~ga~~~f~~~~~~~~~~did~il~~~ 667 (1033)
T PLN03142 618 LVIQQGRLAEQKTVNKDE----LLQMVRYGAEMVFSSKDSTITDEDIDRIIAKG 667 (1033)
T ss_pred HHHhcCcccccccCCHHH----HHHHHHhChHHhhhccCCCCCHHHHHHHHHhc
Confidence 99998876433 33443 4455553222 2223468999999999973
No 8
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=4.7e-86 Score=795.18 Aligned_cols=470 Identities=36% Similarity=0.634 Sum_probs=412.8
Q ss_pred CCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHH
Q 000377 1082 QPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINF 1161 (1605)
Q Consensus 1082 qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~K 1161 (1605)
.|..+. ..|+|||.+||+||..||.++.||||+||||||||||+|++++.+...+...+|.|||||.+++.||..||.+
T Consensus 198 vPg~I~-~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~Tii~qW~~E~~~ 276 (923)
T KOG0387|consen 198 VPGFIW-SKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPATIIHQWMKEFQT 276 (923)
T ss_pred ccHHHH-HHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcccccCceEEEccHHHHHHHHHHHHH
Confidence 344443 6899999999999999999999999999999999999999999999886777999999999999999999999
Q ss_pred hCCCceEEEEcCChhH----------HHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc
Q 000377 1162 WAPRIHKIVYCGPPEE----------RRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC 1231 (1605)
Q Consensus 1162 waP~l~vivy~Gs~~~----------R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S 1231 (1605)
|+|.+++.+|+++... ...............|+||||+.+.. ....+..+.|+|||+||+|+|+|+++
T Consensus 277 w~p~~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~--~~d~l~~~~W~y~ILDEGH~IrNpns 354 (923)
T KOG0387|consen 277 WWPPFRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRI--QGDDLLGILWDYVILDEGHRIRNPNS 354 (923)
T ss_pred hCcceEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhcc--cCcccccccccEEEecCcccccCCcc
Confidence 9999999999998752 11111122234567899999999987 44578999999999999999999999
Q ss_pred hHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHH
Q 000377 1232 KLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRL 1311 (1605)
Q Consensus 1232 KlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL 1311 (1605)
+++.+++.+++.+|++|||||+||++.|||+|++|+.|+.+++...|.+.|..|+..++........ ....+...-.|
T Consensus 355 ~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~f~~pI~~GgyaNAs~~q--v~~aykca~~L 432 (923)
T KOG0387|consen 355 KISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQNFEHPINRGGYANASPRQ--VQTAYKCAVAL 432 (923)
T ss_pred HHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhhhhhheeccccCCCCHHH--HHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999998877655432 23345566789
Q ss_pred HHHhhHHHHHHhhhhHhh-cCccceEEEEEecccHHHHHHHHHHHHH--hhccCCCCCcchhHHHHHHHHHhcCccccch
Q 000377 1312 HQVLRPFVLRRLKHKVEN-ELPEKIERLVRCEASAYQKLLMKRVEEN--LGSIGNSKGRSVHNSVMELRNICNHPYLSQL 1388 (1605)
Q Consensus 1312 ~kvLrPFlLRRtKkdVe~-eLP~K~E~vI~~eLS~~Qk~LYk~I~~~--l~~~~~~k~~~lln~L~qLRkicnHP~L~~~ 1388 (1605)
+.+|+||+|||+|.+|.. .||.|.+.|++|.||++|+.+|.++... +..+. ......+..+.-||++||||.|...
T Consensus 433 r~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v~~i~-ng~~~~l~Gi~iLrkICnHPdll~~ 511 (923)
T KOG0387|consen 433 RDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEVNKIL-NGKRNCLSGIDILRKICNHPDLLDR 511 (923)
T ss_pred HHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHHHHHH-cCCccceechHHHHhhcCCcccccC
Confidence 999999999999999999 9999999999999999999999987532 11111 2234567778899999999999765
Q ss_pred hhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHh-hcCceEEEEeCCCCHHHHHH
Q 000377 1389 HAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLT-FKQYRYLRLDGHTSGGDRGA 1467 (1605)
Q Consensus 1389 ~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~-~~GikylrLdGsts~eERqe 1467 (1605)
..+.... .......+..|||+++|..+|..+...|+|||+|+|...|+|+|+.+|. ..||.|+++||.|+...|+.
T Consensus 512 ~~~~~~~---~~D~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~ 588 (923)
T KOG0387|consen 512 RDEDEKQ---GPDYEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQK 588 (923)
T ss_pred ccccccc---CCCcCCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhH
Confidence 3211111 1111256788999999999999999999999999999999999999999 79999999999999999999
Q ss_pred HHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000377 1468 LIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRAS 1547 (1605)
Q Consensus 1468 iId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIler 1547 (1605)
+|++||++.+ ++|||++|++||+||||+.||.||+|||+|||..+.||..||+||||+|+|.||||++.+||||+||.+
T Consensus 589 lVd~Fne~~s-~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYRL~t~gTIEEkiY~r 667 (923)
T KOG0387|consen 589 LVDRFNEDES-IFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYRLMTAGTIEEKIYHR 667 (923)
T ss_pred HHHhhcCCCc-eEEEEEEecccccccccccCceEEEECCCCCCccchHHHHHHHhhcCccceEEEEEecCCcHHHHHHHH
Confidence 9999987665 899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhcc
Q 000377 1548 AEHKLGVANQSITA 1561 (1605)
Q Consensus 1548 a~~Kl~L~~kVI~a 1561 (1605)
+-.|..|.++++..
T Consensus 668 QI~Kq~Ltn~il~~ 681 (923)
T KOG0387|consen 668 QIFKQFLTNRILKN 681 (923)
T ss_pred HHHHHHHHHHHhcC
Confidence 99999999999864
No 9
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=1.1e-79 Score=758.56 Aligned_cols=467 Identities=38% Similarity=0.669 Sum_probs=404.5
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc------CCCCCEEEEecCCcccchHHHHHHh
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK------NDRGPFLVVVPSSVLPGWESEINFW 1162 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k------~~~gP~LIVvP~SLL~nW~~Ef~Kw 1162 (1605)
.+||.||.+||+|+..|+..+++|||||+||||||+|+|.+++.-...+ -...|.|||||.++...|+.|+.+|
T Consensus 974 a~LRkYQqEGVnWLaFLnky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPsTLtGHW~~E~~kf 1053 (1549)
T KOG0392|consen 974 AKLRKYQQEGVNWLAFLNKYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPSTLTGHWKSEVKKF 1053 (1549)
T ss_pred HHHHHHHHhccHHHHHHHHhcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCchhhhHHHHHHHHh
Confidence 7999999999999999999999999999999999999999887533222 1335899999999999999999999
Q ss_pred CCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhhhc
Q 000377 1163 APRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQS 1242 (1605)
Q Consensus 1163 aP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a 1242 (1605)
+|.++++.|.|.+.+|..+... ..+.+|+||+|+.+++ |...+.++.|.|+|+||+|-|||..++++++++.+.+
T Consensus 1054 ~pfL~v~~yvg~p~~r~~lR~q---~~~~~iiVtSYDv~Rn--D~d~l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a 1128 (1549)
T KOG0392|consen 1054 FPFLKVLQYVGPPAERRELRDQ---YKNANIIVTSYDVVRN--DVDYLIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRA 1128 (1549)
T ss_pred cchhhhhhhcCChHHHHHHHhh---ccccceEEeeHHHHHH--HHHHHHhcccceEEecCcceecchHHHHHHHHHHHhh
Confidence 9999999999999999876432 2567999999999998 4558999999999999999999999999999999999
Q ss_pred cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHH
Q 000377 1243 SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRR 1322 (1605)
Q Consensus 1243 ~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRR 1322 (1605)
.|||+|||||+||++.|||+||+||+|+++++.+.|...|.+|+....+.... ....|.....+..||+.+=||++||
T Consensus 1129 ~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEKqFqsrf~kpI~asRd~K~S--ske~EaG~lAleaLHKqVLPF~LRR 1206 (1549)
T KOG0392|consen 1129 NHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKQFQSRFGKPILASRDPKSS--SKEQEAGVLALEALHKQVLPFLLRR 1206 (1549)
T ss_pred cceEEeeCCCcccCHHHHHHHHHHhcccccCcHHHHHHHhcchhhhhcCcccc--hhHHHhhHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999887665433 2345667788999999999999999
Q ss_pred hhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhcc-----CC-----C-CCcchhHHHHHHHHHhcCccccchhhh
Q 000377 1323 LKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSI-----GN-----S-KGRSVHNSVMELRNICNHPYLSQLHAE 1391 (1605)
Q Consensus 1323 tKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~-----~~-----~-k~~~lln~L~qLRkicnHP~L~~~~~e 1391 (1605)
+|.||..+||||+.+-++|+|++.|+.+|+.+.+..... +. . ...-++.++..||+.|+||.|......
T Consensus 1207 lKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~h 1286 (1549)
T KOG0392|consen 1207 LKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVH 1286 (1549)
T ss_pred HHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHHhccccccccccchhccCcchHHHHHHHHHHHHhcCCcceeeCCCc
Confidence 999999999999999999999999999999987652110 00 0 122367889999999999998643210
Q ss_pred -hhhhcCC--CCCCChh--hhhccHHHHHHHHHHHhh--------------cCCCeEEEEEccHHHHHHHHHHHhhc---
Q 000377 1392 -EVDTLIP--KHYLPPI--VRLCGKLEMLDRLLPKLK--------------ATDHRVLFFSTMTRLLDVMEDYLTFK--- 1449 (1605)
Q Consensus 1392 -eid~~i~--~~~~~~l--vr~SgKle~L~~LL~kL~--------------a~g~KVLIFSQft~~LdiLe~~L~~~--- 1449 (1605)
+...... .+....+ +..++|+.+|.++|.++- ..+||+|||||+..++|++++-|-..
T Consensus 1287 p~la~i~~~l~~~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL~k~~mp 1366 (1549)
T KOG0392|consen 1287 PDLAAIVSHLAHFNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDLFKKYMP 1366 (1549)
T ss_pred chHHHHHHHHHHhhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHHhhhhcC
Confidence 0000000 0111122 567899999999998762 15799999999999999999988654
Q ss_pred CceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcE
Q 000377 1450 QYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1450 GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV 1529 (1605)
.+.|+||||++++.+|++++.+||++. .+.|+|++|.+||.|||||.||||||++-+|||..+.||+||||||||+|.|
T Consensus 1367 sVtymRLDGSVpp~~R~kiV~~FN~Dp-tIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrDLQAMDRAHRIGQKrvV 1445 (1549)
T KOG0392|consen 1367 SVTYMRLDGSVPPGDRQKIVERFNEDP-TIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRDLQAMDRAHRIGQKRVV 1445 (1549)
T ss_pred ceeEEEecCCCCcHHHHHHHHHhcCCC-ceeEEEEeeeccccccccCCCceEEEEecCCCchhhHHHHHHHHhhcCceee
Confidence 567999999999999999999998753 4789999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeCCCHHHHHHHHHHHHHHHHhhhhccCc
Q 000377 1530 LVLRFETVQTVEEQVRASAEHKLGVANQSITAGF 1563 (1605)
Q Consensus 1530 ~VyRLIt~~TIEEkIlera~~Kl~L~~kVI~aG~ 1563 (1605)
.|||||++||+||+|+.++..|.++++.||.+..
T Consensus 1446 NVyRlItrGTLEEKVMgLQkFKmnvAntvInqqN 1479 (1549)
T KOG0392|consen 1446 NVYRLITRGTLEEKVMGLQKFKMNVANTVINQQN 1479 (1549)
T ss_pred eeeeehhcccHHHHHhhHHHHhhHHHHHHHhccc
Confidence 9999999999999999999999999999997654
No 10
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=3.3e-68 Score=658.14 Aligned_cols=473 Identities=33% Similarity=0.487 Sum_probs=393.2
Q ss_pred CCCccHHHHHHHHHHHHHhh------cCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCC-----CCCEEEEecCCcccchH
Q 000377 1088 GGKLREYQMSGLRWLVSLYN------NQLNGILADEMGLGKTVQVIALICYLMETKND-----RGPFLVVVPSSVLPGWE 1156 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~------n~~nGILADEMGLGKTIqAIALI~~Lle~k~~-----~gP~LIVvP~SLL~nW~ 1156 (1605)
...|||||.+|++||..-.. +..|||+||+||+|||+|+|++|..+++..+. .+ .|||||.+++.||.
T Consensus 236 ~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k-~lVV~P~sLv~nWk 314 (776)
T KOG0390|consen 236 KKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINK-PLVVAPSSLVNNWK 314 (776)
T ss_pred hhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccc-cEEEccHHHHHHHH
Confidence 46899999999999987532 44678999999999999999999999998777 44 59999999999999
Q ss_pred HHHHHhCC--CceEEEEcCChhHH----HHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCcc
Q 000377 1157 SEINFWAP--RIHKIVYCGPPEER----RRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNAS 1230 (1605)
Q Consensus 1157 ~Ef~KwaP--~l~vivy~Gs~~~R----~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~ 1230 (1605)
+||.+|.. .+....+.+..... ..++......-..-|+|.+|+.+.. ....+....+++||+||+|+.||..
T Consensus 315 kEF~KWl~~~~i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~--~~~~il~~~~glLVcDEGHrlkN~~ 392 (776)
T KOG0390|consen 315 KEFGKWLGNHRINPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASD--YCRKILLIRPGLLVCDEGHRLKNSD 392 (776)
T ss_pred HHHHHhccccccceeeeecccchhhhhhHHHHHhhhhheeEEEEeccHHHHHH--HHHHHhcCCCCeEEECCCCCccchh
Confidence 99999986 56677776666541 1111111222345688999999975 3346777889999999999999999
Q ss_pred chHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHH
Q 000377 1231 CKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINR 1310 (1605)
Q Consensus 1231 SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~R 1310 (1605)
+.++++|..+.+++|++|||||+||++.|++++|+|++|+++++...|...|..|+...++..........++ -+..
T Consensus 393 s~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~sf~k~~~~~i~~~~~~~~s~e~~~~~~---rl~e 469 (776)
T KOG0390|consen 393 SLTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISSFKKKFEIPILRGRDADASEEDREREE---RLQE 469 (776)
T ss_pred hHHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhhccchHHHHHHhhcccccccCCCcchhhhhhHH---HHHH
Confidence 9999999999999999999999999999999999999999999999999999999988776554433333322 2889
Q ss_pred HHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhh
Q 000377 1311 LHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHA 1390 (1605)
Q Consensus 1311 L~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~ 1390 (1605)
|..++..|++||+-..+.+.||.+.+++|.|.+++.|..+|+.+.... .........+..+..|.++|+||.|.....
T Consensus 470 L~~~t~~fi~rrt~~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~--~~~~~~~~~l~~~~~L~k~cnhP~L~~~~~ 547 (776)
T KOG0390|consen 470 LRELTNKFILRRTGDILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSM--KMRTLKGYALELITKLKKLCNHPSLLLLCE 547 (776)
T ss_pred HHHHHHhheeecccchhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHH--HhhhhhcchhhHHHHHHHHhcCHHhhcccc
Confidence 999999999999998999999999999999999999999999987753 111111226778889999999999974211
Q ss_pred h-hhh-hcC-------CC--CCCChhhhhccHHHHHHHHHHHhhc-CCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeC
Q 000377 1391 E-EVD-TLI-------PK--HYLPPIVRLCGKLEMLDRLLPKLKA-TDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDG 1458 (1605)
Q Consensus 1391 e-eid-~~i-------~~--~~~~~lvr~SgKle~L~~LL~kL~a-~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdG 1458 (1605)
. +-. ... +. .........++|+..|+.++....+ ...++++.++++.++++++..++++|+.+++|||
T Consensus 548 ~~~~e~~~~~~~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~~~g~~~~rLdG 627 (776)
T KOG0390|consen 548 KTEKEKAFKNPALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCRWRGYEVLRLDG 627 (776)
T ss_pred cccccccccChHhhhcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHHHHHhhcCceEEEEcC
Confidence 1 100 000 00 1111122357899999999865543 3356777789999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1459 HTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1459 sts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
.|+..+|+.+|+.||++.++.+|||+|++|||+||||..|++||+||++|||+.+.||++||+|.||+|+|+||||++.+
T Consensus 628 ~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdGQKk~v~iYrLlatG 707 (776)
T KOG0390|consen 628 KTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDGQKKPVYIYRLLATG 707 (776)
T ss_pred CCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCCCCCchhHHHHHHHhccCCCcceEEEEEeecCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHhhhhccCccCCCC
Q 000377 1539 TVEEQVRASAEHKLGVANQSITAGFFDNNT 1568 (1605)
Q Consensus 1539 TIEEkIlera~~Kl~L~~kVI~aG~fd~~~ 1568 (1605)
|+||+|++++.+|..+-..|++........
T Consensus 708 tiEEk~~qrq~~K~~lS~~v~~~~~~~~~~ 737 (776)
T KOG0390|consen 708 TIEEKIYQRQTHKEGLSSMVFDEEEDVEKH 737 (776)
T ss_pred CchHHHHHHHHHhhhhhheEEecccccccc
Confidence 999999999999999999999876544433
No 11
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1.9e-64 Score=650.37 Aligned_cols=473 Identities=43% Similarity=0.689 Sum_probs=405.7
Q ss_pred CCCC-ccCCCCccHHHHHHHHHHH-HHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCC-CCCEEEEecCCcccchHH
Q 000377 1081 EQPT-CLQGGKLREYQMSGLRWLV-SLYNNQLNGILADEMGLGKTVQVIALICYLMETKND-RGPFLVVVPSSVLPGWES 1157 (1605)
Q Consensus 1081 ~qP~-~L~gg~LRpYQleGL~wLl-sL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~-~gP~LIVvP~SLL~nW~~ 1157 (1605)
..|. .....+|+|||.+|++|+. .++....+|||||+||+|||+|+|+++.++.+.... .+|+|||||.+++.||..
T Consensus 328 ~~~~~~~~~~~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s~~~nw~~ 407 (866)
T COG0553 328 NAPEPVDLSAELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPASLLSNWKR 407 (866)
T ss_pred ccCchhhhhhhhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecHHHHHHHHH
Confidence 3443 3334799999999999999 899999999999999999999999999987766555 579999999999999999
Q ss_pred HHHHhCCCce-EEEEcCChhH----HHHHHHhhhhc---CCccEEEEcHHHHhhc-cCCCcccccCccEEEEecCccccC
Q 000377 1158 EINFWAPRIH-KIVYCGPPEE----RRRLFKEKIVH---QKFNVLLTTYEYLMNK-HDRPKLSKIQWHYIIIDEGHRIKN 1228 (1605)
Q Consensus 1158 Ef~KwaP~l~-vivy~Gs~~~----R~~l~~~~i~~---~~fdVVITTYe~L~k~-~D~~~L~ki~wd~VIIDEAHriKN 1228 (1605)
|+.+|+|.+. +.+++|.... +..+ ...... ..+++++|||+++... .+...+..+.|+++|+||||++||
T Consensus 408 e~~k~~~~~~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~~~~v~itty~~l~~~~~~~~~l~~~~~~~~v~DEa~~ikn 486 (866)
T COG0553 408 EFEKFAPDLRLVLVYHGEKSELDKKREAL-RDLLKLHLVIIFDVVITTYELLRRFLVDHGGLKKIEWDRVVLDEAHRIKN 486 (866)
T ss_pred HHhhhCccccceeeeeCCcccccHHHHHH-HHHhhhcccceeeEEechHHHHHHhhhhHHHHhhceeeeeehhhHHHHhh
Confidence 9999999999 9999998852 2222 222211 1389999999999872 144579999999999999999999
Q ss_pred ccchHHHHHHhhhccceecccccCCCCCHHHHHHHHH-hhcCCCCC-ChHHHHHHhcccccCCCCCCchhhhhhHHHHHH
Q 000377 1229 ASCKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLN-FLLPNIFN-SSEDFSQWFNKPFESNGDNSPDEALLSEEENLL 1306 (1605)
Q Consensus 1229 ~~SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLn-FL~P~if~-s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~ 1306 (1605)
..+..++++..+++.++++|||||++|++.|||++++ |++|.+++ +...|..||..|+....+... .+....
T Consensus 487 ~~s~~~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~~f~~~~~~~~~~~~~~~~------~~~~~~ 560 (866)
T COG0553 487 DQSSEGKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFAIFTRLFEKPIQAEEDIGP------LEAREL 560 (866)
T ss_pred hhhHHHHHHHHHhhcceeeCCCChHhhhHHHHHHHHHHHhCCccccchHHHHHHHHhhhhhhcccccc------hhhHHH
Confidence 9999999999999999999999999999999999999 99999999 569999999999887665432 223334
Q ss_pred HHHHHHHHhhHHHHHHhhhh--HhhcCccceEEEEEecccHHHHHHHHHHHH---Hh----hccCCC---------CCcc
Q 000377 1307 IINRLHQVLRPFVLRRLKHK--VENELPEKIERLVRCEASAYQKLLMKRVEE---NL----GSIGNS---------KGRS 1368 (1605)
Q Consensus 1307 iI~RL~kvLrPFlLRRtKkd--Ve~eLP~K~E~vI~~eLS~~Qk~LYk~I~~---~l----~~~~~~---------k~~~ 1368 (1605)
.+.+|+.+++||++||+|.+ +..+||++.+.++.|+++..|..+|..+.. .. ...... ....
T Consensus 561 ~~~~l~~~i~~f~lrr~k~~~~v~~~Lp~k~e~~~~~~l~~~q~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 640 (866)
T COG0553 561 GIELLRKLLSPFILRRTKEDVEVLKELPPKIEKVLECELSEEQRELYEALLEGAEKNQQLLEDLEKADSDENRIGDSELN 640 (866)
T ss_pred HHHHHHHHHHHHhhcccccchhHHHhCChhhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccchhhH
Confidence 56669999999999999999 999999999999999999999999987655 21 111111 1345
Q ss_pred hhHHHHHHHHHhcCccccchh-hhhhhhc--------CCCCCCChhhhhc-cHHHHHHHHH-HHhhcCCC--eEEEEEcc
Q 000377 1369 VHNSVMELRNICNHPYLSQLH-AEEVDTL--------IPKHYLPPIVRLC-GKLEMLDRLL-PKLKATDH--RVLFFSTM 1435 (1605)
Q Consensus 1369 lln~L~qLRkicnHP~L~~~~-~eeid~~--------i~~~~~~~lvr~S-gKle~L~~LL-~kL~a~g~--KVLIFSQf 1435 (1605)
+++.++.||++|+||.++... ....+.. ........++..| +|+..++++| ..+...++ |||||+||
T Consensus 641 ~l~~~~~lr~~~~~p~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~~kvlifsq~ 720 (866)
T COG0553 641 ILALLTRLRQICNHPALVDEGLEATFDRIVLLLREDKDFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHYHKVLIFSQF 720 (866)
T ss_pred HHHHHHHHHHhccCccccccccccccchhhhhhhcccccccccchhhhccchHHHHHHHHHHHHHHhhcccccEEEEeCc
Confidence 788999999999999998654 1111110 1111223456778 9999999999 89999999 99999999
Q ss_pred HHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHH
Q 000377 1436 TRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQ 1515 (1605)
Q Consensus 1436 t~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~Q 1515 (1605)
+.++++|+.+|...++.|++++|+++..+|+.++++|+++ ..++|||+|++|||.||||+.|++||+||+||||+.+.|
T Consensus 721 t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~-~~~~v~lls~kagg~glnLt~a~~vi~~d~~wnp~~~~Q 799 (866)
T COG0553 721 TPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNAD-EEEKVFLLSLKAGGLGLNLTGADTVILFDPWWNPAVELQ 799 (866)
T ss_pred HHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcC-CCCceEEEEecccccceeecccceEEEeccccChHHHHH
Confidence 9999999999999999999999999999999999999887 557899999999999999999999999999999999999
Q ss_pred HhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHhhhhcc
Q 000377 1516 AQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVANQSITA 1561 (1605)
Q Consensus 1516 AiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~kVI~a 1561 (1605)
|++|+|||||+++|.||++++.+|+||+|++++..|..+...++++
T Consensus 800 a~dRa~RigQ~~~v~v~r~i~~~tiEe~i~~~~~~K~~l~~~~~~~ 845 (866)
T COG0553 800 AIDRAHRIGQKRPVKVYRLITRGTIEEKILELQEKKQELLDSLIDA 845 (866)
T ss_pred HHHHHHHhcCcceeEEEEeecCCcHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999999999999999999999985
No 12
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=1.8e-64 Score=581.28 Aligned_cols=476 Identities=32% Similarity=0.477 Sum_probs=381.3
Q ss_pred cCCCCccCCCCccHHHHHHHHHHHHHhh-cCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHH
Q 000377 1080 SEQPTCLQGGKLREYQMSGLRWLVSLYN-NQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESE 1158 (1605)
Q Consensus 1080 ~~qP~~L~gg~LRpYQleGL~wLlsL~~-n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~E 1158 (1605)
.+||..+. ..|.|||+++|.|+..... .-.|||||||||.|||||+|+|++. .....|.|||||.-.+.||.+|
T Consensus 175 aeqP~dli-i~LL~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLlla----e~~ra~tLVvaP~VAlmQW~nE 249 (791)
T KOG1002|consen 175 AEQPDDLI-IPLLPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLA----EVDRAPTLVVAPTVALMQWKNE 249 (791)
T ss_pred ccCcccce-ecchhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHh----ccccCCeeEEccHHHHHHHHHH
Confidence 47888887 8999999999999998866 4578999999999999999999875 2445689999999999999999
Q ss_pred HHHhCC-CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhcc---------------CCCcccccCccEEEEec
Q 000377 1159 INFWAP-RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKH---------------DRPKLSKIQWHYIIIDE 1222 (1605)
Q Consensus 1159 f~KwaP-~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~---------------D~~~L~ki~wd~VIIDE 1222 (1605)
|.+++. .+++++|+|..... -.++ ...||||+|||..+.... ..+.|..++|..||+||
T Consensus 250 I~~~T~gslkv~~YhG~~R~~--nike---l~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDE 324 (791)
T KOG1002|consen 250 IERHTSGSLKVYIYHGAKRDK--NIKE---LMNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDE 324 (791)
T ss_pred HHHhccCceEEEEEecccccC--CHHH---hhcCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhh
Confidence 999985 67999999986432 1222 368999999998885322 13457889999999999
Q ss_pred CccccCccchHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCCh---------------------------
Q 000377 1223 GHRIKNASCKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSS--------------------------- 1275 (1605)
Q Consensus 1223 AHriKN~~SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~--------------------------- 1275 (1605)
||.||+..|...+++..+.+.+||+|||||+||.+.|||+|+.||...+|.-+
T Consensus 325 AH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyyfc~~cdc~~~~~~ftdr~~c~~c~h~~ 404 (791)
T KOG1002|consen 325 AHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYYFCTKCDCASLDWKFTDRMHCDHCSHNI 404 (791)
T ss_pred hcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhhhhhhccccccceeecccccCCcccchh
Confidence 99999999999999999999999999999999999999999999977655311
Q ss_pred ----HHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHhhhhHhh--cCccceEEEEEecccHHHHH
Q 000377 1276 ----EDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRRLKHKVEN--ELPEKIERLVRCEASAYQKL 1349 (1605)
Q Consensus 1276 ----~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtKkdVe~--eLP~K~E~vI~~eLS~~Qk~ 1349 (1605)
-.|...+.+|+...+...+.. ......|.+|.-.|+||+|-+-.. -|||.+..+..--++..+..
T Consensus 405 m~h~~~~n~~mlk~IqkfG~eGpGk---------~af~~~h~llk~ImlrrTkl~RAdDLgLPPRiv~vRrD~fn~eE~D 475 (791)
T KOG1002|consen 405 MQHTCFFNHFMLKPIQKFGVEGPGK---------EAFNNIHTLLKNIMLRRTKLERADDLGLPPRIVTVRRDFFNEEEKD 475 (791)
T ss_pred hhhhhhhcccccccchhhcccCchH---------HHHHHHHHHHHHHHHHHhhcccccccCCCccceeeehhhhhhHHHH
Confidence 112233345555555443322 223467899999999999875443 47999888887778888887
Q ss_pred HHHHHHHHh--------h-ccCCCCCcchhHHHHHHHHHhcCccccchhhh---------------------h-------
Q 000377 1350 LMKRVEENL--------G-SIGNSKGRSVHNSVMELRNICNHPYLSQLHAE---------------------E------- 1392 (1605)
Q Consensus 1350 LYk~I~~~l--------~-~~~~~k~~~lln~L~qLRkicnHP~L~~~~~e---------------------e------- 1392 (1605)
+|+.+...- . ......+..++..+++|||+..||+|+-.... +
T Consensus 476 ~YeSLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~~n~~~enk~~~~C~lc~d~aed~i~s~Ch 555 (791)
T KOG1002|consen 476 LYESLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSANANLPDENKGEVECGLCHDPAEDYIESSCH 555 (791)
T ss_pred HHHHHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhhcCCCccccCceeecccCChhhhhHhhhhh
Confidence 777653321 1 11123455688899999999999999532100 0
Q ss_pred -------h----hhcC-------C-----------CC------------------CCChhhhhccHHHHHHHHHHHhhcC
Q 000377 1393 -------V----DTLI-------P-----------KH------------------YLPPIVRLCGKLEMLDRLLPKLKAT 1425 (1605)
Q Consensus 1393 -------i----d~~i-------~-----------~~------------------~~~~lvr~SgKle~L~~LL~kL~a~ 1425 (1605)
+ ..+. | .+ ..-..|..|.|+++|.+-|..+.+.
T Consensus 556 H~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~sSIlnRinm~~~qsSTKIEAL~EEl~~l~~r 635 (791)
T KOG1002|consen 556 HKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKASSILNRINMDDWQSSTKIEALVEELYFLRER 635 (791)
T ss_pred HHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcchhhhhhHHHhhhcchhhhcchhHHHHHHHHHHHHHHc
Confidence 0 0000 0 00 0011356788999999999988765
Q ss_pred C--CeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEE
Q 000377 1426 D--HRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVII 1503 (1605)
Q Consensus 1426 g--~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIi 1503 (1605)
+ -|.|||+|||.++|+|.-.|...|+.++.|.|+|++..|...|+.| ..+.++.|||+|.+|||..|||+.|.+|++
T Consensus 636 d~t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F-~nd~~c~vfLvSLkAGGVALNLteASqVFm 714 (791)
T KOG1002|consen 636 DRTAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYF-KNDIDCRVFLVSLKAGGVALNLTEASQVFM 714 (791)
T ss_pred ccchhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHh-ccCCCeEEEEEEeccCceEeeechhceeEe
Confidence 5 5789999999999999999999999999999999999999999999 557889999999999999999999999999
Q ss_pred EcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHhhhhccCc-cCCCCCHHHHHH
Q 000377 1504 FDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVANQSITAGF-FDNNTSAEDRRE 1575 (1605)
Q Consensus 1504 yDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~kVI~aG~-fd~~~s~eE~~e 1575 (1605)
+||||||+.+.||++|+|||||.++|+|.||+.++|||++|++++++|.+++...|+... --.+++.++.+-
T Consensus 715 mDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~mihaTi~qde~Ai~kLt~eDmqf 787 (791)
T KOG1002|consen 715 MDPWWNPAVEWQAQDRIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHATIGQDEEAISKLTEEDMQF 787 (791)
T ss_pred ecccccHHHHhhhhhhHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhhhcCCcHHHHHhcCHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999996542 223556555443
No 13
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=7e-63 Score=587.50 Aligned_cols=476 Identities=29% Similarity=0.477 Sum_probs=391.5
Q ss_pred ccCCCCccCCCCccHHHHHHHHHHHHHhh-cCCCeEEEcCCCCcHHHHHHHHHHHHHHhc-------CCCCCEEEEecCC
Q 000377 1079 VSEQPTCLQGGKLREYQMSGLRWLVSLYN-NQLNGILADEMGLGKTVQVIALICYLMETK-------NDRGPFLVVVPSS 1150 (1605)
Q Consensus 1079 v~~qP~~L~gg~LRpYQleGL~wLlsL~~-n~~nGILADEMGLGKTIqAIALI~~Lle~k-------~~~gP~LIVvP~S 1150 (1605)
+++.|..+. ..|.|||..|+.||+-... .+.||||||+||+|||...|++|..-.... ....++|||||.+
T Consensus 315 lte~P~g~~-v~LmpHQkaal~Wl~wRE~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~PaS 393 (901)
T KOG4439|consen 315 LTETPDGLK-VELMPHQKAALRWLLWRESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPAS 393 (901)
T ss_pred ccCCCCcce-eecchhhhhhhhhhcccccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcHH
Confidence 356787776 8999999999999998654 356899999999999999999998754431 1223699999999
Q ss_pred cccchHHHHHHhCC--CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhcc--------CCCcccccCccEEEE
Q 000377 1151 VLPGWESEINFWAP--RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKH--------DRPKLSKIQWHYIII 1220 (1605)
Q Consensus 1151 LL~nW~~Ef~KwaP--~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~--------D~~~L~ki~wd~VII 1220 (1605)
++.||..|+++-.. .+.|++|||+.. +.+-. -....||||||||..+.+.. ....|..+.|.+||+
T Consensus 394 li~qW~~Ev~~rl~~n~LsV~~~HG~n~--r~i~~--~~L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVIL 469 (901)
T KOG4439|consen 394 LIHQWEAEVARRLEQNALSVYLYHGPNK--REISA--KELRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVIL 469 (901)
T ss_pred HHHHHHHHHHHHHhhcceEEEEecCCcc--ccCCH--HHHhhcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhh
Confidence 99999999987763 478999999974 22211 12368999999999997622 234588999999999
Q ss_pred ecCccccCccchHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhh
Q 000377 1221 DEGHRIKNASCKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLS 1300 (1605)
Q Consensus 1221 DEAHriKN~~SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Ls 1300 (1605)
||||.++|+.++.+.++..+.+.+||+|||||++|++-|+|+|+.||.-..|++...|.+|+..+-...
T Consensus 470 DEAH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~~Wke~i~~~s~~g----------- 538 (901)
T KOG4439|consen 470 DEAHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLKQWKENIDNMSKGG----------- 538 (901)
T ss_pred hhhhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHHHHHHhccCccccc-----------
Confidence 999999999999999999999999999999999999999999999999999999999999987543221
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHhhhhHhh-----cCccceEEEEEecccHHHHHHHHHHHHHhhcc--------------
Q 000377 1301 EEENLLIINRLHQVLRPFVLRRLKHKVEN-----ELPEKIERLVRCEASAYQKLLMKRVEENLGSI-------------- 1361 (1605)
Q Consensus 1301 eee~~~iI~RL~kvLrPFlLRRtKkdVe~-----eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~-------------- 1361 (1605)
-+||.-+.++.+|||+|..+.. .||.+...++.++|+..+...|+.+.+.-..+
T Consensus 539 -------~~rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~askk~~kq~L~~~e~~~~~ 611 (901)
T KOG4439|consen 539 -------ANRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLFKQFLLQREDRNND 611 (901)
T ss_pred -------hhhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Confidence 3567888899999999998877 89999999999999999888887654321000
Q ss_pred CCC-------------------------------CCcchhHHHHHHHHHhcCccccchhhh------------h-----h
Q 000377 1362 GNS-------------------------------KGRSVHNSVMELRNICNHPYLSQLHAE------------E-----V 1393 (1605)
Q Consensus 1362 ~~~-------------------------------k~~~lln~L~qLRkicnHP~L~~~~~e------------e-----i 1393 (1605)
+.. ....++..+++|||+|+||.+.....+ + .
T Consensus 612 ~~~~s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~~~g~~~sde~~~e~ 691 (901)
T KOG4439|consen 612 GGYQSRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQMNGGDDSDEEQLEE 691 (901)
T ss_pred cCccccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhhhcCcchhhhhhhhh
Confidence 000 001257778999999999955321110 0 0
Q ss_pred hhc------------------CCC---CCCChhhhhccHHHHHHHHHHHh-hcCCCeEEEEEccHHHHHHHHHHHhhcCc
Q 000377 1394 DTL------------------IPK---HYLPPIVRLCGKLEMLDRLLPKL-KATDHRVLFFSTMTRLLDVMEDYLTFKQY 1451 (1605)
Q Consensus 1394 d~~------------------i~~---~~~~~lvr~SgKle~L~~LL~kL-~a~g~KVLIFSQft~~LdiLe~~L~~~Gi 1451 (1605)
+.+ .+. .......+.|.|+..+..+++.+ .....|++|.+||+.+++++...|...|+
T Consensus 692 ~~l~el~k~~~T~~~~D~~ed~p~~~~~q~Fe~~r~S~Ki~~~l~~le~i~~~skeK~viVSQwtsvLniv~~hi~~~g~ 771 (901)
T KOG4439|consen 692 DNLAELEKNDETDCSDDNCEDLPTAFPDQAFEPDRPSCKIAMVLEILETILTSSKEKVVIVSQWTSVLNIVRKHIQKGGH 771 (901)
T ss_pred hHHHhhhhcccccccccccccccccchhhhcccccchhHHHHHHHHHHHHhhcccceeeehhHHHHHHHHHHHHHhhCCe
Confidence 000 000 01123346788999999999887 66789999999999999999999999999
Q ss_pred eEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEE
Q 000377 1452 RYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLV 1531 (1605)
Q Consensus 1452 kylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~V 1531 (1605)
.|..++|.....+|+++|+.||..+...+|+|+|..|||.||||..|+++|++|..|||+-+.||.+|++|+||+|+|.|
T Consensus 772 ~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcDRIYR~GQkK~V~I 851 (901)
T KOG4439|consen 772 IYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQACDRIYRMGQKKDVFI 851 (901)
T ss_pred eeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEecccCHHHHHHHHHHHHHhcccCceEE
Confidence 99999999999999999999999888889999999999999999999999999999999999999999999999999999
Q ss_pred EEEEeCCCHHHHHHHHHHHHHHHHhhhhccCc--cCCCCCHHHHHHHH
Q 000377 1532 LRFETVQTVEEQVRASAEHKLGVANQSITAGF--FDNNTSAEDRREYL 1577 (1605)
Q Consensus 1532 yRLIt~~TIEEkIlera~~Kl~L~~kVI~aG~--fd~~~s~eE~~e~L 1577 (1605)
|||++.+|||++|..++..|++++..|+.+.. ..++++..+.+.++
T Consensus 852 hR~~~~gTvEqrV~~LQdkKldlA~~VL~G~~tr~~~kLT~adlk~LF 899 (901)
T KOG4439|consen 852 HRLMCKGTVEQRVKSLQDKKLDLAKGVLTGSATRKMNKLTLADLKKLF 899 (901)
T ss_pred EEEEecCcHHHHHHHHHHHHHHHHhhhccCccccccccccHHHHHHHh
Confidence 99999999999999999999999999998543 35667766655544
No 14
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=6.2e-63 Score=594.69 Aligned_cols=489 Identities=27% Similarity=0.419 Sum_probs=392.7
Q ss_pred ccCCCCccCCCCccHHHHHHHHHHHHHh---------hcCCCeEEEcCCCCcHHHHHHHHHHHHHH-hcCCCCCEEEEec
Q 000377 1079 VSEQPTCLQGGKLREYQMSGLRWLVSLY---------NNQLNGILADEMGLGKTVQVIALICYLME-TKNDRGPFLVVVP 1148 (1605)
Q Consensus 1079 v~~qP~~L~gg~LRpYQleGL~wLlsL~---------~n~~nGILADEMGLGKTIqAIALI~~Lle-~k~~~gP~LIVvP 1148 (1605)
....|..+. .+|+|||..||+||+... ..+.|||||+=||||||+|+|+|+..++. .+-....+|||||
T Consensus 658 ~VqV~rslv-~kLKpHQv~GvqFMwd~~~eSlkr~~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c~klg~ktaLvV~P 736 (1567)
T KOG1015|consen 658 LVQVHRSLV-IKLKPHQVDGVQFMWDCCCESLKRTKKSPGSGCILAHCMGLGKTLQVVTFLHTVLLCDKLGFKTALVVCP 736 (1567)
T ss_pred hhhccHhHH-hhcCcccccchhHHHHHHHHHHHhhcCCCCcchHHHHhhcccceehhhHHHHHHHHhhccCCceEEEEcc
Confidence 334555565 799999999999998642 34678999999999999999999876554 3455568999999
Q ss_pred CCcccchHHHHHHhCCCc------eEEEEc--CChhHHHHHHHhhhhcCCccEEEEcHHHHhhccC-------------C
Q 000377 1149 SSVLPGWESEINFWAPRI------HKIVYC--GPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHD-------------R 1207 (1605)
Q Consensus 1149 ~SLL~nW~~Ef~KwaP~l------~vivy~--Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D-------------~ 1207 (1605)
.+++.||..||++|.+++ .|..+. -.+..|..++. .+.....|+|+-|++++.... .
T Consensus 737 lNt~~NW~~EFekWm~~~e~~~~leV~eL~~vkr~e~R~~~L~--~W~~~ggVmIiGYdmyRnLa~gr~vk~rk~ke~f~ 814 (1567)
T KOG1015|consen 737 LNTALNWMNEFEKWMEGLEDDEKLEVSELATVKRPEERSYMLQ--RWQEDGGVMIIGYDMYRNLAQGRNVKSRKLKEIFN 814 (1567)
T ss_pred hHHHHHHHHHHHHhcccccccccceeehhhhccChHHHHHHHH--HHHhcCCEEEEehHHHHHHhcccchhhhHHHHHHH
Confidence 999999999999999853 222211 22234444433 344566999999999964221 1
Q ss_pred CcccccCccEEEEecCccccCccchHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhccccc
Q 000377 1208 PKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFE 1287 (1605)
Q Consensus 1208 ~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e 1287 (1605)
..|..-.+|+||+||||-+||..+.+++++..+.+.+||+|||||+||||.|++.+++|+.|+++++...|...|..||.
T Consensus 815 k~lvdpGPD~vVCDE~HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs~~EfrNRFvNpI~ 894 (1567)
T KOG1015|consen 815 KALVDPGPDFVVCDEGHILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGSIKEFRNRFVNPIQ 894 (1567)
T ss_pred HhccCCCCCeEEecchhhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccCcHHHHHhhcCccc
Confidence 12455578999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCC----
Q 000377 1288 SNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGN---- 1363 (1605)
Q Consensus 1288 ~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~---- 1363 (1605)
++.........+.. -..-.+-|+.+|..|+-|+-...+...||||.++||.+.|++.|..||..+.......+.
T Consensus 895 nGq~~dST~~DVr~--Mk~RsHILye~LkgcVqRkDy~Vltk~LPPK~eyVi~vrltelQ~~LYq~yL~h~~~~G~d~eg 972 (1567)
T KOG1015|consen 895 NGQCADSTMVDVRV--MKKRSHILYEMLKGCVQRKDYTVLTKFLPPKHEYVIAVRLTELQCKLYQYYLDHLTGVGNDSEG 972 (1567)
T ss_pred cCccCCCcHHHHHH--HHHHHHHHHHHHHHHHhhhhhhhhcccCCCceeEEEEEeccHHHHHHHHHHHhhccccCCcccc
Confidence 87655432221110 111234588999999999999999999999999999999999999999998774432222
Q ss_pred --CCCcchhHHHHHHHHHhcCccccchhhhh-----------hhhcCC--------------------------------
Q 000377 1364 --SKGRSVHNSVMELRNICNHPYLSQLHAEE-----------VDTLIP-------------------------------- 1398 (1605)
Q Consensus 1364 --~k~~~lln~L~qLRkicnHP~L~~~~~ee-----------id~~i~-------------------------------- 1398 (1605)
.....++..+.-|++|.+||+......+. .+.++.
T Consensus 973 ~~g~~arlf~dfqmlsrIwtHP~~lqL~s~~~enkR~~seddm~~fi~D~sde~e~s~~s~d~~~~~ks~~~s~~Desss 1052 (1567)
T KOG1015|consen 973 GRGAGARLFQDFQMLSRIWTHPWCLQLDSISKENKRYFSEDDMDEFIADDSDETEMSLSSDDYTKKKKSGKKSKKDESSS 1052 (1567)
T ss_pred ccchhhhHHHHHHHHHHHhcCCCceeechhhhhhcccccccchhccccCCCccccccccccchhhccccccccccccccc
Confidence 23456888889999999999885433211 000000
Q ss_pred -----------------------C-------------------------------CC--------CChhhhhccHHHHHH
Q 000377 1399 -----------------------K-------------------------------HY--------LPPIVRLCGKLEMLD 1416 (1605)
Q Consensus 1399 -----------------------~-------------------------------~~--------~~~lvr~SgKle~L~ 1416 (1605)
. .. ....+..|+|+-+|.
T Consensus 1053 ~~~~~g~~ev~k~k~rk~r~~~~~~~~~~g~~~D~~l~ll~dlag~~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLLl 1132 (1567)
T KOG1015|consen 1053 GSGSDGDVEVIKVKNRKSRGGGEGNVDETGNNPDVSLKLLEDLAGSSSNPSDPPPEWYKDFVTEADAEVLEHSGKMILLL 1132 (1567)
T ss_pred ccccCCchhhhhhhhhhccccccCcccccCCCcchHHHHhhcccccccCCCCCchHhHHhhhhhhhhhhhhcCcceehHH
Confidence 0 00 001123579999999
Q ss_pred HHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh----------------------cCceEEEEeCCCCHHHHHHHHHHHhC
Q 000377 1417 RLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF----------------------KQYRYLRLDGHTSGGDRGALIDKFNQ 1474 (1605)
Q Consensus 1417 ~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~----------------------~GikylrLdGsts~eERqeiId~FN~ 1474 (1605)
+||....+-|.|+|||+|....+++|+.||.. +|..|.+|||++...+|+.+.+.||+
T Consensus 1133 eIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~~~~FNd 1212 (1567)
T KOG1015|consen 1133 EILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKWAEEFND 1212 (1567)
T ss_pred HHHHHHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHHHHHHhcC
Confidence 99999999999999999999999999999953 35689999999999999999999998
Q ss_pred CC-CCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHH
Q 000377 1475 QD-SPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLG 1553 (1605)
Q Consensus 1475 gd-s~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~ 1553 (1605)
+. ...++|||||+||++||||-+|+.|||||..|||.-+.|+|-|++|.||+|+|+|||||+.+|+|++||.++-.|..
T Consensus 1213 p~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvyiYRfiAqGTmEeKIYkRQVTKqs 1292 (1567)
T KOG1015|consen 1213 PTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVYIYRFIAQGTMEEKIYKRQVTKQS 1292 (1567)
T ss_pred cccceeEEEEEeeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcCceeehhhhhcccHHHHHHHHHHhHhh
Confidence 64 34578999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhccCccCCCCCHHH
Q 000377 1554 VANQSITAGFFDNNTSAED 1572 (1605)
Q Consensus 1554 L~~kVI~aG~fd~~~s~eE 1572 (1605)
+...|++........+.+|
T Consensus 1293 ls~RVVDeqQv~Rhy~~ne 1311 (1567)
T KOG1015|consen 1293 LSFRVVDEQQVERHYTMNE 1311 (1567)
T ss_pred hhhhhhhHHHHHHHhhHhh
Confidence 9999997654444444433
No 15
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=8.6e-55 Score=516.43 Aligned_cols=481 Identities=31% Similarity=0.503 Sum_probs=378.0
Q ss_pred CccHHHHHHHHHHHH-------Hhh--cCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHH
Q 000377 1090 KLREYQMSGLRWLVS-------LYN--NQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEIN 1160 (1605)
Q Consensus 1090 ~LRpYQleGL~wLls-------L~~--n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~ 1160 (1605)
-|+|||+-||+||.. .|+ .+.|||||+.||||||+|+|+++--++.... .+.+|+|||-.++.||..||.
T Consensus 254 v~kPHQiGGiRFlYDN~iESl~rykkSsGFGCILAHSMGLGKTlQVisF~diflRhT~-AKtVL~ivPiNTlQNWlsEfn 332 (1387)
T KOG1016|consen 254 VLKPHQIGGIRFLYDNTIESLGRYKKSSGFGCILAHSMGLGKTLQVISFSDIFLRHTK-AKTVLVIVPINTLQNWLSEFN 332 (1387)
T ss_pred hcCccccCcEEEehhhHHHHHhhccccCCcceeeeeccccCceeEEeehhHHHhhcCc-cceEEEEEehHHHHHHHHHhh
Confidence 689999999988763 222 3678999999999999999999987766543 456999999999999999999
Q ss_pred HhCCC-----------ceEEEEcCC---hhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC-------------------
Q 000377 1161 FWAPR-----------IHKIVYCGP---PEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR------------------- 1207 (1605)
Q Consensus 1161 KwaP~-----------l~vivy~Gs---~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~------------------- 1207 (1605)
.|.|. +.+.+.... -..|.+++..+ .....|+++-|++++-..-+
T Consensus 333 mWiP~y~sD~~vrpR~F~vf~LnD~~KT~~~Rakvi~~W--v~~GGVlLvGYemfRLL~lk~~~~~grpkkt~kr~~~~~ 410 (1387)
T KOG1016|consen 333 MWIPKYFSDTGVRPRSFEVFLLNDGVKTFDQRAKVIEQW--VQTGGVLLVGYEMFRLLILKTLPKKGRPKKTLKRISSGF 410 (1387)
T ss_pred hhcCCCcccCCCccceeEEEEecCchhhHHHHHHHHHHH--hccCCEEEehHHHHHHHHHhcccccCCccccccccCCcc
Confidence 99985 223332221 13444544433 36678999999998521100
Q ss_pred -----------------CcccccCccEEEEecCccccCccchHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCC
Q 000377 1208 -----------------PKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPN 1270 (1605)
Q Consensus 1208 -----------------~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~ 1270 (1605)
..|.+-..|+||+||+|+|||....++.+|..+.+++|+.|||-|+||++-|+|.+++|++|+
T Consensus 411 i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYwCMVDFVRP~ 490 (1387)
T KOG1016|consen 411 IKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYWCMVDFVRPK 490 (1387)
T ss_pred cCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEeccccccchHHHhhhheecccc
Confidence 114455689999999999999999999999999999999999999999999999999999999
Q ss_pred CCCChHHHHHHhcccccCCCCC--CchhhhhhHHHHHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHH
Q 000377 1271 IFNSSEDFSQWFNKPFESNGDN--SPDEALLSEEENLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQK 1348 (1605)
Q Consensus 1271 if~s~~~F~e~F~kP~e~~g~~--~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk 1348 (1605)
+++...+|...|.+|+.++... .++...+.... .+.||.+|..|+-||+-.-+...||.+.|+||.+.++..|+
T Consensus 491 yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryR----tHVLhsLl~GFVQRR~HtvLk~~LP~k~EyViLvr~s~iQR 566 (1387)
T KOG1016|consen 491 YLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYR----THVLHSLLKGFVQRRTHTVLKKILPEKKEYVILVRKSQIQR 566 (1387)
T ss_pred ccchHHHHHHHhhccccCCccccCChhHHHHHHHH----HHHHHHHHHHHHHhcchhhHhhhcccccceEEEEeHHHHHH
Confidence 9999999999999999987643 33444333332 35799999999999999999999999999999999999999
Q ss_pred HHHHHHH-HHhhccCCCCCc--chhHHHHHHHHHhcCccccchhhhh----------hhhcC---------C-----CC-
Q 000377 1349 LLMKRVE-ENLGSIGNSKGR--SVHNSVMELRNICNHPYLSQLHAEE----------VDTLI---------P-----KH- 1400 (1605)
Q Consensus 1349 ~LYk~I~-~~l~~~~~~k~~--~lln~L~qLRkicnHP~L~~~~~ee----------id~~i---------~-----~~- 1400 (1605)
.||+.+. .....++..... ..+.++.-+.+|.|||.+.+...+. ++... | ..
T Consensus 567 ~LY~~Fm~d~~r~~~~~~~~~~NPLkAF~vCcKIWNHPDVLY~~l~k~~~a~e~dl~vee~~~ag~~~~~~P~~~~~~~~ 646 (1387)
T KOG1016|consen 567 QLYRNFMLDAKREIAANNDAVFNPLKAFSVCCKIWNHPDVLYRLLEKKKRAEEDDLRVEEMKFAGLQQQQSPFNSIPSNP 646 (1387)
T ss_pred HHHHHHHHHHHHhhccccccccChHHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhhHHHHhhhcccccCCCCCCCCCCC
Confidence 9999875 444433332222 3344555567777999764322111 00000 0 00
Q ss_pred -----------------------------------------------CCChhhhhccHHHHHHHHHHHhhcCCCeEEEEE
Q 000377 1401 -----------------------------------------------YLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFS 1433 (1605)
Q Consensus 1401 -----------------------------------------------~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFS 1433 (1605)
|...+...+.|+-.+.+++.+-..-|.|+|||+
T Consensus 647 s~~laSs~~k~~n~t~kp~~s~~~p~f~ee~~e~~~y~~w~~el~~nYq~gvLen~pk~V~~~~~~des~~~g~kil~fS 726 (1387)
T KOG1016|consen 647 STPLASSTSKSANKTKKPRGSKKAPKFDEEDEEVEKYSDWTFELFENYQEGVLENGPKIVISLEILDESTQIGEKILIFS 726 (1387)
T ss_pred CCcccchhhhhhcccCCcccCcCCCCcccccccccchhhHHHHHHhhhhcccccCCCceEEEEeeeccccccCceEEEee
Confidence 000001112344444455555556789999999
Q ss_pred ccHHHHHHHHHHHhhcC------------------ceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCc
Q 000377 1434 TMTRLLDVMEDYLTFKQ------------------YRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNL 1495 (1605)
Q Consensus 1434 Qft~~LdiLe~~L~~~G------------------ikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNL 1495 (1605)
|....++.|+++|..+. ..|++++|.++..+|+++|++||..-.=.+.|||||++|..||||
T Consensus 727 q~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstrag~lGinL 806 (1387)
T KOG1016|consen 727 QNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTRAGSLGINL 806 (1387)
T ss_pred cchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCCceeeeeehhcccccccee
Confidence 99999999999997643 468999999999999999999988665457999999999999999
Q ss_pred ccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHhhhhccCccCCCCCHHHHHH
Q 000377 1496 QAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVANQSITAGFFDNNTSAEDRRE 1575 (1605)
Q Consensus 1496 q~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~kVI~aG~fd~~~s~eE~~e 1575 (1605)
-.|+.||+||..|||..+.||++|++|+||+|++.|||||..+++|.+||.++..|..+.++|+++..-+-.++..|...
T Consensus 807 Isanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~lEkkIydRQIsKqGmsdRvVDd~np~an~s~Ke~en 886 (1387)
T KOG1016|consen 807 ISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNSLEKKIYDRQISKQGMSDRVVDDANPDANISQKELEN 886 (1387)
T ss_pred eccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhhhHHHHHHHHHhhccchhhhhcccCccccccHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999887777777766444
Q ss_pred HH
Q 000377 1576 YL 1577 (1605)
Q Consensus 1576 ~L 1577 (1605)
+|
T Consensus 887 Ll 888 (1387)
T KOG1016|consen 887 LL 888 (1387)
T ss_pred Hh
Confidence 43
No 16
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=5.1e-52 Score=480.47 Aligned_cols=420 Identities=27% Similarity=0.359 Sum_probs=323.4
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceE
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHK 1168 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~v 1168 (1605)
..|.|||++||.+.+. .+...|||||||||||+|||+++.|+. ..+|+|||||.++...|.+++.+|+|...-
T Consensus 197 s~LlPFQreGv~faL~---RgGR~llADeMGLGKTiQAlaIA~yyr----aEwplliVcPAsvrftWa~al~r~lps~~p 269 (689)
T KOG1000|consen 197 SRLLPFQREGVIFALE---RGGRILLADEMGLGKTIQALAIARYYR----AEWPLLIVCPASVRFTWAKALNRFLPSIHP 269 (689)
T ss_pred HhhCchhhhhHHHHHh---cCCeEEEecccccchHHHHHHHHHHHh----hcCcEEEEecHHHhHHHHHHHHHhcccccc
Confidence 4799999999998876 566679999999999999999998874 458999999999999999999999998655
Q ss_pred EE-EcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh--hccce
Q 000377 1169 IV-YCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY--QSSHR 1245 (1605)
Q Consensus 1169 iv-y~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L--~a~~R 1245 (1605)
+. ..+..+.- .....-..|.|++|+.+....+ .|..-+|.+||+||+|.+|+..++..+++..+ .+.|.
T Consensus 270 i~vv~~~~D~~------~~~~t~~~v~ivSye~ls~l~~--~l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~akhv 341 (689)
T KOG1000|consen 270 IFVVDKSSDPL------PDVCTSNTVAIVSYEQLSLLHD--ILKKEKYRVVIFDESHMLKDSKTKRTKAATDLLKVAKHV 341 (689)
T ss_pred eEEEecccCCc------cccccCCeEEEEEHHHHHHHHH--HHhcccceEEEEechhhhhccchhhhhhhhhHHHHhhhe
Confidence 22 22221110 0111335789999999987544 67777899999999999999999999998876 67899
Q ss_pred ecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH-HHHHHhh
Q 000377 1246 LLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP-FVLRRLK 1324 (1605)
Q Consensus 1246 LLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP-FlLRRtK 1324 (1605)
|+|||||--..+.|||.++..+++.+|..+.+|-..|+.--...--.... .--....|+-+|.. .|+||+|
T Consensus 342 ILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dyk--------g~tnl~EL~~lL~k~lMIRRlK 413 (689)
T KOG1000|consen 342 ILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYK--------GCTNLEELAALLFKRLMIRRLK 413 (689)
T ss_pred EEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceeeecC--------CCCCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999988632111000000 00113346777765 5899999
Q ss_pred hhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCCCh
Q 000377 1325 HKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYLPP 1404 (1605)
Q Consensus 1325 kdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~~~ 1404 (1605)
.+|+.+||+|...++.+ ....+....+.+........ . ...++-.+.|.-- ++
T Consensus 414 ~dvL~qLPpKrr~Vv~~-~~gr~da~~~~lv~~a~~~t------~-~~~~e~~~~~l~l--~y----------------- 466 (689)
T KOG1000|consen 414 ADVLKQLPPKRREVVYV-SGGRIDARMDDLVKAAADYT------K-VNSMERKHESLLL--FY----------------- 466 (689)
T ss_pred HHHHhhCCccceEEEEE-cCCccchHHHHHHHHhhhcc------h-hhhhhhhhHHHHH--HH-----------------
Confidence 99999999995554433 33322222222221111100 0 0011111111100 00
Q ss_pred hhhhccHHHHHHHHHHH----hhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeE
Q 000377 1405 IVRLCGKLEMLDRLLPK----LKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFF 1480 (1605)
Q Consensus 1405 lvr~SgKle~L~~LL~k----L~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~ 1480 (1605)
-...-.|+..+.+.|.. ..+.+.|+|||++++.++|-|+.++..+++.++||||+|+..+|+.+++.|+. +..+.
T Consensus 467 ~~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~-seev~ 545 (689)
T KOG1000|consen 467 SLTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQT-SEEVR 545 (689)
T ss_pred HHhcccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhcc-ccceE
Confidence 00112356666666655 45678999999999999999999999999999999999999999999999965 45689
Q ss_pred EEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHhhhh
Q 000377 1481 IFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVANQSI 1559 (1605)
Q Consensus 1481 VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~kVI 1559 (1605)
|-++|..|+|.||+|++|+.|+|.+.+|||....||.||+||+||+..|.||+|++++|+|+.++..++.|+++...+-
T Consensus 546 VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~~KL~vl~s~g 624 (689)
T KOG1000|consen 546 VAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPMLQQKLDVLGSVG 624 (689)
T ss_pred EEEEEEeecccceeeeccceEEEEEecCCCceEEechhhhhhccccceeeEEEEEecCchHHHHHHHHHHHHHHHhhcc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999987653
No 17
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=7.4e-52 Score=531.33 Aligned_cols=438 Identities=20% Similarity=0.212 Sum_probs=323.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceE
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHK 1168 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~v 1168 (1605)
..|.|||+..+.++... ...+.|||||||||||++|++++.+++.. +..+|+|||||.+++.||..|+.+|+. +..
T Consensus 151 ~~l~pHQl~~~~~vl~~--~~~R~LLADEvGLGKTIeAglil~~l~~~-g~~~rvLIVvP~sL~~QW~~El~~kF~-l~~ 226 (956)
T PRK04914 151 ASLIPHQLYIAHEVGRR--HAPRVLLADEVGLGKTIEAGMIIHQQLLT-GRAERVLILVPETLQHQWLVEMLRRFN-LRF 226 (956)
T ss_pred CCCCHHHHHHHHHHhhc--cCCCEEEEeCCcCcHHHHHHHHHHHHHHc-CCCCcEEEEcCHHHHHHHHHHHHHHhC-CCe
Confidence 46999999999876553 35678999999999999999888877654 445689999999999999999987773 445
Q ss_pred EEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccC-CCcccccCccEEEEecCccccCc---cchHHHHHHhh--hc
Q 000377 1169 IVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHD-RPKLSKIQWHYIIIDEGHRIKNA---SCKLNADLKHY--QS 1242 (1605)
Q Consensus 1169 ivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D-~~~L~ki~wd~VIIDEAHriKN~---~SKlsraL~~L--~a 1242 (1605)
.+|.+........ ........++++|+||+++.+... ...+....|++|||||||++++. .++.++.+..+ .+
T Consensus 227 ~i~~~~~~~~~~~-~~~~pf~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~ 305 (956)
T PRK04914 227 SLFDEERYAEAQH-DADNPFETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVI 305 (956)
T ss_pred EEEcCcchhhhcc-cccCccccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhcc
Confidence 5555443211100 011122457899999999986321 13466779999999999999953 56678888877 56
Q ss_pred cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcc--cc-------cCCCCCCch-hhhhhHH----------
Q 000377 1243 SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNK--PF-------ESNGDNSPD-EALLSEE---------- 1302 (1605)
Q Consensus 1243 ~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~k--P~-------e~~g~~~~~-e~~Lsee---------- 1302 (1605)
+++|+|||||++|+..|+|++|+||+|..|++...|.+.+.. |+ ......... ...+...
T Consensus 306 ~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~~l~ 385 (956)
T PRK04914 306 PGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQALLAGEKLSDDALNALGELLGEQDIEPLL 385 (956)
T ss_pred CCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchhHHH
Confidence 899999999999999999999999999999999999876543 21 111110000 0000000
Q ss_pred ------------HHHHHHHHHHHH--hhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcc
Q 000377 1303 ------------ENLLIINRLHQV--LRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRS 1368 (1605)
Q Consensus 1303 ------------e~~~iI~RL~kv--LrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~ 1368 (1605)
.....+..|... ...+|+|+++.+|. .+|.+..+.+.++++......+..
T Consensus 386 ~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~-~fp~R~~~~~~l~~~~~y~~~~~~--------------- 449 (956)
T PRK04914 386 QAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVK-GFPKRELHPIPLPLPEQYQTAIKV--------------- 449 (956)
T ss_pred hhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhc-CCCcCceeEeecCCCHHHHHHHHH---------------
Confidence 001111111111 12567888888876 489999899888886543322211
Q ss_pred hhHHHHHHHHHhcCccccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHH-h
Q 000377 1369 VHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYL-T 1447 (1605)
Q Consensus 1369 lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L-~ 1447 (1605)
.....+++ +.+|..... +.. .....+..++|++.|.++|.... ++||||||++..+++.|.+.| .
T Consensus 450 --~~~~~~~~-~l~pe~~~~---~~~------~~~~~~~~d~Ki~~L~~~L~~~~--~~KvLVF~~~~~t~~~L~~~L~~ 515 (956)
T PRK04914 450 --SLEARARD-MLYPEQIYQ---EFE------DNATWWNFDPRVEWLIDFLKSHR--SEKVLVICAKAATALQLEQALRE 515 (956)
T ss_pred --hHHHHHHh-hcCHHHHHH---HHh------hhhhccccCHHHHHHHHHHHhcC--CCeEEEEeCcHHHHHHHHHHHhh
Confidence 00111222 223311100 000 00112345679999999998753 789999999999999999999 5
Q ss_pred hcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCC
Q 000377 1448 FKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKR 1527 (1605)
Q Consensus 1448 ~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkK 1527 (1605)
..|++++.|+|+++..+|.++++.|+.++..+. |||||++||+|+||+.|++||+||+||||..++||+||+||+||++
T Consensus 516 ~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~-VLIsTdvgseGlNlq~a~~VInfDlP~nP~~~eQRIGR~~RiGQ~~ 594 (956)
T PRK04914 516 REGIRAAVFHEGMSIIERDRAAAYFADEEDGAQ-VLLCSEIGSEGRNFQFASHLVLFDLPFNPDLLEQRIGRLDRIGQKH 594 (956)
T ss_pred ccCeeEEEEECCCCHHHHHHHHHHHhcCCCCcc-EEEechhhccCCCcccccEEEEecCCCCHHHHHHHhcccccCCCCc
Confidence 679999999999999999999999987543343 5788899999999999999999999999999999999999999999
Q ss_pred cEEEEEEEeCCCHHHHHHHHHHHHHHHHhhhhccC
Q 000377 1528 DVLVLRFETVQTVEEQVRASAEHKLGVANQSITAG 1562 (1605)
Q Consensus 1528 eV~VyRLIt~~TIEEkIlera~~Kl~L~~kVI~aG 1562 (1605)
+|.||.++..+|+|+.|+.....|+++++.++..|
T Consensus 595 ~V~i~~~~~~~t~~e~i~~~~~~~l~ife~~~~~~ 629 (956)
T PRK04914 595 DIQIHVPYLEGTAQERLFRWYHEGLNAFEHTCPTG 629 (956)
T ss_pred eEEEEEccCCCCHHHHHHHHHhhhcCceeccCCCH
Confidence 99999999999999999999999999999998765
No 18
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=3.3e-49 Score=486.35 Aligned_cols=391 Identities=43% Similarity=0.676 Sum_probs=342.2
Q ss_pred cCCCCccC--CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHH
Q 000377 1080 SEQPTCLQ--GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWES 1157 (1605)
Q Consensus 1080 ~~qP~~L~--gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~ 1157 (1605)
..+|..+. ++.|.+||.+|++|+...+..+..+|||||||+|||++++.++..++......+|+||++|.+++.+|..
T Consensus 283 ~~qP~~l~~~~g~L~~~qleGln~L~~~ws~~~~~ilADEmgLgktVqsi~fl~sl~~~~~~~~P~Lv~ap~sT~~nwe~ 362 (696)
T KOG0383|consen 283 EDQPQFLTEPGGTLHPYQLEGLNWLRISWSPGVDAILADEMGLGKTVQSIVFLYSLPKEIHSPGPPLVVAPLSTIVNWER 362 (696)
T ss_pred ccCCccccCCCccccccchhhhhhhhcccccCCCcccchhhcCCceeeEEEEEeecccccCCCCCceeeccCccccCCCC
Confidence 35777776 5899999999999999999999999999999999999999999999988888899999999999999999
Q ss_pred HHHHhCCCceEEEEcCChhHHHHHHHh-------------------hhhcCCccEEEEcHHHHhhccCCCcccccCccEE
Q 000377 1158 EINFWAPRIHKIVYCGPPEERRRLFKE-------------------KIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYI 1218 (1605)
Q Consensus 1158 Ef~KwaP~l~vivy~Gs~~~R~~l~~~-------------------~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~V 1218 (1605)
|+..|+|...++.|.|+.+.|.-+... ......|++.+++|+++.. +...+..+.|.++
T Consensus 363 e~~~wap~~~vv~~~G~~k~r~iirepe~s~ed~~~~~~~~i~~~~~~s~~k~~vl~~s~~~~~~--~~~il~~v~w~~l 440 (696)
T KOG0383|consen 363 EFELWAPSFYVVPYPGTAKSRAIIREPEFSFEDSSIKSSPKISEMKTESSAKFHVLLPSYETIEI--DQSILFSVQWGLL 440 (696)
T ss_pred chhccCCCcccccCCCCccchhhhhcccccccccccccCCccccccchhhcccccCCCchhhccc--CHHHHhhhhccee
Confidence 999999999999999999876543211 1133578999999999976 7778999999999
Q ss_pred EEecCccccCccchHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhh
Q 000377 1219 IIDEGHRIKNASCKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEAL 1298 (1605)
Q Consensus 1219 IIDEAHriKN~~SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~ 1298 (1605)
|+||+|+++|..+++.+.+..+...++++|||||++|++.||+++|+|+.|..|++...|.+.|..-+
T Consensus 441 ivde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~~d~~------------ 508 (696)
T KOG0383|consen 441 IVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEFHDIS------------ 508 (696)
T ss_pred EeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhcchhh------------
Confidence 99999999999999999999999999999999999999999999999999999999999988775421
Q ss_pred hhHHHHHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHH-hhccC-CCCCcchhHHHHHH
Q 000377 1299 LSEEENLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEEN-LGSIG-NSKGRSVHNSVMEL 1376 (1605)
Q Consensus 1299 Lseee~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~-l~~~~-~~k~~~lln~L~qL 1376 (1605)
....+..||.++.|+++||.|.||...+|.|++.++.+.|++.|+.+|+.+... ...+. ....-.++|++|+|
T Consensus 509 -----~~~~~~~l~~l~~p~~lrr~k~d~l~~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n~~~l~~~~~~~s~~n~~mel 583 (696)
T KOG0383|consen 509 -----CEEQIKKLHLLLCPHMLRRLKLDVLKPMPLKTELIGRVELSPCQKKYYKKILTRNWQGLLAGVHQYSLLNIVMEL 583 (696)
T ss_pred -----HHHHHHhhccccCchhhhhhhhhhccCCCccceeEEEEecCHHHHHHHHHHHcCChHHHhhcchhHHHHHHHHHH
Confidence 223478899999999999999999999999999999999999999999987542 21111 22234578999999
Q ss_pred HHHhcCccccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEE
Q 000377 1377 RNICNHPYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRL 1456 (1605)
Q Consensus 1377 RkicnHP~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrL 1456 (1605)
|++|+|||++...+..... .......++..++|+.+|..+++++...||||+||+||+.++|+|++++...+ .|.++
T Consensus 584 ~K~~~hpy~~~~~e~~~~~--~~~~~~~l~k~~~k~~~l~~~~~~l~~~ghrvl~~~q~~~~ldlled~~~~~~-~~~r~ 660 (696)
T KOG0383|consen 584 RKQCNHPYLSPLEEPLEEN--GEYLGSALIKASGKLTLLLKMLKKLKSSGHRVLIFSQMIHMLDLLEDYLTYEG-KYERI 660 (696)
T ss_pred HHhhcCcccCccccccccc--hHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhHHHHhccC-cceec
Confidence 9999999998762211100 00112357788999999999999999999999999999999999999999999 99999
Q ss_pred eCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccc
Q 000377 1457 DGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVG 1492 (1605)
Q Consensus 1457 dGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeG 1492 (1605)
||.....+|+.++++||.+++.-|+||+||+|||+|
T Consensus 661 dG~~~~~~rq~ai~~~n~~~~~~~cfllstra~g~g 696 (696)
T KOG0383|consen 661 DGPITGPERQAAIDRFNAPGSNQFCFLLSTRAGGLG 696 (696)
T ss_pred cCCccchhhhhhccccCCCCccceEEEeecccccCC
Confidence 999999999999999999999999999999999987
No 19
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=1.6e-47 Score=477.05 Aligned_cols=443 Identities=32% Similarity=0.442 Sum_probs=355.3
Q ss_pred HHHHHHHHHHHHHhh-cCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC------CCCCEEEEecCCcccchHHHHHHhCC-
Q 000377 1093 EYQMSGLRWLVSLYN-NQLNGILADEMGLGKTVQVIALICYLMETKN------DRGPFLVVVPSSVLPGWESEINFWAP- 1164 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~-n~~nGILADEMGLGKTIqAIALI~~Lle~k~------~~gP~LIVvP~SLL~nW~~Ef~KwaP- 1164 (1605)
.+|..+..|+..... .-.+||+||+||+|||+++|++++....... ..+..|||||.+++.+|..|+++...
T Consensus 135 ~~~~~~~~~~~~~~~~~~~ggIladd~glgkt~~ti~l~l~~~~~~~~~~~~~~~kttLivcp~s~~~qW~~elek~~~~ 214 (674)
T KOG1001|consen 135 LKQKYRWSLLKSREQQSLRGGILADDMGLGKTVKTIALILKQKLKSKEEDRQKEFKTTLIVCPTSLLTQWKTELEKVTEE 214 (674)
T ss_pred HHHHHHHHhhcccccCccccceEeeccccchHHHHHHHHHhcccCCcchhhccccCceeEecchHHHHHHHHHHhccCCc
Confidence 444444444444322 2358899999999999999999876433322 34568999999999999999966553
Q ss_pred -CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhhhcc
Q 000377 1165 -RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQSS 1243 (1605)
Q Consensus 1165 -~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a~ 1243 (1605)
.+.+.+|+| |.+. ......++||||||..+.. ..+..+.|-.+|+||||.++|..++.++++..+.+.
T Consensus 215 ~~l~v~v~~g----r~kd---~~el~~~dVVltTy~il~~----~~l~~i~w~Riildea~~ikn~~tq~~~a~~~L~a~ 283 (674)
T KOG1001|consen 215 DKLSIYVYHG----RTKD---KSELNSYDVVLTTYDILKN----SPLVKIKWLRIVLDEAHTIKNKDTQIFKAVCQLDAK 283 (674)
T ss_pred cceEEEEecc----cccc---cchhcCCceEEeeHHHhhc----ccccceeEEEEEeccccccCCcchHhhhhheeeccc
Confidence 467788888 2111 1223678899999999974 567779999999999999999999999999999999
Q ss_pred ceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHh
Q 000377 1244 HRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRRL 1323 (1605)
Q Consensus 1244 ~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRt 1323 (1605)
+||+|||||++|++.|||+++.|+.-..|.....|...+..|+..... .....+++.+|+++++||+
T Consensus 284 ~RWcLtgtPiqn~~~~lysl~~fl~~~p~~~~~~~~~~i~~p~~~~~~-------------~~~~k~l~~~L~~v~lrrt 350 (674)
T KOG1001|consen 284 YRWCLTGTPIQNNLDELYSLFKFLEIHPYCDQNYFKLLIQDPDERNKY-------------KEGVKTLQGILKKVMLRRT 350 (674)
T ss_pred eeeeecCChhhhhHHHHHHHHHHhhcCCchhhHHHHHHhcChhhhhhH-------------HHHHHHHHHHHHHHHhccc
Confidence 999999999999999999999999999999999999999988765421 2346789999999999998
Q ss_pred hhhH-----hhcCccceEEEEEecccHHHHHHHHHHHHHhhcc---------CCCCCcchhHHHHHHHHHhcCccccchh
Q 000377 1324 KHKV-----ENELPEKIERLVRCEASAYQKLLMKRVEENLGSI---------GNSKGRSVHNSVMELRNICNHPYLSQLH 1389 (1605)
Q Consensus 1324 KkdV-----e~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~---------~~~k~~~lln~L~qLRkicnHP~L~~~~ 1389 (1605)
|..- ...||++...++.+.++..++..|+.+....... .......++..+.+||++|+||.++-..
T Consensus 351 K~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~~~~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~ 430 (674)
T KOG1001|consen 351 KEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKANSRNQFSNYANEGTVSSTYAFFLKNLLRLRQACDHSLLVMYE 430 (674)
T ss_pred ccccccCccccccCcceeEeeeccccHhHHHHHHHHhhhhhhHHHHHhhhchhhhhHHHHHHHHHHHHHHccchHhhhhh
Confidence 8622 3479999999999999999999998876543221 1123445777788999999999885322
Q ss_pred hhh--------------hhhc----C---CC----------------------------------------------CCC
Q 000377 1390 AEE--------------VDTL----I---PK----------------------------------------------HYL 1402 (1605)
Q Consensus 1390 ~ee--------------id~~----i---~~----------------------------------------------~~~ 1402 (1605)
.+. +..+ . .. ...
T Consensus 431 ~~~~~~~~~~~~~~~~~i~~l~~~~~c~ic~~~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~~~~ 510 (674)
T KOG1001|consen 431 MDSLGDSGSAAALIIRLIVDLSVSHWCHICCDLDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSANPL 510 (674)
T ss_pred hhccccccccchHHHHHHHHHhhccccccccccccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhcccc
Confidence 110 0000 0 00 000
Q ss_pred Chhhh----hccHHHHHHHHHHHhhcCCC-eEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCC
Q 000377 1403 PPIVR----LCGKLEMLDRLLPKLKATDH-RVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDS 1477 (1605)
Q Consensus 1403 ~~lvr----~SgKle~L~~LL~kL~a~g~-KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds 1477 (1605)
...+. .+.|+..+..+|........ ++|||+|++.++++++..|...++.+.+++|.+....|.+.+..|+ .+.
T Consensus 511 ~~~~~~~~~~s~ki~~~~~~l~~~~~s~~~kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~-~~~ 589 (674)
T KOG1001|consen 511 PSIINDLLPESSKIYAFLKILQAKEMSEQPKIVIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFP-CDP 589 (674)
T ss_pred cchhhhccchhhhhHHHHHHHhhccCCCCCceeeehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhcccc-cCc
Confidence 00001 14566667777765544444 9999999999999999999999999999999999999999999997 667
Q ss_pred CeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHhh
Q 000377 1478 PFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVANQ 1557 (1605)
Q Consensus 1478 ~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~k 1557 (1605)
.+.|+++|.+||+.||||+.|++||++||||||..++||++||||+||+++|.|+||+..+|+||+|++++++|+.+...
T Consensus 590 ~~~vll~Slkag~~glnlt~a~~v~~~d~~wnp~~eeQaidR~hrigq~k~v~v~r~~i~dtveer~l~iq~~K~~~~~~ 669 (674)
T KOG1001|consen 590 LVTALLMSLKAGKVGLNLTAASHVLLMDPWWNPAVEEQAIDRAHRIGQTKPVKVSRFIIKDTVEERILKIQEKKREYNAS 669 (674)
T ss_pred cHHHHHHHHHHhhhhhchhhhhHHHhhchhcChHHHHHHHHHHHHhcccceeeeeeehhhhccHHHHHHHHHHHHHHHhh
Confidence 78899999999999999999999999999999999999999999999999999999999999999999999999988876
Q ss_pred hhc
Q 000377 1558 SIT 1560 (1605)
Q Consensus 1558 VI~ 1560 (1605)
+..
T Consensus 670 a~~ 672 (674)
T KOG1001|consen 670 AFG 672 (674)
T ss_pred hcc
Confidence 553
No 20
>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=100.00 E-value=5.9e-40 Score=372.71 Aligned_cols=276 Identities=41% Similarity=0.711 Sum_probs=225.1
Q ss_pred HHHHHHHHHHHHh---------hcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCC--CCEEEEecCCcccchHHHHHHh
Q 000377 1094 YQMSGLRWLVSLY---------NNQLNGILADEMGLGKTVQVIALICYLMETKNDR--GPFLVVVPSSVLPGWESEINFW 1162 (1605)
Q Consensus 1094 YQleGL~wLlsL~---------~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~--gP~LIVvP~SLL~nW~~Ef~Kw 1162 (1605)
||++||.||+..+ ....+|||||+||+|||+++|+++.++....... .++|||||.+++.+|..||.+|
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPSSLLSQWKEEIEKW 80 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-TTTHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeeccchhhhhhhhhccc
Confidence 8999999999998 7788999999999999999999999887765544 3699999999999999999999
Q ss_pred C-C-CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHh---hccCCCcccccCccEEEEecCccccCccchHHHHH
Q 000377 1163 A-P-RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLM---NKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADL 1237 (1605)
Q Consensus 1163 a-P-~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~---k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL 1237 (1605)
+ | .+++++|.|....+.. .......++++|+||+.+. .......+..++|++|||||+|+++|..++.++++
T Consensus 81 ~~~~~~~v~~~~~~~~~~~~---~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~s~~~~~l 157 (299)
T PF00176_consen 81 FDPDSLRVIIYDGDSERRRL---SKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKDSKRYKAL 157 (299)
T ss_dssp SGT-TS-EEEESSSCHHHHT---TSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTTSHHHHHH
T ss_pred cccccccccccccccccccc---cccccccceeeeccccccccccccccccccccccceeEEEecccccccccccccccc
Confidence 9 4 6888999888732221 2233478999999999999 11244567778899999999999999999999999
Q ss_pred HhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1238 KHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1238 ~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
..+.+.++|+|||||++|++.|||.+++||.|..+.+...|.++|..+ ..........+|..++++
T Consensus 158 ~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~~~~f~~~~~~~--------------~~~~~~~~~~~L~~~l~~ 223 (299)
T PF00176_consen 158 RKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSDRRSFKKWFYRP--------------DKENSYENIERLRELLSE 223 (299)
T ss_dssp HCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSSHHHHHHHTHHH--------------HHTHHHHHHHHHHHHHCC
T ss_pred cccccceEEeeccccccccccccccchheeeccccccchhhhhhhhhh--------------ccccccccccccccccch
Confidence 999999999999999999999999999999999999999999998655 222344557899999999
Q ss_pred HHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCC-------CCcchhHHHHHHHHHhcCcccc
Q 000377 1318 FVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNS-------KGRSVHNSVMELRNICNHPYLS 1386 (1605)
Q Consensus 1318 FlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~-------k~~~lln~L~qLRkicnHP~L~ 1386 (1605)
|++||+++++...||+..+.++.|+|++.|+.+|+.+.......... ....++..+++||++|+||+|+
T Consensus 224 ~~~r~~~~d~~~~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~~c~hp~l~ 299 (299)
T PF00176_consen 224 FMIRRTKKDVEKELPPKIEHVINVELSPEQRELYNELLKEARENLKQSSRKKSKKLSSLLQILKRLRQVCNHPYLV 299 (299)
T ss_dssp CEECHCGGGGCTTSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCTT-T--TCHHHHHHHHHHHHHHHHHH-THHC
T ss_pred hhhhhhcccccccCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHhCCcccC
Confidence 99999999998899999999999999999999999877665433221 2235788899999999999873
No 21
>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=100.00 E-value=5.2e-37 Score=384.20 Aligned_cols=384 Identities=20% Similarity=0.286 Sum_probs=271.9
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHHHHHhCC--
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESEINFWAP-- 1164 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~Ef~KwaP-- 1164 (1605)
..+|||||.+++.|+.. .....+|||+++||+|||++++++++.+ .+++|||||..+ +.||.+||.+|+.
T Consensus 253 ~~~LRpYQ~eAl~~~~~-~gr~r~GIIvLPtGaGKTlvai~aa~~l------~k~tLILvps~~Lv~QW~~ef~~~~~l~ 325 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMFG-NGRARSGIIVLPCGAGKSLVGVTAACTV------KKSCLVLCTSAVSVEQWKQQFKMWSTID 325 (732)
T ss_pred CCCcCHHHHHHHHHHHh-cCCCCCcEEEeCCCCChHHHHHHHHHHh------CCCEEEEeCcHHHHHHHHHHHHHhcCCC
Confidence 47899999999998853 1112579999999999999999888755 367999999885 7999999999973
Q ss_pred CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC--------CcccccCccEEEEecCccccCccchHHHH
Q 000377 1165 RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR--------PKLSKIQWHYIIIDEGHRIKNASCKLNAD 1236 (1605)
Q Consensus 1165 ~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~--------~~L~ki~wd~VIIDEAHriKN~~SKlsra 1236 (1605)
...+..|.|..... .....+|+||||+++.....+ ..+....|++||+||||++.+ ....++
T Consensus 326 ~~~I~~~tg~~k~~--------~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA--~~fr~i 395 (732)
T TIGR00603 326 DSQICRFTSDAKER--------FHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPA--AMFRRV 395 (732)
T ss_pred CceEEEEecCcccc--------cccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccH--HHHHHH
Confidence 45566777654321 123478999999998643221 234556899999999999954 334456
Q ss_pred HHhhhccceecccccCCCCCHHHHHHHHHhh-cCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHh
Q 000377 1237 LKHYQSSHRLLLTGTPLQNNLEELWALLNFL-LPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVL 1315 (1605)
Q Consensus 1237 L~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL-~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvL 1315 (1605)
+..+.+.+||+|||||++++ +.+..++++ .|.+|.- .+.+ ++
T Consensus 396 l~~l~a~~RLGLTATP~ReD--~~~~~L~~LiGP~vye~--~~~e---------------------------------Li 438 (732)
T TIGR00603 396 LTIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYEA--NWME---------------------------------LQ 438 (732)
T ss_pred HHhcCcCcEEEEeecCcccC--CchhhhhhhcCCeeeec--CHHH---------------------------------HH
Confidence 77788999999999999876 334444443 4544321 0100 00
Q ss_pred hHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhh
Q 000377 1316 RPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDT 1395 (1605)
Q Consensus 1316 rPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~ 1395 (1605)
-...|.+.....++|+|++.....|..... . .+...
T Consensus 439 -----------~~G~LA~~~~~ev~v~~t~~~~~~yl~~~~--------~----------~k~~l--------------- 474 (732)
T TIGR00603 439 -----------KKGFIANVQCAEVWCPMTPEFYREYLRENS--------R----------KRMLL--------------- 474 (732)
T ss_pred -----------hCCccccceEEEEEecCCHHHHHHHHHhcc--------h----------hhhHH---------------
Confidence 012344555567899999865433322100 0 00000
Q ss_pred cCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCC
Q 000377 1396 LIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQ 1475 (1605)
Q Consensus 1396 ~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~g 1475 (1605)
......|+..+..++......++|+||||.++..++.+...|. . ..|+|.|+..+|.+++++|+.+
T Consensus 475 ---------~~~np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L~---~--~~I~G~ts~~ER~~il~~Fr~~ 540 (732)
T TIGR00603 475 ---------YVMNPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLG---K--PFIYGPTSQQERMQILQNFQHN 540 (732)
T ss_pred ---------hhhChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHcC---C--ceEECCCCHHHHHHHHHHHHhC
Confidence 0012358888888888766789999999999999888888773 3 4589999999999999999754
Q ss_pred CCCeEEEEEeccccccccCcccCCEEEEEcCCC-ChhhHHHHhhhhcccCCCCc-----EEEEEEEeCCCHHHHHHHHHH
Q 000377 1476 DSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDW-NPQVDLQAQARAHRIGQKRD-----VLVLRFETVQTVEEQVRASAE 1549 (1605)
Q Consensus 1476 ds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~W-NP~~d~QAiGRAhRIGQkKe-----V~VyRLIt~~TIEEkIlera~ 1549 (1605)
.. +. +|+++++|++||||+.|++||++++++ |+..+.||+||+.|.+..+. ..+|.||+.+|.|+....+.+
T Consensus 541 ~~-i~-vLv~SkVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~E~~~s~~Rq 618 (732)
T TIGR00603 541 PK-VN-TIFLSKVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQEMYYSTKRQ 618 (732)
T ss_pred CC-cc-EEEEecccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCccccccceEEEEecCCchHHHHHHHHH
Confidence 22 23 566669999999999999999999986 99999999999999997654 789999999999998854432
Q ss_pred HH---HHHHhhhhcc--Ccc----CCCCCHHHHHHHHHHHHHHHh
Q 000377 1550 HK---LGVANQSITA--GFF----DNNTSAEDRREYLESLLRECK 1585 (1605)
Q Consensus 1550 ~K---l~L~~kVI~a--G~f----d~~~s~eE~~e~Le~LLee~~ 1585 (1605)
.= ....=+||.. +.. -.-.+.+++.++|+.+|....
T Consensus 619 ~fl~~qGY~~~vi~~~~~~~~~~~l~~~~~~~~~~ll~~~l~~~~ 663 (732)
T TIGR00603 619 RFLVDQGYSFKVITHLPGMDNESNLAYSSKEEQLELLQKVLLAGD 663 (732)
T ss_pred HHHHHCCCeeEEEecCcccccccccccCCHHHHHHHHHHHHhCcc
Confidence 22 2222233321 111 124578889999999997543
No 22
>PRK13766 Hef nuclease; Provisional
Probab=100.00 E-value=1.5e-34 Score=372.29 Aligned_cols=430 Identities=19% Similarity=0.196 Sum_probs=282.3
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCC--
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPR-- 1165 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~-- 1165 (1605)
.++|+||.+.+..++. .++|++++||+|||++++.++..++. ...+++|||||+. ++.||..+|.+++..
T Consensus 14 ~~~r~yQ~~~~~~~l~-----~n~lv~~ptG~GKT~~a~~~i~~~l~--~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~ 86 (773)
T PRK13766 14 IEARLYQQLLAATALK-----KNTLVVLPTGLGKTAIALLVIAERLH--KKGGKVLILAPTKPLVEQHAEFFRKFLNIPE 86 (773)
T ss_pred CCccHHHHHHHHHHhc-----CCeEEEcCCCccHHHHHHHHHHHHHH--hCCCeEEEEeCcHHHHHHHHHHHHHHhCCCC
Confidence 5799999999987765 38999999999999999988887763 3446799999985 778999999988643
Q ss_pred ceEEEEcCChhH--HHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh---
Q 000377 1166 IHKIVYCGPPEE--RRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY--- 1240 (1605)
Q Consensus 1166 l~vivy~Gs~~~--R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L--- 1240 (1605)
..++.+.|.... |..++ ...+|+|+|++.+........+....|++|||||||++.+..+..+. +..+
T Consensus 87 ~~v~~~~g~~~~~~r~~~~------~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~~~~~i-~~~~~~~ 159 (773)
T PRK13766 87 EKIVVFTGEVSPEKRAELW------EKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNYAYVYI-AERYHED 159 (773)
T ss_pred ceEEEEeCCCCHHHHHHHH------hCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCccccccccHHHH-HHHHHhc
Confidence 467777775433 32222 45799999999998755444556668999999999999875544332 2222
Q ss_pred -hccceecccccCCCCCHHHHHHHHHhhcCCCCCCh----HHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHh
Q 000377 1241 -QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSS----EDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVL 1315 (1605)
Q Consensus 1241 -~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~----~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvL 1315 (1605)
...++++|||||..+ ...+..+++.|....+... ..+...+..+-.. .....+. ..+..++..|
T Consensus 160 ~~~~~il~lTaTP~~~-~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~-----~~~v~l~-----~~~~~i~~~l 228 (773)
T PRK13766 160 AKNPLVLGLTASPGSD-EEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIE-----WVRVELP-----EELKEIRDLL 228 (773)
T ss_pred CCCCEEEEEEcCCCCC-HHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeE-----EEEeCCc-----HHHHHHHHHH
Confidence 345689999999765 5666666666543222111 1222222211000 0001111 1245677888
Q ss_pred hHHHHHHhhhhHhhc-CccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHH----------------
Q 000377 1316 RPFVLRRLKHKVENE-LPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRN---------------- 1378 (1605)
Q Consensus 1316 rPFlLRRtKkdVe~e-LP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRk---------------- 1378 (1605)
..++.++.+...... ++.....+...++...+..++..+...-. .......+...++.|++
T Consensus 229 ~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~y 306 (773)
T PRK13766 229 NEALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDDS--EGYEAISILAEAMKLRHAVELLETQGVEALRRY 306 (773)
T ss_pred HHHHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCch--HHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHH
Confidence 888877776544322 22222122222333333333332211000 00000011111111111
Q ss_pred ------HhcCccccchhhhhhhhcCCCC-------CCChhhhhccHHHHHHHHHHHhh--cCCCeEEEEEccHHHHHHHH
Q 000377 1379 ------ICNHPYLSQLHAEEVDTLIPKH-------YLPPIVRLCGKLEMLDRLLPKLK--ATDHRVLFFSTMTRLLDVME 1443 (1605)
Q Consensus 1379 ------icnHP~L~~~~~eeid~~i~~~-------~~~~lvr~SgKle~L~~LL~kL~--a~g~KVLIFSQft~~LdiLe 1443 (1605)
.+.++... .....+.... .........+|+..|.++|.+.. ..+.|+||||++..+++.|.
T Consensus 307 ~~~l~~~~~~~~~~----~~~~~l~~~~~~~~~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~ 382 (773)
T PRK13766 307 LERLREEARSSGGS----KASKRLVEDPRFRKAVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIV 382 (773)
T ss_pred HHHHHhhccccCCc----HHHHHHHhCHHHHHHHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHH
Confidence 11100000 0000000000 00111233689999999998876 57899999999999999999
Q ss_pred HHHhhcCceEEEEeCC--------CCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHH
Q 000377 1444 DYLTFKQYRYLRLDGH--------TSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQ 1515 (1605)
Q Consensus 1444 ~~L~~~GikylrLdGs--------ts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~Q 1515 (1605)
++|...|+++..++|. ++..+|.+++++|+.++.. +|++|.++++|+|++.|++||+||++||+..++|
T Consensus 383 ~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g~~~---vLvaT~~~~eGldi~~~~~VI~yd~~~s~~r~iQ 459 (773)
T PRK13766 383 DLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAGEFN---VLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRSIQ 459 (773)
T ss_pred HHHHhCCCceEEEEccccccccCCCCHHHHHHHHHHHHcCCCC---EEEECChhhcCCCcccCCEEEEeCCCCCHHHHHH
Confidence 9999999999999997 8889999999999988655 7889999999999999999999999999999999
Q ss_pred HhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHH
Q 000377 1516 AQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVA 1555 (1605)
Q Consensus 1516 AiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~ 1555 (1605)
+.||++|.|+ +.||.|++.+|+||.++....+|...+
T Consensus 460 R~GR~gR~~~---~~v~~l~~~~t~ee~~y~~~~~ke~~~ 496 (773)
T PRK13766 460 RKGRTGRQEE---GRVVVLIAKGTRDEAYYWSSRRKEKKM 496 (773)
T ss_pred HhcccCcCCC---CEEEEEEeCCChHHHHHHHhhHHHHHH
Confidence 9988888765 789999999999999887765554444
No 23
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.97 E-value=6.9e-30 Score=301.37 Aligned_cols=437 Identities=22% Similarity=0.216 Sum_probs=282.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhC--CC
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWA--PR 1165 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~Kwa--P~ 1165 (1605)
.+.|.||...+.-.+. .|.+++.+||||||++|+.++++.+...+. .+|+++|+. |+.|...-|.+.+ |.
T Consensus 14 ie~R~YQ~~i~a~al~-----~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~--kvlfLAPTKPLV~Qh~~~~~~v~~ip~ 86 (542)
T COG1111 14 IEPRLYQLNIAAKALF-----KNTLVVLPTGLGKTFIAAMVIANRLRWFGG--KVLFLAPTKPLVLQHAEFCRKVTGIPE 86 (542)
T ss_pred ccHHHHHHHHHHHHhh-----cCeEEEecCCccHHHHHHHHHHHHHHhcCC--eEEEecCCchHHHHHHHHHHHHhCCCh
Confidence 5789999999987776 599999999999999999888866655433 699999987 6778777787776 45
Q ss_pred ceEEEEcCCh--hHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHH--HHhh-
Q 000377 1166 IHKIVYCGPP--EERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNAD--LKHY- 1240 (1605)
Q Consensus 1166 l~vivy~Gs~--~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsra--L~~L- 1240 (1605)
-.++.+.|.. ++|...| ..-+|+|.|++.+.++.-...+...++.++|+|||||.-+..+-.+-+ ....
T Consensus 87 ~~i~~ltGev~p~~R~~~w------~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAYv~Va~~y~~~~ 160 (542)
T COG1111 87 DEIAALTGEVRPEEREELW------AKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAYVFVAKEYLRSA 160 (542)
T ss_pred hheeeecCCCChHHHHHHH------hhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchHHHHHHHHHHhc
Confidence 6777777764 4555444 567999999999999777777888889999999999987755543322 2222
Q ss_pred hccceecccccCCCCCHHHHHHHHHhhcCCCC----CChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhh
Q 000377 1241 QSSHRLLLTGTPLQNNLEELWALLNFLLPNIF----NSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLR 1316 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if----~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLr 1316 (1605)
+..+.|+||||| -++.+.+...++-|.-.-. ....+...+... .........+. ++-..+...|..+++
T Consensus 161 k~~~ilgLTASP-Gs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~-----~kve~ikV~lp-~e~~~ir~~l~~~l~ 233 (542)
T COG1111 161 KNPLILGLTASP-GSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKK-----IKVEWIKVDLP-EEIKEIRDLLRDALK 233 (542)
T ss_pred cCceEEEEecCC-CCCHHHHHHHHHhCCcceEEEecCCCccHHHhhcc-----ceeEEEeccCc-HHHHHHHHHHHHHHH
Confidence 334689999999 4667777777766643211 011111111111 00111111111 122334455666665
Q ss_pred HHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCC-CC--Cc--chhHHHHHHHHHhc----C---c-
Q 000377 1317 PFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGN-SK--GR--SVHNSVMELRNICN----H---P- 1383 (1605)
Q Consensus 1317 PFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~-~k--~~--~lln~L~qLRkicn----H---P- 1383 (1605)
|.+-. ++. .-.....++. .++.+.......+..... .. .+ .++..+++|.++.. | |
T Consensus 234 ~~Lk~-L~~--------~g~~~~~~~~--~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~ 302 (542)
T COG1111 234 PRLKP-LKE--------LGVIESSSPV--SKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPF 302 (542)
T ss_pred HHHHH-HHH--------cCceeccCcc--cHhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHHH
Confidence 54311 111 1111111111 111111111000000000 00 00 01111111111100 0 0
Q ss_pred --cccchhhhh-------hhhcCCCCCCC----------hhhhhccHHHHHHHHHHHhh--cCCCeEEEEEccHHHHHHH
Q 000377 1384 --YLSQLHAEE-------VDTLIPKHYLP----------PIVRLCGKLEMLDRLLPKLK--ATDHRVLFFSTMTRLLDVM 1442 (1605)
Q Consensus 1384 --~L~~~~~ee-------id~~i~~~~~~----------~lvr~SgKle~L~~LL~kL~--a~g~KVLIFSQft~~LdiL 1442 (1605)
||.....+. ...+....+.. ..--..+|++.+.++|.+.. ..+.|||||++|+.+++.|
T Consensus 303 ~~Yl~~l~e~~~~~~sk~a~~l~~d~~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i 382 (542)
T COG1111 303 YQYLEKLEEEATKGGSKAAKSLLADPYFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEI 382 (542)
T ss_pred HHHHHHHHHHhcccchHHHHHHhcChhhHHHHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHH
Confidence 110000000 00000000000 01113479999999999887 5678999999999999999
Q ss_pred HHHHhhcCceEE-EEeC--------CCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhH
Q 000377 1443 EDYLTFKQYRYL-RLDG--------HTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVD 1513 (1605)
Q Consensus 1443 e~~L~~~Gikyl-rLdG--------sts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d 1513 (1605)
.++|...+.... ++-| +|++.+..++|++|+.++-+ +|++|..|.+|||++.+|.||+|||.-+|...
T Consensus 383 ~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~n---VLVaTSVgEEGLDIp~vDlVifYEpvpSeIR~ 459 (542)
T COG1111 383 VNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKGEYN---VLVATSVGEEGLDIPEVDLVIFYEPVPSEIRS 459 (542)
T ss_pred HHHHHhcCCcceeEEeeccccccccccCHHHHHHHHHHHhcCCce---EEEEcccccccCCCCcccEEEEecCCcHHHHH
Confidence 999999888775 6655 58999999999999998876 79999999999999999999999999999999
Q ss_pred HHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHhhhhccC
Q 000377 1514 LQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKLGVANQSITAG 1562 (1605)
Q Consensus 1514 ~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl~L~~kVI~aG 1562 (1605)
+||.||++| ++.-+||-|++.+|-|+.-+....+|...+...|...
T Consensus 460 IQR~GRTGR---~r~Grv~vLvt~gtrdeayy~~s~rke~~m~e~i~~~ 505 (542)
T COG1111 460 IQRKGRTGR---KRKGRVVVLVTEGTRDEAYYYSSRRKEQKMIESIRGL 505 (542)
T ss_pred HHhhCcccc---CCCCeEEEEEecCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999988 5788999999999999999999988877777666543
No 24
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.97 E-value=1.8e-28 Score=297.85 Aligned_cols=367 Identities=21% Similarity=0.252 Sum_probs=266.2
Q ss_pred CCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCC
Q 000377 1087 QGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPR 1165 (1605)
Q Consensus 1087 ~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~ 1165 (1605)
...+|||||.+++..++..+.....||+..+||.|||+.++.++..+. .++|||||.. ++.||...+.+++..
T Consensus 33 ~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~------~~~Lvlv~~~~L~~Qw~~~~~~~~~~ 106 (442)
T COG1061 33 FEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK------RSTLVLVPTKELLDQWAEALKKFLLL 106 (442)
T ss_pred cCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc------CCEEEEECcHHHHHHHHHHHHHhcCC
Confidence 347899999999987777666588899999999999999998888663 3399999987 679999888888754
Q ss_pred c-eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhhhccc
Q 000377 1166 I-HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQSSH 1244 (1605)
Q Consensus 1166 l-~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a~~ 1244 (1605)
. .+-.|.|..... ....|+|+||+++.+......+...+|++||+||||++.....+ +.+..+...+
T Consensus 107 ~~~~g~~~~~~~~~----------~~~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~~~--~~~~~~~~~~ 174 (442)
T COG1061 107 NDEIGIYGGGEKEL----------EPAKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSYR--RILELLSAAY 174 (442)
T ss_pred ccccceecCceecc----------CCCcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcHHHH--HHHHhhhccc
Confidence 3 344454443211 11579999999998742223344448999999999998654433 3445556666
Q ss_pred -eecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHh
Q 000377 1245 -RLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRRL 1323 (1605)
Q Consensus 1245 -RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRt 1323 (1605)
+|+|||||...+...+..++.++.|.++.-. .
T Consensus 175 ~~LGLTATp~R~D~~~~~~l~~~~g~~vy~~~-----------------------------------------------~ 207 (442)
T COG1061 175 PRLGLTATPEREDGGRIGDLFDLIGPIVYEVS-----------------------------------------------L 207 (442)
T ss_pred ceeeeccCceeecCCchhHHHHhcCCeEeecC-----------------------------------------------H
Confidence 9999999976654455555444433322100 0
Q ss_pred hhhH-hhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCC
Q 000377 1324 KHKV-ENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYL 1402 (1605)
Q Consensus 1324 KkdV-e~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~ 1402 (1605)
+..+ ...|.+.....+.+.++......|................ .......+.
T Consensus 208 ~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~------------------------ 261 (442)
T COG1061 208 KELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGT--LRAENEARR------------------------ 261 (442)
T ss_pred HHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhhhhh--hhHHHHHHH------------------------
Confidence 1111 2457777888888888888877776544332211111000 000000000
Q ss_pred ChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEE
Q 000377 1403 PPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIF 1482 (1605)
Q Consensus 1403 ~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~Vf 1482 (1605)
.......|+..+..++.... .+.+++||+........|...|...|+ +..++|.++..+|..+++.|+.++.+ +
T Consensus 262 -~~~~~~~~~~~~~~~~~~~~-~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~~~---~ 335 (442)
T COG1061 262 -IAIASERKIAAVRGLLLKHA-RGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGGIK---V 335 (442)
T ss_pred -HhhccHHHHHHHHHHHHHhc-CCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcCCCC---E
Confidence 11223457788888888766 789999999999999999999998888 89999999999999999999987754 7
Q ss_pred EEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCC-CCc--EEEEEEEeCCCHHHHHHHHHHH
Q 000377 1483 LLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQ-KRD--VLVLRFETVQTVEEQVRASAEH 1550 (1605)
Q Consensus 1483 LLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQ-kKe--V~VyRLIt~~TIEEkIlera~~ 1550 (1605)
|++++.+.+|+|++.|+++|+..+.-++..+.|++||+.|.-. +.. +..|-++...+.+..+......
T Consensus 336 lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~ 406 (442)
T COG1061 336 LVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIARRRRL 406 (442)
T ss_pred EEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccccchhhhhhh
Confidence 9999999999999999999999999999999999999999543 443 7788888888888877655443
No 25
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=99.96 E-value=2.9e-30 Score=324.99 Aligned_cols=257 Identities=26% Similarity=0.420 Sum_probs=194.1
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHh---------------cCCCCCEEEEecCCcccchHHHHHHhCCCc-eEEEEc
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMET---------------KNDRGPFLVVVPSSVLPGWESEINFWAPRI-HKIVYC 1172 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~---------------k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l-~vivy~ 1172 (1605)
+..+++||+||+|||...+++....... ....|.+|||||.+++.||-.||.++++.. ++..|.
T Consensus 374 g~~~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~aIl~QW~~EI~kH~~~~lKv~~Y~ 453 (1394)
T KOG0298|consen 374 GKRVQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPNAILMQWFEEIHKHISSLLKVLLYF 453 (1394)
T ss_pred CcceeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcHHHHHHHHHHHHHhccccceEEEEe
Confidence 4456999999999999988776542110 112367899999999999999999999876 999999
Q ss_pred CChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC--------------------CcccccCccEEEEecCccccCccch
Q 000377 1173 GPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR--------------------PKLSKIQWHYIIIDEGHRIKNASCK 1232 (1605)
Q Consensus 1173 Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~--------------------~~L~ki~wd~VIIDEAHriKN~~SK 1232 (1605)
|..+.- +........+|||+|||+.|+.+.-. ..|..+.|..||+|||+.+-...+.
T Consensus 454 Girk~~---~~~~~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~qsr~~~~~SPL~~v~wWRIclDEaQMvesssS~ 530 (1394)
T KOG0298|consen 454 GIRKTF---WLSPFELLQYDIVLTTYDILRNELYHTEDFGSDRQLRHQSRYMRPNSPLLMVNWWRICLDEAQMVESSSSA 530 (1394)
T ss_pred chhhhc---ccCchhhhccCEEEeehHHHHhHhhcccccCChhhhhcccCCCCCCCchHHHHHHHHhhhHHHhhcchHHH
Confidence 875432 22223346899999999999764321 2366678999999999999999999
Q ss_pred HHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHH
Q 000377 1233 LNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLH 1312 (1605)
Q Consensus 1233 lsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~ 1312 (1605)
.++++..+++.++|++||||+++ +.+|+.||+||.-.+|+....|.+.+..++... .....++
T Consensus 531 ~a~M~~rL~~in~W~VTGTPiq~-Iddl~~Ll~fLk~~Pf~~~~~~iq~v~~~~~~r----------------a~~~~~~ 593 (1394)
T KOG0298|consen 531 AAEMVRRLHAINRWCVTGTPIQK-IDDLFPLLEFLKLPPFCRPQDFIQTVDKAYQLR----------------AKCEPLL 593 (1394)
T ss_pred HHHHHHHhhhhceeeecCCchhh-hhhhHHHHHHhcCCCCCChHHHHHHHHHHHHHH----------------hhhhhHH
Confidence 99999999999999999999999 999999999999999999999998887665432 1133577
Q ss_pred HHhhHHHHHHhhhhHhhc--CccceEEEEEecccHHHHHHHHHHH--------HHh-----hccCCC---------CCcc
Q 000377 1313 QVLRPFVLRRLKHKVENE--LPEKIERLVRCEASAYQKLLMKRVE--------ENL-----GSIGNS---------KGRS 1368 (1605)
Q Consensus 1313 kvLrPFlLRRtKkdVe~e--LP~K~E~vI~~eLS~~Qk~LYk~I~--------~~l-----~~~~~~---------k~~~ 1368 (1605)
.++...+-|+.+-+|+.+ +|+..+.+-...+++.+..+|+... +.+ ..++.. ....
T Consensus 594 dl~~q~l~R~~k~~v~~el~~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~~~~~~~~k~~~l~~~sd~~~l~~~~~a~ 673 (1394)
T KOG0298|consen 594 DLFKQLLWRTFKSKVEHELGLPPQTEVVHRLELSAVESHVYREEHFTCVEEFAAAVEKLKRHNLDNSSDLASLSPQLLAI 673 (1394)
T ss_pred HHHHhhhhhhhhHHHHHHhCCCchHHHHHHHHhcchhhhhhHHHHhhHHHHHHHHHHHHHHhccccccccccCChhhHHH
Confidence 788888888888888764 6777776666677776666554321 111 011111 1234
Q ss_pred hhHHHHHHHHHhcCccc
Q 000377 1369 VHNSVMELRNICNHPYL 1385 (1605)
Q Consensus 1369 lln~L~qLRkicnHP~L 1385 (1605)
+.+.+.+||++|+||..
T Consensus 674 i~~~l~rLRq~Cchplv 690 (1394)
T KOG0298|consen 674 ILKWLLRLRQACCHPLV 690 (1394)
T ss_pred HHHHHHHHHHhhccccc
Confidence 67788999999999844
No 26
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.96 E-value=1.3e-27 Score=294.71 Aligned_cols=340 Identities=14% Similarity=0.182 Sum_probs=230.7
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhC--C
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWA--P 1164 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~Kwa--P 1164 (1605)
.++|+|||.+++..++. +.++||..+||+|||++++.++.+++... ..++|||||+. ++.||..+|.+|. +
T Consensus 112 ~~~~r~~Q~~av~~~l~----~~~~il~apTGsGKT~i~~~l~~~~~~~~--~~~vLilvpt~eL~~Q~~~~l~~~~~~~ 185 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLK----NNRRLLNLPTSAGKSLIQYLLSRYYLENY--EGKVLIIVPTTSLVTQMIDDFVDYRLFP 185 (501)
T ss_pred cCCCCHHHHHHHHHHHh----cCceEEEeCCCCCHHHHHHHHHHHHHhcC--CCeEEEEECcHHHHHHHHHHHHHhcccc
Confidence 37899999999976654 56789999999999999877666554432 33799999986 7799999999976 3
Q ss_pred CceE-EEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh-hc
Q 000377 1165 RIHK-IVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY-QS 1242 (1605)
Q Consensus 1165 ~l~v-ivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L-~a 1242 (1605)
...+ .++.|.... ...+|+|+|++.+.+.. ...+ -+|++|||||||++... .....+..+ .+
T Consensus 186 ~~~~~~i~~g~~~~-----------~~~~I~VaT~qsl~~~~-~~~~--~~~~~iIvDEaH~~~~~--~~~~il~~~~~~ 249 (501)
T PHA02558 186 REAMHKIYSGTAKD-----------TDAPIVVSTWQSAVKQP-KEWF--DQFGMVIVDECHLFTGK--SLTSIITKLDNC 249 (501)
T ss_pred ccceeEEecCcccC-----------CCCCEEEeeHHHHhhch-hhhc--cccCEEEEEchhcccch--hHHHHHHhhhcc
Confidence 3333 344443221 35789999999997632 1122 36899999999999753 344556666 57
Q ss_pred cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHH
Q 000377 1243 SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRR 1322 (1605)
Q Consensus 1243 ~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRR 1322 (1605)
+++++|||||..... ..+.+..++.|-...- .. ..++
T Consensus 250 ~~~lGLTATp~~~~~-~~~~~~~~fG~i~~~v--~~---------------------------------~~li------- 286 (501)
T PHA02558 250 KFKFGLTGSLRDGKA-NILQYVGLFGDIFKPV--TT---------------------------------SQLM------- 286 (501)
T ss_pred ceEEEEeccCCCccc-cHHHHHHhhCCceEEe--cH---------------------------------HHHH-------
Confidence 889999999954322 1222222221111000 00 0000
Q ss_pred hhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCC
Q 000377 1323 LKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYL 1402 (1605)
Q Consensus 1323 tKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~ 1402 (1605)
+ ...+.+.....+.+..+......+ . ...... .+..
T Consensus 287 --~--~g~l~~~~~~~v~~~~~~~~~~~~----------~---~~~~~~---~~~~------------------------ 322 (501)
T PHA02558 287 --E--EGQVTDLKINSIFLRYPDEDRVKL----------K---GEDYQE---EIKY------------------------ 322 (501)
T ss_pred --h--CCCcCCceEEEEeccCCHHHhhhh----------c---ccchHH---HHHH------------------------
Confidence 0 011111122223333222110000 0 000000 0001
Q ss_pred ChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEE
Q 000377 1403 PPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIF 1482 (1605)
Q Consensus 1403 ~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~Vf 1482 (1605)
+.....+..++.+++..+...++++||||..+.+++.|.+.|...|+++..++|.++.++|..+++.|+.+. ..|+
T Consensus 323 --l~~~~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~--~~vL 398 (501)
T PHA02558 323 --ITSHTKRNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGK--GIII 398 (501)
T ss_pred --HhccHHHHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCC--CeEE
Confidence 111234566777777777778899999999999999999999999999999999999999999999997654 3455
Q ss_pred EEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCc-EEEEEEEeCCCH
Q 000377 1483 LLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRD-VLVLRFETVQTV 1540 (1605)
Q Consensus 1483 LLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKe-V~VyRLIt~~TI 1540 (1605)
|.|++..++|+|++.+|+||+++|+.+...+.|++||++|.+..|+ +.||.++-.-.+
T Consensus 399 vaT~~~l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR~~R~~~~K~~~~i~D~vD~~~~ 457 (501)
T PHA02558 399 VASYGVFSTGISIKNLHHVIFAHPSKSKIIVLQSIGRVLRKHGSKSIATVWDIIDDLSV 457 (501)
T ss_pred EEEcceeccccccccccEEEEecCCcchhhhhhhhhccccCCCCCceEEEEEeeccccc
Confidence 6666999999999999999999999999999999999999998765 899999975443
No 27
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.94 E-value=3.8e-25 Score=273.70 Aligned_cols=438 Identities=18% Similarity=0.168 Sum_probs=264.2
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCc
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRI 1166 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l 1166 (1605)
...||+||.+.++-.+ +.|.|+|.+||+|||++|+-++..+++.... +.++++||+. ++.|....|..++-..
T Consensus 60 ~~~lR~YQ~eivq~AL-----gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~KiVF~aP~~pLv~QQ~a~~~~~~~~~ 133 (746)
T KOG0354|consen 60 NLELRNYQEELVQPAL-----GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-GKVVFLAPTRPLVNQQIACFSIYLIPY 133 (746)
T ss_pred cccccHHHHHHhHHhh-----cCCeEEEeecCCCccchHHHHHHHHHhcCCc-ceEEEeeCCchHHHHHHHHHhhccCcc
Confidence 4689999999998665 5899999999999999998777777776554 7799999998 5677778888777445
Q ss_pred eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccc-cCccEEEEecCccccCc--cchHHHHHHhh--h
Q 000377 1167 HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSK-IQWHYIIIDEGHRIKNA--SCKLNADLKHY--Q 1241 (1605)
Q Consensus 1167 ~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~k-i~wd~VIIDEAHriKN~--~SKlsraL~~L--~ 1241 (1605)
.+....|+...+... .......+|+|.|.+.+.+.+....... -.|.++||||||+.... .+...+.+... .
T Consensus 134 ~~T~~l~~~~~~~~r---~~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn~~Y~~Vmr~~l~~k~~ 210 (746)
T KOG0354|consen 134 SVTGQLGDTVPRSNR---GEIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKNHPYNNIMREYLDLKNQ 210 (746)
T ss_pred cceeeccCccCCCch---hhhhcccceEEeChHhhhhhcccccccccceEEEEEEcccccccccccHHHHHHHHHHhhhc
Confidence 566655553222211 1223567999999999998776555555 56899999999997542 23333333333 3
Q ss_pred ccceecccccCCCCCHHHHHHHHHhhcCCCCC-ChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1242 SSHRLLLTGTPLQNNLEELWALLNFLLPNIFN-SSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1242 a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~-s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
..+.|+|||||- ++...+.+.+.=|...+-- ....-. .++............+. ........+|..+++|++.
T Consensus 211 ~~qILgLTASpG-~~~~~v~~~I~~L~asldvr~~ssi~----~~y~~lr~~~~i~v~~~-~~~~~~~~~f~~~i~p~l~ 284 (746)
T KOG0354|consen 211 GNQILGLTASPG-SKLEQVQNVIDNLCASLDVRTESSIK----SNYEELREHVQIPVDLS-LCERDIEDPFGMIIEPLLQ 284 (746)
T ss_pred cccEEEEecCCC-ccHHHHHHHHHhhheecccchhhhhh----hhHHHHhccCcccCcHH-HhhhhhhhhHHHHHHHHHH
Confidence 346799999997 7777777766666554210 000011 11111111100001111 1112334677888888775
Q ss_pred HHhhhhHhhcCccceEEEEEec---------------------ccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHH-
Q 000377 1321 RRLKHKVENELPEKIERLVRCE---------------------ASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRN- 1378 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E~vI~~e---------------------LS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRk- 1378 (1605)
+-... .|.+....-.... +..+...-|.. ..+ .... .+ ..+.+..+..
T Consensus 285 ~l~~~----~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~--~ll-~~~g--ir-~~~~l~~~~~f 354 (746)
T KOG0354|consen 285 QLQEE----GLIEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNL--ALL-ISDG--IR-FVDALDYLEDF 354 (746)
T ss_pred HHHhc----CccccccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHH--HHH-hhcc--hh-hHHHHhhhhhh
Confidence 53322 1221110000000 01111000000 000 0000 00 1111111111
Q ss_pred -----------HhcCccccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhc--CCCeEEEEEccHHHHHHHHHH
Q 000377 1379 -----------ICNHPYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKA--TDHRVLFFSTMTRLLDVMEDY 1445 (1605)
Q Consensus 1379 -----------icnHP~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a--~g~KVLIFSQft~~LdiLe~~ 1445 (1605)
.+...++.....+....+. ......-...+|++.|.++|.+... +..|+|||+.++..++.|..+
T Consensus 355 ~~e~~~~k~~~~~~e~~~~~~~~~~m~~~~--~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~ 432 (746)
T KOG0354|consen 355 YEEVALKKYLKLELEARLIRNFTENMNELE--HLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKW 432 (746)
T ss_pred ccccchhHHHHHHhcchhhHHHHHHHHhhh--hhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHH
Confidence 0100000000000000000 0000001346799999999987764 558999999999999999999
Q ss_pred Hh---hcCceEEEEeC--------CCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHH
Q 000377 1446 LT---FKQYRYLRLDG--------HTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDL 1514 (1605)
Q Consensus 1446 L~---~~GikylrLdG--------sts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~ 1514 (1605)
|. ..|++...+.| ++++.+..+++++|++|+.+ +|++|.+|.+|||+..||.||.||..-||...+
T Consensus 433 l~~~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~~N---vLVATSV~EEGLDI~ec~lVIcYd~~snpIrmI 509 (746)
T KOG0354|consen 433 LLQLHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEIN---VLVATSVAEEGLDIGECNLVICYDYSSNPIRMV 509 (746)
T ss_pred HHhhhhcccccceeeeccccccccccCHHHHHHHHHHHhCCCcc---EEEEecchhccCCcccccEEEEecCCccHHHHH
Confidence 87 23556555655 57888999999999999887 899999999999999999999999999999999
Q ss_pred HHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHH-HHHHHHHHhhhhcc
Q 000377 1515 QAQARAHRIGQKRDVLVLRFETVQTVEEQVRAS-AEHKLGVANQSITA 1561 (1605)
Q Consensus 1515 QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIler-a~~Kl~L~~kVI~a 1561 (1605)
||+|| +| ++.-+++-|.+ +.|..-+++ ...|..+.+..|..
T Consensus 510 QrrGR-gR---a~ns~~vll~t--~~~~~~~E~~~~~~e~lm~~~i~~ 551 (746)
T KOG0354|consen 510 QRRGR-GR---ARNSKCVLLTT--GSEVIEFERNNLAKEKLMNQTISK 551 (746)
T ss_pred HHhcc-cc---ccCCeEEEEEc--chhHHHHHHHHHhHHHHHHHHHHH
Confidence 99999 67 45555555555 455554444 55666677666643
No 28
>PTZ00110 helicase; Provisional
Probab=99.94 E-value=1.5e-25 Score=278.95 Aligned_cols=323 Identities=18% Similarity=0.261 Sum_probs=221.4
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHH-HHHHhc---CCCC-CEEEEecCC-cccchHHHHHHh
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALIC-YLMETK---NDRG-PFLVVVPSS-VLPGWESEINFW 1162 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~-~Lle~k---~~~g-P~LIVvP~S-LL~nW~~Ef~Kw 1162 (1605)
.+++|+|..++..++. +.+.|+..+||+|||++++..+. .+.... ...+ .+|||||+. |..||..++.++
T Consensus 151 ~~pt~iQ~~aip~~l~----G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 151 TEPTPIQVQGWPIALS----GRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCCHHHHHHHHHHhc----CCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 3688999999988776 78999999999999998764433 333221 1123 379999997 568899999988
Q ss_pred CCC--ceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHHHH
Q 000377 1163 APR--IHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNADLK 1238 (1605)
Q Consensus 1163 aP~--l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--KlsraL~ 1238 (1605)
... +++.+..|.......... .....+|+|+|++.|........+...+..+|||||||++..... .+.+.+.
T Consensus 227 ~~~~~i~~~~~~gg~~~~~q~~~---l~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~lViDEAd~mld~gf~~~i~~il~ 303 (545)
T PTZ00110 227 GASSKIRNTVAYGGVPKRGQIYA---LRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMGFEPQIRKIVS 303 (545)
T ss_pred hcccCccEEEEeCCCCHHHHHHH---HHcCCCEEEECHHHHHHHHHcCCCChhhCcEEEeehHHhhhhcchHHHHHHHHH
Confidence 753 445444444333322211 125689999999988765443334445678999999999876442 2334444
Q ss_pred hhhc-cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1239 HYQS-SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1239 ~L~a-~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
.+.. ...+++|||.- .++..+.. ++
T Consensus 304 ~~~~~~q~l~~SAT~p----~~v~~l~~---------------~l----------------------------------- 329 (545)
T PTZ00110 304 QIRPDRQTLMWSATWP----KEVQSLAR---------------DL----------------------------------- 329 (545)
T ss_pred hCCCCCeEEEEEeCCC----HHHHHHHH---------------HH-----------------------------------
Confidence 4433 45688999951 11111110 00
Q ss_pred HHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcC
Q 000377 1318 FVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLI 1397 (1605)
Q Consensus 1318 FlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i 1397 (1605)
+ ...|.. +.+.. ........ ++ + .+
T Consensus 330 -~---------~~~~v~----i~vg~-----------------~~l~~~~~-------i~----q-~~------------ 354 (545)
T PTZ00110 330 -C---------KEEPVH----VNVGS-----------------LDLTACHN-------IK----Q-EV------------ 354 (545)
T ss_pred -h---------ccCCEE----EEECC-----------------CccccCCC-------ee----E-EE------------
Confidence 0 000000 00000 00000000 00 0 00
Q ss_pred CCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCC
Q 000377 1398 PKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDS 1477 (1605)
Q Consensus 1398 ~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds 1477 (1605)
..+....|...|..+|..+...+.++||||+....++.|...|...|+..+.++|.++.++|..+++.|+.+..
T Consensus 355 ------~~~~~~~k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G~~ 428 (545)
T PTZ00110 355 ------FVVEEHEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKS 428 (545)
T ss_pred ------EEEechhHHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcCCC
Confidence 00112347778888888877678999999999999999999999999999999999999999999999998877
Q ss_pred CeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1478 PFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1478 ~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
. +||+|+++++|||++.+++||+||+|+++..|.||+||++|.|.+-. +|.|++.+
T Consensus 429 ~---ILVaTdv~~rGIDi~~v~~VI~~d~P~s~~~yvqRiGRtGR~G~~G~--ai~~~~~~ 484 (545)
T PTZ00110 429 P---IMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGA--SYTFLTPD 484 (545)
T ss_pred c---EEEEcchhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccccCCCCce--EEEEECcc
Confidence 6 79999999999999999999999999999999999999999997644 45566665
No 29
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.94 E-value=4.4e-25 Score=269.34 Aligned_cols=318 Identities=19% Similarity=0.293 Sum_probs=222.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhC---C
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWA---P 1164 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~Kwa---P 1164 (1605)
.++.|+|.+++..++. +.+.|+..+||+|||..++..+...+........+|||||+. +..||..++.+++ +
T Consensus 25 ~~~t~iQ~~ai~~~l~----g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~~ 100 (460)
T PRK11776 25 TEMTPIQAQSLPAILA----GKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFIP 100 (460)
T ss_pred CCCCHHHHHHHHHHhc----CCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHhhCC
Confidence 3688999999997775 788999999999999887666655554333333489999987 5688999888764 4
Q ss_pred CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHHHHhhh-
Q 000377 1165 RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNADLKHYQ- 1241 (1605)
Q Consensus 1165 ~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--KlsraL~~L~- 1241 (1605)
.+.+..++|......+.. ......+|+|+|++.+........+.-.++++|||||||++..... .+...+..+.
T Consensus 101 ~~~v~~~~Gg~~~~~~~~---~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l~~g~~~~l~~i~~~~~~ 177 (460)
T PRK11776 101 NIKVLTLCGGVPMGPQID---SLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPA 177 (460)
T ss_pred CcEEEEEECCCChHHHHH---HhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHhCcCcHHHHHHHHHhCCc
Confidence 677777777654433221 1226789999999999875554444455678999999999876432 2334444443
Q ss_pred ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHH
Q 000377 1242 SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLR 1321 (1605)
Q Consensus 1242 a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLR 1321 (1605)
....+++|||+- .++..+...+ +..|......
T Consensus 178 ~~q~ll~SAT~~----~~~~~l~~~~--------------~~~~~~i~~~------------------------------ 209 (460)
T PRK11776 178 RRQTLLFSATYP----EGIAAISQRF--------------QRDPVEVKVE------------------------------ 209 (460)
T ss_pred ccEEEEEEecCc----HHHHHHHHHh--------------cCCCEEEEEC------------------------------
Confidence 345689999972 1111111100 0001000000
Q ss_pred HhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCC
Q 000377 1322 RLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHY 1401 (1605)
Q Consensus 1322 RtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~ 1401 (1605)
.....+......+.+
T Consensus 210 -----~~~~~~~i~~~~~~~------------------------------------------------------------ 224 (460)
T PRK11776 210 -----STHDLPAIEQRFYEV------------------------------------------------------------ 224 (460)
T ss_pred -----cCCCCCCeeEEEEEe------------------------------------------------------------
Confidence 000000000000000
Q ss_pred CChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEE
Q 000377 1402 LPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFI 1481 (1605)
Q Consensus 1402 ~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~V 1481 (1605)
....|++.|..+|... ...++||||+....++.+.+.|...++.+..++|.+++.+|+.+++.|+++...
T Consensus 225 -----~~~~k~~~l~~ll~~~--~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~~~--- 294 (460)
T PRK11776 225 -----SPDERLPALQRLLLHH--QPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCS--- 294 (460)
T ss_pred -----CcHHHHHHHHHHHHhc--CCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCCCc---
Confidence 0112566677776543 356899999999999999999999999999999999999999999999988776
Q ss_pred EEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1482 FLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1482 fLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
+||+|+++++|||++++++||+||.|.++..|.||+||++|.|+.- .+|.|++.+
T Consensus 295 vLVaTdv~~rGiDi~~v~~VI~~d~p~~~~~yiqR~GRtGR~g~~G--~ai~l~~~~ 349 (460)
T PRK11776 295 VLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKG--LALSLVAPE 349 (460)
T ss_pred EEEEecccccccchhcCCeEEEecCCCCHhHhhhhcccccCCCCcc--eEEEEEchh
Confidence 7999999999999999999999999999999999999999998753 455566554
No 30
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.94 E-value=5.2e-25 Score=266.61 Aligned_cols=316 Identities=16% Similarity=0.206 Sum_probs=216.3
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc----CCCCCEEEEecCC-cccchHHHHHHhC
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK----NDRGPFLVVVPSS-VLPGWESEINFWA 1163 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k----~~~gP~LIVvP~S-LL~nW~~Ef~Kwa 1163 (1605)
.+++++|.+++..++. +.+.|+..+||+|||.+++..+...+... .....+|||+|+. +..||.+.+..|+
T Consensus 22 ~~p~~iQ~~ai~~~~~----g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~ 97 (434)
T PRK11192 22 TRPTAIQAEAIPPALD----GRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELA 97 (434)
T ss_pred CCCCHHHHHHHHHHhC----CCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHH
Confidence 4688999999988775 77899999999999998876555443221 1223589999988 5677888777775
Q ss_pred C--CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHHHHh
Q 000377 1164 P--RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNADLKH 1239 (1605)
Q Consensus 1164 P--~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--KlsraL~~ 1239 (1605)
. ++.+..+.|....... .......++|+|+|++.|........+....+++|||||||++..... .+...+..
T Consensus 98 ~~~~~~v~~~~gg~~~~~~---~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah~~l~~~~~~~~~~i~~~ 174 (434)
T PRK11192 98 KHTHLDIATITGGVAYMNH---AEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLDMGFAQDIETIAAE 174 (434)
T ss_pred ccCCcEEEEEECCCCHHHH---HHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHHHHhCCCcHHHHHHHHHh
Confidence 4 4677777776543321 122235789999999988765544455555678999999999865431 22222222
Q ss_pred hh-ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhc-ccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1240 YQ-SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFN-KPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1240 L~-a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~-kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
+. ....+++|||+-...+.+ |..++. .|+.
T Consensus 175 ~~~~~q~~~~SAT~~~~~~~~------------------~~~~~~~~~~~------------------------------ 206 (434)
T PRK11192 175 TRWRKQTLLFSATLEGDAVQD------------------FAERLLNDPVE------------------------------ 206 (434)
T ss_pred CccccEEEEEEeecCHHHHHH------------------HHHHHccCCEE------------------------------
Confidence 22 244589999973211111 111110 0000
Q ss_pred HHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcC
Q 000377 1318 FVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLI 1397 (1605)
Q Consensus 1318 FlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i 1397 (1605)
+.+...... . ....+-+.. .
T Consensus 207 ---------------------i~~~~~~~~------------------~-----------~~i~~~~~~-~--------- 226 (434)
T PRK11192 207 ---------------------VEAEPSRRE------------------R-----------KKIHQWYYR-A--------- 226 (434)
T ss_pred ---------------------EEecCCccc------------------c-----------cCceEEEEE-e---------
Confidence 000000000 0 000000000 0
Q ss_pred CCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCC
Q 000377 1398 PKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDS 1477 (1605)
Q Consensus 1398 ~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds 1477 (1605)
-....|.++|..++.. ....++||||.....++.|...|...++.+..++|.++..+|..+++.|+++..
T Consensus 227 --------~~~~~k~~~l~~l~~~--~~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~~ 296 (434)
T PRK11192 227 --------DDLEHKTALLCHLLKQ--PEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRV 296 (434)
T ss_pred --------CCHHHHHHHHHHHHhc--CCCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCCC
Confidence 0012356666666653 245799999999999999999999999999999999999999999999998877
Q ss_pred CeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEE
Q 000377 1478 PFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVL 1532 (1605)
Q Consensus 1478 ~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~Vy 1532 (1605)
. +|++|+++++|||++.+++||+||+|+++..|.|++||++|.|.+-.+.++
T Consensus 297 ~---vLVaTd~~~~GiDip~v~~VI~~d~p~s~~~yiqr~GR~gR~g~~g~ai~l 348 (434)
T PRK11192 297 N---VLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISL 348 (434)
T ss_pred c---EEEEccccccCccCCCCCEEEEECCCCCHHHHhhcccccccCCCCceEEEE
Confidence 6 899999999999999999999999999999999999999999876554443
No 31
>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=99.94 E-value=7.8e-25 Score=268.20 Aligned_cols=309 Identities=17% Similarity=0.176 Sum_probs=214.8
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~ 1167 (1605)
-.++|+|.+++..++. +.++++..+||+|||+.++..+.. ..+..|||+|+. |+.+|...+..+. +.
T Consensus 10 ~~~r~~Q~~ai~~~l~----g~dvlv~apTGsGKTl~y~lp~l~------~~~~~lVi~P~~~L~~dq~~~l~~~g--i~ 77 (470)
T TIGR00614 10 SSFRPVQLEVINAVLL----GRDCFVVMPTGGGKSLCYQLPALC------SDGITLVISPLISLMEDQVLQLKASG--IP 77 (470)
T ss_pred CCCCHHHHHHHHHHHc----CCCEEEEcCCCCcHhHHHHHHHHH------cCCcEEEEecHHHHHHHHHHHHHHcC--Cc
Confidence 4799999999998776 678999999999999877544331 235689999986 5677888887654 44
Q ss_pred EEEEcCChh--HHHHHHHhhhhcCCccEEEEcHHHHhhccC-CCcc-cccCccEEEEecCccccCccch-------HHHH
Q 000377 1168 KIVYCGPPE--ERRRLFKEKIVHQKFNVLLTTYEYLMNKHD-RPKL-SKIQWHYIIIDEGHRIKNASCK-------LNAD 1236 (1605)
Q Consensus 1168 vivy~Gs~~--~R~~l~~~~i~~~~fdVVITTYe~L~k~~D-~~~L-~ki~wd~VIIDEAHriKN~~SK-------lsra 1236 (1605)
...+.+... ++..++ ..+..+.++++++|++.+..... ...+ ...++.+|||||||++..+... +...
T Consensus 78 ~~~l~~~~~~~~~~~i~-~~~~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~~~l~~l 156 (470)
T TIGR00614 78 ATFLNSSQSKEQQKNVL-TDLKDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSL 156 (470)
T ss_pred EEEEeCCCCHHHHHHHH-HHHhcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccCccccccHHHHHHHHHH
Confidence 444444432 223332 23355679999999999865221 1122 3457889999999998764321 1122
Q ss_pred HHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhh
Q 000377 1237 LKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLR 1316 (1605)
Q Consensus 1237 L~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLr 1316 (1605)
...+.....++|||||-.....++...+.+-.|.++.. .|.
T Consensus 157 ~~~~~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~------s~~--------------------------------- 197 (470)
T TIGR00614 157 KQKFPNVPIMALTATASPSVREDILRQLNLKNPQIFCT------SFD--------------------------------- 197 (470)
T ss_pred HHHcCCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeC------CCC---------------------------------
Confidence 23345567899999996554455544443322221100 000
Q ss_pred HHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhc
Q 000377 1317 PFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTL 1396 (1605)
Q Consensus 1317 PFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~ 1396 (1605)
.|.....+.. .
T Consensus 198 --------------r~nl~~~v~~-~------------------------------------------------------ 208 (470)
T TIGR00614 198 --------------RPNLYYEVRR-K------------------------------------------------------ 208 (470)
T ss_pred --------------CCCcEEEEEe-C------------------------------------------------------
Confidence 0000000000 0
Q ss_pred CCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCC
Q 000377 1397 IPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQD 1476 (1605)
Q Consensus 1397 i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gd 1476 (1605)
....++.+.+++.+ ...+.++||||.....++.+...|...|+.+..++|+++.++|..+++.|..+.
T Consensus 209 -----------~~~~~~~l~~~l~~-~~~~~~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g~ 276 (470)
T TIGR00614 209 -----------TPKILEDLLRFIRK-EFKGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDE 276 (470)
T ss_pred -----------CccHHHHHHHHHHH-hcCCCceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcCC
Confidence 00012223333332 234667899999999999999999999999999999999999999999999887
Q ss_pred CCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEE
Q 000377 1477 SPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLR 1533 (1605)
Q Consensus 1477 s~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyR 1533 (1605)
.. +|++|.++++|||++++++||+||+|.++..|.|++||++|.|+...+.+|+
T Consensus 277 ~~---vLVaT~~~~~GID~p~V~~VI~~~~P~s~~~y~Qr~GRaGR~G~~~~~~~~~ 330 (470)
T TIGR00614 277 IQ---VVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFY 330 (470)
T ss_pred Cc---EEEEechhhccCCcccceEEEEeCCCCCHHHHHhhhcCcCCCCCCceEEEEe
Confidence 76 7899999999999999999999999999999999999999999887766553
No 32
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.93 E-value=7.2e-25 Score=267.53 Aligned_cols=327 Identities=17% Similarity=0.248 Sum_probs=219.8
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCC------CCCEEEEecCC-cccchHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKND------RGPFLVVVPSS-VLPGWESEINF 1161 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~------~gP~LIVvP~S-LL~nW~~Ef~K 1161 (1605)
..++|+|.+++..++. +.+.|+..+||+|||+.++..+...+..... ...+|||||+. |..||..++..
T Consensus 22 ~~pt~iQ~~ai~~il~----g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~ 97 (456)
T PRK10590 22 REPTPIQQQAIPAVLE----GRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRD 97 (456)
T ss_pred CCCCHHHHHHHHHHhC----CCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHH
Confidence 3688999999987765 7889999999999999987666555433211 12489999997 56889999988
Q ss_pred hCC--CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHHH
Q 000377 1162 WAP--RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNADL 1237 (1605)
Q Consensus 1162 waP--~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--KlsraL 1237 (1605)
|+. .+.++...|......... .....++|+|+|++.|........+.....++|||||||++..... .+...+
T Consensus 98 ~~~~~~~~~~~~~gg~~~~~~~~---~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViDEah~ll~~~~~~~i~~il 174 (456)
T PRK10590 98 YSKYLNIRSLVVFGGVSINPQMM---KLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMGFIHDIRRVL 174 (456)
T ss_pred HhccCCCEEEEEECCcCHHHHHH---HHcCCCcEEEEChHHHHHHHHcCCcccccceEEEeecHHHHhccccHHHHHHHH
Confidence 764 355555555544332221 1236789999999999764444444445678999999999866432 233344
Q ss_pred Hhhhc-cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhh
Q 000377 1238 KHYQS-SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLR 1316 (1605)
Q Consensus 1238 ~~L~a-~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLr 1316 (1605)
..+.. ...+++|||+-. ++-.+...+ +..|......
T Consensus 175 ~~l~~~~q~l~~SAT~~~----~~~~l~~~~--------------~~~~~~i~~~------------------------- 211 (456)
T PRK10590 175 AKLPAKRQNLLFSATFSD----DIKALAEKL--------------LHNPLEIEVA------------------------- 211 (456)
T ss_pred HhCCccCeEEEEeCCCcH----HHHHHHHHH--------------cCCCeEEEEe-------------------------
Confidence 44433 346899999621 111111110 1111000000
Q ss_pred HHHHHHhhhhHhhcCccce-EEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhh
Q 000377 1317 PFVLRRLKHKVENELPEKI-ERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDT 1395 (1605)
Q Consensus 1317 PFlLRRtKkdVe~eLP~K~-E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~ 1395 (1605)
+ ....++.. ..+..+
T Consensus 212 ----~------~~~~~~~i~~~~~~~------------------------------------------------------ 227 (456)
T PRK10590 212 ----R------RNTASEQVTQHVHFV------------------------------------------------------ 227 (456)
T ss_pred ----c------ccccccceeEEEEEc------------------------------------------------------
Confidence 0 00000000 000000
Q ss_pred cCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCC
Q 000377 1396 LIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQ 1475 (1605)
Q Consensus 1396 ~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~g 1475 (1605)
....|.++|..++.. ....++||||.....++.|...|...++.+..++|.++.++|..+++.|+++
T Consensus 228 -----------~~~~k~~~l~~l~~~--~~~~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g 294 (456)
T PRK10590 228 -----------DKKRKRELLSQMIGK--GNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSG 294 (456)
T ss_pred -----------CHHHHHHHHHHHHHc--CCCCcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcC
Confidence 001133344444432 2347899999999999999999999999999999999999999999999988
Q ss_pred CCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 000377 1476 DSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAE 1549 (1605)
Q Consensus 1476 ds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~ 1549 (1605)
... +|++|+++++|||++++++||+||+|+++..|.|++||++|.|.+-.+ +.|++.+ |..++...+
T Consensus 295 ~~~---iLVaTdv~~rGiDip~v~~VI~~~~P~~~~~yvqR~GRaGR~g~~G~a--i~l~~~~--d~~~~~~ie 361 (456)
T PRK10590 295 DIR---VLVATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEA--LSLVCVD--EHKLLRDIE 361 (456)
T ss_pred CCc---EEEEccHHhcCCCcccCCEEEEeCCCCCHHHhhhhccccccCCCCeeE--EEEecHH--HHHHHHHHH
Confidence 766 789999999999999999999999999999999999999999976544 3344443 444444443
No 33
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.93 E-value=2.1e-24 Score=264.59 Aligned_cols=320 Identities=17% Similarity=0.265 Sum_probs=217.1
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCC-------CCCEEEEecCC-cccchHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKND-------RGPFLVVVPSS-VLPGWESEIN 1160 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~-------~gP~LIVvP~S-LL~nW~~Ef~ 1160 (1605)
..++|+|.+++..++. +.+.|++.+||+|||+.++..+...+..... ...+|||+|+. +..||..++.
T Consensus 108 ~~~~~iQ~~ai~~~~~----G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~ 183 (475)
T PRK01297 108 PYCTPIQAQVLGYTLA----GHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAA 183 (475)
T ss_pred CCCCHHHHHHHHHHhC----CCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHH
Confidence 3689999999987665 7899999999999998876555444333211 23589999987 5678888888
Q ss_pred HhCC--CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHH
Q 000377 1161 FWAP--RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNAD 1236 (1605)
Q Consensus 1161 KwaP--~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--Klsra 1236 (1605)
.+.. ++.+..++|........ ..+....++|+|+|++.+........+.--..++|||||||++.+... .+.+.
T Consensus 184 ~l~~~~~~~v~~~~gg~~~~~~~--~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViDEah~l~~~~~~~~l~~i 261 (475)
T PRK01297 184 ALTKYTGLNVMTFVGGMDFDKQL--KQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDMGFIPQVRQI 261 (475)
T ss_pred HhhccCCCEEEEEEccCChHHHH--HHHhCCCCCEEEECHHHHHHHHHcCCcccccCceEEechHHHHHhcccHHHHHHH
Confidence 7754 45677777754322221 122335689999999999764433333334568999999999876432 23344
Q ss_pred HHhhh---ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHH
Q 000377 1237 LKHYQ---SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQ 1313 (1605)
Q Consensus 1237 L~~L~---a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~k 1313 (1605)
+..+. ....+++|||... ++.++ .. .|...|.
T Consensus 262 ~~~~~~~~~~q~i~~SAT~~~-~~~~~---~~--------------~~~~~~~--------------------------- 296 (475)
T PRK01297 262 IRQTPRKEERQTLLFSATFTD-DVMNL---AK--------------QWTTDPA--------------------------- 296 (475)
T ss_pred HHhCCCCCCceEEEEEeecCH-HHHHH---HH--------------HhccCCE---------------------------
Confidence 44442 2357889999521 11111 10 0000000
Q ss_pred HhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhh
Q 000377 1314 VLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEV 1393 (1605)
Q Consensus 1314 vLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eei 1393 (1605)
.+.+... ....... . .|-+
T Consensus 297 ------------------------~v~~~~~---------------~~~~~~~----------~---~~~~--------- 315 (475)
T PRK01297 297 ------------------------IVEIEPE---------------NVASDTV----------E---QHVY--------- 315 (475)
T ss_pred ------------------------EEEeccC---------------cCCCCcc----------c---EEEE---------
Confidence 0000000 0000000 0 0000
Q ss_pred hhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 000377 1394 DTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFN 1473 (1605)
Q Consensus 1394 d~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN 1473 (1605)
.+..+.|..+|..++.. ....++||||+....++.|...|...|+.+..++|.++.++|.++++.|+
T Consensus 316 -----------~~~~~~k~~~l~~ll~~--~~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr 382 (475)
T PRK01297 316 -----------AVAGSDKYKLLYNLVTQ--NPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFR 382 (475)
T ss_pred -----------EecchhHHHHHHHHHHh--cCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHh
Confidence 00113356666666653 34569999999999999999999999999999999999999999999999
Q ss_pred CCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1474 QQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1474 ~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
+++.. +|++|+++++|||+..+|+||+||+++++..|.|+.||++|.|+.-. ++.|+..+
T Consensus 383 ~G~~~---vLvaT~~l~~GIDi~~v~~VI~~~~P~s~~~y~Qr~GRaGR~g~~g~--~i~~~~~~ 442 (475)
T PRK01297 383 EGKIR---VLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGV--SISFAGED 442 (475)
T ss_pred CCCCc---EEEEccccccCCcccCCCEEEEeCCCCCHHHHHHhhCccCCCCCCce--EEEEecHH
Confidence 88776 78999999999999999999999999999999999999999997643 44445443
No 34
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.93 E-value=2.7e-24 Score=266.38 Aligned_cols=321 Identities=17% Similarity=0.205 Sum_probs=217.4
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHh-------cCCCCCEEEEecCC-cccchHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMET-------KNDRGPFLVVVPSS-VLPGWESEIN 1160 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~-------k~~~gP~LIVvP~S-LL~nW~~Ef~ 1160 (1605)
..++|+|.+++..++. +.+.|+..+||+|||+.++..+...+.. ......+|||+|+. |..|+..++.
T Consensus 142 ~~ptpiQ~~aip~il~----g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~ 217 (518)
T PLN00206 142 EFPTPIQMQAIPAALS----GRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAK 217 (518)
T ss_pred CCCCHHHHHHHHHHhc----CCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHH
Confidence 4789999999998775 7899999999999999887654433221 11223589999997 5577888888
Q ss_pred HhCCC--ceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCcc--chHHHH
Q 000377 1161 FWAPR--IHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNAS--CKLNAD 1236 (1605)
Q Consensus 1161 KwaP~--l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~--SKlsra 1236 (1605)
.+... +++..+.|......... .+ ...++|+|+|++.+........+...+..+|||||||+|.... ..+.+.
T Consensus 218 ~l~~~~~~~~~~~~gG~~~~~q~~--~l-~~~~~IiV~TPgrL~~~l~~~~~~l~~v~~lViDEad~ml~~gf~~~i~~i 294 (518)
T PLN00206 218 VLGKGLPFKTALVVGGDAMPQQLY--RI-QQGVELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLERGFRDQVMQI 294 (518)
T ss_pred HHhCCCCceEEEEECCcchHHHHH--Hh-cCCCCEEEECHHHHHHHHHcCCccchheeEEEeecHHHHhhcchHHHHHHH
Confidence 77643 34444444332222211 11 2568999999998865444444444567899999999986543 234445
Q ss_pred HHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhh
Q 000377 1237 LKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLR 1316 (1605)
Q Consensus 1237 L~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLr 1316 (1605)
+..+.....+++|||.-. ++-.+.. ++..
T Consensus 295 ~~~l~~~q~l~~SATl~~----~v~~l~~---------------~~~~-------------------------------- 323 (518)
T PLN00206 295 FQALSQPQVLLFSATVSP----EVEKFAS---------------SLAK-------------------------------- 323 (518)
T ss_pred HHhCCCCcEEEEEeeCCH----HHHHHHH---------------HhCC--------------------------------
Confidence 555666778999999621 1111111 1100
Q ss_pred HHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhc
Q 000377 1317 PFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTL 1396 (1605)
Q Consensus 1317 PFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~ 1396 (1605)
.. ..+.+.-. .. .... + +....
T Consensus 324 ----------------~~--~~i~~~~~-----------------~~-~~~~-------v-----~q~~~---------- 345 (518)
T PLN00206 324 ----------------DI--ILISIGNP-----------------NR-PNKA-------V-----KQLAI---------- 345 (518)
T ss_pred ----------------CC--EEEEeCCC-----------------CC-CCcc-------e-----eEEEE----------
Confidence 00 00000000 00 0000 0 00000
Q ss_pred CCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh-cCceEEEEeCCCCHHHHHHHHHHHhCC
Q 000377 1397 IPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF-KQYRYLRLDGHTSGGDRGALIDKFNQQ 1475 (1605)
Q Consensus 1397 i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~-~GikylrLdGsts~eERqeiId~FN~g 1475 (1605)
.+....|...|.++|........++|||++....++.|...|.. .|+++..++|+++.++|..+++.|+++
T Consensus 346 --------~~~~~~k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G 417 (518)
T PLN00206 346 --------WVETKQKKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVG 417 (518)
T ss_pred --------eccchhHHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCC
Confidence 00112255666777766555556899999999999999999975 699999999999999999999999998
Q ss_pred CCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1476 DSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1476 ds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
... +|++|+++++|||++.+++||+||+|.++..|.|++||++|.|.. -.++.|++.+
T Consensus 418 ~~~---ILVaTdvl~rGiDip~v~~VI~~d~P~s~~~yihRiGRaGR~g~~--G~ai~f~~~~ 475 (518)
T PLN00206 418 EVP---VIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEK--GTAIVFVNEE 475 (518)
T ss_pred CCC---EEEEecHhhccCCcccCCEEEEeCCCCCHHHHHHhccccccCCCC--eEEEEEEchh
Confidence 876 799999999999999999999999999999999999999999964 4455566554
No 35
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.93 E-value=1.7e-24 Score=261.67 Aligned_cols=317 Identities=15% Similarity=0.201 Sum_probs=215.8
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-------CCCCEEEEecCC-cccchHHHHHH
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-------DRGPFLVVVPSS-VLPGWESEINF 1161 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-------~~gP~LIVvP~S-LL~nW~~Ef~K 1161 (1605)
.+.|.|.+++..++. +.+.|+..+||+|||+.++..+...+.... ....+|||||+. +..||..++..
T Consensus 30 ~pt~iQ~~aip~il~----g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~ 105 (423)
T PRK04837 30 NCTPIQALALPLTLA----GRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEP 105 (423)
T ss_pred CCCHHHHHHHHHHhC----CCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHH
Confidence 678999999987765 788999999999999988765554332211 123489999998 56888888887
Q ss_pred hCC--CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHHH
Q 000377 1162 WAP--RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNADL 1237 (1605)
Q Consensus 1162 waP--~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--KlsraL 1237 (1605)
++. ++.+..+.|........ ......++|+|+|++.+........+...++.+|||||||++..... .+...+
T Consensus 106 l~~~~~~~v~~~~gg~~~~~~~---~~l~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~lViDEad~l~~~~f~~~i~~i~ 182 (423)
T PRK04837 106 LAQATGLKLGLAYGGDGYDKQL---KVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDLGFIKDIRWLF 182 (423)
T ss_pred HhccCCceEEEEECCCCHHHHH---HHhcCCCCEEEECHHHHHHHHHcCCcccccccEEEEecHHHHhhcccHHHHHHHH
Confidence 753 46666666654332221 11235689999999999765544455556788999999999865432 222233
Q ss_pred Hhhhc---cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHH
Q 000377 1238 KHYQS---SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQV 1314 (1605)
Q Consensus 1238 ~~L~a---~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kv 1314 (1605)
..+.. ...+++|||.-. .+.++ . ..++..
T Consensus 183 ~~~~~~~~~~~~l~SAT~~~-~~~~~---~--------------~~~~~~------------------------------ 214 (423)
T PRK04837 183 RRMPPANQRLNMLFSATLSY-RVREL---A--------------FEHMNN------------------------------ 214 (423)
T ss_pred HhCCCccceeEEEEeccCCH-HHHHH---H--------------HHHCCC------------------------------
Confidence 33322 234788888621 11110 0 000000
Q ss_pred hhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhh
Q 000377 1315 LRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVD 1394 (1605)
Q Consensus 1315 LrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid 1394 (1605)
|. ...+. ... ..... + .+.++.
T Consensus 215 -----------------p~--~i~v~-~~~-------------------~~~~~-------i----~~~~~~-------- 236 (423)
T PRK04837 215 -----------------PE--YVEVE-PEQ-------------------KTGHR-------I----KEELFY-------- 236 (423)
T ss_pred -----------------CE--EEEEc-CCC-------------------cCCCc-------e----eEEEEe--------
Confidence 00 00000 000 00000 0 000000
Q ss_pred hcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhC
Q 000377 1395 TLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQ 1474 (1605)
Q Consensus 1395 ~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~ 1474 (1605)
.....|+..|..++.. ....++||||+....++.+...|...|+++..++|.++.++|..+++.|+.
T Consensus 237 -----------~~~~~k~~~l~~ll~~--~~~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~ 303 (423)
T PRK04837 237 -----------PSNEEKMRLLQTLIEE--EWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTR 303 (423)
T ss_pred -----------CCHHHHHHHHHHHHHh--cCCCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHc
Confidence 0012356666666654 245799999999999999999999999999999999999999999999999
Q ss_pred CCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeC
Q 000377 1475 QDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1475 gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
++.. +|++|+++++|||++.+++||+||+|+++..|.|++||++|.|+.- .++.|++.
T Consensus 304 g~~~---vLVaTdv~~rGiDip~v~~VI~~d~P~s~~~yiqR~GR~gR~G~~G--~ai~~~~~ 361 (423)
T PRK04837 304 GDLD---ILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASG--HSISLACE 361 (423)
T ss_pred CCCc---EEEEechhhcCCCccccCEEEEeCCCCchhheEeccccccCCCCCe--eEEEEeCH
Confidence 8876 8999999999999999999999999999999999999999999664 34555554
No 36
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.92 E-value=5.7e-24 Score=266.01 Aligned_cols=318 Identities=15% Similarity=0.234 Sum_probs=214.9
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-------CCCCEEEEecCC-cccchHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-------DRGPFLVVVPSS-VLPGWESEIN 1160 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-------~~gP~LIVvP~S-LL~nW~~Ef~ 1160 (1605)
..+.|.|.+++..++. +.+.|+..+||+|||+.++..+...+.... ....+|||||+. |..|+..++.
T Consensus 30 ~~ptpiQ~~~ip~~l~----G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~ 105 (572)
T PRK04537 30 TRCTPIQALTLPVALP----GGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAV 105 (572)
T ss_pred CCCCHHHHHHHHHHhC----CCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHH
Confidence 3688999999998775 788999999999999988766554432211 124589999997 5688988898
Q ss_pred HhCCC--ceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCC-cccccCccEEEEecCccccCccc--hHHH
Q 000377 1161 FWAPR--IHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRP-KLSKIQWHYIIIDEGHRIKNASC--KLNA 1235 (1605)
Q Consensus 1161 KwaP~--l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~-~L~ki~wd~VIIDEAHriKN~~S--Klsr 1235 (1605)
+|... +.+..++|........ ......++|+|+|++.|....... .+......+|||||||++..... .+..
T Consensus 106 ~l~~~~~i~v~~l~Gg~~~~~q~---~~l~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lViDEAh~lld~gf~~~i~~ 182 (572)
T PRK04537 106 KFGADLGLRFALVYGGVDYDKQR---ELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIKDIRF 182 (572)
T ss_pred HHhccCCceEEEEECCCCHHHHH---HHHhCCCCEEEECHHHHHHHHHhccccchhheeeeEecCHHHHhhcchHHHHHH
Confidence 88753 5566666654332211 122356899999999987643322 23344567899999999865322 2223
Q ss_pred HHHhhh---ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHH
Q 000377 1236 DLKHYQ---SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLH 1312 (1605)
Q Consensus 1236 aL~~L~---a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~ 1312 (1605)
.+..+. ....+++|||.-. ++..+.. .++..|......
T Consensus 183 il~~lp~~~~~q~ll~SATl~~----~v~~l~~--------------~~l~~p~~i~v~--------------------- 223 (572)
T PRK04537 183 LLRRMPERGTRQTLLFSATLSH----RVLELAY--------------EHMNEPEKLVVE--------------------- 223 (572)
T ss_pred HHHhcccccCceEEEEeCCccH----HHHHHHH--------------HHhcCCcEEEec---------------------
Confidence 333333 3456889999521 1111110 001110000000
Q ss_pred HHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhh
Q 000377 1313 QVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEE 1392 (1605)
Q Consensus 1313 kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~ee 1392 (1605)
.....+....+.+ .+
T Consensus 224 --------------~~~~~~~~i~q~~---------------------------------------------~~------ 238 (572)
T PRK04537 224 --------------TETITAARVRQRI---------------------------------------------YF------ 238 (572)
T ss_pred --------------cccccccceeEEE---------------------------------------------Ee------
Confidence 0000000000000 00
Q ss_pred hhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHH
Q 000377 1393 VDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKF 1472 (1605)
Q Consensus 1393 id~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~F 1472 (1605)
.....|+.+|..++.. ..+.++||||+....++.|.++|...++.+..|+|.++..+|.++++.|
T Consensus 239 -------------~~~~~k~~~L~~ll~~--~~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~F 303 (572)
T PRK04537 239 -------------PADEEKQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRF 303 (572)
T ss_pred -------------cCHHHHHHHHHHHHhc--ccCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHH
Confidence 0011245556666543 3567999999999999999999999999999999999999999999999
Q ss_pred hCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeC
Q 000377 1473 NQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1473 N~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
+++... +||+|+++++|||++.+++||+||.||++..|.|++||++|.|.+-.+ +.|++.
T Consensus 304 r~G~~~---VLVaTdv~arGIDip~V~~VInyd~P~s~~~yvqRiGRaGR~G~~G~a--i~~~~~ 363 (572)
T PRK04537 304 QKGQLE---ILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDA--ISFACE 363 (572)
T ss_pred HcCCCe---EEEEehhhhcCCCccCCCEEEEcCCCCCHHHHhhhhcccccCCCCceE--EEEecH
Confidence 988766 899999999999999999999999999999999999999999976544 344543
No 37
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.92 E-value=6.6e-23 Score=258.49 Aligned_cols=312 Identities=14% Similarity=0.189 Sum_probs=217.6
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhC---C
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWA---P 1164 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~Kwa---P 1164 (1605)
.++.|+|.+++..++. +.+.|+..+||+|||.+++..+...+........+|||||+. |..||..++.+|. +
T Consensus 27 ~~ptpiQ~~ai~~ll~----g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~~~~ 102 (629)
T PRK11634 27 EKPSPIQAECIPHLLN----GRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSKHMR 102 (629)
T ss_pred CCCCHHHHHHHHHHHc----CCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHhhcC
Confidence 4689999999988775 678999999999999987655544443333333589999997 5688988887764 5
Q ss_pred CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHHHHhhhc
Q 000377 1165 RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNADLKHYQS 1242 (1605)
Q Consensus 1165 ~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--KlsraL~~L~a 1242 (1605)
.+.++.++|.......+. ......+|||+|++.+........+.-..+.+|||||||.|.+... .+..++..+..
T Consensus 103 ~i~v~~~~gG~~~~~q~~---~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ml~~gf~~di~~Il~~lp~ 179 (629)
T PRK11634 103 GVNVVALYGGQRYDVQLR---ALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPE 179 (629)
T ss_pred CceEEEEECCcCHHHHHH---HhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHHhhcccHHHHHHHHHhCCC
Confidence 677777666654332221 1235689999999999865555555555678899999999865442 33444455543
Q ss_pred -cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHH
Q 000377 1243 -SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLR 1321 (1605)
Q Consensus 1243 -~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLR 1321 (1605)
...+++|||.-. .+. .+. ..|
T Consensus 180 ~~q~llfSAT~p~-~i~---~i~---------------~~~--------------------------------------- 201 (629)
T PRK11634 180 GHQTALFSATMPE-AIR---RIT---------------RRF--------------------------------------- 201 (629)
T ss_pred CCeEEEEEccCCh-hHH---HHH---------------HHH---------------------------------------
Confidence 345888999510 000 000 000
Q ss_pred HhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCC
Q 000377 1322 RLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHY 1401 (1605)
Q Consensus 1322 RtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~ 1401 (1605)
+.......+..... ... ...+.|+
T Consensus 202 ---------l~~~~~i~i~~~~~-----------------~~~--------------~i~q~~~---------------- 225 (629)
T PRK11634 202 ---------MKEPQEVRIQSSVT-----------------TRP--------------DISQSYW---------------- 225 (629)
T ss_pred ---------cCCCeEEEccCccc-----------------cCC--------------ceEEEEE----------------
Confidence 00000000000000 000 0000010
Q ss_pred CChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEE
Q 000377 1402 LPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFI 1481 (1605)
Q Consensus 1402 ~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~V 1481 (1605)
.+....|.+.|.++|.. ....++||||.....++.|...|...|+....++|.+++.+|..++++|+.+...
T Consensus 226 ---~v~~~~k~~~L~~~L~~--~~~~~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~--- 297 (629)
T PRK11634 226 ---TVWGMRKNEALVRFLEA--EDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLD--- 297 (629)
T ss_pred ---EechhhHHHHHHHHHHh--cCCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCCCC---
Confidence 00112367777777764 2346899999999999999999999999999999999999999999999988776
Q ss_pred EEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcE
Q 000377 1482 FLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1482 fLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV 1529 (1605)
+||+|+++++|||++.+++||+||+|.++..|.|++||++|.|..-.+
T Consensus 298 ILVATdv~arGIDip~V~~VI~~d~P~~~e~yvqRiGRtGRaGr~G~a 345 (629)
T PRK11634 298 ILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRA 345 (629)
T ss_pred EEEEcchHhcCCCcccCCEEEEeCCCCCHHHHHHHhccccCCCCcceE
Confidence 899999999999999999999999999999999999999999975443
No 38
>PTZ00424 helicase 45; Provisional
Probab=99.92 E-value=8.4e-24 Score=252.55 Aligned_cols=320 Identities=17% Similarity=0.258 Sum_probs=214.3
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCC--C
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAP--R 1165 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP--~ 1165 (1605)
..+.|+|.+++..++. +.+.|+..+||+|||++++..+...+........+|||+|+. +..||...+..++. .
T Consensus 49 ~~~~~~Q~~ai~~i~~----~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~ 124 (401)
T PTZ00424 49 EKPSAIQQRGIKPILD----GYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYLK 124 (401)
T ss_pred CCCCHHHHHHHHHHhC----CCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHHhhhcC
Confidence 3689999999988775 778999999999999988766655554333445689999987 45667776766653 3
Q ss_pred ceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCcc--chHHHHHHhhh-c
Q 000377 1166 IHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNAS--CKLNADLKHYQ-S 1242 (1605)
Q Consensus 1166 l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~--SKlsraL~~L~-a 1242 (1605)
+.+....|....+... . ......+|+|+|++.+........+..-++++|||||||++.... ..+...++.+. .
T Consensus 125 ~~~~~~~g~~~~~~~~--~-~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~~~~~~~~~~~~i~~~~~~~ 201 (401)
T PTZ00424 125 VRCHACVGGTVVRDDI--N-KLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPD 201 (401)
T ss_pred ceEEEEECCcCHHHHH--H-HHcCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHHHHhcchHHHHHHHHhhCCCC
Confidence 4444455554333221 1 112457999999998865444334445567899999999986533 23444555553 3
Q ss_pred cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHH
Q 000377 1243 SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRR 1322 (1605)
Q Consensus 1243 ~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRR 1322 (1605)
...+++|||+-. ++.. +...|..
T Consensus 202 ~~~i~~SAT~~~----~~~~---------------~~~~~~~-------------------------------------- 224 (401)
T PTZ00424 202 VQVALFSATMPN----EILE---------------LTTKFMR-------------------------------------- 224 (401)
T ss_pred cEEEEEEecCCH----HHHH---------------HHHHHcC--------------------------------------
Confidence 457899999621 1100 0000000
Q ss_pred hhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCC
Q 000377 1323 LKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYL 1402 (1605)
Q Consensus 1323 tKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~ 1402 (1605)
-|. ...+. -.. .... .+++ -+.. ..
T Consensus 225 --------~~~--~~~~~--~~~---------------~~~~----------~~~~----~~~~-~~------------- 249 (401)
T PTZ00424 225 --------DPK--RILVK--KDE---------------LTLE----------GIRQ----FYVA-VE------------- 249 (401)
T ss_pred --------CCE--EEEeC--CCC---------------cccC----------CceE----EEEe-cC-------------
Confidence 000 00000 000 0000 0000 0000 00
Q ss_pred ChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEE
Q 000377 1403 PPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIF 1482 (1605)
Q Consensus 1403 ~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~Vf 1482 (1605)
...-+...+..++... ...++||||.....++.+...|...++.+..++|+++.++|..+++.|+.+... +
T Consensus 250 ----~~~~~~~~l~~~~~~~--~~~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~~~---v 320 (401)
T PTZ00424 250 ----KEEWKFDTLCDLYETL--TITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTR---V 320 (401)
T ss_pred ----hHHHHHHHHHHHHHhc--CCCeEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCCCC---E
Confidence 0011334444444432 357899999999999999999999999999999999999999999999988776 7
Q ss_pred EEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1483 LLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1483 LLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
|++|.++++|||++.+++||+||++.++..|.|++||++|.|.. -.++.|++.+
T Consensus 321 LvaT~~l~~GiDip~v~~VI~~~~p~s~~~y~qr~GRagR~g~~--G~~i~l~~~~ 374 (401)
T PTZ00424 321 LITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRK--GVAINFVTPD 374 (401)
T ss_pred EEEcccccCCcCcccCCEEEEECCCCCHHHEeecccccccCCCC--ceEEEEEcHH
Confidence 99999999999999999999999999999999999999998854 4556667655
No 39
>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=99.92 E-value=8.4e-24 Score=265.78 Aligned_cols=305 Identities=17% Similarity=0.198 Sum_probs=216.6
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~ 1167 (1605)
.++||+|.+++..++. +.+++++.+||.|||+.+...+. + ..+..|||+|+. ++.++...+... ++.
T Consensus 12 ~~fr~~Q~~~i~~il~----g~dvlv~~PTG~GKTl~y~lpal--~----~~g~~lVisPl~sL~~dq~~~l~~~--gi~ 79 (591)
T TIGR01389 12 DDFRPGQEEIISHVLD----GRDVLVVMPTGGGKSLCYQVPAL--L----LKGLTVVISPLISLMKDQVDQLRAA--GVA 79 (591)
T ss_pred CCCCHHHHHHHHHHHc----CCCEEEEcCCCccHhHHHHHHHH--H----cCCcEEEEcCCHHHHHHHHHHHHHc--CCc
Confidence 4799999999987775 77899999999999998754332 2 135689999986 667788888775 355
Q ss_pred EEEEcCChh--HHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc-------hHHHHHH
Q 000377 1168 KIVYCGPPE--ERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC-------KLNADLK 1238 (1605)
Q Consensus 1168 vivy~Gs~~--~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S-------KlsraL~ 1238 (1605)
+..+++... +...++ ..+..+..+++++|++.+........+...+..+|||||||++..+.. ++.....
T Consensus 80 ~~~~~s~~~~~~~~~~~-~~l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~~~g~~frp~y~~l~~l~~ 158 (591)
T TIGR01389 80 AAYLNSTLSAKEQQDIE-KALVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRLGSLAE 158 (591)
T ss_pred EEEEeCCCCHHHHHHHH-HHHhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCcccccccCccHHHHHHHHHHHH
Confidence 555555432 222222 234457889999999998653333345667889999999999865332 2223333
Q ss_pred hhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHH
Q 000377 1239 HYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPF 1318 (1605)
Q Consensus 1239 ~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPF 1318 (1605)
.+....+++||||+-.....+++..+.+-.+..+.. .|
T Consensus 159 ~~~~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~------~~------------------------------------ 196 (591)
T TIGR01389 159 RFPQVPRIALTATADAETRQDIRELLRLADANEFIT------SF------------------------------------ 196 (591)
T ss_pred hCCCCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEec------CC------------------------------------
Confidence 444556899999986554444444333222111100 00
Q ss_pred HHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCC
Q 000377 1319 VLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIP 1398 (1605)
Q Consensus 1319 lLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~ 1398 (1605)
..|.....++
T Consensus 197 -----------~r~nl~~~v~----------------------------------------------------------- 206 (591)
T TIGR01389 197 -----------DRPNLRFSVV----------------------------------------------------------- 206 (591)
T ss_pred -----------CCCCcEEEEE-----------------------------------------------------------
Confidence 0000000000
Q ss_pred CCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCC
Q 000377 1399 KHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSP 1478 (1605)
Q Consensus 1399 ~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~ 1478 (1605)
....+...+.++|... .+.++||||......+.+.++|...|+++..++|+++.++|..+++.|..+...
T Consensus 207 --------~~~~~~~~l~~~l~~~--~~~~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~~~ 276 (591)
T TIGR01389 207 --------KKNNKQKFLLDYLKKH--RGQSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVK 276 (591)
T ss_pred --------eCCCHHHHHHHHHHhc--CCCCEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCCCc
Confidence 0011333444444432 267899999999999999999999999999999999999999999999888765
Q ss_pred eEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEE
Q 000377 1479 FFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLV 1531 (1605)
Q Consensus 1479 ~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~V 1531 (1605)
+|++|.++|+|||++++++||+||+|+|...|.|++||++|.|....+.+
T Consensus 277 ---vlVaT~a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRaGR~G~~~~~il 326 (591)
T TIGR01389 277 ---VMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAIL 326 (591)
T ss_pred ---EEEEechhhccCcCCCCCEEEEcCCCCCHHHHhhhhccccCCCCCceEEE
Confidence 89999999999999999999999999999999999999999997666543
No 40
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.92 E-value=1.1e-23 Score=265.17 Aligned_cols=305 Identities=18% Similarity=0.168 Sum_probs=211.9
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~ 1167 (1605)
-+++|+|.+++..++. +.++|+..+||+|||++++..+. .. .+.+|||+|+. ++.+|...+.... +.
T Consensus 24 ~~~r~~Q~~ai~~il~----g~dvlv~apTGsGKTl~y~lpal--~~----~g~tlVisPl~sL~~dqv~~l~~~g--i~ 91 (607)
T PRK11057 24 QQFRPGQQEIIDAVLS----GRDCLVVMPTGGGKSLCYQIPAL--VL----DGLTLVVSPLISLMKDQVDQLLANG--VA 91 (607)
T ss_pred CCCCHHHHHHHHHHHc----CCCEEEEcCCCchHHHHHHHHHH--Hc----CCCEEEEecHHHHHHHHHHHHHHcC--Cc
Confidence 3799999999987765 78899999999999987754333 11 35689999986 5677888887653 44
Q ss_pred EEEEcCChh--HHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc---hHHHHH----H
Q 000377 1168 KIVYCGPPE--ERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC---KLNADL----K 1238 (1605)
Q Consensus 1168 vivy~Gs~~--~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S---KlsraL----~ 1238 (1605)
...+.+... .....+ .....+..+++++|++.+........+...++.+|||||||++..+.. ..++.+ .
T Consensus 92 ~~~~~s~~~~~~~~~~~-~~~~~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~~G~~fr~~y~~L~~l~~ 170 (607)
T PRK11057 92 AACLNSTQTREQQLEVM-AGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWGHDFRPEYAALGQLRQ 170 (607)
T ss_pred EEEEcCCCCHHHHHHHH-HHHhCCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCccccccccCcccHHHHHHHHHHH
Confidence 444444432 222222 233456789999999988753222345556789999999999875432 122223 2
Q ss_pred hhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHH
Q 000377 1239 HYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPF 1318 (1605)
Q Consensus 1239 ~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPF 1318 (1605)
.+.....++||||+-.....++...+.+-.|.++.. .|.
T Consensus 171 ~~p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~------~~~----------------------------------- 209 (607)
T PRK11057 171 RFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQIS------SFD----------------------------------- 209 (607)
T ss_pred hCCCCcEEEEecCCChhHHHHHHHHhCCCCeEEEEC------CCC-----------------------------------
Confidence 334566799999986554445544443322211100 000
Q ss_pred HHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCC
Q 000377 1319 VLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIP 1398 (1605)
Q Consensus 1319 lLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~ 1398 (1605)
.|.....++
T Consensus 210 ------------r~nl~~~v~----------------------------------------------------------- 218 (607)
T PRK11057 210 ------------RPNIRYTLV----------------------------------------------------------- 218 (607)
T ss_pred ------------CCcceeeee-----------------------------------------------------------
Confidence 000000000
Q ss_pred CCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCC
Q 000377 1399 KHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSP 1478 (1605)
Q Consensus 1399 ~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~ 1478 (1605)
....+...|..++.. ..+.++||||.....++.+...|...|+.+..++|+++.++|.++++.|..++..
T Consensus 219 --------~~~~~~~~l~~~l~~--~~~~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~ 288 (607)
T PRK11057 219 --------EKFKPLDQLMRYVQE--QRGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQ 288 (607)
T ss_pred --------eccchHHHHHHHHHh--cCCCCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCCCCC
Confidence 000012223333332 3567999999999999999999999999999999999999999999999888766
Q ss_pred eEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEE
Q 000377 1479 FFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLV 1531 (1605)
Q Consensus 1479 ~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~V 1531 (1605)
+|++|.++++|||++++++||+||+|++...|.|++||++|.|....+.+
T Consensus 289 ---VLVaT~a~~~GIDip~V~~VI~~d~P~s~~~y~Qr~GRaGR~G~~~~~il 338 (607)
T PRK11057 289 ---IVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAML 338 (607)
T ss_pred ---EEEEechhhccCCCCCcCEEEEeCCCCCHHHHHHHhhhccCCCCCceEEE
Confidence 78999999999999999999999999999999999999999997665443
No 41
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.92 E-value=1.8e-23 Score=252.83 Aligned_cols=312 Identities=21% Similarity=0.341 Sum_probs=224.5
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHh-----cCCCCC-EEEEecCCc-ccchHHHHHHh
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMET-----KNDRGP-FLVVVPSSV-LPGWESEINFW 1162 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~-----k~~~gP-~LIVvP~SL-L~nW~~Ef~Kw 1162 (1605)
.+.|-|..+...++. +.++|....+|+|||+..+--+...+.. ....+| +||++|+.- ..|...++.++
T Consensus 113 ~PtpIQaq~wp~~l~----GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 113 KPTPIQAQGWPIALS----GRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred CCchhhhcccceecc----CCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 677889888887777 8899999999999998876544333332 122245 899999985 56788888888
Q ss_pred CCCce--E-EEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC--ccchHHHHH
Q 000377 1163 APRIH--K-IVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN--ASCKLNADL 1237 (1605)
Q Consensus 1163 aP~l~--v-ivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN--~~SKlsraL 1237 (1605)
..... . ++|.|.+. ..++.. .....+|+|+|+..+....+...+.--+..|+|+|||.+|.. ...+..+++
T Consensus 189 ~~~~~~~~~cvyGG~~~-~~Q~~~---l~~gvdiviaTPGRl~d~le~g~~~l~~v~ylVLDEADrMldmGFe~qI~~Il 264 (519)
T KOG0331|consen 189 GKSLRLRSTCVYGGAPK-GPQLRD---LERGVDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEADRMLDMGFEPQIRKIL 264 (519)
T ss_pred cCCCCccEEEEeCCCCc-cHHHHH---HhcCCcEEEeCChHHHHHHHcCCccccceeEEEeccHHhhhccccHHHHHHHH
Confidence 86543 4 45555543 332221 236789999999999987777777777889999999999966 444566666
Q ss_pred Hhh-hccc-eecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHh
Q 000377 1238 KHY-QSSH-RLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVL 1315 (1605)
Q Consensus 1238 ~~L-~a~~-RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvL 1315 (1605)
..+ .+.+ .|+-|||=- .+ .+.+-
T Consensus 265 ~~i~~~~rQtlm~saTwp----~~---------------------------------------------------v~~lA 289 (519)
T KOG0331|consen 265 SQIPRPDRQTLMFSATWP----KE---------------------------------------------------VRQLA 289 (519)
T ss_pred HhcCCCcccEEEEeeecc----HH---------------------------------------------------HHHHH
Confidence 666 3332 466666620 00 11111
Q ss_pred hHHHHHHhhhhHhhcCccceEEEEEe-cccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhh
Q 000377 1316 RPFVLRRLKHKVENELPEKIERLVRC-EASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVD 1394 (1605)
Q Consensus 1316 rPFlLRRtKkdVe~eLP~K~E~vI~~-eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid 1394 (1605)
.+|+ . .|-.+. +... .+. ....+.++-..|
T Consensus 290 ~~fl---------~-~~~~i~-ig~~~~~~------------------------a~~~i~qive~~-------------- 320 (519)
T KOG0331|consen 290 EDFL---------N-NPIQIN-VGNKKELK------------------------ANHNIRQIVEVC-------------- 320 (519)
T ss_pred HHHh---------c-CceEEE-ecchhhhh------------------------hhcchhhhhhhc--------------
Confidence 1111 1 111111 1100 000 011111111112
Q ss_pred hcCCCCCCChhhhhccHHHHHHHHHHHhh-cCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 000377 1395 TLIPKHYLPPIVRLCGKLEMLDRLLPKLK-ATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFN 1473 (1605)
Q Consensus 1395 ~~i~~~~~~~lvr~SgKle~L~~LL~kL~-a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN 1473 (1605)
...+|...|..+|.++. ..+.||||||+....++.|...|...+++.+.|||..++.+|+.+++.|+
T Consensus 321 ------------~~~~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~Fr 388 (519)
T KOG0331|consen 321 ------------DETAKLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFR 388 (519)
T ss_pred ------------CHHHHHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcc
Confidence 12458888889998876 45679999999999999999999999999999999999999999999999
Q ss_pred CCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCc
Q 000377 1474 QQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRD 1528 (1605)
Q Consensus 1474 ~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKe 1528 (1605)
+++.+ +|++|+++++|||+...|+||+||+|-|...|++|+||.+|.|++=.
T Consensus 389 eG~~~---vLVATdVAaRGLDi~dV~lVInydfP~~vEdYVHRiGRTGRa~~~G~ 440 (519)
T KOG0331|consen 389 EGKSP---VLVATDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGT 440 (519)
T ss_pred cCCcc---eEEEcccccccCCCccccEEEeCCCCCCHHHHHhhcCccccCCCCce
Confidence 99887 89999999999999999999999999999999999999999777643
No 42
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.90 E-value=2e-22 Score=231.45 Aligned_cols=321 Identities=20% Similarity=0.231 Sum_probs=231.1
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhCC--Cc
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWAP--RI 1166 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~KwaP--~l 1166 (1605)
.+.+.|.+++-.++. +..+|.+.+||+|||...+..|...+...+..-.+||++|+.-+ .|....|+.... ++
T Consensus 83 ~PT~IQ~~aiP~~L~----g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~igl 158 (476)
T KOG0330|consen 83 KPTKIQSEAIPVALG----GRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGIGL 158 (476)
T ss_pred CCchhhhhhcchhhC----CCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhccccCe
Confidence 455669999988776 88899999999999998876665544443333447999999966 555666777643 67
Q ss_pred eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccC-CCcccccCccEEEEecCccccCcc--chHHHHHHhhhcc
Q 000377 1167 HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHD-RPKLSKIQWHYIIIDEGHRIKNAS--CKLNADLKHYQSS 1243 (1605)
Q Consensus 1167 ~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D-~~~L~ki~wd~VIIDEAHriKN~~--SKlsraL~~L~a~ 1243 (1605)
++.++.|..+....... ...+++|+|.|+..++++.. ...+.--...++|+|||+++.|.+ ..+..+|+.++..
T Consensus 159 r~~~lvGG~~m~~q~~~---L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADrlLd~dF~~~ld~ILk~ip~e 235 (476)
T KOG0330|consen 159 RVAVLVGGMDMMLQANQ---LSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLLDMDFEEELDYILKVIPRE 235 (476)
T ss_pred EEEEEecCchHHHHHHH---hhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchHHhhhhhhhHHHHHHHHHhcCcc
Confidence 88888888876654322 23678999999999998665 233444456789999999998744 3556666666554
Q ss_pred ce-ecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHH
Q 000377 1244 HR-LLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRR 1322 (1605)
Q Consensus 1244 ~R-LLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRR 1322 (1605)
++ ++.|||-- .+..+| ... .
T Consensus 236 rqt~LfsATMt-~kv~kL---------------------------------------------------~ra----s--- 256 (476)
T KOG0330|consen 236 RQTFLFSATMT-KKVRKL---------------------------------------------------QRA----S--- 256 (476)
T ss_pred ceEEEEEeecc-hhhHHH---------------------------------------------------Hhh----c---
Confidence 43 66677731 111111 000 0
Q ss_pred hhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCC
Q 000377 1323 LKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYL 1402 (1605)
Q Consensus 1323 tKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~ 1402 (1605)
+ .-| +.|..+. .|. ++..|.|. ||+-
T Consensus 257 ----l--~~p------~~v~~s~----ky~-------------------tv~~lkQ~----ylfv--------------- 282 (476)
T KOG0330|consen 257 ----L--DNP------VKVAVSS----KYQ-------------------TVDHLKQT----YLFV--------------- 282 (476)
T ss_pred ----c--CCC------eEEeccc----hhc-------------------chHHhhhh----eEec---------------
Confidence 0 001 1111110 111 11112111 2221
Q ss_pred ChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEE
Q 000377 1403 PPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIF 1482 (1605)
Q Consensus 1403 ~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~Vf 1482 (1605)
...-|-.+|+.+|.++. |..+||||......+.+.-+|+..|+..+.|+|.|++..|..+++.|+++..+ +
T Consensus 283 ----~~k~K~~yLV~ll~e~~--g~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~---i 353 (476)
T KOG0330|consen 283 ----PGKDKDTYLVYLLNELA--GNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARS---I 353 (476)
T ss_pred ----cccccchhHHHHHHhhc--CCcEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccCCc---E
Confidence 11225677888888654 58999999999999999999999999999999999999999999999988777 8
Q ss_pred EEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHH
Q 000377 1483 LLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVE 1541 (1605)
Q Consensus 1483 LLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIE 1541 (1605)
|+||+++++|||++.+|.||+||.|-+...|++|.||+.|.| +.-.++.||+..-||
T Consensus 354 Lv~TDVaSRGLDip~Vd~VVNyDiP~~skDYIHRvGRtaRaG--rsG~~ItlVtqyDve 410 (476)
T KOG0330|consen 354 LVCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAG--RSGKAITLVTQYDVE 410 (476)
T ss_pred EEecchhcccCCCCCceEEEecCCCCcHHHHHHHcccccccC--CCcceEEEEehhhhH
Confidence 999999999999999999999999999999999999999999 667788899985444
No 43
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.89 E-value=6.8e-22 Score=254.12 Aligned_cols=310 Identities=18% Similarity=0.152 Sum_probs=208.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~ 1167 (1605)
..+||+|.++|..++. +.++|+..+||.|||+.+...+.. ..+.+|||+|+. |+.++...+... ++.
T Consensus 459 ~sFRp~Q~eaI~aiL~----GrDVLVimPTGSGKSLcYQLPAL~------~~GiTLVISPLiSLmqDQV~~L~~~--GI~ 526 (1195)
T PLN03137 459 HSFRPNQREIINATMS----GYDVFVLMPTGGGKSLTYQLPALI------CPGITLVISPLVSLIQDQIMNLLQA--NIP 526 (1195)
T ss_pred CCCCHHHHHHHHHHHc----CCCEEEEcCCCccHHHHHHHHHHH------cCCcEEEEeCHHHHHHHHHHHHHhC--CCe
Confidence 5799999999998876 889999999999999887544432 135689999986 555455555443 455
Q ss_pred EEEEcCChh--HHHHHHHhh-hhcCCccEEEEcHHHHhhccC-CCcc----cccCccEEEEecCccccCccch---HHHH
Q 000377 1168 KIVYCGPPE--ERRRLFKEK-IVHQKFNVLLTTYEYLMNKHD-RPKL----SKIQWHYIIIDEGHRIKNASCK---LNAD 1236 (1605)
Q Consensus 1168 vivy~Gs~~--~R~~l~~~~-i~~~~fdVVITTYe~L~k~~D-~~~L----~ki~wd~VIIDEAHriKN~~SK---lsra 1236 (1605)
...+.+... +...++... ...+.++|+++|++.+..... ...+ ......+|||||||++..+... -++.
T Consensus 527 Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~LslIVIDEAHcVSqWGhDFRpdYr~ 606 (1195)
T PLN03137 527 AASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLARFVIDEAHCVSQWGHDFRPDYQG 606 (1195)
T ss_pred EEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcchHHHHHHHhhhhccccceeccCcchhhhhcccchHHHHHH
Confidence 555544432 222332221 122678999999998853110 0111 1223688999999998764421 1222
Q ss_pred ---H-HhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHH
Q 000377 1237 ---L-KHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLH 1312 (1605)
Q Consensus 1237 ---L-~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~ 1312 (1605)
+ ..+....+++||||.-.....++...|.+..+.+|. ..|..
T Consensus 607 L~~Lr~~fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr------~Sf~R---------------------------- 652 (1195)
T PLN03137 607 LGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFR------QSFNR---------------------------- 652 (1195)
T ss_pred HHHHHHhCCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEee------cccCc----------------------------
Confidence 2 234556779999998665555555544332222110 00000
Q ss_pred HHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhh
Q 000377 1313 QVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEE 1392 (1605)
Q Consensus 1313 kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~ee 1392 (1605)
|.....++. -.
T Consensus 653 -------------------pNL~y~Vv~--k~------------------------------------------------ 663 (1195)
T PLN03137 653 -------------------PNLWYSVVP--KT------------------------------------------------ 663 (1195)
T ss_pred -------------------cceEEEEec--cc------------------------------------------------
Confidence 100000000 00
Q ss_pred hhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHH
Q 000377 1393 VDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKF 1472 (1605)
Q Consensus 1393 id~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~F 1472 (1605)
...++.|.+++... ..+...||||.....++.+..+|...|++...++|+++.++|..++++|
T Consensus 664 ----------------kk~le~L~~~I~~~-~~~esgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F 726 (1195)
T PLN03137 664 ----------------KKCLEDIDKFIKEN-HFDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQW 726 (1195)
T ss_pred ----------------hhHHHHHHHHHHhc-ccCCCceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHH
Confidence 00011222222211 1245789999999999999999999999999999999999999999999
Q ss_pred hCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEE
Q 000377 1473 NQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLR 1533 (1605)
Q Consensus 1473 N~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyR 1533 (1605)
..++.. +|++|.++|+|||++++++||+||+|.+...|.|++|||+|.|..-.+..|+
T Consensus 727 ~~Gei~---VLVATdAFGMGIDkPDVR~VIHydlPkSiEsYyQriGRAGRDG~~g~cILly 784 (1195)
T PLN03137 727 SKDEIN---IICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYY 784 (1195)
T ss_pred hcCCCc---EEEEechhhcCCCccCCcEEEEcCCCCCHHHHHhhhcccCCCCCCceEEEEe
Confidence 988776 7899999999999999999999999999999999999999999887766554
No 44
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.89 E-value=5.1e-22 Score=231.96 Aligned_cols=391 Identities=20% Similarity=0.293 Sum_probs=261.7
Q ss_pred CCCccHHHHHHHHHHHHHhhcC--CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHHHHHhCC
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQ--LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESEINFWAP 1164 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~--~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~Ef~KwaP 1164 (1605)
...+||||.+.|..|.- |+ ..||+..++|.|||++.+..++.. ++.+||+|-.++ +.||+.+|..|..
T Consensus 300 st~iRpYQEksL~KMFG---NgRARSGiIVLPCGAGKtLVGvTAa~ti------kK~clvLcts~VSVeQWkqQfk~wst 370 (776)
T KOG1123|consen 300 STQIRPYQEKSLSKMFG---NGRARSGIIVLPCGAGKTLVGVTAACTI------KKSCLVLCTSAVSVEQWKQQFKQWST 370 (776)
T ss_pred ccccCchHHHHHHHHhC---CCcccCceEEEecCCCCceeeeeeeeee------cccEEEEecCccCHHHHHHHHHhhcc
Confidence 36899999999987753 33 458999999999999988776643 466999999886 7999999999974
Q ss_pred --CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC--------CcccccCccEEEEecCccccCccchHH
Q 000377 1165 --RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR--------PKLSKIQWHYIIIDEGHRIKNASCKLN 1234 (1605)
Q Consensus 1165 --~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~--------~~L~ki~wd~VIIDEAHriKN~~SKls 1234 (1605)
.-.+..|....+++ ......|+||||.++.....+ ..+....|.++|+||+|-+- ..-..
T Consensus 371 i~d~~i~rFTsd~Ke~--------~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvvP--A~MFR 440 (776)
T KOG1123|consen 371 IQDDQICRFTSDAKER--------FPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVVP--AKMFR 440 (776)
T ss_pred cCccceEEeecccccc--------CCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhccch--HHHHH
Confidence 23455555544332 235678999999999643332 24788899999999999973 22233
Q ss_pred HHHHhhhccceecccccCCCCCHHHHHHHHHhh-cCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHH
Q 000377 1235 ADLKHYQSSHRLLLTGTPLQNNLEELWALLNFL-LPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQ 1313 (1605)
Q Consensus 1235 raL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL-~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~k 1313 (1605)
+.+....+...|+||||.+..+ |=..-|||| .|+++.- +|.+.-.
T Consensus 441 RVlsiv~aHcKLGLTATLvRED--dKI~DLNFLIGPKlYEA--nWmdL~~------------------------------ 486 (776)
T KOG1123|consen 441 RVLSIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYEA--NWMDLQK------------------------------ 486 (776)
T ss_pred HHHHHHHHHhhccceeEEeecc--ccccccceeecchhhhc--cHHHHHh------------------------------
Confidence 4445567888999999997653 223334554 5555421 1111000
Q ss_pred HhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhh
Q 000377 1314 VLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEV 1393 (1605)
Q Consensus 1314 vLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eei 1393 (1605)
...+-...---|+|+|++.-...|-+.... . +. |
T Consensus 487 --------------kGhIA~VqCaEVWCpMt~eFy~eYL~~~t~--------k-----------r~-----l-------- 520 (776)
T KOG1123|consen 487 --------------KGHIAKVQCAEVWCPMTPEFYREYLRENTR--------K-----------RM-----L-------- 520 (776)
T ss_pred --------------CCceeEEeeeeeecCCCHHHHHHHHhhhhh--------h-----------hh-----e--------
Confidence 011222234568999998544333321100 0 00 0
Q ss_pred hhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 000377 1394 DTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFN 1473 (1605)
Q Consensus 1394 d~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN 1473 (1605)
..+-...||....-+|......|.|+|||+.....+....-.| |-+| |.|.|++.||-++++.|+
T Consensus 521 ----------LyvMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl---~Kpf--IYG~Tsq~ERm~ILqnFq 585 (776)
T KOG1123|consen 521 ----------LYVMNPNKFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKL---GKPF--IYGPTSQNERMKILQNFQ 585 (776)
T ss_pred ----------eeecCcchhHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHc---CCce--EECCCchhHHHHHHHhcc
Confidence 0111234788878888888889999999999877665544443 4444 679999999999999996
Q ss_pred CCCCCeEEEEEeccccccccCcccCCEEEEEcCCC-ChhhHHHHhhhhcccCCCCc----EEEEEEEeCCCHHHHHHHHH
Q 000377 1474 QQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDW-NPQVDLQAQARAHRIGQKRD----VLVLRFETVQTVEEQVRASA 1548 (1605)
Q Consensus 1474 ~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~W-NP~~d~QAiGRAhRIGQkKe----V~VyRLIt~~TIEEkIlera 1548 (1605)
-. ..+.-+.+| ++|...+||+.|+++|...+.. +-.++.||.||+.|.-...+ +..|.||..+|.|...-..-
T Consensus 586 ~n-~~vNTIFlS-KVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTqEM~YStKR 663 (776)
T KOG1123|consen 586 TN-PKVNTIFLS-KVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQEMYYSTKR 663 (776)
T ss_pred cC-CccceEEEe-eccCccccCCcccEEEEEcccccchHHHHHHHHHHHHHhhcCccccceeeeeeeecchHHHHhhhhh
Confidence 53 345455555 9999999999999999998875 67899999999999664332 88999999999987653221
Q ss_pred HHHHHHHh-----hhhcc--Ccc----CCCCCHHHHHHHHHHHHHHHhhhhcCCCCChH
Q 000377 1549 EHKLGVAN-----QSITA--GFF----DNNTSAEDRREYLESLLRECKKEEAAPVLDDD 1596 (1605)
Q Consensus 1549 ~~Kl~L~~-----kVI~a--G~f----d~~~s~eE~~e~Le~LLee~~~~e~~~v~dDd 1596 (1605)
+. =|++ +||.. |+- -.-.+.+++.++|..+|-........++.+|+
T Consensus 664 Q~--FLidQGYsfkVit~L~gme~~~~l~y~skeeq~~LLq~Vl~a~d~~~e~E~~~~~ 720 (776)
T KOG1123|consen 664 QQ--FLIDQGYSFKVITNLPGMENLEDLAYASKEEQLELLQKVLLASDLDAELEDLEDE 720 (776)
T ss_pred hh--hhhhcCceEEEeecCCCcCcCcccccCCHHHHHHHHHHHHhcchhhhcccccccc
Confidence 11 1222 23321 221 12347889999999998765544444444443
No 45
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.89 E-value=2.8e-21 Score=244.65 Aligned_cols=306 Identities=17% Similarity=0.258 Sum_probs=203.5
Q ss_pred CCccHHHHHHHHHHHHHhhcC--CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHHHHHhCC-
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQ--LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESEINFWAP- 1164 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~--~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~Ef~KwaP- 1164 (1605)
.+|+++|.+++..++.-.... .+.+|..+||+|||++++..+...+.. ...+||++|+.. ..||..++.+|++
T Consensus 234 f~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~---g~qvlilaPT~~LA~Q~~~~~~~l~~~ 310 (630)
T TIGR00643 234 FKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA---GYQVALMAPTEILAEQHYNSLRNLLAP 310 (630)
T ss_pred CCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc---CCcEEEECCHHHHHHHHHHHHHHHhcc
Confidence 579999999999888754332 467999999999999987666555543 345899999985 5889999999987
Q ss_pred -CceEEEEcCChhHHH-HHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhhh-
Q 000377 1165 -RIHKIVYCGPPEERR-RLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQ- 1241 (1605)
Q Consensus 1165 -~l~vivy~Gs~~~R~-~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~- 1241 (1605)
++++.+++|...... ......+..+..+|+|+|+..+... +.-.+..+|||||+|++.-. +.........
T Consensus 311 ~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~~-----~~~~~l~lvVIDEaH~fg~~--qr~~l~~~~~~ 383 (630)
T TIGR00643 311 LGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEK-----VEFKRLALVIIDEQHRFGVE--QRKKLREKGQG 383 (630)
T ss_pred cCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhcc-----ccccccceEEEechhhccHH--HHHHHHHhccc
Confidence 478888887653322 2222345567889999999988642 22235689999999997422 1222222222
Q ss_pred --ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHH
Q 000377 1242 --SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFV 1319 (1605)
Q Consensus 1242 --a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFl 1319 (1605)
..+.|++||||+...+. +..+ +.. .
T Consensus 384 ~~~~~~l~~SATp~prtl~----l~~~------~~l-----------~-------------------------------- 410 (630)
T TIGR00643 384 GFTPHVLVMSATPIPRTLA----LTVY------GDL-----------D-------------------------------- 410 (630)
T ss_pred CCCCCEEEEeCCCCcHHHH----HHhc------CCc-----------c--------------------------------
Confidence 57789999999753221 1000 000 0
Q ss_pred HHHhhhhHhhcCccceE--EEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcC
Q 000377 1320 LRRLKHKVENELPEKIE--RLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLI 1397 (1605)
Q Consensus 1320 LRRtKkdVe~eLP~K~E--~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i 1397 (1605)
..+...+|.... ....+...
T Consensus 411 -----~~~i~~~p~~r~~i~~~~~~~~----------------------------------------------------- 432 (630)
T TIGR00643 411 -----TSIIDELPPGRKPITTVLIKHD----------------------------------------------------- 432 (630)
T ss_pred -----eeeeccCCCCCCceEEEEeCcc-----------------------------------------------------
Confidence 000011221100 00000000
Q ss_pred CCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccH--------HHHHHHHHHHhh--cCceEEEEeCCCCHHHHHH
Q 000377 1398 PKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMT--------RLLDVMEDYLTF--KQYRYLRLDGHTSGGDRGA 1467 (1605)
Q Consensus 1398 ~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft--------~~LdiLe~~L~~--~GikylrLdGsts~eERqe 1467 (1605)
+...+.+.+.+....+++++|||... ..+..+.+.|.. .++++..++|.++.++|.+
T Consensus 433 -------------~~~~~~~~i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~ 499 (630)
T TIGR00643 433 -------------EKDIVYEFIEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEA 499 (630)
T ss_pred -------------hHHHHHHHHHHHHHhCCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHH
Confidence 00122222333334567888887654 223344444443 4788999999999999999
Q ss_pred HHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCC-ChhhHHHHhhhhcccCCCCcEEE
Q 000377 1468 LIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDW-NPQVDLQAQARAHRIGQKRDVLV 1531 (1605)
Q Consensus 1468 iId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~W-NP~~d~QAiGRAhRIGQkKeV~V 1531 (1605)
++++|.+++.. +|+||.+.++|||++.+++||++|++. +...+.|+.||++|-|..-.+.+
T Consensus 500 i~~~F~~g~~~---ILVaT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~il 561 (630)
T TIGR00643 500 VMEEFREGEVD---ILVATTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGRVGRGDHQSYCLL 561 (630)
T ss_pred HHHHHHcCCCC---EEEECceeecCcccCCCcEEEEeCCCcCCHHHHHHHhhhcccCCCCcEEEE
Confidence 99999988876 899999999999999999999999885 77899999999999987655443
No 46
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=1.4e-21 Score=241.81 Aligned_cols=334 Identities=19% Similarity=0.280 Sum_probs=233.1
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHh-cCCCC-CEEEEecCCc-ccchHHHHHHhCC-
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMET-KNDRG-PFLVVVPSSV-LPGWESEINFWAP- 1164 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~-k~~~g-P~LIVvP~SL-L~nW~~Ef~KwaP- 1164 (1605)
....|.|..++..++. +.+.|....||+|||...+.-+...+.. ..... +.||++|+.- ..|..+++.++..
T Consensus 50 ~~pt~IQ~~~IP~~l~----g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~ 125 (513)
T COG0513 50 EEPTPIQLAAIPLILA----GRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKN 125 (513)
T ss_pred CCCCHHHHHHHHHHhC----CCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhh
Confidence 4677899999987776 7889999999999998776655555442 22222 2899999985 4677778877764
Q ss_pred --CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHHHHhh
Q 000377 1165 --RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNADLKHY 1240 (1605)
Q Consensus 1165 --~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--KlsraL~~L 1240 (1605)
.+.++.+.|......+. ..+.. ..+|||.|+..+........+.-....++|+|||.+|.+... .+..++..+
T Consensus 126 ~~~~~~~~i~GG~~~~~q~--~~l~~-~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEADrmLd~Gf~~~i~~I~~~~ 202 (513)
T COG0513 126 LGGLRVAVVYGGVSIRKQI--EALKR-GVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDMGFIDDIEKILKAL 202 (513)
T ss_pred cCCccEEEEECCCCHHHHH--HHHhc-CCCEEEECccHHHHHHHcCCcchhhcCEEEeccHhhhhcCCCHHHHHHHHHhC
Confidence 56666767666555444 22333 499999999999977777777777788999999999988532 344455555
Q ss_pred hc-cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHH
Q 000377 1241 QS-SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFV 1319 (1605)
Q Consensus 1241 ~a-~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFl 1319 (1605)
+. ...++.|||--. +++.+..-. ...|...
T Consensus 203 p~~~qtllfSAT~~~----~i~~l~~~~--------------l~~p~~i------------------------------- 233 (513)
T COG0513 203 PPDRQTLLFSATMPD----DIRELARRY--------------LNDPVEI------------------------------- 233 (513)
T ss_pred CcccEEEEEecCCCH----HHHHHHHHH--------------ccCCcEE-------------------------------
Confidence 44 456888999621 121111100 0000000
Q ss_pred HHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCC
Q 000377 1320 LRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPK 1399 (1605)
Q Consensus 1320 LRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~ 1399 (1605)
..-........+.....++.|.
T Consensus 234 -~v~~~~~~~~~~~i~q~~~~v~--------------------------------------------------------- 255 (513)
T COG0513 234 -EVSVEKLERTLKKIKQFYLEVE--------------------------------------------------------- 255 (513)
T ss_pred -EEccccccccccCceEEEEEeC---------------------------------------------------------
Confidence 0000000000000000011000
Q ss_pred CCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCe
Q 000377 1400 HYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPF 1479 (1605)
Q Consensus 1400 ~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~ 1479 (1605)
....|+.+|..+|..... .++||||.....++.|...|...|+++..|+|++++++|.+.++.|+++...
T Consensus 256 -------~~~~k~~~L~~ll~~~~~--~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~- 325 (513)
T COG0513 256 -------SEEEKLELLLKLLKDEDE--GRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELR- 325 (513)
T ss_pred -------CHHHHHHHHHHHHhcCCC--CeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCCCC-
Confidence 001378888888875432 3799999999999999999999999999999999999999999999988877
Q ss_pred EEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000377 1480 FIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHK 1551 (1605)
Q Consensus 1480 ~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~K 1551 (1605)
+|++|+++++|||+...++||+||.|.++..|.+|+||++|.| +.-..+.|++. .-|...+..++..
T Consensus 326 --vLVaTDvaaRGiDi~~v~~VinyD~p~~~e~yvHRiGRTgRaG--~~G~ai~fv~~-~~e~~~l~~ie~~ 392 (513)
T COG0513 326 --VLVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAG--RKGVAISFVTE-EEEVKKLKRIEKR 392 (513)
T ss_pred --EEEEechhhccCCccccceeEEccCCCCHHHheeccCccccCC--CCCeEEEEeCc-HHHHHHHHHHHHH
Confidence 8999999999999999999999999999999999999999999 44456667766 2355555555554
No 47
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.89 E-value=6.3e-21 Score=248.71 Aligned_cols=328 Identities=20% Similarity=0.178 Sum_probs=205.0
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC------CCCCEEEEecCCcc-cchHH----
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN------DRGPFLVVVPSSVL-PGWES---- 1157 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~------~~gP~LIVvP~SLL-~nW~~---- 1157 (1605)
..|+|+|.+++..+.. +.++|++.+||+|||..++..+...+.... ....+|+|+|+..+ .++..
T Consensus 31 ~~~tpiQ~~Ai~~il~----g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~ 106 (876)
T PRK13767 31 GTFTPPQRYAIPLIHE----GKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEE 106 (876)
T ss_pred CCCCHHHHHHHHHHHc----CCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHH
Confidence 4699999999987654 789999999999999998765544332211 12248999998744 55544
Q ss_pred ---HHHHhC-------CCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCccc--ccCccEEEEecCcc
Q 000377 1158 ---EINFWA-------PRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLS--KIQWHYIIIDEGHR 1225 (1605)
Q Consensus 1158 ---Ef~Kwa-------P~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~--ki~wd~VIIDEAHr 1225 (1605)
++.+++ +.+.+.+++|......+. ......++|+|||++.+........+. -...++|||||+|.
T Consensus 107 ~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~---~~l~~~p~IlVtTPE~L~~ll~~~~~~~~l~~l~~VVIDE~H~ 183 (876)
T PRK13767 107 PLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQ---KMLKKPPHILITTPESLAILLNSPKFREKLRTVKWVIVDEIHS 183 (876)
T ss_pred HHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHH---HHHhCCCCEEEecHHHHHHHhcChhHHHHHhcCCEEEEechhh
Confidence 333443 367788888876443321 122356899999999986433222211 12457899999999
Q ss_pred ccCcc--chHHHHHHhh-----hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhh
Q 000377 1226 IKNAS--CKLNADLKHY-----QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEAL 1298 (1605)
Q Consensus 1226 iKN~~--SKlsraL~~L-----~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~ 1298 (1605)
+.+.. ..+...+..+ ....+|+||||.- ++.++.. |+....... ...+...
T Consensus 184 l~~~~RG~~l~~~L~rL~~l~~~~~q~IglSATl~--~~~~va~---~L~~~~~~~-------~~r~~~i---------- 241 (876)
T PRK13767 184 LAENKRGVHLSLSLERLEELAGGEFVRIGLSATIE--PLEEVAK---FLVGYEDDG-------EPRDCEI---------- 241 (876)
T ss_pred hccCccHHHHHHHHHHHHHhcCCCCeEEEEecccC--CHHHHHH---HhcCccccC-------CCCceEE----------
Confidence 87532 2222333322 2356799999972 3333322 221110000 0000000
Q ss_pred hhHHHHHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHH
Q 000377 1299 LSEEENLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRN 1378 (1605)
Q Consensus 1299 Lseee~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRk 1378 (1605)
+...........+.++...
T Consensus 242 ----------------------------v~~~~~k~~~i~v~~p~~~--------------------------------- 260 (876)
T PRK13767 242 ----------------------------VDARFVKPFDIKVISPVDD--------------------------------- 260 (876)
T ss_pred ----------------------------EccCCCccceEEEeccCcc---------------------------------
Confidence 0000000000011111000
Q ss_pred HhcCccccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc------Cce
Q 000377 1379 ICNHPYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK------QYR 1452 (1605)
Q Consensus 1379 icnHP~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~------Gik 1452 (1605)
+.... .......+...|.++...++++||||+....++.+...|... +..
T Consensus 261 ------l~~~~------------------~~~~~~~l~~~L~~~i~~~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~ 316 (876)
T PRK13767 261 ------LIHTP------------------AEEISEALYETLHELIKEHRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDN 316 (876)
T ss_pred ------ccccc------------------cchhHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHhchhhccccc
Confidence 00000 000112223334444455789999999999999998888762 467
Q ss_pred EEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhccc-CCCCcEEE
Q 000377 1453 YLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRI-GQKRDVLV 1531 (1605)
Q Consensus 1453 ylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRI-GQkKeV~V 1531 (1605)
+..++|+++.++|..+.+.|+++... +|+||.++++|||+..+|+||+||+|.+...+.||+||++|- |......+
T Consensus 317 i~~hHg~ls~~~R~~ve~~fk~G~i~---vLVaTs~Le~GIDip~Vd~VI~~~~P~sv~~ylQRiGRaGR~~g~~~~g~i 393 (876)
T PRK13767 317 IGAHHSSLSREVRLEVEEKLKRGELK---VVVSSTSLELGIDIGYIDLVVLLGSPKSVSRLLQRIGRAGHRLGEVSKGRI 393 (876)
T ss_pred eeeeeCCCCHHHHHHHHHHHHcCCCe---EEEECChHHhcCCCCCCcEEEEeCCCCCHHHHHHhcccCCCCCCCCCcEEE
Confidence 88999999999999999999988765 799999999999999999999999999999999999999975 44455555
Q ss_pred EE
Q 000377 1532 LR 1533 (1605)
Q Consensus 1532 yR 1533 (1605)
+-
T Consensus 394 i~ 395 (876)
T PRK13767 394 IV 395 (876)
T ss_pred EE
Confidence 54
No 48
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.89 E-value=3.4e-21 Score=253.98 Aligned_cols=360 Identities=18% Similarity=0.217 Sum_probs=210.4
Q ss_pred CCCccHHHHHHHHHHHHHhhc-CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCC
Q 000377 1088 GGKLREYQMSGLRWLVSLYNN-QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPR 1165 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n-~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~ 1165 (1605)
+..|||||.+++..+...+.+ ..++||++.||+|||+++++++..++.... .+++|||||.. |+.||..+|..+.+.
T Consensus 411 ~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~-~~rVLfLvDR~~L~~Qa~~~F~~~~~~ 489 (1123)
T PRK11448 411 GLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKR-FRRILFLVDRSALGEQAEDAFKDTKIE 489 (1123)
T ss_pred CCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCc-cCeEEEEecHHHHHHHHHHHHHhcccc
Confidence 367999999999887766543 467899999999999999999888776543 35699999976 779999999887432
Q ss_pred ce-EE--EEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCC-----cccccCccEEEEecCccccCcc-------
Q 000377 1166 IH-KI--VYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRP-----KLSKIQWHYIIIDEGHRIKNAS------- 1230 (1605)
Q Consensus 1166 l~-vi--vy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~-----~L~ki~wd~VIIDEAHriKN~~------- 1230 (1605)
.. .+ +|. .. .+ ..........|+|+|++.+.+..... .+..-.|++||||||||.....
T Consensus 490 ~~~~~~~i~~-i~----~L-~~~~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs~~~d~~~~~~~ 563 (1123)
T PRK11448 490 GDQTFASIYD-IK----GL-EDKFPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRGYTLDKEMSEGE 563 (1123)
T ss_pred cccchhhhhc-hh----hh-hhhcccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCCCccccccccch
Confidence 11 11 111 11 01 11122346799999999997643211 1334578999999999963210
Q ss_pred ---------chHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhH
Q 000377 1231 ---------CKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSE 1301 (1605)
Q Consensus 1231 ---------SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lse 1301 (1605)
...++.+..+....+|+|||||..+. ...|..|+....
T Consensus 564 ~~~~~~~~~~~~yr~iL~yFdA~~IGLTATP~r~t----------------------~~~FG~pv~~Ys----------- 610 (1123)
T PRK11448 564 LQFRDQLDYVSKYRRVLDYFDAVKIGLTATPALHT----------------------TEIFGEPVYTYS----------- 610 (1123)
T ss_pred hccchhhhHHHHHHHHHhhcCccEEEEecCCccch----------------------hHHhCCeeEEee-----------
Confidence 12333333333358899999997432 122333332110
Q ss_pred HHHHHHHHHHHHHh-hHHHHHHhhhhHhhcCcc-ceEEEEE---eccc-HHHHHHHHHHHHHhhccCCCCCcchhHHHHH
Q 000377 1302 EENLLIINRLHQVL-RPFVLRRLKHKVENELPE-KIERLVR---CEAS-AYQKLLMKRVEENLGSIGNSKGRSVHNSVME 1375 (1605)
Q Consensus 1302 ee~~~iI~RL~kvL-rPFlLRRtKkdVe~eLP~-K~E~vI~---~eLS-~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~q 1375 (1605)
+.+.+ ..+++. ..|+ ..+..+. +... ..+...|+.....+.. . .....+......
T Consensus 611 ---------l~eAI~DG~Lv~--------~~~p~~i~t~~~~~gi~~~~~e~~~~~~~~~~~i~~-~-~l~d~~~~~~~~ 671 (1123)
T PRK11448 611 ---------YREAVIDGYLID--------HEPPIRIETRLSQEGIHFEKGEEVEVINTQTGEIDL-A-TLEDEVDFEVED 671 (1123)
T ss_pred ---------HHHHHhcCCccc--------CcCCEEEEEEeccccccccccchhhhcchhhhhhhh-c-cCcHHHhhhHHH
Confidence 00111 011100 0021 1111100 0000 0001111111000000 0 000000000000
Q ss_pred HHHHhcCccccchhhhhhhhcCCCCCCChhhhhccHHHHHHH-HHHHhh-cCCCeEEEEEccHHHHHHHHHHHhhc----
Q 000377 1376 LRNICNHPYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDR-LLPKLK-ATDHRVLFFSTMTRLLDVMEDYLTFK---- 1449 (1605)
Q Consensus 1376 LRkicnHP~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~-LL~kL~-a~g~KVLIFSQft~~LdiLe~~L~~~---- 1449 (1605)
+-+. ++ .....+.+.+ ++..+. ..+.|+||||....+++.|.+.|...
T Consensus 672 ~~~~-------------------------vi-~~~~~~~i~~~l~~~l~~~~~~KtiIF~~s~~HA~~i~~~L~~~f~~~ 725 (1123)
T PRK11448 672 FNRR-------------------------VI-TESFNRVVCEELAKYLDPTGEGKTLIFAATDAHADMVVRLLKEAFKKK 725 (1123)
T ss_pred HHHH-------------------------Hh-hHHHHHHHHHHHHHHHhccCCCcEEEEEcCHHHHHHHHHHHHHHHHhh
Confidence 0000 00 0001111111 222221 12479999999999999888877542
Q ss_pred --Cc---eEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccC
Q 000377 1450 --QY---RYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIG 1524 (1605)
Q Consensus 1450 --Gi---kylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIG 1524 (1605)
++ .+..++|.++ ++.+++++|.++..+ .+|+|++...+|+|.+.+++||++++.-++..+.|++||+.|+.
T Consensus 726 ~~~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p--~IlVsvdmL~TG~DvP~v~~vVf~rpvkS~~lf~QmIGRgtR~~ 801 (1123)
T PRK11448 726 YGQVEDDAVIKITGSID--KPDQLIRRFKNERLP--NIVVTVDLLTTGIDVPSICNLVFLRRVRSRILYEQMLGRATRLC 801 (1123)
T ss_pred cCCcCccceEEEeCCcc--chHHHHHHHhCCCCC--eEEEEecccccCCCcccccEEEEecCCCCHHHHHHHHhhhccCC
Confidence 22 3466899986 688899999875543 58899999999999999999999999999999999999999987
Q ss_pred C---CCcEEEEEEEe
Q 000377 1525 Q---KRDVLVLRFET 1536 (1605)
Q Consensus 1525 Q---kKeV~VyRLIt 1536 (1605)
- |..+.||.++-
T Consensus 802 ~~~~K~~f~I~D~vg 816 (1123)
T PRK11448 802 PEIGKTHFRIFDAVD 816 (1123)
T ss_pred ccCCCceEEEEehHH
Confidence 5 55577887753
No 49
>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=99.88 E-value=5.2e-21 Score=248.45 Aligned_cols=308 Identities=16% Similarity=0.180 Sum_probs=207.9
Q ss_pred CCCccHHHHHHHHHHHHHhhcC--CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHHHHHhCC
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQ--LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESEINFWAP 1164 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~--~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~Ef~KwaP 1164 (1605)
+.+++|+|..++..+..-...+ .+.||+.+||+|||.+++..+...+..+ ..+||+||+.. ..|+...|.+++.
T Consensus 449 ~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g---~qvlvLvPT~~LA~Q~~~~f~~~~~ 525 (926)
T TIGR00580 449 PFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG---KQVAVLVPTTLLAQQHFETFKERFA 525 (926)
T ss_pred CCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC---CeEEEEeCcHHHHHHHHHHHHHHhc
Confidence 4679999999999888754433 4789999999999999876655444332 45999999985 5778888888775
Q ss_pred C--ceEEEEcCChh--HHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh
Q 000377 1165 R--IHKIVYCGPPE--ERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY 1240 (1605)
Q Consensus 1165 ~--l~vivy~Gs~~--~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L 1240 (1605)
. +.+..++|... ++.+.. ..+..+..+|||+|+..+.+. +.-.+..+|||||+|++.. .....+..+
T Consensus 526 ~~~i~v~~Lsg~~~~~e~~~~~-~~l~~g~~dIVIGTp~ll~~~-----v~f~~L~llVIDEahrfgv---~~~~~L~~~ 596 (926)
T TIGR00580 526 NFPVTIELLSRFRSAKEQNEIL-KELASGKIDILIGTHKLLQKD-----VKFKDLGLLIIDEEQRFGV---KQKEKLKEL 596 (926)
T ss_pred cCCcEEEEEeccccHHHHHHHH-HHHHcCCceEEEchHHHhhCC-----CCcccCCEEEeecccccch---hHHHHHHhc
Confidence 4 45555555432 333332 334456789999999776432 2223457999999999732 334455555
Q ss_pred -hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHH
Q 000377 1241 -QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFV 1319 (1605)
Q Consensus 1241 -~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFl 1319 (1605)
.....|++||||+...+... +..+.++.++
T Consensus 597 ~~~~~vL~~SATpiprtl~~~--l~g~~d~s~I----------------------------------------------- 627 (926)
T TIGR00580 597 RTSVDVLTLSATPIPRTLHMS--MSGIRDLSII----------------------------------------------- 627 (926)
T ss_pred CCCCCEEEEecCCCHHHHHHH--HhcCCCcEEE-----------------------------------------------
Confidence 34678999999965332210 0000000000
Q ss_pred HHHhhhhHhhcCccce--EEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcC
Q 000377 1320 LRRLKHKVENELPEKI--ERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLI 1397 (1605)
Q Consensus 1320 LRRtKkdVe~eLP~K~--E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i 1397 (1605)
...|... .....++.+.
T Consensus 628 ---------~~~p~~R~~V~t~v~~~~~---------------------------------------------------- 646 (926)
T TIGR00580 628 ---------ATPPEDRLPVRTFVMEYDP---------------------------------------------------- 646 (926)
T ss_pred ---------ecCCCCccceEEEEEecCH----------------------------------------------------
Confidence 0000000 0000000000
Q ss_pred CCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc--CceEEEEeCCCCHHHHHHHHHHHhCC
Q 000377 1398 PKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK--QYRYLRLDGHTSGGDRGALIDKFNQQ 1475 (1605)
Q Consensus 1398 ~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~--GikylrLdGsts~eERqeiId~FN~g 1475 (1605)
......++.+ ...+.+++|||+....++.+.+.|... ++++..+||.++.++|.+++++|.++
T Consensus 647 --------------~~i~~~i~~e-l~~g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~G 711 (926)
T TIGR00580 647 --------------ELVREAIRRE-LLRGGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKG 711 (926)
T ss_pred --------------HHHHHHHHHH-HHcCCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcC
Confidence 0000111112 234689999999999999999999874 78999999999999999999999998
Q ss_pred CCCeEEEEEeccccccccCcccCCEEEEEcCC-CChhhHHHHhhhhcccCCCCcEEEEEEEeC
Q 000377 1476 DSPFFIFLLSIRAGGVGVNLQAADTVIIFDTD-WNPQVDLQAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1476 ds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~-WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
+.+ +|+||.+.++|||++.+++||++|.+ +....+.|+.||++|-|..- .+|-|+..
T Consensus 712 k~~---ILVaT~iie~GIDIp~v~~VIi~~a~~~gls~l~Qr~GRvGR~g~~g--~aill~~~ 769 (926)
T TIGR00580 712 EFQ---VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSKKKA--YAYLLYPH 769 (926)
T ss_pred CCC---EEEECChhhcccccccCCEEEEecCCCCCHHHHHHHhcCCCCCCCCe--EEEEEECC
Confidence 877 89999999999999999999999986 46678999999999988643 44555543
No 50
>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=99.88 E-value=1.2e-20 Score=242.16 Aligned_cols=335 Identities=15% Similarity=0.123 Sum_probs=216.2
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhC-CCce
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWA-PRIH 1167 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~Kwa-P~l~ 1167 (1605)
+|+++|.+++..+.. +.+.|++.+||+|||+.++..+...+... ....+|||+|+.-| .+-..++.++. ..++
T Consensus 36 ~p~~~Q~~ai~~il~----G~nvvv~apTGSGKTla~~LPiL~~l~~~-~~~~aL~l~PtraLa~q~~~~l~~l~~~~i~ 110 (742)
T TIGR03817 36 RPWQHQARAAELAHA----GRHVVVATGTASGKSLAYQLPVLSALADD-PRATALYLAPTKALAADQLRAVRELTLRGVR 110 (742)
T ss_pred cCCHHHHHHHHHHHC----CCCEEEECCCCCcHHHHHHHHHHHHHhhC-CCcEEEEEcChHHHHHHHHHHHHHhccCCeE
Confidence 699999999987765 88999999999999999876655544332 23458999999854 66777787775 3577
Q ss_pred EEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCc--c--cccCccEEEEecCccccC-ccchHHHHHHhh--
Q 000377 1168 KIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPK--L--SKIQWHYIIIDEGHRIKN-ASCKLNADLKHY-- 1240 (1605)
Q Consensus 1168 vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~--L--~ki~wd~VIIDEAHriKN-~~SKlsraL~~L-- 1240 (1605)
+.+|.|......+. .+ ....+|+|||++++....-... + .--+.++|||||||.+.+ ..+.+...+..+
T Consensus 111 v~~~~Gdt~~~~r~---~i-~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah~~~g~fg~~~~~il~rL~r 186 (742)
T TIGR03817 111 PATYDGDTPTEERR---WA-REHARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDECHSYRGVFGSHVALVLRRLRR 186 (742)
T ss_pred EEEEeCCCCHHHHH---HH-hcCCCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeChhhccCccHHHHHHHHHHHHH
Confidence 88888876543321 11 2357999999999864211100 0 012357999999999965 233333344333
Q ss_pred ------hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHH
Q 000377 1241 ------QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQV 1314 (1605)
Q Consensus 1241 ------~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kv 1314 (1605)
.....+++|||.- +..++.. . ++..|+.....
T Consensus 187 i~~~~g~~~q~i~~SATi~--n~~~~~~---~--------------l~g~~~~~i~~----------------------- 224 (742)
T TIGR03817 187 LCARYGASPVFVLASATTA--DPAAAAS---R--------------LIGAPVVAVTE----------------------- 224 (742)
T ss_pred HHHhcCCCCEEEEEecCCC--CHHHHHH---H--------------HcCCCeEEECC-----------------------
Confidence 1245789999952 2233211 1 11112110000
Q ss_pred hhHHHHHHhhhhHhhcCccc-eEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhh
Q 000377 1315 LRPFVLRRLKHKVENELPEK-IERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEV 1393 (1605)
Q Consensus 1315 LrPFlLRRtKkdVe~eLP~K-~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eei 1393 (1605)
..-|.. ....++.+ .... + ..... .+
T Consensus 225 --------------~~~~~~~~~~~~~~p-~~~~------~-------~~~~~---------------~~---------- 251 (742)
T TIGR03817 225 --------------DGSPRGARTVALWEP-PLTE------L-------TGENG---------------AP---------- 251 (742)
T ss_pred --------------CCCCcCceEEEEecC-Cccc------c-------ccccc---------------cc----------
Confidence 000110 01111100 0000 0 00000 00
Q ss_pred hhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc--------CceEEEEeCCCCHHHH
Q 000377 1394 DTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK--------QYRYLRLDGHTSGGDR 1465 (1605)
Q Consensus 1394 d~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~--------GikylrLdGsts~eER 1465 (1605)
.. ......+..+|..++. .+.++||||+.+...+.|..+|... +.++..++|++.+++|
T Consensus 252 --------~r-~~~~~~~~~~l~~l~~----~~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR 318 (742)
T TIGR03817 252 --------VR-RSASAEAADLLADLVA----EGARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDR 318 (742)
T ss_pred --------cc-cchHHHHHHHHHHHHH----CCCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHH
Confidence 00 0000123444444443 5789999999999999998887653 5677889999999999
Q ss_pred HHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHH
Q 000377 1466 GALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVR 1545 (1605)
Q Consensus 1466 qeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIl 1545 (1605)
.++.++|.++... +|++|+++++|||+...|+||+||.|-+...|.||+||++|.|+.-. ++.++..+..|..++
T Consensus 319 ~~ie~~f~~G~i~---vLVaTd~lerGIDI~~vd~VI~~~~P~s~~~y~qRiGRaGR~G~~g~--ai~v~~~~~~d~~~~ 393 (742)
T TIGR03817 319 RELERALRDGELL---GVATTNALELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQGAL--VVLVARDDPLDTYLV 393 (742)
T ss_pred HHHHHHHHcCCce---EEEECchHhccCCcccccEEEEeCCCCCHHHHHHhccccCCCCCCcE--EEEEeCCChHHHHHH
Confidence 9999999988765 79999999999999999999999999999999999999999987543 444555566776654
Q ss_pred H
Q 000377 1546 A 1546 (1605)
Q Consensus 1546 e 1546 (1605)
.
T Consensus 394 ~ 394 (742)
T TIGR03817 394 H 394 (742)
T ss_pred h
Confidence 4
No 51
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.87 E-value=1.3e-20 Score=240.45 Aligned_cols=303 Identities=18% Similarity=0.225 Sum_probs=203.4
Q ss_pred CCccHHHHHHHHHHHHHhhc--CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHHHHHhCCC
Q 000377 1089 GKLREYQMSGLRWLVSLYNN--QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESEINFWAPR 1165 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n--~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~Ef~KwaP~ 1165 (1605)
.+|+++|.+++..+..-... ..+.||..+||+|||++++..+...+.. ...+||++|+.. ..|+...|.+|++.
T Consensus 260 f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~---g~q~lilaPT~~LA~Q~~~~l~~l~~~ 336 (681)
T PRK10917 260 FELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA---GYQAALMAPTEILAEQHYENLKKLLEP 336 (681)
T ss_pred CCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc---CCeEEEEeccHHHHHHHHHHHHHHHhh
Confidence 57999999999988774433 2467999999999999987666554432 345899999985 57889999999864
Q ss_pred --ceEEEEcCChhH--HHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh-
Q 000377 1166 --IHKIVYCGPPEE--RRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY- 1240 (1605)
Q Consensus 1166 --l~vivy~Gs~~~--R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L- 1240 (1605)
+.+.+++|.... +...+ ..+..+..+|+|+|+..+... +.-.+..+|||||+|++.- .....+...
T Consensus 337 ~~i~v~ll~G~~~~~~r~~~~-~~l~~g~~~IvVgT~~ll~~~-----v~~~~l~lvVIDE~Hrfg~---~qr~~l~~~~ 407 (681)
T PRK10917 337 LGIRVALLTGSLKGKERREIL-EAIASGEADIVIGTHALIQDD-----VEFHNLGLVIIDEQHRFGV---EQRLALREKG 407 (681)
T ss_pred cCcEEEEEcCCCCHHHHHHHH-HHHhCCCCCEEEchHHHhccc-----chhcccceEEEechhhhhH---HHHHHHHhcC
Confidence 677888887643 33332 334456799999999888542 1223567899999999732 223333333
Q ss_pred hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1241 QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
...+.|++||||+...+ ++..+ . +...
T Consensus 408 ~~~~iL~~SATp~prtl----~~~~~----------------g-------~~~~-------------------------- 434 (681)
T PRK10917 408 ENPHVLVMTATPIPRTL----AMTAY----------------G-------DLDV-------------------------- 434 (681)
T ss_pred CCCCEEEEeCCCCHHHH----HHHHc----------------C-------CCce--------------------------
Confidence 35778999999963221 11000 0 0000
Q ss_pred HHhhhhHhhcCccceE--EEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCC
Q 000377 1321 RRLKHKVENELPEKIE--RLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIP 1398 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E--~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~ 1398 (1605)
.+...+|.... ....+.
T Consensus 435 -----s~i~~~p~~r~~i~~~~~~-------------------------------------------------------- 453 (681)
T PRK10917 435 -----SVIDELPPGRKPITTVVIP-------------------------------------------------------- 453 (681)
T ss_pred -----EEEecCCCCCCCcEEEEeC--------------------------------------------------------
Confidence 00011121000 000000
Q ss_pred CCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHH--------HHHHHHHHHhhc--CceEEEEeCCCCHHHHHHH
Q 000377 1399 KHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTR--------LLDVMEDYLTFK--QYRYLRLDGHTSGGDRGAL 1468 (1605)
Q Consensus 1399 ~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~--------~LdiLe~~L~~~--GikylrLdGsts~eERqei 1468 (1605)
..+...+.+.+.+....+++++|||.... .+..+.+.|... ++++..++|.++.++|.++
T Consensus 454 ----------~~~~~~~~~~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i 523 (681)
T PRK10917 454 ----------DSRRDEVYERIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAV 523 (681)
T ss_pred ----------cccHHHHHHHHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHH
Confidence 01112223333333467889999997532 233445555443 5789999999999999999
Q ss_pred HHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCC-ChhhHHHHhhhhcccCCCCcEE
Q 000377 1469 IDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDW-NPQVDLQAQARAHRIGQKRDVL 1530 (1605)
Q Consensus 1469 Id~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~W-NP~~d~QAiGRAhRIGQkKeV~ 1530 (1605)
+++|.+++.+ +|+||.+.++|||++.+++||+||++. ....+.|+.||++|-|..-.|.
T Consensus 524 ~~~F~~g~~~---ILVaT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~i 583 (681)
T PRK10917 524 MAAFKAGEID---ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQSYCV 583 (681)
T ss_pred HHHHHcCCCC---EEEECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhcccCCCCceEEE
Confidence 9999988876 899999999999999999999999985 5788999999999988654443
No 52
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.86 E-value=4e-20 Score=244.67 Aligned_cols=304 Identities=17% Similarity=0.227 Sum_probs=203.0
Q ss_pred CCccHHHHHHHHHHHHHhhc--CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhCCC
Q 000377 1089 GKLREYQMSGLRWLVSLYNN--QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWAPR 1165 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n--~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~KwaP~ 1165 (1605)
.++.+.|.+++.-++.-... ..+.|++.+||+|||.+++..+..... ....+|||||+..| .|+...|.+++..
T Consensus 599 ~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~---~g~qvlvLvPT~eLA~Q~~~~f~~~~~~ 675 (1147)
T PRK10689 599 FETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE---NHKQVAVLVPTTLLAQQHYDNFRDRFAN 675 (1147)
T ss_pred CCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH---cCCeEEEEeCcHHHHHHHHHHHHHhhcc
Confidence 57999999999987774433 257899999999999988644433332 23469999999855 7777888776543
Q ss_pred --ceEEEEcC--ChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh-
Q 000377 1166 --IHKIVYCG--PPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY- 1240 (1605)
Q Consensus 1166 --l~vivy~G--s~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L- 1240 (1605)
+.+.++.| +..++...+. .+..+..+|||+|++.+.+. +.-.++.+|||||+|++.. +....++.+
T Consensus 676 ~~v~i~~l~g~~s~~e~~~il~-~l~~g~~dIVVgTp~lL~~~-----v~~~~L~lLVIDEahrfG~---~~~e~lk~l~ 746 (1147)
T PRK10689 676 WPVRIEMLSRFRSAKEQTQILA-EAAEGKIDILIGTHKLLQSD-----VKWKDLGLLIVDEEHRFGV---RHKERIKAMR 746 (1147)
T ss_pred CCceEEEEECCCCHHHHHHHHH-HHHhCCCCEEEECHHHHhCC-----CCHhhCCEEEEechhhcch---hHHHHHHhcC
Confidence 44444444 3334433332 33446789999999877542 2223578999999999832 233445544
Q ss_pred hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1241 QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
.....|++||||+...+.- ++..+.++.++. .|
T Consensus 747 ~~~qvLl~SATpiprtl~l--~~~gl~d~~~I~----------~~----------------------------------- 779 (1147)
T PRK10689 747 ADVDILTLTATPIPRTLNM--AMSGMRDLSIIA----------TP----------------------------------- 779 (1147)
T ss_pred CCCcEEEEcCCCCHHHHHH--HHhhCCCcEEEe----------cC-----------------------------------
Confidence 3457899999996543211 000000000000 00
Q ss_pred HHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCC
Q 000377 1321 RRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKH 1400 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~ 1400 (1605)
....+|-+. .+. ...
T Consensus 780 ------p~~r~~v~~-~~~--~~~-------------------------------------------------------- 794 (1147)
T PRK10689 780 ------PARRLAVKT-FVR--EYD-------------------------------------------------------- 794 (1147)
T ss_pred ------CCCCCCceE-EEE--ecC--------------------------------------------------------
Confidence 000000000 000 000
Q ss_pred CCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc--CceEEEEeCCCCHHHHHHHHHHHhCCCCC
Q 000377 1401 YLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK--QYRYLRLDGHTSGGDRGALIDKFNQQDSP 1478 (1605)
Q Consensus 1401 ~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~--GikylrLdGsts~eERqeiId~FN~gds~ 1478 (1605)
.......++.++. .+++|+|||+.+..++.+.+.|... ++++..++|.++.++|.+++.+|.+++.+
T Consensus 795 ----------~~~~k~~il~el~-r~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~ 863 (1147)
T PRK10689 795 ----------SLVVREAILREIL-RGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFN 863 (1147)
T ss_pred ----------cHHHHHHHHHHHh-cCCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcCCC
Confidence 0001112222332 3678999999999999999999876 78999999999999999999999998877
Q ss_pred eEEEEEeccccccccCcccCCEEEEEcCC-CChhhHHHHhhhhcccCCCCcEE
Q 000377 1479 FFIFLLSIRAGGVGVNLQAADTVIIFDTD-WNPQVDLQAQARAHRIGQKRDVL 1530 (1605)
Q Consensus 1479 ~~VfLLSTrAGGeGLNLq~ADtVIiyDp~-WNP~~d~QAiGRAhRIGQkKeV~ 1530 (1605)
+|+||.+.++|||++.+++||+.+++ |....+.|+.||++|.|.+-.+.
T Consensus 864 ---VLVaTdIierGIDIP~v~~VIi~~ad~fglaq~~Qr~GRvGR~g~~g~a~ 913 (1147)
T PRK10689 864 ---VLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQAYAW 913 (1147)
T ss_pred ---EEEECchhhcccccccCCEEEEecCCCCCHHHHHHHhhccCCCCCceEEE
Confidence 79999999999999999999998875 68889999999999988765433
No 53
>PRK02362 ski2-like helicase; Provisional
Probab=99.85 E-value=6.4e-20 Score=236.16 Aligned_cols=322 Identities=16% Similarity=0.086 Sum_probs=202.9
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCC-Cc
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAP-RI 1166 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP-~l 1166 (1605)
.+|+|+|.+++.. .+..+.++|++.+||+|||+++...+...+. ..+++|||+|.. ++.++..+|.++.+ ++
T Consensus 22 ~~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~~l~---~~~kal~i~P~raLa~q~~~~~~~~~~~g~ 95 (737)
T PRK02362 22 EELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLKAIA---RGGKALYIVPLRALASEKFEEFERFEELGV 95 (737)
T ss_pred CcCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHHHHh---cCCcEEEEeChHHHHHHHHHHHHHhhcCCC
Confidence 3699999999974 2445789999999999999998765555443 245699999987 66888888887754 57
Q ss_pred eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHHHHhh----
Q 000377 1167 HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNADLKHY---- 1240 (1605)
Q Consensus 1167 ~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--KlsraL~~L---- 1240 (1605)
++..+.|....... .....+|+|+|++.+..........-...++|||||+|.+.+... .+-..+..+
T Consensus 96 ~v~~~tGd~~~~~~------~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d~~rg~~le~il~rl~~~~ 169 (737)
T PRK02362 96 RVGISTGDYDSRDE------WLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDSANRGPTLEVTLAKLRRLN 169 (737)
T ss_pred EEEEEeCCcCcccc------ccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccCCCcchHHHHHHHHHHHhcC
Confidence 78888887543321 124679999999887432221111112468999999999975322 222222222
Q ss_pred hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1241 QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
...+.++||||.- +..++...+ ....|.+ .+ .|+
T Consensus 170 ~~~qii~lSATl~--n~~~la~wl---~~~~~~~------~~-rpv---------------------------------- 203 (737)
T PRK02362 170 PDLQVVALSATIG--NADELADWL---DAELVDS------EW-RPI---------------------------------- 203 (737)
T ss_pred CCCcEEEEcccCC--CHHHHHHHh---CCCcccC------CC-CCC----------------------------------
Confidence 3456799999972 344443322 1111100 00 000
Q ss_pred HHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCC
Q 000377 1321 RRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKH 1400 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~ 1400 (1605)
.....+... .. + .... . ...+ ...
T Consensus 204 -------------~l~~~v~~~-~~--------~----~~~~--~----------------~~~~------------~~~ 227 (737)
T PRK02362 204 -------------DLREGVFYG-GA--------I----HFDD--S----------------QREV------------EVP 227 (737)
T ss_pred -------------CCeeeEecC-Ce--------e----cccc--c----------------cccC------------CCc
Confidence 000000000 00 0 0000 0 0000 000
Q ss_pred CCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc-------------------------------
Q 000377 1401 YLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK------------------------------- 1449 (1605)
Q Consensus 1401 ~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~------------------------------- 1449 (1605)
....++..+.+ ....++++||||+.+..+..+...|...
T Consensus 228 ------~~~~~~~~~~~----~~~~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 297 (737)
T PRK02362 228 ------SKDDTLNLVLD----TLEEGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKD 297 (737)
T ss_pred ------cchHHHHHHHH----HHHcCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHH
Confidence 00011222222 2336789999999988776665555322
Q ss_pred -----CceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEE----Ec-----CCCChhhHHH
Q 000377 1450 -----QYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVII----FD-----TDWNPQVDLQ 1515 (1605)
Q Consensus 1450 -----GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIi----yD-----p~WNP~~d~Q 1515 (1605)
...+..++|+++.++|..+.+.|+++... +|++|.+++.|||+++.++||. || .+.++..|.|
T Consensus 298 L~~~l~~gva~hHagl~~~eR~~ve~~Fr~G~i~---VLvaT~tla~GvnlPa~~VVI~~~~~yd~~~g~~~~s~~~y~Q 374 (737)
T PRK02362 298 LADCVAKGAAFHHAGLSREHRELVEDAFRDRLIK---VISSTPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIPVLEYHQ 374 (737)
T ss_pred HHHHHHhCEEeecCCCCHHHHHHHHHHHHcCCCe---EEEechhhhhhcCCCceEEEEecceeecCCCCceeCCHHHHHH
Confidence 13577889999999999999999988765 7999999999999999887776 77 5788999999
Q ss_pred HhhhhcccCCCCcEEEEEEEeC
Q 000377 1516 AQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1516 AiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
++|||+|.|....-.++-++..
T Consensus 375 m~GRAGR~g~d~~G~~ii~~~~ 396 (737)
T PRK02362 375 MAGRAGRPGLDPYGEAVLLAKS 396 (737)
T ss_pred HhhcCCCCCCCCCceEEEEecC
Confidence 9999999998766555555543
No 54
>PRK01172 ski2-like helicase; Provisional
Probab=99.84 E-value=3.2e-19 Score=227.74 Aligned_cols=310 Identities=18% Similarity=0.155 Sum_probs=194.6
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCC-Cc
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAP-RI 1166 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP-~l 1166 (1605)
.+|+|+|.+++..+. .+.+.|++.+||+|||+++...+...+.. .+.+|+|+|.. +..++.+++.++.. +.
T Consensus 21 ~~l~~~Q~~ai~~l~----~~~nvlv~apTGSGKTl~a~lail~~l~~---~~k~v~i~P~raLa~q~~~~~~~l~~~g~ 93 (674)
T PRK01172 21 FELYDHQRMAIEQLR----KGENVIVSVPTAAGKTLIAYSAIYETFLA---GLKSIYIVPLRSLAMEKYEELSRLRSLGM 93 (674)
T ss_pred CCCCHHHHHHHHHHh----cCCcEEEECCCCchHHHHHHHHHHHHHHh---CCcEEEEechHHHHHHHHHHHHHHhhcCC
Confidence 469999999998753 47889999999999999987666555433 35689999987 56778888887653 45
Q ss_pred eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCcc--chHHHHHHh---h-
Q 000377 1167 HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNAS--CKLNADLKH---Y- 1240 (1605)
Q Consensus 1167 ~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~--SKlsraL~~---L- 1240 (1605)
.+....|........ ....+|+|+|++.+..........-.++++|||||+|.+.+.. ..+...+.. +
T Consensus 94 ~v~~~~G~~~~~~~~------~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~d~~rg~~le~ll~~~~~~~ 167 (674)
T PRK01172 94 RVKISIGDYDDPPDF------IKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIGDEDRGPTLETVLSSARYVN 167 (674)
T ss_pred eEEEEeCCCCCChhh------hccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhccCCCccHHHHHHHHHHHhcC
Confidence 666666654332111 1457999999987643222111122356899999999996532 122222222 2
Q ss_pred hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1241 QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
...+.++||||+- +.. +|.+|+..+...... +
T Consensus 168 ~~~riI~lSATl~--n~~------------------~la~wl~~~~~~~~~------------------------r---- 199 (674)
T PRK01172 168 PDARILALSATVS--NAN------------------ELAQWLNASLIKSNF------------------------R---- 199 (674)
T ss_pred cCCcEEEEeCccC--CHH------------------HHHHHhCCCccCCCC------------------------C----
Confidence 2345799999972 233 333444321100000 0
Q ss_pred HHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCC
Q 000377 1321 RRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKH 1400 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~ 1400 (1605)
..|-. ..++... .++ ... ..+
T Consensus 200 ---------~vpl~-~~i~~~~------~~~---------~~~-~~~--------------------------------- 220 (674)
T PRK01172 200 ---------PVPLK-LGILYRK------RLI---------LDG-YER--------------------------------- 220 (674)
T ss_pred ---------CCCeE-EEEEecC------eee---------ecc-ccc---------------------------------
Confidence 01111 0111000 000 000 000
Q ss_pred CCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc-------------------------CceEEE
Q 000377 1401 YLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK-------------------------QYRYLR 1455 (1605)
Q Consensus 1401 ~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~-------------------------Gikylr 1455 (1605)
.+ ..+..++.+....++++||||.....++.+...|... ...+..
T Consensus 221 ---------~~-~~~~~~i~~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~ 290 (674)
T PRK01172 221 ---------SQ-VDINSLIKETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAF 290 (674)
T ss_pred ---------cc-ccHHHHHHHHHhCCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEE
Confidence 00 0012233333456778999998888777666666432 123667
Q ss_pred EeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcC---------CCChhhHHHHhhhhcccCCC
Q 000377 1456 LDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDT---------DWNPQVDLQAQARAHRIGQK 1526 (1605)
Q Consensus 1456 LdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp---------~WNP~~d~QAiGRAhRIGQk 1526 (1605)
++|+++.++|..+.+.|+++... +|++|.+++.|+|+++ .+||++|. ++++..+.|++|||+|.|..
T Consensus 291 ~hagl~~~eR~~ve~~f~~g~i~---VLvaT~~la~Gvnipa-~~VII~~~~~~~~~~~~~~s~~~~~Qm~GRAGR~g~d 366 (674)
T PRK01172 291 HHAGLSNEQRRFIEEMFRNRYIK---VIVATPTLAAGVNLPA-RLVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRPGYD 366 (674)
T ss_pred ecCCCCHHHHHHHHHHHHcCCCe---EEEecchhhccCCCcc-eEEEEcCceEeCCCCceeCCHHHHHHHhhcCCCCCCC
Confidence 89999999999999999887665 7999999999999996 67887764 45788999999999999977
Q ss_pred CcEEEE
Q 000377 1527 RDVLVL 1532 (1605)
Q Consensus 1527 KeV~Vy 1532 (1605)
..-..+
T Consensus 367 ~~g~~~ 372 (674)
T PRK01172 367 QYGIGY 372 (674)
T ss_pred CcceEE
Confidence 663333
No 55
>PRK00254 ski2-like helicase; Provisional
Probab=99.83 E-value=7.9e-19 Score=225.62 Aligned_cols=322 Identities=18% Similarity=0.137 Sum_probs=196.0
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCC-Cc
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAP-RI 1166 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP-~l 1166 (1605)
.+|+|+|.+++.- .+..+.+.|++.+||+|||+++...+...+.. ..+.+|+|+|.. ++.++..+|.+|.. ++
T Consensus 22 ~~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~--~~~~~l~l~P~~aLa~q~~~~~~~~~~~g~ 96 (720)
T PRK00254 22 EELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLR--EGGKAVYLVPLKALAEEKYREFKDWEKLGL 96 (720)
T ss_pred CCCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHh--cCCeEEEEeChHHHHHHHHHHHHHHhhcCC
Confidence 4799999999963 23457899999999999999995444433322 235699999987 56778888887753 56
Q ss_pred eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCc--cchHHHHHHhh-hcc
Q 000377 1167 HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNA--SCKLNADLKHY-QSS 1243 (1605)
Q Consensus 1167 ~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~--~SKlsraL~~L-~a~ 1243 (1605)
++..+.|....... ....++|+|+|++.+..........-.+.++|||||+|.+... ...+...+..+ ...
T Consensus 97 ~v~~~~Gd~~~~~~------~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~~~~rg~~le~il~~l~~~~ 170 (720)
T PRK00254 97 RVAMTTGDYDSTDE------WLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGSYDRGATLEMILTHMLGRA 170 (720)
T ss_pred EEEEEeCCCCCchh------hhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCccCCccchHHHHHHHHhcCcCC
Confidence 77778776543221 1256899999998875422211111235689999999999643 33444444444 345
Q ss_pred ceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHh
Q 000377 1244 HRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRRL 1323 (1605)
Q Consensus 1244 ~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRt 1323 (1605)
+.++||||.- +..++. +|+..+..... .+|
T Consensus 171 qiI~lSATl~--n~~~la------------------~wl~~~~~~~~------------------------~rp------ 200 (720)
T PRK00254 171 QILGLSATVG--NAEELA------------------EWLNAELVVSD------------------------WRP------ 200 (720)
T ss_pred cEEEEEccCC--CHHHHH------------------HHhCCccccCC------------------------CCC------
Confidence 6799999972 234443 33322110000 000
Q ss_pred hhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCCC
Q 000377 1324 KHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYLP 1403 (1605)
Q Consensus 1324 KkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~~ 1403 (1605)
.|-.. .++ ..- ..+ ...... .
T Consensus 201 -------v~l~~-~~~-~~~-----~~~---------~~~~~~---------------------------~--------- 221 (720)
T PRK00254 201 -------VKLRK-GVF-YQG-----FLF---------WEDGKI---------------------------E--------- 221 (720)
T ss_pred -------Cccee-eEe-cCC-----eee---------ccCcch---------------------------h---------
Confidence 00000 000 000 000 000000 0
Q ss_pred hhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh---------------------------------cC
Q 000377 1404 PIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF---------------------------------KQ 1450 (1605)
Q Consensus 1404 ~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~---------------------------------~G 1450 (1605)
.. ...+..++.++...+.++||||..+..+..+...|.. ..
T Consensus 222 ---~~---~~~~~~~~~~~i~~~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~ 295 (720)
T PRK00254 222 ---RF---PNSWESLVYDAVKKGKGALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALR 295 (720)
T ss_pred ---cc---hHHHHHHHHHHHHhCCCEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHh
Confidence 00 0001112222223467888888877655443333211 12
Q ss_pred ceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEE-------EcCCC-ChhhHHHHhhhhcc
Q 000377 1451 YRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVII-------FDTDW-NPQVDLQAQARAHR 1522 (1605)
Q Consensus 1451 ikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIi-------yDp~W-NP~~d~QAiGRAhR 1522 (1605)
..+..++|+++.++|..+.+.|+++... +|++|.+++.|+|+++.++||. ++.++ ....+.|++|||+|
T Consensus 296 ~gv~~hHagl~~~eR~~ve~~F~~G~i~---VLvaT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~~~~~~Qm~GRAGR 372 (720)
T PRK00254 296 GGVAFHHAGLGRTERVLIEDAFREGLIK---VITATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEIQQMMGRAGR 372 (720)
T ss_pred hCEEEeCCCCCHHHHHHHHHHHHCCCCe---EEEeCcHHhhhcCCCceEEEECCceEcCCCCceeCCHHHHHHhhhccCC
Confidence 3578899999999999999999988765 8999999999999998887774 33222 34588999999999
Q ss_pred cCCCCcEEEEEEEeCCC
Q 000377 1523 IGQKRDVLVLRFETVQT 1539 (1605)
Q Consensus 1523 IGQkKeV~VyRLIt~~T 1539 (1605)
.|....-.++-++....
T Consensus 373 ~~~d~~G~~ii~~~~~~ 389 (720)
T PRK00254 373 PKYDEVGEAIIVATTEE 389 (720)
T ss_pred CCcCCCceEEEEecCcc
Confidence 99777666666665443
No 56
>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=99.83 E-value=9e-19 Score=206.84 Aligned_cols=312 Identities=14% Similarity=0.132 Sum_probs=192.9
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCceEEEEcCChhH-----------HH
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIHKIVYCGPPEE-----------RR 1179 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~vivy~Gs~~~-----------R~ 1179 (1605)
.++..+||+|||.+++.++...+.. ....++++|+|.. ++.++.+.+..++.. .+..+++.... ..
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~-~~~~~ii~v~P~~~L~~q~~~~l~~~f~~-~~~~~~~~~~~~~~~~~~~~~~~~ 79 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKS-QKADRVIIALPTRATINAMYRRAKELFGS-NLGLLHSSSSFKRIKEMGDSEEFE 79 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhh-CCCCeEEEEeehHHHHHHHHHHHHHHhCc-ccEEeeccHHHHHHhccCCchhHH
Confidence 4788999999999998888776554 3345699999976 668888888887654 33444443221 01
Q ss_pred HHHHhhh----hcCCccEEEEcHHHHhhccCCC------cccccCccEEEEecCccccCccc-hHHHHHHhhh--cccee
Q 000377 1180 RLFKEKI----VHQKFNVLLTTYEYLMNKHDRP------KLSKIQWHYIIIDEGHRIKNASC-KLNADLKHYQ--SSHRL 1246 (1605)
Q Consensus 1180 ~l~~~~i----~~~~fdVVITTYe~L~k~~D~~------~L~ki~wd~VIIDEAHriKN~~S-KlsraL~~L~--a~~RL 1246 (1605)
....... .....+++|+|++.+....... .+..+...+|||||+|.+..... .+...+..+. ....+
T Consensus 80 ~~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~l~~~l~~l~~~~~~~i 159 (358)
T TIGR01587 80 HLFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLKDNDVPIL 159 (358)
T ss_pred HHHHHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHHHHHHHHHHHHcCCCEE
Confidence 1111000 1134679999999986543321 12223347899999999875322 2333333333 34569
Q ss_pred cccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHhhhh
Q 000377 1247 LLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRRLKHK 1326 (1605)
Q Consensus 1247 LLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtKkd 1326 (1605)
++|||+- ..+..++ ..+....
T Consensus 160 ~~SATlp----~~l~~~~---------------~~~~~~~---------------------------------------- 180 (358)
T TIGR01587 160 LMSATLP----KFLKEYA---------------EKIGYVE---------------------------------------- 180 (358)
T ss_pred EEecCch----HHHHHHH---------------hcCCCcc----------------------------------------
Confidence 9999962 1111100 0000000
Q ss_pred HhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCCChhh
Q 000377 1327 VENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYLPPIV 1406 (1605)
Q Consensus 1327 Ve~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~~~lv 1406 (1605)
....++. ... +....|++.... .
T Consensus 181 -~~~~~~~---------~~~------------------------------~~~~~~~~~~~~-----------------~ 203 (358)
T TIGR01587 181 -FNEPLDL---------KEE------------------------------RRFERHRFIKIE-----------------S 203 (358)
T ss_pred -cccCCCC---------ccc------------------------------cccccccceeec-----------------c
Confidence 0000000 000 000011111000 0
Q ss_pred hhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCc--eEEEEeCCCCHHHHHHH----HHHHhCCCCCeE
Q 000377 1407 RLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQY--RYLRLDGHTSGGDRGAL----IDKFNQQDSPFF 1480 (1605)
Q Consensus 1407 r~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~Gi--kylrLdGsts~eERqei----Id~FN~gds~~~ 1480 (1605)
....|...+.+++..+ ..+.++||||+....++.+...|...+. .+..++|.++..+|.+. ++.|.++...
T Consensus 204 ~~~~~~~~l~~l~~~~-~~~~~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~-- 280 (358)
T TIGR01587 204 DKVGEISSLERLLEFI-KKGGKIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKF-- 280 (358)
T ss_pred ccccCHHHHHHHHHHh-hCCCeEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCe--
Confidence 0113455666666443 4578999999999999999999988776 58999999999999764 8899776554
Q ss_pred EEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCC----cEEEEEEEeCC---CHHHHHHHHH
Q 000377 1481 IFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKR----DVLVLRFETVQ---TVEEQVRASA 1548 (1605)
Q Consensus 1481 VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkK----eV~VyRLIt~~---TIEEkIlera 1548 (1605)
+|+||.++++|||+ .+++||.++.+ +..+.|++||++|.|.+. .|.||.....+ ..+..++++-
T Consensus 281 -ilvaT~~~~~GiDi-~~~~vi~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~t 351 (358)
T TIGR01587 281 -VIVATQVIEASLDI-SADVMITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIITIAPEGKLFPYPYELVERT 351 (358)
T ss_pred -EEEECcchhceecc-CCCEEEEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEeecCCCCeecCCHHHHHHH
Confidence 79999999999999 48999998765 789999999999999764 36666555444 3344444443
No 57
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.82 E-value=2.2e-19 Score=211.32 Aligned_cols=376 Identities=16% Similarity=0.197 Sum_probs=226.0
Q ss_pred CCccHHHHHHHHHHHHHhhc-----CCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCCCEEEEecCCc-ccchHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNN-----QLNGILADEMGLGKTVQVIALICYLMETKN-DRGPFLVVVPSSV-LPGWESEINF 1161 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n-----~~nGILADEMGLGKTIqAIALI~~Lle~k~-~~gP~LIVvP~SL-L~nW~~Ef~K 1161 (1605)
..++|-|...+-|++.-... ....+++.+||+|||+...-.|..++..+. .+-++|||+|+.. ..|-..+|.+
T Consensus 158 s~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~ 237 (620)
T KOG0350|consen 158 SRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKR 237 (620)
T ss_pred ccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHH
Confidence 47999999999999876552 334578999999999988777777776653 3346899999985 5788999999
Q ss_pred hCCC--ceEEEEcCChhHHHHHHH--hhhhcCCccEEEEcHHHHhhccC-CCcccccCccEEEEecCccccCccchH--H
Q 000377 1162 WAPR--IHKIVYCGPPEERRRLFK--EKIVHQKFNVLLTTYEYLMNKHD-RPKLSKIQWHYIIIDEGHRIKNASCKL--N 1234 (1605)
Q Consensus 1162 waP~--l~vivy~Gs~~~R~~l~~--~~i~~~~fdVVITTYe~L~k~~D-~~~L~ki~wd~VIIDEAHriKN~~SKl--s 1234 (1605)
|++. +.|....|-..-+.+..+ ..-.....||+|+|+..|+.+.. ...+.--+..|+|||||.||.+...+- .
T Consensus 238 ~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEADRll~qsfQ~Wl~ 317 (620)
T KOG0350|consen 238 LNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDEADRLLDQSFQEWLD 317 (620)
T ss_pred hccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhccCCCCcchhhceEEEechHHHHHHHHHHHHHH
Confidence 9975 455566665544433321 11122356999999999998665 333455566899999999986644322 1
Q ss_pred HHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHH
Q 000377 1235 ADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQV 1314 (1605)
Q Consensus 1235 raL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kv 1314 (1605)
..+.......++.+++ ++..+..-.-|..+.... .-+.++ ...|.++
T Consensus 318 ~v~~~~~~~k~~~~~~--------nii~~~~~~~pt~~~e~~---t~~~~~----------------------~~~l~kL 364 (620)
T KOG0350|consen 318 TVMSLCKTMKRVACLD--------NIIRQRQAPQPTVLSELL---TKLGKL----------------------YPPLWKL 364 (620)
T ss_pred HHHHHhCCchhhcChh--------hhhhhcccCCchhhHHHH---hhcCCc----------------------CchhHhh
Confidence 2222222222222111 111111000010000000 000000 0011111
Q ss_pred hhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhh
Q 000377 1315 LRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVD 1394 (1605)
Q Consensus 1315 LrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid 1394 (1605)
+.+-. ..+.|.+. ..| -..+|-++-.....+.
T Consensus 365 ~~sat--------LsqdP~Kl--------------------------------------~~l--~l~~Prl~~v~~~~~~ 396 (620)
T KOG0350|consen 365 VFSAT--------LSQDPSKL--------------------------------------KDL--TLHIPRLFHVSKPLIG 396 (620)
T ss_pred hcchh--------hhcChHHH--------------------------------------hhh--hcCCCceEEeecccce
Confidence 11111 11112110 000 0123322211100000
Q ss_pred hc-CCCCCCChhhhhc--cHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHh----hcCceEEEEeCCCCHHHHHH
Q 000377 1395 TL-IPKHYLPPIVRLC--GKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLT----FKQYRYLRLDGHTSGGDRGA 1467 (1605)
Q Consensus 1395 ~~-i~~~~~~~lvr~S--gKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~----~~GikylrLdGsts~eERqe 1467 (1605)
.+ +|.......+-.. -|-..+..+|.. ....++|+|+........+...|. ...+++..++|+.+.+.|.+
T Consensus 397 ryslp~~l~~~~vv~~~~~kpl~~~~lI~~--~k~~r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~t~~l~~k~r~k 474 (620)
T KOG0350|consen 397 RYSLPSSLSHRLVVTEPKFKPLAVYALITS--NKLNRTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYK 474 (620)
T ss_pred eeecChhhhhceeecccccchHhHHHHHHH--hhcceEEEEecchHHHHHHHHHHHHHhccccchhhhhhhhhhHHHHHH
Confidence 00 0000000001111 133445555554 346799999999987777766665 45677778999999999999
Q ss_pred HHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000377 1468 LIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRAS 1547 (1605)
Q Consensus 1468 iId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIler 1547 (1605)
.+.+|+.++.. +|||++++.+|+|+-..+.||.||||-.-..|++|+||..|.||.- ++|.++... |++.+..
T Consensus 475 ~l~~f~~g~i~---vLIcSD~laRGiDv~~v~~VINYd~P~~~ktyVHR~GRTARAgq~G--~a~tll~~~--~~r~F~k 547 (620)
T KOG0350|consen 475 MLEKFAKGDIN---VLICSDALARGIDVNDVDNVINYDPPASDKTYVHRAGRTARAGQDG--YAITLLDKH--EKRLFSK 547 (620)
T ss_pred HHHHHhcCCce---EEEehhhhhcCCcccccceEeecCCCchhhHHHHhhcccccccCCc--eEEEeeccc--cchHHHH
Confidence 99999999887 7999999999999999999999999999999999999999999864 455555544 6666666
Q ss_pred HHHHHHH
Q 000377 1548 AEHKLGV 1554 (1605)
Q Consensus 1548 a~~Kl~L 1554 (1605)
.-+|.+.
T Consensus 548 lL~~~~~ 554 (620)
T KOG0350|consen 548 LLKKTNL 554 (620)
T ss_pred HHHHhcc
Confidence 6555444
No 58
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.80 E-value=2.1e-18 Score=203.80 Aligned_cols=342 Identities=18% Similarity=0.229 Sum_probs=223.3
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHh--------cCCCCC-EEEEecCCcc-cchHHHH
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMET--------KNDRGP-FLVVVPSSVL-PGWESEI 1159 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~--------k~~~gP-~LIVvP~SLL-~nW~~Ef 1159 (1605)
...|.|..++--++. +.+.|+..|+|+|||...+--+...+.. ....+| .+|++|+.-| .|...|-
T Consensus 267 eptpIqR~aipl~lQ----~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt 342 (673)
T KOG0333|consen 267 EPTPIQRQAIPLGLQ----NRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEET 342 (673)
T ss_pred CCchHHHhhccchhc----cCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHH
Confidence 456789998875554 7888999999999995443222221111 223344 5889999855 5578888
Q ss_pred HHhCC--CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHH
Q 000377 1160 NFWAP--RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNA 1235 (1605)
Q Consensus 1160 ~KwaP--~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--Klsr 1235 (1605)
.+|+. +++++...|.-.--.+-+ -....++|+|.|+..|........|..-...|||+|||.+|-.... ...+
T Consensus 343 ~kf~~~lg~r~vsvigg~s~EEq~f---qls~gceiviatPgrLid~Lenr~lvl~qctyvvldeadrmiDmgfE~dv~~ 419 (673)
T KOG0333|consen 343 NKFGKPLGIRTVSVIGGLSFEEQGF---QLSMGCEIVIATPGRLIDSLENRYLVLNQCTYVVLDEADRMIDMGFEPDVQK 419 (673)
T ss_pred HHhcccccceEEEEecccchhhhhh---hhhccceeeecCchHHHHHHHHHHHHhccCceEeccchhhhhcccccHHHHH
Confidence 88763 456666666543222211 1235789999999999987777778788889999999999865332 1111
Q ss_pred HHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHh
Q 000377 1236 DLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVL 1315 (1605)
Q Consensus 1236 aL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvL 1315 (1605)
. |+.-|..|-- .+.+++..| .++.+.
T Consensus 420 i-----------L~~mPssn~k---------------~~tde~~~~---------------------------~~~~~~- 445 (673)
T KOG0333|consen 420 I-----------LEQMPSSNAK---------------PDTDEKEGE---------------------------ERVRKN- 445 (673)
T ss_pred H-----------HHhCCccccC---------------CCccchhhH---------------------------HHHHhh-
Confidence 1 2222211100 000001000 011111
Q ss_pred hHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhh--ccCCCCCcchhHHHHHHHHHhcCccccchhhhhh
Q 000377 1316 RPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLG--SIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEV 1393 (1605)
Q Consensus 1316 rPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~--~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eei 1393 (1605)
|.-+ ---....++...|++.-..+.+.+...-. .++... -++|.+.+
T Consensus 446 --~~~~---------k~yrqT~mftatm~p~verlar~ylr~pv~vtig~~g--------------k~~~rveQ------ 494 (673)
T KOG0333|consen 446 --FSSS---------KKYRQTVMFTATMPPAVERLARSYLRRPVVVTIGSAG--------------KPTPRVEQ------ 494 (673)
T ss_pred --cccc---------cceeEEEEEecCCChHHHHHHHHHhhCCeEEEeccCC--------------CCccchhe------
Confidence 1000 00122344555666655444443322110 000000 01111100
Q ss_pred hhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 000377 1394 DTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFN 1473 (1605)
Q Consensus 1394 d~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN 1473 (1605)
.-..+..+.|+..|.++|... ....+|||.+....+|.|.+.|.+.||++++|||+.++++|+.++..|+
T Consensus 495 --------~v~m~~ed~k~kkL~eil~~~--~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr 564 (673)
T KOG0333|consen 495 --------KVEMVSEDEKRKKLIEILESN--FDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADFR 564 (673)
T ss_pred --------EEEEecchHHHHHHHHHHHhC--CCCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHHHHHHHHHH
Confidence 001234567899999999876 4679999999999999999999999999999999999999999999999
Q ss_pred CCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1474 QQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1474 ~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
.+..+ +|++|+++|+|||++++.+||+||..-+...|.+||||.+|.|+.-.+ ..|++..
T Consensus 565 ~~t~d---IlVaTDvAgRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~Gta--iSflt~~ 624 (673)
T KOG0333|consen 565 EGTGD---ILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGTA--ISFLTPA 624 (673)
T ss_pred hcCCC---EEEEecccccCCCCCccceeeecchhhhHHHHHHHhccccccccCcee--EEEeccc
Confidence 98887 899999999999999999999999999999999999999999976544 4445544
No 59
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.80 E-value=1.2e-18 Score=214.46 Aligned_cols=310 Identities=19% Similarity=0.219 Sum_probs=227.4
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecC-CcccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPS-SVLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~-SLL~nW~~Ef~KwaP~l~ 1167 (1605)
..+||=|.++++.+++ +.+.|...+||.||++..-.. .++. .|.+|||.|. +|+.+..+.+.... +.
T Consensus 16 ~~FR~gQ~evI~~~l~----g~d~lvvmPTGgGKSlCyQiP--All~----~G~TLVVSPLiSLM~DQV~~l~~~G--i~ 83 (590)
T COG0514 16 ASFRPGQQEIIDALLS----GKDTLVVMPTGGGKSLCYQIP--ALLL----EGLTLVVSPLISLMKDQVDQLEAAG--IR 83 (590)
T ss_pred cccCCCHHHHHHHHHc----CCcEEEEccCCCCcchHhhhH--HHhc----CCCEEEECchHHHHHHHHHHHHHcC--ce
Confidence 4788999999998887 789999999999999876322 2222 5789999997 46777888887665 33
Q ss_pred EEEEcC--ChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCcc-------chHHHHHH
Q 000377 1168 KIVYCG--PPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNAS-------CKLNADLK 1238 (1605)
Q Consensus 1168 vivy~G--s~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~-------SKlsraL~ 1238 (1605)
...... +.+++..++ ..+..+..+++..++|.+....-...+...+..+++|||||.+..+. ..+.....
T Consensus 84 A~~lnS~l~~~e~~~v~-~~l~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y~~lg~l~~ 162 (590)
T COG0514 84 AAYLNSTLSREERQQVL-NQLKSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRA 162 (590)
T ss_pred eehhhcccCHHHHHHHH-HHHhcCceeEEEECchhhcChHHHHHHHhCCCceEEechHHHHhhcCCccCHhHHHHHHHHh
Confidence 333333 445555554 45666789999999999988766667888899999999999997653 23444444
Q ss_pred hhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHH
Q 000377 1239 HYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPF 1318 (1605)
Q Consensus 1239 ~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPF 1318 (1605)
.|....+++||||--.--..|+...|..-.+.+|. ..|..|-
T Consensus 163 ~~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~------~sfdRpN-------------------------------- 204 (590)
T COG0514 163 GLPNPPVLALTATATPRVRDDIREQLGLQDANIFR------GSFDRPN-------------------------------- 204 (590)
T ss_pred hCCCCCEEEEeCCCChHHHHHHHHHhcCCCcceEE------ecCCCch--------------------------------
Confidence 55666889999998666667777766655443321 1111110
Q ss_pred HHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCC
Q 000377 1319 VLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIP 1398 (1605)
Q Consensus 1319 lLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~ 1398 (1605)
. |-.+.... +
T Consensus 205 ---------------i----------------~~~v~~~~------------~--------------------------- 214 (590)
T COG0514 205 ---------------L----------------ALKVVEKG------------E--------------------------- 214 (590)
T ss_pred ---------------h----------------hhhhhhcc------------c---------------------------
Confidence 0 00000000 0
Q ss_pred CCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCC
Q 000377 1399 KHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSP 1478 (1605)
Q Consensus 1399 ~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~ 1478 (1605)
.-.++.++.+ .....+...||||..+...+.+.++|...|+....++|++..++|+..-++|..++.+
T Consensus 215 ---------~~~q~~fi~~---~~~~~~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~~~ 282 (590)
T COG0514 215 ---------PSDQLAFLAT---VLPQLSKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIK 282 (590)
T ss_pred ---------HHHHHHHHHh---hccccCCCeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCCCc
Confidence 0001111111 1223445689999999999999999999999999999999999999999999988877
Q ss_pred eEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEE
Q 000377 1479 FFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRF 1534 (1605)
Q Consensus 1479 ~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRL 1534 (1605)
++++|.|.|.|||-++...|||||+|-+...|.|-+|||+|-|...++..++-
T Consensus 283 ---iiVAT~AFGMGIdKpdVRfViH~~lP~s~EsYyQE~GRAGRDG~~a~aill~~ 335 (590)
T COG0514 283 ---VMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAILLYS 335 (590)
T ss_pred ---EEEEeccccCccCCCCceEEEEecCCCCHHHHHHHHhhccCCCCcceEEEeec
Confidence 89999999999999999999999999999999999999999998887665543
No 60
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.77 E-value=3.2e-17 Score=208.12 Aligned_cols=333 Identities=18% Similarity=0.140 Sum_probs=224.6
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC--CC---CCEEEEecCCcccc-hHHHHHHh
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN--DR---GPFLVVVPSSVLPG-WESEINFW 1162 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~--~~---gP~LIVvP~SLL~n-W~~Ef~Kw 1162 (1605)
.+|+|.|..++..+.. +.|+++..+||+|||..|+..+...+.... .. -.+|.|.|...|.+ -..-+..|
T Consensus 21 ~~~t~~Q~~a~~~i~~----G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~ 96 (814)
T COG1201 21 TSLTPPQRYAIPEIHS----GENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEP 96 (814)
T ss_pred CCCCHHHHHHHHHHhC----CCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHH
Confidence 5789999999987765 999999999999999999866655444331 11 23799999987655 66666666
Q ss_pred CC--CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCC----cccccCccEEEEecCccccC--ccchHH
Q 000377 1163 AP--RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRP----KLSKIQWHYIIIDEGHRIKN--ASCKLN 1234 (1605)
Q Consensus 1163 aP--~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~----~L~ki~wd~VIIDEAHriKN--~~SKls 1234 (1605)
.. ++.+-+-+|+.....+ .......++|+|||++++.-..... .|.. -.+|||||.|.+.+ ..++++
T Consensus 97 ~~~~G~~v~vRhGDT~~~er---~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~--vr~VIVDEiHel~~sKRG~~Ls 171 (814)
T COG1201 97 LRELGIEVAVRHGDTPQSEK---QKMLKNPPHILITTPESLAILLNSPKFRELLRD--VRYVIVDEIHALAESKRGVQLA 171 (814)
T ss_pred HHHcCCccceecCCCChHHh---hhccCCCCcEEEeChhHHHHHhcCHHHHHHhcC--CcEEEeehhhhhhccccchhhh
Confidence 52 5566777777654332 3345578999999999996433322 2333 45799999999976 456666
Q ss_pred HHHHhh---h-ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHH
Q 000377 1235 ADLKHY---Q-SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINR 1310 (1605)
Q Consensus 1235 raL~~L---~-a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~R 1310 (1605)
-.|.++ . ...|++||||=- ++++ +..||.+.-. +.+-
T Consensus 172 l~LeRL~~l~~~~qRIGLSATV~--~~~~---varfL~g~~~------------~~~I---------------------- 212 (814)
T COG1201 172 LSLERLRELAGDFQRIGLSATVG--PPEE---VAKFLVGFGD------------PCEI---------------------- 212 (814)
T ss_pred hhHHHHHhhCcccEEEeehhccC--CHHH---HHHHhcCCCC------------ceEE----------------------
Confidence 666554 3 367899999952 3333 3334322110 0000
Q ss_pred HHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhh
Q 000377 1311 LHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHA 1390 (1605)
Q Consensus 1311 L~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~ 1390 (1605)
|......+.+..+.++-.....
T Consensus 213 ----------------v~~~~~k~~~i~v~~p~~~~~~------------------------------------------ 234 (814)
T COG1201 213 ----------------VDVSAAKKLEIKVISPVEDLIY------------------------------------------ 234 (814)
T ss_pred ----------------EEcccCCcceEEEEecCCcccc------------------------------------------
Confidence 0000011111111111000000
Q ss_pred hhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcC-ceEEEEeCCCCHHHHHHHH
Q 000377 1391 EEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQ-YRYLRLDGHTSGGDRGALI 1469 (1605)
Q Consensus 1391 eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~G-ikylrLdGsts~eERqeiI 1469 (1605)
. ..-...+.+.|.++.+....+|||++.+.+.+.+...|...+ ..+...||+.+.+.|..+-
T Consensus 235 --------------~---~~~~~~~~~~i~~~v~~~~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE 297 (814)
T COG1201 235 --------------D---EELWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVE 297 (814)
T ss_pred --------------c---cchhHHHHHHHHHHHhhcCcEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHH
Confidence 0 001223344444555556689999999999999999998887 8899999999999999999
Q ss_pred HHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhh-cccCCCCcEEEEEEEeCCCHHHHHHHHH
Q 000377 1470 DKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARA-HRIGQKRDVLVLRFETVQTVEEQVRASA 1548 (1605)
Q Consensus 1470 d~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRA-hRIGQkKeV~VyRLIt~~TIEEkIlera 1548 (1605)
++|.+++.. .++||.....|||.-.+|.||+|.+|-.-....||+||+ ||+|.... .++|+.+ .++.+.-.+
T Consensus 298 ~~lk~G~lr---avV~TSSLELGIDiG~vdlVIq~~SP~sV~r~lQRiGRsgHr~~~~Sk---g~ii~~~-r~dllE~~v 370 (814)
T COG1201 298 ERLKEGELK---AVVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGRAGHRLGEVSK---GIIIAED-RDDLLECLV 370 (814)
T ss_pred HHHhcCCce---EEEEccchhhccccCCceEEEEeCCcHHHHHHhHhccccccccCCccc---EEEEecC-HHHHHHHHH
Confidence 999998865 688999999999999999999999999999999999999 66776444 3344455 555554444
Q ss_pred HHH
Q 000377 1549 EHK 1551 (1605)
Q Consensus 1549 ~~K 1551 (1605)
..+
T Consensus 371 i~~ 373 (814)
T COG1201 371 LAD 373 (814)
T ss_pred HHH
Confidence 444
No 61
>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=99.77 E-value=2e-17 Score=210.88 Aligned_cols=106 Identities=21% Similarity=0.355 Sum_probs=88.2
Q ss_pred cCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHH-----HHHHHHhC----CC----CCeEEEEEeccccc
Q 000377 1424 ATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRG-----ALIDKFNQ----QD----SPFFIFLLSIRAGG 1490 (1605)
Q Consensus 1424 a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERq-----eiId~FN~----gd----s~~~VfLLSTrAGG 1490 (1605)
..+.++||||+....++.|...|...++ ..|+|.+++.+|. .++++|.. +. .+-..+||+|++++
T Consensus 270 e~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVae 347 (844)
T TIGR02621 270 DSGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGE 347 (844)
T ss_pred hCCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccceEEeccchhh
Confidence 4567999999999999999999998887 8999999999999 78999975 22 01135799999999
Q ss_pred cccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCc--EEEEEE
Q 000377 1491 VGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRD--VLVLRF 1534 (1605)
Q Consensus 1491 eGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKe--V~VyRL 1534 (1605)
+|||+.. ++||+++.++ ..|+||+||++|.|.... +.|+.+
T Consensus 348 rGLDId~-d~VI~d~aP~--esyIQRiGRtgR~G~~~~~~i~vv~~ 390 (844)
T TIGR02621 348 VGVNISA-DHLVCDLAPF--ESMQQRFGRVNRFGELQACQIAVVHL 390 (844)
T ss_pred hcccCCc-ceEEECCCCH--HHHHHHhcccCCCCCCCCceEEEEee
Confidence 9999975 9999988764 799999999999998644 455543
No 62
>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=99.77 E-value=5.5e-17 Score=206.74 Aligned_cols=368 Identities=15% Similarity=0.118 Sum_probs=203.7
Q ss_pred CCccHHHHHHHHHHHHHhhc------CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNN------QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINF 1161 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n------~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~K 1161 (1605)
.-.|+||..+|+.++..+.+ ..+|||.+.+|+|||++++.++..++... ...++|||||.. |..||..+|..
T Consensus 237 ~~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~-~~~~vl~lvdR~~L~~Q~~~~f~~ 315 (667)
T TIGR00348 237 PYQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELL-KNPKVFFVVDRRELDYQLMKEFQS 315 (667)
T ss_pred eehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc-CCCeEEEEECcHHHHHHHHHHHHh
Confidence 45899999999998887654 35799999999999999998888777543 334699999976 77999999999
Q ss_pred hCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC--Ccccc-cCccEEEEecCccccCccchHHHHHH
Q 000377 1162 WAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR--PKLSK-IQWHYIIIDEGHRIKNASCKLNADLK 1238 (1605)
Q Consensus 1162 waP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~--~~L~k-i~wd~VIIDEAHriKN~~SKlsraL~ 1238 (1605)
+.+... .-.++..... ..+......|+|||++.|.+.... ..+.. ....+||+|||||.. .....+.++
T Consensus 316 ~~~~~~--~~~~s~~~L~----~~l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~--~~~~~~~l~ 387 (667)
T TIGR00348 316 LQKDCA--ERIESIAELK----RLLEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQ--YGELAKNLK 387 (667)
T ss_pred hCCCCC--cccCCHHHHH----HHHhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCcccc--chHHHHHHH
Confidence 875321 1112222222 222334578999999999752211 11111 122489999999963 223445564
Q ss_pred -hhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1239 -HYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1239 -~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
.++..++++|||||+...-.+-+. .|...|..++.... +.+.
T Consensus 388 ~~~p~a~~lGfTaTP~~~~d~~t~~--------------~f~~~fg~~i~~Y~--------------------~~~A--- 430 (667)
T TIGR00348 388 KALKNASFFGFTGTPIFKKDRDTSL--------------TFAYVFGRYLHRYF--------------------ITDA--- 430 (667)
T ss_pred hhCCCCcEEEEeCCCcccccccccc--------------cccCCCCCeEEEee--------------------HHHH---
Confidence 567789999999997542111111 11111112211100 0000
Q ss_pred HHHHHhhhhHhhc-CccceEEEEEec--ccHHH-HHHHHHH-HHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhh
Q 000377 1318 FVLRRLKHKVENE-LPEKIERLVRCE--ASAYQ-KLLMKRV-EENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEE 1392 (1605)
Q Consensus 1318 FlLRRtKkdVe~e-LP~K~E~vI~~e--LS~~Q-k~LYk~I-~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~ee 1392 (1605)
+... +-+.....+.+. ++... ...++.. ..............+......+..+..+|..
T Consensus 431 ---------I~dG~~~~i~Y~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~------- 494 (667)
T TIGR00348 431 ---------IRDGLTVKIDYEDRLPEDHLDRKKLDAFFDEIFELLPERIREITKESLKEKLQKTKKILFNEDR------- 494 (667)
T ss_pred ---------hhcCCeeeEEEEecchhhccChHHHHHHHHHHHHhhhccccHHHHHHHHHHHHHHHhhhcChHH-------
Confidence 0000 000000011110 11000 0001100 0000000000000011111111111111111
Q ss_pred hhhcCCCCCCChhhhhccHHHHHHHHHHHhh-cCCCeEEEEEccHHHHHHHHHHHhhc-----CceEEEEeCCCCHH---
Q 000377 1393 VDTLIPKHYLPPIVRLCGKLEMLDRLLPKLK-ATDHRVLFFSTMTRLLDVMEDYLTFK-----QYRYLRLDGHTSGG--- 1463 (1605)
Q Consensus 1393 id~~i~~~~~~~lvr~SgKle~L~~LL~kL~-a~g~KVLIFSQft~~LdiLe~~L~~~-----GikylrLdGsts~e--- 1463 (1605)
.....+.+.+...+.. ..+.|.+|||..+..+..+.+.|... +...+.++|+...+
T Consensus 495 ---------------~~~ia~~i~~h~~~~~~~~~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s~~~~~~~~~ 559 (667)
T TIGR00348 495 ---------------LESIAKDIAEHYAKFKELFKFKAMVVAISRYACVEEKNALDEELNEKFEASAIVMTGKESDDAEI 559 (667)
T ss_pred ---------------HHHHHHHHHHHHHHhhhcccCceeEEEecHHHHHHHHHHHHhhcccccCCeeEEecCCccchhHH
Confidence 0111222222222222 23589999999999888887776543 34556777765432
Q ss_pred ------------------HHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhccc-C
Q 000377 1464 ------------------DRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRI-G 1524 (1605)
Q Consensus 1464 ------------------ERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRI-G 1524 (1605)
....++++|..++ ++. +||.++...+|+|.+.++++++.-|--+ +...|++||+.|+ .
T Consensus 560 ~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~-~~~-ilIVvdmllTGFDaP~l~tLyldKplk~-h~LlQai~R~nR~~~ 636 (667)
T TIGR00348 560 RDYNKHIRTKFDKSDGFEIYYKDLERFKKEE-NPK-LLIVVDMLLTGFDAPILNTLYLDKPLKY-HGLLQAIARTNRIDG 636 (667)
T ss_pred HHHHHHhccccccchhhhHHHHHHHHhcCCC-Cce-EEEEEcccccccCCCccceEEEeccccc-cHHHHHHHHhccccC
Confidence 2347899997642 333 5667799999999999999998888765 4589999999995 4
Q ss_pred CCC-cEEEEEEEe
Q 000377 1525 QKR-DVLVLRFET 1536 (1605)
Q Consensus 1525 QkK-eV~VyRLIt 1536 (1605)
..| ...|+.++-
T Consensus 637 ~~K~~g~IvDy~g 649 (667)
T TIGR00348 637 KDKTFGLIVDYRG 649 (667)
T ss_pred CCCCCEEEEECcC
Confidence 434 477777765
No 63
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=3.3e-18 Score=190.21 Aligned_cols=317 Identities=15% Similarity=0.222 Sum_probs=218.6
Q ss_pred HHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhCC--CceEEE
Q 000377 1094 YQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWAP--RIHKIV 1170 (1605)
Q Consensus 1094 YQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~KwaP--~l~viv 1170 (1605)
.|..++-.++. +.++|.-...|+|||.+.---++.........--+||+.|+.-+ .|-..-+.-... ++.+..
T Consensus 53 IQqrAi~~Ilk----GrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~ha 128 (400)
T KOG0328|consen 53 IQQRAIPQILK----GRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDYMNVQCHA 128 (400)
T ss_pred HHhhhhhhhhc----ccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhcccccceEEE
Confidence 37777777766 88899999999999976422222222222222348999999865 444444444433 456666
Q ss_pred EcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC--ccchHHHHHHhhh-ccceec
Q 000377 1171 YCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN--ASCKLNADLKHYQ-SSHRLL 1247 (1605)
Q Consensus 1171 y~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN--~~SKlsraL~~L~-a~~RLL 1247 (1605)
..|...-...+... ....+||.-|+..+..-..+..|.-....++|+|||..|.| ...+.+...+.++ ....++
T Consensus 129 cigg~n~gedikkl---d~G~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDEaDemL~kgfk~Qiydiyr~lp~~~Qvv~ 205 (400)
T KOG0328|consen 129 CIGGKNLGEDIKKL---DYGQHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEADEMLNKGFKEQIYDIYRYLPPGAQVVL 205 (400)
T ss_pred EecCCccchhhhhh---cccceEeeCCCchHHHHHHhccccccceeEEEeccHHHHHHhhHHHHHHHHHHhCCCCceEEE
Confidence 66665433222111 24678899998888665556677777889999999999976 4556777777775 567788
Q ss_pred ccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHhhhhH
Q 000377 1248 LTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRRLKHKV 1327 (1605)
Q Consensus 1248 LTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtKkdV 1327 (1605)
+|||- +.|+..+.++..+
T Consensus 206 ~SATl----p~eilemt~kfmt---------------------------------------------------------- 223 (400)
T KOG0328|consen 206 VSATL----PHEILEMTEKFMT---------------------------------------------------------- 223 (400)
T ss_pred EeccC----cHHHHHHHHHhcC----------------------------------------------------------
Confidence 99995 2444443333222
Q ss_pred hhcCccceEEEEEe-cccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCCChhh
Q 000377 1328 ENELPEKIERLVRC-EASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYLPPIV 1406 (1605)
Q Consensus 1328 e~eLP~K~E~vI~~-eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~~~lv 1406 (1605)
+.+...++- +++..- + .+ |......+
T Consensus 224 -----dpvrilvkrdeltlEg------I----------------------Kq-----f~v~ve~E--------------- 250 (400)
T KOG0328|consen 224 -----DPVRILVKRDELTLEG------I----------------------KQ-----FFVAVEKE--------------- 250 (400)
T ss_pred -----CceeEEEecCCCchhh------h----------------------hh-----heeeechh---------------
Confidence 221111111 011000 0 00 00000000
Q ss_pred hhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEec
Q 000377 1407 RLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSI 1486 (1605)
Q Consensus 1407 r~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLST 1486 (1605)
.=|+..|.++...+- -...+|||+.....|+|.+.|+..++.+..++|.++++||++++.+|+.+.+. +|++|
T Consensus 251 --ewKfdtLcdLYd~Lt--ItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~Sr---vLitT 323 (400)
T KOG0328|consen 251 --EWKFDTLCDLYDTLT--ITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSR---VLITT 323 (400)
T ss_pred --hhhHhHHHHHhhhhe--hheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCce---EEEEe
Confidence 016666666666542 34789999999999999999999999999999999999999999999999987 89999
Q ss_pred cccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHH
Q 000377 1487 RAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVE 1541 (1605)
Q Consensus 1487 rAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIE 1541 (1605)
++-++|+|+|..+.||+||.|-|+..|++|+||.+|.|.+ -.++.|+..+.++
T Consensus 324 DVwaRGiDv~qVslviNYDLP~nre~YIHRIGRSGRFGRk--GvainFVk~~d~~ 376 (400)
T KOG0328|consen 324 DVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK--GVAINFVKSDDLR 376 (400)
T ss_pred chhhccCCcceeEEEEecCCCccHHHHhhhhccccccCCc--ceEEEEecHHHHH
Confidence 9999999999999999999999999999999999999965 3456777766443
No 64
>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=99.77 E-value=7.9e-17 Score=203.75 Aligned_cols=386 Identities=16% Similarity=0.169 Sum_probs=219.0
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHHHHHhCC--Cc
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESEINFWAP--RI 1166 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~Ef~KwaP--~l 1166 (1605)
.|+|||.+.+..++. +.|+|+...||.|||++++..+...... ...++||+|+.- ..+|..++..++. ++
T Consensus 68 glrpydVQlig~l~l----~~G~Iaem~TGeGKTLta~Lpa~l~aL~---g~~V~VVTpn~yLA~Rdae~m~~l~~~LGL 140 (762)
T TIGR03714 68 GMFPYDVQVLGAIVL----HQGNIAEMKTGEGKTLTATMPLYLNALT---GKGAMLVTTNDYLAKRDAEEMGPVYEWLGL 140 (762)
T ss_pred CCCccHHHHHHHHHh----cCCceeEecCCcchHHHHHHHHHHHhhc---CCceEEeCCCHHHHHHHHHHHHHHHhhcCC
Confidence 478888888876654 4567999999999999987554322221 234899999984 4666666644432 34
Q ss_pred eEEEE-cCChhH-HHHHHHhhhhcCCccEEEEcHHHHhhcc--C-----CCcccccCccEEEEecCccccCccchHHHHH
Q 000377 1167 HKIVY-CGPPEE-RRRLFKEKIVHQKFNVLLTTYEYLMNKH--D-----RPKLSKIQWHYIIIDEGHRIKNASCKLNADL 1237 (1605)
Q Consensus 1167 ~vivy-~Gs~~~-R~~l~~~~i~~~~fdVVITTYe~L~k~~--D-----~~~L~ki~wd~VIIDEAHriKN~~SKlsraL 1237 (1605)
.+.+. .+.... ....... ....++|+++|...|..+. | ...+....+.++||||||.|.-..
T Consensus 141 sv~~~~~~s~~~~~~~~~rr--~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDe------- 211 (762)
T TIGR03714 141 TVSLGVVDDPDEEYDANEKR--KIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDS------- 211 (762)
T ss_pred cEEEEECCCCccccCHHHHH--HhCCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhcc-------
Confidence 45443 331111 1000011 1146899999998883211 1 111223457799999999974332
Q ss_pred HhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCC------------------hHHHHHHhcccccCCCCCCchhhhh
Q 000377 1238 KHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNS------------------SEDFSQWFNKPFESNGDNSPDEALL 1299 (1605)
Q Consensus 1238 ~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s------------------~~~F~e~F~kP~e~~g~~~~~e~~L 1299 (1605)
+...|++||.|-.. ..+|..++-+...+-.. ...-++.|..+ . +
T Consensus 212 ----artpliisg~~~~~--~~~y~~~~~~v~~l~~~~dy~~d~~~~~v~lt~~G~~~~e~~~~~~--~----------l 273 (762)
T TIGR03714 212 ----AQTPLVISGAPRVQ--SNLYHIADTFVRTLKEDVDYIFKKDKKEVWLTDKGIEKAEQYFKID--N----------L 273 (762)
T ss_pred ----CcCCeeeeCCCccc--hHHHHHHHHHHHhcCCCCCeEEEcCCCeeeecHhHHHHHHHHcCCC--c----------c
Confidence 34568899977433 45777665433322111 00111111100 0 0
Q ss_pred hHHHHHHHHHHHHHHhhHH-HHHHhhhhHhhcCccceEEEEEeccc-------HHHHHHHHHHHHHhhccCCCCCc----
Q 000377 1300 SEEENLLIINRLHQVLRPF-VLRRLKHKVENELPEKIERLVRCEAS-------AYQKLLMKRVEENLGSIGNSKGR---- 1367 (1605)
Q Consensus 1300 seee~~~iI~RL~kvLrPF-lLRRtKkdVe~eLP~K~E~vI~~eLS-------~~Qk~LYk~I~~~l~~~~~~k~~---- 1367 (1605)
-..+....+..+...|+-. ++.|-+.-+ ..+. +.++.-+.| .|+.-+.+.++..-+-.-.....
T Consensus 274 ~~~~~~~~~~~i~~al~A~~~~~~d~dYi---V~~~-~v~ivD~~TGr~~~gr~~~~GLhQaieaKE~v~i~~e~~t~a~ 349 (762)
T TIGR03714 274 YSEEYFELVRHINLALRAHYLFKRNKDYV---VTNG-EVVLLDRITGRLLEGTKLQSGIHQAIEAKEHVELSKETRAMAS 349 (762)
T ss_pred CChhhHHHHHHHHHHHHHHHHHhcCCceE---EECC-EEEEEECCCCcCCCCCCcchHHHHHHHhhcCCCCCCCceeeee
Confidence 0001112233344444432 222211111 1111 111111222 23333434333211100000000
Q ss_pred -chhHH-----------------HHHHHHHhcCccccchhhhhhhhcCCCCC------CC--hhhhhccHHHHHHHHHHH
Q 000377 1368 -SVHNS-----------------VMELRNICNHPYLSQLHAEEVDTLIPKHY------LP--PIVRLCGKLEMLDRLLPK 1421 (1605)
Q Consensus 1368 -~lln~-----------------L~qLRkicnHP~L~~~~~eeid~~i~~~~------~~--~lvr~SgKle~L~~LL~k 1421 (1605)
...+. -..+.++.+-+.+. +|.+. .+ .......|+.++.+.+.+
T Consensus 350 It~qn~Fr~Y~kl~GmTGTa~~~~~Ef~~iY~l~v~~----------IPt~kp~~r~d~~d~i~~~~~~K~~ai~~~i~~ 419 (762)
T TIGR03714 350 ITYQNLFKMFNKLSGMTGTGKVAEKEFIETYSLSVVK----------IPTNKPIIRIDYPDKIYATLPEKLMATLEDVKE 419 (762)
T ss_pred eeHHHHHhhCchhcccCCCChhHHHHHHHHhCCCEEE----------cCCCCCeeeeeCCCeEEECHHHHHHHHHHHHHH
Confidence 01111 12233333322211 11110 01 122345689999999988
Q ss_pred hhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcc-----
Q 000377 1422 LKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQ----- 1496 (1605)
Q Consensus 1422 L~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq----- 1496 (1605)
+...+..|||||......+.+...|...|+++..|+|.+...+|..+...|+.+ -++|+|+.+|+|+|+.
T Consensus 420 ~~~~~~pvLIft~s~~~se~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~g-----~VlIATdmAgRGtDI~l~~~v 494 (762)
T TIGR03714 420 YHETGQPVLLITGSVEMSEIYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQKG-----AVTVATSMAGRGTDIKLGKGV 494 (762)
T ss_pred HhhCCCCEEEEECcHHHHHHHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCCC-----eEEEEccccccccCCCCCccc
Confidence 888899999999999999999999999999999999999988877666666443 2789999999999999
Q ss_pred ----cCCEEEEEcCCCChhhHHHHhhhhcccCCCCcE
Q 000377 1497 ----AADTVIIFDTDWNPQVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1497 ----~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV 1529 (1605)
..++||.|+++-+... .|+.||++|.|..-.+
T Consensus 495 ~~~GGL~vIit~~~ps~rid-~qr~GRtGRqG~~G~s 530 (762)
T TIGR03714 495 AELGGLAVIGTERMENSRVD-LQLRGRSGRQGDPGSS 530 (762)
T ss_pred cccCCeEEEEecCCCCcHHH-HHhhhcccCCCCceeE
Confidence 8899999999977655 9999999999876543
No 65
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.77 E-value=7.4e-18 Score=209.06 Aligned_cols=357 Identities=15% Similarity=0.194 Sum_probs=224.1
Q ss_pred CCCCccHHHHHHHHHHHHHhhcCC-CeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCC
Q 000377 1087 QGGKLREYQMSGLRWLVSLYNNQL-NGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAP 1164 (1605)
Q Consensus 1087 ~gg~LRpYQleGL~wLlsL~~n~~-nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP 1164 (1605)
....+|+||..+++.+...+.++. ..+|++.||+|||.+||++|..|+..+.. +++|+++-.. ++.|-..+|..+.|
T Consensus 162 s~i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~-KRVLFLaDR~~Lv~QA~~af~~~~P 240 (875)
T COG4096 162 SAIGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWV-KRVLFLADRNALVDQAYGAFEDFLP 240 (875)
T ss_pred ccccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchh-heeeEEechHHHHHHHHHHHHHhCC
Confidence 346899999999999999887765 47899999999999999999999887654 4599999854 77888889999999
Q ss_pred CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCC-----cccccCccEEEEecCccccCccchHHHHHHh
Q 000377 1165 RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRP-----KLSKIQWHYIIIDEGHRIKNASCKLNADLKH 1239 (1605)
Q Consensus 1165 ~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~-----~L~ki~wd~VIIDEAHriKN~~SKlsraL~~ 1239 (1605)
........... .....+.|+|+||+++....... .+..-.||+||||||||- ..+.++.+-.
T Consensus 241 ~~~~~n~i~~~----------~~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRg---i~~~~~~I~d 307 (875)
T COG4096 241 FGTKMNKIEDK----------KGDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRG---IYSEWSSILD 307 (875)
T ss_pred Cccceeeeecc----------cCCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhh---HHhhhHHHHH
Confidence 76554432211 11236899999999998654322 345556999999999993 3445556667
Q ss_pred hhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHh-cccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHH
Q 000377 1240 YQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWF-NKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPF 1318 (1605)
Q Consensus 1240 L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F-~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPF 1318 (1605)
|-...+++|||||-..--..-+. +| ..|+....- ...+.
T Consensus 308 YFdA~~~gLTATP~~~~d~~T~~------------------~F~g~Pt~~Ysl--------------------eeAV~-- 347 (875)
T COG4096 308 YFDAATQGLTATPKETIDRSTYG------------------FFNGEPTYAYSL--------------------EEAVE-- 347 (875)
T ss_pred HHHHHHHhhccCccccccccccc------------------ccCCCcceeecH--------------------HHHhh--
Confidence 77778888899995421111111 12 333322110 00000
Q ss_pred HHHHhhhhHhhcCccce-EEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcC
Q 000377 1319 VLRRLKHKVENELPEKI-ERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLI 1397 (1605)
Q Consensus 1319 lLRRtKkdVe~eLP~K~-E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i 1397 (1605)
.-+ -.|.+. ...+..+...+. |....+.....+ +.... + +...
T Consensus 348 ------DGf--Lvpy~vi~i~~~~~~~G~~---~~~~serek~~g---------------~~i~~--------d--d~~~ 391 (875)
T COG4096 348 ------DGF--LVPYKVIRIDTDFDLDGWK---PDAGSEREKLQG---------------EAIDE--------D--DQNF 391 (875)
T ss_pred ------ccc--cCCCCceEEeeeccccCcC---cCccchhhhhhc---------------cccCc--------c--cccc
Confidence 000 012211 111111111100 000000000000 00000 0 0000
Q ss_pred CCCCCChhhhhccHHHHHHHHHHHhhcC---C---CeEEEEEccHHHHHHHHHHHhhc----C-ceEEEEeCCCCHHHHH
Q 000377 1398 PKHYLPPIVRLCGKLEMLDRLLPKLKAT---D---HRVLFFSTMTRLLDVMEDYLTFK----Q-YRYLRLDGHTSGGDRG 1466 (1605)
Q Consensus 1398 ~~~~~~~lvr~SgKle~L~~LL~kL~a~---g---~KVLIFSQft~~LdiLe~~L~~~----G-ikylrLdGsts~eERq 1466 (1605)
.....+..+......+.+++.|.++... | .|.||||....+++.|...|... + --++.++|... +-+
T Consensus 392 ~~~d~dr~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d~~--~~q 469 (875)
T COG4096 392 EARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGDAE--QAQ 469 (875)
T ss_pred cccccchhccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCccccCceEEEEeccch--hhH
Confidence 0000111111223345555555555443 3 58999999999999999998653 2 23456788765 556
Q ss_pred HHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccC-------CCCc-EEEEEEEe
Q 000377 1467 ALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIG-------QKRD-VLVLRFET 1536 (1605)
Q Consensus 1467 eiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIG-------QkKe-V~VyRLIt 1536 (1605)
..|+.|-. +..+-.+.+|.+.+.+|+|.+.|-.+|++-.-.+-..+.|.+||+-|+. |.|. +.|+.++-
T Consensus 470 ~~Id~f~~-ke~~P~IaitvdlL~TGiDvpev~nlVF~r~VrSktkF~QMvGRGTRl~~~~~~~~~dK~~F~ifDf~~ 546 (875)
T COG4096 470 ALIDNFID-KEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQMVGRGTRLCPDLGGPEQDKEFFTIFDFVD 546 (875)
T ss_pred HHHHHHHh-cCCCCceEEehhhhhcCCCchheeeeeehhhhhhHHHHHHHhcCccccCccccCccccceeEEEEEhhh
Confidence 67888855 3445568999999999999999999999999999999999999999954 4444 77777764
No 66
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.76 E-value=2.9e-17 Score=193.56 Aligned_cols=329 Identities=17% Similarity=0.244 Sum_probs=217.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCC---CCEEEEecCCcc----cchHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDR---GPFLVVVPSSVL----PGWESEINF 1161 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~---gP~LIVvP~SLL----~nW~~Ef~K 1161 (1605)
....|.|...+--.+. +...+-|..||+|||...+..++.-+.+++.. .++||+||+.-| .+....+..
T Consensus 202 ~~PTpIQ~a~IPvall----gkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaq 277 (691)
T KOG0338|consen 202 KKPTPIQVATIPVALL----GKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQ 277 (691)
T ss_pred CCCCchhhhcccHHhh----cchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHh
Confidence 3567788888875544 55667788999999987766665544444333 358999999843 345566677
Q ss_pred hCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCC-cccccCccEEEEecCccccCcc--chHHHHHH
Q 000377 1162 WAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRP-KLSKIQWHYIIIDEGHRIKNAS--CKLNADLK 1238 (1605)
Q Consensus 1162 waP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~-~L~ki~wd~VIIDEAHriKN~~--SKlsraL~ 1238 (1605)
|+. +.+....|.-.-+. ++......+||||.|+..|+.+.... .+.--...++|+|||.||.... ..+...++
T Consensus 278 Ft~-I~~~L~vGGL~lk~---QE~~LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRMLeegFademnEii~ 353 (691)
T KOG0338|consen 278 FTD-ITVGLAVGGLDLKA---QEAVLRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRMLEEGFADEMNEIIR 353 (691)
T ss_pred hcc-ceeeeeecCccHHH---HHHHHhhCCCEEEecchhHHHHhccCCCccccceeEEEechHHHHHHHHHHHHHHHHHH
Confidence 774 77777777765553 34445578999999999998765433 2334456789999999996533 23333333
Q ss_pred hh-hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1239 HY-QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1239 ~L-~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
.. +.+..+|.|||- ...+.||.++- .++|+...-+...+.. ..|+
T Consensus 354 lcpk~RQTmLFSATM-teeVkdL~slS-----------------L~kPvrifvd~~~~~a---------------~~Lt- 399 (691)
T KOG0338|consen 354 LCPKNRQTMLFSATM-TEEVKDLASLS-----------------LNKPVRIFVDPNKDTA---------------PKLT- 399 (691)
T ss_pred hccccccceeehhhh-HHHHHHHHHhh-----------------cCCCeEEEeCCccccc---------------hhhh-
Confidence 22 223348888884 22233333321 1112111100000000 0000
Q ss_pred HHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcC
Q 000377 1318 FVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLI 1397 (1605)
Q Consensus 1318 FlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i 1397 (1605)
+. +.++| |
T Consensus 400 ----------------------------------QE-------------------FiRIR-----~-------------- 407 (691)
T KOG0338|consen 400 ----------------------------------QE-------------------FIRIR-----P-------------- 407 (691)
T ss_pred ----------------------------------HH-------------------Hheec-----c--------------
Confidence 00 00000 0
Q ss_pred CCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCC
Q 000377 1398 PKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDS 1477 (1605)
Q Consensus 1398 ~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds 1477 (1605)
. +..-+-.+|..++..+. ..+++||++....+..|.-.|...|+++.-|+|+.++.+|-+.+..|.....
T Consensus 408 -~-------re~dRea~l~~l~~rtf--~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~ei 477 (691)
T KOG0338|consen 408 -K-------REGDREAMLASLITRTF--QDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEI 477 (691)
T ss_pred -c-------cccccHHHHHHHHHHhc--ccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhccC
Confidence 0 00012233444444443 4689999999999999999999999999999999999999999999999988
Q ss_pred CeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHH
Q 000377 1478 PFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASA 1548 (1605)
Q Consensus 1478 ~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera 1548 (1605)
+ |||+|+++++|||+..+-+||+|+.|-+-..|++|+||..|.|.. -+-+.|+..+ |.+|+.-+
T Consensus 478 d---vLiaTDvAsRGLDI~gV~tVINy~mP~t~e~Y~HRVGRTARAGRa--GrsVtlvgE~--dRkllK~i 541 (691)
T KOG0338|consen 478 D---VLIATDVASRGLDIEGVQTVINYAMPKTIEHYLHRVGRTARAGRA--GRSVTLVGES--DRKLLKEI 541 (691)
T ss_pred C---EEEEechhhccCCccceeEEEeccCchhHHHHHHHhhhhhhcccC--cceEEEeccc--cHHHHHHH
Confidence 8 899999999999999999999999999999999999999998854 3444566665 66665543
No 67
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.76 E-value=2e-17 Score=198.07 Aligned_cols=326 Identities=19% Similarity=0.287 Sum_probs=213.9
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHH-HHHHHHhcCC---------CCCEEEEecCC-cccchH
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIAL-ICYLMETKND---------RGPFLVVVPSS-VLPGWE 1156 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIAL-I~~Lle~k~~---------~gP~LIVvP~S-LL~nW~ 1156 (1605)
...+.|+|..++.-+.. +.+.+.|..||+|||...+-- +.++++.+.. ....||++|+. ++.|-.
T Consensus 94 ~~~ptpvQk~sip~i~~----Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~ 169 (482)
T KOG0335|consen 94 YTKPTPVQKYSIPIISG----GRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIY 169 (482)
T ss_pred ccCCCcceeeccceeec----CCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHH
Confidence 35788999999976655 778889999999999888754 4455554321 12479999998 678899
Q ss_pred HHHHHhCC--CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHH
Q 000377 1157 SEINFWAP--RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLN 1234 (1605)
Q Consensus 1157 ~Ef~KwaP--~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKls 1234 (1605)
.|.+++.. .++.++.+|....+... ......++++++|...+..-.++..+..-...++|||||.+|....+
T Consensus 170 nea~k~~~~s~~~~~~~ygg~~~~~q~---~~~~~gcdIlvaTpGrL~d~~e~g~i~l~~~k~~vLDEADrMlD~mg--- 243 (482)
T KOG0335|consen 170 NEARKFSYLSGMKSVVVYGGTDLGAQL---RFIKRGCDILVATPGRLKDLIERGKISLDNCKFLVLDEADRMLDEMG--- 243 (482)
T ss_pred HHHHhhcccccceeeeeeCCcchhhhh---hhhccCccEEEecCchhhhhhhcceeehhhCcEEEecchHHhhhhcc---
Confidence 99999874 45555544544444332 22347899999999999876666666555666999999999855211
Q ss_pred HHHHhhhcc--ceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHH
Q 000377 1235 ADLKHYQSS--HRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLH 1312 (1605)
Q Consensus 1235 raL~~L~a~--~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~ 1312 (1605)
|-.. +.+.-+++|..++..-+ + |...|.. .+.
T Consensus 244 -----F~p~Ir~iv~~~~~~~~~~~qt~------m----------FSAtfp~-------------------------~iq 277 (482)
T KOG0335|consen 244 -----FEPQIRKIVEQLGMPPKNNRQTL------L----------FSATFPK-------------------------EIQ 277 (482)
T ss_pred -----ccccHHHHhcccCCCCccceeEE------E----------EeccCCh-------------------------hhh
Confidence 1111 11112222211110000 0 0000000 011
Q ss_pred HHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhh
Q 000377 1313 QVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEE 1392 (1605)
Q Consensus 1313 kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~ee 1392 (1605)
.+...|+.- - ...+.+ ...+.... .+ .| .++
T Consensus 278 ~l~~~fl~~---------~----yi~laV-----------------~rvg~~~~-ni-------~q--~i~--------- 308 (482)
T KOG0335|consen 278 RLAADFLKD---------N----YIFLAV-----------------GRVGSTSE-NI-------TQ--KIL--------- 308 (482)
T ss_pred hhHHHHhhc---------c----ceEEEE-----------------eeeccccc-cc-------ee--Eee---------
Confidence 111111100 0 000000 00000000 00 00 001
Q ss_pred hhhcCCCCCCChhhhhccHHHHHHHHHHHhhcC-------CCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHH
Q 000377 1393 VDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKAT-------DHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDR 1465 (1605)
Q Consensus 1393 id~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~-------g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eER 1465 (1605)
.+....|...|.++|.+.... .++++||+...+.++.+..+|...++++..++|.-++.+|
T Consensus 309 ------------~V~~~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er 376 (482)
T KOG0335|consen 309 ------------FVNEMEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIER 376 (482)
T ss_pred ------------eecchhhHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhcCCCCceeecchhhhhHH
Confidence 122344667777777655421 2589999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEE
Q 000377 1466 GALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLR 1533 (1605)
Q Consensus 1466 qeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyR 1533 (1605)
.+.++.|+.+..+ +|++|.++.+|||+...++||+||.|-+-..|.+|+||++|.|+.--.+.|.
T Consensus 377 ~~al~~Fr~g~~p---vlVaT~VaaRGlDi~~V~hVInyDmP~d~d~YvHRIGRTGR~Gn~G~atsf~ 441 (482)
T KOG0335|consen 377 EQALNDFRNGKAP---VLVATNVAARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGNGGRATSFF 441 (482)
T ss_pred HHHHHHhhcCCcc---eEEEehhhhcCCCCCCCceeEEeecCcchhhHHHhccccccCCCCceeEEEe
Confidence 9999999999888 8999999999999999999999999999999999999999999886555443
No 68
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.76 E-value=7e-17 Score=189.67 Aligned_cols=333 Identities=19% Similarity=0.260 Sum_probs=222.9
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCC----CEEEEecCCccc-c---hHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-DRG----PFLVVVPSSVLP-G---WESEI 1159 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-~~g----P~LIVvP~SLL~-n---W~~Ef 1159 (1605)
....|-|..++-.++. +..+++-..||+|||+..+..+...+.... ... -.|||.|+.-+. | -...|
T Consensus 27 ~~mTpVQa~tIPlll~----~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F 102 (567)
T KOG0345|consen 27 EKMTPVQAATIPLLLK----NKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPF 102 (567)
T ss_pred cccCHHHHhhhHHHhc----CCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHH
Confidence 4788999999987776 788888899999999988877776663222 222 259999998543 3 44456
Q ss_pred HHhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC--CcccccCccEEEEecCccccCccc--hHHH
Q 000377 1160 NFWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR--PKLSKIQWHYIIIDEGHRIKNASC--KLNA 1235 (1605)
Q Consensus 1160 ~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~--~~L~ki~wd~VIIDEAHriKN~~S--Klsr 1235 (1605)
..+++++.+..+.|.......+ ..+.....+|+|.|++.+..-..+ ..+.-....++|+|||+++..... .+..
T Consensus 103 ~~~l~~l~~~l~vGG~~v~~Di--~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDEADrLldmgFe~~~n~ 180 (567)
T KOG0345|consen 103 LEHLPNLNCELLVGGRSVEEDI--KTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEADRLLDMGFEASVNT 180 (567)
T ss_pred HHhhhccceEEEecCccHHHHH--HHHHHhCCcEEEeCchhHHHHHhchhhhccccccceEEecchHhHhcccHHHHHHH
Confidence 6667889999999986554433 233446789999999988543222 223434567999999999976443 4455
Q ss_pred HHHhhhcccee-cccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHH
Q 000377 1236 DLKHYQSSHRL-LLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQV 1314 (1605)
Q Consensus 1236 aL~~L~a~~RL-LLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kv 1314 (1605)
+|..++..+|- |.|||-.+. .++| . .
T Consensus 181 ILs~LPKQRRTGLFSATq~~~-v~dL---~--------------r----------------------------------- 207 (567)
T KOG0345|consen 181 ILSFLPKQRRTGLFSATQTQE-VEDL---A--------------R----------------------------------- 207 (567)
T ss_pred HHHhcccccccccccchhhHH-HHHH---H--------------H-----------------------------------
Confidence 56666555553 456664100 0000 0 0
Q ss_pred hhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhh
Q 000377 1315 LRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVD 1394 (1605)
Q Consensus 1315 LrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid 1394 (1605)
+-|| ..+...+... .... -|.-
T Consensus 208 ---aGLR-----------Npv~V~V~~k-----------------------~~~~------------tPS~--------- 229 (567)
T KOG0345|consen 208 ---AGLR-----------NPVRVSVKEK-----------------------SKSA------------TPSS--------- 229 (567)
T ss_pred ---hhcc-----------Cceeeeeccc-----------------------cccc------------Cchh---------
Confidence 0000 0000000000 0000 0000
Q ss_pred hcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh--cCceEEEEeCCCCHHHHHHHHHHH
Q 000377 1395 TLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF--KQYRYLRLDGHTSGGDRGALIDKF 1472 (1605)
Q Consensus 1395 ~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~--~GikylrLdGsts~eERqeiId~F 1472 (1605)
.......+...-|+..|+.+|.. ...+|+|||.......++....|.. .....+.+||.++...|..+++.|
T Consensus 230 ----L~~~Y~v~~a~eK~~~lv~~L~~--~~~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F 303 (567)
T KOG0345|consen 230 ----LALEYLVCEADEKLSQLVHLLNN--NKDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAF 303 (567)
T ss_pred ----hcceeeEecHHHHHHHHHHHHhc--cccccEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHH
Confidence 00001122334588899999986 5668999999999888888777754 467899999999999999999999
Q ss_pred hCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000377 1473 NQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHK 1551 (1605)
Q Consensus 1473 N~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~K 1551 (1605)
.+.... +|+||+++.+|||++..|.||.||||-+|..+.+|.||+.|.|..-.-.||- .. -|+...+.+.-|
T Consensus 304 ~~~~~~---vl~~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~Aivfl--~p--~E~aYveFl~i~ 375 (567)
T KOG0345|consen 304 RKLSNG---VLFCTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNAIVFL--NP--REEAYVEFLRIK 375 (567)
T ss_pred HhccCc---eEEeehhhhccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccceEEEe--cc--cHHHHHHHHHhc
Confidence 874443 7999999999999999999999999999999999999999999875544442 22 355554544443
No 69
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.75 E-value=6.4e-17 Score=191.20 Aligned_cols=332 Identities=16% Similarity=0.201 Sum_probs=213.8
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC----CCCCEEEEecCCcc-cchH---HHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN----DRGPFLVVVPSSVL-PGWE---SEIN 1160 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~----~~gP~LIVvP~SLL-~nW~---~Ef~ 1160 (1605)
.++.+-|...+.-++. +.+.+.+.-||+|||+..+-.+..++.... ..--+|||||+.-+ .|-. .++-
T Consensus 103 ~~MT~VQ~~ti~pll~----gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll 178 (543)
T KOG0342|consen 103 ETMTPVQQKTIPPLLE----GKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELL 178 (543)
T ss_pred cchhHHHHhhcCccCC----CccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHHH
Confidence 3688888888876665 678999999999999877654444433211 11237999999855 4443 4455
Q ss_pred HhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCc-ccccCccEEEEecCccccCccc--hHHHHH
Q 000377 1161 FWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPK-LSKIQWHYIIIDEGHRIKNASC--KLNADL 1237 (1605)
Q Consensus 1161 KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~-L~ki~wd~VIIDEAHriKN~~S--KlsraL 1237 (1605)
++.++..+.+..|....+... ..+. ...+++|.|+..|..+.+... +.-..-+++|+|||.++..... -+-+++
T Consensus 179 ~~h~~~~v~~viGG~~~~~e~--~kl~-k~~niliATPGRLlDHlqNt~~f~~r~~k~lvlDEADrlLd~GF~~di~~Ii 255 (543)
T KOG0342|consen 179 KYHESITVGIVIGGNNFSVEA--DKLV-KGCNILIATPGRLLDHLQNTSGFLFRNLKCLVLDEADRLLDIGFEEDVEQII 255 (543)
T ss_pred hhCCCcceEEEeCCccchHHH--HHhh-ccccEEEeCCchHHhHhhcCCcchhhccceeEeecchhhhhcccHHHHHHHH
Confidence 666677666666665444322 2333 389999999999987654322 1111237899999999865332 233333
Q ss_pred Hhhhc-cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhh
Q 000377 1238 KHYQS-SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLR 1316 (1605)
Q Consensus 1238 ~~L~a-~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLr 1316 (1605)
..+.. +..++.|||-- .++-.+....
T Consensus 256 ~~lpk~rqt~LFSAT~~----~kV~~l~~~~------------------------------------------------- 282 (543)
T KOG0342|consen 256 KILPKQRQTLLFSATQP----SKVKDLARGA------------------------------------------------- 282 (543)
T ss_pred HhccccceeeEeeCCCc----HHHHHHHHHh-------------------------------------------------
Confidence 33432 23366666630 1110000000
Q ss_pred HHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhc
Q 000377 1317 PFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTL 1396 (1605)
Q Consensus 1317 PFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~ 1396 (1605)
++| ....+.|.- .. -..+-..+.|-
T Consensus 283 ---L~~------------d~~~v~~~d-------------------~~----~~~The~l~Qg----------------- 307 (543)
T KOG0342|consen 283 ---LKR------------DPVFVNVDD-------------------GG----ERETHERLEQG----------------- 307 (543)
T ss_pred ---hcC------------CceEeecCC-------------------CC----Ccchhhcccce-----------------
Confidence 000 000000000 00 00000011110
Q ss_pred CCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCC
Q 000377 1397 IPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQD 1476 (1605)
Q Consensus 1397 i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gd 1476 (1605)
..+.....+|-+|..+|.+.... .||||||....+..++.+.|+...+++..|+|..++..|..+..+|...+
T Consensus 308 ------yvv~~~~~~f~ll~~~LKk~~~~-~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kae 380 (543)
T KOG0342|consen 308 ------YVVAPSDSRFSLLYTFLKKNIKR-YKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAE 380 (543)
T ss_pred ------EEeccccchHHHHHHHHHHhcCC-ceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcc
Confidence 01112233567778888776543 89999999999999999999999999999999999999999999998888
Q ss_pred CCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 000377 1477 SPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAE 1549 (1605)
Q Consensus 1477 s~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~ 1549 (1605)
+. +|+||+++.+|+|++++|.||-||+|-+|..|++|+||..|-|-+ -.-+-+++.. |...+..+.
T Consensus 381 sg---IL~cTDVaARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRTaR~gk~--G~alL~l~p~--El~Flr~LK 446 (543)
T KOG0342|consen 381 SG---ILVCTDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKE--GKALLLLAPW--ELGFLRYLK 446 (543)
T ss_pred cc---eEEecchhhccCCCCCceEEEEeCCCCCHHHHHHHhccccccCCC--ceEEEEeChh--HHHHHHHHh
Confidence 76 899999999999999999999999999999999999999996644 3333344433 555444443
No 70
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.75 E-value=2.3e-17 Score=195.34 Aligned_cols=352 Identities=19% Similarity=0.294 Sum_probs=200.1
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-----CCCC-EEEEecCCcc-cchHHHHHHh
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-----DRGP-FLVVVPSSVL-PGWESEINFW 1162 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-----~~gP-~LIVvP~SLL-~nW~~Ef~Kw 1162 (1605)
.+.-.|..+|--++. +...++-..||+|||+..+..|...+.... ..|| .|||||+.-| .|-.+-+.+.
T Consensus 159 ~pTsVQkq~IP~lL~----grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKL 234 (708)
T KOG0348|consen 159 APTSVQKQAIPVLLE----GRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKL 234 (708)
T ss_pred ccchHhhcchhhhhc----CcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHH
Confidence 345568888877776 888999999999999999887776655422 2245 4999999854 5555556666
Q ss_pred CCCceEEE----EcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCC-cccccCccEEEEecCccccCccc--hHHH
Q 000377 1163 APRIHKIV----YCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRP-KLSKIQWHYIIIDEGHRIKNASC--KLNA 1235 (1605)
Q Consensus 1163 aP~l~viv----y~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~-~L~ki~wd~VIIDEAHriKN~~S--Klsr 1235 (1605)
.....++| ..|......+ ..+ ..+.+|+|.|+..+..++..- .+.--...+||+|||.++..-.. -+.+
T Consensus 235 l~~~hWIVPg~lmGGEkkKSEK---ARL-RKGiNILIgTPGRLvDHLknT~~i~~s~LRwlVlDEaDrlleLGfekdit~ 310 (708)
T KOG0348|consen 235 LKPFHWIVPGVLMGGEKKKSEK---ARL-RKGINILIGTPGRLVDHLKNTKSIKFSRLRWLVLDEADRLLELGFEKDITQ 310 (708)
T ss_pred hcCceEEeeceeecccccccHH---HHH-hcCceEEEcCchHHHHHHhccchheeeeeeEEEecchhHHHhccchhhHHH
Confidence 55555554 2233222111 111 267899999999998654321 12222345699999999854221 1222
Q ss_pred HHHhhhc--------------cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhH
Q 000377 1236 DLKHYQS--------------SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSE 1301 (1605)
Q Consensus 1236 aL~~L~a--------------~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lse 1301 (1605)
++..+.. ...+|||||-- .
T Consensus 311 Il~~v~~~~~~e~~~~~lp~q~q~mLlSATLt-d---------------------------------------------- 343 (708)
T KOG0348|consen 311 ILKAVHSIQNAECKDPKLPHQLQNMLLSATLT-D---------------------------------------------- 343 (708)
T ss_pred HHHHHhhccchhcccccccHHHHhHhhhhhhH-H----------------------------------------------
Confidence 2221100 11133333320 0
Q ss_pred HHHHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhc
Q 000377 1302 EENLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICN 1381 (1605)
Q Consensus 1302 ee~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicn 1381 (1605)
.+.||.. +--+....|..+-+..|. ......+.-+|.
T Consensus 344 -----~V~rLa~-----------------~sLkDpv~I~ld~s~~~~---------------------~p~~~a~~ev~~ 380 (708)
T KOG0348|consen 344 -----GVNRLAD-----------------LSLKDPVYISLDKSHSQL---------------------NPKDKAVQEVDD 380 (708)
T ss_pred -----HHHHHhh-----------------ccccCceeeeccchhhhc---------------------CcchhhhhhcCC
Confidence 0000000 000001111111110000 000011111122
Q ss_pred Cccccchhhhhhh-hcCCCCCCChhhhhccHHH--HHHHHHHHhh--cCCCeEEEEEccHHHHHHHHHHHh----h----
Q 000377 1382 HPYLSQLHAEEVD-TLIPKHYLPPIVRLCGKLE--MLDRLLPKLK--ATDHRVLFFSTMTRLLDVMEDYLT----F---- 1448 (1605)
Q Consensus 1382 HP~L~~~~~eeid-~~i~~~~~~~lvr~SgKle--~L~~LL~kL~--a~g~KVLIFSQft~~LdiLe~~L~----~---- 1448 (1605)
-|+- +.++ ..+|......++...+|+. .|..+|.... ....|+|||....++.+.=.+.|. .
T Consensus 381 ~~~~-----~~l~~~~iPeqL~qry~vVPpKLRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~ 455 (708)
T KOG0348|consen 381 GPAG-----DKLDSFAIPEQLLQRYTVVPPKLRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEG 455 (708)
T ss_pred cccc-----cccccccCcHHhhhceEecCCchhHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhccccc
Confidence 1111 1111 1112222222233344443 4455554443 234588999888777655444332 1
Q ss_pred --------------cCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHH
Q 000377 1449 --------------KQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDL 1514 (1605)
Q Consensus 1449 --------------~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~ 1514 (1605)
.+.++.+|+|+|.+++|..++..|..... .+|+||+++++||||+.++.||-||+|..++.|+
T Consensus 456 ~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~---~VLLcTDVAaRGLDlP~V~~vVQYd~P~s~adyl 532 (708)
T KOG0348|consen 456 SSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRR---AVLLCTDVAARGLDLPHVGLVVQYDPPFSTADYL 532 (708)
T ss_pred ccCCcccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccc---eEEEehhhhhccCCCCCcCeEEEeCCCCCHHHHH
Confidence 23579999999999999999999966544 3899999999999999999999999999999999
Q ss_pred HHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000377 1515 QAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHK 1551 (1605)
Q Consensus 1515 QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~K 1551 (1605)
+|+||..|+|-+-+-..| +... |+.....++.+
T Consensus 533 HRvGRTARaG~kG~alLf--L~P~--Eaey~~~l~~~ 565 (708)
T KOG0348|consen 533 HRVGRTARAGEKGEALLF--LLPS--EAEYVNYLKKH 565 (708)
T ss_pred HHhhhhhhccCCCceEEE--eccc--HHHHHHHHHhh
Confidence 999999999988664333 3333 33344444444
No 71
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.75 E-value=7.5e-17 Score=184.35 Aligned_cols=312 Identities=18% Similarity=0.207 Sum_probs=213.5
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhC--CCc
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWA--PRI 1166 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~Kwa--P~l 1166 (1605)
+..|.|..++..++. +.++|-+.-+|+|||......+..-+...+..--.||++|+.-+ .|..+.|.-.. -.+
T Consensus 29 ~pTpiQ~~cIpkILe----Grdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~alGk~l~l 104 (442)
T KOG0340|consen 29 KPTPIQQACIPKILE----GRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFIALGKLLNL 104 (442)
T ss_pred CCCchHhhhhHHHhc----ccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHHHhcccccc
Confidence 456789999998887 89999999999999976654444433333333336999999855 55555554332 356
Q ss_pred eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC----CcccccCccEEEEecCccccCccchHHHHHHh---
Q 000377 1167 HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR----PKLSKIQWHYIIIDEGHRIKNASCKLNADLKH--- 1239 (1605)
Q Consensus 1167 ~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~----~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~--- 1239 (1605)
++.+++|....- ..........+|||+|.+.+...... ..+...+..++|+|||.++.+... ...|..
T Consensus 105 K~~vivGG~d~i---~qa~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflVlDEADrvL~~~f--~d~L~~i~e 179 (442)
T KOG0340|consen 105 KVSVIVGGTDMI---MQAAILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLVLDEADRVLAGCF--PDILEGIEE 179 (442)
T ss_pred eEEEEEccHHHh---hhhhhcccCCCeEecCccccccccccCCccchhhhhceeeEEecchhhhhccch--hhHHhhhhc
Confidence 777777765443 33445567899999999998653321 123333457899999999866432 222222
Q ss_pred -hhcc-ceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1240 -YQSS-HRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1240 -L~a~-~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
++.+ --+++|||-- + ...+.|..|+...
T Consensus 180 ~lP~~RQtLlfSATit-d---------------------~i~ql~~~~i~k~---------------------------- 209 (442)
T KOG0340|consen 180 CLPKPRQTLLFSATIT-D---------------------TIKQLFGCPITKS---------------------------- 209 (442)
T ss_pred cCCCccceEEEEeehh-h---------------------HHHHhhcCCcccc----------------------------
Confidence 2222 4477777631 1 1111122221110
Q ss_pred HHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcC
Q 000377 1318 FVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLI 1397 (1605)
Q Consensus 1318 FlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i 1397 (1605)
.-+.+.. ... ......|-+
T Consensus 210 -----------------~a~~~e~-------------------~~~------vstvetL~q------------------- 228 (442)
T KOG0340|consen 210 -----------------IAFELEV-------------------IDG------VSTVETLYQ------------------- 228 (442)
T ss_pred -----------------cceEEec-------------------cCC------CCchhhhhh-------------------
Confidence 0000000 000 000000100
Q ss_pred CCCCCChhhhhccHHHHHHHHHHHhhc-CCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCC
Q 000377 1398 PKHYLPPIVRLCGKLEMLDRLLPKLKA-TDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQD 1476 (1605)
Q Consensus 1398 ~~~~~~~lvr~SgKle~L~~LL~kL~a-~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gd 1476 (1605)
...++...+|-.+|..+|..+.. ....++||++.+....+|...|+..++++..|++.+++.+|-..+.+|+++.
T Consensus 229 ----~yI~~~~~vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~ 304 (442)
T KOG0340|consen 229 ----GYILVSIDVKDAYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNA 304 (442)
T ss_pred ----heeecchhhhHHHHHHHHhhhhhccCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcC
Confidence 01122335688899999998876 6678999999999999999999999999999999999999999999998887
Q ss_pred CCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCc
Q 000377 1477 SPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRD 1528 (1605)
Q Consensus 1477 s~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKe 1528 (1605)
.. +||+|+++++|||++..+.||+||.|-.|..|++|.||..|.|..-.
T Consensus 305 ~~---iliaTDVAsRGLDIP~V~LVvN~diPr~P~~yiHRvGRtARAGR~G~ 353 (442)
T KOG0340|consen 305 AR---ILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRKGM 353 (442)
T ss_pred cc---EEEEechhhcCCCCCceeEEEecCCCCCHHHHHHhhcchhcccCCcc
Confidence 66 89999999999999999999999999999999999999999887644
No 72
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.74 E-value=3e-16 Score=209.70 Aligned_cols=96 Identities=17% Similarity=0.182 Sum_probs=85.6
Q ss_pred CCCeEEEEEccHHHHHHHHHHHhhcC---------------------------------ceEEEEeCCCCHHHHHHHHHH
Q 000377 1425 TDHRVLFFSTMTRLLDVMEDYLTFKQ---------------------------------YRYLRLDGHTSGGDRGALIDK 1471 (1605)
Q Consensus 1425 ~g~KVLIFSQft~~LdiLe~~L~~~G---------------------------------ikylrLdGsts~eERqeiId~ 1471 (1605)
.++++||||+.+..++.+...|+... +....+||+++.++|..+.+.
T Consensus 243 ~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~ 322 (1490)
T PRK09751 243 RHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQA 322 (1490)
T ss_pred cCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHH
Confidence 46789999999999999988886531 124567899999999999999
Q ss_pred HhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhccc
Q 000377 1472 FNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRI 1523 (1605)
Q Consensus 1472 FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRI 1523 (1605)
|+++... +|+||.+++.|||+..+|.||+|+.|.+...+.|++||++|.
T Consensus 323 fK~G~Lr---vLVATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~ 371 (1490)
T PRK09751 323 LKSGELR---CVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQ 371 (1490)
T ss_pred HHhCCce---EEEeCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCC
Confidence 9988765 799999999999999999999999999999999999999985
No 73
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.73 E-value=8.7e-17 Score=189.23 Aligned_cols=319 Identities=19% Similarity=0.323 Sum_probs=212.6
Q ss_pred HHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHH-HHHHHh---cCCCCCE-EEEecCC-cccchHHHHHHhCC--C
Q 000377 1094 YQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALI-CYLMET---KNDRGPF-LVVVPSS-VLPGWESEINFWAP--R 1165 (1605)
Q Consensus 1094 YQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI-~~Lle~---k~~~gP~-LIVvP~S-LL~nW~~Ef~KwaP--~ 1165 (1605)
.|-.+|.-.++ +...|-..-+|+|||...|--+ .+.++. ....+|+ |||||+. +..|...|.++|+. +
T Consensus 249 iq~qalptals----grdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKkf~K~yg 324 (731)
T KOG0339|consen 249 IQCQALPTALS----GRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFGKAYG 324 (731)
T ss_pred ccccccccccc----cccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHHhhhhcc
Confidence 35555554444 5666766779999996655332 222222 3455776 6778987 55788899999864 5
Q ss_pred ceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc--hHHHHHHhhhcc
Q 000377 1166 IHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC--KLNADLKHYQSS 1243 (1605)
Q Consensus 1166 l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S--KlsraL~~L~a~ 1243 (1605)
++++..+|....-.+. . .+ .....+||+|++.|+.........-.+..|+||||+.+|-.-.. +...+..++.+.
T Consensus 325 l~~v~~ygGgsk~eQ~-k-~L-k~g~EivVaTPgRlid~VkmKatn~~rvS~LV~DEadrmfdmGfe~qVrSI~~hirpd 401 (731)
T KOG0339|consen 325 LRVVAVYGGGSKWEQS-K-EL-KEGAEIVVATPGRLIDMVKMKATNLSRVSYLVLDEADRMFDMGFEPQVRSIKQHIRPD 401 (731)
T ss_pred ceEEEeecCCcHHHHH-H-hh-hcCCeEEEechHHHHHHHHhhcccceeeeEEEEechhhhhccccHHHHHHHHhhcCCc
Confidence 6666555444322222 1 12 26789999999999754433334444568999999999965332 233333344443
Q ss_pred c-eecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHH
Q 000377 1244 H-RLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRR 1322 (1605)
Q Consensus 1244 ~-RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRR 1322 (1605)
+ .|+.++|- .. ++.++.+
T Consensus 402 rQtllFsaTf--------------------------~~-----------------------------kIe~lar------ 420 (731)
T KOG0339|consen 402 RQTLLFSATF--------------------------KK-----------------------------KIEKLAR------ 420 (731)
T ss_pred ceEEEeeccc--------------------------hH-----------------------------HHHHHHH------
Confidence 3 46667662 10 0111111
Q ss_pred hhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCC
Q 000377 1323 LKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYL 1402 (1605)
Q Consensus 1323 tKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~ 1402 (1605)
++ |-+.+.. +..+.. .. ..-+++.-.+|-.
T Consensus 421 ---d~---L~dpVrv-Vqg~vg------------------ea-----n~dITQ~V~V~~s-------------------- 450 (731)
T KOG0339|consen 421 ---DI---LSDPVRV-VQGEVG------------------EA-----NEDITQTVSVCPS-------------------- 450 (731)
T ss_pred ---HH---hcCCeeE-EEeehh------------------cc-----ccchhheeeeccC--------------------
Confidence 11 1111111 111110 00 0001111111111
Q ss_pred ChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEE
Q 000377 1403 PPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIF 1482 (1605)
Q Consensus 1403 ~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~Vf 1482 (1605)
...|+.+|.+.|.+.... .+||||+.-....+.|...|...++.+..++|++.+.+|.+.|.+|.....+ +
T Consensus 451 -----~~~Kl~wl~~~L~~f~S~-gkvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~~---V 521 (731)
T KOG0339|consen 451 -----EEKKLNWLLRHLVEFSSE-GKVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKP---V 521 (731)
T ss_pred -----cHHHHHHHHHHhhhhccC-CcEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcCCc---e
Confidence 124888888888886554 4899999999999999999999999999999999999999999999988877 7
Q ss_pred EEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHH
Q 000377 1483 LLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVE 1541 (1605)
Q Consensus 1483 LLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIE 1541 (1605)
|+.|+...+||++....|||+||..-+-..+.|++||.+|-|-+ -..|.|||..-.+
T Consensus 522 lvatDvaargldI~~ikTVvnyD~ardIdththrigrtgRag~k--GvayTlvTeKDa~ 578 (731)
T KOG0339|consen 522 LVATDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEK--GVAYTLVTEKDAE 578 (731)
T ss_pred EEEeeHhhcCCCccccceeecccccchhHHHHHHhhhccccccc--ceeeEEechhhHH
Confidence 99999999999999999999999999999999999999999977 5678889876544
No 74
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.73 E-value=2.1e-15 Score=192.50 Aligned_cols=118 Identities=15% Similarity=0.142 Sum_probs=103.5
Q ss_pred hhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEec
Q 000377 1407 RLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSI 1486 (1605)
Q Consensus 1407 r~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLST 1486 (1605)
....|+..|.+.+......+.++||||......+.|...|...|+++..|+|.+...++..+...|..+ -++|+|
T Consensus 409 ~~~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~g-----~VlIAT 483 (790)
T PRK09200 409 TLDEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQKG-----AVTVAT 483 (790)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCCC-----eEEEEc
Confidence 345689999999988777899999999999999999999999999999999999887777776666433 278999
Q ss_pred cccccccCc---ccCC-----EEEEEcCCCChhhHHHHhhhhcccCCCCcE
Q 000377 1487 RAGGVGVNL---QAAD-----TVIIFDTDWNPQVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1487 rAGGeGLNL---q~AD-----tVIiyDp~WNP~~d~QAiGRAhRIGQkKeV 1529 (1605)
+.+|+|+|+ +.+. +||+||.|-|+..|.|+.||++|.|..-.+
T Consensus 484 dmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~GRtGR~G~~G~s 534 (790)
T PRK09200 484 NMAGRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQGDPGSS 534 (790)
T ss_pred cchhcCcCCCcccccccccCcEEEeccCCCCHHHHHHhhccccCCCCCeeE
Confidence 999999999 5777 999999999999999999999999977543
No 75
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.73 E-value=1.6e-16 Score=188.67 Aligned_cols=333 Identities=20% Similarity=0.242 Sum_probs=224.5
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHH-HHHhcC---CCCCEEEEecCCcc-cchHHHHHHhC
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICY-LMETKN---DRGPFLVVVPSSVL-PGWESEINFWA 1163 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~-Lle~k~---~~gP~LIVvP~SLL-~nW~~Ef~Kwa 1163 (1605)
..+.+.|...|...+. +...|-|.-||+|||+..+-.+.. |+..+- ..--+|||.|+.-| .|--.-+.+..
T Consensus 90 v~~teiQ~~~Ip~aL~----G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvg 165 (758)
T KOG0343|consen 90 VKMTEIQRDTIPMALQ----GHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVG 165 (758)
T ss_pred ccHHHHHHhhcchhcc----CcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHh
Confidence 3577888888877766 777888999999999776544433 333221 11137999999854 45444444432
Q ss_pred --CCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCC-cccccCccEEEEecCccccCccc--hHHHHHH
Q 000377 1164 --PRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRP-KLSKIQWHYIIIDEGHRIKNASC--KLNADLK 1238 (1605)
Q Consensus 1164 --P~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~-~L~ki~wd~VIIDEAHriKN~~S--KlsraL~ 1238 (1605)
..+..-.+.|..+...+ .......+|+|||+..|..+.|.. .+.--...++|+|||.+|..... .+..++.
T Consensus 166 k~h~fSaGLiiGG~~~k~E----~eRi~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDEADR~LDMGFk~tL~~Ii~ 241 (758)
T KOG0343|consen 166 KHHDFSAGLIIGGKDVKFE----LERISQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLDMGFKKTLNAIIE 241 (758)
T ss_pred hccccccceeecCchhHHH----HHhhhcCCeEEechHHHHHHhhhcCCCCCCcceEEEeccHHHHHHHhHHHHHHHHHH
Confidence 13444444455443222 223467899999999998877643 45556678999999999976443 3444555
Q ss_pred hhhc-cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1239 HYQS-SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1239 ~L~a-~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
.++. +..||.|||+- ++..+|.-| ++-+|.+
T Consensus 242 ~lP~~RQTLLFSATqt-~svkdLaRL-sL~dP~~---------------------------------------------- 273 (758)
T KOG0343|consen 242 NLPKKRQTLLFSATQT-KSVKDLARL-SLKDPVY---------------------------------------------- 273 (758)
T ss_pred hCChhheeeeeecccc-hhHHHHHHh-hcCCCcE----------------------------------------------
Confidence 5543 45699999983 223333221 1111111
Q ss_pred HHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcC
Q 000377 1318 FVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLI 1397 (1605)
Q Consensus 1318 FlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i 1397 (1605)
|.+.-. .....-..|+|. |
T Consensus 274 ---------------------vsvhe~-----------------------a~~atP~~L~Q~----y------------- 292 (758)
T KOG0343|consen 274 ---------------------VSVHEN-----------------------AVAATPSNLQQS----Y------------- 292 (758)
T ss_pred ---------------------EEEecc-----------------------ccccChhhhhhe----E-------------
Confidence 000000 000000111111 1
Q ss_pred CCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh--cCceEEEEeCCCCHHHHHHHHHHHhCC
Q 000377 1398 PKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF--KQYRYLRLDGHTSGGDRGALIDKFNQQ 1475 (1605)
Q Consensus 1398 ~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~--~GikylrLdGsts~eERqeiId~FN~g 1475 (1605)
.++....|+.+|...|.... ..|.|||......+..+...+.. -|++...|+|.+++..|.++..+|...
T Consensus 293 ------~~v~l~~Ki~~L~sFI~shl--k~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~ 364 (758)
T KOG0343|consen 293 ------VIVPLEDKIDMLWSFIKSHL--KKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRK 364 (758)
T ss_pred ------EEEehhhHHHHHHHHHHhcc--ccceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHh
Confidence 12233458888888887643 46899999999988888888765 489999999999999999999999765
Q ss_pred CCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHHHHHHH
Q 000377 1476 DSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRASAEHKL 1552 (1605)
Q Consensus 1476 ds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIlera~~Kl 1552 (1605)
.. ++|+||+++++|||++++|.||-||.|-+...|++|.||+.|.+..-+..+|- .-+-||+++..++.|.
T Consensus 365 ~~---~vLF~TDv~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRtAR~~~~G~sll~L---~psEeE~~l~~Lq~k~ 435 (758)
T KOG0343|consen 365 RA---VVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLML---TPSEEEAMLKKLQKKK 435 (758)
T ss_pred cc---eEEEeehhhhccCCCcccceEEEecCchhHHHHHHHhhhhhcccCCCceEEEE---cchhHHHHHHHHHHcC
Confidence 43 68999999999999999999999999999999999999999998877665542 2345688888877773
No 76
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.73 E-value=4.5e-16 Score=191.74 Aligned_cols=305 Identities=18% Similarity=0.294 Sum_probs=207.2
Q ss_pred CCccHHHHHHHHHHHHHhhcC--CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhCC-
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQ--LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWAP- 1164 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~--~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~KwaP- 1164 (1605)
.+|...|..++.-+..=.... -+-+|--++|+|||++|+..++..++.+. -+.+.+|+.++ .|-...|.+|++
T Consensus 261 F~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~---Q~ALMAPTEILA~QH~~~~~~~l~~ 337 (677)
T COG1200 261 FKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGY---QAALMAPTEILAEQHYESLRKWLEP 337 (677)
T ss_pred CCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCC---eeEEeccHHHHHHHHHHHHHHHhhh
Confidence 578899999998766533332 34588889999999999877776666543 36899999977 667888999997
Q ss_pred -CceEEEEcCChhHH-HHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh-h
Q 000377 1165 -RIHKIVYCGPPEER-RRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY-Q 1241 (1605)
Q Consensus 1165 -~l~vivy~Gs~~~R-~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L-~ 1241 (1605)
++.+....|..... ++...+.+..+..++||-|+..|.. ...-.+..+|||||=||+.- .....|+.- .
T Consensus 338 ~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd-----~V~F~~LgLVIiDEQHRFGV---~QR~~L~~KG~ 409 (677)
T COG1200 338 LGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQD-----KVEFHNLGLVIIDEQHRFGV---HQRLALREKGE 409 (677)
T ss_pred cCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhc-----ceeecceeEEEEeccccccH---HHHHHHHHhCC
Confidence 56777777775432 2233466778899999999999974 23334567999999999843 333444443 3
Q ss_pred -ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1242 -SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1242 -a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
.++.|.+|||||...+. |- .| ++.
T Consensus 410 ~~Ph~LvMTATPIPRTLA----lt----------------~f-------gDl---------------------------- 434 (677)
T COG1200 410 QNPHVLVMTATPIPRTLA----LT----------------AF-------GDL---------------------------- 434 (677)
T ss_pred CCCcEEEEeCCCchHHHH----HH----------------Hh-------ccc----------------------------
Confidence 58999999999876643 00 00 010
Q ss_pred HHhhhhHhhcCccceE-EEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCC
Q 000377 1321 RRLKHKVENELPEKIE-RLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPK 1399 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E-~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~ 1399 (1605)
.-.+.++||+... ....|--...-..+|+.+.+.+
T Consensus 435 ---dvS~IdElP~GRkpI~T~~i~~~~~~~v~e~i~~ei----------------------------------------- 470 (677)
T COG1200 435 ---DVSIIDELPPGRKPITTVVIPHERRPEVYERIREEI----------------------------------------- 470 (677)
T ss_pred ---cchhhccCCCCCCceEEEEeccccHHHHHHHHHHHH-----------------------------------------
Confidence 0013457776532 2222211122223444443332
Q ss_pred CCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHH--------HHHHHHHHHh--hcCceEEEEeCCCCHHHHHHHH
Q 000377 1400 HYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTR--------LLDVMEDYLT--FKQYRYLRLDGHTSGGDRGALI 1469 (1605)
Q Consensus 1400 ~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~--------~LdiLe~~L~--~~GikylrLdGsts~eERqeiI 1469 (1605)
..|+++.+.|.-.. .+..+...|. ..++++..+||.|+.+++++++
T Consensus 471 ------------------------~~GrQaY~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM 526 (677)
T COG1200 471 ------------------------AKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVM 526 (677)
T ss_pred ------------------------HcCCEEEEEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHHHHHHH
Confidence 23334443333221 1222223332 1366788999999999999999
Q ss_pred HHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCC-CChhhHHHHhhhhcccCCCCcEE
Q 000377 1470 DKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTD-WNPQVDLQAQARAHRIGQKRDVL 1530 (1605)
Q Consensus 1470 d~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~-WNP~~d~QAiGRAhRIGQkKeV~ 1530 (1605)
.+|++++.+ +|+||.+-.+|+|+++|+.+||+|+. +--++..|--||++|-+...-|.
T Consensus 527 ~~Fk~~e~~---ILVaTTVIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~qSyC~ 585 (677)
T COG1200 527 EAFKEGEID---ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQSYCV 585 (677)
T ss_pred HHHHcCCCc---EEEEeeEEEecccCCCCeEEEEechhhhhHHHHHHhccccCCCCcceEEE
Confidence 999999888 89999999999999999999999987 68899999999999966554443
No 77
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.72 E-value=2.4e-15 Score=188.59 Aligned_cols=130 Identities=16% Similarity=0.165 Sum_probs=105.9
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
...|...|.+++..+...+..+||||......+.|...|...|+++..|+|... +|+..+..|...... ++|+|+
T Consensus 455 ~~~K~~aL~~~i~~~~~~~~pvLIft~t~~~se~L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag~~g~---VlVATd 529 (656)
T PRK12898 455 AAAKWAAVAARVRELHAQGRPVLVGTRSVAASERLSALLREAGLPHQVLNAKQD--AEEAAIVARAGQRGR---ITVATN 529 (656)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcCCCCc---EEEEcc
Confidence 346899999999887777889999999999999999999999999999999865 566666666444433 889999
Q ss_pred ccccccCcc---cCC-----EEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000377 1488 AGGVGVNLQ---AAD-----TVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRAS 1547 (1605)
Q Consensus 1488 AGGeGLNLq---~AD-----tVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIler 1547 (1605)
.+|+|+|+. .+. +||+||.|-|...|.|++||++|.|..-.+ +.|+ |.|+.++..
T Consensus 530 mAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~s--~~~i---s~eD~l~~~ 592 (656)
T PRK12898 530 MAGRGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDPGSY--EAIL---SLEDDLLQS 592 (656)
T ss_pred chhcccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCCeEE--EEEe---chhHHHHHh
Confidence 999999998 444 999999999999999999999999965433 3333 345566544
No 78
>PRK09401 reverse gyrase; Reviewed
Probab=99.72 E-value=4.8e-16 Score=206.72 Aligned_cols=329 Identities=15% Similarity=0.211 Sum_probs=188.5
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCC-
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPR- 1165 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~- 1165 (1605)
|.+++|+|..++..++. +.+.++..+||+|||..++.++.++. . ....+|||||+. |+.||...|.+++..
T Consensus 78 G~~pt~iQ~~~i~~il~----g~dv~i~ApTGsGKT~f~l~~~~~l~-~--~g~~alIL~PTreLa~Qi~~~l~~l~~~~ 150 (1176)
T PRK09401 78 GSKPWSLQRTWAKRLLL----GESFAIIAPTGVGKTTFGLVMSLYLA-K--KGKKSYIIFPTRLLVEQVVEKLEKFGEKV 150 (1176)
T ss_pred CCCCcHHHHHHHHHHHC----CCcEEEEcCCCCCHHHHHHHHHHHHH-h--cCCeEEEEeccHHHHHHHHHHHHHHhhhc
Confidence 56899999998877664 78899999999999965443333332 2 235699999998 568899999988753
Q ss_pred -ceEEEE--cCC--hhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHh-
Q 000377 1166 -IHKIVY--CGP--PEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKH- 1239 (1605)
Q Consensus 1166 -l~vivy--~Gs--~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~- 1239 (1605)
+.+.+. .+. ..++.... ..+..+.++|+|+|++.+.+..+ .+...++++|||||||++....-..-+.|..
T Consensus 151 ~~~~~~~~g~~~~~~~ek~~~~-~~l~~~~~~IlV~Tp~rL~~~~~--~l~~~~~~~lVvDEaD~~L~~~k~id~~l~~l 227 (1176)
T PRK09401 151 GCGVKILYYHSSLKKKEKEEFL-ERLKEGDFDILVTTSQFLSKNFD--ELPKKKFDFVFVDDVDAVLKSSKNIDKLLYLL 227 (1176)
T ss_pred CceEEEEEccCCcchhHHHHHH-HHHhcCCCCEEEECHHHHHHHHH--hccccccCEEEEEChHHhhhcccchhhHHHhC
Confidence 333333 332 12233222 23444679999999999987544 4555679999999999986422111111111
Q ss_pred -hh-ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1240 -YQ-SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1240 -L~-a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
|. ..-.-++...|..+...++|..+.-+.+. +..- ... .
T Consensus 228 GF~~~~i~~i~~~i~~~~~~~~~~~~i~~l~~~-----------i~~~-~~~-~-------------------------- 268 (1176)
T PRK09401 228 GFSEEDIEKAMELIRLKRKYEEIYEKIRELEEK-----------IAEL-KDK-K-------------------------- 268 (1176)
T ss_pred CCCHHHHHHHHHhcccccccchhhhHHHHHHHh-----------hhhc-ccC-C--------------------------
Confidence 00 00000011111111111222222211111 1000 000 0
Q ss_pred HHHHHhhhhHhhcCccceEEEEEecccHH--HHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhh
Q 000377 1318 FVLRRLKHKVENELPEKIERLVRCEASAY--QKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDT 1395 (1605)
Q Consensus 1318 FlLRRtKkdVe~eLP~K~E~vI~~eLS~~--Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~ 1395 (1605)
....+...-+++. ...++..+.. + ..+.. . ..++.+ .|-|+
T Consensus 269 ----------------~q~ilfSAT~~~~~~~~~l~~~ll~-~-~v~~~-~-------~~~rnI-~~~yi---------- 311 (1176)
T PRK09401 269 ----------------GVLVVSSATGRPRGNRVKLFRELLG-F-EVGSP-V-------FYLRNI-VDSYI---------- 311 (1176)
T ss_pred ----------------ceEEEEeCCCCccchHHHHhhccce-E-EecCc-c-------cccCCc-eEEEE----------
Confidence 0000000000000 0000000000 0 00000 0 000000 01010
Q ss_pred cCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHH---HHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHH
Q 000377 1396 LIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRL---LDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKF 1472 (1605)
Q Consensus 1396 ~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~---LdiLe~~L~~~GikylrLdGsts~eERqeiId~F 1472 (1605)
....|.+.|.+++..+ +..+||||+.... ++.|..+|...|+++..++|++ .+.+++|
T Consensus 312 -----------~~~~k~~~L~~ll~~l---~~~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~F 372 (1176)
T PRK09401 312 -----------VDEDSVEKLVELVKRL---GDGGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----ERKFEKF 372 (1176)
T ss_pred -----------EcccHHHHHHHHHHhc---CCCEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHHHHH
Confidence 0013667777777654 4589999998766 9999999999999999999999 2346999
Q ss_pred hCCCCCeEEEEEe----ccccccccCccc-CCEEEEEcCCC------ChhhHHHHhhhhcccC
Q 000377 1473 NQQDSPFFIFLLS----IRAGGVGVNLQA-ADTVIIFDTDW------NPQVDLQAQARAHRIG 1524 (1605)
Q Consensus 1473 N~gds~~~VfLLS----TrAGGeGLNLq~-ADtVIiyDp~W------NP~~d~QAiGRAhRIG 1524 (1605)
.+++.+ +|++ |+++++|||++. .++||+||.|- ....+..+++|+..+-
T Consensus 373 ~~G~~~---VLVatas~tdv~aRGIDiP~~IryVI~y~vP~~~~~~~~~~~~~~~~~r~~~~~ 432 (1176)
T PRK09401 373 EEGEVD---VLVGVASYYGVLVRGIDLPERIRYAIFYGVPKFKFSLEEELAPPFLLLRLLSLL 432 (1176)
T ss_pred HCCCCC---EEEEecCCCCceeecCCCCcceeEEEEeCCCCEEEeccccccCHHHHHHHHhhc
Confidence 998876 5666 689999999999 89999999997 6778889999997443
No 79
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.72 E-value=7.5e-16 Score=195.11 Aligned_cols=329 Identities=15% Similarity=0.180 Sum_probs=200.0
Q ss_pred CCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHH---------HHHh---cCCCCCEEEEecC
Q 000377 1082 QPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICY---------LMET---KNDRGPFLVVVPS 1149 (1605)
Q Consensus 1082 qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~---------Lle~---k~~~gP~LIVvP~ 1149 (1605)
.|..+....|++.|.+.=+.++..+..+...|+..+||+|||.|.=.++.+ .++. ....++++|++|.
T Consensus 152 n~~~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~Pr 231 (675)
T PHA02653 152 NPEPFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPR 231 (675)
T ss_pred CCCccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcH
Confidence 455556678999998888888888888999999999999999874322221 1111 1234579999998
Q ss_pred Cc-ccchHHHHHHhC-----CCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecC
Q 000377 1150 SV-LPGWESEINFWA-----PRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEG 1223 (1605)
Q Consensus 1150 SL-L~nW~~Ef~Kwa-----P~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEA 1223 (1605)
.. +.+...++.+.. ....+.+..|..... ..... ....+++|+|..... ..| .++.+||||||
T Consensus 232 reLa~qi~~~i~~~vg~~~~~g~~v~v~~Gg~~~~--~~~t~--~k~~~Ilv~T~~L~l-----~~L--~~v~~VVIDEa 300 (675)
T PHA02653 232 VALVRLHSITLLKSLGFDEIDGSPISLKYGSIPDE--LINTN--PKPYGLVFSTHKLTL-----NKL--FDYGTVIIDEV 300 (675)
T ss_pred HHHHHHHHHHHHHHhCccccCCceEEEEECCcchH--Hhhcc--cCCCCEEEEeCcccc-----ccc--ccCCEEEcccc
Confidence 74 456677775432 234444444444321 11111 125689999854211 122 35789999999
Q ss_pred ccccCccchHHHHHHhhhc--cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhH
Q 000377 1224 HRIKNASCKLNADLKHYQS--SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSE 1301 (1605)
Q Consensus 1224 HriKN~~SKlsraL~~L~a--~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lse 1301 (1605)
|.+......+...++.+.. +..+++|||.-. +... |..+|..|..-.
T Consensus 301 HEr~~~~DllL~llk~~~~~~rq~ILmSATl~~-dv~~------------------l~~~~~~p~~I~------------ 349 (675)
T PHA02653 301 HEHDQIGDIIIAVARKHIDKIRSLFLMTATLED-DRDR------------------IKEFFPNPAFVH------------ 349 (675)
T ss_pred ccCccchhHHHHHHHHhhhhcCEEEEEccCCcH-hHHH------------------HHHHhcCCcEEE------------
Confidence 9986655444444444322 357999999721 1222 222222111000
Q ss_pred HHHHHHHHHHHHHhhHHHHHHhhhhHhh-cCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHh
Q 000377 1302 EENLLIINRLHQVLRPFVLRRLKHKVEN-ELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNIC 1380 (1605)
Q Consensus 1302 ee~~~iI~RL~kvLrPFlLRRtKkdVe~-eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkic 1380 (1605)
+.. .+.+..+..+.....+.+...|
T Consensus 350 -------------------------I~grt~~pV~~~yi~~~~~~~~~~~y----------------------------- 375 (675)
T PHA02653 350 -------------------------IPGGTLFPISEVYVKNKYNPKNKRAY----------------------------- 375 (675)
T ss_pred -------------------------eCCCcCCCeEEEEeecCcccccchhh-----------------------------
Confidence 000 0011111111111000000000
Q ss_pred cCccccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHh-hcCCCeEEEEEccHHHHHHHHHHHhhc--CceEEEEe
Q 000377 1381 NHPYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKL-KATDHRVLFFSTMTRLLDVMEDYLTFK--QYRYLRLD 1457 (1605)
Q Consensus 1381 nHP~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL-~a~g~KVLIFSQft~~LdiLe~~L~~~--GikylrLd 1457 (1605)
+ ...|... ...+... ...+..+|||+.....++.+...|... ++.+..|+
T Consensus 376 ----~----------------------~~~k~~~-l~~L~~~~~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LH 428 (675)
T PHA02653 376 ----I----------------------EEEKKNI-VTALKKYTPPKGSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIH 428 (675)
T ss_pred ----h----------------------HHHHHHH-HHHHHHhhcccCCcEEEEECcHHHHHHHHHHHHhhcCCceEEecc
Confidence 0 0001111 1222222 124568999999999999999999877 79999999
Q ss_pred CCCCHHHHHHHHHHH-hCCCCCeEEEEEeccccccccCcccCCEEEEEc---CC---------CChhhHHHHhhhhcccC
Q 000377 1458 GHTSGGDRGALIDKF-NQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFD---TD---------WNPQVDLQAQARAHRIG 1524 (1605)
Q Consensus 1458 Gsts~eERqeiId~F-N~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyD---p~---------WNP~~d~QAiGRAhRIG 1524 (1605)
|.+++ +++.+++| +.+.. -+|++|+.+++||+++.+++||.++ .+ .+.+.+.||.||++|.
T Consensus 429 G~Lsq--~eq~l~~ff~~gk~---kILVATdIAERGIDIp~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~- 502 (675)
T PHA02653 429 GKVPN--IDEILEKVYSSKNP---SIIISTPYLESSVTIRNATHVYDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRV- 502 (675)
T ss_pred CCcCH--HHHHHHHHhccCce---eEEeccChhhccccccCeeEEEECCCccCCCcccCcccccCHHHHHHhccCcCCC-
Confidence 99985 45677887 44443 3899999999999999999999997 22 2777899999999997
Q ss_pred CCCcEEEEEEEeCCCHH
Q 000377 1525 QKRDVLVLRFETVQTVE 1541 (1605)
Q Consensus 1525 QkKeV~VyRLIt~~TIE 1541 (1605)
++-.+|+|++.....
T Consensus 503 --~~G~c~rLyt~~~~~ 517 (675)
T PHA02653 503 --SPGTYVYFYDLDLLK 517 (675)
T ss_pred --CCCeEEEEECHHHhH
Confidence 468889999887643
No 80
>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=99.71 E-value=8.4e-16 Score=193.61 Aligned_cols=118 Identities=16% Similarity=0.137 Sum_probs=105.6
Q ss_pred ccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccc
Q 000377 1409 CGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRA 1488 (1605)
Q Consensus 1409 SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrA 1488 (1605)
..|+..+.+.+.++...|..|||||......+.|...|...|+++..|+|. ..+|+..+..|..+... ++|+|+.
T Consensus 388 ~~k~~ai~~~i~~~~~~grpvLV~t~si~~se~ls~~L~~~gi~~~~Lna~--q~~rEa~ii~~ag~~g~---VtIATnm 462 (745)
T TIGR00963 388 EEKWKAVVDEIKERHAKGQPVLVGTTSVEKSELLSNLLKERGIPHNVLNAK--NHEREAEIIAQAGRKGA---VTIATNM 462 (745)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCC--hHHHHHHHHHhcCCCce---EEEEecc
Confidence 458888888888888899999999999999999999999999999999998 67999999999555443 8999999
Q ss_pred cccccCccc-------CCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEE
Q 000377 1489 GGVGVNLQA-------ADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLV 1531 (1605)
Q Consensus 1489 GGeGLNLq~-------ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~V 1531 (1605)
+|+|+|+.. .-+||.++.+-|...+.|+.||++|.|..-....
T Consensus 463 AgRGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~G~s~~ 512 (745)
T TIGR00963 463 AGRGTDIKLEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDPGSSRF 512 (745)
T ss_pred ccCCcCCCccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCCcceEE
Confidence 999999988 6699999999999999999999999998755433
No 81
>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=99.70 E-value=2.7e-15 Score=178.70 Aligned_cols=85 Identities=20% Similarity=0.218 Sum_probs=72.0
Q ss_pred CCCeEEEEEccHHHHHHHHHHHhhcC--ceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEE
Q 000377 1425 TDHRVLFFSTMTRLLDVMEDYLTFKQ--YRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVI 1502 (1605)
Q Consensus 1425 ~g~KVLIFSQft~~LdiLe~~L~~~G--ikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVI 1502 (1605)
.+.++||||+....++.+...|...+ +.+..++|.++..+|.+.. ... +|++|+++++|||+.. +.||
T Consensus 271 ~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~~------~~~---iLVaTdv~~rGiDi~~-~~vi 340 (357)
T TIGR03158 271 PGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERAM------QFD---ILLGTSTVDVGVDFKR-DWLI 340 (357)
T ss_pred CCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHhc------cCC---EEEEecHHhcccCCCC-ceEE
Confidence 57899999999999999999998765 5788999999999887653 223 8999999999999985 4666
Q ss_pred EEcCCCChhhHHHHhhhhc
Q 000377 1503 IFDTDWNPQVDLQAQARAH 1521 (1605)
Q Consensus 1503 iyDp~WNP~~d~QAiGRAh 1521 (1605)
++ +-++..|.||+||++
T Consensus 341 -~~-p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 341 -FS-ARDAAAFWQRLGRLG 357 (357)
T ss_pred -EC-CCCHHHHhhhcccCC
Confidence 66 678999999999984
No 82
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.69 E-value=4.4e-17 Score=186.65 Aligned_cols=324 Identities=21% Similarity=0.340 Sum_probs=214.0
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHH-HHHHHHHh------cCCCCCE-EEEecCCcccchHHH-HH
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIA-LICYLMET------KNDRGPF-LVVVPSSVLPGWESE-IN 1160 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIA-LI~~Lle~------k~~~gP~-LIVvP~SLL~nW~~E-f~ 1160 (1605)
...|.|..|+--+++ +..-|-..-+|+|||++... +|...++. ....||+ |||||..-+.....+ +.
T Consensus 192 ~PTpIQvQGlPvvLs----GRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie 267 (610)
T KOG0341|consen 192 HPTPIQVQGLPVVLS----GRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIE 267 (610)
T ss_pred CCCceeecCcceEee----cCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHH
Confidence 455678888877666 66667666799999976532 22222222 2344665 999999865433322 33
Q ss_pred Hh--------CCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc-
Q 000377 1161 FW--------APRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC- 1231 (1605)
Q Consensus 1161 Kw--------aP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S- 1231 (1605)
.| .|.++.....|....+..+ .......+++|.|+..++.-..+..+...-..|+.+|||.||-.-..
T Consensus 268 ~~~~~L~e~g~P~lRs~LciGG~~v~eql---~~v~~GvHivVATPGRL~DmL~KK~~sLd~CRyL~lDEADRmiDmGFE 344 (610)
T KOG0341|consen 268 QYVAALQEAGYPELRSLLCIGGVPVREQL---DVVRRGVHIVVATPGRLMDMLAKKIMSLDACRYLTLDEADRMIDMGFE 344 (610)
T ss_pred HHHHHHHhcCChhhhhhhhhcCccHHHHH---HHHhcCeeEEEcCcchHHHHHHHhhccHHHHHHhhhhhHHHHhhccch
Confidence 33 2566666666666555433 23456789999999999875555555555678999999999866332
Q ss_pred -hHHHHHHhhhcc-ceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHH-HhcccccCCCCCCchhhhhhHHHHHHHH
Q 000377 1232 -KLNADLKHYQSS-HRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQ-WFNKPFESNGDNSPDEALLSEEENLLII 1308 (1605)
Q Consensus 1232 -KlsraL~~L~a~-~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e-~F~kP~e~~g~~~~~e~~Lseee~~~iI 1308 (1605)
-....+..|++. ..|+.|||-- ..+ ..|.. ...+|+.
T Consensus 345 ddir~iF~~FK~QRQTLLFSATMP----~KI---------------Q~FAkSALVKPvt--------------------- 384 (610)
T KOG0341|consen 345 DDIRTIFSFFKGQRQTLLFSATMP----KKI---------------QNFAKSALVKPVT--------------------- 384 (610)
T ss_pred hhHHHHHHHHhhhhheeeeecccc----HHH---------------HHHHHhhcccceE---------------------
Confidence 233333344443 3467777730 000 00100 0011111
Q ss_pred HHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccch
Q 000377 1309 NRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQL 1388 (1605)
Q Consensus 1309 ~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~ 1388 (1605)
+. .+.. +...++.+..+
T Consensus 385 ------------------------------vN--------------------VGRA-GAAsldViQev------------ 401 (610)
T KOG0341|consen 385 ------------------------------VN--------------------VGRA-GAASLDVIQEV------------ 401 (610)
T ss_pred ------------------------------Ee--------------------cccc-cccchhHHHHH------------
Confidence 00 0000 00011111111
Q ss_pred hhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHH
Q 000377 1389 HAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGAL 1468 (1605)
Q Consensus 1389 ~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqei 1468 (1605)
.+++.-+|+-+|.+.|. .+.-+|||||.-..-.|-|.+||-.+|+..+.++|+-++++|...
T Consensus 402 ---------------EyVkqEaKiVylLeCLQ---KT~PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~a 463 (610)
T KOG0341|consen 402 ---------------EYVKQEAKIVYLLECLQ---KTSPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYA 463 (610)
T ss_pred ---------------HHHHhhhhhhhHHHHhc---cCCCceEEEeccccChHHHHHHHHHccceeEEeecCcchhHHHHH
Confidence 12233446556555554 466799999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHH
Q 000377 1469 IDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRA 1546 (1605)
Q Consensus 1469 Id~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIle 1546 (1605)
|+.|+.+..+ +|+.|++++-|||+++..+||+||.|-.-..|.+|+||.+|-|.+-- .-.||-+++-|..+++
T Consensus 464 i~afr~gkKD---VLVATDVASKGLDFp~iqHVINyDMP~eIENYVHRIGRTGRsg~~Gi--ATTfINK~~~esvLlD 536 (610)
T KOG0341|consen 464 IEAFRAGKKD---VLVATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTGI--ATTFINKNQEESVLLD 536 (610)
T ss_pred HHHHhcCCCc---eEEEecchhccCCCccchhhccCCChHHHHHHHHHhcccCCCCCcce--eeeeecccchHHHHHH
Confidence 9999999887 89999999999999999999999999999999999999999997643 2345556665555544
No 83
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.69 E-value=9e-16 Score=196.65 Aligned_cols=313 Identities=21% Similarity=0.190 Sum_probs=195.6
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhC-CCce
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWA-PRIH 1167 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~Kwa-P~l~ 1167 (1605)
+|+|.|..++...+. .+.|.|+|.+||+|||.+|+..|...+... .++++.|||.. |..+-..+|.+|. -+++
T Consensus 31 el~~~qq~av~~~~~---~~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~k~vYivPlkALa~Ek~~~~~~~~~~Gir 105 (766)
T COG1204 31 ELFNPQQEAVEKGLL---SDENVLISAPTGSGKTLIALLAILSTLLEG--GGKVVYIVPLKALAEEKYEEFSRLEELGIR 105 (766)
T ss_pred HhhHHHHHHhhcccc---CCCcEEEEcCCCCchHHHHHHHHHHHHHhc--CCcEEEEeChHHHHHHHHHHhhhHHhcCCE
Confidence 899999999974433 278999999999999999987776655443 57899999986 5566788888554 3789
Q ss_pred EEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCc-cch----HHHHHHhhhc
Q 000377 1168 KIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNA-SCK----LNADLKHYQS 1242 (1605)
Q Consensus 1168 vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~-~SK----lsraL~~L~a 1242 (1605)
+.++.|+.....+ ...+++|+|||||.+-....+...--...++|||||+|.+... ... +...++.+..
T Consensus 106 V~~~TgD~~~~~~------~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~~RG~~lE~iv~r~~~~~~ 179 (766)
T COG1204 106 VGISTGDYDLDDE------RLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRTRGPVLESIVARMRRLNE 179 (766)
T ss_pred EEEecCCcccchh------hhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCcccCceehhHHHHHHhhCc
Confidence 9999998764432 2267899999999985322222222335689999999999765 211 1122222222
Q ss_pred -cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHH
Q 000377 1243 -SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLR 1321 (1605)
Q Consensus 1243 -~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLR 1321 (1605)
.+.++||||- ++..++-+|.+.... .. ..+|.-++
T Consensus 180 ~~rivgLSATl--------------------pN~~evA~wL~a~~~-~~-----------------------~~rp~~l~ 215 (766)
T COG1204 180 LIRIVGLSATL--------------------PNAEEVADWLNAKLV-ES-----------------------DWRPVPLR 215 (766)
T ss_pred ceEEEEEeeec--------------------CCHHHHHHHhCCccc-cc-----------------------CCCCcccc
Confidence 4678999995 233444444432111 00 00011111
Q ss_pred HhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCC
Q 000377 1322 RLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHY 1401 (1605)
Q Consensus 1322 RtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~ 1401 (1605)
| ..|.. ..++.+.-. .+
T Consensus 216 ~-------~v~~~-~~~~~~~~~-------------------~k------------------------------------ 232 (766)
T COG1204 216 R-------GVPYV-GAFLGADGK-------------------KK------------------------------------ 232 (766)
T ss_pred c-------CCccc-eEEEEecCc-------------------cc------------------------------------
Confidence 1 00000 000000000 00
Q ss_pred CChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh----c----------------------------
Q 000377 1402 LPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF----K---------------------------- 1449 (1605)
Q Consensus 1402 ~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~----~---------------------------- 1449 (1605)
.....+...+..++.+..+.+..||||++.+.........|.. .
T Consensus 233 ----~~~~~~~~~~~~~v~~~~~~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~ 308 (766)
T COG1204 233 ----TWPLLIDNLALELVLESLAEGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEE 308 (766)
T ss_pred ----cccccchHHHHHHHHHHHhcCCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHH
Confidence 0001122334444555566777888888777654444444431 0
Q ss_pred -----CceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcC----------CCChhhHH
Q 000377 1450 -----QYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDT----------DWNPQVDL 1514 (1605)
Q Consensus 1450 -----GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp----------~WNP~~d~ 1514 (1605)
-..+...+.+++.++|+-+-+.|+.+... +|+||.....|+||+ |++||+-|. +-++..+.
T Consensus 309 l~e~v~~GvafHhAGL~~~~R~~vE~~Fr~g~ik---Vlv~TpTLA~GVNLP-A~~VIIk~~~~y~~~~g~~~i~~~dv~ 384 (766)
T COG1204 309 LAELVLRGVAFHHAGLPREDRQLVEDAFRKGKIK---VLVSTPTLAAGVNLP-ARTVIIKDTRRYDPKGGIVDIPVLDVL 384 (766)
T ss_pred HHHHHHhCccccccCCCHHHHHHHHHHHhcCCce---EEEechHHhhhcCCc-ceEEEEeeeEEEcCCCCeEECchhhHh
Confidence 01234567889999999999999998876 799999999999999 677776542 33577899
Q ss_pred HHhhhhcccCCCCc
Q 000377 1515 QAQARAHRIGQKRD 1528 (1605)
Q Consensus 1515 QAiGRAhRIGQkKe 1528 (1605)
|..|||+|.|=.--
T Consensus 385 QM~GRAGRPg~d~~ 398 (766)
T COG1204 385 QMAGRAGRPGYDDY 398 (766)
T ss_pred hccCcCCCCCcCCC
Confidence 99999999996543
No 84
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.68 E-value=4.4e-16 Score=179.60 Aligned_cols=331 Identities=18% Similarity=0.249 Sum_probs=214.1
Q ss_pred HHhhHHHHHhhhhccccccCCCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHH-----HHHHh
Q 000377 1062 LESNEKYYLMAHSIKESVSEQPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALIC-----YLMET 1136 (1605)
Q Consensus 1062 ~e~~~kyy~lah~i~e~v~~qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~-----~Lle~ 1136 (1605)
.....-|..+..+|+..-...|..+ |-.+---++ .+...|-...||+|||+..|.--. .....
T Consensus 222 ddAFq~~pevmenIkK~GFqKPtPI--------qSQaWPI~L----QG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~ 289 (629)
T KOG0336|consen 222 DDAFQCYPEVMENIKKTGFQKPTPI--------QSQAWPILL----QGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRR 289 (629)
T ss_pred HHHHhhhHHHHHHHHhccCCCCCcc--------hhcccceee----cCcceEEEEecCCCcCHHHhccceeeeeccchhh
Confidence 3345556667777766544444433 444333333 377889889999999987653211 11111
Q ss_pred cCCCC-CEEEEecCCcc-cchHHHHHHhC-CCc-eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccc
Q 000377 1137 KNDRG-PFLVVVPSSVL-PGWESEINFWA-PRI-HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSK 1212 (1605)
Q Consensus 1137 k~~~g-P~LIVvP~SLL-~nW~~Ef~Kwa-P~l-~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~k 1212 (1605)
....+ .+||++|+.-| .+-.-|..++. ..+ .+.+|.|.... ... .-...+.+++|+|+..|........+.-
T Consensus 290 ~qr~~p~~lvl~ptreLalqie~e~~kysyng~ksvc~ygggnR~--eqi--e~lkrgveiiiatPgrlndL~~~n~i~l 365 (629)
T KOG0336|consen 290 EQRNGPGVLVLTPTRELALQIEGEVKKYSYNGLKSVCVYGGGNRN--EQI--EDLKRGVEIIIATPGRLNDLQMDNVINL 365 (629)
T ss_pred hccCCCceEEEeccHHHHHHHHhHHhHhhhcCcceEEEecCCCch--hHH--HHHhcCceEEeeCCchHhhhhhcCeeee
Confidence 11122 37999998754 55667776654 334 44555544322 111 1123688999999999987655555666
Q ss_pred cCccEEEEecCccccC--ccchHHHHHHhhhccceeccc-ccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCC
Q 000377 1213 IQWHYIIIDEGHRIKN--ASCKLNADLKHYQSSHRLLLT-GTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESN 1289 (1605)
Q Consensus 1213 i~wd~VIIDEAHriKN--~~SKlsraL~~L~a~~RLLLT-GTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~ 1289 (1605)
....|+|+|||.+|.. ..-+..++|..+...+-.+|| ||=
T Consensus 366 ~siTYlVlDEADrMLDMgFEpqIrkilldiRPDRqtvmTSATW------------------------------------- 408 (629)
T KOG0336|consen 366 ASITYLVLDEADRMLDMGFEPQIRKILLDIRPDRQTVMTSATW------------------------------------- 408 (629)
T ss_pred eeeEEEEecchhhhhcccccHHHHHHhhhcCCcceeeeecccC-------------------------------------
Confidence 6778999999999976 444666777676666554444 441
Q ss_pred CCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcch
Q 000377 1290 GDNSPDEALLSEEENLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSV 1369 (1605)
Q Consensus 1290 g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~l 1369 (1605)
|--+||+.....++ +...++-.++|.+
T Consensus 409 ---------------------------P~~VrrLa~sY~Ke--p~~v~vGsLdL~a------------------------ 435 (629)
T KOG0336|consen 409 ---------------------------PEGVRRLAQSYLKE--PMIVYVGSLDLVA------------------------ 435 (629)
T ss_pred ---------------------------chHHHHHHHHhhhC--ceEEEecccceee------------------------
Confidence 11112221111110 0011111111100
Q ss_pred hHHHHHHHHHhcCccccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc
Q 000377 1370 HNSVMELRNICNHPYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK 1449 (1605)
Q Consensus 1370 ln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~ 1449 (1605)
+|- +... + .+...+.|++.+..++..+ ....||||||....++|-|..-|...
T Consensus 436 -----------~~s---------VkQ~-----i-~v~~d~~k~~~~~~f~~~m-s~ndKvIiFv~~K~~AD~LSSd~~l~ 488 (629)
T KOG0336|consen 436 -----------VKS---------VKQN-----I-IVTTDSEKLEIVQFFVANM-SSNDKVIIFVSRKVMADHLSSDFCLK 488 (629)
T ss_pred -----------eee---------eeee-----E-EecccHHHHHHHHHHHHhc-CCCceEEEEEechhhhhhccchhhhc
Confidence 000 0000 0 0111234666655555554 45689999999999999999999999
Q ss_pred CceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCc
Q 000377 1450 QYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRD 1528 (1605)
Q Consensus 1450 GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKe 1528 (1605)
|+....|+|.-.+.+|+.+++.|..+... +|++|+.+++|||+.+..+|++||.|-|-..|.+|+||++|.|.+-.
T Consensus 489 gi~~q~lHG~r~Q~DrE~al~~~ksG~vr---ILvaTDlaSRGlDv~DiTHV~NyDFP~nIeeYVHRvGrtGRaGr~G~ 564 (629)
T KOG0336|consen 489 GISSQSLHGNREQSDREMALEDFKSGEVR---ILVATDLASRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTGT 564 (629)
T ss_pred ccchhhccCChhhhhHHHHHHhhhcCceE---EEEEechhhcCCCchhcceeeccCCCccHHHHHHHhcccccCCCCcc
Confidence 99999999999999999999999888754 79999999999999999999999999999999999999999997654
No 85
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.67 E-value=6.1e-15 Score=191.29 Aligned_cols=336 Identities=19% Similarity=0.198 Sum_probs=230.3
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhC---C-
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWA---P- 1164 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~Kwa---P- 1164 (1605)
.|+.||.++++.+.+ +.+.|+.-.||+|||...+..|...+..... ...|+|-|+..| .+..+.|.+|. |
T Consensus 70 ~lY~HQ~~A~~~~~~----G~~vvVtTgTgSGKTe~FllPIld~~l~~~~-a~AL~lYPtnALa~DQ~~rl~~~~~~~~~ 144 (851)
T COG1205 70 RLYSHQVDALRLIRE----GRNVVVTTGTGSGKTESFLLPILDHLLRDPS-ARALLLYPTNALANDQAERLRELISDLPG 144 (851)
T ss_pred cccHHHHHHHHHHHC----CCCEEEECCCCCchhHHHHHHHHHHHhhCcC-ccEEEEechhhhHhhHHHHHHHHHHhCCC
Confidence 499999999987766 8999999999999999998777766655443 368999998755 66888888875 3
Q ss_pred CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhh----ccCCCcccccCccEEEEecCccccC-ccchHHHHHHh
Q 000377 1165 RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMN----KHDRPKLSKIQWHYIIIDEGHRIKN-ASCKLNADLKH 1239 (1605)
Q Consensus 1165 ~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k----~~D~~~L~ki~wd~VIIDEAHriKN-~~SKlsraL~~ 1239 (1605)
.+....|.|.....++ ..+.....+|++|+|+++.- ..+...+..-.+.||||||+|.... ..|.+.-.+++
T Consensus 145 ~v~~~~y~Gdt~~~~r---~~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYrGv~GS~vA~llRR 221 (851)
T COG1205 145 KVTFGRYTGDTPPEER---RAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRGVQGSEVALLLRR 221 (851)
T ss_pred cceeeeecCCCChHHH---HHHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceeccccchhHHHHHHHH
Confidence 5677889988754432 13445789999999999854 2232333344489999999999987 44554444444
Q ss_pred hh--------ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHH
Q 000377 1240 YQ--------SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRL 1311 (1605)
Q Consensus 1240 L~--------a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL 1311 (1605)
+. ....++.|||- .++.|+ ..+.+...|...-+
T Consensus 222 L~~~~~~~~~~~q~i~~SAT~--~np~e~-----------------~~~l~~~~f~~~v~-------------------- 262 (851)
T COG1205 222 LLRRLRRYGSPLQIICTSATL--ANPGEF-----------------AEELFGRDFEVPVD-------------------- 262 (851)
T ss_pred HHHHHhccCCCceEEEEeccc--cChHHH-----------------HHHhcCCcceeecc--------------------
Confidence 42 24458888885 122222 12222222221000
Q ss_pred HHHhhHHHHHHhhhhHhhcCccceEEEEEe-cccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhh
Q 000377 1312 HQVLRPFVLRRLKHKVENELPEKIERLVRC-EASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHA 1390 (1605)
Q Consensus 1312 ~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~-eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~ 1390 (1605)
+.--|....+++.. +.......
T Consensus 263 ----------------~~g~~~~~~~~~~~~p~~~~~~~----------------------------------------- 285 (851)
T COG1205 263 ----------------EDGSPRGLRYFVRREPPIRELAE----------------------------------------- 285 (851)
T ss_pred ----------------CCCCCCCceEEEEeCCcchhhhh-----------------------------------------
Confidence 00011111111111 10000000
Q ss_pred hhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHH----HHHhhcC----ceEEEEeCCCCH
Q 000377 1391 EEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVME----DYLTFKQ----YRYLRLDGHTSG 1462 (1605)
Q Consensus 1391 eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe----~~L~~~G----ikylrLdGsts~ 1462 (1605)
. ..-.+...+..++..+...+-++|+|+.+...+..+. ..+...+ ..+..+.|++..
T Consensus 286 --------------~-~r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~ 350 (851)
T COG1205 286 --------------S-IRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHR 350 (851)
T ss_pred --------------h-cccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCH
Confidence 0 0113556667777777888999999999999988885 4444445 678889999999
Q ss_pred HHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCC-ChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHH
Q 000377 1463 GDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDW-NPQVDLQAQARAHRIGQKRDVLVLRFETVQTVE 1541 (1605)
Q Consensus 1463 eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~W-NP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIE 1541 (1605)
++|.++...|+.++.. ++++|.|+..|+++...|.||.+--|- .-..+.|+.||++|-+|.-. ++...-.+.++
T Consensus 351 ~er~~ie~~~~~g~~~---~~~st~AlelgidiG~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~l--~~~v~~~~~~d 425 (851)
T COG1205 351 EERRRIEAEFKEGELL---GVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESL--VLVVLRSDPLD 425 (851)
T ss_pred HHHHHHHHHHhcCCcc---EEecchhhhhceeehhhhhHhhcCCCCchHHHHHHhhhhccCCCCCce--EEEEeCCCccc
Confidence 9999999999999887 899999999999999999999999988 88999999999999994433 33333367777
Q ss_pred HHHHHHHH
Q 000377 1542 EQVRASAE 1549 (1605)
Q Consensus 1542 EkIlera~ 1549 (1605)
..+...-+
T Consensus 426 ~yy~~~p~ 433 (851)
T COG1205 426 SYYLRHPE 433 (851)
T ss_pred hhhhhCcH
Confidence 77655433
No 86
>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=99.65 E-value=2.8e-16 Score=165.87 Aligned_cols=157 Identities=26% Similarity=0.360 Sum_probs=111.5
Q ss_pred CCccHHHHHHHHHHHHHhhcC---CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCC
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQ---LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAP 1164 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~---~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP 1164 (1605)
.+|||||.+++.-+...+... ..++|..+||+|||++++.++..+.. ++|||||.. ++.||..+|..+.+
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~------~~l~~~p~~~l~~Q~~~~~~~~~~ 75 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR------KVLIVAPNISLLEQWYDEFDDFGS 75 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC------EEEEEESSHHHHHHHHHHHHHHST
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc------ceeEecCHHHHHHHHHHHHHHhhh
Confidence 479999999999999887765 78899999999999999998888865 799999985 77999999988876
Q ss_pred CceEEEEcCChhH----------HHHHHHhhhhcCCccEEEEcHHHHhhccCC-----------CcccccCccEEEEecC
Q 000377 1165 RIHKIVYCGPPEE----------RRRLFKEKIVHQKFNVLLTTYEYLMNKHDR-----------PKLSKIQWHYIIIDEG 1223 (1605)
Q Consensus 1165 ~l~vivy~Gs~~~----------R~~l~~~~i~~~~fdVVITTYe~L~k~~D~-----------~~L~ki~wd~VIIDEA 1223 (1605)
............. ..............++++++++.+...... ..+....+++||+|||
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEa 155 (184)
T PF04851_consen 76 EKYNFFEKSIKPAYDSKEFISIQDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEA 155 (184)
T ss_dssp TSEEEEE--GGGCCE-SEEETTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETG
T ss_pred hhhhhcccccccccccccccccccccccccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehh
Confidence 5544432211000 000011223346789999999999754321 1134457899999999
Q ss_pred ccccCccchHHHHHHhhhccceecccccCC
Q 000377 1224 HRIKNASCKLNADLKHYQSSHRLLLTGTPL 1253 (1605)
Q Consensus 1224 HriKN~~SKlsraL~~L~a~~RLLLTGTPl 1253 (1605)
|++.+... ++.+..+...++|+|||||.
T Consensus 156 H~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 156 HHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp GCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred hhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 99865443 55555588889999999995
No 87
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.65 E-value=6.4e-15 Score=188.26 Aligned_cols=367 Identities=18% Similarity=0.196 Sum_probs=200.5
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~ 1167 (1605)
.+|+++|.++++.+.... .+...+|..+||+|||.+++.++...+.. .+.+||+||+. +..||...|.++++ ..
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~---g~~vLvLvPt~~L~~Q~~~~l~~~fg-~~ 217 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQ---GKQALVLVPEIALTPQMLARFRARFG-AP 217 (679)
T ss_pred CCCCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHc---CCeEEEEeCcHHHHHHHHHHHHHHhC-CC
Confidence 479999999999887633 34568899999999999998777766553 34599999987 66889999998774 56
Q ss_pred EEEEcCCh--hHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCc--cchHH--H---HHH
Q 000377 1168 KIVYCGPP--EERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNA--SCKLN--A---DLK 1238 (1605)
Q Consensus 1168 vivy~Gs~--~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~--~SKls--r---aL~ 1238 (1605)
+.+++|.. .++.+.+. .+..+..+|||+|+..+.. .-.++.+|||||+|...-. ....+ + .++
T Consensus 218 v~~~~s~~s~~~r~~~~~-~~~~g~~~IVVgTrsal~~-------p~~~l~liVvDEeh~~s~~~~~~p~y~~r~va~~r 289 (679)
T PRK05580 218 VAVLHSGLSDGERLDEWR-KAKRGEAKVVIGARSALFL-------PFKNLGLIIVDEEHDSSYKQQEGPRYHARDLAVVR 289 (679)
T ss_pred EEEEECCCCHHHHHHHHH-HHHcCCCCEEEeccHHhcc-------cccCCCEEEEECCCccccccCcCCCCcHHHHHHHH
Confidence 77777653 34444443 2344678999999987642 2235789999999986421 11111 1 112
Q ss_pred -hhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1239 -HYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1239 -~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
.......+++||||. ++.++... .+.+... .....+.
T Consensus 290 a~~~~~~~il~SATps---~~s~~~~~----~g~~~~~-~l~~r~~---------------------------------- 327 (679)
T PRK05580 290 AKLENIPVVLGSATPS---LESLANAQ----QGRYRLL-RLTKRAG---------------------------------- 327 (679)
T ss_pred hhccCCCEEEEcCCCC---HHHHHHHh----ccceeEE-Eeccccc----------------------------------
Confidence 224456788999994 22221111 0000000 0000000
Q ss_pred HHHHHhhhhHhhcCccceEEEEEecccH---------HHHHHHHHHHHHhhccCC----CCCcchhHHHHHHHHHhcCcc
Q 000377 1318 FVLRRLKHKVENELPEKIERLVRCEASA---------YQKLLMKRVEENLGSIGN----SKGRSVHNSVMELRNICNHPY 1384 (1605)
Q Consensus 1318 FlLRRtKkdVe~eLP~K~E~vI~~eLS~---------~Qk~LYk~I~~~l~~~~~----~k~~~lln~L~qLRkicnHP~ 1384 (1605)
...+|. ..++ +|.. .-..+++.+++.+..... ...+. ..... +..-|.+..
T Consensus 328 ----------~~~~p~--v~~i--d~~~~~~~~~~~~ls~~l~~~i~~~l~~g~qvll~~nrrG-y~~~~-~C~~Cg~~~ 391 (679)
T PRK05580 328 ----------GARLPE--VEII--DMRELLRGENGSFLSPPLLEAIKQRLERGEQVLLFLNRRG-YAPFL-LCRDCGWVA 391 (679)
T ss_pred ----------cCCCCe--EEEE--echhhhhhcccCCCCHHHHHHHHHHHHcCCeEEEEEcCCC-CCCce-EhhhCcCcc
Confidence 000111 0000 1100 011233333332211100 00000 00011 111122211
Q ss_pred ccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc--CceEEEEeCCCC-
Q 000377 1385 LSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK--QYRYLRLDGHTS- 1461 (1605)
Q Consensus 1385 L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~--GikylrLdGsts- 1461 (1605)
.... .+................||....+-...+.+ +.. .|..+..-.+.+++.|... ++++.++|+.+.
T Consensus 392 ~C~~--C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C---g~~--~l~~~g~G~e~~~e~l~~~fp~~~v~~~~~d~~~ 464 (679)
T PRK05580 392 ECPH--CDASLTLHRFQRRLRCHHCGYQEPIPKACPEC---GST--DLVPVGPGTERLEEELAELFPEARILRIDRDTTR 464 (679)
T ss_pred CCCC--CCCceeEECCCCeEECCCCcCCCCCCCCCCCC---cCC--eeEEeeccHHHHHHHHHHhCCCCcEEEEeccccc
Confidence 1000 00000000000000011122111111111111 111 2334444556666667654 789999999985
Q ss_pred -HHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCC---CCh---------hhHHHHhhhhcccCCCCc
Q 000377 1462 -GGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTD---WNP---------QVDLQAQARAHRIGQKRD 1528 (1605)
Q Consensus 1462 -~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~---WNP---------~~d~QAiGRAhRIGQkKe 1528 (1605)
.+++++++++|.+++.+ +|++|.....|+|++.++.|+++|.| ..| ..+.|+.||++|.+....
T Consensus 465 ~~~~~~~~l~~f~~g~~~---ILVgT~~iakG~d~p~v~lV~il~aD~~l~~pdfra~Er~~~~l~q~~GRagR~~~~g~ 541 (679)
T PRK05580 465 RKGALEQLLAQFARGEAD---ILIGTQMLAKGHDFPNVTLVGVLDADLGLFSPDFRASERTFQLLTQVAGRAGRAEKPGE 541 (679)
T ss_pred cchhHHHHHHHHhcCCCC---EEEEChhhccCCCCCCcCEEEEEcCchhccCCccchHHHHHHHHHHHHhhccCCCCCCE
Confidence 46799999999988877 78999999999999999999988766 233 679999999999877766
Q ss_pred EEEEEEEe
Q 000377 1529 VLVLRFET 1536 (1605)
Q Consensus 1529 V~VyRLIt 1536 (1605)
|.+...-.
T Consensus 542 viiqT~~p 549 (679)
T PRK05580 542 VLIQTYHP 549 (679)
T ss_pred EEEEeCCC
Confidence 66555433
No 88
>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=99.65 E-value=1.1e-14 Score=188.17 Aligned_cols=107 Identities=16% Similarity=0.157 Sum_probs=92.5
Q ss_pred CCeEEEEEccHHHHHHHHHHHhh---cCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEE
Q 000377 1426 DHRVLFFSTMTRLLDVMEDYLTF---KQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVI 1502 (1605)
Q Consensus 1426 g~KVLIFSQft~~LdiLe~~L~~---~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVI 1502 (1605)
...+|||+.....++.+...|.. .++.++.|+|+++.++|.++++.|..+... +|+||+.+++||++..+++||
T Consensus 209 ~g~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~rk---VlVATnIAErgItIp~V~~VI 285 (819)
T TIGR01970 209 TGSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRK---VVLATNIAETSLTIEGIRVVI 285 (819)
T ss_pred CCcEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccCCeE---EEEecchHhhcccccCceEEE
Confidence 56899999999999999999976 478999999999999999999999766543 789999999999999999999
Q ss_pred EEcCC----CChhh--------------HHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1503 IFDTD----WNPQV--------------DLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1503 iyDp~----WNP~~--------------d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
.++.+ |||.. +.||.||++|. ++-.+|+|+++.
T Consensus 286 D~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~---~~G~cyrL~t~~ 336 (819)
T TIGR01970 286 DSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRL---EPGVCYRLWSEE 336 (819)
T ss_pred EcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCC---CCCEEEEeCCHH
Confidence 99865 55554 78999999997 567788998764
No 89
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=99.64 E-value=1.1e-15 Score=153.00 Aligned_cols=120 Identities=28% Similarity=0.453 Sum_probs=111.6
Q ss_pred cHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecccc
Q 000377 1410 GKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAG 1489 (1605)
Q Consensus 1410 gKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAG 1489 (1605)
.|+..+..++.+....+.++||||.....++.+.++|...++.+..++|+++..+|..+++.|+.++. .+|++|.++
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~---~ili~t~~~ 88 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEI---VVLVATDVI 88 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCCC---cEEEEcChh
Confidence 58899999999887678999999999999999999999889999999999999999999999988774 488899999
Q ss_pred ccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEE
Q 000377 1490 GVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVL 1532 (1605)
Q Consensus 1490 GeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~Vy 1532 (1605)
++|+|++.+++||+++++|++..+.|++||++|.||+..|.+|
T Consensus 89 ~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 89 ARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred hcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCceEEeC
Confidence 9999999999999999999999999999999999998777664
No 90
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.64 E-value=3e-15 Score=178.13 Aligned_cols=365 Identities=19% Similarity=0.265 Sum_probs=215.1
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHH-HHHHHHHh------------cCCCCCEEEEecCC-cccch
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIA-LICYLMET------------KNDRGPFLVVVPSS-VLPGW 1155 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIA-LI~~Lle~------------k~~~gP~LIVvP~S-LL~nW 1155 (1605)
...|.|...|..++. .....|-|.+||+|||+...- ++..+.+. +....-.|||+|+. +..|.
T Consensus 203 ~Pt~IQsl~lp~ai~---gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~tPTRELa~QV 279 (731)
T KOG0347|consen 203 RPTEIQSLVLPAAIR---GKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVTPTRELAHQV 279 (731)
T ss_pred CCccchhhcccHhhc---cchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEecChHHHHHHH
Confidence 344556666655543 225667799999999976532 23322211 11111259999998 55777
Q ss_pred HHHHHHhC--CCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCC--ccccc-CccEEEEecCcccc--C
Q 000377 1156 ESEINFWA--PRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRP--KLSKI-QWHYIIIDEGHRIK--N 1228 (1605)
Q Consensus 1156 ~~Ef~Kwa--P~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~--~L~ki-~wd~VIIDEAHriK--N 1228 (1605)
..-|...+ +.+++..+.|.-...++ +.+.....+|||.|+..|+...... .+.++ +..++||||+.||- .
T Consensus 280 ~~Hl~ai~~~t~i~v~si~GGLavqKQ---qRlL~~~p~IVVATPGRlweli~e~n~~l~~~k~vkcLVlDEaDRmvekg 356 (731)
T KOG0347|consen 280 KQHLKAIAEKTQIRVASITGGLAVQKQ---QRLLNQRPDIVVATPGRLWELIEEDNTHLGNFKKVKCLVLDEADRMVEKG 356 (731)
T ss_pred HHHHHHhccccCeEEEEeechhHHHHH---HHHHhcCCCEEEecchHHHHHHHhhhhhhhhhhhceEEEEccHHHHhhhc
Confidence 77776655 57888888887655432 2334458999999999987533222 22222 34689999999983 3
Q ss_pred ccchHHHHHHhhh------ccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHH
Q 000377 1229 ASCKLNADLKHYQ------SSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEE 1302 (1605)
Q Consensus 1229 ~~SKlsraL~~L~------a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lsee 1302 (1605)
+-..+.+.|..+. .+..+..|||-- |. ...|..........+ .
T Consensus 357 hF~Els~lL~~L~e~~~~~qrQTlVFSATlt------------~~--------------~~~~~~~~~k~~~k~-----~ 405 (731)
T KOG0347|consen 357 HFEELSKLLKHLNEEQKNRQRQTLVFSATLT------------LV--------------LQQPLSSSRKKKDKE-----D 405 (731)
T ss_pred cHHHHHHHHHHhhhhhcccccceEEEEEEee------------hh--------------hcChhHHhhhccchh-----h
Confidence 4444445554442 112356666631 00 000100000000000 0
Q ss_pred HHHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcC
Q 000377 1303 ENLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNH 1382 (1605)
Q Consensus 1303 e~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnH 1382 (1605)
. .-..+..++ +.+...-+++ + +++++.+ .....+..-+--|
T Consensus 406 ~---~~~kiq~Lm---------k~ig~~~kpk---i--iD~t~q~--------------------~ta~~l~Es~I~C-- 446 (731)
T KOG0347|consen 406 E---LNAKIQHLM---------KKIGFRGKPK---I--IDLTPQS--------------------ATASTLTESLIEC-- 446 (731)
T ss_pred h---hhHHHHHHH---------HHhCccCCCe---e--EecCcch--------------------hHHHHHHHHhhcC--
Confidence 0 000111111 1111111111 1 1222211 1222222222233
Q ss_pred ccccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCH
Q 000377 1383 PYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSG 1462 (1605)
Q Consensus 1383 P~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~ 1462 (1605)
|-+. -|. + |.-+| -.-..|.||||+.++.+..|.-+|...++..+.|+..|.+
T Consensus 447 ~~~e------KD~-----y-------------lyYfl---~ryPGrTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~Q 499 (731)
T KOG0347|consen 447 PPLE------KDL-----Y-------------LYYFL---TRYPGRTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQ 499 (731)
T ss_pred Cccc------cce-----e-------------EEEEE---eecCCceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHH
Confidence 2110 000 0 00001 1224589999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC----
Q 000377 1463 GDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ---- 1538 (1605)
Q Consensus 1463 eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~---- 1538 (1605)
.+|-+-+++|.+... .+||+|+++.+|||++.+++||+|..|-+...|++|-||..|.+. .-|.|. |+...
T Consensus 500 KqRLknLEkF~~~~~---~VLiaTDVAARGLDIp~V~HVIHYqVPrtseiYVHRSGRTARA~~-~Gvsvm-l~~P~e~~~ 574 (731)
T KOG0347|consen 500 KQRLKNLEKFKQSPS---GVLIATDVAARGLDIPGVQHVIHYQVPRTSEIYVHRSGRTARANS-EGVSVM-LCGPQEVGP 574 (731)
T ss_pred HHHHHhHHHHhcCCC---eEEEeehhhhccCCCCCcceEEEeecCCccceeEecccccccccC-CCeEEE-EeChHHhHH
Confidence 999999999977544 389999999999999999999999999999999999999999774 223332 22211
Q ss_pred -----------------CHHHHHHHHHHHHHHHHhhhhccC
Q 000377 1539 -----------------TVEEQVRASAEHKLGVANQSITAG 1562 (1605)
Q Consensus 1539 -----------------TIEEkIlera~~Kl~L~~kVI~aG 1562 (1605)
.|++.|+..+.....|+..+-.-+
T Consensus 575 ~~KL~ktL~k~~dlpifPv~~~~m~~lkeRvrLA~ei~~~e 615 (731)
T KOG0347|consen 575 LKKLCKTLKKKEDLPIFPVETDIMDALKERVRLAREIDKLE 615 (731)
T ss_pred HHHHHHHHhhccCCCceeccHHHHHHHHHHHHHHHHHHHhh
Confidence 357777777777777776655433
No 91
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.64 E-value=2.1e-16 Score=178.28 Aligned_cols=321 Identities=19% Similarity=0.281 Sum_probs=215.5
Q ss_pred hhccccccCCCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc
Q 000377 1073 HSIKESVSEQPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1073 h~i~e~v~~qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL 1152 (1605)
..+.|.-.+-|+ |.|.+.+--.+. +.+.+.-...|+|||-..+-.++..+..+...--.+|+||+.-+
T Consensus 98 mgIfe~G~ekPS--------PiQeesIPiaLt----GrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrel 165 (459)
T KOG0326|consen 98 MGIFEKGFEKPS--------PIQEESIPIALT----GRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTREL 165 (459)
T ss_pred HHHHHhccCCCC--------Cccccccceeec----chhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchh
Confidence 344554444444 457777765554 33334446889999966554444333333333346999998743
Q ss_pred ----cchHHHHHHhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC
Q 000377 1153 ----PGWESEINFWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN 1228 (1605)
Q Consensus 1153 ----~nW~~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN 1228 (1605)
.|-..++.++.. +.+.+-.|...-|..+.+- ....+++|.|+..+.....+..-.--+..++|+|||..+..
T Consensus 166 ALQtSqvc~~lskh~~-i~vmvttGGT~lrDDI~Rl---~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEADKlLs 241 (459)
T KOG0326|consen 166 ALQTSQVCKELSKHLG-IKVMVTTGGTSLRDDIMRL---NQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEADKLLS 241 (459)
T ss_pred hHHHHHHHHHHhcccC-eEEEEecCCcccccceeee---cCceEEEEcCChhHHHHHhcccccchhceEEEechhhhhhc
Confidence 556778888875 8888888887777655432 36789999999999765554444444567899999999876
Q ss_pred ccch--HHHHHHhh-hccceeccccc-CCCCCHHHHHHHHHhhcCCCCCChHHHHHHh-cccccCCCCCCchhhhhhHHH
Q 000377 1229 ASCK--LNADLKHY-QSSHRLLLTGT-PLQNNLEELWALLNFLLPNIFNSSEDFSQWF-NKPFESNGDNSPDEALLSEEE 1303 (1605)
Q Consensus 1229 ~~SK--lsraL~~L-~a~~RLLLTGT-PlqNnl~ELwsLLnFL~P~if~s~~~F~e~F-~kP~e~~g~~~~~e~~Lseee 1303 (1605)
...+ +.+.+..+ +.+..++.||| |+ ....|.+.+ .+|++..
T Consensus 242 ~~F~~~~e~li~~lP~~rQillySATFP~--------------------tVk~Fm~~~l~kPy~IN-------------- 287 (459)
T KOG0326|consen 242 VDFQPIVEKLISFLPKERQILLYSATFPL--------------------TVKGFMDRHLKKPYEIN-------------- 287 (459)
T ss_pred hhhhhHHHHHHHhCCccceeeEEecccch--------------------hHHHHHHHhccCcceee--------------
Confidence 4432 22333333 33455777777 21 122222221 1121100
Q ss_pred HHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCc
Q 000377 1304 NLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHP 1383 (1605)
Q Consensus 1304 ~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP 1383 (1605)
+.+++. |.-+
T Consensus 288 ----------------------------------------------LM~eLt--------------------l~Gv---- 297 (459)
T KOG0326|consen 288 ----------------------------------------------LMEELT--------------------LKGV---- 297 (459)
T ss_pred ----------------------------------------------hhhhhh--------------------hcch----
Confidence 000000 0000
Q ss_pred cccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHH
Q 000377 1384 YLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGG 1463 (1605)
Q Consensus 1384 ~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~e 1463 (1605)
.....++..+-|+..|..++.++.- ...||||+.+...++|.......||.+.+++..|.++
T Consensus 298 ----------------tQyYafV~e~qKvhCLntLfskLqI--NQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~ 359 (459)
T KOG0326|consen 298 ----------------TQYYAFVEERQKVHCLNTLFSKLQI--NQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQE 359 (459)
T ss_pred ----------------hhheeeechhhhhhhHHHHHHHhcc--cceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHh
Confidence 0011123345577777777776643 4689999999999999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEe
Q 000377 1464 DRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFET 1536 (1605)
Q Consensus 1464 ERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt 1536 (1605)
.|..+..+|+++... .|+||+..-+|||+|+.++||+||.+-|+..|.+|+||.+|.|-- -..+.||+
T Consensus 360 hRNrVFHdFr~G~cr---nLVctDL~TRGIDiqavNvVINFDfpk~aEtYLHRIGRsGRFGhl--GlAInLit 427 (459)
T KOG0326|consen 360 HRNRVFHDFRNGKCR---NLVCTDLFTRGIDIQAVNVVINFDFPKNAETYLHRIGRSGRFGHL--GLAINLIT 427 (459)
T ss_pred hhhhhhhhhhccccc---eeeehhhhhcccccceeeEEEecCCCCCHHHHHHHccCCccCCCc--ceEEEEEe
Confidence 999999999988654 688999999999999999999999999999999999999999953 33445554
No 92
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.64 E-value=3.4e-15 Score=179.45 Aligned_cols=313 Identities=17% Similarity=0.239 Sum_probs=212.9
Q ss_pred cHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhCC---Cce
Q 000377 1092 REYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWAP---RIH 1167 (1605)
Q Consensus 1092 RpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~KwaP---~l~ 1167 (1605)
.+.|..++-.... +..-|+-.-.|+|||++..-++..-+......--.+||+|+.-+ .|.++-|.+.+| +++
T Consensus 49 tkiQaaAIP~~~~----kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~~ 124 (980)
T KOG4284|consen 49 TKIQAAAIPAIFS----KMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGAR 124 (980)
T ss_pred Cchhhhhhhhhhc----ccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcccccCcc
Confidence 3558888876655 67789999999999987644444333333333347999999855 677888888877 567
Q ss_pred EEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc---hHHHHHHhhh-cc
Q 000377 1168 KIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC---KLNADLKHYQ-SS 1243 (1605)
Q Consensus 1168 vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S---KlsraL~~L~-a~ 1243 (1605)
+-+|.|........ +......|+|-|+..|........+.--+.+++|+|||..+-...+ .+..++..++ .+
T Consensus 125 csvfIGGT~~~~d~----~rlk~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~sfq~~In~ii~slP~~r 200 (980)
T KOG4284|consen 125 CSVFIGGTAHKLDL----IRLKQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTESFQDDINIIINSLPQIR 200 (980)
T ss_pred eEEEecCchhhhhh----hhhhhceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhhchhhHHHHHHHHHHhcchhh
Confidence 88888776544322 2335677999999999876666666666788999999999865443 3445555554 45
Q ss_pred ceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhh-HHHHHH
Q 000377 1244 HRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLR-PFVLRR 1322 (1605)
Q Consensus 1244 ~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLr-PFlLRR 1322 (1605)
..++.|||--+ +|+++ |.++++ |.++|-
T Consensus 201 Qv~a~SATYp~-nLdn~--------------------------------------------------Lsk~mrdp~lVr~ 229 (980)
T KOG4284|consen 201 QVAAFSATYPR-NLDNL--------------------------------------------------LSKFMRDPALVRF 229 (980)
T ss_pred eeeEEeccCch-hHHHH--------------------------------------------------HHHHhcccceeec
Confidence 56889998522 22222 222221 111121
Q ss_pred hhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCC
Q 000377 1323 LKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYL 1402 (1605)
Q Consensus 1323 tKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~ 1402 (1605)
-..++. -+--+...+..|.-. +. .++
T Consensus 230 n~~d~~-L~GikQyv~~~~s~n----------------------------------------ns---vee---------- 255 (980)
T KOG4284|consen 230 NADDVQ-LFGIKQYVVAKCSPN----------------------------------------NS---VEE---------- 255 (980)
T ss_pred ccCCce-eechhheeeeccCCc----------------------------------------ch---HHH----------
Confidence 111110 011111111111110 00 000
Q ss_pred ChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEE
Q 000377 1403 PPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIF 1482 (1605)
Q Consensus 1403 ~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~Vf 1482 (1605)
.--|++.|-.++..+. =...||||....-++-|..+|...|+.+..+.|.|.+.+|..+++.++.-. .-+
T Consensus 256 -----mrlklq~L~~vf~~ip--y~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~---~rI 325 (980)
T KOG4284|consen 256 -----MRLKLQKLTHVFKSIP--YVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFR---VRI 325 (980)
T ss_pred -----HHHHHHHHHHHHhhCc--hHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhce---EEE
Confidence 0115555555555432 235799999999999999999999999999999999999999999996543 347
Q ss_pred EEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCC
Q 000377 1483 LLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKR 1527 (1605)
Q Consensus 1483 LLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkK 1527 (1605)
|+||+...+|||-..++.||++|++-+...|.+|||||+|.|..-
T Consensus 326 LVsTDLtaRGIDa~~vNLVVNiD~p~d~eTY~HRIGRAgRFG~~G 370 (980)
T KOG4284|consen 326 LVSTDLTARGIDADNVNLVVNIDAPADEETYFHRIGRAGRFGAHG 370 (980)
T ss_pred EEecchhhccCCccccceEEecCCCcchHHHHHHhhhcccccccc
Confidence 999999999999999999999999999999999999999999653
No 93
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.62 E-value=1e-14 Score=170.29 Aligned_cols=313 Identities=17% Similarity=0.228 Sum_probs=197.8
Q ss_pred HHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHH-HHHhcCC----CCC-EEEEecCCc-ccchHHHHH---HhCC
Q 000377 1095 QMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICY-LMETKND----RGP-FLVVVPSSV-LPGWESEIN---FWAP 1164 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~-Lle~k~~----~gP-~LIVvP~SL-L~nW~~Ef~---KwaP 1164 (1605)
|..++..++. +.+.+.-.-||+|||...+-.+.. ++..+.. .+| .+|+||+.- ..|-...|+ .+|+
T Consensus 46 Qs~aIplaLE----gKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL~~~c~ 121 (569)
T KOG0346|consen 46 QSSAIPLALE----GKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLVEYCS 121 (569)
T ss_pred hhcccchhhc----CcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHHHHHHH
Confidence 7788877766 777777789999999887654443 3333222 233 599999984 455555554 3454
Q ss_pred -CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCc-ccccCccEEEEecCccccCccchHHHHHHhhhc
Q 000377 1165 -RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPK-LSKIQWHYIIIDEGHRIKNASCKLNADLKHYQS 1242 (1605)
Q Consensus 1165 -~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~-L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a 1242 (1605)
.++++-...+..+... ........+|||+|+..+.+...... .......++|+|||+.+......
T Consensus 122 k~lr~~nl~s~~sdsv~---~~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDEADLllsfGYe---------- 188 (569)
T KOG0346|consen 122 KDLRAINLASSMSDSVN---SVALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEADLLLSFGYE---------- 188 (569)
T ss_pred HhhhhhhhhcccchHHH---HHHHccCCCeEEeChHHHHHHHhhccchhhhheeeEEechhhhhhhcccH----------
Confidence 4555544433332211 12334679999999999977554333 33345678999999876432211
Q ss_pred cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHH
Q 000377 1243 SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRR 1322 (1605)
Q Consensus 1243 ~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRR 1322 (1605)
+||-.
T Consensus 189 ---------------edlk~------------------------------------------------------------ 193 (569)
T KOG0346|consen 189 ---------------EDLKK------------------------------------------------------------ 193 (569)
T ss_pred ---------------HHHHH------------------------------------------------------------
Confidence 00000
Q ss_pred hhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHh-cCccccchhhhhhhhcCCCCC
Q 000377 1323 LKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNIC-NHPYLSQLHAEEVDTLIPKHY 1401 (1605)
Q Consensus 1323 tKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkic-nHP~L~~~~~eeid~~i~~~~ 1401 (1605)
+...||+.. |..+. ...+...+..|.+.| ..|......+.+.. +...
T Consensus 194 ----l~~~LPr~~-----------Q~~Lm--------------SATl~dDv~~LKkL~l~nPviLkl~e~el~---~~dq 241 (569)
T KOG0346|consen 194 ----LRSHLPRIY-----------QCFLM--------------SATLSDDVQALKKLFLHNPVILKLTEGELP---NPDQ 241 (569)
T ss_pred ----HHHhCCchh-----------hheee--------------hhhhhhHHHHHHHHhccCCeEEEeccccCC---Cccc
Confidence 111233211 10000 001222334444443 34555443333322 1111
Q ss_pred CChhh---hhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCC
Q 000377 1402 LPPIV---RLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSP 1478 (1605)
Q Consensus 1402 ~~~lv---r~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~ 1478 (1605)
+...+ ..-.|+-++..+|+ +.--..|.|||.+..+..-.|.-+|..-|++.|.|.|.++..-|..+|++||.+--+
T Consensus 242 L~Qy~v~cse~DKflllyallK-L~LI~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~Yd 320 (569)
T KOG0346|consen 242 LTQYQVKCSEEDKFLLLYALLK-LRLIRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYD 320 (569)
T ss_pred ceEEEEEeccchhHHHHHHHHH-HHHhcCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCccee
Confidence 11111 12247777766664 333346999999999999999999999999999999999999999999999987543
Q ss_pred eEEEEEecc--------------------------c---------cccccCcccCCEEEEEcCCCChhhHHHHhhhhccc
Q 000377 1479 FFIFLLSIR--------------------------A---------GGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRI 1523 (1605)
Q Consensus 1479 ~~VfLLSTr--------------------------A---------GGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRI 1523 (1605)
+||.|+ + .++|||++...+||+||.|-++..|++|+||..|-
T Consensus 321 ---ivIAtD~s~~~~~~eee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg 397 (569)
T KOG0346|consen 321 ---IVIATDDSADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARG 397 (569)
T ss_pred ---EEEEccCccchhhhhccccccccccCCCCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhccccccC
Confidence 566666 1 13799999999999999999999999999999998
Q ss_pred CCCCcEEEEEEEeC
Q 000377 1524 GQKRDVLVLRFETV 1537 (1605)
Q Consensus 1524 GQkKeV~VyRLIt~ 1537 (1605)
|.+-.+ ..||..
T Consensus 398 ~n~Gta--lSfv~P 409 (569)
T KOG0346|consen 398 NNKGTA--LSFVSP 409 (569)
T ss_pred CCCCce--EEEecc
Confidence 866544 445544
No 94
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.61 E-value=8.2e-15 Score=185.84 Aligned_cols=319 Identities=18% Similarity=0.241 Sum_probs=207.3
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc----CCCCC-EEEEecCC-cccchHHHHHHh
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK----NDRGP-FLVVVPSS-VLPGWESEINFW 1162 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k----~~~gP-~LIVvP~S-LL~nW~~Ef~Kw 1162 (1605)
.+.+|-|..++-.+++ +..+|-...+|+|||+..+..+....... ...|| .||+||+. +..|..+++.+|
T Consensus 386 ~k~~~IQ~qAiP~Ims----GrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf 461 (997)
T KOG0334|consen 386 EKPTPIQAQAIPAIMS----GRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAMQIHREVRKF 461 (997)
T ss_pred CCCcchhhhhcchhcc----CcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 4778899999988877 88899999999999988755444333221 12256 59999997 445544454444
Q ss_pred C---CCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC---CcccccCccEEEEecCccccC--ccchHH
Q 000377 1163 A---PRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR---PKLSKIQWHYIIIDEGHRIKN--ASCKLN 1234 (1605)
Q Consensus 1163 a---P~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~---~~L~ki~wd~VIIDEAHriKN--~~SKls 1234 (1605)
+ ....+.+|.|..... .+ ..+. ....|+|+|...++.-... ....-.+..|+|+|||.+|-. ..-+.+
T Consensus 462 ~k~l~ir~v~vygg~~~~~-qi--aelk-Rg~eIvV~tpGRmiD~l~~n~grvtnlrR~t~lv~deaDrmfdmgfePq~~ 537 (997)
T KOG0334|consen 462 LKLLGIRVVCVYGGSGISQ-QI--AELK-RGAEIVVCTPGRMIDILCANSGRVTNLRRVTYLVLDEADRMFDMGFEPQIT 537 (997)
T ss_pred HhhcCceEEEecCCccHHH-HH--HHHh-cCCceEEeccchhhhhHhhcCCccccccccceeeechhhhhheeccCcccc
Confidence 3 333445555554332 22 2233 3389999999888642221 122333456999999999842 122222
Q ss_pred HHHHhhhccc-eecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHH
Q 000377 1235 ADLKHYQSSH-RLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQ 1313 (1605)
Q Consensus 1235 raL~~L~a~~-RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~k 1313 (1605)
++|..+...+ .++.+||-
T Consensus 538 ~Ii~nlrpdrQtvlfSatf------------------------------------------------------------- 556 (997)
T KOG0334|consen 538 RILQNLRPDRQTVLFSATF------------------------------------------------------------- 556 (997)
T ss_pred hHHhhcchhhhhhhhhhhh-------------------------------------------------------------
Confidence 2333221111 11122221
Q ss_pred HhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhh
Q 000377 1314 VLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEV 1393 (1605)
Q Consensus 1314 vLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eei 1393 (1605)
|-.+.-+...|.. +|-. .++ .. ...+++.+. +.-.+|.
T Consensus 557 ---pr~m~~la~~vl~-~Pve--iiv--~~---~svV~k~V~-------------------q~v~V~~------------ 594 (997)
T KOG0334|consen 557 ---PRSMEALARKVLK-KPVE--IIV--GG---RSVVCKEVT-------------------QVVRVCA------------ 594 (997)
T ss_pred ---hHHHHHHHHHhhc-CCee--EEE--cc---ceeEeccce-------------------EEEEEec------------
Confidence 1112222223333 3322 111 10 000011110 0000000
Q ss_pred hhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 000377 1394 DTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFN 1473 (1605)
Q Consensus 1394 d~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN 1473 (1605)
....||..|.++|..... ..++||||+....++.|...|...||.+..|+|..+..+|...+.+|+
T Consensus 595 -------------~e~eKf~kL~eLl~e~~e-~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK 660 (997)
T KOG0334|consen 595 -------------IENEKFLKLLELLGERYE-DGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFK 660 (997)
T ss_pred -------------CchHHHHHHHHHHHHHhh-cCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHh
Confidence 024589999999988765 779999999999999999999999999999999999999999999998
Q ss_pred CCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeC
Q 000377 1474 QQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1474 ~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
++... +|++|+....||+......||+||.+--...|.+|.||++|.|.+- ..|.|++.
T Consensus 661 ~~~~~---LLvaTsvvarGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg--~AvtFi~p 719 (997)
T KOG0334|consen 661 NGVVN---LLVATSVVARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKG--AAVTFITP 719 (997)
T ss_pred ccCce---EEEehhhhhcccccccceEEEEcccchhHHHHHHHhcccccCCccc--eeEEEeCh
Confidence 87655 8999999999999999999999999999999999999999999776 44555555
No 95
>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=99.61 E-value=3.4e-14 Score=189.51 Aligned_cols=318 Identities=17% Similarity=0.216 Sum_probs=181.7
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCC-
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPR- 1165 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~- 1165 (1605)
+..++|+|..++..++. +.+.++..+||+|||..++.++.++.. . ...+|||+|+. ++.|+..+|.+++..
T Consensus 76 g~~p~~iQ~~~i~~il~----G~d~vi~ApTGsGKT~f~l~~~~~l~~-~--g~~vLIL~PTreLa~Qi~~~l~~l~~~~ 148 (1171)
T TIGR01054 76 GSEPWSIQKMWAKRVLR----GDSFAIIAPTGVGKTTFGLAMSLFLAK-K--GKRCYIILPTTLLVIQVAEKISSLAEKA 148 (1171)
T ss_pred CCCCcHHHHHHHHHHhC----CCeEEEECCCCCCHHHHHHHHHHHHHh-c--CCeEEEEeCHHHHHHHHHHHHHHHHHhc
Confidence 35789999999887765 778899999999999855544444432 2 34699999998 568899999988753
Q ss_pred -ce---EEEEcCChhHHH-HHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh
Q 000377 1166 -IH---KIVYCGPPEERR-RLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY 1240 (1605)
Q Consensus 1166 -l~---vivy~Gs~~~R~-~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L 1240 (1605)
+. +.+|+|...... ......+..+.++|+|+|+..+.+..+ .+.. +++++||||||+|.......-+.+
T Consensus 149 ~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~--~l~~-~~~~iVvDEaD~~L~~~k~vd~il--- 222 (1171)
T TIGR01054 149 GVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYD--ELGP-KFDFIFVDDVDALLKASKNVDKLL--- 222 (1171)
T ss_pred CCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHH--HhcC-CCCEEEEeChHhhhhccccHHHHH---
Confidence 22 234666543222 111233444679999999999986443 2333 799999999999865332222221
Q ss_pred hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1241 QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
.|.|= . -+++-.++..+..+.. . ....-+..+...++
T Consensus 223 ------~llGF--~--~e~i~~il~~~~~~~~-----------------~------------~~~~~~~~~~~~~~---- 259 (1171)
T TIGR01054 223 ------KLLGF--S--EELIEKAWKLIRLRLK-----------------L------------YRALHAKKRLELLE---- 259 (1171)
T ss_pred ------HHcCC--C--HHHHHHHHHHhhhccc-----------------c------------chHHHHHHHHHHHH----
Confidence 11110 0 0111111111110000 0 00001122222221
Q ss_pred HHhhhhHhhcCccceE-EEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCC
Q 000377 1321 RRLKHKVENELPEKIE-RLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPK 1399 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E-~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~ 1399 (1605)
.+|.+.. .++.+..|...+.+...+...+........ ...++.+ .|.|
T Consensus 260 ---------~~~~~~q~~li~~SAT~~p~~~~~~l~r~ll~~~v~~~------~~~~r~I-~~~~--------------- 308 (1171)
T TIGR01054 260 ---------AIPGKKRGCLIVSSATGRPRGKRAKLFRELLGFEVGGG------SDTLRNV-VDVY--------------- 308 (1171)
T ss_pred ---------hhhhccCcEEEEEeCCCCccccHHHHcccccceEecCc------cccccce-EEEE---------------
Confidence 2232211 222233331111000000000000000000 0001110 0001
Q ss_pred CCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccH---HHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCC
Q 000377 1400 HYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMT---RLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQD 1476 (1605)
Q Consensus 1400 ~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft---~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gd 1476 (1605)
+....+.+.|.++|..+ +..+|||++.. ..++.|..+|...|+++..++|.++ ++.+++|.+++
T Consensus 309 ------~~~~~~~~~L~~ll~~l---~~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~----~~~l~~Fr~G~ 375 (1171)
T TIGR01054 309 ------VEDEDLKETLLEIVKKL---GTGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKP----KEDYEKFAEGE 375 (1171)
T ss_pred ------EecccHHHHHHHHHHHc---CCCEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCC----HHHHHHHHcCC
Confidence 01112245566777654 46899999998 8999999999999999999999986 36899999988
Q ss_pred CCeEEEEEe----ccccccccCccc-CCEEEEEcCCC
Q 000377 1477 SPFFIFLLS----IRAGGVGVNLQA-ADTVIIFDTDW 1508 (1605)
Q Consensus 1477 s~~~VfLLS----TrAGGeGLNLq~-ADtVIiyDp~W 1508 (1605)
.+ +|++ |+.+++|||++. .++||+||+|-
T Consensus 376 ~~---vLVata~~tdv~aRGIDip~~V~~vI~~~~P~ 409 (1171)
T TIGR01054 376 ID---VLIGVASYYGTLVRGLDLPERVRYAVFLGVPK 409 (1171)
T ss_pred CC---EEEEeccccCcccccCCCCccccEEEEECCCC
Confidence 76 5666 589999999999 89999999884
No 96
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.60 E-value=5.2e-14 Score=182.30 Aligned_cols=108 Identities=14% Similarity=0.148 Sum_probs=92.1
Q ss_pred CCCeEEEEEccHHHHHHHHHHHhh---cCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEE
Q 000377 1425 TDHRVLFFSTMTRLLDVMEDYLTF---KQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTV 1501 (1605)
Q Consensus 1425 ~g~KVLIFSQft~~LdiLe~~L~~---~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtV 1501 (1605)
....+|||+.....++.+.+.|.. .++.++.++|+++.++|.+++..|..+... +|+||+.+++||++..+++|
T Consensus 211 ~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~rk---VlvATnIAErsLtIp~V~~V 287 (812)
T PRK11664 211 ESGSLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAGRRK---VVLATNIAETSLTIEGIRLV 287 (812)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCCCeE---EEEecchHHhcccccCceEE
Confidence 357899999999999999999986 578899999999999999999999766543 89999999999999999999
Q ss_pred EEEcCC----CCh--------------hhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1502 IIFDTD----WNP--------------QVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1502 IiyDp~----WNP--------------~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
|.++.. |+| ..+.||.||++|. .+-.+|+|+++.
T Consensus 288 ID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~---~~G~cyrL~t~~ 339 (812)
T PRK11664 288 VDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL---EPGICLHLYSKE 339 (812)
T ss_pred EECCCcccccccccCCcceeEEEeechhhhhhhccccCCC---CCcEEEEecCHH
Confidence 997654 332 3689999999986 477889998865
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=99.60 E-value=6.9e-14 Score=173.43 Aligned_cols=129 Identities=19% Similarity=0.185 Sum_probs=88.8
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCceEEEEcCCh--hHHHHHHHhhhhcC
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIHKIVYCGPP--EERRRLFKEKIVHQ 1189 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~vivy~Gs~--~~R~~l~~~~i~~~ 1189 (1605)
+|..+||+|||.+++.++.+.+.. .+.+|||+|.. +..|+...|.+.++ ..+.++++.. .+|.+.+. .+..+
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~---g~~vLvlvP~i~L~~Q~~~~l~~~f~-~~v~vlhs~~~~~er~~~~~-~~~~g 75 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLAL---GKSVLVLVPEIALTPQMIQRFKYRFG-SQVAVLHSGLSDSEKLQAWR-KVKNG 75 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHc---CCeEEEEeCcHHHHHHHHHHHHHHhC-CcEEEEECCCCHHHHHHHHH-HHHcC
Confidence 356789999999998888777654 24589999986 66889999988774 4566666643 34444443 34456
Q ss_pred CccEEEEcHHHHhhccCCCcccccCccEEEEecCcccc--CccchH------HHHHHhhhccceecccccCC
Q 000377 1190 KFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIK--NASCKL------NADLKHYQSSHRLLLTGTPL 1253 (1605)
Q Consensus 1190 ~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriK--N~~SKl------sraL~~L~a~~RLLLTGTPl 1253 (1605)
..+|||+|+..+.. .-.++++|||||.|... ...... ......+.....|++||||.
T Consensus 76 ~~~IVVGTrsalf~-------p~~~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~ra~~~~~~vil~SATPs 140 (505)
T TIGR00595 76 EILVVIGTRSALFL-------PFKNLGLIIVDEEHDSSYKQEEGPRYHARDVAVYRAKKFNCPVVLGSATPS 140 (505)
T ss_pred CCCEEECChHHHcC-------cccCCCEEEEECCCccccccccCCCCcHHHHHHHHHHhcCCCEEEEeCCCC
Confidence 78999999987743 22356999999999864 222211 11122335567899999994
No 98
>PRK14701 reverse gyrase; Provisional
Probab=99.59 E-value=1.7e-14 Score=196.05 Aligned_cols=338 Identities=19% Similarity=0.309 Sum_probs=191.8
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCC--
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAP-- 1164 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP-- 1164 (1605)
|.++++.|..++..++. +.+.++..+||+|||...+.++.++. . ....+|||+|+. |+.|....|..++.
T Consensus 77 G~~pt~iQ~~~i~~il~----G~d~li~APTGsGKTl~~~~~al~~~-~--~g~~aLVl~PTreLa~Qi~~~l~~l~~~~ 149 (1638)
T PRK14701 77 GFEFWSIQKTWAKRILR----GKSFSIVAPTGMGKSTFGAFIALFLA-L--KGKKCYIILPTTLLVKQTVEKIESFCEKA 149 (1638)
T ss_pred CCCCCHHHHHHHHHHHc----CCCEEEEEcCCCCHHHHHHHHHHHHH-h--cCCeEEEEECHHHHHHHHHHHHHHHHhhc
Confidence 34789999999988876 77889999999999984333222221 1 123589999997 56888888888764
Q ss_pred --CceEEEEcCChhHHHH-HHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhhh
Q 000377 1165 --RIHKIVYCGPPEERRR-LFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQ 1241 (1605)
Q Consensus 1165 --~l~vivy~Gs~~~R~~-l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~ 1241 (1605)
.+.+..++|......+ .....+..+.++|+|+|++.+..... .+...+++++||||||+|..+.-..-+.|.
T Consensus 150 ~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~--~l~~~~i~~iVVDEAD~ml~~~knid~~L~--- 224 (1638)
T PRK14701 150 NLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFP--EMKHLKFDFIFVDDVDAFLKASKNIDRSLQ--- 224 (1638)
T ss_pred CCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHH--HHhhCCCCEEEEECceeccccccccchhhh---
Confidence 3556667766543322 11223445679999999998876433 223367899999999998542211111111
Q ss_pred ccceecccccCCCCCH-HHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1242 SSHRLLLTGTPLQNNL-EELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1242 a~~RLLLTGTPlqNnl-~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
|-| +.... ...|.++.. . +. ... +....-+.+|...+
T Consensus 225 ------llG--F~~e~~~~~~~il~~---~--------------~~---~~~---------~~~~~~~~~l~~~~----- 262 (1638)
T PRK14701 225 ------LLG--FYEEIIEKAWKIIYL---K--------------KQ---GNI---------EDAMEKREILNKEI----- 262 (1638)
T ss_pred ------cCC--ChHHHHHHHHHhhhc---c--------------cc---ccc---------chhhhhhhhhhhhh-----
Confidence 000 00000 001111110 0 00 000 00000112222222
Q ss_pred HHhhhhHhhcCccceEEEEEecccHHHH-HHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCC
Q 000377 1321 RRLKHKVENELPEKIERLVRCEASAYQK-LLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPK 1399 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E~vI~~eLS~~Qk-~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~ 1399 (1605)
..+|.....++.+..|.-.+ ..-+.+.+.+. ....... ..++.+ .|.|+.
T Consensus 263 --------~~~~~~~~~ll~~SAT~~~r~~~~~l~~~~l~-f~v~~~~------~~lr~i-~~~yi~------------- 313 (1638)
T PRK14701 263 --------EKIGNKIGCLIVASATGKAKGDRVKLYRELLG-FEVGSGR------SALRNI-VDVYLN------------- 313 (1638)
T ss_pred --------hhcCCCccEEEEEecCCCchhHHHHHhhcCeE-EEecCCC------CCCCCc-EEEEEE-------------
Confidence 11233322233222221111 00011110000 0000000 000000 000000
Q ss_pred CCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHH---HHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCC
Q 000377 1400 HYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRL---LDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQD 1476 (1605)
Q Consensus 1400 ~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~---LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gd 1476 (1605)
.....| ..|.++|..+ +..+||||+.... ++.|..+|...|+++..++|. |.+.+++|.+++
T Consensus 314 ------~~~~~k-~~L~~ll~~~---g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~~l~~F~~G~ 378 (1638)
T PRK14701 314 ------PEKIIK-EHVRELLKKL---GKGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----NKKGFDLFEEGE 378 (1638)
T ss_pred ------CCHHHH-HHHHHHHHhC---CCCeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----HHHHHHHHHcCC
Confidence 001113 4566777654 5689999987664 589999999999999999994 999999999998
Q ss_pred CCeEEEEEec----cccccccCccc-CCEEEEEcCCC---ChhhHHHHh-------------hhhcccCCC
Q 000377 1477 SPFFIFLLSI----RAGGVGVNLQA-ADTVIIFDTDW---NPQVDLQAQ-------------ARAHRIGQK 1526 (1605)
Q Consensus 1477 s~~~VfLLST----rAGGeGLNLq~-ADtVIiyDp~W---NP~~d~QAi-------------GRAhRIGQk 1526 (1605)
.+ +|++| ..+++|||++. ..+|||||.|- +...+.|.. +|++|-|..
T Consensus 379 ~~---VLVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 379 ID---YLIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred CC---EEEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 87 67787 47889999998 99999999998 666555555 999998864
No 99
>COG4889 Predicted helicase [General function prediction only]
Probab=99.58 E-value=8.2e-15 Score=179.76 Aligned_cols=157 Identities=21% Similarity=0.303 Sum_probs=104.2
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccc----hHHHHHHhC
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPG----WESEINFWA 1163 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~n----W~~Ef~Kwa 1163 (1605)
-+|||||..++....+.+..+.+|=|.+.+|+|||++++-+...+.. .++|++||.- +|.| |..+-+.
T Consensus 160 kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala~-----~~iL~LvPSIsLLsQTlrew~~~~~l-- 232 (1518)
T COG4889 160 KKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALAA-----ARILFLVPSISLLSQTLREWTAQKEL-- 232 (1518)
T ss_pred CCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHhh-----hheEeecchHHHHHHHHHHHhhccCc--
Confidence 68999999999999999999999999999999999999988776643 4589999975 6666 4332111
Q ss_pred CCceEEEEcCChh------------------HHHHH---HHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEec
Q 000377 1164 PRIHKIVYCGPPE------------------ERRRL---FKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDE 1222 (1605)
Q Consensus 1164 P~l~vivy~Gs~~------------------~R~~l---~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDE 1222 (1605)
+-....++...+- ..+.+ +.......+.-||++||+.+-.........--.||+||+||
T Consensus 233 ~~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fDliicDE 312 (1518)
T COG4889 233 DFRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFDLIICDE 312 (1518)
T ss_pred cceeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHHHHHHHHcCCCCccEEEecc
Confidence 1111112111110 00111 11222345677999999998764444445566799999999
Q ss_pred CccccCc------cchHHHHH--HhhhccceecccccC
Q 000377 1223 GHRIKNA------SCKLNADL--KHYQSSHRLLLTGTP 1252 (1605)
Q Consensus 1223 AHriKN~------~SKlsraL--~~L~a~~RLLLTGTP 1252 (1605)
|||-... .+..++.- ..+++..||.+||||
T Consensus 313 AHRTtGa~~a~dd~saFt~vHs~~niKa~kRlYmTATP 350 (1518)
T COG4889 313 AHRTTGATLAGDDKSAFTRVHSDQNIKAAKRLYMTATP 350 (1518)
T ss_pred hhccccceecccCcccceeecCcchhHHHHhhhcccCc
Confidence 9997542 11111111 234778899999999
No 100
>PRK09694 helicase Cas3; Provisional
Probab=99.57 E-value=1.9e-13 Score=177.35 Aligned_cols=109 Identities=16% Similarity=0.140 Sum_probs=87.2
Q ss_pred HHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcC---ceEEEEeCCCCHHHH----HHHHHHH-hCCCCCeEEEEEe
Q 000377 1414 MLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQ---YRYLRLDGHTSGGDR----GALIDKF-NQQDSPFFIFLLS 1485 (1605)
Q Consensus 1414 ~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~G---ikylrLdGsts~eER----qeiId~F-N~gds~~~VfLLS 1485 (1605)
++..++. ....++++||||+.+..+..+.+.|...+ +++..++|.+...+| .++++.| +++..+...+||+
T Consensus 549 ~l~~i~~-~~~~g~~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVa 627 (878)
T PRK09694 549 LLQRMIA-AANAGAQVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVA 627 (878)
T ss_pred HHHHHHH-HHhcCCEEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEE
Confidence 3334443 34578899999999999999999998765 689999999999999 4678889 4443222357999
Q ss_pred ccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCC
Q 000377 1486 IRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQK 1526 (1605)
Q Consensus 1486 TrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQk 1526 (1605)
|.+...|||+ .+|.||....| ...++||.||++|.+.+
T Consensus 628 TQViE~GLDI-d~DvlItdlaP--idsLiQRaGR~~R~~~~ 665 (878)
T PRK09694 628 TQVVEQSLDL-DFDWLITQLCP--VDLLFQRLGRLHRHHRK 665 (878)
T ss_pred Ccchhheeec-CCCeEEECCCC--HHHHHHHHhccCCCCCC
Confidence 9999999999 58998887665 56899999999999874
No 101
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.54 E-value=1.4e-13 Score=166.60 Aligned_cols=115 Identities=18% Similarity=0.229 Sum_probs=103.4
Q ss_pred ccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHH-hhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1409 CGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYL-TFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1409 SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L-~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
-+|+-.+.+++... -.-.+|||.|...-+..|.+.| ...++.+..++|..++.+|++.+++|+.+... +|+||.
T Consensus 372 ~~K~lA~rq~v~~g--~~PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~Iw---vLicTd 446 (593)
T KOG0344|consen 372 KGKLLALRQLVASG--FKPPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRIGKIW---VLICTD 446 (593)
T ss_pred hhHHHHHHHHHhcc--CCCCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHHHhccCee---EEEehh
Confidence 35777777877765 3458999999999999999999 78899999999999999999999999988764 799999
Q ss_pred ccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCc
Q 000377 1488 AGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRD 1528 (1605)
Q Consensus 1488 AGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKe 1528 (1605)
..++|||+..++.||+||.+-.-..|++++||++|.|+.-.
T Consensus 447 ll~RGiDf~gvn~VInyD~p~s~~syihrIGRtgRag~~g~ 487 (593)
T KOG0344|consen 447 LLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRSGK 487 (593)
T ss_pred hhhccccccCcceEEecCCCchhHHHHHHhhccCCCCCCcc
Confidence 99999999999999999999999999999999999998743
No 102
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.54 E-value=2e-12 Score=148.23 Aligned_cols=309 Identities=19% Similarity=0.213 Sum_probs=204.1
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCc
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRI 1166 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l 1166 (1605)
+|+|.|+|..+-+.++..+++...-|+..-+|.|||-+....|.+.+.. .+.+.|..|.- ++..-...+..-+++.
T Consensus 95 ~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~---G~~vciASPRvDVclEl~~Rlk~aF~~~ 171 (441)
T COG4098 95 KGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQ---GGRVCIASPRVDVCLELYPRLKQAFSNC 171 (441)
T ss_pred ccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhc---CCeEEEecCcccchHHHHHHHHHhhccC
Confidence 5899999999999999999999999999999999998887777776654 35588888865 5666666777777777
Q ss_pred eEEEEcCChhHHHHHHHhhhhcCCccEEE-EcHHHHhhccCCCcccccCccEEEEecCccccCc-cchHHHHHHhh--hc
Q 000377 1167 HKIVYCGPPEERRRLFKEKIVHQKFNVLL-TTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNA-SCKLNADLKHY--QS 1242 (1605)
Q Consensus 1167 ~vivy~Gs~~~R~~l~~~~i~~~~fdVVI-TTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~-~SKlsraL~~L--~a 1242 (1605)
.+...+|.....- . ..+|| ||++.++- +..||++||||++-+-=. +-.+..+++.- ..
T Consensus 172 ~I~~Lyg~S~~~f---------r-~plvVaTtHQLlrF--------k~aFD~liIDEVDAFP~~~d~~L~~Av~~ark~~ 233 (441)
T COG4098 172 DIDLLYGDSDSYF---------R-APLVVATTHQLLRF--------KQAFDLLIIDEVDAFPFSDDQSLQYAVKKARKKE 233 (441)
T ss_pred CeeeEecCCchhc---------c-ccEEEEehHHHHHH--------HhhccEEEEeccccccccCCHHHHHHHHHhhccc
Confidence 7777777654321 1 34455 55555532 235899999999987322 22334444432 33
Q ss_pred cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHH-HHH
Q 000377 1243 SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPF-VLR 1321 (1605)
Q Consensus 1243 ~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPF-lLR 1321 (1605)
..+|.|||||-. + +.... ++.-+++. +-+
T Consensus 234 g~~IylTATp~k----~------------------l~r~~----------------------------~~g~~~~~klp~ 263 (441)
T COG4098 234 GATIYLTATPTK----K------------------LERKI----------------------------LKGNLRILKLPA 263 (441)
T ss_pred CceEEEecCChH----H------------------HHHHh----------------------------hhCCeeEeecch
Confidence 567999999921 1 11000 00000000 001
Q ss_pred HhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCC
Q 000377 1322 RLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHY 1401 (1605)
Q Consensus 1322 RtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~ 1401 (1605)
|.- ...||-. ..+++ ..+-+.+.
T Consensus 264 RfH---~~pLpvP--kf~w~--~~~~k~l~-------------------------------------------------- 286 (441)
T COG4098 264 RFH---GKPLPVP--KFVWI--GNWNKKLQ-------------------------------------------------- 286 (441)
T ss_pred hhc---CCCCCCC--ceEEe--ccHHHHhh--------------------------------------------------
Confidence 100 0122211 11111 11111000
Q ss_pred CChhhhhccHHH-HHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh-cCce-EEEEeCCCCHHHHHHHHHHHhCCCCC
Q 000377 1402 LPPIVRLCGKLE-MLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF-KQYR-YLRLDGHTSGGDRGALIDKFNQQDSP 1478 (1605)
Q Consensus 1402 ~~~lvr~SgKle-~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~-~Gik-ylrLdGsts~eERqeiId~FN~gds~ 1478 (1605)
-.|+. .|.++|++...++..+|||.....+++.+...|+. .... ...++..+. .|.+.+++|+++...
T Consensus 287 -------r~kl~~kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~d~--~R~EkV~~fR~G~~~ 357 (441)
T COG4098 287 -------RNKLPLKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSEDQ--HRKEKVEAFRDGKIT 357 (441)
T ss_pred -------hccCCHHHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHhhCCccceeeeeccCc--cHHHHHHHHHcCceE
Confidence 01222 57788888888999999999999999999998843 2332 244455443 899999999998776
Q ss_pred eEEEEEeccccccccCcccCCEEEEEcCC--CChhhHHHHhhhhcccCCCCcEEEEEEEe
Q 000377 1479 FFIFLLSIRAGGVGVNLQAADTVIIFDTD--WNPQVDLQAQARAHRIGQKRDVLVLRFET 1536 (1605)
Q Consensus 1479 ~~VfLLSTrAGGeGLNLq~ADtVIiyDp~--WNP~~d~QAiGRAhRIGQkKeV~VyRLIt 1536 (1605)
+|++|..+.+|+.++..|++|+=.-. ++....+|.-||++|--....-.|+.|-.
T Consensus 358 ---lLiTTTILERGVTfp~vdV~Vlgaeh~vfTesaLVQIaGRvGRs~~~PtGdv~FFH~ 414 (441)
T COG4098 358 ---LLITTTILERGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRSLERPTGDVLFFHY 414 (441)
T ss_pred ---EEEEeehhhcccccccceEEEecCCcccccHHHHHHHhhhccCCCcCCCCcEEEEec
Confidence 89999999999999999999886544 89999999999999965544444444443
No 103
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.53 E-value=1.3e-12 Score=166.28 Aligned_cols=133 Identities=19% Similarity=0.202 Sum_probs=113.6
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
..++++.|.+.|.++...+.++||||.....++.|.++|...|+++..++|.++..+|.+++..|..+... +|++|.
T Consensus 424 ~~~qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G~i~---VLV~t~ 500 (655)
T TIGR00631 424 TDGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFD---VLVGIN 500 (655)
T ss_pred ccchHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcCCce---EEEEcC
Confidence 45688889999988888999999999999999999999999999999999999999999999999887654 788999
Q ss_pred ccccccCcccCCEEEEEc-----CCCChhhHHHHhhhhcccCCCCcEEEEEEEeCCC--HHHHHHH
Q 000377 1488 AGGVGVNLQAADTVIIFD-----TDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQT--VEEQVRA 1546 (1605)
Q Consensus 1488 AGGeGLNLq~ADtVIiyD-----p~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~T--IEEkIle 1546 (1605)
.+++|++++.++.||++| .+-+...++|++||++|.. .-.|+-|+...| +...|.+
T Consensus 501 ~L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~~---~G~vi~~~~~~~~~~~~ai~~ 563 (655)
T TIGR00631 501 LLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNV---NGKVIMYADKITDSMQKAIEE 563 (655)
T ss_pred hhcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCCC---CCEEEEEEcCCCHHHHHHHHH
Confidence 999999999999999999 5668899999999999973 234555555443 4444443
No 104
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.52 E-value=1.3e-13 Score=159.03 Aligned_cols=120 Identities=18% Similarity=0.254 Sum_probs=102.3
Q ss_pred HHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccc
Q 000377 1411 KLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGG 1490 (1605)
Q Consensus 1411 Kle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGG 1490 (1605)
|++.|.++.. +.. -...||||+....+..|...|...|+.+..|+|.+..++|..++++|+.+... +||+|.+..
T Consensus 317 K~~~l~~lyg-~~t-igqsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~k---VLitTnV~A 391 (477)
T KOG0332|consen 317 KYQALVNLYG-LLT-IGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEK---VLITTNVCA 391 (477)
T ss_pred HHHHHHHHHh-hhh-hhheEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcce---EEEEechhh
Confidence 6677766433 222 24679999999999999999999999999999999999999999999999887 899999999
Q ss_pred cccCcccCCEEEEEcCCC------ChhhHHHHhhhhcccCCCCcEEEEEEEeC
Q 000377 1491 VGVNLQAADTVIIFDTDW------NPQVDLQAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1491 eGLNLq~ADtVIiyDp~W------NP~~d~QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
+|||.+..+.||+||.|- .+..|.+|+||++|.|.+- + ++.|+-.
T Consensus 392 RGiDv~qVs~VvNydlP~~~~~~pD~etYlHRiGRtGRFGkkG-~-a~n~v~~ 442 (477)
T KOG0332|consen 392 RGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKKG-L-AINLVDD 442 (477)
T ss_pred cccccceEEEEEecCCccccCCCCCHHHHHHHhcccccccccc-e-EEEeecc
Confidence 999999999999999884 6889999999999999543 3 3345544
No 105
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.52 E-value=2.6e-12 Score=164.54 Aligned_cols=121 Identities=12% Similarity=0.102 Sum_probs=108.6
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
...|+.++.+.+.++.+.|..|||||......+.|..+|...|+++..|++.....+|+.+.+.|+.+. ++|+|.
T Consensus 426 ~~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G~-----VtIATN 500 (896)
T PRK13104 426 QADKFQAIIEDVRECGVRKQPVLVGTVSIEASEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRPGA-----VTIATN 500 (896)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCCCc-----EEEecc
Confidence 456999999999999999999999999999999999999999999999999999999999999997763 899999
Q ss_pred ccccccCccc--------------------------------------CCEEEEEcCCCChhhHHHHhhhhcccCCCCcE
Q 000377 1488 AGGVGVNLQA--------------------------------------ADTVIIFDTDWNPQVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1488 AGGeGLNLq~--------------------------------------ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV 1529 (1605)
.+|+|+|+.= -=+||.-..+-|-..+.|-.||++|.|..-..
T Consensus 501 mAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGss 580 (896)
T PRK13104 501 MAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGSS 580 (896)
T ss_pred CccCCcceecCCchhhhhhccccchhhHHHHHHHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCce
Confidence 9999999652 23788889999999999999999999987665
Q ss_pred EEEE
Q 000377 1530 LVLR 1533 (1605)
Q Consensus 1530 ~VyR 1533 (1605)
..|-
T Consensus 581 ~f~l 584 (896)
T PRK13104 581 RFYL 584 (896)
T ss_pred EEEE
Confidence 5553
No 106
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.51 E-value=9.4e-14 Score=146.11 Aligned_cols=161 Identities=26% Similarity=0.343 Sum_probs=115.8
Q ss_pred CCCccHHHHHHHHHHHHHhhcC-CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCC
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQ-LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPR 1165 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~-~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~ 1165 (1605)
..+++|||.+++.++.. . .++++..++|+|||..++.++...+.... .+++||++|+. +..+|..++..+++.
T Consensus 6 ~~~~~~~Q~~~~~~~~~----~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~-~~~~l~~~p~~~~~~~~~~~~~~~~~~ 80 (201)
T smart00487 6 FEPLRPYQKEAIEALLS----GLRDVILAAPTGSGKTLAALLPALEALKRGK-GKRVLVLVPTRELAEQWAEELKKLGPS 80 (201)
T ss_pred CCCCCHHHHHHHHHHHc----CCCcEEEECCCCCchhHHHHHHHHHHhcccC-CCcEEEEeCCHHHHHHHHHHHHHHhcc
Confidence 36899999999988775 3 78899999999999988777777665433 45799999965 678899999988865
Q ss_pred ---ceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC-cc-chHHHHHHhh
Q 000377 1166 ---IHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN-AS-CKLNADLKHY 1240 (1605)
Q Consensus 1166 ---l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN-~~-SKlsraL~~L 1240 (1605)
.....+.+..... .+. .......+++++|++.+........+....|+++||||+|.+.+ .. ......+..+
T Consensus 81 ~~~~~~~~~~~~~~~~--~~~-~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~ 157 (201)
T smart00487 81 LGLKVVGLYGGDSKRE--QLR-KLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLL 157 (201)
T ss_pred CCeEEEEEeCCcchHH--HHH-HHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhC
Confidence 3344555543211 111 22234459999999999876555445666789999999999985 33 3333333444
Q ss_pred -hccceecccccCCCCC
Q 000377 1241 -QSSHRLLLTGTPLQNN 1256 (1605)
Q Consensus 1241 -~a~~RLLLTGTPlqNn 1256 (1605)
...+++++||||..+.
T Consensus 158 ~~~~~~v~~saT~~~~~ 174 (201)
T smart00487 158 PKNVQLLLLSATPPEEI 174 (201)
T ss_pred CccceEEEEecCCchhH
Confidence 5788899999997443
No 107
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.50 E-value=3.3e-12 Score=162.82 Aligned_cols=119 Identities=13% Similarity=0.158 Sum_probs=102.7
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
...|+..|.+.+......+..|||||......+.|...|...|+++..|+|.....++.-+...++.+ -++|+|.
T Consensus 422 ~~~K~~al~~~i~~~~~~g~pvLI~t~si~~se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~g-----~VtIATn 496 (796)
T PRK12906 422 LDSKFNAVVKEIKERHAKGQPVLVGTVAIESSERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQRG-----AVTIATN 496 (796)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCCc-----eEEEEec
Confidence 34688999999988888999999999999999999999999999999999998855566555555333 2899999
Q ss_pred ccccccCcc---cCC-----EEEEEcCCCChhhHHHHhhhhcccCCCCcEEE
Q 000377 1488 AGGVGVNLQ---AAD-----TVIIFDTDWNPQVDLQAQARAHRIGQKRDVLV 1531 (1605)
Q Consensus 1488 AGGeGLNLq---~AD-----tVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~V 1531 (1605)
.+|+|+|+. .+. +||.++.+-|...+.|+.||++|.|..-....
T Consensus 497 mAGRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s~~ 548 (796)
T PRK12906 497 MAGRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLRGRSGRQGDPGSSRF 548 (796)
T ss_pred cccCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHhhhhccCCCCcceEE
Confidence 999999995 677 99999999999999999999999998765433
No 108
>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=99.50 E-value=1e-13 Score=137.48 Aligned_cols=138 Identities=27% Similarity=0.334 Sum_probs=101.8
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhCC-CceEEEEcCChhHHHHHHHhhhhc
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWAP-RIHKIVYCGPPEERRRLFKEKIVH 1188 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~KwaP-~l~vivy~Gs~~~R~~l~~~~i~~ 1188 (1605)
+++|.+++|+|||.+++.++..+... ...+++||+||...+ .+|...+..|.. ...+.++.+........ ....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~-~~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ 77 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS-LKGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQE---KLLS 77 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc-ccCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHH---HHhc
Confidence 67999999999999999999888765 234679999999866 455677777775 45555665554433322 2224
Q ss_pred CCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHH---HHHHhhhccceecccccC
Q 000377 1189 QKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLN---ADLKHYQSSHRLLLTGTP 1252 (1605)
Q Consensus 1189 ~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKls---raL~~L~a~~RLLLTGTP 1252 (1605)
...+++++||+.+........+....|+++||||+|.+.+...... .........+++++||||
T Consensus 78 ~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 78 GKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLSATP 144 (144)
T ss_pred CCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCCccceEEEEeccC
Confidence 6789999999998775554444566899999999999988765543 233345678899999998
No 109
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.50 E-value=3.2e-12 Score=165.34 Aligned_cols=309 Identities=18% Similarity=0.239 Sum_probs=200.2
Q ss_pred CCccHHHHHHHHHHHHHhhcCC--CeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc-hHHHHHHhCC-
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQL--NGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG-WESEINFWAP- 1164 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~--nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n-W~~Ef~KwaP- 1164 (1605)
.+-.|=|+.+++-+..=...+. .-+||.++|.|||=+|+-.+-. .-...+-+.|+||+.+|.+ -.+-|..-+.
T Consensus 593 yeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFk---AV~~GKQVAvLVPTTlLA~QHy~tFkeRF~~ 669 (1139)
T COG1197 593 YEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFK---AVMDGKQVAVLVPTTLLAQQHYETFKERFAG 669 (1139)
T ss_pred CcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHH---HhcCCCeEEEEcccHHhHHHHHHHHHHHhcC
Confidence 4566789999988876544443 4599999999999998633321 2223345899999998855 3333433332
Q ss_pred ---CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhhh
Q 000377 1165 ---RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQ 1241 (1605)
Q Consensus 1165 ---~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~ 1241 (1605)
.+.++.-.-+.++.+.+ ...+..+..||||-|+..|.++. .-.+-.+|||||=||+.- +.-..++.++
T Consensus 670 fPV~I~~LSRF~s~kE~~~i-l~~la~G~vDIvIGTHrLL~kdv-----~FkdLGLlIIDEEqRFGV---k~KEkLK~Lr 740 (1139)
T COG1197 670 FPVRIEVLSRFRSAKEQKEI-LKGLAEGKVDIVIGTHRLLSKDV-----KFKDLGLLIIDEEQRFGV---KHKEKLKELR 740 (1139)
T ss_pred CCeeEEEecccCCHHHHHHH-HHHHhcCCccEEEechHhhCCCc-----EEecCCeEEEechhhcCc---cHHHHHHHHh
Confidence 23333323334444444 45677899999999999997632 223457999999999854 3335566664
Q ss_pred c-cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1242 S-SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1242 a-~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
+ ...|-|||||+...+.= +|. + ++.|.
T Consensus 741 ~~VDvLTLSATPIPRTL~M--sm~-----G-------------------------------------iRdlS-------- 768 (1139)
T COG1197 741 ANVDVLTLSATPIPRTLNM--SLS-----G-------------------------------------IRDLS-------- 768 (1139)
T ss_pred ccCcEEEeeCCCCcchHHH--HHh-----c-------------------------------------chhhh--------
Confidence 4 57899999998765430 000 0 00000
Q ss_pred HHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCC
Q 000377 1321 RRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKH 1400 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~ 1400 (1605)
+. .-||.....|.....++.-.
T Consensus 769 ------vI-~TPP~~R~pV~T~V~~~d~~--------------------------------------------------- 790 (1139)
T COG1197 769 ------VI-ATPPEDRLPVKTFVSEYDDL--------------------------------------------------- 790 (1139)
T ss_pred ------hc-cCCCCCCcceEEEEecCChH---------------------------------------------------
Confidence 11 12332222222111111110
Q ss_pred CCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc--CceEEEEeCCCCHHHHHHHHHHHhCCCCC
Q 000377 1401 YLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK--QYRYLRLDGHTSGGDRGALIDKFNQQDSP 1478 (1605)
Q Consensus 1401 ~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~--GikylrLdGsts~eERqeiId~FN~gds~ 1478 (1605)
+++ ..++.++ ..|..|....+.+..+..+...|... ..++...||.|+..+-++++..|.+++.+
T Consensus 791 ----~ir--------eAI~REl-~RgGQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~d 857 (1139)
T COG1197 791 ----LIR--------EAILREL-LRGGQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYD 857 (1139)
T ss_pred ----HHH--------HHHHHHH-hcCCEEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCCCC
Confidence 000 1122222 23556666677777777777777653 45788899999999999999999999887
Q ss_pred eEEEEEeccccccccCcccCCEEEEEcCC-CChhhHHHHhhhhcccCCCCcEEEEEEEeC
Q 000377 1479 FFIFLLSIRAGGVGVNLQAADTVIIFDTD-WNPQVDLQAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1479 ~~VfLLSTrAGGeGLNLq~ADtVIiyDp~-WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
+|+||..-..|||+++|||+|+-+.+ +--++..|--||++|-.. .-+.|-|+..
T Consensus 858 ---VLv~TTIIEtGIDIPnANTiIIe~AD~fGLsQLyQLRGRVGRS~~--~AYAYfl~p~ 912 (1139)
T COG1197 858 ---VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSNK--QAYAYFLYPP 912 (1139)
T ss_pred ---EEEEeeeeecCcCCCCCceEEEeccccccHHHHHHhccccCCccc--eEEEEEeecC
Confidence 79999999999999999999999987 678899999999999543 3455555543
No 110
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.49 E-value=3e-13 Score=175.29 Aligned_cols=313 Identities=16% Similarity=0.143 Sum_probs=215.2
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~ 1167 (1605)
-.+||-|.++|...+. +..+++-.+||.||++..-.-+ .-..+-+|||.|+- |+.....-+.+. .+.
T Consensus 263 ~~FR~~Q~eaI~~~l~----Gkd~fvlmpTG~GKSLCYQlPA------~l~~gitvVISPL~SLm~DQv~~L~~~--~I~ 330 (941)
T KOG0351|consen 263 KGFRPNQLEAINATLS----GKDCFVLMPTGGGKSLCYQLPA------LLLGGVTVVISPLISLMQDQVTHLSKK--GIP 330 (941)
T ss_pred ccCChhHHHHHHHHHc----CCceEEEeecCCceeeEeeccc------cccCCceEEeccHHHHHHHHHHhhhhc--Ccc
Confidence 4789999999986555 8889999999999997663221 12234689999975 554444444332 233
Q ss_pred EEEEcCCh--hHHHHHHHhhhhcC--CccEEEEcHHHHhhccCCC-cc-cccC---ccEEEEecCccccCccc-------
Q 000377 1168 KIVYCGPP--EERRRLFKEKIVHQ--KFNVLLTTYEYLMNKHDRP-KL-SKIQ---WHYIIIDEGHRIKNASC------- 1231 (1605)
Q Consensus 1168 vivy~Gs~--~~R~~l~~~~i~~~--~fdVVITTYe~L~k~~D~~-~L-~ki~---wd~VIIDEAHriKN~~S------- 1231 (1605)
.....+.. .++..++ ..+..+ .++++-.|+|.+....... .+ .... ..++||||||.+..+..
T Consensus 331 a~~L~s~q~~~~~~~i~-q~l~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAHCVSqWgHdFRp~Yk 409 (941)
T KOG0351|consen 331 ACFLSSIQTAAERLAIL-QKLANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVIDEAHCVSQWGHDFRPSYK 409 (941)
T ss_pred eeeccccccHHHHHHHH-HHHhCCCCeEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEecHHHHhhhhcccccHHHH
Confidence 33444433 3333343 234444 7899999999997632211 11 1112 57899999999866432
Q ss_pred hHHHHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHH
Q 000377 1232 KLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRL 1311 (1605)
Q Consensus 1232 KlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL 1311 (1605)
++.....++.....|+||||--..--.|+...|++-+|.+|.+ -|+.+
T Consensus 410 ~l~~l~~~~~~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~------sfnR~-------------------------- 457 (941)
T KOG0351|consen 410 RLGLLRIRFPGVPFIALTATATERVREDVIRSLGLRNPELFKS------SFNRP-------------------------- 457 (941)
T ss_pred HHHHHHhhCCCCCeEEeehhccHHHHHHHHHHhCCCCcceecc------cCCCC--------------------------
Confidence 2233333455567899999998888888888888877775432 12111
Q ss_pred HHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhh
Q 000377 1312 HQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAE 1391 (1605)
Q Consensus 1312 ~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~e 1391 (1605)
...+-|..... ....
T Consensus 458 ----------------------NL~yeV~~k~~---------------------~~~~---------------------- 472 (941)
T KOG0351|consen 458 ----------------------NLKYEVSPKTD---------------------KDAL---------------------- 472 (941)
T ss_pred ----------------------CceEEEEeccC---------------------ccch----------------------
Confidence 00111110000 0000
Q ss_pred hhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHH
Q 000377 1392 EVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDK 1471 (1605)
Q Consensus 1392 eid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~ 1471 (1605)
..+...+. ....+.-.||||......+.+...|...|++...|+.++...+|+.+-..
T Consensus 473 ---------------------~~~~~~~~-~~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~ 530 (941)
T KOG0351|consen 473 ---------------------LDILEESK-LRHPDQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKA 530 (941)
T ss_pred ---------------------HHHHHHhh-hcCCCCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHH
Confidence 00011111 12345678999999999999999999999999999999999999999999
Q ss_pred HhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEe
Q 000377 1472 FNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFET 1536 (1605)
Q Consensus 1472 FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt 1536 (1605)
|..+... +++.|=|.|.|||-.++..||+|..|-+..-|.|..|||+|-|+...+..|+=..
T Consensus 531 w~~~~~~---VivATVAFGMGIdK~DVR~ViH~~lPks~E~YYQE~GRAGRDG~~s~C~l~y~~~ 592 (941)
T KOG0351|consen 531 WMSDKIR---VIVATVAFGMGIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSSCVLLYGYA 592 (941)
T ss_pred HhcCCCe---EEEEEeeccCCCCCCceeEEEECCCchhHHHHHHhccccCcCCCcceeEEecchh
Confidence 9888754 7888899999999999999999999999999999999999999998877665443
No 111
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=99.48 E-value=6.8e-14 Score=130.46 Aligned_cols=78 Identities=31% Similarity=0.546 Sum_probs=74.5
Q ss_pred HHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhccc
Q 000377 1444 DYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRI 1523 (1605)
Q Consensus 1444 ~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRI 1523 (1605)
.+|+..++++..++|.++.++|.++++.|+.++.. +|++|.++++|||++.+++||+||++||+..+.|++||++|.
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~---vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~ 77 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEIR---VLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRI 77 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSSS---EEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTT
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCce---EEEeeccccccccccccccccccccCCCHHHHHHHhhcCCCC
Confidence 36889999999999999999999999999998875 899999999999999999999999999999999999999998
Q ss_pred C
Q 000377 1524 G 1524 (1605)
Q Consensus 1524 G 1524 (1605)
|
T Consensus 78 g 78 (78)
T PF00271_consen 78 G 78 (78)
T ss_dssp T
T ss_pred C
Confidence 7
No 112
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.48 E-value=4.5e-12 Score=152.04 Aligned_cols=314 Identities=18% Similarity=0.135 Sum_probs=206.5
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHH-HHHHHHHHHhcCCCCCEEEEecCCcccc-hHHHHHHhC-C-
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQV-IALICYLMETKNDRGPFLVVVPSSVLPG-WESEINFWA-P- 1164 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqA-IALI~~Lle~k~~~gP~LIVvP~SLL~n-W~~Ef~Kwa-P- 1164 (1605)
.+|.|-|..++..- +-++.|-++...|++|||+++ +|-|-.++. ..+.+|.+||.-.+.| -..+|.+-+ +
T Consensus 215 ~eLlPVQ~laVe~G---LLeG~nllVVSaTasGKTLIgElAGi~~~l~---~g~KmlfLvPLVALANQKy~dF~~rYs~L 288 (830)
T COG1202 215 EELLPVQVLAVEAG---LLEGENLLVVSATASGKTLIGELAGIPRLLS---GGKKMLFLVPLVALANQKYEDFKERYSKL 288 (830)
T ss_pred ceecchhhhhhhhc---cccCCceEEEeccCCCcchHHHhhCcHHHHh---CCCeEEEEehhHHhhcchHHHHHHHhhcc
Confidence 47999999998743 335778899999999999876 344444432 3466999999987755 456676444 3
Q ss_pred CceEEEEcCChhHHHHHHHh---hhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC--ccchH---HHH
Q 000377 1165 RIHKIVYCGPPEERRRLFKE---KIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN--ASCKL---NAD 1236 (1605)
Q Consensus 1165 ~l~vivy~Gs~~~R~~l~~~---~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN--~~SKl---sra 1236 (1605)
.+.+-+-.|....+. ..+ .....+.||+|-||+-+--..... -.--+...|||||.|.+.. ....+ ...
T Consensus 289 glkvairVG~srIk~--~~~pv~~~t~~dADIIVGTYEGiD~lLRtg-~~lgdiGtVVIDEiHtL~deERG~RLdGLI~R 365 (830)
T COG1202 289 GLKVAIRVGMSRIKT--REEPVVVDTSPDADIIVGTYEGIDYLLRTG-KDLGDIGTVVIDEIHTLEDEERGPRLDGLIGR 365 (830)
T ss_pred cceEEEEechhhhcc--cCCccccCCCCCCcEEEeechhHHHHHHcC-CcccccceEEeeeeeeccchhcccchhhHHHH
Confidence 344445555443222 111 112357899999998763211110 1122457899999999976 23333 333
Q ss_pred HHhh-hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHh
Q 000377 1237 LKHY-QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVL 1315 (1605)
Q Consensus 1237 L~~L-~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvL 1315 (1605)
|+.+ .....+.||||- .|+.||..-|..- ++.
T Consensus 366 Lr~l~~~AQ~i~LSATV--gNp~elA~~l~a~-----------------lV~---------------------------- 398 (830)
T COG1202 366 LRYLFPGAQFIYLSATV--GNPEELAKKLGAK-----------------LVL---------------------------- 398 (830)
T ss_pred HHHhCCCCeEEEEEeec--CChHHHHHHhCCe-----------------eEe----------------------------
Confidence 4443 446779999995 5566665544211 000
Q ss_pred hHHHHHHhhhhHhhcCc-cceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhh
Q 000377 1316 RPFVLRRLKHKVENELP-EKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVD 1394 (1605)
Q Consensus 1316 rPFlLRRtKkdVe~eLP-~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid 1394 (1605)
...-| |...+++.|.-...
T Consensus 399 ------------y~~RPVplErHlvf~~~e~e------------------------------------------------ 418 (830)
T COG1202 399 ------------YDERPVPLERHLVFARNESE------------------------------------------------ 418 (830)
T ss_pred ------------ecCCCCChhHeeeeecCchH------------------------------------------------
Confidence 01112 11223444432211
Q ss_pred hcCCCCCCChhhhhccHHHHHHHHHHHh----hcCC--CeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHH
Q 000377 1395 TLIPKHYLPPIVRLCGKLEMLDRLLPKL----KATD--HRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGAL 1468 (1605)
Q Consensus 1395 ~~i~~~~~~~lvr~SgKle~L~~LL~kL----~a~g--~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqei 1468 (1605)
|...+.++++.- ...| ..+|||+..+.-...|.++|..+|++...+|++++..+|..+
T Consensus 419 ----------------K~~ii~~L~k~E~~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~v 482 (830)
T COG1202 419 ----------------KWDIIARLVKREFSTESSKGYRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSV 482 (830)
T ss_pred ----------------HHHHHHHHHHHHHhhhhccCcCCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHH
Confidence 111111111110 1122 468999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCCeEEEEEeccccccccCcccCCEEEE----Ec-CCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1469 IDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVII----FD-TDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1469 Id~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIi----yD-p~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
-..|.+.+.. .+++|.|.+-|+|++ |+.||| +- -|.+|..+.|..|||+|.+-...-.||-++-.+
T Consensus 483 E~~F~~q~l~---~VVTTAAL~AGVDFP-ASQVIFEsLaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg 553 (830)
T COG1202 483 ERAFAAQELA---AVVTTAALAAGVDFP-ASQVIFESLAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPG 553 (830)
T ss_pred HHHHhcCCcc---eEeehhhhhcCCCCc-hHHHHHHHHHcccccCCHHHHHHHhcccCCCCcccCceEEEEecCC
Confidence 9999888876 789999999999999 456654 23 455999999999999999987777788787654
No 113
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.48 E-value=2.1e-11 Score=155.83 Aligned_cols=124 Identities=20% Similarity=0.207 Sum_probs=109.3
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
..+++..|.+.|..+...+.++||||.....++.|.++|...|+++..++|.++..+|..++..|..+... +|++|.
T Consensus 428 ~~~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~---vlV~t~ 504 (652)
T PRK05298 428 TKGQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFD---VLVGIN 504 (652)
T ss_pred ccccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCCce---EEEEeC
Confidence 35678888898988888999999999999999999999999999999999999999999999999877654 788999
Q ss_pred ccccccCcccCCEEEEEcC-----CCChhhHHHHhhhhcccCCCCcEEEEEEEeC
Q 000377 1488 AGGVGVNLQAADTVIIFDT-----DWNPQVDLQAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1488 AGGeGLNLq~ADtVIiyDp-----~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
.+++|++++.+++||++|. +-++..|.|++||++|- +.-.++.|+..
T Consensus 505 ~L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~---~~G~~i~~~~~ 556 (652)
T PRK05298 505 LLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN---VNGKVILYADK 556 (652)
T ss_pred HHhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC---CCCEEEEEecC
Confidence 9999999999999999996 46899999999999994 23345556653
No 114
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.45 E-value=3.6e-12 Score=160.97 Aligned_cols=321 Identities=18% Similarity=0.128 Sum_probs=191.8
Q ss_pred ccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-------CCCCEEEEecCCcc-c----chHHH
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-------DRGPFLVVVPSSVL-P----GWESE 1158 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-------~~gP~LIVvP~SLL-~----nW~~E 1158 (1605)
|---|-+++. ..|+.+.|.|+|.+||+|||..|...|+.++..+. +.-+++.|+|...| . +|...
T Consensus 111 fN~iQS~vFp---~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kk 187 (1230)
T KOG0952|consen 111 FNRIQSEVFP---VAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKK 187 (1230)
T ss_pred HHHHHHHhhh---hhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhh
Confidence 3344444443 35788999999999999999999888888777522 22358999997643 2 34443
Q ss_pred HHHhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhh----cc-CCCcccccCccEEEEecCccccCccc--
Q 000377 1159 INFWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMN----KH-DRPKLSKIQWHYIIIDEGHRIKNASC-- 1231 (1605)
Q Consensus 1159 f~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k----~~-D~~~L~ki~wd~VIIDEAHriKN~~S-- 1231 (1605)
|.-| ++.|..+.|+..-.+ .. ..+.+|+|||+|.+-- .. |...+. ...+|||||.|.+.....
T Consensus 188 l~~~--gi~v~ELTGD~ql~~----te--i~~tqiiVTTPEKwDvvTRk~~~d~~l~~--~V~LviIDEVHlLhd~RGpv 257 (1230)
T KOG0952|consen 188 LAPL--GISVRELTGDTQLTK----TE--IADTQIIVTTPEKWDVVTRKSVGDSALFS--LVRLVIIDEVHLLHDDRGPV 257 (1230)
T ss_pred cccc--cceEEEecCcchhhH----HH--HHhcCEEEecccceeeeeeeeccchhhhh--heeeEEeeeehhhcCcccch
Confidence 3333 578888999875433 22 2568999999997621 00 111111 246899999999987543
Q ss_pred ---hHHHHHHhh----hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHH
Q 000377 1232 ---KLNADLKHY----QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEEN 1304 (1605)
Q Consensus 1232 ---KlsraL~~L----~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~ 1304 (1605)
-.++.++.. ..-+.++||||- ..+..+-.||..+.+.....|...|.-
T Consensus 258 lEtiVaRtlr~vessqs~IRivgLSATl-----PN~eDvA~fL~vn~~~glfsFd~~yRP-------------------- 312 (1230)
T KOG0952|consen 258 LETIVARTLRLVESSQSMIRIVGLSATL-----PNYEDVARFLRVNPYAGLFSFDQRYRP-------------------- 312 (1230)
T ss_pred HHHHHHHHHHHHHhhhhheEEEEeeccC-----CCHHHHHHHhcCCCccceeeecccccc--------------------
Confidence 334444333 234668999994 223333445544443333334333321
Q ss_pred HHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEeccc--HHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcC
Q 000377 1305 LLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEAS--AYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNH 1382 (1605)
Q Consensus 1305 ~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS--~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnH 1382 (1605)
.-|+ ..++-+... ..|...
T Consensus 313 -------------vpL~--------------~~~iG~k~~~~~~~~~~-------------------------------- 333 (1230)
T KOG0952|consen 313 -------------VPLT--------------QGFIGIKGKKNRQQKKN-------------------------------- 333 (1230)
T ss_pred -------------ccee--------------eeEEeeecccchhhhhh--------------------------------
Confidence 1100 011111000 000000
Q ss_pred ccccchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh----cCc-------
Q 000377 1383 PYLSQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF----KQY------- 1451 (1605)
Q Consensus 1383 P~L~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~----~Gi------- 1451 (1605)
++ .++.+.+ .++...||.|+||++.+...-.....|.. .|.
T Consensus 334 ----------~d--------------~~~~~kv----~e~~~~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~ 385 (1230)
T KOG0952|consen 334 ----------ID--------------EVCYDKV----VEFLQEGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPS 385 (1230)
T ss_pred ----------HH--------------HHHHHHH----HHHHHcCCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCC
Confidence 00 0112222 22345688888888777544333333322 222
Q ss_pred ------------eEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChh--------
Q 000377 1452 ------------RYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQ-------- 1511 (1605)
Q Consensus 1452 ------------kylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~-------- 1511 (1605)
....-+.++...+|.-.-+.|..+..+ +|+||....-|+||++--.||-=...|++.
T Consensus 386 ~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F~~G~i~---vL~cTaTLAwGVNLPA~aViIKGT~~ydsskg~f~dlg 462 (1230)
T KOG0952|consen 386 PRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEFKEGHIK---VLCCTATLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLG 462 (1230)
T ss_pred hhhHHHHHHHHhhhhhcccccchhhHHHHHHHHhcCCce---EEEecceeeeccCCcceEEEecCCcccccccCceeeeh
Confidence 123346678888999999999888766 799999999999999665555545556654
Q ss_pred --hHHHHhhhhcccCCCCcEEEEEEEeCCC
Q 000377 1512 --VDLQAQARAHRIGQKRDVLVLRFETVQT 1539 (1605)
Q Consensus 1512 --~d~QAiGRAhRIGQkKeV~VyRLIt~~T 1539 (1605)
+..|.+|||+|..=.+.-..+-+.+.+.
T Consensus 463 ilDVlQifGRAGRPqFd~~G~giIiTt~dk 492 (1230)
T KOG0952|consen 463 ILDVLQIFGRAGRPQFDSSGEGIIITTRDK 492 (1230)
T ss_pred HHHHHHHHhccCCCCCCCCceEEEEecccH
Confidence 4899999999998877755555555443
No 115
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.45 E-value=3.3e-12 Score=169.18 Aligned_cols=107 Identities=16% Similarity=0.172 Sum_probs=87.6
Q ss_pred CCCeEEEEEccHHHHHHHHHHHhhcCce---EEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEE
Q 000377 1425 TDHRVLFFSTMTRLLDVMEDYLTFKQYR---YLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTV 1501 (1605)
Q Consensus 1425 ~g~KVLIFSQft~~LdiLe~~L~~~Gik---ylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtV 1501 (1605)
....+|||+.....++.+.+.|...+++ ++.|+|+++.++|..+++.+ + .+-+|+||+.+++||+++.+++|
T Consensus 285 ~~GdILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~~--g---~rkIIVATNIAEtSITIpgI~yV 359 (1294)
T PRK11131 285 GPGDILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQSH--S---GRRIVLATNVAETSLTVPGIKYV 359 (1294)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhccc--C---CeeEEEeccHHhhccccCcceEE
Confidence 4568999999999999999999887765 67899999999999887653 2 23479999999999999999999
Q ss_pred EEEc---------------CCCCh---hhHHHHhhhhcccCCCCcEEEEEEEeCCC
Q 000377 1502 IIFD---------------TDWNP---QVDLQAQARAHRIGQKRDVLVLRFETVQT 1539 (1605)
Q Consensus 1502 IiyD---------------p~WNP---~~d~QAiGRAhRIGQkKeV~VyRLIt~~T 1539 (1605)
|.++ .+..| ..+.||.||++|. .+-.+|+|++...
T Consensus 360 ID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~---~~G~c~rLyte~d 412 (1294)
T PRK11131 360 IDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV---SEGICIRLYSEDD 412 (1294)
T ss_pred EECCCccccccccccCcccCCeeecCHhhHhhhccccCCC---CCcEEEEeCCHHH
Confidence 9975 23223 6799999999997 4667889988653
No 116
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.45 E-value=7.1e-13 Score=154.22 Aligned_cols=313 Identities=18% Similarity=0.250 Sum_probs=210.9
Q ss_pred cHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch-HHHHHHhCC--CceE
Q 000377 1092 REYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW-ESEINFWAP--RIHK 1168 (1605)
Q Consensus 1092 RpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW-~~Ef~KwaP--~l~v 1168 (1605)
..-|..|+--++. +.+.+.-...|+|||.+....++..+.......-+||++|...+.+. ..-...|.. +..+
T Consensus 50 SaIQqraI~p~i~----G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~~v~~~lg~~~~~~v 125 (397)
T KOG0327|consen 50 SAIQQRAILPCIK----GHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRALGDHMDVSV 125 (397)
T ss_pred hHHHhcccccccc----CCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHHHHHHhhhcccceee
Confidence 3447777765555 78888888999999998666665554333333347999999977553 333344443 3455
Q ss_pred EEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCcc--chHHHHHHhhhc-cce
Q 000377 1169 IVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNAS--CKLNADLKHYQS-SHR 1245 (1605)
Q Consensus 1169 ivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~--SKlsraL~~L~a-~~R 1245 (1605)
....|....+.+. ..+......|++.|+..+..-.+...|......+.|+|||..+...+ .+.+..+..++. ...
T Consensus 126 ~~~igg~~~~~~~--~~i~~~~~hivvGTpgrV~dml~~~~l~~~~iKmfvlDEaDEmLs~gfkdqI~~if~~lp~~vQv 203 (397)
T KOG0327|consen 126 HACIGGTNVRRED--QALLKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDEADEMLSRGFKDQIYDIFQELPSDVQV 203 (397)
T ss_pred eeecCcccchhhh--hhhhccCceeecCCchhHHHhhccccccccceeEEeecchHhhhccchHHHHHHHHHHcCcchhh
Confidence 5444543333221 22334567899999988876666677788888999999999986543 345555555533 345
Q ss_pred ecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHhhh
Q 000377 1246 LLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRRLKH 1325 (1605)
Q Consensus 1246 LLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtKk 1325 (1605)
+++|||-- .++..
T Consensus 204 ~l~SAT~p----~~vl~--------------------------------------------------------------- 216 (397)
T KOG0327|consen 204 VLLSATMP----SDVLE--------------------------------------------------------------- 216 (397)
T ss_pred eeecccCc----HHHHH---------------------------------------------------------------
Confidence 66777731 11100
Q ss_pred hHhhcCccceEE-EEE-ecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCCC
Q 000377 1326 KVENELPEKIER-LVR-CEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYLP 1403 (1605)
Q Consensus 1326 dVe~eLP~K~E~-vI~-~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~~ 1403 (1605)
|....+..... .++ -+++ +.-.+ +-|.
T Consensus 217 -vt~~f~~~pv~i~vkk~~lt----------------------------l~gik----q~~i------------------ 245 (397)
T KOG0327|consen 217 -VTKKFMREPVRILVKKDELT----------------------------LEGIK----QFYI------------------ 245 (397)
T ss_pred -HHHHhccCceEEEecchhhh----------------------------hhhee----eeee------------------
Confidence 00011110000 000 0000 00000 0000
Q ss_pred hhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEE
Q 000377 1404 PIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFL 1483 (1605)
Q Consensus 1404 ~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfL 1483 (1605)
.+.-..|+..|.++.. .-...+|||+...-++.|.+.|...++....++|.+...+|..++..|+.+.+. +|
T Consensus 246 -~v~k~~k~~~l~dl~~----~~~q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gssr---vl 317 (397)
T KOG0327|consen 246 -NVEKEEKLDTLCDLYR----RVTQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSR---VL 317 (397)
T ss_pred -eccccccccHHHHHHH----hhhcceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCCce---EE
Confidence 0001127888888887 345789999999999999999999999999999999999999999999998876 89
Q ss_pred EeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1484 LSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1484 LSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
|+|...++|+|++.++.||+||.|-|...|.+++||++|.|.+ -.+..++++.
T Consensus 318 Ittdl~argidv~~~slvinydlP~~~~~yihR~gr~gr~grk--g~~in~v~~~ 370 (397)
T KOG0327|consen 318 ITTDLLARGIDVQQVSLVVNYDLPARKENYIHRIGRAGRFGRK--GVAINFVTEE 370 (397)
T ss_pred eeccccccccchhhcceeeeeccccchhhhhhhcccccccCCC--ceeeeeehHh
Confidence 9999999999999999999999999999999999999999954 3455566654
No 117
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.43 E-value=6.5e-11 Score=151.56 Aligned_cols=120 Identities=10% Similarity=0.086 Sum_probs=107.7
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
...|+..+.+-+.++.+.|..|||||......+.|..+|...|+++..|++.....+|..+.+.|+.+. ++|+|.
T Consensus 431 ~~~K~~Aii~ei~~~~~~GrpVLV~t~sv~~se~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G~-----VtIATn 505 (908)
T PRK13107 431 ADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTGA-----VTIATN 505 (908)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEeCcHHHHHHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCCc-----EEEecC
Confidence 357999999999999999999999999999999999999999999999999999999999999997664 799999
Q ss_pred ccccccCccc-------------------------------------CCEEEEEcCCCChhhHHHHhhhhcccCCCCcEE
Q 000377 1488 AGGVGVNLQA-------------------------------------ADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVL 1530 (1605)
Q Consensus 1488 AGGeGLNLq~-------------------------------------ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~ 1530 (1605)
.+|+|+|+.= -=+||.-..+-|-..+.|..||++|.|..-...
T Consensus 506 mAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrGRaGRQGDPGss~ 585 (908)
T PRK13107 506 MAGRGTDIVLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRGRAGRQGDAGSSR 585 (908)
T ss_pred CcCCCcceecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhcccccCCCCCcee
Confidence 9999999763 237899999999999999999999999876644
Q ss_pred EE
Q 000377 1531 VL 1532 (1605)
Q Consensus 1531 Vy 1532 (1605)
.|
T Consensus 586 f~ 587 (908)
T PRK13107 586 FY 587 (908)
T ss_pred EE
Confidence 44
No 118
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.42 E-value=5.5e-11 Score=152.36 Aligned_cols=121 Identities=14% Similarity=0.104 Sum_probs=106.1
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
...|+.++.+.+.++...+..|||||......+.|...|...|+++..|+|. ..+|+..+..|..+... ++|+|+
T Consensus 412 ~~~K~~aI~~~I~~~~~~grpVLIft~Si~~se~Ls~~L~~~gi~~~vLnak--q~eREa~Iia~Ag~~g~---VtIATN 486 (830)
T PRK12904 412 EKEKFDAVVEDIKERHKKGQPVLVGTVSIEKSELLSKLLKKAGIPHNVLNAK--NHEREAEIIAQAGRPGA---VTIATN 486 (830)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCceEeccCc--hHHHHHHHHHhcCCCce---EEEecc
Confidence 3469999999998888899999999999999999999999999999999995 67999999999665544 899999
Q ss_pred ccccccCccc--------------------------------------CCEEEEEcCCCChhhHHHHhhhhcccCCCCcE
Q 000377 1488 AGGVGVNLQA--------------------------------------ADTVIIFDTDWNPQVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1488 AGGeGLNLq~--------------------------------------ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV 1529 (1605)
.+|+|+|+.- -=+||.-..+-|-..+.|..||++|.|..-..
T Consensus 487 mAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~QlrGRagRQGdpGss 566 (830)
T PRK12904 487 MAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLRGRSGRQGDPGSS 566 (830)
T ss_pred cccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhhcccccCCCCCce
Confidence 9999999654 34788889999999999999999999998776
Q ss_pred EEEE
Q 000377 1530 LVLR 1533 (1605)
Q Consensus 1530 ~VyR 1533 (1605)
..|-
T Consensus 567 ~f~l 570 (830)
T PRK12904 567 RFYL 570 (830)
T ss_pred eEEE
Confidence 5553
No 119
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.42 E-value=5.3e-12 Score=147.16 Aligned_cols=325 Identities=14% Similarity=0.135 Sum_probs=208.4
Q ss_pred HHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCceEEEE
Q 000377 1093 EYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIHKIVY 1171 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~vivy 1171 (1605)
|.|..++..++. .+..+.++++||.||++..-... |+. .+-++||.|.- ++....+.+.+.--....+--
T Consensus 23 ~LQE~A~~c~VK---~k~DVyVsMPTGaGKSLCyQLPa--L~~----~gITIV~SPLiALIkDQiDHL~~LKVp~~SLNS 93 (641)
T KOG0352|consen 23 RLQEQAINCIVK---RKCDVYVSMPTGAGKSLCYQLPA--LVH----GGITIVISPLIALIKDQIDHLKRLKVPCESLNS 93 (641)
T ss_pred hHHHHHHHHHHh---ccCcEEEeccCCCchhhhhhchH--HHh----CCeEEEehHHHHHHHHHHHHHHhcCCchhHhcc
Confidence 679999987775 56678999999999997653221 221 23468888875 455555555543222222223
Q ss_pred cCChhHHHHHHHhhh-hcCCccEEEEcHHHHhhccCCCc----ccccCccEEEEecCccccCccc------hHHHHHH-h
Q 000377 1172 CGPPEERRRLFKEKI-VHQKFNVLLTTYEYLMNKHDRPK----LSKIQWHYIIIDEGHRIKNASC------KLNADLK-H 1239 (1605)
Q Consensus 1172 ~Gs~~~R~~l~~~~i-~~~~fdVVITTYe~L~k~~D~~~----L~ki~wd~VIIDEAHriKN~~S------KlsraL~-~ 1239 (1605)
.-+..+|.+++.... ......++-+|++.......... .......|++|||||.+.-+.. ...-.|+ .
T Consensus 94 KlSt~ER~ri~~DL~~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDEAHCVSQWGHDFRPDYL~LG~LRS~ 173 (641)
T KOG0352|consen 94 KLSTVERSRIMGDLAKEKPTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVDEAHCVSQWGHDFRPDYLTLGSLRSV 173 (641)
T ss_pred hhhHHHHHHHHHHHHhcCCceeEEEEchhhhhhhhHHHHHHHHhhhceeeeEEechhhhHhhhccccCcchhhhhhHHhh
Confidence 334566776654322 23456677788877654322111 2334568999999999865322 2222232 2
Q ss_pred hhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHH
Q 000377 1240 YQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFV 1319 (1605)
Q Consensus 1240 L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFl 1319 (1605)
+.....++||||.-..--+|++..|.+-.|-..-+...|...
T Consensus 174 ~~~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFkTP~FR~N-------------------------------------- 215 (641)
T KOG0352|consen 174 CPGVPWVALTATANAKVQEDIAFQLKLRNPVAIFKTPTFRDN-------------------------------------- 215 (641)
T ss_pred CCCCceEEeecccChhHHHHHHHHHhhcCcHHhccCcchhhh--------------------------------------
Confidence 334456889999877777888888877665321111111110
Q ss_pred HHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCC
Q 000377 1320 LRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPK 1399 (1605)
Q Consensus 1320 LRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~ 1399 (1605)
..|+..-+++ +..-+..|...|.|-.-.. ++....
T Consensus 216 -----------------------------LFYD~~~K~~----------I~D~~~~LaDF~~~~LG~~---~~~~~~--- 250 (641)
T KOG0352|consen 216 -----------------------------LFYDNHMKSF----------ITDCLTVLADFSSSNLGKH---EKASQN--- 250 (641)
T ss_pred -----------------------------hhHHHHHHHH----------hhhHhHhHHHHHHHhcCCh---hhhhcC---
Confidence 0111110000 0011112222222210000 000000
Q ss_pred CCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCe
Q 000377 1400 HYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPF 1479 (1605)
Q Consensus 1400 ~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~ 1479 (1605)
-+.-..--||||..+...+.|.-.|..+|+....++.+.+..||.++-++|-+++.+
T Consensus 251 ----------------------~K~~~GCGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~P- 307 (641)
T KOG0352|consen 251 ----------------------KKTFTGCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIP- 307 (641)
T ss_pred ----------------------CCCcCcceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHhcCCCC-
Confidence 000112469999999999999999999999999999999999999999999999988
Q ss_pred EEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEE
Q 000377 1480 FIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRF 1534 (1605)
Q Consensus 1480 ~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRL 1534 (1605)
+|+.|-+.|.|+|-++...||++|++-|.+-|.|--|||+|-|-..-++.|+-
T Consensus 308 --vI~AT~SFGMGVDKp~VRFViHW~~~qn~AgYYQESGRAGRDGk~SyCRLYYs 360 (641)
T KOG0352|consen 308 --VIAATVSFGMGVDKPDVRFVIHWSPSQNLAGYYQESGRAGRDGKRSYCRLYYS 360 (641)
T ss_pred --EEEEEeccccccCCcceeEEEecCchhhhHHHHHhccccccCCCccceeeeec
Confidence 78999999999999999999999999999999999999999998888888763
No 120
>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=99.36 E-value=2.5e-11 Score=161.37 Aligned_cols=108 Identities=14% Similarity=0.124 Sum_probs=88.1
Q ss_pred CCCeEEEEEccHHHHHHHHHHHhhcC---ceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEE
Q 000377 1425 TDHRVLFFSTMTRLLDVMEDYLTFKQ---YRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTV 1501 (1605)
Q Consensus 1425 ~g~KVLIFSQft~~LdiLe~~L~~~G---ikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtV 1501 (1605)
....+|||+.-...++.+.+.|...+ +.++.|+|.++.++|.++++.+ . .+-+|+||..+++||++..+++|
T Consensus 278 ~~GdILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~---~--~rkIVLATNIAEtSLTIpgV~yV 352 (1283)
T TIGR01967 278 GPGDILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH---S--GRRIVLATNVAETSLTVPGIHYV 352 (1283)
T ss_pred CCCCEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC---C--CceEEEeccHHHhccccCCeeEE
Confidence 34689999999999999999998764 4588899999999999885443 2 13478999999999999999999
Q ss_pred EEEcCC-----------------C-ChhhHHHHhhhhcccCCCCcEEEEEEEeCCCH
Q 000377 1502 IIFDTD-----------------W-NPQVDLQAQARAHRIGQKRDVLVLRFETVQTV 1540 (1605)
Q Consensus 1502 IiyDp~-----------------W-NP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TI 1540 (1605)
|.++.. | +-..+.||.||++|.| +-.+|+|++....
T Consensus 353 IDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~---~G~cyRLyte~~~ 406 (1283)
T TIGR01967 353 IDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA---PGICIRLYSEEDF 406 (1283)
T ss_pred EeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC---CceEEEecCHHHH
Confidence 988732 1 4468999999999987 6678899986533
No 121
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.35 E-value=2.6e-12 Score=118.40 Aligned_cols=81 Identities=30% Similarity=0.490 Sum_probs=75.6
Q ss_pred HHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhh
Q 000377 1441 VMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARA 1520 (1605)
Q Consensus 1441 iLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRA 1520 (1605)
.|.++|...++.+..++|.++.++|.++++.|+.++. .+|++|.++++|+|++.+++||+++++||+..+.|++||+
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~---~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~ 78 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKI---KVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRA 78 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCC---eEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhccc
Confidence 4677888889999999999999999999999988765 4889999999999999999999999999999999999999
Q ss_pred cccC
Q 000377 1521 HRIG 1524 (1605)
Q Consensus 1521 hRIG 1524 (1605)
+|.|
T Consensus 79 ~R~g 82 (82)
T smart00490 79 GRAG 82 (82)
T ss_pred ccCC
Confidence 9987
No 122
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.35 E-value=3.5e-12 Score=149.10 Aligned_cols=314 Identities=16% Similarity=0.196 Sum_probs=206.5
Q ss_pred HHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCCCEEEEecCCcc-cc---hHHHHHHhCCCce
Q 000377 1093 EYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-DRGPFLVVVPSSVL-PG---WESEINFWAPRIH 1167 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-~~gP~LIVvP~SLL-~n---W~~Ef~KwaP~l~ 1167 (1605)
|.|.+.+.-++. +...+--.-+|+|||...+.-+..-+.... ..-+.||+.|+.-| .| ...++.++...-.
T Consensus 46 piqRKTipliLe----~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlkvvkdlgrgt~lr~ 121 (529)
T KOG0337|consen 46 PIQRKTIPLILE----GRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLKVVKDLGRGTKLRQ 121 (529)
T ss_pred chhcccccceee----ccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHHHHHHhccccchhh
Confidence 457777765554 444455567999999776654443333322 22368999999844 33 4555666654444
Q ss_pred EEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC--ccchHHHHHHhhhc-cc
Q 000377 1168 KIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN--ASCKLNADLKHYQS-SH 1244 (1605)
Q Consensus 1168 vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN--~~SKlsraL~~L~a-~~ 1244 (1605)
++.|.|...+.+ | .....+.||||.|...+....-.-.|.--...|||+||+.++-. ...++...+.++.. ..
T Consensus 122 s~~~ggD~~eeq--f--~~l~~npDii~ATpgr~~h~~vem~l~l~sveyVVfdEadrlfemgfqeql~e~l~rl~~~~Q 197 (529)
T KOG0337|consen 122 SLLVGGDSIEEQ--F--ILLNENPDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEADRLFEMGFQEQLHEILSRLPESRQ 197 (529)
T ss_pred hhhcccchHHHH--H--HHhccCCCEEEecCceeeeeehheeccccceeeeeehhhhHHHhhhhHHHHHHHHHhCCCcce
Confidence 456666654432 1 12235799999999888642222234444567999999999854 45567777777743 45
Q ss_pred eecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHhh
Q 000377 1245 RLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVLRRLK 1324 (1605)
Q Consensus 1245 RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtK 1324 (1605)
.+++|||-- + + |.. |.. .+. ..|.++|
T Consensus 198 TllfSatlp-~---~---lv~------------fak--------aGl-----------------------~~p~lVR--- 224 (529)
T KOG0337|consen 198 TLLFSATLP-R---D---LVD------------FAK--------AGL-----------------------VPPVLVR--- 224 (529)
T ss_pred EEEEeccCc-h---h---hHH------------HHH--------ccC-----------------------CCCceEE---
Confidence 688888841 0 0 111 110 000 0011111
Q ss_pred hhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhcCCCCCCCh
Q 000377 1325 HKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTLIPKHYLPP 1404 (1605)
Q Consensus 1325 kdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~i~~~~~~~ 1404 (1605)
-||+.. .++ . .+++ ..
T Consensus 225 ldvetk------------ise-----------~----------------lk~~-------------------------f~ 240 (529)
T KOG0337|consen 225 LDVETK------------ISE-----------L----------------LKVR-------------------------FF 240 (529)
T ss_pred eehhhh------------cch-----------h----------------hhhh-------------------------ee
Confidence 001000 000 0 0000 01
Q ss_pred hhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEE
Q 000377 1405 IVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLL 1484 (1605)
Q Consensus 1405 lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLL 1484 (1605)
.++...|..+|..++.+... ..+.+||+.....++++...|...|+....+.|++++..|..-+.+|+..... +|+
T Consensus 241 ~~~~a~K~aaLl~il~~~~~-~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~---~lv 316 (529)
T KOG0337|consen 241 RVRKAEKEAALLSILGGRIK-DKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTS---ILV 316 (529)
T ss_pred eeccHHHHHHHHHHHhcccc-ccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccc---eEE
Confidence 22334577778888776543 56899999999999999999999999999999999999999999999887766 899
Q ss_pred eccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeC
Q 000377 1485 SIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1485 STrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
.|+.+.+|++++-.|+||+||.|-.+..+.+|+||+.|-|.+ -..|-+|+.
T Consensus 317 vTdvaaRG~diplldnvinyd~p~~~klFvhRVgr~aragrt--g~aYs~V~~ 367 (529)
T KOG0337|consen 317 VTDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRT--GRAYSLVAS 367 (529)
T ss_pred EehhhhccCCCccccccccccCCCCCceEEEEecchhhcccc--ceEEEEEec
Confidence 999999999999999999999999999999999999998854 344555554
No 123
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.34 E-value=1.9e-09 Score=138.84 Aligned_cols=116 Identities=17% Similarity=0.191 Sum_probs=102.8
Q ss_pred ccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccc
Q 000377 1409 CGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRA 1488 (1605)
Q Consensus 1409 SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrA 1488 (1605)
..|+..|.+.+..+...+..|||||.+....+.|..+|...|+++..|++ +..+|+..|..|...... ++|+|..
T Consensus 581 ~eK~~Ali~~I~~~~~~grpVLIft~Sve~sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g~---VtIATNM 655 (1025)
T PRK12900 581 REKYNAIVLKVEELQKKGQPVLVGTASVEVSETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKGA---VTIATNM 655 (1025)
T ss_pred HHHHHHHHHHHHHHhhCCCCEEEEeCcHHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCCe---EEEeccC
Confidence 46999999999988889999999999999999999999999999999997 677999999999555443 8999999
Q ss_pred cccccCcccCC--------EEEEEcCCCChhhHHHHhhhhcccCCCCcE
Q 000377 1489 GGVGVNLQAAD--------TVIIFDTDWNPQVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1489 GGeGLNLq~AD--------tVIiyDp~WNP~~d~QAiGRAhRIGQkKeV 1529 (1605)
+|+|+|+.-.+ +||.++.+-+...|.|++||++|.|..-..
T Consensus 656 AGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpGsS 704 (1025)
T PRK12900 656 AGRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPGES 704 (1025)
T ss_pred cCCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCcce
Confidence 99999998444 348899999999999999999999987554
No 124
>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=99.33 E-value=1.1e-11 Score=135.01 Aligned_cols=157 Identities=18% Similarity=0.243 Sum_probs=108.8
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc--CCCCCEEEEecCC-cccchHHHHHHhCC--
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK--NDRGPFLVVVPSS-VLPGWESEINFWAP-- 1164 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k--~~~gP~LIVvP~S-LL~nW~~Ef~KwaP-- 1164 (1605)
.+++||.+++..+.. +.+.+++.++|+|||+.++..+...+... .....+|||||.. ++.||...+..+..
T Consensus 21 ~~~~~Q~~~~~~~~~----~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~~ 96 (203)
T cd00268 21 KPTPIQARAIPPLLS----GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKHT 96 (203)
T ss_pred CCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhccC
Confidence 589999999987766 78899999999999998655544444433 2344589999987 67889888888864
Q ss_pred CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc-h-HHHHHHhhh-
Q 000377 1165 RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC-K-LNADLKHYQ- 1241 (1605)
Q Consensus 1165 ~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S-K-lsraL~~L~- 1241 (1605)
.+.+..+.|........ .......+|+|+|.+.+........+.-..++++||||+|.+.+... . +...+..+.
T Consensus 97 ~~~~~~~~~~~~~~~~~---~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~~~~~~~~~~~~~~~l~~ 173 (203)
T cd00268 97 NLKVVVIYGGTSIDKQI---RKLKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPK 173 (203)
T ss_pred CceEEEEECCCCHHHHH---HHhcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHhhccChHHHHHHHHHhCCc
Confidence 56667777765543322 11225789999998877654333333344678999999999875431 2 222233443
Q ss_pred ccceecccccCC
Q 000377 1242 SSHRLLLTGTPL 1253 (1605)
Q Consensus 1242 a~~RLLLTGTPl 1253 (1605)
....+++||||-
T Consensus 174 ~~~~~~~SAT~~ 185 (203)
T cd00268 174 DRQTLLFSATMP 185 (203)
T ss_pred ccEEEEEeccCC
Confidence 456799999995
No 125
>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=99.32 E-value=7e-12 Score=131.66 Aligned_cols=159 Identities=19% Similarity=0.293 Sum_probs=109.5
Q ss_pred cHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCC--ceE
Q 000377 1092 REYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPR--IHK 1168 (1605)
Q Consensus 1092 RpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~--l~v 1168 (1605)
.|+|.+++..+.. +.+.|+..++|+|||..++..+...+... ....+||+||.. ++.+-..++.+++.. +.+
T Consensus 1 t~~Q~~~~~~i~~----~~~~li~aptGsGKT~~~~~~~l~~~~~~-~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~ 75 (169)
T PF00270_consen 1 TPLQQEAIEAIIS----GKNVLISAPTGSGKTLAYILPALNRLQEG-KDARVLIIVPTRALAEQQFERLRKFFSNTNVRV 75 (169)
T ss_dssp -HHHHHHHHHHHT----TSEEEEECSTTSSHHHHHHHHHHHHHHTT-SSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSE
T ss_pred CHHHHHHHHHHHc----CCCEEEECCCCCccHHHHHHHHHhhhccC-CCceEEEEeeccccccccccccccccccccccc
Confidence 3899999987763 67799999999999999987766655544 344699999987 667788888888754 677
Q ss_pred EEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCc-cc-hHHHHHHhh---hcc
Q 000377 1169 IVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNA-SC-KLNADLKHY---QSS 1243 (1605)
Q Consensus 1169 ivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~-~S-KlsraL~~L---~a~ 1243 (1605)
..+++........ .. ......+|+|+|++.|........+.-...++|||||+|.+... .. .....+..+ ...
T Consensus 76 ~~~~~~~~~~~~~-~~-~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~ 153 (169)
T PF00270_consen 76 VLLHGGQSISEDQ-RE-VLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSDETFRAMLKSILRRLKRFKNI 153 (169)
T ss_dssp EEESTTSCHHHHH-HH-HHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTS
T ss_pred ccccccccccccc-cc-cccccccccccCcchhhccccccccccccceeeccCcccccccccHHHHHHHHHHHhcCCCCC
Confidence 7777655422111 11 11357999999999997644332222334789999999999763 22 233333443 235
Q ss_pred ceecccccCCCCCHH
Q 000377 1244 HRLLLTGTPLQNNLE 1258 (1605)
Q Consensus 1244 ~RLLLTGTPlqNnl~ 1258 (1605)
+.+++||||- .+++
T Consensus 154 ~~i~~SAT~~-~~~~ 167 (169)
T PF00270_consen 154 QIILLSATLP-SNVE 167 (169)
T ss_dssp EEEEEESSST-HHHH
T ss_pred cEEEEeeCCC-hhHh
Confidence 6899999996 4443
No 126
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=99.27 E-value=3.7e-10 Score=129.93 Aligned_cols=317 Identities=16% Similarity=0.150 Sum_probs=216.2
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~ 1167 (1605)
.++||.|+++++..+. +...+|..++|-||++..-..++ -..|-.|||||.- ++....-.++...-+..
T Consensus 93 ekfrplq~~ain~~ma----~ed~~lil~tgggkslcyqlpal------~adg~alvi~plislmedqil~lkqlgi~as 162 (695)
T KOG0353|consen 93 EKFRPLQLAAINATMA----GEDAFLILPTGGGKSLCYQLPAL------CADGFALVICPLISLMEDQILQLKQLGIDAS 162 (695)
T ss_pred HhcChhHHHHhhhhhc----cCceEEEEeCCCccchhhhhhHH------hcCCceEeechhHHHHHHHHHHHHHhCcchh
Confidence 4689999999998776 78899999999999976532221 1245689999975 66666667776654444
Q ss_pred EEEEcCChhHHHHHHHhhh--hcCCccEEEEcHHHHhhccC-----CCcccccCccEEEEecCccccCc------cchHH
Q 000377 1168 KIVYCGPPEERRRLFKEKI--VHQKFNVLLTTYEYLMNKHD-----RPKLSKIQWHYIIIDEGHRIKNA------SCKLN 1234 (1605)
Q Consensus 1168 vivy~Gs~~~R~~l~~~~i--~~~~fdVVITTYe~L~k~~D-----~~~L~ki~wd~VIIDEAHriKN~------~SKls 1234 (1605)
.+-...++++.++. ...+ ....|.++..|++.+.+... ...+..-.|.+|-|||+|.+..+ +.+..
T Consensus 163 ~lnansske~~k~v-~~~i~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~~iaidevhccsqwghdfr~dy~~l 241 (695)
T KOG0353|consen 163 MLNANSSKEEAKRV-EAAITNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKLIAIDEVHCCSQWGHDFRPDYKAL 241 (695)
T ss_pred hccCcccHHHHHHH-HHHHcCCCceeEEEEecHHHHHHHHHHHHHHHHHhhcceeEEEeecceeehhhhCcccCcchHHH
Confidence 44334444443333 2222 24578899999998854211 11245556889999999998542 22333
Q ss_pred HHH-HhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHH
Q 000377 1235 ADL-KHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQ 1313 (1605)
Q Consensus 1235 raL-~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~k 1313 (1605)
..| ++|+....|+||||...+-+.|.-.+|-+- ..-.|..-|++|--
T Consensus 242 ~ilkrqf~~~~iigltatatn~vl~d~k~il~ie------~~~tf~a~fnr~nl-------------------------- 289 (695)
T KOG0353|consen 242 GILKRQFKGAPIIGLTATATNHVLDDAKDILCIE------AAFTFRAGFNRPNL-------------------------- 289 (695)
T ss_pred HHHHHhCCCCceeeeehhhhcchhhHHHHHHhHH------hhheeecccCCCCc--------------------------
Confidence 333 457888899999999888888777665432 11123333333211
Q ss_pred HhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhh
Q 000377 1314 VLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEV 1393 (1605)
Q Consensus 1314 vLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eei 1393 (1605)
...++.-+-+. ++
T Consensus 290 ---------------------~yev~qkp~n~---------------------------------------------dd- 302 (695)
T KOG0353|consen 290 ---------------------KYEVRQKPGNE---------------------------------------------DD- 302 (695)
T ss_pred ---------------------eeEeeeCCCCh---------------------------------------------HH-
Confidence 11111000000 00
Q ss_pred hhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 000377 1394 DTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFN 1473 (1605)
Q Consensus 1394 d~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN 1473 (1605)
-.+-+.+++.. .-.|..-||||-...-.+.+...|...|+..-.++..+.+++|..+-..|-
T Consensus 303 -----------------~~edi~k~i~~-~f~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~ 364 (695)
T KOG0353|consen 303 -----------------CIEDIAKLIKG-DFAGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWI 364 (695)
T ss_pred -----------------HHHHHHHHhcc-ccCCCcceEEEeccccHHHHHHHHHhcCccccccccccCcccccccccccc
Confidence 00111112211 113567799999999999999999999999999999999999999999997
Q ss_pred CCCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHH--------------------------------------
Q 000377 1474 QQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQ-------------------------------------- 1515 (1605)
Q Consensus 1474 ~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~Q-------------------------------------- 1515 (1605)
.++.. +++.|-|.|.||+-++...||+-..+-+...|.|
T Consensus 365 a~eiq---vivatvafgmgidkpdvrfvihhsl~ksienyyqasarillrmtkqknksdtggstqinilevctnfkiffa 441 (695)
T KOG0353|consen 365 AGEIQ---VIVATVAFGMGIDKPDVRFVIHHSLPKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFA 441 (695)
T ss_pred ccceE---EEEEEeeecccCCCCCeeEEEecccchhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccceeeee
Confidence 77755 6788899999999999999999999999999999
Q ss_pred -----HhhhhcccCCCCcEEEEEEEe
Q 000377 1516 -----AQARAHRIGQKRDVLVLRFET 1536 (1605)
Q Consensus 1516 -----AiGRAhRIGQkKeV~VyRLIt 1536 (1605)
--||++|-|++-++..|+=..
T Consensus 442 vfsekesgragrd~~~a~cilyy~~~ 467 (695)
T KOG0353|consen 442 VFSEKESGRAGRDDMKADCILYYGFA 467 (695)
T ss_pred eecchhccccccCCCcccEEEEechH
Confidence 568999999999977666443
No 127
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.27 E-value=2.5e-10 Score=147.82 Aligned_cols=351 Identities=18% Similarity=0.140 Sum_probs=208.3
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc-CCCCCEEEEecCCcc-cchHHHHHHhCCCc
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK-NDRGPFLVVVPSSVL-PGWESEINFWAPRI 1166 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k-~~~gP~LIVvP~SLL-~nW~~Ef~KwaP~l 1166 (1605)
-..+++|..++++.......+..++|..+||.|||..++.+..+....+ ....+++.|.|..++ ..-.+.+..++...
T Consensus 194 ~~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~ 273 (733)
T COG1203 194 HEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLF 273 (733)
T ss_pred chhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhccc
Confidence 4568999999999998777766889999999999999988888877762 344568888898765 55777777777544
Q ss_pred eEEEE--cCChhHHHHHHHhh-----------hhcCCccEEE-EcHHHHhhccC---CCcccccCccEEEEecCccccCc
Q 000377 1167 HKIVY--CGPPEERRRLFKEK-----------IVHQKFNVLL-TTYEYLMNKHD---RPKLSKIQWHYIIIDEGHRIKNA 1229 (1605)
Q Consensus 1167 ~vivy--~Gs~~~R~~l~~~~-----------i~~~~fdVVI-TTYe~L~k~~D---~~~L~ki~wd~VIIDEAHriKN~ 1229 (1605)
.+... ++.....-...... ....-+.+.+ |+.+.+..... ...+..+-..++|+||+|-+-..
T Consensus 274 ~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h~~~~~ 353 (733)
T COG1203 274 SVIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYADE 353 (733)
T ss_pred ccccccccccccchhhhccccccceeEEecccccceeccccccCHhHhhhhhccccchHHHHHHHhhchhhccHHhhccc
Confidence 44333 44443322111100 0001112222 22222221000 00123344568999999998665
Q ss_pred -cchHH-HHHHhh--hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHH
Q 000377 1230 -SCKLN-ADLKHY--QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENL 1305 (1605)
Q Consensus 1230 -~SKls-raL~~L--~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~ 1305 (1605)
..... ..+..+ .....|++|||+- ..|.+.+...+...+.
T Consensus 354 ~~~~~l~~~i~~l~~~g~~ill~SATlP----------------------~~~~~~l~~~~~~~~~-------------- 397 (733)
T COG1203 354 TMLAALLALLEALAEAGVPVLLMSATLP----------------------PFLKEKLKKALGKGRE-------------- 397 (733)
T ss_pred chHHHHHHHHHHHHhCCCCEEEEecCCC----------------------HHHHHHHHHHHhcccc--------------
Confidence 22222 222222 3567899999971 1111111110000000
Q ss_pred HHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccc
Q 000377 1306 LIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYL 1385 (1605)
Q Consensus 1306 ~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L 1385 (1605)
+. .+.+ .| ..++.|.+
T Consensus 398 ---------------------~~--~~~~-----~~------------------------------------~~~~e~~~ 413 (733)
T COG1203 398 ---------------------VV--ENAK-----FC------------------------------------PKEDEPGL 413 (733)
T ss_pred ---------------------ee--cccc-----cc------------------------------------cccccccc
Confidence 00 0000 00 00111111
Q ss_pred cchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHH
Q 000377 1386 SQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDR 1465 (1605)
Q Consensus 1386 ~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eER 1465 (1605)
.......... ... ..+...+.+-...+.+|+|-++.+..+..+...|+..+.+++.||+.....+|
T Consensus 414 ~~~~~~~~~~-------------~~~-~~~~~~~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR 479 (733)
T COG1203 414 KRKERVDVED-------------GPQ-EELIELISEEVKEGKKVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDR 479 (733)
T ss_pred ccccchhhhh-------------hhh-HhhhhcchhhhccCCcEEEEEecHHHHHHHHHHHHhcCCCEEEEecccchhhH
Confidence 1000000000 000 12223333345678999999999999999999999888889999999999999
Q ss_pred HHHHHHHhC---CCCCeEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccC--CCCcEEEEEEEeCCCH
Q 000377 1466 GALIDKFNQ---QDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIG--QKRDVLVLRFETVQTV 1540 (1605)
Q Consensus 1466 qeiId~FN~---gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIG--QkKeV~VyRLIt~~TI 1540 (1605)
.+.++.+.. .+.. .++|+|.+...|||+. .|.+|- -.--....+||.||++|-| ....+.||...-....
T Consensus 480 ~~ke~~l~~~~~~~~~--~IvVaTQVIEagvDid-fd~mIT--e~aPidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~~~ 554 (733)
T COG1203 480 EEKERELKKLFKQNEG--FIVVATQVIEAGVDID-FDVLIT--ELAPIDSLIQRAGRVNRHGKKENGKIYVYNDEERGPY 554 (733)
T ss_pred HHHHHHHHHHHhccCC--eEEEEeeEEEEEeccc-cCeeee--cCCCHHHHHHHHHHHhhcccccCCceeEeecccCCCc
Confidence 988886542 2222 4899999999999987 776663 2223457999999999999 4555788877777777
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 000377 1541 EEQVRASAEHKLGVANQS 1558 (1605)
Q Consensus 1541 EEkIlera~~Kl~L~~kV 1558 (1605)
..+.++....+.......
T Consensus 555 ~~~~~~~~~~~~~~~~~~ 572 (733)
T COG1203 555 LKYSYEKLEKKLKSLEEL 572 (733)
T ss_pred hhhhhhcchhhhcccccc
Confidence 777777666665554444
No 128
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.26 E-value=2.7e-09 Score=137.19 Aligned_cols=119 Identities=12% Similarity=0.143 Sum_probs=98.5
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHH-HHHHHHhCCCCCeEEEEEec
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRG-ALIDKFNQQDSPFFIFLLSI 1486 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERq-eiId~FN~gds~~~VfLLST 1486 (1605)
...|+..+.+-+.++.+.|..|||-|.++..-+.|...|...|+++..|..... +++ ++|.. ++... .+-|+|
T Consensus 550 ~~~k~~ai~~ei~~~~~~grPvLigt~si~~se~ls~~L~~~gi~h~vLNak~~--~~Ea~iia~--AG~~g--~VTIAT 623 (970)
T PRK12899 550 EREKYHAIVAEIASIHRKGNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKNH--AQEAEIIAG--AGKLG--AVTVAT 623 (970)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCcceecccchh--hhHHHHHHh--cCCCC--cEEEee
Confidence 347899999999999999999999999999999999999999999999988643 333 45544 45543 488999
Q ss_pred cccccccCcccC--------CEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEE
Q 000377 1487 RAGGVGVNLQAA--------DTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVL 1532 (1605)
Q Consensus 1487 rAGGeGLNLq~A--------DtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~Vy 1532 (1605)
..+|+|.|+.-. =+||.-..+-|...+.|..||++|.|..-....|
T Consensus 624 NmAGRGTDIkl~~~v~~~GGLhVIgTer~es~Rid~Ql~GRagRQGdpGss~f~ 677 (970)
T PRK12899 624 NMAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLGDPGAAKFF 677 (970)
T ss_pred ccccCCcccccCchHHhcCCcEEEeeccCchHHHHHHHhcccccCCCCCceeEE
Confidence 999999997543 3788899999999999999999999987665444
No 129
>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=99.20 E-value=7.6e-09 Score=136.38 Aligned_cols=110 Identities=21% Similarity=0.273 Sum_probs=76.9
Q ss_pred HHHHHHHHhh-cCCCeEEEEEccHHHHHHHHHHHhh----cCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccc
Q 000377 1414 MLDRLLPKLK-ATDHRVLFFSTMTRLLDVMEDYLTF----KQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRA 1488 (1605)
Q Consensus 1414 ~L~~LL~kL~-a~g~KVLIFSQft~~LdiLe~~L~~----~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrA 1488 (1605)
.+.+.|.++. ..+.++|||+.....++.+...|.. .++.. +..+.. .+|.+++++|+.++.. +|++|..
T Consensus 661 ~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~~~~~~~--l~q~~~-~~r~~ll~~F~~~~~~---iLlgt~s 734 (850)
T TIGR01407 661 EIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELPEFEGYEV--LAQGIN-GSRAKIKKRFNNGEKA---ILLGTSS 734 (850)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhccccCceE--EecCCC-ccHHHHHHHHHhCCCe---EEEEcce
Confidence 4444444443 3557899999999999999998864 34443 333333 4799999999876554 7888999
Q ss_pred cccccCccc--CCEEEEEcCCCC-h-----------------------------hhHHHHhhhhcccCCCCcE
Q 000377 1489 GGVGVNLQA--ADTVIIFDTDWN-P-----------------------------QVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1489 GGeGLNLq~--ADtVIiyDp~WN-P-----------------------------~~d~QAiGRAhRIGQkKeV 1529 (1605)
..+|||++. ...||+.-.|+- | ....|++||+-|-.+.+-|
T Consensus 735 f~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~ 807 (850)
T TIGR01407 735 FWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGS 807 (850)
T ss_pred eecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEE
Confidence 999999987 446777765542 2 2356777888776666554
No 130
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.18 E-value=8.1e-09 Score=124.52 Aligned_cols=133 Identities=17% Similarity=0.219 Sum_probs=108.8
Q ss_pred HHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccc
Q 000377 1411 KLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGG 1490 (1605)
Q Consensus 1411 Kle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGG 1490 (1605)
-++=|..-+.+..+.+.||||-+-..+|++-|.+||...|+++.++|...+.-+|.++|.+.+.+.-+ +|+....+-
T Consensus 431 QvdDL~~EI~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~~D---vLVGINLLR 507 (663)
T COG0556 431 QVDDLLSEIRKRVAKNERVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFD---VLVGINLLR 507 (663)
T ss_pred cHHHHHHHHHHHHhcCCeEEEEeehHHHHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCCcc---EEEeehhhh
Confidence 44444555555567899999999999999999999999999999999999999999999999999877 799999999
Q ss_pred cccCcccCCEEEEEcCC-----CChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000377 1491 VGVNLQAADTVIIFDTD-----WNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEEQVRAS 1547 (1605)
Q Consensus 1491 eGLNLq~ADtVIiyDp~-----WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIler 1547 (1605)
+||||+.+..|.|+|.+ -+-...+|-+|||.|--..+- ..|-=...++.++.|-+.
T Consensus 508 EGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~~Gkv-IlYAD~iT~sM~~Ai~ET 568 (663)
T COG0556 508 EGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNGKV-ILYADKITDSMQKAIDET 568 (663)
T ss_pred ccCCCcceeEEEEeecCccccccccchHHHHHHHHhhccCCeE-EEEchhhhHHHHHHHHHH
Confidence 99999999999999987 488999999999999554443 333222234555555544
No 131
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.12 E-value=1.3e-09 Score=139.56 Aligned_cols=179 Identities=16% Similarity=0.168 Sum_probs=104.0
Q ss_pred CCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCC--------CCCEEEEecCC-ccc
Q 000377 1083 PTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKND--------RGPFLVVVPSS-VLP 1153 (1605)
Q Consensus 1083 P~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~--------~gP~LIVvP~S-LL~ 1153 (1605)
|.....-.|-+-|-......+ ....|-+||.++|.|||..|+.-|..-+..+.. ...+..|+|.- |+.
T Consensus 302 ~aF~g~~sLNrIQS~v~daAl---~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvq 378 (1674)
T KOG0951|consen 302 PAFFGKQSLNRIQSKVYDAAL---RGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQ 378 (1674)
T ss_pred hhcccchhhhHHHHHHHHHHh---cCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHH
Confidence 333333346666665554332 345677999999999999987666655443322 12478899965 677
Q ss_pred chHHHHHHhCCCc--eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHh--hccCCCcccccCccEEEEecCcccc-C
Q 000377 1154 GWESEINFWAPRI--HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLM--NKHDRPKLSKIQWHYIIIDEGHRIK-N 1228 (1605)
Q Consensus 1154 nW~~Ef~KwaP~l--~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~--k~~D~~~L~ki~wd~VIIDEAHriK-N 1228 (1605)
.|...|.+|...+ .|.-..|...--...+ ..-.|++||.+..- ...+...-...-++++||||.|.+- +
T Consensus 379 E~VgsfSkRla~~GI~V~ElTgD~~l~~~qi------eeTqVIV~TPEK~DiITRk~gdraY~qlvrLlIIDEIHLLhDd 452 (1674)
T KOG0951|consen 379 EMVGSFSKRLAPLGITVLELTGDSQLGKEQI------EETQVIVTTPEKWDIITRKSGDRAYEQLVRLLIIDEIHLLHDD 452 (1674)
T ss_pred HHHHHHHhhccccCcEEEEecccccchhhhh------hcceeEEeccchhhhhhcccCchhHHHHHHHHhhhhhhhcccc
Confidence 7999999998654 4444555543222211 34578999988651 1000001111135789999999993 3
Q ss_pred ccchHH----HHHHhh----hccceecccccCCCCCHHHHHHHHHhhcCCCC
Q 000377 1229 ASCKLN----ADLKHY----QSSHRLLLTGTPLQNNLEELWALLNFLLPNIF 1272 (1605)
Q Consensus 1229 ~~SKls----raL~~L----~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if 1272 (1605)
..+.+- +..++. ...+.++||||- -|..|.-+.|..-.+++|
T Consensus 453 RGpvLESIVaRt~r~ses~~e~~RlVGLSATL--PNy~DV~~Fl~v~~~glf 502 (1674)
T KOG0951|consen 453 RGPVLESIVARTFRRSESTEEGSRLVGLSATL--PNYEDVASFLRVDPEGLF 502 (1674)
T ss_pred cchHHHHHHHHHHHHhhhcccCceeeeecccC--CchhhhHHHhccCccccc
Confidence 444442 333322 234568999995 245555554433334444
No 132
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.11 E-value=4e-08 Score=124.11 Aligned_cols=120 Identities=15% Similarity=0.171 Sum_probs=99.9
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
...|+..+.+-+.++.+.|..|||.|..+...+.|...|...|+++..|..... ++-.++|.+ ++... .+-|+|.
T Consensus 409 ~~~k~~Aii~ei~~~~~~GrPVLVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~-~~EA~IIa~--AG~~g--aVTIATN 483 (764)
T PRK12326 409 AAEKNDAIVEHIAEVHETGQPVLVGTHDVAESEELAERLRAAGVPAVVLNAKND-AEEARIIAE--AGKYG--AVTVSTQ 483 (764)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHhCCCcceeeccCch-HhHHHHHHh--cCCCC--cEEEEec
Confidence 346899999999888999999999999999999999999999999999988644 333445554 35444 4789999
Q ss_pred ccccccCcccC---------------CEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEE
Q 000377 1488 AGGVGVNLQAA---------------DTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVL 1532 (1605)
Q Consensus 1488 AGGeGLNLq~A---------------DtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~Vy 1532 (1605)
.+|+|.|+.-. =+||.-..+-|-..+.|..||++|.|..-....|
T Consensus 484 MAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerheSrRID~QLrGRaGRQGDpGss~f~ 543 (764)
T PRK12326 484 MAGRGTDIRLGGSDEADRDRVAELGGLHVIGTGRHRSERLDNQLRGRAGRQGDPGSSVFF 543 (764)
T ss_pred CCCCccCeecCCCcccchHHHHHcCCcEEEeccCCchHHHHHHHhcccccCCCCCceeEE
Confidence 99999997633 4889999999999999999999999987665554
No 133
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.03 E-value=2.5e-08 Score=128.44 Aligned_cols=122 Identities=15% Similarity=0.120 Sum_probs=99.6
Q ss_pred hhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEec
Q 000377 1407 RLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSI 1486 (1605)
Q Consensus 1407 r~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLST 1486 (1605)
....|+..+.+-+..+.+.|..|||-|.++..-+.|...|...|+++-.|..... ++-.++|.+ ++... .+-|+|
T Consensus 430 t~~eK~~Ai~~ei~~~~~~GrPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~-~~EA~IIa~--AG~~G--aVTIAT 504 (913)
T PRK13103 430 TAEEKYAAIITDIKECMALGRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAKYH-EKEAEIIAQ--AGRPG--ALTIAT 504 (913)
T ss_pred CHHHHHHHHHHHHHHHHhCCCCEEEEeCCHHHHHHHHHHHHHcCCcHHHhccccc-hhHHHHHHc--CCCCC--cEEEec
Confidence 3457999999999999999999999999999999999999999999988877644 223344543 56554 478999
Q ss_pred cccccccCcc-------------------------------------cCCEEEEEcCCCChhhHHHHhhhhcccCCCCcE
Q 000377 1487 RAGGVGVNLQ-------------------------------------AADTVIIFDTDWNPQVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1487 rAGGeGLNLq-------------------------------------~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV 1529 (1605)
..+|+|.|+. .-=+||.-..+-|-..+.|..||++|.|..-..
T Consensus 505 NMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLrGRaGRQGDPGsS 584 (913)
T PRK13103 505 NMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLRGRAGRQGDPGSS 584 (913)
T ss_pred cCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHHHHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCce
Confidence 9999999974 234789999999999999999999999987665
Q ss_pred EEEE
Q 000377 1530 LVLR 1533 (1605)
Q Consensus 1530 ~VyR 1533 (1605)
..|-
T Consensus 585 ~f~l 588 (913)
T PRK13103 585 RFYL 588 (913)
T ss_pred EEEE
Confidence 5443
No 134
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.01 E-value=8.6e-09 Score=134.19 Aligned_cols=363 Identities=15% Similarity=0.115 Sum_probs=194.8
Q ss_pred CCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc-hHHHHHHhCCC
Q 000377 1087 QGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG-WESEINFWAPR 1165 (1605)
Q Consensus 1087 ~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n-W~~Ef~KwaP~ 1165 (1605)
.+.+|-|+|.+++.-+-. +.++++|..||+|||+++-.++.+.+..+ .+++...|...+.| -..+|..-+..
T Consensus 116 ~~F~LD~fQ~~a~~~Ler----~esVlV~ApTssGKTvVaeyAi~~al~~~---qrviYTsPIKALsNQKyrdl~~~fgd 188 (1041)
T COG4581 116 YPFELDPFQQEAIAILER----GESVLVCAPTSSGKTVVAEYAIALALRDG---QRVIYTSPIKALSNQKYRDLLAKFGD 188 (1041)
T ss_pred CCCCcCHHHHHHHHHHhC----CCcEEEEccCCCCcchHHHHHHHHHHHcC---CceEeccchhhhhhhHHHHHHHHhhh
Confidence 458999999999976654 88999999999999999987776655432 23899999776654 45555443332
Q ss_pred c--eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHH--HHHHhhh
Q 000377 1166 I--HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLN--ADLKHYQ 1241 (1605)
Q Consensus 1166 l--~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKls--raL~~L~ 1241 (1605)
+ .+-++.|+.. ...+..++|+|-+.|++-.-+..-.-.+...||+||+|+|....-... ..+..+.
T Consensus 189 v~~~vGL~TGDv~----------IN~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D~eRG~VWEE~Ii~lP 258 (1041)
T COG4581 189 VADMVGLMTGDVS----------INPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDRERGVVWEEVIILLP 258 (1041)
T ss_pred hhhhccceeccee----------eCCCCceEEeeHHHHHHHhccCcccccccceEEEEeeeeccccccchhHHHHHHhcC
Confidence 2 2334444321 235678888888998763332222223345699999999977544332 2233333
Q ss_pred c-cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1242 S-SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1242 a-~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
. -+.++||||- ++..+|..|+..--......
T Consensus 259 ~~v~~v~LSATv--------------------~N~~EF~~Wi~~~~~~~~~v---------------------------- 290 (1041)
T COG4581 259 DHVRFVFLSATV--------------------PNAEEFAEWIQRVHSQPIHV---------------------------- 290 (1041)
T ss_pred CCCcEEEEeCCC--------------------CCHHHHHHHHHhccCCCeEE----------------------------
Confidence 3 3679999995 45677888886421000000
Q ss_pred HHhhhhHhhcCccceEEEEEec---------ccHHHHHHHHHHHHHhh-------ccCC-----------------CCCc
Q 000377 1321 RRLKHKVENELPEKIERLVRCE---------ASAYQKLLMKRVEENLG-------SIGN-----------------SKGR 1367 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E~vI~~e---------LS~~Qk~LYk~I~~~l~-------~~~~-----------------~k~~ 1367 (1605)
. +-..-|..-++.+++. -...-...+......+. .... ....
T Consensus 291 v-----~t~~RpvPL~~~~~~~~~l~~lvde~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~ 365 (1041)
T COG4581 291 V-----STEHRPVPLEHFVYVGKGLFDLVDEKKKFNAENFPSANRSLSCFSEKVRETDDGDVGRYARRTKALRGSAKGPA 365 (1041)
T ss_pred E-----eecCCCCCeEEEEecCCceeeeecccccchhhcchhhhhhhhccchhccccCccccccccccccccCCcccccc
Confidence 0 0111222223333222 00000000000000000 0000 0001
Q ss_pred chhHHHHHHHHHhcCccc---cchhhhhhhhcCCCCCCChhhhhccHHHHHHHHHH----HhhcCCCeEEEEEccHHHHH
Q 000377 1368 SVHNSVMELRNICNHPYL---SQLHAEEVDTLIPKHYLPPIVRLCGKLEMLDRLLP----KLKATDHRVLFFSTMTRLLD 1440 (1605)
Q Consensus 1368 ~lln~L~qLRkicnHP~L---~~~~~eeid~~i~~~~~~~lvr~SgKle~L~~LL~----kL~a~g~KVLIFSQft~~Ld 1440 (1605)
.....+..|...-.-|.+ |.....+...... ..-.++....|-..+..+|. .+..+. +- +++++-.
T Consensus 366 ~~~~iv~~l~~~~~lP~I~F~FSr~~Ce~~a~~~--~~ldl~~~~~~e~~i~~ii~~~i~~L~~ed-~~-lp~~~~~--- 438 (1041)
T COG4581 366 GRPEIVNKLDKDNLLPAIVFSFSRRGCEEAAQIL--STLDLVLTEEKERAIREIIDHAIGDLAEED-RE-LPLQILE--- 438 (1041)
T ss_pred cchHHHhhhhhhcCCceEEEEEchhhHHHHHHHh--cccccccCCcHHHHHHHHHHHHHhhcChhh-hc-CcccHHH---
Confidence 112223333333223322 2211111110000 00112222233222333333 222211 11 1123222
Q ss_pred HHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEc---------CCCChh
Q 000377 1441 VMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFD---------TDWNPQ 1511 (1605)
Q Consensus 1441 iLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyD---------p~WNP~ 1511 (1605)
+..-.+ +|+. ..++++=+..|.-+-..|..+-.. +|+.|...+.|+|++ |.+|++.. .+-+|.
T Consensus 439 ~~~~L~--RGia--vHH~GlLP~~K~~vE~Lfq~GLvk---vvFaTeT~s~GiNmP-artvv~~~l~K~dG~~~r~L~~g 510 (1041)
T COG4581 439 ISALLL--RGIA--VHHAGLLPAIKELVEELFQEGLVK---VVFATETFAIGINMP-ARTVVFTSLSKFDGNGHRWLSPG 510 (1041)
T ss_pred HHHHHh--hhhh--hhccccchHHHHHHHHHHhcccee---EEeehhhhhhhcCCc-ccceeeeeeEEecCCceeecChh
Confidence 222222 4555 567888888999999999888655 789999999999999 55666653 456899
Q ss_pred hHHHHhhhhcccCCCCcEEEEEE
Q 000377 1512 VDLQAQARAHRIGQKRDVLVLRF 1534 (1605)
Q Consensus 1512 ~d~QAiGRAhRIGQkKeV~VyRL 1534 (1605)
.|.|--|||+|-|+...-+|+-.
T Consensus 511 Ey~QmsGRAGRRGlD~~G~vI~~ 533 (1041)
T COG4581 511 EYTQMSGRAGRRGLDVLGTVIVI 533 (1041)
T ss_pred HHHHhhhhhccccccccceEEEe
Confidence 99999999999999987555554
No 135
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.97 E-value=5.6e-08 Score=124.12 Aligned_cols=321 Identities=20% Similarity=0.301 Sum_probs=177.4
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHHHHHhCC--
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESEINFWAP-- 1164 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~Ef~KwaP-- 1164 (1605)
|..+.-.|.- |+..+..+. ..-+..+||+|||.-.+...+++.. .. ++++||+|+.+ +.|-.+-+.+++.
T Consensus 80 G~~~ws~QR~---WakR~~rg~-SFaiiAPTGvGKTTfg~~~sl~~a~--kg-kr~yii~PT~~Lv~Q~~~kl~~~~e~~ 152 (1187)
T COG1110 80 GFRPWSAQRV---WAKRLVRGK-SFAIIAPTGVGKTTFGLLMSLYLAK--KG-KRVYIIVPTTTLVRQVYERLKKFAEDA 152 (1187)
T ss_pred CCCchHHHHH---HHHHHHcCC-ceEEEcCCCCchhHHHHHHHHHHHh--cC-CeEEEEecCHHHHHHHHHHHHHHHhhc
Confidence 4578888875 555554444 4444457999999766544444432 22 56999999985 5777777888873
Q ss_pred ---CceEEEEcCCh-hHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh
Q 000377 1165 ---RIHKIVYCGPP-EERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY 1240 (1605)
Q Consensus 1165 ---~l~vivy~Gs~-~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L 1240 (1605)
...++ ||+.- ...++-..+.+..++|||+|||-.++.+..+ .|.+.+||+|++|.++-+.-.+ +
T Consensus 153 ~~~~~~~~-yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e--~L~~~kFdfifVDDVDA~Lkas-k-------- 220 (1187)
T COG1110 153 GSLDVLVV-YHSALPTKEKEEALERIESGDFDILITTSQFLSKRFE--ELSKLKFDFIFVDDVDAILKAS-K-------- 220 (1187)
T ss_pred CCcceeee-eccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHH--HhcccCCCEEEEccHHHHHhcc-c--------
Confidence 34444 88873 2233444577888999999999999998544 7888999999999998753222 1
Q ss_pred hccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1241 QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
+.++.|.|.|=+- ..+..-|.+..+- ...+ ......++.+.++-.-.
T Consensus 221 NvDriL~LlGf~e-E~i~~a~~~~~lr-----------~~~~---------------------~~~~~~~~~e~~~~~e~ 267 (1187)
T COG1110 221 NVDRLLRLLGFSE-EVIESAYELIKLR-----------RKLY---------------------GEKRAERVREELREVER 267 (1187)
T ss_pred cHHHHHHHcCCCH-HHHHHHHHHHHHH-----------HHhh---------------------hhhhHHHHHHHHHHHHH
Confidence 1123334444330 0111112221110 0000 00001122222211111
Q ss_pred HHhhhhHhhcCccceEEEEEecccH----HHHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchhhhhhhhc
Q 000377 1321 RRLKHKVENELPEKIERLVRCEASA----YQKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLHAEEVDTL 1396 (1605)
Q Consensus 1321 RRtKkdVe~eLP~K~E~vI~~eLS~----~Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~~eeid~~ 1396 (1605)
++.+. . .+.-.++....+. ....+|+.+. +.- +-.....||.+..
T Consensus 268 ~~~~~----r--~k~g~LvvsSATg~~rg~R~~LfReLl---gFe-------vG~~~~~LRNIvD--------------- 316 (1187)
T COG1110 268 EREKK----R--RKLGILVVSSATGKPRGSRLKLFRELL---GFE-------VGSGGEGLRNIVD--------------- 316 (1187)
T ss_pred HHHHh----c--cCCceEEEeeccCCCCCchHHHHHHHh---CCc-------cCccchhhhheee---------------
Confidence 11000 0 0111111111111 0111222211 000 0000111222211
Q ss_pred CCCCCCChhhhhccHHHHHHHHHHHhhcCCCeEEEEEcc---HHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 000377 1397 IPKHYLPPIVRLCGKLEMLDRLLPKLKATDHRVLFFSTM---TRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFN 1473 (1605)
Q Consensus 1397 i~~~~~~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQf---t~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN 1473 (1605)
.+..+.-.+.+.++++++ |.=.|||.+- ...++.|.++|+..|++...++. ...+.++.|.
T Consensus 317 --------~y~~~~~~e~~~elvk~l---G~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~~~a-----~~~~~le~F~ 380 (1187)
T COG1110 317 --------IYVESESLEKVVELVKKL---GDGGLIFVPIDYGREKAEELAEYLRSHGINAELIHA-----EKEEALEDFE 380 (1187)
T ss_pred --------eeccCccHHHHHHHHHHh---CCCeEEEEEcHHhHHHHHHHHHHHHhcCceEEEeec-----cchhhhhhhc
Confidence 011113456666777665 4568999999 78899999999999999988766 3367899999
Q ss_pred CCCCCeEEEEEe-ccccccccCccc-CCEEEEEcCC
Q 000377 1474 QQDSPFFIFLLS-IRAGGVGVNLQA-ADTVIIFDTD 1507 (1605)
Q Consensus 1474 ~gds~~~VfLLS-TrAGGeGLNLq~-ADtVIiyDp~ 1507 (1605)
.++.++-|=+.| ..+.=+||||+. +.++|||..|
T Consensus 381 ~GeidvLVGvAsyYG~lVRGlDLP~rirYaIF~GvP 416 (1187)
T COG1110 381 EGEVDVLVGVASYYGVLVRGLDLPHRIRYAVFYGVP 416 (1187)
T ss_pred cCceeEEEEecccccceeecCCchhheeEEEEecCC
Confidence 998773221111 234457999976 9999999988
No 136
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=98.95 E-value=2.5e-08 Score=125.91 Aligned_cols=363 Identities=17% Similarity=0.136 Sum_probs=201.8
Q ss_pred CCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch-HHHHHHhCCC
Q 000377 1087 QGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW-ESEINFWAPR 1165 (1605)
Q Consensus 1087 ~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW-~~Ef~KwaP~ 1165 (1605)
-..+|-.+|++++-.|.. +..+++|.-|-.|||++|=..|+. ...+ ..+.+.-.|-..+.|. -++|+.-+..
T Consensus 294 ~pFelD~FQk~Ai~~ler----g~SVFVAAHTSAGKTvVAEYAial-aq~h--~TR~iYTSPIKALSNQKfRDFk~tF~D 366 (1248)
T KOG0947|consen 294 YPFELDTFQKEAIYHLER----GDSVFVAAHTSAGKTVVAEYAIAL-AQKH--MTRTIYTSPIKALSNQKFRDFKETFGD 366 (1248)
T ss_pred CCCCccHHHHHHHHHHHc----CCeEEEEecCCCCcchHHHHHHHH-HHhh--ccceEecchhhhhccchHHHHHHhccc
Confidence 346888999999976655 888999999999999998655542 2222 2347888898877664 5677766655
Q ss_pred ceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC--CcccccCccEEEEecCccccCccch-HHHHHHhhhc
Q 000377 1166 IHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR--PKLSKIQWHYIIIDEGHRIKNASCK-LNADLKHYQS 1242 (1605)
Q Consensus 1166 l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~--~~L~ki~wd~VIIDEAHriKN~~SK-lsraL~~L~a 1242 (1605)
+. +..|+.. .......+|+|.+.|++-.-+ ..++. ...||+||+|++.+.... .+.-+--+-.
T Consensus 367 vg--LlTGDvq----------inPeAsCLIMTTEILRsMLYrgadliRD--vE~VIFDEVHYiND~eRGvVWEEViIMlP 432 (1248)
T KOG0947|consen 367 VG--LLTGDVQ----------INPEASCLIMTTEILRSMLYRGADLIRD--VEFVIFDEVHYINDVERGVVWEEVIIMLP 432 (1248)
T ss_pred cc--eeeccee----------eCCCcceEeehHHHHHHHHhcccchhhc--cceEEEeeeeecccccccccceeeeeecc
Confidence 54 4455542 235678999999999763322 22344 456999999999774322 2222222223
Q ss_pred c--ceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhHHHH
Q 000377 1243 S--HRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRPFVL 1320 (1605)
Q Consensus 1243 ~--~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrPFlL 1320 (1605)
+ ..++||||- .+..+|.+|+..--.....
T Consensus 433 ~HV~~IlLSATV--------------------PN~~EFA~WIGRtK~K~Iy----------------------------- 463 (1248)
T KOG0947|consen 433 RHVNFILLSATV--------------------PNTLEFADWIGRTKQKTIY----------------------------- 463 (1248)
T ss_pred ccceEEEEeccC--------------------CChHHHHHHhhhccCceEE-----------------------------
Confidence 3 358999994 3456788898752111000
Q ss_pred HHhhhhHh--hcCccceEEEEEecccHH------HHHHHHHHHHHhhccCCCCCcchhHHHHHHHHHhcCccccchh-hh
Q 000377 1321 RRLKHKVE--NELPEKIERLVRCEASAY------QKLLMKRVEENLGSIGNSKGRSVHNSVMELRNICNHPYLSQLH-AE 1391 (1605)
Q Consensus 1321 RRtKkdVe--~eLP~K~E~vI~~eLS~~------Qk~LYk~I~~~l~~~~~~k~~~lln~L~qLRkicnHP~L~~~~-~e 1391 (1605)
|. ..-|-..++.+++.-+-+ ...+++.+........ ...+..-.. -..+ +-.... ..
T Consensus 464 ------ViST~kRPVPLEh~l~t~~~l~kiidq~g~fl~~~~~~a~~~~~-~~ak~~~~~------~~~~-~~~rgs~~~ 529 (1248)
T KOG0947|consen 464 ------VISTSKRPVPLEHYLYTKKSLFKIIDQNGIFLLKGIKDAKDSLK-KEAKFVDVE------KSDA-RGGRGSQKR 529 (1248)
T ss_pred ------EEecCCCccceEEEEEeccceehhhcccchhhhhcchhhhhhhc-ccccccccc------cccc-ccccccccc
Confidence 10 124556677777762211 1122222222211110 000000000 0000 000000 00
Q ss_pred hhhhcCCCCC--CChhhhhccHHHHHHHHHHHhhcC-CCeEEEEEccHHHHHHHHHHHhhcCc-----------------
Q 000377 1392 EVDTLIPKHY--LPPIVRLCGKLEMLDRLLPKLKAT-DHRVLFFSTMTRLLDVMEDYLTFKQY----------------- 1451 (1605)
Q Consensus 1392 eid~~i~~~~--~~~lvr~SgKle~L~~LL~kL~a~-g~KVLIFSQft~~LdiLe~~L~~~Gi----------------- 1451 (1605)
..+....... ....-..-.|-.....+|..+... --.+||||-...-+|.-.++|...+.
T Consensus 530 ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~k~~lLP~VvFvFSkkrCde~a~~L~~~nL~~~~EKseV~lfl~k~~ 609 (1248)
T KOG0947|consen 530 GGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLRKKNLLPVVVFVFSKKRCDEYADYLTNLNLTDSKEKSEVHLFLSKAV 609 (1248)
T ss_pred CCcCCCCCCCcccccccccccccchHHHHHHHHhhcccCceEEEEEccccHHHHHHHHhccCcccchhHHHHHHHHHHHH
Confidence 0000000000 000000011112345555555433 35789998888777777777754332
Q ss_pred ----------------------eEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEc----
Q 000377 1452 ----------------------RYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFD---- 1505 (1605)
Q Consensus 1452 ----------------------kylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyD---- 1505 (1605)
.+...||+.=+--++-+--.|..+=. -+|++|.....|+|++ |.+|||-.
T Consensus 610 ~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~VE~LFqrGlV---KVLFATETFAMGVNMP-ARtvVF~Sl~Kh 685 (1248)
T KOG0947|consen 610 ARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEVVELLFQRGLV---KVLFATETFAMGVNMP-ARTVVFSSLRKH 685 (1248)
T ss_pred HhcChhhccchHHHHHHHHHhhcchhhcccchHHHHHHHHHHHhcCce---EEEeehhhhhhhcCCC-ceeEEeeehhhc
Confidence 12334555444444444455766533 3799999999999999 56666653
Q ss_pred -----CCCChhhHHHHhhhhcccCCCCcEEEEEEEeC
Q 000377 1506 -----TDWNPQVDLQAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1506 -----p~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
..-+|..|.|.-|||+|-|-...-+|+-+...
T Consensus 686 DG~efR~L~PGEytQMAGRAGRRGlD~tGTVii~~~~ 722 (1248)
T KOG0947|consen 686 DGNEFRELLPGEYTQMAGRAGRRGLDETGTVIIMCKD 722 (1248)
T ss_pred cCcceeecCChhHHhhhccccccccCcCceEEEEecC
Confidence 24589999999999999998887666655543
No 137
>PF11496 HDA2-3: Class II histone deacetylase complex subunits 2 and 3; InterPro: IPR021006 This entry contains the class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi. The member from Schizosaccharomyces pombe (Fission yeast) is referred to as Ccq1 in Q10432 from SWISSPROT. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C terminus []. ; PDB: 3HGQ_C 3HGT_B.
Probab=98.94 E-value=1.2e-08 Score=119.40 Aligned_cols=208 Identities=20% Similarity=0.242 Sum_probs=124.0
Q ss_pred eEEEEEecccHHHHHHHHHHHHHh-----hccCCC-------------CCcchhHHHHHHHHHhcCccccchhhhhhhhc
Q 000377 1335 IERLVRCEASAYQKLLMKRVEENL-----GSIGNS-------------KGRSVHNSVMELRNICNHPYLSQLHAEEVDTL 1396 (1605)
Q Consensus 1335 ~E~vI~~eLS~~Qk~LYk~I~~~l-----~~~~~~-------------k~~~lln~L~qLRkicnHP~L~~~~~eeid~~ 1396 (1605)
.++.+..+|+.+|+.+|+.+.... ...... ....+...+.+|+.+|+||+|.- +.+
T Consensus 4 ~~y~lP~pmt~~QKdl~e~iislh~~~il~~~~~~~~~~~i~~~~~~~~~~~~~~~~~nl~~V~~HP~Llv------dH~ 77 (297)
T PF11496_consen 4 GEYYLPTPMTSFQKDLYEQIISLHYSDILKFCETNDSSESIDSLLDESLVQSMELLIENLRLVANHPSLLV------DHY 77 (297)
T ss_dssp SEEEEEE---HHHHHHHHHHHHHTHHHHHHHHHSTTT--HHHH-------HHHHHHHHHHHHHHH-GGGT--------TT
T ss_pred ceEEEecCccHHHHHHHHHHHHHHHHHHHHHHcccCccccccchhhhhhHHHHHHHHHHHHHhccCccccc------ccc
Confidence 367889999999999998764321 111111 11234556778999999999942 222
Q ss_pred CCCC-----CCChhhhhccHHHHHHHHHHHh-----hcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHH
Q 000377 1397 IPKH-----YLPPIVRLCGKLEMLDRLLPKL-----KATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRG 1466 (1605)
Q Consensus 1397 i~~~-----~~~~lvr~SgKle~L~~LL~kL-----~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERq 1466 (1605)
+|.. ........|+||.+|.++|..+ ...+.++||.++...++|+||.+|...++.|-+++|..-.++..
T Consensus 78 mPk~ll~~e~~~~~~~tS~KF~~L~~Li~~li~~~~~~~~~~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~~l~~~~~ 157 (297)
T PF11496_consen 78 MPKQLLLSEPAEWLAYTSGKFQFLNDLIDSLIDRDRREYPLHILIVSRSGKELDLLEGLLLGKKLNYKRYSGESLYDEKH 157 (297)
T ss_dssp --S-S-STTHHHHHHHT-HHHHHHHHHHHHH-----TTSSEEEEEEE-STHHHHHHHHHHTTSSSEEEESSS--S--S--
T ss_pred CccccccchHHHHHHHcCchHHHHHHHHHHHHhhhcccCCceEEEEecCccHHHHHHHHHccCCeeEEecCCCCCcCccc
Confidence 2222 2235667899999999999999 67788999999999999999999999999999999976544433
Q ss_pred HHH------------HHH-hCCCCCeEEEEEeccccccc----cCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCcE
Q 000377 1467 ALI------------DKF-NQQDSPFFIFLLSIRAGGVG----VNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRDV 1529 (1605)
Q Consensus 1467 eiI------------d~F-N~gds~~~VfLLSTrAGGeG----LNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV 1529 (1605)
..- ... ..+...+.|+|+++.-.... ++-..+|.||-||+.+++....-..=|...-.+ +.+
T Consensus 158 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~ts~~l~~~~~~~~~~~~~d~IIsfD~~~d~~~p~i~~lR~~~~~~-~~~ 236 (297)
T PF11496_consen 158 KVPKNGNTESNSSNNSKKKDKGSLSVWIHLITSDQLYNNKPPLLSNYNFDLIISFDPSFDTSLPSIEQLRTQNRRN-RLC 236 (297)
T ss_dssp -S----------------------SEEEEEEESS---TTTS--TT-S-EEEEEE-SST--TTSHHHHHHH--------S-
T ss_pred cCCcccccccccccccccccccccceEEEEecCccccccCCCccccCCcCEEEEecCCCCCCChHHHHHHhhcCCC-CCC
Confidence 222 011 12334567888887655442 333458999999999998865544444433222 789
Q ss_pred EEEEEEeCCCHHHHHHHHHH
Q 000377 1530 LVLRFETVQTVEEQVRASAE 1549 (1605)
Q Consensus 1530 ~VyRLIt~~TIEEkIlera~ 1549 (1605)
-|++||..+|+|--++..-.
T Consensus 237 PiirLv~~nSiEHi~L~~~~ 256 (297)
T PF11496_consen 237 PIIRLVPSNSIEHIELCFPK 256 (297)
T ss_dssp -EEEEEETTSHHHHHHHHTT
T ss_pred cEEEEeeCCCHHHHHHHccC
Confidence 99999999999988766543
No 138
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.92 E-value=4.7e-07 Score=116.05 Aligned_cols=120 Identities=13% Similarity=0.158 Sum_probs=100.6
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
...|+..+.+-+.++.+.|..|||.|......+.|..+|...|+++..|..... +++.-|-. ++|... .+.|+|.
T Consensus 408 ~~~K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~--e~EA~IIa-~AG~~G--aVTIATN 482 (925)
T PRK12903 408 KHAKWKAVVKEVKRVHKKGQPILIGTAQVEDSETLHELLLEANIPHTVLNAKQN--AREAEIIA-KAGQKG--AITIATN 482 (925)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCceeecccch--hhHHHHHH-hCCCCC--eEEEecc
Confidence 457999999999988899999999999999999999999999999999988643 44433332 356544 4889999
Q ss_pred ccccccCcccCC--------EEEEEcCCCChhhHHHHhhhhcccCCCCcEEEE
Q 000377 1488 AGGVGVNLQAAD--------TVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVL 1532 (1605)
Q Consensus 1488 AGGeGLNLq~AD--------tVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~Vy 1532 (1605)
.+|+|.|+.-.. +||....+-|-..+.|..||++|.|..-..+.|
T Consensus 483 MAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRaGRQGDpGss~f~ 535 (925)
T PRK12903 483 MAGRGTDIKLSKEVLELGGLYVLGTDKAESRRIDNQLRGRSGRQGDVGESRFF 535 (925)
T ss_pred cccCCcCccCchhHHHcCCcEEEecccCchHHHHHHHhcccccCCCCCcceEE
Confidence 999999987554 899999999999999999999999987665554
No 139
>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=98.87 E-value=5.9e-07 Score=116.63 Aligned_cols=76 Identities=21% Similarity=0.166 Sum_probs=60.0
Q ss_pred cCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHH
Q 000377 1086 LQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINF 1161 (1605)
Q Consensus 1086 L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~K 1161 (1605)
++-..+||.|.+....+...+..+.++||-.+||+|||+.+|+.++......+...++++++.++ .+.|-..|+++
T Consensus 6 FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 6 FPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred cCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 34345799999999999999999999999999999999998877665544333334577777766 57888889887
No 140
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.87 E-value=5.6e-08 Score=129.01 Aligned_cols=144 Identities=22% Similarity=0.223 Sum_probs=96.0
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCceEEEEcCChhHHHHHHHhhhh
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIHKIVYCGPPEERRRLFKEKIV 1187 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~ 1187 (1605)
+.+|++.+-+|+|||++++-++..+.+. .....++|||-.. |-.|-..+|..+........-..+....+ ..+.
T Consensus 273 ~~~G~IWHtqGSGKTlTm~~~A~~l~~~-~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~~~~~~s~~~Lk----~~l~ 347 (962)
T COG0610 273 GKGGYIWHTQGSGKTLTMFKLARLLLEL-PKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFNDPKAESTSELK----ELLE 347 (962)
T ss_pred CCceEEEeecCCchHHHHHHHHHHHHhc-cCCCeEEEEechHHHHHHHHHHHHHHHHhhhhcccccCHHHHH----HHHh
Confidence 4579999999999999998777766666 3333467777765 55788999998876544333222222222 3333
Q ss_pred cCCccEEEEcHHHHhhccCCC--cccccCccEEEEecCccccCccchHHHHHHh-hhccceecccccCCCCCHHH
Q 000377 1188 HQKFNVLLTTYEYLMNKHDRP--KLSKIQWHYIIIDEGHRIKNASCKLNADLKH-YQSSHRLLLTGTPLQNNLEE 1259 (1605)
Q Consensus 1188 ~~~fdVVITTYe~L~k~~D~~--~L~ki~wd~VIIDEAHriKN~~SKlsraL~~-L~a~~RLLLTGTPlqNnl~E 1259 (1605)
...-.|+|||.+.|....... .....+.-+||+|||||- ....+.+.++. |....-++.||||+.-.-..
T Consensus 348 ~~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRS--Q~G~~~~~~~~~~~~a~~~gFTGTPi~~~d~~ 420 (962)
T COG0610 348 DGKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRS--QYGELAKLLKKALKKAIFIGFTGTPIFKEDKD 420 (962)
T ss_pred cCCCcEEEEEecccchhhhcccccccCCCcEEEEEechhhc--cccHHHHHHHHHhccceEEEeeCCcccccccc
Confidence 346689999999887644322 234566789999999995 33444455543 45577799999998654333
No 141
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.84 E-value=1.5e-06 Score=115.96 Aligned_cols=93 Identities=24% Similarity=0.312 Sum_probs=67.0
Q ss_pred HHHHHHHHHhh-cCCCeEEEEEccHHHHHHHHHHHhhcCc--eEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecccc
Q 000377 1413 EMLDRLLPKLK-ATDHRVLFFSTMTRLLDVMEDYLTFKQY--RYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAG 1489 (1605)
Q Consensus 1413 e~L~~LL~kL~-a~g~KVLIFSQft~~LdiLe~~L~~~Gi--kylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAG 1489 (1605)
+.+.+.|.++. ..+.++|||+....++..+.+.|..... .+..+.-+++...|.+++++|+..+.. +|+.+.+.
T Consensus 738 ~~la~~i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~~---iLlG~~sF 814 (928)
T PRK08074 738 EEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDKA---ILLGTSSF 814 (928)
T ss_pred HHHHHHHHHHHHhCCCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCCe---EEEecCcc
Confidence 45555555544 4667899999999999988888865322 133344333334689999999876544 67888999
Q ss_pred ccccCccc--CCEEEEEcCCC
Q 000377 1490 GVGVNLQA--ADTVIIFDTDW 1508 (1605)
Q Consensus 1490 GeGLNLq~--ADtVIiyDp~W 1508 (1605)
.+|||++. +..||+.-.|+
T Consensus 815 wEGVD~pg~~l~~viI~kLPF 835 (928)
T PRK08074 815 WEGIDIPGDELSCLVIVRLPF 835 (928)
T ss_pred cCccccCCCceEEEEEecCCC
Confidence 99999987 58899988776
No 142
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.82 E-value=1.8e-08 Score=112.24 Aligned_cols=129 Identities=14% Similarity=0.181 Sum_probs=85.6
Q ss_pred cHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHH---HhCCCce
Q 000377 1092 REYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEIN---FWAPRIH 1167 (1605)
Q Consensus 1092 RpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~---KwaP~l~ 1167 (1605)
.+.|.+.+...+- +-..+.-...|.|||......-+.-++--...-.+||+|.+. +..|...|+. ++.|+++
T Consensus 66 sevqhecipqail----gmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rfskymP~vk 141 (387)
T KOG0329|consen 66 SEVQHECIPQAIL----GMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERFSKYMPSVK 141 (387)
T ss_pred hHhhhhhhhHHhh----cchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHHHHHHHHHhhCCCce
Confidence 3457777765554 455666678999999765432222233222233579999987 4577777765 5579999
Q ss_pred EEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCcccc
Q 000377 1168 KIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIK 1227 (1605)
Q Consensus 1168 vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriK 1227 (1605)
+.++.|.....+. +.....-++|++.|+..+........|.-....+.|+|||..|.
T Consensus 142 vaVFfGG~~Ikkd---ee~lk~~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkml 198 (387)
T KOG0329|consen 142 VSVFFGGLFIKKD---EELLKNCPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKML 198 (387)
T ss_pred EEEEEcceecccc---HHHHhCCCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHHHH
Confidence 9998887654332 11222368999999999876544455666667899999998763
No 143
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.79 E-value=2.2e-06 Score=112.75 Aligned_cols=89 Identities=17% Similarity=0.174 Sum_probs=65.6
Q ss_pred HHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccc
Q 000377 1413 EMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVG 1492 (1605)
Q Consensus 1413 e~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeG 1492 (1605)
+.+.+.|..+...+.++||++....++..+.+.|....+.. ...|... .|.+++++|+.++.. +|+.+...-+|
T Consensus 634 ~~~~~~i~~~~~~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~~---vLlG~~sFwEG 707 (820)
T PRK07246 634 EEIAKRLEELKQLQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQQ---ILLGLGSFWEG 707 (820)
T ss_pred HHHHHHHHHHHhcCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCCe---EEEecchhhCC
Confidence 45566665566677899999999999999888887655444 4445433 367799999876554 78888999999
Q ss_pred cCcc--cCCEEEEEcCC
Q 000377 1493 VNLQ--AADTVIIFDTD 1507 (1605)
Q Consensus 1493 LNLq--~ADtVIiyDp~ 1507 (1605)
||++ .+..||+.-.|
T Consensus 708 VD~p~~~~~~viI~kLP 724 (820)
T PRK07246 708 VDFVQADRMIEVITRLP 724 (820)
T ss_pred CCCCCCCeEEEEEecCC
Confidence 9996 35667776644
No 144
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=98.78 E-value=3.6e-08 Score=115.71 Aligned_cols=96 Identities=18% Similarity=0.274 Sum_probs=88.4
Q ss_pred CCCeEEEEEccHHHHHHHHHHHhhcC---ceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEE
Q 000377 1425 TDHRVLFFSTMTRLLDVMEDYLTFKQ---YRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTV 1501 (1605)
Q Consensus 1425 ~g~KVLIFSQft~~LdiLe~~L~~~G---ikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtV 1501 (1605)
.-.|.||||....-.|-|+.+|..+| |.++.++|.-+++||.+-++.|...+.. |||+|+++.+||+++....+
T Consensus 504 ~mdkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~dvk---flictdvaargldi~g~p~~ 580 (725)
T KOG0349|consen 504 AMDKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFDVK---FLICTDVAARGLDITGLPFM 580 (725)
T ss_pred ccCceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhhcCeE---EEEEehhhhccccccCCceE
Confidence 34689999999999999999998875 6788899999999999999999888765 99999999999999999999
Q ss_pred EEEcCCCChhhHHHHhhhhccc
Q 000377 1502 IIFDTDWNPQVDLQAQARAHRI 1523 (1605)
Q Consensus 1502 IiyDp~WNP~~d~QAiGRAhRI 1523 (1605)
|+...|-....|.+||||++|.
T Consensus 581 invtlpd~k~nyvhrigrvgra 602 (725)
T KOG0349|consen 581 INVTLPDDKTNYVHRIGRVGRA 602 (725)
T ss_pred EEEecCcccchhhhhhhccchh
Confidence 9999999999999999988873
No 145
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.74 E-value=2.1e-07 Score=120.95 Aligned_cols=78 Identities=14% Similarity=0.046 Sum_probs=54.2
Q ss_pred CCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh----hccceecccccCCCC--CHHHHHH
Q 000377 1189 QKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY----QSSHRLLLTGTPLQN--NLEELWA 1262 (1605)
Q Consensus 1189 ~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L----~a~~RLLLTGTPlqN--nl~ELws 1262 (1605)
....|++.|...+..+.-...+..-.+..|||||||++....+ -.-+++.| +..+..++|+.|-.- ....+-.
T Consensus 6 ~~ggi~~~T~rIl~~DlL~~ri~~~~itgiiv~~Ahr~~~~~~-eaFI~rlyr~~n~~gfIkafSdsP~~~~~g~~~l~~ 84 (814)
T TIGR00596 6 LEGGIFSITSRILVVDLLTGIIPPELITGILVLRADRIIESSQ-EAFILRLYRQKNKTGFIKAFSDNPEAFTMGFSPLET 84 (814)
T ss_pred hcCCEEEEechhhHhHHhcCCCCHHHccEEEEeeccccccccc-HHHHHHHHHHhCCCcceEEecCCCcccccchHHHHH
Confidence 4568899999999886666666667789999999999965433 33344545 345689999999653 3344555
Q ss_pred HHHhh
Q 000377 1263 LLNFL 1267 (1605)
Q Consensus 1263 LLnFL 1267 (1605)
++.-|
T Consensus 85 vmk~L 89 (814)
T TIGR00596 85 KMRNL 89 (814)
T ss_pred HHHHh
Confidence 55444
No 146
>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=98.74 E-value=8.5e-06 Score=103.89 Aligned_cols=68 Identities=18% Similarity=0.204 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhC
Q 000377 1095 QMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWA 1163 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~Kwa 1163 (1605)
|.+-+.++...+.++...|+-.+||+|||+.++..+...... ....++||++|+. +..|+..++..+.
T Consensus 2 Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~-~~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 2 QALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKE-RPDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred HHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHh-ccCceEEEECCcHHHHHHHHHHHHHHH
Confidence 778888888888888778888899999999887665544332 2246799999987 4577777776544
No 147
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.62 E-value=3.7e-05 Score=100.46 Aligned_cols=119 Identities=14% Similarity=0.197 Sum_probs=98.8
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHH-HHHHHHhCCCCCeEEEEEec
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRG-ALIDKFNQQDSPFFIFLLSI 1486 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERq-eiId~FN~gds~~~VfLLST 1486 (1605)
...|+.++.+-+.++.+.|..|||-|.++..-++|...|..+|+++-.|..... +++ ++|.+ +|... .+-|+|
T Consensus 610 ~~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK~h--~~EAeIVA~--AG~~G--aVTIAT 683 (1112)
T PRK12901 610 KREKYNAVIEEITELSEAGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAKLH--QKEAEIVAE--AGQPG--TVTIAT 683 (1112)
T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhccch--hhHHHHHHh--cCCCC--cEEEec
Confidence 357999999999999999999999999999999999999999999988877644 333 44444 35444 478999
Q ss_pred cccccccCcc--------cCCEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEE
Q 000377 1487 RAGGVGVNLQ--------AADTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVL 1532 (1605)
Q Consensus 1487 rAGGeGLNLq--------~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~Vy 1532 (1605)
..+|+|.|+. .-=+||.-..+-|...+.|..||++|.|..-....|
T Consensus 684 NMAGRGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPGsS~f~ 737 (1112)
T PRK12901 684 NMAGRGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGSSQFY 737 (1112)
T ss_pred cCcCCCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCCcceEE
Confidence 9999999976 346889899999999999999999999987665444
No 148
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.62 E-value=5.1e-06 Score=107.04 Aligned_cols=103 Identities=22% Similarity=0.252 Sum_probs=78.6
Q ss_pred cCCCeEEEEEccHHHHHHHHHHHhhcCce-EEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCccc--CCE
Q 000377 1424 ATDHRVLFFSTMTRLLDVMEDYLTFKQYR-YLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQA--ADT 1500 (1605)
Q Consensus 1424 a~g~KVLIFSQft~~LdiLe~~L~~~Gik-ylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~--ADt 1500 (1605)
..+.++|||+..-..|..+.++|...... .+...|.. .+..+++.|...... .|++.+....+|||++. +..
T Consensus 477 ~~~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~---~~~~~l~~f~~~~~~--~~lv~~gsf~EGVD~~g~~l~~ 551 (654)
T COG1199 477 ASPGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGED---EREELLEKFKASGEG--LILVGGGSFWEGVDFPGDALRL 551 (654)
T ss_pred hcCCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCC---cHHHHHHHHHHhcCC--eEEEeeccccCcccCCCCCeeE
Confidence 44559999999999999999999876653 44445544 455899999876653 58999999999999987 688
Q ss_pred EEEEcCCCC-h-----------------------------hhHHHHhhhhcccCCCCcEEE
Q 000377 1501 VIIFDTDWN-P-----------------------------QVDLQAQARAHRIGQKRDVLV 1531 (1605)
Q Consensus 1501 VIiyDp~WN-P-----------------------------~~d~QAiGRAhRIGQkKeV~V 1531 (1605)
||+.-.|+= | ....|++||+.|--+.+-|.|
T Consensus 552 vvI~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~iv 612 (654)
T COG1199 552 VVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIV 612 (654)
T ss_pred EEEEecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEE
Confidence 999877763 2 256899999999555555544
No 149
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.59 E-value=1.9e-06 Score=110.66 Aligned_cols=373 Identities=19% Similarity=0.204 Sum_probs=202.3
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~ 1167 (1605)
..|-+-|..++..+..........+|...||+|||-..+.+|...+..+ +-+||+||-. +..|-...|+..++ ..
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~G---kqvLvLVPEI~Ltpq~~~rf~~rFg-~~ 272 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQG---KQVLVLVPEIALTPQLLARFKARFG-AK 272 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcC---CEEEEEeccccchHHHHHHHHHHhC-CC
Confidence 4677889999998887652234568999999999999999999887654 3489999975 77887777776665 55
Q ss_pred EEEEcCC--hhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccc--cCccchHH-----HHHH
Q 000377 1168 KIVYCGP--PEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRI--KNASCKLN-----ADLK 1238 (1605)
Q Consensus 1168 vivy~Gs--~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHri--KN~~SKls-----raL~ 1238 (1605)
+.+++.. +.+|...|. .+..+...|||-|...+..- --+-.+|||||=|.- |-.+...+ ..++
T Consensus 273 v~vlHS~Ls~~er~~~W~-~~~~G~~~vVIGtRSAlF~P-------f~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~R 344 (730)
T COG1198 273 VAVLHSGLSPGERYRVWR-RARRGEARVVIGTRSALFLP-------FKNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLR 344 (730)
T ss_pred hhhhcccCChHHHHHHHH-HHhcCCceEEEEechhhcCc-------hhhccEEEEeccccccccCCcCCCcCHHHHHHHH
Confidence 6565544 344544443 45568899999998887532 223579999999984 43332222 1122
Q ss_pred -hhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcccccCCCCCCchhhhhhHHHHHHHHHHHHHHhhH
Q 000377 1239 -HYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFESNGDNSPDEALLSEEENLLIINRLHQVLRP 1317 (1605)
Q Consensus 1239 -~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~~g~~~~~e~~Lseee~~~iI~RL~kvLrP 1317 (1605)
.......++-|||| +++-++.. ... .+. .-.+...+..
T Consensus 345 a~~~~~pvvLgSATP---SLES~~~~---~~g-~y~-~~~L~~R~~~--------------------------------- 383 (730)
T COG1198 345 AKKENAPVVLGSATP---SLESYANA---ESG-KYK-LLRLTNRAGR--------------------------------- 383 (730)
T ss_pred HHHhCCCEEEecCCC---CHHHHHhh---hcC-ceE-EEEccccccc---------------------------------
Confidence 23445678899999 23333322 111 000 0000111110
Q ss_pred HHHHHhhhhHhhcCccceEEEEEecccH----HHHHHHHHHHHHhhccCC----CCCcchhHHHHHHHHHhcCccccchh
Q 000377 1318 FVLRRLKHKVENELPEKIERLVRCEASA----YQKLLMKRVEENLGSIGN----SKGRSVHNSVMELRNICNHPYLSQLH 1389 (1605)
Q Consensus 1318 FlLRRtKkdVe~eLP~K~E~vI~~eLS~----~Qk~LYk~I~~~l~~~~~----~k~~~lln~L~qLRkicnHP~L~~~~ 1389 (1605)
..+|.....-..-+... +-..+++.+.+.+..... -..+. .... -+.+.|.|..-++
T Consensus 384 -----------a~~p~v~iiDmr~e~~~~~~~lS~~Ll~~i~~~l~~geQ~llflnRRG-ys~~-l~C~~Cg~v~~Cp-- 448 (730)
T COG1198 384 -----------ARLPRVEIIDMRKEPLETGRSLSPALLEAIRKTLERGEQVLLFLNRRG-YAPL-LLCRDCGYIAECP-- 448 (730)
T ss_pred -----------cCCCcceEEeccccccccCccCCHHHHHHHHHHHhcCCeEEEEEccCC-ccce-eecccCCCcccCC--
Confidence 01111111000000000 112233333333221100 00000 0001 1122233221110
Q ss_pred hhhhhhcCCCCCC--ChhhhhccHHHHHHHHHHHhhcCCCeEEEEEc-cH-HHHHHHHHHHhhcCceEEEEeCCCCHH--
Q 000377 1390 AEEVDTLIPKHYL--PPIVRLCGKLEMLDRLLPKLKATDHRVLFFST-MT-RLLDVMEDYLTFKQYRYLRLDGHTSGG-- 1463 (1605)
Q Consensus 1390 ~eeid~~i~~~~~--~~lvr~SgKle~L~~LL~kL~a~g~KVLIFSQ-ft-~~LdiLe~~L~~~GikylrLdGsts~e-- 1463 (1605)
.++..+.-+.. ......|+.-+-+-.. +..-|...|+++- -| +..+.|..+| -+.+++++|+.+...
T Consensus 449 --~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~---Cp~Cgs~~L~~~G~GterieeeL~~~F--P~~rv~r~d~Dtt~~k~ 521 (730)
T COG1198 449 --NCDSPLTLHKATGQLRCHYCGYQEPIPQS---CPECGSEHLRAVGPGTERIEEELKRLF--PGARIIRIDSDTTRRKG 521 (730)
T ss_pred --CCCcceEEecCCCeeEeCCCCCCCCCCCC---CCCCCCCeeEEecccHHHHHHHHHHHC--CCCcEEEEccccccchh
Confidence 00000000000 0000111111111111 1122334455442 22 2233344443 378999999988643
Q ss_pred HHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCCC---C---------hhhHHHHhhhhcccCCCCcEEE
Q 000377 1464 DRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTDW---N---------PQVDLQAQARAHRIGQKRDVLV 1531 (1605)
Q Consensus 1464 ERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~W---N---------P~~d~QAiGRAhRIGQkKeV~V 1531 (1605)
.-+.+++.|.+++.+ |||.|....-|+|+++...|.++|.|- + .+.+.|..|||+|-+-.-.|.|
T Consensus 522 ~~~~~l~~~~~ge~d---ILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~QvaGRAgR~~~~G~VvI 598 (730)
T COG1198 522 ALEDLLDQFANGEAD---ILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRAGKPGEVVI 598 (730)
T ss_pred hHHHHHHHHhCCCCC---eeecchhhhcCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHHHhhhccCCCCCeEEE
Confidence 356789999999998 899999999999999999999988662 2 3578999999999877777766
Q ss_pred EEEEeCCC
Q 000377 1532 LRFETVQT 1539 (1605)
Q Consensus 1532 yRLIt~~T 1539 (1605)
-.+.....
T Consensus 599 QT~~P~hp 606 (730)
T COG1198 599 QTYNPDHP 606 (730)
T ss_pred EeCCCCcH
Confidence 66555543
No 150
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.58 E-value=2.8e-05 Score=100.70 Aligned_cols=84 Identities=10% Similarity=0.118 Sum_probs=68.1
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCC-HHHHHHHHHHHhCCCCCeEEEEEec
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTS-GGDRGALIDKFNQQDSPFFIFLLSI 1486 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts-~eERqeiId~FN~gds~~~VfLLST 1486 (1605)
...|+..+.+-+....+.|..|||-|..+..-+.|...|...|+++-.|..... .+.-.++|.+ +|... .+-|+|
T Consensus 406 ~~~K~~AI~~ei~~~~~~grPVLIgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIA~--AG~~G--~VTIAT 481 (870)
T CHL00122 406 ELSKWRAIADECLQMHQTGRPILIGTTTIEKSELLSQLLKEYRLPHQLLNAKPENVRRESEIVAQ--AGRKG--SITIAT 481 (870)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHHHHHHHHHHcCCccceeeCCCccchhHHHHHHh--cCCCC--cEEEec
Confidence 346888888888888899999999999999999999999999999999998743 2334456655 45544 478999
Q ss_pred cccccccCc
Q 000377 1487 RAGGVGVNL 1495 (1605)
Q Consensus 1487 rAGGeGLNL 1495 (1605)
..+|+|.|+
T Consensus 482 NMAGRGTDI 490 (870)
T CHL00122 482 NMAGRGTDI 490 (870)
T ss_pred cccCCCcCe
Confidence 999999774
No 151
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.57 E-value=1.6e-06 Score=107.77 Aligned_cols=184 Identities=16% Similarity=0.197 Sum_probs=107.6
Q ss_pred CCCccCCCCccHHHHHHHHHHHHHhhcC------CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEec-CCcccc
Q 000377 1082 QPTCLQGGKLREYQMSGLRWLVSLYNNQ------LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVP-SSVLPG 1154 (1605)
Q Consensus 1082 qP~~L~gg~LRpYQleGL~wLlsL~~n~------~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP-~SLL~n 1154 (1605)
.|. +..+-|-..|+++|-|.....+.- .|-+|.|.-|.||-.+...+|...+..+ .++.|.+.- ..|...
T Consensus 257 lP~-i~sg~lSALQLEav~YAcQ~He~llPsG~RaGfLiGDGAGVGKGRTvAgiIfeNyLkG--RKrAlW~SVSsDLKfD 333 (1300)
T KOG1513|consen 257 LPS-IDSGHLSALQLEAVTYACQAHEVLLPSGQRAGFLIGDGAGVGKGRTVAGIIFENYLKG--RKRALWFSVSSDLKFD 333 (1300)
T ss_pred ccc-CcccchhHHHHHHHHHHHhhhhhcCCCCccceeeeccCcccCCCceeEEEEehhhhcc--cceeEEEEeccccccc
Confidence 455 345789999999999988765432 2458899999999877766665554433 233565544 446666
Q ss_pred hHHHHHHhC-CCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCC------Ccc------cccCc-cEEEE
Q 000377 1155 WESEINFWA-PRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDR------PKL------SKIQW-HYIII 1220 (1605)
Q Consensus 1155 W~~Ef~Kwa-P~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~------~~L------~ki~w-d~VII 1220 (1605)
-.+.+.... +.+.|..+ ++-...++-.......+-.|+++||..|+-+... ..+ ...+| .+||+
T Consensus 334 AERDL~DigA~~I~V~al--nK~KYakIss~en~n~krGViFaTYtaLIGEs~~~~~kyrtR~rQllqW~Ge~feGvIvf 411 (1300)
T KOG1513|consen 334 AERDLRDIGATGIAVHAL--NKFKYAKISSKENTNTKRGVIFATYTALIGESQGKGGKYRTRFRQLLQWCGEDFEGVIVF 411 (1300)
T ss_pred hhhchhhcCCCCccceeh--hhcccccccccccCCccceeEEEeeHhhhhhccccCchHHHHHHHHHHHhhhccceeEEe
Confidence 677666543 33333221 1111111111112224567999999999753321 011 11122 47999
Q ss_pred ecCccccC-------ccchHHHHHHhh----hccceecccccCCCCCHHHHHHHHHhhcCCCCCC
Q 000377 1221 DEGHRIKN-------ASCKLNADLKHY----QSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNS 1274 (1605)
Q Consensus 1221 DEAHriKN-------~~SKlsraL~~L----~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s 1274 (1605)
||||+.|| ..+|..+++..+ +..+++..|||-- .|-.++...+.-++|+.
T Consensus 412 DECHkAKNL~p~~~~k~TKtG~tVLdLQk~LP~ARVVYASATGA----sEPrNMaYM~RLGlWGe 472 (1300)
T KOG1513|consen 412 DECHKAKNLVPTAGAKSTKTGKTVLDLQKKLPNARVVYASATGA----SEPRNMAYMVRLGLWGE 472 (1300)
T ss_pred hhhhhhcccccccCCCcCcccHhHHHHHHhCCCceEEEeeccCC----CCcchhhhhhhhccccC
Confidence 99999999 345666666544 5567788888852 23334444444455543
No 152
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.55 E-value=2.9e-05 Score=100.99 Aligned_cols=90 Identities=20% Similarity=0.341 Sum_probs=64.2
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc-CceEEEEeCCCCHHHHHHHHHHHhC----CCCCeEEEEEec
Q 000377 1412 LEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK-QYRYLRLDGHTSGGDRGALIDKFNQ----QDSPFFIFLLSI 1486 (1605)
Q Consensus 1412 le~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~-GikylrLdGsts~eERqeiId~FN~----gds~~~VfLLST 1486 (1605)
.+.+.+.|.++...+.++|||+.....++.+...|... ++. +...|. ..|.++++.|.+ ++.. +|+++
T Consensus 520 ~~~~~~~i~~l~~~~gg~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~---~~~~~ll~~f~~~~~~~~~~---VL~g~ 592 (697)
T PRK11747 520 TAEMAEFLPELLEKHKGSLVLFASRRQMQKVADLLPRDLRLM-LLVQGD---QPRQRLLEKHKKRVDEGEGS---VLFGL 592 (697)
T ss_pred HHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCC---chHHHHHHHHHHHhccCCCe---EEEEe
Confidence 44555666555555667899999899999888888643 333 344554 257888877753 3333 67788
Q ss_pred cccccccCccc--CCEEEEEcCCC
Q 000377 1487 RAGGVGVNLQA--ADTVIIFDTDW 1508 (1605)
Q Consensus 1487 rAGGeGLNLq~--ADtVIiyDp~W 1508 (1605)
....+|||++. +..||+.-.|+
T Consensus 593 ~sf~EGVD~pGd~l~~vII~kLPF 616 (697)
T PRK11747 593 QSFAEGLDLPGDYLTQVIITKIPF 616 (697)
T ss_pred ccccccccCCCCceEEEEEEcCCC
Confidence 99999999976 89999988775
No 153
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.46 E-value=8.5e-07 Score=103.16 Aligned_cols=234 Identities=17% Similarity=0.172 Sum_probs=135.9
Q ss_pred cCCCCccHHHHHHHHHHHHHhhc------CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEec-CCcccchHHH
Q 000377 1086 LQGGKLREYQMSGLRWLVSLYNN------QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVP-SSVLPGWESE 1158 (1605)
Q Consensus 1086 L~gg~LRpYQleGL~wLlsL~~n------~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP-~SLL~nW~~E 1158 (1605)
...+.|-+-|+++|-+....... +.+-+|.|.+|.||-.+..++|.+.+..++ .+ .|+|.. ..|...-.+.
T Consensus 33 ~~~g~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr-~r-~vwvS~s~dL~~Da~RD 110 (303)
T PF13872_consen 33 IDSGLLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGR-KR-AVWVSVSNDLKYDAERD 110 (303)
T ss_pred HhcccccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCC-Cc-eEEEECChhhhhHHHHH
Confidence 34588999999999998876653 456689999999999999999998877653 23 455555 4466665555
Q ss_pred HHHhCC-CceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccC-----CCcccc------cCc-cEEEEecCcc
Q 000377 1159 INFWAP-RIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHD-----RPKLSK------IQW-HYIIIDEGHR 1225 (1605)
Q Consensus 1159 f~KwaP-~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D-----~~~L~k------i~w-d~VIIDEAHr 1225 (1605)
+..... .+.+.....-+ ......-+..|+++||..|+.... ...|.. .+| .+||+||||+
T Consensus 111 l~DIG~~~i~v~~l~~~~-------~~~~~~~~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~ 183 (303)
T PF13872_consen 111 LRDIGADNIPVHPLNKFK-------YGDIIRLKEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHK 183 (303)
T ss_pred HHHhCCCcccceechhhc-------cCcCCCCCCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchh
Confidence 553321 12222111100 011112356899999999987531 222222 122 4789999999
Q ss_pred ccCccc------hHHHHHHhh----hccceecccccCCCCCHHHHHHHHHhhcCC------CCCChHHHHHHhcccccCC
Q 000377 1226 IKNASC------KLNADLKHY----QSSHRLLLTGTPLQNNLEELWALLNFLLPN------IFNSSEDFSQWFNKPFESN 1289 (1605)
Q Consensus 1226 iKN~~S------KlsraL~~L----~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~------if~s~~~F~e~F~kP~e~~ 1289 (1605)
+||..+ +...++..+ +..+.+..|||.... +..| ....+-+ .|.+..+|.+.+.+ .
T Consensus 184 akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgase-p~Nm---aYm~RLGLWG~gtpf~~~~~f~~a~~~----g 255 (303)
T PF13872_consen 184 AKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASE-PRNM---AYMSRLGLWGPGTPFPDFDDFLEAMEK----G 255 (303)
T ss_pred cCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCC-Ccee---eeeeeccccCCCCCCCCHHHHHHHHHh----c
Confidence 999654 555555444 456789999998633 2222 1111222 34556666554432 2
Q ss_pred CCCCchhhhhhHHHHHHHHHHHHHHhhHHHHHHhhhhHhhcCccceEEEEEecccHHHHHHHHH
Q 000377 1290 GDNSPDEALLSEEENLLIINRLHQVLRPFVLRRLKHKVENELPEKIERLVRCEASAYQKLLMKR 1353 (1605)
Q Consensus 1290 g~~~~~e~~Lseee~~~iI~RL~kvLrPFlLRRtKkdVe~eLP~K~E~vI~~eLS~~Qk~LYk~ 1353 (1605)
+.. . ++++..=-+ .+-.+++|. ..+-.....++.+++++.+..+|+.
T Consensus 256 Gv~-a----------mE~vA~dlK-a~G~yiaR~-----LSf~gvef~~~e~~l~~~~~~~Yd~ 302 (303)
T PF13872_consen 256 GVG-A----------MEMVAMDLK-ARGMYIARQ-----LSFEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred Cch-H----------HHHHHHHHH-hcchheeee-----cccCCceEEEEEecCCHHHHHHhcC
Confidence 111 0 011111011 122334442 1233445677889999999999974
No 154
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=98.45 E-value=0.00043 Score=89.15 Aligned_cols=165 Identities=21% Similarity=0.163 Sum_probs=106.1
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHH-Hh-CCC
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEIN-FW-APR 1165 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~-Kw-aP~ 1165 (1605)
...-.+|.+-+ ...+.+...+|..++-.|||+..-..+...++.. ..+-++.|+|+. ++.|-..++. +| ++.
T Consensus 510 F~Pd~WQ~elL----DsvDr~eSavIVAPTSaGKTfisfY~iEKVLRes-D~~VVIyvaPtKaLVnQvsa~VyaRF~~~t 584 (1330)
T KOG0949|consen 510 FCPDEWQRELL----DSVDRNESAVIVAPTSAGKTFISFYAIEKVLRES-DSDVVIYVAPTKALVNQVSANVYARFDTKT 584 (1330)
T ss_pred cCCcHHHHHHh----hhhhcccceEEEeeccCCceeccHHHHHHHHhhc-CCCEEEEecchHHHhhhhhHHHHHhhccCc
Confidence 45567888766 4455678889999999999999887777776653 456689999986 4555555443 33 232
Q ss_pred ce-EEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCc---ccccCccEEEEecCccccCc-cchHHHHHHhh
Q 000377 1166 IH-KIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPK---LSKIQWHYIIIDEGHRIKNA-SCKLNADLKHY 1240 (1605)
Q Consensus 1166 l~-vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~---L~ki~wd~VIIDEAHriKN~-~SKlsraL~~L 1240 (1605)
+. .+...|+-.. ...+.....+|+||-++.+....-... -.--+..|||+||+|.+.+. ....+..+-.+
T Consensus 585 ~~rg~sl~g~ltq-----EYsinp~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~l 659 (1330)
T KOG0949|consen 585 FLRGVSLLGDLTQ-----EYSINPWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLL 659 (1330)
T ss_pred cccchhhHhhhhH-----HhcCCchhceEEEEchHHHHHHhcCchhhhhhhhcceEEEechhhhccccccchHHHHHHHh
Confidence 22 2222222211 112223478999999998865332210 01113579999999999984 45566666666
Q ss_pred hccceecccccCCCCCHHHHHHHHH
Q 000377 1241 QSSHRLLLTGTPLQNNLEELWALLN 1265 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ELwsLLn 1265 (1605)
-....|+||||- +++..+...++
T Consensus 660 i~CP~L~LSATi--gN~~l~qkWln 682 (1330)
T KOG0949|consen 660 IPCPFLVLSATI--GNPNLFQKWLN 682 (1330)
T ss_pred cCCCeeEEeccc--CCHHHHHHHHH
Confidence 666779999995 66666666665
No 155
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=98.44 E-value=2e-06 Score=106.97 Aligned_cols=155 Identities=15% Similarity=0.244 Sum_probs=100.8
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc-hHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG-WESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n-W~~Ef~KwaP~l~ 1167 (1605)
.+|-|+|..++..+ +++..+++..-|-.|||++|=..|+..+.. +.+++.-.|-..|.| -.+|+..-+.++-
T Consensus 128 F~LDpFQ~~aI~Ci----dr~eSVLVSAHTSAGKTVVAeYAIA~sLr~---kQRVIYTSPIKALSNQKYREl~~EF~DVG 200 (1041)
T KOG0948|consen 128 FTLDPFQSTAIKCI----DRGESVLVSAHTSAGKTVVAEYAIAMSLRE---KQRVIYTSPIKALSNQKYRELLEEFKDVG 200 (1041)
T ss_pred cccCchHhhhhhhh----cCCceEEEEeecCCCcchHHHHHHHHHHHh---cCeEEeeChhhhhcchhHHHHHHHhcccc
Confidence 58999999998544 558888888889999999987666655433 345788888776655 4566654443332
Q ss_pred EEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccC--CCcccccCccEEEEecCccccCccchHH--HHHHhh-hc
Q 000377 1168 KIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHD--RPKLSKIQWHYIIIDEGHRIKNASCKLN--ADLKHY-QS 1242 (1605)
Q Consensus 1168 vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D--~~~L~ki~wd~VIIDEAHriKN~~SKls--raL~~L-~a 1242 (1605)
.-.|+.. .......+|+|.+.|+.-.- .+.++.+.| ||+||.|+|+....... ..+--+ ..
T Consensus 201 --LMTGDVT----------InP~ASCLVMTTEILRsMLYRGSEvmrEVaW--VIFDEIHYMRDkERGVVWEETIIllP~~ 266 (1041)
T KOG0948|consen 201 --LMTGDVT----------INPDASCLVMTTEILRSMLYRGSEVMREVAW--VIFDEIHYMRDKERGVVWEETIILLPDN 266 (1041)
T ss_pred --eeeccee----------eCCCCceeeeHHHHHHHHHhccchHhheeee--EEeeeehhccccccceeeeeeEEecccc
Confidence 2222211 12456788999998875332 234566666 99999999987443211 111122 33
Q ss_pred cceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhcc
Q 000377 1243 SHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNK 1284 (1605)
Q Consensus 1243 ~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~k 1284 (1605)
.+-++||||- ++...|.+|++.
T Consensus 267 vr~VFLSATi--------------------PNA~qFAeWI~~ 288 (1041)
T KOG0948|consen 267 VRFVFLSATI--------------------PNARQFAEWICH 288 (1041)
T ss_pred ceEEEEeccC--------------------CCHHHHHHHHHH
Confidence 4558899994 456788888864
No 156
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=98.36 E-value=1.5e-05 Score=103.92 Aligned_cols=110 Identities=16% Similarity=0.169 Sum_probs=79.7
Q ss_pred CCeEEEEEccHHHHHHHHHHHhh----cCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEE
Q 000377 1426 DHRVLFFSTMTRLLDVMEDYLTF----KQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTV 1501 (1605)
Q Consensus 1426 g~KVLIFSQft~~LdiLe~~L~~----~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtV 1501 (1605)
..-+|||-.-...++...+.|.. ..+.++-|+|..+.++..+ -|+......+-+++||..+.++|++..+.+|
T Consensus 259 ~GdILvFLpG~~EI~~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~r---vF~p~~~~~RKVVlATNIAETSLTI~gIr~V 335 (845)
T COG1643 259 SGSILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVR---VFEPAPGGKRKVVLATNIAETSLTIPGIRYV 335 (845)
T ss_pred CCCEEEECCcHHHHHHHHHHHHhccccCCcEEeeccccCCHHHHHh---hcCCCCCCcceEEEEccccccceeeCCeEEE
Confidence 45789998877777777777765 4578899999999888776 4544333334489999999999999999998
Q ss_pred EE--------EcCC----------CChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHH
Q 000377 1502 II--------FDTD----------WNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVE 1541 (1605)
Q Consensus 1502 Ii--------yDp~----------WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIE 1541 (1605)
|= ||+- -+-+.-.||-|||+| +.+-..|||++++..+
T Consensus 336 IDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR---~~pGicyRLyse~~~~ 390 (845)
T COG1643 336 IDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGR---TGPGICYRLYSEEDFL 390 (845)
T ss_pred ecCCcccccccccccCceeeeEEEechhhhhhhcccccc---CCCceEEEecCHHHHH
Confidence 72 3321 123456677777776 5567889999875443
No 157
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=98.28 E-value=6.4e-05 Score=94.09 Aligned_cols=111 Identities=18% Similarity=0.195 Sum_probs=75.7
Q ss_pred CeEEEEEccHHHHHHHHHHHhhc----Cc----eEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccC
Q 000377 1427 HRVLFFSTMTRLLDVMEDYLTFK----QY----RYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAA 1498 (1605)
Q Consensus 1427 ~KVLIFSQft~~LdiLe~~L~~~----Gi----kylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~A 1498 (1605)
.-+|||-.-...++...+.|... +- -++.++|+.+.++..++ |......++-+++||..+.+.|.+...
T Consensus 259 GDILvFLtGqeEIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rv---F~p~p~g~RKvIlsTNIAETSlTI~GI 335 (674)
T KOG0922|consen 259 GDILVFLTGQEEIEAACELLRERAKSLPEDCPELILPLYGALPSEEQSRV---FDPAPPGKRKVILSTNIAETSLTIDGI 335 (674)
T ss_pred CCEEEEeCCHHHHHHHHHHHHHHhhhccccCcceeeeecccCCHHHhhcc---ccCCCCCcceEEEEcceeeeeEEecce
Confidence 35788877776666555555432 21 24678999998876544 655454577799999999999999998
Q ss_pred CEEEEE----cCCCCh-----------hhHHHHhhhhcccCCCCcEEEEEEEeCCCH
Q 000377 1499 DTVIIF----DTDWNP-----------QVDLQAQARAHRIGQKRDVLVLRFETVQTV 1540 (1605)
Q Consensus 1499 DtVIiy----Dp~WNP-----------~~d~QAiGRAhRIGQkKeV~VyRLIt~~TI 1540 (1605)
.+||=- -..||| ..-.||.=|++|-|.+.+..+|||+++.-.
T Consensus 336 ~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~ 392 (674)
T KOG0922|consen 336 RYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAY 392 (674)
T ss_pred EEEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHH
Confidence 888621 112333 344556666666666888999999998755
No 158
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.27 E-value=7.3e-06 Score=107.40 Aligned_cols=172 Identities=20% Similarity=0.207 Sum_probs=103.7
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHH---------HHHhCCC--ceEEEEcCCh--
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESE---------INFWAPR--IHKIVYCGPP-- 1175 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~E---------f~KwaP~--l~vivy~Gs~-- 1175 (1605)
.+..+.++||+|||.+++.+|.+|....+. ..+|||||...+ .....- |...+.+ +...+|....
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~~-~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~~ 138 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKYGL-FKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDKK 138 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHcCC-cEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCccc
Confidence 466789999999999999999988776554 459999998644 222222 2222222 4444554332
Q ss_pred -hHHH---HHHHhhhh-----cCCccEEEEcHHHHhhccCCCc------ccc--cCc-------cEEEEecCccccCccc
Q 000377 1176 -EERR---RLFKEKIV-----HQKFNVLLTTYEYLMNKHDRPK------LSK--IQW-------HYIIIDEGHRIKNASC 1231 (1605)
Q Consensus 1176 -~~R~---~l~~~~i~-----~~~fdVVITTYe~L~k~~D~~~------L~k--i~w-------d~VIIDEAHriKN~~S 1231 (1605)
..|. ........ .....|+|+|.+.|.+...... +.. ..| -+|||||.|++.. ..
T Consensus 139 k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh~~~~-~~ 217 (986)
T PRK15483 139 KSGRKNFPAQLSNFVKASRQNSNTIHVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPHRFPR-DN 217 (986)
T ss_pred ccccccChHHHHHHHhccccCCCceEEEEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCCCCCc-ch
Confidence 0110 00111111 1257999999999976321001 011 223 2799999999965 34
Q ss_pred hHHHHHHhhhccceecccccCCC-------CC--HHHHHHHHHhhcCCCCCChHHHHHHhcccccC
Q 000377 1232 KLNADLKHYQSSHRLLLTGTPLQ-------NN--LEELWALLNFLLPNIFNSSEDFSQWFNKPFES 1288 (1605)
Q Consensus 1232 KlsraL~~L~a~~RLLLTGTPlq-------Nn--l~ELwsLLnFL~P~if~s~~~F~e~F~kP~e~ 1288 (1605)
+.+.++..+.+.+.|..|||--. |. ..+.++++.-| +..+.|.....+-++.
T Consensus 218 k~~~~i~~lnpl~~lrysAT~~~~~~~~g~~~~~~~d~~NlvY~L-----davdAyn~~LVK~I~V 278 (986)
T PRK15483 218 KFYQAIEALKPQMIIRFGATFPDITEGKGKNKCTRKDYYNLQFDL-----NAVDSFNDGLVKGVDI 278 (986)
T ss_pred HHHHHHHhcCcccEEEEeeecCCccccccccccccccccCceeec-----CHHHHHHhCCcceEEE
Confidence 56688888999899999999633 11 11245444333 5567777776665543
No 159
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=98.26 E-value=0.00048 Score=89.67 Aligned_cols=84 Identities=10% Similarity=0.109 Sum_probs=68.3
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCC-CCHHHHHHHHHHHhCCCCCeEEEEEec
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGH-TSGGDRGALIDKFNQQDSPFFIFLLSI 1486 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGs-ts~eERqeiId~FN~gds~~~VfLLST 1486 (1605)
...|+..+.+-+.++.+.|..|||-|..+..-+.|...|...|+++-.|... ...+.-.++|.+ +|... .+-|+|
T Consensus 421 ~~~K~~Ai~~ei~~~~~~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIa~--AG~~G--aVTIAT 496 (939)
T PRK12902 421 EIAKWRAVANETAEMHKQGRPVLVGTTSVEKSELLSALLQEQGIPHNLLNAKPENVEREAEIVAQ--AGRKG--AVTIAT 496 (939)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEeeCCHHHHHHHHHHHHHcCCchheeeCCCcchHhHHHHHHh--cCCCC--cEEEec
Confidence 3579999999999999999999999999999999999999999999999886 333334456655 45544 478899
Q ss_pred cccccccCc
Q 000377 1487 RAGGVGVNL 1495 (1605)
Q Consensus 1487 rAGGeGLNL 1495 (1605)
..+|+|-|+
T Consensus 497 NMAGRGTDI 505 (939)
T PRK12902 497 NMAGRGTDI 505 (939)
T ss_pred cCCCCCcCE
Confidence 999999664
No 160
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=98.25 E-value=4e-05 Score=99.98 Aligned_cols=126 Identities=15% Similarity=0.241 Sum_probs=90.0
Q ss_pred HHHHHHHHHHHhhcC--CCeEEEEEccHHHHHHHHHHHhh----c---CceEEEEeCCCCHHHHHHHHHHHhCCCCCeEE
Q 000377 1411 KLEMLDRLLPKLKAT--DHRVLFFSTMTRLLDVMEDYLTF----K---QYRYLRLDGHTSGGDRGALIDKFNQQDSPFFI 1481 (1605)
Q Consensus 1411 Kle~L~~LL~kL~a~--g~KVLIFSQft~~LdiLe~~L~~----~---GikylrLdGsts~eERqeiId~FN~gds~~~V 1481 (1605)
...++..++..+.+. ...||||-.-...+..+.+.|.. . .+-...+++.++..+.+.+ |+.+-.+++-
T Consensus 396 d~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~V---F~~pp~g~RK 472 (924)
T KOG0920|consen 396 DYDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAV---FKRPPKGTRK 472 (924)
T ss_pred cHHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHh---cCCCCCCcch
Confidence 445556665554433 46899999888877777777742 2 2567778999998777654 6666666677
Q ss_pred EEEeccccccccCcccCCEEE--------EEcCC----------CChhhHHHHhhhhcccCCCCcEEEEEEEeCCCHHH
Q 000377 1482 FLLSIRAGGVGVNLQAADTVI--------IFDTD----------WNPQVDLQAQARAHRIGQKRDVLVLRFETVQTVEE 1542 (1605)
Q Consensus 1482 fLLSTrAGGeGLNLq~ADtVI--------iyDp~----------WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~TIEE 1542 (1605)
+|++|..+...|.+.++-+|| .||+. -+-+.-.||.|||+| ..+-.+|+|++..-.+.
T Consensus 473 IIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGR---v~~G~cy~L~~~~~~~~ 548 (924)
T KOG0920|consen 473 IILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGR---VRPGICYHLYTRSRYEK 548 (924)
T ss_pred hhhhhhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccC---ccCCeeEEeechhhhhh
Confidence 999999999999999877776 34432 244677899999987 56678899988764443
No 161
>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=98.10 E-value=7e-06 Score=86.72 Aligned_cols=125 Identities=18% Similarity=0.177 Sum_probs=66.4
Q ss_pred eEEEcCCCCcHHHHHHH-HHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceEEEEcCChhHHHHHHHhhhhcCC
Q 000377 1112 GILADEMGLGKTVQVIA-LICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHKIVYCGPPEERRRLFKEKIVHQK 1190 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIA-LI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~ 1190 (1605)
-+|-.-+|.|||...|- ++...+ ....++||+.|+.++. +|..+...+..+ .+.-..-.+ ...+.
T Consensus 7 ~~~d~hpGaGKTr~vlp~~~~~~i---~~~~rvLvL~PTRvva---~em~~aL~~~~~-~~~t~~~~~-------~~~g~ 72 (148)
T PF07652_consen 7 TVLDLHPGAGKTRRVLPEIVREAI---KRRLRVLVLAPTRVVA---EEMYEALKGLPV-RFHTNARMR-------THFGS 72 (148)
T ss_dssp EEEE--TTSSTTTTHHHHHHHHHH---HTT--EEEEESSHHHH---HHHHHHTTTSSE-EEESTTSS-----------SS
T ss_pred eEEecCCCCCCcccccHHHHHHHH---HccCeEEEecccHHHH---HHHHHHHhcCCc-ccCceeeec-------cccCC
Confidence 46777899999998764 333333 3346699999999763 344444434432 222221111 11245
Q ss_pred ccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHH-HHHhhh-c--cceecccccC
Q 000377 1191 FNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNA-DLKHYQ-S--SHRLLLTGTP 1252 (1605)
Q Consensus 1191 fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsr-aL~~L~-a--~~RLLLTGTP 1252 (1605)
--|-+++|.++....-. .....+|++||+||||-. ++.+-..+ .+..+. . ...+++||||
T Consensus 73 ~~i~vMc~at~~~~~~~-p~~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~~~~i~mTATP 136 (148)
T PF07652_consen 73 SIIDVMCHATYGHFLLN-PCRLKNYDVIIMDECHFT-DPTSIAARGYLRELAESGEAKVIFMTATP 136 (148)
T ss_dssp SSEEEEEHHHHHHHHHT-SSCTTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS-EEEEEESS-
T ss_pred CcccccccHHHHHHhcC-cccccCccEEEEeccccC-CHHHHhhheeHHHhhhccCeeEEEEeCCC
Confidence 56778888877553322 334568999999999985 33333222 223331 1 3578999999
No 162
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=98.09 E-value=5.9e-05 Score=97.13 Aligned_cols=154 Identities=19% Similarity=0.140 Sum_probs=87.8
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHH-HHHhcCCCCCEEEEecCCcccc-hHHHHHHhCC--C
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICY-LMETKNDRGPFLVVVPSSVLPG-WESEINFWAP--R 1165 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~-Lle~k~~~gP~LIVvP~SLL~n-W~~Ef~KwaP--~ 1165 (1605)
.++++|.+.+. ......+.|.|.+.+++-|||+++=-+++. ++.. .+-+|.+.|--.+.+ =..++..+.- +
T Consensus 223 ~~fewq~ecls--~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~---rr~~llilp~vsiv~Ek~~~l~~~~~~~G 297 (1008)
T KOG0950|consen 223 KLFEWQAECLS--LPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCR---RRNVLLILPYVSIVQEKISALSPFSIDLG 297 (1008)
T ss_pred HHHHHHHHHhc--chhhhcccceEEeCCCccchHHHHHHHHHHHHHHH---hhceeEecceeehhHHHHhhhhhhccccC
Confidence 57788888875 222336788999999999999987544433 2222 234688888665544 3334444432 3
Q ss_pred ceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcc---cccCccEEEEecCccccC--ccchHHHHHHhh
Q 000377 1166 IHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKL---SKIQWHYIIIDEGHRIKN--ASCKLNADLKHY 1240 (1605)
Q Consensus 1166 l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L---~ki~wd~VIIDEAHriKN--~~SKlsraL~~L 1240 (1605)
+.+-.|.|.-. .......-.|.|+|.+.-....+. .+ ......+|||||-|.+.. .+.-+-..|..+
T Consensus 298 ~~ve~y~g~~~-------p~~~~k~~sv~i~tiEkanslin~-lie~g~~~~~g~vvVdElhmi~d~~rg~~lE~~l~k~ 369 (1008)
T KOG0950|consen 298 FPVEEYAGRFP-------PEKRRKRESVAIATIEKANSLINS-LIEQGRLDFLGMVVVDELHMIGDKGRGAILELLLAKI 369 (1008)
T ss_pred CcchhhcccCC-------CCCcccceeeeeeehHhhHhHHHH-HHhcCCccccCcEEEeeeeeeeccccchHHHHHHHHH
Confidence 45555554321 111124457889998765432221 11 112246899999999854 333332333322
Q ss_pred ----h--ccceecccccCCCCC
Q 000377 1241 ----Q--SSHRLLLTGTPLQNN 1256 (1605)
Q Consensus 1241 ----~--a~~RLLLTGTPlqNn 1256 (1605)
. .-..+++|||-.+|.
T Consensus 370 ~y~~~~~~~~iIGMSATi~N~~ 391 (1008)
T KOG0950|consen 370 LYENLETSVQIIGMSATIPNNS 391 (1008)
T ss_pred HHhccccceeEeeeecccCChH
Confidence 1 123689999975443
No 163
>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=98.05 E-value=0.00012 Score=94.29 Aligned_cols=112 Identities=13% Similarity=0.303 Sum_probs=79.1
Q ss_pred HHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccc
Q 000377 1411 KLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGG 1490 (1605)
Q Consensus 1411 Kle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGG 1490 (1605)
+..+...++..+ ..|++|.|||......++++++....+.+++.+++..+..+. +.| .++.|++-+ .+..
T Consensus 268 ~~tF~~~L~~~L-~~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~dv----~~W----~~~~VviYT-~~it 337 (824)
T PF02399_consen 268 ETTFFSELLARL-NAGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLEDV----ESW----KKYDVVIYT-PVIT 337 (824)
T ss_pred hhhHHHHHHHHH-hCCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCcccc----ccc----cceeEEEEe-ceEE
Confidence 334445555544 578999999999999999999999999999999887775532 334 235555554 6777
Q ss_pred cccCccc--CCEEEEE--cCCCChhh--HHHHhhhhcccCCCCcEEEEE
Q 000377 1491 VGVNLQA--ADTVIIF--DTDWNPQV--DLQAQARAHRIGQKRDVLVLR 1533 (1605)
Q Consensus 1491 eGLNLq~--ADtVIiy--Dp~WNP~~--d~QAiGRAhRIGQkKeV~VyR 1533 (1605)
.||++-. .|.|..| .....|.+ ..|.+||+..+.. +++.||.
T Consensus 338 vG~Sf~~~HF~~~f~yvk~~~~gpd~~s~~Q~lgRvR~l~~-~ei~v~~ 385 (824)
T PF02399_consen 338 VGLSFEEKHFDSMFAYVKPMSYGPDMVSVYQMLGRVRSLLD-NEIYVYI 385 (824)
T ss_pred EEeccchhhceEEEEEecCCCCCCcHHHHHHHHHHHHhhcc-CeEEEEE
Confidence 8998854 6777766 33344554 6899999988774 5555553
No 164
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.00 E-value=2.7e-05 Score=91.28 Aligned_cols=73 Identities=16% Similarity=0.153 Sum_probs=52.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCC---CCEEEEecCCc-ccchHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDR---GPFLVVVPSSV-LPGWESEINF 1161 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~---gP~LIVvP~SL-L~nW~~Ef~K 1161 (1605)
.+.||.|.+-...+...+.++..+|+-.+||+|||+.++..+.......... .++++++++.. +.+-..++++
T Consensus 7 y~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 7 YEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 4569999999999999999999999999999999999987665433332221 25778887653 3343444444
No 165
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.00 E-value=2.7e-05 Score=91.28 Aligned_cols=73 Identities=16% Similarity=0.153 Sum_probs=52.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCC---CCEEEEecCCc-ccchHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDR---GPFLVVVPSSV-LPGWESEINF 1161 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~---gP~LIVvP~SL-L~nW~~Ef~K 1161 (1605)
.+.||.|.+-...+...+.++..+|+-.+||+|||+.++..+.......... .++++++++.. +.+-..++++
T Consensus 7 y~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 7 YEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 4569999999999999999999999999999999999987665433332221 25778887653 3343444444
No 166
>PF07529 HSA: HSA; InterPro: IPR006562 This domain of unknown function is found in helicases and other DNA-binding proteins of eukaryotes [].
Probab=97.97 E-value=1.6e-05 Score=74.42 Aligned_cols=70 Identities=26% Similarity=0.429 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhHHhhhHHHHHHHHHhcc
Q 000377 914 ERQKRIRERQKEFFSEIEAHKERLDEVFKIKRERWRGVNKYVKEFHKRKERIHREKIDRIQREKINLLKI 983 (1605)
Q Consensus 914 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~r~~~~r~~~l~~ 983 (1605)
+.+++.+.++..+|.+|++|.++|.+.++.++.+.+++.+.|..||...++++.++.+|++++||++|++
T Consensus 4 ~~~~r~k~h~d~lL~e~~w~a~df~~e~k~k~~~a~k~a~~v~~~~~~~~~~~~k~~er~~k~Rlr~L~~ 73 (73)
T PF07529_consen 4 EEPKRQKTHHDHLLEEMLWMAKDFKEERKWKRARAKKLAKAVAQYHKNREKEEQKRIEREEKQRLRALKS 73 (73)
T ss_pred ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhC
Confidence 4556778899999999999999999999999999999999999999999999999999999999999974
No 167
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.95 E-value=0.0026 Score=79.72 Aligned_cols=80 Identities=19% Similarity=0.245 Sum_probs=56.3
Q ss_pred ceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEcCC------CCh--------------
Q 000377 1451 YRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFDTD------WNP-------------- 1510 (1605)
Q Consensus 1451 ikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyDp~------WNP-------------- 1510 (1605)
+-++-|+...+.+....+ |.....+++-+++.|..+.+.|.+..+.+|| ||- +||
T Consensus 507 liv~PiYaNLPselQakI---FePtP~gaRKVVLATNIAETSlTIdgI~yVi--DpGf~K~nsynprtGmesL~v~piSK 581 (902)
T KOG0923|consen 507 LIVLPIYANLPSELQAKI---FEPTPPGARKVVLATNIAETSLTIDGIKYVI--DPGFVKQNSYNPRTGMESLLVTPISK 581 (902)
T ss_pred EEEeeccccCChHHHHhh---cCCCCCCceeEEEeecchhhceeecCeEEEe--cCccccccCcCCCcCceeEEEeeech
Confidence 446677888886655544 6444444667888999999999998888776 443 333
Q ss_pred hhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1511 QVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1511 ~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
+.-.||.|||+|.|-.+ .|||++.-
T Consensus 582 AsA~QRaGRAGRtgPGK---CfRLYt~~ 606 (902)
T KOG0923|consen 582 ASANQRAGRAGRTGPGK---CFRLYTAW 606 (902)
T ss_pred hhhhhhccccCCCCCCc---eEEeechh
Confidence 56789999998877654 56777643
No 168
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.92 E-value=0.00032 Score=87.39 Aligned_cols=93 Identities=14% Similarity=0.167 Sum_probs=62.9
Q ss_pred CceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEEEc----CCCCh-----------hhHH
Q 000377 1450 QYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVIIFD----TDWNP-----------QVDL 1514 (1605)
Q Consensus 1450 GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIiyD----p~WNP-----------~~d~ 1514 (1605)
++.++.|....+.+-.. +-|+.....++-++++|..+.+.|.+..+.+||=.. -.+|| ..-.
T Consensus 597 ~L~vlpiYSQLp~dlQ~---kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~A 673 (1042)
T KOG0924|consen 597 DLAVLPIYSQLPADLQA---KIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQA 673 (1042)
T ss_pred ceEEEeehhhCchhhhh---hhcccCCCCceeEEEeccchhhceeecceEEEEecCceeeeecccccccceeEEEechhc
Confidence 56777777777765444 346655666777899999999999999999887421 12333 2333
Q ss_pred HHhhhhcccCCCCcEEEEEEEeCCCHHHHHH
Q 000377 1515 QAQARAHRIGQKRDVLVLRFETVQTVEEQVR 1545 (1605)
Q Consensus 1515 QAiGRAhRIGQkKeV~VyRLIt~~TIEEkIl 1545 (1605)
+|--|++|.|.+.+-..|||+|+++....++
T Consensus 674 nA~QRaGRAGRt~pG~cYRlYTe~ay~~eml 704 (1042)
T KOG0924|consen 674 NADQRAGRAGRTGPGTCYRLYTEDAYKNEML 704 (1042)
T ss_pred cchhhccccCCCCCcceeeehhhhHHHhhcc
Confidence 3444444445577789999999987666554
No 169
>PF13871 Helicase_C_4: Helicase_C-like
Probab=97.88 E-value=3.5e-05 Score=89.56 Aligned_cols=92 Identities=20% Similarity=0.257 Sum_probs=77.9
Q ss_pred HHHHHHhCCCCCeEEEEEeccccccccCcccC--------CEEEEEcCCCChhhHHHHhhhhcccCCCCcEEEEEEEeCC
Q 000377 1467 ALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAA--------DTVIIFDTDWNPQVDLQAQARAHRIGQKRDVLVLRFETVQ 1538 (1605)
Q Consensus 1467 eiId~FN~gds~~~VfLLSTrAGGeGLNLq~A--------DtVIiyDp~WNP~~d~QAiGRAhRIGQkKeV~VyRLIt~~ 1538 (1605)
...+.|++++.. |+|+| +||++||.|++- ..-|.++++|+....+|..||+||-||..+..+..+++.-
T Consensus 52 ~e~~~F~~g~k~--v~iis-~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~~ 128 (278)
T PF13871_consen 52 AEKQAFMDGEKD--VAIIS-DAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTDL 128 (278)
T ss_pred HHHHHHhCCCce--EEEEe-cccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecCC
Confidence 456799988755 55554 999999999962 3447899999999999999999999999987777788888
Q ss_pred CHHHHHHHHHHHHHHHHhhhhcc
Q 000377 1539 TVEEQVRASAEHKLGVANQSITA 1561 (1605)
Q Consensus 1539 TIEEkIlera~~Kl~L~~kVI~a 1561 (1605)
..|.+......+|+.-..+...+
T Consensus 129 ~gE~Rfas~va~rL~sLgAlt~g 151 (278)
T PF13871_consen 129 PGERRFASTVARRLESLGALTRG 151 (278)
T ss_pred HHHHHHHHHHHHHHhhccccccC
Confidence 89999999999999988877754
No 170
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=97.86 E-value=0.002 Score=83.77 Aligned_cols=114 Identities=16% Similarity=0.130 Sum_probs=93.1
Q ss_pred hhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEec
Q 000377 1407 RLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSI 1486 (1605)
Q Consensus 1407 r~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLST 1486 (1605)
....|+..+++-+.+....|..|||.+.....-+.+...|...|++...|.-.-. +|+.-+-.+ ++... .+=++|
T Consensus 410 t~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h--~~EA~Iia~-AG~~g--aVTiAT 484 (822)
T COG0653 410 TEEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNH--AREAEIIAQ-AGQPG--AVTIAT 484 (822)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHhcCCCceeeccccH--HHHHHHHhh-cCCCC--cccccc
Confidence 3456999999999999999999999999999999999999999999988887665 555555555 45544 367889
Q ss_pred cccccccCcccCC-----------EEEEEcCCCChhhHHHHhhhhcccCC
Q 000377 1487 RAGGVGVNLQAAD-----------TVIIFDTDWNPQVDLQAQARAHRIGQ 1525 (1605)
Q Consensus 1487 rAGGeGLNLq~AD-----------tVIiyDp~WNP~~d~QAiGRAhRIGQ 1525 (1605)
..+|+|-|+.--- +||=-.-.-+-..+.|--||++|.|.
T Consensus 485 NMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQGD 534 (822)
T COG0653 485 NMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQGD 534 (822)
T ss_pred ccccCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccccCCC
Confidence 9999999986533 46666677778888899999999994
No 171
>smart00573 HSA domain in helicases and associated with SANT domains.
Probab=97.78 E-value=6.7e-05 Score=70.96 Aligned_cols=69 Identities=17% Similarity=0.322 Sum_probs=63.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhHHhhhHHHHHHHHHhcc
Q 000377 915 RQKRIRERQKEFFSEIEAHKERLDEVFKIKRERWRGVNKYVKEFHKRKERIHREKIDRIQREKINLLKI 983 (1605)
Q Consensus 915 ~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~r~~~~r~~~l~~ 983 (1605)
++.+.++++..||+++++|.++|.+..+.++.+..++.+.|..||...++.+.++.+|.+++||++|+.
T Consensus 5 ~e~r~k~h~d~lL~e~~w~~~df~e~~k~k~~~a~kla~~v~~~h~~~e~~e~r~~er~ek~Rl~~l~~ 73 (73)
T smart00573 5 EERRRKQHWDHLLEEMIWHAKDFKEEHKWKIAAAKKMAKAVMDYHQNKEKEEERREEKNEKRRLRKLAA 73 (73)
T ss_pred ccccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 455678899999999999999999999999999999999999999999999988889999999999863
No 172
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.77 E-value=0.00018 Score=79.00 Aligned_cols=68 Identities=24% Similarity=0.331 Sum_probs=46.9
Q ss_pred CccHHHHHHHHHHHHHhhcCCC-eEEEcCCCCcHHHHHHHHHHHHHH-----hcCCCCCEEEEecCC-cccchHHHHHH
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLN-GILADEMGLGKTVQVIALICYLME-----TKNDRGPFLVVVPSS-VLPGWESEINF 1161 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~n-GILADEMGLGKTIqAIALI~~Lle-----~k~~~gP~LIVvP~S-LL~nW~~Ef~K 1161 (1605)
+|-+.|.+++..++. ... .++..+.|+|||.+..+++..++. .....+++||++|+. .+.+-...+.+
T Consensus 1 ~ln~~Q~~Ai~~~~~----~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQSALS----SNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHHHCT----SSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHc----CCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 477999999976654 344 788999999999888788877742 245567899999987 46776666655
No 173
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=97.69 E-value=0.016 Score=77.15 Aligned_cols=47 Identities=17% Similarity=0.126 Sum_probs=35.5
Q ss_pred eEEEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCCCCc
Q 000377 1479 FFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKRD 1528 (1605)
Q Consensus 1479 ~~VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQkKe 1528 (1605)
..+++|+|.+...|+|+- +|.+|.- +-.-...+|+.||+.|-|+...
T Consensus 838 ~~~i~v~Tqv~E~g~D~d-fd~~~~~--~~~~~sliQ~aGR~~R~~~~~~ 884 (1110)
T TIGR02562 838 HLFIVLATPVEEVGRDHD-YDWAIAD--PSSMRSIIQLAGRVNRHRLEKV 884 (1110)
T ss_pred CCeEEEEeeeEEEEeccc-CCeeeec--cCcHHHHHHHhhcccccccCCC
Confidence 446899999999999965 6665542 2234578999999999887643
No 174
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.45 E-value=0.00056 Score=86.60 Aligned_cols=79 Identities=18% Similarity=0.227 Sum_probs=56.6
Q ss_pred EEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEEE--------Ec---------CCC-ChhhHH
Q 000377 1453 YLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVII--------FD---------TDW-NPQVDL 1514 (1605)
Q Consensus 1453 ylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVIi--------yD---------p~W-NP~~d~ 1514 (1605)
++-|..=.+.++.. .-|.......+..+++|.++.+.|.++.+.+||= || ..| +-+.-.
T Consensus 607 vLPLYSLLs~~~Q~---RVF~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASad 683 (1172)
T KOG0926|consen 607 VLPLYSLLSTEKQM---RVFDEVPKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASAD 683 (1172)
T ss_pred EeehhhhcCHHHhh---hhccCCCCCceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccc
Confidence 44455555544433 4466656667889999999999999999999973 33 334 566778
Q ss_pred HHhhhhcccCCCCcEEEEEEEeC
Q 000377 1515 QAQARAHRIGQKRDVLVLRFETV 1537 (1605)
Q Consensus 1515 QAiGRAhRIGQkKeV~VyRLIt~ 1537 (1605)
||-|||+|+|-. +.|||+..
T Consensus 684 QRAGRAGRtgpG---HcYRLYSS 703 (1172)
T KOG0926|consen 684 QRAGRAGRTGPG---HCYRLYSS 703 (1172)
T ss_pred hhccccCCCCCC---ceeehhhh
Confidence 999999998865 56777653
No 175
>PRK10536 hypothetical protein; Provisional
Probab=97.43 E-value=0.00023 Score=82.05 Aligned_cols=144 Identities=18% Similarity=0.156 Sum_probs=85.3
Q ss_pred ccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCce---
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIH--- 1167 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~--- 1167 (1605)
+...|...+.|+.. +..+++.-+.|+|||+.++++....+..+. ...++|+-|.-.. .|.-.|.|+-.
T Consensus 60 ~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~-~~kIiI~RP~v~~----ge~LGfLPG~~~eK 130 (262)
T PRK10536 60 RNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKD-VDRIIVTRPVLQA----DEDLGFLPGDIAEK 130 (262)
T ss_pred CCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCC-eeEEEEeCCCCCc----hhhhCcCCCCHHHH
Confidence 44678888887754 557788899999999999999886654333 3333333333221 22222232210
Q ss_pred ----------EEE-EcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHH
Q 000377 1168 ----------KIV-YCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNAD 1236 (1605)
Q Consensus 1168 ----------viv-y~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsra 1236 (1605)
.+. +.+.. . +...+......|-|.+..+++- ..+.-++||||||+++.- ......
T Consensus 131 ~~p~~~pi~D~L~~~~~~~-~----~~~~~~~~~~~Iei~~l~ymRG-------rtl~~~~vIvDEaqn~~~--~~~k~~ 196 (262)
T PRK10536 131 FAPYFRPVYDVLVRRLGAS-F----MQYCLRPEIGKVEIAPFAYMRG-------RTFENAVVILDEAQNVTA--AQMKMF 196 (262)
T ss_pred HHHHHHHHHHHHHHHhChH-H----HHHHHHhccCcEEEecHHHhcC-------CcccCCEEEEechhcCCH--HHHHHH
Confidence 000 00110 0 0111111234577777777753 123458999999999854 455566
Q ss_pred HHhhhccceecccccCCCCCH
Q 000377 1237 LKHYQSSHRLLLTGTPLQNNL 1257 (1605)
Q Consensus 1237 L~~L~a~~RLLLTGTPlqNnl 1257 (1605)
+.++....+++++|-|-|.++
T Consensus 197 ltR~g~~sk~v~~GD~~QiD~ 217 (262)
T PRK10536 197 LTRLGENVTVIVNGDITQCDL 217 (262)
T ss_pred HhhcCCCCEEEEeCChhhccC
Confidence 677888899999999976654
No 176
>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=97.26 E-value=0.0013 Score=73.97 Aligned_cols=147 Identities=20% Similarity=0.251 Sum_probs=71.9
Q ss_pred ccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHH-----HHHhCCC
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESE-----INFWAPR 1165 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~E-----f~KwaP~ 1165 (1605)
+.+.|...++.|. +..-.++..+.|+|||+.|++..+.++.. +...+++|+-|..-+..+.-- -+|..|-
T Consensus 5 ~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~-g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~ 79 (205)
T PF02562_consen 5 KNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKE-GEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPY 79 (205)
T ss_dssp -SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHT-TS-SEEEEEE-S--TT----SS---------TT
T ss_pred CCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHh-CCCcEEEEEecCCCCccccccCCCCHHHHHHHH
Confidence 4578999998777 35567888899999999999999888877 344457777676533222110 0111111
Q ss_pred ceEEE-----EcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh
Q 000377 1166 IHKIV-----YCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY 1240 (1605)
Q Consensus 1166 l~viv-----y~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L 1240 (1605)
+..+. +.+. .....++ ....|-+.+..+++- +.+++.+||||||+++... .+...+.++
T Consensus 80 ~~p~~d~l~~~~~~-~~~~~~~------~~~~Ie~~~~~~iRG-------rt~~~~~iIvDEaQN~t~~--~~k~ilTR~ 143 (205)
T PF02562_consen 80 LRPIYDALEELFGK-EKLEELI------QNGKIEIEPLAFIRG-------RTFDNAFIIVDEAQNLTPE--ELKMILTRI 143 (205)
T ss_dssp THHHHHHHTTTS-T-TCHHHHH------HTTSEEEEEGGGGTT---------B-SEEEEE-SGGG--HH--HHHHHHTTB
T ss_pred HHHHHHHHHHHhCh-HhHHHHh------hcCeEEEEehhhhcC-------ccccceEEEEecccCCCHH--HHHHHHccc
Confidence 10000 0011 1111111 234566666666643 2245689999999998543 334456667
Q ss_pred hccceecccccCCCCCHH
Q 000377 1241 QSSHRLLLTGTPLQNNLE 1258 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqNnl~ 1258 (1605)
....+++++|-|.|.+..
T Consensus 144 g~~skii~~GD~~Q~D~~ 161 (205)
T PF02562_consen 144 GEGSKIIITGDPSQIDLP 161 (205)
T ss_dssp -TT-EEEEEE--------
T ss_pred CCCcEEEEecCceeecCC
Confidence 778899999999776654
No 177
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=97.22 E-value=0.0014 Score=80.72 Aligned_cols=101 Identities=21% Similarity=0.179 Sum_probs=78.8
Q ss_pred cCCCeEEEEEccHHHHHHHHHHHhhcCce-EEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCcccCCEEE
Q 000377 1424 ATDHRVLFFSTMTRLLDVMEDYLTFKQYR-YLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQAADTVI 1502 (1605)
Q Consensus 1424 a~g~KVLIFSQft~~LdiLe~~L~~~Gik-ylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~ADtVI 1502 (1605)
..|.-|+-||...- -.+...+..+|.. .+.+.|+.+++.|..--..||+++.++.| |+.++|.|.||||. .+.||
T Consensus 356 k~GDCvV~FSkk~I--~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dv-lVAsDAIGMGLNL~-IrRii 431 (700)
T KOG0953|consen 356 KPGDCVVAFSKKDI--FTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDV-LVASDAIGMGLNLN-IRRII 431 (700)
T ss_pred CCCCeEEEeehhhH--HHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccce-EEeecccccccccc-eeEEE
Confidence 46777888875432 2233444455554 99999999999999999999998887765 67779999999986 88999
Q ss_pred EEcCC---------CChhhHHHHhhhhcccCCCCc
Q 000377 1503 IFDTD---------WNPQVDLQAQARAHRIGQKRD 1528 (1605)
Q Consensus 1503 iyDp~---------WNP~~d~QAiGRAhRIGQkKe 1528 (1605)
||+.- -...+..|.-|||+|.|.+-+
T Consensus 432 F~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~~ 466 (700)
T KOG0953|consen 432 FYSLIKYSGRETEDITVSQIKQIAGRAGRFGSKYP 466 (700)
T ss_pred EeecccCCcccceeccHHHHHHHhhcccccccCCc
Confidence 99864 345678999999999988754
No 178
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=97.05 E-value=0.0018 Score=83.23 Aligned_cols=169 Identities=21% Similarity=0.195 Sum_probs=99.5
Q ss_pred HhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCccc-c---hHHH----H-HHhCCCceEEEEcCCh
Q 000377 1105 LYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLP-G---WESE----I-NFWAPRIHKIVYCGPP 1175 (1605)
Q Consensus 1105 L~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~-n---W~~E----f-~KwaP~l~vivy~Gs~ 1175 (1605)
+++...|+=+-+|||+|||++.+-++..|-...+.. .++||||+-.+. - -..+ | ..+..+.+.-.|..+.
T Consensus 70 ~~~~~lNiDI~METGTGKTy~YlrtmfeLhk~YG~~-KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~~ 148 (985)
T COG3587 70 RIDDKLNIDILMETGTGKTYTYLRTMFELHKKYGLF-KFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYDE 148 (985)
T ss_pred cCCCcceeeEEEecCCCceeeHHHHHHHHHHHhCce-eEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeech
Confidence 345566777889999999999999888776655544 499999986431 1 1222 3 2233333222222222
Q ss_pred hHHHHHHHhhhhcCCccEEEEcHHHHhhcc-CC-----CcccccC---------------ccEEEEecCccccCccchHH
Q 000377 1176 EERRRLFKEKIVHQKFNVLLTTYEYLMNKH-DR-----PKLSKIQ---------------WHYIIIDEGHRIKNASCKLN 1234 (1605)
Q Consensus 1176 ~~R~~l~~~~i~~~~fdVVITTYe~L~k~~-D~-----~~L~ki~---------------wd~VIIDEAHriKN~~SKls 1234 (1605)
......+ .......|++.+...+.++. +. +...... --+|||||-|++... .+.+
T Consensus 149 ~~~~~~~---~~~~~~~vLl~~~~Afnk~~inan~iN~~s~~~~~~~~~~~spvd~la~~rPIvIvDEPh~f~~~-~k~~ 224 (985)
T COG3587 149 DIEKFKF---KSNNKPCVLLIFVSAFNKEEINANMINSESMENTNLFNGATSPVDALASMRPIVIVDEPHRFLGD-DKTY 224 (985)
T ss_pred HHHHHhh---ccCCCceEEEEehhhhccccccccccchhhhcccCccccccCHHHHHHhcCCEEEecChhhcccc-hHHH
Confidence 2222111 22356788888888886641 00 0011111 127999999999876 7888
Q ss_pred HHHHhhhccceecccccCCCCCHHHHHHHHHhhcCCCCCChHHHHHHhccccc
Q 000377 1235 ADLKHYQSSHRLLLTGTPLQNNLEELWALLNFLLPNIFNSSEDFSQWFNKPFE 1287 (1605)
Q Consensus 1235 raL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s~~~F~e~F~kP~e 1287 (1605)
.++..+.+-..|=.+||= .++...++ -.+.+.+.|.....+-+.
T Consensus 225 ~~i~~l~pl~ilRfgATf----kd~y~~l~-----yrLDsi~Af~~~LVK~I~ 268 (985)
T COG3587 225 GAIKQLNPLLILRFGATF----KDEYNNLV-----YRLDSIDAFNQKLVKQIR 268 (985)
T ss_pred HHHHhhCceEEEEecccc----hhhhcCee-----EEeeHHhhhhhhhhhhee
Confidence 999999888887788884 12222222 123455666666555443
No 179
>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=96.52 E-value=0.0065 Score=73.24 Aligned_cols=93 Identities=17% Similarity=0.182 Sum_probs=54.7
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchH-HHHHHhCCCceEEEEcCChhHHHHHHHhhhhcCC
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWE-SEINFWAPRIHKIVYCGPPEERRRLFKEKIVHQK 1190 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~-~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~ 1190 (1605)
.|+--..|+|||+.++.++..+... ......+++|+...+.+.. ..+..-. ....
T Consensus 4 ~~I~G~aGTGKTvla~~l~~~l~~~-~~~~~~~~l~~n~~l~~~l~~~l~~~~-----------------------~~~~ 59 (352)
T PF09848_consen 4 ILITGGAGTGKTVLALNLAKELQNS-EEGKKVLYLCGNHPLRNKLREQLAKKY-----------------------NPKL 59 (352)
T ss_pred EEEEecCCcCHHHHHHHHHHHhhcc-ccCCceEEEEecchHHHHHHHHHhhhc-----------------------ccch
Confidence 3566789999999999998877222 2234468888887665543 3443222 0001
Q ss_pred ccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC
Q 000377 1191 FNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN 1228 (1605)
Q Consensus 1191 fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN 1228 (1605)
....+..+..++............+++|||||||++..
T Consensus 60 ~~~~~~~~~~~i~~~~~~~~~~~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 60 KKSDFRKPTSFINNYSESDKEKNKYDVIIVDEAQRLRT 97 (352)
T ss_pred hhhhhhhhHHHHhhcccccccCCcCCEEEEehhHhhhh
Confidence 11222333333332221233456789999999999976
No 180
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.51 E-value=0.015 Score=64.78 Aligned_cols=126 Identities=18% Similarity=0.250 Sum_probs=67.4
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-cchHHHHHHhCCCceE
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-PGWESEINFWAPRIHK 1168 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-~nW~~Ef~KwaP~l~v 1168 (1605)
+|.+-|.+++..++. ....-.+|.-..|+|||..... +...++..+ .++++++|+... .+-...+.
T Consensus 1 ~L~~~Q~~a~~~~l~--~~~~~~~l~G~aGtGKT~~l~~-~~~~~~~~g--~~v~~~apT~~Aa~~L~~~~~-------- 67 (196)
T PF13604_consen 1 TLNEEQREAVRAILT--SGDRVSVLQGPAGTGKTTLLKA-LAEALEAAG--KRVIGLAPTNKAAKELREKTG-------- 67 (196)
T ss_dssp -S-HHHHHHHHHHHH--CTCSEEEEEESTTSTHHHHHHH-HHHHHHHTT----EEEEESSHHHHHHHHHHHT--------
T ss_pred CCCHHHHHHHHHHHh--cCCeEEEEEECCCCCHHHHHHH-HHHHHHhCC--CeEEEECCcHHHHHHHHHhhC--------
Confidence 478999999998865 1222356778899999987544 444444432 568999998743 22222210
Q ss_pred EEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCccc----ccCccEEEEecCccccCccchHHHHHHhhhc-c
Q 000377 1169 IVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLS----KIQWHYIIIDEGHRIKNASCKLNADLKHYQS-S 1243 (1605)
Q Consensus 1169 ivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~----ki~wd~VIIDEAHriKN~~SKlsraL~~L~a-~ 1243 (1605)
+-..|...+.......... ....++||||||-.+... .+...+..... .
T Consensus 68 ------------------------~~a~Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~~--~~~~ll~~~~~~~ 121 (196)
T PF13604_consen 68 ------------------------IEAQTIHSFLYRIPNGDDEGRPELPKKDVLIVDEASMVDSR--QLARLLRLAKKSG 121 (196)
T ss_dssp ------------------------S-EEEHHHHTTEECCEECCSSCC-TSTSEEEESSGGG-BHH--HHHHHHHHS-T-T
T ss_pred ------------------------cchhhHHHHHhcCCcccccccccCCcccEEEEecccccCHH--HHHHHHHHHHhcC
Confidence 1112222222211211111 344679999999987432 33344444433 5
Q ss_pred ceecccccCCC
Q 000377 1244 HRLLLTGTPLQ 1254 (1605)
Q Consensus 1244 ~RLLLTGTPlq 1254 (1605)
.+++|.|-|.|
T Consensus 122 ~klilvGD~~Q 132 (196)
T PF13604_consen 122 AKLILVGDPNQ 132 (196)
T ss_dssp -EEEEEE-TTS
T ss_pred CEEEEECCcch
Confidence 68999999854
No 181
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=96.48 E-value=0.022 Score=66.51 Aligned_cols=123 Identities=18% Similarity=0.122 Sum_probs=70.8
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCccc----chHHHHHHhC
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLP----GWESEINFWA 1163 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~----nW~~Ef~Kwa 1163 (1605)
|..+++-|+-|+-.| ..|-|.=..||=|||+++..++ ++..-. .+++=||+.+..|. +|...|-+++
T Consensus 75 g~~p~~vQll~~l~L------~~G~laEm~TGEGKTli~~l~a-~~~AL~--G~~V~vvT~NdyLA~RD~~~~~~~y~~L 145 (266)
T PF07517_consen 75 GLRPYDVQLLGALAL------HKGRLAEMKTGEGKTLIAALPA-ALNALQ--GKGVHVVTSNDYLAKRDAEEMRPFYEFL 145 (266)
T ss_dssp S----HHHHHHHHHH------HTTSEEEESTTSHHHHHHHHHH-HHHHTT--SS-EEEEESSHHHHHHHHHHHHHHHHHT
T ss_pred CCcccHHHHhhhhhc------ccceeEEecCCCCcHHHHHHHH-HHHHHh--cCCcEEEeccHHHhhccHHHHHHHHHHh
Confidence 456777777777444 2355888999999999985444 333222 34578888887663 4888888887
Q ss_pred CCceEEEEcCCh-hHHHHHHHhhhhcCCccEEEEcHHHHhh-----ccCC--CcccccCccEEEEecCccc
Q 000377 1164 PRIHKIVYCGPP-EERRRLFKEKIVHQKFNVLLTTYEYLMN-----KHDR--PKLSKIQWHYIIIDEGHRI 1226 (1605)
Q Consensus 1164 P~l~vivy~Gs~-~~R~~l~~~~i~~~~fdVVITTYe~L~k-----~~D~--~~L~ki~wd~VIIDEAHri 1226 (1605)
.--..+++.+.. ..|+..+ ..+|+-+|-..+.- .... .......++++||||+..+
T Consensus 146 Glsv~~~~~~~~~~~r~~~Y-------~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs~ 209 (266)
T PF07517_consen 146 GLSVGIITSDMSSEERREAY-------AADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDSI 209 (266)
T ss_dssp T--EEEEETTTEHHHHHHHH-------HSSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHHH
T ss_pred hhccccCccccCHHHHHHHH-------hCcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccceE
Confidence 433334444433 3344333 34688777655532 2111 1122457889999999876
No 182
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=96.47 E-value=0.01 Score=64.31 Aligned_cols=81 Identities=20% Similarity=0.269 Sum_probs=56.5
Q ss_pred hcCCCeEEEEEccHHHHHHHHHHHhhcCc--eEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc--ccccccCccc-
Q 000377 1423 KATDHRVLFFSTMTRLLDVMEDYLTFKQY--RYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR--AGGVGVNLQA- 1497 (1605)
Q Consensus 1423 ~a~g~KVLIFSQft~~LdiLe~~L~~~Gi--kylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr--AGGeGLNLq~- 1497 (1605)
...+.++|||+..-..++.+.+.+..... .+..+.-+ ..++.++++.|..++.. +|+++. ...+|||+..
T Consensus 6 ~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q~--~~~~~~~l~~~~~~~~~---il~~v~~g~~~EGiD~~~~ 80 (167)
T PF13307_consen 6 SAVPGGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQG--SKSRDELLEEFKRGEGA---ILLAVAGGSFSEGIDFPGD 80 (167)
T ss_dssp HCCSSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEEST--CCHHHHHHHHHCCSSSE---EEEEETTSCCGSSS--ECE
T ss_pred hcCCCCEEEEeCCHHHHHHHHHHHHhhcccccceeeecC--cchHHHHHHHHHhccCe---EEEEEecccEEEeecCCCc
Confidence 34568999999999999999999976542 11222222 34889999999876543 777777 8999999986
Q ss_pred -CCEEEEEcCCC
Q 000377 1498 -ADTVIIFDTDW 1508 (1605)
Q Consensus 1498 -ADtVIiyDp~W 1508 (1605)
|..||+.-.|+
T Consensus 81 ~~r~vii~glPf 92 (167)
T PF13307_consen 81 LLRAVIIVGLPF 92 (167)
T ss_dssp SEEEEEEES---
T ss_pred hhheeeecCCCC
Confidence 88999998776
No 183
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.46 E-value=0.033 Score=68.26 Aligned_cols=59 Identities=25% Similarity=0.312 Sum_probs=46.2
Q ss_pred EEEEEeccccccccCcccCCEEEEEcCC------CC-----------hhhHHHHhhhhcccCCCCcEEEEEEEeCCCH
Q 000377 1480 FIFLLSIRAGGVGVNLQAADTVIIFDTD------WN-----------PQVDLQAQARAHRIGQKRDVLVLRFETVQTV 1540 (1605)
Q Consensus 1480 ~VfLLSTrAGGeGLNLq~ADtVIiyDp~------WN-----------P~~d~QAiGRAhRIGQkKeV~VyRLIt~~TI 1540 (1605)
+-+++||..+...|.+...-+|| ||. +| |..-.||.-|++|.|.+++-..|+|+++...
T Consensus 314 RkvVvstniaetsltidgiv~VI--DpGf~kqkVYNPRIRvesllv~PISkasA~qR~gragrt~pGkcfrLYte~~~ 389 (699)
T KOG0925|consen 314 RKVVVSTNIAETSLTIDGIVFVI--DPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAF 389 (699)
T ss_pred ceEEEEecchheeeeeccEEEEe--cCchhhhcccCcceeeeeeeeccchHhHHHHHhhhccCCCCCceEEeecHHhh
Confidence 45799999999988887765555 543 34 4566788899999999999999999997643
No 184
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=96.42 E-value=0.014 Score=73.44 Aligned_cols=132 Identities=23% Similarity=0.377 Sum_probs=89.2
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHHHHHhCCCce
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~Ef~KwaP~l~ 1167 (1605)
-+|-.-|..+|..++. +.=.||-.+.|+|||++..+++.++.+. ..+|+||++|..+ +.|....|.+-. ++
T Consensus 409 pkLN~SQ~~AV~~VL~----rplsLIQGPPGTGKTvtsa~IVyhl~~~--~~~~VLvcApSNiAVDqLaeKIh~tg--LK 480 (935)
T KOG1802|consen 409 PKLNASQSNAVKHVLQ----RPLSLIQGPPGTGKTVTSATIVYHLARQ--HAGPVLVCAPSNIAVDQLAEKIHKTG--LK 480 (935)
T ss_pred hhhchHHHHHHHHHHc----CCceeeecCCCCCceehhHHHHHHHHHh--cCCceEEEcccchhHHHHHHHHHhcC--ce
Confidence 3788999999998876 5567999999999999998888877765 4688999999886 677777776543 55
Q ss_pred EEEEcCChhH----------------------HHHHH-----------------------HhhhhcCCccEEEEcHHHHh
Q 000377 1168 KIVYCGPPEE----------------------RRRLF-----------------------KEKIVHQKFNVLLTTYEYLM 1202 (1605)
Q Consensus 1168 vivy~Gs~~~----------------------R~~l~-----------------------~~~i~~~~fdVVITTYe~L~ 1202 (1605)
++.......+ ..++. .+.......+|+.||--..-
T Consensus 481 VvRl~aksRE~~~S~vs~L~lh~~~~~~~~pELq~l~klkde~gelS~sD~~k~~~lk~~~e~ell~~AdVIccTcv~Ag 560 (935)
T KOG1802|consen 481 VVRLCAKSREDIESDVSFLSLHEQLRNMDKPELQKLLKLKDEGGELSSSDEKKYRKLKRAAEKELLNQADVICCTCVGAG 560 (935)
T ss_pred EeeeehhhhhhccCCccHHHHHHHHhccCcHHHHHHHhhhhhcccccchhhHHHHHHHHHHHHHHHhhcCEEEEeccccc
Confidence 5443322110 00000 00111234567766654332
Q ss_pred hccCCCcccccCccEEEEecCccccCccch
Q 000377 1203 NKHDRPKLSKIQWHYIIIDEGHRIKNASCK 1232 (1605)
Q Consensus 1203 k~~D~~~L~ki~wd~VIIDEAHriKN~~SK 1232 (1605)
...|.+++|..|+|||+-...-+.+.
T Consensus 561 ----d~rl~~~kfr~VLiDEaTQatEpe~L 586 (935)
T KOG1802|consen 561 ----DRRLSKFKFRTVLIDEATQATEPECL 586 (935)
T ss_pred ----chhhccccccEEEEecccccCCcchh
Confidence 24577799999999999887665553
No 185
>PRK14873 primosome assembly protein PriA; Provisional
Probab=96.35 E-value=0.018 Score=74.91 Aligned_cols=123 Identities=13% Similarity=0.094 Sum_probs=86.2
Q ss_pred CCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCceEEEEcCCh--hHHHHHHHhhhhcCCccEEE
Q 000377 1119 GLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIHKIVYCGPP--EERRRLFKEKIVHQKFNVLL 1195 (1605)
Q Consensus 1119 GLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~vivy~Gs~--~~R~~l~~~~i~~~~fdVVI 1195 (1605)
|+|||-..+.++...+..+ +-+||++|.. +..++...|...++...+.+||..- .+|.+.|.. +..+...|||
T Consensus 170 GSGKTevyl~~i~~~l~~G---k~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~-~~~G~~~IVi 245 (665)
T PRK14873 170 GEDWARRLAAAAAATLRAG---RGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLA-VLRGQARVVV 245 (665)
T ss_pred CCcHHHHHHHHHHHHHHcC---CeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHH-HhCCCCcEEE
Confidence 9999999999998887653 3489999986 6789999999999766777788654 445555543 4567789999
Q ss_pred EcHHHHhhccCCCcccccCccEEEEecCccc--cCccchHH--HHH---H-hhhccceecccccC
Q 000377 1196 TTYEYLMNKHDRPKLSKIQWHYIIIDEGHRI--KNASCKLN--ADL---K-HYQSSHRLLLTGTP 1252 (1605)
Q Consensus 1196 TTYe~L~k~~D~~~L~ki~wd~VIIDEAHri--KN~~SKls--raL---~-~L~a~~RLLLTGTP 1252 (1605)
-|...+.. .--+..+|||||=|.- |......+ +-+ + .+.....++-|+||
T Consensus 246 GtRSAvFa-------P~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgSaTP 303 (665)
T PRK14873 246 GTRSAVFA-------PVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGGHAR 303 (665)
T ss_pred EcceeEEe-------ccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEECCCC
Confidence 99887643 2235689999999874 43322211 111 2 22344567779999
No 186
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=96.31 E-value=0.019 Score=74.44 Aligned_cols=40 Identities=20% Similarity=0.328 Sum_probs=35.8
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIA 1128 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIA 1128 (1605)
.+++|-|+.-...+++.++...+|+|-++||+|||+.-|.
T Consensus 20 ~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLC 59 (945)
T KOG1132|consen 20 FQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLC 59 (945)
T ss_pred CCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHH
Confidence 5779999999999999999999999999999999976553
No 187
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=96.26 E-value=0.0017 Score=85.77 Aligned_cols=183 Identities=22% Similarity=0.248 Sum_probs=97.6
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCc--HHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCc
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLG--KTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRI 1166 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLG--KTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l 1166 (1605)
..+.+||...+.-..... .....+++..|+| ||+.+..+..+..... .....++++|..+..+|..+...++..-
T Consensus 83 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 159 (866)
T COG0553 83 FILIPHQLDIALEVLNEL--ALRVLIADEVGLGDLKTIEAGAILKELLLRG-EIKRVLILVPKTLRAQWVVELLEKFNIR 159 (866)
T ss_pred cccCcchhhhhhhhhhhh--hhchhhcccccccccccccccccchHhhhhh-hhccceeccchHHHHHHHHHhhhhcccc
Confidence 456677776654333322 2237889999999 8999876666554433 3445899999888888988877653211
Q ss_pred eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhcc--CCCcccccCc---cEEEEecCccccCcc---------ch
Q 000377 1167 HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKH--DRPKLSKIQW---HYIIIDEGHRIKNAS---------CK 1232 (1605)
Q Consensus 1167 ~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~--D~~~L~ki~w---d~VIIDEAHriKN~~---------SK 1232 (1605)
..+........................++.......... ....+....| +++++||+|.+.... ..
T Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 239 (866)
T COG0553 160 LAVLDKEGLRYLLKQYDAYNPFSTEDLVLISLDLAKRSDSKRREALLEAEWGERDLLVIDEAHNLGSSEGTRKLAPLETL 239 (866)
T ss_pred chhhhhhhhhhhhhhhcccccccchhhhhhhhhhhhhhhhhhhhhhhcccccchhhhhcchHhhcccccccccccchhhh
Confidence 111111100000000000000000010233333332211 1123444456 899999999987742 22
Q ss_pred HHHHHHhhh--cc------ceecccccCCCCCHHHHHHHHHhhcCCCCCC
Q 000377 1233 LNADLKHYQ--SS------HRLLLTGTPLQNNLEELWALLNFLLPNIFNS 1274 (1605)
Q Consensus 1233 lsraL~~L~--a~------~RLLLTGTPlqNnl~ELwsLLnFL~P~if~s 1274 (1605)
.+..+.... .. ....+++||......+++....++.+..+..
T Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 (866)
T COG0553 240 EYELLKQLAEKIPSKLLDLKVLLLSATPEQLKEEDLFARLRLLDPLRLAD 289 (866)
T ss_pred HHHHHHHHhhcccccccccchhhhccchhhccccccchhhhhccccchhh
Confidence 233333221 11 2347899999888888777666666655544
No 188
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=96.25 E-value=0.0085 Score=73.59 Aligned_cols=71 Identities=18% Similarity=0.125 Sum_probs=53.0
Q ss_pred cCCCCccCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1080 SEQPTCLQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1080 ~~qP~~L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
...|-.+.--..+|-|.+-..-+...++.+..|+|-.+.|+|||+.-++++.......+....-||-|-..
T Consensus 6 d~l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRT 76 (755)
T KOG1131|consen 6 DDLLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRT 76 (755)
T ss_pred cCeeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCc
Confidence 34555566667889998877777777888999999999999999999998876655544443346666543
No 189
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.20 E-value=0.022 Score=70.44 Aligned_cols=114 Identities=14% Similarity=0.119 Sum_probs=90.3
Q ss_pred ccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHh----hcCc----eEEEEeCCCCHHHHHHHHHHHhCCCCCeE
Q 000377 1409 CGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLT----FKQY----RYLRLDGHTSGGDRGALIDKFNQQDSPFF 1480 (1605)
Q Consensus 1409 SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~----~~Gi----kylrLdGsts~eERqeiId~FN~gds~~~ 1480 (1605)
+.|+.....++.++...+-|+|-||..+...+++....+ .-+- .+..+.|+-..++|.++-.+.=.++-
T Consensus 508 ~~~i~E~s~~~~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L--- 584 (1034)
T KOG4150|consen 508 SSKVVEVSHLFAEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKL--- 584 (1034)
T ss_pred hhHHHHHHHHHHHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCCee---
Confidence 457777778888888999999999999988776644332 2221 24457788888999888755434443
Q ss_pred EEEEeccccccccCcccCCEEEEEcCCCChhhHHHHhhhhcccCC
Q 000377 1481 IFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQ 1525 (1605)
Q Consensus 1481 VfLLSTrAGGeGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQ 1525 (1605)
.=+|+|.|...|||+-..|.||++..|++-+.+.|..|||+|-..
T Consensus 585 ~giIaTNALELGIDIG~LDAVl~~GFP~S~aNl~QQ~GRAGRRNk 629 (1034)
T KOG4150|consen 585 CGIIATNALELGIDIGHLDAVLHLGFPGSIANLWQQAGRAGRRNK 629 (1034)
T ss_pred eEEEecchhhhccccccceeEEEccCchhHHHHHHHhccccccCC
Confidence 258899999999999999999999999999999999999999653
No 190
>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=96.11 E-value=0.049 Score=70.85 Aligned_cols=67 Identities=22% Similarity=0.284 Sum_probs=52.2
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESEINF 1161 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~Ef~K 1161 (1605)
..|-+.|..+|.+++. +....||-.+.|+|||.++++++..+...+ .++||++|+.. +.+....+..
T Consensus 156 ~~ln~~Q~~Av~~~l~---~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g---~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 156 PNLNESQKEAVSFALS---SKDLFLIHGPPGTGKTRTLVELIRQLVKRG---LRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCCHHHHHHHHHHhc---CCCeEEEEcCCCCCHHHHHHHHHHHHHHcC---CCEEEEcCcHHHHHHHHHHHHh
Confidence 5788999999987654 334568889999999999988888776543 36999999885 5677766654
No 191
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=96.09 E-value=0.012 Score=73.99 Aligned_cols=64 Identities=25% Similarity=0.335 Sum_probs=50.4
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccchHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPGWESE 1158 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~nW~~E 1158 (1605)
-.|-+-|..++.++.. +..=.|+-.+.|+|||.+...+|..++..+ ..+||++|+.+ +.|..+.
T Consensus 184 ~~ln~SQk~Av~~~~~---~k~l~~I~GPPGTGKT~TlvEiI~qlvk~~---k~VLVcaPSn~AVdNiver 248 (649)
T KOG1803|consen 184 KNLNSSQKAAVSFAIN---NKDLLIIHGPPGTGKTRTLVEIISQLVKQK---KRVLVCAPSNVAVDNIVER 248 (649)
T ss_pred ccccHHHHHHHHHHhc---cCCceEeeCCCCCCceeeHHHHHHHHHHcC---CeEEEEcCchHHHHHHHHH
Confidence 4677899999987765 223357788999999999999998887654 56999999985 7777664
No 192
>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=95.64 E-value=0.051 Score=54.48 Aligned_cols=55 Identities=27% Similarity=0.295 Sum_probs=31.7
Q ss_pred HHHHHHHHHhhc--CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc
Q 000377 1097 SGLRWLVSLYNN--QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG 1154 (1605)
Q Consensus 1097 eGL~wLlsL~~n--~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n 1154 (1605)
..+.++...... +...+|..+.|+|||..+-.++..+. ....+++++........
T Consensus 5 ~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~---~~~~~v~~~~~~~~~~~ 61 (151)
T cd00009 5 EAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF---RPGAPFLYLNASDLLEG 61 (151)
T ss_pred HHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh---cCCCCeEEEehhhhhhh
Confidence 344444444333 55678899999999977765555443 22344555544443333
No 193
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.47 E-value=0.017 Score=58.58 Aligned_cols=115 Identities=25% Similarity=0.275 Sum_probs=57.2
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhc---CCCCCEEEEecCCc-ccchHHHHHHhC-CCceEEEEcCChhHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETK---NDRGPFLVVVPSSV-LPGWESEINFWA-PRIHKIVYCGPPEERRRLFK 1183 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k---~~~gP~LIVvP~SL-L~nW~~Ef~Kwa-P~l~vivy~Gs~~~R~~l~~ 1183 (1605)
+..++|..+.|+|||..+-.++..+.... ....-+.|-+|... ...+..++.... ..... ..+.......
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~l~~~-- 78 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS---RQTSDELRSL-- 78 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS---TS-HHHHHHH--
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc---cCCHHHHHHH--
Confidence 44568889999999998877776654321 11111344444443 233333333222 11110 1111111111
Q ss_pred hhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh--hccceecccccC
Q 000377 1184 EKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY--QSSHRLLLTGTP 1252 (1605)
Q Consensus 1184 ~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L--~a~~RLLLTGTP 1252 (1605)
+.. .+....-.+|||||+|++. .......++.+ .....++|.|||
T Consensus 79 -----------------~~~-----~l~~~~~~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 79 -----------------LID-----ALDRRRVVLLVIDEADHLF--SDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp -----------------HHH-----HHHHCTEEEEEEETTHHHH--THHHHHHHHHHTCSCBEEEEEEESS
T ss_pred -----------------HHH-----HHHhcCCeEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEEEEECh
Confidence 111 1222222689999999984 24555555555 456679999999
No 194
>PF13892 DBINO: DNA-binding domain
Probab=95.05 E-value=0.48 Score=50.45 Aligned_cols=73 Identities=21% Similarity=0.280 Sum_probs=57.9
Q ss_pred HHHHHHHHhHHHHHHHHHHHhhhHHhhhHHHHHHHHHhccccHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 000377 944 KRERWRGVNKYVKEFHKRKERIHREKIDRIQREKINLLKINDVEGYLRMVQDAKSDRVNKLLKETEKYLQKLGSKLQ 1020 (1605)
Q Consensus 944 ~~~~~~~~~~~~~~~~~~~~r~~~~~~~r~~~~r~~~l~~~d~e~y~~l~~~~k~~rl~~LL~qt~~y~~~l~~~~~ 1020 (1605)
...|.+++.+.+..|+++.++++++...+.++|.+...+.+++..- ......||.+||.||+-|.++++....
T Consensus 62 ~~~Rakrl~rEm~~fwkk~eke~~~~~k~~eKE~~e~~k~~~E~~e----~~rq~~rl~fLl~QTElfsHF~~~k~~ 134 (139)
T PF13892_consen 62 TQLRAKRLMREMLSFWKKNEKEERELRKKAEKEALEQKKKEEEKRE----AKRQQRRLNFLLTQTELFSHFMQNKAK 134 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccHHHHH----HHHHHHHHHHHHHHHHHHHHHHccccc
Confidence 3446678999999999999999998888899998888887654321 123357999999999999999877543
No 195
>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=94.91 E-value=0.13 Score=67.86 Aligned_cols=134 Identities=22% Similarity=0.164 Sum_probs=78.7
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCce
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~ 1167 (1605)
+..|.+-|.+++..+.. +.-.||.-..|+|||.++-+++..+... ....++++++|+..-.....|.. +..
T Consensus 321 ~~~l~~~Q~~Ai~~~~~----~~~~iitGgpGTGKTt~l~~i~~~~~~~-~~~~~v~l~ApTg~AA~~L~e~~----g~~ 391 (720)
T TIGR01448 321 RKGLSEEQKQALDTAIQ----HKVVILTGGPGTGKTTITRAIIELAEEL-GGLLPVGLAAPTGRAAKRLGEVT----GLT 391 (720)
T ss_pred CCCCCHHHHHHHHHHHh----CCeEEEECCCCCCHHHHHHHHHHHHHHc-CCCceEEEEeCchHHHHHHHHhc----CCc
Confidence 35799999999987753 4567899999999998876665544332 22246888899876555444321 000
Q ss_pred EEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhhhccceec
Q 000377 1168 KIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQSSHRLL 1247 (1605)
Q Consensus 1168 vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a~~RLL 1247 (1605)
. ....+++.. ..+-. . ....-.....++||||||+.+-.. .+.+.+..+....+|+
T Consensus 392 a-------~Tih~lL~~-----~~~~~------~----~~~~~~~~~~~llIvDEaSMvd~~--~~~~Ll~~~~~~~rli 447 (720)
T TIGR01448 392 A-------STIHRLLGY-----GPDTF------R----HNHLEDPIDCDLLIVDESSMMDTW--LALSLLAALPDHARLL 447 (720)
T ss_pred c-------ccHHHHhhc-----cCCcc------c----hhhhhccccCCEEEEeccccCCHH--HHHHHHHhCCCCCEEE
Confidence 0 000111100 00000 0 000001245789999999998432 3445556667778899
Q ss_pred ccccCCC
Q 000377 1248 LTGTPLQ 1254 (1605)
Q Consensus 1248 LTGTPlq 1254 (1605)
|-|=|-|
T Consensus 448 lvGD~~Q 454 (720)
T TIGR01448 448 LVGDTDQ 454 (720)
T ss_pred EECcccc
Confidence 9988754
No 196
>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=94.67 E-value=0.12 Score=66.84 Aligned_cols=141 Identities=14% Similarity=0.170 Sum_probs=80.6
Q ss_pred HHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCC--CCCEEEEecCCcc-cchHHHHHHhCCCceEE
Q 000377 1093 EYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKND--RGPFLVVVPSSVL-PGWESEINFWAPRIHKI 1169 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~--~gP~LIVvP~SLL-~nW~~Ef~KwaP~l~vi 1169 (1605)
+.|+.++...+. +.-.||.-..|+|||.++..++..+...... ...+++++|+.-- ....+-+......+..
T Consensus 148 ~~Qk~A~~~al~----~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~- 222 (586)
T TIGR01447 148 NWQKVAVALALK----SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAA- 222 (586)
T ss_pred HHHHHHHHHHhh----CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhccccc-
Confidence 789999877765 5567899999999999988888777654322 1358999998743 3333333322211110
Q ss_pred EEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhcc-C-----CCcccccCccEEEEecCccccCccchHHHHHHhhhcc
Q 000377 1170 VYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKH-D-----RPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQSS 1243 (1605)
Q Consensus 1170 vy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~-D-----~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a~ 1243 (1605)
...... ...+-..|...+.... + ...-....+++||||||-.+-. ..+.+.+..+...
T Consensus 223 ----~~~~~~----------~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIiDEaSMvd~--~l~~~ll~al~~~ 286 (586)
T TIGR01447 223 ----AEALIA----------ALPSEAVTIHRLLGIKPDTKRFRHHERNPLPLDVLVVDEASMVDL--PLMAKLLKALPPN 286 (586)
T ss_pred ----chhhhh----------ccccccchhhhhhcccCCcchhhhcccCCCcccEEEEcccccCCH--HHHHHHHHhcCCC
Confidence 000000 0001112222221100 0 0011224689999999988743 3455566667778
Q ss_pred ceecccccCCC
Q 000377 1244 HRLLLTGTPLQ 1254 (1605)
Q Consensus 1244 ~RLLLTGTPlq 1254 (1605)
.||+|.|=|.|
T Consensus 287 ~rlIlvGD~~Q 297 (586)
T TIGR01447 287 TKLILLGDKNQ 297 (586)
T ss_pred CEEEEECChhh
Confidence 89999998754
No 197
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=94.19 E-value=0.52 Score=63.18 Aligned_cols=41 Identities=20% Similarity=0.099 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHhhcC-C-C-eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQ-L-N-GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~-~-n-GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+.++ . . -||.-+.|+|||..+..|+..|..
T Consensus 20 qe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 20 QEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred cHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence 444444444444433 2 3 378899999999999888877754
No 198
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=94.10 E-value=0.17 Score=61.10 Aligned_cols=146 Identities=21% Similarity=0.238 Sum_probs=73.0
Q ss_pred cHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCccc---------------chH
Q 000377 1092 REYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLP---------------GWE 1156 (1605)
Q Consensus 1092 RpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~---------------nW~ 1156 (1605)
--||.-++..|+. ..-.=+.|.-.-|+|||+.|+|...+-...++..+.++|--|.--+- -|.
T Consensus 230 n~eQ~~ALdlLld--~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eEeKm~PWm 307 (436)
T COG1875 230 NAEQRVALDLLLD--DDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEEEKMGPWM 307 (436)
T ss_pred cHHHHHHHHHhcC--CCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchhhhccchH
Confidence 3588888876653 11122467788999999999877665444444445455544543332 233
Q ss_pred HHHHHhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHH
Q 000377 1157 SEINFWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNAD 1236 (1605)
Q Consensus 1157 ~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsra 1236 (1605)
.-+..-...+...--.| .+.....+......|--.|| ++- +.+.-.+||||||+++.-+. +-..
T Consensus 308 q~i~DnLE~L~~~~~~~-----~~~l~~~l~~~~iev~alt~--IRG-------RSl~~~FiIIDEaQNLTphe--ikTi 371 (436)
T COG1875 308 QAIFDNLEVLFSPNEPG-----DRALEEILSRGRIEVEALTY--IRG-------RSLPDSFIIIDEAQNLTPHE--LKTI 371 (436)
T ss_pred HHHHhHHHHHhcccccc-----hHHHHHHHhccceeeeeeee--ecc-------cccccceEEEehhhccCHHH--HHHH
Confidence 32211100000000011 01111111112222222222 111 22334689999999985433 3344
Q ss_pred HHhhhccceecccccCCCC
Q 000377 1237 LKHYQSSHRLLLTGTPLQN 1255 (1605)
Q Consensus 1237 L~~L~a~~RLLLTGTPlqN 1255 (1605)
+.+.-...++.|||-|-|-
T Consensus 372 ltR~G~GsKIVl~gd~aQi 390 (436)
T COG1875 372 LTRAGEGSKIVLTGDPAQI 390 (436)
T ss_pred HHhccCCCEEEEcCCHHHc
Confidence 4555667889999988543
No 199
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=93.59 E-value=0.24 Score=64.34 Aligned_cols=143 Identities=13% Similarity=0.194 Sum_probs=80.9
Q ss_pred ccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCCCEEEEecCCcccc-hHHHHHHhCCCceE
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-DRGPFLVVVPSSVLPG-WESEINFWAPRIHK 1168 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-~~gP~LIVvP~SLL~n-W~~Ef~KwaP~l~v 1168 (1605)
.-+.|+.++...+. +.-.||.-..|+|||.++..++..+.+... ...++++++|+.--.. -.+.+..-...+..
T Consensus 153 ~~d~Qk~Av~~a~~----~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~ 228 (615)
T PRK10875 153 EVDWQKVAAAVALT----RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPL 228 (615)
T ss_pred CCHHHHHHHHHHhc----CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhcccc
Confidence 45899999976655 556788999999999998888877665432 2245888899875433 22222211111100
Q ss_pred EEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhcc-C-----CCcccccCccEEEEecCccccCccchHHHHHHhhhc
Q 000377 1169 IVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKH-D-----RPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQS 1242 (1605)
Q Consensus 1169 ivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~-D-----~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a 1242 (1605)
....+. ....-..|...+.... . ...-....+++||||||-.+- .....+.+..++.
T Consensus 229 -----~~~~~~----------~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd--~~lm~~ll~al~~ 291 (615)
T PRK10875 229 -----TDEQKK----------RIPEEASTLHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEASMVD--LPMMARLIDALPP 291 (615)
T ss_pred -----chhhhh----------cCCCchHHHHHHhCcCCCccchhhccccCCCCCeEEEChHhccc--HHHHHHHHHhccc
Confidence 000000 0000111222221100 0 001123457899999998873 3344566677788
Q ss_pred cceecccccCCC
Q 000377 1243 SHRLLLTGTPLQ 1254 (1605)
Q Consensus 1243 ~~RLLLTGTPlq 1254 (1605)
..||+|-|=|-|
T Consensus 292 ~~rlIlvGD~~Q 303 (615)
T PRK10875 292 HARVIFLGDRDQ 303 (615)
T ss_pred CCEEEEecchhh
Confidence 889999998755
No 200
>PRK04296 thymidine kinase; Provisional
Probab=93.55 E-value=0.14 Score=56.66 Aligned_cols=34 Identities=21% Similarity=0.255 Sum_probs=25.0
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEec
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVP 1148 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP 1148 (1605)
.++.-+||.|||..++.++..+... ..+++|+.|
T Consensus 5 ~litG~~GsGKTT~~l~~~~~~~~~---g~~v~i~k~ 38 (190)
T PRK04296 5 EFIYGAMNSGKSTELLQRAYNYEER---GMKVLVFKP 38 (190)
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHc---CCeEEEEec
Confidence 3677899999999988887766543 345677755
No 201
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=93.52 E-value=3.4 Score=53.62 Aligned_cols=77 Identities=10% Similarity=0.154 Sum_probs=49.3
Q ss_pred CeEEEEEccHHHHHHHHHHHhhcCc-------eEEEEeCCCCHHHHHHHHHHHhC----CCCCeEEEEEe--cccccccc
Q 000377 1427 HRVLFFSTMTRLLDVMEDYLTFKQY-------RYLRLDGHTSGGDRGALIDKFNQ----QDSPFFIFLLS--IRAGGVGV 1493 (1605)
Q Consensus 1427 ~KVLIFSQft~~LdiLe~~L~~~Gi-------kylrLdGsts~eERqeiId~FN~----gds~~~VfLLS--TrAGGeGL 1493 (1605)
.-|++|...-..+..+..++...|+ +-+.+.-... -+.+++.|.. +. . .+|++ -.-.++||
T Consensus 630 gGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~---~~dvl~~Ya~a~~~g~-G--aiLlaVVGGKlSEGI 703 (821)
T KOG1133|consen 630 GGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT---VEDVLEGYAEAAERGR-G--AILLAVVGGKLSEGI 703 (821)
T ss_pred CcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc---HHHHHHHHHHHhhcCC-C--eEEEEEecccccccc
Confidence 4688888888888888888876654 2222221111 3455666632 22 2 24444 34456899
Q ss_pred Cccc--CCEEEEEcCCCC
Q 000377 1494 NLQA--ADTVIIFDTDWN 1509 (1605)
Q Consensus 1494 NLq~--ADtVIiyDp~WN 1509 (1605)
|+.+ +..||+.-.|+-
T Consensus 704 NF~D~LgRaVvvVGlPyP 721 (821)
T KOG1133|consen 704 NFSDDLGRAVVVVGLPYP 721 (821)
T ss_pred ccccccccEEEEeecCCC
Confidence 9988 999999988874
No 202
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.52 E-value=1.4 Score=54.42 Aligned_cols=154 Identities=11% Similarity=0.110 Sum_probs=83.3
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHhc-CCCCCEEEEecCCcccchHHHHHHhCCCceEEEEcCChhHHHHHHHhhhhcC
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMETK-NDRGPFLVVVPSSVLPGWESEINFWAPRIHKIVYCGPPEERRRLFKEKIVHQ 1189 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~k-~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~ 1189 (1605)
..++.-++|.|||.++.-++.++.... ....++.+|+=..--..-...+..|+-.+.+-++
T Consensus 176 vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~------------------ 237 (388)
T PRK12723 176 VFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVK------------------ 237 (388)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceE------------------
Confidence 456789999999999877776665432 1233455555433111111114445432211111
Q ss_pred CccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc---hHHHHHHhhhc--cceecccccCCCCCHHHHHHHH
Q 000377 1190 KFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC---KLNADLKHYQS--SHRLLLTGTPLQNNLEELWALL 1264 (1605)
Q Consensus 1190 ~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S---KlsraL~~L~a--~~RLLLTGTPlqNnl~ELwsLL 1264 (1605)
++.++..+..... .+ .++++||||++.+...... .+.+.+..... ...|.|+||--.+.+.+++.-+
T Consensus 238 ----~~~~~~~l~~~L~--~~--~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~ 309 (388)
T PRK12723 238 ----AIESFKDLKEEIT--QS--KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQF 309 (388)
T ss_pred ----eeCcHHHHHHHHH--Hh--CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHh
Confidence 1112232322111 11 3579999999998754322 22233333322 3568899999888888888877
Q ss_pred HhhcCC-----------CCCChHHHHHHhcccccCCC
Q 000377 1265 NFLLPN-----------IFNSSEDFSQWFNKPFESNG 1290 (1605)
Q Consensus 1265 nFL~P~-----------if~s~~~F~e~F~kP~e~~g 1290 (1605)
..+.+. -++..-.+......|+...+
T Consensus 310 ~~~~~~~~I~TKlDet~~~G~~l~~~~~~~~Pi~yit 346 (388)
T PRK12723 310 SPFSYKTVIFTKLDETTCVGNLISLIYEMRKEVSYVT 346 (388)
T ss_pred cCCCCCEEEEEeccCCCcchHHHHHHHHHCCCEEEEe
Confidence 655432 23344556666677776543
No 203
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=93.46 E-value=0.047 Score=68.43 Aligned_cols=107 Identities=21% Similarity=0.249 Sum_probs=57.0
Q ss_pred EcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecC-CcccchHHHH----H-HhCCCceEEEEcCChhHHHH--HHHhhh
Q 000377 1115 ADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPS-SVLPGWESEI----N-FWAPRIHKIVYCGPPEERRR--LFKEKI 1186 (1605)
Q Consensus 1115 ADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~-SLL~nW~~Ef----~-KwaP~l~vivy~Gs~~~R~~--l~~~~i 1186 (1605)
-+.||+|||+++.++|++++..+- +.+|..|-. +++..-..-| . ++.- -.++.|.+..-.-++ .+.+
T Consensus 3 ~matgsgkt~~ma~lil~~y~kgy--r~flffvnq~nilekt~~nftd~~s~kylf-~e~i~~~d~~i~ikkvn~fse-- 77 (812)
T COG3421 3 EMATGSGKTLVMAGLILECYKKGY--RNFLFFVNQANILEKTKLNFTDSVSSKYLF-SENININDENIEIKKVNNFSE-- 77 (812)
T ss_pred ccccCCChhhHHHHHHHHHHHhch--hhEEEEecchhHHHHHHhhcccchhhhHhh-hhhhhcCCceeeeeeecccCc--
Confidence 357999999999999999987654 347777754 3443222222 1 1110 111222222111111 1111
Q ss_pred hcCCccEEEEcHHHHhhccCCCc--------ccccCccEEEEecCcccc
Q 000377 1187 VHQKFNVLLTTYEYLMNKHDRPK--------LSKIQWHYIIIDEGHRIK 1227 (1605)
Q Consensus 1187 ~~~~fdVVITTYe~L~k~~D~~~--------L~ki~wd~VIIDEAHriK 1227 (1605)
-.....|++||.+.+-.+.-+.. |... --+++-||||++.
T Consensus 78 hnd~iei~fttiq~l~~d~~~~ken~itledl~~~-klvfl~deahhln 125 (812)
T COG3421 78 HNDAIEIYFTTIQGLFSDFTRAKENAITLEDLKDQ-KLVFLADEAHHLN 125 (812)
T ss_pred cCCceEEEEeehHHHHHHHHhhccccccHhhHhhC-ceEEEechhhhhh
Confidence 12456788999888765332211 2222 1357889999984
No 204
>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=93.44 E-value=0.14 Score=50.57 Aligned_cols=46 Identities=20% Similarity=0.109 Sum_probs=31.6
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHH
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESE 1158 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~E 1158 (1605)
...+|.-++|+|||..+..++..+.... ..++++.+......|...
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~ 48 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPG---GGVIYIDGEDILEEVLDQ 48 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCC---CCEEEECCEEccccCHHH
Confidence 4568899999999998877776553221 357777777666555443
No 205
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=93.35 E-value=0.15 Score=68.34 Aligned_cols=111 Identities=24% Similarity=0.249 Sum_probs=78.6
Q ss_pred HHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc-----cchHHHHHHhCCCceEEEEcCChhHH
Q 000377 1104 SLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL-----PGWESEINFWAPRIHKIVYCGPPEER 1178 (1605)
Q Consensus 1104 sL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL-----~nW~~Ef~KwaP~l~vivy~Gs~~~R 1178 (1605)
.+|+.+.+.+++.+.|+|||++|-..+.. ....+.++.|+|...+ ..|...|.+- .+..++...|....-
T Consensus 1154 ~~y~~nd~v~vga~~gsgkt~~ae~a~l~----~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~-~G~~~~~l~ge~s~~ 1228 (1674)
T KOG0951|consen 1154 SLYNTNDNVLVGAPNGSGKTACAELALLR----PDTIGRAVYIAPLEEIADEQYRDWEKKFSKL-LGLRIVKLTGETSLD 1228 (1674)
T ss_pred eeecccceEEEecCCCCchhHHHHHHhcC----CccceEEEEecchHHHHHHHHHHHHHhhccc-cCceEEecCCccccc
Confidence 46777889999999999999988433332 4455678999998765 3488877766 456666666655433
Q ss_pred HHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCcc
Q 000377 1179 RRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNAS 1230 (1605)
Q Consensus 1179 ~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~ 1230 (1605)
.++ ....+|+|.|++.+-... .-..-++.|+||.|.+....
T Consensus 1229 lkl------~~~~~vii~tpe~~d~lq-----~iQ~v~l~i~d~lh~igg~~ 1269 (1674)
T KOG0951|consen 1229 LKL------LQKGQVIISTPEQWDLLQ-----SIQQVDLFIVDELHLIGGVY 1269 (1674)
T ss_pred hHH------hhhcceEEechhHHHHHh-----hhhhcceEeeehhhhhcccC
Confidence 222 256799999999885421 23346789999999997643
No 206
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=93.35 E-value=0.24 Score=65.04 Aligned_cols=40 Identities=20% Similarity=0.172 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...++.|...+.++. .. ||.-+-|+|||..+..|...+.
T Consensus 21 Qe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLn 63 (830)
T PRK07003 21 QEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALN 63 (830)
T ss_pred cHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 6666666666555543 33 7889999999999888777664
No 207
>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=93.28 E-value=0.22 Score=57.79 Aligned_cols=26 Identities=31% Similarity=0.255 Sum_probs=20.5
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
.+.||.-+.|+|||..|-++...+..
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 45689999999999998777665543
No 208
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.13 E-value=0.27 Score=61.94 Aligned_cols=40 Identities=23% Similarity=0.069 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhhcCCC---eEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQLN---GILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~n---GILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|..++..|...+.++.- -|+..+.|+|||..|..++..+.
T Consensus 23 Qe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 23 QDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence 66666666665555542 38899999999999988877664
No 209
>PLN03025 replication factor C subunit; Provisional
Probab=92.66 E-value=0.76 Score=54.91 Aligned_cols=40 Identities=28% Similarity=0.325 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHhhcC--CCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQ--LNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~--~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|.+.+.++.....++ .+.||..+.|+|||-.+.+++..+.
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL 59 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence 444555554443332 3468999999999999988877664
No 210
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=92.44 E-value=0.34 Score=64.03 Aligned_cols=126 Identities=21% Similarity=0.213 Sum_probs=75.5
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCceE
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIHK 1168 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~v 1168 (1605)
.|-.-|+.|+-..+. .....-|+.. .|+|||-+...+|..|...+ +.+|+.+=++ .+.|...-+..+.-.
T Consensus 669 ~LN~dQr~A~~k~L~--aedy~LI~GM-PGTGKTTtI~~LIkiL~~~g---kkVLLtsyThsAVDNILiKL~~~~i~--- 739 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALA--AEDYALILGM-PGTGKTTTISLLIKILVALG---KKVLLTSYTHSAVDNILIKLKGFGIY--- 739 (1100)
T ss_pred hcCHHHHHHHHHHHh--ccchheeecC-CCCCchhhHHHHHHHHHHcC---CeEEEEehhhHHHHHHHHHHhccCcc---
Confidence 577889999865554 2333446666 79999988888877665443 4578888765 578877666655321
Q ss_pred EEEcCChhHHHHHHHh---------------hhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC
Q 000377 1169 IVYCGPPEERRRLFKE---------------KIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN 1228 (1605)
Q Consensus 1169 ivy~Gs~~~R~~l~~~---------------~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN 1228 (1605)
+.--|....-....++ ........||.+|---+ ....+....|||+|||||-.|.-
T Consensus 740 ~lRLG~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi----~~plf~~R~FD~cIiDEASQI~l 810 (1100)
T KOG1805|consen 740 ILRLGSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGI----NHPLFVNRQFDYCIIDEASQILL 810 (1100)
T ss_pred eeecCCccccchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCC----CchhhhccccCEEEEcccccccc
Confidence 1111222211111111 11224455666665443 23456777899999999987743
No 211
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=91.88 E-value=0.44 Score=56.44 Aligned_cols=40 Identities=25% Similarity=0.154 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhhcCC--CeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...++++.....++. ..+|..+.|+|||..+.+++.++.
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence 4445566666555554 578899999999999988877664
No 212
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=91.52 E-value=0.89 Score=55.45 Aligned_cols=41 Identities=15% Similarity=0.226 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhcCCC---eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQLN---GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~n---GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|.+++..+...+..+.. -|+..+.|+|||..+..++..++.
T Consensus 28 h~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 28 HEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred cHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence 66777888888877763 577899999999999988887765
No 213
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.25 E-value=0.7 Score=61.84 Aligned_cols=41 Identities=22% Similarity=0.146 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhhcC--CCe-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQ--LNG-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~--~nG-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+..+ ... |+.-+.|+|||..+..++..+..
T Consensus 21 Qe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 21 QSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred cHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccC
Confidence 555555555554443 234 78999999999999888776653
No 214
>PRK06526 transposase; Provisional
Probab=91.20 E-value=0.6 Score=54.43 Aligned_cols=36 Identities=22% Similarity=0.229 Sum_probs=28.0
Q ss_pred HHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1097 SGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1097 eGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
...+|+. .+.|.+|..++|+|||..+.++...+...
T Consensus 90 ~~~~fi~----~~~nlll~Gp~GtGKThLa~al~~~a~~~ 125 (254)
T PRK06526 90 GTLDFVT----GKENVVFLGPPGTGKTHLAIGLGIRACQA 125 (254)
T ss_pred hcCchhh----cCceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence 3445664 47788999999999999999988777643
No 215
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=91.19 E-value=1.3 Score=47.39 Aligned_cols=53 Identities=25% Similarity=0.391 Sum_probs=37.9
Q ss_pred EEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccccccccCccc--CCEEEEEcCCC
Q 000377 1453 YLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRAGGVGVNLQA--ADTVIIFDTDW 1508 (1605)
Q Consensus 1453 ylrLdGsts~eERqeiId~FN~gds~~~VfLLSTrAGGeGLNLq~--ADtVIiyDp~W 1508 (1605)
.+.+-| ....+...+++.|.....+ .+|+++....+|||++. +..||+.-.|+
T Consensus 25 ~i~~e~-~~~~~~~~~l~~f~~~~~~--~iL~~~~~~~EGiD~~g~~~r~vii~glPf 79 (141)
T smart00492 25 LLLVQG-EDGKETGKLLEKYVEACEN--AILLATARFSEGVDFPGDYLRAVIIDGLPF 79 (141)
T ss_pred eEEEeC-CChhHHHHHHHHHHHcCCC--EEEEEccceecceecCCCCeeEEEEEecCC
Confidence 344444 3344678999999765432 36787777999999987 78999988664
No 216
>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ].; GO: 0005634 nucleus
Probab=90.97 E-value=2.9 Score=52.44 Aligned_cols=127 Identities=18% Similarity=0.222 Sum_probs=95.5
Q ss_pred ccHHHHHHH-HHHHhh--cCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEe
Q 000377 1409 CGKLEMLDR-LLPKLK--ATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLS 1485 (1605)
Q Consensus 1409 SgKle~L~~-LL~kL~--a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLS 1485 (1605)
..+++...+ +|+.+. ....++|||...---.-.|..+|...++.|+.++--++..+-.++-..|..+..+ ++|+|
T Consensus 280 d~Rf~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~~~--iLL~T 357 (442)
T PF06862_consen 280 DARFKYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHGRKP--ILLYT 357 (442)
T ss_pred hHHHHHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCCce--EEEEE
Confidence 457777765 777777 3457899999877777778999999999999999999999999999999888765 56666
Q ss_pred ccccc-cccCcccCCEEEEEcCCCChhhHHHHhhhhcccCC----CCcEEEEEEEeC
Q 000377 1486 IRAGG-VGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQ----KRDVLVLRFETV 1537 (1605)
Q Consensus 1486 TrAGG-eGLNLq~ADtVIiyDp~WNP~~d~QAiGRAhRIGQ----kKeV~VyRLIt~ 1537 (1605)
-++-= .=..+..+.+||+|.||-+|.-|...+.-...-.+ ..++.|.-|.+.
T Consensus 358 ER~HFfrRy~irGi~~viFY~~P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk 414 (442)
T PF06862_consen 358 ERFHFFRRYRIRGIRHVIFYGPPENPQFYSELLNMLDESSGGEVDAADATVTVLYSK 414 (442)
T ss_pred hHHhhhhhceecCCcEEEEECCCCChhHHHHHHhhhcccccccccccCceEEEEecH
Confidence 44421 13356779999999999999999988866554333 233444444444
No 217
>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=90.83 E-value=0.77 Score=49.81 Aligned_cols=141 Identities=16% Similarity=0.142 Sum_probs=69.6
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHH-HhCCCceEEE
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEIN-FWAPRIHKIV 1170 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~-KwaP~l~viv 1170 (1605)
|.+.++.+..++.++. .. |+..+.|.||+-.|.+++..++....... |-.... ....+. .-.|++..+.
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~------~c~~c~-~c~~~~~~~~~d~~~~~ 74 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNED------PCGECR-SCRRIEEGNHPDFIIIK 74 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--------SSSH-HHHHHHTT-CTTEEEEE
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCC------CCCCCH-HHHHHHhccCcceEEEe
Confidence 6677777887777653 33 78889999999999999988766543322 111111 122222 1223333332
Q ss_pred EcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC-ccchHHHHHHhhhccceeccc
Q 000377 1171 YCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN-ASCKLNADLKHYQSSHRLLLT 1249 (1605)
Q Consensus 1171 y~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN-~~SKlsraL~~L~a~~RLLLT 1249 (1605)
-.+... .+-+-....+......... .-.|.++||||||+|.. ....+-+.|.......+++|+
T Consensus 75 ~~~~~~---------------~i~i~~ir~i~~~~~~~~~-~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~ 138 (162)
T PF13177_consen 75 PDKKKK---------------SIKIDQIREIIEFLSLSPS-EGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILI 138 (162)
T ss_dssp TTTSSS---------------SBSHHHHHHHHHHCTSS-T-TSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEE
T ss_pred cccccc---------------hhhHHHHHHHHHHHHHHHh-cCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEE
Confidence 111100 0000000011111111111 13588999999999854 233445555566667777777
Q ss_pred ccCCCCCHH
Q 000377 1250 GTPLQNNLE 1258 (1605)
Q Consensus 1250 GTPlqNnl~ 1258 (1605)
.+-..+-+.
T Consensus 139 t~~~~~il~ 147 (162)
T PF13177_consen 139 TNNPSKILP 147 (162)
T ss_dssp ES-GGGS-H
T ss_pred ECChHHChH
Confidence 765444333
No 218
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.38 E-value=0.76 Score=59.79 Aligned_cols=41 Identities=24% Similarity=0.184 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+.++. .. ||..+.|+|||..+..++..+..
T Consensus 21 Qe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 21 QEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred cHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4455555555554443 33 78899999999999888877754
No 219
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=90.37 E-value=1.4 Score=57.54 Aligned_cols=42 Identities=21% Similarity=0.041 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhhcCCC---eEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1095 QMSGLRWLVSLYNNQLN---GILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~n---GILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
|..++..|...+..+.- .|+..+.|+|||..+..++..+...
T Consensus 21 Qe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647)
T PRK07994 21 QEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCE 65 (647)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhc
Confidence 56666666666655432 4789999999999998888777553
No 220
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=90.13 E-value=1.2 Score=47.60 Aligned_cols=54 Identities=20% Similarity=0.399 Sum_probs=35.6
Q ss_pred EEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEeccc--cccccCccc--CCEEEEEcCCC
Q 000377 1454 LRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIRA--GGVGVNLQA--ADTVIIFDTDW 1508 (1605)
Q Consensus 1454 lrLdGsts~eERqeiId~FN~gds~~~VfLLSTrA--GGeGLNLq~--ADtVIiyDp~W 1508 (1605)
+.+.+... .+..++++.|++.......+|+++.. ..||||++. +..||+.-.|+
T Consensus 23 i~~e~~~~-~~~~~~l~~f~~~~~~~g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPf 80 (142)
T smart00491 23 VFIEGKDS-GETEELLEKYSAACEARGALLLAVARGKVSEGIDFPDDLGRAVIIVGIPF 80 (142)
T ss_pred EEEECCCC-chHHHHHHHHHHhcCCCCEEEEEEeCCeeecceecCCCccEEEEEEecCC
Confidence 44445432 35578999998643210135666555 899999987 78999988664
No 221
>PRK07952 DNA replication protein DnaC; Validated
Probab=90.01 E-value=4.7 Score=46.97 Aligned_cols=61 Identities=20% Similarity=0.189 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHhhc---C-CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHH
Q 000377 1093 EYQMSGLRWLVSLYNN---Q-LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEIN 1160 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~n---~-~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~ 1160 (1605)
+.|..++..+.....+ + .+.+|....|+|||..+.+++.++...+ .+++++ .+..|...+.
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g---~~v~~i----t~~~l~~~l~ 143 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRG---KSVLII----TVADIMSAMK 143 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcC---CeEEEE----EHHHHHHHHH
Confidence 4566677666654332 1 3458899999999999999998886532 345555 2455555554
No 222
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=89.61 E-value=0.85 Score=54.28 Aligned_cols=42 Identities=19% Similarity=0.033 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHhhc--CCCeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1094 YQMSGLRWLVSLYNN--QLNGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1094 YQleGL~wLlsL~~n--~~nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
+|...|+-|...... ..+-++..+.|+|||-+++++...+..
T Consensus 40 gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred chHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 588888877765444 334578899999999999999988754
No 223
>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=89.53 E-value=1.3 Score=49.82 Aligned_cols=131 Identities=20% Similarity=0.259 Sum_probs=69.3
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceEEEEcCCh-hHHHHHHHhhhhcCCc
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHKIVYCGPP-EERRRLFKEKIVHQKF 1191 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~vivy~Gs~-~~R~~l~~~~i~~~~f 1191 (1605)
+|.-++|.|||-++.-+++++... ...+.+|+-..--.--.++++.|+-.+.+-++.-.. .+-..+....
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~---~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~------ 75 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK---GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREA------ 75 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT---T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHH------
T ss_pred EEECCCCCchHhHHHHHHHHHhhc---cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHH------
Confidence 578899999999998888877655 344666665444333455566665433333332111 0011111100
Q ss_pred cEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc---hHHHHHHhh-hccceecccccCCCCCHHHHHHHHHhh
Q 000377 1192 NVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC---KLNADLKHY-QSSHRLLLTGTPLQNNLEELWALLNFL 1267 (1605)
Q Consensus 1192 dVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S---KlsraL~~L-~a~~RLLLTGTPlqNnl~ELwsLLnFL 1267 (1605)
+ ..+...++++|+||-+-+..+... .+...+... .....|.|++|--+..+.++......+
T Consensus 76 ---------l------~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~ 140 (196)
T PF00448_consen 76 ---------L------EKFRKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAF 140 (196)
T ss_dssp ---------H------HHHHHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHS
T ss_pred ---------H------HHHhhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcc
Confidence 0 012234578999999877543322 222222222 334567888887666666555555444
No 224
>PRK08181 transposase; Validated
Probab=89.42 E-value=2.3 Score=50.17 Aligned_cols=46 Identities=22% Similarity=0.096 Sum_probs=34.0
Q ss_pred ccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
+.+-|...+.++......+.|.+|..++|+|||..+.++...+...
T Consensus 88 ~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~ 133 (269)
T PRK08181 88 VSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIEN 133 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHc
Confidence 3456777775553334567788999999999999998888777653
No 225
>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=89.22 E-value=1.4 Score=49.37 Aligned_cols=27 Identities=26% Similarity=0.053 Sum_probs=21.4
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
....+|.-+.|+|||..+.++..+...
T Consensus 38 ~~~lll~G~~G~GKT~la~~~~~~~~~ 64 (226)
T TIGR03420 38 DRFLYLWGESGSGKSHLLQAACAAAEE 64 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHh
Confidence 445688999999999999877766543
No 226
>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=88.77 E-value=2 Score=49.36 Aligned_cols=40 Identities=18% Similarity=0.201 Sum_probs=27.0
Q ss_pred cHHHHHHHHHHHHHhhcCC-CeEEEcCCCCcHHHHHHHHHH
Q 000377 1092 REYQMSGLRWLVSLYNNQL-NGILADEMGLGKTVQVIALIC 1131 (1605)
Q Consensus 1092 RpYQleGL~wLlsL~~n~~-nGILADEMGLGKTIqAIALI~ 1131 (1605)
.+.+..++..+......+. ..+|.-+.|+|||..+-.++.
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~ 65 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLK 65 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHH
Confidence 3455667766665555444 367899999999977765543
No 227
>CHL00181 cbbX CbbX; Provisional
Probab=88.73 E-value=0.42 Score=56.57 Aligned_cols=27 Identities=22% Similarity=0.258 Sum_probs=21.6
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
.+.+|.-++|+|||..|-++...+...
T Consensus 60 ~~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 456889999999999998887766543
No 228
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.72 E-value=1.9 Score=55.18 Aligned_cols=41 Identities=24% Similarity=0.238 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+..+. .. |+..+.|+|||-.|..++..+..
T Consensus 21 q~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (509)
T PRK14958 21 QAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNC 64 (509)
T ss_pred CHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 6666666666655432 23 78899999999998887776643
No 229
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.70 E-value=1.3 Score=57.70 Aligned_cols=40 Identities=25% Similarity=0.175 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...+..|...+.++. .+ |+..+.|+|||..|.+++..+.
T Consensus 20 Qe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 20 QNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 4455555555555543 33 8899999999999887777664
No 230
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.65 E-value=2.4 Score=51.84 Aligned_cols=40 Identities=20% Similarity=0.095 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...+..+...+..+. .. |+..+.|+|||..|-+++..+.
T Consensus 21 q~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 21 QKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 6677777666665542 34 7899999999999888776664
No 231
>PHA02533 17 large terminase protein; Provisional
Probab=88.44 E-value=5.7 Score=51.23 Aligned_cols=57 Identities=16% Similarity=0.126 Sum_probs=38.8
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
..|.|+|...+.+|.. +.-.++.-.=..|||..+.++++++.-... ..-+++++|..
T Consensus 58 f~L~p~Q~~i~~~~~~----~R~~ii~~aRq~GKStl~a~~al~~a~~~~-~~~v~i~A~~~ 114 (534)
T PHA02533 58 VQMRDYQKDMLKIMHK----NRFNACNLSRQLGKTTVVAIFLLHYVCFNK-DKNVGILAHKA 114 (534)
T ss_pred cCCcHHHHHHHHHHhc----CeEEEEEEcCcCChHHHHHHHHHHHHHhCC-CCEEEEEeCCH
Confidence 5799999999887632 223356666789999998777665544332 23577888854
No 232
>PF13245 AAA_19: Part of AAA domain
Probab=88.44 E-value=0.96 Score=43.39 Aligned_cols=42 Identities=24% Similarity=0.295 Sum_probs=32.6
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHh-cCCCCCEEEEecCCcc
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMET-KNDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~-k~~~gP~LIVvP~SLL 1152 (1605)
-.+|-...|+|||.+++..+.+++.. .....++||++|+...
T Consensus 12 ~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~a 54 (76)
T PF13245_consen 12 LFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAA 54 (76)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHH
Confidence 34568899999999999999998853 2225679999998754
No 233
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=88.35 E-value=2.2 Score=51.56 Aligned_cols=48 Identities=17% Similarity=0.231 Sum_probs=39.4
Q ss_pred CCccHHHHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
..++|+|....+.+...+..+. .-++..+.|+||+..|.+++..++-.
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~ 53 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLAS 53 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCC
Confidence 3689999999999888876654 24678899999999999999888754
No 234
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.10 E-value=1.6 Score=56.70 Aligned_cols=41 Identities=22% Similarity=0.091 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+..+. .. |+..+.|+|||..|..++..+..
T Consensus 18 q~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 18 QEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 6666666666655542 23 78999999999999888877654
No 235
>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=88.09 E-value=0.48 Score=55.93 Aligned_cols=39 Identities=21% Similarity=0.251 Sum_probs=26.2
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCC-CCCEEEEe
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKND-RGPFLVVV 1147 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~-~gP~LIVv 1147 (1605)
+.+.+|..++|+|||..|.++...+...... .++++.|.
T Consensus 58 ~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~ 97 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVT 97 (284)
T ss_pred CceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEec
Confidence 3467888999999999997777766544322 23444444
No 236
>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=88.01 E-value=2.2 Score=57.00 Aligned_cols=59 Identities=17% Similarity=0.090 Sum_probs=42.0
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL 1152 (1605)
+..|.+-|.+++..++. .+.-.+|....|+|||.+.-+++. .++.. ...+++++|+...
T Consensus 350 ~~~Ls~~Q~~Av~~i~~---s~~~~il~G~aGTGKTtll~~i~~-~~~~~--g~~V~~~ApTg~A 408 (744)
T TIGR02768 350 HYRLSEEQYEAVRHVTG---SGDIAVVVGRAGTGKSTMLKAARE-AWEAA--GYRVIGAALSGKA 408 (744)
T ss_pred cCCCCHHHHHHHHHHhc---CCCEEEEEecCCCCHHHHHHHHHH-HHHhC--CCeEEEEeCcHHH
Confidence 35789999999987653 233468889999999988766554 33332 3458888998754
No 237
>PRK06835 DNA replication protein DnaC; Validated
Probab=87.82 E-value=3 Score=50.53 Aligned_cols=48 Identities=19% Similarity=0.099 Sum_probs=35.7
Q ss_pred CCccHHHHHHHHHHHHHhh----cCCCeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1089 GKLREYQMSGLRWLVSLYN----NQLNGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~----n~~nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
+..+.+...++.++..... .+.+.+|..++|+|||..+.+++..++..
T Consensus 159 ~~~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~ 210 (329)
T PRK06835 159 LSPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDR 210 (329)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHC
Confidence 4667777777775554333 45677889999999999999888887653
No 238
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=87.80 E-value=3.9 Score=54.94 Aligned_cols=51 Identities=22% Similarity=0.280 Sum_probs=34.7
Q ss_pred CCCccCCCCccHHHHHHHHHHHHH-hhc-CC-CeE-EEcCCCCcHHHHHHHHHHHHHH
Q 000377 1082 QPTCLQGGKLREYQMSGLRWLVSL-YNN-QL-NGI-LADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1082 qP~~L~gg~LRpYQleGL~wLlsL-~~n-~~-nGI-LADEMGLGKTIqAIALI~~Lle 1135 (1605)
.|..|. -|+-|++-|..++.- +.. .. ++| |.-.+|+|||.++-.++..+.+
T Consensus 753 VPD~LP---hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 753 VPKYLP---CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred CCCcCC---ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 455443 588888888655543 332 22 343 8999999999999888776654
No 239
>PF13173 AAA_14: AAA domain
Probab=87.71 E-value=2.5 Score=43.66 Aligned_cols=38 Identities=24% Similarity=0.299 Sum_probs=25.8
Q ss_pred CccEEEEecCccccCccchHHHHHHhhhccceecccccC
Q 000377 1214 QWHYIIIDEGHRIKNASCKLNADLKHYQSSHRLLLTGTP 1252 (1605)
Q Consensus 1214 ~wd~VIIDEAHriKN~~SKlsraL~~L~a~~RLLLTGTP 1252 (1605)
...+|||||+|++.+....+...+... ....+++||+-
T Consensus 61 ~~~~i~iDEiq~~~~~~~~lk~l~d~~-~~~~ii~tgS~ 98 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDWEDALKFLVDNG-PNIKIILTGSS 98 (128)
T ss_pred CCcEEEEehhhhhccHHHHHHHHHHhc-cCceEEEEccc
Confidence 467899999999976444333333322 45689999985
No 240
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=87.69 E-value=5 Score=50.31 Aligned_cols=56 Identities=20% Similarity=0.230 Sum_probs=36.5
Q ss_pred CccEEEEecCccccCccch---HHHHHHh--hhccceecccccCCCCCHHHHHHHHHhhcC
Q 000377 1214 QWHYIIIDEGHRIKNASCK---LNADLKH--YQSSHRLLLTGTPLQNNLEELWALLNFLLP 1269 (1605)
Q Consensus 1214 ~wd~VIIDEAHriKN~~SK---lsraL~~--L~a~~RLLLTGTPlqNnl~ELwsLLnFL~P 1269 (1605)
.+++||||-+-+....... +...+.. ......|+|++|+-.+.+.+++..+..+.+
T Consensus 299 ~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~~~~~ 359 (424)
T PRK05703 299 DCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFSRLPL 359 (424)
T ss_pred CCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhCCCCC
Confidence 4799999998664332221 2222221 122446889999988888998888887655
No 241
>PRK08116 hypothetical protein; Validated
Probab=87.67 E-value=2.9 Score=49.19 Aligned_cols=36 Identities=25% Similarity=0.312 Sum_probs=27.0
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV 1147 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv 1147 (1605)
+.+.+|.-++|+|||..+.+++.++... ..+++++.
T Consensus 114 ~~gl~l~G~~GtGKThLa~aia~~l~~~---~~~v~~~~ 149 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAACIANELIEK---GVPVIFVN 149 (268)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHHc---CCeEEEEE
Confidence 3457889999999999999888888754 24455554
No 242
>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=87.50 E-value=3.1 Score=50.16 Aligned_cols=45 Identities=22% Similarity=0.172 Sum_probs=31.2
Q ss_pred ccHHHHHHHHHHHHH-hhc--CCCeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1091 LREYQMSGLRWLVSL-YNN--QLNGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL-~~n--~~nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
=|+.|++.+...+.- ... ..+.+|.-+.|+|||..+-+++..+.+
T Consensus 19 gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 19 HRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred CcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 377788776544433 222 245788999999999988777776654
No 243
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=87.21 E-value=2.8 Score=57.30 Aligned_cols=129 Identities=18% Similarity=0.171 Sum_probs=71.8
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCce
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIH 1167 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~ 1167 (1605)
+..|.+-|.+++..++. .+.-.+|.-..|+|||.+. ..+..+++.. ...+++++|+..... .+..-.
T Consensus 344 g~~Ls~eQr~Av~~il~---s~~v~vv~G~AGTGKTT~l-~~~~~~~e~~--G~~V~~~ApTGkAA~---~L~e~t---- 410 (988)
T PRK13889 344 GLVLSGEQADALAHVTD---GRDLGVVVGYAGTGKSAML-GVAREAWEAA--GYEVRGAALSGIAAE---NLEGGS---- 410 (988)
T ss_pred CCCCCHHHHHHHHHHhc---CCCeEEEEeCCCCCHHHHH-HHHHHHHHHc--CCeEEEecCcHHHHH---HHhhcc----
Confidence 45799999999987764 1224678889999999874 4454455443 234788888775332 121100
Q ss_pred EEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh-hcccee
Q 000377 1168 KIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY-QSSHRL 1246 (1605)
Q Consensus 1168 vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L-~a~~RL 1246 (1605)
|.... |...+..............++|||||+-.+... .+.+.+... ....+|
T Consensus 411 -----Gi~a~-------------------TI~sll~~~~~~~~~l~~~~vlIVDEASMv~~~--~m~~LL~~a~~~garv 464 (988)
T PRK13889 411 -----GIASR-------------------TIASLEHGWGQGRDLLTSRDVLVIDEAGMVGTR--QLERVLSHAADAGAKV 464 (988)
T ss_pred -----Ccchh-------------------hHHHHHhhhcccccccccCcEEEEECcccCCHH--HHHHHHHhhhhCCCEE
Confidence 11000 000000000001111234579999999987432 333444433 556789
Q ss_pred cccccCCCC
Q 000377 1247 LLTGTPLQN 1255 (1605)
Q Consensus 1247 LLTGTPlqN 1255 (1605)
+|.|=|-|-
T Consensus 465 VLVGD~~QL 473 (988)
T PRK13889 465 VLVGDPQQL 473 (988)
T ss_pred EEECCHHHc
Confidence 999987553
No 244
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.16 E-value=1.8 Score=55.31 Aligned_cols=42 Identities=17% Similarity=0.145 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhhcCCCe---EEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1095 QMSGLRWLVSLYNNQLNG---ILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~nG---ILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
|..++..|...+..+.-+ |+.-+.|+|||..+.+++..+...
T Consensus 19 q~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 19 QEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 566666666665555433 889999999999998888777543
No 245
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=86.99 E-value=0.31 Score=53.03 Aligned_cols=40 Identities=23% Similarity=0.547 Sum_probs=27.1
Q ss_pred CCccEEEEcHHHHhhccCCCcc--cccCccEEEEecCccccC
Q 000377 1189 QKFNVLLTTYEYLMNKHDRPKL--SKIQWHYIIIDEGHRIKN 1228 (1605)
Q Consensus 1189 ~~fdVVITTYe~L~k~~D~~~L--~ki~wd~VIIDEAHriKN 1228 (1605)
...+|||++|.+|....-+..+ ...+-.+|||||||++-+
T Consensus 118 ~~adivi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 118 KNADIVICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNLED 159 (174)
T ss_dssp GG-SEEEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGCGG
T ss_pred ccCCEEEeCHHHHhhHHHHhhhccccccCcEEEEecccchHH
Confidence 5689999999999764322222 223457899999999854
No 246
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=86.90 E-value=1.6 Score=54.06 Aligned_cols=41 Identities=17% Similarity=0.076 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHhhcCC------------CeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL------------NGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~------------nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|..++..+...+..+. .-|+..+.|+|||..|.+++..+..
T Consensus 10 q~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c 62 (394)
T PRK07940 10 QEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQC 62 (394)
T ss_pred hHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC
Confidence 5555555555554432 2468899999999999888876654
No 247
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=86.77 E-value=2.5 Score=50.11 Aligned_cols=40 Identities=25% Similarity=0.288 Sum_probs=25.0
Q ss_pred CccEEEEecCccccCcc--chHHHHHHhhhccceecccccCC
Q 000377 1214 QWHYIIIDEGHRIKNAS--CKLNADLKHYQSSHRLLLTGTPL 1253 (1605)
Q Consensus 1214 ~wd~VIIDEAHriKN~~--SKlsraL~~L~a~~RLLLTGTPl 1253 (1605)
..++|||||+|++.... ..+...+..+....++++|++..
T Consensus 100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~ 141 (316)
T PHA02544 100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNK 141 (316)
T ss_pred CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCCh
Confidence 35799999999983322 22333344445566788887654
No 248
>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=86.62 E-value=1.1 Score=52.10 Aligned_cols=56 Identities=21% Similarity=0.213 Sum_probs=41.6
Q ss_pred ccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc-CCCCCEEEEecCCcc
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK-NDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k-~~~gP~LIVvP~SLL 1152 (1605)
|.+-|.+++.+ . ....++-...|+|||.+.+.-+.+++..+ .....+|+|+++...
T Consensus 1 l~~eQ~~~i~~-~-----~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~a 57 (315)
T PF00580_consen 1 LTDEQRRIIRS-T-----EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAA 57 (315)
T ss_dssp S-HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHH
T ss_pred CCHHHHHHHhC-C-----CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHH
Confidence 55779998886 2 34556666699999999999999988876 344569999998753
No 249
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.51 E-value=2 Score=55.99 Aligned_cols=41 Identities=22% Similarity=0.131 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhcCCC--e-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQLN--G-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~n--G-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+.++.- . |+..+.|+|||..+..++..+..
T Consensus 21 Qe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 21 QEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 66777777776665532 3 78899999999999888777654
No 250
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.02 E-value=3.1 Score=53.65 Aligned_cols=41 Identities=27% Similarity=0.160 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHhhcCCC---eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQLN---GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~n---GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|..++..+...+..+.. -|+..+.|+|||..|..++.++..
T Consensus 21 q~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 21 QQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 55555556666555432 468999999999999888877653
No 251
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=85.92 E-value=2.9 Score=55.02 Aligned_cols=40 Identities=23% Similarity=0.149 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...+..|...+..+. ..||..+.|+|||..+..++..+.
T Consensus 21 Qe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln 63 (709)
T PRK08691 21 QEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN 63 (709)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence 5555565555555443 348899999999999988877664
No 252
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=85.66 E-value=3.3 Score=53.04 Aligned_cols=41 Identities=20% Similarity=0.057 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..+...+.++. ..||..+.|+|||..|-.++..+..
T Consensus 26 q~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 26 QEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 6666666666555543 4688999999999999887776643
No 253
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=85.63 E-value=0.83 Score=52.56 Aligned_cols=72 Identities=19% Similarity=0.248 Sum_probs=54.5
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHh
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFW 1162 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~Kw 1162 (1605)
+..+||-|.+.+..|.+. ..+.|.++-.-||-|||-+.+=+++.++..+ .+=+-+|||..++.+-..-+...
T Consensus 21 ~iliR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTsVI~Pmla~~LAdg--~~LvrviVpk~Ll~q~~~~L~~~ 92 (229)
T PF12340_consen 21 NILIRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTSVIVPMLALALADG--SRLVRVIVPKALLEQMRQMLRSR 92 (229)
T ss_pred CceeeHHHHHHHHHHhCC-CCCCCeEeeecccCCccchHHHHHHHHHcCC--CcEEEEEcCHHHHHHHHHHHHHH
Confidence 467999999999999873 4567889999999999988776666555332 23367899999988866666543
No 254
>PRK08727 hypothetical protein; Validated
Probab=85.57 E-value=5.1 Score=45.96 Aligned_cols=24 Identities=29% Similarity=0.250 Sum_probs=19.8
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1112 GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
.+|..+.|+|||-.+.++...+..
T Consensus 44 l~l~G~~G~GKThL~~a~~~~~~~ 67 (233)
T PRK08727 44 LYLSGPAGTGKTHLALALCAAAEQ 67 (233)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH
Confidence 688999999999888887776654
No 255
>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=85.35 E-value=5.4 Score=51.07 Aligned_cols=95 Identities=15% Similarity=0.139 Sum_probs=74.5
Q ss_pred hhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc-CceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEe
Q 000377 1407 RLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK-QYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLS 1485 (1605)
Q Consensus 1407 r~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~-GikylrLdGsts~eERqeiId~FN~gds~~~VfLLS 1485 (1605)
..|||.+....++......|.++||.+.....+..+.+.|... +..+..++|.++..+|.+...+...++.+ |++.
T Consensus 6 TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~---IVVG 82 (505)
T TIGR00595 6 TGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEIL---VVIG 82 (505)
T ss_pred CCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCC---EEEC
Confidence 4589999999889888888999999999999888888877653 67889999999999998888777666655 5666
Q ss_pred ccccccccCcccCCEEEEEc
Q 000377 1486 IRAGGVGVNLQAADTVIIFD 1505 (1605)
Q Consensus 1486 TrAGGeGLNLq~ADtVIiyD 1505 (1605)
|+..= =+-+...+.||+-+
T Consensus 83 Trsal-f~p~~~l~lIIVDE 101 (505)
T TIGR00595 83 TRSAL-FLPFKNLGLIIVDE 101 (505)
T ss_pred ChHHH-cCcccCCCEEEEEC
Confidence 66532 24466677777655
No 256
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=85.32 E-value=3.7 Score=49.80 Aligned_cols=46 Identities=20% Similarity=0.229 Sum_probs=34.9
Q ss_pred CccHHHHHHHHHHHHHhhcCCCe-EEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNG-ILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nG-ILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
.++|+|....+.++.. ..-..+ ++..+.|+|||..|.+++..++-.
T Consensus 3 ~~yPWl~~~~~~~~~~-~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 3 EIYPWQQSLWQQLAGR-GRHPHAYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred cCCCCcHHHHHHHHHC-CCcceeeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 4689999999887764 222223 578899999999999999888654
No 257
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=85.25 E-value=0.59 Score=60.22 Aligned_cols=165 Identities=16% Similarity=0.225 Sum_probs=98.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccchHH-HHHHh---C
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGWES-EINFW---A 1163 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~-Ef~Kw---a 1163 (1605)
....|||.+.++.|..-. -....+.-..-+|||.+.+.++.|.+.. ..+|+|+|.|+. ....|.. .|... .
T Consensus 15 ~~~~Py~~eimd~~~~~~--v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~--~P~~~l~v~Pt~~~a~~~~~~rl~Pmi~~s 90 (557)
T PF05876_consen 15 TDRTPYLREIMDALSDPS--VREVVVMKSAQVGKTELLLNWIGYSIDQ--DPGPMLYVQPTDDAAKDFSKERLDPMIRAS 90 (557)
T ss_pred CCCChhHHHHHHhcCCcC--ccEEEEEEcchhhHhHHHHhhceEEEEe--CCCCEEEEEEcHHHHHHHHHHHHHHHHHhC
Confidence 578999999988665411 2345677788999999888888777654 458899999987 4566753 34332 2
Q ss_pred CCceEEEEc-CChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCcccc----CccchHHHHH-
Q 000377 1164 PRIHKIVYC-GPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIK----NASCKLNADL- 1237 (1605)
Q Consensus 1164 P~l~vivy~-Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriK----N~~SKlsraL- 1237 (1605)
|.++-.+.. ........+....+ ....+.++.... ...|.....++||+||...+- +.......+.
T Consensus 91 p~l~~~~~~~~~~~~~~t~~~k~f--~gg~l~~~ga~S------~~~l~s~~~r~~~~DEvD~~p~~~~~eGdp~~la~~ 162 (557)
T PF05876_consen 91 PVLRRKLSPSKSRDSGNTILYKRF--PGGFLYLVGANS------PSNLRSRPARYLLLDEVDRYPDDVGGEGDPVELAEK 162 (557)
T ss_pred HHHHHHhCchhhcccCCchhheec--CCCEEEEEeCCC------CcccccCCcCEEEEechhhccccCccCCCHHHHHHH
Confidence 333322211 00000111111111 122344443332 235777788999999999982 3334444333
Q ss_pred --HhhhccceecccccCCCCCHHHHHHHHH
Q 000377 1238 --KHYQSSHRLLLTGTPLQNNLEELWALLN 1265 (1605)
Q Consensus 1238 --~~L~a~~RLLLTGTPlqNnl~ELwsLLn 1265 (1605)
..|.....+++..||.......++.++.
T Consensus 163 R~~tf~~~~K~~~~STPt~~~~~~I~~~~~ 192 (557)
T PF05876_consen 163 RTKTFGSNRKILRISTPTIEGTSRIERLYE 192 (557)
T ss_pred HHhhhccCcEEEEeCCCCCCCCCHHHHHHH
Confidence 3455678899999998776666666554
No 258
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.24 E-value=4.1 Score=53.43 Aligned_cols=41 Identities=20% Similarity=-0.010 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhhcCCC---eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQLN---GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~n---GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+..+.- -|+..+.|+|||..|.+++..+..
T Consensus 21 q~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 21 QEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred hHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcC
Confidence 56666666666665533 378999999999999988887754
No 259
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.24 E-value=1.6 Score=55.23 Aligned_cols=23 Identities=35% Similarity=0.228 Sum_probs=18.8
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1112 GILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Ll 1134 (1605)
-|+..+.|+|||..|-+++..+.
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 38899999999999877776553
No 260
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=84.14 E-value=4.6 Score=51.98 Aligned_cols=41 Identities=22% Similarity=0.101 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHhhcCCC--e-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQLN--G-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~n--G-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|..++..|...+..+.- . |+..+.|+|||-.+.+++..+..
T Consensus 19 qe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 19 QESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence 55555555555554432 2 78999999999999888877654
No 261
>PRK05580 primosome assembly protein PriA; Validated
Probab=84.04 E-value=6.7 Score=52.04 Aligned_cols=95 Identities=15% Similarity=0.105 Sum_probs=74.7
Q ss_pred hhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh-cCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEe
Q 000377 1407 RLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF-KQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLS 1485 (1605)
Q Consensus 1407 r~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~-~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLS 1485 (1605)
..+||.......+......|.++||.+.....+..+.+.|.. .|..+..++|+++..+|.+...+...++.+ ++++
T Consensus 171 TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~---IVVg 247 (679)
T PRK05580 171 TGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAK---VVIG 247 (679)
T ss_pred CCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCC---EEEe
Confidence 347899988888877777899999999999998888887765 478899999999999998888888777665 6677
Q ss_pred ccccccccCcccCCEEEEEc
Q 000377 1486 IRAGGVGVNLQAADTVIIFD 1505 (1605)
Q Consensus 1486 TrAGGeGLNLq~ADtVIiyD 1505 (1605)
|+..- =+.+.....||+-+
T Consensus 248 Trsal-~~p~~~l~liVvDE 266 (679)
T PRK05580 248 ARSAL-FLPFKNLGLIIVDE 266 (679)
T ss_pred ccHHh-cccccCCCEEEEEC
Confidence 76432 25566777777665
No 262
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=84.02 E-value=6.2 Score=46.45 Aligned_cols=39 Identities=28% Similarity=0.237 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHhhcC--CCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQ--LNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~--~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
|.+++..+......+ .+.+|.-+.|+|||..+-+++..+
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l 62 (319)
T PRK00440 22 QEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALAREL 62 (319)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence 344555555544433 246899999999998887776655
No 263
>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=83.96 E-value=5.6 Score=49.20 Aligned_cols=42 Identities=21% Similarity=0.191 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHhhc---CCC-eEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1095 QMSGLRWLVSLYNN---QLN-GILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1095 QleGL~wLlsL~~n---~~n-GILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
...++..+.....+ ..+ .+|..+.|+|||..+-++..++.+.
T Consensus 118 n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~ 163 (405)
T TIGR00362 118 NRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILEN 163 (405)
T ss_pred HHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 33344444444333 123 4789999999999998887777654
No 264
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=83.93 E-value=4.6 Score=50.73 Aligned_cols=43 Identities=23% Similarity=0.250 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhhcC---CC-eEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1094 YQMSGLRWLVSLYNNQ---LN-GILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1094 YQleGL~wLlsL~~n~---~n-GILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
....++.++.....+. .+ .+|..+.|+|||..+-++...+.+.
T Consensus 129 ~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~ 175 (450)
T PRK00149 129 SNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEK 175 (450)
T ss_pred CcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 3444555555544332 23 5789999999999988877776553
No 265
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=83.85 E-value=1.4 Score=50.79 Aligned_cols=27 Identities=33% Similarity=0.424 Sum_probs=22.3
Q ss_pred cCCCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1108 NQLNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1108 n~~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|-.+-|++.+.|+|||..+.+++..|+
T Consensus 47 nmP~liisGpPG~GKTTsi~~LAr~LL 73 (333)
T KOG0991|consen 47 NMPNLIISGPPGTGKTTSILCLARELL 73 (333)
T ss_pred CCCceEeeCCCCCchhhHHHHHHHHHh
Confidence 335679999999999999988887765
No 266
>PRK08084 DNA replication initiation factor; Provisional
Probab=83.58 E-value=5 Score=46.10 Aligned_cols=38 Identities=21% Similarity=0.024 Sum_probs=24.6
Q ss_pred HHHHHHHHHhh--cCCCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1097 SGLRWLVSLYN--NQLNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1097 eGL~wLlsL~~--n~~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
.++.++..... .....+|.-+.|+|||-.+.++..++.
T Consensus 31 ~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~ 70 (235)
T PRK08084 31 SLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS 70 (235)
T ss_pred HHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 34444444322 223568899999999988877666554
No 267
>KOG0442 consensus Structure-specific endonuclease ERCC1-XPF, catalytic component XPF/ERCC4 [Replication, recombination and repair]
Probab=83.54 E-value=23 Score=47.32 Aligned_cols=145 Identities=20% Similarity=0.188 Sum_probs=76.7
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHH-HHHhC--CCc
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESE-INFWA--PRI 1166 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~E-f~Kwa--P~l 1166 (1605)
.|.+||.+.+.-++. ..++++....|||=--.++.++..+ -..+ .|+++=+ ...|..+ |.... +.+
T Consensus 13 ~lL~Ye~qv~~~ll~----~d~~L~V~a~GLsl~~l~~~~l~~~----s~~~-sL~LvLN--~~~~ee~~f~s~lk~~~~ 81 (892)
T KOG0442|consen 13 ALLEYEQQVLLELLE----ADGNLLVLAPGLSLLRLVAELLILF----SPPG-SLVLVLN--TQEAEEEYFSSKLKEPLV 81 (892)
T ss_pred ccchhHHHHHHhhhc----ccCceEEecCCcCHHHHHHHHHHHh----CCcc-ceEEEec--CchhhHHHHHHhcCcCCC
Confidence 388999999976663 4555777778998665554444322 2223 3444433 3446665 11111 111
Q ss_pred eEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhhhccce-
Q 000377 1167 HKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQSSHR- 1245 (1605)
Q Consensus 1167 ~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~a~~R- 1245 (1605)
..+.-.-+.+.|...+. ...|+++|--.|..+.-...+...+...++++=||.+.+.. .-+-+++.|..+++
T Consensus 82 t~~~s~ls~~~R~~~Yl------~GGv~fiSsRiLvvDlLt~rIp~~ki~gI~vl~Ah~i~ets-~eaFIlRl~R~knk~ 154 (892)
T KOG0442|consen 82 TEDPSELSVNKRRSKYL------EGGVFFISSRILVVDLLTGRIPTEKITGILVLNAHTISETS-QEAFILRLYRSKNKT 154 (892)
T ss_pred ccChhhcchhhhHHhhh------cCCeEEeeeceeeeehhcCccchhHcceEEEechhhhhhcc-hhHHHHHHHHHhcCC
Confidence 11111123334443332 23455555555544333344555567889999999997643 33445555544443
Q ss_pred ---ecccccC
Q 000377 1246 ---LLLTGTP 1252 (1605)
Q Consensus 1246 ---LLLTGTP 1252 (1605)
=+.|--|
T Consensus 155 gfIkAFsd~P 164 (892)
T KOG0442|consen 155 GFIKAFSDSP 164 (892)
T ss_pred cceeccccCc
Confidence 3445544
No 268
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.37 E-value=5.3 Score=52.05 Aligned_cols=40 Identities=18% Similarity=0.097 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhhcCCCe---EEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQLNG---ILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~nG---ILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|..++.+|...+..+.-+ |+.-+.|+|||..+..++..+.
T Consensus 21 q~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 21 QEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred CHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence 677777777766655433 7899999999999988887664
No 269
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.34 E-value=5.6 Score=50.74 Aligned_cols=41 Identities=22% Similarity=0.139 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+..+. .-|+..+.|+|||-.|..++..+..
T Consensus 18 Qe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC 61 (491)
T PRK14964 18 QDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNC 61 (491)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcC
Confidence 4555555555544432 3578999999999988777665543
No 270
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=83.29 E-value=4.2 Score=53.06 Aligned_cols=42 Identities=24% Similarity=0.175 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1095 QMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
|...+..+...+..+. .-||..+.|+|||..|..++..+...
T Consensus 29 q~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 29 QEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 5555555555555543 35788999999999998888776543
No 271
>PRK04195 replication factor C large subunit; Provisional
Probab=83.25 E-value=5 Score=50.91 Aligned_cols=25 Identities=28% Similarity=0.182 Sum_probs=19.1
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
....||..+.|+|||..+-+++..+
T Consensus 39 ~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHc
Confidence 3457899999999998886665543
No 272
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=83.09 E-value=14 Score=46.26 Aligned_cols=147 Identities=11% Similarity=0.090 Sum_probs=74.8
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC----cccchHHHHHHhCCCceEEEEcCChhHHHHHHHhhhh
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS----VLPGWESEINFWAPRIHKIVYCGPPEERRRLFKEKIV 1187 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S----LL~nW~~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~ 1187 (1605)
..|.-++|+|||..+..++..+... ...+++|.-.. .+.||..-.+.. ++.+++. .
T Consensus 244 I~LVGptGvGKTTTiaKLA~~L~~~---GkkVglI~aDt~RiaAvEQLk~yae~l--gipv~v~-~-------------- 303 (436)
T PRK11889 244 IALIGPTGVGKTTTLAKMAWQFHGK---KKTVGFITTDHSRIGTVQQLQDYVKTI--GFEVIAV-R-------------- 303 (436)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHc---CCcEEEEecCCcchHHHHHHHHHhhhc--CCcEEec-C--------------
Confidence 4678899999999988777766432 23455555422 234444321111 1222211 1
Q ss_pred cCCccEEEEcHHHHhhccCCCcccc-cCccEEEEecCccccCccchHH---HHHHhhhcc-ceecccccCCCCCHHHHHH
Q 000377 1188 HQKFNVLLTTYEYLMNKHDRPKLSK-IQWHYIIIDEGHRIKNASCKLN---ADLKHYQSS-HRLLLTGTPLQNNLEELWA 1262 (1605)
Q Consensus 1188 ~~~fdVVITTYe~L~k~~D~~~L~k-i~wd~VIIDEAHriKN~~SKls---raL~~L~a~-~RLLLTGTPlqNnl~ELws 1262 (1605)
+...+.... ..+.. .++++||||-+=+..+....+. +.+...... ..|.|+||--.+.+.++..
T Consensus 304 ---------d~~~L~~aL--~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~ 372 (436)
T PRK11889 304 ---------DEAAMTRAL--TYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIIT 372 (436)
T ss_pred ---------CHHHHHHHH--HHHHhccCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHH
Confidence 122221100 01111 2579999999866443322222 222222222 2355888876677777777
Q ss_pred HHHhhcCC-----------CCCChHHHHHHhcccccCC
Q 000377 1263 LLNFLLPN-----------IFNSSEDFSQWFNKPFESN 1289 (1605)
Q Consensus 1263 LLnFL~P~-----------if~s~~~F~e~F~kP~e~~ 1289 (1605)
.++.+... -++..-+....+..|+...
T Consensus 373 ~F~~~~idglI~TKLDET~k~G~iLni~~~~~lPIsyi 410 (436)
T PRK11889 373 NFKDIHIDGIVFTKFDETASSGELLKIPAVSSAPIVLM 410 (436)
T ss_pred HhcCCCCCEEEEEcccCCCCccHHHHHHHHHCcCEEEE
Confidence 76654332 2344455666677776543
No 273
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=82.42 E-value=1.5e+02 Score=39.70 Aligned_cols=22 Identities=27% Similarity=0.212 Sum_probs=17.6
Q ss_pred CCCccccccccCcCCCCCCCCC
Q 000377 431 SVPGTAMLRTMASRDTGKSSVS 452 (1605)
Q Consensus 431 ~~~~~~~~~~~~~~~~~~~~~~ 452 (1605)
+.+-+.-|-+.+||.++.+||+
T Consensus 114 sls~~qpL~~a~p~~m~~s~v~ 135 (1118)
T KOG1029|consen 114 SLSYSQPLPPAAPRRMSSSPVV 135 (1118)
T ss_pred CcCcCCCCCcccccccCCCccC
Confidence 4566777788899999988888
No 274
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.38 E-value=9.7 Score=47.25 Aligned_cols=41 Identities=17% Similarity=0.018 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHhhcCC--C-eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--N-GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--n-GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|..++..|...+.++. . -|+..+.|+|||..|.+++..+..
T Consensus 21 q~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 21 QEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred hHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 5566666666655542 2 468899999999999888877654
No 275
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=82.20 E-value=7.4 Score=47.52 Aligned_cols=45 Identities=29% Similarity=0.321 Sum_probs=29.1
Q ss_pred cHHHHHHHHHHH-HHhh--cCCCeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1092 REYQMSGLRWLV-SLYN--NQLNGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1092 RpYQleGL~wLl-sL~~--n~~nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
|+-+++-+.-.+ .... ...+.+|..+.|+|||..+-.++..+...
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~ 82 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEI 82 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 555555554333 2222 23457899999999999988777766543
No 276
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=81.64 E-value=26 Score=45.33 Aligned_cols=38 Identities=18% Similarity=0.108 Sum_probs=24.6
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV 1147 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv 1147 (1605)
+...+|..++|.|||..+..|+..+...... +.+.+|.
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~g-kkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAP-RDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCC-CceEEEe
Confidence 4445677889999999987777766543222 2344444
No 277
>PRK14974 cell division protein FtsY; Provisional
Probab=81.58 E-value=9.6 Score=46.49 Aligned_cols=34 Identities=21% Similarity=0.284 Sum_probs=23.0
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEec
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVP 1148 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP 1148 (1605)
.++....|+|||.++..++.++... ..+++++..
T Consensus 143 i~~~G~~GvGKTTtiakLA~~l~~~---g~~V~li~~ 176 (336)
T PRK14974 143 IVFVGVNGTGKTTTIAKLAYYLKKN---GFSVVIAAG 176 (336)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHc---CCeEEEecC
Confidence 4678899999998887777665432 234555554
No 278
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=81.53 E-value=14 Score=45.80 Aligned_cols=126 Identities=14% Similarity=0.114 Sum_probs=64.6
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCC--ceEEEEcCChhHHHHHHHhhh
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPR--IHKIVYCGPPEERRRLFKEKI 1186 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~--l~vivy~Gs~~~R~~l~~~~i 1186 (1605)
+...+|.-++|.|||.++..++..+....+. .++.+|+-...-..=.+.+..|+.. +.+.......+-.
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~-~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~-------- 207 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGA-SKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQ-------- 207 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCC-CeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHH--------
Confidence 4456788999999999998888766543221 2355555433322223444444321 2221111111100
Q ss_pred hcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh-----hccceecccccCCCCCHHHHH
Q 000377 1187 VHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY-----QSSHRLLLTGTPLQNNLEELW 1261 (1605)
Q Consensus 1187 ~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L-----~a~~RLLLTGTPlqNnl~ELw 1261 (1605)
.... .+ .+.++|+||++=+.-.. ..+...+..+ .....|.|++|--...+.+++
T Consensus 208 -------------~~l~-----~l--~~~DlVLIDTaG~~~~d-~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi 266 (374)
T PRK14722 208 -------------LALA-----EL--RNKHMVLIDTIGMSQRD-RTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVV 266 (374)
T ss_pred -------------HHHH-----Hh--cCCCEEEEcCCCCCccc-HHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHH
Confidence 0000 11 23589999998554221 2233333333 123468899998766666664
Q ss_pred HHH
Q 000377 1262 ALL 1264 (1605)
Q Consensus 1262 sLL 1264 (1605)
.-+
T Consensus 267 ~~f 269 (374)
T PRK14722 267 QAY 269 (374)
T ss_pred HHH
Confidence 433
No 279
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=81.46 E-value=4.2 Score=49.18 Aligned_cols=43 Identities=16% Similarity=0.147 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1094 YQMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1094 YQleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
.|..++..+...+..+. .. |+..+.|+|||..|..++..++..
T Consensus 10 ~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 10 LQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred hHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 46666776666665542 34 789999999999998888776543
No 280
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=81.10 E-value=1.4 Score=59.06 Aligned_cols=116 Identities=21% Similarity=0.220 Sum_probs=74.3
Q ss_pred HhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-----ccchHHHHHHhCCCceEEEEcCChhHHH
Q 000377 1105 LYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-----LPGWESEINFWAPRIHKIVYCGPPEERR 1179 (1605)
Q Consensus 1105 L~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-----L~nW~~Ef~KwaP~l~vivy~Gs~~~R~ 1179 (1605)
+|.-..+.++.+++|.|||+.+-..+.+.+...+ .+.+++|+|..- ...|..-+. .|+++++-..|....--
T Consensus 939 ~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p-~~kvvyIap~kalvker~~Dw~~r~~--~~g~k~ie~tgd~~pd~ 1015 (1230)
T KOG0952|consen 939 LYHTDLNFLLGAPTGSGKTVVAELAIFRALSYYP-GSKVVYIAPDKALVKERSDDWSKRDE--LPGIKVIELTGDVTPDV 1015 (1230)
T ss_pred EeecchhhhhcCCccCcchhHHHHHHHHHhccCC-CccEEEEcCCchhhcccccchhhhcc--cCCceeEeccCccCCCh
Confidence 3445567789999999999998655555444433 466999999753 245876554 34777777776653221
Q ss_pred HHHHhhhhcCCccEEEEcHHHHhhccCCCc--ccccCccEEEEecCccccCc
Q 000377 1180 RLFKEKIVHQKFNVLLTTYEYLMNKHDRPK--LSKIQWHYIIIDEGHRIKNA 1229 (1605)
Q Consensus 1180 ~l~~~~i~~~~fdVVITTYe~L~k~~D~~~--L~ki~wd~VIIDEAHriKN~ 1229 (1605)
......+++|||++.......... -.-..+..+|+||.|.++..
T Consensus 1016 ------~~v~~~~~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~ 1061 (1230)
T KOG0952|consen 1016 ------KAVREADIVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGED 1061 (1230)
T ss_pred ------hheecCceEEcccccccCccccccchhhhccccceeecccccccCC
Confidence 122567999999998753221000 11123467999999998764
No 281
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=80.86 E-value=17 Score=47.79 Aligned_cols=143 Identities=11% Similarity=0.156 Sum_probs=73.7
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc-ccc----hHHHHHHhCCCceEEEEcCChhHHHHHHHhhh
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV-LPG----WESEINFWAPRIHKIVYCGPPEERRRLFKEKI 1186 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL-L~n----W~~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i 1186 (1605)
.+..-+=--|||.....+|..++.... .-.+++++|..- ... ...-+++|+|...+....|.. + .-.+
T Consensus 257 tVflVPRR~GKTwivv~iI~~ll~s~~-Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~vkGe~-----I-~i~f 329 (738)
T PHA03368 257 TVFLVPRRHGKTWFLVPLIALALATFR-GIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHVKGET-----I-SFSF 329 (738)
T ss_pred eEEEecccCCchhhHHHHHHHHHHhCC-CCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeeecCcE-----E-EEEe
Confidence 355556788999988777766654433 234888888643 222 334456787654332323310 0 0001
Q ss_pred hcCC-ccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh--hccceecccccC-----------
Q 000377 1187 VHQK-FNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY--QSSHRLLLTGTP----------- 1252 (1605)
Q Consensus 1187 ~~~~-fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L--~a~~RLLLTGTP----------- 1252 (1605)
..+. ..+.+.| ......++...++++|||||+-++. ..+...+-.+ .....|.+|-|-
T Consensus 330 ~nG~kstI~FaS------arntNsiRGqtfDLLIVDEAqFIk~--~al~~ilp~l~~~n~k~I~ISS~Ns~~~sTSFL~n 401 (738)
T PHA03368 330 PDGSRSTIVFAS------SHNTNGIRGQDFNLLFVDEANFIRP--DAVQTIMGFLNQTNCKIIFVSSTNTGKASTSFLYN 401 (738)
T ss_pred cCCCccEEEEEe------ccCCCCccCCcccEEEEechhhCCH--HHHHHHHHHHhccCccEEEEecCCCCccchHHHHh
Confidence 1111 1222221 1123456677899999999999975 2222333222 234456666442
Q ss_pred CCCCHHHHHHHHHhhcC
Q 000377 1253 LQNNLEELWALLNFLLP 1269 (1605)
Q Consensus 1253 lqNnl~ELwsLLnFL~P 1269 (1605)
+.|..++|.+.+.|+++
T Consensus 402 Lk~a~~~lLNVVsYvCd 418 (738)
T PHA03368 402 LKGAADELLNVVTYICD 418 (738)
T ss_pred hcCchhhheeeEEEECh
Confidence 33444555555555544
No 282
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=80.71 E-value=9.4 Score=49.59 Aligned_cols=40 Identities=15% Similarity=0.036 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHhhcC--CC-eEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQ--LN-GILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~--~n-GILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...+..+...+..+ .. -|++.+.|+|||..|-.++..+.
T Consensus 21 q~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 21 QEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 444555555544443 23 36799999999999877776654
No 283
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=80.53 E-value=6.6 Score=47.12 Aligned_cols=44 Identities=23% Similarity=0.240 Sum_probs=27.3
Q ss_pred cccccCccEEEEecCccc-cCccchHHHHHH---hhhcc--ceecccccC
Q 000377 1209 KLSKIQWHYIIIDEGHRI-KNASCKLNADLK---HYQSS--HRLLLTGTP 1252 (1605)
Q Consensus 1209 ~L~ki~wd~VIIDEAHri-KN~~SKlsraL~---~L~a~--~RLLLTGTP 1252 (1605)
.+..+...++||||.|++ .....+....+. .+... --+.+.||+
T Consensus 140 llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~ 189 (302)
T PF05621_consen 140 LLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR 189 (302)
T ss_pred HHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence 466778899999999996 444444443333 33222 235677876
No 284
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.52 E-value=7.1 Score=50.33 Aligned_cols=40 Identities=25% Similarity=0.232 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...+..+...+..+. .. |+..+.|+|||..|-.++..+.
T Consensus 21 q~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 21 QEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLN 63 (527)
T ss_pred cHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence 5666666666555432 33 7899999999998887777664
No 285
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=80.50 E-value=15 Score=46.32 Aligned_cols=35 Identities=20% Similarity=0.315 Sum_probs=24.5
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV 1147 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv 1147 (1605)
.+|..+.|+|||..+-++..++.+.... ..++.|.
T Consensus 133 l~lyG~~G~GKTHLl~ai~~~l~~~~~~-~~v~yi~ 167 (440)
T PRK14088 133 LFIYGGVGLGKTHLLQSIGNYVVQNEPD-LRVMYIT 167 (440)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHHHhCCC-CeEEEEE
Confidence 5789999999999988777776654322 2345444
No 286
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=80.28 E-value=3 Score=48.96 Aligned_cols=26 Identities=27% Similarity=0.301 Sum_probs=22.0
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhc
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETK 1137 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k 1137 (1605)
-+++.+.|+|||..|.++...+....
T Consensus 27 lL~~Gp~G~Gktt~a~~lA~~l~~~~ 52 (325)
T COG0470 27 LLFYGPPGVGKTTAALALAKELLCEN 52 (325)
T ss_pred eeeeCCCCCCHHHHHHHHHHHHhCCC
Confidence 57889999999999999998886543
No 287
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=80.09 E-value=6.8 Score=47.56 Aligned_cols=48 Identities=19% Similarity=0.326 Sum_probs=38.4
Q ss_pred CccHHHHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHHHhc
Q 000377 1090 KLREYQMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLMETK 1137 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Lle~k 1137 (1605)
.++|+|....+.+...+..+. .+ |+..+.|+||+..|.+++.+++-..
T Consensus 2 ~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~ 52 (325)
T PRK06871 2 ALYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQT 52 (325)
T ss_pred CCCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCC
Confidence 357899998888888877754 34 5788999999999999998887643
No 288
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=79.61 E-value=9.8 Score=44.71 Aligned_cols=47 Identities=28% Similarity=0.315 Sum_probs=29.4
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCccc------chHHHHHH
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLP------GWESEINF 1161 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~------nW~~Ef~K 1161 (1605)
-+.+..++|+|||+..=+++..+ ....-++|+.|+.++. -|..++.-
T Consensus 53 ~~~vtGevGsGKTv~~Ral~~s~----~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~ 105 (269)
T COG3267 53 ILAVTGEVGSGKTVLRRALLASL----NEDQVAVVVIDKPTLSDATLLEAIVADLES 105 (269)
T ss_pred eEEEEecCCCchhHHHHHHHHhc----CCCceEEEEecCcchhHHHHHHHHHHHhcc
Confidence 34577899999998876444433 2333356677876553 36666653
No 289
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=79.44 E-value=10 Score=50.39 Aligned_cols=95 Identities=14% Similarity=0.129 Sum_probs=67.8
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHH----HHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEE
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVM----EDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFL 1483 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiL----e~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfL 1483 (1605)
.|||.....-.+-.....|.+++|.+.....+..+ ..++...|+++..++|+++..+|.++++....++.+ ++
T Consensus 292 GSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~---Iv 368 (681)
T PRK10917 292 GSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEAD---IV 368 (681)
T ss_pred CCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCC---EE
Confidence 47887655444433445788999999988776544 445555689999999999999999999999887766 44
Q ss_pred Eecc-ccccccCcccCCEEEEEc
Q 000377 1484 LSIR-AGGVGVNLQAADTVIIFD 1505 (1605)
Q Consensus 1484 LSTr-AGGeGLNLq~ADtVIiyD 1505 (1605)
++|. .....+.+.....||+=+
T Consensus 369 VgT~~ll~~~v~~~~l~lvVIDE 391 (681)
T PRK10917 369 IGTHALIQDDVEFHNLGLVIIDE 391 (681)
T ss_pred EchHHHhcccchhcccceEEEec
Confidence 5544 344456677777666533
No 290
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.41 E-value=7.3 Score=51.00 Aligned_cols=41 Identities=17% Similarity=0.039 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+.++. .-|+..+.|+|||..|..++..+..
T Consensus 21 Qe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 21 QETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred CHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence 4444555555555542 3467899999999999888877653
No 291
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=79.33 E-value=6.9 Score=49.47 Aligned_cols=37 Identities=19% Similarity=0.116 Sum_probs=24.0
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecC
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPS 1149 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~ 1149 (1605)
.+|..++|+|||..+-++..++..... ...++.|.+.
T Consensus 144 l~i~G~~G~GKTHLl~Ai~~~l~~~~~-~~~v~yv~~~ 180 (450)
T PRK14087 144 LFIYGESGMGKTHLLKAAKNYIESNFS-DLKVSYMSGD 180 (450)
T ss_pred eEEECCCCCcHHHHHHHHHHHHHHhCC-CCeEEEEEHH
Confidence 568999999999888777666554332 2334444443
No 292
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=79.28 E-value=4.9 Score=48.84 Aligned_cols=47 Identities=21% Similarity=0.285 Sum_probs=38.9
Q ss_pred CccHHHHHHHHHHHHHhhcCCC--e-EEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLN--G-ILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~n--G-ILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
.++|+|....+.+...+..+.- + |++.+.|+||+..|.+++.+++-.
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~ 51 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQ 51 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 4789999999988888776542 3 678999999999999999988764
No 293
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=78.98 E-value=8.9 Score=50.15 Aligned_cols=24 Identities=33% Similarity=0.322 Sum_probs=19.9
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1112 GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
.+|..+.|+|||..+.++..++..
T Consensus 317 L~LyG~sGsGKTHLL~AIa~~a~~ 340 (617)
T PRK14086 317 LFIYGESGLGKTHLLHAIGHYARR 340 (617)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH
Confidence 578899999999988887777654
No 294
>PRK06893 DNA replication initiation factor; Validated
Probab=78.96 E-value=9.9 Score=43.51 Aligned_cols=25 Identities=12% Similarity=-0.053 Sum_probs=19.9
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1112 GILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
.+|..+.|+|||-.+.++...+...
T Consensus 42 l~l~G~~G~GKThL~~ai~~~~~~~ 66 (229)
T PRK06893 42 FYIWGGKSSGKSHLLKAVSNHYLLN 66 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHc
Confidence 4789999999998887777666543
No 295
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.91 E-value=8.6 Score=50.09 Aligned_cols=41 Identities=22% Similarity=0.136 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..|...+..+. .. |+.-+-|+|||..+..++.++..
T Consensus 21 q~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 21 QEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 5555555555554442 33 78899999999999888877653
No 296
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=78.63 E-value=3.6 Score=50.58 Aligned_cols=43 Identities=16% Similarity=0.288 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHHHhc
Q 000377 1095 QMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLMETK 1137 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Lle~k 1137 (1605)
|..+...+...+..+. .-|+.-+.|+|||..|.+++.+++...
T Consensus 24 q~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 24 HAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred hHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCC
Confidence 6777777777766653 246889999999999999999988654
No 297
>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=78.23 E-value=6 Score=39.85 Aligned_cols=36 Identities=33% Similarity=0.442 Sum_probs=25.1
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG 1154 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n 1154 (1605)
+|.-+.|+|||..+-.++.++ ..+++.+....+...
T Consensus 2 ll~G~~G~GKT~l~~~la~~l------~~~~~~i~~~~~~~~ 37 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYL------GFPFIEIDGSELISS 37 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHT------TSEEEEEETTHHHTS
T ss_pred EEECcCCCCeeHHHHHHHhhc------ccccccccccccccc
Confidence 678899999998886666554 245666666665544
No 298
>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=77.98 E-value=5 Score=50.21 Aligned_cols=40 Identities=25% Similarity=0.185 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHH
Q 000377 1093 EYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICY 1132 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~ 1132 (1605)
..++..|..++...+++.|.|+..+.|+|||..+.++..+
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~~l~~~ 232 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYNNLSPY 232 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHHHHhHH
Confidence 4455556666666778999999999999999888887666
No 299
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=77.28 E-value=9.5 Score=43.13 Aligned_cols=26 Identities=23% Similarity=0.121 Sum_probs=20.3
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
....+|..+.|+|||..+.++...+.
T Consensus 42 ~~~~~l~G~~G~GKT~La~ai~~~~~ 67 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHLLQALVADAS 67 (227)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 44578999999999988877666543
No 300
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=77.25 E-value=7 Score=50.77 Aligned_cols=41 Identities=22% Similarity=0.063 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHhhcCCC---eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQLN---GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~n---GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|..++..|...+.++.- -|+.-+.|+|||..|.+++..+..
T Consensus 21 qe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c 64 (563)
T PRK06647 21 QDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNC 64 (563)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcc
Confidence 44444445554444432 378999999999999888877653
No 301
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=77.18 E-value=20 Score=43.21 Aligned_cols=51 Identities=20% Similarity=0.135 Sum_probs=29.3
Q ss_pred CCccCCCCccHHHHHHHHHHHHHhh----cCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1083 PTCLQGGKLREYQMSGLRWLVSLYN----NQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1083 P~~L~gg~LRpYQleGL~wLlsL~~----n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
|..+....-++..++.+.-++.... ...+.+|.-+.|+|||..+-+++..+
T Consensus 21 P~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 21 PKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred cCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence 3333333444555555543333221 12356889999999998887665543
No 302
>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=77.09 E-value=9.7 Score=51.83 Aligned_cols=39 Identities=31% Similarity=0.424 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHh--hcCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLY--NNQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1095 QleGL~wLlsL~--~n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
|..-+.+++..+ ....|.||.-+.|+|||..+=+++..+
T Consensus 192 r~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i 232 (852)
T TIGR03345 192 RDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRI 232 (852)
T ss_pred CHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHH
Confidence 444577776643 234577999999999998886665544
No 303
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=77.02 E-value=15 Score=44.64 Aligned_cols=48 Identities=13% Similarity=0.014 Sum_probs=38.9
Q ss_pred CccHHHHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHHHhc
Q 000377 1090 KLREYQMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLMETK 1137 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Lle~k 1137 (1605)
.++|+|....+.+...+..+. .-++..+.|+||+..|.+++.+++-..
T Consensus 3 ~~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~ 53 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQN 53 (319)
T ss_pred cCcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCC
Confidence 578999999998888876654 246789999999999999988886543
No 304
>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=76.98 E-value=7.7 Score=40.11 Aligned_cols=35 Identities=20% Similarity=0.250 Sum_probs=25.3
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
+|.-+.|+|||..+..++..+.. ..++++++....
T Consensus 3 ~i~G~~G~GKT~l~~~i~~~~~~---~~~~v~~~~~e~ 37 (165)
T cd01120 3 LVFGPTGSGKTTLALQLALNIAT---KGGKVVYVDIEE 37 (165)
T ss_pred eEeCCCCCCHHHHHHHHHHHHHh---cCCEEEEEECCc
Confidence 57788999999999888776644 345566666543
No 305
>PRK13342 recombination factor protein RarA; Reviewed
Probab=76.45 E-value=8.8 Score=47.77 Aligned_cols=21 Identities=29% Similarity=0.191 Sum_probs=16.8
Q ss_pred CeEEEcCCCCcHHHHHHHHHH
Q 000377 1111 NGILADEMGLGKTVQVIALIC 1131 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~ 1131 (1605)
..||.-+.|+|||..+-++..
T Consensus 38 ~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 38 SMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 568899999999988765544
No 306
>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=76.40 E-value=17 Score=41.48 Aligned_cols=37 Identities=22% Similarity=0.264 Sum_probs=24.6
Q ss_pred CccEEEEecCccccCcc---chHHHHHHhh-hccceecccc
Q 000377 1214 QWHYIIIDEGHRIKNAS---CKLNADLKHY-QSSHRLLLTG 1250 (1605)
Q Consensus 1214 ~wd~VIIDEAHriKN~~---SKlsraL~~L-~a~~RLLLTG 1250 (1605)
..+++|||..|.+.+.. ..+...+..+ .....+++|+
T Consensus 97 ~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts 137 (219)
T PF00308_consen 97 SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTS 137 (219)
T ss_dssp TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEE
T ss_pred cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEe
Confidence 47899999999998753 2344444444 3455677776
No 307
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=75.84 E-value=18 Score=47.91 Aligned_cols=148 Identities=14% Similarity=0.152 Sum_probs=77.8
Q ss_pred HHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC-cccch----HHHHH-----Hh
Q 000377 1093 EYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS-VLPGW----ESEIN-----FW 1162 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW----~~Ef~-----Kw 1162 (1605)
|+=..-+..+...|+++..+++++ =|.|||..+..++.++.... ...++|.+|.. +...- +.-++ .|
T Consensus 172 ~~~~~~id~~~~~fkq~~tV~taP-RqrGKS~iVgi~l~~La~f~--Gi~IlvTAH~~~ts~evF~rv~~~le~lg~~~~ 248 (752)
T PHA03333 172 PRTLREIDRIFDEYGKCYTAATVP-RRCGKTTIMAIILAAMISFL--EIDIVVQAQRKTMCLTLYNRVETVVHAYQHKPW 248 (752)
T ss_pred hhhHHHHHHHHHHHhhcceEEEec-cCCCcHHHHHHHHHHHHHhc--CCeEEEECCChhhHHHHHHHHHHHHHHhccccc
Confidence 555667788888898888888876 79999988876666665422 23588888854 22221 22223 57
Q ss_pred CCCceEEE-EcCChhHHHHHHH-hhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh
Q 000377 1163 APRIHKIV-YCGPPEERRRLFK-EKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY 1240 (1605)
Q Consensus 1163 aP~l~viv-y~Gs~~~R~~l~~-~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L 1240 (1605)
+|....++ ..|..+.. .+.. .....+...+... .+ .....+...++++|||||+-+.. ..+...+-.+
T Consensus 249 fp~~~~iv~vkgg~E~I-~f~~p~gak~G~sti~F~-----Ar--s~~s~RG~~~DLLIVDEAAfI~~--~~l~aIlP~l 318 (752)
T PHA03333 249 FPEEFKIVTLKGTDENL-EYISDPAAKEGKTTAHFL-----AS--SPNAARGQNPDLVIVDEAAFVNP--GALLSVLPLM 318 (752)
T ss_pred cCCCceEEEeeCCeeEE-EEecCcccccCcceeEEe-----cc--cCCCcCCCCCCEEEEECcccCCH--HHHHHHHHHH
Confidence 77543222 22211100 0000 0000000111111 11 11234545789999999999965 2222332222
Q ss_pred h-ccceecccccCC
Q 000377 1241 Q-SSHRLLLTGTPL 1253 (1605)
Q Consensus 1241 ~-a~~RLLLTGTPl 1253 (1605)
. ....+++.-||.
T Consensus 319 ~~~~~k~IiISS~~ 332 (752)
T PHA03333 319 AVKGTKQIHISSPV 332 (752)
T ss_pred ccCCCceEEEeCCC
Confidence 2 355666666664
No 308
>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=75.50 E-value=13 Score=45.99 Aligned_cols=43 Identities=16% Similarity=0.244 Sum_probs=29.6
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHH
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWES 1157 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~ 1157 (1605)
.+|.-++|.|||..++.++..+... .+++|+|.-.....++..
T Consensus 85 vLI~G~pG~GKStLllq~a~~~a~~---g~~VlYvs~EEs~~qi~~ 127 (372)
T cd01121 85 ILIGGDPGIGKSTLLLQVAARLAKR---GGKVLYVSGEESPEQIKL 127 (372)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhc---CCeEEEEECCcCHHHHHH
Confidence 4788899999999988887766432 256788775544444433
No 309
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=75.42 E-value=15 Score=49.20 Aligned_cols=140 Identities=16% Similarity=0.079 Sum_probs=73.5
Q ss_pred HHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCC-CEEEEe-cCCcccchHHH-HH-HhCCC-ceEEEEcCChhH
Q 000377 1103 VSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRG-PFLVVV-PSSVLPGWESE-IN-FWAPR-IHKIVYCGPPEE 1177 (1605)
Q Consensus 1103 lsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~g-P~LIVv-P~SLL~nW~~E-f~-KwaP~-l~vivy~Gs~~~ 1177 (1605)
+.+...+.-.|+--++|+|||.+...+|+.-+....... .-.+|| |.....+...| +. .-... -..+.|. -.
T Consensus 387 ~q~v~dn~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva~er~e~~g~tvgy~---vR 463 (1282)
T KOG0921|consen 387 LQAVAENRVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVANERGEEVGETCGYN---VR 463 (1282)
T ss_pred HHHHhcCceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHHHhhHHhhccccccc---cc
Confidence 344455667788899999999999888776555433221 123343 33333332221 11 10000 1111111 00
Q ss_pred HHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhhh----ccceecccccC
Q 000377 1178 RRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHYQ----SSHRLLLTGTP 1252 (1605)
Q Consensus 1178 R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L~----a~~RLLLTGTP 1252 (1605)
+ ........--++.+|-+.+.+.... ......++|+||.|..--..--+...++.+. .-+.+++++|-
T Consensus 464 f----~Sa~prpyg~i~fctvgvllr~~e~---glrg~sh~i~deiherdv~~dfll~~lr~m~~ty~dl~v~lmsatI 535 (1282)
T KOG0921|consen 464 F----DSATPRPYGSIMFCTVGVLLRMMEN---GLRGISHVIIDEIHERDVDTDFVLIVLREMISTYRDLRVVLMSATI 535 (1282)
T ss_pred c----cccccccccceeeeccchhhhhhhh---cccccccccchhhhhhccchHHHHHHHHhhhccchhhhhhhhhccc
Confidence 0 1111122334667777777664332 2234568999999986555545555555543 34458888885
No 310
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=75.04 E-value=17 Score=43.91 Aligned_cols=42 Identities=17% Similarity=0.269 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1095 QMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
|..+++.+...+..+. .-++..+.|+||+..|.+++.+++..
T Consensus 9 q~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~ 53 (314)
T PRK07399 9 QPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQ 53 (314)
T ss_pred HHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 6777777777766653 34778999999999999999888754
No 311
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=74.75 E-value=16 Score=47.77 Aligned_cols=41 Identities=22% Similarity=0.089 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHhhcCC--C-eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--N-GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--n-GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..+...+.++. . -|+..+.|+|||..|.+++..+..
T Consensus 21 Qe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C 64 (605)
T PRK05896 21 QELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINC 64 (605)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 5555566666554432 2 368899999999999888877753
No 312
>PRK12377 putative replication protein; Provisional
Probab=74.65 E-value=21 Score=41.85 Aligned_cols=26 Identities=23% Similarity=0.227 Sum_probs=22.1
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
.+.+|..++|+|||..+.|++..+..
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~~ 127 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLLA 127 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 45678899999999999998888764
No 313
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=74.37 E-value=3 Score=53.81 Aligned_cols=111 Identities=18% Similarity=0.193 Sum_probs=64.2
Q ss_pred HhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc-----hHHHHHHhCCCceEEEEcCChhHHH
Q 000377 1105 LYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG-----WESEINFWAPRIHKIVYCGPPEERR 1179 (1605)
Q Consensus 1105 L~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n-----W~~Ef~KwaP~l~vivy~Gs~~~R~ 1179 (1605)
.++++-.+.|. +=--|||...+.+|+.++..-..- .+.+|+--.-+.+ ....+.+|+|.-.++.-.+..-
T Consensus 199 ~FKQkaTVFLV-PRRHGKTWf~VpiIsllL~s~~gI-~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~~~vi~~k~~tI--- 273 (668)
T PHA03372 199 IFKQKATVFLV-PRRHGKTWFIIPIISFLLKNIIGI-SIGYVAHQKHVSQFVLKEVEFRCRRMFPRKHTIENKDNVI--- 273 (668)
T ss_pred HhhccceEEEe-cccCCceehHHHHHHHHHHhhcCc-eEEEEeeHHHHHHHHHHHHHHHHhhhcCccceeeecCcEE---
Confidence 34455555554 467899999999998887744333 3777877543333 3445679999765533222100
Q ss_pred HHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCc
Q 000377 1180 RLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNA 1229 (1605)
Q Consensus 1180 ~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~ 1229 (1605)
.+. ....+..+ .+........++...|++++|||||-++-.
T Consensus 274 -~~s--~pg~Kst~------~fasc~n~NsiRGQ~fnll~VDEA~FI~~~ 314 (668)
T PHA03372 274 -SID--HRGAKSTA------LFASCYNTNSIRGQNFHLLLVDEAHFIKKD 314 (668)
T ss_pred -EEe--cCCCccee------eehhhccCccccCCCCCEEEEehhhccCHH
Confidence 000 00011111 112223445678889999999999999753
No 314
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=74.11 E-value=1.1e+02 Score=40.85 Aligned_cols=17 Identities=24% Similarity=0.098 Sum_probs=12.5
Q ss_pred ccccCccEEEEecCccc
Q 000377 1210 LSKIQWHYIIIDEGHRI 1226 (1605)
Q Consensus 1210 L~ki~wd~VIIDEAHri 1226 (1605)
+.-..=|+|||+|.|..
T Consensus 710 isf~pGDII~V~esq~a 726 (1118)
T KOG1029|consen 710 ISFEPGDIIIVFESQAA 726 (1118)
T ss_pred ccccCCCEEEEehhccC
Confidence 34444589999999975
No 315
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=73.89 E-value=8.1 Score=48.79 Aligned_cols=33 Identities=33% Similarity=0.259 Sum_probs=23.5
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV 1147 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv 1147 (1605)
.+|..+.|+|||..+-++...+... ..+++.|.
T Consensus 144 l~L~G~~G~GKTHLl~Ai~~~l~~~---~~~v~yi~ 176 (445)
T PRK12422 144 IYLFGPEGSGKTHLMQAAVHALRES---GGKILYVR 176 (445)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHc---CCCEEEee
Confidence 5788999999999888777766543 23455444
No 316
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=73.85 E-value=16 Score=50.79 Aligned_cols=128 Identities=14% Similarity=0.102 Sum_probs=70.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceE
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHK 1168 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~v 1168 (1605)
..|.+-|.+++..+. ..+.-++|...-|+|||.+.-+++ ..++.. ...++.++|+..-.. .+.+-+ ++..
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 ARLSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKAAR-EAWEAA--GYRVVGGALAGKAAE---GLEKEA-GIQS 449 (1102)
T ss_pred CCCCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHHHH-HHHHHc--CCeEEEEcCcHHHHH---HHHHhh-CCCe
Confidence 578999999998764 223346778889999997765544 444432 245788888764322 222111 1111
Q ss_pred EEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh-hccceec
Q 000377 1169 IVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY-QSSHRLL 1247 (1605)
Q Consensus 1169 ivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L-~a~~RLL 1247 (1605)
.|...+....+.....--.-++||||||..+.. ..+.+.+... ....+++
T Consensus 450 ---------------------------~TIas~ll~~~~~~~~l~~~~vlVIDEAsMv~~--~~m~~Ll~~~~~~garvV 500 (1102)
T PRK13826 450 ---------------------------RTLSSWELRWNQGRDQLDNKTVFVLDEAGMVAS--RQMALFVEAVTRAGAKLV 500 (1102)
T ss_pred ---------------------------eeHHHHHhhhccCccCCCCCcEEEEECcccCCH--HHHHHHHHHHHhcCCEEE
Confidence 011111000000000111246999999998733 2334445544 3567899
Q ss_pred ccccCCCC
Q 000377 1248 LTGTPLQN 1255 (1605)
Q Consensus 1248 LTGTPlqN 1255 (1605)
|-|=|-|-
T Consensus 501 LVGD~~QL 508 (1102)
T PRK13826 501 LVGDPEQL 508 (1102)
T ss_pred EECCHHHc
Confidence 99987654
No 317
>PRK10865 protein disaggregation chaperone; Provisional
Probab=73.64 E-value=10 Score=51.62 Aligned_cols=40 Identities=25% Similarity=0.344 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHh--hcCCCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLY--NNQLNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~--~n~~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|..-++.++..+ ....+.||..+.|+|||..+-+++..+.
T Consensus 183 r~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~ 224 (857)
T PRK10865 183 RDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRII 224 (857)
T ss_pred CHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhh
Confidence 333466666532 3345789999999999998877766553
No 318
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=73.25 E-value=14 Score=49.13 Aligned_cols=41 Identities=17% Similarity=0.081 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHhhcCC--C-eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--N-GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--n-GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|..+++.+...+..+. . .|++.+.|+|||..|-.++..+..
T Consensus 23 Qe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 23 QDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 5555555555554432 2 378999999999999888776643
No 319
>PRK09183 transposase/IS protein; Provisional
Probab=73.15 E-value=14 Score=43.21 Aligned_cols=28 Identities=32% Similarity=0.273 Sum_probs=22.6
Q ss_pred hcCCCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1107 NNQLNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1107 ~n~~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
..+.+.+|..++|+|||..+.++...+.
T Consensus 100 ~~~~~v~l~Gp~GtGKThLa~al~~~a~ 127 (259)
T PRK09183 100 ERNENIVLLGPSGVGKTHLAIALGYEAV 127 (259)
T ss_pred hcCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 3477889999999999999988865544
No 320
>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=73.10 E-value=4.8 Score=45.17 Aligned_cols=41 Identities=27% Similarity=0.382 Sum_probs=25.1
Q ss_pred cCccEEEEecCccccCccchHHHHHHhhhccceecccccCCCCC
Q 000377 1213 IQWHYIIIDEGHRIKNASCKLNADLKHYQSSHRLLLTGTPLQNN 1256 (1605)
Q Consensus 1213 i~wd~VIIDEAHriKN~~SKlsraL~~L~a~~RLLLTGTPlqNn 1256 (1605)
..++++||||++.+-... +.- +........+.|-|=|.|-.
T Consensus 61 ~~~~~liiDE~~~~~~g~--l~~-l~~~~~~~~~~l~GDp~Q~~ 101 (234)
T PF01443_consen 61 KSYDTLIIDEAQLLPPGY--LLL-LLSLSPAKNVILFGDPLQIP 101 (234)
T ss_pred CcCCEEEEeccccCChHH--HHH-HHhhccCcceEEEECchhcc
Confidence 357899999999874322 111 33333334577778887653
No 321
>PTZ00293 thymidine kinase; Provisional
Probab=73.01 E-value=11 Score=43.23 Aligned_cols=35 Identities=20% Similarity=0.238 Sum_probs=24.8
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
++.-+|++|||...|-.+..+.. ...+++++.|..
T Consensus 8 vi~GpMfSGKTteLLr~i~~y~~---ag~kv~~~kp~~ 42 (211)
T PTZ00293 8 VIIGPMFSGKTTELMRLVKRFTY---SEKKCVVIKYSK 42 (211)
T ss_pred EEECCCCChHHHHHHHHHHHHHH---cCCceEEEEecc
Confidence 57889999999776665554433 345688888864
No 322
>PRK04132 replication factor C small subunit; Provisional
Probab=72.74 E-value=7.5 Score=52.55 Aligned_cols=49 Identities=18% Similarity=0.341 Sum_probs=32.1
Q ss_pred CccEEEEecCccccC-ccchHHHHHHhhhccceecccccCCCCCHHHHHH
Q 000377 1214 QWHYIIIDEGHRIKN-ASCKLNADLKHYQSSHRLLLTGTPLQNNLEELWA 1262 (1605)
Q Consensus 1214 ~wd~VIIDEAHriKN-~~SKlsraL~~L~a~~RLLLTGTPlqNnl~ELws 1262 (1605)
+|.++||||||+|.. ....+.+.+..+....+++|+.++...-+.-|.+
T Consensus 630 ~~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrS 679 (846)
T PRK04132 630 SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQS 679 (846)
T ss_pred CCEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhh
Confidence 478999999999954 2223344444555677888888876554444443
No 323
>PRK05642 DNA replication initiation factor; Validated
Probab=72.49 E-value=20 Score=41.32 Aligned_cols=37 Identities=22% Similarity=0.321 Sum_probs=24.4
Q ss_pred ccEEEEecCccccCcc---chHHHHHHhhh-ccceeccccc
Q 000377 1215 WHYIIIDEGHRIKNAS---CKLNADLKHYQ-SSHRLLLTGT 1251 (1605)
Q Consensus 1215 wd~VIIDEAHriKN~~---SKlsraL~~L~-a~~RLLLTGT 1251 (1605)
.+++|||+.|.+.+.. ..++..+..+. ...++++|+|
T Consensus 98 ~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~ 138 (234)
T PRK05642 98 YELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS 138 (234)
T ss_pred CCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence 4689999999886532 23455554443 3567888886
No 324
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=72.31 E-value=1.2e+02 Score=38.10 Aligned_cols=44 Identities=16% Similarity=0.247 Sum_probs=28.0
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC----cccchHHH
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS----VLPGWESE 1158 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S----LL~nW~~E 1158 (1605)
.+++.+.|+|||-++..++.++...+ .++.+|+-.. .+.||..-
T Consensus 209 i~lvGptGvGKTTt~akLA~~l~~~g---~~V~lItaDtyR~gAveQLk~y 256 (407)
T PRK12726 209 ISLIGQTGVGKTTTLVKLGWQLLKQN---RTVGFITTDTFRSGAVEQFQGY 256 (407)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcC---CeEEEEeCCccCccHHHHHHHH
Confidence 35788999999999888877664432 3455555332 24566543
No 325
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.60 E-value=20 Score=45.91 Aligned_cols=40 Identities=30% Similarity=0.179 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...+..+...+.++. ++ |++-+.|+|||..|..++..+.
T Consensus 21 q~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~ 63 (486)
T PRK14953 21 QEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLN 63 (486)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 6666666666666543 33 6799999999988877766553
No 326
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=71.35 E-value=20 Score=40.65 Aligned_cols=134 Identities=16% Similarity=0.144 Sum_probs=68.9
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch-HHHHH--HhCCCceEEEEcCC-------hhHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW-ESEIN--FWAPRIHKIVYCGP-------PEER 1178 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW-~~Ef~--KwaP~l~vivy~Gs-------~~~R 1178 (1605)
..+.++.-..|.|||-.|+++.......+ .+++||== +-..| ..|.. +..+.+.+..+... ..+.
T Consensus 22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G---~~V~ivQF--lKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~ 96 (191)
T PRK05986 22 KGLLIVHTGNGKGKSTAAFGMALRAVGHG---KKVGVVQF--IKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERD 96 (191)
T ss_pred CCeEEEECCCCCChHHHHHHHHHHHHHCC---CeEEEEEE--ecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHH
Confidence 45667889999999999999988776543 34555431 11223 12222 22233333322111 0000
Q ss_pred HHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCc----cchHHHHHHhhhccceecccccCCC
Q 000377 1179 RRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNA----SCKLNADLKHYQSSHRLLLTGTPLQ 1254 (1605)
Q Consensus 1179 ~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~----~SKlsraL~~L~a~~RLLLTGTPlq 1254 (1605)
...... ..+. .+..+..-.|++||+||.=.+-+. ...+...|..-+..--++|||-
T Consensus 97 ~~~~~~------------~~~~-----a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR--- 156 (191)
T PRK05986 97 IAAARE------------GWEE-----AKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGR--- 156 (191)
T ss_pred HHHHHH------------HHHH-----HHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECC---
Confidence 000000 0011 122455668999999998665442 2233344443344456999997
Q ss_pred CCHHHHHHHHHhh
Q 000377 1255 NNLEELWALLNFL 1267 (1605)
Q Consensus 1255 Nnl~ELwsLLnFL 1267 (1605)
+-+.+|..+.+++
T Consensus 157 ~~p~~Lie~ADlV 169 (191)
T PRK05986 157 GAPRELIEAADLV 169 (191)
T ss_pred CCCHHHHHhCchh
Confidence 4455666555544
No 327
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=71.16 E-value=23 Score=41.47 Aligned_cols=64 Identities=22% Similarity=0.271 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHH
Q 000377 1093 EYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEI 1159 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef 1159 (1605)
-.+...+.-+..-++.+.|.+|.-++|+|||..++|+...+. .+ ..+++++.=..++.+++..+
T Consensus 89 ~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~--g~sv~f~~~~el~~~Lk~~~ 152 (254)
T COG1484 89 KKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL-KA--GISVLFITAPDLLSKLKAAF 152 (254)
T ss_pred HHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH-Hc--CCeEEEEEHHHHHHHHHHHH
Confidence 344444444444556778889999999999999999998887 32 23456665455555555544
No 328
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=70.65 E-value=21 Score=47.07 Aligned_cols=96 Identities=15% Similarity=0.081 Sum_probs=65.5
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHH----HHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEE
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMED----YLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFL 1483 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~----~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfL 1483 (1605)
.|||.....-.+-.....|.+++|-+.....+..+.+ +|...|+++..++|+++..+|...++....++.+ |++
T Consensus 266 GSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~--IiV 343 (630)
T TIGR00643 266 GSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIH--LVV 343 (630)
T ss_pred CCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCC--EEE
Confidence 4788765433333334568899999998877665544 4445589999999999999999999999877766 344
Q ss_pred EeccccccccCcccCCEEEEEc
Q 000377 1484 LSIRAGGVGVNLQAADTVIIFD 1505 (1605)
Q Consensus 1484 LSTrAGGeGLNLq~ADtVIiyD 1505 (1605)
.+....-..+.+.....||+=+
T Consensus 344 gT~~ll~~~~~~~~l~lvVIDE 365 (630)
T TIGR00643 344 GTHALIQEKVEFKRLALVIIDE 365 (630)
T ss_pred ecHHHHhccccccccceEEEec
Confidence 4433344456666666666533
No 329
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.50 E-value=14 Score=48.47 Aligned_cols=41 Identities=15% Similarity=0.000 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhhcCC--C-eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--N-GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--n-GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+..+...+.++. . -|+..+.|+|||..|..++..+..
T Consensus 21 Qe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 21 QEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 7777777777666542 2 468899999999999888876643
No 330
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=70.27 E-value=15 Score=47.34 Aligned_cols=25 Identities=28% Similarity=0.210 Sum_probs=20.2
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
..+.+|.-++|+|||..+-+++..+
T Consensus 216 p~GILLyGPPGTGKT~LAKAlA~eL 240 (512)
T TIGR03689 216 PKGVLLYGPPGCGKTLIAKAVANSL 240 (512)
T ss_pred CcceEEECCCCCcHHHHHHHHHHhh
Confidence 3567889999999999887776655
No 331
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=70.04 E-value=24 Score=43.27 Aligned_cols=47 Identities=21% Similarity=0.198 Sum_probs=35.6
Q ss_pred ccHHHHHHHHHHHHHhhcCCCe-EEEcCCCCcHHHHHHHHHHHHHHhc
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNG-ILADEMGLGKTVQVIALICYLMETK 1137 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nG-ILADEMGLGKTIqAIALI~~Lle~k 1137 (1605)
++|+|...-+.+..+.+.-..+ ++..+.|+|||..|..++..++...
T Consensus 2 ~yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~ 49 (342)
T PRK06964 2 LYPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDFAQHLAQGLLCET 49 (342)
T ss_pred CCcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 5788888888887763333334 5788999999999999998886643
No 332
>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=69.95 E-value=13 Score=50.71 Aligned_cols=40 Identities=25% Similarity=0.341 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhh--cCCCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYN--NQLNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~--n~~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|..-+.+++..+. ...+.||.-+.|+|||..+-+++..+.
T Consensus 178 r~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~ 219 (852)
T TIGR03346 178 RDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIV 219 (852)
T ss_pred cHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHh
Confidence 4445777776543 345779999999999998877766553
No 333
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=68.46 E-value=12 Score=47.22 Aligned_cols=41 Identities=17% Similarity=0.007 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhhcCC--C-eEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--N-GILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--n-GILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|...+.++...+..+. . -|+..+.|+|||..|.+++.++..
T Consensus 22 q~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c 65 (451)
T PRK06305 22 QDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNC 65 (451)
T ss_pred cHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 6677778777766543 3 367899999999999888887754
No 334
>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=68.02 E-value=13 Score=43.41 Aligned_cols=50 Identities=12% Similarity=0.082 Sum_probs=37.6
Q ss_pred cHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe
Q 000377 1092 REYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV 1147 (1605)
Q Consensus 1092 RpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv 1147 (1605)
.|+....++.++.....+...+|..++|+|||..|-++...+ ..|++.|+
T Consensus 4 t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~l------g~~~~~i~ 53 (262)
T TIGR02640 4 TDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVARKR------DRPVMLIN 53 (262)
T ss_pred CHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHh------CCCEEEEe
Confidence 356667777777777778889999999999999987776422 35666664
No 335
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=67.40 E-value=1.3e+02 Score=36.61 Aligned_cols=46 Identities=22% Similarity=0.270 Sum_probs=33.3
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHh
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFW 1162 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~Kw 1162 (1605)
+.+|..+.|+||++.|=|++... ...|.-|.-..++..|.-|-++.
T Consensus 168 giLLyGPPGTGKSYLAKAVATEA------nSTFFSvSSSDLvSKWmGESEkL 213 (439)
T KOG0739|consen 168 GILLYGPPGTGKSYLAKAVATEA------NSTFFSVSSSDLVSKWMGESEKL 213 (439)
T ss_pred eEEEeCCCCCcHHHHHHHHHhhc------CCceEEeehHHHHHHHhccHHHH
Confidence 34678999999999887776532 24455566566889999887654
No 336
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=67.11 E-value=11 Score=40.32 Aligned_cols=45 Identities=36% Similarity=0.356 Sum_probs=24.4
Q ss_pred cHHHHHHHHHHHHHh--hcCCCeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1092 REYQMSGLRWLVSLY--NNQLNGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1092 RpYQleGL~wLlsL~--~n~~nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
|+.|++-+.-++... ......+|.-+.|+|||...-.++..+...
T Consensus 5 R~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 5 REEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER 51 (185)
T ss_dssp -HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 445555554444211 223456889999999998887777666554
No 337
>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=67.07 E-value=7.5 Score=44.10 Aligned_cols=40 Identities=18% Similarity=0.150 Sum_probs=29.5
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
+.-.+|+..+|+|||..++.++....... ..++|++..-.
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~--g~~vly~s~E~ 52 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQ--GKPVLFFSLEM 52 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhC--CCceEEEeCCC
Confidence 33458899999999999998887776542 34678887443
No 338
>PRK14873 primosome assembly protein PriA; Provisional
Probab=66.59 E-value=24 Score=46.87 Aligned_cols=94 Identities=14% Similarity=-0.012 Sum_probs=76.2
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc-C-ceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEe
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK-Q-YRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLS 1485 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~-G-ikylrLdGsts~eERqeiId~FN~gds~~~VfLLS 1485 (1605)
.|||.+...+++.+....|+.+||...-......+...|..+ | ..+..|++..+..+|.+...+...++.. ++|.
T Consensus 170 GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~---IViG 246 (665)
T PRK14873 170 GEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQAR---VVVG 246 (665)
T ss_pred CCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCc---EEEE
Confidence 479999999999999999999999999999888888888754 3 6799999999999999998888877765 6777
Q ss_pred ccccccccCcccCCEEEEEc
Q 000377 1486 IRAGGVGVNLQAADTVIIFD 1505 (1605)
Q Consensus 1486 TrAGGeGLNLq~ADtVIiyD 1505 (1605)
|+++- =+=+.+-..||+.|
T Consensus 247 tRSAv-FaP~~~LgLIIvdE 265 (665)
T PRK14873 247 TRSAV-FAPVEDLGLVAIWD 265 (665)
T ss_pred cceeE-EeccCCCCEEEEEc
Confidence 77753 23444555666654
No 339
>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=66.36 E-value=12 Score=41.42 Aligned_cols=38 Identities=26% Similarity=0.219 Sum_probs=26.9
Q ss_pred hcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe
Q 000377 1107 NNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV 1147 (1605)
Q Consensus 1107 ~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv 1147 (1605)
.++.|.+|..++|+|||..|++++..++..+ .+++++.
T Consensus 45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g---~~v~f~~ 82 (178)
T PF01695_consen 45 ENGENLILYGPPGTGKTHLAVAIANEAIRKG---YSVLFIT 82 (178)
T ss_dssp SC--EEEEEESTTSSHHHHHHHHHHHHHHTT-----EEEEE
T ss_pred ccCeEEEEEhhHhHHHHHHHHHHHHHhccCC---cceeEee
Confidence 3567788999999999999999988887632 3455554
No 340
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=66.23 E-value=19 Score=43.29 Aligned_cols=40 Identities=20% Similarity=0.066 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|.+.++.+.....++. .-||.-+.|+|||..+-+++..+.
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~ 61 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN 61 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 4444555544444433 237899999999988887777664
No 341
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=65.85 E-value=67 Score=40.62 Aligned_cols=76 Identities=16% Similarity=0.065 Sum_probs=43.6
Q ss_pred CccEEEEecCccccCccchHHHHHHhhh-----ccceecccccCCCCCHHHHHHHHHhhcCC-----------CCCChHH
Q 000377 1214 QWHYIIIDEGHRIKNASCKLNADLKHYQ-----SSHRLLLTGTPLQNNLEELWALLNFLLPN-----------IFNSSED 1277 (1605)
Q Consensus 1214 ~wd~VIIDEAHriKN~~SKlsraL~~L~-----a~~RLLLTGTPlqNnl~ELwsLLnFL~P~-----------if~s~~~ 1277 (1605)
.+++++||.+=+..+ ...+...+..+. ....|.|++|--.+.+.++...+..+... -++..-+
T Consensus 269 ~~d~VLIDTaGrsqr-d~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~~~~~~~~I~TKlDEt~~~G~~l~ 347 (420)
T PRK14721 269 GKHMVLIDTVGMSQR-DQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQGHGIHGCIITKVDEAASLGIALD 347 (420)
T ss_pred CCCEEEecCCCCCcc-hHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEEeeeCCCCccHHHH
Confidence 357889998633221 222334444432 23457899998777777777776655432 2344455
Q ss_pred HHHHhcccccCCC
Q 000377 1278 FSQWFNKPFESNG 1290 (1605)
Q Consensus 1278 F~e~F~kP~e~~g 1290 (1605)
+...+..|+....
T Consensus 348 ~~~~~~lPi~yvt 360 (420)
T PRK14721 348 AVIRRKLVLHYVT 360 (420)
T ss_pred HHHHhCCCEEEEE
Confidence 5566667765543
No 342
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=65.57 E-value=15 Score=49.12 Aligned_cols=28 Identities=32% Similarity=0.383 Sum_probs=22.2
Q ss_pred cCCCeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1108 NQLNGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1108 n~~nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
...|.||.-+.|+|||..+-+++..+..
T Consensus 202 ~~~n~lL~G~pG~GKT~l~~~la~~~~~ 229 (731)
T TIGR02639 202 KKNNPLLVGEPGVGKTAIAEGLALRIAE 229 (731)
T ss_pred CCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence 3457899999999999998777766544
No 343
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=65.37 E-value=21 Score=39.24 Aligned_cols=25 Identities=28% Similarity=0.352 Sum_probs=20.6
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1112 GILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
-|+..+.|+|||..+..++..+...
T Consensus 17 ~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 17 YLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHHHcCC
Confidence 4778999999999998888777543
No 344
>CHL00095 clpC Clp protease ATP binding subunit
Probab=65.33 E-value=15 Score=49.76 Aligned_cols=27 Identities=33% Similarity=0.370 Sum_probs=21.2
Q ss_pred cCCCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1108 NQLNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1108 n~~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
...|.||..+.|+|||..+-+++..+.
T Consensus 199 ~~~n~lL~G~pGvGKTal~~~la~~i~ 225 (821)
T CHL00095 199 TKNNPILIGEPGVGKTAIAEGLAQRIV 225 (821)
T ss_pred ccCCeEEECCCCCCHHHHHHHHHHHHH
Confidence 344779999999999999877766543
No 345
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=65.14 E-value=1.1e+02 Score=38.64 Aligned_cols=130 Identities=15% Similarity=0.168 Sum_probs=67.6
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCC--CceEEEEcCChhHHHHHHHhhh
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAP--RIHKIVYCGPPEERRRLFKEKI 1186 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP--~l~vivy~Gs~~~R~~l~~~~i 1186 (1605)
+....|..+||.|||-+..-|++.+...+. ...+-||+-.+-----..++..++. ++.+.
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~-~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~----------------- 264 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKK-KKKVAIITTDTYRIGAVEQLKTYADIMGVPLE----------------- 264 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhcc-CcceEEEEeccchhhHHHHHHHHHHHhCCceE-----------------
Confidence 344567889999999877666665552222 2335555433322222333433331 11111
Q ss_pred hcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCcc-ccCccchHHHHHHhh-----hccceecccccCCCCCHHHH
Q 000377 1187 VHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHR-IKNASCKLNADLKHY-----QSSHRLLLTGTPLQNNLEEL 1260 (1605)
Q Consensus 1187 ~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHr-iKN~~SKlsraL~~L-----~a~~RLLLTGTPlqNnl~EL 1260 (1605)
++.+..-|.. ....-.++|+|.||=+=+ .++ . ....-+..| .....|.|++|-=..++.++
T Consensus 265 -------vv~~~~el~~----ai~~l~~~d~ILVDTaGrs~~D-~-~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei 331 (407)
T COG1419 265 -------VVYSPKELAE----AIEALRDCDVILVDTAGRSQYD-K-EKIEELKELIDVSHSIEVYLVLSATTKYEDLKEI 331 (407)
T ss_pred -------EecCHHHHHH----HHHHhhcCCEEEEeCCCCCccC-H-HHHHHHHHHHhccccceEEEEEecCcchHHHHHH
Confidence 1222222211 011112348888886543 222 1 122223333 23456889999988999999
Q ss_pred HHHHHhhcC
Q 000377 1261 WALLNFLLP 1269 (1605)
Q Consensus 1261 wsLLnFL~P 1269 (1605)
+..+.++..
T Consensus 332 ~~~f~~~~i 340 (407)
T COG1419 332 IKQFSLFPI 340 (407)
T ss_pred HHHhccCCc
Confidence 998888755
No 346
>PRK08760 replicative DNA helicase; Provisional
Probab=64.95 E-value=1.3e+02 Score=38.75 Aligned_cols=63 Identities=13% Similarity=0.001 Sum_probs=40.9
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHh
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFW 1162 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~Kw 1162 (1605)
.|..+..-+..+.=.|||..+|.|||.-++.++...... ...|++++..--...+|...+...
T Consensus 218 ~LD~~t~G~~~G~LivIaarPg~GKTafal~iA~~~a~~--~g~~V~~fSlEMs~~ql~~Rl~a~ 280 (476)
T PRK08760 218 DFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIK--SKKGVAVFSMEMSASQLAMRLISS 280 (476)
T ss_pred HHHHHhcCCCCCceEEEEeCCCCChhHHHHHHHHHHHHh--cCCceEEEeccCCHHHHHHHHHHh
Confidence 334343333334445899999999999998888766432 234688887766666776665433
No 347
>PRK08506 replicative DNA helicase; Provisional
Probab=64.92 E-value=1.7e+02 Score=37.59 Aligned_cols=58 Identities=12% Similarity=0.015 Sum_probs=37.0
Q ss_pred HHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHH
Q 000377 1097 SGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWES 1157 (1605)
Q Consensus 1097 eGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~ 1157 (1605)
..|.-+..-+..+.-.|||..+|.|||.-++.++..... ...+++++..--...++..
T Consensus 180 ~~LD~~~~G~~~G~LivIaarpg~GKT~fal~ia~~~~~---~g~~V~~fSlEMs~~ql~~ 237 (472)
T PRK08506 180 VELNKMTKGFNKGDLIIIAARPSMGKTTLCLNMALKALN---QDKGVAFFSLEMPAEQLML 237 (472)
T ss_pred HHHHhhcCCCCCCceEEEEcCCCCChHHHHHHHHHHHHh---cCCcEEEEeCcCCHHHHHH
Confidence 344444433434444589999999999999988877643 2356788765544444433
No 348
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=64.84 E-value=7.9 Score=51.29 Aligned_cols=55 Identities=16% Similarity=0.159 Sum_probs=41.4
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHh-cCCCCCEEEEecCC
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMET-KNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~-k~~~gP~LIVvP~S 1150 (1605)
.|.|-|.+++.+. ....++....|+|||.+.++-++++++. +.....+|+|+.+.
T Consensus 2 ~Ln~~Q~~av~~~------~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~ 57 (672)
T PRK10919 2 RLNPGQQQAVEFV------TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTN 57 (672)
T ss_pred CCCHHHHHHHhCC------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechH
Confidence 4778999998642 3445666679999999999999999975 33345588888754
No 349
>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=64.75 E-value=1.5e+02 Score=37.12 Aligned_cols=55 Identities=18% Similarity=0.033 Sum_probs=34.5
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG 1154 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n 1154 (1605)
+|.-+..-+..+.-.+|+..+|.|||.-++.++....... ..++|++..--...+
T Consensus 184 ~LD~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~--g~~vl~~SlEm~~~~ 238 (434)
T TIGR00665 184 DLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKE--GKPVAFFSLEMSAEQ 238 (434)
T ss_pred hhHhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhC--CCeEEEEeCcCCHHH
Confidence 4443333233333458899999999999988887765422 346788765544333
No 350
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=64.66 E-value=37 Score=43.52 Aligned_cols=24 Identities=25% Similarity=0.290 Sum_probs=18.6
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1113 ILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
.|.-.+|.|||.++.-++.++...
T Consensus 260 ~LvGpnGvGKTTTiaKLA~~~~~~ 283 (484)
T PRK06995 260 ALMGPTGVGKTTTTAKLAARCVMR 283 (484)
T ss_pred EEECCCCccHHHHHHHHHHHHHHh
Confidence 467899999999887777666443
No 351
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=64.35 E-value=6.1 Score=43.90 Aligned_cols=56 Identities=14% Similarity=0.240 Sum_probs=34.8
Q ss_pred cccccCccEEEEecCccccCcc----chHHHHHHhhhccceecccccCCCCCHHHHHHHHHhh
Q 000377 1209 KLSKIQWHYIIIDEGHRIKNAS----CKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFL 1267 (1605)
Q Consensus 1209 ~L~ki~wd~VIIDEAHriKN~~----SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL 1267 (1605)
.+..-.||+||+||.=.+-+.. ..+...|..-+..--++|||.- -+.+|..+-+++
T Consensus 92 ~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~---~p~~l~e~AD~V 151 (173)
T TIGR00708 92 MLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRG---CPQDLLELADLV 151 (173)
T ss_pred HHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCC---CCHHHHHhCcee
Confidence 3455679999999987654422 2344444443444569999974 456666655544
No 352
>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=63.80 E-value=34 Score=47.18 Aligned_cols=95 Identities=15% Similarity=0.061 Sum_probs=68.3
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh----cCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEE
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF----KQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFL 1483 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~----~GikylrLdGsts~eERqeiId~FN~gds~~~VfL 1483 (1605)
.+||.......+-.....+.+++|.+..+.++......|.. .++++..++|.++..++.++++.+..+..+ |++
T Consensus 482 GsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~d--IVI 559 (926)
T TIGR00580 482 GFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKID--ILI 559 (926)
T ss_pred CccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCce--EEE
Confidence 47888766555444445678999999999888776665543 467888999999999999999999877655 444
Q ss_pred EeccccccccCcccCCEEEEE
Q 000377 1484 LSIRAGGVGVNLQAADTVIIF 1504 (1605)
Q Consensus 1484 LSTrAGGeGLNLq~ADtVIiy 1504 (1605)
.+.......+.+....+||+=
T Consensus 560 GTp~ll~~~v~f~~L~llVID 580 (926)
T TIGR00580 560 GTHKLLQKDVKFKDLGLLIID 580 (926)
T ss_pred chHHHhhCCCCcccCCEEEee
Confidence 444444445667777766663
No 353
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.23 E-value=38 Score=42.06 Aligned_cols=96 Identities=18% Similarity=0.223 Sum_probs=55.3
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceEEEEcCC-hhHHHHHHHhhhhcCCc
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHKIVYCGP-PEERRRLFKEKIVHQKF 1191 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~vivy~Gs-~~~R~~l~~~~i~~~~f 1191 (1605)
+++-=.|.|||-+..-+++|+.. ...+ +++||-...-.---+.++.|+-..++-+|... ..+-..+..+.
T Consensus 105 mfVGLqG~GKTTtc~KlA~y~kk--kG~K-~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~eg------ 175 (483)
T KOG0780|consen 105 MFVGLQGSGKTTTCTKLAYYYKK--KGYK-VALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEG------ 175 (483)
T ss_pred EEEeccCCCcceeHHHHHHHHHh--cCCc-eeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHH------
Confidence 45667899999887777766643 3344 45555544444455667777765555444421 11111111111
Q ss_pred cEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccch
Q 000377 1192 NVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCK 1232 (1605)
Q Consensus 1192 dVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SK 1232 (1605)
...+.+.+|++||+|=+-|.+-..+.
T Consensus 176 ---------------v~~fKke~fdvIIvDTSGRh~qe~sL 201 (483)
T KOG0780|consen 176 ---------------VDRFKKENFDVIIVDTSGRHKQEASL 201 (483)
T ss_pred ---------------HHHHHhcCCcEEEEeCCCchhhhHHH
Confidence 12356678999999998776654443
No 354
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=63.15 E-value=11 Score=45.97 Aligned_cols=47 Identities=15% Similarity=-0.094 Sum_probs=31.7
Q ss_pred ccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCC
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRG 1141 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~g 1141 (1605)
..+-|..-++.+.. +.=.+-.-+-|+|||+.+.+.....+..+...+
T Consensus 129 kt~~Q~~y~eai~~----~di~fGiGpAGTGKTyLava~av~al~~~~v~r 175 (348)
T COG1702 129 KTPGQNMYPEAIEE----HDIVFGIGPAGTGKTYLAVAKAVDALGAGQVRR 175 (348)
T ss_pred cChhHHHHHHHHHh----cCeeeeecccccCChhhhHHhHhhhhhhcccce
Confidence 34568777766655 322222348999999999998888877665543
No 355
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=63.09 E-value=96 Score=40.08 Aligned_cols=49 Identities=18% Similarity=0.236 Sum_probs=31.3
Q ss_pred HHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch
Q 000377 1104 SLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW 1155 (1605)
Q Consensus 1104 sL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW 1155 (1605)
.........+|.-|.|+|||..|-++-.. .....+|+++|--..+-..|
T Consensus 214 ~~a~~~~pvli~Ge~GtGK~~lA~~ih~~---s~r~~~pfv~i~c~~~~~~~ 262 (534)
T TIGR01817 214 VVARSNSTVLLRGESGTGKELIAKAIHYL---SPRAKRPFVKVNCAALSETL 262 (534)
T ss_pred HHhCcCCCEEEECCCCccHHHHHHHHHHh---CCCCCCCeEEeecCCCCHHH
Confidence 33445677899999999999887443322 22345677777655554443
No 356
>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=63.02 E-value=35 Score=39.52 Aligned_cols=41 Identities=17% Similarity=0.055 Sum_probs=29.2
Q ss_pred cCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1108 NQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1108 n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
.+.-.+|+..+|+|||..++.++..+.... ..+++++.--.
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~--g~~vl~iS~E~ 69 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYALDLITQH--GVRVGTISLEE 69 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHHhc--CceEEEEEccc
Confidence 344568899999999999988887765432 24577776543
No 357
>PF08880 QLQ: QLQ; InterPro: IPR014978 QLQ is named after the conserved Gln, Leu, Gln motif. QLQ is found at the N terminus of SWI2/SNF2 protein, which has been shown to be involved in protein-protein interactions. QLQ has been postulated to be involved in mediating protein interactions []. ; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=62.62 E-value=7 Score=33.04 Aligned_cols=27 Identities=48% Similarity=0.730 Sum_probs=20.7
Q ss_pred CchHHHHHHHHhhhhhhhhh-hcCCCCc
Q 000377 461 PFKEQQLKQLRAQCLVFLAF-RNGLVPK 487 (1605)
Q Consensus 461 pf~eq~l~qlraqclvfla~-rn~~~p~ 487 (1605)
||..+||.+||||-+.|=-+ ||.-+|-
T Consensus 2 ~FT~~Ql~~L~~Qi~ayK~l~~~~pVP~ 29 (37)
T PF08880_consen 2 PFTPAQLQELRAQILAYKYLARNQPVPP 29 (37)
T ss_pred CCCHHHHHHHHHHHHHHHHHHcCCCCCH
Confidence 79999999999999988443 4444453
No 358
>CHL00206 ycf2 Ycf2; Provisional
Probab=62.21 E-value=17 Score=52.71 Aligned_cols=41 Identities=20% Similarity=0.242 Sum_probs=30.5
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW 1155 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW 1155 (1605)
..|.+|..++|+|||..|=|++.. ..-|++-|....++..|
T Consensus 1630 PKGILLiGPPGTGKTlLAKALA~e------s~VPFIsISgs~fl~~~ 1670 (2281)
T CHL00206 1630 SRGILVIGSIGTGRSYLVKYLATN------SYVPFITVFLNKFLDNK 1670 (2281)
T ss_pred CCceEEECCCCCCHHHHHHHHHHh------cCCceEEEEHHHHhhcc
Confidence 456788999999999888776653 34577777766677666
No 359
>PRK11054 helD DNA helicase IV; Provisional
Probab=62.02 E-value=12 Score=49.64 Aligned_cols=68 Identities=16% Similarity=0.081 Sum_probs=48.3
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCCCEEEEecCCcccchHHH-HHHh
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-DRGPFLVVVPSSVLPGWESE-INFW 1162 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-~~gP~LIVvP~SLL~nW~~E-f~Kw 1162 (1605)
..|.+.|.+++..- ..+.++....|+|||.+.++-+.|++.... ....+|++|.+....+...| +...
T Consensus 195 ~~L~~~Q~~av~~~------~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~ 264 (684)
T PRK11054 195 SPLNPSQARAVVNG------EDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRER 264 (684)
T ss_pred CCCCHHHHHHHhCC------CCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHh
Confidence 46889999999522 234455566999999999999999987653 23468999998766554443 4433
No 360
>PRK10867 signal recognition particle protein; Provisional
Probab=61.72 E-value=33 Score=43.40 Aligned_cols=35 Identities=29% Similarity=0.360 Sum_probs=24.7
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEec
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVP 1148 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP 1148 (1605)
.+++-..|+|||.+++.++.++.... .. ++++|+=
T Consensus 103 I~~vG~~GsGKTTtaakLA~~l~~~~-G~-kV~lV~~ 137 (433)
T PRK10867 103 IMMVGLQGAGKTTTAGKLAKYLKKKK-KK-KVLLVAA 137 (433)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhc-CC-cEEEEEc
Confidence 36788999999999988888776541 23 3455543
No 361
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=61.40 E-value=69 Score=38.99 Aligned_cols=53 Identities=21% Similarity=0.230 Sum_probs=32.6
Q ss_pred HHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc
Q 000377 1099 LRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG 1154 (1605)
Q Consensus 1099 L~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n 1154 (1605)
++.+..........+|.-|.|+||+..|-++-. . .....+|++.|--..+-..
T Consensus 12 ~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~-~--s~r~~~pfv~vnc~~~~~~ 64 (329)
T TIGR02974 12 LEQVSRLAPLDRPVLIIGERGTGKELIAARLHY-L--SKRWQGPLVKLNCAALSEN 64 (329)
T ss_pred HHHHHHHhCCCCCEEEECCCCChHHHHHHHHHH-h--cCccCCCeEEEeCCCCChH
Confidence 334444455677889999999999987743322 1 2234567776654444333
No 362
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=60.97 E-value=41 Score=49.19 Aligned_cols=62 Identities=18% Similarity=0.201 Sum_probs=40.3
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc-CCCCCEEEEecCCcc
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK-NDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k-~~~gP~LIVvP~SLL 1152 (1605)
..|.+-|.+++..++. ....-.+|.-..|+|||.+.-+++..+.... .....++.++|+.--
T Consensus 966 ~~Lt~~Q~~Av~~il~--s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrA 1028 (1747)
T PRK13709 966 EGLTSGQRAATRMILE--STDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRA 1028 (1747)
T ss_pred CCCCHHHHHHHHHHHh--CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHH
Confidence 4689999999987765 1223457788899999987655544332211 122347778887643
No 363
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=60.64 E-value=1.3e+02 Score=37.84 Aligned_cols=45 Identities=20% Similarity=0.360 Sum_probs=28.7
Q ss_pred HHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc
Q 000377 1104 SLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV 1151 (1605)
Q Consensus 1104 sL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL 1151 (1605)
.........+|..|.|+|||..|-++-.. .....+|+++|--..+
T Consensus 156 ~~~~~~~~vli~Ge~GtGK~~lA~~ih~~---s~~~~~~~i~i~c~~~ 200 (469)
T PRK10923 156 RLSRSSISVLINGESGTGKELVAHALHRH---SPRAKAPFIALNMAAI 200 (469)
T ss_pred HHhccCCeEEEEeCCCCcHHHHHHHHHhc---CCCCCCCeEeeeCCCC
Confidence 33445677899999999999776433321 2234567777655444
No 364
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=60.44 E-value=11 Score=48.44 Aligned_cols=39 Identities=23% Similarity=0.150 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhhcCCC---eEEEcCCCCcHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQLN---GILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~n---GILADEMGLGKTIqAIALI~~L 1133 (1605)
|...+..|...+.++.- -++.-+=|+|||-.|=-++..+
T Consensus 21 Qe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~Akal 62 (515)
T COG2812 21 QEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKAL 62 (515)
T ss_pred cHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHh
Confidence 67777777776666543 3788899999998774444433
No 365
>PRK11823 DNA repair protein RadA; Provisional
Probab=60.00 E-value=27 Score=44.25 Aligned_cols=46 Identities=15% Similarity=0.252 Sum_probs=31.4
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHH
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEIN 1160 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~ 1160 (1605)
.+|.-++|.|||..++.++..+... ..++|+|.-.....++.....
T Consensus 83 ~lI~G~pG~GKTtL~lq~a~~~a~~---g~~vlYvs~Ees~~qi~~ra~ 128 (446)
T PRK11823 83 VLIGGDPGIGKSTLLLQVAARLAAA---GGKVLYVSGEESASQIKLRAE 128 (446)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhc---CCeEEEEEccccHHHHHHHHH
Confidence 4789999999999998887766532 346788876544444443333
No 366
>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=59.77 E-value=30 Score=38.46 Aligned_cols=35 Identities=23% Similarity=0.221 Sum_probs=24.2
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
++.-+|++|||...|..+..+.. ...++|++-|.-
T Consensus 5 ~i~GpM~sGKS~eLi~~~~~~~~---~~~~v~~~kp~~ 39 (176)
T PF00265_consen 5 FITGPMFSGKSTELIRRIHRYEI---AGKKVLVFKPAI 39 (176)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHH---TT-EEEEEEEST
T ss_pred EEECCcCChhHHHHHHHHHHHHh---CCCeEEEEEecc
Confidence 56689999999888776655533 234578888754
No 367
>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=59.58 E-value=17 Score=39.32 Aligned_cols=48 Identities=17% Similarity=0.116 Sum_probs=34.6
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHh
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFW 1162 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~Kw 1162 (1605)
.+|+.+.|+|||..++.++...... ..+++++.......+....+..+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~---g~~v~~~s~e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLAR---GEPGLYVTLEESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHC---CCcEEEEECCCCHHHHHHHHHHc
Confidence 4788999999999999888776632 35688888766665555554433
No 368
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=59.07 E-value=22 Score=42.90 Aligned_cols=97 Identities=18% Similarity=0.255 Sum_probs=56.7
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHhc---CCCCCEEEEecCC-ccc-----chHHHHHHhC--CC--ceEEEEcCChhH
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMETK---NDRGPFLVVVPSS-VLP-----GWESEINFWA--PR--IHKIVYCGPPEE 1177 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~k---~~~gP~LIVvP~S-LL~-----nW~~Ef~Kwa--P~--l~vivy~Gs~~~ 1177 (1605)
=|++..+||+||+ -|+..++..+ .....+++|+|.. ++. -|..++.+=. ++ -.++--.|
T Consensus 89 I~~VYGPTG~GKS----qLlRNLis~~lI~P~PETVfFItP~~~mIpp~E~~aW~~Ql~EgNY~~~~~gTi~P~t~---- 160 (369)
T PF02456_consen 89 IGVVYGPTGSGKS----QLLRNLISCQLIQPPPETVFFITPQKDMIPPQEITAWETQLCEGNYDCGPDGTIVPQTG---- 160 (369)
T ss_pred EEEEECCCCCCHH----HHHHHhhhcCcccCCCCceEEECCCCCCCCHHHHHHHHHHHHhcCCCCCCCCeeccccc----
Confidence 4688999999999 4555555443 2334589999965 543 3877775321 11 11111111
Q ss_pred HHHHHHhhhhcCCccEEEEcHHHHhhccCCC---------cccccCccEEEEecCcc
Q 000377 1178 RRRLFKEKIVHQKFNVLLTTYEYLMNKHDRP---------KLSKIQWHYIIIDEGHR 1225 (1605)
Q Consensus 1178 R~~l~~~~i~~~~fdVVITTYe~L~k~~D~~---------~L~ki~wd~VIIDEAHr 1225 (1605)
.-..++|-+||+-+....... .-.+...-.||+|||=.
T Consensus 161 ----------t~~P~Fv~msy~e~t~~~NldI~~p~NiF~~Aa~~GPiaIImDECMe 207 (369)
T PF02456_consen 161 ----------TFRPKFVEMSYDEATSPENLDITNPNNIFAQAAKKGPIAIIMDECME 207 (369)
T ss_pred ----------cccccceeecHhhhCCccccCCCCchHHHHHHHhcCCEEEEhHHHHH
Confidence 123567788888887533211 12344567899999854
No 369
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=58.51 E-value=38 Score=48.95 Aligned_cols=61 Identities=20% Similarity=0.222 Sum_probs=39.4
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc-CCCCCEEEEecCCcc
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK-NDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k-~~~gP~LIVvP~SLL 1152 (1605)
.|.+-|.+++..++. ..+.-.+|--..|+|||.+.-+++..+.... .....++.++|+.--
T Consensus 835 ~Lt~~Qr~Av~~iLt--s~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkA 896 (1623)
T PRK14712 835 KLTSGQRAATRMILE--TSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRA 896 (1623)
T ss_pred ccCHHHHHHHHHHHh--CCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHH
Confidence 688999999987764 1234467888899999988644443322211 122347778887643
No 370
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=58.43 E-value=21 Score=47.76 Aligned_cols=95 Identities=16% Similarity=0.158 Sum_probs=74.3
Q ss_pred hhhccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc-CceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEE
Q 000377 1406 VRLCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK-QYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLL 1484 (1605)
Q Consensus 1406 vr~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~-GikylrLdGsts~eERqeiId~FN~gds~~~VfLL 1484 (1605)
+..|||.+...+++.+..+.|+.+||-..-......+.+.|..+ |.++..++++.++.+|.....+...++.. ++|
T Consensus 225 vTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~---vVI 301 (730)
T COG1198 225 VTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEAR---VVI 301 (730)
T ss_pred CCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCce---EEE
Confidence 46699999999999999999999999999988887777777654 78999999999999999999998887765 556
Q ss_pred eccccccccCcccCCEEEEE
Q 000377 1485 SIRAGGVGVNLQAADTVIIF 1504 (1605)
Q Consensus 1485 STrAGGeGLNLq~ADtVIiy 1504 (1605)
.|+++= =+=+.+.-.||+.
T Consensus 302 GtRSAl-F~Pf~~LGLIIvD 320 (730)
T COG1198 302 GTRSAL-FLPFKNLGLIIVD 320 (730)
T ss_pred Eechhh-cCchhhccEEEEe
Confidence 655542 2223344445544
No 371
>CHL00176 ftsH cell division protein; Validated
Probab=58.38 E-value=49 Score=43.91 Aligned_cols=23 Identities=26% Similarity=0.250 Sum_probs=18.6
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALIC 1131 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~ 1131 (1605)
..+.+|.-+.|+|||..+=+++.
T Consensus 216 p~gVLL~GPpGTGKT~LAralA~ 238 (638)
T CHL00176 216 PKGVLLVGPPGTGKTLLAKAIAG 238 (638)
T ss_pred CceEEEECCCCCCHHHHHHHHHH
Confidence 34678999999999998866654
No 372
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=58.31 E-value=44 Score=40.71 Aligned_cols=45 Identities=18% Similarity=0.255 Sum_probs=34.1
Q ss_pred ccHHHHHHHHHHHHHhhcCCCe-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNG-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nG-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
++|+|....+.+...+..-..+ |+..+.|+|||..|..++..++-
T Consensus 2 ~yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC 47 (325)
T PRK08699 2 IYPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQALLC 47 (325)
T ss_pred CCCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHHHHcC
Confidence 4688888877777665443344 57899999999999888887764
No 373
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=57.97 E-value=1.4e+02 Score=37.33 Aligned_cols=146 Identities=17% Similarity=0.114 Sum_probs=76.0
Q ss_pred CCccHHHHHHHHHHHHHhhcC--CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCc
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQ--LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRI 1166 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~--~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l 1166 (1605)
.--|++|...+.-++.-...- -..+|....|+|||..+-.++..+ +.|.+.|++... ..|+.-+++..-.+
T Consensus 8 v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~------n~~~vw~n~~ec-ft~~~lle~IL~~~ 80 (438)
T KOG2543|consen 8 VPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL------NLENVWLNCVEC-FTYAILLEKILNKS 80 (438)
T ss_pred ccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc------CCcceeeehHHh-ccHHHHHHHHHHHh
Confidence 456899999887655411110 123788899999998887666543 445677776543 33444333332111
Q ss_pred eEEEEcCChhHH-HHHHHhhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh-----
Q 000377 1167 HKIVYCGPPEER-RRLFKEKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY----- 1240 (1605)
Q Consensus 1167 ~vivy~Gs~~~R-~~l~~~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L----- 1240 (1605)
...-+.|...+- ...+. +|--++..|+...+ ...--++|+|-|+.+....+-+...+-.+
T Consensus 81 ~~~d~dg~~~~~~~en~~------d~i~~l~q~~~~t~--------~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~ 146 (438)
T KOG2543|consen 81 QLADKDGDKVEGDAENFS------DFIYLLVQWPAATN--------RDQKVFLILDNADALRDMDAILLQCLFRLYELLN 146 (438)
T ss_pred ccCCCchhhhhhHHHHHH------HHHHHHHhhHHhhc--------cCceEEEEEcCHHhhhccchHHHHHHHHHHHHhC
Confidence 111111111110 00010 01000111111111 11345799999999998887776666544
Q ss_pred hccceecccccCCCC
Q 000377 1241 QSSHRLLLTGTPLQN 1255 (1605)
Q Consensus 1241 ~a~~RLLLTGTPlqN 1255 (1605)
...-+++++.++..+
T Consensus 147 ~~~i~iils~~~~e~ 161 (438)
T KOG2543|consen 147 EPTIVIILSAPSCEK 161 (438)
T ss_pred CCceEEEEeccccHH
Confidence 235568888887543
No 374
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=57.70 E-value=1.4e+02 Score=39.62 Aligned_cols=21 Identities=29% Similarity=0.267 Sum_probs=16.1
Q ss_pred CCeEEEcCCCCcHHHHHHHHH
Q 000377 1110 LNGILADEMGLGKTVQVIALI 1130 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI 1130 (1605)
...+|.-+.|+|||..+=++.
T Consensus 176 ~~vlL~Gp~GtGKTTLAr~i~ 196 (615)
T TIGR02903 176 QHIILYGPPGVGKTTAARLAL 196 (615)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 457889999999998774433
No 375
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=57.37 E-value=14 Score=46.95 Aligned_cols=48 Identities=27% Similarity=0.270 Sum_probs=35.6
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHh
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFW 1162 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~Kw 1162 (1605)
..+.||+.+.|+|||+.|-++...+ ..+++-|-...++..|.-|.++-
T Consensus 276 ~~giLl~GpPGtGKT~lAkava~~~------~~~fi~v~~~~l~sk~vGesek~ 323 (494)
T COG0464 276 PKGVLLYGPPGTGKTLLAKAVALES------RSRFISVKGSELLSKWVGESEKN 323 (494)
T ss_pred CCeeEEECCCCCCHHHHHHHHHhhC------CCeEEEeeCHHHhccccchHHHH
Confidence 3467899999999999997776532 34566665558888898887643
No 376
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=57.26 E-value=22 Score=43.25 Aligned_cols=44 Identities=27% Similarity=0.340 Sum_probs=32.1
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
.+.+.++|..-+..++ ..+.|.|++-+||+|||-..-+++.++.
T Consensus 126 ~g~~~~~~~~~L~~~v---~~~~nilI~G~tGSGKTTll~aL~~~i~ 169 (323)
T PRK13833 126 SKIMTEAQASVIRSAI---DSRLNIVISGGTGSGKTTLANAVIAEIV 169 (323)
T ss_pred cCCCCHHHHHHHHHHH---HcCCeEEEECCCCCCHHHHHHHHHHHHh
Confidence 4567777776655444 4677889999999999987766666553
No 377
>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=57.16 E-value=22 Score=47.74 Aligned_cols=42 Identities=24% Similarity=0.303 Sum_probs=28.6
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchH
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWE 1156 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~ 1156 (1605)
..+.+|.-+.|+|||..+-+++..+ ..+++.|-+..++..|.
T Consensus 487 ~~giLL~GppGtGKT~lakalA~e~------~~~fi~v~~~~l~~~~v 528 (733)
T TIGR01243 487 PKGVLLFGPPGTGKTLLAKAVATES------GANFIAVRGPEILSKWV 528 (733)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhc------CCCEEEEehHHHhhccc
Confidence 3456889999999998886665533 34577666655555553
No 378
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=57.05 E-value=15 Score=48.51 Aligned_cols=64 Identities=16% Similarity=0.199 Sum_probs=43.4
Q ss_pred ccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc-CCCCCEEEEecCC-cccchHHHHH
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK-NDRGPFLVVVPSS-VLPGWESEIN 1160 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k-~~~gP~LIVvP~S-LL~nW~~Ef~ 1160 (1605)
|.|-|.+++.+- ....++....|+|||.+.+.-|.++++.. .....+|+|+.+. ...+-...+.
T Consensus 2 Ln~~Q~~av~~~------~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~ 67 (664)
T TIGR01074 2 LNPQQQEAVEYV------TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVA 67 (664)
T ss_pred CCHHHHHHHhCC------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHH
Confidence 678899988642 34566667799999999999999998753 3344577776543 3333444443
No 379
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=56.98 E-value=32 Score=46.46 Aligned_cols=27 Identities=30% Similarity=0.394 Sum_probs=21.1
Q ss_pred cCCCeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1108 NQLNGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1108 n~~nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
...+.||.-+.|+|||..+-++.....
T Consensus 206 ~~~n~LLvGppGvGKT~lae~la~~i~ 232 (758)
T PRK11034 206 RKNNPLLVGESGVGKTAIAEGLAWRIV 232 (758)
T ss_pred CCCCeEEECCCCCCHHHHHHHHHHHHH
Confidence 356789999999999998877665443
No 380
>PRK06904 replicative DNA helicase; Validated
Probab=56.83 E-value=61 Score=41.48 Aligned_cols=60 Identities=17% Similarity=0.021 Sum_probs=39.0
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHH
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEI 1159 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef 1159 (1605)
.|..+..-+..+.=.|||.-+|.|||.-++.++...... ...|++++..--...++...+
T Consensus 210 ~LD~~t~Gl~~G~LiiIaarPg~GKTafalnia~~~a~~--~g~~Vl~fSlEMs~~ql~~Rl 269 (472)
T PRK06904 210 DLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMA--SEKPVLVFSLEMPAEQIMMRM 269 (472)
T ss_pred HHHHHHhccCCCcEEEEEeCCCCChHHHHHHHHHHHHHh--cCCeEEEEeccCCHHHHHHHH
Confidence 444444444444456899999999999888777655432 245788887665555555443
No 381
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.56 E-value=92 Score=41.23 Aligned_cols=40 Identities=15% Similarity=0.046 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHhhcCC--C-eEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--N-GILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--n-GILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...+..+...+.++. . -|++.+.|+|||..+..++..+.
T Consensus 22 q~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~ 64 (614)
T PRK14971 22 QEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTIN 64 (614)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence 5555555555554442 2 47899999999997766666553
No 382
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=56.52 E-value=98 Score=43.22 Aligned_cols=44 Identities=27% Similarity=0.378 Sum_probs=30.0
Q ss_pred CCchHHHHHHHHhhhhhhhhhhcCCC-----CceeEeeeecCCccCCCC
Q 000377 460 MPFKEQQLKQLRAQCLVFLAFRNGLV-----PKKLHLEIALGNIFPREG 503 (1605)
Q Consensus 460 ~pf~eq~l~qlraqclvfla~rn~~~-----p~k~hl~ialg~~~~~~~ 503 (1605)
-+|.|.++..+=.|.|.=|+|=-.+- ..-+|-+|-..|++=..+
T Consensus 113 g~L~E~~Il~Ia~QIL~ALaYLHs~g~~~~~k~IVHRDLKPeNILL~s~ 161 (1021)
T PTZ00266 113 GKIEEHAIVDITRQLLHALAYCHNLKDGPNGERVLHRDLKPQNIFLSTG 161 (1021)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhcccccccCCceeccCcHHHeEeecC
Confidence 36788888887777777666643322 235888888888876544
No 383
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=56.32 E-value=9.8 Score=47.17 Aligned_cols=17 Identities=35% Similarity=0.251 Sum_probs=14.4
Q ss_pred CeEEEcCCCCcHHHHHH
Q 000377 1111 NGILADEMGLGKTVQVI 1127 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAI 1127 (1605)
.-||.-+.|+|||-.|-
T Consensus 50 SmIl~GPPG~GKTTlA~ 66 (436)
T COG2256 50 SMILWGPPGTGKTTLAR 66 (436)
T ss_pred eeEEECCCCCCHHHHHH
Confidence 45999999999997773
No 384
>PHA00012 I assembly protein
Probab=56.31 E-value=32 Score=42.04 Aligned_cols=24 Identities=21% Similarity=0.382 Sum_probs=18.1
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1113 ILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
++.--.|+|||+.+++-|...+..
T Consensus 5 lITGkPGSGKSl~aV~~I~~~L~~ 28 (361)
T PHA00012 5 VVTGKLGAGKTLVAVSRIQDKLVK 28 (361)
T ss_pred EEecCCCCCchHHHHHHHHHHHHc
Confidence 456678999999999866665543
No 385
>PRK10689 transcription-repair coupling factor; Provisional
Probab=56.19 E-value=59 Score=45.98 Aligned_cols=94 Identities=15% Similarity=0.065 Sum_probs=65.8
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh----cCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEE
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF----KQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFL 1483 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~----~GikylrLdGsts~eERqeiId~FN~gds~~~VfL 1483 (1605)
.+||.......+-.....+.+|+|.+..+..+..+...|.. .++++..++|..+..++..+++....+..+ |++
T Consensus 631 GsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~d--IVV 708 (1147)
T PRK10689 631 GFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKID--ILI 708 (1147)
T ss_pred CcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCC--EEE
Confidence 47888765554444455788999999999887766665543 356778899999999999999988776655 444
Q ss_pred EeccccccccCcccCCEEEE
Q 000377 1484 LSIRAGGVGVNLQAADTVII 1503 (1605)
Q Consensus 1484 LSTrAGGeGLNLq~ADtVIi 1503 (1605)
.+.......+.+.....||+
T Consensus 709 gTp~lL~~~v~~~~L~lLVI 728 (1147)
T PRK10689 709 GTHKLLQSDVKWKDLGLLIV 728 (1147)
T ss_pred ECHHHHhCCCCHhhCCEEEE
Confidence 44444444556666666554
No 386
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.12 E-value=34 Score=41.73 Aligned_cols=40 Identities=20% Similarity=0.116 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhhcCC---CeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL---NGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~---nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
|...++.+...+.++. ..|+..+.|+|||..+-+++..+.
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~ 64 (367)
T PRK14970 22 QSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKIN 64 (367)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 5555666666655542 457899999999988877765543
No 387
>PRK05595 replicative DNA helicase; Provisional
Probab=55.84 E-value=1.5e+02 Score=37.69 Aligned_cols=60 Identities=12% Similarity=0.032 Sum_probs=36.9
Q ss_pred HHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHH
Q 000377 1097 SGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESE 1158 (1605)
Q Consensus 1097 eGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~E 1158 (1605)
..+.-+..-+..+.=.|||..+|.|||..++.++...... ...+++++..--...++...
T Consensus 189 ~~ld~~~~G~~~g~liviaarpg~GKT~~al~ia~~~a~~--~g~~vl~fSlEms~~~l~~R 248 (444)
T PRK05595 189 RELDAKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALR--EGKSVAIFSLEMSKEQLAYK 248 (444)
T ss_pred HHHHHhcCCCCCCcEEEEEecCCCChHHHHHHHHHHHHHH--cCCcEEEEecCCCHHHHHHH
Confidence 3444444333344445889999999999998888765322 23567877654444444443
No 388
>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=55.57 E-value=83 Score=39.91 Aligned_cols=33 Identities=21% Similarity=0.236 Sum_probs=23.1
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEec
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVP 1148 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP 1148 (1605)
.++-..|+|||-++..++.++... .. ++++|+-
T Consensus 104 ~lvG~~GvGKTTtaaKLA~~l~~~--G~-kV~lV~~ 136 (429)
T TIGR01425 104 MFVGLQGSGKTTTCTKLAYYYQRK--GF-KPCLVCA 136 (429)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHC--CC-CEEEEcC
Confidence 577899999999998888766432 22 4555554
No 389
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=55.53 E-value=41 Score=41.67 Aligned_cols=49 Identities=24% Similarity=0.201 Sum_probs=33.6
Q ss_pred CCccHHHHHHHHHHHHH-hhc--CCCeEEEcCCCCcHHHHHHHHHHHHHHhc
Q 000377 1089 GKLREYQMSGLRWLVSL-YNN--QLNGILADEMGLGKTVQVIALICYLMETK 1137 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL-~~n--~~nGILADEMGLGKTIqAIALI~~Lle~k 1137 (1605)
..-|+-|+.-+...+.- +.+ ..|.++.-.+|+|||.++-.++..+.+..
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~ 70 (366)
T COG1474 19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESS 70 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhh
Confidence 34677788777654443 222 23578999999999999877766665543
No 390
>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=55.24 E-value=49 Score=38.64 Aligned_cols=16 Identities=31% Similarity=0.395 Sum_probs=13.9
Q ss_pred CeEEEcCCCCcHHHHH
Q 000377 1111 NGILADEMGLGKTVQV 1126 (1605)
Q Consensus 1111 nGILADEMGLGKTIqA 1126 (1605)
..|+.-+.|+|||-.|
T Consensus 52 h~lf~GPPG~GKTTLA 67 (233)
T PF05496_consen 52 HMLFYGPPGLGKTTLA 67 (233)
T ss_dssp EEEEESSTTSSHHHHH
T ss_pred eEEEECCCccchhHHH
Confidence 4799999999999666
No 391
>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=54.86 E-value=40 Score=45.25 Aligned_cols=23 Identities=26% Similarity=0.205 Sum_probs=17.6
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALIC 1131 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~ 1131 (1605)
..+.+|..+.|+|||..+-+++.
T Consensus 212 ~~giLL~GppGtGKT~laraia~ 234 (733)
T TIGR01243 212 PKGVLLYGPPGTGKTLLAKAVAN 234 (733)
T ss_pred CceEEEECCCCCChHHHHHHHHH
Confidence 35678999999999987755544
No 392
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=54.46 E-value=16 Score=48.82 Aligned_cols=55 Identities=22% Similarity=0.236 Sum_probs=41.0
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCCCEEEEecCC
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-DRGPFLVVVPSS 1150 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-~~gP~LIVvP~S 1150 (1605)
.|.|-|.+++.+- ....++....|+|||.+.+.-++++++..+ ....+|+|+-+.
T Consensus 9 ~Ln~~Q~~av~~~------~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~ 64 (721)
T PRK11773 9 SLNDKQREAVAAP------LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTN 64 (721)
T ss_pred hcCHHHHHHHhCC------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccH
Confidence 5889999998632 234566666999999999999999987432 334588888754
No 393
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=53.78 E-value=29 Score=44.13 Aligned_cols=58 Identities=16% Similarity=0.155 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHhh-cC----CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCC-EEEEecCC
Q 000377 1093 EYQMSGLRWLVSLYN-NQ----LNGILADEMGLGKTVQVIALICYLMETKNDRGP-FLVVVPSS 1150 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~-n~----~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP-~LIVvP~S 1150 (1605)
|+|...+..+.-... .+ ..++|.-.=|-|||..+.++++|.+-..+..++ ++++++..
T Consensus 1 PwQ~fi~~~i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~ 64 (477)
T PF03354_consen 1 PWQKFILRSIFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTR 64 (477)
T ss_pred CcHHHHHHHHhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCH
Confidence 678877665543211 11 125677788999999988887776654444444 55555543
No 394
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=53.43 E-value=15 Score=49.05 Aligned_cols=55 Identities=20% Similarity=0.207 Sum_probs=41.5
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCCCEEEEecCC
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-DRGPFLVVVPSS 1150 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-~~gP~LIVvP~S 1150 (1605)
.|-|-|.++|.+- ....++....|+|||.+.++-++++++..+ ....+|+|+.+.
T Consensus 4 ~Ln~~Q~~av~~~------~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTn 59 (715)
T TIGR01075 4 GLNDKQREAVAAP------PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTN 59 (715)
T ss_pred ccCHHHHHHHcCC------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccH
Confidence 5889999998632 345566677899999999999999997533 344588888754
No 395
>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=53.24 E-value=27 Score=42.91 Aligned_cols=60 Identities=28% Similarity=0.359 Sum_probs=44.3
Q ss_pred CccHHHHHHHHHHHHHhhc--CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc
Q 000377 1090 KLREYQMSGLRWLVSLYNN--QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n--~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL 1152 (1605)
+|-+-|..++.+++..+.. +.+.+|--.-|+|||...=+++.++.. ....+++++|+.+-
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~---~~~~~~~~a~tg~A 62 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS---RGKKVLVTAPTGIA 62 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc---ccceEEEecchHHH
Confidence 4678899999998776643 445578889999999988777665532 34568999998753
No 396
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=52.81 E-value=1.5e+02 Score=36.19 Aligned_cols=32 Identities=19% Similarity=0.225 Sum_probs=22.4
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV 1147 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv 1147 (1605)
.|.-+.|.|||.++..++.++... .+.++|+.
T Consensus 118 ~lvGpnGsGKTTt~~kLA~~l~~~---g~~V~Li~ 149 (318)
T PRK10416 118 LVVGVNGVGKTTTIGKLAHKYKAQ---GKKVLLAA 149 (318)
T ss_pred EEECCCCCcHHHHHHHHHHHHHhc---CCeEEEEe
Confidence 456799999999988777766432 23456655
No 397
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=52.58 E-value=3.1e+02 Score=37.57 Aligned_cols=22 Identities=32% Similarity=0.380 Sum_probs=17.0
Q ss_pred cccccccccCCCCCCcccCCCC
Q 000377 312 LASRGTWNQNRAGFPFERSQVP 333 (1605)
Q Consensus 312 ~~~~~~~~~~~~~~~~~~~~~~ 333 (1605)
|.+.+-=+++.+|+|.-.+|+|
T Consensus 115 ~~~~~p~~~~~~gpp~g~~q~~ 136 (1007)
T KOG1984|consen 115 FAAAGPSSGSGTGPPSGNSQGP 136 (1007)
T ss_pred ccccCCCCCCcCCCCCCccCCC
Confidence 5666667788889998888776
No 398
>PRK09165 replicative DNA helicase; Provisional
Probab=52.40 E-value=68 Score=41.33 Aligned_cols=130 Identities=14% Similarity=0.072 Sum_probs=64.3
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC------------CCCCEEEEecCCcccchHHHHHHhCCC
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN------------DRGPFLVVVPSSVLPGWESEINFWAPR 1165 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~------------~~gP~LIVvP~SLL~nW~~Ef~KwaP~ 1165 (1605)
.|.-+..-+..+.=.|||..+|.|||.-++.++........ ...++|++..--...++...+-....+
T Consensus 206 ~LD~~~gG~~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~~ql~~R~la~~s~ 285 (497)
T PRK09165 206 DLDSKLGGLHPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSAEQLATRILSEQSE 285 (497)
T ss_pred HHhhhcCCCCCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCHHHHHHHHHHHhcC
Confidence 33434333333334589999999999999888776654321 135677776544444544433222111
Q ss_pred ceEE-EEcC--ChhHHHHHHHhhhhcCCccEEEE-----cHHHHhhccCCCcccccCccEEEEecCccccC
Q 000377 1166 IHKI-VYCG--PPEERRRLFKEKIVHQKFNVLLT-----TYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN 1228 (1605)
Q Consensus 1166 l~vi-vy~G--s~~~R~~l~~~~i~~~~fdVVIT-----TYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN 1228 (1605)
+..- +..| +..+..++..........+++|. |.+.+..... ........++||||=.|.|..
T Consensus 286 v~~~~i~~~~l~~~e~~~l~~a~~~l~~~~l~I~d~~~~ti~~i~~~ir-~l~~~~~~~lvvIDyLqli~~ 355 (497)
T PRK09165 286 ISSSKIRRGKISEEDFEKLVDASQELQKLPLYIDDTPALSISQLRARAR-RLKRQHGLDLLVVDYLQLIRG 355 (497)
T ss_pred CCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCCHHHHHHHHH-HHHHhcCCCEEEEcchHhccC
Confidence 1110 1111 12222233222222234445553 2334432211 112234678999999888763
No 399
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=52.29 E-value=69 Score=39.11 Aligned_cols=125 Identities=19% Similarity=0.206 Sum_probs=70.1
Q ss_pred CCcHHHHHHHHHHHHHHhcCC------------CCCEEEEecCCcccchHHH---HHHhCCCceEEEEcCChhHHHHHHH
Q 000377 1119 GLGKTVQVIALICYLMETKND------------RGPFLVVVPSSVLPGWESE---INFWAPRIHKIVYCGPPEERRRLFK 1183 (1605)
Q Consensus 1119 GLGKTIqAIALI~~Lle~k~~------------~gP~LIVvP~SLL~nW~~E---f~KwaP~l~vivy~Gs~~~R~~l~~ 1183 (1605)
|+|||=.++.++.++.+.+.. .+..++|.+.+.-..--+| +.+.+| +.+++.. +|.+...
T Consensus 47 GTGKTP~v~~L~~~L~~~G~~~~IlSRGYg~~~~~~~~~v~~~~~~~~~GDEp~lla~~~~-~~V~V~~----dR~~~~~ 121 (326)
T PF02606_consen 47 GTGKTPLVIWLARLLQARGYRPAILSRGYGRKSKGEPILVSDGSDAEEVGDEPLLLARKLP-VPVIVGP----DRVAAAR 121 (326)
T ss_pred CCCchHHHHHHHHHHHhcCCceEEEcCCCCCCCCCCeEEEeCCCChhhhcCHHHHHHHhcC-CcEEEeC----cHHHHHH
Confidence 999999999999988776311 1125777777744333333 566677 5555532 2222222
Q ss_pred hhhhcCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccC----ccchHHHHHHhhhccceecccccCCC
Q 000377 1184 EKIVHQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKN----ASCKLNADLKHYQSSHRLLLTGTPLQ 1254 (1605)
Q Consensus 1184 ~~i~~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN----~~SKlsraL~~L~a~~RLLLTGTPlq 1254 (1605)
........+|+|.-=.+-. .--..++++|++|-.+-+.| +...+..-+..+...-.+++|+.+-.
T Consensus 122 ~~~~~~~~dviilDDGfQh------~~L~rDl~Ivl~D~~~~~gng~lLPaG~LREp~~~l~rAD~vi~~~~~~~ 190 (326)
T PF02606_consen 122 AALKEFPADVIILDDGFQH------RRLKRDLDIVLVDADRPFGNGFLLPAGPLREPLSALKRADAVIVTGCDAS 190 (326)
T ss_pred HHHHHCCCCEEEEcCCccc------ccccCCcEEEEEeCCCCCcCCccCCCCcccCChhHhCcccEEEEcCCCcc
Confidence 2222233787775422211 11223578999998777766 23333333444544555667877743
No 400
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=52.29 E-value=41 Score=42.59 Aligned_cols=25 Identities=28% Similarity=0.337 Sum_probs=20.6
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1111 NGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
..+++..+|+|||.++..++.++..
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~ 121 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKK 121 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHH
Confidence 4578899999999999888877654
No 401
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=52.13 E-value=63 Score=43.49 Aligned_cols=22 Identities=27% Similarity=0.291 Sum_probs=19.1
Q ss_pred CCCeEEEcCCCCcHHHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALI 1130 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI 1130 (1605)
..|+||.-+.|+|||+.|-|++
T Consensus 344 PkGvLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 344 PKGVLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred cCceEEECCCCCcHHHHHHHHh
Confidence 4688999999999999887766
No 402
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=52.10 E-value=2.9e+02 Score=36.77 Aligned_cols=46 Identities=22% Similarity=0.231 Sum_probs=29.0
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEIN 1160 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~ 1160 (1605)
..|.+|+.+.|+|||+.|=|++... +.+ |+-|-=.-|+..|.-|-+
T Consensus 545 PsGvLL~GPPGCGKTLlAKAVANEa----g~N--FisVKGPELlNkYVGESE 590 (802)
T KOG0733|consen 545 PSGVLLCGPPGCGKTLLAKAVANEA----GAN--FISVKGPELLNKYVGESE 590 (802)
T ss_pred CCceEEeCCCCccHHHHHHHHhhhc----cCc--eEeecCHHHHHHHhhhHH
Confidence 4567899999999999886665321 111 333333446666766654
No 403
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=51.51 E-value=36 Score=38.78 Aligned_cols=35 Identities=23% Similarity=0.181 Sum_probs=23.8
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
++..+|.+|||..-|-.+..+ .....+++|..|..
T Consensus 8 ~i~gpM~SGKT~eLl~r~~~~---~~~g~~v~vfkp~i 42 (201)
T COG1435 8 FIYGPMFSGKTEELLRRARRY---KEAGMKVLVFKPAI 42 (201)
T ss_pred EEEccCcCcchHHHHHHHHHH---HHcCCeEEEEeccc
Confidence 577899999997655444433 33345688888864
No 404
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=51.38 E-value=26 Score=43.18 Aligned_cols=48 Identities=23% Similarity=0.199 Sum_probs=29.5
Q ss_pred cCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHH
Q 000377 1108 NQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINF 1161 (1605)
Q Consensus 1108 n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~K 1161 (1605)
...|.+|..+.|+|||..|-++.... ..+++=|-=..+...|--|-+|
T Consensus 126 p~kGiLL~GPpG~GKTmlAKA~Akea------ga~fInv~~s~lt~KWfgE~eK 173 (386)
T KOG0737|consen 126 PPKGILLYGPPGTGKTMLAKAIAKEA------GANFINVSVSNLTSKWFGEAQK 173 (386)
T ss_pred CCccceecCCCCchHHHHHHHHHHHc------CCCcceeeccccchhhHHHHHH
Confidence 56778899999999999887665422 2333333333344556555443
No 405
>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=51.31 E-value=71 Score=35.25 Aligned_cols=55 Identities=20% Similarity=0.205 Sum_probs=32.8
Q ss_pred cccccCccEEEEecCccccCc----cchHHHHHHhhhccceecccccCCCCCHHHHHHHHHh
Q 000377 1209 KLSKIQWHYIIIDEGHRIKNA----SCKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNF 1266 (1605)
Q Consensus 1209 ~L~ki~wd~VIIDEAHriKN~----~SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnF 1266 (1605)
.+..-.+++||+||.=.+-+. ...+...+..-+...-++|||-- -+++|..+.++
T Consensus 90 ~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~---~p~~l~e~AD~ 148 (159)
T cd00561 90 AIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRN---APKELIEAADL 148 (159)
T ss_pred HHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCC---CCHHHHHhCce
Confidence 344567999999998766332 22334444443444569999964 44555554443
No 406
>PHA02244 ATPase-like protein
Probab=50.97 E-value=79 Score=39.47 Aligned_cols=39 Identities=18% Similarity=0.155 Sum_probs=27.8
Q ss_pred HHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe
Q 000377 1103 VSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV 1147 (1605)
Q Consensus 1103 lsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv 1147 (1605)
......+...+|..++|+|||..+-++...+ ..|++.|.
T Consensus 113 ~r~l~~~~PVLL~GppGtGKTtLA~aLA~~l------g~pfv~In 151 (383)
T PHA02244 113 AKIVNANIPVFLKGGAGSGKNHIAEQIAEAL------DLDFYFMN 151 (383)
T ss_pred HHHHhcCCCEEEECCCCCCHHHHHHHHHHHh------CCCEEEEe
Confidence 3344558889999999999998887666542 34655553
No 407
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=50.74 E-value=33 Score=41.69 Aligned_cols=42 Identities=24% Similarity=0.202 Sum_probs=29.9
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
+.+.+.|.+.+.++ ...+.+.+++-++|+|||-..-+++.++
T Consensus 131 g~~~~~~~~~L~~~---v~~~~~ilI~G~tGSGKTTll~aL~~~~ 172 (319)
T PRK13894 131 GIMTAAQREAIIAA---VRAHRNILVIGGTGSGKTTLVNAIINEM 172 (319)
T ss_pred CCCCHHHHHHHHHH---HHcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 45666676655444 4467888999999999997666666554
No 408
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=50.47 E-value=33 Score=41.90 Aligned_cols=35 Identities=20% Similarity=0.124 Sum_probs=26.5
Q ss_pred HHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1099 LRWLVSLYNNQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1099 L~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
..||......+.+.+++-+||+|||-..-+++.++
T Consensus 150 ~~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~i 184 (332)
T PRK13900 150 KEFLEHAVISKKNIIISGGTSTGKTTFTNAALREI 184 (332)
T ss_pred HHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhC
Confidence 45566666788899999999999997765655443
No 409
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=50.18 E-value=40 Score=45.34 Aligned_cols=21 Identities=29% Similarity=0.251 Sum_probs=17.0
Q ss_pred CeEEEcCCCCcHHHHHHHHHH
Q 000377 1111 NGILADEMGLGKTVQVIALIC 1131 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~ 1131 (1605)
+.||.-+.|+|||..+-++..
T Consensus 54 slLL~GPpGtGKTTLA~aIA~ 74 (725)
T PRK13341 54 SLILYGPPGVGKTTLARIIAN 74 (725)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 568999999999987765553
No 410
>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=50.07 E-value=32 Score=43.96 Aligned_cols=23 Identities=26% Similarity=0.235 Sum_probs=18.4
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALIC 1131 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~ 1131 (1605)
..+.||.-+.|+|||..+=+++.
T Consensus 88 ~~giLL~GppGtGKT~la~alA~ 110 (495)
T TIGR01241 88 PKGVLLVGPPGTGKTLLAKAVAG 110 (495)
T ss_pred CCcEEEECCCCCCHHHHHHHHHH
Confidence 34678999999999988866654
No 411
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=50.00 E-value=39 Score=42.63 Aligned_cols=58 Identities=19% Similarity=0.234 Sum_probs=36.3
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceEEEEc
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHKIVYC 1172 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~vivy~ 1172 (1605)
.+++-=-|+|||-++.-|+.|+.. ...+ +|+||-..--.--.++++..+-.+.+-+|.
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk--~~~k-vllVaaD~~RpAA~eQL~~La~q~~v~~f~ 160 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKK--KGKK-VLLVAADTYRPAAIEQLKQLAEQVGVPFFG 160 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHH--cCCc-eEEEecccCChHHHHHHHHHHHHcCCceec
Confidence 356777899999999888888866 3344 455554333333455565555555555554
No 412
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=49.67 E-value=1.2e+02 Score=38.56 Aligned_cols=76 Identities=13% Similarity=0.094 Sum_probs=44.0
Q ss_pred cCccEEEEecCccccCccchHHHHHHhh--------hccceecccccCCCCCHHHHHHHHHhhcCC-----------CCC
Q 000377 1213 IQWHYIIIDEGHRIKNASCKLNADLKHY--------QSSHRLLLTGTPLQNNLEELWALLNFLLPN-----------IFN 1273 (1605)
Q Consensus 1213 i~wd~VIIDEAHriKN~~SKlsraL~~L--------~a~~RLLLTGTPlqNnl~ELwsLLnFL~P~-----------if~ 1273 (1605)
..+++||||=+-+.-.... ....+..+ .....|.|+||--+..+.+....+..+.+. -++
T Consensus 298 ~~~D~VLIDTaGr~~rd~~-~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f~~~~~~glIlTKLDEt~~~G 376 (432)
T PRK12724 298 DGSELILIDTAGYSHRNLE-QLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTKLDEADFLG 376 (432)
T ss_pred CCCCEEEEeCCCCCccCHH-HHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHhcCCCCCEEEEEcccCCCCcc
Confidence 4678999997665432222 22222221 123458889998777777777766655442 233
Q ss_pred ChHHHHHHhcccccCC
Q 000377 1274 SSEDFSQWFNKPFESN 1289 (1605)
Q Consensus 1274 s~~~F~e~F~kP~e~~ 1289 (1605)
..-.....+..|+...
T Consensus 377 ~il~i~~~~~lPI~yl 392 (432)
T PRK12724 377 SFLELADTYSKSFTYL 392 (432)
T ss_pred HHHHHHHHHCCCEEEE
Confidence 4455556667777543
No 413
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=49.66 E-value=1.6e+02 Score=35.17 Aligned_cols=54 Identities=17% Similarity=0.212 Sum_probs=30.2
Q ss_pred CccEEEEecCccccCccchHH---HHHHhhhc-cceecccccCCCCCHHHHHHHHHhh
Q 000377 1214 QWHYIIIDEGHRIKNASCKLN---ADLKHYQS-SHRLLLTGTPLQNNLEELWALLNFL 1267 (1605)
Q Consensus 1214 ~wd~VIIDEAHriKN~~SKls---raL~~L~a-~~RLLLTGTPlqNnl~ELwsLLnFL 1267 (1605)
++++||||-+=+.-.....+. ..+..... ...|.|+||--.+...+....++-+
T Consensus 154 ~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f~~~ 211 (270)
T PRK06731 154 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDI 211 (270)
T ss_pred CCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHHHhCCC
Confidence 579999999866533222222 22222222 2346688887666666666655543
No 414
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=49.29 E-value=18 Score=46.87 Aligned_cols=46 Identities=26% Similarity=0.393 Sum_probs=34.6
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcC---CCCCEEEEecCCcccchHH
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKN---DRGPFLVVVPSSVLPGWES 1157 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~---~~gP~LIVvP~SLL~nW~~ 1157 (1605)
.|+-...|+|||-+|+.=++||+-..+ ..+|+||+.|+.+...+..
T Consensus 229 lVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis 277 (747)
T COG3973 229 LVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYIS 277 (747)
T ss_pred EEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHH
Confidence 356678999999999987877766433 3468999999987655433
No 415
>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=48.87 E-value=1.3e+02 Score=32.50 Aligned_cols=25 Identities=32% Similarity=0.424 Sum_probs=19.7
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1112 GILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
.++..+.|+|||..+..++..+...
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~ 27 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKK 27 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC
Confidence 3577899999999998888766543
No 416
>PF12846 AAA_10: AAA-like domain
Probab=48.81 E-value=27 Score=40.26 Aligned_cols=38 Identities=18% Similarity=0.291 Sum_probs=27.5
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
.+.+++-.+|+|||..+..++..++..+ .+++|+=|..
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g---~~~~i~D~~g 39 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRG---PRVVIFDPKG 39 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcC---CCEEEEcCCc
Confidence 4678889999999988887776665543 4466665553
No 417
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=48.73 E-value=4.1e+02 Score=35.69 Aligned_cols=91 Identities=16% Similarity=0.225 Sum_probs=67.1
Q ss_pred ccHHH-HHHHHHHHhhcCCCeEEEEEccH----HHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEE
Q 000377 1409 CGKLE-MLDRLLPKLKATDHRVLFFSTMT----RLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFL 1483 (1605)
Q Consensus 1409 SgKle-~L~~LL~kL~a~g~KVLIFSQft----~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfL 1483 (1605)
|||.- ++..++. ....|..+.+-...- ++.+-+..+|...|+++..|+|+++..+|.++++...+++.+ ++
T Consensus 294 SGKTvVA~laml~-ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~---iv 369 (677)
T COG1200 294 SGKTVVALLAMLA-AIEAGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEID---IV 369 (677)
T ss_pred CCHHHHHHHHHHH-HHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCC---EE
Confidence 56643 3334443 345677777766543 456778888888899999999999999999999999999888 67
Q ss_pred Eecccc-ccccCcccCCEEEE
Q 000377 1484 LSIRAG-GVGVNLQAADTVII 1503 (1605)
Q Consensus 1484 LSTrAG-GeGLNLq~ADtVIi 1503 (1605)
|.|.|. -..+++...-.||+
T Consensus 370 VGTHALiQd~V~F~~LgLVIi 390 (677)
T COG1200 370 VGTHALIQDKVEFHNLGLVII 390 (677)
T ss_pred EEcchhhhcceeecceeEEEE
Confidence 777765 44667776666665
No 418
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=48.58 E-value=31 Score=42.79 Aligned_cols=53 Identities=21% Similarity=0.285 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHhhcCC----CeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCc
Q 000377 1095 QMSGLRWLVSLYNNQL----NGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSV 1151 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~----nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SL 1151 (1605)
.++++.-++.+.+.+. +.+|+.++|+|||..|+++...| +..-||..++-.-+
T Consensus 32 AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eL----G~~~PF~~isgSEi 88 (398)
T PF06068_consen 32 AREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKEL----GEDVPFVSISGSEI 88 (398)
T ss_dssp HHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHC----TTTS-EEEEEGGGG
T ss_pred HHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHh----CCCCCeeEccccee
Confidence 4455555666666543 45789999999999998888766 45668887776544
No 419
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=48.39 E-value=69 Score=38.10 Aligned_cols=37 Identities=16% Similarity=0.186 Sum_probs=25.3
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV 1147 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv 1147 (1605)
...+|+.++|+|||.++..++.++....+. .++.||.
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~-~~V~li~ 231 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEHGN-KKVALIT 231 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHcCC-CeEEEEE
Confidence 344678899999999998888877654221 2355554
No 420
>PRK10263 DNA translocase FtsK; Provisional
Probab=48.38 E-value=58 Score=46.05 Aligned_cols=41 Identities=24% Similarity=0.366 Sum_probs=29.9
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCCCEEEEecCC
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLMETKN-DRGPFLVVVPSS 1150 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle~k~-~~gP~LIVvP~S 1150 (1605)
.+.++|-.+|+|||...-++|+.++.... ..-.+++|=|+.
T Consensus 1011 PHLLIAGaTGSGKSv~LntLIlSLl~~~sPeeVrl~LIDPK~ 1052 (1355)
T PRK10263 1011 PHLLVAGTTGSGKSVGVNAMILSMLYKAQPEDVRFIMIDPKM 1052 (1355)
T ss_pred CcEEEecCCCCCHHHHHHHHHHHHHHhCCccceEEEEECCCc
Confidence 57799999999999998888887665432 233456666764
No 421
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=47.85 E-value=1.1e+02 Score=37.03 Aligned_cols=46 Identities=11% Similarity=0.096 Sum_probs=33.6
Q ss_pred CccHHHHHHHHHHHHHhhcCC--CeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1090 KLREYQMSGLRWLVSLYNNQL--NGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~--nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
+|...|..++..+...+.++. .++|... |.||+..|..++..++..
T Consensus 2 ~l~~~q~~~~~~L~~~~~~~rl~hAyLf~G-~~G~~~~A~~~A~~llC~ 49 (290)
T PRK07276 2 DLKQKQPKVFQRFQTILEQDRLNHAYLFSG-DFASFEMALFLAQSLFCE 49 (290)
T ss_pred cHHHHHHHHHHHHHHHHHcCCcceeeeeeC-CccHHHHHHHHHHHHcCC
Confidence 467788888888888877664 3455443 689999998888877654
No 422
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=47.83 E-value=78 Score=41.07 Aligned_cols=171 Identities=14% Similarity=0.105 Sum_probs=89.1
Q ss_pred CCccHHHHHHHHHHHHHhhcCCC------eEEEcCCCCcHHHHHHHHHHHH--HHhcCCCCCEEEEecCCcc-cchHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLN------GILADEMGLGKTVQVIALICYL--METKNDRGPFLVVVPSSVL-PGWESEI 1159 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~n------GILADEMGLGKTIqAIALI~~L--le~k~~~gP~LIVvP~SLL-~nW~~Ef 1159 (1605)
..|-|||...+.-+.-.++..-+ ++|..+=+=|||..+.+++.+. +.. .....++|++|.--. .+--.++
T Consensus 60 ~~l~PwQkFiia~l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~-~~~~~~~i~A~s~~qa~~~F~~a 138 (546)
T COG4626 60 ESLEPWQKFIVAALFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNW-RSGAGIYILAPSVEQAANSFNPA 138 (546)
T ss_pred cccchHHHHHHHHHhceeecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhh-hcCCcEEEEeccHHHHHHhhHHH
Confidence 57999999999888766666544 3788888999998776665553 333 333347888886522 2222222
Q ss_pred HHhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEc---HHHHhh-ccCCCcccccCccEEEEecCccccCccchHHH
Q 000377 1160 NFWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTT---YEYLMN-KHDRPKLSKIQWHYIIIDEGHRIKNASCKLNA 1235 (1605)
Q Consensus 1160 ~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITT---Ye~L~k-~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsr 1235 (1605)
+...-... .-+. ........+.|+. +..+.. ..+...+...+..++||||-|..++.. ..+.
T Consensus 139 r~mv~~~~--------~l~~-----~~~~q~~s~~i~~~~~~s~ik~~aa~~~~~Dg~~~~~~I~DEih~f~~~~-~~~~ 204 (546)
T COG4626 139 RDMVKRDD--------DLRD-----LCNVQTHSRTITHRKTDSTIKAVAADPNTVDGLNSVGAIIDELHLFGKQE-DMYS 204 (546)
T ss_pred HHHHHhCc--------chhh-----hhccccceeEEEecccceeeeeeccCCCcccCCCcceEEEehhhhhcCHH-HHHH
Confidence 21111111 0000 0000111222211 111110 113445677789999999999998876 4444
Q ss_pred HHH-hhh---ccceeccc--ccCCCCCHHHHHHHHHhhcCCCCCC
Q 000377 1236 DLK-HYQ---SSHRLLLT--GTPLQNNLEELWALLNFLLPNIFNS 1274 (1605)
Q Consensus 1236 aL~-~L~---a~~RLLLT--GTPlqNnl~ELwsLLnFL~P~if~s 1274 (1605)
.+. .+. -...+.+| |-|...-+.+.+..+.-++.+...+
T Consensus 205 ~~~~g~~ar~~~l~~~ITT~g~~~~g~~~q~~~y~k~vl~g~~~d 249 (546)
T COG4626 205 EAKGGLGARPEGLVVYITTSGDPPAGVFKQKLQYAKDVLDGKIKD 249 (546)
T ss_pred HHHhhhccCcCceEEEEecCCCCCccHHHHHHHHHHHHhcCCcCC
Confidence 443 332 22233333 4455555555555544444444333
No 423
>PF05729 NACHT: NACHT domain
Probab=47.69 E-value=62 Score=33.73 Aligned_cols=29 Identities=24% Similarity=0.195 Sum_probs=21.8
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCC
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDR 1140 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~ 1140 (1605)
.+|..+.|.|||..+..++..+.......
T Consensus 3 l~I~G~~G~GKStll~~~~~~~~~~~~~~ 31 (166)
T PF05729_consen 3 LWISGEPGSGKSTLLRKLAQQLAEEEPPP 31 (166)
T ss_pred EEEECCCCCChHHHHHHHHHHHHhcCccc
Confidence 36778899999999887777776654433
No 424
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=47.58 E-value=52 Score=41.43 Aligned_cols=23 Identities=30% Similarity=0.267 Sum_probs=18.2
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHH
Q 000377 1110 LNGILADEMGLGKTVQVIALICY 1132 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~ 1132 (1605)
.+.+|..++|+|||..|=++...
T Consensus 109 ~~iLl~Gp~GtGKT~lAr~lA~~ 131 (412)
T PRK05342 109 SNILLIGPTGSGKTLLAQTLARI 131 (412)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHH
Confidence 45788999999999888666543
No 425
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=47.27 E-value=33 Score=39.34 Aligned_cols=26 Identities=27% Similarity=0.286 Sum_probs=20.6
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
..+|....|.|||+.++.-+..+...
T Consensus 7 kIflG~apGVGKTy~ML~ea~~l~~~ 32 (211)
T PF02702_consen 7 KIFLGAAPGVGKTYAMLQEAHRLKEQ 32 (211)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred EEEEecCCCCCHHHHHHHHHHHHHHC
Confidence 45788999999999988777666554
No 426
>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=47.22 E-value=67 Score=47.87 Aligned_cols=61 Identities=13% Similarity=0.164 Sum_probs=38.8
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCCCEEEEecCCc
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-DRGPFLVVVPSSV 1151 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-~~gP~LIVvP~SL 1151 (1605)
..|.+-|.+++..++. ..+.-.+|--.-|+|||.+..+++..+.+... ....++.++|+.-
T Consensus 1018 ~~Lt~~Q~~Ai~~il~--~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~ 1079 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIIS--TKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHE 1079 (1960)
T ss_pred CCCCHHHHHHHHHHHh--CCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHH
Confidence 4689999999987765 22234466788999999887544333322211 1234777888754
No 427
>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=47.08 E-value=24 Score=41.11 Aligned_cols=34 Identities=26% Similarity=0.288 Sum_probs=25.4
Q ss_pred HHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1100 RWLVSLYNNQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1100 ~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
++|......+.+.|++-++|+|||-+.-+++.++
T Consensus 118 ~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i 151 (270)
T PF00437_consen 118 EFLRSAVRGRGNILISGPTGSGKTTLLNALLEEI 151 (270)
T ss_dssp HHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHC
T ss_pred HHHhhccccceEEEEECCCccccchHHHHHhhhc
Confidence 3455555667788999999999998887666544
No 428
>CHL00195 ycf46 Ycf46; Provisional
Probab=46.98 E-value=36 Score=43.67 Aligned_cols=41 Identities=20% Similarity=0.211 Sum_probs=28.2
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW 1155 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW 1155 (1605)
..+.+|.-+.|+|||..|=+++..+ ..|++.|-+..+...|
T Consensus 259 pkGILL~GPpGTGKTllAkaiA~e~------~~~~~~l~~~~l~~~~ 299 (489)
T CHL00195 259 PRGLLLVGIQGTGKSLTAKAIANDW------QLPLLRLDVGKLFGGI 299 (489)
T ss_pred CceEEEECCCCCcHHHHHHHHHHHh------CCCEEEEEhHHhcccc
Confidence 3567889999999998886665433 3467777665554444
No 429
>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=46.91 E-value=69 Score=40.57 Aligned_cols=23 Identities=30% Similarity=0.327 Sum_probs=19.8
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1112 GILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Ll 1134 (1605)
.+++...|+|||.++..++.++.
T Consensus 102 i~~vG~~GsGKTTtaakLA~~l~ 124 (428)
T TIGR00959 102 ILMVGLQGSGKTTTCGKLAYYLK 124 (428)
T ss_pred EEEECCCCCcHHHHHHHHHHHHH
Confidence 46889999999999988888765
No 430
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=46.70 E-value=1.4e+02 Score=40.70 Aligned_cols=23 Identities=26% Similarity=0.346 Sum_probs=17.5
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1113 ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
.|..++|.|||.++.-++.++..
T Consensus 189 ~lVGpnGvGKTTTiaKLA~~~~~ 211 (767)
T PRK14723 189 ALVGPTGVGKTTTTAKLAARCVA 211 (767)
T ss_pred EEECCCCCcHHHHHHHHHhhHHH
Confidence 57889999999887666655533
No 431
>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=46.68 E-value=37 Score=40.79 Aligned_cols=42 Identities=24% Similarity=0.193 Sum_probs=28.8
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
+.+-+.|.+- |..+...+.+.+++-+||+|||-.+-+++.++
T Consensus 115 g~~~~~~~~~---L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i 156 (299)
T TIGR02782 115 GIMTAAQRDV---LREAVLARKNILVVGGTGSGKTTLANALLAEI 156 (299)
T ss_pred CCCCHHHHHH---HHHHHHcCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 3444545444 44445567788999999999998876666544
No 432
>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=46.31 E-value=1.1e+02 Score=36.11 Aligned_cols=43 Identities=19% Similarity=0.172 Sum_probs=31.7
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
.-+.+.|.+.+.+++. ......+++-++|+|||-..-+++.++
T Consensus 62 lg~~~~~~~~l~~~~~--~~~GlilisG~tGSGKTT~l~all~~i 104 (264)
T cd01129 62 LGLKPENLEIFRKLLE--KPHGIILVTGPTGSGKTTTLYSALSEL 104 (264)
T ss_pred cCCCHHHHHHHHHHHh--cCCCEEEEECCCCCcHHHHHHHHHhhh
Confidence 4578888888877764 222335789999999998887777655
No 433
>PRK08840 replicative DNA helicase; Provisional
Probab=46.28 E-value=1.1e+02 Score=39.35 Aligned_cols=58 Identities=16% Similarity=0.018 Sum_probs=36.5
Q ss_pred HHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHH
Q 000377 1099 LRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESE 1158 (1605)
Q Consensus 1099 L~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~E 1158 (1605)
|..+..-+..+.=.|||.-+|.|||.-++.++...... ...|++++..--...++...
T Consensus 207 LD~~~~G~~~g~LiviaarPg~GKTafalnia~~~a~~--~~~~v~~fSlEMs~~ql~~R 264 (464)
T PRK08840 207 LNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMD--QDKPVLIFSLEMPAEQLMMR 264 (464)
T ss_pred HHHhhcCCCCCceEEEEeCCCCchHHHHHHHHHHHHHh--CCCeEEEEeccCCHHHHHHH
Confidence 44444434444446899999999999988777665432 24578887655444444433
No 434
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=46.25 E-value=1.3e+02 Score=40.76 Aligned_cols=22 Identities=27% Similarity=0.247 Sum_probs=17.9
Q ss_pred eEEEcCCCCcHHHHHHHHHHHH
Q 000377 1112 GILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~L 1133 (1605)
.+++.++|+|||..|-++...+
T Consensus 487 ~lf~Gp~GvGKT~lA~~la~~l 508 (731)
T TIGR02639 487 FLFTGPTGVGKTELAKQLAEAL 508 (731)
T ss_pred EEEECCCCccHHHHHHHHHHHh
Confidence 4789999999999887776554
No 435
>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=45.58 E-value=14 Score=41.31 Aligned_cols=120 Identities=21% Similarity=0.194 Sum_probs=43.9
Q ss_pred EEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhC-CCceEEEEcCChhHHHHHHHhhhhcCCcc
Q 000377 1114 LADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWA-PRIHKIVYCGPPEERRRLFKEKIVHQKFN 1192 (1605)
Q Consensus 1114 LADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~Kwa-P~l~vivy~Gs~~~R~~l~~~~i~~~~fd 1192 (1605)
|-.+=|-|||...-.++..++.... ..++|.+|.---. ..+.+|+ ..+..+-|........ .....+......
T Consensus 2 ltA~RGRGKSa~lGl~~a~l~~~~~--~~I~vtAP~~~~~---~~lf~~~~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~ 75 (177)
T PF05127_consen 2 LTADRGRGKSAALGLAAAALIQKGK--IRILVTAPSPENV---QTLFEFAEKGLKALGYKEEKKKRI-GQIIKLRFNKQR 75 (177)
T ss_dssp EEE-TTSSHHHHHHHCCCCSSS-------EEEE-SS--S----HHHHHCC---------------------------CCC
T ss_pred ccCCCCCCHHHHHHHHHHHHHHhcC--ceEEEecCCHHHH---HHHHHHHHhhcccccccccccccc-ccccccccccce
Confidence 3344799999665444443332222 4578888865211 1122222 1222222221110000 000111122344
Q ss_pred EEEEcHHHHhhccCCCcccccCccEEEEecCccccCccchHHHHHHhh-hccceecccccC
Q 000377 1193 VLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASCKLNADLKHY-QSSHRLLLTGTP 1252 (1605)
Q Consensus 1193 VVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~SKlsraL~~L-~a~~RLLLTGTP 1252 (1605)
|-...++.+.. .....|++|||||=-+- .-.|..+ ....++++|.|-
T Consensus 76 i~f~~Pd~l~~-------~~~~~DlliVDEAAaIp------~p~L~~ll~~~~~vv~stTi 123 (177)
T PF05127_consen 76 IEFVAPDELLA-------EKPQADLLIVDEAAAIP------LPLLKQLLRRFPRVVFSTTI 123 (177)
T ss_dssp --B--HHHHCC-------T----SCEEECTGGGS-------HHHHHHHHCCSSEEEEEEEB
T ss_pred EEEECCHHHHh-------CcCCCCEEEEechhcCC------HHHHHHHHhhCCEEEEEeec
Confidence 44444444432 12246899999986551 2233333 466788888774
No 436
>PRK07773 replicative DNA helicase; Validated
Probab=45.47 E-value=2.3e+02 Score=39.27 Aligned_cols=59 Identities=12% Similarity=-0.049 Sum_probs=37.2
Q ss_pred HHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHH
Q 000377 1097 SGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWES 1157 (1605)
Q Consensus 1097 eGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~ 1157 (1605)
..|..+..-+..+.=.|||..+|.|||.-++.++...... ...+++++.---...+...
T Consensus 205 ~~LD~l~~Gl~~G~livIagrPg~GKT~fal~ia~~~a~~--~~~~V~~fSlEms~~ql~~ 263 (886)
T PRK07773 205 TELDAMTNGLHPGQLIIVAARPSMGKTTFGLDFARNCAIR--HRLAVAIFSLEMSKEQLVM 263 (886)
T ss_pred hHhccccCCCCCCcEEEEEeCCCCCcHHHHHHHHHHHHHh--cCCeEEEEecCCCHHHHHH
Confidence 4555544434444446899999999999999888776533 2346777764433344333
No 437
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=45.38 E-value=1e+02 Score=36.90 Aligned_cols=41 Identities=12% Similarity=0.159 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhhcCC--Ce-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVSLYNNQL--NG-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLlsL~~n~~--nG-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|..++.-+...+..+. .. |+..+-|+|||..|.+++..++.
T Consensus 9 ~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c 52 (313)
T PRK05564 9 HENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILG 52 (313)
T ss_pred cHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcC
Confidence 3444444444444332 23 78899999999999888877653
No 438
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=45.32 E-value=27 Score=46.27 Aligned_cols=68 Identities=18% Similarity=0.164 Sum_probs=52.9
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhc---CCCCCEEEEecCC-cccchHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETK---NDRGPFLVVVPSS-VLPGWESEIN 1160 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k---~~~gP~LIVvP~S-LL~nW~~Ef~ 1160 (1605)
..|..-|+.+.+.+.. ..-.|+-.+.|+|||++++-++-.++... ...-|+||+|=+. .+.|...-+.
T Consensus 377 ~ildsSq~~A~qs~lt----yelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy 448 (1025)
T KOG1807|consen 377 VILDSSQQFAKQSKLT----YELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIY 448 (1025)
T ss_pred eeecHHHHHHHHHHhh----hhhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHHH
Confidence 4688899999988876 44568899999999999998888877754 3345899999765 6777666554
No 439
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=45.23 E-value=38 Score=41.41 Aligned_cols=127 Identities=20% Similarity=0.297 Sum_probs=66.4
Q ss_pred CCeE-EEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceEEEEcCCh-hHHHHHHHhhhh
Q 000377 1110 LNGI-LADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHKIVYCGPP-EERRRLFKEKIV 1187 (1605)
Q Consensus 1110 ~nGI-LADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~vivy~Gs~-~~R~~l~~~~i~ 1187 (1605)
...| +.--.|+|||-+..-++.++... ..++|+.+=..--.--.++++.|.-.+.+-++.+.. .+-.
T Consensus 139 p~Vil~vGVNG~GKTTTIaKLA~~l~~~---g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpA-------- 207 (340)
T COG0552 139 PFVILFVGVNGVGKTTTIAKLAKYLKQQ---GKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPA-------- 207 (340)
T ss_pred cEEEEEEecCCCchHhHHHHHHHHHHHC---CCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcH--------
Confidence 4554 46788999997765566555432 233455544333344566677776544333333210 0000
Q ss_pred cCCccEEEEcHHHHhhccCCCcccccCccEEEEecCccccCccc------hHHHHHHhh--hccceecc--cccCCCCCH
Q 000377 1188 HQKFNVLLTTYEYLMNKHDRPKLSKIQWHYIIIDEGHRIKNASC------KLNADLKHY--QSSHRLLL--TGTPLQNNL 1257 (1605)
Q Consensus 1188 ~~~fdVVITTYe~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~S------KlsraL~~L--~a~~RLLL--TGTPlqNnl 1257 (1605)
-.-|+.+.. -...++|+||||=|=|+-|... |..+.+... .++|.++| =||-=||.+
T Consensus 208 -------aVafDAi~~------Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal 274 (340)
T COG0552 208 -------AVAFDAIQA------AKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNAL 274 (340)
T ss_pred -------HHHHHHHHH------HHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHH
Confidence 012333322 2234689999999988876432 223333222 24555444 488777766
Q ss_pred HHH
Q 000377 1258 EEL 1260 (1605)
Q Consensus 1258 ~EL 1260 (1605)
...
T Consensus 275 ~QA 277 (340)
T COG0552 275 SQA 277 (340)
T ss_pred HHH
Confidence 544
No 440
>TIGR01818 ntrC nitrogen regulation protein NR(I). This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.
Probab=44.72 E-value=1.3e+02 Score=37.67 Aligned_cols=61 Identities=18% Similarity=0.225 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchH
Q 000377 1093 EYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWE 1156 (1605)
Q Consensus 1093 pYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~ 1156 (1605)
|...+.+..+..+.......++..+.|+|||..+-++-.. .....+|+++|-...+-..|.
T Consensus 141 ~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~---~~~~~~~~~~~~c~~~~~~~~ 201 (463)
T TIGR01818 141 PAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRH---SPRANGPFIALNMAAIPKDLI 201 (463)
T ss_pred HHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHh---CCCCCCCeEEEeCCCCCHHHH
Confidence 4455566666666666777899999999999776433221 223457888887776654443
No 441
>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=44.66 E-value=34 Score=39.66 Aligned_cols=40 Identities=18% Similarity=0.119 Sum_probs=30.6
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL 1152 (1605)
=.+|+..+|.|||.-++.++..+.... ..|+|++..--.-
T Consensus 21 L~vi~a~pg~GKT~~~l~ia~~~a~~~--~~~vly~SlEm~~ 60 (259)
T PF03796_consen 21 LTVIAARPGVGKTAFALQIALNAALNG--GYPVLYFSLEMSE 60 (259)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT--SSEEEEEESSS-H
T ss_pred EEEEEecccCCchHHHHHHHHHHHHhc--CCeEEEEcCCCCH
Confidence 358999999999999999888776643 2578888875433
No 442
>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=44.58 E-value=55 Score=41.70 Aligned_cols=47 Identities=17% Similarity=0.259 Sum_probs=33.1
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHH
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINF 1161 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~K 1161 (1605)
.+|+-++|.|||..++.++..+... .+++|+|.......++.....+
T Consensus 97 ilI~G~pGsGKTTL~lq~a~~~a~~---g~kvlYvs~EEs~~qi~~ra~r 143 (454)
T TIGR00416 97 ILIGGDPGIGKSTLLLQVACQLAKN---QMKVLYVSGEESLQQIKMRAIR 143 (454)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhc---CCcEEEEECcCCHHHHHHHHHH
Confidence 3788999999999998887766532 2468888876655555444443
No 443
>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=44.54 E-value=1.1e+02 Score=38.34 Aligned_cols=50 Identities=14% Similarity=0.091 Sum_probs=33.2
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecC
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPS 1149 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~ 1149 (1605)
.|..+..-+..+.-.||+..+|.|||..++.++...... ...|++++..-
T Consensus 183 ~LD~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~--~g~~v~~fSlE 232 (421)
T TIGR03600 183 KLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALR--EGKPVLFFSLE 232 (421)
T ss_pred hHHHHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHh--CCCcEEEEECC
Confidence 444444433344445899999999999998888666422 24578888744
No 444
>PRK08939 primosomal protein DnaI; Reviewed
Probab=44.36 E-value=40 Score=40.73 Aligned_cols=38 Identities=21% Similarity=0.248 Sum_probs=26.7
Q ss_pred HHHHHHHHhh--cCCCeEEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1098 GLRWLVSLYN--NQLNGILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1098 GL~wLlsL~~--n~~nGILADEMGLGKTIqAIALI~~Lle 1135 (1605)
++.|+..... .+.|.+|..++|+|||..+.|++..+..
T Consensus 143 ~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~ 182 (306)
T PRK08939 143 ALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAK 182 (306)
T ss_pred HHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3455543221 2345678889999999999999888874
No 445
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=44.16 E-value=68 Score=37.48 Aligned_cols=40 Identities=25% Similarity=0.400 Sum_probs=27.8
Q ss_pred CCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe--cCCcccchHHHH
Q 000377 1117 EMGLGKTVQVIALICYLMETKNDRGPFLVVV--PSSVLPGWESEI 1159 (1605)
Q Consensus 1117 EMGLGKTIqAIALI~~Lle~k~~~gP~LIVv--P~SLL~nW~~Ef 1159 (1605)
-=|.|||-.+++|+..+...+ +++.||= |+.-+..|.+-.
T Consensus 10 KGGaGKTT~~~~LAs~la~~G---~~V~lIDaDpn~pl~~W~~~a 51 (231)
T PF07015_consen 10 KGGAGKTTAAMALASELAARG---ARVALIDADPNQPLAKWAENA 51 (231)
T ss_pred CCCCcHHHHHHHHHHHHHHCC---CeEEEEeCCCCCcHHHHHHhc
Confidence 459999999988888776543 3444443 666788996654
No 446
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=43.92 E-value=86 Score=37.88 Aligned_cols=26 Identities=23% Similarity=0.351 Sum_probs=18.3
Q ss_pred ccEEEEecCccccC-ccchHHHHHHhh
Q 000377 1215 WHYIIIDEGHRIKN-ASCKLNADLKHY 1240 (1605)
Q Consensus 1215 wd~VIIDEAHriKN-~~SKlsraL~~L 1240 (1605)
-|++.|||.|++.- ..--+|-++..|
T Consensus 104 ~DVLFIDEIHrl~~~vEE~LYpaMEDf 130 (332)
T COG2255 104 GDVLFIDEIHRLSPAVEEVLYPAMEDF 130 (332)
T ss_pred CCeEEEehhhhcChhHHHHhhhhhhhe
Confidence 57899999999843 344556666655
No 447
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=43.61 E-value=27 Score=46.81 Aligned_cols=54 Identities=20% Similarity=0.158 Sum_probs=40.4
Q ss_pred CccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcC-CCCCEEEEecC
Q 000377 1090 KLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKN-DRGPFLVVVPS 1149 (1605)
Q Consensus 1090 ~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~-~~gP~LIVvP~ 1149 (1605)
.|.|-|.++|.+. ....++....|+|||.+.+.-|+++++..+ ....+|+|+-+
T Consensus 4 ~Ln~~Q~~av~~~------~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT 58 (726)
T TIGR01073 4 HLNPEQREAVKTT------EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFT 58 (726)
T ss_pred ccCHHHHHHHhCC------CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeecc
Confidence 5889999999632 234566667899999999999999987532 33447887776
No 448
>PRK06921 hypothetical protein; Provisional
Probab=43.27 E-value=59 Score=38.45 Aligned_cols=28 Identities=29% Similarity=0.185 Sum_probs=23.2
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHh
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~ 1136 (1605)
+.+.+|.-++|+|||..+.+++..+...
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~ 144 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRK 144 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhh
Confidence 4567889999999999998888877654
No 449
>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]
Probab=42.97 E-value=3.2e+02 Score=34.98 Aligned_cols=130 Identities=17% Similarity=0.118 Sum_probs=71.2
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCceEEE-EcC--C
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRIHKIV-YCG--P 1174 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l~viv-y~G--s 1174 (1605)
.|.-+..-+..+.-.|+|.-+|.|||.-++.++.+... ....|++|..=--.-.+|..-+-.....+.... -.| +
T Consensus 185 ~LD~~t~G~~~~dLii~AaRP~mGKTafalnia~n~a~--~~~~~v~iFSLEM~~eql~~R~Ls~~s~v~~~kirtg~l~ 262 (435)
T COG0305 185 DLDEITSGFRPGDLIIVAARPGMGKTALALNIALNAAA--DGRKPVAIFSLEMSEEQLVMRLLSSESGIESSKLRTGRLS 262 (435)
T ss_pred hhHHHhcCCccCCEEEEccCCCCChHHHHHHHHHHHHH--hcCCCeEEEEccCCHHHHHHHhhccccccchhcccccccc
Confidence 34555555555555689999999999999988887765 345666766655555667665533222221111 111 1
Q ss_pred hhHHHHHHHhhhhcCCccEEEEcH-----HHHhhccCCCcccccCccEEEEecCccccCcc
Q 000377 1175 PEERRRLFKEKIVHQKFNVLLTTY-----EYLMNKHDRPKLSKIQWHYIIIDEGHRIKNAS 1230 (1605)
Q Consensus 1175 ~~~R~~l~~~~i~~~~fdVVITTY-----e~L~k~~D~~~L~ki~wd~VIIDEAHriKN~~ 1230 (1605)
.++..++...........++|--+ .-++.. .+....+...++++||=-|-|....
T Consensus 263 ~~d~~~l~~a~~~l~~~~i~IdD~~~~si~eir~~-aRrlk~~~~l~~i~iDYLqLm~~~~ 322 (435)
T COG0305 263 DDEWERLIKAASELSEAPIFIDDTPGLTITEIRSK-ARRLKLKHNLGLIVIDYLQLMTGGK 322 (435)
T ss_pred HHHHHHHHHHHHHHhhCCeeecCCCcCCHHHHHHH-HHHHHHhcCccEEEEEEEEeecccc
Confidence 222222222222234445655332 222221 1122344457899999999886654
No 450
>PF04364 DNA_pol3_chi: DNA polymerase III chi subunit, HolC; InterPro: IPR007459 The DNA polymerase III holoenzyme (2.7.7.7 from EC) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed to delta.delta and to chi psi. Chi forms a 1:1 heterodimer with psi. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta allowing a functional clamp-loading complex to form at physiological subunit concentrations. Psi is responsible for the interaction with DnaX (gamma/tau), but psi is insoluble unless it is in a complex with chi [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3SXU_A 1EM8_C.
Probab=42.85 E-value=79 Score=33.82 Aligned_cols=79 Identities=16% Similarity=0.131 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc----CceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1412 LEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK----QYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1412 le~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~----GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
...+.+++.+....|+||+|+|.-...++.|-+.|=.. -++..+ .|.-. ....+ |+|++.
T Consensus 15 ~~~~c~L~~k~~~~g~rv~V~~~d~~~a~~lD~~LW~~~~~sFlPH~~-~~~~~------------~~~~P---V~i~~~ 78 (137)
T PF04364_consen 15 ERFACRLAEKAYRQGQRVLVLCPDEEQAEALDELLWTFSPDSFLPHGL-AGEPP------------AARQP---VLITWD 78 (137)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-SSHHHHHHHHHHTTTSSTT----EEE-TT-SS------------TT--S---EEEE-T
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHCCCCCCCCCCcc-cCCCC------------CCCCe---EEEecC
Confidence 48889999999999999999999999999999998322 233433 22211 11234 566643
Q ss_pred ccccccCcccCCEEEEEcCCC
Q 000377 1488 AGGVGVNLQAADTVIIFDTDW 1508 (1605)
Q Consensus 1488 AGGeGLNLq~ADtVIiyDp~W 1508 (1605)
... -....++++|+++..+
T Consensus 79 ~~~--~~~~~~~vLinL~~~~ 97 (137)
T PF04364_consen 79 QEA--NPNNHADVLINLSGEV 97 (137)
T ss_dssp TS------S--SEEEE--SS-
T ss_pred ccc--CCCCCCCEEEECCCCC
Confidence 321 2344599999999887
No 451
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=42.33 E-value=1.5e+02 Score=41.54 Aligned_cols=11 Identities=27% Similarity=0.347 Sum_probs=4.8
Q ss_pred eecccccCCCC
Q 000377 1245 RLLLTGTPLQN 1255 (1605)
Q Consensus 1245 RLLLTGTPlqN 1255 (1605)
|--+||-|.-|
T Consensus 862 ~~~~~~~~~~~ 872 (1021)
T PTZ00266 862 RRSVSALPHMN 872 (1021)
T ss_pred cchhhcccccc
Confidence 33444444444
No 452
>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase. Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.
Probab=42.27 E-value=84 Score=38.20 Aligned_cols=19 Identities=37% Similarity=0.335 Sum_probs=16.4
Q ss_pred CCCcHHHHHHHHHHHHHHh
Q 000377 1118 MGLGKTVQVIALICYLMET 1136 (1605)
Q Consensus 1118 MGLGKTIqAIALI~~Lle~ 1136 (1605)
-|+|||=.++.++.++.+.
T Consensus 39 GGTGKTP~v~~La~~l~~~ 57 (311)
T TIGR00682 39 GGTGKTPVVVWLAELLKDR 57 (311)
T ss_pred CCcChHHHHHHHHHHHHHC
Confidence 4999999999999888765
No 453
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=41.87 E-value=1.1e+02 Score=38.73 Aligned_cols=25 Identities=20% Similarity=0.254 Sum_probs=17.7
Q ss_pred hcCCCeEEEcCCCCcHHHHHHHHHH
Q 000377 1107 NNQLNGILADEMGLGKTVQVIALIC 1131 (1605)
Q Consensus 1107 ~n~~nGILADEMGLGKTIqAIALI~ 1131 (1605)
..+..++|..+.|+|||..+-.+..
T Consensus 166 g~Gq~~~IvG~~g~GKTtL~~~i~~ 190 (415)
T TIGR00767 166 GKGQRGLIVAPPKAGKTVLLQKIAQ 190 (415)
T ss_pred CCCCEEEEECCCCCChhHHHHHHHH
Confidence 3455678888899999976544333
No 454
>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=41.71 E-value=38 Score=48.21 Aligned_cols=59 Identities=19% Similarity=0.142 Sum_probs=44.1
Q ss_pred ccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch
Q 000377 1091 LREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW 1155 (1605)
Q Consensus 1091 LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW 1155 (1605)
+.+-|.++|. ..+.+.++...-|+|||.+.+.-+.+++..+.....+||||=+....++
T Consensus 2 ~t~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e 60 (1232)
T TIGR02785 2 WTDEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAARE 60 (1232)
T ss_pred CCHHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHH
Confidence 5678999885 3466788889999999999988887776655333458999877655443
No 455
>PRK05748 replicative DNA helicase; Provisional
Probab=41.55 E-value=1.4e+02 Score=37.86 Aligned_cols=60 Identities=12% Similarity=-0.007 Sum_probs=37.7
Q ss_pred HHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHH
Q 000377 1097 SGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESE 1158 (1605)
Q Consensus 1097 eGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~E 1158 (1605)
.+|..+..-+..+.-.||+..+|.|||.-++.++...... ...+++++..--.-.++...
T Consensus 191 ~~LD~~~~G~~~G~livIaarpg~GKT~~al~ia~~~a~~--~g~~v~~fSlEms~~~l~~R 250 (448)
T PRK05748 191 TDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVATK--TDKNVAIFSLEMGAESLVMR 250 (448)
T ss_pred HHHHHhcCCCCCCceEEEEeCCCCCchHHHHHHHHHHHHh--CCCeEEEEeCCCCHHHHHHH
Confidence 3455444434444446899999999999999888765432 23467887654444444333
No 456
>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=41.15 E-value=71 Score=35.30 Aligned_cols=40 Identities=28% Similarity=0.313 Sum_probs=29.9
Q ss_pred CCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHH
Q 000377 1088 GGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALI 1130 (1605)
Q Consensus 1088 gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI 1130 (1605)
.+.+-+.|.+-+.+++. .+.+.+++-++|+|||-..-+++
T Consensus 7 ~g~~~~~~~~~l~~~v~---~g~~i~I~G~tGSGKTTll~aL~ 46 (186)
T cd01130 7 QGTFSPLQAAYLWLAVE---ARKNILISGGTGSGKTTLLNALL 46 (186)
T ss_pred cCCCCHHHHHHHHHHHh---CCCEEEEECCCCCCHHHHHHHHH
Confidence 36677888887776654 56677899999999997664444
No 457
>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=41.09 E-value=46 Score=41.10 Aligned_cols=38 Identities=13% Similarity=0.106 Sum_probs=24.5
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
|+.-..|+|||..++..+...+........+||+-|..
T Consensus 5 i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~ 42 (396)
T TIGR01547 5 IAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQ 42 (396)
T ss_pred EEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhh
Confidence 56678999999888755554443321234577777754
No 458
>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=40.41 E-value=51 Score=37.25 Aligned_cols=51 Identities=12% Similarity=0.084 Sum_probs=35.3
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhC
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWA 1163 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~Kwa 1163 (1605)
-.+|+-+.|+|||+.++.++...+... ..++|+|+-.....++.+.+..+.
T Consensus 21 ~~li~G~~GsGKT~l~~q~l~~~~~~~--ge~vlyvs~ee~~~~l~~~~~s~g 71 (226)
T PF06745_consen 21 VVLISGPPGSGKTTLALQFLYNGLKNF--GEKVLYVSFEEPPEELIENMKSFG 71 (226)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHHH--T--EEEEESSS-HHHHHHHHHTTT
T ss_pred EEEEEeCCCCCcHHHHHHHHHHhhhhc--CCcEEEEEecCCHHHHHHHHHHcC
Confidence 347888999999999998887766552 234788886666666666666543
No 459
>PRK08006 replicative DNA helicase; Provisional
Probab=40.37 E-value=1.5e+02 Score=38.15 Aligned_cols=59 Identities=15% Similarity=-0.021 Sum_probs=37.3
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHH
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESE 1158 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~E 1158 (1605)
.|..+..-+..+.=.|||.-+|.|||.-++.++...... ...|++++..--...++...
T Consensus 213 ~LD~~~~Gl~~G~LiiIaarPgmGKTafalnia~~~a~~--~g~~V~~fSlEM~~~ql~~R 271 (471)
T PRK08006 213 DLNKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAML--QDKPVLIFSLEMPGEQIMMR 271 (471)
T ss_pred HHHHhhcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHh--cCCeEEEEeccCCHHHHHHH
Confidence 344444444444446899999999999998887765432 24567877655444444433
No 460
>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=40.37 E-value=1.2e+02 Score=36.16 Aligned_cols=49 Identities=18% Similarity=0.284 Sum_probs=29.0
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCC
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAP 1164 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP 1164 (1605)
++.-..|.|||.++..++.++... ..++++|.-...-..=..++..|+-
T Consensus 76 ~l~G~~G~GKTTt~akLA~~l~~~---g~~V~li~~D~~r~~a~~ql~~~~~ 124 (272)
T TIGR00064 76 LFVGVNGVGKTTTIAKLANKLKKQ---GKSVLLAAGDTFRAAAIEQLEEWAK 124 (272)
T ss_pred EEECCCCCcHHHHHHHHHHHHHhc---CCEEEEEeCCCCCHHHHHHHHHHHH
Confidence 456899999999998888776432 2346666533211112345555553
No 461
>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=40.10 E-value=1.5e+02 Score=44.52 Aligned_cols=62 Identities=16% Similarity=0.085 Sum_probs=42.9
Q ss_pred cCCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc
Q 000377 1086 LQGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1086 L~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL 1152 (1605)
+.+..|-+-|.+++.-++. ....-.||--.-|+|||.+.-+++ .+++.. ...+++++|+...
T Consensus 425 ~~~~~Ls~~Q~~Av~~il~--s~~~v~ii~G~aGTGKTt~l~~l~-~~~~~~--G~~V~~lAPTgrA 486 (1960)
T TIGR02760 425 LSEFALSPSNKDAVSTLFT--STKRFIIINGFGGTGSTEIAQLLL-HLASEQ--GYEIQIITAGSLS 486 (1960)
T ss_pred cccCCCCHHHHHHHHHHHh--CCCCeEEEEECCCCCHHHHHHHHH-HHHHhc--CCeEEEEeCCHHH
Confidence 3456899999999986655 122345777889999997765554 444433 3468999998754
No 462
>PHA00350 putative assembly protein
Probab=39.31 E-value=47 Score=41.65 Aligned_cols=17 Identities=12% Similarity=0.184 Sum_probs=13.5
Q ss_pred EEEcCCCCcHHHHHHHH
Q 000377 1113 ILADEMGLGKTVQVIAL 1129 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIAL 1129 (1605)
|+--..|+|||..|+..
T Consensus 5 l~tG~pGSGKT~~aV~~ 21 (399)
T PHA00350 5 AIVGRPGSYKSYEAVVY 21 (399)
T ss_pred EEecCCCCchhHHHHHH
Confidence 45567899999999874
No 463
>PRK07004 replicative DNA helicase; Provisional
Probab=39.07 E-value=91 Score=39.82 Aligned_cols=57 Identities=18% Similarity=0.032 Sum_probs=35.4
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchH
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWE 1156 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~ 1156 (1605)
+|.-+..-+..+.=.|||..+|.|||.-++.++...... ...|++++..--.-.++.
T Consensus 202 ~LD~~t~G~~~g~liviaarpg~GKT~~al~ia~~~a~~--~~~~v~~fSlEM~~~ql~ 258 (460)
T PRK07004 202 DLDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVE--YGLPVAVFSMEMPGTQLA 258 (460)
T ss_pred HhcccccCCCCCceEEEEeCCCCCccHHHHHHHHHHHHH--cCCeEEEEeCCCCHHHHH
Confidence 344343333334445899999999999998888766432 235677776544344443
No 464
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=38.60 E-value=49 Score=38.83 Aligned_cols=20 Identities=20% Similarity=0.305 Sum_probs=14.8
Q ss_pred hcCCCeEEEcCCCCcHHHHH
Q 000377 1107 NNQLNGILADEMGLGKTVQV 1126 (1605)
Q Consensus 1107 ~n~~nGILADEMGLGKTIqA 1126 (1605)
..+..++|..+.|.|||..+
T Consensus 14 ~~Gqr~~I~G~~G~GKTTLl 33 (249)
T cd01128 14 GKGQRGLIVAPPKAGKTTLL 33 (249)
T ss_pred CCCCEEEEECCCCCCHHHHH
Confidence 34566777788999999544
No 465
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=38.58 E-value=1.5e+02 Score=33.41 Aligned_cols=56 Identities=18% Similarity=0.212 Sum_probs=34.9
Q ss_pred cccccCccEEEEecCccccCcc----chHHHHHHhhhccceecccccCCCCCHHHHHHHHHhh
Q 000377 1209 KLSKIQWHYIIIDEGHRIKNAS----CKLNADLKHYQSSHRLLLTGTPLQNNLEELWALLNFL 1267 (1605)
Q Consensus 1209 ~L~ki~wd~VIIDEAHriKN~~----SKlsraL~~L~a~~RLLLTGTPlqNnl~ELwsLLnFL 1267 (1605)
.+..-.|++||+||.=..-+.. ..+...|..-+..--++|||- |-+++|..+.+++
T Consensus 110 ~l~~~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR---~~p~~Lie~AD~V 169 (178)
T PRK07414 110 VVDEGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGP---EMPESLLAIADQI 169 (178)
T ss_pred HHhCCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECC---CCCHHHHHhCCee
Confidence 4556679999999986654422 233344444344456999996 4566666655443
No 466
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=37.87 E-value=50 Score=36.78 Aligned_cols=40 Identities=23% Similarity=0.276 Sum_probs=25.8
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEe-cC
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVV-PS 1149 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVv-P~ 1149 (1605)
.+.+++-.+|+|||....+++..++.......--|+|+ |.
T Consensus 39 ~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k 79 (205)
T PF01580_consen 39 PHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPK 79 (205)
T ss_dssp -SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TT
T ss_pred ceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCC
Confidence 47899999999999999888888876433333334444 44
No 467
>PRK05973 replicative DNA helicase; Provisional
Probab=37.37 E-value=46 Score=38.89 Aligned_cols=42 Identities=17% Similarity=0.062 Sum_probs=30.0
Q ss_pred hhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1106 YNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1106 ~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
+..+.-.+|+..+|+|||+.++.++...... ..+++++.--.
T Consensus 61 l~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~---Ge~vlyfSlEe 102 (237)
T PRK05973 61 LKPGDLVLLGARPGHGKTLLGLELAVEAMKS---GRTGVFFTLEY 102 (237)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHHhc---CCeEEEEEEeC
Confidence 3334456889999999999999888776543 34577776443
No 468
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=37.35 E-value=63 Score=40.60 Aligned_cols=28 Identities=18% Similarity=0.237 Sum_probs=18.6
Q ss_pred hhcCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1106 YNNQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1106 ~~n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
+-.+..++|..+.|.|||..+-.++...
T Consensus 166 IGkGQR~lIvgppGvGKTTLaK~Ian~I 193 (416)
T PRK09376 166 IGKGQRGLIVAPPKAGKTVLLQNIANSI 193 (416)
T ss_pred cccCceEEEeCCCCCChhHHHHHHHHHH
Confidence 3345566777789999997665544433
No 469
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=37.30 E-value=1.8e+02 Score=29.22 Aligned_cols=51 Identities=8% Similarity=0.012 Sum_probs=39.1
Q ss_pred CCeEEEEEc------cHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCC
Q 000377 1426 DHRVLFFST------MTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQD 1476 (1605)
Q Consensus 1426 g~KVLIFSQ------ft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gd 1476 (1605)
.++|+||+. +.........+|...|++|..++=....+.|..+.+......
T Consensus 11 ~~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~~~tg~~t 67 (97)
T TIGR00365 11 ENPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGIKEYSNWPT 67 (97)
T ss_pred cCCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHhCCCC
Confidence 479999974 456678888999999999999887666777777776664433
No 470
>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=37.26 E-value=1.6e+02 Score=32.70 Aligned_cols=35 Identities=14% Similarity=0.094 Sum_probs=26.3
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC
Q 000377 1113 ILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS 1150 (1605)
Q Consensus 1113 ILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S 1150 (1605)
.|+-+.|+|||..++.++...... ..++++|.-..
T Consensus 16 ~i~G~~GsGKT~l~~~~~~~~~~~---g~~v~yi~~e~ 50 (209)
T TIGR02237 16 QIYGPPGSGKTNICMILAVNAARQ---GKKVVYIDTEG 50 (209)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhC---CCeEEEEECCC
Confidence 678899999999998887766543 34577777654
No 471
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=36.63 E-value=1.2e+02 Score=33.53 Aligned_cols=56 Identities=18% Similarity=0.204 Sum_probs=34.0
Q ss_pred HHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch
Q 000377 1097 SGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW 1155 (1605)
Q Consensus 1097 eGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW 1155 (1605)
+.++.+..........+|.-|+|+||+..|=++-. ......+|++.|--..+-.++
T Consensus 10 ~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~---~s~r~~~pfi~vnc~~~~~~~ 65 (168)
T PF00158_consen 10 RLREQAKRAASSDLPVLITGETGTGKELLARAIHN---NSPRKNGPFISVNCAALPEEL 65 (168)
T ss_dssp HHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHH---CSTTTTS-EEEEETTTS-HHH
T ss_pred HHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHH---hhhcccCCeEEEehhhhhcch
Confidence 34444555556678889999999999987733322 123345788877766654443
No 472
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=35.99 E-value=60 Score=35.39 Aligned_cols=54 Identities=17% Similarity=0.141 Sum_probs=35.4
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHHhc-------CCCCCEEEEecCCcccchHHHHHHhC
Q 000377 1110 LNGILADEMGLGKTVQVIALICYLMETK-------NDRGPFLVVVPSSVLPGWESEINFWA 1163 (1605)
Q Consensus 1110 ~nGILADEMGLGKTIqAIALI~~Lle~k-------~~~gP~LIVvP~SLL~nW~~Ef~Kwa 1163 (1605)
.-++++.+.|+|||..++.++..+.... ...+++|+|..-....++..-+..+.
T Consensus 33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~ 93 (193)
T PF13481_consen 33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALL 93 (193)
T ss_dssp SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHH
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHh
Confidence 3468899999999999999888776421 13456888887766656666665554
No 473
>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=35.86 E-value=4.5e+02 Score=33.52 Aligned_cols=93 Identities=13% Similarity=0.081 Sum_probs=64.8
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCeEEEEEecc
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSPFFIFLLSIR 1487 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~FN~gds~~~VfLLSTr 1487 (1605)
.+||-- .-+|+.+. .+..+||.+....++......|...|+....+.|..+.+++..++.....+.. .+++++..
T Consensus 36 GsGKTl--~y~lp~l~-~~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~~~~--~il~~TPe 110 (470)
T TIGR00614 36 GGGKSL--CYQLPALC-SDGITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDGKI--KLLYVTPE 110 (470)
T ss_pred CCcHhH--HHHHHHHH-cCCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCCC--CEEEECHH
Confidence 467753 23344433 35678999999998887778888899999999999999999999888866554 46666665
Q ss_pred cccccc-------CcccCCEEEEEc
Q 000377 1488 AGGVGV-------NLQAADTVIIFD 1505 (1605)
Q Consensus 1488 AGGeGL-------NLq~ADtVIiyD 1505 (1605)
...... .+...+.||+=+
T Consensus 111 ~l~~~~~~~~~l~~~~~i~~iViDE 135 (470)
T TIGR00614 111 KCSASNRLLQTLEERKGITLIAVDE 135 (470)
T ss_pred HHcCchhHHHHHHhcCCcCEEEEeC
Confidence 443222 345566666644
No 474
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=35.56 E-value=83 Score=38.74 Aligned_cols=96 Identities=16% Similarity=0.210 Sum_probs=66.5
Q ss_pred HHHHHHHHHHHhcCCCCCEEEEecCC-cccchHHHHHHhCCCceEEEEcCChhHHHHHHHhhhhcCCccEEEEcHHHHhh
Q 000377 1125 QVIALICYLMETKNDRGPFLVVVPSS-VLPGWESEINFWAPRIHKIVYCGPPEERRRLFKEKIVHQKFNVLLTTYEYLMN 1203 (1605)
Q Consensus 1125 qAIALI~~Lle~k~~~gP~LIVvP~S-LL~nW~~Ef~KwaP~l~vivy~Gs~~~R~~l~~~~i~~~~fdVVITTYe~L~k 1203 (1605)
..+.+..++-...+...|+||.+|.- ++.+....+++-+|...+...+.....|.+.. +.++.+..+++|||.= |.+
T Consensus 290 l~~kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~d~~R~EkV-~~fR~G~~~lLiTTTI-LER 367 (441)
T COG4098 290 LPLKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSEDQHRKEKV-EAFRDGKITLLITTTI-LER 367 (441)
T ss_pred CCHHHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHhhCCccceeeeeccCccHHHHH-HHHHcCceEEEEEeeh-hhc
Confidence 34567777777777778999999987 56677777778888887666666666666554 4567789999998853 222
Q ss_pred ccCCCcccccCccEEEEecCcccc
Q 000377 1204 KHDRPKLSKIQWHYIIIDEGHRIK 1227 (1605)
Q Consensus 1204 ~~D~~~L~ki~wd~VIIDEAHriK 1227 (1605)
. ..--+.++.|++--|++-
T Consensus 368 G-----VTfp~vdV~Vlgaeh~vf 386 (441)
T COG4098 368 G-----VTFPNVDVFVLGAEHRVF 386 (441)
T ss_pred c-----cccccceEEEecCCcccc
Confidence 1 112235788888777763
No 475
>PRK05636 replicative DNA helicase; Provisional
Probab=35.18 E-value=82 Score=40.76 Aligned_cols=56 Identities=13% Similarity=0.031 Sum_probs=33.1
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW 1155 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW 1155 (1605)
.|..+..-+..+.=.||+..+|.|||.-++.++....... ..+++++..--...++
T Consensus 254 ~LD~~t~Gl~~G~Liiiaarpg~GKT~~al~~a~~~a~~~--g~~v~~fSlEMs~~ql 309 (505)
T PRK05636 254 DLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRSASIKH--NKASVIFSLEMSKSEI 309 (505)
T ss_pred HHhhhcCCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhC--CCeEEEEEeeCCHHHH
Confidence 3333333233333348899999999999888776554322 3467777544333333
No 476
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=34.61 E-value=67 Score=42.50 Aligned_cols=42 Identities=21% Similarity=0.234 Sum_probs=36.1
Q ss_pred CCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHH
Q 000377 1089 GKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALI 1130 (1605)
Q Consensus 1089 g~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI 1130 (1605)
.++++.|+.-.+-+...++.+.-||+-.+||+|||+..|...
T Consensus 14 y~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaa 55 (821)
T KOG1133|consen 14 YTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAA 55 (821)
T ss_pred CCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHH
Confidence 678888999888888888899999999999999998776433
No 477
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=34.43 E-value=1.4e+02 Score=38.72 Aligned_cols=22 Identities=27% Similarity=0.271 Sum_probs=18.1
Q ss_pred CCCeEEEcCCCCcHHHHHHHHH
Q 000377 1109 QLNGILADEMGLGKTVQVIALI 1130 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI 1130 (1605)
..|.+|..+.|+|||+.|=|++
T Consensus 337 PKGVLLvGPPGTGKTlLARAvA 358 (752)
T KOG0734|consen 337 PKGVLLVGPPGTGKTLLARAVA 358 (752)
T ss_pred CCceEEeCCCCCchhHHHHHhh
Confidence 3577999999999998886655
No 478
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=33.98 E-value=1.1e+02 Score=38.67 Aligned_cols=59 Identities=10% Similarity=0.037 Sum_probs=34.8
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCC--------cccchHHHHHHhCCCceEEEEc
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSS--------VLPGWESEINFWAPRIHKIVYC 1172 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~S--------LL~nW~~Ef~KwaP~l~vivy~ 1172 (1605)
.+|+.++|+|||-..=|+..+........+ ++.+.... +..+=..+|++.+ ++..+++.
T Consensus 116 lfi~G~~GlGKTHLl~Aign~~~~~~~~a~-v~y~~se~f~~~~v~a~~~~~~~~Fk~~y-~~dlllID 182 (408)
T COG0593 116 LFIYGGVGLGKTHLLQAIGNEALANGPNAR-VVYLTSEDFTNDFVKALRDNEMEKFKEKY-SLDLLLID 182 (408)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhhCCCce-EEeccHHHHHHHHHHHHHhhhHHHHHHhh-ccCeeeec
Confidence 478999999999877666665554433222 33333221 2233456677777 77666543
No 479
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=33.94 E-value=48 Score=41.83 Aligned_cols=46 Identities=22% Similarity=0.195 Sum_probs=35.5
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHh
Q 000377 1111 NGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFW 1162 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~Kw 1162 (1605)
+-+|+-+.|.|||..+.+++... ...+.-|.|.++...|.-|.++.
T Consensus 188 glLLfGPpgtGKtmL~~aiAsE~------~atff~iSassLtsK~~Ge~eK~ 233 (428)
T KOG0740|consen 188 GLLLFGPPGTGKTMLAKAIATES------GATFFNISASSLTSKYVGESEKL 233 (428)
T ss_pred hhheecCCCCchHHHHHHHHhhh------cceEeeccHHHhhhhccChHHHH
Confidence 45789999999999998887654 23467788888888888776543
No 480
>PRK15115 response regulator GlrR; Provisional
Probab=33.36 E-value=2.7e+02 Score=34.81 Aligned_cols=47 Identities=13% Similarity=0.234 Sum_probs=28.3
Q ss_pred hhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccch
Q 000377 1106 YNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGW 1155 (1605)
Q Consensus 1106 ~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW 1155 (1605)
.......+|..+.|+|||..|-++-.. .....+|++.|--..+-..|
T Consensus 154 a~~~~~vli~Ge~GtGk~~lA~~ih~~---s~r~~~~f~~i~c~~~~~~~ 200 (444)
T PRK15115 154 AQSDVSVLINGQSGTGKEILAQAIHNA---SPRASKPFIAINCGALPEQL 200 (444)
T ss_pred ccCCCeEEEEcCCcchHHHHHHHHHHh---cCCCCCCeEEEeCCCCCHHH
Confidence 344567789999999999766433221 12334676666655443333
No 481
>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=33.31 E-value=81 Score=35.67 Aligned_cols=41 Identities=17% Similarity=0.199 Sum_probs=27.9
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcc
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVL 1152 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL 1152 (1605)
+...+|+-+.|+|||..++.++...+.. ..++++|.-....
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~---g~~~~~is~e~~~ 60 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRD---GDPVIYVTTEESR 60 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhc---CCeEEEEEccCCH
Confidence 3445789999999999998877655532 2356777654333
No 482
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=32.95 E-value=1.1e+03 Score=33.37 Aligned_cols=71 Identities=18% Similarity=0.185 Sum_probs=44.1
Q ss_pred ccccchhhhhhhhhhhhhHHHHHHHhHHHHHHHHHHHhhhccCCCcChh-hhhHHHHHHHHhhchHHHHHHHHHH
Q 000377 801 MSEKWIMDMQKRKLLVEQNWILKQQKTKQRMSTCFNKLKESVSSSEDIS-AKTKSVIELKKLQLLGLQRRLRNDF 874 (1605)
Q Consensus 801 ~~~k~~~d~~~k~~~~~~~~~l~~~r~~~rI~~ri~eL~e~~~~~~~~~-~k~k~~ie~~~l~ll~~Q~~~r~~~ 874 (1605)
|..+|+++.|..++.....+-+++.....+.. ..+++.... .++.. ..+...++++...+.+.++....+.
T Consensus 128 l~~~~~~~~q~~~i~~~~~~~lq~~q~~~~~~--~~~~~~~a~-~e~~~lrl~~~q~qlr~~~~~~~~~~~~~~~ 199 (1157)
T KOG0386|consen 128 LDQQNINPMQQARIQFRMQAQLQELQQLARSL--MGELKSSAV-GEDQALRLLMLQMQLRNPVSQPLRRDSSSET 199 (1157)
T ss_pred CCcccccHHHHHHHHHHHHHHHHHHHHhhhcc--hHHHhhhhh-hhhHHHHhHHHHHHHhhhhhccccccccccc
Confidence 88899999998888888777777655444422 444443211 23333 3456666777777776555555544
No 483
>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=32.90 E-value=6.9e+02 Score=27.36 Aligned_cols=92 Identities=14% Similarity=0.127 Sum_probs=52.7
Q ss_pred hccHHHH-HHHHHHHhhc----CCCeEEEEEccHHHHHHHHH----HHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCC
Q 000377 1408 LCGKLEM-LDRLLPKLKA----TDHRVLFFSTMTRLLDVMED----YLTFKQYRYLRLDGHTSGGDRGALIDKFNQQDSP 1478 (1605)
Q Consensus 1408 ~SgKle~-L~~LL~kL~a----~g~KVLIFSQft~~LdiLe~----~L~~~GikylrLdGsts~eERqeiId~FN~gds~ 1478 (1605)
.+||... +.-++..+.. .+.++||.+.....+..+.. +....++.+..++|+.+..++... +. .+.+
T Consensus 46 G~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~ 121 (203)
T cd00268 46 GSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRK---LK-RGPH 121 (203)
T ss_pred CCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHH---hc-CCCC
Confidence 3667543 4444544443 35689999988877665444 444457888999999886555433 32 2333
Q ss_pred eEEEEEeccc----c-ccccCcccCCEEEEEc
Q 000377 1479 FFIFLLSIRA----G-GVGVNLQAADTVIIFD 1505 (1605)
Q Consensus 1479 ~~VfLLSTrA----G-GeGLNLq~ADtVIiyD 1505 (1605)
|++.+... . ..-+++...+.+|+=+
T Consensus 122 --iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE 151 (203)
T cd00268 122 --IVVATPGRLLDLLERGKLDLSKVKYLVLDE 151 (203)
T ss_pred --EEEEChHHHHHHHHcCCCChhhCCEEEEeC
Confidence 44444221 1 1125667777766533
No 484
>PRK09087 hypothetical protein; Validated
Probab=32.81 E-value=1.5e+02 Score=34.25 Aligned_cols=36 Identities=17% Similarity=0.107 Sum_probs=25.0
Q ss_pred cEEEEecCccccCccchHHHHHHhh-hccceeccccc
Q 000377 1216 HYIIIDEGHRIKNASCKLNADLKHY-QSSHRLLLTGT 1251 (1605)
Q Consensus 1216 d~VIIDEAHriKN~~SKlsraL~~L-~a~~RLLLTGT 1251 (1605)
++++||+.|.+......++..+..+ .....+++|++
T Consensus 89 ~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~ 125 (226)
T PRK09087 89 GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSR 125 (226)
T ss_pred CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECC
Confidence 4799999999854455566666554 33566888876
No 485
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=32.50 E-value=78 Score=40.43 Aligned_cols=35 Identities=26% Similarity=0.256 Sum_probs=26.9
Q ss_pred HHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1099 LRWLVSLYNNQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1099 L~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
++.++..+..+.+.||...+|+|||..|..+...+
T Consensus 184 le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l 218 (459)
T PRK11331 184 IETILKRLTIKKNIILQGPPGVGKTFVARRLAYLL 218 (459)
T ss_pred HHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHh
Confidence 44455556668899999999999999987666544
No 486
>PTZ00332 paraflagellar rod protein; Provisional
Probab=32.46 E-value=1.3e+03 Score=30.25 Aligned_cols=94 Identities=15% Similarity=0.176 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhHHHHHH-------HHHHHhhhHHhhhHHHHHHHHHhc
Q 000377 913 EERQKRIRERQKEFFSEIEAHKERLDEVFK---IKRERWRGVNKYVKEF-------HKRKERIHREKIDRIQREKINLLK 982 (1605)
Q Consensus 913 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~---~~~~~~~~~~~~~~~~-------~~~~~r~~~~~~~r~~~~r~~~l~ 982 (1605)
.++|.+.+.-+.+|+..-..|++.|....- ....-...++.+|..- |.+........+...++++|
T Consensus 351 ~~rEekRr~~yeqFl~~asQHkqrL~~tv~Ncd~a~~~~~~lee~V~egc~~i~~r~DK~~q~L~elll~V~ke~L---- 426 (589)
T PTZ00332 351 NDREEKRRVEYQQFLEVAGQHKKLLELTVYNCDLALRCTGLVEELVSEGCAAVKARHDKTNQDLAALRLQVHKEHL---- 426 (589)
T ss_pred HHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH----
Confidence 345555667788999988899998865332 2222233455666654 33333333332333334444
Q ss_pred cccHHHHHHHH------hhhhhHHHHHHHHHHHHHHHH
Q 000377 983 INDVEGYLRMV------QDAKSDRVNKLLKETEKYLQK 1014 (1605)
Q Consensus 983 ~~d~e~y~~l~------~~~k~~rl~~LL~qt~~y~~~ 1014 (1605)
+.|..+. -=.|..||.+|-++.+-|-..
T Consensus 427 ----e~FR~lYltlGeL~yKKErRLEeLDRqIR~~hiq 460 (589)
T PTZ00332 427 ----EYFRMLYLTLGSLIYKKEKRLEEIDRNIRTTHIQ 460 (589)
T ss_pred ----HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 4443332 124667777777766655443
No 487
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=32.43 E-value=2.7e+02 Score=30.80 Aligned_cols=72 Identities=15% Similarity=0.307 Sum_probs=57.6
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc--CceEE-EEeCCCCHHHHHHHHHHHhCCCCCeEEEEEe
Q 000377 1412 LEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK--QYRYL-RLDGHTSGGDRGALIDKFNQQDSPFFIFLLS 1485 (1605)
Q Consensus 1412 le~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~--Gikyl-rLdGsts~eERqeiId~FN~gds~~~VfLLS 1485 (1605)
.+++..++......+.++-++-.....++.+...|... ++.++ ..+|-.+.++.+++++..|....+ ++++.
T Consensus 34 ~dl~~~l~~~~~~~~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~pd--iv~vg 108 (172)
T PF03808_consen 34 SDLFPDLLRRAEQRGKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGPD--IVFVG 108 (172)
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCCC--EEEEE
Confidence 56777788877778899999999999999999999776 66666 456777888999999999987776 34444
No 488
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=32.33 E-value=85 Score=36.52 Aligned_cols=43 Identities=16% Similarity=0.153 Sum_probs=32.2
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG 1154 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n 1154 (1605)
+...++.-++|+|||+-++.++...... ..|+|+|.-...-..
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~---ge~vlyvs~~e~~~~ 65 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGARE---GEPVLYVSTEESPEE 65 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhc---CCcEEEEEecCCHHH
Confidence 4455888999999999999888877655 457888886554333
No 489
>PRK06321 replicative DNA helicase; Provisional
Probab=32.29 E-value=1.9e+02 Score=37.11 Aligned_cols=127 Identities=15% Similarity=0.108 Sum_probs=62.9
Q ss_pred HHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccchHHHHHHhCCCc--eEEEE-cCC
Q 000377 1098 GLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPGWESEINFWAPRI--HKIVY-CGP 1174 (1605)
Q Consensus 1098 GL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~nW~~Ef~KwaP~l--~vivy-~Gs 1174 (1605)
.|.-+..-+..+.=.|||.-+|.|||.-++.++...... ...|++++..--.-.++...+--....+ ..+.. .-+
T Consensus 215 ~LD~~t~Gl~~G~LiiiaarPgmGKTafal~ia~~~a~~--~g~~v~~fSLEMs~~ql~~Rlla~~s~v~~~~i~~~~l~ 292 (472)
T PRK06321 215 DLDKMINGFSPSNLMILAARPAMGKTALALNIAENFCFQ--NRLPVGIFSLEMTVDQLIHRIICSRSEVESKKISVGDLS 292 (472)
T ss_pred HHHHHhcCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHh--cCCeEEEEeccCCHHHHHHHHHHhhcCCCHHHhhcCCCC
Confidence 444444434444445889999999999988876655422 2356787765444444443332111111 11111 112
Q ss_pred hhHHHHHHHhhhhcCCccEEEE-----cHHHHhhccCCCcccccCccEEEEecCcccc
Q 000377 1175 PEERRRLFKEKIVHQKFNVLLT-----TYEYLMNKHDRPKLSKIQWHYIIIDEGHRIK 1227 (1605)
Q Consensus 1175 ~~~R~~l~~~~i~~~~fdVVIT-----TYe~L~k~~D~~~L~ki~wd~VIIDEAHriK 1227 (1605)
..+..++...........++|. |.+.+..... ....+...++||||=-|.|.
T Consensus 293 ~~e~~~~~~a~~~l~~~~~~idd~~~~ti~~i~~~~r-~~~~~~~~~lvvIDyLql~~ 349 (472)
T PRK06321 293 GRDFQRIVSVVNEMQEHTLLIDDQPGLKITDLRARAR-RMKESYDIQFLIIDYLQLLS 349 (472)
T ss_pred HHHHHHHHHHHHHHHcCCEEEeCCCCCCHHHHHHHHH-HHHHhcCCCEEEEcchHHcC
Confidence 2233222222122234456664 3333433211 12233457899999888875
No 490
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=32.08 E-value=2.7e+02 Score=30.73 Aligned_cols=72 Identities=14% Similarity=0.292 Sum_probs=57.5
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhhc--CceEEE-EeCCCCHHHHHHHHHHHhCCCCCeEEEEEe
Q 000377 1412 LEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTFK--QYRYLR-LDGHTSGGDRGALIDKFNQQDSPFFIFLLS 1485 (1605)
Q Consensus 1412 le~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~~--Gikylr-LdGsts~eERqeiId~FN~gds~~~VfLLS 1485 (1605)
.+++..++......+.+|.++-.....++.+.+.|... ++.++- .+|....++..++++..+....+ +++++
T Consensus 32 ~dl~~~ll~~~~~~~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~pd--iv~vg 106 (171)
T cd06533 32 SDLMPALLELAAQKGLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGAD--ILFVG 106 (171)
T ss_pred HHHHHHHHHHHHHcCCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCCC--EEEEE
Confidence 46677788877778899999999999999998888765 677666 68888888888899999887776 34444
No 491
>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=32.01 E-value=1.7e+02 Score=35.91 Aligned_cols=40 Identities=15% Similarity=0.060 Sum_probs=29.3
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCcccc
Q 000377 1112 GILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLPG 1154 (1605)
Q Consensus 1112 GILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~n 1154 (1605)
..|+-+.|+|||..++.++...... .+++++|.....+..
T Consensus 58 teI~G~~GsGKTtLaL~~~~~~~~~---g~~v~yId~E~~~~~ 97 (321)
T TIGR02012 58 IEIYGPESSGKTTLALHAIAEAQKA---GGTAAFIDAEHALDP 97 (321)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHc---CCcEEEEcccchhHH
Confidence 3688899999999998888776543 466777766655543
No 492
>PRK14701 reverse gyrase; Provisional
Probab=31.58 E-value=2e+02 Score=42.45 Aligned_cols=71 Identities=10% Similarity=0.090 Sum_probs=51.7
Q ss_pred hccHHHHHHHHHHHhhcCCCeEEEEEccHHHHHHHHHHHhh------cCceEEEEeCCCCHHHHHHHHHHHhCCCCC
Q 000377 1408 LCGKLEMLDRLLPKLKATDHRVLFFSTMTRLLDVMEDYLTF------KQYRYLRLDGHTSGGDRGALIDKFNQQDSP 1478 (1605)
Q Consensus 1408 ~SgKle~L~~LL~kL~a~g~KVLIFSQft~~LdiLe~~L~~------~GikylrLdGsts~eERqeiId~FN~gds~ 1478 (1605)
.+||..+..-+...+...+.++||.+..+..+..+.+.|.. .++..+.++|+++..++.++++.+..++.+
T Consensus 104 GsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~d 180 (1638)
T PRK14701 104 GMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFD 180 (1638)
T ss_pred CCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCC
Confidence 46777633322222234677999999999888777777765 356778899999999999999999777665
No 493
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=31.23 E-value=2e+02 Score=28.26 Aligned_cols=46 Identities=13% Similarity=0.084 Sum_probs=35.5
Q ss_pred CCeEEEEEc------cHHHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHH
Q 000377 1426 DHRVLFFST------MTRLLDVMEDYLTFKQYRYLRLDGHTSGGDRGALIDK 1471 (1605)
Q Consensus 1426 g~KVLIFSQ------ft~~LdiLe~~L~~~GikylrLdGsts~eERqeiId~ 1471 (1605)
.++|+||+. +......+.++|...|+.|..++=....+.|..+.+.
T Consensus 7 ~~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~~ 58 (90)
T cd03028 7 ENPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDILEDEEVRQGLKEY 58 (90)
T ss_pred cCCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHHH
Confidence 479999986 5667888999999999999998865555555555544
No 494
>PF08832 SRC-1: Steroid receptor coactivator; InterPro: IPR014935 This domain is found in steroid/nuclear receptor coactivators and contains two LXXLL motifs that are involved in receptor binding [] and includes SRC-1/NcoA-1, NcoA-2/TIF2, pCIP/ACTR/GRIP-1/AIB1. ; PDB: 4DMA_F 2O9I_D 2QXM_D 2QGT_D 2QA8_D 2QSE_C 2QA6_D 2QAB_D 2QR9_D 1WM0_Y ....
Probab=30.96 E-value=25 Score=34.32 Aligned_cols=21 Identities=43% Similarity=0.619 Sum_probs=11.2
Q ss_pred hHHHHHHHHhhcc--CCchhhhh
Q 000377 10 EAAKFLHKLIQDS--KDEPAKLA 30 (1605)
Q Consensus 10 ~~~~~~~~~~~~~--~~~~~~~~ 30 (1605)
|-=|.||||+|++ -||-|||.
T Consensus 54 EKHKILHrLLQng~SP~dvaklT 76 (78)
T PF08832_consen 54 EKHKILHRLLQNGNSPVDVAKLT 76 (78)
T ss_dssp CCTHHHHHHHHCS----------
T ss_pred HHHHHHHHHHhcCCCHHHHHHhh
Confidence 5569999999996 67777764
No 495
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=30.72 E-value=94 Score=35.86 Aligned_cols=42 Identities=10% Similarity=0.015 Sum_probs=29.5
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHHhcCCCCCEEEEecCCccc
Q 000377 1109 QLNGILADEMGLGKTVQVIALICYLMETKNDRGPFLVVVPSSVLP 1153 (1605)
Q Consensus 1109 ~~nGILADEMGLGKTIqAIALI~~Lle~k~~~gP~LIVvP~SLL~ 1153 (1605)
+.-.+|..+.|+|||..++.++..+... ..+++.|+......
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~---g~~~~yi~~e~~~~ 65 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQN---GYSVSYVSTQLTTT 65 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhC---CCcEEEEeCCCCHH
Confidence 4456788999999999988888766543 24567777554433
No 496
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=30.71 E-value=68 Score=39.50 Aligned_cols=33 Identities=27% Similarity=0.301 Sum_probs=24.9
Q ss_pred HHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHH
Q 000377 1100 RWLVSLYNNQLNGILADEMGLGKTVQVIALICY 1132 (1605)
Q Consensus 1100 ~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~ 1132 (1605)
.++......+.+.+++-+||+|||-..-+++.+
T Consensus 153 ~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~ 185 (344)
T PRK13851 153 AFLHACVVGRLTMLLCGPTGSGKTTMSKTLISA 185 (344)
T ss_pred HHHHHHHHcCCeEEEECCCCccHHHHHHHHHcc
Confidence 445555667888999999999999776555543
No 497
>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=30.51 E-value=2.2e+02 Score=37.32 Aligned_cols=45 Identities=18% Similarity=0.082 Sum_probs=31.3
Q ss_pred CCCCccHHHHHHHHHHHHHhhcCCCeEEEcCCCCcHHHHHHHHHHHH
Q 000377 1087 QGGKLREYQMSGLRWLVSLYNNQLNGILADEMGLGKTVQVIALICYL 1133 (1605)
Q Consensus 1087 ~gg~LRpYQleGL~wLlsL~~n~~nGILADEMGLGKTIqAIALI~~L 1133 (1605)
....+.|.|.+.+.+++. ..+...|++-+||+|||-+..+++.++
T Consensus 296 ~~lg~~~~~~~~l~~~~~--~~~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 296 DKLGFEPDQKALFLEAIH--KPQGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred HHcCCCHHHHHHHHHHHH--hcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 345677888888876664 122334689999999998876666654
No 498
>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=30.47 E-value=66 Score=36.89 Aligned_cols=24 Identities=21% Similarity=0.245 Sum_probs=20.0
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHH
Q 000377 1111 NGILADEMGLGKTVQVIALICYLM 1134 (1605)
Q Consensus 1111 nGILADEMGLGKTIqAIALI~~Ll 1134 (1605)
-++|+.+.|+|||..++.++..+.
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va 26 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMA 26 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHh
Confidence 378999999999999988876543
No 499
>PHA01747 putative ATP-dependent protease
Probab=30.18 E-value=2.2e+02 Score=35.69 Aligned_cols=32 Identities=25% Similarity=0.305 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHhh-----cCCCeEEEcCCCCcHHHHH
Q 000377 1095 QMSGLRWLVSLYN-----NQLNGILADEMGLGKTVQV 1126 (1605)
Q Consensus 1095 QleGL~wLlsL~~-----n~~nGILADEMGLGKTIqA 1126 (1605)
|.--|..|+-+.+ .+.|.|=-.+-|+|||...
T Consensus 171 ~~l~L~RLiPlVE~~~~~~NyNliELgPRGTGKS~~f 207 (425)
T PHA01747 171 NRLTLPRLLPLFTSPVSKRPVHIIELSNRGTGKTTTF 207 (425)
T ss_pred HHHHHHhhhhheeccCCCCCeeEEEecCCCCChhhHH
Confidence 3356677777788 7888888889999999665
No 500
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=29.84 E-value=2.8e+02 Score=34.51 Aligned_cols=41 Identities=24% Similarity=0.348 Sum_probs=25.6
Q ss_pred HHHHHHHHHH-HhhcCCCe-EEEcCCCCcHHHHHHHHHHHHHH
Q 000377 1095 QMSGLRWLVS-LYNNQLNG-ILADEMGLGKTVQVIALICYLME 1135 (1605)
Q Consensus 1095 QleGL~wLls-L~~n~~nG-ILADEMGLGKTIqAIALI~~Lle 1135 (1605)
|.++...++. ..+.+.+| +|..+.|+|||..+=++..++..
T Consensus 22 q~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~ 64 (350)
T CHL00081 22 QEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPE 64 (350)
T ss_pred hHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhh
Confidence 4444444433 34445555 67889999999888666555543
Done!