Query 004880
Match_columns 725
No_of_seqs 535 out of 3120
Neff 8.5
Searched_HMMs 46136
Date Thu Mar 28 14:27:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004880.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004880hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0385 Chromatin remodeling c 100.0 3E-133 6E-138 1076.0 50.0 601 49-687 70-672 (971)
2 KOG0384 Chromodomain-helicase 100.0 6E-111 1E-115 942.7 38.2 518 148-691 363-894 (1373)
3 KOG0388 SNF2 family DNA-depend 100.0 4E-110 1E-114 884.6 39.0 467 148-637 560-1183(1185)
4 PLN03142 Probable chromatin-re 100.0 9E-102 2E-106 902.8 60.7 506 149-685 163-669 (1033)
5 KOG0386 Chromatin remodeling c 100.0 4E-103 8E-108 864.9 32.7 519 148-685 387-907 (1157)
6 KOG0389 SNF2 family DNA-depend 100.0 2E-100 4E-105 826.0 41.3 472 150-633 394-913 (941)
7 KOG0391 SNF2 family DNA-depend 100.0 3E-101 6E-106 849.3 35.0 480 146-641 606-1420(1958)
8 KOG0387 Transcription-coupled 100.0 8E-100 2E-104 822.4 38.2 474 147-631 197-681 (923)
9 KOG0392 SNF2 family DNA-depend 100.0 7.8E-92 1.7E-96 784.4 40.1 493 148-657 968-1495(1549)
10 KOG0390 DNA repair protein, SN 100.0 6.4E-79 1.4E-83 679.7 42.3 469 152-633 235-732 (776)
11 KOG1015 Transcription regulato 100.0 6.3E-80 1.4E-84 670.5 30.8 483 147-637 660-1306(1567)
12 KOG1002 Nucleotide excision re 100.0 1.2E-72 2.7E-77 580.0 33.4 487 149-657 178-790 (791)
13 KOG4439 RNA polymerase II tran 100.0 1.1E-69 2.5E-74 579.4 31.3 478 149-656 319-899 (901)
14 COG0553 HepA Superfamily II DN 100.0 1.7E-67 3.7E-72 638.5 39.6 491 150-657 333-864 (866)
15 KOG1016 Predicted DNA helicase 100.0 2.8E-67 6E-72 561.8 22.7 489 153-661 252-893 (1387)
16 KOG1000 Chromatin remodeling p 100.0 6E-60 1.3E-64 487.3 32.3 426 153-634 196-630 (689)
17 PRK04914 ATP-dependent helicas 100.0 2.8E-59 6E-64 545.2 36.1 438 153-634 150-631 (956)
18 KOG0383 Predicted helicase [Ge 100.0 2.1E-55 4.5E-60 487.4 12.1 386 153-562 293-696 (696)
19 KOG1001 Helicase-like transcri 100.0 2.5E-52 5.4E-57 470.4 24.5 448 158-631 135-673 (674)
20 PF00176 SNF2_N: SNF2 family N 100.0 5E-43 1.1E-47 371.3 23.5 280 159-459 1-299 (299)
21 TIGR00603 rad25 DNA repair hel 100.0 4.6E-41 9.9E-46 380.1 35.8 343 150-616 250-615 (732)
22 PRK13766 Hef nuclease; Provisi 100.0 4.5E-36 9.8E-41 357.3 40.5 445 153-625 13-496 (773)
23 COG1111 MPH1 ERCC4-like helica 100.0 6.4E-32 1.4E-36 283.7 37.3 412 153-631 13-504 (542)
24 KOG0298 DEAD box-containing he 100.0 8.9E-34 1.9E-38 322.2 22.1 266 172-458 372-690 (1394)
25 PHA02558 uvsW UvsW helicase; P 100.0 7.8E-31 1.7E-35 295.5 34.0 338 153-610 112-457 (501)
26 COG1061 SSL2 DNA or RNA helica 100.0 3E-30 6.6E-35 285.1 32.8 367 150-620 31-406 (442)
27 PTZ00110 helicase; Provisional 100.0 1.7E-27 3.6E-32 270.4 31.5 321 154-608 151-484 (545)
28 TIGR00614 recQ_fam ATP-depende 100.0 5.1E-27 1.1E-31 263.1 30.5 309 152-602 8-329 (470)
29 PRK11776 ATP-dependent RNA hel 100.0 1E-26 2.2E-31 260.9 31.1 317 153-608 24-349 (460)
30 KOG0330 ATP-dependent RNA heli 100.0 3.2E-27 7E-32 239.4 23.7 325 153-618 81-415 (476)
31 KOG0354 DEAD-box like helicase 100.0 1.8E-26 4E-31 256.4 32.0 442 150-631 57-551 (746)
32 PRK10590 ATP-dependent RNA hel 100.0 1.5E-26 3.3E-31 258.5 29.5 326 153-618 21-360 (456)
33 PRK04837 ATP-dependent RNA hel 100.0 9.6E-27 2.1E-31 258.3 27.4 316 153-607 28-361 (423)
34 PLN00206 DEAD-box ATP-dependen 100.0 3.7E-26 8E-31 258.6 31.8 317 153-608 141-475 (518)
35 PRK01297 ATP-dependent RNA hel 100.0 3.4E-26 7.3E-31 257.4 30.1 319 153-608 107-442 (475)
36 PRK04537 ATP-dependent RNA hel 100.0 4.8E-26 1E-30 259.4 31.4 317 153-607 29-363 (572)
37 PRK11192 ATP-dependent RNA hel 100.0 8.7E-26 1.9E-30 251.7 32.1 315 153-601 21-347 (434)
38 KOG0331 ATP-dependent RNA heli 100.0 2.1E-26 4.6E-31 248.8 25.9 320 153-606 111-446 (519)
39 PRK11634 ATP-dependent RNA hel 99.9 1.3E-25 2.8E-30 257.2 32.1 311 153-599 26-345 (629)
40 TIGR01389 recQ ATP-dependent D 99.9 1.2E-25 2.6E-30 259.3 30.6 307 151-601 9-326 (591)
41 PRK11057 ATP-dependent DNA hel 99.9 1.8E-25 4E-30 257.2 30.8 307 152-600 22-337 (607)
42 PLN03137 ATP-dependent DNA hel 99.9 3.1E-25 6.8E-30 257.3 29.1 313 151-603 456-784 (1195)
43 PTZ00424 helicase 45; Provisio 99.9 1.1E-24 2.4E-29 240.7 30.3 319 154-609 49-375 (401)
44 PRK13767 ATP-dependent helicas 99.9 2.6E-24 5.6E-29 256.1 30.7 324 154-603 31-395 (876)
45 COG0513 SrmB Superfamily II DN 99.9 6.6E-24 1.4E-28 238.8 31.1 333 153-621 49-392 (513)
46 TIGR03817 DECH_helic helicase/ 99.9 5.6E-24 1.2E-28 248.5 30.8 331 154-616 35-394 (742)
47 KOG1123 RNA polymerase II tran 99.9 5.3E-25 1.1E-29 228.9 18.6 343 150-614 297-659 (776)
48 TIGR00643 recG ATP-dependent D 99.9 1.5E-23 3.3E-28 242.3 30.5 306 153-601 233-561 (630)
49 TIGR00580 mfd transcription-re 99.9 5.8E-24 1.3E-28 250.6 25.1 308 153-608 449-770 (926)
50 PRK10917 ATP-dependent DNA hel 99.9 2.7E-23 5.9E-28 241.7 27.0 308 153-606 259-587 (681)
51 PRK11448 hsdR type I restricti 99.9 4.9E-23 1.1E-27 247.0 28.5 360 152-605 410-815 (1123)
52 PRK10689 transcription-repair 99.9 1.8E-22 3.8E-27 243.0 28.6 306 154-607 599-918 (1147)
53 PRK02362 ski2-like helicase; P 99.9 6.6E-22 1.4E-26 233.4 32.0 318 154-607 22-396 (737)
54 KOG0342 ATP-dependent RNA heli 99.9 1.2E-22 2.6E-27 212.4 18.1 320 153-607 102-436 (543)
55 TIGR01587 cas3_core CRISPR-ass 99.9 1.8E-21 3.9E-26 211.8 27.3 317 177-621 2-354 (358)
56 KOG0328 Predicted ATP-dependen 99.9 1.4E-22 3E-27 197.4 16.3 316 155-609 49-374 (400)
57 KOG0343 RNA Helicase [RNA proc 99.9 1.6E-21 3.5E-26 205.6 23.5 330 153-621 89-434 (758)
58 COG0514 RecQ Superfamily II DN 99.9 1.2E-21 2.6E-26 216.0 23.5 314 151-608 13-337 (590)
59 KOG0345 ATP-dependent RNA heli 99.9 6.2E-21 1.4E-25 198.2 26.1 315 153-603 26-361 (567)
60 PRK01172 ski2-like helicase; P 99.9 1.1E-20 2.3E-25 221.6 29.9 308 153-602 20-372 (674)
61 PRK00254 ski2-like helicase; P 99.9 1.5E-20 3.3E-25 221.3 30.9 318 154-609 22-389 (720)
62 KOG0350 DEAD-box ATP-dependent 99.9 2.2E-21 4.7E-26 202.7 16.3 373 153-623 157-553 (620)
63 PRK09751 putative ATP-dependen 99.9 2.6E-20 5.7E-25 225.4 27.6 96 495-593 243-371 (1490)
64 KOG0333 U5 snRNP-like RNA heli 99.9 6E-21 1.3E-25 200.4 17.6 339 154-608 266-624 (673)
65 KOG0348 ATP-dependent RNA heli 99.9 3.9E-20 8.5E-25 194.6 23.5 117 481-600 408-548 (708)
66 COG1201 Lhr Lhr-like helicases 99.9 7.5E-20 1.6E-24 208.9 27.1 335 153-624 20-376 (814)
67 KOG0340 ATP-dependent RNA heli 99.9 4.3E-20 9.3E-25 185.8 22.0 309 154-601 28-357 (442)
68 TIGR00348 hsdR type I site-spe 99.9 3.4E-19 7.3E-24 206.6 31.3 369 154-606 237-649 (667)
69 KOG0338 ATP-dependent RNA heli 99.8 6.9E-20 1.5E-24 191.7 21.9 328 152-618 200-541 (691)
70 KOG0335 ATP-dependent RNA heli 99.8 7.9E-20 1.7E-24 194.7 21.8 317 151-604 92-442 (482)
71 TIGR02621 cas3_GSU0051 CRISPR- 99.8 2.1E-19 4.6E-24 206.3 26.7 105 494-604 270-390 (844)
72 TIGR03714 secA2 accessory Sec 99.8 4.7E-19 1E-23 201.6 29.2 116 477-598 405-529 (762)
73 KOG0347 RNA helicase [RNA proc 99.8 2.8E-19 6E-24 188.8 23.5 361 154-630 202-613 (731)
74 KOG4284 DEAD box protein [Tran 99.8 5.7E-20 1.2E-24 196.7 17.9 323 154-607 46-379 (980)
75 PRK09200 preprotein translocas 99.8 1.1E-18 2.3E-23 200.6 26.6 118 477-599 409-534 (790)
76 PHA02653 RNA helicase NPH-II; 99.8 1.9E-18 4E-23 197.6 27.8 326 150-610 155-516 (675)
77 TIGR00963 secA preprotein tran 99.8 7.6E-19 1.7E-23 198.6 22.9 118 479-601 388-512 (745)
78 KOG0341 DEAD-box protein abstr 99.8 7.2E-20 1.6E-24 185.4 12.7 322 155-615 192-535 (610)
79 KOG0326 ATP-dependent RNA heli 99.8 2.9E-20 6.2E-25 184.2 9.5 313 154-606 106-427 (459)
80 PRK09401 reverse gyrase; Revie 99.8 3.1E-18 6.6E-23 207.1 28.6 297 149-593 74-431 (1176)
81 COG4096 HsdR Type I site-speci 99.8 5.3E-19 1.1E-23 196.6 19.3 351 148-606 158-546 (875)
82 PRK12898 secA preprotein trans 99.8 3.1E-18 6.6E-23 192.8 23.4 132 477-618 454-593 (656)
83 COG1200 RecG RecG-like helicas 99.8 3.5E-18 7.6E-23 188.0 22.9 306 153-599 260-584 (677)
84 TIGR03158 cas3_cyano CRISPR-as 99.8 2.1E-17 4.6E-22 178.5 28.8 85 495-591 271-357 (357)
85 KOG0336 ATP-dependent RNA heli 99.8 4.3E-18 9.4E-23 173.8 18.5 309 155-598 242-564 (629)
86 KOG0339 ATP-dependent RNA heli 99.8 1.7E-17 3.7E-22 173.6 23.1 320 155-611 245-578 (731)
87 COG1205 Distinct helicase fami 99.8 2.9E-17 6.3E-22 192.9 27.9 333 155-618 70-432 (851)
88 KOG0332 ATP-dependent RNA heli 99.8 3.2E-17 6.9E-22 166.2 21.0 124 480-610 316-446 (477)
89 COG1204 Superfamily II helicas 99.8 3.5E-17 7.5E-22 189.7 23.4 309 155-595 31-395 (766)
90 TIGR01970 DEAH_box_HrpB ATP-de 99.8 6.8E-17 1.5E-21 189.2 26.0 108 496-609 209-337 (819)
91 COG1202 Superfamily II helicas 99.8 2.7E-17 5.9E-22 174.7 20.2 318 153-608 214-553 (830)
92 PRK05580 primosome assembly pr 99.8 4.7E-16 1E-20 180.6 31.6 155 153-319 142-305 (679)
93 TIGR01054 rgy reverse gyrase. 99.7 2.4E-16 5.1E-21 191.1 26.8 134 149-294 72-213 (1171)
94 KOG0351 ATP-dependent DNA heli 99.7 4.2E-17 9E-22 190.3 19.1 317 150-605 259-591 (941)
95 PRK11664 ATP-dependent RNA hel 99.7 2.4E-16 5.3E-21 184.9 25.1 110 495-610 211-341 (812)
96 cd00079 HELICc Helicase superf 99.7 1.8E-17 3.9E-22 152.7 11.9 120 480-602 12-131 (131)
97 PRK09694 helicase Cas3; Provis 99.7 6.8E-16 1.5E-20 180.8 27.8 338 153-596 284-665 (878)
98 KOG0346 RNA helicase [RNA proc 99.7 3.3E-16 7.2E-21 161.9 21.3 318 153-607 39-409 (569)
99 PRK14701 reverse gyrase; Provi 99.7 8.2E-16 1.8E-20 190.0 26.8 133 152-293 76-213 (1638)
100 PF04851 ResIII: Type III rest 99.7 9.8E-17 2.1E-21 156.9 15.0 153 154-319 2-183 (184)
101 TIGR00595 priA primosomal prot 99.7 1.6E-15 3.4E-20 170.2 26.4 128 179-319 2-140 (505)
102 KOG0334 RNA helicase [RNA proc 99.7 2.4E-16 5.3E-21 179.4 18.4 123 479-607 597-719 (997)
103 KOG0344 ATP-dependent RNA heli 99.7 1.6E-16 3.4E-21 170.6 15.5 318 154-607 157-494 (593)
104 COG1197 Mfd Transcription-repa 99.7 3.4E-15 7.5E-20 173.3 26.4 312 152-608 591-913 (1139)
105 COG4098 comFA Superfamily II D 99.7 9.9E-14 2.1E-18 139.9 29.8 311 153-607 95-415 (441)
106 PRK12906 secA preprotein trans 99.7 9.5E-15 2.1E-19 167.1 25.5 116 479-599 423-546 (796)
107 PRK13104 secA preprotein trans 99.7 6E-15 1.3E-19 169.5 23.6 122 477-603 425-584 (896)
108 PRK11131 ATP-dependent RNA hel 99.7 7.1E-15 1.5E-19 175.7 25.0 109 495-611 285-414 (1294)
109 KOG0352 ATP-dependent DNA heli 99.7 7E-15 1.5E-19 151.4 21.4 323 158-603 23-359 (641)
110 PRK12904 preprotein translocas 99.7 3.3E-14 7.1E-19 163.4 28.8 402 151-603 77-570 (830)
111 COG4889 Predicted helicase [Ge 99.6 1.3E-15 2.7E-20 168.2 14.9 166 148-318 154-350 (1518)
112 KOG0327 Translation initiation 99.6 1.2E-15 2.5E-20 156.4 13.1 321 154-617 47-377 (397)
113 PF00271 Helicase_C: Helicase 99.6 3.9E-16 8.4E-21 130.2 6.9 78 514-594 1-78 (78)
114 smart00487 DEXDc DEAD-like hel 99.6 3.7E-15 8.1E-20 146.8 14.9 160 152-321 5-173 (201)
115 PRK13107 preprotein translocas 99.6 2.4E-13 5.3E-18 155.9 27.8 120 478-602 431-587 (908)
116 KOG0353 ATP-dependent DNA heli 99.6 4E-14 8.6E-19 143.5 18.8 316 154-604 93-465 (695)
117 TIGR01967 DEAH_box_HrpA ATP-de 99.6 8.9E-14 1.9E-18 167.0 25.1 109 495-611 278-407 (1283)
118 KOG0952 DNA/RNA helicase MER3/ 99.6 5.7E-14 1.2E-18 159.0 20.9 323 170-622 122-518 (1230)
119 cd00046 DEXDc DEAD-like helica 99.6 2.3E-14 5.1E-19 132.8 14.2 138 175-318 1-144 (144)
120 TIGR00631 uvrb excinuclease AB 99.6 4.5E-13 9.8E-18 154.1 27.1 132 479-616 425-563 (655)
121 KOG0337 ATP-dependent RNA heli 99.6 1.7E-14 3.6E-19 148.8 13.5 317 154-608 42-368 (529)
122 PRK05298 excinuclease ABC subu 99.5 2.1E-12 4.5E-17 149.7 29.0 125 479-609 429-558 (652)
123 PRK12900 secA preprotein trans 99.5 1.3E-12 2.7E-17 150.6 25.6 116 479-599 581-704 (1025)
124 smart00490 HELICc helicase sup 99.5 5.6E-14 1.2E-18 117.8 8.0 81 511-594 2-82 (82)
125 KOG0951 RNA helicase BRR2, DEA 99.4 2.5E-12 5.4E-17 147.7 19.1 71 520-594 607-688 (1674)
126 PF00270 DEAD: DEAD/DEAH box h 99.4 9.1E-13 2E-17 127.1 13.0 157 157-324 1-167 (169)
127 cd00268 DEADc DEAD-box helicas 99.4 1.8E-12 3.9E-17 129.2 15.3 156 154-319 20-185 (203)
128 PRK12899 secA preprotein trans 99.4 4E-11 8.7E-16 138.1 27.7 120 478-602 550-677 (970)
129 COG0556 UvrB Helicase subunit 99.4 1.9E-10 4.1E-15 122.7 30.1 126 489-618 439-569 (663)
130 COG1203 CRISPR-associated heli 99.4 4.3E-12 9.4E-17 149.1 19.8 354 151-628 191-572 (733)
131 PF11496 HDA2-3: Class II hist 99.4 9.4E-12 2E-16 129.4 18.0 219 400-619 5-256 (297)
132 PRK12326 preprotein translocas 99.4 4.4E-11 9.6E-16 134.5 23.1 404 151-602 74-543 (764)
133 KOG0947 Cytoplasmic exosomal R 99.3 2E-10 4.3E-15 129.4 21.4 155 153-350 295-456 (1248)
134 KOG0329 ATP-dependent RNA heli 99.2 1.2E-10 2.5E-15 113.1 13.5 128 155-292 64-197 (387)
135 PRK13103 secA preprotein trans 99.2 9.9E-10 2.1E-14 126.7 22.4 122 477-603 430-588 (913)
136 PRK12903 secA preprotein trans 99.2 2.7E-09 5.8E-14 121.9 24.5 122 477-603 407-536 (925)
137 COG4581 Superfamily II RNA hel 99.2 2.1E-09 4.5E-14 125.9 21.3 159 152-349 116-281 (1041)
138 TIGR01407 dinG_rel DnaQ family 99.1 5.7E-09 1.2E-13 125.5 24.2 85 152-238 242-332 (850)
139 COG1110 Reverse gyrase [DNA re 99.1 2.9E-08 6.2E-13 113.7 24.0 134 147-292 74-215 (1187)
140 KOG0349 Putative DEAD-box RNA 99.0 9.7E-10 2.1E-14 113.9 11.2 96 495-593 504-602 (725)
141 PF13872 AAA_34: P-loop contai 99.0 1.6E-08 3.5E-13 103.3 18.9 237 151-417 33-302 (303)
142 KOG0948 Nuclear exosomal RNA h 99.0 7.1E-09 1.5E-13 114.4 15.8 140 154-317 128-275 (1041)
143 COG1198 PriA Primosomal protei 99.0 1E-07 2.3E-12 109.4 25.8 370 154-609 197-606 (730)
144 TIGR00596 rad1 DNA repair prot 98.9 3.8E-08 8.2E-13 115.2 19.9 152 476-630 266-537 (814)
145 CHL00122 secA preprotein trans 98.9 8.9E-08 1.9E-12 110.4 20.9 85 478-566 406-491 (870)
146 TIGR00604 rad3 DNA repair heli 98.8 1.5E-06 3.2E-11 102.8 26.5 73 153-225 8-82 (705)
147 KOG0953 Mitochondrial RNA heli 98.8 6E-08 1.3E-12 104.2 13.1 101 494-598 356-466 (700)
148 COG0610 Type I site-specific r 98.8 1.4E-07 3.1E-12 113.5 18.0 159 155-322 244-417 (962)
149 KOG1513 Nuclear helicase MOP-3 98.8 2.6E-07 5.5E-12 102.6 17.6 244 148-420 257-539 (1300)
150 KOG0922 DEAH-box RNA helicase 98.7 1.1E-06 2.4E-11 97.2 21.5 111 498-611 260-393 (674)
151 COG1643 HrpA HrpA-like helicas 98.7 6E-07 1.3E-11 104.8 20.3 110 496-611 259-390 (845)
152 KOG0924 mRNA splicing factor A 98.7 5.7E-07 1.2E-11 98.7 18.6 128 499-629 566-721 (1042)
153 PRK12902 secA preprotein trans 98.7 2.8E-06 6.1E-11 98.1 24.9 85 478-566 421-506 (939)
154 PRK12901 secA preprotein trans 98.7 1.3E-06 2.9E-11 101.8 22.3 120 478-602 610-737 (1112)
155 KOG0949 Predicted helicase, DE 98.7 1.1E-06 2.4E-11 100.0 20.9 152 170-331 522-682 (1330)
156 PF07652 Flavi_DEAD: Flaviviru 98.7 1.2E-07 2.7E-12 86.3 10.2 129 174-318 4-136 (148)
157 TIGR03117 cas_csf4 CRISPR-asso 98.7 2.5E-06 5.4E-11 97.4 22.6 78 160-237 2-85 (636)
158 KOG0950 DNA polymerase theta/e 98.6 1.2E-06 2.6E-11 100.3 19.1 154 155-322 223-391 (1008)
159 KOG0920 ATP-dependent RNA heli 98.6 2.3E-06 5E-11 99.7 21.6 127 482-614 397-550 (924)
160 PRK07246 bifunctional ATP-depe 98.6 8.2E-06 1.8E-10 97.3 27.0 86 487-578 638-725 (820)
161 COG1199 DinG Rad3-related DNA 98.6 6.7E-06 1.4E-10 96.9 25.6 80 494-578 477-559 (654)
162 PRK08074 bifunctional ATP-depe 98.6 3.8E-05 8.3E-10 93.3 29.9 92 484-578 739-835 (928)
163 PRK15483 type III restriction- 98.5 7.6E-07 1.6E-11 104.5 14.2 162 157-319 8-239 (986)
164 KOG0926 DEAH-box RNA helicase 98.5 2E-06 4.4E-11 96.1 16.1 79 523-607 607-703 (1172)
165 PF02399 Herpes_ori_bp: Origin 98.5 2.5E-06 5.4E-11 97.6 16.8 112 481-603 268-385 (824)
166 TIGR02562 cas3_yersinia CRISPR 98.4 7.5E-05 1.6E-09 88.0 25.0 167 155-321 408-637 (1110)
167 smart00489 DEXDc3 DEAD-like he 98.4 7.2E-06 1.6E-10 86.0 15.0 73 154-226 7-84 (289)
168 smart00488 DEXDc2 DEAD-like he 98.4 7.2E-06 1.6E-10 86.0 15.0 73 154-226 7-84 (289)
169 PF13871 Helicase_C_4: Helicas 98.4 9.3E-07 2E-11 90.3 7.8 94 537-633 52-153 (278)
170 KOG0923 mRNA splicing factor A 98.3 2E-05 4.3E-10 86.8 17.7 107 498-612 475-610 (902)
171 KOG4150 Predicted ATP-dependen 98.1 7.7E-05 1.7E-09 80.7 15.7 131 479-614 508-646 (1034)
172 COG0653 SecA Preprotein transl 98.0 0.00038 8.3E-09 80.6 20.0 113 477-594 410-533 (822)
173 PF13086 AAA_11: AAA domain; P 97.9 4.5E-05 9.7E-10 77.2 9.7 67 155-225 1-75 (236)
174 PF13892 DBINO: DNA-binding do 97.9 1.6E-05 3.5E-10 71.6 4.5 31 47-77 104-134 (139)
175 KOG0925 mRNA splicing factor A 97.7 0.00046 1E-08 73.8 12.8 63 550-614 314-393 (699)
176 PF02562 PhoH: PhoH-like prote 97.7 0.00021 4.6E-09 70.3 9.2 151 156-323 5-160 (205)
177 PRK10536 hypothetical protein; 97.6 0.00019 4.2E-09 72.6 9.0 144 155-322 59-216 (262)
178 PF07517 SecA_DEAD: SecA DEAD- 97.6 0.00073 1.6E-08 69.4 12.2 123 151-292 73-209 (266)
179 PF13401 AAA_22: AAA domain; P 97.4 0.00019 4.1E-09 65.7 5.3 115 173-318 3-125 (131)
180 KOG1803 DNA helicase [Replicat 97.2 0.00097 2.1E-08 73.7 8.5 66 153-223 183-249 (649)
181 PF13604 AAA_30: AAA domain; P 97.2 0.004 8.6E-08 61.6 12.2 126 155-320 1-132 (196)
182 PRK14873 primosome assembly pr 97.2 0.0021 4.5E-08 74.8 11.0 126 183-318 169-303 (665)
183 KOG1132 Helicase of the DEAD s 97.1 0.0013 2.9E-08 75.4 8.8 45 148-192 14-58 (945)
184 TIGR00376 DNA helicase, putati 97.1 0.0032 6.9E-08 73.4 11.9 68 154-226 156-224 (637)
185 PF09848 DUF2075: Uncharacteri 97.0 0.0025 5.4E-08 69.1 9.5 91 177-294 4-97 (352)
186 COG0553 HepA Superfamily II DN 97.0 0.00029 6.3E-09 86.0 2.5 182 153-340 82-289 (866)
187 KOG0951 RNA helicase BRR2, DEA 97.0 0.042 9E-07 65.7 18.9 109 171-296 1156-1269(1674)
188 COG3587 Restriction endonuclea 97.0 0.0043 9.3E-08 71.1 10.7 135 173-317 73-241 (985)
189 KOG1131 RNA polymerase II tran 96.9 0.0038 8.3E-08 67.5 8.8 63 150-212 11-74 (755)
190 PF13307 Helicase_C_2: Helicas 96.8 0.0045 9.8E-08 59.4 7.9 78 494-578 7-92 (167)
191 TIGR01448 recD_rel helicase, p 96.7 0.0093 2E-07 70.6 11.5 136 152-321 320-455 (720)
192 PRK11747 dinG ATP-dependent DN 96.7 0.0061 1.3E-07 71.9 9.4 92 483-578 521-616 (697)
193 KOG1802 RNA helicase nonsense 96.6 0.013 2.8E-07 65.4 10.8 77 154-237 409-486 (935)
194 cd00009 AAA The AAA+ (ATPases 96.6 0.031 6.8E-07 51.3 11.8 106 174-320 19-131 (151)
195 PF12340 DUF3638: Protein of u 96.5 0.0051 1.1E-07 61.2 6.2 75 151-227 19-93 (229)
196 TIGR02881 spore_V_K stage V sp 96.5 0.01 2.3E-07 61.4 8.6 28 175-202 43-70 (261)
197 PRK04296 thymidine kinase; Pro 96.4 0.022 4.8E-07 55.9 10.0 34 177-212 5-38 (190)
198 TIGR01447 recD exodeoxyribonuc 96.4 0.019 4.1E-07 66.1 10.8 139 158-320 148-297 (586)
199 PRK09112 DNA polymerase III su 96.2 0.043 9.3E-07 59.2 11.5 143 160-318 28-181 (351)
200 smart00382 AAA ATPases associa 95.9 0.042 9.1E-07 49.9 9.0 44 174-219 2-45 (148)
201 PRK14956 DNA polymerase III su 95.9 0.053 1.1E-06 60.3 10.8 43 159-201 22-67 (484)
202 PRK07003 DNA polymerase III su 95.9 0.087 1.9E-06 61.2 12.7 145 160-330 21-170 (830)
203 PLN03025 replication factor C 95.8 0.11 2.3E-06 55.6 12.6 42 160-201 18-61 (319)
204 COG3421 Uncharacterized protei 95.6 0.014 3E-07 64.5 4.8 135 180-319 3-166 (812)
205 PRK10875 recD exonuclease V su 95.6 0.065 1.4E-06 62.0 10.5 141 156-320 153-303 (615)
206 TIGR02880 cbbX_cfxQ probable R 95.6 0.031 6.7E-07 58.6 7.3 38 174-211 58-97 (284)
207 TIGR03015 pepcterm_ATPase puta 95.6 0.082 1.8E-06 54.9 10.5 42 158-199 26-68 (269)
208 PRK12723 flagellar biosynthesi 95.6 0.19 4.1E-06 54.9 13.4 130 176-335 176-314 (388)
209 PRK12402 replication factor C 95.5 0.098 2.1E-06 56.2 11.2 43 160-202 20-64 (337)
210 CHL00181 cbbX CbbX; Provisiona 95.5 0.038 8.3E-07 57.9 7.7 30 174-203 59-88 (287)
211 PRK11773 uvrD DNA-dependent he 95.5 1.5 3.2E-05 52.5 21.7 67 155-227 9-78 (721)
212 PRK07940 DNA polymerase III su 95.3 0.21 4.5E-06 54.8 12.7 123 177-328 39-166 (394)
213 PF13177 DNA_pol3_delta2: DNA 95.2 0.2 4.3E-06 47.8 10.9 141 160-328 2-151 (162)
214 PRK07994 DNA polymerase III su 95.2 0.18 4E-06 58.4 12.4 42 160-201 21-65 (647)
215 PRK12323 DNA polymerase III su 95.1 0.12 2.5E-06 59.4 10.4 41 161-201 22-65 (700)
216 KOG1805 DNA replication helica 95.1 0.14 3E-06 60.1 10.9 150 155-320 669-831 (1100)
217 PRK06645 DNA polymerase III su 95.1 0.14 3E-06 57.9 10.8 43 159-201 25-70 (507)
218 PRK06526 transposase; Provisio 95.0 0.12 2.6E-06 53.1 9.3 54 162-225 90-143 (254)
219 PRK11747 dinG ATP-dependent DN 95.0 0.18 4E-06 59.7 12.0 66 150-216 20-90 (697)
220 PRK14961 DNA polymerase III su 94.9 0.19 4.2E-06 54.7 11.0 42 159-200 20-64 (363)
221 PRK14958 DNA polymerase III su 94.9 0.18 4E-06 57.2 11.1 42 160-201 21-65 (509)
222 PRK05707 DNA polymerase III su 94.8 0.27 5.8E-06 52.6 11.7 137 155-318 3-145 (328)
223 PF06862 DUF1253: Protein of u 94.8 0.98 2.1E-05 49.8 16.0 148 480-631 281-436 (442)
224 PRK14952 DNA polymerase III su 94.7 0.47 1E-05 54.6 13.9 42 159-200 17-61 (584)
225 PRK08181 transposase; Validate 94.6 0.36 7.8E-06 50.0 11.5 47 156-202 88-134 (269)
226 TIGR01073 pcrA ATP-dependent D 94.5 3.1 6.6E-05 49.9 21.0 53 155-213 4-58 (726)
227 PRK14960 DNA polymerase III su 94.5 0.34 7.3E-06 55.9 12.0 41 160-200 20-63 (702)
228 PRK14949 DNA polymerase III su 94.5 0.29 6.4E-06 58.1 11.7 42 160-201 21-65 (944)
229 PRK06871 DNA polymerase III su 94.4 0.63 1.4E-05 49.6 13.3 145 156-328 3-156 (325)
230 PRK14963 DNA polymerase III su 94.3 0.51 1.1E-05 53.6 12.9 43 160-202 19-64 (504)
231 PRK08769 DNA polymerase III su 94.2 0.47 1E-05 50.4 11.7 155 154-331 3-165 (319)
232 PF13173 AAA_14: AAA domain 94.2 0.3 6.5E-06 44.5 8.9 41 280-321 61-101 (128)
233 PRK11889 flhF flagellar biosyn 94.1 0.66 1.4E-05 50.3 12.6 124 177-333 244-377 (436)
234 PRK07993 DNA polymerase III su 94.1 0.76 1.6E-05 49.3 13.1 148 155-328 2-157 (334)
235 PRK05703 flhF flagellar biosyn 94.1 0.49 1.1E-05 52.5 12.0 131 175-335 222-359 (424)
236 PRK09111 DNA polymerase III su 94.0 0.34 7.4E-06 56.0 11.0 136 159-321 28-174 (598)
237 COG1875 NYN ribonuclease and A 94.0 0.14 3E-06 54.0 7.0 56 159-216 232-288 (436)
238 PRK08691 DNA polymerase III su 94.0 1 2.2E-05 52.4 14.5 42 160-201 21-65 (709)
239 PRK07764 DNA polymerase III su 94.0 0.6 1.3E-05 56.0 13.2 24 177-200 40-63 (824)
240 PRK08058 DNA polymerase III su 94.0 0.68 1.5E-05 49.6 12.6 132 159-318 10-149 (329)
241 PRK06090 DNA polymerase III su 93.9 1 2.3E-05 47.8 13.6 152 155-333 3-162 (319)
242 PHA02533 17 large terminase pr 93.8 0.21 4.5E-06 57.0 8.8 153 154-327 58-219 (534)
243 PF13245 AAA_19: Part of AAA d 93.8 0.2 4.4E-06 41.0 6.4 41 176-216 12-54 (76)
244 PF05621 TniB: Bacterial TniB 93.8 0.59 1.3E-05 48.7 11.1 133 158-318 40-189 (302)
245 PRK14957 DNA polymerase III su 93.7 0.59 1.3E-05 53.3 12.1 41 160-200 21-64 (546)
246 PRK07471 DNA polymerase III su 93.6 0.55 1.2E-05 51.0 11.0 142 159-318 23-181 (365)
247 PRK14964 DNA polymerase III su 93.4 0.68 1.5E-05 52.1 11.7 142 160-328 18-165 (491)
248 PF00448 SRP54: SRP54-type pro 93.4 0.45 9.7E-06 46.9 9.3 131 178-332 5-139 (196)
249 PRK08451 DNA polymerase III su 93.4 0.62 1.4E-05 52.9 11.5 131 160-318 19-156 (535)
250 PRK00149 dnaA chromosomal repl 93.4 0.52 1.1E-05 53.0 11.0 56 160-215 130-189 (450)
251 PRK14948 DNA polymerase III su 93.4 0.53 1.2E-05 54.8 11.2 43 159-201 20-65 (620)
252 TIGR02928 orc1/cdc6 family rep 93.3 0.57 1.2E-05 51.0 10.9 44 157-200 20-66 (365)
253 PHA03372 DNA packaging termina 93.3 0.18 4E-06 56.7 6.8 147 174-336 203-366 (668)
254 PRK14951 DNA polymerase III su 93.3 0.47 1E-05 54.9 10.4 42 160-201 21-65 (618)
255 PHA02544 44 clamp loader, smal 93.3 0.68 1.5E-05 49.3 11.2 48 280-327 100-149 (316)
256 PRK14962 DNA polymerase III su 93.2 0.73 1.6E-05 51.9 11.6 24 177-200 39-62 (472)
257 PHA03368 DNA packaging termina 93.2 0.21 4.5E-06 57.1 7.1 147 176-336 256-419 (738)
258 PRK14959 DNA polymerase III su 93.0 0.87 1.9E-05 52.5 11.9 37 164-200 25-64 (624)
259 PRK14969 DNA polymerase III su 92.9 0.78 1.7E-05 52.5 11.4 42 159-200 20-64 (527)
260 TIGR01075 uvrD DNA helicase II 92.9 1.1 2.4E-05 53.6 13.2 67 155-227 4-73 (715)
261 PRK00440 rfc replication facto 92.9 1.3 2.9E-05 46.9 12.8 42 160-201 22-65 (319)
262 PRK06835 DNA replication prote 92.8 1.1 2.3E-05 48.0 11.7 49 154-202 159-211 (329)
263 TIGR02768 TraA_Ti Ti-type conj 92.8 0.59 1.3E-05 55.8 10.7 59 153-216 350-408 (744)
264 PRK07952 DNA replication prote 92.8 0.72 1.6E-05 47.1 9.9 62 158-225 79-144 (244)
265 PRK05896 DNA polymerase III su 92.8 1.2 2.6E-05 51.2 12.5 43 160-202 21-66 (605)
266 PRK08084 DNA replication initi 92.7 1.2 2.7E-05 45.2 11.5 40 162-201 31-72 (235)
267 PF05876 Terminase_GpA: Phage 92.7 0.12 2.6E-06 59.4 4.5 166 152-330 13-191 (557)
268 TIGR00362 DnaA chromosomal rep 92.6 0.93 2E-05 50.2 11.4 35 177-211 139-173 (405)
269 PRK14974 cell division protein 92.6 1.4 3E-05 47.3 12.1 47 177-225 143-193 (336)
270 TIGR03420 DnaA_homol_Hda DnaA 92.5 0.76 1.7E-05 46.1 9.8 29 173-201 37-65 (226)
271 PRK14955 DNA polymerase III su 92.5 1.4 3.1E-05 48.6 12.6 42 160-201 21-65 (397)
272 PRK05563 DNA polymerase III su 92.5 1 2.3E-05 51.8 11.8 25 177-201 41-65 (559)
273 TIGR01074 rep ATP-dependent DN 92.5 1.3 2.8E-05 52.5 13.0 66 156-227 2-70 (664)
274 smart00491 HELICc2 helicase su 92.4 0.53 1.2E-05 43.8 7.7 54 524-578 23-80 (142)
275 PRK05986 cob(I)alamin adenolsy 92.4 0.72 1.6E-05 44.9 8.8 147 173-335 21-174 (191)
276 cd01124 KaiC KaiC is a circadi 92.3 0.39 8.5E-06 46.6 7.2 48 177-226 2-49 (187)
277 PRK14953 DNA polymerase III su 92.3 2.1 4.6E-05 48.4 13.8 42 159-200 20-64 (486)
278 PRK14088 dnaA chromosomal repl 92.1 0.87 1.9E-05 50.9 10.4 37 176-212 132-168 (440)
279 PRK08116 hypothetical protein; 92.0 0.86 1.9E-05 47.3 9.5 36 174-211 114-149 (268)
280 PRK09165 replicative DNA helic 91.8 0.88 1.9E-05 51.7 10.1 127 164-293 207-354 (497)
281 PRK06964 DNA polymerase III su 91.8 1.4 3.1E-05 47.2 11.1 167 156-328 2-181 (342)
282 PRK08727 hypothetical protein; 91.8 1.9 4.1E-05 43.7 11.6 26 177-202 44-69 (233)
283 PRK08760 replicative DNA helic 91.7 0.95 2.1E-05 51.1 10.2 127 163-293 218-352 (476)
284 PRK10917 ATP-dependent DNA hel 91.6 1.4 2.9E-05 52.4 11.8 92 479-573 293-389 (681)
285 COG3267 ExeA Type II secretory 91.5 1.9 4.1E-05 43.6 10.8 110 176-318 53-173 (269)
286 TIGR03345 VI_ClpV1 type VI sec 91.3 1.1 2.4E-05 54.3 10.7 41 160-200 192-234 (852)
287 cd01121 Sms Sms (bacterial rad 91.2 1.4 3.1E-05 48.0 10.5 103 161-293 68-171 (372)
288 TIGR00708 cobA cob(I)alamin ad 91.1 0.71 1.5E-05 44.3 7.1 62 273-334 90-155 (173)
289 COG0470 HolB ATPase involved i 91.1 1.2 2.6E-05 47.4 9.9 119 174-317 23-147 (325)
290 PRK14087 dnaA chromosomal repl 91.1 1.1 2.4E-05 50.2 9.8 41 176-216 143-183 (450)
291 PRK14965 DNA polymerase III su 91.0 1.7 3.7E-05 50.4 11.5 41 160-200 21-64 (576)
292 PRK00411 cdc6 cell division co 91.0 1.7 3.7E-05 47.8 11.2 28 175-202 56-83 (394)
293 PF06733 DEAD_2: DEAD_2; Inte 91.0 0.19 4.2E-06 48.5 3.2 39 256-294 118-159 (174)
294 TIGR00678 holB DNA polymerase 90.9 3.4 7.5E-05 40.2 12.1 25 177-201 17-41 (188)
295 PRK14950 DNA polymerase III su 90.9 1.6 3.4E-05 50.8 11.1 42 159-200 20-64 (585)
296 PRK06921 hypothetical protein; 90.8 1.7 3.7E-05 45.0 10.3 29 173-201 116-144 (266)
297 PRK14086 dnaA chromosomal repl 90.6 1.8 3.8E-05 49.9 10.9 99 177-318 317-419 (617)
298 PF00580 UvrD-helicase: UvrD/R 90.6 0.34 7.4E-06 51.2 5.0 64 156-225 1-67 (315)
299 PRK14722 flhF flagellar biosyn 90.5 1.4 3.1E-05 47.8 9.6 124 173-327 136-266 (374)
300 COG1419 FlhF Flagellar GTP-bin 90.5 4.5 9.8E-05 43.9 13.2 133 174-336 203-341 (407)
301 TIGR00595 priA primosomal prot 90.5 2.1 4.5E-05 48.8 11.4 94 478-575 7-101 (505)
302 PRK06904 replicative DNA helic 90.4 2.2 4.7E-05 48.1 11.4 129 162-293 209-347 (472)
303 PRK06893 DNA replication initi 90.4 3 6.4E-05 42.2 11.4 26 177-202 42-67 (229)
304 TIGR00665 DnaB replicative DNA 90.3 1.7 3.7E-05 48.6 10.5 130 160-293 181-318 (434)
305 PF05970 PIF1: PIF1-like helic 90.1 1.2 2.5E-05 48.6 8.7 61 155-217 1-63 (364)
306 cd01120 RecA-like_NTPases RecA 90.0 3.2 6.8E-05 38.7 10.7 36 178-215 3-38 (165)
307 PRK07133 DNA polymerase III su 90.0 3.2 7E-05 48.8 12.5 42 160-201 23-67 (725)
308 cd00561 CobA_CobO_BtuR ATP:cor 90.0 6.6 0.00014 37.2 12.5 138 178-333 6-152 (159)
309 PRK05642 DNA replication initi 89.8 2 4.3E-05 43.7 9.6 37 281-317 98-138 (234)
310 PRK08533 flagellar accessory p 89.8 3.3 7.2E-05 41.9 11.2 52 172-225 22-73 (230)
311 PRK06647 DNA polymerase III su 89.7 2.7 5.8E-05 48.5 11.6 42 160-201 21-65 (563)
312 TIGR03689 pup_AAA proteasome A 89.6 1.4 2.9E-05 50.0 8.8 28 173-200 215-242 (512)
313 PF06745 KaiC: KaiC; InterPro 89.4 1.9 4.1E-05 43.4 9.2 101 174-292 19-127 (226)
314 cd01122 GP4d_helicase GP4d_hel 89.4 1.7 3.6E-05 45.2 8.9 118 172-294 28-154 (271)
315 PRK05748 replicative DNA helic 89.4 2.2 4.7E-05 48.0 10.4 129 161-293 190-327 (448)
316 PRK14954 DNA polymerase III su 89.3 3.7 8.1E-05 47.7 12.4 43 159-201 20-65 (620)
317 PRK07276 DNA polymerase III su 89.1 5.3 0.00011 41.9 12.2 147 155-330 2-155 (290)
318 PHA03333 putative ATPase subun 89.0 2.2 4.9E-05 49.2 10.0 150 156-319 170-332 (752)
319 PRK13342 recombination factor 89.0 2.8 6.1E-05 46.5 10.8 22 176-197 38-59 (413)
320 PRK05580 primosome assembly pr 88.9 3.6 7.9E-05 48.7 12.2 93 479-575 173-266 (679)
321 PRK12727 flagellar biosynthesi 88.9 4.8 0.0001 45.5 12.3 38 174-211 350-387 (559)
322 cd00984 DnaB_C DnaB helicase C 88.9 3 6.6E-05 42.3 10.3 43 172-215 11-53 (242)
323 PF00308 Bac_DnaA: Bacterial d 88.8 4.6 0.0001 40.5 11.3 98 177-317 37-138 (219)
324 PF00004 AAA: ATPase family as 88.8 1.9 4.1E-05 38.8 7.9 34 178-216 2-35 (132)
325 TIGR03600 phage_DnaB phage rep 88.8 3 6.6E-05 46.4 11.0 130 161-294 181-319 (421)
326 PRK10865 protein disaggregatio 88.8 2.1 4.5E-05 52.1 10.3 41 160-200 183-225 (857)
327 PRK04132 replication factor C 88.7 1.8 3.9E-05 51.8 9.5 108 181-332 573-683 (846)
328 PRK08903 DnaA regulatory inact 88.7 2.9 6.2E-05 42.1 9.9 37 173-211 41-77 (227)
329 PRK13889 conjugal transfer rel 88.7 2 4.3E-05 52.5 9.9 129 153-322 344-474 (988)
330 PRK08506 replicative DNA helic 88.6 2.4 5.3E-05 47.8 10.1 131 158-293 176-315 (472)
331 PRK00771 signal recognition pa 88.5 2.8 6E-05 46.7 10.2 35 176-212 97-131 (437)
332 TIGR00643 recG ATP-dependent D 88.5 3.4 7.4E-05 48.6 11.6 92 479-573 267-363 (630)
333 PRK12422 chromosomal replicati 88.4 2.2 4.8E-05 47.7 9.5 35 176-212 143-177 (445)
334 PTZ00112 origin recognition co 88.3 3.7 7.9E-05 48.9 11.2 46 155-200 758-807 (1164)
335 PRK08840 replicative DNA helic 88.2 3.3 7.1E-05 46.6 10.8 127 164-293 207-342 (464)
336 PRK11054 helD DNA helicase IV; 88.2 0.94 2E-05 53.4 6.7 70 152-227 193-265 (684)
337 PRK08006 replicative DNA helic 88.2 3.5 7.5E-05 46.5 10.9 127 164-293 214-349 (471)
338 PRK09183 transposase/IS protei 88.1 2.4 5.1E-05 43.8 8.9 38 172-211 100-137 (259)
339 TIGR03880 KaiC_arch_3 KaiC dom 87.9 6.5 0.00014 39.4 11.9 50 176-227 18-67 (224)
340 PRK04195 replication factor C 87.8 5.8 0.00013 45.0 12.5 25 174-198 39-63 (482)
341 TIGR03877 thermo_KaiC_1 KaiC d 87.6 6.7 0.00015 39.8 11.8 63 162-226 8-71 (237)
342 COG0305 DnaB Replicative DNA h 87.6 3.6 7.9E-05 45.3 10.2 131 164-296 186-322 (435)
343 PRK05595 replicative DNA helic 87.6 1.6 3.4E-05 49.0 7.7 128 161-293 188-324 (444)
344 KOG0952 DNA/RNA helicase MER3/ 87.5 0.45 9.8E-06 56.4 3.4 110 173-295 942-1061(1230)
345 PTZ00293 thymidine kinase; Pro 87.4 2.1 4.5E-05 42.5 7.5 35 178-214 8-42 (211)
346 CHL00095 clpC Clp protease ATP 87.3 2 4.4E-05 52.1 8.9 28 173-200 199-226 (821)
347 PRK10867 signal recognition pa 87.2 6.3 0.00014 43.8 12.0 35 177-212 103-137 (433)
348 PRK07004 replicative DNA helic 87.0 2.4 5.2E-05 47.7 8.7 129 161-293 200-337 (460)
349 COG0541 Ffh Signal recognition 86.9 2 4.3E-05 46.8 7.6 105 177-306 103-207 (451)
350 PRK06305 DNA polymerase III su 86.8 5 0.00011 45.0 11.2 42 160-201 22-66 (451)
351 PRK05973 replicative DNA helic 86.8 3.1 6.7E-05 42.2 8.6 59 166-226 56-114 (237)
352 PF07015 VirC1: VirC1 protein; 86.3 3.4 7.4E-05 41.4 8.4 41 183-225 11-53 (231)
353 PRK06321 replicative DNA helic 86.3 4.2 9.1E-05 45.8 10.1 127 163-293 215-349 (472)
354 PRK06731 flhF flagellar biosyn 86.0 14 0.0003 38.4 13.0 126 174-333 75-211 (270)
355 PRK06067 flagellar accessory p 86.0 3.7 8E-05 41.6 8.9 49 176-226 27-75 (234)
356 COG1435 Tdk Thymidine kinase [ 86.0 4.5 9.7E-05 39.4 8.7 109 178-317 8-118 (201)
357 cd03115 SRP The signal recogni 85.9 11 0.00023 36.0 11.7 33 177-211 3-35 (173)
358 KOG0780 Signal recognition par 85.9 1.8 3.8E-05 46.2 6.3 96 178-297 105-200 (483)
359 PRK14873 primosome assembly pr 85.7 4 8.6E-05 48.0 9.9 79 478-559 170-250 (665)
360 PRK05636 replicative DNA helic 85.6 4.2 9E-05 46.2 9.8 127 163-293 254-388 (505)
361 PRK07399 DNA polymerase III su 85.6 6.5 0.00014 41.8 10.7 43 160-202 9-54 (314)
362 TIGR03346 chaperone_ClpB ATP-d 85.4 4.6 9.9E-05 49.2 10.6 41 160-200 178-220 (852)
363 COG0464 SpoVK ATPases of the A 85.3 3.4 7.4E-05 47.0 9.1 67 155-226 249-323 (494)
364 PRK11823 DNA repair protein Ra 85.2 3.3 7.1E-05 46.4 8.7 63 162-226 67-130 (446)
365 TIGR02397 dnaX_nterm DNA polym 85.2 7 0.00015 42.2 11.1 42 160-201 19-63 (355)
366 PRK05564 DNA polymerase III su 85.1 8.5 0.00018 40.9 11.5 41 161-201 10-53 (313)
367 COG2256 MGS1 ATPase related to 85.0 4.7 0.0001 43.5 9.1 35 281-317 105-139 (436)
368 COG0552 FtsY Signal recognitio 84.8 6.2 0.00013 41.7 9.7 123 178-325 143-276 (340)
369 TIGR02639 ClpA ATP-dependent C 84.7 3.5 7.5E-05 49.4 9.1 29 173-201 202-230 (731)
370 TIGR03878 thermo_KaiC_2 KaiC d 84.5 9 0.00019 39.5 11.0 34 177-212 39-72 (259)
371 PRK13833 conjugal transfer pro 84.5 2.3 5E-05 45.3 6.6 132 153-328 126-257 (323)
372 KOG0991 Replication factor C, 84.5 0.85 1.8E-05 45.3 3.1 29 173-201 47-75 (333)
373 PF02606 LpxK: Tetraacyldisacc 84.4 5 0.00011 42.9 9.2 125 184-321 47-191 (326)
374 TIGR00959 ffh signal recogniti 84.2 9.6 0.00021 42.3 11.6 35 177-212 102-136 (428)
375 COG1484 DnaC DNA replication p 83.9 2.9 6.4E-05 43.0 7.0 62 159-226 90-151 (254)
376 PRK13826 Dtr system oriT relax 83.9 6.7 0.00015 48.5 11.0 128 153-323 379-510 (1102)
377 PRK12726 flagellar biosynthesi 83.8 13 0.00028 40.4 11.9 46 176-223 208-257 (407)
378 PF03796 DnaB_C: DnaB-like hel 83.8 1.4 3.1E-05 45.4 4.7 119 172-295 17-145 (259)
379 KOG0740 AAA+-type ATPase [Post 83.8 2 4.4E-05 47.0 6.0 48 174-226 186-233 (428)
380 PRK00080 ruvB Holliday junctio 83.7 16 0.00035 39.0 13.0 24 175-198 52-75 (328)
381 PRK11034 clpA ATP-dependent Cl 83.6 4.2 9E-05 48.6 9.0 28 173-200 206-233 (758)
382 PRK14970 DNA polymerase III su 83.5 9 0.0002 41.7 11.1 43 159-201 21-66 (367)
383 PRK10416 signal recognition pa 83.4 16 0.00035 38.9 12.5 33 178-212 118-150 (318)
384 TIGR00580 mfd transcription-re 83.4 8.5 0.00019 47.1 11.6 93 479-573 483-579 (926)
385 PF13191 AAA_16: AAA ATPase do 83.4 3.1 6.7E-05 39.9 6.7 53 174-227 24-79 (185)
386 TIGR03499 FlhF flagellar biosy 83.2 4.8 0.0001 42.1 8.4 37 176-212 196-232 (282)
387 KOG0737 AAA+-type ATPase [Post 83.2 2.3 5.1E-05 45.1 5.9 52 170-226 123-174 (386)
388 PF01695 IstB_IS21: IstB-like 83.1 1.5 3.3E-05 42.5 4.3 48 172-225 45-92 (178)
389 PRK10919 ATP-dependent DNA hel 83.1 2.1 4.5E-05 50.7 6.2 67 155-227 2-71 (672)
390 PRK14721 flhF flagellar biosyn 82.9 9.4 0.0002 42.2 10.8 55 280-335 269-328 (420)
391 smart00492 HELICc3 helicase su 82.7 7.7 0.00017 35.9 8.6 53 523-578 25-79 (141)
392 PRK07773 replicative DNA helic 82.5 4.1 8.9E-05 49.8 8.6 132 159-294 202-341 (886)
393 TIGR00064 ftsY signal recognit 82.4 20 0.00043 37.3 12.5 34 177-212 75-108 (272)
394 PRK14971 DNA polymerase III su 82.3 13 0.00029 43.4 12.3 41 160-200 22-65 (614)
395 COG1198 PriA Primosomal protei 82.0 2.9 6.4E-05 49.1 6.7 80 477-559 226-306 (730)
396 PRK12724 flagellar biosynthesi 81.7 10 0.00022 41.8 10.2 125 177-335 226-361 (432)
397 TIGR00767 rho transcription te 81.5 10 0.00023 41.4 10.2 30 172-201 166-195 (415)
398 COG3972 Superfamily I DNA and 81.3 23 0.00051 39.3 12.6 45 183-227 185-230 (660)
399 TIGR02782 TrbB_P P-type conjug 81.2 3.2 7E-05 43.8 6.2 124 165-328 123-246 (299)
400 PRK06995 flhF flagellar biosyn 81.2 8 0.00017 43.5 9.5 34 178-211 260-293 (484)
401 COG0593 DnaA ATPase involved i 81.0 9.6 0.00021 41.8 9.8 53 280-332 175-235 (408)
402 COG0003 ArsA Predicted ATPase 81.0 4.7 0.0001 42.9 7.3 27 182-210 10-36 (322)
403 PRK08699 DNA polymerase III su 80.7 15 0.00034 39.2 11.3 46 156-201 2-48 (325)
404 PF13481 AAA_25: AAA domain; P 80.7 13 0.00028 36.0 10.1 54 174-227 32-93 (193)
405 PRK13894 conjugal transfer ATP 80.4 3.9 8.5E-05 43.6 6.6 131 154-328 131-261 (319)
406 PRK10689 transcription-repair 80.3 12 0.00027 46.9 11.7 93 479-573 632-728 (1147)
407 TIGR03881 KaiC_arch_4 KaiC dom 80.2 17 0.00036 36.5 10.9 52 172-225 18-69 (229)
408 PRK04328 hypothetical protein; 79.9 14 0.0003 37.9 10.2 51 174-226 23-73 (249)
409 PF01443 Viral_helicase1: Vira 79.9 5 0.00011 40.3 7.0 41 280-323 62-102 (234)
410 TIGR01425 SRP54_euk signal rec 79.9 29 0.00062 38.5 13.1 33 178-212 104-136 (429)
411 PRK03992 proteasome-activating 79.3 4.3 9.2E-05 44.7 6.7 25 174-198 165-189 (389)
412 KOG0739 AAA+-type ATPase [Post 79.3 84 0.0018 32.8 15.0 48 175-227 167-214 (439)
413 CHL00176 ftsH cell division pr 79.0 7.2 0.00016 45.7 8.6 24 174-197 216-239 (638)
414 KOG0921 Dosage compensation co 79.0 15 0.00033 43.4 10.8 133 172-318 391-535 (1282)
415 CHL00095 clpC Clp protease ATP 79.0 1.4E+02 0.003 36.5 19.9 43 159-201 513-566 (821)
416 COG3973 Superfamily I DNA and 78.7 3.2 6.9E-05 46.9 5.3 47 174-220 226-276 (747)
417 TIGR02012 tigrfam_recA protein 78.6 14 0.0003 39.3 9.9 55 162-218 41-97 (321)
418 cd02037 MRP-like MRP (Multiple 78.3 15 0.00032 35.0 9.3 112 178-335 4-118 (169)
419 PRK09376 rho transcription ter 78.3 5 0.00011 43.6 6.5 29 173-201 168-196 (416)
420 TIGR00416 sms DNA repair prote 78.3 6.8 0.00015 44.0 7.9 64 161-226 80-144 (454)
421 PHA02542 41 41 helicase; Provi 78.1 12 0.00026 42.2 9.8 61 161-223 176-237 (473)
422 cd00983 recA RecA is a bacter 78.0 13 0.00029 39.6 9.5 39 177-217 58-96 (325)
423 PRK07414 cob(I)yrinic acid a,c 77.9 12 0.00026 36.1 8.3 139 177-330 24-169 (178)
424 TIGR02640 gas_vesic_GvpN gas v 77.9 5.5 0.00012 41.1 6.7 49 158-211 5-53 (262)
425 CHL00206 ycf2 Ycf2; Provisiona 77.8 6.5 0.00014 50.6 8.1 41 174-219 1630-1670(2281)
426 COG2812 DnaX DNA polymerase II 77.8 5.2 0.00011 45.1 6.8 42 160-201 21-65 (515)
427 PF05127 Helicase_RecD: Helica 77.8 2.4 5.3E-05 40.8 3.6 121 179-318 2-123 (177)
428 TIGR00682 lpxK tetraacyldisacc 77.6 7.3 0.00016 41.3 7.5 20 183-202 39-58 (311)
429 PTZ00454 26S protease regulato 77.5 5.4 0.00012 43.9 6.7 36 173-213 178-213 (398)
430 COG1474 CDC6 Cdc6-related prot 76.8 29 0.00063 37.8 12.0 48 154-201 19-69 (366)
431 PHA00012 I assembly protein 76.8 6.8 0.00015 41.3 6.7 33 178-214 5-37 (361)
432 PRK14723 flhF flagellar biosyn 76.6 11 0.00023 44.8 9.1 122 177-331 188-318 (767)
433 KOG1133 Helicase of the DEAD s 76.5 1.7 3.6E-05 49.6 2.4 81 497-578 630-720 (821)
434 PRK13341 recombination factor 76.4 11 0.00023 45.0 9.1 23 175-197 53-75 (725)
435 TIGR01242 26Sp45 26S proteasom 75.8 5.7 0.00012 43.3 6.4 25 174-198 156-180 (364)
436 cd01128 rho_factor Transcripti 75.6 6.5 0.00014 40.3 6.3 25 172-196 14-38 (249)
437 PRK09302 circadian clock prote 75.5 10 0.00023 43.3 8.7 50 176-227 275-324 (509)
438 PRK12608 transcription termina 75.5 11 0.00024 40.8 8.2 43 158-201 118-160 (380)
439 TIGR02655 circ_KaiC circadian 75.3 14 0.0003 42.0 9.5 66 159-226 247-313 (484)
440 COG0467 RAD55 RecA-superfamily 74.8 8.8 0.00019 39.5 7.2 104 172-290 21-134 (260)
441 PRK06749 replicative DNA helic 74.7 10 0.00022 42.2 8.1 60 163-224 175-234 (428)
442 PRK13709 conjugal transfer nic 74.7 17 0.00037 47.3 10.8 61 154-216 966-1028(1747)
443 PF02572 CobA_CobO_BtuR: ATP:c 74.6 16 0.00035 35.1 8.2 141 177-333 6-153 (172)
444 PF12846 AAA_10: AAA-like doma 74.3 9.5 0.00021 39.7 7.5 46 175-222 2-47 (304)
445 TIGR01243 CDC48 AAA family ATP 74.3 13 0.00028 44.6 9.4 26 173-198 211-236 (733)
446 PRK14712 conjugal transfer nic 74.2 14 0.0003 47.5 9.8 60 155-216 835-896 (1623)
447 TIGR01243 CDC48 AAA family ATP 74.1 8.8 0.00019 46.0 7.9 41 174-219 487-527 (733)
448 cd01125 repA Hexameric Replica 73.9 25 0.00054 35.6 10.1 39 176-214 3-51 (239)
449 cd01129 PulE-GspE PulE/GspE Th 73.0 6.9 0.00015 40.5 5.8 43 156-200 64-106 (264)
450 PRK09354 recA recombinase A; P 72.9 24 0.00052 38.0 10.0 40 177-218 63-102 (349)
451 PF05729 NACHT: NACHT domain 72.7 24 0.00052 32.8 9.2 29 177-205 3-31 (166)
452 KOG1133 Helicase of the DEAD s 72.5 6.5 0.00014 45.1 5.7 47 152-198 12-59 (821)
453 cd02034 CooC The accessory pro 72.2 52 0.0011 29.3 10.5 48 177-228 2-49 (116)
454 PF06564 YhjQ: YhjQ protein; 71.8 9 0.0002 38.9 6.1 97 179-290 7-127 (243)
455 TIGR03346 chaperone_ClpB ATP-d 71.6 1.5E+02 0.0033 36.3 17.7 25 177-201 598-622 (852)
456 TIGR01547 phage_term_2 phage t 71.6 4.1 8.8E-05 44.9 4.0 36 178-213 5-41 (396)
457 COG1618 Predicted nucleotide k 71.2 13 0.00027 35.2 6.3 126 176-313 7-134 (179)
458 COG1702 PhoH Phosphate starvat 71.2 12 0.00025 39.8 6.9 53 156-212 129-181 (348)
459 PRK12377 putative replication 70.9 21 0.00046 36.5 8.7 42 175-218 102-143 (248)
460 COG3598 RepA RecA-family ATPas 70.7 33 0.00072 36.2 9.8 41 172-212 87-135 (402)
461 KOG0738 AAA+-type ATPase [Post 70.4 18 0.0004 38.9 8.1 47 175-226 246-292 (491)
462 COG1066 Sms Predicted ATP-depe 70.4 30 0.00065 37.7 9.8 88 177-295 96-183 (456)
463 PRK13849 putative crown gall t 70.3 17 0.00036 36.8 7.8 38 182-221 10-49 (231)
464 PF00437 T2SE: Type II/IV secr 70.0 5.5 0.00012 41.3 4.4 122 165-328 118-239 (270)
465 PRK08939 primosomal protein Dn 69.8 12 0.00026 39.6 6.9 46 174-225 156-201 (306)
466 PRK09087 hypothetical protein; 69.8 23 0.0005 35.7 8.6 36 282-317 89-125 (226)
467 COG1200 RecG RecG-like helicas 69.7 74 0.0016 37.0 13.3 92 479-573 294-390 (677)
468 TIGR02237 recomb_radB DNA repa 68.0 46 0.00099 32.7 10.4 36 177-214 15-50 (209)
469 PF04364 DNA_pol3_chi: DNA pol 67.9 22 0.00048 32.7 7.4 83 482-578 15-97 (137)
470 PRK09435 membrane ATPase/prote 67.9 56 0.0012 35.0 11.4 49 178-226 60-113 (332)
471 TIGR00365 monothiol glutaredox 67.8 39 0.00084 29.0 8.5 48 496-543 11-64 (97)
472 PF03237 Terminase_6: Terminas 67.6 38 0.00082 36.3 10.6 61 260-322 79-141 (384)
473 TIGR01241 FtsH_fam ATP-depende 67.5 9.4 0.0002 43.5 5.9 24 174-197 88-111 (495)
474 COG2109 BtuR ATP:corrinoid ade 67.4 73 0.0016 31.0 10.8 61 273-333 115-179 (198)
475 PRK15429 formate hydrogenlyase 67.0 72 0.0016 38.0 13.4 41 172-214 397-437 (686)
476 PRK06646 DNA polymerase III su 66.7 26 0.00057 33.0 7.7 43 477-519 10-52 (154)
477 PTZ00361 26 proteosome regulat 66.5 11 0.00024 42.0 6.0 26 173-198 216-241 (438)
478 TIGR03574 selen_PSTK L-seryl-t 66.5 41 0.00088 34.3 9.9 24 178-201 3-26 (249)
479 PRK05728 DNA polymerase III su 66.1 39 0.00085 31.3 8.7 86 478-578 11-96 (142)
480 KOG1807 Helicases [Replication 66.1 17 0.00036 42.4 7.2 85 149-239 372-461 (1025)
481 PRK00652 lpxK tetraacyldisacch 66.0 27 0.0006 37.2 8.6 20 183-202 60-79 (325)
482 PF03354 Terminase_1: Phage Te 65.5 43 0.00093 37.9 10.7 56 158-214 1-64 (477)
483 TIGR02688 conserved hypothetic 65.1 17 0.00038 40.0 6.9 57 160-221 195-252 (449)
484 TIGR02760 TraI_TIGR conjugativ 64.9 34 0.00074 45.7 10.8 60 153-215 1017-1079(1960)
485 PRK10923 glnG nitrogen regulat 64.7 70 0.0015 36.0 12.3 46 172-219 159-204 (469)
486 PRK13900 type IV secretion sys 64.6 11 0.00025 40.3 5.5 36 164-199 150-185 (332)
487 PRK09302 circadian clock prote 64.1 39 0.00084 38.6 10.1 65 161-226 17-82 (509)
488 PF13607 Succ_CoA_lig: Succiny 64.0 33 0.00071 31.6 7.7 86 498-605 3-90 (138)
489 KOG0442 Structure-specific end 64.0 1E+02 0.0022 36.7 13.0 44 475-518 347-400 (892)
490 PRK11331 5-methylcytosine-spec 63.5 15 0.00034 40.7 6.3 37 164-200 184-220 (459)
491 cd01393 recA_like RecA is a b 63.3 47 0.001 33.0 9.5 39 177-215 22-64 (226)
492 COG4626 Phage terminase-like p 62.9 33 0.00071 38.9 8.7 62 153-214 59-128 (546)
493 PRK05818 DNA polymerase III su 62.4 48 0.001 34.1 9.2 124 176-329 9-138 (261)
494 CHL00195 ycf46 Ycf46; Provisio 62.3 13 0.00027 42.2 5.5 35 174-213 259-293 (489)
495 TIGR02525 plasmid_TraJ plasmid 62.2 15 0.00033 40.0 5.9 37 173-209 148-184 (372)
496 PHA00350 putative assembly pro 62.0 24 0.00052 38.7 7.4 24 178-201 5-29 (399)
497 PF02456 Adeno_IVa2: Adenoviru 61.4 11 0.00025 39.2 4.4 97 175-292 88-208 (369)
498 COG1222 RPT1 ATP-dependent 26S 60.2 21 0.00045 38.2 6.2 26 172-197 183-208 (406)
499 cd03028 GRX_PICOT_like Glutare 59.7 47 0.001 27.9 7.4 46 496-541 7-58 (90)
500 PF01637 Arch_ATPase: Archaeal 59.6 27 0.00058 34.6 7.0 25 174-198 20-44 (234)
No 1
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=2.9e-133 Score=1076.03 Aligned_cols=601 Identities=48% Similarity=0.823 Sum_probs=509.5
Q ss_pred ccchhhhhhhHHHHhhhHHHHHHHhhhhhhhccccccccCCcccccCCCCCCCccCcccchhhHHHHHHHHHhccccccc
Q 004880 49 HLNDLQFNKLDELLTQTQMYAEFLLEKMEDITVNGVEQESEPVGKKKGRGSKRKAAPQCNTRKAKRAVAAMLTRSKEGEK 128 (725)
Q Consensus 49 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 (725)
.+..++++|+++|+.+|+.|+||+..++.+...........+ .+++++ +...+.........+...++.+
T Consensus 70 ~~~~~~~kr~e~Ll~~te~f~~f~~~~~~~~~~~~~~~~~~~-------~~k~~~---~~~~~~~~~~~~r~te~eed~e 139 (971)
T KOG0385|consen 70 KMKADQAKRFEKLLKQTELFQHFIQPKAQKIDTKPLMELLRP-------RKKNDA---KKKESSSGDVRHRKTEQEEDEE 139 (971)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHccchhhcCcccccchhccc-------hhhccc---hhccccccccccccccccchHH
Confidence 345778999999999999999999998765543322110111 000000 0000000011111111111111
Q ss_pred cccccchhhhhhhhhh-hhhcccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh-CCCCCC
Q 004880 129 TENENLSEEERVDKEQ-RELVSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG-NGLHGP 206 (725)
Q Consensus 129 ~~~~~~~~~~~~~~~~-~~~~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~-~~~~~~ 206 (725)
...+...++......+ ...|.+..++.|||||++|++||+.+|++|.|||||||||||||+|+|+++.++.. .+..||
T Consensus 140 ~~~~~~~e~~~~~~~~~~~sP~~v~~g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GP 219 (971)
T KOG0385|consen 140 LLKEEEKEEETTVQNRFEDSPSYVKGGELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGP 219 (971)
T ss_pred HHHHhhhhhhhhhhccccCCchhhcCCccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCC
Confidence 1111111111111111 11234566799999999999999999999999999999999999999999999998 788999
Q ss_pred cEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEE
Q 004880 207 YLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVV 286 (725)
Q Consensus 207 ~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIv 286 (725)
+||+||.|+++||.+||++|+|++++++|+|++.+|..+++..+.. ..|+|+||||++++++ +.+|.+++|.|+||
T Consensus 220 fLVi~P~StL~NW~~Ef~rf~P~l~~~~~~Gdk~eR~~~~r~~~~~---~~fdV~iTsYEi~i~d-k~~lk~~~W~ylvI 295 (971)
T KOG0385|consen 220 FLVIAPKSTLDNWMNEFKRFTPSLNVVVYHGDKEERAALRRDIMLP---GRFDVCITSYEIAIKD-KSFLKKFNWRYLVI 295 (971)
T ss_pred eEEEeeHhhHHHHHHHHHHhCCCcceEEEeCCHHHHHHHHHHhhcc---CCCceEeehHHHHHhh-HHHHhcCCceEEEe
Confidence 9999999999999999999999999999999999999998887644 3899999999999999 69999999999999
Q ss_pred ccccccCCcchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHH
Q 004880 287 DEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEK 366 (725)
Q Consensus 287 DEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~ 366 (725)
||||||||.+|.+++.++.+.+.+||||||||+|||+.|||+||||+.|++|++.++|.+||.......
T Consensus 296 DEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~----------- 364 (971)
T KOG0385|consen 296 DEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEG----------- 364 (971)
T ss_pred chhhhhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHccccccc-----------
Confidence 999999999999999999999999999999999999999999999999999999999999998763222
Q ss_pred HHHHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHH
Q 004880 367 RRGQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLM 446 (725)
Q Consensus 367 ~~~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l 446 (725)
....+.+||.+|+||++||+|.+|+..||||+|.++||.||+.|+++|..++.+.+..... .+......++|++
T Consensus 365 -~~e~v~~Lh~vL~pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n~-----~~~~~k~kL~NI~ 438 (971)
T KOG0385|consen 365 -DQELVSRLHKVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLDALNG-----EGKGEKTKLQNIM 438 (971)
T ss_pred -CHHHHHHHHhhhhHHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcchhhcc-----cccchhhHHHHHH
Confidence 1247889999999999999999999999999999999999999999999999888766532 2222478999999
Q ss_pred HHHHHhcCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEE
Q 004880 447 VQLRKNCNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRI 526 (725)
Q Consensus 447 ~~Lr~~~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l 526 (725)
|+||+|||||||+.+. .+.+.|...++++.+|||+.+|+++|.++.++||||||||||+.|+|+|++||..+||.||||
T Consensus 439 mQLRKccnHPYLF~g~-ePg~pyttdehLv~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R~y~ycRi 517 (971)
T KOG0385|consen 439 MQLRKCCNHPYLFDGA-EPGPPYTTDEHLVTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCMLRGYEYCRL 517 (971)
T ss_pred HHHHHhcCCccccCCC-CCCCCCCcchHHHhcCcceehHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHhcCceeEee
Confidence 9999999999999994 444789999999999999999999999999999999999999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEec
Q 004880 527 DGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLAT 606 (725)
Q Consensus 527 ~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~ 606 (725)
||+++.++|...|+.||.+++..+|||+||+|||+||||++||+||+||++|||++++||++|||||||+|+|+||||+|
T Consensus 518 DGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLit 597 (971)
T KOG0385|consen 518 DGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLIT 597 (971)
T ss_pred cCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEEec
Confidence 99999999999999999988899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhcCCccccccccccccccCCHHHHHHhhcchhhhhhhhhcCCCCHHHHHHHHhhhhcc
Q 004880 607 AQSVEGRILKRAFSKLKLEHVVIGKGQFHQERTKSNCIDALEEEDLLALLQDEETAEDKMIQTDIGEEDLERVLDRADLI 686 (725)
Q Consensus 607 ~~TiEe~i~~~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~~~el~~ll~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~ 686 (725)
++||||+|++|+..|++|.+.||++|..... .++ .+..+++..+++.+++......++.+++ ||+++|.++..-
T Consensus 598 entVEe~IveRA~~KL~Ld~~VIq~g~l~~~--~~~---~~~k~~~l~~~r~g~~~~f~~~es~~~d-Did~il~~~e~k 671 (971)
T KOG0385|consen 598 ENTVEEKIVERAAAKLRLDKLVIQQGRLEEQ--KSN---GLGKDELLNLLRFGADPVFESKESTISD-DIDRILERGEEK 671 (971)
T ss_pred cchHHHHHHHHHHHHhchhhhhhccCchhhh--hcc---ccchHHHHHHHHcCchhhhhhcccccch-hHHHHHHhhhhh
Confidence 9999999999999999999999999843322 222 3567899999999998877777788888 999999998754
Q ss_pred c
Q 004880 687 A 687 (725)
Q Consensus 687 ~ 687 (725)
.
T Consensus 672 t 672 (971)
T KOG0385|consen 672 T 672 (971)
T ss_pred c
Confidence 3
No 2
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=6.4e-111 Score=942.70 Aligned_cols=518 Identities=43% Similarity=0.719 Sum_probs=467.5
Q ss_pred cccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC-CCCCcEEEEcCccHHHHHHHHHHh
Q 004880 148 VSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG-LHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 148 ~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~-~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
+++..|.+||+||++|++||+.+|.++.|||||||||||||+|+|+|+.+|...+ ..||+|||+|.|++.+|++||..|
T Consensus 363 p~~~~g~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~fl~~l~~~~~~~gpflvvvplst~~~W~~ef~~w 442 (1373)
T KOG0384|consen 363 PEYKGGNELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTITFLSYLFHSLQIHGPFLVVVPLSTITAWEREFETW 442 (1373)
T ss_pred ccccccchhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHHHHHHHHHhhhccCCeEEEeehhhhHHHHHHHHHH
Confidence 4677788999999999999999999999999999999999999999999999866 889999999999999999999999
Q ss_pred CCCceEEEEeCChhhHHHHHHhcCCCCCC---CCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHH
Q 004880 227 VPSVSAIIYHGSKKERDEIRRKHMPRAIG---PKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKEL 303 (725)
Q Consensus 227 ~p~~~v~~~~g~~~~r~~~~~~~~~~~~~---~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l 303 (725)
+ .+++++|+|+...|..++...+..... -+|+++||||++++++ +.+|..++|.+++|||||++||..|.++..|
T Consensus 443 ~-~mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~LkD-k~~L~~i~w~~~~vDeahrLkN~~~~l~~~l 520 (1373)
T KOG0384|consen 443 T-DMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLKD-KAELSKIPWRYLLVDEAHRLKNDESKLYESL 520 (1373)
T ss_pred h-hhceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhcc-HhhhccCCcceeeecHHhhcCchHHHHHHHH
Confidence 9 999999999999999999888755442 2799999999999999 4999999999999999999999999999999
Q ss_pred hcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 304 KYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 304 ~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
..+...+|+++||||+||++.|||+|||||+|+.|.+..+|...|+. .....+..||.+|+|||
T Consensus 521 ~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~~~----------------~~e~~~~~L~~~L~P~~ 584 (1373)
T KOG0384|consen 521 NQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEFDE----------------ETEEQVRKLQQILKPFL 584 (1373)
T ss_pred HHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhhcc----------------hhHHHHHHHHHHhhHHH
Confidence 99999999999999999999999999999999999999999887732 12256789999999999
Q ss_pred hheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc
Q 004880 384 LRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF 463 (725)
Q Consensus 384 lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~ 463 (725)
|||++.||++.||+|.|+++.|.||+.|+.+|+.++.+++..+-. ...+....++|++|.|++|||||||+.++.
T Consensus 585 lRr~kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtK-----G~~g~~~~lLNimmELkKccNHpyLi~gae 659 (1373)
T KOG0384|consen 585 LRRLKKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTK-----GAKGSTPSLLNIMMELKKCCNHPYLIKGAE 659 (1373)
T ss_pred HHHHHhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhc-----cCCCCCchHHHHHHHHHHhcCCccccCcHH
Confidence 999999999999999999999999999999999999998766532 223334789999999999999999998764
Q ss_pred cCC-------CCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHH
Q 004880 464 SDS-------CFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERK 536 (725)
Q Consensus 464 ~~~-------~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~ 536 (725)
... ........++.+|||+.+|++||.++.+.||||||||||+.|||+|.+||..+||+|-||||+++.+-|+
T Consensus 660 e~~~~~~~~~~~d~~L~~lI~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq 739 (1373)
T KOG0384|consen 660 EKILGDFRDKMRDEALQALIQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQ 739 (1373)
T ss_pred HHHHHhhhhcchHHHHHHHHHhcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHH
Confidence 321 1123567789999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHH
Q 004880 537 RQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILK 616 (725)
Q Consensus 537 ~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~ 616 (725)
.+|+.||+++++-||||+||+|||+||||++||||||||++|||+.++||+.|||||||++.|.||||||++|||+.|++
T Consensus 740 ~AIDhFnap~SddFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeEilE 819 (1373)
T KOG0384|consen 740 QAIDHFNAPDSDDFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEEILE 819 (1373)
T ss_pred HHHHhccCCCCCceEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEEEecCCchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCccccccccccccccCCHHHHHHhhcchhhhhhhh---hcCCCCHHHHHHHHhhhhccccCCC
Q 004880 617 RAFSKLKLEHVVIGKGQFHQERTKSNCIDALEEEDLLALLQDEETAEDKM---IQTDIGEEDLERVLDRADLIAGCLD 691 (725)
Q Consensus 617 ~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~~~el~~ll~~~~~~~~~~---~~~~~~~~~l~~~l~~~~~~~~~~~ 691 (725)
|+..|.-|.++||+.+...+..... ..++.+||.++|+.++.+-.+- ......++||+.||.|....+....
T Consensus 820 RAk~KmvLD~aVIQ~m~t~~~~s~~---~~f~K~ELsaILKfGA~~lfke~ene~s~~~e~DIDeIL~rae~~~t~~~ 894 (1373)
T KOG0384|consen 820 RAKLKMVLDHAVIQRMDTKGKTSKS---NPFSKEELSAILKFGAYELFKEEENEESKFCEMDIDEILERAETRITEES 894 (1373)
T ss_pred HHHHHhhhHHHHHHhhccccccCCC---CCCCHHHHHHHHHhchHHhhhccccccccccccCHHHHHhhccccccccc
Confidence 9999999999999988763333333 3799999999999988664332 2235667899999999866555443
No 3
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=4.4e-110 Score=884.64 Aligned_cols=467 Identities=45% Similarity=0.790 Sum_probs=423.3
Q ss_pred cccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh-CCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 148 VSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG-NGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 148 ~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~-~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
-|.+..|+|+.||++|++||..+|.+|.|||||||||||||+|+|+++++|.+ +..+||||||+|.|+++||.+||.+|
T Consensus 560 qPkil~ctLKEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsisvlAhLaE~~nIwGPFLVVtpaStL~NWaqEisrF 639 (1185)
T KOG0388|consen 560 QPKILKCTLKEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSISVLAHLAETHNIWGPFLVVTPASTLHNWAQEISRF 639 (1185)
T ss_pred CchhhhhhhHHHhhccHHHHHHHHHccccceehhhhccchhHHHHHHHHHHHHhccCCCceEEeehHHHHhHHHHHHHHh
Confidence 36778899999999999999999999999999999999999999999999998 67899999999999999999999999
Q ss_pred CCCceEEEEeCChhhHHHHHHhcCCCC---CCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHH
Q 004880 227 VPSVSAIIYHGSKKERDEIRRKHMPRA---IGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKEL 303 (725)
Q Consensus 227 ~p~~~v~~~~g~~~~r~~~~~~~~~~~---~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l 303 (725)
+|.++++.|+|+..+|..+++.+.++. ....|+|+||||+++..|. ++|++++|+|+|+|||+.||++.|.+++.|
T Consensus 640 lP~~k~lpywGs~~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVtDe-ky~qkvKWQYMILDEAQAIKSSsS~RWKtL 718 (1185)
T KOG0388|consen 640 LPSFKVLPYWGSPSERKILRKFWNRKNMYRRNAPFHVVITSYQLVVTDE-KYLQKVKWQYMILDEAQAIKSSSSSRWKTL 718 (1185)
T ss_pred CccceeecCcCChhhhHHHHHhcchhhhhccCCCceEEEEeeeeeechH-HHHHhhhhhheehhHHHHhhhhhhhHHHHH
Confidence 999999999999999998887554332 3458999999999999995 899999999999999999999999999999
Q ss_pred hcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 304 KYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 304 ~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
..++|++||||||||+||++.|||+||+|++|.+|++.++|.+||+..+...... ......+.+.+||.||+|||
T Consensus 719 LsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFseWFSKdIEshAe~-----~~tlneqqL~RLH~ILKPFM 793 (1185)
T KOG0388|consen 719 LSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSEWFSKDIESHAEM-----NTTLNEQQLQRLHAILKPFM 793 (1185)
T ss_pred hhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHHHHhhhhHhHHHh-----cCCcCHHHHHHHHHHHhHHH
Confidence 9999999999999999999999999999999999999999999998765433221 12233477899999999999
Q ss_pred hheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc
Q 004880 384 LRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF 463 (725)
Q Consensus 384 lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~ 463 (725)
|||.|++|..+|..|.++.|+|.+|..|+.+|+.+..... ...+.+++|+||++||||+||+...
T Consensus 794 LRRvKkdV~sELg~Kteidv~CdLs~RQ~~lYq~ik~~iS---------------~~E~~~~vmQlrKVCNHPdLFer~e 858 (1185)
T KOG0388|consen 794 LRRVKKDVISELGQKTEIDVYCDLSYRQKVLYQEIKRSIS---------------SMEMENLVMQLRKVCNHPDLFERLE 858 (1185)
T ss_pred HHHHHHHHHHHhccceEEEEEechhHHHHHHHHHHHHHhh---------------HHHHHHHHHHHHHhcCChHHHhhcC
Confidence 9999999999999999999999999999999999865432 2234469999999999999984321
Q ss_pred cC------------------------------------------------------------------------------
Q 004880 464 SD------------------------------------------------------------------------------ 465 (725)
Q Consensus 464 ~~------------------------------------------------------------------------------ 465 (725)
..
T Consensus 859 ~~s~L~~~V~~nl~dv~S~Grnpi~ykiP~L~~~d~le~~~fniye~i~~~~g~~~~v~Geg~~~w~~~l~~e~k~G~~~ 938 (1185)
T KOG0388|consen 859 PRSGLSLEVSDNLGDVVSFGRNPIDYKIPSLVAKDALEMFRFNIYEMIERINGLRRIVNGEGPNAWYLRLSLEFKYGGYV 938 (1185)
T ss_pred CcceeEEEcccCHHHHHhCCCCceeecchHHHHHHHHHHHHHhHHHHHHHHhhhHhhhcCCCcchhcccceeeeccCCcc
Confidence 00
Q ss_pred ---------------------------------------------------------------------------CCCCC
Q 004880 466 ---------------------------------------------------------------------------SCFYP 470 (725)
Q Consensus 466 ---------------------------------------------------------------------------~~~~~ 470 (725)
....|
T Consensus 939 ~~n~e~~~Kavtr~ll~p~~~~~e~~~rvi~~e~~~L~~~~y~y~P~v~apPvLI~~ead~PeId~E~~~~pLn~~i~~P 1018 (1185)
T KOG0388|consen 939 FRNVEEAGKAVTRNLLNPESSLLESMRRVIDEEAYRLQRHVYCYSPVVAAPPVLISNEADLPEIDLENRHIPLNTTIYVP 1018 (1185)
T ss_pred cccHHHHHHHHHHHhcCcccchhHHHHHHhhHHHHHhhhheeeeccccCCCCeeeecccCCCCCCccccCcccccceecC
Confidence 00113
Q ss_pred chHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCce
Q 004880 471 PVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYR 550 (725)
Q Consensus 471 ~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~ 550 (725)
++..++..|||+..|+.+|.++.+.||+||+|.|++.|+|+|++||..+||.|.|+||+.+..+|.+++.+|+. +++|
T Consensus 1019 pm~~FitdSgKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~--sdiF 1096 (1185)
T KOG0388|consen 1019 PMNTFITDSGKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQA--SDIF 1096 (1185)
T ss_pred cHHhhhccccceeeHHHHHHHhhcCCceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccC--CceE
Confidence 44566778999999999999999999999999999999999999999999999999999999999999999998 8999
Q ss_pred EEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhc
Q 004880 551 IFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEHVVIG 630 (725)
Q Consensus 551 v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~vi~ 630 (725)
|||+||+|||+||||++||+||+||++|||..+.||++||||.|||++|+||||+++|||||+|+.++.+|....+.|+.
T Consensus 1097 vFLLSTRAGGLGINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrdvtvyrl~~rgTvEEk~l~rA~qK~~vQq~Vm~ 1176 (1185)
T KOG0388|consen 1097 VFLLSTRAGGLGINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRDVTVYRLITRGTVEEKVLERANQKDEVQQMVMH 1176 (1185)
T ss_pred EEEEecccCcccccccccceEEEecCCCCcchhhHHHHHHHhccCccceeeeeecccccHHHHHHHHhhhHHHHHHHHHc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccc
Q 004880 631 KGQFHQE 637 (725)
Q Consensus 631 ~~~~~~~ 637 (725)
++.|.++
T Consensus 1177 G~~~qg~ 1183 (1185)
T KOG0388|consen 1177 GNIFQGE 1183 (1185)
T ss_pred CCcccCC
Confidence 8877543
No 4
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=9.3e-102 Score=902.84 Aligned_cols=506 Identities=46% Similarity=0.829 Sum_probs=453.6
Q ss_pred ccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh-CCCCCCcEEEEcCccHHHHHHHHHHhC
Q 004880 149 SLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG-NGLHGPYLVIAPLSTLSNWVNEISRFV 227 (725)
Q Consensus 149 p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~-~~~~~~~LIV~P~sll~~W~~E~~~~~ 227 (725)
|....++|||||++|++||+.++.++.||||||+||||||+|+|+++.++.. .+..+|+|||||++++.||.+||.+|+
T Consensus 163 P~~i~~~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL~nW~~Ei~kw~ 242 (1033)
T PLN03142 163 PSCIKGKMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTLGNWMNEIRRFC 242 (1033)
T ss_pred ChHhccchHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHHHHHHHHHHHHC
Confidence 4444589999999999999999999999999999999999999999999876 577899999999999999999999999
Q ss_pred CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCC
Q 004880 228 PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIP 307 (725)
Q Consensus 228 p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~ 307 (725)
|.+.+++|+|+...|..++...+. ...++|+||||+++.++. ..|..++|++|||||||++||..++++++++.++
T Consensus 243 p~l~v~~~~G~~~eR~~~~~~~~~---~~~~dVvITSYe~l~~e~-~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~ 318 (1033)
T PLN03142 243 PVLRAVKFHGNPEERAHQREELLV---AGKFDVCVTSFEMAIKEK-TALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFS 318 (1033)
T ss_pred CCCceEEEeCCHHHHHHHHHHHhc---ccCCCcceecHHHHHHHH-HHhccCCCCEEEEcCccccCCHHHHHHHHHHHhh
Confidence 999999999999888766554332 246899999999999884 7889999999999999999999999999999999
Q ss_pred CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhhee
Q 004880 308 IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLRRM 387 (725)
Q Consensus 308 ~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~ 387 (725)
+.+||+|||||++|++.|||+||+||.|+.|++...|..||....... ....+..|+.+++||++||+
T Consensus 319 a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~------------~~e~i~~L~~~L~pf~LRR~ 386 (1033)
T PLN03142 319 TNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGEND------------QQEVVQQLHKVLRPFLLRRL 386 (1033)
T ss_pred cCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccc------------hHHHHHHHHHHhhHHHhhhh
Confidence 999999999999999999999999999999999999999997643211 12467889999999999999
Q ss_pred hhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCCC
Q 004880 388 KSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDSC 467 (725)
Q Consensus 388 k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~ 467 (725)
|++|...||++.+.+++|.||+.|+.+|..++........ .......+.+++++||+||+||+++.......
T Consensus 387 KsdV~~~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~-------~g~~~~~LlnilmqLRk~cnHP~L~~~~ep~~- 458 (1033)
T PLN03142 387 KSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVVN-------AGGERKRLLNIAMQLRKCCNHPYLFQGAEPGP- 458 (1033)
T ss_pred HHHHhhhCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHHh-------ccccHHHHHHHHHHHHHHhCCHHhhhcccccC-
Confidence 9999999999999999999999999999999876554321 12234568899999999999999997665432
Q ss_pred CCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCC
Q 004880 468 FYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNS 547 (725)
Q Consensus 468 ~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~ 547 (725)
.+...+.++..|+|+.+|+++|..+...|+||||||||+.++++|+++|..+|++|++|||+++..+|+.+++.||++++
T Consensus 459 ~~~~~e~lie~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s 538 (1033)
T PLN03142 459 PYTTGEHLVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGS 538 (1033)
T ss_pred cccchhHHhhhhhHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccC
Confidence 34456788999999999999999999999999999999999999999999999999999999999999999999998777
Q ss_pred CceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHH
Q 004880 548 SYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEHV 627 (725)
Q Consensus 548 ~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~ 627 (725)
..+|||+||+|||+||||+.||+||+||+||||+.+.||+||||||||+++|+||||++.||||++|++++..|..+...
T Consensus 539 ~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyRLIt~gTIEEkIlera~~Kl~Ld~~ 618 (1033)
T PLN03142 539 EKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDAL 618 (1033)
T ss_pred CceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEEEEeCCcHHHHHHHHHHHHHHHHHH
Confidence 78899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCccccccccccccccCCHHHHHHhhcchhhhhhhhhcCCCCHHHHHHHHhhhhc
Q 004880 628 VIGKGQFHQERTKSNCIDALEEEDLLALLQDEETAEDKMIQTDIGEEDLERVLDRADL 685 (725)
Q Consensus 628 vi~~~~~~~~~~~~~~~~~~~~~el~~ll~~~~~~~~~~~~~~~~~~~l~~~l~~~~~ 685 (725)
|++.|.+... ..++.++|.+|++.+.+.........++++||+.||+|+..
T Consensus 619 Vi~~g~~~~~-------~~~~~~eL~~ll~~ga~~~f~~~~~~~~~~did~il~~~~~ 669 (1033)
T PLN03142 619 VIQQGRLAEQ-------KTVNKDELLQMVRYGAEMVFSSKDSTITDEDIDRIIAKGEE 669 (1033)
T ss_pred HHhcCccccc-------ccCCHHHHHHHHHhChHHhhhccCCCCCHHHHHHHHHhcHH
Confidence 9998875432 25778999999998876555444457899999999999853
No 5
>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=3.7e-103 Score=864.93 Aligned_cols=519 Identities=45% Similarity=0.752 Sum_probs=460.3
Q ss_pred cccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh-CCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 148 VSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG-NGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 148 ~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~-~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
+..+.||+|++||+.|+.||.++|.++.|||||||||||||+|+|+++.++++ .+..||+|||||.+++.||..||.+|
T Consensus 387 ps~l~GG~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~NW~~Ef~kW 466 (1157)
T KOG0386|consen 387 PSSLQGGELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLVNWSSEFPKW 466 (1157)
T ss_pred cchhcCCCCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHHHHHHHHHcccCCCeEEeccccccCCchhhcccc
Confidence 46778999999999999999999999999999999999999999999999998 56789999999999999999999999
Q ss_pred CCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHh-c
Q 004880 227 VPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELK-Y 305 (725)
Q Consensus 227 ~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~-~ 305 (725)
.|++..+.|.|+...|..+.... ..++|+|++|||+.++++ +.+|.++.|.|+||||+|++||..|++...+. .
T Consensus 467 aPSv~~i~YkGtp~~R~~l~~qi----r~gKFnVLlTtyEyiikd-k~lLsKI~W~yMIIDEGHRmKNa~~KLt~~L~t~ 541 (1157)
T KOG0386|consen 467 APSVQKIQYKGTPQQRSGLTKQQ----RHGKFNVLLTTYEYIIKD-KALLSKISWKYMIIDEGHRMKNAICKLTDTLNTH 541 (1157)
T ss_pred ccceeeeeeeCCHHHHhhHHHHH----hcccceeeeeeHHHhcCC-HHHHhccCCcceeecccccccchhhHHHHHhhcc
Confidence 99999999999999998876654 237999999999999998 69999999999999999999999999999999 7
Q ss_pred CCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 004880 306 IPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLR 385 (725)
Q Consensus 306 l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lR 385 (725)
+.+.+|++|||||+||++.|||+||||+.|.+|.+...|..||..+..... .+.+..++...-.+.+||++|+||++|
T Consensus 542 y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PFantG--ek~eLteEEtlLIIrRLHkVLRPFlLR 619 (1157)
T KOG0386|consen 542 YRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPFANTG--EKVELTEEETLLIIRRLHKVLRPFLLR 619 (1157)
T ss_pred ccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhhhhcC--CcccccchHHHHHHHHHHHhhhHHHHH
Confidence 799999999999999999999999999999999999999999987754444 223444455567899999999999999
Q ss_pred eehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccC
Q 004880 386 RMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSD 465 (725)
Q Consensus 386 R~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~ 465 (725)
|.|++|+..||.|.+.++.|.||..|+.+|..+.+....-. ....+.+....++|.+|+||++||||+++......
T Consensus 620 RlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~----d~~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~ 695 (1157)
T KOG0386|consen 620 RLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLK----DTAKGKKGYKPLFNTIMQLRKLCNHPYLFANVENS 695 (1157)
T ss_pred hhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCc----CchhccccchhhhhHhHHHHHhcCCchhhhhhccc
Confidence 99999999999999999999999999999998864321000 00234555678999999999999999999766444
Q ss_pred CCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCC
Q 004880 466 SCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDV 545 (725)
Q Consensus 466 ~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~ 545 (725)
....-....++..|||+.+|+++|+++++.||+||.|||++.+++++++||..++++|.|+||+|+.++|-.+++.||.+
T Consensus 696 ~~~~~~~~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~P 775 (1157)
T KOG0386|consen 696 YTLHYDIKDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAP 775 (1157)
T ss_pred cccccChhHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCC
Confidence 33333337899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHH
Q 004880 546 NSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLE 625 (725)
Q Consensus 546 ~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~ 625 (725)
++.+|+||+||+|||+|+|||.||+||+||++|||..+.||.+|+|||||++.|.|+|+++.+++||.|+.++..|+.+.
T Consensus 776 ds~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv~rl~tv~sveE~il~~a~~Kl~~d 855 (1157)
T KOG0386|consen 776 DSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLRLITVNSVEEKILAEAFYKLDVD 855 (1157)
T ss_pred CCceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheeeeeeehhhHHHHHHHHHHHHhcCch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCccccccccccccccCCHHHHHHhhcchhhhhhhhhcCCCCHHHHHHHHhhhhc
Q 004880 626 HVVIGKGQFHQERTKSNCIDALEEEDLLALLQDEETAEDKMIQTDIGEEDLERVLDRADL 685 (725)
Q Consensus 626 ~~vi~~~~~~~~~~~~~~~~~~~~~el~~ll~~~~~~~~~~~~~~~~~~~l~~~l~~~~~ 685 (725)
..||..|.|++..+.... +.=|..++..+.+.++ ...-++++|+.+|.|++.
T Consensus 856 ~kviqag~fdn~st~~eR-----~~~Le~~l~~~~~~~~---~~v~~~~~ln~~larsee 907 (1157)
T KOG0386|consen 856 GKVIQAGKFDNKSTAEER-----EMFLEQLLEMEGDEEE---EEVPDDEVLNSMLARSEE 907 (1157)
T ss_pred HhhhhcccccCCCcHHHH-----HHHHHHHHhCCCcccc---ccCCcHHHHHHHHhcchH
Confidence 999999999876543321 1224445555544333 345678889999999876
No 6
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=1.7e-100 Score=826.05 Aligned_cols=472 Identities=43% Similarity=0.714 Sum_probs=414.0
Q ss_pred cccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCC
Q 004880 150 LLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPS 229 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~ 229 (725)
+..+.+|+|||+-||+||.-+|.++.+||||||||||||+|+|||+++|.+.|..||+|||||.|++.||.+||.+|||.
T Consensus 394 l~s~i~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTleNWlrEf~kwCPs 473 (941)
T KOG0389|consen 394 LSSGIQLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTLENWLREFAKWCPS 473 (941)
T ss_pred cCCCCcccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhHHHHHHHHHHhCCc
Confidence 34567999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHH--HHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCC
Q 004880 230 VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALS--DARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIP 307 (725)
Q Consensus 230 ~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~--~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~ 307 (725)
+.|..|+|+..+|..+|...... ..+|+|++|||..+.. +-+.+|++.+|+++|.||||.+||..|.+++.|..++
T Consensus 474 l~Ve~YyGSq~ER~~lR~~i~~~--~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~ 551 (941)
T KOG0389|consen 474 LKVEPYYGSQDERRELRERIKKN--KDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSIN 551 (941)
T ss_pred eEEEeccCcHHHHHHHHHHHhcc--CCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhhhccchHHHHHhcccc
Confidence 99999999999999988765432 2489999999998854 3368999999999999999999999999999999999
Q ss_pred CCcEEEEeccCCCCChHHhhhhhccccCCCCCC-HHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhhe
Q 004880 308 IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSS-LEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLRR 386 (725)
Q Consensus 308 ~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~-~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR 386 (725)
+.+||+|||||+|||+.||||||.|++|++|.+ ..++...|........+.... -.....+.+...++.||+|||
T Consensus 552 An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~~d~d~e~~----~l~qerIsrAK~im~PFILRR 627 (941)
T KOG0389|consen 552 ANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKTSDGDIENA----LLSQERISRAKTIMKPFILRR 627 (941)
T ss_pred ccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCCccchhhHH----HHHHHHHHHHHHhhhHHHHHH
Confidence 999999999999999999999999999999975 467887776544432222211 222347889999999999999
Q ss_pred ehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCC
Q 004880 387 MKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDS 466 (725)
Q Consensus 387 ~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~ 466 (725)
.|++|...||||..++.||+|+..|+.+|..+++...... .. .+......+ .+++|+||+++|||-|+...+.+.
T Consensus 628 ~K~qVL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~--~~-~~~ns~~~~--~~vlmqlRK~AnHPLL~R~~Y~de 702 (941)
T KOG0389|consen 628 LKSQVLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKL--NE-VSKNSELKS--GNVLMQLRKAANHPLLFRSIYTDE 702 (941)
T ss_pred HHHHHHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhc--cc-ccccccccc--chHHHHHHHHhcChhHHHHhccHH
Confidence 9999999999999999999999999999999987551111 00 011111111 569999999999999986544221
Q ss_pred ---------------------------------------------CCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEE
Q 004880 467 ---------------------------------------------CFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLV 501 (725)
Q Consensus 467 ---------------------------------------------~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlI 501 (725)
..+...+.++-.|||+..|..+|+++...|+||||
T Consensus 703 ~L~~mak~il~e~ay~~~n~qyIfEDm~~msDfelHqLc~~f~~~~~f~L~d~~~mdSgK~r~L~~LLp~~k~~G~RVLi 782 (941)
T KOG0389|consen 703 KLRKMAKRILNEPAYKKANEQYIFEDMEVMSDFELHQLCCQFRHLSKFQLKDDLWMDSGKCRKLKELLPKIKKKGDRVLI 782 (941)
T ss_pred HHHHHHHHHhCchhhhhcCHHHHHHHHHhhhHHHHHHHHHhcCCCcccccCCchhhhhhhHhHHHHHHHHHhhcCCEEEE
Confidence 11222234566789999999999999999999999
Q ss_pred EccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcc
Q 004880 502 FSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQ 581 (725)
Q Consensus 502 Fsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~ 581 (725)
|||||.|||+|+.+|..+|+.|+|+||+|....|+.+|+.||. +.+++|||+||+|||.||||+.||+||+||.++||.
T Consensus 783 FSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~-d~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~ 861 (941)
T KOG0389|consen 783 FSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNT-DKDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPY 861 (941)
T ss_pred eeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhcc-CCceEEEEEeeccCcceecccccceEEEeecCCCCc
Confidence 9999999999999999999999999999999999999999998 789999999999999999999999999999999999
Q ss_pred hhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcCCc
Q 004880 582 MDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEHVVIGKGQ 633 (725)
Q Consensus 582 ~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~vi~~~~ 633 (725)
.+.||.+||||+||+|||+|||||+++||||.|++.+..|+.|...+-+.+.
T Consensus 862 dD~QAEDRcHRvGQtkpVtV~rLItk~TIEE~I~~lA~~KL~Le~~lt~~~k 913 (941)
T KOG0389|consen 862 DDKQAEDRCHRVGQTKPVTVYRLITKSTIEEGILRLAKTKLALEADLTEDGK 913 (941)
T ss_pred ccchhHHHHHhhCCcceeEEEEEEecCcHHHHHHHHHHHhhhhhhhhccCcc
Confidence 9999999999999999999999999999999999999999999999987654
No 7
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=2.8e-101 Score=849.25 Aligned_cols=480 Identities=43% Similarity=0.742 Sum_probs=427.6
Q ss_pred hhcccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh-CCCCCCcEEEEcCccHHHHHHHHH
Q 004880 146 ELVSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG-NGLHGPYLVIAPLSTLSNWVNEIS 224 (725)
Q Consensus 146 ~~~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~-~~~~~~~LIV~P~sll~~W~~E~~ 224 (725)
.++|.+..|.||+||..|++||..+|+++.|||||||||||||+|+|++++||.- .+.+||+|||+|.+++-||.-||+
T Consensus 606 tpvPsLLrGqLReYQkiGLdWLatLYeknlNGILADEmGLGKTIQtISllAhLACeegnWGPHLIVVpTsviLnWEMElK 685 (1958)
T KOG0391|consen 606 TPVPSLLRGQLREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQTISLLAHLACEEGNWGPHLIVVPTSVILNWEMELK 685 (1958)
T ss_pred cCchHHHHHHHHHHHHhhHHHHHHHHHhcccceehhhhcccchhHHHHHHHHHHhcccCCCCceEEeechhhhhhhHHHh
Confidence 3578889999999999999999999999999999999999999999999999985 789999999999999999999999
Q ss_pred HhCCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHh
Q 004880 225 RFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELK 304 (725)
Q Consensus 225 ~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~ 304 (725)
+|||+++++.|+|+..+|+..|..++ ..+.|+|+||||..+..+. ..|....|.|+|+||||+|||..+..|++|.
T Consensus 686 RwcPglKILTYyGs~kErkeKRqgW~---kPnaFHVCItSYklv~qd~-~AFkrkrWqyLvLDEaqnIKnfksqrWQAll 761 (1958)
T KOG0391|consen 686 RWCPGLKILTYYGSHKERKEKRQGWA---KPNAFHVCITSYKLVFQDL-TAFKRKRWQYLVLDEAQNIKNFKSQRWQALL 761 (1958)
T ss_pred hhCCcceEeeecCCHHHHHHHhhccc---CCCeeEEeehhhHHHHhHH-HHHHhhccceeehhhhhhhcchhHHHHHHHh
Confidence 99999999999999999988776654 3357999999999999997 6788889999999999999999999999999
Q ss_pred cCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q 004880 305 YIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLL 384 (725)
Q Consensus 305 ~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~l 384 (725)
.+++.+||||||||+||++.|||+|++||+|..|.+.+.|..||+.+-..-.+.. .......+.+||++++||+|
T Consensus 762 nfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~wfsnPltgmiEgs-----qeyn~klV~RLHkVlrPfiL 836 (1958)
T KOG0391|consen 762 NFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKPWFSNPLTGMIEGS-----QEYNHKLVIRLHKVLRPFIL 836 (1958)
T ss_pred ccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHHHhcCcchhhcccc-----hhhchHHHHHHHHHhHHHHH
Confidence 9999999999999999999999999999999999999999999997754333222 23345789999999999999
Q ss_pred heehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc-
Q 004880 385 RRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF- 463 (725)
Q Consensus 385 RR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~- 463 (725)
||+|.||++.+|.|.|++|+|.||..|+.+|+.++...-... .-..+...++.|++|+||+|||||.||+..-
T Consensus 837 RRlK~dVEKQlpkKyEHvv~CrLSkRQR~LYDDfmsq~~TKe------tLkSGhfmsVlnilmqLrKvCNHPnLfEpRpv 910 (1958)
T KOG0391|consen 837 RRLKRDVEKQLPKKYEHVVKCRLSKRQRALYDDFMSQPGTKE------TLKSGHFMSVLNILMQLRKVCNHPNLFEPRPV 910 (1958)
T ss_pred HHHHHHHHHhcchhhhhheeeehhhhHHHHHHHHhhccchhh------HhhcCchhHHHHHHHHHHHHcCCCCcCCCCCC
Confidence 999999999999999999999999999999999876532211 1233446788999999999999998873110
Q ss_pred --------------------------------------------------------------------------------
Q 004880 464 -------------------------------------------------------------------------------- 463 (725)
Q Consensus 464 -------------------------------------------------------------------------------- 463 (725)
T Consensus 911 ~ssfV~e~l~~s~as~~~r~l~el~~k~p~~~~ls~~p~~~~vp~v~pas~~~sAspl~s~l~~ls~~~rPp~pt~~g~~ 990 (1958)
T KOG0391|consen 911 GSSFVAEPLEYSSASKITRHLAELLSKKPIPRKLSEEPSTSAVPAVRPASAKLSASPLASALPQLSLRGRPPIPTFAGAP 990 (1958)
T ss_pred CcccccCceeccccccchhhhhhhccCCCCchhhhcCCCcccccccchhhhhhcccccccccccccCCCCCCCccccccc
Confidence
Q ss_pred --------------c---------------------------------C-------------------------------
Q 004880 464 --------------S---------------------------------D------------------------------- 465 (725)
Q Consensus 464 --------------~---------------------------------~------------------------------- 465 (725)
. +
T Consensus 991 F~~~aa~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p~~~veq~n~~k~~~htt~~~p~~~~~svl~~~sv~t~pl 1070 (1958)
T KOG0391|consen 991 FQTSAASATSPHTEEASASSVARLPSGEVVAIAQLRSLTGPQSRVEQPNTPKTLQHTTAGQPLQLQGSVLQIVSVPTQPL 1070 (1958)
T ss_pred cccchhcccCCccccccccchhcccchheeeccccccccCcHhHhhcCCCceeeeeecccCccccccceeeecccccccc
Confidence 0 0
Q ss_pred ------------------------C--C------------------CCCc------------------------------
Q 004880 466 ------------------------S--C------------------FYPP------------------------------ 471 (725)
Q Consensus 466 ------------------------~--~------------------~~~~------------------------------ 471 (725)
+ . .+.+
T Consensus 1071 ~~ap~p~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gtat~~~g~~pr~~~~klee~Rkrql~erl~ri~~~~APvy 1150 (1958)
T KOG0391|consen 1071 LRAPGPVVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGTATLAVGEPPRAIGGKLEEERKRQLKERLDRIYLVNAPVY 1150 (1958)
T ss_pred ccCCCCcceecchhhccCCCCCCCCccccccccCCCCCcchhhhccCCCccccccchhhHHHHHHHHHHHHHhhccCccc
Confidence 0 0 0000
Q ss_pred ------------------------------------hHHH----------------------------------------
Q 004880 472 ------------------------------------VEQI---------------------------------------- 475 (725)
Q Consensus 472 ------------------------------------~~~l---------------------------------------- 475 (725)
.+.+
T Consensus 1151 g~e~l~~c~lp~e~i~p~~~ea~~e~~l~~~r~le~l~~iIdrfafv~ppvva~ppslra~~ppp~~~~r~r~~~~qlrs 1230 (1958)
T KOG0391|consen 1151 GRELLRICALPSEGIVPWRSEAPSELMLTLCRCLESLQDIIDRFAFVIPPVVAAPPSLRAPRPPPLYSHRMRILRQQLRS 1230 (1958)
T ss_pred chhhhhhhccchhhhccccccCchhhhhhHHHHHHHHHHHHHHheeecccccCCChhhcCCCCCcccchHHHHHHHHHHH
Confidence 0000
Q ss_pred -------------------------HHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCC
Q 004880 476 -------------------------VEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSV 530 (725)
Q Consensus 476 -------------------------~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~ 530 (725)
-..|||++.|.-+|..++..|||||||+||+.|||+|+.+|..+|+-|+||||.+
T Consensus 1231 el~p~~~~~q~~~~r~lqFPelrLiqyDcGKLQtLAiLLqQLk~eghRvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t 1310 (1958)
T KOG0391|consen 1231 ELAPYFQQRQTTAPRLLQFPELRLIQYDCGKLQTLAILLQQLKSEGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNT 1310 (1958)
T ss_pred HhccccchhhccchhhhcCcchheeecccchHHHHHHHHHHHHhcCceEEehhHHHHHHHHHHHHHhhcceEEEEecCCc
Confidence 0136999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCH
Q 004880 531 RLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSV 610 (725)
Q Consensus 531 ~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~Ti 610 (725)
+.++|+.++++||. |..++|||+||+.||+||||++||+|||||+||||.++.||.+|||||||+++|+|||||...||
T Consensus 1311 ~vEqRQaLmerFNa-D~RIfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQAQDrChRIGqtRDVHIYRLISe~TI 1389 (1958)
T KOG0391|consen 1311 SVEQRQALMERFNA-DRRIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTRDVHIYRLISERTI 1389 (1958)
T ss_pred cHHHHHHHHHHhcC-CCceEEEEEeccCCccccccccCceEEEecCCCCchhhhHHHHHHHhhcCccceEEEEeeccchH
Confidence 99999999999998 88999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCccccccccc
Q 004880 611 EGRILKRAFSKLKLEHVVIGKGQFHQERTKS 641 (725)
Q Consensus 611 Ee~i~~~~~~K~~l~~~vi~~~~~~~~~~~~ 641 (725)
|+.|++++..|+.|.+.+|++|.|....+..
T Consensus 1390 EeniLkkanqKr~L~evaiqggdfTt~ff~q 1420 (1958)
T KOG0391|consen 1390 EENILKKANQKRMLDEVAIQGGDFTTAFFKQ 1420 (1958)
T ss_pred HHHHHhhhhHHHHHHHHhhccCCccHHHHhh
Confidence 9999999999999999999999997665443
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=7.6e-100 Score=822.42 Aligned_cols=474 Identities=37% Similarity=0.618 Sum_probs=422.2
Q ss_pred hcccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhC-CCCCCcEEEEcCccHHHHHHHHHH
Q 004880 147 LVSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGN-GLHGPYLVIAPLSTLSNWVNEISR 225 (725)
Q Consensus 147 ~~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~-~~~~~~LIV~P~sll~~W~~E~~~ 225 (725)
-+|......|+|||.+||+||+++|.++.||||+||||||||+|+|+|++.+... ...+|.|||||.++++||.+||.+
T Consensus 197 ~vPg~I~~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~Tii~qW~~E~~~ 276 (923)
T KOG0387|consen 197 KVPGFIWSKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPATIIHQWMKEFQT 276 (923)
T ss_pred cccHHHHHHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcccccCceEEEccHHHHHHHHHHHHH
Confidence 3677777899999999999999999999999999999999999999999999887 567999999999999999999999
Q ss_pred hCCCceEEEEeCChhh-H------HHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchH
Q 004880 226 FVPSVSAIIYHGSKKE-R------DEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCK 298 (725)
Q Consensus 226 ~~p~~~v~~~~g~~~~-r------~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~ 298 (725)
|+|.+++.+|||+... | ...+...+.+.......|+||||+.+...- ..+..+.|+|+|+||+|+|||++++
T Consensus 277 w~p~~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~-d~l~~~~W~y~ILDEGH~IrNpns~ 355 (923)
T KOG0387|consen 277 WWPPFRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQG-DDLLGILWDYVILDEGHRIRNPNSK 355 (923)
T ss_pred hCcceEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhcccC-cccccccccEEEecCcccccCCccH
Confidence 9999999999998762 1 000111122334456789999999987763 6678889999999999999999999
Q ss_pred HHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHh
Q 004880 299 LLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAI 378 (725)
Q Consensus 299 ~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 378 (725)
++.+++.+++.+|++|||||+|||+.|||+|++|+.|+.+++...|.+.|..++..+...+...............|+.+
T Consensus 356 islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~l 435 (923)
T KOG0387|consen 356 ISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVALRDL 435 (923)
T ss_pred HHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhhhhhheeccccCCCCHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999988887777777777778889999999
Q ss_pred hhhhhhheehhhHhh-cCCCceEEEEEecCCHHHHHHHHHHHHHHH-HHHHHHhhhhcCCcchhHHHHHHHHHHHhcCCh
Q 004880 379 LRPFLLRRMKSDVEQ-MLPRKKEIILYATMTEHQRNFQDHLINKTL-ENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHP 456 (725)
Q Consensus 379 l~p~~lRR~k~dv~~-~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~-~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp 456 (725)
++||+|||+|+||.. .||.|.+++++|.||+.|+.+|..+++... ...+.. ....+.-+.-||++||||
T Consensus 436 I~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v~~i~ng---------~~~~l~Gi~iLrkICnHP 506 (923)
T KOG0387|consen 436 ISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEVNKILNG---------KRNCLSGIDILRKICNHP 506 (923)
T ss_pred hHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHHHHHHcC---------CccceechHHHHhhcCCc
Confidence 999999999999998 999999999999999999999999886542 222211 123344577899999999
Q ss_pred hhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHh-hcCceEEEEeCCCCHHHH
Q 004880 457 DLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFN-EKGYEVCRIDGSVRLDER 535 (725)
Q Consensus 457 ~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~-~~g~~~~~l~G~~~~~~R 535 (725)
.++...-.+....+..+..++.|||++++..+|..+...|+|||+|||...|+|+|+.+|. ..||.|+|+||.|+.+.|
T Consensus 507 dll~~~~~~~~~~~D~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R 586 (923)
T KOG0387|consen 507 DLLDRRDEDEKQGPDYEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALR 586 (923)
T ss_pred ccccCcccccccCCCcCCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchh
Confidence 9998743222222333356788999999999999999999999999999999999999999 689999999999999999
Q ss_pred HHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHH
Q 004880 536 KRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRIL 615 (725)
Q Consensus 536 ~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~ 615 (725)
+.++++||+ +..++|||++|+|||+|+||++||+||+|||+|||+.+.||..|||||||+|.|.||||+++|||||+||
T Consensus 587 ~~lVd~Fne-~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYRL~t~gTIEEkiY 665 (923)
T KOG0387|consen 587 QKLVDRFNE-DESIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYRLMTAGTIEEKIY 665 (923)
T ss_pred hHHHHhhcC-CCceEEEEEEecccccccccccCceEEEECCCCCCccchHHHHHHHhhcCccceEEEEEecCCcHHHHHH
Confidence 999999998 6789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcC
Q 004880 616 KRAFSKLKLEHVVIGK 631 (725)
Q Consensus 616 ~~~~~K~~l~~~vi~~ 631 (725)
.||..|..|.+.++..
T Consensus 666 ~rQI~Kq~Ltn~il~~ 681 (923)
T KOG0387|consen 666 HRQIFKQFLTNRILKN 681 (923)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 9999999999999974
No 9
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=7.8e-92 Score=784.36 Aligned_cols=493 Identities=35% Similarity=0.599 Sum_probs=430.4
Q ss_pred cccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC-------CCCCcEEEEcCccHHHHH
Q 004880 148 VSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG-------LHGPYLVIAPLSTLSNWV 220 (725)
Q Consensus 148 ~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~-------~~~~~LIV~P~sll~~W~ 220 (725)
+|.....+||.||.+||+|+..+..-+.+|||||+||||||+|+|++++.=..+. ..-|.|||||.++..+|.
T Consensus 968 Ip~pI~a~LRkYQqEGVnWLaFLnky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPsTLtGHW~ 1047 (1549)
T KOG0392|consen 968 IPVPISAKLRKYQQEGVNWLAFLNKYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPSTLTGHWK 1047 (1549)
T ss_pred cccchhHHHHHHHHhccHHHHHHHHhcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCchhhhHHH
Confidence 3445567999999999999999999999999999999999999999987543332 345899999999999999
Q ss_pred HHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHH
Q 004880 221 NEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLL 300 (725)
Q Consensus 221 ~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~ 300 (725)
.|+.+|+|.+++..|.|+..+|..+|... .+.+|+||||+.+++|. .+|.+..|.|+|+||+|-|||..++++
T Consensus 1048 ~E~~kf~pfL~v~~yvg~p~~r~~lR~q~------~~~~iiVtSYDv~RnD~-d~l~~~~wNYcVLDEGHVikN~ktkl~ 1120 (1549)
T KOG0392|consen 1048 SEVKKFFPFLKVLQYVGPPAERRELRDQY------KNANIIVTSYDVVRNDV-DYLIKIDWNYCVLDEGHVIKNSKTKLT 1120 (1549)
T ss_pred HHHHHhcchhhhhhhcCChHHHHHHHhhc------cccceEEeeHHHHHHHH-HHHHhcccceEEecCcceecchHHHHH
Confidence 99999999999999999999998877643 56799999999999997 889999999999999999999999999
Q ss_pred HHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhh
Q 004880 301 KELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILR 380 (725)
Q Consensus 301 ~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~ 380 (725)
++++.+++.+|++|||||+|||+.|||||++||+|+++|+...|.+.|..++....+......+.+....++..||+..-
T Consensus 1121 kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEKqFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVL 1200 (1549)
T KOG0392|consen 1121 KAVKQLRANHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKQFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVL 1200 (1549)
T ss_pred HHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhcccccCcHHHHHHHhcchhhhhcCcccchhHHHhhHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999887666655556667777889999999999
Q ss_pred hhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHH---HHHHHhhhhcCCcchhHHHHHHHHHHHhcCChh
Q 004880 381 PFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLE---NHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPD 457 (725)
Q Consensus 381 p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~---~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~ 457 (725)
||++||+|.||..+||||..+..||+|++.|+++|+.+..+... ........+.+. ....++..+..+|+.||||.
T Consensus 1201 PF~LRRlKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt-~~~HvFqaLqYlrKLcnHpa 1279 (1549)
T KOG0392|consen 1201 PFLLRRLKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKKAKQCVSSQIDGGEESLGT-DKTHVFQALQYLRKLCNHPA 1279 (1549)
T ss_pred HHHHHHHHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHHhccccccccccchhccCc-chHHHHHHHHHHHHhcCCcc
Confidence 99999999999999999999999999999999999999877211 111111111111 26778899999999999999
Q ss_pred hhhhhccCC--------CCCCchHHHHHhhcHHHHHHHHHHHHh--------------hCCCcEEEEccchhHHHHHHHH
Q 004880 458 LLESAFSDS--------CFYPPVEQIVEQCGKFRLLDRLLARLF--------------ARNHKVLVFSQWTKILDIMEYY 515 (725)
Q Consensus 458 l~~~~~~~~--------~~~~~~~~l~~~s~K~~~L~~ll~~l~--------------~~~~kvlIFsq~~~~ld~l~~~ 515 (725)
++..+..+. ......-+-+..|+|+.+|.++|..+- ..+||+|||||+..|+|++++-
T Consensus 1280 Lvlt~~hp~la~i~~~l~~~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekD 1359 (1549)
T KOG0392|consen 1280 LVLTPVHPDLAAIVSHLAHFNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKD 1359 (1549)
T ss_pred eeeCCCcchHHHHHHHHHHhhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHH
Confidence 987652211 011111223678999999999999873 1479999999999999999988
Q ss_pred Hhhc---CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHh
Q 004880 516 FNEK---GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHR 592 (725)
Q Consensus 516 L~~~---g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~R 592 (725)
|-+. .+.|.|+||++++.+|++++.+||+ ++.+.|+|++|.+||+|+||++|||||+++-||||++++|||+||||
T Consensus 1360 L~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~-DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrDLQAMDRAHR 1438 (1549)
T KOG0392|consen 1360 LFKKYMPSVTYMRLDGSVPPGDRQKIVERFNE-DPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRDLQAMDRAHR 1438 (1549)
T ss_pred HhhhhcCceeEEEecCCCCcHHHHHHHHHhcC-CCceeEEEEeeeccccccccCCCceEEEEecCCCchhhHHHHHHHHh
Confidence 7665 6678899999999999999999998 78999999999999999999999999999999999999999999999
Q ss_pred cCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcCCccccccccccccccCCHHHHHHhhc
Q 004880 593 IGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEHVVIGKGQFHQERTKSNCIDALEEEDLLALLQ 657 (725)
Q Consensus 593 iGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~~~el~~ll~ 657 (725)
|||+|.|.||||||+||+||+|+..|..|...++.||+..+ .++..++-++|+.++.
T Consensus 1439 IGQKrvVNVyRlItrGTLEEKVMgLQkFKmnvAntvInqqN--------asl~tM~TdqLLdlF~ 1495 (1549)
T KOG0392|consen 1439 IGQKRVVNVYRLITRGTLEEKVMGLQKFKMNVANTVINQQN--------ASLETMDTDQLLDLFT 1495 (1549)
T ss_pred hcCceeeeeeeehhcccHHHHHhhHHHHhhHHHHHHHhccc--------ccccccCHHHHHHHhc
Confidence 99999999999999999999999999999999999998643 2344678899999998
No 10
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=6.4e-79 Score=679.66 Aligned_cols=469 Identities=32% Similarity=0.498 Sum_probs=391.0
Q ss_pred cCCcccchHHHHHHHHHHHhc------CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCC-----CCcEEEEcCccHHHHH
Q 004880 152 TGGKLKSYQLKGVKWLISLWQ------NGLNGILADQMGLGKTIQTIAFLAHLKGNGLH-----GPYLVIAPLSTLSNWV 220 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~------~~~~~ILademGlGKT~qaiali~~l~~~~~~-----~~~LIV~P~sll~~W~ 220 (725)
....|||||.+|++||+.... +..|||+||+||+|||+|+|+|+..++..++. .+.|||||.+++.||.
T Consensus 235 l~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sLv~nWk 314 (776)
T KOG0390|consen 235 LKKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSLVNNWK 314 (776)
T ss_pred HhhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHHHHHHHH
Confidence 356899999999999998652 45678999999999999999999999998887 8899999999999999
Q ss_pred HHHHHhCC--CceEEEEeCChhhHHHHHHhcC-CCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcch
Q 004880 221 NEISRFVP--SVSAIIYHGSKKERDEIRRKHM-PRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKC 297 (725)
Q Consensus 221 ~E~~~~~p--~~~v~~~~g~~~~r~~~~~~~~-~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s 297 (725)
+||.+|.. .+..+.++|...+...-....+ -....-...|.+.||+.+...+ ..+....+++||+||+|++||..+
T Consensus 315 kEF~KWl~~~~i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~-~~il~~~~glLVcDEGHrlkN~~s 393 (776)
T KOG0390|consen 315 KEFGKWLGNHRINPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASDYC-RKILLIRPGLLVCDEGHRLKNSDS 393 (776)
T ss_pred HHHHHhccccccceeeeecccchhhhhhHHHHHhhhhheeEEEEeccHHHHHHHH-HHHhcCCCCeEEECCCCCccchhh
Confidence 99999975 5677777777765111000000 0011124679999999999886 556667899999999999999999
Q ss_pred HHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHH
Q 004880 298 KLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHA 377 (725)
Q Consensus 298 ~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~ 377 (725)
.++++|..+++++||+|||||+||++.|+|++|+|++|+++++...|...|..++....+.........+ ...+++|..
T Consensus 394 ~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~sf~k~~~~~i~~~~~~~~s~e~~~~-~~rl~eL~~ 472 (776)
T KOG0390|consen 394 LTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISSFKKKFEIPILRGRDADASEEDRER-EERLQELRE 472 (776)
T ss_pred HHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhhccchHHHHHHhhcccccccCCCcchhhhhh-HHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999998877654443322222222 445999999
Q ss_pred hhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChh
Q 004880 378 ILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPD 457 (725)
Q Consensus 378 ~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~ 457 (725)
+...|++||+.+...++||++.+++|+|.+|+.|..+|..+........+ .+..+..+..|+++|+||.
T Consensus 473 ~t~~fi~rrt~~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~~~~~~-----------~~~~l~~~~~L~k~cnhP~ 541 (776)
T KOG0390|consen 473 LTNKFILRRTGDILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSMKMRTL-----------KGYALELITKLKKLCNHPS 541 (776)
T ss_pred HHHhheeecccchhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHHHhhhh-----------hcchhhHHHHHHHHhcCHH
Confidence 99999999999999999999999999999999999999999875421111 2225667889999999999
Q ss_pred hhhhhc-cC--CCCCCch-----------HHHHHhhcHHHHHHHHHHHHhhC-CCcEEEEccchhHHHHHHHHHhhcCce
Q 004880 458 LLESAF-SD--SCFYPPV-----------EQIVEQCGKFRLLDRLLARLFAR-NHKVLVFSQWTKILDIMEYYFNEKGYE 522 (725)
Q Consensus 458 l~~~~~-~~--~~~~~~~-----------~~l~~~s~K~~~L~~ll~~l~~~-~~kvlIFsq~~~~ld~l~~~L~~~g~~ 522 (725)
|+.... .. .....+. ..-...|+|+..|..++....+. ..++++-++++.++++++..|..+|+.
T Consensus 542 L~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~~~g~~ 621 (776)
T KOG0390|consen 542 LLLLCEKTEKEKAFKNPALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCRWRGYE 621 (776)
T ss_pred hhcccccccccccccChHhhhcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHHHHHhhcCce
Confidence 985111 00 0011111 11123488999999998655433 356667778899999999999999999
Q ss_pred EEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEE
Q 004880 523 VCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVY 602 (725)
Q Consensus 523 ~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vy 602 (725)
++++||+|+..+|+.+++.||++.+..+|||+|++|||+||||.+|++||+||++|||+.+.|||+||||.||+|+|+||
T Consensus 622 ~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdGQKk~v~iY 701 (776)
T KOG0390|consen 622 VLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDGQKKPVYIY 701 (776)
T ss_pred EEEEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCCCCCchhHHHHHHHhccCCCcceEEEE
Confidence 99999999999999999999998888899999999999999999999999999999999999999999999999999999
Q ss_pred EEecCCCHHHHHHHHHHHHHHHHHHHhcCCc
Q 004880 603 RLATAQSVEGRILKRAFSKLKLEHVVIGKGQ 633 (725)
Q Consensus 603 rli~~~TiEe~i~~~~~~K~~l~~~vi~~~~ 633 (725)
||++.||+||+||+||..|..+...|++...
T Consensus 702 rLlatGtiEEk~~qrq~~K~~lS~~v~~~~~ 732 (776)
T KOG0390|consen 702 RLLATGTIEEKIYQRQTHKEGLSSMVFDEEE 732 (776)
T ss_pred EeecCCCchHHHHHHHHHhhhhhheEEeccc
Confidence 9999999999999999999999999998654
No 11
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=6.3e-80 Score=670.46 Aligned_cols=483 Identities=31% Similarity=0.451 Sum_probs=401.1
Q ss_pred hcccccCCcccchHHHHHHHHHHHh---------cCCCCeEEEcCCCCcHHHHHHHHHHHHHhC--CCCCCcEEEEcCcc
Q 004880 147 LVSLLTGGKLKSYQLKGVKWLISLW---------QNGLNGILADQMGLGKTIQTIAFLAHLKGN--GLHGPYLVIAPLST 215 (725)
Q Consensus 147 ~~p~~~~~~Lr~yQ~~gv~~l~~~~---------~~~~~~ILademGlGKT~qaiali~~l~~~--~~~~~~LIV~P~sl 215 (725)
-++...-.+|+|||..||+||+.+. ..|.||||||.||||||+|+|+|+..++.. -...++|||||.++
T Consensus 660 qV~rslv~kLKpHQv~GvqFMwd~~~eSlkr~~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c~klg~ktaLvV~PlNt 739 (1567)
T KOG1015|consen 660 QVHRSLVIKLKPHQVDGVQFMWDCCCESLKRTKKSPGSGCILAHCMGLGKTLQVVTFLHTVLLCDKLGFKTALVVCPLNT 739 (1567)
T ss_pred hccHhHHhhcCcccccchhHHHHHHHHHHHhhcCCCCcchHHHHhhcccceehhhHHHHHHHHhhccCCceEEEEcchHH
Confidence 3455555799999999999999754 468899999999999999999999987753 34568999999999
Q ss_pred HHHHHHHHHHhCCCce------EEEEeCCh--hhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH--------------H
Q 004880 216 LSNWVNEISRFVPSVS------AIIYHGSK--KERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA--------------R 273 (725)
Q Consensus 216 l~~W~~E~~~~~p~~~------v~~~~g~~--~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~--------------~ 273 (725)
+.||.+||.+|.+++. |..+..-+ ..|.... ..|.....|+|+.|++++.-. .
T Consensus 740 ~~NW~~EFekWm~~~e~~~~leV~eL~~vkr~e~R~~~L-----~~W~~~ggVmIiGYdmyRnLa~gr~vk~rk~ke~f~ 814 (1567)
T KOG1015|consen 740 ALNWMNEFEKWMEGLEDDEKLEVSELATVKRPEERSYML-----QRWQEDGGVMIIGYDMYRNLAQGRNVKSRKLKEIFN 814 (1567)
T ss_pred HHHHHHHHHHhcccccccccceeehhhhccChHHHHHHH-----HHHHhcCCEEEEehHHHHHHhcccchhhhHHHHHHH
Confidence 9999999999998632 22222111 1222111 123345689999999976531 2
Q ss_pred HhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCC
Q 004880 274 KYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGK 353 (725)
Q Consensus 274 ~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~ 353 (725)
..|...++|+|||||||-|||..+.+++++..+++.+||+|||||+|||+.|+++|++|+.|+++++..+|.+.|.+++.
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 34566689999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CchhhhHHHHHHHHHHHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhh
Q 004880 354 CNSEVMKEELEEKRRGQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFS 433 (725)
Q Consensus 354 ~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~ 433 (725)
.+........+-..-......|+.+|..|+.|+....+...||||.+++|++.||+.|..+|..+++. ... .+....
T Consensus 895 nGq~~dST~~DVr~Mk~RsHILye~LkgcVqRkDy~Vltk~LPPK~eyVi~vrltelQ~~LYq~yL~h-~~~--~G~d~e 971 (1567)
T KOG1015|consen 895 NGQCADSTMVDVRVMKKRSHILYEMLKGCVQRKDYTVLTKFLPPKHEYVIAVRLTELQCKLYQYYLDH-LTG--VGNDSE 971 (1567)
T ss_pred cCccCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccCCCceeEEEEEeccHHHHHHHHHHHhh-ccc--cCCccc
Confidence 88777777666666667778899999999999999999999999999999999999999999998761 110 011112
Q ss_pred cCCcchhHHHHHHHHHHHhcCChhhhhhh-----------------cc-CCC----------------------------
Q 004880 434 AGRGMKGKLNNLMVQLRKNCNHPDLLESA-----------------FS-DSC---------------------------- 467 (725)
Q Consensus 434 ~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~-----------------~~-~~~---------------------------- 467 (725)
.+++....++.-..-|+++++||+.+.-. +. +..
T Consensus 972 g~~g~~arlf~dfqmlsrIwtHP~~lqL~s~~~enkR~~seddm~~fi~D~sde~e~s~~s~d~~~~~ks~~~s~~Dess 1051 (1567)
T KOG1015|consen 972 GGRGAGARLFQDFQMLSRIWTHPWCLQLDSISKENKRYFSEDDMDEFIADDSDETEMSLSSDDYTKKKKSGKKSKKDESS 1051 (1567)
T ss_pred cccchhhhHHHHHHHHHHHhcCCCceeechhhhhhcccccccchhccccCCCccccccccccchhhcccccccccccccc
Confidence 33446677888888999999999765210 00 000
Q ss_pred ---------------------------------------------------CCCc-----------hHHHHHhhcHHHHH
Q 004880 468 ---------------------------------------------------FYPP-----------VEQIVEQCGKFRLL 485 (725)
Q Consensus 468 ---------------------------------------------------~~~~-----------~~~l~~~s~K~~~L 485 (725)
..++ ....+..||||-+|
T Consensus 1052 s~~~~~g~~ev~k~k~rk~r~~~~~~~~~~g~~~D~~l~ll~dlag~~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLL 1131 (1567)
T KOG1015|consen 1052 SGSGSDGDVEVIKVKNRKSRGGGEGNVDETGNNPDVSLKLLEDLAGSSSNPSDPPPEWYKDFVTEADAEVLEHSGKMILL 1131 (1567)
T ss_pred cccccCCchhhhhhhhhhccccccCcccccCCCcchHHHHhhcccccccCCCCCchHhHHhhhhhhhhhhhhcCcceehH
Confidence 0000 01224568999999
Q ss_pred HHHHHHHhhCCCcEEEEccchhHHHHHHHHHhh----------------------cCceEEEEeCCCCHHHHHHHHHHHh
Q 004880 486 DRLLARLFARNHKVLVFSQWTKILDIMEYYFNE----------------------KGYEVCRIDGSVRLDERKRQIQDFN 543 (725)
Q Consensus 486 ~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~----------------------~g~~~~~l~G~~~~~~R~~~i~~F~ 543 (725)
.++|..+.+-|+|+|||||+...||+|+.+|.. +|..|.||||++...+|+.+.++||
T Consensus 1132 leIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~~~~FN 1211 (1567)
T KOG1015|consen 1132 LEILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKWAEEFN 1211 (1567)
T ss_pred HHHHHHHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHHHHHHhc
Confidence 999999999999999999999999999999974 3778999999999999999999999
Q ss_pred CC-CCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHH
Q 004880 544 DV-NSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKL 622 (725)
Q Consensus 544 ~~-~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~ 622 (725)
++ +-..++|||||+||++||||.+||+|||||..|||..+.|+|-|+||+||+|||+||||++.||+|++||.||..|.
T Consensus 1212 dp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvyiYRfiAqGTmEeKIYkRQVTKq 1291 (1567)
T KOG1015|consen 1212 DPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVYIYRFIAQGTMEEKIYKRQVTKQ 1291 (1567)
T ss_pred CcccceeEEEEEeeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcCceeehhhhhcccHHHHHHHHHHhHh
Confidence 86 34667899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCccccc
Q 004880 623 KLEHVVIGKGQFHQE 637 (725)
Q Consensus 623 ~l~~~vi~~~~~~~~ 637 (725)
.+..+|++..++.++
T Consensus 1292 sls~RVVDeqQv~Rh 1306 (1567)
T KOG1015|consen 1292 SLSFRVVDEQQVERH 1306 (1567)
T ss_pred hhhhhhhhHHHHHHH
Confidence 999999997766554
No 12
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=1.2e-72 Score=579.96 Aligned_cols=487 Identities=31% Similarity=0.497 Sum_probs=384.7
Q ss_pred ccccCCcccchHHHHHHHHHHHhc-CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhC
Q 004880 149 SLLTGGKLKSYQLKGVKWLISLWQ-NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFV 227 (725)
Q Consensus 149 p~~~~~~Lr~yQ~~gv~~l~~~~~-~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~ 227 (725)
|...-..|-|||++|+.|+....+ .-.|||||||||.|||+|+|+++.. .-...|+|||||...+.||.+|+.+++
T Consensus 178 P~dlii~LL~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLlla---e~~ra~tLVvaP~VAlmQW~nEI~~~T 254 (791)
T KOG1002|consen 178 PDDLIIPLLPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLA---EVDRAPTLVVAPTVALMQWKNEIERHT 254 (791)
T ss_pred cccceecchhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHh---ccccCCeeEEccHHHHHHHHHHHHHhc
Confidence 444456899999999999998766 4568999999999999999998866 223468999999999999999999998
Q ss_pred C-CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH----------------hhhhcCccEEEEcccc
Q 004880 228 P-SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK----------------YLRHYNWKYLVVDEGH 290 (725)
Q Consensus 228 p-~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~----------------~l~~~~~~~vIvDEaH 290 (725)
. ..++++|||.+...+.- . ...|++|+|||..+-+.+++ .|..++|..||+||||
T Consensus 255 ~gslkv~~YhG~~R~~nik--e------l~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH 326 (791)
T KOG1002|consen 255 SGSLKVYIYHGAKRDKNIK--E------LMNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAH 326 (791)
T ss_pred cCceEEEEEecccccCCHH--H------hhcCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhhhc
Confidence 5 57999999988665431 1 14799999999998766533 3778889999999999
Q ss_pred ccCCcchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhc-------cc-----CCCchhh
Q 004880 291 RLKNPKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFD-------LS-----GKCNSEV 358 (725)
Q Consensus 291 ~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~-------~~-----~~~~~~~ 358 (725)
.||+..|...+++..+.+.+||+|||||+||...|||||+.||+-+.|..+ |...+. +. ..+....
T Consensus 327 ~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyy--fc~~cdc~~~~~~ftdr~~c~~c~h~~ 404 (791)
T KOG1002|consen 327 NIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYY--FCTKCDCASLDWKFTDRMHCDHCSHNI 404 (791)
T ss_pred ccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhh--hhhhccccccceeecccccCCcccchh
Confidence 999999999999999999999999999999999999999999988776422 111110 00 0000000
Q ss_pred hH--------------HHHHHHHHHHHHHHHHHhhhhhhhheehhhHhh--cCCCceEEEEEecCCHHHHHHHHHHHHHH
Q 004880 359 MK--------------EELEEKRRGQMVAKLHAILRPFLLRRMKSDVEQ--MLPRKKEIILYATMTEHQRNFQDHLINKT 422 (725)
Q Consensus 359 ~~--------------~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~--~lP~k~e~~v~~~ls~~q~~~y~~l~~~~ 422 (725)
.. ...............|.+++.+|+||+|-.-.. .|||+...+-.-.++..+..+|+.++...
T Consensus 405 m~h~~~~n~~mlk~IqkfG~eGpGk~af~~~h~llk~ImlrrTkl~RAdDLgLPPRiv~vRrD~fn~eE~D~YeSLY~dS 484 (791)
T KOG1002|consen 405 MQHTCFFNHFMLKPIQKFGVEGPGKEAFNNIHTLLKNIMLRRTKLERADDLGLPPRIVTVRRDFFNEEEKDLYESLYKDS 484 (791)
T ss_pred hhhhhhhcccccccchhhcccCchHHHHHHHHHHHHHHHHHHhhcccccccCCCccceeeehhhhhhHHHHHHHHHHHhh
Confidence 00 000011122445578889999999999855333 48999888777889999999999998766
Q ss_pred HHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc----cCC--------------------------------
Q 004880 423 LENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF----SDS-------------------------------- 466 (725)
Q Consensus 423 ~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~----~~~-------------------------------- 466 (725)
...+-.--....-......++.++.++|+...||+|+...- .+.
T Consensus 485 krkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~~n~~~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~ 564 (791)
T KOG1002|consen 485 KRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSANANLPDENKGEVECGLCHDPAEDYIESSCHHKFCRLCIK 564 (791)
T ss_pred HHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhhcCCCccccCceeecccCChhhhhHhhhhhHHHHHHHHH
Confidence 54442211111122345678889999999999999984321 000
Q ss_pred ----------------CC--------CCch------------------HHHHHhhcHHHHHHHHHHHHhhCC--CcEEEE
Q 004880 467 ----------------CF--------YPPV------------------EQIVEQCGKFRLLDRLLARLFARN--HKVLVF 502 (725)
Q Consensus 467 ----------------~~--------~~~~------------------~~l~~~s~K~~~L~~ll~~l~~~~--~kvlIF 502 (725)
|. .+.. -.-+..|.|+++|.+-|..+.+++ -|.|||
T Consensus 565 eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~sSIlnRinm~~~qsSTKIEAL~EEl~~l~~rd~t~KsIVF 644 (791)
T KOG1002|consen 565 EYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKASSILNRINMDDWQSSTKIEALVEELYFLRERDRTAKSIVF 644 (791)
T ss_pred HHHHhhhcccCCCCccccccccccccchhhhhcchhhhhhHHHhhhcchhhhcchhHHHHHHHHHHHHHHcccchhhhhH
Confidence 00 0000 011355789999999888887665 488999
Q ss_pred ccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcch
Q 004880 503 SQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQM 582 (725)
Q Consensus 503 sq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~ 582 (725)
|||+.|+|+|...|...|+.++.+.|+|++..|...|+.|.+ +.+++|||+|.+|||+.+||+.|+.|.++||+|||++
T Consensus 645 SQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~n-d~~c~vfLvSLkAGGVALNLteASqVFmmDPWWNpaV 723 (791)
T KOG1002|consen 645 SQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKN-DIDCRVFLVSLKAGGVALNLTEASQVFMMDPWWNPAV 723 (791)
T ss_pred HHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhcc-CCCeEEEEEEeccCceEeeechhceeEeecccccHHH
Confidence 999999999999999999999999999999999999999998 7899999999999999999999999999999999999
Q ss_pred hhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcCCccccccccccccccCCHHHHHHhhc
Q 004880 583 DLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEHVVIGKGQFHQERTKSNCIDALEEEDLLALLQ 657 (725)
Q Consensus 583 ~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~~~el~~ll~ 657 (725)
..||++|+|||||.+||.|.||+.++|||++|++.|.+|..+++..||+.+ .....++.+|+.-|+.
T Consensus 724 e~Qa~DRiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~mihaTi~qde--------~Ai~kLt~eDmqfLF~ 790 (791)
T KOG1002|consen 724 EWQAQDRIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHATIGQDE--------EAISKLTEEDMQFLFN 790 (791)
T ss_pred HhhhhhhHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhhhcCCcH--------HHHHhcCHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999998653 1122677777776653
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=1.1e-69 Score=579.38 Aligned_cols=478 Identities=29% Similarity=0.464 Sum_probs=389.7
Q ss_pred ccccCCcccchHHHHHHHHHHHh-cCCCCeEEEcCCCCcHHHHHHHHHHHHHh-------CC-CCCCcEEEEcCccHHHH
Q 004880 149 SLLTGGKLKSYQLKGVKWLISLW-QNGLNGILADQMGLGKTIQTIAFLAHLKG-------NG-LHGPYLVIAPLSTLSNW 219 (725)
Q Consensus 149 p~~~~~~Lr~yQ~~gv~~l~~~~-~~~~~~ILademGlGKT~qaiali~~l~~-------~~-~~~~~LIV~P~sll~~W 219 (725)
|......|.|||..|+.||.... +.+.||||||+||+|||+++|+++.+-.. .+ ...++|||||.|+++||
T Consensus 319 P~g~~v~LmpHQkaal~Wl~wRE~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~PaSli~qW 398 (901)
T KOG4439|consen 319 PDGLKVELMPHQKAALRWLLWRESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPASLIHQW 398 (901)
T ss_pred CCcceeecchhhhhhhhhhcccccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcHHHHHHH
Confidence 55556789999999999998654 34678999999999999999999875542 11 12369999999999999
Q ss_pred HHHHHHhCC--CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHH----H-----HHhhhhcCccEEEEcc
Q 004880 220 VNEISRFVP--SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSD----A-----RKYLRHYNWKYLVVDE 288 (725)
Q Consensus 220 ~~E~~~~~p--~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~----~-----~~~l~~~~~~~vIvDE 288 (725)
..|+.+... .+.|++|||+.. |+ +... ...+||||||||..+.+. . ...|..+.|.+||+||
T Consensus 399 ~~Ev~~rl~~n~LsV~~~HG~n~-r~-i~~~-----~L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILDE 471 (901)
T KOG4439|consen 399 EAEVARRLEQNALSVYLYHGPNK-RE-ISAK-----ELRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVILDE 471 (901)
T ss_pred HHHHHHHHhhcceEEEEecCCcc-cc-CCHH-----HHhhcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhhhh
Confidence 999988764 478999999985 21 1111 225899999999988761 1 1357788899999999
Q ss_pred ccccCCcchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHH
Q 004880 289 GHRLKNPKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRR 368 (725)
Q Consensus 289 aH~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~ 368 (725)
||.|||++++.+.++..+.+..||+|||||+||++-|+|+|+.||+-..|++...|.++........
T Consensus 472 AH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~~Wke~i~~~s~~g------------- 538 (901)
T KOG4439|consen 472 AHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLKQWKENIDNMSKGG------------- 538 (901)
T ss_pred hhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHHHHHHhccCccccc-------------
Confidence 9999999999999999999999999999999999999999999999999999999998886543322
Q ss_pred HHHHHHHHHhhhhhhhheehhhHhh-----cCCCceEEEEEecCCHHHHHHHHHHHHHHH---HHHHHHhhh--------
Q 004880 369 GQMVAKLHAILRPFLLRRMKSDVEQ-----MLPRKKEIILYATMTEHQRNFQDHLINKTL---ENHLREKVF-------- 432 (725)
Q Consensus 369 ~~~~~~L~~~l~p~~lRR~k~dv~~-----~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~---~~~~~~~~~-------- 432 (725)
-.++.-+.++.||||||..... .||.++..++.+.|+..+...|+.+..... ..++.....
T Consensus 539 ---~~rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~askk~~kq~L~~~e~~~~~~~~~ 615 (901)
T KOG4439|consen 539 ---ANRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLFKQFLLQREDRNNDGGYQ 615 (901)
T ss_pred ---hhhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHHHHHHHhhhhhccccCcc
Confidence 2345667889999999998776 799999999999999999999988764332 222211100
Q ss_pred -------------------------hcCCcchhHHHHHHHHHHHhcCChhhhhhhccCCC--------------------
Q 004880 433 -------------------------SAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDSC-------------------- 467 (725)
Q Consensus 433 -------------------------~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~-------------------- 467 (725)
.+.......++.++++||++|+||.+...+.+...
T Consensus 616 s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~~~g~~~sde~~~e~~~l~ 695 (901)
T KOG4439|consen 616 SRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQMNGGDDSDEEQLEEDNLA 695 (901)
T ss_pred ccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhhhcCcchhhhhhhhhhHHH
Confidence 00111224467889999999999977755442110
Q ss_pred -------------------CCCc--hHHHHHhhcHHHHHHHHHHHH-hhCCCcEEEEccchhHHHHHHHHHhhcCceEEE
Q 004880 468 -------------------FYPP--VEQIVEQCGKFRLLDRLLARL-FARNHKVLVFSQWTKILDIMEYYFNEKGYEVCR 525 (725)
Q Consensus 468 -------------------~~~~--~~~l~~~s~K~~~L~~ll~~l-~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~ 525 (725)
...+ .-+....|.|+..+...+..+ ....+|++|.|||+.+++++...+...|+.|..
T Consensus 696 el~k~~~T~~~~D~~ed~p~~~~~q~Fe~~r~S~Ki~~~l~~le~i~~~skeK~viVSQwtsvLniv~~hi~~~g~~y~s 775 (901)
T KOG4439|consen 696 ELEKNDETDCSDDNCEDLPTAFPDQAFEPDRPSCKIAMVLEILETILTSSKEKVVIVSQWTSVLNIVRKHIQKGGHIYTS 775 (901)
T ss_pred hhhhcccccccccccccccccchhhhcccccchhHHHHHHHHHHHHhhcccceeeehhHHHHHHHHHHHHHhhCCeeeee
Confidence 0000 011223577998888888887 567899999999999999999999999999999
Q ss_pred EeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEe
Q 004880 526 IDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLA 605 (725)
Q Consensus 526 l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli 605 (725)
++|.....+|+.+++.||..+++.+|+|+|..|||.||||++|+++|++|.+|||+-+.||.+|+||+||+|+|+||||+
T Consensus 776 i~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcDRIYR~GQkK~V~IhR~~ 855 (901)
T KOG4439|consen 776 ITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQACDRIYRMGQKKDVFIHRLM 855 (901)
T ss_pred ecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEecccCHHHHHHHHHHHHHhcccCceEEEEEE
Confidence 99999999999999999998888999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHhcCCccccccccccccccCCHHHHHHhh
Q 004880 606 TAQSVEGRILKRAFSKLKLEHVVIGKGQFHQERTKSNCIDALEEEDLLALL 656 (725)
Q Consensus 606 ~~~TiEe~i~~~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~~~el~~ll 656 (725)
++||||++|...|..|..++..|+.+.. .. .+..++..+|.-||
T Consensus 856 ~~gTvEqrV~~LQdkKldlA~~VL~G~~-----tr--~~~kLT~adlk~LF 899 (901)
T KOG4439|consen 856 CKGTVEQRVKSLQDKKLDLAKGVLTGSA-----TR--KMNKLTLADLKKLF 899 (901)
T ss_pred ecCcHHHHHHHHHHHHHHHHhhhccCcc-----cc--ccccccHHHHHHHh
Confidence 9999999999999999999999997432 11 12367778887766
No 14
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1.7e-67 Score=638.53 Aligned_cols=491 Identities=40% Similarity=0.647 Sum_probs=414.9
Q ss_pred cccCCcccchHHHHHHHHH-HHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCC--CCCcEEEEcCccHHHHHHHHHHh
Q 004880 150 LLTGGKLKSYQLKGVKWLI-SLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGL--HGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~-~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~--~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
......|+|||.+|++|+. .++..+.+|||||+||+|||+|+|+++.++..... .+|+|||||.+++.||.+|+.+|
T Consensus 333 ~~~~~~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s~~~nw~~e~~k~ 412 (866)
T COG0553 333 VDLSAELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPASLLSNWKREFEKF 412 (866)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecHHHHHHHHHHHhhh
Confidence 4456789999999999999 89999999999999999999999999998666544 57999999999999999999999
Q ss_pred CCCce-EEEEeCChhh----HHHHHHhcCCCCCCCCCCEEEecHHHHHH---HHHHhhhhcCccEEEEccccccCCcchH
Q 004880 227 VPSVS-AIIYHGSKKE----RDEIRRKHMPRAIGPKFPIVVTSYEVALS---DARKYLRHYNWKYLVVDEGHRLKNPKCK 298 (725)
Q Consensus 227 ~p~~~-v~~~~g~~~~----r~~~~~~~~~~~~~~~~~vvItsye~~~~---~~~~~l~~~~~~~vIvDEaH~ikn~~s~ 298 (725)
.|.++ +..++|.... +..+........ .-.+++++|||+.+.. + ...+....|+++|+||||++||..+.
T Consensus 413 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~-~~~~~v~itty~~l~~~~~~-~~~l~~~~~~~~v~DEa~~ikn~~s~ 490 (866)
T COG0553 413 APDLRLVLVYHGEKSELDKKREALRDLLKLHL-VIIFDVVITTYELLRRFLVD-HGGLKKIEWDRVVLDEAHRIKNDQSS 490 (866)
T ss_pred CccccceeeeeCCcccccHHHHHHHHHhhhcc-cceeeEEechHHHHHHhhhh-HHHHhhceeeeeehhhHHHHhhhhhH
Confidence 99999 9999998863 333332211000 1238999999999999 6 47899999999999999999999999
Q ss_pred HHHHHhcCCCCcEEEEeccCCCCChHHhhhhhc-cccCCCCC-CHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHH
Q 004880 299 LLKELKYIPIGNKLLLTGTPLQNNLAELWSLLH-FILPDIFS-SLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLH 376 (725)
Q Consensus 299 ~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~-~l~p~~~~-~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~ 376 (725)
.++++..+++.++++|||||++|++.|||++++ |++|.+++ +...|..||..+......... .......+..|+
T Consensus 491 ~~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~~f~~~~~~~~~~~~~~~~----~~~~~~~~~~l~ 566 (866)
T COG0553 491 EGKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFAIFTRLFEKPIQAEEDIGP----LEARELGIELLR 566 (866)
T ss_pred HHHHHHHHhhcceeeCCCChHhhhHHHHHHHHHHHhCCccccchHHHHHHHHhhhhhhcccccc----hhhHHHHHHHHH
Confidence 999999999999999999999999999999999 99999999 569999999877554433221 111223445599
Q ss_pred Hhhhhhhhheehhh--HhhcCCCceEEEEEecCCHHHHHHHHHHHH---HHHHHHHHHhhhhcCCc------chhHHHHH
Q 004880 377 AILRPFLLRRMKSD--VEQMLPRKKEIILYATMTEHQRNFQDHLIN---KTLENHLREKVFSAGRG------MKGKLNNL 445 (725)
Q Consensus 377 ~~l~p~~lRR~k~d--v~~~lP~k~e~~v~~~ls~~q~~~y~~l~~---~~~~~~~~~~~~~~~~~------~~~~l~~~ 445 (725)
.+++||++||++.+ +...||++.+.+++|.+++.|..+|..... ........... .... ....+.+.
T Consensus 567 ~~i~~f~lrr~k~~~~v~~~Lp~k~e~~~~~~l~~~q~~~y~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~ 644 (866)
T COG0553 567 KLLSPFILRRTKEDVEVLKELPPKIEKVLECELSEEQRELYEALLEGAEKNQQLLEDLEK--ADSDENRIGDSELNILAL 644 (866)
T ss_pred HHHHHHhhcccccchhHHHhCChhhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHh--hccccccccchhhHHHHH
Confidence 99999999999999 888999999999999999999999999988 33322211111 1111 25678899
Q ss_pred HHHHHHhcCChhhhhhh-ccCC-----------CCCCchHHHHHhh-cHHHHHHHHH-HHHhhCCC--cEEEEccchhHH
Q 004880 446 MVQLRKNCNHPDLLESA-FSDS-----------CFYPPVEQIVEQC-GKFRLLDRLL-ARLFARNH--KVLVFSQWTKIL 509 (725)
Q Consensus 446 l~~Lr~~~~hp~l~~~~-~~~~-----------~~~~~~~~l~~~s-~K~~~L~~ll-~~l~~~~~--kvlIFsq~~~~l 509 (725)
++.+|++|+||.++... .... ........++..| +|+..+.+++ ..+...|+ |++||+||+.++
T Consensus 645 ~~~lr~~~~~p~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l 724 (866)
T COG0553 645 LTRLRQICNHPALVDEGLEATFDRIVLLLREDKDFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHYHKVLIFSQFTPVL 724 (866)
T ss_pred HHHHHHhccCccccccccccccchhhhhhhcccccccccchhhhccchHHHHHHHHHHHHHHhhcccccEEEEeCcHHHH
Confidence 99999999999998875 2111 1222334567788 9999999999 89999999 999999999999
Q ss_pred HHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHh
Q 004880 510 DIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDR 589 (725)
Q Consensus 510 d~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR 589 (725)
++++.+|...++.+++++|+++...|+.++++|+++ .+.+||++|++|||.||||+.|++||+||++|||+.+.||++|
T Consensus 725 ~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~-~~~~v~lls~kagg~glnLt~a~~vi~~d~~wnp~~~~Qa~dR 803 (866)
T COG0553 725 DLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNAD-EEEKVFLLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAIDR 803 (866)
T ss_pred HHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcC-CCCceEEEEecccccceeecccceEEEeccccChHHHHHHHHH
Confidence 999999999999999999999999999999999984 6789999999999999999999999999999999999999999
Q ss_pred hHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcC-CccccccccccccccCCHHHHHHhhc
Q 004880 590 CHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEHVVIGK-GQFHQERTKSNCIDALEEEDLLALLQ 657 (725)
Q Consensus 590 ~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~vi~~-~~~~~~~~~~~~~~~~~~~el~~ll~ 657 (725)
+||+||+++|.||+++++||+||+|+.++..|..+...+++. +. +....++.+++..++.
T Consensus 804 a~RigQ~~~v~v~r~i~~~tiEe~i~~~~~~K~~l~~~~~~~~~~--------~~~~~~~~~~~~~l~~ 864 (866)
T COG0553 804 AHRIGQKRPVKVYRLITRGTIEEKILELQEKKQELLDSLIDAEGE--------KELSKLSIEDLLDLFS 864 (866)
T ss_pred HHHhcCcceeEEEEeecCCcHHHHHHHHHHHHHHHHHHHhhhhcc--------cchhhccHHHHHHHhc
Confidence 999999999999999999999999999999999999999985 21 1122456677766654
No 15
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=2.8e-67 Score=561.76 Aligned_cols=489 Identities=30% Similarity=0.445 Sum_probs=398.3
Q ss_pred CCcccchHHHHHHHHHHHh---------cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLW---------QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEI 223 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~---------~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~ 223 (725)
...++|||+-||+||+... ..|.||||||.||||||+|+|+|+.-++.....+.+|+|+|-.++.||..||
T Consensus 252 a~v~kPHQiGGiRFlYDN~iESl~rykkSsGFGCILAHSMGLGKTlQVisF~diflRhT~AKtVL~ivPiNTlQNWlsEf 331 (1387)
T KOG1016|consen 252 AHVLKPHQIGGIRFLYDNTIESLGRYKKSSGFGCILAHSMGLGKTLQVISFSDIFLRHTKAKTVLVIVPINTLQNWLSEF 331 (1387)
T ss_pred HhhcCccccCcEEEehhhHHHHHhhccccCCcceeeeeccccCceeEEeehhHHHhhcCccceEEEEEehHHHHHHHHHh
Confidence 4579999999999998632 4588999999999999999999999999998999999999999999999999
Q ss_pred HHhCCC-----------ceEEEEeCCh---hhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-----------------
Q 004880 224 SRFVPS-----------VSAIIYHGSK---KERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA----------------- 272 (725)
Q Consensus 224 ~~~~p~-----------~~v~~~~g~~---~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~----------------- 272 (725)
..|.|. +.+.++.... ..|..+... |.....|+++.|++++--.
T Consensus 332 nmWiP~y~sD~~vrpR~F~vf~LnD~~KT~~~Rakvi~~-----Wv~~GGVlLvGYemfRLL~lk~~~~~grpkkt~kr~ 406 (1387)
T KOG1016|consen 332 NMWIPKYFSDTGVRPRSFEVFLLNDGVKTFDQRAKVIEQ-----WVQTGGVLLVGYEMFRLLILKTLPKKGRPKKTLKRI 406 (1387)
T ss_pred hhhcCCCcccCCCccceeEEEEecCchhhHHHHHHHHHH-----HhccCCEEEehHHHHHHHHHhcccccCCcccccccc
Confidence 999985 3344443322 233333222 2346679999999864321
Q ss_pred --------------------HHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhcc
Q 004880 273 --------------------RKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHF 332 (725)
Q Consensus 273 --------------------~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~ 332 (725)
+..|-.-+.|+|||||+|+|||....++.+|+.+++++||.|||-|+|||+-|+|+|++|
T Consensus 407 ~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYwCMVDF 486 (1387)
T KOG1016|consen 407 SSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYWCMVDF 486 (1387)
T ss_pred CCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEeccccccchHHHhhhhee
Confidence 122445568999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHH
Q 004880 333 ILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQR 412 (725)
Q Consensus 333 l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~ 412 (725)
++|+++++..+|.+.|..++..+.-..+...+-+.-......||.+|..|+.||+...+...||.+.|+++.+.+|..|+
T Consensus 487 VRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~HtvLk~~LP~k~EyViLvr~s~iQR 566 (1387)
T KOG1016|consen 487 VRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTVLKKILPEKKEYVILVRKSQIQR 566 (1387)
T ss_pred ccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhhHhhhcccccceEEEEeHHHHHH
Confidence 99999999999999999998777666665656666666778899999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCC--------------------------
Q 004880 413 NFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDS-------------------------- 466 (725)
Q Consensus 413 ~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~-------------------------- 466 (725)
.+|..++.....+... .....-..+..+.-+.+++|||+.+...+...
T Consensus 567 ~LY~~Fm~d~~r~~~~------~~~~~~NPLkAF~vCcKIWNHPDVLY~~l~k~~~a~e~dl~vee~~~ag~~~~~~P~~ 640 (1387)
T KOG1016|consen 567 QLYRNFMLDAKREIAA------NNDAVFNPLKAFSVCCKIWNHPDVLYRLLEKKKRAEEDDLRVEEMKFAGLQQQQSPFN 640 (1387)
T ss_pred HHHHHHHHHHHHhhcc------ccccccChHHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhhHHHHhhhcccccCCCCC
Confidence 9999987554443311 11111133445566788899998875432100
Q ss_pred ---------------------------CCCC----------------------chHHHHHhhcHHHHHHHHHHHHhhCCC
Q 004880 467 ---------------------------CFYP----------------------PVEQIVEQCGKFRLLDRLLARLFARNH 497 (725)
Q Consensus 467 ---------------------------~~~~----------------------~~~~l~~~s~K~~~L~~ll~~l~~~~~ 497 (725)
...+ ..+.+++.++|+..+.+++.+-..-|.
T Consensus 641 ~~~~~~s~~laSs~~k~~n~t~kp~~s~~~p~f~ee~~e~~~y~~w~~el~~nYq~gvLen~pk~V~~~~~~des~~~g~ 720 (1387)
T KOG1016|consen 641 SIPSNPSTPLASSTSKSANKTKKPRGSKKAPKFDEEDEEVEKYSDWTFELFENYQEGVLENGPKIVISLEILDESTQIGE 720 (1387)
T ss_pred CCCCCCCCcccchhhhhhcccCCcccCcCCCCcccccccccchhhHHHHHHhhhhcccccCCCceEEEEeeeccccccCc
Confidence 0000 001223445666666777776667789
Q ss_pred cEEEEccchhHHHHHHHHHhhc------------------CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccc
Q 004880 498 KVLVFSQWTKILDIMEYYFNEK------------------GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAG 559 (725)
Q Consensus 498 kvlIFsq~~~~ld~l~~~L~~~------------------g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~ag 559 (725)
|+|||||....+|.|+.+|..+ +..|.+++|.++..+|+++|.+||+..+-...||+||++|
T Consensus 721 kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstrag 800 (1387)
T KOG1016|consen 721 KILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTRAG 800 (1387)
T ss_pred eEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCCceeeeeehhccc
Confidence 9999999999999999999864 3458999999999999999999998443335899999999
Q ss_pred cCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcCCccccccc
Q 004880 560 GLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEHVVIGKGQFHQERT 639 (725)
Q Consensus 560 g~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~vi~~~~~~~~~~ 639 (725)
..||||..|+++|+||..|||..+.||.+|++|+||+|+|+||||+..+|+|.+||.|+..|..+.++|++.-+.
T Consensus 801 ~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~lEkkIydRQIsKqGmsdRvVDd~np----- 875 (1387)
T KOG1016|consen 801 SLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNSLEKKIYDRQISKQGMSDRVVDDANP----- 875 (1387)
T ss_pred cccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhhhHHHHHHHHHhhccchhhhhcccCc-----
Confidence 999999999999999999999999999999999999999999999999999999999999999999999986543
Q ss_pred cccccccCCHHHHHHhhcchhh
Q 004880 640 KSNCIDALEEEDLLALLQDEET 661 (725)
Q Consensus 640 ~~~~~~~~~~~el~~ll~~~~~ 661 (725)
...++..|+..|+.+.+.
T Consensus 876 ----~an~s~Ke~enLl~~~ea 893 (1387)
T KOG1016|consen 876 ----DANISQKELENLLMYDEA 893 (1387)
T ss_pred ----cccccHHHHHHHhhhhhc
Confidence 226788899999887763
No 16
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=6e-60 Score=487.29 Aligned_cols=426 Identities=27% Similarity=0.408 Sum_probs=336.3
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceE
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v 232 (725)
-..|.|||++||.|.++ .|++++||||||||||+|||+++.++... +|.|||||.++...|.+++.+|+|....
T Consensus 196 vs~LlPFQreGv~faL~---RgGR~llADeMGLGKTiQAlaIA~yyraE---wplliVcPAsvrftWa~al~r~lps~~p 269 (689)
T KOG1000|consen 196 VSRLLPFQREGVIFALE---RGGRILLADEMGLGKTIQALAIARYYRAE---WPLLIVCPASVRFTWAKALNRFLPSIHP 269 (689)
T ss_pred HHhhCchhhhhHHHHHh---cCCeEEEecccccchHHHHHHHHHHHhhc---CcEEEEecHHHhHHHHHHHHHhcccccc
Confidence 35799999999999984 58888999999999999999999998876 7999999999999999999999997644
Q ss_pred -EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC--CCC
Q 004880 233 -IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI--PIG 309 (725)
Q Consensus 233 -~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l--~~~ 309 (725)
.+..++.+.- ........|.|+||+++... .+.|..-.|.+||+||+|++|+..++..+++..+ ...
T Consensus 270 i~vv~~~~D~~---------~~~~t~~~v~ivSye~ls~l-~~~l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~ak 339 (689)
T KOG1000|consen 270 IFVVDKSSDPL---------PDVCTSNTVAIVSYEQLSLL-HDILKKEKYRVVIFDESHMLKDSKTKRTKAATDLLKVAK 339 (689)
T ss_pred eEEEecccCCc---------cccccCCeEEEEEHHHHHHH-HHHHhcccceEEEEechhhhhccchhhhhhhhhHHHHhh
Confidence 3333333211 11122346899999998776 4778887899999999999999999999888877 578
Q ss_pred cEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhh-hhhheeh
Q 004880 310 NKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRP-FLLRRMK 388 (725)
Q Consensus 310 ~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p-~~lRR~k 388 (725)
+.|||||||--..+.|||.++..+++.+|.++.+|...|+......... ......++.+|+.+|.. .|+||+|
T Consensus 340 hvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~------Dykg~tnl~EL~~lL~k~lMIRRlK 413 (689)
T KOG1000|consen 340 HVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCF------DYKGCTNLEELAALLFKRLMIRRLK 413 (689)
T ss_pred heEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceee------ecCCCCCHHHHHHHHHHHHHHHHHH
Confidence 8999999999999999999999999999999999999987654322111 11122456778877765 5899999
Q ss_pred hhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCCCC
Q 004880 389 SDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDSCF 468 (725)
Q Consensus 389 ~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~~ 468 (725)
.+|...||+|+..++++ .+..+...-..++....... +. ......-..+++..+.
T Consensus 414 ~dvL~qLPpKrr~Vv~~-~~gr~da~~~~lv~~a~~~t---~~----~~~e~~~~~l~l~y~~----------------- 468 (689)
T KOG1000|consen 414 ADVLKQLPPKRREVVYV-SGGRIDARMDDLVKAAADYT---KV----NSMERKHESLLLFYSL----------------- 468 (689)
T ss_pred HHHHhhCCccceEEEEE-cCCccchHHHHHHHHhhhcc---hh----hhhhhhhHHHHHHHHH-----------------
Confidence 99999999996666654 34444444444433322100 00 0000000111111111
Q ss_pred CCchHHHHHhhcHHHHHHHHHHH----HhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhC
Q 004880 469 YPPVEQIVEQCGKFRLLDRLLAR----LFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFND 544 (725)
Q Consensus 469 ~~~~~~l~~~s~K~~~L~~ll~~----l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~ 544 (725)
..-.|...+.+.|.. .-+.+.|++||+....++|-|+..+..+++..+||||+++..+|+.+++.|+.
T Consensus 469 --------tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~ 540 (689)
T KOG1000|consen 469 --------TGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQT 540 (689)
T ss_pred --------hcccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhcc
Confidence 012355555555554 34678999999999999999999999999999999999999999999999998
Q ss_pred CCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHH
Q 004880 545 VNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKL 624 (725)
Q Consensus 545 ~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l 624 (725)
+.++.|-++|..|+|.||+|++|+.|++.+.+|||...+||.+|+||+||+..|.||+|+++||+|+.++..+.+|...
T Consensus 541 -seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~~KL~v 619 (689)
T KOG1000|consen 541 -SEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPMLQQKLDV 619 (689)
T ss_pred -ccceEEEEEEEeecccceeeeccceEEEEEecCCCceEEechhhhhhccccceeeEEEEEecCchHHHHHHHHHHHHHH
Confidence 7899999999999999999999999999999999999999999999999999999999999999999999999999996
Q ss_pred HHHH-hcCCcc
Q 004880 625 EHVV-IGKGQF 634 (725)
Q Consensus 625 ~~~v-i~~~~~ 634 (725)
...+ +++.+|
T Consensus 620 l~s~gl~s~~~ 630 (689)
T KOG1000|consen 620 LGSVGLSSDTF 630 (689)
T ss_pred HhhcccCcccc
Confidence 6554 555555
No 17
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=2.8e-59 Score=545.25 Aligned_cols=438 Identities=21% Similarity=0.257 Sum_probs=329.5
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceE
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v 232 (725)
...|.|||+..+.++.. ....+.|||||||||||++|++++..+...+..+|+|||||.+++.||..|+.+++ ++..
T Consensus 150 ~~~l~pHQl~~~~~vl~--~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~QW~~El~~kF-~l~~ 226 (956)
T PRK04914 150 RASLIPHQLYIAHEVGR--RHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQHQWLVEMLRRF-NLRF 226 (956)
T ss_pred CCCCCHHHHHHHHHHhh--ccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHHHHHHHHHHHh-CCCe
Confidence 44699999999988765 34667899999999999999999999999988899999999999999999998877 3555
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH--HHhhhhcCccEEEEccccccCC---cchHHHHHHhcC-
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA--RKYLRHYNWKYLVVDEGHRLKN---PKCKLLKELKYI- 306 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~--~~~l~~~~~~~vIvDEaH~ikn---~~s~~~~~l~~l- 306 (725)
.++.+....... . ........++++|+||+.+.++. ...+....|++|||||||++++ ..++.++.+..+
T Consensus 227 ~i~~~~~~~~~~--~--~~~~pf~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La 302 (956)
T PRK04914 227 SLFDEERYAEAQ--H--DADNPFETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLA 302 (956)
T ss_pred EEEcCcchhhhc--c--cccCccccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHh
Confidence 666554322110 0 00011135789999999998742 2446677999999999999995 346667888777
Q ss_pred -CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhccc------------CCCchhhhHHHHHHH-------
Q 004880 307 -PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLS------------GKCNSEVMKEELEEK------- 366 (725)
Q Consensus 307 -~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~------------~~~~~~~~~~~~~~~------- 366 (725)
+++++++|||||++|+..++|++|+||+|+.|++...|....... ...-...........
T Consensus 303 ~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~ 382 (956)
T PRK04914 303 EVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQALLAGEKLSDDALNALGELLGEQDIE 382 (956)
T ss_pred hccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchh
Confidence 578999999999999999999999999999999999997654321 110000000001000
Q ss_pred ---------------HHHHHHHHHHH--hhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHH
Q 004880 367 ---------------RRGQMVAKLHA--ILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLRE 429 (725)
Q Consensus 367 ---------------~~~~~~~~L~~--~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~ 429 (725)
.....+..|.. -...+|+|+++.+|. .+|.+....+.+++++.....+.. ...
T Consensus 383 ~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~-~fp~R~~~~~~l~~~~~y~~~~~~----~~~----- 452 (956)
T PRK04914 383 PLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVK-GFPKRELHPIPLPLPEQYQTAIKV----SLE----- 452 (956)
T ss_pred HHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhc-CCCcCceeEeecCCCHHHHHHHHH----hHH-----
Confidence 01111222211 123678899999987 489998888888887653333221 000
Q ss_pred hhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHH
Q 004880 430 KVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKIL 509 (725)
Q Consensus 430 ~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~l 509 (725)
..++. +.+|..+...+.. ........+|+..|.+++... .+.|+||||++..++
T Consensus 453 -----------------~~~~~-~l~pe~~~~~~~~------~~~~~~~d~Ki~~L~~~L~~~--~~~KvLVF~~~~~t~ 506 (956)
T PRK04914 453 -----------------ARARD-MLYPEQIYQEFED------NATWWNFDPRVEWLIDFLKSH--RSEKVLVICAKAATA 506 (956)
T ss_pred -----------------HHHHh-hcCHHHHHHHHhh------hhhccccCHHHHHHHHHHHhc--CCCeEEEEeCcHHHH
Confidence 01111 2233221111100 001123357999999999875 378999999999999
Q ss_pred HHHHHHH-hhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhH
Q 004880 510 DIMEYYF-NEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMD 588 (725)
Q Consensus 510 d~l~~~L-~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~g 588 (725)
+.|...| ...|++++.+||+++..+|.++++.|++++++++| ||||++||+|+|++.|++||+||+||||..++||+|
T Consensus 507 ~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~V-LIsTdvgseGlNlq~a~~VInfDlP~nP~~~eQRIG 585 (956)
T PRK04914 507 LQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQV-LLCSEIGSEGRNFQFASHLVLFDLPFNPDLLEQRIG 585 (956)
T ss_pred HHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccE-EEechhhccCCCcccccEEEEecCCCCHHHHHHHhc
Confidence 9999999 46699999999999999999999999985445655 888999999999999999999999999999999999
Q ss_pred hhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcCCcc
Q 004880 589 RCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEHVVIGKGQF 634 (725)
Q Consensus 589 R~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~vi~~~~~ 634 (725)
|+||+||+++|.||.++..+|++++|++....|..++..+++.+..
T Consensus 586 R~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l~ife~~~~~~~~ 631 (956)
T PRK04914 586 RLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGLNAFEHTCPTGRA 631 (956)
T ss_pred ccccCCCCceEEEEEccCCCCHHHHHHHHHhhhcCceeccCCCHHH
Confidence 9999999999999999999999999999999999999988887543
No 18
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=2.1e-55 Score=487.36 Aligned_cols=386 Identities=41% Similarity=0.635 Sum_probs=345.9
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhC-CCCCCcEEEEcCccHHHHHHHHHHhCCCce
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGN-GLHGPYLVIAPLSTLSNWVNEISRFVPSVS 231 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~-~~~~~~LIV~P~sll~~W~~E~~~~~p~~~ 231 (725)
++.|.+||.+|++|+...|..+..+|+|||||+|||++++.++..+... ...+|+||++|.+++.||..++..|.|...
T Consensus 293 ~g~L~~~qleGln~L~~~ws~~~~~ilADEmgLgktVqsi~fl~sl~~~~~~~~P~Lv~ap~sT~~nwe~e~~~wap~~~ 372 (696)
T KOG0383|consen 293 GGTLHPYQLEGLNWLRISWSPGVDAILADEMGLGKTVQSIVFLYSLPKEIHSPGPPLVVAPLSTIVNWEREFELWAPSFY 372 (696)
T ss_pred CccccccchhhhhhhhcccccCCCcccchhhcCCceeeEEEEEeecccccCCCCCceeeccCccccCCCCchhccCCCcc
Confidence 5899999999999999999999999999999999999999999988874 445899999999999999999999999999
Q ss_pred EEEEeCChhhHHHHHHhcCCCCC----------------CCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCc
Q 004880 232 AIIYHGSKKERDEIRRKHMPRAI----------------GPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNP 295 (725)
Q Consensus 232 v~~~~g~~~~r~~~~~~~~~~~~----------------~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~ 295 (725)
+..|+|+...|..++...+.... ...+++..++|++...+. ..+..+.|.++|+||+|+++|.
T Consensus 373 vv~~~G~~k~r~iirepe~s~ed~~~~~~~~i~~~~~~s~~k~~vl~~s~~~~~~~~-~il~~v~w~~livde~~rlkn~ 451 (696)
T KOG0383|consen 373 VVPYPGTAKSRAIIREPEFSFEDSSIKSSPKISEMKTESSAKFHVLLPSYETIEIDQ-SILFSVQWGLLIVDEAHRLKNK 451 (696)
T ss_pred cccCCCCccchhhhhcccccccccccccCCccccccchhhcccccCCCchhhcccCH-HHHhhhhcceeEeechhhcccc
Confidence 99999999999888776553221 236889999999998885 8899999999999999999999
Q ss_pred chHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHH
Q 004880 296 KCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKL 375 (725)
Q Consensus 296 ~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 375 (725)
.+.+++.+...+..++++|||||+|||+.+|+++|+|+.|..|.+...|.+.|.. ......+.+|
T Consensus 452 ~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~~d---------------~~~~~~~~~l 516 (696)
T KOG0383|consen 452 QSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEFHD---------------ISCEEQIKKL 516 (696)
T ss_pred hhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhcch---------------hhHHHHHHhh
Confidence 9999999999999999999999999999999999999999999999999887742 2234678899
Q ss_pred HHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCC
Q 004880 376 HAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNH 455 (725)
Q Consensus 376 ~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~h 455 (725)
|.++.|+++||.+.|+...+|.|.+.++.+.+++.|+.+|+.++......... .+....+.|++|+|||+|+|
T Consensus 517 ~~l~~p~~lrr~k~d~l~~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n~~~l~~-------~~~~~s~~n~~mel~K~~~h 589 (696)
T KOG0383|consen 517 HLLLCPHMLRRLKLDVLKPMPLKTELIGRVELSPCQKKYYKKILTRNWQGLLA-------GVHQYSLLNIVMELRKQCNH 589 (696)
T ss_pred ccccCchhhhhhhhhhccCCCccceeEEEEecCHHHHHHHHHHHcCChHHHhh-------cchhHHHHHHHHHHHHhhcC
Confidence 99999999999999999999999999999999999999999998877655533 33466789999999999999
Q ss_pred hhhhhhhccCCC-CCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHH
Q 004880 456 PDLLESAFSDSC-FYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDE 534 (725)
Q Consensus 456 p~l~~~~~~~~~-~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~ 534 (725)
||++.....-.. .......++.+|+|+..|..++++++..||||+||+||+.++|+|+++|...| .|.|+||..+...
T Consensus 590 py~~~~~e~~~~~~~~~~~~l~k~~~k~~~l~~~~~~l~~~ghrvl~~~q~~~~ldlled~~~~~~-~~~r~dG~~~~~~ 668 (696)
T KOG0383|consen 590 PYLSPLEEPLEENGEYLGSALIKASGKLTLLLKMLKKLKSSGHRVLIFSQMIHMLDLLEDYLTYEG-KYERIDGPITGPE 668 (696)
T ss_pred cccCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhHHHHhccC-cceeccCCccchh
Confidence 999877211111 11123467889999999999999999999999999999999999999999999 9999999999999
Q ss_pred HHHHHHHHhCCCCCceEEEEecccccCC
Q 004880 535 RKRQIQDFNDVNSSYRIFLLSTRAGGLG 562 (725)
Q Consensus 535 R~~~i~~F~~~~~~~~v~Llst~agg~G 562 (725)
|+.+|++||.+++.-++||+||+|||+|
T Consensus 669 rq~ai~~~n~~~~~~~cfllstra~g~g 696 (696)
T KOG0383|consen 669 RQAAIDRFNAPGSNQFCFLLSTRAGGLG 696 (696)
T ss_pred hhhhccccCCCCccceEEEeecccccCC
Confidence 9999999999899999999999999998
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=2.5e-52 Score=470.42 Aligned_cols=448 Identities=29% Similarity=0.423 Sum_probs=359.8
Q ss_pred chHHHHHHHHHHH-hcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC-------CCCCcEEEEcCccHHHHHHHHHHhCC-
Q 004880 158 SYQLKGVKWLISL-WQNGLNGILADQMGLGKTIQTIAFLAHLKGNG-------LHGPYLVIAPLSTLSNWVNEISRFVP- 228 (725)
Q Consensus 158 ~yQ~~gv~~l~~~-~~~~~~~ILademGlGKT~qaiali~~l~~~~-------~~~~~LIV~P~sll~~W~~E~~~~~p- 228 (725)
.+|..+-.|+... .+.-.|||+||+||+|||+++|+++....... ..+..|||||.+++.+|..|+.+..+
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 5555444444332 23456899999999999999999887654322 35679999999999999999955543
Q ss_pred -CceEEEEeC-ChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC
Q 004880 229 -SVSAIIYHG-SKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI 306 (725)
Q Consensus 229 -~~~v~~~~g-~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l 306 (725)
.+.+.+||| .... .....++||+|||.++.. ..+..+.|-.+|+||||+++|.+++.++++..+
T Consensus 215 ~~l~v~v~~gr~kd~-----------~el~~~dVVltTy~il~~---~~l~~i~w~Riildea~~ikn~~tq~~~a~~~L 280 (674)
T KOG1001|consen 215 DKLSIYVYHGRTKDK-----------SELNSYDVVLTTYDILKN---SPLVKIKWLRIVLDEAHTIKNKDTQIFKAVCQL 280 (674)
T ss_pred cceEEEEeccccccc-----------chhcCCceEEeeHHHhhc---ccccceeEEEEEeccccccCCcchHhhhhheee
Confidence 467888998 2111 112578899999999864 345668999999999999999999999999999
Q ss_pred CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhhe
Q 004880 307 PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLRR 386 (725)
Q Consensus 307 ~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR 386 (725)
.+.+||.|||||+||++.+||+++.|+.-+.+.....|...+..+...+.. ......++.++.++++||
T Consensus 281 ~a~~RWcLtgtPiqn~~~~lysl~~fl~~~p~~~~~~~~~~i~~p~~~~~~-----------~~~~k~l~~~L~~v~lrr 349 (674)
T KOG1001|consen 281 DAKYRWCLTGTPIQNNLDELYSLFKFLEIHPYCDQNYFKLLIQDPDERNKY-----------KEGVKTLQGILKKVMLRR 349 (674)
T ss_pred ccceeeeecCChhhhhHHHHHHHHHHhhcCCchhhHHHHHHhcChhhhhhH-----------HHHHHHHHHHHHHHHhcc
Confidence 999999999999999999999999999999999988888877655433321 256788999999999999
Q ss_pred ehhhH-----hhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhh
Q 004880 387 MKSDV-----EQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLES 461 (725)
Q Consensus 387 ~k~dv-----~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~ 461 (725)
+|..- ...+||+...++++.++..++.+|..+.......+-..............+...+.+||++|+||.++..
T Consensus 350 tK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~~~~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~ 429 (674)
T KOG1001|consen 350 TKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKANSRNQFSNYANEGTVSSTYAFFLKNLLRLRQACDHSLLVMY 429 (674)
T ss_pred cccccccCccccccCcceeEeeeccccHhHHHHHHHHhhhhhhHHHHHhhhchhhhhHHHHHHHHHHHHHHccchHhhhh
Confidence 99632 2369999999999999999999999998765443322222222223345667778899999999988743
Q ss_pred hccCCC----------------------C---------------------------------CCch------HHHHH---
Q 004880 462 AFSDSC----------------------F---------------------------------YPPV------EQIVE--- 477 (725)
Q Consensus 462 ~~~~~~----------------------~---------------------------------~~~~------~~l~~--- 477 (725)
...... . .+.. ..+..
T Consensus 430 ~~~~~~~~~~~~~~~~~~i~~l~~~~~c~ic~~~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~~~ 509 (674)
T KOG1001|consen 430 EMDSLGDSGSAAALIIRLIVDLSVSHWCHICCDLDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSANP 509 (674)
T ss_pred hhhccccccccchHHHHHHHHHhhccccccccccccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhccc
Confidence 211000 0 0000 01111
Q ss_pred ----------hhcHHHHHHHHHHHHhhCCC-cEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCC
Q 004880 478 ----------QCGKFRLLDRLLARLFARNH-KVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVN 546 (725)
Q Consensus 478 ----------~s~K~~~L~~ll~~l~~~~~-kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~ 546 (725)
.|.|+..+.++|........ +++||||++.++++++..|...|+.+.+++|.++...|.+.+..|+. +
T Consensus 510 ~~~~~~~~~~~s~ki~~~~~~l~~~~~s~~~kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~~-~ 588 (674)
T KOG1001|consen 510 LPSIINDLLPESSKIYAFLKILQAKEMSEQPKIVIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPC-D 588 (674)
T ss_pred ccchhhhccchhhhhHHHHHHHhhccCCCCCceeeehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhccccc-C
Confidence 25677777777775544444 99999999999999999999999999999999999999999999995 7
Q ss_pred CCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHH
Q 004880 547 SSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEH 626 (725)
Q Consensus 547 ~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~ 626 (725)
+.+.|+++|.+|||.|+||+.|++|++.||+|||..+.||++||||+||+++|.|+||+..+|+|++|++.+.+|+.+..
T Consensus 589 ~~~~vll~Slkag~~glnlt~a~~v~~~d~~wnp~~eeQaidR~hrigq~k~v~v~r~~i~dtveer~l~iq~~K~~~~~ 668 (674)
T KOG1001|consen 589 PLVTALLMSLKAGKVGLNLTAASHVLLMDPWWNPAVEEQAIDRAHRIGQTKPVKVSRFIIKDTVEERILKIQEKKREYNA 668 (674)
T ss_pred ccHHHHHHHHHHhhhhhchhhhhHHHhhchhcChHHHHHHHHHHHHhcccceeeeeeehhhhccHHHHHHHHHHHHHHHh
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred HHhcC
Q 004880 627 VVIGK 631 (725)
Q Consensus 627 ~vi~~ 631 (725)
...+.
T Consensus 669 ~a~~~ 673 (674)
T KOG1001|consen 669 SAFGE 673 (674)
T ss_pred hhccC
Confidence 77653
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=5e-43 Score=371.32 Aligned_cols=280 Identities=36% Similarity=0.635 Sum_probs=224.8
Q ss_pred hHHHHHHHHHHHh---------cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCC---CcEEEEcCccHHHHHHHHHHh
Q 004880 159 YQLKGVKWLISLW---------QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHG---PYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 159 yQ~~gv~~l~~~~---------~~~~~~ILademGlGKT~qaiali~~l~~~~~~~---~~LIV~P~sll~~W~~E~~~~ 226 (725)
||++||.||+..+ ....||||||+||+|||+++++++.++...+... ++|||||.+++.+|..|+.+|
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 7888999999999999999999999888755443 699999999999999999999
Q ss_pred C-C-CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHH-----HHHHHhhhhcCccEEEEccccccCCcchHH
Q 004880 227 V-P-SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVAL-----SDARKYLRHYNWKYLVVDEGHRLKNPKCKL 299 (725)
Q Consensus 227 ~-p-~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~-----~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~ 299 (725)
+ | ..+++++.|....+. ........++++|+||+.+. ... ..+...+|++|||||+|++||..+..
T Consensus 81 ~~~~~~~v~~~~~~~~~~~------~~~~~~~~~~vvi~ty~~~~~~~~~~~~-~~l~~~~~~~vIvDEaH~~k~~~s~~ 153 (299)
T PF00176_consen 81 FDPDSLRVIIYDGDSERRR------LSKNQLPKYDVVITTYETLRKARKKKDK-EDLKQIKWDRVIVDEAHRLKNKDSKR 153 (299)
T ss_dssp SGT-TS-EEEESSSCHHHH------TTSSSCCCSSEEEEEHHHHH--TSTHTT-HHHHTSEEEEEEETTGGGGTTTTSHH
T ss_pred ccccccccccccccccccc------ccccccccceeeeccccccccccccccc-cccccccceeEEEecccccccccccc
Confidence 9 4 678899988872221 12234468899999999998 443 56777889999999999999999999
Q ss_pred HHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhh
Q 004880 300 LKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAIL 379 (725)
Q Consensus 300 ~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l 379 (725)
++++..+.+.++|+|||||++|++.|+|++++||.|+.+.+...|.++|..+ ..........+|..++
T Consensus 154 ~~~l~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~~~~f~~~~~~~------------~~~~~~~~~~~L~~~l 221 (299)
T PF00176_consen 154 YKALRKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSDRRSFKKWFYRP------------DKENSYENIERLRELL 221 (299)
T ss_dssp HHHHHCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSSHHHHHHHTHHH------------HHTHHHHHHHHHHHHH
T ss_pred cccccccccceEEeeccccccccccccccchheeeccccccchhhhhhhhhh------------cccccccccccccccc
Confidence 9999999999999999999999999999999999999999999999887533 1223346778999999
Q ss_pred hhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhh
Q 004880 380 RPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLL 459 (725)
Q Consensus 380 ~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~ 459 (725)
+++++||++.++...+|+..+.++.++||+.|+.+|+.+........... ..........+...+.+||++|+||+|+
T Consensus 222 ~~~~~r~~~~d~~~~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~lr~~c~hp~l~ 299 (299)
T PF00176_consen 222 SEFMIRRTKKDVEKELPPKIEHVINVELSPEQRELYNELLKEARENLKQS--SRKKSKKLSSLLQILKRLRQVCNHPYLV 299 (299)
T ss_dssp CCCEECHCGGGGCTTSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCTT---T--TCHHHHHHHHHHHHHHHHHH-THHC
T ss_pred chhhhhhhcccccccCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhh--cccchhhHHHHHHHHHHHHHHhCCcccC
Confidence 99999999999988899999999999999999999998765543211100 0123344567888999999999999874
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=4.6e-41 Score=380.06 Aligned_cols=343 Identities=20% Similarity=0.293 Sum_probs=255.0
Q ss_pred cccCCcccchHHHHHHHHHHHhcCC--CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 150 LLTGGKLKSYQLKGVKWLISLWQNG--LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~~~~~~~--~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
+.....|||||.+++.++.. ++ ++|||+++||+|||++++++++.+ .+++|||||.+ ++.||.++|.+|
T Consensus 250 L~~~~~LRpYQ~eAl~~~~~---~gr~r~GIIvLPtGaGKTlvai~aa~~l-----~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 250 LKPTTQIRPYQEKSLSKMFG---NGRARSGIIVLPCGAGKSLVGVTAACTV-----KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred cccCCCcCHHHHHHHHHHHh---cCCCCCcEEEeCCCCChHHHHHHHHHHh-----CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 34467899999999998863 34 489999999999999999988765 25899999977 589999999999
Q ss_pred C--CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH---------HHhhhhcCccEEEEccccccCCc
Q 004880 227 V--PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA---------RKYLRHYNWKYLVVDEGHRLKNP 295 (725)
Q Consensus 227 ~--p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~---------~~~l~~~~~~~vIvDEaH~ikn~ 295 (725)
+ +...+..|+|....+. ....+|+|+||+++.+.. ...|....|++||+||||++.+
T Consensus 322 ~~l~~~~I~~~tg~~k~~~-----------~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA- 389 (732)
T TIGR00603 322 STIDDSQICRFTSDAKERF-----------HGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPA- 389 (732)
T ss_pred cCCCCceEEEEecCccccc-----------ccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccH-
Confidence 6 3456777777643321 134689999999886431 1345556899999999999954
Q ss_pred chHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccc-cCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHH
Q 004880 296 KCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFI-LPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAK 374 (725)
Q Consensus 296 ~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l-~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 374 (725)
....+.+..+.+.+||+|||||.+++ +.+..++++ .|.++.
T Consensus 390 -~~fr~il~~l~a~~RLGLTATP~ReD--~~~~~L~~LiGP~vye----------------------------------- 431 (732)
T TIGR00603 390 -AMFRRVLTIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYE----------------------------------- 431 (732)
T ss_pred -HHHHHHHHhcCcCcEEEEeecCcccC--CchhhhhhhcCCeeee-----------------------------------
Confidence 33555677789999999999999876 223334332 343321
Q ss_pred HHHhhhhhhhheehhhHh--hcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHh
Q 004880 375 LHAILRPFLLRRMKSDVE--QMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKN 452 (725)
Q Consensus 375 L~~~l~p~~lRR~k~dv~--~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~ 452 (725)
-...++. ..|.+.....++|+|++.....|-.. .. .... .+ +
T Consensus 432 -----------~~~~eLi~~G~LA~~~~~ev~v~~t~~~~~~yl~~---~~---------------~~k~-----~l--~ 475 (732)
T TIGR00603 432 -----------ANWMELQKKGFIANVQCAEVWCPMTPEFYREYLRE---NS---------------RKRM-----LL--Y 475 (732)
T ss_pred -----------cCHHHHHhCCccccceEEEEEecCCHHHHHHHHHh---cc---------------hhhh-----HH--h
Confidence 1112221 34667777889999998653333211 00 0000 00 0
Q ss_pred cCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCH
Q 004880 453 CNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRL 532 (725)
Q Consensus 453 ~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~ 532 (725)
. .+..|+..+..++......++|+||||+++..++.+...| +. ..++|+++.
T Consensus 476 ~-----------------------~np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L---~~--~~I~G~ts~ 527 (732)
T TIGR00603 476 V-----------------------MNPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKL---GK--PFIYGPTSQ 527 (732)
T ss_pred h-----------------------hChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHc---CC--ceEECCCCH
Confidence 0 1235888888888877678999999999998887777666 33 458999999
Q ss_pred HHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCC-CcchhhhHhHhhHhcCCCC-----ceEEEEEec
Q 004880 533 DERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDW-NPQMDLQAMDRCHRIGQTK-----PVHVYRLAT 606 (725)
Q Consensus 533 ~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~w-Np~~~~Qa~gR~~RiGQ~k-----~V~Vyrli~ 606 (725)
.+|.+++++|+. ++.+.+ |++|++|++|||++.|++||++++++ |+..+.||+||+.|.+..+ +.++|.|++
T Consensus 528 ~ER~~il~~Fr~-~~~i~v-Lv~SkVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs 605 (732)
T TIGR00603 528 QERMQILQNFQH-NPKVNT-IFLSKVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVS 605 (732)
T ss_pred HHHHHHHHHHHh-CCCccE-EEEecccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCccccccceEEEEec
Confidence 999999999986 334555 67779999999999999999999986 9999999999999998754 379999999
Q ss_pred CCCHHHHHHH
Q 004880 607 AQSVEGRILK 616 (725)
Q Consensus 607 ~~TiEe~i~~ 616 (725)
.+|.|+..-.
T Consensus 606 ~dT~E~~~s~ 615 (732)
T TIGR00603 606 KDTQEMYYST 615 (732)
T ss_pred CCchHHHHHH
Confidence 9999988744
No 22
>PRK13766 Hef nuclease; Provisional
Probab=100.00 E-value=4.5e-36 Score=357.32 Aligned_cols=445 Identities=15% Similarity=0.148 Sum_probs=277.5
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcC-ccHHHHHHHHHHhCCC--
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPL-STLSNWVNEISRFVPS-- 229 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~-sll~~W~~E~~~~~p~-- 229 (725)
..++|+||.+.+..++. .++|++++||+|||++++.++..+.. ...+++|||||. .++.||..++.+++..
T Consensus 13 ~~~~r~yQ~~~~~~~l~-----~n~lv~~ptG~GKT~~a~~~i~~~l~-~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~ 86 (773)
T PRK13766 13 TIEARLYQQLLAATALK-----KNTLVVLPTGLGKTAIALLVIAERLH-KKGGKVLILAPTKPLVEQHAEFFRKFLNIPE 86 (773)
T ss_pred cCCccHHHHHHHHHHhc-----CCeEEEcCCCccHHHHHHHHHHHHHH-hCCCeEEEEeCcHHHHHHHHHHHHHHhCCCC
Confidence 35789999999888774 48999999999999999988877763 456799999997 5788999999988643
Q ss_pred ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcchHHHHH--H-hc
Q 004880 230 VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPKCKLLKE--L-KY 305 (725)
Q Consensus 230 ~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~s~~~~~--l-~~ 305 (725)
..+..++|........ ..+ ...+|+|+|++.+..++.. .+....|++|||||||++.+..+..+.. . ..
T Consensus 87 ~~v~~~~g~~~~~~r~--~~~-----~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~~~~~i~~~~~~~ 159 (773)
T PRK13766 87 EKIVVFTGEVSPEKRA--ELW-----EKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNYAYVYIAERYHED 159 (773)
T ss_pred ceEEEEeCCCCHHHHH--HHH-----hCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCccccccccHHHHHHHHHhc
Confidence 4777888865433211 111 2568999999999877522 3334468999999999998654332222 1 22
Q ss_pred CCCCcEEEEeccCCCCChHHhhhhhccccCCCCCC----HHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhh
Q 004880 306 IPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSS----LEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRP 381 (725)
Q Consensus 306 l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~----~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p 381 (725)
.+..++++|||||.++ ...+..+++-|....... ..+....+.......... .-......++..+.+
T Consensus 160 ~~~~~il~lTaTP~~~-~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v--------~l~~~~~~i~~~l~~ 230 (773)
T PRK13766 160 AKNPLVLGLTASPGSD-EEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRV--------ELPEELKEIRDLLNE 230 (773)
T ss_pred CCCCEEEEEEcCCCCC-HHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEe--------CCcHHHHHHHHHHHH
Confidence 2456689999999866 445555544442211110 011111111000000000 001234456677777
Q ss_pred hhhheehhhHhhcC-CCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHh-----------hhhcCCcchhHHHHHHHHH
Q 004880 382 FLLRRMKSDVEQML-PRKKEIILYATMTEHQRNFQDHLINKTLENHLREK-----------VFSAGRGMKGKLNNLMVQL 449 (725)
Q Consensus 382 ~~lRR~k~dv~~~l-P~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~-----------~~~~~~~~~~~l~~~l~~L 449 (725)
++.++.+....... ++....+....+...+..++..+.......+.... ...........+...+..+
T Consensus 231 ~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~y~~~l 310 (773)
T PRK13766 231 ALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDDSEGYEAISILAEAMKLRHAVELLETQGVEALRRYLERL 310 (773)
T ss_pred HHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHH
Confidence 77776666544322 22221111112222222222221110000000000 0000000001111112222
Q ss_pred HHhcCChhhhhh---hccCCC---CCCchHHHHHhhcHHHHHHHHHHHHh--hCCCcEEEEccchhHHHHHHHHHhhcCc
Q 004880 450 RKNCNHPDLLES---AFSDSC---FYPPVEQIVEQCGKFRLLDRLLARLF--ARNHKVLVFSQWTKILDIMEYYFNEKGY 521 (725)
Q Consensus 450 r~~~~hp~l~~~---~~~~~~---~~~~~~~l~~~s~K~~~L~~ll~~l~--~~~~kvlIFsq~~~~ld~l~~~L~~~g~ 521 (725)
+..+.++..... .+.+.. .+.....+....+|+..|.++|.... ..+.|+||||++..+++.|.++|...|+
T Consensus 311 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~ 390 (773)
T PRK13766 311 REEARSSGGSKASKRLVEDPRFRKAVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGI 390 (773)
T ss_pred HhhccccCCcHHHHHHHhCHHHHHHHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCC
Confidence 211111000000 000000 00001112234689999999999877 5789999999999999999999999999
Q ss_pred eEEEEeCC--------CCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhc
Q 004880 522 EVCRIDGS--------VRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRI 593 (725)
Q Consensus 522 ~~~~l~G~--------~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~Ri 593 (725)
++..++|. ++..+|.+++++|+++ .+. +|++|+++++|+|++.|++||+||++|||..++||.||++|.
T Consensus 391 ~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g--~~~-vLvaT~~~~eGldi~~~~~VI~yd~~~s~~r~iQR~GR~gR~ 467 (773)
T PRK13766 391 KAVRFVGQASKDGDKGMSQKEQIEILDKFRAG--EFN-VLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRSIQRKGRTGRQ 467 (773)
T ss_pred ceEEEEccccccccCCCCHHHHHHHHHHHHcC--CCC-EEEECChhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccCcC
Confidence 99999997 8889999999999984 344 489999999999999999999999999999999988888887
Q ss_pred CCCCceEEEEEecCCCHHHHHHHHHHHHHHHH
Q 004880 594 GQTKPVHVYRLATAQSVEGRILKRAFSKLKLE 625 (725)
Q Consensus 594 GQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~ 625 (725)
|+ +.||.|++.+|+||.+|.....|.+.+
T Consensus 468 ~~---~~v~~l~~~~t~ee~~y~~~~~ke~~~ 496 (773)
T PRK13766 468 EE---GRVVVLIAKGTRDEAYYWSSRRKEKKM 496 (773)
T ss_pred CC---CEEEEEEeCCChHHHHHHHhhHHHHHH
Confidence 65 789999999999999998887776655
No 23
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=6.4e-32 Score=283.67 Aligned_cols=412 Identities=21% Similarity=0.252 Sum_probs=276.3
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhC--CC
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFV--PS 229 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~--p~ 229 (725)
..+.|.||...+.-.+ ..|.+++.+||||||++|+.++++.+..... .+|+++|+. |+.|-..-+.+++ |.
T Consensus 13 ~ie~R~YQ~~i~a~al-----~~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~-kvlfLAPTKPLV~Qh~~~~~~v~~ip~ 86 (542)
T COG1111 13 TIEPRLYQLNIAAKAL-----FKNTLVVLPTGLGKTFIAAMVIANRLRWFGG-KVLFLAPTKPLVLQHAEFCRKVTGIPE 86 (542)
T ss_pred cccHHHHHHHHHHHHh-----hcCeEEEecCCccHHHHHHHHHHHHHHhcCC-eEEEecCCchHHHHHHHHHHHHhCCCh
Confidence 4578899998887777 4599999999999999999999876665433 899999955 7888888888885 55
Q ss_pred ceEEEEeCChh--hHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcch--HHHHHHh
Q 004880 230 VSAIIYHGSKK--ERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPKC--KLLKELK 304 (725)
Q Consensus 230 ~~v~~~~g~~~--~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~s--~~~~~l~ 304 (725)
..+..+.|.-. +|.... .+..|+|.|++.+.+|+.. .+.--++.++|+|||||.-...+ .+.+...
T Consensus 87 ~~i~~ltGev~p~~R~~~w---------~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAYv~Va~~y~ 157 (542)
T COG1111 87 DEIAALTGEVRPEEREELW---------AKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAYVFVAKEYL 157 (542)
T ss_pred hheeeecCCCChHHHHHHH---------hhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchHHHHHHHHH
Confidence 77888888543 333322 3568999999999999743 34444688999999999864333 3333333
Q ss_pred cC-CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 305 YI-PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 305 ~l-~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
.. +..+.++|||||=. +.+.+.+....-+ +....
T Consensus 158 ~~~k~~~ilgLTASPGs-------------------~~ekI~eV~~nLg--------------------------Ie~ve 192 (542)
T COG1111 158 RSAKNPLILGLTASPGS-------------------DLEKIQEVVENLG--------------------------IEKVE 192 (542)
T ss_pred HhccCceEEEEecCCCC-------------------CHHHHHHHHHhCC--------------------------cceEE
Confidence 33 44467999999932 1112221111100 01111
Q ss_pred hhee-hhhHhhcCCCceEEEEEecCCHHHHHHHHHH---HHHHHHHHHHHhhhhcCCc--chhHHHHHH-HHHHHhc---
Q 004880 384 LRRM-KSDVEQMLPRKKEIILYATMTEHQRNFQDHL---INKTLENHLREKVFSAGRG--MKGKLNNLM-VQLRKNC--- 453 (725)
Q Consensus 384 lRR~-k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l---~~~~~~~~~~~~~~~~~~~--~~~~l~~~l-~~Lr~~~--- 453 (725)
+|-- ..||..++-.++..-+.+++++.-..+-+.+ +...+.. +.......... ....++.+. .++....
T Consensus 193 vrTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~-L~~~g~~~~~~~~~~kdl~~~~~~~~~~a~~~~ 271 (542)
T COG1111 193 VRTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKP-LKELGVIESSSPVSKKDLLELRQIRLIMAKNED 271 (542)
T ss_pred EecCCCccHHHhhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHH-HHHcCceeccCcccHhHHHHHHHHHHHhccCcc
Confidence 1111 1356667777777778888887765543332 2222111 11111111111 111222221 0110000
Q ss_pred ----------------CCh-hhhh----------------hhcc-----------CCCCCCchHHHH--H----hhcHHH
Q 004880 454 ----------------NHP-DLLE----------------SAFS-----------DSCFYPPVEQIV--E----QCGKFR 483 (725)
Q Consensus 454 ----------------~hp-~l~~----------------~~~~-----------~~~~~~~~~~l~--~----~s~K~~ 483 (725)
.|+ .+++ .... +..+...+..+. . .-+|+.
T Consensus 272 ~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~l~e~~~~~~sk~a~~l~~d~~~~~al~~~~~~~~~~v~HPKl~ 351 (542)
T COG1111 272 SDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEKLEEEATKGGSKAAKSLLADPYFKRALRLLIRADESGVEHPKLE 351 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHhcccchHHHHHHhcChhhHHHHHHHHHhccccCCCccHH
Confidence 111 0000 0000 000001111111 1 137999
Q ss_pred HHHHHHHHHh--hCCCcEEEEccchhHHHHHHHHHhhcCceEE-EEeC--------CCCHHHHHHHHHHHhCCCCCceEE
Q 004880 484 LLDRLLARLF--ARNHKVLVFSQWTKILDIMEYYFNEKGYEVC-RIDG--------SVRLDERKRQIQDFNDVNSSYRIF 552 (725)
Q Consensus 484 ~L~~ll~~l~--~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~-~l~G--------~~~~~~R~~~i~~F~~~~~~~~v~ 552 (725)
.+.+++.+.+ ..+.|+|||++|+++++.|..+|...|.... ++-| +|++.+..++|++|+. +.+.|
T Consensus 352 ~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~--Ge~nV- 428 (542)
T COG1111 352 KLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRK--GEYNV- 428 (542)
T ss_pred HHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcceeEEeeccccccccccCHHHHHHHHHHHhc--CCceE-
Confidence 9999999887 5678999999999999999999999988775 6666 5999999999999998 45555
Q ss_pred EEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcC
Q 004880 553 LLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSKLKLEHVVIGK 631 (725)
Q Consensus 553 Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~vi~~ 631 (725)
|+||.+|.+|||++.+|.||+|||.-+|-+.+||+||++|. ++=.||-|+++||-|+.-|....+|.+-....+.+
T Consensus 429 LVaTSVgEEGLDIp~vDlVifYEpvpSeIR~IQR~GRTGR~---r~Grv~vLvt~gtrdeayy~~s~rke~~m~e~i~~ 504 (542)
T COG1111 429 LVATSVGEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRK---RKGRVVVLVTEGTRDEAYYYSSRRKEQKMIESIRG 504 (542)
T ss_pred EEEcccccccCCCCcccEEEEecCCcHHHHHHHhhCccccC---CCCeEEEEEecCchHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999994 77789999999999999999999988866665543
No 24
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=100.00 E-value=8.9e-34 Score=322.20 Aligned_cols=266 Identities=22% Similarity=0.342 Sum_probs=199.8
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHh----------------CCCCCCcEEEEcCccHHHHHHHHHHhCCCc-eEEE
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKG----------------NGLHGPYLVIAPLSTLSNWVNEISRFVPSV-SAII 234 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~----------------~~~~~~~LIV~P~sll~~W~~E~~~~~p~~-~v~~ 234 (725)
..|..+++||+||+|||...++....-.. ....|.+|||||.+++.||-.|+.++++.. +++.
T Consensus 372 ~~g~~~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~aIl~QW~~EI~kH~~~~lKv~~ 451 (1394)
T KOG0298|consen 372 KHGKRVQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPNAILMQWFEEIHKHISSLLKVLL 451 (1394)
T ss_pred cCCcceeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcHHHHHHHHHHHHHhccccceEEE
Confidence 34556799999999999998776532211 113578999999999999999999999877 9999
Q ss_pred EeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH---------------------hhhhcCccEEEEccccccC
Q 004880 235 YHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK---------------------YLRHYNWKYLVVDEGHRLK 293 (725)
Q Consensus 235 ~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~---------------------~l~~~~~~~vIvDEaH~ik 293 (725)
|.|-...- .......-.+|||+|||+.++.++-. -|..+.|..|++|||+.+.
T Consensus 452 Y~Girk~~------~~~~~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~qsr~~~~~SPL~~v~wWRIclDEaQMve 525 (1394)
T KOG0298|consen 452 YFGIRKTF------WLSPFELLQYDIVLTTYDILRNELYHTEDFGSDRQLRHQSRYMRPNSPLLMVNWWRICLDEAQMVE 525 (1394)
T ss_pred Eechhhhc------ccCchhhhccCEEEeehHHHHhHhhcccccCChhhhhcccCCCCCCCchHHHHHHHHhhhHHHhhc
Confidence 99965321 11122335899999999999887511 1445569999999999999
Q ss_pred CcchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHH
Q 004880 294 NPKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVA 373 (725)
Q Consensus 294 n~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 373 (725)
...|...+.+..+.+.++|+.||||+|+ +.+|+.||+||.-..|+...+|-+..... ........
T Consensus 526 sssS~~a~M~~rL~~in~W~VTGTPiq~-Iddl~~Ll~fLk~~Pf~~~~~~iq~v~~~--------------~~~ra~~~ 590 (1394)
T KOG0298|consen 526 SSSSAAAEMVRRLHAINRWCVTGTPIQK-IDDLFPLLEFLKLPPFCRPQDFIQTVDKA--------------YQLRAKCE 590 (1394)
T ss_pred chHHHHHHHHHHhhhhceeeecCCchhh-hhhhHHHHHHhcCCCCCChHHHHHHHHHH--------------HHHHhhhh
Confidence 9999999999999999999999999999 99999999999998899988887665321 11113445
Q ss_pred HHHHhhhhhhhheehhhHhh--cCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHh-------h-h-----hcCCcc
Q 004880 374 KLHAILRPFLLRRMKSDVEQ--MLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREK-------V-F-----SAGRGM 438 (725)
Q Consensus 374 ~L~~~l~p~~lRR~k~dv~~--~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~-------~-~-----~~~~~~ 438 (725)
.++.++...+-|+.+.+|.. .+||-.+.+....+++.+..+|+.........+...- . . ......
T Consensus 591 ~~~dl~~q~l~R~~k~~v~~el~~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~~~~~~~~k~~~l~~~sd~~~l~~~~ 670 (1394)
T KOG0298|consen 591 PLLDLFKQLLWRTFKSKVEHELGLPPQTEVVHRLELSAVESHVYREEHFTCVEEFAAAVEKLKRHNLDNSSDLASLSPQL 670 (1394)
T ss_pred hHHHHHHhhhhhhhhHHHHHHhCCCchHHHHHHHHhcchhhhhhHHHHhhHHHHHHHHHHHHHHhccccccccccCChhh
Confidence 67788888999999998876 4788877777788888887777665443332222111 0 0 111223
Q ss_pred hhHHHHHHHHHHHhcCChhh
Q 004880 439 KGKLNNLMVQLRKNCNHPDL 458 (725)
Q Consensus 439 ~~~l~~~l~~Lr~~~~hp~l 458 (725)
...+.+-+.+||++|+||..
T Consensus 671 ~a~i~~~l~rLRq~Cchplv 690 (1394)
T KOG0298|consen 671 LAIILKWLLRLRQACCHPLV 690 (1394)
T ss_pred HHHHHHHHHHHHHhhccccc
Confidence 45677889999999999954
No 25
>PHA02558 uvsW UvsW helicase; Provisional
Probab=100.00 E-value=7.8e-31 Score=295.50 Aligned_cols=338 Identities=16% Similarity=0.203 Sum_probs=233.7
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhC--CC
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFV--PS 229 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~--p~ 229 (725)
...|+|||.+++..++. +.++|+..+||+|||++++.++..+...+ .+++||+||.. ++.||.++|.+|. |.
T Consensus 112 ~~~~r~~Q~~av~~~l~----~~~~il~apTGsGKT~i~~~l~~~~~~~~-~~~vLilvpt~eL~~Q~~~~l~~~~~~~~ 186 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLK----NNRRLLNLPTSAGKSLIQYLLSRYYLENY-EGKVLIIVPTTSLVTQMIDDFVDYRLFPR 186 (501)
T ss_pred cCCCCHHHHHHHHHHHh----cCceEEEeCCCCCHHHHHHHHHHHHHhcC-CCeEEEEECcHHHHHHHHHHHHHhccccc
Confidence 46899999999987764 67799999999999999887766655543 34899999975 8899999999986 33
Q ss_pred ceE-EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC-C
Q 004880 230 VSA-IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI-P 307 (725)
Q Consensus 230 ~~v-~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l-~ 307 (725)
..+ .++.|.... ...+|+|+|++.+.+.....+. ++++||+||||++... .....+..+ +
T Consensus 187 ~~~~~i~~g~~~~--------------~~~~I~VaT~qsl~~~~~~~~~--~~~~iIvDEaH~~~~~--~~~~il~~~~~ 248 (501)
T PHA02558 187 EAMHKIYSGTAKD--------------TDAPIVVSTWQSAVKQPKEWFD--QFGMVIVDECHLFTGK--SLTSIITKLDN 248 (501)
T ss_pred cceeEEecCcccC--------------CCCCEEEeeHHHHhhchhhhcc--ccCEEEEEchhcccch--hHHHHHHhhhc
Confidence 333 344443311 2468999999998765433343 6799999999999753 345555666 5
Q ss_pred CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhhee
Q 004880 308 IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLRRM 387 (725)
Q Consensus 308 ~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~ 387 (725)
+.++++|||||-..... .+.+..++.|-.. +-.
T Consensus 249 ~~~~lGLTATp~~~~~~-~~~~~~~fG~i~~----------------------------------------------~v~ 281 (501)
T PHA02558 249 CKFKFGLTGSLRDGKAN-ILQYVGLFGDIFK----------------------------------------------PVT 281 (501)
T ss_pred cceEEEEeccCCCcccc-HHHHHHhhCCceE----------------------------------------------Eec
Confidence 77899999999543211 1111111111100 000
Q ss_pred hhhHh--hcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccC
Q 004880 388 KSDVE--QMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSD 465 (725)
Q Consensus 388 k~dv~--~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~ 465 (725)
..+.. ..+.+.....+.+..++.....+ .. ..+..
T Consensus 282 ~~~li~~g~l~~~~~~~v~~~~~~~~~~~~---~~-------------------~~~~~--------------------- 318 (501)
T PHA02558 282 TSQLMEEGQVTDLKINSIFLRYPDEDRVKL---KG-------------------EDYQE--------------------- 318 (501)
T ss_pred HHHHHhCCCcCCceEEEEeccCCHHHhhhh---cc-------------------cchHH---------------------
Confidence 01110 11222222333443332211000 00 00000
Q ss_pred CCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCC
Q 004880 466 SCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDV 545 (725)
Q Consensus 466 ~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~ 545 (725)
....+.....+...+.+++..+...+++++||+..+..++.|...|...|+++..++|+++.++|..+++.|++
T Consensus 319 -----~~~~l~~~~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~- 392 (501)
T PHA02558 319 -----EIKYITSHTKRNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEG- 392 (501)
T ss_pred -----HHHHHhccHHHHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhC-
Confidence 00111222346667777777777788999999999999999999999999999999999999999999999986
Q ss_pred CCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCc-eEEEEEecCCCH
Q 004880 546 NSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKP-VHVYRLATAQSV 610 (725)
Q Consensus 546 ~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~-V~Vyrli~~~Ti 610 (725)
+...|++.|++..|+|+|++.+++||+++|+.+...+.|++||++|.|..|+ +.||.|+-.-.+
T Consensus 393 -~~~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR~~R~~~~K~~~~i~D~vD~~~~ 457 (501)
T PHA02558 393 -GKGIIIVASYGVFSTGISIKNLHHVIFAHPSKSKIIVLQSIGRVLRKHGSKSIATVWDIIDDLSV 457 (501)
T ss_pred -CCCeEEEEEcceeccccccccccEEEEecCCcchhhhhhhhhccccCCCCCceEEEEEeeccccc
Confidence 4445655556999999999999999999999999999999999999998776 999999865443
No 26
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.98 E-value=3e-30 Score=285.09 Aligned_cols=367 Identities=20% Similarity=0.262 Sum_probs=266.9
Q ss_pred cccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCC
Q 004880 150 LLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVP 228 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p 228 (725)
......|||||.+++.-+...+..+..|++..++|.|||+.++.++..+... +|||||.. ++.||.+.+.+++.
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~~~-----~Lvlv~~~~L~~Qw~~~~~~~~~ 105 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELKRS-----TLVLVPTKELLDQWAEALKKFLL 105 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhcCC-----EEEEECcHHHHHHHHHHHHHhcC
Confidence 3446789999999998888777668889999999999999999999876654 99999976 78999988888875
Q ss_pred Cc-eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHH-HHHhhhhcCccEEEEccccccCCcchHHHHHHhcC
Q 004880 229 SV-SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSD-ARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI 306 (725)
Q Consensus 229 ~~-~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~-~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l 306 (725)
.. .+..+.|...+- .+ ..|+|+||+++.+. ....+..-+|++||+||+||+...... +.+..+
T Consensus 106 ~~~~~g~~~~~~~~~------------~~-~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~~~--~~~~~~ 170 (442)
T COG1061 106 LNDEIGIYGGGEKEL------------EP-AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSYR--RILELL 170 (442)
T ss_pred CccccceecCceecc------------CC-CcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcHHHH--HHHHhh
Confidence 43 455666654221 01 46999999999885 113334447999999999999765533 233344
Q ss_pred CCCc-EEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 004880 307 PIGN-KLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLR 385 (725)
Q Consensus 307 ~~~~-rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lR 385 (725)
...+ +|+|||||...+...+..+..++. |.+..
T Consensus 171 ~~~~~~LGLTATp~R~D~~~~~~l~~~~g----------------------------------------------~~vy~ 204 (442)
T COG1061 171 SAAYPRLGLTATPEREDGGRIGDLFDLIG----------------------------------------------PIVYE 204 (442)
T ss_pred hcccceeeeccCceeecCCchhHHHHhcC----------------------------------------------CeEee
Confidence 4455 999999996444233333222222 22222
Q ss_pred eehhh-Hh-hcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc
Q 004880 386 RMKSD-VE-QMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF 463 (725)
Q Consensus 386 R~k~d-v~-~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~ 463 (725)
....+ +. ..|.|.....+.+.++......|................ .......+.
T Consensus 205 ~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~------------ 261 (442)
T COG1061 205 VSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGT-----------LRAENEARR------------ 261 (442)
T ss_pred cCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhhhhh-----------hhHHHHHHH------------
Confidence 22222 22 468888889999999998888877664433211100000 000000000
Q ss_pred cCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 004880 464 SDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFN 543 (725)
Q Consensus 464 ~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~ 543 (725)
.......|+..+..++.... ++.+++||++.....+.+...|...|+ +..++|.++..+|..+++.|.
T Consensus 262 ----------~~~~~~~~~~~~~~~~~~~~-~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr 329 (442)
T COG1061 262 ----------IAIASERKIAAVRGLLLKHA-RGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFR 329 (442)
T ss_pred ----------HhhccHHHHHHHHHHHHHhc-CCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHH
Confidence 01122457778888888766 889999999999999999999998888 899999999999999999999
Q ss_pred CCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhc-CCCCc--eEEEEEecCCCHHHHHHHHHHH
Q 004880 544 DVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRI-GQTKP--VHVYRLATAQSVEGRILKRAFS 620 (725)
Q Consensus 544 ~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~Ri-GQ~k~--V~Vyrli~~~TiEe~i~~~~~~ 620 (725)
.+. +. +|++++++.+|+|++.|+++|+..+.-++..+.|++||+.|. ..+.. +..|-+++.++.+..+......
T Consensus 330 ~g~--~~-~lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~ 406 (442)
T COG1061 330 TGG--IK-VLVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIARRRRL 406 (442)
T ss_pred cCC--CC-EEEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccccchhhhhhh
Confidence 843 43 599999999999999999999999999999999999999994 44444 7888888888888877655443
No 27
>PTZ00110 helicase; Provisional
Probab=99.96 E-value=1.7e-27 Score=270.38 Aligned_cols=321 Identities=19% Similarity=0.237 Sum_probs=217.5
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHH-HHHHHHHhC-----CCCCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTI-AFLAHLKGN-----GLHGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qai-ali~~l~~~-----~~~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
.++.|+|..++..++. |.+.|+..+||+|||++.+ .++.++... +....+|||||.. |..|+.+++.+|
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 4799999999988875 8899999999999999864 444454432 1123479999977 668899999998
Q ss_pred CCC--ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcc--hHHHH
Q 004880 227 VPS--VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPK--CKLLK 301 (725)
Q Consensus 227 ~p~--~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~--s~~~~ 301 (725)
... +.+.+.+|........... ....+|+|+|++.+...+.. .+.-..+++|||||||++.... ..+.+
T Consensus 227 ~~~~~i~~~~~~gg~~~~~q~~~l------~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~lViDEAd~mld~gf~~~i~~ 300 (545)
T PTZ00110 227 GASSKIRNTVAYGGVPKRGQIYAL------RRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMGFEPQIRK 300 (545)
T ss_pred hcccCccEEEEeCCCCHHHHHHHH------HcCCCEEEECHHHHHHHHHcCCCChhhCcEEEeehHHhhhhcchHHHHHH
Confidence 653 4454444443333222221 13578999999988766532 1222357899999999987543 23444
Q ss_pred HHhcCC-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhh
Q 004880 302 ELKYIP-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILR 380 (725)
Q Consensus 302 ~l~~l~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~ 380 (725)
.+..++ ....+++|||.- .++-.+. ..+... .
T Consensus 301 il~~~~~~~q~l~~SAT~p----~~v~~l~---------------~~l~~~----------------------------~ 333 (545)
T PTZ00110 301 IVSQIRPDRQTLMWSATWP----KEVQSLA---------------RDLCKE----------------------------E 333 (545)
T ss_pred HHHhCCCCCeEEEEEeCCC----HHHHHHH---------------HHHhcc----------------------------C
Confidence 555554 345689999941 1111100 000000 0
Q ss_pred hhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhh
Q 004880 381 PFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLE 460 (725)
Q Consensus 381 p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~ 460 (725)
|..+.. ..+...........+++
T Consensus 334 ~v~i~v--g~~~l~~~~~i~q~~~~------------------------------------------------------- 356 (545)
T PTZ00110 334 PVHVNV--GSLDLTACHNIKQEVFV------------------------------------------------------- 356 (545)
T ss_pred CEEEEE--CCCccccCCCeeEEEEE-------------------------------------------------------
Confidence 000000 00000000000000000
Q ss_pred hhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHH
Q 004880 461 SAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQ 540 (725)
Q Consensus 461 ~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~ 540 (725)
+....|...|..++..+...+.++||||+....++.|...|...|+++..+||+++..+|..+++
T Consensus 357 ---------------~~~~~k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~ 421 (545)
T PTZ00110 357 ---------------VEEHEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLN 421 (545)
T ss_pred ---------------EechhHHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHH
Confidence 01123556666777766667889999999999999999999999999999999999999999999
Q ss_pred HHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 541 DFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 541 ~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
.|+++ .+. +|++|+++++|||++.+++||+||+|+++..|.||+||++|.|.+- .+|.|++.+
T Consensus 422 ~F~~G--~~~-ILVaTdv~~rGIDi~~v~~VI~~d~P~s~~~yvqRiGRtGR~G~~G--~ai~~~~~~ 484 (545)
T PTZ00110 422 EFKTG--KSP-IMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKG--ASYTFLTPD 484 (545)
T ss_pred HHhcC--CCc-EEEEcchhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccccCCCCc--eEEEEECcc
Confidence 99973 444 5999999999999999999999999999999999999999999764 446667665
No 28
>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=99.96 E-value=5.1e-27 Score=263.15 Aligned_cols=309 Identities=17% Similarity=0.191 Sum_probs=214.7
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCc
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSV 230 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~ 230 (725)
....++|+|.++++.++. +.++++..+||+|||+..+..+ +.. .+..|||+|.. ++.+|...+..+ ++
T Consensus 8 g~~~~r~~Q~~ai~~~l~----g~dvlv~apTGsGKTl~y~lp~--l~~---~~~~lVi~P~~~L~~dq~~~l~~~--gi 76 (470)
T TIGR00614 8 GLSSFRPVQLEVINAVLL----GRDCFVVMPTGGGKSLCYQLPA--LCS---DGITLVISPLISLMEDQVLQLKAS--GI 76 (470)
T ss_pred CCCCCCHHHHHHHHHHHc----CCCEEEEcCCCCcHhHHHHHHH--HHc---CCcEEEEecHHHHHHHHHHHHHHc--CC
Confidence 345899999999998876 7899999999999998754322 222 35799999965 667888888765 34
Q ss_pred eEEEEeCChhhH--HHHHHhcCCCCCCCCCCEEEecHHHHHHHH--HHhh-hhcCccEEEEccccccCCcch-------H
Q 004880 231 SAIIYHGSKKER--DEIRRKHMPRAIGPKFPIVVTSYEVALSDA--RKYL-RHYNWKYLVVDEGHRLKNPKC-------K 298 (725)
Q Consensus 231 ~v~~~~g~~~~r--~~~~~~~~~~~~~~~~~vvItsye~~~~~~--~~~l-~~~~~~~vIvDEaH~ikn~~s-------~ 298 (725)
.+..+.+..... ..+.... ..+.++++++|++.+.... ...+ ...++++|||||||++...+. .
T Consensus 77 ~~~~l~~~~~~~~~~~i~~~~----~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~~~ 152 (470)
T TIGR00614 77 PATFLNSSQSKEQQKNVLTDL----KDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKA 152 (470)
T ss_pred cEEEEeCCCCHHHHHHHHHHH----hcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccCccccccHHHHHH
Confidence 555555554332 2221111 2356889999999876432 1233 345789999999999865332 2
Q ss_pred HHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHh
Q 004880 299 LLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAI 378 (725)
Q Consensus 299 ~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 378 (725)
+......++....++|||||-.....++...+++-.|..+... |
T Consensus 153 l~~l~~~~~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~s------~------------------------------ 196 (470)
T TIGR00614 153 LGSLKQKFPNVPIMALTATASPSVREDILRQLNLKNPQIFCTS------F------------------------------ 196 (470)
T ss_pred HHHHHHHcCCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeCC------C------------------------------
Confidence 2223344567788999999976655666555544333221100 0
Q ss_pred hhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhh
Q 004880 379 LRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDL 458 (725)
Q Consensus 379 l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l 458 (725)
.-|.. ...+.-...
T Consensus 197 ---------------~r~nl-~~~v~~~~~-------------------------------------------------- 210 (470)
T TIGR00614 197 ---------------DRPNL-YYEVRRKTP-------------------------------------------------- 210 (470)
T ss_pred ---------------CCCCc-EEEEEeCCc--------------------------------------------------
Confidence 00100 000000000
Q ss_pred hhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHH
Q 004880 459 LESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQ 538 (725)
Q Consensus 459 ~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~ 538 (725)
..+..+..++.. ...+.+.||||......+.+...|...|+.+..+||+++.++|..+
T Consensus 211 ---------------------~~~~~l~~~l~~-~~~~~~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i 268 (470)
T TIGR00614 211 ---------------------KILEDLLRFIRK-EFKGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDV 268 (470)
T ss_pred ---------------------cHHHHHHHHHHH-hcCCCceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHH
Confidence 011111122221 1346678999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEE
Q 004880 539 IQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVY 602 (725)
Q Consensus 539 i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vy 602 (725)
++.|.+ +.++| |++|.+.|+|||++.+++||+||+|.++..|.|++||++|.|+...+.+|
T Consensus 269 ~~~F~~--g~~~v-LVaT~~~~~GID~p~V~~VI~~~~P~s~~~y~Qr~GRaGR~G~~~~~~~~ 329 (470)
T TIGR00614 269 HHKFQR--DEIQV-VVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLF 329 (470)
T ss_pred HHHHHc--CCCcE-EEEechhhccCCcccceEEEEeCCCCCHHHHHhhhcCcCCCCCCceEEEE
Confidence 999997 44445 89999999999999999999999999999999999999999988775554
No 29
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.96 E-value=1e-26 Score=260.89 Aligned_cols=317 Identities=20% Similarity=0.287 Sum_probs=218.5
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHH-HHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhC---
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTI-AFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFV--- 227 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qai-ali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~--- 227 (725)
-..+.|+|.+++..++. |.+.|+..+||+|||...+ .++..+........+||+||.. +..||.++++++.
T Consensus 24 ~~~~t~iQ~~ai~~~l~----g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~ 99 (460)
T PRK11776 24 YTEMTPIQAQSLPAILA----GKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFI 99 (460)
T ss_pred CCCCCHHHHHHHHHHhc----CCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHhhC
Confidence 34689999999998875 8899999999999998854 4444443332233589999976 6688999888764
Q ss_pred CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcc--hHHHHHHh
Q 004880 228 PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPK--CKLLKELK 304 (725)
Q Consensus 228 p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~--s~~~~~l~ 304 (725)
++..+..++|........... ....+|+|+|++.+...+.. .+.-.++++||+||||++-+.. ..+...+.
T Consensus 100 ~~~~v~~~~Gg~~~~~~~~~l------~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l~~g~~~~l~~i~~ 173 (460)
T PRK11776 100 PNIKVLTLCGGVPMGPQIDSL------EHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDMGFQDAIDAIIR 173 (460)
T ss_pred CCcEEEEEECCCChHHHHHHh------cCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHhCcCcHHHHHHHHH
Confidence 567888888766544333222 14678999999998766532 2223357899999999986543 33444555
Q ss_pred cCCC-CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 305 YIPI-GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 305 ~l~~-~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
.++. ...+++|||+-. .+.. +...+.. .|..
T Consensus 174 ~~~~~~q~ll~SAT~~~-~~~~------------------l~~~~~~-----------------------------~~~~ 205 (460)
T PRK11776 174 QAPARRQTLLFSATYPE-GIAA------------------ISQRFQR-----------------------------DPVE 205 (460)
T ss_pred hCCcccEEEEEEecCcH-HHHH------------------HHHHhcC-----------------------------CCEE
Confidence 5543 456999999621 1111 0000000 0000
Q ss_pred hheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc
Q 004880 384 LRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF 463 (725)
Q Consensus 384 lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~ 463 (725)
+.- ......+......+.++
T Consensus 206 i~~---~~~~~~~~i~~~~~~~~--------------------------------------------------------- 225 (460)
T PRK11776 206 VKV---ESTHDLPAIEQRFYEVS--------------------------------------------------------- 225 (460)
T ss_pred EEE---CcCCCCCCeeEEEEEeC---------------------------------------------------------
Confidence 000 00000111111111110
Q ss_pred cCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 004880 464 SDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFN 543 (725)
Q Consensus 464 ~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~ 543 (725)
...|+..|..++... .+.++||||+....++.+...|...|+.+..+||++++.+|+.+++.|+
T Consensus 226 --------------~~~k~~~l~~ll~~~--~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~ 289 (460)
T PRK11776 226 --------------PDERLPALQRLLLHH--QPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFA 289 (460)
T ss_pred --------------cHHHHHHHHHHHHhc--CCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHH
Confidence 011445555555432 4568999999999999999999999999999999999999999999999
Q ss_pred CCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 544 DVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 544 ~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
++ .++ +|++|+++++|||++++++||+||.|.++..|.||+||++|.|+.- .+|.|++.+
T Consensus 290 ~g--~~~-vLVaTdv~~rGiDi~~v~~VI~~d~p~~~~~yiqR~GRtGR~g~~G--~ai~l~~~~ 349 (460)
T PRK11776 290 NR--SCS-VLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKG--LALSLVAPE 349 (460)
T ss_pred cC--CCc-EEEEecccccccchhcCCeEEEecCCCCHhHhhhhcccccCCCCcc--eEEEEEchh
Confidence 74 444 4999999999999999999999999999999999999999999654 456666654
No 30
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.96 E-value=3.2e-27 Score=239.41 Aligned_cols=325 Identities=20% Similarity=0.253 Sum_probs=236.2
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhCCCCCCcEEEEcCccHHHHH-HHHHHhCC--
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGNGLHGPYLVIAPLSTLSNWV-NEISRFVP-- 228 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~~~~~~~LIV~P~sll~~W~-~E~~~~~p-- 228 (725)
..++.+.|.+++..++. |+.+|.+.++|+|||.. +|.++..|+.....-..||++|..-+.+.. ..|+.+..
T Consensus 81 ~~~PT~IQ~~aiP~~L~----g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~i 156 (476)
T KOG0330|consen 81 WKKPTKIQSEAIPVALG----GRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGI 156 (476)
T ss_pred cCCCchhhhhhcchhhC----CCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhcccc
Confidence 56788999999999986 88999999999999999 788889999876666789999998665544 45666643
Q ss_pred CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH--hhhhcCccEEEEccccccCCcc--hHHHHHHh
Q 004880 229 SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK--YLRHYNWKYLVVDEGHRLKNPK--CKLLKELK 304 (725)
Q Consensus 229 ~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~--~l~~~~~~~vIvDEaH~ikn~~--s~~~~~l~ 304 (725)
++++.++.|.......... ...+.+|+|.|++.+...+.+ .|.--...++|+|||+++.|.. -.+...|+
T Consensus 157 glr~~~lvGG~~m~~q~~~------L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADrlLd~dF~~~ld~ILk 230 (476)
T KOG0330|consen 157 GLRVAVLVGGMDMMLQANQ------LSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLLDMDFEEELDYILK 230 (476)
T ss_pred CeEEEEEecCchHHHHHHH------hhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchHHhhhhhhhHHHHHHHHH
Confidence 5677777777655443222 225778999999999887642 2333346799999999998754 56777777
Q ss_pred cCCCCcE-EEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 305 YIPIGNK-LLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 305 ~l~~~~r-llLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
.++..++ +|.|||-- .+... |..
T Consensus 231 ~ip~erqt~LfsATMt-~kv~k-------------------------------------------------L~r------ 254 (476)
T KOG0330|consen 231 VIPRERQTFLFSATMT-KKVRK-------------------------------------------------LQR------ 254 (476)
T ss_pred hcCccceEEEEEeecc-hhhHH-------------------------------------------------HHh------
Confidence 7776555 67788831 11111 100
Q ss_pred hheehhhHhhcCCCceE-EEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhh
Q 004880 384 LRRMKSDVEQMLPRKKE-IILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESA 462 (725)
Q Consensus 384 lRR~k~dv~~~lP~k~e-~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~ 462 (725)
..+ .-|.+.. -..|+.++ .|.+- |++
T Consensus 255 -----asl--~~p~~v~~s~ky~tv~---------------------------------------~lkQ~----ylf--- 281 (476)
T KOG0330|consen 255 -----ASL--DNPVKVAVSSKYQTVD---------------------------------------HLKQT----YLF--- 281 (476)
T ss_pred -----hcc--CCCeEEeccchhcchH---------------------------------------Hhhhh----eEe---
Confidence 000 0111100 00001000 00000 000
Q ss_pred ccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHH
Q 004880 463 FSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDF 542 (725)
Q Consensus 463 ~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F 542 (725)
+...-|-..|..+|.+. .|..+||||+...+.+.+.-.|+..|+.+..++|.|++..|...++.|
T Consensus 282 -------------v~~k~K~~yLV~ll~e~--~g~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~F 346 (476)
T KOG0330|consen 282 -------------VPGKDKDTYLVYLLNEL--AGNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKF 346 (476)
T ss_pred -------------ccccccchhHHHHHHhh--cCCcEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHH
Confidence 01123556677777765 468899999999999999999999999999999999999999999999
Q ss_pred hCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHH
Q 004880 543 NDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRA 618 (725)
Q Consensus 543 ~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~ 618 (725)
+++.-+ +|++|+++++|+|++.+|.||+||.|-+...|++|.||+.|.| ++-.+..|++. .|-..+++.
T Consensus 347 k~~~r~---iLv~TDVaSRGLDip~Vd~VVNyDiP~~skDYIHRvGRtaRaG--rsG~~ItlVtq--yDve~~qrI 415 (476)
T KOG0330|consen 347 KAGARS---ILVCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAG--RSGKAITLVTQ--YDVELVQRI 415 (476)
T ss_pred hccCCc---EEEecchhcccCCCCCceEEEecCCCCcHHHHHHHcccccccC--CCcceEEEEeh--hhhHHHHHH
Confidence 984333 6999999999999999999999999999999999999999999 77788889998 555555554
No 31
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.96 E-value=1.8e-26 Score=256.37 Aligned_cols=442 Identities=19% Similarity=0.217 Sum_probs=258.2
Q ss_pred cccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCC
Q 004880 150 LLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVP 228 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p 228 (725)
+.....||+||.+-+.-.+ |.|.|+|.+||+|||.+|+-++...++..+.+++++.+|.. ++.|....+..++-
T Consensus 57 ~p~~~~lR~YQ~eivq~AL-----gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~ 131 (746)
T KOG0354|consen 57 YPTNLELRNYQEELVQPAL-----GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLI 131 (746)
T ss_pred ccCcccccHHHHHHhHHhh-----cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccC
Confidence 4456799999999998887 89999999999999999999998888877889999999977 66777788888775
Q ss_pred CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh-h-cCccEEEEccccccC-C-cchHHHHHHh
Q 004880 229 SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR-H-YNWKYLVVDEGHRLK-N-PKCKLLKELK 304 (725)
Q Consensus 229 ~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~-~-~~~~~vIvDEaH~ik-n-~~s~~~~~l~ 304 (725)
+..+....|+...+..... .-...+|++.|++.+.+++.+... . -.|.++|+||||+.. | +.+...+.+.
T Consensus 132 ~~~~T~~l~~~~~~~~r~~------i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn~~Y~~Vmr~~l 205 (746)
T KOG0354|consen 132 PYSVTGQLGDTVPRSNRGE------IVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKNHPYNNIMREYL 205 (746)
T ss_pred cccceeeccCccCCCchhh------hhcccceEEeChHhhhhhcccccccccceEEEEEEcccccccccccHHHHHHHHH
Confidence 5666666665443322111 113568999999999998744322 2 348999999999985 3 4455665666
Q ss_pred cCCC--CcEEEEeccCCCCChHHhhhhhccccCCCCCC--HHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhh
Q 004880 305 YIPI--GNKLLLTGTPLQNNLAELWSLLHFILPDIFSS--LEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILR 380 (725)
Q Consensus 305 ~l~~--~~rllLTgTP~~n~~~el~sll~~l~p~~~~~--~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~ 380 (725)
..+. ...|+|||||= ++.....+.+.=|.-. +.- .......|..-......... + .......-..+..+++
T Consensus 206 ~~k~~~~qILgLTASpG-~~~~~v~~~I~~L~as-ldvr~~ssi~~~y~~lr~~~~i~v~--~-~~~~~~~~~~f~~~i~ 280 (746)
T KOG0354|consen 206 DLKNQGNQILGLTASPG-SKLEQVQNVIDNLCAS-LDVRTESSIKSNYEELREHVQIPVD--L-SLCERDIEDPFGMIIE 280 (746)
T ss_pred HhhhccccEEEEecCCC-ccHHHHHHHHHhhhee-cccchhhhhhhhHHHHhccCcccCc--H-HHhhhhhhhhHHHHHH
Confidence 5543 36799999997 5555555444433332 110 00111111100000000000 0 0011123344555666
Q ss_pred hhhhheehhhHhhcCCCceE-EEEE------------ecCCHHHHH-HHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHH
Q 004880 381 PFLLRRMKSDVEQMLPRKKE-IILY------------ATMTEHQRN-FQDHLINKTLENHLREKVFSAGRGMKGKLNNLM 446 (725)
Q Consensus 381 p~~lRR~k~dv~~~lP~k~e-~~v~------------~~ls~~q~~-~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l 446 (725)
|++.+-....+ .+-.. ...| -.....|+. +|-..+.......+... +.. +...+
T Consensus 281 p~l~~l~~~~l----~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~------gir--~~~~l 348 (746)
T KOG0354|consen 281 PLLQQLQEEGL----IEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISD------GIR--FVDAL 348 (746)
T ss_pred HHHHHHHhcCc----cccccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhc------chh--hHHHH
Confidence 66543221111 11000 0000 001111221 11111100000000000 000 00000
Q ss_pred HHHHH------------hc----CChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhh--CCCcEEEEccchhH
Q 004880 447 VQLRK------------NC----NHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFA--RNHKVLVFSQWTKI 508 (725)
Q Consensus 447 ~~Lr~------------~~----~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~--~~~kvlIFsq~~~~ 508 (725)
..+.. .+ .++.+..... .-..... +.-...+|++.|.+++..... ...|+|||+.++..
T Consensus 349 ~~~~~f~~e~~~~k~~~~~~e~~~~~~~~~~m~-~~~~l~~--~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~s 425 (746)
T KOG0354|consen 349 DYLEDFYEEVALKKYLKLELEARLIRNFTENMN-ELEHLSL--DPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRES 425 (746)
T ss_pred hhhhhhccccchhHHHHHHhcchhhHHHHHHHH-hhhhhhc--CCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHH
Confidence 00000 00 0111000000 0000000 000125799999999887664 45799999999999
Q ss_pred HHHHHHHHhh---cCceEEEEeC--------CCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCC
Q 004880 509 LDIMEYYFNE---KGYEVCRIDG--------SVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSD 577 (725)
Q Consensus 509 ld~l~~~L~~---~g~~~~~l~G--------~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~ 577 (725)
++.|..+|.. .|++...+-| +|++.+.+++++.|++| .++| |++|.+|.+|||+..||.||.||..
T Consensus 426 a~~l~~~l~~~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G--~~Nv-LVATSV~EEGLDI~ec~lVIcYd~~ 502 (746)
T KOG0354|consen 426 ALALKKWLLQLHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDG--EINV-LVATSVAEEGLDIGECNLVICYDYS 502 (746)
T ss_pred HHHHHHHHHhhhhcccccceeeeccccccccccCHHHHHHHHHHHhCC--CccE-EEEecchhccCCcccccEEEEecCC
Confidence 9999999883 2556555655 68889999999999984 4444 9999999999999999999999999
Q ss_pred CCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHH-HHHHHHHHHHHhcC
Q 004880 578 WNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKR-AFSKLKLEHVVIGK 631 (725)
Q Consensus 578 wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~-~~~K~~l~~~vi~~ 631 (725)
-||...+||+|| +|- +.=.++.|.+ ++ +..-+++ +..|..+....+..
T Consensus 503 snpIrmIQrrGR-gRa---~ns~~vll~t-~~-~~~~~E~~~~~~e~lm~~~i~~ 551 (746)
T KOG0354|consen 503 SNPIRMVQRRGR-GRA---RNSKCVLLTT-GS-EVIEFERNNLAKEKLMNQTISK 551 (746)
T ss_pred ccHHHHHHHhcc-ccc---cCCeEEEEEc-ch-hHHHHHHHHHhHHHHHHHHHHH
Confidence 999999999999 774 4445555555 43 4433333 33455555666543
No 32
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.95 E-value=1.5e-26 Score=258.50 Aligned_cols=326 Identities=17% Similarity=0.244 Sum_probs=214.3
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHH-HHHHHhCC------CCCCcEEEEcCc-cHHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAF-LAHLKGNG------LHGPYLVIAPLS-TLSNWVNEIS 224 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaial-i~~l~~~~------~~~~~LIV~P~s-ll~~W~~E~~ 224 (725)
...++|+|.+++..++. +.+.|+..+||+|||+..+.. +..+.... ....+|||||.. +..||.+++.
T Consensus 21 ~~~pt~iQ~~ai~~il~----g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~ 96 (456)
T PRK10590 21 YREPTPIQQQAIPAVLE----GRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVR 96 (456)
T ss_pred CCCCCHHHHHHHHHHhC----CCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHH
Confidence 35789999999998875 889999999999999986544 44443321 112589999976 6688999998
Q ss_pred HhCC--CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcc--hHH
Q 004880 225 RFVP--SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPK--CKL 299 (725)
Q Consensus 225 ~~~p--~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~--s~~ 299 (725)
.+.. .+.+..+.|........... ...++|+|+|++.+...... .+...+.++|||||||++-... ..+
T Consensus 97 ~~~~~~~~~~~~~~gg~~~~~~~~~l------~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViDEah~ll~~~~~~~i 170 (456)
T PRK10590 97 DYSKYLNIRSLVVFGGVSINPQMMKL------RGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMGFIHDI 170 (456)
T ss_pred HHhccCCCEEEEEECCcCHHHHHHHH------cCCCcEEEEChHHHHHHHHcCCcccccceEEEeecHHHHhccccHHHH
Confidence 8754 35555556554433222211 24679999999998765422 2233457899999999986543 233
Q ss_pred HHHHhcCCCC-cEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHh
Q 004880 300 LKELKYIPIG-NKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAI 378 (725)
Q Consensus 300 ~~~l~~l~~~-~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 378 (725)
...+..++.. ..+++|||+-. ...++. .++.
T Consensus 171 ~~il~~l~~~~q~l~~SAT~~~-~~~~l~------------------~~~~----------------------------- 202 (456)
T PRK10590 171 RRVLAKLPAKRQNLLFSATFSD-DIKALA------------------EKLL----------------------------- 202 (456)
T ss_pred HHHHHhCCccCeEEEEeCCCcH-HHHHHH------------------HHHc-----------------------------
Confidence 4445555443 46999999621 111111 0000
Q ss_pred hhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhh
Q 004880 379 LRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDL 458 (725)
Q Consensus 379 l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l 458 (725)
-.|..+.-..... ..+.......++.
T Consensus 203 ~~~~~i~~~~~~~--~~~~i~~~~~~~~---------------------------------------------------- 228 (456)
T PRK10590 203 HNPLEIEVARRNT--ASEQVTQHVHFVD---------------------------------------------------- 228 (456)
T ss_pred CCCeEEEEecccc--cccceeEEEEEcC----------------------------------------------------
Confidence 0000000000000 0000111111110
Q ss_pred hhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHH
Q 004880 459 LESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQ 538 (725)
Q Consensus 459 ~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~ 538 (725)
...|..++..++.. ....++||||+.....+.|...|...|+.+..+||+++..+|..+
T Consensus 229 -------------------~~~k~~~l~~l~~~--~~~~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~ 287 (456)
T PRK10590 229 -------------------KKRKRELLSQMIGK--GNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRA 287 (456)
T ss_pred -------------------HHHHHHHHHHHHHc--CCCCcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHH
Confidence 00122223333321 234689999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHH
Q 004880 539 IQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRA 618 (725)
Q Consensus 539 i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~ 618 (725)
++.|.+ +.++ +|++|+++++|||++.+++||+||+|.++..|.|++||++|.|.+..+ +.|++.+ |..++...
T Consensus 288 l~~F~~--g~~~-iLVaTdv~~rGiDip~v~~VI~~~~P~~~~~yvqR~GRaGR~g~~G~a--i~l~~~~--d~~~~~~i 360 (456)
T PRK10590 288 LADFKS--GDIR-VLVATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEA--LSLVCVD--EHKLLRDI 360 (456)
T ss_pred HHHHHc--CCCc-EEEEccHHhcCCCcccCCEEEEeCCCCCHHHhhhhccccccCCCCeeE--EEEecHH--HHHHHHHH
Confidence 999997 3444 499999999999999999999999999999999999999999976543 3344433 44444433
No 33
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.95 E-value=9.6e-27 Score=258.29 Aligned_cols=316 Identities=16% Similarity=0.200 Sum_probs=212.9
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHH-HHHHHHhCC-------CCCCcEEEEcCc-cHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIA-FLAHLKGNG-------LHGPYLVIAPLS-TLSNWVNEI 223 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaia-li~~l~~~~-------~~~~~LIV~P~s-ll~~W~~E~ 223 (725)
-..+.|+|.+++..++. |.+.|+..++|+|||+..+. ++..+.... ....+||+||.. +..||.+++
T Consensus 28 ~~~pt~iQ~~aip~il~----g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~ 103 (423)
T PRK04837 28 FHNCTPIQALALPLTLA----GRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADA 103 (423)
T ss_pred CCCCCHHHHHHHHHHhC----CCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHH
Confidence 34788999999998875 88999999999999998654 344443321 123589999977 668888888
Q ss_pred HHhCC--CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcc--hH
Q 004880 224 SRFVP--SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPK--CK 298 (725)
Q Consensus 224 ~~~~p--~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~--s~ 298 (725)
..+.. ++.+..++|........... ....+|+|+|++.+...+.. .+.-..+.+|||||||++.+.. ..
T Consensus 104 ~~l~~~~~~~v~~~~gg~~~~~~~~~l------~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~lViDEad~l~~~~f~~~ 177 (423)
T PRK04837 104 EPLAQATGLKLGLAYGGDGYDKQLKVL------ESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDLGFIKD 177 (423)
T ss_pred HHHhccCCceEEEEECCCCHHHHHHHh------cCCCCEEEECHHHHHHHHHcCCcccccccEEEEecHHHHhhcccHHH
Confidence 77753 46677777655433322211 13578999999998766532 2333467899999999986533 23
Q ss_pred HHHHHhcCCC---CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHH
Q 004880 299 LLKELKYIPI---GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKL 375 (725)
Q Consensus 299 ~~~~l~~l~~---~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 375 (725)
+...+..++. ...+++|||.-.+ ..++.. .++
T Consensus 178 i~~i~~~~~~~~~~~~~l~SAT~~~~-~~~~~~--~~~------------------------------------------ 212 (423)
T PRK04837 178 IRWLFRRMPPANQRLNMLFSATLSYR-VRELAF--EHM------------------------------------------ 212 (423)
T ss_pred HHHHHHhCCCccceeEEEEeccCCHH-HHHHHH--HHC------------------------------------------
Confidence 3334444432 3357889996211 111000 000
Q ss_pred HHhhhhhhhheehhhHhhcCCCc-eEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcC
Q 004880 376 HAILRPFLLRRMKSDVEQMLPRK-KEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCN 454 (725)
Q Consensus 376 ~~~l~p~~lRR~k~dv~~~lP~k-~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~ 454 (725)
-.|..+. .... ...... ....+++
T Consensus 213 ---~~p~~i~-v~~~--~~~~~~i~~~~~~~------------------------------------------------- 237 (423)
T PRK04837 213 ---NNPEYVE-VEPE--QKTGHRIKEELFYP------------------------------------------------- 237 (423)
T ss_pred ---CCCEEEE-EcCC--CcCCCceeEEEEeC-------------------------------------------------
Confidence 0000000 0000 000000 0000000
Q ss_pred ChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHH
Q 004880 455 HPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDE 534 (725)
Q Consensus 455 hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~ 534 (725)
....|+..|..++.. ....++||||+....++.+...|...|+++..++|+++..+
T Consensus 238 ----------------------~~~~k~~~l~~ll~~--~~~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~ 293 (423)
T PRK04837 238 ----------------------SNEEKMRLLQTLIEE--EWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKK 293 (423)
T ss_pred ----------------------CHHHHHHHHHHHHHh--cCCCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhH
Confidence 012255555555543 24578999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 535 RKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 535 R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
|..+++.|+++ .++ +|++|+++++|||++.+++||+||+|+++..|.||+||++|.|+.-. ++.|++.
T Consensus 294 R~~~l~~F~~g--~~~-vLVaTdv~~rGiDip~v~~VI~~d~P~s~~~yiqR~GR~gR~G~~G~--ai~~~~~ 361 (423)
T PRK04837 294 RLRILEEFTRG--DLD-ILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGH--SISLACE 361 (423)
T ss_pred HHHHHHHHHcC--CCc-EEEEechhhcCCCccccCEEEEeCCCCchhheEeccccccCCCCCee--EEEEeCH
Confidence 99999999974 444 49999999999999999999999999999999999999999996644 4555655
No 34
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.95 E-value=3.7e-26 Score=258.62 Aligned_cols=317 Identities=15% Similarity=0.177 Sum_probs=213.3
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHH-HHHHHHhC-------CCCCCcEEEEcCc-cHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIA-FLAHLKGN-------GLHGPYLVIAPLS-TLSNWVNEI 223 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaia-li~~l~~~-------~~~~~~LIV~P~s-ll~~W~~E~ 223 (725)
-..++|+|..++..++. |.+.|+..+||+|||+..+. ++.++... +....+|||+|.. +..|+.+++
T Consensus 141 ~~~ptpiQ~~aip~il~----g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~ 216 (518)
T PLN00206 141 YEFPTPIQMQAIPAALS----GRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQA 216 (518)
T ss_pred CCCCCHHHHHHHHHHhc----CCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHH
Confidence 35799999999998875 88999999999999998654 44444321 1234689999977 667788888
Q ss_pred HHhCCC--ceEE-EEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCc--ch
Q 004880 224 SRFVPS--VSAI-IYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNP--KC 297 (725)
Q Consensus 224 ~~~~p~--~~v~-~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~--~s 297 (725)
..+... +.+. ++.|...... +... ....+|+|+|++.+...+.. .+...+..+||+||||++... ..
T Consensus 217 ~~l~~~~~~~~~~~~gG~~~~~q-~~~l------~~~~~IiV~TPgrL~~~l~~~~~~l~~v~~lViDEad~ml~~gf~~ 289 (518)
T PLN00206 217 KVLGKGLPFKTALVVGGDAMPQQ-LYRI------QQGVELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLERGFRD 289 (518)
T ss_pred HHHhCCCCceEEEEECCcchHHH-HHHh------cCCCCEEEECHHHHHHHHHcCCccchheeEEEeecHHHHhhcchHH
Confidence 877543 3444 4444433322 2211 13578999999988665432 222334689999999998643 34
Q ss_pred HHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHH
Q 004880 298 KLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHA 377 (725)
Q Consensus 298 ~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~ 377 (725)
.+.+.+..++....+++|||.-+ .+.. +..++..
T Consensus 290 ~i~~i~~~l~~~q~l~~SATl~~-~v~~------------------l~~~~~~--------------------------- 323 (518)
T PLN00206 290 QVMQIFQALSQPQVLLFSATVSP-EVEK------------------FASSLAK--------------------------- 323 (518)
T ss_pred HHHHHHHhCCCCcEEEEEeeCCH-HHHH------------------HHHHhCC---------------------------
Confidence 45566667777888999999621 1111 1111100
Q ss_pred hhhhhhhheehhhHhhcCCCc--eEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCC
Q 004880 378 ILRPFLLRRMKSDVEQMLPRK--KEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNH 455 (725)
Q Consensus 378 ~l~p~~lRR~k~dv~~~lP~k--~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~h 455 (725)
.+..+.... ...|.. ....+++.-
T Consensus 324 --~~~~i~~~~----~~~~~~~v~q~~~~~~~------------------------------------------------ 349 (518)
T PLN00206 324 --DIILISIGN----PNRPNKAVKQLAIWVET------------------------------------------------ 349 (518)
T ss_pred --CCEEEEeCC----CCCCCcceeEEEEeccc------------------------------------------------
Confidence 000000000 001111 111122110
Q ss_pred hhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhh-cCceEEEEeCCCCHHH
Q 004880 456 PDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNE-KGYEVCRIDGSVRLDE 534 (725)
Q Consensus 456 p~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~-~g~~~~~l~G~~~~~~ 534 (725)
..|...|.+++........++|||++.....+.+...|.. .|+++..+||+++..+
T Consensus 350 -----------------------~~k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~e 406 (518)
T PLN00206 350 -----------------------KQKKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKE 406 (518)
T ss_pred -----------------------hhHHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHH
Confidence 1122333444443333346899999999999999999975 5999999999999999
Q ss_pred HHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 535 RKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 535 R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
|..+++.|.++ .++| |++|+++++|||++.+++||+||+|.++..|.||+||++|.|.. -.++.|++.+
T Consensus 407 R~~il~~Fr~G--~~~I-LVaTdvl~rGiDip~v~~VI~~d~P~s~~~yihRiGRaGR~g~~--G~ai~f~~~~ 475 (518)
T PLN00206 407 RREVMKSFLVG--EVPV-IVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEK--GTAIVFVNEE 475 (518)
T ss_pred HHHHHHHHHCC--CCCE-EEEecHhhccCCcccCCEEEEeCCCCCHHHHHHhccccccCCCC--eEEEEEEchh
Confidence 99999999974 4444 99999999999999999999999999999999999999999965 3455566654
No 35
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.95 E-value=3.4e-26 Score=257.41 Aligned_cols=319 Identities=18% Similarity=0.257 Sum_probs=213.0
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHH-HHHHHHHhCCC-------CCCcEEEEcCc-cHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTI-AFLAHLKGNGL-------HGPYLVIAPLS-TLSNWVNEI 223 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qai-ali~~l~~~~~-------~~~~LIV~P~s-ll~~W~~E~ 223 (725)
-..++|||.+++..++. |.+.|++..+|+|||+..+ .++..+..... ....|||+|.. +..||.+.+
T Consensus 107 ~~~~~~iQ~~ai~~~~~----G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~ 182 (475)
T PRK01297 107 FPYCTPIQAQVLGYTLA----GHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDA 182 (475)
T ss_pred CCCCCHHHHHHHHHHhC----CCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHH
Confidence 35799999999988765 8899999999999998854 44455543211 34689999976 667888888
Q ss_pred HHhCC--CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcc--hH
Q 004880 224 SRFVP--SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPK--CK 298 (725)
Q Consensus 224 ~~~~p--~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~--s~ 298 (725)
..+.. ++.+..++|........+.. .....+|+|+|++++...... .+.-.+.++|||||+|++.+.. ..
T Consensus 183 ~~l~~~~~~~v~~~~gg~~~~~~~~~~-----~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViDEah~l~~~~~~~~ 257 (475)
T PRK01297 183 AALTKYTGLNVMTFVGGMDFDKQLKQL-----EARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDMGFIPQ 257 (475)
T ss_pred HHhhccCCCEEEEEEccCChHHHHHHH-----hCCCCCEEEECHHHHHHHHHcCCcccccCceEEechHHHHHhcccHHH
Confidence 87754 46677777764433222221 113578999999998654322 1122246899999999997543 22
Q ss_pred HHHHHhcCC---CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHH
Q 004880 299 LLKELKYIP---IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKL 375 (725)
Q Consensus 299 ~~~~l~~l~---~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 375 (725)
+.+.+..+. ....+++|||.-. ++.++.. .+.
T Consensus 258 l~~i~~~~~~~~~~q~i~~SAT~~~-~~~~~~~------------------~~~-------------------------- 292 (475)
T PRK01297 258 VRQIIRQTPRKEERQTLLFSATFTD-DVMNLAK------------------QWT-------------------------- 292 (475)
T ss_pred HHHHHHhCCCCCCceEEEEEeecCH-HHHHHHH------------------Hhc--------------------------
Confidence 334444443 3457999999522 1111110 000
Q ss_pred HHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCC
Q 004880 376 HAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNH 455 (725)
Q Consensus 376 ~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~h 455 (725)
..|..+.-....+ ..+.....+++.
T Consensus 293 ---~~~~~v~~~~~~~---~~~~~~~~~~~~------------------------------------------------- 317 (475)
T PRK01297 293 ---TDPAIVEIEPENV---ASDTVEQHVYAV------------------------------------------------- 317 (475)
T ss_pred ---cCCEEEEeccCcC---CCCcccEEEEEe-------------------------------------------------
Confidence 0000000000000 000000111100
Q ss_pred hhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHH
Q 004880 456 PDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDER 535 (725)
Q Consensus 456 p~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R 535 (725)
..+.|...|..++.. ....++||||+....++.+...|...|+.+..++|+++..+|
T Consensus 318 ---------------------~~~~k~~~l~~ll~~--~~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R 374 (475)
T PRK01297 318 ---------------------AGSDKYKLLYNLVTQ--NPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKR 374 (475)
T ss_pred ---------------------cchhHHHHHHHHHHh--cCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHH
Confidence 012244444444432 234689999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 536 KRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 536 ~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
.++++.|+++ .++ +|++|+++++|||+.++++||+||+|+++..|.|+.||++|.|+.-. ++.|++.+
T Consensus 375 ~~~~~~Fr~G--~~~-vLvaT~~l~~GIDi~~v~~VI~~~~P~s~~~y~Qr~GRaGR~g~~g~--~i~~~~~~ 442 (475)
T PRK01297 375 IKTLEGFREG--KIR-VLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGV--SISFAGED 442 (475)
T ss_pred HHHHHHHhCC--CCc-EEEEccccccCCcccCCCEEEEeCCCCCHHHHHHhhCccCCCCCCce--EEEEecHH
Confidence 9999999974 444 48999999999999999999999999999999999999999997654 44455543
No 36
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.95 E-value=4.8e-26 Score=259.36 Aligned_cols=317 Identities=16% Similarity=0.210 Sum_probs=213.6
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHH-HHHHHhCC-------CCCCcEEEEcCc-cHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAF-LAHLKGNG-------LHGPYLVIAPLS-TLSNWVNEI 223 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaial-i~~l~~~~-------~~~~~LIV~P~s-ll~~W~~E~ 223 (725)
-..+.|.|..++..++. |.+.|+..++|+|||+..+.. +..+.... ....+|||||.. +..|+.+.+
T Consensus 29 ~~~ptpiQ~~~ip~~l~----G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~ 104 (572)
T PRK04537 29 FTRCTPIQALTLPVALP----GGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDA 104 (572)
T ss_pred CCCCCHHHHHHHHHHhC----CCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHH
Confidence 35789999999998875 889999999999999986554 44443211 124699999977 668898999
Q ss_pred HHhCC--CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH--hhhhcCccEEEEccccccCCcc--h
Q 004880 224 SRFVP--SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK--YLRHYNWKYLVVDEGHRLKNPK--C 297 (725)
Q Consensus 224 ~~~~p--~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~--~l~~~~~~~vIvDEaH~ikn~~--s 297 (725)
.+|.. ++.+..++|........... ....+|+|+|++.+...+.. .+.....++|||||||++-... .
T Consensus 105 ~~l~~~~~i~v~~l~Gg~~~~~q~~~l------~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lViDEAh~lld~gf~~ 178 (572)
T PRK04537 105 VKFGADLGLRFALVYGGVDYDKQRELL------QQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIK 178 (572)
T ss_pred HHHhccCCceEEEEECCCCHHHHHHHH------hCCCCEEEECHHHHHHHHHhccccchhheeeeEecCHHHHhhcchHH
Confidence 88864 35666667655433221111 13578999999998776532 2333456899999999986432 2
Q ss_pred HHHHHHhcCC---CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHH
Q 004880 298 KLLKELKYIP---IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAK 374 (725)
Q Consensus 298 ~~~~~l~~l~---~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 374 (725)
.+...+..++ ....+++|||.-. .+.++.. .++.
T Consensus 179 ~i~~il~~lp~~~~~q~ll~SATl~~-~v~~l~~-----------------~~l~------------------------- 215 (572)
T PRK04537 179 DIRFLLRRMPERGTRQTLLFSATLSH-RVLELAY-----------------EHMN------------------------- 215 (572)
T ss_pred HHHHHHHhcccccCceEEEEeCCccH-HHHHHHH-----------------HHhc-------------------------
Confidence 3334444444 3457899999521 1111100 0000
Q ss_pred HHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcC
Q 004880 375 LHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCN 454 (725)
Q Consensus 375 L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~ 454 (725)
.|..+...... ..+......++..-
T Consensus 216 -----~p~~i~v~~~~---~~~~~i~q~~~~~~----------------------------------------------- 240 (572)
T PRK04537 216 -----EPEKLVVETET---ITAARVRQRIYFPA----------------------------------------------- 240 (572)
T ss_pred -----CCcEEEecccc---ccccceeEEEEecC-----------------------------------------------
Confidence 00000000000 00011111111100
Q ss_pred ChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHH
Q 004880 455 HPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDE 534 (725)
Q Consensus 455 hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~ 534 (725)
...|+..|..++.. ..+.++||||+....++.|.+.|...|+.+..+||+++..+
T Consensus 241 -----------------------~~~k~~~L~~ll~~--~~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~e 295 (572)
T PRK04537 241 -----------------------DEEKQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKK 295 (572)
T ss_pred -----------------------HHHHHHHHHHHHhc--ccCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHH
Confidence 01234444444432 35679999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 535 RKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 535 R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
|..+++.|+++ .++ +|++|+++++|||++.+++||+||.||++..|.|++||++|.|..-.+ +.|++.
T Consensus 296 R~~il~~Fr~G--~~~-VLVaTdv~arGIDip~V~~VInyd~P~s~~~yvqRiGRaGR~G~~G~a--i~~~~~ 363 (572)
T PRK04537 296 RESLLNRFQKG--QLE-ILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDA--ISFACE 363 (572)
T ss_pred HHHHHHHHHcC--CCe-EEEEehhhhcCCCccCCCEEEEcCCCCCHHHHhhhhcccccCCCCceE--EEEecH
Confidence 99999999973 444 499999999999999999999999999999999999999999976543 445544
No 37
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.95 E-value=8.7e-26 Score=251.72 Aligned_cols=315 Identities=16% Similarity=0.196 Sum_probs=211.5
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHH-HHHHHh----CCCCCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAF-LAHLKG----NGLHGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaial-i~~l~~----~~~~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
...++|+|.+++..++. +.++|+..++|+|||+..+.. +.++.. .+....+||++|.. +..|+.+.+..+
T Consensus 21 ~~~p~~iQ~~ai~~~~~----g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l 96 (434)
T PRK11192 21 YTRPTAIQAEAIPPALD----GRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAREL 96 (434)
T ss_pred CCCCCHHHHHHHHHHhC----CCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHH
Confidence 45789999999998875 789999999999999986543 444432 12234689999977 667888877777
Q ss_pred CC--CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcc--hHHHH
Q 004880 227 VP--SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPK--CKLLK 301 (725)
Q Consensus 227 ~p--~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~--s~~~~ 301 (725)
.. ++.+..++|.......... .....+|+|+|++.+...+.. .+....+++||+||||++.... ..+..
T Consensus 97 ~~~~~~~v~~~~gg~~~~~~~~~------l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah~~l~~~~~~~~~~ 170 (434)
T PRK11192 97 AKHTHLDIATITGGVAYMNHAEV------FSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLDMGFAQDIET 170 (434)
T ss_pred HccCCcEEEEEECCCCHHHHHHH------hcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHHHHhCCCcHHHHHH
Confidence 53 4677777776543332111 124678999999988766532 2233357899999999986533 22333
Q ss_pred HHhcCC-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhh
Q 004880 302 ELKYIP-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILR 380 (725)
Q Consensus 302 ~l~~l~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~ 380 (725)
.+..++ ....+++|||+-...+.+ |..++.. .
T Consensus 171 i~~~~~~~~q~~~~SAT~~~~~~~~------------------~~~~~~~-----------------------------~ 203 (434)
T PRK11192 171 IAAETRWRKQTLLFSATLEGDAVQD------------------FAERLLN-----------------------------D 203 (434)
T ss_pred HHHhCccccEEEEEEeecCHHHHHH------------------HHHHHcc-----------------------------C
Confidence 333333 344589999973221111 1111100 0
Q ss_pred hhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhh
Q 004880 381 PFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLE 460 (725)
Q Consensus 381 p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~ 460 (725)
|..+.- .............++. ..
T Consensus 204 ~~~i~~---~~~~~~~~~i~~~~~~-~~---------------------------------------------------- 227 (434)
T PRK11192 204 PVEVEA---EPSRRERKKIHQWYYR-AD---------------------------------------------------- 227 (434)
T ss_pred CEEEEe---cCCcccccCceEEEEE-eC----------------------------------------------------
Confidence 000000 0000000000000000 00
Q ss_pred hhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHH
Q 004880 461 SAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQ 540 (725)
Q Consensus 461 ~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~ 540 (725)
....|..+|..++.. ....++||||+....++.+...|...|+.+..++|+++..+|..+++
T Consensus 228 ----------------~~~~k~~~l~~l~~~--~~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~ 289 (434)
T PRK11192 228 ----------------DLEHKTALLCHLLKQ--PEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIK 289 (434)
T ss_pred ----------------CHHHHHHHHHHHHhc--CCCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHH
Confidence 001244455555542 24578999999999999999999999999999999999999999999
Q ss_pred HHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEE
Q 004880 541 DFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHV 601 (725)
Q Consensus 541 ~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~V 601 (725)
.|+++ .++ +|++|+++++|||++.+++||+||+|+++..|.||+||++|.|....+.+
T Consensus 290 ~f~~G--~~~-vLVaTd~~~~GiDip~v~~VI~~d~p~s~~~yiqr~GR~gR~g~~g~ai~ 347 (434)
T PRK11192 290 RLTDG--RVN-VLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAIS 347 (434)
T ss_pred HHhCC--CCc-EEEEccccccCccCCCCCEEEEECCCCCHHHHhhcccccccCCCCceEEE
Confidence 99974 444 49999999999999999999999999999999999999999997655444
No 38
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.95 E-value=2.1e-26 Score=248.81 Aligned_cols=320 Identities=22% Similarity=0.277 Sum_probs=227.0
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHh------CCCCCCcEEEEcCc-cHHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKG------NGLHGPYLVIAPLS-TLSNWVNEIS 224 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~------~~~~~~~LIV~P~s-ll~~W~~E~~ 224 (725)
-..+.|.|..+...++. |++++..+.+|+|||+. .|..+.++.. ++....+||++|+. +..|-..++.
T Consensus 111 ~~~PtpIQaq~wp~~l~----GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~ 186 (519)
T KOG0331|consen 111 FEKPTPIQAQGWPIALS----GRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAR 186 (519)
T ss_pred CCCCchhhhcccceecc----CCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHH
Confidence 34788999998888876 99999999999999998 4566666664 22223499999988 4567778888
Q ss_pred HhCCCce--EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCC--cchHH
Q 004880 225 RFVPSVS--AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKN--PKCKL 299 (725)
Q Consensus 225 ~~~p~~~--v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn--~~s~~ 299 (725)
.+..... ..+++|.......++... ...+|+|+|+..+...+.. .+.-.+..|+|+|||+++-. ...++
T Consensus 187 ~~~~~~~~~~~cvyGG~~~~~Q~~~l~------~gvdiviaTPGRl~d~le~g~~~l~~v~ylVLDEADrMldmGFe~qI 260 (519)
T KOG0331|consen 187 EFGKSLRLRSTCVYGGAPKGPQLRDLE------RGVDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEADRMLDMGFEPQI 260 (519)
T ss_pred HHcCCCCccEEEEeCCCCccHHHHHHh------cCCcEEEeCChHHHHHHHcCCccccceeEEEeccHHhhhccccHHHH
Confidence 8876544 555555444433333322 4689999999998877632 33444678999999999964 55677
Q ss_pred HHHHhcC-CCCc-EEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHH
Q 004880 300 LKELKYI-PIGN-KLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHA 377 (725)
Q Consensus 300 ~~~l~~l-~~~~-rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~ 377 (725)
-+.+..+ ++.. .++-|||- ..|
T Consensus 261 ~~Il~~i~~~~rQtlm~saTw--------------------------p~~------------------------------ 284 (519)
T KOG0331|consen 261 RKILSQIPRPDRQTLMFSATW--------------------------PKE------------------------------ 284 (519)
T ss_pred HHHHHhcCCCcccEEEEeeec--------------------------cHH------------------------------
Confidence 7778888 3333 57777772 000
Q ss_pred hhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChh
Q 004880 378 ILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPD 457 (725)
Q Consensus 378 ~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~ 457 (725)
+|.+..+... .|. ...+.... .+ .....+.++-..|
T Consensus 285 ------v~~lA~~fl~-~~~-~i~ig~~~---~~-----------------------------~a~~~i~qive~~---- 320 (519)
T KOG0331|consen 285 ------VRQLAEDFLN-NPI-QINVGNKK---EL-----------------------------KANHNIRQIVEVC---- 320 (519)
T ss_pred ------HHHHHHHHhc-Cce-EEEecchh---hh-----------------------------hhhcchhhhhhhc----
Confidence 0011111111 111 11111100 00 0001111222222
Q ss_pred hhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHh-hCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHH
Q 004880 458 LLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLF-ARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERK 536 (725)
Q Consensus 458 l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~-~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~ 536 (725)
....|...|..+|.... ..+.|+||||.....++.|...|...++++..|||..++.+|.
T Consensus 321 -------------------~~~~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~ 381 (519)
T KOG0331|consen 321 -------------------DETAKLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERD 381 (519)
T ss_pred -------------------CHHHHHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHH
Confidence 22468888889998886 4567999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEec
Q 004880 537 RQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLAT 606 (725)
Q Consensus 537 ~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~ 606 (725)
.+++.|.+++.. +|++|+++++|||+...++||+||+|-|...|.||+||.+|.|++-. .|.|++
T Consensus 382 ~~L~~FreG~~~---vLVATdVAaRGLDi~dV~lVInydfP~~vEdYVHRiGRTGRa~~~G~--A~tfft 446 (519)
T KOG0331|consen 382 WVLKGFREGKSP---VLVATDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGT--AITFFT 446 (519)
T ss_pred HHHHhcccCCcc---eEEEcccccccCCCccccEEEeCCCCCCHHHHHhhcCccccCCCCce--EEEEEe
Confidence 999999985444 69999999999999999999999999999999999999999886654 334444
No 39
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.95 E-value=1.3e-25 Score=257.24 Aligned_cols=311 Identities=18% Similarity=0.215 Sum_probs=213.6
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHH-HHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHh---C
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTI-AFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRF---V 227 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qai-ali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~---~ 227 (725)
...+.|+|.+++..++. +.+.|+..+||+|||++.+ .++..+........+||+||.. +..||.+++.+| .
T Consensus 26 ~~~ptpiQ~~ai~~ll~----g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~~~ 101 (629)
T PRK11634 26 YEKPSPIQAECIPHLLN----GRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSKHM 101 (629)
T ss_pred CCCCCHHHHHHHHHHHc----CCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHhhc
Confidence 35799999999998875 7899999999999999864 4444444333334689999976 668898888776 3
Q ss_pred CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcc--hHHHHHHh
Q 004880 228 PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPK--CKLLKELK 304 (725)
Q Consensus 228 p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~--s~~~~~l~ 304 (725)
+++.++.++|.......++.. ....+|||+|++.+...+.. .+.-.++.+|||||||.+-+.. ..+...+.
T Consensus 102 ~~i~v~~~~gG~~~~~q~~~l------~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ml~~gf~~di~~Il~ 175 (629)
T PRK11634 102 RGVNVVALYGGQRYDVQLRAL------RQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRMGFIEDVETIMA 175 (629)
T ss_pred CCceEEEEECCcCHHHHHHHh------cCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHHhhcccHHHHHHHHH
Confidence 577787777765443333222 13578999999998766532 2333457899999999886543 34555566
Q ss_pred cCCC-CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 305 YIPI-GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 305 ~l~~-~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
.++. ...+++|||.-. ...++ ...|.. .|..
T Consensus 176 ~lp~~~q~llfSAT~p~-~i~~i------------------~~~~l~-----------------------------~~~~ 207 (629)
T PRK11634 176 QIPEGHQTALFSATMPE-AIRRI------------------TRRFMK-----------------------------EPQE 207 (629)
T ss_pred hCCCCCeEEEEEccCCh-hHHHH------------------HHHHcC-----------------------------CCeE
Confidence 6654 445899999511 11110 000000 0000
Q ss_pred hheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc
Q 004880 384 LRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF 463 (725)
Q Consensus 384 lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~ 463 (725)
+. .... ....|......+.+
T Consensus 208 i~-i~~~-~~~~~~i~q~~~~v---------------------------------------------------------- 227 (629)
T PRK11634 208 VR-IQSS-VTTRPDISQSYWTV---------------------------------------------------------- 227 (629)
T ss_pred EE-ccCc-cccCCceEEEEEEe----------------------------------------------------------
Confidence 00 0000 00011100000000
Q ss_pred cCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 004880 464 SDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFN 543 (725)
Q Consensus 464 ~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~ 543 (725)
....|...|..++.. ....++||||+.....+.|...|...|+.+..++|.+++.+|..++++|.
T Consensus 228 -------------~~~~k~~~L~~~L~~--~~~~~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr 292 (629)
T PRK11634 228 -------------WGMRKNEALVRFLEA--EDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLK 292 (629)
T ss_pred -------------chhhHHHHHHHHHHh--cCCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHh
Confidence 011244555555543 23468999999999999999999999999999999999999999999999
Q ss_pred CCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCce
Q 004880 544 DVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPV 599 (725)
Q Consensus 544 ~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V 599 (725)
++ .+. +|++|+++++|||++.+++||+||+|.++..|.|++||++|.|..-.+
T Consensus 293 ~G--~~~-ILVATdv~arGIDip~V~~VI~~d~P~~~e~yvqRiGRtGRaGr~G~a 345 (629)
T PRK11634 293 DG--RLD-ILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRA 345 (629)
T ss_pred CC--CCC-EEEEcchHhcCCCcccCCEEEEeCCCCCHHHHHHHhccccCCCCcceE
Confidence 74 444 599999999999999999999999999999999999999999976543
No 40
>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=99.95 E-value=1.2e-25 Score=259.34 Aligned_cols=307 Identities=18% Similarity=0.207 Sum_probs=217.5
Q ss_pred ccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCC
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPS 229 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~ 229 (725)
+....++|+|.++++.++. |.+++++.+||.|||+.....+ +.. .+.++||+|.. ++.++.+.+... +
T Consensus 9 fg~~~fr~~Q~~~i~~il~----g~dvlv~~PTG~GKTl~y~lpa--l~~---~g~~lVisPl~sL~~dq~~~l~~~--g 77 (591)
T TIGR01389 9 FGYDDFRPGQEEIISHVLD----GRDVLVVMPTGGGKSLCYQVPA--LLL---KGLTVVISPLISLMKDQVDQLRAA--G 77 (591)
T ss_pred cCCCCCCHHHHHHHHHHHc----CCCEEEEcCCCccHhHHHHHHH--HHc---CCcEEEEcCCHHHHHHHHHHHHHc--C
Confidence 4455799999999998875 8899999999999998865332 222 35789999955 667888888875 4
Q ss_pred ceEEEEeCChhhH--HHHHHhcCCCCCCCCCCEEEecHHHHHHH-HHHhhhhcCccEEEEccccccCCcc-------hHH
Q 004880 230 VSAIIYHGSKKER--DEIRRKHMPRAIGPKFPIVVTSYEVALSD-ARKYLRHYNWKYLVVDEGHRLKNPK-------CKL 299 (725)
Q Consensus 230 ~~v~~~~g~~~~r--~~~~~~~~~~~~~~~~~vvItsye~~~~~-~~~~l~~~~~~~vIvDEaH~ikn~~-------s~~ 299 (725)
..+..++++.... ..+... ...+..+++++|++.+... ....+...+.++|||||||++...+ ..+
T Consensus 78 i~~~~~~s~~~~~~~~~~~~~----l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~~~g~~frp~y~~l 153 (591)
T TIGR01389 78 VAAAYLNSTLSAKEQQDIEKA----LVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRL 153 (591)
T ss_pred CcEEEEeCCCCHHHHHHHHHH----HhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCcccccccCccHHHHHHH
Confidence 5666666654332 221111 1224678999999988653 2345666788999999999986432 133
Q ss_pred HHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhh
Q 004880 300 LKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAIL 379 (725)
Q Consensus 300 ~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l 379 (725)
......++....++||||+-.....++...+.+-.|..+.+ .|
T Consensus 154 ~~l~~~~~~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~------~~------------------------------- 196 (591)
T TIGR01389 154 GSLAERFPQVPRIALTATADAETRQDIRELLRLADANEFIT------SF------------------------------- 196 (591)
T ss_pred HHHHHhCCCCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEec------CC-------------------------------
Confidence 34444556666999999987666555555544332221100 00
Q ss_pred hhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhh
Q 004880 380 RPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLL 459 (725)
Q Consensus 380 ~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~ 459 (725)
..|.....++.
T Consensus 197 --------------~r~nl~~~v~~------------------------------------------------------- 207 (591)
T TIGR01389 197 --------------DRPNLRFSVVK------------------------------------------------------- 207 (591)
T ss_pred --------------CCCCcEEEEEe-------------------------------------------------------
Confidence 00100000000
Q ss_pred hhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHH
Q 004880 460 ESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQI 539 (725)
Q Consensus 460 ~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i 539 (725)
...+...+.+++... .+.+.||||......+.+..+|...|+++..+||+++.++|..++
T Consensus 208 ------------------~~~~~~~l~~~l~~~--~~~~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~ 267 (591)
T TIGR01389 208 ------------------KNNKQKFLLDYLKKH--RGQSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQ 267 (591)
T ss_pred ------------------CCCHHHHHHHHHHhc--CCCCEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHH
Confidence 001222233333322 367899999999999999999999999999999999999999999
Q ss_pred HHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEE
Q 004880 540 QDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHV 601 (725)
Q Consensus 540 ~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~V 601 (725)
+.|..+ .+. +|++|.+.|.|||++.++.||+||+|+|+..|.|++||++|.|+...+.+
T Consensus 268 ~~F~~g--~~~-vlVaT~a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRaGR~G~~~~~il 326 (591)
T TIGR01389 268 EDFLYD--DVK-VMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAIL 326 (591)
T ss_pred HHHHcC--CCc-EEEEechhhccCcCCCCCEEEEcCCCCCHHHHhhhhccccCCCCCceEEE
Confidence 999973 344 59999999999999999999999999999999999999999997666443
No 41
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.95 E-value=1.8e-25 Score=257.17 Aligned_cols=307 Identities=19% Similarity=0.191 Sum_probs=210.9
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCc
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSV 230 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~ 230 (725)
....++|+|.+++..++. |.++++..+||+|||+.....+ +.. .+.+|||+|.. +..+|.+.+... ++
T Consensus 22 G~~~~r~~Q~~ai~~il~----g~dvlv~apTGsGKTl~y~lpa--l~~---~g~tlVisPl~sL~~dqv~~l~~~--gi 90 (607)
T PRK11057 22 GYQQFRPGQQEIIDAVLS----GRDCLVVMPTGGGKSLCYQIPA--LVL---DGLTLVVSPLISLMKDQVDQLLAN--GV 90 (607)
T ss_pred CCCCCCHHHHHHHHHHHc----CCCEEEEcCCCchHHHHHHHHH--HHc---CCCEEEEecHHHHHHHHHHHHHHc--CC
Confidence 345799999999998875 8899999999999998754322 222 35799999965 667788888775 34
Q ss_pred eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHH-HHHhhhhcCccEEEEccccccCCcch-------HHHHH
Q 004880 231 SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSD-ARKYLRHYNWKYLVVDEGHRLKNPKC-------KLLKE 302 (725)
Q Consensus 231 ~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~-~~~~l~~~~~~~vIvDEaH~ikn~~s-------~~~~~ 302 (725)
.+..+.+.......... +.....+..+++++|++.+... ....+...++++|||||||++...+. .+...
T Consensus 91 ~~~~~~s~~~~~~~~~~--~~~~~~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~~G~~fr~~y~~L~~l 168 (607)
T PRK11057 91 AAACLNSTQTREQQLEV--MAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWGHDFRPEYAALGQL 168 (607)
T ss_pred cEEEEcCCCCHHHHHHH--HHHHhCCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCccccccccCcccHHHHHHHHH
Confidence 55555554332211110 0011124678999999987643 22445556789999999999865331 22223
Q ss_pred HhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 004880 303 LKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPF 382 (725)
Q Consensus 303 l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~ 382 (725)
...++....++||||+-.....++...+.+-.|..+... |
T Consensus 169 ~~~~p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~~------~---------------------------------- 208 (607)
T PRK11057 169 RQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISS------F---------------------------------- 208 (607)
T ss_pred HHhCCCCcEEEEecCCChhHHHHHHHHhCCCCeEEEECC------C----------------------------------
Confidence 334566778999999866555555554443332211000 0
Q ss_pred hhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhh
Q 004880 383 LLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESA 462 (725)
Q Consensus 383 ~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~ 462 (725)
.-|.. .+.+..
T Consensus 209 -----------~r~nl-~~~v~~--------------------------------------------------------- 219 (607)
T PRK11057 209 -----------DRPNI-RYTLVE--------------------------------------------------------- 219 (607)
T ss_pred -----------CCCcc-eeeeee---------------------------------------------------------
Confidence 00000 000000
Q ss_pred ccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHH
Q 004880 463 FSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDF 542 (725)
Q Consensus 463 ~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F 542 (725)
...+...+..++.. ..+.++||||+.....+.+...|...|+++..+||+++.++|..+++.|
T Consensus 220 ---------------~~~~~~~l~~~l~~--~~~~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F 282 (607)
T PRK11057 220 ---------------KFKPLDQLMRYVQE--QRGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAF 282 (607)
T ss_pred ---------------ccchHHHHHHHHHh--cCCCCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHH
Confidence 00011112222221 3567899999999999999999999999999999999999999999999
Q ss_pred hCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceE
Q 004880 543 NDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVH 600 (725)
Q Consensus 543 ~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~ 600 (725)
..+ .++ +|++|.+.|+|||++.++.||+||+|.++..|.|++||++|.|....+.
T Consensus 283 ~~g--~~~-VLVaT~a~~~GIDip~V~~VI~~d~P~s~~~y~Qr~GRaGR~G~~~~~i 337 (607)
T PRK11057 283 QRD--DLQ-IVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAM 337 (607)
T ss_pred HCC--CCC-EEEEechhhccCCCCCcCEEEEeCCCCCHHHHHHHhhhccCCCCCceEE
Confidence 873 444 4999999999999999999999999999999999999999999765533
No 42
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.94 E-value=3.1e-25 Score=257.28 Aligned_cols=313 Identities=17% Similarity=0.122 Sum_probs=209.7
Q ss_pred ccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCC
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPS 229 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~ 229 (725)
+....+||+|.+++..++. |.++|+..+||.|||+.....+. .. .+.+|||+|.. |+.++...+... +
T Consensus 456 FG~~sFRp~Q~eaI~aiL~----GrDVLVimPTGSGKSLcYQLPAL--~~---~GiTLVISPLiSLmqDQV~~L~~~--G 524 (1195)
T PLN03137 456 FGNHSFRPNQREIINATMS----GYDVFVLMPTGGGKSLTYQLPAL--IC---PGITLVISPLVSLIQDQIMNLLQA--N 524 (1195)
T ss_pred cCCCCCCHHHHHHHHHHHc----CCCEEEEcCCCccHHHHHHHHHH--Hc---CCcEEEEeCHHHHHHHHHHHHHhC--C
Confidence 3346899999999998875 89999999999999987543322 11 36799999965 545455555543 4
Q ss_pred ceEEEEeCChhhH--HHHHHhcCCCCCCCCCCEEEecHHHHHHH--HHHhhh----hcCccEEEEccccccCCcch----
Q 004880 230 VSAIIYHGSKKER--DEIRRKHMPRAIGPKFPIVVTSYEVALSD--ARKYLR----HYNWKYLVVDEGHRLKNPKC---- 297 (725)
Q Consensus 230 ~~v~~~~g~~~~r--~~~~~~~~~~~~~~~~~vvItsye~~~~~--~~~~l~----~~~~~~vIvDEaH~ikn~~s---- 297 (725)
+.+..+.++.... ..+.+.. ....+.++++++|++.+... +...+. .....+|||||||++-..+.
T Consensus 525 I~Aa~L~s~~s~~eq~~ilr~l--~s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~LslIVIDEAHcVSqWGhDFRp 602 (1195)
T PLN03137 525 IPAASLSAGMEWAEQLEILQEL--SSEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLARFVIDEAHCVSQWGHDFRP 602 (1195)
T ss_pred CeEEEEECCCCHHHHHHHHHHH--HhcCCCCCEEEEChHHhhcchHHHHHHHhhhhccccceeccCcchhhhhcccchHH
Confidence 5555555544322 2111111 11124689999999987532 112222 22368999999999865331
Q ss_pred ---HHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHH
Q 004880 298 ---KLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAK 374 (725)
Q Consensus 298 ---~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 374 (725)
.+......++....++||||.-.....++...|.+..+..+. .-|
T Consensus 603 dYr~L~~Lr~~fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr------~Sf-------------------------- 650 (1195)
T PLN03137 603 DYQGLGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFR------QSF-------------------------- 650 (1195)
T ss_pred HHHHHHHHHHhCCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEee------ccc--------------------------
Confidence 122223445677789999998766666666655443322111 000
Q ss_pred HHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcC
Q 004880 375 LHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCN 454 (725)
Q Consensus 375 L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~ 454 (725)
.-|.. .+.+ ++-. ..
T Consensus 651 -------------------~RpNL-~y~V-v~k~---kk----------------------------------------- 665 (1195)
T PLN03137 651 -------------------NRPNL-WYSV-VPKT---KK----------------------------------------- 665 (1195)
T ss_pred -------------------Cccce-EEEE-eccc---hh-----------------------------------------
Confidence 00111 1111 0000 00
Q ss_pred ChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHH
Q 004880 455 HPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDE 534 (725)
Q Consensus 455 hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~ 534 (725)
.+..+.+++... ..+...||||......+.+...|...|+++..+||+++.++
T Consensus 666 --------------------------~le~L~~~I~~~-~~~esgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~ee 718 (1195)
T PLN03137 666 --------------------------CLEDIDKFIKEN-HFDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQ 718 (1195)
T ss_pred --------------------------HHHHHHHHHHhc-ccCCCceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHH
Confidence 001111122111 12456899999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEE
Q 004880 535 RKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYR 603 (725)
Q Consensus 535 R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyr 603 (725)
|..++++|.. +.++| |++|.|.|+|||++.++.||+||+|.++..|.|++||++|.|+...+..|+
T Consensus 719 R~~vqe~F~~--Gei~V-LVATdAFGMGIDkPDVR~VIHydlPkSiEsYyQriGRAGRDG~~g~cILly 784 (1195)
T PLN03137 719 RAFVQKQWSK--DEINI-ICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYY 784 (1195)
T ss_pred HHHHHHHHhc--CCCcE-EEEechhhcCCCccCCcEEEEcCCCCCHHHHHhhhcccCCCCCCceEEEEe
Confidence 9999999997 34444 999999999999999999999999999999999999999999887755553
No 43
>PTZ00424 helicase 45; Provisional
Probab=99.94 E-value=1.1e-24 Score=240.73 Aligned_cols=319 Identities=20% Similarity=0.258 Sum_probs=210.1
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh-CCCCCCcEEEEcCc-cHHHHHHHHHHhCCC--
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG-NGLHGPYLVIAPLS-TLSNWVNEISRFVPS-- 229 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~-~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~-- 229 (725)
..+.|+|..++..++. +.+.|+..+||+|||+.++..+..... ......+||++|.. +..|+.+.+..+...
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 4799999999998875 889999999999999986544444333 22345799999976 557777777776543
Q ss_pred ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCC--cchHHHHHHhcC
Q 004880 230 VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKN--PKCKLLKELKYI 306 (725)
Q Consensus 230 ~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn--~~s~~~~~l~~l 306 (725)
.......|....+...... ....+|+|+|++.+...+.. .+...++++|||||+|++.. ....+...++.+
T Consensus 125 ~~~~~~~g~~~~~~~~~~~------~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~~~~~~~~~~~~i~~~~ 198 (401)
T PTZ00424 125 VRCHACVGGTVVRDDINKL------KAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKL 198 (401)
T ss_pred ceEEEEECCcCHHHHHHHH------cCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHHHHhcchHHHHHHHHhhC
Confidence 3444445554333332221 13468999999987665422 22334578999999999864 334455556666
Q ss_pred CC-CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 004880 307 PI-GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLR 385 (725)
Q Consensus 307 ~~-~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lR 385 (725)
.. ...+++|||+-. ...+ +...|.. .|..+.
T Consensus 199 ~~~~~~i~~SAT~~~-~~~~------------------~~~~~~~-----------------------------~~~~~~ 230 (401)
T PTZ00424 199 PPDVQVALFSATMPN-EILE------------------LTTKFMR-----------------------------DPKRIL 230 (401)
T ss_pred CCCcEEEEEEecCCH-HHHH------------------HHHHHcC-----------------------------CCEEEE
Confidence 43 457999999621 1111 0000000 000000
Q ss_pred eehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccC
Q 004880 386 RMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSD 465 (725)
Q Consensus 386 R~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~ 465 (725)
.+.+ ...+.......+.+ ...
T Consensus 231 -~~~~-~~~~~~~~~~~~~~--~~~------------------------------------------------------- 251 (401)
T PTZ00424 231 -VKKD-ELTLEGIRQFYVAV--EKE------------------------------------------------------- 251 (401)
T ss_pred -eCCC-CcccCCceEEEEec--ChH-------------------------------------------------------
Confidence 0000 00011111111111 000
Q ss_pred CCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCC
Q 004880 466 SCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDV 545 (725)
Q Consensus 466 ~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~ 545 (725)
..+...+..++.. ....++||||+....++.+...|...++.+..+||+++..+|..+++.|++
T Consensus 252 -------------~~~~~~l~~~~~~--~~~~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~- 315 (401)
T PTZ00424 252 -------------EWKFDTLCDLYET--LTITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRS- 315 (401)
T ss_pred -------------HHHHHHHHHHHHh--cCCCeEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHc-
Confidence 0011222222221 134679999999999999999999999999999999999999999999997
Q ss_pred CCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCC
Q 004880 546 NSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQS 609 (725)
Q Consensus 546 ~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~T 609 (725)
+.++| |++|+++++|||++.+++||+||+|.++..+.|++||++|.|.. -.++.|++.+.
T Consensus 316 -g~~~v-LvaT~~l~~GiDip~v~~VI~~~~p~s~~~y~qr~GRagR~g~~--G~~i~l~~~~~ 375 (401)
T PTZ00424 316 -GSTRV-LITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRK--GVAINFVTPDD 375 (401)
T ss_pred -CCCCE-EEEcccccCCcCcccCCEEEEECCCCCHHHEeecccccccCCCC--ceEEEEEcHHH
Confidence 34444 99999999999999999999999999999999999999999854 45666776653
No 44
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.93 E-value=2.6e-24 Score=256.15 Aligned_cols=324 Identities=19% Similarity=0.215 Sum_probs=203.3
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHH-HHHHHHHhCC------CCCCcEEEEcCc-cHHHHHHH---
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTI-AFLAHLKGNG------LHGPYLVIAPLS-TLSNWVNE--- 222 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qai-ali~~l~~~~------~~~~~LIV~P~s-ll~~W~~E--- 222 (725)
..|+|+|..++..+.. |.++|++.+||+|||+.++ .++..+.... ....+|+|+|.. +..++.+.
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 4699999999988754 8899999999999999865 4455554321 123489999966 44555543
Q ss_pred ----HHHhC-------CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH-----HhhhhcCccEEEE
Q 004880 223 ----ISRFV-------PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR-----KYLRHYNWKYLVV 286 (725)
Q Consensus 223 ----~~~~~-------p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~-----~~l~~~~~~~vIv 286 (725)
+..++ |.+.+.+.+|........+.. ....+|+|||++.+...+. ..|. +.++|||
T Consensus 107 ~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l------~~~p~IlVtTPE~L~~ll~~~~~~~~l~--~l~~VVI 178 (876)
T PRK13767 107 PLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKML------KKPPHILITTPESLAILLNSPKFREKLR--TVKWVIV 178 (876)
T ss_pred HHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHH------hCCCCEEEecHHHHHHHhcChhHHHHHh--cCCEEEE
Confidence 33332 467888899876544332211 1356899999998754321 1222 4689999
Q ss_pred ccccccCCcc--hHHH---HHHhcC--CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhh
Q 004880 287 DEGHRLKNPK--CKLL---KELKYI--PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVM 359 (725)
Q Consensus 287 DEaH~ikn~~--s~~~---~~l~~l--~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~ 359 (725)
||+|.+-+.. ..+. ..+..+ ....+|+||||.- ++.++.. |+...... ..+
T Consensus 179 DE~H~l~~~~RG~~l~~~L~rL~~l~~~~~q~IglSATl~--~~~~va~---~L~~~~~~---------~~~-------- 236 (876)
T PRK13767 179 DEIHSLAENKRGVHLSLSLERLEELAGGEFVRIGLSATIE--PLEEVAK---FLVGYEDD---------GEP-------- 236 (876)
T ss_pred echhhhccCccHHHHHHHHHHHHHhcCCCCeEEEEecccC--CHHHHHH---HhcCcccc---------CCC--------
Confidence 9999997432 2222 223333 2456799999962 2333222 11110000 000
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcch
Q 004880 360 KEELEEKRRGQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMK 439 (725)
Q Consensus 360 ~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~ 439 (725)
++..+ +...........+.++....
T Consensus 237 --------------------r~~~i------v~~~~~k~~~i~v~~p~~~l----------------------------- 261 (876)
T PRK13767 237 --------------------RDCEI------VDARFVKPFDIKVISPVDDL----------------------------- 261 (876)
T ss_pred --------------------CceEE------EccCCCccceEEEeccCccc-----------------------------
Confidence 00000 00000000011111111000
Q ss_pred hHHHHHHHHHHHhcCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc
Q 004880 440 GKLNNLMVQLRKNCNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK 519 (725)
Q Consensus 440 ~~l~~~l~~Lr~~~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~ 519 (725)
... .. ......+...+..+...++++||||+.....+.+...|...
T Consensus 262 -------------------~~~---------~~------~~~~~~l~~~L~~~i~~~~~~LVF~nTr~~ae~la~~L~~~ 307 (876)
T PRK13767 262 -------------------IHT---------PA------EEISEALYETLHELIKEHRTTLIFTNTRSGAERVLYNLRKR 307 (876)
T ss_pred -------------------ccc---------cc------chhHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHh
Confidence 000 00 00011222334444456789999999999999888888762
Q ss_pred ------CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhc
Q 004880 520 ------GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRI 593 (725)
Q Consensus 520 ------g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~Ri 593 (725)
+..+..+||+++.++|..+.+.|++ +.++ +|+||.++++|||++.++.||+||+|.++..+.||+||++|-
T Consensus 308 ~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~--G~i~-vLVaTs~Le~GIDip~Vd~VI~~~~P~sv~~ylQRiGRaGR~ 384 (876)
T PRK13767 308 FPEEYDEDNIGAHHSSLSREVRLEVEEKLKR--GELK-VVVSSTSLELGIDIGYIDLVVLLGSPKSVSRLLQRIGRAGHR 384 (876)
T ss_pred chhhccccceeeeeCCCCHHHHHHHHHHHHc--CCCe-EEEECChHHhcCCCCCCcEEEEeCCCCCHHHHHHhcccCCCC
Confidence 4678999999999999999999997 3444 499999999999999999999999999999999999999986
Q ss_pred -CCCCceEEEE
Q 004880 594 -GQTKPVHVYR 603 (725)
Q Consensus 594 -GQ~k~V~Vyr 603 (725)
|....-.++-
T Consensus 385 ~g~~~~g~ii~ 395 (876)
T PRK13767 385 LGEVSKGRIIV 395 (876)
T ss_pred CCCCCcEEEEE
Confidence 4555555554
No 45
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.93 E-value=6.6e-24 Score=238.79 Aligned_cols=333 Identities=22% Similarity=0.305 Sum_probs=230.4
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHh-CCCCCC-cEEEEcCcc-HHHHHHHHHHhCC
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKG-NGLHGP-YLVIAPLST-LSNWVNEISRFVP 228 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~-~~~~~~-~LIV~P~sl-l~~W~~E~~~~~p 228 (725)
...+.|.|..++..++. |.+.|..+.+|+|||.. .|.++..+.. .....+ .||++|+.. ..|-.+++.++..
T Consensus 49 f~~pt~IQ~~~IP~~l~----g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~ 124 (513)
T COG0513 49 FEEPTPIQLAAIPLILA----GRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGK 124 (513)
T ss_pred CCCCCHHHHHHHHHHhC----CCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHh
Confidence 45788999999998886 89999999999999988 5666666553 222222 899999884 4667777777753
Q ss_pred ---CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCcc--hHHHHH
Q 004880 229 ---SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNPK--CKLLKE 302 (725)
Q Consensus 229 ---~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~~--s~~~~~ 302 (725)
.+.+.++.|............ ...+|||.|+..++..+.. .+...+..++|+|||.++.+.+ ..+...
T Consensus 125 ~~~~~~~~~i~GG~~~~~q~~~l~------~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEADrmLd~Gf~~~i~~I 198 (513)
T COG0513 125 NLGGLRVAVVYGGVSIRKQIEALK------RGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDMGFIDDIEKI 198 (513)
T ss_pred hcCCccEEEEECCCCHHHHHHHHh------cCCCEEEECccHHHHHHHcCCcchhhcCEEEeccHhhhhcCCCHHHHHHH
Confidence 466666666654444433221 2489999999999876633 3555567899999999998653 455666
Q ss_pred HhcCCC-CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhh
Q 004880 303 LKYIPI-GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRP 381 (725)
Q Consensus 303 l~~l~~-~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p 381 (725)
+..++. ...++.|||--. ...++ ...|. -.|
T Consensus 199 ~~~~p~~~qtllfSAT~~~-~i~~l------------------~~~~l-----------------------------~~p 230 (513)
T COG0513 199 LKALPPDRQTLLFSATMPD-DIREL------------------ARRYL-----------------------------NDP 230 (513)
T ss_pred HHhCCcccEEEEEecCCCH-HHHHH------------------HHHHc-----------------------------cCC
Confidence 666654 556888999522 11111 00000 011
Q ss_pred hhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhh
Q 004880 382 FLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLES 461 (725)
Q Consensus 382 ~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~ 461 (725)
..+..-........+......+.|.-.
T Consensus 231 ~~i~v~~~~~~~~~~~i~q~~~~v~~~----------------------------------------------------- 257 (513)
T COG0513 231 VEIEVSVEKLERTLKKIKQFYLEVESE----------------------------------------------------- 257 (513)
T ss_pred cEEEEccccccccccCceEEEEEeCCH-----------------------------------------------------
Confidence 111111011100111111222221100
Q ss_pred hccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHH
Q 004880 462 AFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQD 541 (725)
Q Consensus 462 ~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~ 541 (725)
..|+..|..++.... ..++||||.....++.|...|...|++++.|||++++.+|.+.++.
T Consensus 258 -----------------~~k~~~L~~ll~~~~--~~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~ 318 (513)
T COG0513 258 -----------------EEKLELLLKLLKDED--EGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEK 318 (513)
T ss_pred -----------------HHHHHHHHHHHhcCC--CCeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHH
Confidence 136666777766532 2369999999999999999999999999999999999999999999
Q ss_pred HhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHHHHH
Q 004880 542 FNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRAFSK 621 (725)
Q Consensus 542 F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~~~K 621 (725)
|++ +.+.| |++|+++++|||+...++||+||+|.++..|.||+||++|.| +.=..+.|++. .-|...+.+....
T Consensus 319 F~~--g~~~v-LVaTDvaaRGiDi~~v~~VinyD~p~~~e~yvHRiGRTgRaG--~~G~ai~fv~~-~~e~~~l~~ie~~ 392 (513)
T COG0513 319 FKD--GELRV-LVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAG--RKGVAISFVTE-EEEVKKLKRIEKR 392 (513)
T ss_pred HHc--CCCCE-EEEechhhccCCccccceeEEccCCCCHHHheeccCccccCC--CCCeEEEEeCc-HHHHHHHHHHHHH
Confidence 997 44444 999999999999999999999999999999999999999999 34466667776 2355555555554
No 46
>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=99.93 E-value=5.6e-24 Score=248.49 Aligned_cols=331 Identities=17% Similarity=0.230 Sum_probs=215.1
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHH-HHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhC-CCc
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTI-AFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFV-PSV 230 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qai-ali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~-p~~ 230 (725)
.+|+|||.+++..++. |.+.|++.+||+|||+..+ .++..+.. +.....|||+|.. |..|-..++.++. .++
T Consensus 35 ~~p~~~Q~~ai~~il~----G~nvvv~apTGSGKTla~~LPiL~~l~~-~~~~~aL~l~PtraLa~q~~~~l~~l~~~~i 109 (742)
T TIGR03817 35 HRPWQHQARAAELAHA----GRHVVVATGTASGKSLAYQLPVLSALAD-DPRATALYLAPTKALAADQLRAVRELTLRGV 109 (742)
T ss_pred CcCCHHHHHHHHHHHC----CCCEEEECCCCCcHHHHHHHHHHHHHhh-CCCcEEEEEcChHHHHHHHHHHHHHhccCCe
Confidence 4799999999998875 8999999999999999964 44555443 3445799999977 4567777788775 357
Q ss_pred eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-------HHhhhhcCccEEEEccccccCCc-chHHHHH
Q 004880 231 SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA-------RKYLRHYNWKYLVVDEGHRLKNP-KCKLLKE 302 (725)
Q Consensus 231 ~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~-------~~~l~~~~~~~vIvDEaH~ikn~-~s~~~~~ 302 (725)
.+.+|+|.......... ....+|+|+|++++.... ..+|. +.++|||||||.+... .+.+...
T Consensus 110 ~v~~~~Gdt~~~~r~~i-------~~~~~IivtTPd~L~~~~L~~~~~~~~~l~--~l~~vViDEah~~~g~fg~~~~~i 180 (742)
T TIGR03817 110 RPATYDGDTPTEERRWA-------REHARYVLTNPDMLHRGILPSHARWARFLR--RLRYVVIDECHSYRGVFGSHVALV 180 (742)
T ss_pred EEEEEeCCCCHHHHHHH-------hcCCCEEEEChHHHHHhhccchhHHHHHHh--cCCEEEEeChhhccCccHHHHHHH
Confidence 88889887654322111 124689999999876432 12233 4589999999998652 2333333
Q ss_pred HhcC--------CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHH
Q 004880 303 LKYI--------PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAK 374 (725)
Q Consensus 303 l~~l--------~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 374 (725)
+.++ .....+++|||.- +..++.. .+ +..
T Consensus 181 l~rL~ri~~~~g~~~q~i~~SATi~--n~~~~~~---~l--------------~g~------------------------ 217 (742)
T TIGR03817 181 LRRLRRLCARYGASPVFVLASATTA--DPAAAAS---RL--------------IGA------------------------ 217 (742)
T ss_pred HHHHHHHHHhcCCCCEEEEEecCCC--CHHHHHH---HH--------------cCC------------------------
Confidence 3222 2345799999942 2232211 00 000
Q ss_pred HHHhhhhhhhheehhhHhh-cCCCc-eEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHh
Q 004880 375 LHAILRPFLLRRMKSDVEQ-MLPRK-KEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKN 452 (725)
Q Consensus 375 L~~~l~p~~lRR~k~dv~~-~lP~k-~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~ 452 (725)
|+. .+.. .-|.. ....++.+. ... . ......
T Consensus 218 ------~~~------~i~~~~~~~~~~~~~~~~p~-~~~------~--------------~~~~~~-------------- 250 (742)
T TIGR03817 218 ------PVV------AVTEDGSPRGARTVALWEPP-LTE------L--------------TGENGA-------------- 250 (742)
T ss_pred ------CeE------EECCCCCCcCceEEEEecCC-ccc------c--------------cccccc--------------
Confidence 000 0000 11111 111111110 000 0 000000
Q ss_pred cCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc--------CceEE
Q 004880 453 CNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK--------GYEVC 524 (725)
Q Consensus 453 ~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~--------g~~~~ 524 (725)
| ... .....+...+..++ ..+.++||||+.+...+.+..+|... +.++.
T Consensus 251 ---~---------------~r~-~~~~~~~~~l~~l~----~~~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~ 307 (742)
T TIGR03817 251 ---P---------------VRR-SASAEAADLLADLV----AEGARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVA 307 (742)
T ss_pred ---c---------------ccc-chHHHHHHHHHHHH----HCCCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchh
Confidence 0 000 00012333343333 45789999999999999998887653 56788
Q ss_pred EEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEE
Q 004880 525 RIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRL 604 (725)
Q Consensus 525 ~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrl 604 (725)
.++|++++++|.++.++|.+ +.+++ |+||+++++|||+...++||+||.|-++..|.||+||++|.|+..- ++.+
T Consensus 308 ~~hgg~~~~eR~~ie~~f~~--G~i~v-LVaTd~lerGIDI~~vd~VI~~~~P~s~~~y~qRiGRaGR~G~~g~--ai~v 382 (742)
T TIGR03817 308 AYRAGYLPEDRRELERALRD--GELLG-VATTNALELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQGAL--VVLV 382 (742)
T ss_pred heecCCCHHHHHHHHHHHHc--CCceE-EEECchHhccCCcccccEEEEeCCCCCHHHHHHhccccCCCCCCcE--EEEE
Confidence 99999999999999999997 45544 9999999999999999999999999999999999999999996543 4456
Q ss_pred ecCCCHHHHHHH
Q 004880 605 ATAQSVEGRILK 616 (725)
Q Consensus 605 i~~~TiEe~i~~ 616 (725)
+..+..|..++.
T Consensus 383 ~~~~~~d~~~~~ 394 (742)
T TIGR03817 383 ARDDPLDTYLVH 394 (742)
T ss_pred eCCChHHHHHHh
Confidence 666677877554
No 47
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.93 E-value=5.3e-25 Score=228.87 Aligned_cols=343 Identities=22% Similarity=0.350 Sum_probs=241.2
Q ss_pred cccCCcccchHHHHHHHHHHHhcCC--CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 150 LLTGGKLKSYQLKGVKWLISLWQNG--LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~~~~~~~--~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
+-...++||||...+..|.. || +.||+.-++|.|||++.+..++. ..+.+||+|..+ -+.||..+|..|
T Consensus 297 LKPst~iRpYQEksL~KMFG---NgRARSGiIVLPCGAGKtLVGvTAa~t-----ikK~clvLcts~VSVeQWkqQfk~w 368 (776)
T KOG1123|consen 297 LKPSTQIRPYQEKSLSKMFG---NGRARSGIIVLPCGAGKTLVGVTAACT-----IKKSCLVLCTSAVSVEQWKQQFKQW 368 (776)
T ss_pred cCcccccCchHHHHHHHHhC---CCcccCceEEEecCCCCceeeeeeeee-----ecccEEEEecCccCHHHHHHHHHhh
Confidence 33456899999999988863 33 35899999999999998876654 345799999977 589999999999
Q ss_pred CC--CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHH---------HHHhhhhcCccEEEEccccccCCc
Q 004880 227 VP--SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSD---------ARKYLRHYNWKYLVVDEGHRLKNP 295 (725)
Q Consensus 227 ~p--~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~---------~~~~l~~~~~~~vIvDEaH~ikn~ 295 (725)
.. +-.++.|....+++. .....|+|+||.++..- .-.++....|.++|+||.|.+ +
T Consensus 369 sti~d~~i~rFTsd~Ke~~-----------~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvv--P 435 (776)
T KOG1123|consen 369 STIQDDQICRFTSDAKERF-----------PSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVV--P 435 (776)
T ss_pred cccCccceEEeeccccccC-----------CCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhccc--h
Confidence 63 345666666554432 24677999999997532 125788889999999999998 3
Q ss_pred chHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccc-cCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHH
Q 004880 296 KCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFI-LPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAK 374 (725)
Q Consensus 296 ~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l-~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 374 (725)
.....+.+....+..+|+||||-+... |=..=|||| .|.++. .+|.+..
T Consensus 436 A~MFRRVlsiv~aHcKLGLTATLvRED--dKI~DLNFLIGPKlYE-----AnWmdL~----------------------- 485 (776)
T KOG1123|consen 436 AKMFRRVLSIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYE-----ANWMDLQ----------------------- 485 (776)
T ss_pred HHHHHHHHHHHHHHhhccceeEEeecc--ccccccceeecchhhh-----ccHHHHH-----------------------
Confidence 444555566668888999999987543 112223443 444332 1121100
Q ss_pred HHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcC
Q 004880 375 LHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCN 454 (725)
Q Consensus 375 L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~ 454 (725)
-...+....-..|+|+||+.- |...+....... .++.
T Consensus 486 ----------------~kGhIA~VqCaEVWCpMt~eF---y~eYL~~~t~kr--------------~lLy---------- 522 (776)
T KOG1123|consen 486 ----------------KKGHIAKVQCAEVWCPMTPEF---YREYLRENTRKR--------------MLLY---------- 522 (776)
T ss_pred ----------------hCCceeEEeeeeeecCCCHHH---HHHHHhhhhhhh--------------heee----------
Confidence 011234445678999999864 444332211100 0000
Q ss_pred ChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHH
Q 004880 455 HPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDE 534 (725)
Q Consensus 455 hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~ 534 (725)
+-+-.|++...-+++.+..+|+|+||||...-. |..|--..|-++ |.|.|++.+
T Consensus 523 ---------------------vMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfA---Lk~YAikl~Kpf--IYG~Tsq~E 576 (776)
T KOG1123|consen 523 ---------------------VMNPNKFRACQFLIKFHERRGDKIIVFSDNVFA---LKEYAIKLGKPF--IYGPTSQNE 576 (776)
T ss_pred ---------------------ecCcchhHHHHHHHHHHHhcCCeEEEEeccHHH---HHHHHHHcCCce--EECCCchhH
Confidence 011348888888888888999999999987554 444444455554 789999999
Q ss_pred HHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCC-CcchhhhHhHhhHhcCCCC----ceEEEEEecCCC
Q 004880 535 RKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDW-NPQMDLQAMDRCHRIGQTK----PVHVYRLATAQS 609 (725)
Q Consensus 535 R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~w-Np~~~~Qa~gR~~RiGQ~k----~V~Vyrli~~~T 609 (725)
|.++++.|+. ++.+.-+++ +++|...|+|+.|+.+|...+.. +-..+.||.||+-|-.... +++.|-|+..+|
T Consensus 577 Rm~ILqnFq~-n~~vNTIFl-SKVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DT 654 (776)
T KOG1123|consen 577 RMKILQNFQT-NPKVNTIFL-SKVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDT 654 (776)
T ss_pred HHHHHHhccc-CCccceEEE-eeccCccccCCcccEEEEEcccccchHHHHHHHHHHHHHhhcCccccceeeeeeeecch
Confidence 9999999997 677776555 48999999999999999998876 4566789999999975322 389999999999
Q ss_pred HHHHH
Q 004880 610 VEGRI 614 (725)
Q Consensus 610 iEe~i 614 (725)
.|-.-
T Consensus 655 qEM~Y 659 (776)
T KOG1123|consen 655 QEMYY 659 (776)
T ss_pred HHHHh
Confidence 87553
No 48
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.93 E-value=1.5e-23 Score=242.34 Aligned_cols=306 Identities=16% Similarity=0.218 Sum_probs=200.8
Q ss_pred CCcccchHHHHHHHHHHHhcCC--CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCC-
Q 004880 153 GGKLKSYQLKGVKWLISLWQNG--LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVP- 228 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~--~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p- 228 (725)
+.+|+++|.+++..+..-.... .+.+|..+||+|||+.++..+......+ ..++|++|.. +..||.+++.++++
T Consensus 233 pf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g--~qvlilaPT~~LA~Q~~~~~~~l~~~ 310 (630)
T TIGR00643 233 PFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAG--YQVALMAPTEILAEQHYNSLRNLLAP 310 (630)
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcC--CcEEEECCHHHHHHHHHHHHHHHhcc
Confidence 3489999999999998754332 3679999999999998865555544443 5799999977 55899999999987
Q ss_pred -CceEEEEeCChhhHH--HHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhc
Q 004880 229 -SVSAIIYHGSKKERD--EIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKY 305 (725)
Q Consensus 229 -~~~v~~~~g~~~~r~--~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~ 305 (725)
++++.+++|+..... ..... ...+..+|+|+|+..+.... .-.+.++|||||+|++.-.. .......
T Consensus 311 ~gi~v~lltg~~~~~~r~~~~~~----i~~g~~~IiVgT~~ll~~~~----~~~~l~lvVIDEaH~fg~~q--r~~l~~~ 380 (630)
T TIGR00643 311 LGIEVALLTGSLKGKRRKELLET----IASGQIHLVVGTHALIQEKV----EFKRLALVIIDEQHRFGVEQ--RKKLREK 380 (630)
T ss_pred cCcEEEEEecCCCHHHHHHHHHH----HhCCCCCEEEecHHHHhccc----cccccceEEEechhhccHHH--HHHHHHh
Confidence 478888888754332 11111 12246799999999775432 22356899999999974221 1112222
Q ss_pred CC---CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 004880 306 IP---IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPF 382 (725)
Q Consensus 306 l~---~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~ 382 (725)
.. ..+.+++||||.+..+.-. +...+..
T Consensus 381 ~~~~~~~~~l~~SATp~prtl~l~--~~~~l~~----------------------------------------------- 411 (630)
T TIGR00643 381 GQGGFTPHVLVMSATPIPRTLALT--VYGDLDT----------------------------------------------- 411 (630)
T ss_pred cccCCCCCEEEEeCCCCcHHHHHH--hcCCcce-----------------------------------------------
Confidence 22 5778999999976432210 0000000
Q ss_pred hhheehhhHhhcCCCce-E-EEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhh
Q 004880 383 LLRRMKSDVEQMLPRKK-E-IILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLE 460 (725)
Q Consensus 383 ~lRR~k~dv~~~lP~k~-e-~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~ 460 (725)
.+...+|+.. . ....+.-..
T Consensus 412 -------~~i~~~p~~r~~i~~~~~~~~~--------------------------------------------------- 433 (630)
T TIGR00643 412 -------SIIDELPPGRKPITTVLIKHDE--------------------------------------------------- 433 (630)
T ss_pred -------eeeccCCCCCCceEEEEeCcch---------------------------------------------------
Confidence 0001122211 1 111111000
Q ss_pred hhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchh--------HHHHHHHHHhh--cCceEEEEeCCC
Q 004880 461 SAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTK--------ILDIMEYYFNE--KGYEVCRIDGSV 530 (725)
Q Consensus 461 ~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~--------~ld~l~~~L~~--~g~~~~~l~G~~ 530 (725)
...+...+.+....+++++|||.... ....+...|.. .++++..+||++
T Consensus 434 ---------------------~~~~~~~i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m 492 (630)
T TIGR00643 434 ---------------------KDIVYEFIEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRM 492 (630)
T ss_pred ---------------------HHHHHHHHHHHHHhCCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCC
Confidence 01111222233346788899887542 23344444443 378899999999
Q ss_pred CHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCC-CcchhhhHhHhhHhcCCCCceEE
Q 004880 531 RLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDW-NPQMDLQAMDRCHRIGQTKPVHV 601 (725)
Q Consensus 531 ~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~w-Np~~~~Qa~gR~~RiGQ~k~V~V 601 (725)
+..+|.+++++|.++ ..+ +|+||.+.++|||++.+++||+||++. +...+.|+.||++|-|....|.+
T Consensus 493 ~~~eR~~i~~~F~~g--~~~-ILVaT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~il 561 (630)
T TIGR00643 493 KSDEKEAVMEEFREG--EVD-ILVATTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGRVGRGDHQSYCLL 561 (630)
T ss_pred CHHHHHHHHHHHHcC--CCC-EEEECceeecCcccCCCcEEEEeCCCcCCHHHHHHHhhhcccCCCCcEEEE
Confidence 999999999999974 344 599999999999999999999999985 66788899999999986554443
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=99.92 E-value=5.8e-24 Score=250.58 Aligned_cols=308 Identities=17% Similarity=0.213 Sum_probs=206.0
Q ss_pred CCcccchHHHHHHHHHHHhcCC--CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCC
Q 004880 153 GGKLKSYQLKGVKWLISLWQNG--LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPS 229 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~--~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~ 229 (725)
+.++.|+|..++..+..-..++ .+.+++.+||+|||.+++..+......+ ..++|+||+. +..|+.+.|.++++.
T Consensus 449 ~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g--~qvlvLvPT~~LA~Q~~~~f~~~~~~ 526 (926)
T TIGR00580 449 PFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG--KQVAVLVPTTLLAQQHFETFKERFAN 526 (926)
T ss_pred CCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC--CeEEEEeCcHHHHHHHHHHHHHHhcc
Confidence 4478999999999998754443 4679999999999998775554444443 5799999977 557888899988764
Q ss_pred --ceEEEEeCChh--hHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhc
Q 004880 230 --VSAIIYHGSKK--ERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKY 305 (725)
Q Consensus 230 --~~v~~~~g~~~--~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~ 305 (725)
+++..++|... ++....... ..+..+|||+|+..+..+ +.-.+..+|||||+|++. ......++.
T Consensus 527 ~~i~v~~Lsg~~~~~e~~~~~~~l----~~g~~dIVIGTp~ll~~~----v~f~~L~llVIDEahrfg---v~~~~~L~~ 595 (926)
T TIGR00580 527 FPVTIELLSRFRSAKEQNEILKEL----ASGKIDILIGTHKLLQKD----VKFKDLGLLIIDEEQRFG---VKQKEKLKE 595 (926)
T ss_pred CCcEEEEEeccccHHHHHHHHHHH----HcCCceEEEchHHHhhCC----CCcccCCEEEeecccccc---hhHHHHHHh
Confidence 45556666433 222222111 124678999999765322 222356899999999974 233445555
Q ss_pred CC-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q 004880 306 IP-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLL 384 (725)
Q Consensus 306 l~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~l 384 (725)
+. ....+++||||++..+... +.....+. ++
T Consensus 596 ~~~~~~vL~~SATpiprtl~~~--l~g~~d~s----------------------------------------------~I 627 (926)
T TIGR00580 596 LRTSVDVLTLSATPIPRTLHMS--MSGIRDLS----------------------------------------------II 627 (926)
T ss_pred cCCCCCEEEEecCCCHHHHHHH--HhcCCCcE----------------------------------------------EE
Confidence 53 5678999999975433211 00000000 00
Q ss_pred heehhhHhhcCCCce---EEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhh
Q 004880 385 RRMKSDVEQMLPRKK---EIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLES 461 (725)
Q Consensus 385 RR~k~dv~~~lP~k~---e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~ 461 (725)
..|+.. .....++.+..
T Consensus 628 ---------~~~p~~R~~V~t~v~~~~~~--------------------------------------------------- 647 (926)
T TIGR00580 628 ---------ATPPEDRLPVRTFVMEYDPE--------------------------------------------------- 647 (926)
T ss_pred ---------ecCCCCccceEEEEEecCHH---------------------------------------------------
Confidence 011110 00011111100
Q ss_pred hccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc--CceEEEEeCCCCHHHHHHHH
Q 004880 462 AFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK--GYEVCRIDGSVRLDERKRQI 539 (725)
Q Consensus 462 ~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~--g~~~~~l~G~~~~~~R~~~i 539 (725)
.+...+......+.+++|||+....++.+...|... ++++..+||.|+..+|.+++
T Consensus 648 ----------------------~i~~~i~~el~~g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im 705 (926)
T TIGR00580 648 ----------------------LVREAIRRELLRGGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVM 705 (926)
T ss_pred ----------------------HHHHHHHHHHHcCCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHH
Confidence 000011111235788999999999999999999874 78999999999999999999
Q ss_pred HHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCC-CcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 540 QDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDW-NPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 540 ~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~w-Np~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
.+|.++ .+. +|+||.+.++|||++.+++||+++++. ....+.|++||++|.|.. =++|.|+..+
T Consensus 706 ~~F~~G--k~~-ILVaT~iie~GIDIp~v~~VIi~~a~~~gls~l~Qr~GRvGR~g~~--g~aill~~~~ 770 (926)
T TIGR00580 706 LEFYKG--EFQ-VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSKKK--AYAYLLYPHQ 770 (926)
T ss_pred HHHHcC--CCC-EEEECChhhcccccccCCEEEEecCCCCCHHHHHHHhcCCCCCCCC--eEEEEEECCc
Confidence 999984 344 599999999999999999999999864 556789999999998854 4555566543
No 50
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.92 E-value=2.7e-23 Score=241.73 Aligned_cols=308 Identities=17% Similarity=0.185 Sum_probs=202.1
Q ss_pred CCcccchHHHHHHHHHHHhcCC--CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCC
Q 004880 153 GGKLKSYQLKGVKWLISLWQNG--LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPS 229 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~--~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~ 229 (725)
+.+|+++|..++..+..-...+ .+.+|..+||+|||+.++..+...... ...++|++|.. +..|+.+.+.++++.
T Consensus 259 ~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~--g~q~lilaPT~~LA~Q~~~~l~~l~~~ 336 (681)
T PRK10917 259 PFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA--GYQAALMAPTEILAEQHYENLKKLLEP 336 (681)
T ss_pred CCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc--CCeEEEEeccHHHHHHHHHHHHHHHhh
Confidence 4479999999999988754432 367999999999999987665544444 34799999977 567899999999864
Q ss_pred --ceEEEEeCChhh--HHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhc
Q 004880 230 --VSAIIYHGSKKE--RDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKY 305 (725)
Q Consensus 230 --~~v~~~~g~~~~--r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~ 305 (725)
+++.+++|+... +...... ...+..+|+|+|+..+.... .-.+.++|||||+|++.- .....+..
T Consensus 337 ~~i~v~ll~G~~~~~~r~~~~~~----l~~g~~~IvVgT~~ll~~~v----~~~~l~lvVIDE~Hrfg~---~qr~~l~~ 405 (681)
T PRK10917 337 LGIRVALLTGSLKGKERREILEA----IASGEADIVIGTHALIQDDV----EFHNLGLVIIDEQHRFGV---EQRLALRE 405 (681)
T ss_pred cCcEEEEEcCCCCHHHHHHHHHH----HhCCCCCEEEchHHHhcccc----hhcccceEEEechhhhhH---HHHHHHHh
Confidence 678888887653 2222111 12246899999998775432 123568999999999732 22233333
Q ss_pred C-CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q 004880 306 I-PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLL 384 (725)
Q Consensus 306 l-~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~l 384 (725)
. ...+.+++||||++..+.- ..+ +. +.+
T Consensus 406 ~~~~~~iL~~SATp~prtl~~----~~~------g~--------------------------------------~~~--- 434 (681)
T PRK10917 406 KGENPHVLVMTATPIPRTLAM----TAY------GD--------------------------------------LDV--- 434 (681)
T ss_pred cCCCCCEEEEeCCCCHHHHHH----HHc------CC--------------------------------------Cce---
Confidence 2 3577899999996432210 000 00 000
Q ss_pred heehhhHhhcCCCc-eEE-EEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhh
Q 004880 385 RRMKSDVEQMLPRK-KEI-ILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESA 462 (725)
Q Consensus 385 RR~k~dv~~~lP~k-~e~-~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~ 462 (725)
.+...+|+. ... ..++...
T Consensus 435 -----s~i~~~p~~r~~i~~~~~~~~------------------------------------------------------ 455 (681)
T PRK10917 435 -----SVIDELPPGRKPITTVVIPDS------------------------------------------------------ 455 (681)
T ss_pred -----EEEecCCCCCCCcEEEEeCcc------------------------------------------------------
Confidence 000112221 111 1111100
Q ss_pred ccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchh--------HHHHHHHHHhhc--CceEEEEeCCCCH
Q 004880 463 FSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTK--------ILDIMEYYFNEK--GYEVCRIDGSVRL 532 (725)
Q Consensus 463 ~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~--------~ld~l~~~L~~~--g~~~~~l~G~~~~ 532 (725)
+...+.+.+......|++++|||.... ....+.+.|... ++++..+||+++.
T Consensus 456 ------------------~~~~~~~~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~ 517 (681)
T PRK10917 456 ------------------RRDEVYERIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKP 517 (681)
T ss_pred ------------------cHHHHHHHHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCH
Confidence 011122223333357889999997532 233444555443 5789999999999
Q ss_pred HHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCC-CcchhhhHhHhhHhcCCCCceEEEEEec
Q 004880 533 DERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDW-NPQMDLQAMDRCHRIGQTKPVHVYRLAT 606 (725)
Q Consensus 533 ~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~w-Np~~~~Qa~gR~~RiGQ~k~V~Vyrli~ 606 (725)
.+|.+++++|.++ .++ +|+||.+.++|||++.+++||+||++. ....+.|+.||++|.|... ++|.++.
T Consensus 518 ~eR~~i~~~F~~g--~~~-ILVaT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g--~~ill~~ 587 (681)
T PRK10917 518 AEKDAVMAAFKAG--EID-ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQS--YCVLLYK 587 (681)
T ss_pred HHHHHHHHHHHcC--CCC-EEEECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhcccCCCCce--EEEEEEC
Confidence 9999999999974 444 499999999999999999999999985 4677889999999998654 4444543
No 51
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.91 E-value=4.9e-23 Score=246.95 Aligned_cols=360 Identities=15% Similarity=0.150 Sum_probs=208.0
Q ss_pred cCCcccchHHHHHHHHHHHhcCC-CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCC
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNG-LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPS 229 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~-~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~ 229 (725)
.+..|||||.++|..+...+.++ ++++|++.||+|||+++++++..+...+..+++||+||.. |+.||.++|..+.+.
T Consensus 410 ~~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~ 489 (1123)
T PRK11448 410 YGLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIE 489 (1123)
T ss_pred cCCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcccc
Confidence 34579999999998887666544 6789999999999999999998888777778999999955 889999999987532
Q ss_pred ce-EE--EEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH------hhhhcCccEEEEccccccCCcc----
Q 004880 230 VS-AI--IYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK------YLRHYNWKYLVVDEGHRLKNPK---- 296 (725)
Q Consensus 230 ~~-v~--~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~------~l~~~~~~~vIvDEaH~ikn~~---- 296 (725)
.. .. ++.. . .+... .......|+|+|+..+.+.... .+..-.|++||||||||.....
T Consensus 490 ~~~~~~~i~~i-~----~L~~~----~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs~~~d~~~~ 560 (1123)
T PRK11448 490 GDQTFASIYDI-K----GLEDK----FPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRGYTLDKEMS 560 (1123)
T ss_pred cccchhhhhch-h----hhhhh----cccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCCCccccccc
Confidence 21 11 1111 1 01111 0123578999999998765311 1222358899999999963110
Q ss_pred ------------hHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHH
Q 004880 297 ------------CKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELE 364 (725)
Q Consensus 297 ------------s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~ 364 (725)
...++.+.......+|+|||||..+. .+++ + .+..... ..
T Consensus 561 ~~~~~~~~~~~~~~~yr~iL~yFdA~~IGLTATP~r~t-~~~F-----------G----------~pv~~Ys--l~---- 612 (1123)
T PRK11448 561 EGELQFRDQLDYVSKYRRVLDYFDAVKIGLTATPALHT-TEIF-----------G----------EPVYTYS--YR---- 612 (1123)
T ss_pred cchhccchhhhHHHHHHHHHhhcCccEEEEecCCccch-hHHh-----------C----------CeeEEee--HH----
Confidence 12333333333468899999997432 1111 1 0000000 00
Q ss_pred HHHHHHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEE----ecCC-HHHHHHHHHHHHHHHHHHHHHhhhhcCCcch
Q 004880 365 EKRRGQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILY----ATMT-EHQRNFQDHLINKTLENHLREKVFSAGRGMK 439 (725)
Q Consensus 365 ~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~----~~ls-~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~ 439 (725)
+. +-..+++ ...||....... +... ..+...|+..........+ .
T Consensus 613 -----eA------I~DG~Lv--------~~~~p~~i~t~~~~~gi~~~~~e~~~~~~~~~~~i~~~~l-----------~ 662 (1123)
T PRK11448 613 -----EA------VIDGYLI--------DHEPPIRIETRLSQEGIHFEKGEEVEVINTQTGEIDLATL-----------E 662 (1123)
T ss_pred -----HH------HhcCCcc--------cCcCCEEEEEEeccccccccccchhhhcchhhhhhhhccC-----------c
Confidence 00 0000110 001222111100 0000 0011111111000000000 0
Q ss_pred hHHHHHHHHHHHhcCChhhhhhhccCCCCCCchHHHHHhhcHHH-HHHHHHHHHh-hCCCcEEEEccchhHHHHHHHHHh
Q 004880 440 GKLNNLMVQLRKNCNHPDLLESAFSDSCFYPPVEQIVEQCGKFR-LLDRLLARLF-ARNHKVLVFSQWTKILDIMEYYFN 517 (725)
Q Consensus 440 ~~l~~~l~~Lr~~~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~-~L~~ll~~l~-~~~~kvlIFsq~~~~ld~l~~~L~ 517 (725)
..+......+-+. ++. ..... ++..++..+. ..+.|+||||.....++.+.+.|.
T Consensus 663 d~~~~~~~~~~~~----------------------vi~-~~~~~~i~~~l~~~l~~~~~~KtiIF~~s~~HA~~i~~~L~ 719 (1123)
T PRK11448 663 DEVDFEVEDFNRR----------------------VIT-ESFNRVVCEELAKYLDPTGEGKTLIFAATDAHADMVVRLLK 719 (1123)
T ss_pred HHHhhhHHHHHHH----------------------Hhh-HHHHHHHHHHHHHHHhccCCCcEEEEEcCHHHHHHHHHHHH
Confidence 0000000000000 000 00011 1122222221 124799999999999888777765
Q ss_pred hc------Cc---eEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhH
Q 004880 518 EK------GY---EVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMD 588 (725)
Q Consensus 518 ~~------g~---~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~g 588 (725)
.. ++ .+..++|+++ ++.+++++|.+ +....+++|++..++|+|.+.+++||+++++-++..+.|++|
T Consensus 720 ~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~--~~~p~IlVsvdmL~TG~DvP~v~~vVf~rpvkS~~lf~QmIG 795 (1123)
T PRK11448 720 EAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKN--ERLPNIVVTVDLLTTGIDVPSICNLVFLRRVRSRILYEQMLG 795 (1123)
T ss_pred HHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhC--CCCCeEEEEecccccCCCcccccEEEEecCCCCHHHHHHHHh
Confidence 42 22 4567999987 67889999987 333457999999999999999999999999999999999999
Q ss_pred hhHhcCC---CCceEEEEEe
Q 004880 589 RCHRIGQ---TKPVHVYRLA 605 (725)
Q Consensus 589 R~~RiGQ---~k~V~Vyrli 605 (725)
|+.|..- +....||.++
T Consensus 796 RgtR~~~~~~K~~f~I~D~v 815 (1123)
T PRK11448 796 RATRLCPEIGKTHFRIFDAV 815 (1123)
T ss_pred hhccCCccCCCceEEEEehH
Confidence 9999854 4447777765
No 52
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.91 E-value=1.8e-22 Score=243.02 Aligned_cols=306 Identities=18% Similarity=0.213 Sum_probs=203.0
Q ss_pred CcccchHHHHHHHHHHHhcC--CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCcc-HHHHHHHHHHhCCC-
Q 004880 154 GKLKSYQLKGVKWLISLWQN--GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLST-LSNWVNEISRFVPS- 229 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~--~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sl-l~~W~~E~~~~~p~- 229 (725)
..+.|.|.+++.-++.-... +.+.+++.+||+|||.+++..+...... ...+||+||+.. ..|..+.|.+++..
T Consensus 599 ~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~--g~qvlvLvPT~eLA~Q~~~~f~~~~~~~ 676 (1147)
T PRK10689 599 FETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVEN--HKQVAVLVPTTLLAQQHYDNFRDRFANW 676 (1147)
T ss_pred CCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHc--CCeEEEEeCcHHHHHHHHHHHHHhhccC
Confidence 47999999999988874433 2578999999999999876444333333 357999999884 47788888876643
Q ss_pred -ceEEEEeCCh--hhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC
Q 004880 230 -VSAIIYHGSK--KERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI 306 (725)
Q Consensus 230 -~~v~~~~g~~--~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l 306 (725)
+.+.+++|.. .++..+... ...+..+|+|+|++.+..+ +...++++|||||+|++.. .....++.+
T Consensus 677 ~v~i~~l~g~~s~~e~~~il~~----l~~g~~dIVVgTp~lL~~~----v~~~~L~lLVIDEahrfG~---~~~e~lk~l 745 (1147)
T PRK10689 677 PVRIEMLSRFRSAKEQTQILAE----AAEGKIDILIGTHKLLQSD----VKWKDLGLLIVDEEHRFGV---RHKERIKAM 745 (1147)
T ss_pred CceEEEEECCCCHHHHHHHHHH----HHhCCCCEEEECHHHHhCC----CCHhhCCEEEEechhhcch---hHHHHHHhc
Confidence 4555565543 333222111 1124678999999866432 2223578999999999843 233445555
Q ss_pred C-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 004880 307 P-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLR 385 (725)
Q Consensus 307 ~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lR 385 (725)
+ ....+++||||++..+.... ..+.+| .++
T Consensus 746 ~~~~qvLl~SATpiprtl~l~~--~gl~d~----------------------------------------------~~I- 776 (1147)
T PRK10689 746 RADVDILTLTATPIPRTLNMAM--SGMRDL----------------------------------------------SII- 776 (1147)
T ss_pred CCCCcEEEEcCCCCHHHHHHHH--hhCCCc----------------------------------------------EEE-
Confidence 3 56789999999765432110 000011 000
Q ss_pred eehhhHhhcCCCceE---EEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhh
Q 004880 386 RMKSDVEQMLPRKKE---IILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESA 462 (725)
Q Consensus 386 R~k~dv~~~lP~k~e---~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~ 462 (725)
..|+... ..+......
T Consensus 777 --------~~~p~~r~~v~~~~~~~~~----------------------------------------------------- 795 (1147)
T PRK10689 777 --------ATPPARRLAVKTFVREYDS----------------------------------------------------- 795 (1147)
T ss_pred --------ecCCCCCCCceEEEEecCc-----------------------------------------------------
Confidence 0111100 000000000
Q ss_pred ccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc--CceEEEEeCCCCHHHHHHHHH
Q 004880 463 FSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK--GYEVCRIDGSVRLDERKRQIQ 540 (725)
Q Consensus 463 ~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~--g~~~~~l~G~~~~~~R~~~i~ 540 (725)
......++.++ .++++++|||+....++.+...|... ++++..+||+|+..+|.+++.
T Consensus 796 -------------------~~~k~~il~el-~r~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~ 855 (1147)
T PRK10689 796 -------------------LVVREAILREI-LRGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMN 855 (1147)
T ss_pred -------------------HHHHHHHHHHH-hcCCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHH
Confidence 00011122222 24678999999999999999999876 789999999999999999999
Q ss_pred HHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCC-CCcchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 541 DFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSD-WNPQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 541 ~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~-wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
+|.++ .+.| |+||++.++|||++.+++||+.+++ ++...+.|+.||++|.|... ++|-+...
T Consensus 856 ~Fr~G--k~~V-LVaTdIierGIDIP~v~~VIi~~ad~fglaq~~Qr~GRvGR~g~~g--~a~ll~~~ 918 (1147)
T PRK10689 856 DFHHQ--RFNV-LVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQA--YAWLLTPH 918 (1147)
T ss_pred HHHhc--CCCE-EEECchhhcccccccCCEEEEecCCCCCHHHHHHHhhccCCCCCce--EEEEEeCC
Confidence 99974 4444 9999999999999999999988775 67788999999999998654 45544433
No 53
>PRK02362 ski2-like helicase; Provisional
Probab=99.90 E-value=6.6e-22 Score=233.38 Aligned_cols=318 Identities=23% Similarity=0.193 Sum_probs=202.2
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHH-HHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCC-Cc
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIA-FLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVP-SV 230 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaia-li~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p-~~ 230 (725)
.+|+|+|.+++..++ ..+.|++++.+||+|||+.+.. ++..+. ..+++|+|+|.. ++.++.+++.++.+ +.
T Consensus 22 ~~l~p~Q~~ai~~~~---~~g~nvlv~APTGSGKTlia~lail~~l~---~~~kal~i~P~raLa~q~~~~~~~~~~~g~ 95 (737)
T PRK02362 22 EELYPPQAEAVEAGL---LDGKNLLAAIPTASGKTLIAELAMLKAIA---RGGKALYIVPLRALASEKFEEFERFEELGV 95 (737)
T ss_pred CcCCHHHHHHHHHHH---hCCCcEEEECCCcchHHHHHHHHHHHHHh---cCCcEEEEeChHHHHHHHHHHHHHhhcCCC
Confidence 479999999997633 4588999999999999999854 444443 246899999955 77889999988754 67
Q ss_pred eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH---hhhhcCccEEEEccccccCCcc--hHH---HHH
Q 004880 231 SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK---YLRHYNWKYLVVDEGHRLKNPK--CKL---LKE 302 (725)
Q Consensus 231 ~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~---~l~~~~~~~vIvDEaH~ikn~~--s~~---~~~ 302 (725)
++.+++|....... .....+|+|+|++.+....+. .+. ..++|||||+|.+.+.. ..+ ...
T Consensus 96 ~v~~~tGd~~~~~~---------~l~~~~IiV~Tpek~~~llr~~~~~l~--~v~lvViDE~H~l~d~~rg~~le~il~r 164 (737)
T PRK02362 96 RVGISTGDYDSRDE---------WLGDNDIIVATSEKVDSLLRNGAPWLD--DITCVVVDEVHLIDSANRGPTLEVTLAK 164 (737)
T ss_pred EEEEEeCCcCcccc---------ccCCCCEEEECHHHHHHHHhcChhhhh--hcCEEEEECccccCCCcchHHHHHHHHH
Confidence 88888886543221 123578999999987554431 222 45899999999997532 111 122
Q ss_pred HhcC-CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhh
Q 004880 303 LKYI-PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRP 381 (725)
Q Consensus 303 l~~l-~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p 381 (725)
++.+ ...+.++||||+- |..++...++ ...+.+ -.+|
T Consensus 165 l~~~~~~~qii~lSATl~--n~~~la~wl~---~~~~~~-------------------------------------~~rp 202 (737)
T PRK02362 165 LRRLNPDLQVVALSATIG--NADELADWLD---AELVDS-------------------------------------EWRP 202 (737)
T ss_pred HHhcCCCCcEEEEcccCC--CHHHHHHHhC---CCcccC-------------------------------------CCCC
Confidence 2333 3456799999962 3444433221 111000 0011
Q ss_pred hhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhh
Q 004880 382 FLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLES 461 (725)
Q Consensus 382 ~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~ 461 (725)
. | ....++..-. ++ + . .. . +
T Consensus 203 v-------------~--l~~~v~~~~~-----~~----------~------~-~~--~----------~----------- 222 (737)
T PRK02362 203 I-------------D--LREGVFYGGA-----IH----------F------D-DS--Q----------R----------- 222 (737)
T ss_pred C-------------C--CeeeEecCCe-----ec----------c------c-cc--c----------c-----------
Confidence 1 0 0000100000 00 0 0 00 0 0
Q ss_pred hccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc----------------------
Q 004880 462 AFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK---------------------- 519 (725)
Q Consensus 462 ~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~---------------------- 519 (725)
.. ....+. ....++......++++||||+.+.....+...|...
T Consensus 223 ~~-------------~~~~~~-~~~~~~~~~~~~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~ 288 (737)
T PRK02362 223 EV-------------EVPSKD-DTLNLVLDTLEEGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIRE 288 (737)
T ss_pred cC-------------CCccch-HHHHHHHHHHHcCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHh
Confidence 00 000010 111222223346789999999988766655544321
Q ss_pred --------------CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEE----eC-----C
Q 004880 520 --------------GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCIL----YD-----S 576 (725)
Q Consensus 520 --------------g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~----~D-----~ 576 (725)
...+..+||+++..+|..+.+.|++ +.++| |++|++++.|||+++.++||. || .
T Consensus 289 ~~~~~~~~~L~~~l~~gva~hHagl~~~eR~~ve~~Fr~--G~i~V-LvaT~tla~GvnlPa~~VVI~~~~~yd~~~g~~ 365 (737)
T PRK02362 289 VSDTETSKDLADCVAKGAAFHHAGLSREHRELVEDAFRD--RLIKV-ISSTPTLAAGLNLPARRVIIRDYRRYDGGAGMQ 365 (737)
T ss_pred ccCccccHHHHHHHHhCEEeecCCCCHHHHHHHHHHHHc--CCCeE-EEechhhhhhcCCCceEEEEecceeecCCCCce
Confidence 1357889999999999999999997 45555 999999999999999888886 87 5
Q ss_pred CCCcchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 577 DWNPQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 577 ~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
|.++..+.|++|||+|.|....-.++-++..
T Consensus 366 ~~s~~~y~Qm~GRAGR~g~d~~G~~ii~~~~ 396 (737)
T PRK02362 366 PIPVLEYHQMAGRAGRPGLDPYGEAVLLAKS 396 (737)
T ss_pred eCCHHHHHHHhhcCCCCCCCCCceEEEEecC
Confidence 7788999999999999998665555555544
No 54
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.89 E-value=1.2e-22 Score=212.42 Aligned_cols=320 Identities=20% Similarity=0.271 Sum_probs=211.5
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC-----CCCCcEEEEcCccHH-HH---HHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG-----LHGPYLVIAPLSTLS-NW---VNEI 223 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~-----~~~~~LIV~P~sll~-~W---~~E~ 223 (725)
-.+|.+.|...+.-++. |.+.+.+.-+|+|||+.-+.-+..+..+. ..-.++||||..-+. |- .+++
T Consensus 102 F~~MT~VQ~~ti~pll~----gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~L 177 (543)
T KOG0342|consen 102 FETMTPVQQKTIPPLLE----GKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKEL 177 (543)
T ss_pred ccchhHHHHhhcCccCC----CccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHH
Confidence 35788999988887765 88999999999999998654444433221 112479999988554 33 3456
Q ss_pred HHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH---hhhhcCccEEEEccccccCCc--chH
Q 004880 224 SRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK---YLRHYNWKYLVVDEGHRLKNP--KCK 298 (725)
Q Consensus 224 ~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~---~l~~~~~~~vIvDEaH~ikn~--~s~ 298 (725)
.++.|+..+.+..|...-+....+. ....+++|.|++.+..++.+ ++.. .-+++|+|||+++-.. .-.
T Consensus 178 l~~h~~~~v~~viGG~~~~~e~~kl------~k~~niliATPGRLlDHlqNt~~f~~r-~~k~lvlDEADrlLd~GF~~d 250 (543)
T KOG0342|consen 178 LKYHESITVGIVIGGNNFSVEADKL------VKGCNILIATPGRLLDHLQNTSGFLFR-NLKCLVLDEADRLLDIGFEED 250 (543)
T ss_pred HhhCCCcceEEEeCCccchHHHHHh------hccccEEEeCCchHHhHhhcCCcchhh-ccceeEeecchhhhhcccHHH
Confidence 6677777776666655544433222 13678999999999877642 2222 2379999999999643 333
Q ss_pred HHHHHhcCCC-CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHH
Q 004880 299 LLKELKYIPI-GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHA 377 (725)
Q Consensus 299 ~~~~l~~l~~-~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~ 377 (725)
+-+.+..++. +..++.|||-
T Consensus 251 i~~Ii~~lpk~rqt~LFSAT~----------------------------------------------------------- 271 (543)
T KOG0342|consen 251 VEQIIKILPKQRQTLLFSATQ----------------------------------------------------------- 271 (543)
T ss_pred HHHHHHhccccceeeEeeCCC-----------------------------------------------------------
Confidence 4444444432 2336666662
Q ss_pred hhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChh
Q 004880 378 ILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPD 457 (725)
Q Consensus 378 ~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~ 457 (725)
++.-+++....+... ..+. . ....+ ... ....+.+.+
T Consensus 272 ------------------------------~~kV~~l~~~~L~~d-~~~v--~--~~d~~-~~~---The~l~Qgy---- 308 (543)
T KOG0342|consen 272 ------------------------------PSKVKDLARGALKRD-PVFV--N--VDDGG-ERE---THERLEQGY---- 308 (543)
T ss_pred ------------------------------cHHHHHHHHHhhcCC-ceEe--e--cCCCC-Ccc---hhhcccceE----
Confidence 111111110000000 0000 0 00000 000 000000000
Q ss_pred hhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHH
Q 004880 458 LLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKR 537 (725)
Q Consensus 458 l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~ 537 (725)
-+.....++..+..+|++...+ .|++|||....+.+++...|....+++.-|||..++..|..
T Consensus 309 ----------------vv~~~~~~f~ll~~~LKk~~~~-~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~ 371 (543)
T KOG0342|consen 309 ----------------VVAPSDSRFSLLYTFLKKNIKR-YKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTS 371 (543)
T ss_pred ----------------EeccccchHHHHHHHHHHhcCC-ceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccch
Confidence 0011234577888888877554 89999999999999999999999999999999999999999
Q ss_pred HHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 538 QIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 538 ~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
+..+|.+.++. ||++|+++++|+|++.++.||.||+|-+|..|++|+||.+|-|-+ =.-+-|+++
T Consensus 372 ~~~~F~kaesg---IL~cTDVaARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRTaR~gk~--G~alL~l~p 436 (543)
T KOG0342|consen 372 TFFEFCKAESG---ILVCTDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKE--GKALLLLAP 436 (543)
T ss_pred HHHHHhhcccc---eEEecchhhccCCCCCceEEEEeCCCCCHHHHHHHhccccccCCC--ceEEEEeCh
Confidence 99999986666 799999999999999999999999999999999999999997644 344445554
No 55
>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=99.89 E-value=1.8e-21 Score=211.76 Aligned_cols=317 Identities=16% Similarity=0.172 Sum_probs=197.1
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCceEEEEeCChhhHH-----------H
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSVSAIIYHGSKKERD-----------E 244 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~~v~~~~g~~~~r~-----------~ 244 (725)
.++..+||+|||.+++..+......+..+++++++|.. ++.++.+.+..++.. .+..+||...... .
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGS-NLGLLHSSSSFKRIKEMGDSEEFEH 80 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhCc-ccEEeeccHHHHHHhccCCchhHHH
Confidence 47889999999999888877666656667899999954 778899999988754 4555566443110 0
Q ss_pred HHHhc-CCCCCCCCCCEEEecHHHHHHHHHH-------hhhhcCccEEEEccccccCCcch-HHHHHHhcCC--CCcEEE
Q 004880 245 IRRKH-MPRAIGPKFPIVVTSYEVALSDARK-------YLRHYNWKYLVVDEGHRLKNPKC-KLLKELKYIP--IGNKLL 313 (725)
Q Consensus 245 ~~~~~-~~~~~~~~~~vvItsye~~~~~~~~-------~l~~~~~~~vIvDEaH~ikn~~s-~~~~~l~~l~--~~~rll 313 (725)
..... .........+++|+|++.+...+.. .+......+||+||+|.+..... .+...+..+. ....++
T Consensus 81 ~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~l~~~l~~l~~~~~~~i~ 160 (358)
T TIGR01587 81 LFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLKDNDVPILL 160 (358)
T ss_pred HHHHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHHHHHHHHHHHHcCCCEEE
Confidence 00000 0000112467999999998765422 12223347999999999975322 2333333332 456799
Q ss_pred EeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhheehhhHhh
Q 004880 314 LTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLRRMKSDVEQ 393 (725)
Q Consensus 314 LTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~ 393 (725)
+|||+- +.+.++. ..+... ....
T Consensus 161 ~SATlp-~~l~~~~------------------~~~~~~--------------------------------------~~~~ 183 (358)
T TIGR01587 161 MSATLP-KFLKEYA------------------EKIGYV--------------------------------------EFNE 183 (358)
T ss_pred EecCch-HHHHHHH------------------hcCCCc--------------------------------------cccc
Confidence 999962 1111100 000000 0000
Q ss_pred cCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCCCCCCchH
Q 004880 394 MLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDSCFYPPVE 473 (725)
Q Consensus 394 ~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~~~~~~~ 473 (725)
..+..... ....|+.....
T Consensus 184 ~~~~~~~~-------------------------------------------------~~~~~~~~~~~------------ 202 (358)
T TIGR01587 184 PLDLKEER-------------------------------------------------RFERHRFIKIE------------ 202 (358)
T ss_pred CCCCcccc-------------------------------------------------ccccccceeec------------
Confidence 00000000 00001100000
Q ss_pred HHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCc--eEEEEeCCCCHHHHHHH----HHHHhCCCC
Q 004880 474 QIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGY--EVCRIDGSVRLDERKRQ----IQDFNDVNS 547 (725)
Q Consensus 474 ~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~--~~~~l~G~~~~~~R~~~----i~~F~~~~~ 547 (725)
.....|...+..++..+ ..+.++||||+....++.+...|...+. .+..+||.++..+|.+. ++.|.+ +
T Consensus 203 --~~~~~~~~~l~~l~~~~-~~~~~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~--~ 277 (358)
T TIGR01587 203 --SDKVGEISSLERLLEFI-KKGGKIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKK--N 277 (358)
T ss_pred --cccccCHHHHHHHHHHh-hCCCeEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcC--C
Confidence 00123555666666443 4678999999999999999999988766 48999999999999764 888987 3
Q ss_pred CceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCC----ceEEEEEecCC---CHHHHHHHHHHH
Q 004880 548 SYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTK----PVHVYRLATAQ---SVEGRILKRAFS 620 (725)
Q Consensus 548 ~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k----~V~Vyrli~~~---TiEe~i~~~~~~ 620 (725)
..+ +|+||+++++|||+. +++||.++.| +..+.||+||++|.|... .|+||.....+ ..+..++++-..
T Consensus 278 ~~~-ilvaT~~~~~GiDi~-~~~vi~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~t~~ 353 (358)
T TIGR01587 278 EKF-VIVATQVIEASLDIS-ADVMITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIITIAPEGKLFPYPYELVERTIQ 353 (358)
T ss_pred CCe-EEEECcchhceeccC-CCEEEEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEeecCCCCeecCCHHHHHHHHH
Confidence 333 599999999999995 8999998876 789999999999999754 35555554444 355555555544
Q ss_pred H
Q 004880 621 K 621 (725)
Q Consensus 621 K 621 (725)
+
T Consensus 354 ~ 354 (358)
T TIGR01587 354 K 354 (358)
T ss_pred H
Confidence 3
No 56
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=1.4e-22 Score=197.44 Aligned_cols=316 Identities=21% Similarity=0.280 Sum_probs=223.0
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhCCCCCCcEEEEcCccHH-HHHHHHHHhCCCc--
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGNGLHGPYLVIAPLSTLS-NWVNEISRFVPSV-- 230 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~~~~~~~LIV~P~sll~-~W~~E~~~~~p~~-- 230 (725)
+....|..++..++. |++.|.-...|.|||.+ +|+++..+.-....-.+||+.|..-+. |-.+-+.......
T Consensus 49 kPS~IQqrAi~~Ilk----GrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnv 124 (400)
T KOG0328|consen 49 KPSAIQQRAIPQILK----GRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDYMNV 124 (400)
T ss_pred CchHHHhhhhhhhhc----ccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhcccccc
Confidence 556689999988876 99999999999999987 677766554443345789999988554 4555555554433
Q ss_pred eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH-HhhhhcCccEEEEccccccCC--cchHHHHHHhcCC
Q 004880 231 SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR-KYLRHYNWKYLVVDEGHRLKN--PKCKLLKELKYIP 307 (725)
Q Consensus 231 ~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~-~~l~~~~~~~vIvDEaH~ikn--~~s~~~~~l~~l~ 307 (725)
.+....|.+.-...++... -..++|..|++.+...++ ..|+....+++|+|||+.+.| ...+.+...+.++
T Consensus 125 q~hacigg~n~gedikkld------~G~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDEaDemL~kgfk~Qiydiyr~lp 198 (400)
T KOG0328|consen 125 QCHACIGGKNLGEDIKKLD------YGQHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEADEMLNKGFKEQIYDIYRYLP 198 (400)
T ss_pred eEEEEecCCccchhhhhhc------ccceEeeCCCchHHHHHHhccccccceeEEEeccHHHHHHhhHHHHHHHHHHhCC
Confidence 4444455555444444332 255789999998877653 356666789999999999865 4567888888887
Q ss_pred -CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhhe
Q 004880 308 -IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLRR 386 (725)
Q Consensus 308 -~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR 386 (725)
....+++|||- +.|+..+.++..++.
T Consensus 199 ~~~Qvv~~SATl----p~eilemt~kfmtdp------------------------------------------------- 225 (400)
T KOG0328|consen 199 PGAQVVLVSATL----PHEILEMTEKFMTDP------------------------------------------------- 225 (400)
T ss_pred CCceEEEEeccC----cHHHHHHHHHhcCCc-------------------------------------------------
Confidence 66778999994 233333333332221
Q ss_pred ehhhHhhcCCCceEEEE-EecCCHH-HHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhcc
Q 004880 387 MKSDVEQMLPRKKEIIL-YATMTEH-QRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFS 464 (725)
Q Consensus 387 ~k~dv~~~lP~k~e~~v-~~~ls~~-q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~ 464 (725)
....+ .-.+|.+ -+.+|-..
T Consensus 226 ------------vrilvkrdeltlEgIKqf~v~v---------------------------------------------- 247 (400)
T KOG0328|consen 226 ------------VRILVKRDELTLEGIKQFFVAV---------------------------------------------- 247 (400)
T ss_pred ------------eeEEEecCCCchhhhhhheeee----------------------------------------------
Confidence 11111 1112211 01111000
Q ss_pred CCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhC
Q 004880 465 DSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFND 544 (725)
Q Consensus 465 ~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~ 544 (725)
-..--|+..|.++-..+- =...+|||+....+|+|.+.+...++.+..+||.+++++|.+++.+|++
T Consensus 248 -----------e~EewKfdtLcdLYd~Lt--ItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRs 314 (400)
T KOG0328|consen 248 -----------EKEEWKFDTLCDLYDTLT--ITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRS 314 (400)
T ss_pred -----------chhhhhHhHHHHHhhhhe--hheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhc
Confidence 000125555555555442 2458999999999999999999999999999999999999999999998
Q ss_pred CCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCC
Q 004880 545 VNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQS 609 (725)
Q Consensus 545 ~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~T 609 (725)
+.+. +|++|++-++||+.+..+.||+||.|-|+..|++|+||.+|.|.+- .+..|+....
T Consensus 315 g~Sr---vLitTDVwaRGiDv~qVslviNYDLP~nre~YIHRIGRSGRFGRkG--vainFVk~~d 374 (400)
T KOG0328|consen 315 GKSR---VLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKG--VAINFVKSDD 374 (400)
T ss_pred CCce---EEEEechhhccCCcceeEEEEecCCCccHHHHhhhhccccccCCcc--eEEEEecHHH
Confidence 5554 5999999999999999999999999999999999999999999543 4556776653
No 57
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.89 E-value=1.6e-21 Score=205.56 Aligned_cols=330 Identities=20% Similarity=0.235 Sum_probs=226.4
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHH-HHHHHHHHhCCCCC-----CcEEEEcCccH-HHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQT-IAFLAHLKGNGLHG-----PYLVIAPLSTL-SNWVNEISR 225 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qa-iali~~l~~~~~~~-----~~LIV~P~sll-~~W~~E~~~ 225 (725)
...+...|...+...+. |...|-|.-+|+|||+.- +.++..|...+ ++ -+|||.|+.-+ .|-..-+.+
T Consensus 89 fv~~teiQ~~~Ip~aL~----G~DvlGAAkTGSGKTLAFlvPvlE~L~r~k-Ws~~DGlGalIISPTRELA~QtFevL~k 163 (758)
T KOG0343|consen 89 FVKMTEIQRDTIPMALQ----GHDVLGAAKTGSGKTLAFLVPVLEALYRLK-WSPTDGLGALIISPTRELALQTFEVLNK 163 (758)
T ss_pred CccHHHHHHhhcchhcc----CcccccccccCCCceeeehHHHHHHHHHcC-CCCCCCceeEEecchHHHHHHHHHHHHH
Confidence 34788999999988875 889999999999999984 45566665532 22 37999998844 454444444
Q ss_pred hC--CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH--hhhhcCccEEEEccccccCCcc--hHH
Q 004880 226 FV--PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK--YLRHYNWKYLVVDEGHRLKNPK--CKL 299 (725)
Q Consensus 226 ~~--p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~--~l~~~~~~~vIvDEaH~ikn~~--s~~ 299 (725)
.. ..+...++.|.........+. ...+|+|+|++.++.++.. .|...+..++|+|||.++...+ ..+
T Consensus 164 vgk~h~fSaGLiiGG~~~k~E~eRi-------~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDEADR~LDMGFk~tL 236 (758)
T KOG0343|consen 164 VGKHHDFSAGLIIGGKDVKFELERI-------SQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLDMGFKKTL 236 (758)
T ss_pred HhhccccccceeecCchhHHHHHhh-------hcCCeEEechHHHHHHhhhcCCCCCCcceEEEeccHHHHHHHhHHHHH
Confidence 32 234444445554443333222 4678999999999988743 3555667899999999997543 334
Q ss_pred HHHHhcCC-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHh
Q 004880 300 LKELKYIP-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAI 378 (725)
Q Consensus 300 ~~~l~~l~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 378 (725)
...+..++ .+..+|.||||-.+ ..+|.- |
T Consensus 237 ~~Ii~~lP~~RQTLLFSATqt~s-vkdLaR----------------------------------------------L--- 266 (758)
T KOG0343|consen 237 NAIIENLPKKRQTLLFSATQTKS-VKDLAR----------------------------------------------L--- 266 (758)
T ss_pred HHHHHhCChhheeeeeecccchh-HHHHHH----------------------------------------------h---
Confidence 44455554 34458888887321 111100 0
Q ss_pred hhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhh
Q 004880 379 LRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDL 458 (725)
Q Consensus 379 l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l 458 (725)
.|-.....-++..- ....|..
T Consensus 267 ---------------sL~dP~~vsvhe~a--------------------------------------------~~atP~~ 287 (758)
T KOG0343|consen 267 ---------------SLKDPVYVSVHENA--------------------------------------------VAATPSN 287 (758)
T ss_pred ---------------hcCCCcEEEEeccc--------------------------------------------cccChhh
Confidence 11111111221000 0001111
Q ss_pred hhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc--CceEEEEeCCCCHHHHH
Q 004880 459 LESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK--GYEVCRIDGSVRLDERK 536 (725)
Q Consensus 459 ~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~--g~~~~~l~G~~~~~~R~ 536 (725)
+...+. ++....|+.+|..++.... ..|.|||..+...+.++...|... |++...++|.+++..|.
T Consensus 288 L~Q~y~----------~v~l~~Ki~~L~sFI~shl--k~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ 355 (758)
T KOG0343|consen 288 LQQSYV----------IVPLEDKIDMLWSFIKSHL--KKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRI 355 (758)
T ss_pred hhheEE----------EEehhhHHHHHHHHHHhcc--ccceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHH
Confidence 111000 0122458899999998754 578999999999999999888765 99999999999999999
Q ss_pred HHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHH
Q 004880 537 RQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILK 616 (725)
Q Consensus 537 ~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~ 616 (725)
++..+|.. ...++|++|+++++||+++++|+||.||.|-+...|++|.||+.|.+-.-...+|-. .+-+|.++.
T Consensus 356 ev~~~F~~---~~~~vLF~TDv~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRtAR~~~~G~sll~L~---psEeE~~l~ 429 (758)
T KOG0343|consen 356 EVYKKFVR---KRAVVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLMLT---PSEEEAMLK 429 (758)
T ss_pred HHHHHHHH---hcceEEEeehhhhccCCCcccceEEEecCchhHHHHHHHhhhhhcccCCCceEEEEc---chhHHHHHH
Confidence 99999986 344689999999999999999999999999999999999999999987666655433 234688887
Q ss_pred HHHHH
Q 004880 617 RAFSK 621 (725)
Q Consensus 617 ~~~~K 621 (725)
++..|
T Consensus 430 ~Lq~k 434 (758)
T KOG0343|consen 430 KLQKK 434 (758)
T ss_pred HHHHc
Confidence 77766
No 58
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.89 E-value=1.2e-21 Score=215.96 Aligned_cols=314 Identities=19% Similarity=0.253 Sum_probs=223.0
Q ss_pred ccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc-CccHHHHHHHHHHhCCC
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP-LSTLSNWVNEISRFVPS 229 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P-~sll~~W~~E~~~~~p~ 229 (725)
+.....||=|.+++..+++ +.++|.-.+||.||++.- .+...-..|.+|||.| .+|.....+.++...
T Consensus 13 fGy~~FR~gQ~evI~~~l~----g~d~lvvmPTGgGKSlCy-----QiPAll~~G~TLVVSPLiSLM~DQV~~l~~~G-- 81 (590)
T COG0514 13 FGYASFRPGQQEIIDALLS----GKDTLVVMPTGGGKSLCY-----QIPALLLEGLTLVVSPLISLMKDQVDQLEAAG-- 81 (590)
T ss_pred hCccccCCCHHHHHHHHHc----CCcEEEEccCCCCcchHh-----hhHHHhcCCCEEEECchHHHHHHHHHHHHHcC--
Confidence 3456899999999999987 899999999999999542 2222222579999999 446666777777653
Q ss_pred ceEEEEeCC--hhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-HHhhhhcCccEEEEccccccCCc-------chHH
Q 004880 230 VSAIIYHGS--KKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA-RKYLRHYNWKYLVVDEGHRLKNP-------KCKL 299 (725)
Q Consensus 230 ~~v~~~~g~--~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~-~~~l~~~~~~~vIvDEaH~ikn~-------~s~~ 299 (725)
+.+....++ ..++..+.... ..+..+++..|+|.+.+.. .+.+...+..+++|||||++-.. ...+
T Consensus 82 i~A~~lnS~l~~~e~~~v~~~l----~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y~~l 157 (590)
T COG0514 82 IRAAYLNSTLSREERQQVLNQL----KSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDYRRL 157 (590)
T ss_pred ceeehhhcccCHHHHHHHHHHH----hcCceeEEEECchhhcChHHHHHHHhCCCceEEechHHHHhhcCCccCHhHHHH
Confidence 555555544 34444433322 2246789999999987653 45677888999999999998543 3456
Q ss_pred HHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhh
Q 004880 300 LKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAIL 379 (725)
Q Consensus 300 ~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l 379 (725)
......++...+++||||--+--..++-..|+.-.|..|-+. |+
T Consensus 158 g~l~~~~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~s------fd------------------------------ 201 (590)
T COG0514 158 GRLRAGLPNPPVLALTATATPRVRDDIREQLGLQDANIFRGS------FD------------------------------ 201 (590)
T ss_pred HHHHhhCCCCCEEEEeCCCChHHHHHHHHHhcCCCcceEEec------CC------------------------------
Confidence 666677788899999999766666666666665544332110 00
Q ss_pred hhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhh
Q 004880 380 RPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLL 459 (725)
Q Consensus 380 ~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~ 459 (725)
.|.. |-.+... .
T Consensus 202 ---------------RpNi----------------~~~v~~~-------------~------------------------ 213 (590)
T COG0514 202 ---------------RPNL----------------ALKVVEK-------------G------------------------ 213 (590)
T ss_pred ---------------Cchh----------------hhhhhhc-------------c------------------------
Confidence 0000 0000000 0
Q ss_pred hhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHH
Q 004880 460 ESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQI 539 (725)
Q Consensus 460 ~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i 539 (725)
..-.++.++.+ .....+...||||.++...+.+..+|...|++...+||+++.++|+..-
T Consensus 214 -----------------~~~~q~~fi~~---~~~~~~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q 273 (590)
T COG0514 214 -----------------EPSDQLAFLAT---VLPQLSKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQ 273 (590)
T ss_pred -----------------cHHHHHHHHHh---hccccCCCeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHH
Confidence 00001111111 1123445689999999999999999999999999999999999999999
Q ss_pred HHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 540 QDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 540 ~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
++|..+ +.. ++++|.|.|.|||-++...|||||+|-+...|.|-+|||+|.|....+.. |+...
T Consensus 274 ~~f~~~--~~~-iiVAT~AFGMGIdKpdVRfViH~~lP~s~EsYyQE~GRAGRDG~~a~ail--l~~~~ 337 (590)
T COG0514 274 QAFLND--EIK-VMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAIL--LYSPE 337 (590)
T ss_pred HHHhcC--CCc-EEEEeccccCccCCCCceEEEEecCCCCHHHHHHHHhhccCCCCcceEEE--eeccc
Confidence 999973 333 59999999999999999999999999999999999999999997666444 44443
No 59
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.88 E-value=6.2e-21 Score=198.18 Aligned_cols=315 Identities=18% Similarity=0.276 Sum_probs=216.2
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHH-h-C--CCCC--CcEEEEcCccHHH----HHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLK-G-N--GLHG--PYLVIAPLSTLSN----WVNE 222 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~-~-~--~~~~--~~LIV~P~sll~~----W~~E 222 (725)
..++.|.|..++..++. +....+-..||+|||+.-+.-+.... . . .+.+ -.|||+|+.-+.- -...
T Consensus 26 F~~mTpVQa~tIPlll~----~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~ 101 (567)
T KOG0345|consen 26 FEKMTPVQAATIPLLLK----NKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQP 101 (567)
T ss_pred CcccCHHHHhhhHHHhc----CCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHH
Confidence 45889999999999986 78889999999999999665555544 2 2 2222 3699999875543 3344
Q ss_pred HHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH---hhhhcCccEEEEccccccCC--cch
Q 004880 223 ISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK---YLRHYNWKYLVVDEGHRLKN--PKC 297 (725)
Q Consensus 223 ~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~---~l~~~~~~~vIvDEaH~ikn--~~s 297 (725)
|..++|+++..++.|...-...+.... ....+|+|.|++.+..-+.. .+..-...++|+|||+++.. ...
T Consensus 102 F~~~l~~l~~~l~vGG~~v~~Di~~fk-----ee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDEADrLldmgFe~ 176 (567)
T KOG0345|consen 102 FLEHLPNLNCELLVGGRSVEEDIKTFK-----EEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEADRLLDMGFEA 176 (567)
T ss_pred HHHhhhccceEEEecCccHHHHHHHHH-----HhCCcEEEeCchhHHHHHhchhhhccccccceEEecchHhHhcccHHH
Confidence 555568898988888866555443321 13567999999988665432 23333467999999999975 445
Q ss_pred HHHHHHhcCCCCcEE-EEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHH
Q 004880 298 KLLKELKYIPIGNKL-LLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLH 376 (725)
Q Consensus 298 ~~~~~l~~l~~~~rl-lLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~ 376 (725)
.+...|..++..+|- |.|||-.+. ..+ |
T Consensus 177 ~~n~ILs~LPKQRRTGLFSATq~~~-v~d-------------------------------------------------L- 205 (567)
T KOG0345|consen 177 SVNTILSFLPKQRRTGLFSATQTQE-VED-------------------------------------------------L- 205 (567)
T ss_pred HHHHHHHhcccccccccccchhhHH-HHH-------------------------------------------------H-
Confidence 667777777777664 447763110 000 0
Q ss_pred HhhhhhhhheehhhHhhcCCCceEEEEEec-C--CHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhc
Q 004880 377 AILRPFLLRRMKSDVEQMLPRKKEIILYAT-M--TEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNC 453 (725)
Q Consensus 377 ~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~-l--s~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~ 453 (725)
.-.-|| ......|-.. . ||....+|
T Consensus 206 ---~raGLR-----------Npv~V~V~~k~~~~tPS~L~~~-------------------------------------- 233 (567)
T KOG0345|consen 206 ---ARAGLR-----------NPVRVSVKEKSKSATPSSLALE-------------------------------------- 233 (567)
T ss_pred ---HHhhcc-----------CceeeeecccccccCchhhcce--------------------------------------
Confidence 000111 0000000000 0 00000000
Q ss_pred CChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc--CceEEEEeCCCC
Q 004880 454 NHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK--GYEVCRIDGSVR 531 (725)
Q Consensus 454 ~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~--g~~~~~l~G~~~ 531 (725)
| -.++..-|+..|..+|.. ....|+|||.......++....|... +.+++.+||.++
T Consensus 234 ---Y----------------~v~~a~eK~~~lv~~L~~--~~~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~ 292 (567)
T KOG0345|consen 234 ---Y----------------LVCEADEKLSQLVHLLNN--NKDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMS 292 (567)
T ss_pred ---e----------------eEecHHHHHHHHHHHHhc--cccccEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhc
Confidence 0 001123477888888876 45789999999999998888777653 788999999999
Q ss_pred HHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEE
Q 004880 532 LDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYR 603 (725)
Q Consensus 532 ~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyr 603 (725)
...|..++..|.+.... +|++|+++++|||+++.|.||.||||-+|..+.+|.||+.|.|..-.-.||-
T Consensus 293 q~~R~k~~~~F~~~~~~---vl~~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~Aivfl 361 (567)
T KOG0345|consen 293 QKARAKVLEAFRKLSNG---VLFCTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNAIVFL 361 (567)
T ss_pred chhHHHHHHHHHhccCc---eEEeehhhhccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccceEEEe
Confidence 99999999999973333 6999999999999999999999999999999999999999999766544443
No 60
>PRK01172 ski2-like helicase; Provisional
Probab=99.88 E-value=1.1e-20 Score=221.60 Aligned_cols=308 Identities=20% Similarity=0.199 Sum_probs=193.4
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCC-Cc
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVP-SV 230 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p-~~ 230 (725)
+..|+|+|.+++..+. ++.+.+++.+||+|||+++...+...... .+++++|+|.. +..++.+++.++.. +.
T Consensus 20 ~~~l~~~Q~~ai~~l~----~~~nvlv~apTGSGKTl~a~lail~~l~~--~~k~v~i~P~raLa~q~~~~~~~l~~~g~ 93 (674)
T PRK01172 20 DFELYDHQRMAIEQLR----KGENVIVSVPTAAGKTLIAYSAIYETFLA--GLKSIYIVPLRSLAMEKYEELSRLRSLGM 93 (674)
T ss_pred CCCCCHHHHHHHHHHh----cCCcEEEECCCCchHHHHHHHHHHHHHHh--CCcEEEEechHHHHHHHHHHHHHHhhcCC
Confidence 3469999999998764 48899999999999999876555444433 25899999965 66888888887643 46
Q ss_pred eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH---HhhhhcCccEEEEccccccCCcc--hHHH---HH
Q 004880 231 SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR---KYLRHYNWKYLVVDEGHRLKNPK--CKLL---KE 302 (725)
Q Consensus 231 ~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~---~~l~~~~~~~vIvDEaH~ikn~~--s~~~---~~ 302 (725)
.+....|........ ....+|+|+|++.+..-.+ ..+. ++++|||||+|.+.+.. ..+- ..
T Consensus 94 ~v~~~~G~~~~~~~~---------~~~~dIiv~Tpek~~~l~~~~~~~l~--~v~lvViDEaH~l~d~~rg~~le~ll~~ 162 (674)
T PRK01172 94 RVKISIGDYDDPPDF---------IKRYDVVILTSEKADSLIHHDPYIIN--DVGLIVADEIHIIGDEDRGPTLETVLSS 162 (674)
T ss_pred eEEEEeCCCCCChhh---------hccCCEEEECHHHHHHHHhCChhHHh--hcCEEEEecchhccCCCccHHHHHHHHH
Confidence 677777755332111 1356899999997654432 1222 46899999999996432 1121 22
Q ss_pred HhcCC-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhh
Q 004880 303 LKYIP-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRP 381 (725)
Q Consensus 303 l~~l~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p 381 (725)
++.++ ..+.++||||+- |..+ |.+|+....... ..+|
T Consensus 163 ~~~~~~~~riI~lSATl~--n~~~------------------la~wl~~~~~~~----------------------~~r~ 200 (674)
T PRK01172 163 ARYVNPDARILALSATVS--NANE------------------LAQWLNASLIKS----------------------NFRP 200 (674)
T ss_pred HHhcCcCCcEEEEeCccC--CHHH------------------HHHHhCCCccCC----------------------CCCC
Confidence 22333 446799999962 2333 333332110000 0000
Q ss_pred hhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhh
Q 004880 382 FLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLES 461 (725)
Q Consensus 382 ~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~ 461 (725)
.|-. ..+++.. ..+ . ....
T Consensus 201 -------------vpl~-~~i~~~~------~~~---~--------------~~~~------------------------ 219 (674)
T PRK01172 201 -------------VPLK-LGILYRK------RLI---L--------------DGYE------------------------ 219 (674)
T ss_pred -------------CCeE-EEEEecC------eee---e--------------cccc------------------------
Confidence 1111 1111100 000 0 0000
Q ss_pred hccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc----------------------
Q 004880 462 AFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK---------------------- 519 (725)
Q Consensus 462 ~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~---------------------- 519 (725)
..+. .+..++......++++|||++.....+.+...|...
T Consensus 220 -----------------~~~~-~~~~~i~~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~ 281 (674)
T PRK01172 220 -----------------RSQV-DINSLIKETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLN 281 (674)
T ss_pred -----------------cccc-cHHHHHHHHHhCCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHH
Confidence 0000 012333444456789999999988777666655432
Q ss_pred ---CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCC---------CCCcchhhhHh
Q 004880 520 ---GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDS---------DWNPQMDLQAM 587 (725)
Q Consensus 520 ---g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~---------~wNp~~~~Qa~ 587 (725)
...+..+||+++.++|..+.+.|.+ +.++| |++|.+++.|+|+++ .+||++|. ++++..+.|++
T Consensus 282 ~~l~~gv~~~hagl~~~eR~~ve~~f~~--g~i~V-LvaT~~la~Gvnipa-~~VII~~~~~~~~~~~~~~s~~~~~Qm~ 357 (674)
T PRK01172 282 EMLPHGVAFHHAGLSNEQRRFIEEMFRN--RYIKV-IVATPTLAAGVNLPA-RLVIVRDITRYGNGGIRYLSNMEIKQMI 357 (674)
T ss_pred HHHhcCEEEecCCCCHHHHHHHHHHHHc--CCCeE-EEecchhhccCCCcc-eEEEEcCceEeCCCCceeCCHHHHHHHh
Confidence 1246778999999999999999997 45555 999999999999996 57777664 35677889999
Q ss_pred HhhHhcCCCCceEEE
Q 004880 588 DRCHRIGQTKPVHVY 602 (725)
Q Consensus 588 gR~~RiGQ~k~V~Vy 602 (725)
|||+|.|....-..+
T Consensus 358 GRAGR~g~d~~g~~~ 372 (674)
T PRK01172 358 GRAGRPGYDQYGIGY 372 (674)
T ss_pred hcCCCCCCCCcceEE
Confidence 999999976553333
No 61
>PRK00254 ski2-like helicase; Provisional
Probab=99.88 E-value=1.5e-20 Score=221.26 Aligned_cols=318 Identities=21% Similarity=0.201 Sum_probs=198.3
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHH-HHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCC-Cc
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQT-IAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVP-SV 230 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qa-iali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p-~~ 230 (725)
..|+|+|.+++.-.+ .++.+.+++.+||+|||+.+ ++++..+... .+++|+|+|.. ++.++.+++.+|.. +.
T Consensus 22 ~~l~~~Q~~ai~~~~---~~g~nvlv~apTGsGKT~~~~l~il~~l~~~--~~~~l~l~P~~aLa~q~~~~~~~~~~~g~ 96 (720)
T PRK00254 22 EELYPPQAEALKSGV---LEGKNLVLAIPTASGKTLVAEIVMVNKLLRE--GGKAVYLVPLKALAEEKYREFKDWEKLGL 96 (720)
T ss_pred CCCCHHHHHHHHHHH---hCCCcEEEECCCCcHHHHHHHHHHHHHHHhc--CCeEEEEeChHHHHHHHHHHHHHHhhcCC
Confidence 579999999997422 45889999999999999998 5555555543 36899999966 66888888887643 57
Q ss_pred eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH---HhhhhcCccEEEEccccccCC--cchHHHHHHhc
Q 004880 231 SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR---KYLRHYNWKYLVVDEGHRLKN--PKCKLLKELKY 305 (725)
Q Consensus 231 ~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~---~~l~~~~~~~vIvDEaH~ikn--~~s~~~~~l~~ 305 (725)
.+..++|....... .....+|+|+|++.+....+ ..+. +.++|||||+|.+.. ....+...+..
T Consensus 97 ~v~~~~Gd~~~~~~---------~~~~~~IiV~Tpe~~~~ll~~~~~~l~--~l~lvViDE~H~l~~~~rg~~le~il~~ 165 (720)
T PRK00254 97 RVAMTTGDYDSTDE---------WLGKYDIIIATAEKFDSLLRHGSSWIK--DVKLVVADEIHLIGSYDRGATLEMILTH 165 (720)
T ss_pred EEEEEeCCCCCchh---------hhccCCEEEEcHHHHHHHHhCCchhhh--cCCEEEEcCcCccCCccchHHHHHHHHh
Confidence 78888887543221 11457899999998755432 1232 468999999999964 33444445555
Q ss_pred CC-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q 004880 306 IP-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLL 384 (725)
Q Consensus 306 l~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~l 384 (725)
+. ..+.++||||+- |..++...++ ...+.+ ..+|
T Consensus 166 l~~~~qiI~lSATl~--n~~~la~wl~---~~~~~~-------------------------------------~~rp--- 200 (720)
T PRK00254 166 MLGRAQILGLSATVG--NAEELAEWLN---AELVVS-------------------------------------DWRP--- 200 (720)
T ss_pred cCcCCcEEEEEccCC--CHHHHHHHhC---CccccC-------------------------------------CCCC---
Confidence 53 456799999962 2344332221 111000 0001
Q ss_pred heehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhcc
Q 004880 385 RRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFS 464 (725)
Q Consensus 385 RR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~ 464 (725)
.|.+.. +++-... .+. ... ...
T Consensus 201 ----------v~l~~~-~~~~~~~-----~~~------------------~~~-~~~----------------------- 222 (720)
T PRK00254 201 ----------VKLRKG-VFYQGFL-----FWE------------------DGK-IER----------------------- 222 (720)
T ss_pred ----------Ccceee-EecCCee-----ecc------------------Ccc-hhc-----------------------
Confidence 111000 0000000 000 000 000
Q ss_pred CCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhh--------------------------
Q 004880 465 DSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNE-------------------------- 518 (725)
Q Consensus 465 ~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~-------------------------- 518 (725)
+ ......++......+.++||||+.+.....+...|..
T Consensus 223 ----~------------~~~~~~~~~~~i~~~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 286 (720)
T PRK00254 223 ----F------------PNSWESLVYDAVKKGKGALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPT 286 (720)
T ss_pred ----c------------hHHHHHHHHHHHHhCCCEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCC
Confidence 0 0001112222334578899999887765443322211
Q ss_pred -------cCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEE-------eCCCCCc-chh
Q 004880 519 -------KGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCIL-------YDSDWNP-QMD 583 (725)
Q Consensus 519 -------~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~-------~D~~wNp-~~~ 583 (725)
....+..+||+++.++|..+.+.|++ +.++| |++|++++.|+|+++.++||. |+.++-| ..+
T Consensus 287 ~~~L~~~l~~gv~~hHagl~~~eR~~ve~~F~~--G~i~V-LvaT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~~~~~ 363 (720)
T PRK00254 287 NEKLKKALRGGVAFHHAGLGRTERVLIEDAFRE--GLIKV-ITATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEI 363 (720)
T ss_pred cHHHHHHHhhCEEEeCCCCCHHHHHHHHHHHHC--CCCeE-EEeCcHHhhhcCCCceEEEECCceEcCCCCceeCCHHHH
Confidence 12358889999999999999999997 45555 999999999999998888884 3333333 467
Q ss_pred hhHhHhhHhcCCCCceEEEEEecCCC
Q 004880 584 LQAMDRCHRIGQTKPVHVYRLATAQS 609 (725)
Q Consensus 584 ~Qa~gR~~RiGQ~k~V~Vyrli~~~T 609 (725)
.|++|||+|.|..+.-.++-++....
T Consensus 364 ~Qm~GRAGR~~~d~~G~~ii~~~~~~ 389 (720)
T PRK00254 364 QQMMGRAGRPKYDEVGEAIIVATTEE 389 (720)
T ss_pred HHhhhccCCCCcCCCceEEEEecCcc
Confidence 99999999998766655666665443
No 62
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.87 E-value=2.2e-21 Score=202.75 Aligned_cols=373 Identities=16% Similarity=0.200 Sum_probs=222.2
Q ss_pred CCcccchHHHHHHHHHHHhc-----CCCCeEEEcCCCCcHHHH-HHHHHHHHHhCC-CCCCcEEEEcCc-cHHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQ-----NGLNGILADQMGLGKTIQ-TIAFLAHLKGNG-LHGPYLVIAPLS-TLSNWVNEIS 224 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~-----~~~~~ILademGlGKT~q-aiali~~l~~~~-~~~~~LIV~P~s-ll~~W~~E~~ 224 (725)
-..++|.|...+.|++.-.. .++...++..+|+|||+. +|-++..+..+. ..-+.+||+|.. +..|-.++|.
T Consensus 157 is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~ 236 (620)
T KOG0350|consen 157 ISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFK 236 (620)
T ss_pred cccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHH
Confidence 35899999999999987543 244568999999999999 566665555442 234789999987 5578889999
Q ss_pred HhCCC--ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH--hhhhcCccEEEEccccccCCcchH--
Q 004880 225 RFVPS--VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK--YLRHYNWKYLVVDEGHRLKNPKCK-- 298 (725)
Q Consensus 225 ~~~p~--~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~--~l~~~~~~~vIvDEaH~ikn~~s~-- 298 (725)
+|+++ +.|+...|...-++..+... ........+|+|+|++.+..++.. -|.-.+..|+|||||+|+.+..-+
T Consensus 237 ~~~~~tgL~V~~~sgq~sl~~E~~qL~-~~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEADRll~qsfQ~W 315 (620)
T KOG0350|consen 237 RLNSGTGLAVCSLSGQNSLEDEARQLA-SDPPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDEADRLLDQSFQEW 315 (620)
T ss_pred HhccCCceEEEecccccchHHHHHHHh-cCCCccccceEEcCchHHHHhccCCCCcchhhceEEEechHHHHHHHHHHHH
Confidence 99875 56666777666665544332 222233679999999999887632 222234679999999999754321
Q ss_pred HHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHh
Q 004880 299 LLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAI 378 (725)
Q Consensus 299 ~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 378 (725)
+...+...+...++.+++ .+..+..-..|..++ +....+. .....|..+
T Consensus 316 l~~v~~~~~~~k~~~~~~--------nii~~~~~~~pt~~~---e~~t~~~--------------------~~~~~l~kL 364 (620)
T KOG0350|consen 316 LDTVMSLCKTMKRVACLD--------NIIRQRQAPQPTVLS---ELLTKLG--------------------KLYPPLWKL 364 (620)
T ss_pred HHHHHHHhCCchhhcChh--------hhhhhcccCCchhhH---HHHhhcC--------------------CcCchhHhh
Confidence 112222222222222111 111100000000000 0000000 000001111
Q ss_pred hhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhh
Q 004880 379 LRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDL 458 (725)
Q Consensus 379 l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l 458 (725)
+.+-.+.+.-.- +..| -..+|.+
T Consensus 365 ~~satLsqdP~K-------------------------------------------------------l~~l--~l~~Prl 387 (620)
T KOG0350|consen 365 VFSATLSQDPSK-------------------------------------------------------LKDL--TLHIPRL 387 (620)
T ss_pred hcchhhhcChHH-------------------------------------------------------Hhhh--hcCCCce
Confidence 111111111000 0000 1223333
Q ss_pred hhhhccCCCCCCch----HHHHHhh--cHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHh----hcCceEEEEeC
Q 004880 459 LESAFSDSCFYPPV----EQIVEQC--GKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFN----EKGYEVCRIDG 528 (725)
Q Consensus 459 ~~~~~~~~~~~~~~----~~l~~~s--~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~----~~g~~~~~l~G 528 (725)
+.........|..- +..+-.. -|-..+..++.. ....++|+|+.+......+...|. ..++++..++|
T Consensus 388 ~~v~~~~~~ryslp~~l~~~~vv~~~~~kpl~~~~lI~~--~k~~r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~t~ 465 (620)
T KOG0350|consen 388 FHVSKPLIGRYSLPSSLSHRLVVTEPKFKPLAVYALITS--NKLNRTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTG 465 (620)
T ss_pred EEeecccceeeecChhhhhceeecccccchHhHHHHHHH--hhcceEEEEecchHHHHHHHHHHHHHhccccchhhhhhh
Confidence 32211111111100 0011111 244455556654 357899999999888777766665 34667777999
Q ss_pred CCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 529 SVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 529 ~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
+.+.+.|.+.+.+|+. +++++ ||+++++++|||+...+.||.||+|-.-..|.+|.||..|-||.- ++|.++...
T Consensus 466 ~l~~k~r~k~l~~f~~--g~i~v-LIcSD~laRGiDv~~v~~VINYd~P~~~ktyVHR~GRTARAgq~G--~a~tll~~~ 540 (620)
T KOG0350|consen 466 QLNGKRRYKMLEKFAK--GDINV-LICSDALARGIDVNDVDNVINYDPPASDKTYVHRAGRTARAGQDG--YAITLLDKH 540 (620)
T ss_pred hhhHHHHHHHHHHHhc--CCceE-EEehhhhhcCCcccccceEeecCCCchhhHHHHhhcccccccCCc--eEEEeeccc
Confidence 9999999999999998 45555 999999999999999999999999999999999999999999865 556666655
Q ss_pred CHHHHHHHHHHHHHH
Q 004880 609 SVEGRILKRAFSKLK 623 (725)
Q Consensus 609 TiEe~i~~~~~~K~~ 623 (725)
|.+.+.....|..
T Consensus 541 --~~r~F~klL~~~~ 553 (620)
T KOG0350|consen 541 --EKRLFSKLLKKTN 553 (620)
T ss_pred --cchHHHHHHHHhc
Confidence 4555555544443
No 63
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.86 E-value=2.6e-20 Score=225.39 Aligned_cols=96 Identities=22% Similarity=0.281 Sum_probs=84.4
Q ss_pred CCCcEEEEccchhHHHHHHHHHhhcC---------------------------------ceEEEEeCCCCHHHHHHHHHH
Q 004880 495 RNHKVLVFSQWTKILDIMEYYFNEKG---------------------------------YEVCRIDGSVRLDERKRQIQD 541 (725)
Q Consensus 495 ~~~kvlIFsq~~~~ld~l~~~L~~~g---------------------------------~~~~~l~G~~~~~~R~~~i~~ 541 (725)
.+.++||||+.+...+.+...|+... +.+..+||+++.++|..+.+.
T Consensus 243 ~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~ 322 (1490)
T PRK09751 243 RHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQA 322 (1490)
T ss_pred cCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHH
Confidence 46889999999999998888886531 124568899999999999999
Q ss_pred HhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhc
Q 004880 542 FNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRI 593 (725)
Q Consensus 542 F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~Ri 593 (725)
|++ +.+++ |++|.+++.|||+..+|.||+|++|.+...++||+||++|.
T Consensus 323 fK~--G~Lrv-LVATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~ 371 (1490)
T PRK09751 323 LKS--GELRC-VVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQ 371 (1490)
T ss_pred HHh--CCceE-EEeCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCC
Confidence 997 44554 99999999999999999999999999999999999999995
No 64
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.86 E-value=6e-21 Score=200.42 Aligned_cols=339 Identities=20% Similarity=0.313 Sum_probs=215.4
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHh--------CCCCCC-cEEEEcCccH-HHHHHH
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKG--------NGLHGP-YLVIAPLSTL-SNWVNE 222 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~--------~~~~~~-~LIV~P~sll-~~W~~E 222 (725)
....|.|..++.-++. .++.|...|+|+|||.. .|-++.++.. +...|| .+|++|+.-+ .|-..|
T Consensus 266 ~eptpIqR~aipl~lQ----~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeE 341 (673)
T KOG0333|consen 266 KEPTPIQRQAIPLGLQ----NRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEE 341 (673)
T ss_pred CCCchHHHhhccchhc----cCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHH
Confidence 3567888888886654 78899999999999955 2333333321 122334 6899998855 556777
Q ss_pred HHHhCC--CceEEEEeCC-hhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH-HhhhhcCccEEEEccccccCCcc--
Q 004880 223 ISRFVP--SVSAIIYHGS-KKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR-KYLRHYNWKYLVVDEGHRLKNPK-- 296 (725)
Q Consensus 223 ~~~~~p--~~~v~~~~g~-~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~-~~l~~~~~~~vIvDEaH~ikn~~-- 296 (725)
-.+|.. ++.++.+.|. ..+-..++ ....+.|+|.|+..+...+. .+|..-+..|||+|||.++-...
T Consensus 342 t~kf~~~lg~r~vsvigg~s~EEq~fq-------ls~gceiviatPgrLid~Lenr~lvl~qctyvvldeadrmiDmgfE 414 (673)
T KOG0333|consen 342 TNKFGKPLGIRTVSVIGGLSFEEQGFQ-------LSMGCEIVIATPGRLIDSLENRYLVLNQCTYVVLDEADRMIDMGFE 414 (673)
T ss_pred HHHhcccccceEEEEecccchhhhhhh-------hhccceeeecCchHHHHHHHHHHHHhccCceEeccchhhhhccccc
Confidence 777753 3455544443 33322111 22468899999999877653 35555567899999999986433
Q ss_pred hHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHH
Q 004880 297 CKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLH 376 (725)
Q Consensus 297 s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~ 376 (725)
-...+.|..+++ .|- .| +.+++..| .++.
T Consensus 415 ~dv~~iL~~mPs-----------sn~-----------k~----~tde~~~~-------------------------~~~~ 443 (673)
T KOG0333|consen 415 PDVQKILEQMPS-----------SNA-----------KP----DTDEKEGE-------------------------ERVR 443 (673)
T ss_pred HHHHHHHHhCCc-----------ccc-----------CC----CccchhhH-------------------------HHHH
Confidence 223333322211 110 00 00111111 0010
Q ss_pred HhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCCh
Q 004880 377 AILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHP 456 (725)
Q Consensus 377 ~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp 456 (725)
+. |.-. ---.......+.|++.-..+-+.++.+ |
T Consensus 444 ~~---~~~~---------k~yrqT~mftatm~p~verlar~ylr~----------------------------------p 477 (673)
T KOG0333|consen 444 KN---FSSS---------KKYRQTVMFTATMPPAVERLARSYLRR----------------------------------P 477 (673)
T ss_pred hh---cccc---------cceeEEEEEecCCChHHHHHHHHHhhC----------------------------------C
Confidence 00 0000 000112333456666544443333211 1
Q ss_pred hhhhhhccCCCCCCchHH---HHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHH
Q 004880 457 DLLESAFSDSCFYPPVEQ---IVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLD 533 (725)
Q Consensus 457 ~l~~~~~~~~~~~~~~~~---l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~ 533 (725)
..+....... ..+-+++ .+..+.|...|..+|... ....+|||.+....+|.|.+.|.+.||+++++||+-+++
T Consensus 478 v~vtig~~gk-~~~rveQ~v~m~~ed~k~kkL~eil~~~--~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qe 554 (673)
T KOG0333|consen 478 VVVTIGSAGK-PTPRVEQKVEMVSEDEKRKKLIEILESN--FDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQE 554 (673)
T ss_pred eEEEeccCCC-CccchheEEEEecchHHHHHHHHHHHhC--CCCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHH
Confidence 1111111100 0011111 133466888899998875 467899999999999999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 534 ERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 534 ~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
+|..++..|+.+..+ +|++|+++|+||+++.+++||+||..-+...|.+||||.+|-|+.-.+ ..|++..
T Consensus 555 QRe~aL~~fr~~t~d---IlVaTDvAgRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~Gta--iSflt~~ 624 (673)
T KOG0333|consen 555 QRENALADFREGTGD---ILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGTA--ISFLTPA 624 (673)
T ss_pred HHHHHHHHHHhcCCC---EEEEecccccCCCCCccceeeecchhhhHHHHHHHhccccccccCcee--EEEeccc
Confidence 999999999985555 699999999999999999999999999999999999999999977653 3345544
No 65
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.86 E-value=3.9e-20 Score=194.61 Aligned_cols=117 Identities=22% Similarity=0.373 Sum_probs=94.8
Q ss_pred HHHHHHHHHHHHhh--CCCcEEEEccchhHHHHHHHHHhh----------------------cCceEEEEeCCCCHHHHH
Q 004880 481 KFRLLDRLLARLFA--RNHKVLVFSQWTKILDIMEYYFNE----------------------KGYEVCRIDGSVRLDERK 536 (725)
Q Consensus 481 K~~~L~~ll~~l~~--~~~kvlIFsq~~~~ld~l~~~L~~----------------------~g~~~~~l~G~~~~~~R~ 536 (725)
.+..|..+|..... ...|+|||...+++++.-.+.|.. .+.++.++||+|++++|.
T Consensus 408 RLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRt 487 (708)
T KOG0348|consen 408 RLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERT 487 (708)
T ss_pred hHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHH
Confidence 34455556555432 345889999888888776666543 145699999999999999
Q ss_pred HHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceE
Q 004880 537 RQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVH 600 (725)
Q Consensus 537 ~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~ 600 (725)
..+..|..... .+|+||+++++||||+.+..||.||+|..+..|++|+||..|+|-+-.-.
T Consensus 488 s~f~~Fs~~~~---~VLLcTDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~al 548 (708)
T KOG0348|consen 488 SVFQEFSHSRR---AVLLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEAL 548 (708)
T ss_pred HHHHhhccccc---eEEEehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceE
Confidence 99999987333 37999999999999999999999999999999999999999999766533
No 66
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.86 E-value=7.5e-20 Score=208.92 Aligned_cols=335 Identities=19% Similarity=0.205 Sum_probs=221.7
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHH-HHHHHHHhCCCCC-----CcEEEEcCccHHH-HHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTI-AFLAHLKGNGLHG-----PYLVIAPLSTLSN-WVNEISR 225 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qai-ali~~l~~~~~~~-----~~LIV~P~sll~~-W~~E~~~ 225 (725)
...++|+|..++..+.. |.|+++..+||+|||..|+ .++..+...+... .+|.|+|...+.| -.+.+..
T Consensus 20 ~~~~t~~Q~~a~~~i~~----G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~ 95 (814)
T COG1201 20 FTSLTPPQRYAIPEIHS----GENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE 95 (814)
T ss_pred cCCCCHHHHHHHHHHhC----CCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 56899999999988865 9999999999999999986 4555666653111 3799999776644 4445555
Q ss_pred hC--CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-----HHhhhhcCccEEEEccccccCCc--c
Q 004880 226 FV--PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA-----RKYLRHYNWKYLVVDEGHRLKNP--K 296 (725)
Q Consensus 226 ~~--p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~-----~~~l~~~~~~~vIvDEaH~ikn~--~ 296 (725)
|. -++.+-+-||.......- +......+|+|||++.+.-.+ +.+|.. ..+|||||.|.+.+. +
T Consensus 96 ~~~~~G~~v~vRhGDT~~~er~------r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~--vr~VIVDEiHel~~sKRG 167 (814)
T COG1201 96 PLRELGIEVAVRHGDTPQSEKQ------KMLKNPPHILITTPESLAILLNSPKFRELLRD--VRYVIVDEIHALAESKRG 167 (814)
T ss_pred HHHHcCCccceecCCCChHHhh------hccCCCCcEEEeChhHHHHHhcCHHHHHHhcC--CcEEEeehhhhhhccccc
Confidence 43 256778888876554321 112357899999999975433 344554 478999999999753 3
Q ss_pred hHHHHHHhcC---C-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHH
Q 004880 297 CKLLKELKYI---P-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMV 372 (725)
Q Consensus 297 s~~~~~l~~l---~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 372 (725)
+.++-.|.++ . .-.|++||||-- ++.+ ...||.+.-.
T Consensus 168 ~~Lsl~LeRL~~l~~~~qRIGLSATV~--~~~~---varfL~g~~~---------------------------------- 208 (814)
T COG1201 168 VQLALSLERLRELAGDFQRIGLSATVG--PPEE---VAKFLVGFGD---------------------------------- 208 (814)
T ss_pred hhhhhhHHHHHhhCcccEEEeehhccC--CHHH---HHHHhcCCCC----------------------------------
Confidence 4555555444 3 467899999942 2222 2222221100
Q ss_pred HHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHh
Q 004880 373 AKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKN 452 (725)
Q Consensus 373 ~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~ 452 (725)
....+......+.++.+.++-......
T Consensus 209 --------------~~~Iv~~~~~k~~~i~v~~p~~~~~~~--------------------------------------- 235 (814)
T COG1201 209 --------------PCEIVDVSAAKKLEIKVISPVEDLIYD--------------------------------------- 235 (814)
T ss_pred --------------ceEEEEcccCCcceEEEEecCCccccc---------------------------------------
Confidence 000111112222222222111100000
Q ss_pred cCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcC-ceEEEEeCCCC
Q 004880 453 CNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKG-YEVCRIDGSVR 531 (725)
Q Consensus 453 ~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g-~~~~~l~G~~~ 531 (725)
..-...+.+.+..+.++...+|||++.+.+.+.+...|...+ ..+...|||.+
T Consensus 236 --------------------------~~~~~~~~~~i~~~v~~~~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlS 289 (814)
T COG1201 236 --------------------------EELWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLS 289 (814)
T ss_pred --------------------------cchhHHHHHHHHHHHhhcCcEEEEEeChHHHHHHHHHHHHhcCCceeeeccccc
Confidence 000112233334444456689999999999999999999886 89999999999
Q ss_pred HHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhh-HhcCCCCceEEEEEecCCCH
Q 004880 532 LDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRC-HRIGQTKPVHVYRLATAQSV 610 (725)
Q Consensus 532 ~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~-~RiGQ~k~V~Vyrli~~~Ti 610 (725)
.+.|...-++|.++ ..++ ++||....+|||+-..|.||+|.+|-.-....||+||+ ||+|.+. -.++++.+ .
T Consensus 290 re~R~~vE~~lk~G--~lra-vV~TSSLELGIDiG~vdlVIq~~SP~sV~r~lQRiGRsgHr~~~~S---kg~ii~~~-r 362 (814)
T COG1201 290 RELRLEVEERLKEG--ELKA-VVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGRAGHRLGEVS---KGIIIAED-R 362 (814)
T ss_pred HHHHHHHHHHHhcC--CceE-EEEccchhhccccCCceEEEEeCCcHHHHHHhHhccccccccCCcc---cEEEEecC-H
Confidence 99999999999984 4666 99999999999999999999999999999999999999 5555433 34445555 5
Q ss_pred HHHHHHHHHHHHHH
Q 004880 611 EGRILKRAFSKLKL 624 (725)
Q Consensus 611 Ee~i~~~~~~K~~l 624 (725)
++.+-..+..+..+
T Consensus 363 ~dllE~~vi~~~a~ 376 (814)
T COG1201 363 DDLLECLVLADLAL 376 (814)
T ss_pred HHHHHHHHHHHHHH
Confidence 55555555444443
No 67
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.86 E-value=4.3e-20 Score=185.83 Aligned_cols=309 Identities=18% Similarity=0.238 Sum_probs=207.3
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhCCCCCCcEEEEcCccHH-HHHHHHHHhC--CC
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGNGLHGPYLVIAPLSTLS-NWVNEISRFV--PS 229 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~~~~~~~LIV~P~sll~-~W~~E~~~~~--p~ 229 (725)
.+..|.|..++..+++ |++||-+.-+|+|||.. ++.++..+.+....--.||++|..-+. |-.+.|.-.. -+
T Consensus 28 ~~pTpiQ~~cIpkILe----Grdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~alGk~l~ 103 (442)
T KOG0340|consen 28 KKPTPIQQACIPKILE----GRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFIALGKLLN 103 (442)
T ss_pred CCCCchHhhhhHHHhc----ccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHHHhccccc
Confidence 4677999999999987 99999999999999987 555555555543333469999988554 4444444332 35
Q ss_pred ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhh-----hhcCccEEEEccccccCCcch--HHHHH
Q 004880 230 VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYL-----RHYNWKYLVVDEGHRLKNPKC--KLLKE 302 (725)
Q Consensus 230 ~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l-----~~~~~~~vIvDEaH~ikn~~s--~~~~~ 302 (725)
+++.++.|..+--..- .......++||+|++.+.......+ ...+..++|+|||.++.+..- .+.-.
T Consensus 104 lK~~vivGG~d~i~qa------~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflVlDEADrvL~~~f~d~L~~i 177 (442)
T KOG0340|consen 104 LKVSVIVGGTDMIMQA------AILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLVLDEADRVLAGCFPDILEGI 177 (442)
T ss_pred ceEEEEEccHHHhhhh------hhcccCCCeEecCccccccccccCCccchhhhhceeeEEecchhhhhccchhhHHhhh
Confidence 6777777765432211 1123567899999998754432221 122357999999999865421 11111
Q ss_pred HhcCCCC-cEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhh
Q 004880 303 LKYIPIG-NKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRP 381 (725)
Q Consensus 303 l~~l~~~-~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p 381 (725)
..-++.+ .-+++|||- .++..++ +
T Consensus 178 ~e~lP~~RQtLlfSATi-td~i~ql---------------------~--------------------------------- 202 (442)
T KOG0340|consen 178 EECLPKPRQTLLFSATI-TDTIKQL---------------------F--------------------------------- 202 (442)
T ss_pred hccCCCccceEEEEeeh-hhHHHHh---------------------h---------------------------------
Confidence 1122222 335555552 0110000 0
Q ss_pred hhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhh-
Q 004880 382 FLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLE- 460 (725)
Q Consensus 382 ~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~- 460 (725)
..|..+ ++.+.
T Consensus 203 ------------~~~i~k--------------------------------------------------------~~a~~~ 214 (442)
T KOG0340|consen 203 ------------GCPITK--------------------------------------------------------SIAFEL 214 (442)
T ss_pred ------------cCCccc--------------------------------------------------------ccceEE
Confidence 011000 00000
Q ss_pred hhccCCCCCCchHH------HHHhhcHHHHHHHHHHHHhh-CCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHH
Q 004880 461 SAFSDSCFYPPVEQ------IVEQCGKFRLLDRLLARLFA-RNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLD 533 (725)
Q Consensus 461 ~~~~~~~~~~~~~~------l~~~s~K~~~L~~ll~~l~~-~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~ 533 (725)
+..++ .+.++. ++...+|-.+|..+|..... ....++||.|.+....+|...|...++.+..+|+.|++.
T Consensus 215 e~~~~---vstvetL~q~yI~~~~~vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~ 291 (442)
T KOG0340|consen 215 EVIDG---VSTVETLYQGYILVSIDVKDAYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQK 291 (442)
T ss_pred eccCC---CCchhhhhhheeecchhhhHHHHHHHHhhhhhccCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHH
Confidence 00000 011111 12334678888899988766 577899999999999999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCc-eEE
Q 004880 534 ERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKP-VHV 601 (725)
Q Consensus 534 ~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~-V~V 601 (725)
+|...+.+|++ ...+ +|++|+++++|+|++.++.||+||.|-.|..|++|.||..|-|..-. +.+
T Consensus 292 eR~~aLsrFrs--~~~~-iliaTDVAsRGLDIP~V~LVvN~diPr~P~~yiHRvGRtARAGR~G~aiSi 357 (442)
T KOG0340|consen 292 ERLAALSRFRS--NAAR-ILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRKGMAISI 357 (442)
T ss_pred HHHHHHHHHhh--cCcc-EEEEechhhcCCCCCceeEEEecCCCCCHHHHHHhhcchhcccCCcceEEE
Confidence 99999999997 3444 49999999999999999999999999999999999999999886544 444
No 68
>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=99.85 E-value=3.4e-19 Score=206.63 Aligned_cols=369 Identities=15% Similarity=0.095 Sum_probs=207.1
Q ss_pred CcccchHHHHHHHHHHHhcC------CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 154 GKLKSYQLKGVKWLISLWQN------GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~------~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
.-.|+||..+|+.++..+.+ ..+|++.+.+|+|||++++.++..+.......++|||||.. |..||.++|..+
T Consensus 237 ~~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 237 PYQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred eehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhh
Confidence 34788999999999887654 35799999999999999999998887666667899999955 889999999999
Q ss_pred CCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcC----ccEEEEccccccCCcchHHHHH
Q 004880 227 VPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYN----WKYLVVDEGHRLKNPKCKLLKE 302 (725)
Q Consensus 227 ~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~----~~~vIvDEaH~ikn~~s~~~~~ 302 (725)
.+.... -.++. ..+.... ......|+|+|++.+.+.....+..+. ..+||+|||||... ....+.
T Consensus 317 ~~~~~~--~~~s~---~~L~~~l----~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~--~~~~~~ 385 (667)
T TIGR00348 317 QKDCAE--RIESI---AELKRLL----EKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQY--GELAKN 385 (667)
T ss_pred CCCCCc--ccCCH---HHHHHHH----hCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccc--hHHHHH
Confidence 753211 11121 2222111 113467999999999764333332222 23899999999743 234455
Q ss_pred H-hcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhh
Q 004880 303 L-KYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRP 381 (725)
Q Consensus 303 l-~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p 381 (725)
+ ..++...+++|||||....-.+-+.. |+ ..|.... ..
T Consensus 386 l~~~~p~a~~lGfTaTP~~~~d~~t~~~--------f~------~~fg~~i---------------------------~~ 424 (667)
T TIGR00348 386 LKKALKNASFFGFTGTPIFKKDRDTSLT--------FA------YVFGRYL---------------------------HR 424 (667)
T ss_pred HHhhCCCCcEEEEeCCCccccccccccc--------cc------CCCCCeE---------------------------EE
Confidence 5 36778899999999975421110000 00 0000000 00
Q ss_pred hhhheehhhHhhc-CCCceEEEEEe--cCCHHH-HHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChh
Q 004880 382 FLLRRMKSDVEQM-LPRKKEIILYA--TMTEHQ-RNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPD 457 (725)
Q Consensus 382 ~~lRR~k~dv~~~-lP~k~e~~v~~--~ls~~q-~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~ 457 (725)
+.+ +.-+... +.+.....+.+ .++... ...+...... . ...........+......+.....+|.
T Consensus 425 Y~~---~~AI~dG~~~~i~Y~~~~~~~~~~~~~l~~~~~~~~~~----~----~~~~~~~~~~~l~~~~~~~~~~~~~~~ 493 (667)
T TIGR00348 425 YFI---TDAIRDGLTVKIDYEDRLPEDHLDRKKLDAFFDEIFEL----L----PERIREITKESLKEKLQKTKKILFNED 493 (667)
T ss_pred eeH---HHHhhcCCeeeEEEEecchhhccChHHHHHHHHHHHHh----h----hccccHHHHHHHHHHHHHHHhhhcChH
Confidence 000 0111111 11111111111 111110 0111111100 0 000000001111111222222222222
Q ss_pred hhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc-----CceEEEEeCCCCH
Q 004880 458 LLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK-----GYEVCRIDGSVRL 532 (725)
Q Consensus 458 l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~-----g~~~~~l~G~~~~ 532 (725)
.+... .+ .++..+.......+.|.+|||.++..+..+...|... +...+.++|+...
T Consensus 494 ~~~~i-----------------a~-~i~~h~~~~~~~~~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s~~~~~ 555 (667)
T TIGR00348 494 RLESI-----------------AK-DIAEHYAKFKELFKFKAMVVAISRYACVEEKNALDEELNEKFEASAIVMTGKESD 555 (667)
T ss_pred HHHHH-----------------HH-HHHHHHHHhhhcccCceeEEEecHHHHHHHHHHHHhhcccccCCeeEEecCCccc
Confidence 11110 00 1111222222223689999999999887777776543 3455667776543
Q ss_pred H---------------------HHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhH
Q 004880 533 D---------------------ERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCH 591 (725)
Q Consensus 533 ~---------------------~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~ 591 (725)
+ ....++++|.++ +.+++ ||+.+...+|+|.+.++++++.-|--+. ..+|++||+.
T Consensus 556 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~-~~~~i-lIVvdmllTGFDaP~l~tLyldKplk~h-~LlQai~R~n 632 (667)
T TIGR00348 556 DAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKE-ENPKL-LIVVDMLLTGFDAPILNTLYLDKPLKYH-GLLQAIARTN 632 (667)
T ss_pred hhHHHHHHHHhccccccchhhhHHHHHHHHhcCC-CCceE-EEEEcccccccCCCccceEEEecccccc-HHHHHHHHhc
Confidence 2 224789999863 45555 7777999999999999999988877654 5799999999
Q ss_pred hc-CCCCc-eEEEEEec
Q 004880 592 RI-GQTKP-VHVYRLAT 606 (725)
Q Consensus 592 Ri-GQ~k~-V~Vyrli~ 606 (725)
|+ +-.|+ ..|+.|+.
T Consensus 633 R~~~~~K~~g~IvDy~g 649 (667)
T TIGR00348 633 RIDGKDKTFGLIVDYRG 649 (667)
T ss_pred cccCCCCCCEEEEECcC
Confidence 95 54454 77877765
No 69
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.85 E-value=6.9e-20 Score=191.71 Aligned_cols=328 Identities=18% Similarity=0.288 Sum_probs=219.8
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhCC---CCCCcEEEEcCccH----HHHHHHH
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGNG---LHGPYLVIAPLSTL----SNWVNEI 223 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~~---~~~~~LIV~P~sll----~~W~~E~ 223 (725)
......|.|...+.-.+- |...+-|..+|+|||.. ++.++..|+.+. ...++||+||+.-+ ++..+.+
T Consensus 200 Gy~~PTpIQ~a~IPvall----gkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~ql 275 (691)
T KOG0338|consen 200 GYKKPTPIQVATIPVALL----GKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQL 275 (691)
T ss_pred CCCCCCchhhhcccHHhh----cchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHH
Confidence 345788999999986554 78888889999999977 566777777643 33579999997744 5566778
Q ss_pred HHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHh--hhhcCccEEEEccccccCCcc-hHHH
Q 004880 224 SRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKY--LRHYNWKYLVVDEGHRLKNPK-CKLL 300 (725)
Q Consensus 224 ~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~--l~~~~~~~vIvDEaH~ikn~~-s~~~ 300 (725)
.+|+ ++.+++..|.-.-+..-.. .....+|||.|++.+..++++. |.--...++|+|||+|+.... ..-.
T Consensus 276 aqFt-~I~~~L~vGGL~lk~QE~~------LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRMLeegFadem 348 (691)
T KOG0338|consen 276 AQFT-DITVGLAVGGLDLKAQEAV------LRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRMLEEGFADEM 348 (691)
T ss_pred Hhhc-cceeeeeecCccHHHHHHH------HhhCCCEEEecchhHHHHhccCCCccccceeEEEechHHHHHHHHHHHHH
Confidence 8887 4777777776554432111 1146799999999998877431 222345689999999986432 2334
Q ss_pred HHHhcCCCCcE--EEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHh
Q 004880 301 KELKYIPIGNK--LLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAI 378 (725)
Q Consensus 301 ~~l~~l~~~~r--llLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 378 (725)
..+..+++.+| +|.|||- .....+|.++
T Consensus 349 nEii~lcpk~RQTmLFSATM-teeVkdL~sl------------------------------------------------- 378 (691)
T KOG0338|consen 349 NEIIRLCPKNRQTMLFSATM-TEEVKDLASL------------------------------------------------- 378 (691)
T ss_pred HHHHHhccccccceeehhhh-HHHHHHHHHh-------------------------------------------------
Confidence 44555555554 8888884 1112222110
Q ss_pred hhhhhhheehhhHhhcCCCceEEEEEecCCHHHH-HHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChh
Q 004880 379 LRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQR-NFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPD 457 (725)
Q Consensus 379 l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~-~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~ 457 (725)
.| ++...+++..+..-. .+-+ ++ .++| |
T Consensus 379 ---------------SL--~kPvrifvd~~~~~a~~LtQ--------EF--------------------iRIR-----~- 407 (691)
T KOG0338|consen 379 ---------------SL--NKPVRIFVDPNKDTAPKLTQ--------EF--------------------IRIR-----P- 407 (691)
T ss_pred ---------------hc--CCCeEEEeCCccccchhhhH--------HH--------------------heec-----c-
Confidence 01 111112221110000 0000 00 0000 0
Q ss_pred hhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHH
Q 004880 458 LLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKR 537 (725)
Q Consensus 458 l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~ 537 (725)
-...-+-.+|..++.++. .++++||.+.......+.-.|-..|+++.-+||+.++.+|.+
T Consensus 408 ------------------~re~dRea~l~~l~~rtf--~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRle 467 (691)
T KOG0338|consen 408 ------------------KREGDREAMLASLITRTF--QDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLE 467 (691)
T ss_pred ------------------ccccccHHHHHHHHHHhc--ccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHH
Confidence 000112334455555554 578999999999999999999999999999999999999999
Q ss_pred HHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHH
Q 004880 538 QIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKR 617 (725)
Q Consensus 538 ~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~ 617 (725)
.+..|.+ ..+.| ||+|+++++||++.+.-+||+|+.|-+...|++|.||..|-|.. -+-..|++.+ |.+|+.-
T Consensus 468 sL~kFk~--~eidv-LiaTDvAsRGLDI~gV~tVINy~mP~t~e~Y~HRVGRTARAGRa--GrsVtlvgE~--dRkllK~ 540 (691)
T KOG0338|consen 468 SLEKFKK--EEIDV-LIATDVASRGLDIEGVQTVINYAMPKTIEHYLHRVGRTARAGRA--GRSVTLVGES--DRKLLKE 540 (691)
T ss_pred HHHHHHh--ccCCE-EEEechhhccCCccceeEEEeccCchhHHHHHHHhhhhhhcccC--cceEEEeccc--cHHHHHH
Confidence 9999997 44444 99999999999999999999999999999999999999999843 3444577776 5555543
Q ss_pred H
Q 004880 618 A 618 (725)
Q Consensus 618 ~ 618 (725)
.
T Consensus 541 i 541 (691)
T KOG0338|consen 541 I 541 (691)
T ss_pred H
Confidence 3
No 70
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.85 E-value=7.9e-20 Score=194.68 Aligned_cols=317 Identities=21% Similarity=0.241 Sum_probs=210.1
Q ss_pred ccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHH-HHHHHHHHhCCC----------CCCcEEEEcCc-cHHH
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQT-IAFLAHLKGNGL----------HGPYLVIAPLS-TLSN 218 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qa-iali~~l~~~~~----------~~~~LIV~P~s-ll~~ 218 (725)
.....+.|+|.-++.-+.. |++.+.+.++|+|||..- |.++.+++..+. ....||++|+. ++.|
T Consensus 92 ~~~~~ptpvQk~sip~i~~----Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Q 167 (482)
T KOG0335|consen 92 SGYTKPTPVQKYSIPIISG----GRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQ 167 (482)
T ss_pred ccccCCCcceeeccceeec----CCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhH
Confidence 3345789999999988865 888999999999999884 456667665432 34589999988 7789
Q ss_pred HHHHHHHhCC--CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCc
Q 004880 219 WVNEISRFVP--SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNP 295 (725)
Q Consensus 219 W~~E~~~~~p--~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~ 295 (725)
-.+|.++|.- .+..++.+|....+...+. ....++++|+|+..+..-+.. .+.--...++|+|||.++-..
T Consensus 168 i~nea~k~~~~s~~~~~~~ygg~~~~~q~~~------~~~gcdIlvaTpGrL~d~~e~g~i~l~~~k~~vLDEADrMlD~ 241 (482)
T KOG0335|consen 168 IYNEARKFSYLSGMKSVVVYGGTDLGAQLRF------IKRGCDILVATPGRLKDLIERGKISLDNCKFLVLDEADRMLDE 241 (482)
T ss_pred HHHHHHhhcccccceeeeeeCCcchhhhhhh------hccCccEEEecCchhhhhhhcceeehhhCcEEEecchHHhhhh
Confidence 9999999863 3555555555544443332 236899999999988765421 222223459999999998641
Q ss_pred ---chHHHHHHhcC-----CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHH
Q 004880 296 ---KCKLLKELKYI-----PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKR 367 (725)
Q Consensus 296 ---~s~~~~~l~~l-----~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~ 367 (725)
.-.+.+.+... ....-++.|||=- .+
T Consensus 242 mgF~p~Ir~iv~~~~~~~~~~~qt~mFSAtfp----~~------------------------------------------ 275 (482)
T KOG0335|consen 242 MGFEPQIRKIVEQLGMPPKNNRQTLLFSATFP----KE------------------------------------------ 275 (482)
T ss_pred ccccccHHHHhcccCCCCccceeEEEEeccCC----hh------------------------------------------
Confidence 12222222222 1222355555510 00
Q ss_pred HHHHHHHHHHhhhhhhhh---e-ehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHH
Q 004880 368 RGQMVAKLHAILRPFLLR---R-MKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLN 443 (725)
Q Consensus 368 ~~~~~~~L~~~l~p~~lR---R-~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~ 443 (725)
+..+..+|+.- + .-.-+...-......+++|.=
T Consensus 276 -------iq~l~~~fl~~~yi~laV~rvg~~~~ni~q~i~~V~~------------------------------------ 312 (482)
T KOG0335|consen 276 -------IQRLAADFLKDNYIFLAVGRVGSTSENITQKILFVNE------------------------------------ 312 (482)
T ss_pred -------hhhhHHHHhhccceEEEEeeeccccccceeEeeeecc------------------------------------
Confidence 00001111100 0 000011111111122222211
Q ss_pred HHHHHHHHhcCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHh---h----CCCcEEEEccchhHHHHHHHHH
Q 004880 444 NLMVQLRKNCNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLF---A----RNHKVLVFSQWTKILDIMEYYF 516 (725)
Q Consensus 444 ~~l~~Lr~~~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~---~----~~~kvlIFsq~~~~ld~l~~~L 516 (725)
..|-..|.++|.... . ..++++||+....+++.+..+|
T Consensus 313 -----------------------------------~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l 357 (482)
T KOG0335|consen 313 -----------------------------------MEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFL 357 (482)
T ss_pred -----------------------------------hhhHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHH
Confidence 222233333333222 0 1258999999999999999999
Q ss_pred hhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCC
Q 004880 517 NEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQT 596 (725)
Q Consensus 517 ~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~ 596 (725)
...|+++..|||.-++.+|.+.+..|.++ .+. +|++|.++++|||++.+.+||+||.|-+-..|.+|+||++|.|+.
T Consensus 358 ~~~~~~~~sIhg~~tq~er~~al~~Fr~g--~~p-vlVaT~VaaRGlDi~~V~hVInyDmP~d~d~YvHRIGRTGR~Gn~ 434 (482)
T KOG0335|consen 358 SSNGYPAKSIHGDRTQIEREQALNDFRNG--KAP-VLVATNVAARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGNG 434 (482)
T ss_pred hcCCCCceeecchhhhhHHHHHHHHhhcC--Ccc-eEEEehhhhcCCCCCCCceeEEeecCcchhhHHHhccccccCCCC
Confidence 99999999999999999999999999974 444 499999999999999999999999999999999999999999998
Q ss_pred CceEEEEE
Q 004880 597 KPVHVYRL 604 (725)
Q Consensus 597 k~V~Vyrl 604 (725)
--.+.+.=
T Consensus 435 G~atsf~n 442 (482)
T KOG0335|consen 435 GRATSFFN 442 (482)
T ss_pred ceeEEEec
Confidence 76555443
No 71
>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=99.84 E-value=2.1e-19 Score=206.34 Aligned_cols=105 Identities=22% Similarity=0.345 Sum_probs=87.9
Q ss_pred hCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHH-----HHHHHHhC----CC-----CCceEEEEecccc
Q 004880 494 ARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERK-----RQIQDFND----VN-----SSYRIFLLSTRAG 559 (725)
Q Consensus 494 ~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~-----~~i~~F~~----~~-----~~~~v~Llst~ag 559 (725)
..+.++||||+....++.+...|...++ ..+||.+++.+|. .++++|.+ +. .+. .+||+|+++
T Consensus 270 e~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~-~ILVATdVa 346 (844)
T TIGR02621 270 DSGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGT-VYLVCTSAG 346 (844)
T ss_pred hCCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccc-eEEeccchh
Confidence 4568899999999999999999998877 8999999999999 78899975 21 113 469999999
Q ss_pred cCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCc--eEEEEE
Q 004880 560 GLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKP--VHVYRL 604 (725)
Q Consensus 560 g~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~--V~Vyrl 604 (725)
+.|||+.. ++||+++.|+ ..|+||+||++|.|.... ++|+.+
T Consensus 347 erGLDId~-d~VI~d~aP~--esyIQRiGRtgR~G~~~~~~i~vv~~ 390 (844)
T TIGR02621 347 EVGVNISA-DHLVCDLAPF--ESMQQRFGRVNRFGELQACQIAVVHL 390 (844)
T ss_pred hhcccCCc-ceEEECCCCH--HHHHHHhcccCCCCCCCCceEEEEee
Confidence 99999986 9999988775 799999999999998644 455443
No 72
>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=99.84 E-value=4.7e-19 Score=201.61 Aligned_cols=116 Identities=13% Similarity=0.089 Sum_probs=101.0
Q ss_pred HhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 477 EQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 477 ~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
....|+..+.+.+..+...+..+||||.+....+.+...|...|+++..++|.+...+|..+...|+. +. ++++|
T Consensus 405 ~~~~K~~ai~~~i~~~~~~~~pvLIft~s~~~se~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~--g~---VlIAT 479 (762)
T TIGR03714 405 TLPEKLMATLEDVKEYHETGQPVLLITGSVEMSEIYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQK--GA---VTVAT 479 (762)
T ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEECcHHHHHHHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCC--Ce---EEEEc
Confidence 34569999999999888899999999999999999999999999999999999998777666665554 22 69999
Q ss_pred ccccCCCCCC---------CCCEEEEeCCCCCcchhhhHhHhhHhcCCCCc
Q 004880 557 RAGGLGINLT---------AADTCILYDSDWNPQMDLQAMDRCHRIGQTKP 598 (725)
Q Consensus 557 ~agg~GiNL~---------~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~ 598 (725)
+.+|+|+|+. +.++||.|++|-+.. +.|+.||++|.|..-.
T Consensus 480 dmAgRGtDI~l~~~v~~~GGL~vIit~~~ps~ri-d~qr~GRtGRqG~~G~ 529 (762)
T TIGR03714 480 SMAGRGTDIKLGKGVAELGGLAVIGTERMENSRV-DLQLRGRSGRQGDPGS 529 (762)
T ss_pred cccccccCCCCCccccccCCeEEEEecCCCCcHH-HHHhhhcccCCCCcee
Confidence 9999999999 889999999997664 4999999999997655
No 73
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.84 E-value=2.8e-19 Score=188.82 Aligned_cols=361 Identities=17% Similarity=0.198 Sum_probs=224.4
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhC-------------CCCCCcEEEEcCc-cHHH
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGN-------------GLHGPYLVIAPLS-TLSN 218 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~-------------~~~~~~LIV~P~s-ll~~ 218 (725)
....|.|...+.-++. .....|-|.++|+|||+. +|-+++.+.+. ++..-.|||+|+. +..|
T Consensus 202 s~Pt~IQsl~lp~ai~---gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~tPTRELa~Q 278 (731)
T KOG0347|consen 202 SRPTEIQSLVLPAAIR---GKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVTPTRELAHQ 278 (731)
T ss_pred CCCccchhhcccHhhc---cchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEecChHHHHHH
Confidence 4566777777766663 226778899999999998 67777644321 2222379999988 5577
Q ss_pred HHHHHHHhC--CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH---Hhhhhc-CccEEEEcccccc
Q 004880 219 WVNEISRFV--PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR---KYLRHY-NWKYLVVDEGHRL 292 (725)
Q Consensus 219 W~~E~~~~~--p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~---~~l~~~-~~~~vIvDEaH~i 292 (725)
-.+.|...+ +++++..+.|.-.....-|-. ....+|||.|++.+..-+. .++.++ +..++|+|||.|+
T Consensus 279 V~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL------~~~p~IVVATPGRlweli~e~n~~l~~~k~vkcLVlDEaDRm 352 (731)
T KOG0347|consen 279 VKQHLKAIAEKTQIRVASITGGLAVQKQQRLL------NQRPDIVVATPGRLWELIEEDNTHLGNFKKVKCLVLDEADRM 352 (731)
T ss_pred HHHHHHHhccccCeEEEEeechhHHHHHHHHH------hcCCCEEEecchHHHHHHHhhhhhhhhhhhceEEEEccHHHH
Confidence 777776664 467888888876544332221 1367899999998865542 233333 3679999999999
Q ss_pred C--CcchHHHHHHhcCC------CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHH
Q 004880 293 K--NPKCKLLKELKYIP------IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELE 364 (725)
Q Consensus 293 k--n~~s~~~~~l~~l~------~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~ 364 (725)
- .+-..+.+.|..+. -+..+..|||-- +..+. | ...-. ..
T Consensus 353 vekghF~Els~lL~~L~e~~~~~qrQTlVFSATlt---------~~~~~-~-----~~~~~-----------------k~ 400 (731)
T KOG0347|consen 353 VEKGHFEELSKLLKHLNEEQKNRQRQTLVFSATLT---------LVLQQ-P-----LSSSR-----------------KK 400 (731)
T ss_pred hhhccHHHHHHHHHHhhhhhcccccceEEEEEEee---------hhhcC-h-----hHHhh-----------------hc
Confidence 4 45555666665553 122377787731 00000 0 00000 00
Q ss_pred HHHHHHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHH
Q 004880 365 EKRRGQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNN 444 (725)
Q Consensus 365 ~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~ 444 (725)
.......-+.+..+++. +.-.-+|+ .+.+|+.+.-. .
T Consensus 401 ~~k~~~~~~kiq~Lmk~---------ig~~~kpk-----iiD~t~q~~ta-----------------------------~ 437 (731)
T KOG0347|consen 401 KDKEDELNAKIQHLMKK---------IGFRGKPK-----IIDLTPQSATA-----------------------------S 437 (731)
T ss_pred cchhhhhhHHHHHHHHH---------hCccCCCe-----eEecCcchhHH-----------------------------H
Confidence 00000111222222222 11112222 23344332211 1
Q ss_pred HHHHHHHhcC--ChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCce
Q 004880 445 LMVQLRKNCN--HPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYE 522 (725)
Q Consensus 445 ~l~~Lr~~~~--hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~ 522 (725)
.+..-+-.|. +-++.... +| ..-..+.||||++++.+..|.-+|...+++
T Consensus 438 ~l~Es~I~C~~~eKD~ylyY-------------------------fl---~ryPGrTlVF~NsId~vKRLt~~L~~L~i~ 489 (731)
T KOG0347|consen 438 TLTESLIECPPLEKDLYLYY-------------------------FL---TRYPGRTLVFCNSIDCVKRLTVLLNNLDIP 489 (731)
T ss_pred HHHHHhhcCCccccceeEEE-------------------------EE---eecCCceEEEechHHHHHHHHHHHhhcCCC
Confidence 1111122231 00000000 00 012468999999999999999999999999
Q ss_pred EEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEE
Q 004880 523 VCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVY 602 (725)
Q Consensus 523 ~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vy 602 (725)
...+|..|.+.+|.+.+++|.+..+ .+||+|+++++|||++++.+||||..|-....|.+|.||..|-+.. -|.|.
T Consensus 490 p~~LHA~M~QKqRLknLEkF~~~~~---~VLiaTDVAARGLDIp~V~HVIHYqVPrtseiYVHRSGRTARA~~~-Gvsvm 565 (731)
T KOG0347|consen 490 PLPLHASMIQKQRLKNLEKFKQSPS---GVLIATDVAARGLDIPGVQHVIHYQVPRTSEIYVHRSGRTARANSE-GVSVM 565 (731)
T ss_pred CchhhHHHHHHHHHHhHHHHhcCCC---eEEEeehhhhccCCCCCcceEEEeecCCccceeEecccccccccCC-CeEEE
Confidence 9999999999999999999997322 3799999999999999999999999999999999999999998632 23332
Q ss_pred EEec---------------C-----CCHHHHHHHHHHHHHHHHHHHhc
Q 004880 603 RLAT---------------A-----QSVEGRILKRAFSKLKLEHVVIG 630 (725)
Q Consensus 603 rli~---------------~-----~TiEe~i~~~~~~K~~l~~~vi~ 630 (725)
..-. . -.|++.|+..+..+.+|++.+-.
T Consensus 566 l~~P~e~~~~~KL~ktL~k~~dlpifPv~~~~m~~lkeRvrLA~ei~~ 613 (731)
T KOG0347|consen 566 LCGPQEVGPLKKLCKTLKKKEDLPIFPVETDIMDALKERVRLAREIDK 613 (731)
T ss_pred EeChHHhHHHHHHHHHHhhccCCCceeccHHHHHHHHHHHHHHHHHHH
Confidence 2110 0 13578888888888888877654
No 74
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.84 E-value=5.7e-20 Score=196.70 Aligned_cols=323 Identities=18% Similarity=0.275 Sum_probs=220.3
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhCCCCCCcEEEEcCccH-HHHHHHHHHhCC---
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGNGLHGPYLVIAPLSTL-SNWVNEISRFVP--- 228 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~~~~~~~LIV~P~sll-~~W~~E~~~~~p--- 228 (725)
....+.|..++..... +...|+-.-.|+|||++ +++.+..+-.+...-..+||+|+.-+ -|-.+-|.+.+|
T Consensus 46 ~~ptkiQaaAIP~~~~----kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~ 121 (980)
T KOG4284|consen 46 ALPTKIQAAAIPAIFS----KMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAPSFT 121 (980)
T ss_pred cCCCchhhhhhhhhhc----ccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhccccc
Confidence 3566899999987765 77889999999999988 44445555555555568999998855 466666777776
Q ss_pred CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH-HhhhhcCccEEEEccccccCCcc---hHHHHHHh
Q 004880 229 SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR-KYLRHYNWKYLVVDEGHRLKNPK---CKLLKELK 304 (725)
Q Consensus 229 ~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~-~~l~~~~~~~vIvDEaH~ikn~~---s~~~~~l~ 304 (725)
+++.-+|.|.........+. ...+|+|.|++.+..-+. ..|.-.+.+++|+|||+.+-... -.+...+.
T Consensus 122 g~~csvfIGGT~~~~d~~rl-------k~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~sfq~~In~ii~ 194 (980)
T KOG4284|consen 122 GARCSVFIGGTAHKLDLIRL-------KQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTESFQDDINIIIN 194 (980)
T ss_pred CcceEEEecCchhhhhhhhh-------hhceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhhchhhHHHHHHHHHH
Confidence 56777777766544332222 356799999999876542 34555568999999999986533 34455555
Q ss_pred cCC-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhh-hh
Q 004880 305 YIP-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILR-PF 382 (725)
Q Consensus 305 ~l~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~-p~ 382 (725)
.++ .+..++.|||--+ ++.+ .|.+.++ |.
T Consensus 195 slP~~rQv~a~SATYp~-nLdn------------------------------------------------~Lsk~mrdp~ 225 (980)
T KOG4284|consen 195 SLPQIRQVAAFSATYPR-NLDN------------------------------------------------LLSKFMRDPA 225 (980)
T ss_pred hcchhheeeEEeccCch-hHHH------------------------------------------------HHHHHhcccc
Confidence 664 4556778888311 1111 1122222 22
Q ss_pred hhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhh
Q 004880 383 LLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESA 462 (725)
Q Consensus 383 ~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~ 462 (725)
++|-..+|+. -+.-|...+. .|..|.
T Consensus 226 lVr~n~~d~~-L~GikQyv~~------------------------------------------------~~s~nn----- 251 (980)
T KOG4284|consen 226 LVRFNADDVQ-LFGIKQYVVA------------------------------------------------KCSPNN----- 251 (980)
T ss_pred eeecccCCce-eechhheeee------------------------------------------------ccCCcc-----
Confidence 2222222221 0111110000 011110
Q ss_pred ccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHH
Q 004880 463 FSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDF 542 (725)
Q Consensus 463 ~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F 542 (725)
..+. ---|++.|..++..+ +-...||||....-.+-+..+|...|+++..|.|.|++.+|..+++.+
T Consensus 252 --------svee---mrlklq~L~~vf~~i--py~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~l 318 (980)
T KOG4284|consen 252 --------SVEE---MRLKLQKLTHVFKSI--PYVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQL 318 (980)
T ss_pred --------hHHH---HHHHHHHHHHHHhhC--chHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHh
Confidence 0000 112666677766654 234579999999999999999999999999999999999999999999
Q ss_pred hCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 543 NDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 543 ~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
+. -.++| |+||+-.++||+-..+|.||+.|+|-|-..|.+|||||+|+|. +-..|-.+...
T Consensus 319 r~--f~~rI-LVsTDLtaRGIDa~~vNLVVNiD~p~d~eTY~HRIGRAgRFG~-~G~aVT~~~~~ 379 (980)
T KOG4284|consen 319 RA--FRVRI-LVSTDLTARGIDADNVNLVVNIDAPADEETYFHRIGRAGRFGA-HGAAVTLLEDE 379 (980)
T ss_pred hh--ceEEE-EEecchhhccCCccccceEEecCCCcchHHHHHHhhhcccccc-cceeEEEeccc
Confidence 86 44555 9999999999999999999999999999999999999999994 44555444433
No 75
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.83 E-value=1.1e-18 Score=200.61 Aligned_cols=118 Identities=14% Similarity=0.130 Sum_probs=103.6
Q ss_pred HhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 477 EQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 477 ~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
....|...|.+.+......+.++||||.+....+.+...|...|+++..++|.+...++..+...+.. +. ++|+|
T Consensus 409 ~~~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~--g~---VlIAT 483 (790)
T PRK09200 409 TLDEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQK--GA---VTVAT 483 (790)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCC--Ce---EEEEc
Confidence 34569999999998877789999999999999999999999999999999999987777766666654 22 69999
Q ss_pred ccccCCCCC---CCCC-----EEEEeCCCCCcchhhhHhHhhHhcCCCCce
Q 004880 557 RAGGLGINL---TAAD-----TCILYDSDWNPQMDLQAMDRCHRIGQTKPV 599 (725)
Q Consensus 557 ~agg~GiNL---~~a~-----~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V 599 (725)
+.+|+|+|+ +.+. +||+||.|-|+..|.|+.||++|.|..-.+
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 76
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.82 E-value=1.9e-18 Score=197.59 Aligned_cols=326 Identities=15% Similarity=0.155 Sum_probs=198.0
Q ss_pred cccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHH----------HHHH---hCCCCCCcEEEEcCc-c
Q 004880 150 LLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFL----------AHLK---GNGLHGPYLVIAPLS-T 215 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali----------~~l~---~~~~~~~~LIV~P~s-l 215 (725)
.+....|++.|.+.=..++..+.++.+.|+..++|+|||.|.=-++ ..+. ..+..++++|++|.. +
T Consensus 155 ~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreL 234 (675)
T PHA02653 155 PFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVAL 234 (675)
T ss_pred ccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHH
Confidence 4456789999888888888888889999999999999998742222 1111 123346899999976 4
Q ss_pred HHHHHHHHHHhC-----CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEcccc
Q 004880 216 LSNWVNEISRFV-----PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGH 290 (725)
Q Consensus 216 l~~W~~E~~~~~-----p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH 290 (725)
..|...++.+.. ++..+.+..|...... ... .....+++|.|...... .| .++++||+||||
T Consensus 235 a~qi~~~i~~~vg~~~~~g~~v~v~~Gg~~~~~--~~t-----~~k~~~Ilv~T~~L~l~----~L--~~v~~VVIDEaH 301 (675)
T PHA02653 235 VRLHSITLLKSLGFDEIDGSPISLKYGSIPDEL--INT-----NPKPYGLVFSTHKLTLN----KL--FDYGTVIIDEVH 301 (675)
T ss_pred HHHHHHHHHHHhCccccCCceEEEEECCcchHH--hhc-----ccCCCCEEEEeCccccc----cc--ccCCEEEccccc
Confidence 456677776532 3445555555554211 011 11245788888653211 12 256899999999
Q ss_pred ccCCcchHHHHHHhcCC--CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHH
Q 004880 291 RLKNPKCKLLKELKYIP--IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRR 368 (725)
Q Consensus 291 ~ikn~~s~~~~~l~~l~--~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~ 368 (725)
..-.....+...++.+. .+..+++|||+-. .... |..++..
T Consensus 302 Er~~~~DllL~llk~~~~~~rq~ILmSATl~~-dv~~------------------l~~~~~~------------------ 344 (675)
T PHA02653 302 EHDQIGDIIIAVARKHIDKIRSLFLMTATLED-DRDR------------------IKEFFPN------------------ 344 (675)
T ss_pred cCccchhHHHHHHHHhhhhcCEEEEEccCCcH-hHHH------------------HHHHhcC------------------
Confidence 98655444444444432 2357999999621 1122 1111110
Q ss_pred HHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHH
Q 004880 369 GQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQ 448 (725)
Q Consensus 369 ~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~ 448 (725)
|..+. .. ...+.+.....+.....+.+...|-.
T Consensus 345 ------------p~~I~-I~---grt~~pV~~~yi~~~~~~~~~~~y~~------------------------------- 377 (675)
T PHA02653 345 ------------PAFVH-IP---GGTLFPISEVYVKNKYNPKNKRAYIE------------------------------- 377 (675)
T ss_pred ------------CcEEE-eC---CCcCCCeEEEEeecCcccccchhhhH-------------------------------
Confidence 00000 00 00011111111111111111110000
Q ss_pred HHHhcCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHH-hhCCCcEEEEccchhHHHHHHHHHhhc--CceEEE
Q 004880 449 LRKNCNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARL-FARNHKVLVFSQWTKILDIMEYYFNEK--GYEVCR 525 (725)
Q Consensus 449 Lr~~~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l-~~~~~kvlIFsq~~~~ld~l~~~L~~~--g~~~~~ 525 (725)
..|...+ ..+... ...+..+|||+.....++.+...|... ++.+..
T Consensus 378 ------------------------------~~k~~~l-~~L~~~~~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~ 426 (675)
T PHA02653 378 ------------------------------EEKKNIV-TALKKYTPPKGSSGIVFVASVSQCEEYKKYLEKRLPIYDFYI 426 (675)
T ss_pred ------------------------------HHHHHHH-HHHHHhhcccCCcEEEEECcHHHHHHHHHHHHhhcCCceEEe
Confidence 0011111 111111 124568999999999999999999877 799999
Q ss_pred EeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeC---CC---------CCcchhhhHhHhhHhc
Q 004880 526 IDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYD---SD---------WNPQMDLQAMDRCHRI 593 (725)
Q Consensus 526 l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D---~~---------wNp~~~~Qa~gR~~Ri 593 (725)
+||++++ +++.+++|.. ++..+ +|+||+.+++||+++++++||.++ .| .+...+.||.||++|.
T Consensus 427 LHG~Lsq--~eq~l~~ff~-~gk~k-ILVATdIAERGIDIp~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~ 502 (675)
T PHA02653 427 IHGKVPN--IDEILEKVYS-SKNPS-IIISTPYLESSVTIRNATHVYDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRV 502 (675)
T ss_pred ccCCcCH--HHHHHHHHhc-cCcee-EEeccChhhccccccCeeEEEECCCccCCCcccCcccccCHHHHHHhccCcCCC
Confidence 9999996 4577788742 23434 599999999999999999999998 22 2566788999999997
Q ss_pred CCCCceEEEEEecCCCH
Q 004880 594 GQTKPVHVYRLATAQSV 610 (725)
Q Consensus 594 GQ~k~V~Vyrli~~~Ti 610 (725)
++-.+|+|+++...
T Consensus 503 ---~~G~c~rLyt~~~~ 516 (675)
T PHA02653 503 ---SPGTYVYFYDLDLL 516 (675)
T ss_pred ---CCCeEEEEECHHHh
Confidence 57889999988865
No 77
>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=99.82 E-value=7.6e-19 Score=198.62 Aligned_cols=118 Identities=16% Similarity=0.186 Sum_probs=105.3
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEeccc
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRA 558 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~a 558 (725)
..|+..+.+.+.++...|..|||||.+....+.+...|...|+++..++|. ..+|+..+..|....+. ++|+|+.
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 458888888888888999999999999999999999999999999999998 66999999999763333 6999999
Q ss_pred ccCCCCCCC-------CCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEE
Q 004880 559 GGLGINLTA-------ADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHV 601 (725)
Q Consensus 559 gg~GiNL~~-------a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~V 601 (725)
+|+|+|+.. ..+||.++.|-|+..+.|+.||++|.|..-....
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 999999987 6699999999999999999999999998765433
No 78
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.82 E-value=7.2e-20 Score=185.43 Aligned_cols=322 Identities=21% Similarity=0.312 Sum_probs=206.0
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHh-------CCCCCC-cEEEEcCccHH-HHHHHHH
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKG-------NGLHGP-YLVIAPLSTLS-NWVNEIS 224 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~-------~~~~~~-~LIV~P~sll~-~W~~E~~ 224 (725)
...|.|..|+.-+++ |+..|--.-+|+|||++ ++.++...++ ....|| -|||||..-+. |-.+-+.
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 677899999988876 88888888899999987 2322222211 122345 59999988553 3333333
Q ss_pred Hh--------CCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHh-hhhcCccEEEEccccccCCc
Q 004880 225 RF--------VPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKY-LRHYNWKYLVVDEGHRLKNP 295 (725)
Q Consensus 225 ~~--------~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~-l~~~~~~~vIvDEaH~ikn~ 295 (725)
.| .|.++.....|.-.-+..+.. .....+++|.|+..++..+.+. +.---..|+.+|||+|+-..
T Consensus 268 ~~~~~L~e~g~P~lRs~LciGG~~v~eql~~------v~~GvHivVATPGRL~DmL~KK~~sLd~CRyL~lDEADRmiDm 341 (610)
T KOG0341|consen 268 QYVAALQEAGYPELRSLLCIGGVPVREQLDV------VRRGVHIVVATPGRLMDMLAKKIMSLDACRYLTLDEADRMIDM 341 (610)
T ss_pred HHHHHHHhcCChhhhhhhhhcCccHHHHHHH------HhcCeeEEEcCcchHHHHHHHhhccHHHHHHhhhhhHHHHhhc
Confidence 33 255555555554444433221 1246789999999987765332 22222468999999998643
Q ss_pred c--hHHHHHHhcCCCC-cEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHH
Q 004880 296 K--CKLLKELKYIPIG-NKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMV 372 (725)
Q Consensus 296 ~--s~~~~~l~~l~~~-~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 372 (725)
. ..+......+++. ..++.|||- |.. ...|..
T Consensus 342 GFEddir~iF~~FK~QRQTLLFSATM----------------P~K---IQ~FAk-------------------------- 376 (610)
T KOG0341|consen 342 GFEDDIRTIFSFFKGQRQTLLFSATM----------------PKK---IQNFAK-------------------------- 376 (610)
T ss_pred cchhhHHHHHHHHhhhhheeeeeccc----------------cHH---HHHHHH--------------------------
Confidence 3 2222222233322 236666662 100 000000
Q ss_pred HHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHh
Q 004880 373 AKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKN 452 (725)
Q Consensus 373 ~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~ 452 (725)
..+++|. ++.+ +++...++ +.+..
T Consensus 377 ---SALVKPv-------------------tvNV-----------------------------GRAGAAsl-dViQe---- 400 (610)
T KOG0341|consen 377 ---SALVKPV-------------------TVNV-----------------------------GRAGAASL-DVIQE---- 400 (610)
T ss_pred ---hhcccce-------------------EEec-----------------------------ccccccch-hHHHH----
Confidence 0011111 1110 11100000 11100
Q ss_pred cCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCH
Q 004880 453 CNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRL 532 (725)
Q Consensus 453 ~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~ 532 (725)
-..+..-.|+..|.+.|. +..-+|||||.-..-+|-|..||-.+|+..+.|||+-.+
T Consensus 401 --------------------vEyVkqEaKiVylLeCLQ---KT~PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQ 457 (610)
T KOG0341|consen 401 --------------------VEYVKQEAKIVYLLECLQ---KTSPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQ 457 (610)
T ss_pred --------------------HHHHHhhhhhhhHHHHhc---cCCCceEEEeccccChHHHHHHHHHccceeEEeecCcch
Confidence 012334456666655554 567889999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHH
Q 004880 533 DERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEG 612 (725)
Q Consensus 533 ~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe 612 (725)
++|...|+.|+.+..+ +|++|++++-|+++++..+||+||.|-.-..|.+|+||.+|-|.+-- ...|+.+++-+.
T Consensus 458 edR~~ai~afr~gkKD---VLVATDVASKGLDFp~iqHVINyDMP~eIENYVHRIGRTGRsg~~Gi--ATTfINK~~~es 532 (610)
T KOG0341|consen 458 EDRHYAIEAFRAGKKD---VLVATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTGI--ATTFINKNQEES 532 (610)
T ss_pred hHHHHHHHHHhcCCCc---eEEEecchhccCCCccchhhccCCChHHHHHHHHHhcccCCCCCcce--eeeeecccchHH
Confidence 9999999999985544 59999999999999999999999999999999999999999996643 344666666444
Q ss_pred HHH
Q 004880 613 RIL 615 (725)
Q Consensus 613 ~i~ 615 (725)
.++
T Consensus 533 vLl 535 (610)
T KOG0341|consen 533 VLL 535 (610)
T ss_pred HHH
Confidence 443
No 79
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.82 E-value=2.9e-20 Score=184.22 Aligned_cols=313 Identities=23% Similarity=0.297 Sum_probs=213.4
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhCCCCCCcEEEEcCccH----HHHHHHHHHhCC
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGNGLHGPYLVIAPLSTL----SNWVNEISRFVP 228 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~~~~~~~LIV~P~sll----~~W~~E~~~~~p 228 (725)
.+..|.|.+.+.-.+. |++.+.-.--|.|||-. +|..+..+-.....=..+|++|..-+ +|-..++.++.
T Consensus 106 ekPSPiQeesIPiaLt----GrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQtSqvc~~lskh~- 180 (459)
T KOG0326|consen 106 EKPSPIQEESIPIALT----GRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQTSQVCKELSKHL- 180 (459)
T ss_pred CCCCCccccccceeec----chhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchhhHHHHHHHHHHhccc-
Confidence 4677999999988875 66656667899999966 34444443333333357999996643 66777888887
Q ss_pred CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh-hcCccEEEEccccccCCcc--hHHHHHHhc
Q 004880 229 SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR-HYNWKYLVVDEGHRLKNPK--CKLLKELKY 305 (725)
Q Consensus 229 ~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~-~~~~~~vIvDEaH~ikn~~--s~~~~~l~~ 305 (725)
++.+.+..|...-|+.+-+. ....+++|.|++.+..-..+-.. -.+...+|+|||+.+.+.. ..+-+.+.-
T Consensus 181 ~i~vmvttGGT~lrDDI~Rl------~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEADKlLs~~F~~~~e~li~~ 254 (459)
T KOG0326|consen 181 GIKVMVTTGGTSLRDDIMRL------NQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEADKLLSVDFQPIVEKLISF 254 (459)
T ss_pred CeEEEEecCCcccccceeee------cCceEEEEcCChhHHHHHhcccccchhceEEEechhhhhhchhhhhHHHHHHHh
Confidence 58888888888777665432 25778999999998876543222 2235789999999987543 234444444
Q ss_pred CC-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q 004880 306 IP-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLL 384 (725)
Q Consensus 306 l~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~l 384 (725)
++ .+..++.|||- +. ....|...+
T Consensus 255 lP~~rQillySATF-P~------------------tVk~Fm~~~------------------------------------ 279 (459)
T KOG0326|consen 255 LPKERQILLYSATF-PL------------------TVKGFMDRH------------------------------------ 279 (459)
T ss_pred CCccceeeEEeccc-ch------------------hHHHHHHHh------------------------------------
Confidence 43 34446667771 00 111221111
Q ss_pred heehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhcc
Q 004880 385 RRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFS 464 (725)
Q Consensus 385 RR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~ 464 (725)
++ ..-++.+.-++|..-...|
T Consensus 280 --l~--------kPy~INLM~eLtl~GvtQy------------------------------------------------- 300 (459)
T KOG0326|consen 280 --LK--------KPYEINLMEELTLKGVTQY------------------------------------------------- 300 (459)
T ss_pred --cc--------Ccceeehhhhhhhcchhhh-------------------------------------------------
Confidence 11 0111111111110000000
Q ss_pred CCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhC
Q 004880 465 DSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFND 544 (725)
Q Consensus 465 ~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~ 544 (725)
-.+++.+.|+-.|..++.++. =...||||+++..+++|.......|+++..+|..|.++.|..++.+|++
T Consensus 301 --------YafV~e~qKvhCLntLfskLq--INQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~ 370 (459)
T KOG0326|consen 301 --------YAFVEERQKVHCLNTLFSKLQ--INQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRN 370 (459)
T ss_pred --------eeeechhhhhhhHHHHHHHhc--ccceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhc
Confidence 011334556667777776663 2458999999999999999999999999999999999999999999997
Q ss_pred CCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEec
Q 004880 545 VNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLAT 606 (725)
Q Consensus 545 ~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~ 606 (725)
+.++. |++|+-.-+||++++.|+||+||.|-|+..|++|+||.+|.|- .-....|++
T Consensus 371 --G~crn-LVctDL~TRGIDiqavNvVINFDfpk~aEtYLHRIGRsGRFGh--lGlAInLit 427 (459)
T KOG0326|consen 371 --GKCRN-LVCTDLFTRGIDIQAVNVVINFDFPKNAETYLHRIGRSGRFGH--LGLAINLIT 427 (459)
T ss_pred --cccce-eeehhhhhcccccceeeEEEecCCCCCHHHHHHHccCCccCCC--cceEEEEEe
Confidence 56666 9999999999999999999999999999999999999999993 323344544
No 80
>PRK09401 reverse gyrase; Reviewed
Probab=99.82 E-value=3.1e-18 Score=207.08 Aligned_cols=297 Identities=20% Similarity=0.209 Sum_probs=189.0
Q ss_pred ccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhC
Q 004880 149 SLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFV 227 (725)
Q Consensus 149 p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~ 227 (725)
....|..++|+|..++..++. |.+.++..+||+|||..++.++..+... ...+|||+|+. ++.||.+.+.++.
T Consensus 74 ~~~~G~~pt~iQ~~~i~~il~----g~dv~i~ApTGsGKT~f~l~~~~~l~~~--g~~alIL~PTreLa~Qi~~~l~~l~ 147 (1176)
T PRK09401 74 KKKTGSKPWSLQRTWAKRLLL----GESFAIIAPTGVGKTTFGLVMSLYLAKK--GKKSYIIFPTRLLVEQVVEKLEKFG 147 (1176)
T ss_pred HHhcCCCCcHHHHHHHHHHHC----CCcEEEEcCCCCCHHHHHHHHHHHHHhc--CCeEEEEeccHHHHHHHHHHHHHHh
Confidence 344577999999998887765 8899999999999997555444443332 46799999977 6789999999987
Q ss_pred CC--ceEEEE--eCC--hhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcc-----
Q 004880 228 PS--VSAIIY--HGS--KKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPK----- 296 (725)
Q Consensus 228 p~--~~v~~~--~g~--~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~----- 296 (725)
.. ..+.+. +++ ..++....... ..+.++|+|+|++.+.+.. ..+....+++|||||||++-...
T Consensus 148 ~~~~~~~~~~~g~~~~~~~ek~~~~~~l----~~~~~~IlV~Tp~rL~~~~-~~l~~~~~~~lVvDEaD~~L~~~k~id~ 222 (1176)
T PRK09401 148 EKVGCGVKILYYHSSLKKKEKEEFLERL----KEGDFDILVTTSQFLSKNF-DELPKKKFDFVFVDDVDAVLKSSKNIDK 222 (1176)
T ss_pred hhcCceEEEEEccCCcchhHHHHHHHHH----hcCCCCEEEECHHHHHHHH-HhccccccCEEEEEChHHhhhcccchhh
Confidence 53 233333 332 12222211110 1146899999999998876 35666679999999999975311
Q ss_pred ---------hHHHHHHhcCC-------------------------CCcEEEEeccCCCCChHH-hh-hhhccccCCCCCC
Q 004880 297 ---------CKLLKELKYIP-------------------------IGNKLLLTGTPLQNNLAE-LW-SLLHFILPDIFSS 340 (725)
Q Consensus 297 ---------s~~~~~l~~l~-------------------------~~~rllLTgTP~~n~~~e-l~-sll~~l~p~~~~~ 340 (725)
..+...+..++ ....++.|||.-+..... ++ .++.|
T Consensus 223 ~l~~lGF~~~~i~~i~~~i~~~~~~~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~~~~~~~l~~~ll~~-------- 294 (1176)
T PRK09401 223 LLYLLGFSEEDIEKAMELIRLKRKYEEIYEKIRELEEKIAELKDKKGVLVVSSATGRPRGNRVKLFRELLGF-------- 294 (1176)
T ss_pred HHHhCCCCHHHHHHHHHhcccccccchhhhHHHHHHHhhhhcccCCceEEEEeCCCCccchHHHHhhccceE--------
Confidence 11222222222 233456666653211110 00 00000
Q ss_pred HHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHH
Q 004880 341 LEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLIN 420 (725)
Q Consensus 341 ~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~ 420 (725)
. +.+. ...+..... .|+..
T Consensus 295 --------~----------------------------------v~~~----~~~~rnI~~--~yi~~------------- 313 (1176)
T PRK09401 295 --------E----------------------------------VGSP----VFYLRNIVD--SYIVD------------- 313 (1176)
T ss_pred --------E----------------------------------ecCc----ccccCCceE--EEEEc-------------
Confidence 0 0000 000000000 01000
Q ss_pred HHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEE
Q 004880 421 KTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVL 500 (725)
Q Consensus 421 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvl 500 (725)
..|...|..++..+ +..+|
T Consensus 314 ----------------------------------------------------------~~k~~~L~~ll~~l---~~~~L 332 (1176)
T PRK09401 314 ----------------------------------------------------------EDSVEKLVELVKRL---GDGGL 332 (1176)
T ss_pred ----------------------------------------------------------ccHHHHHHHHHHhc---CCCEE
Confidence 02444555565543 45799
Q ss_pred EEccchhH---HHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEe---cccccCCCCCCC-CCEEEE
Q 004880 501 VFSQWTKI---LDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLS---TRAGGLGINLTA-ADTCIL 573 (725)
Q Consensus 501 IFsq~~~~---ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Lls---t~agg~GiNL~~-a~~VI~ 573 (725)
|||+.... ++.|..+|...|+++..+||++ .+.+++|.+ +.++|++.+ |+++++|||++. .+.|||
T Consensus 333 IFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~F~~--G~~~VLVatas~tdv~aRGIDiP~~IryVI~ 405 (1176)
T PRK09401 333 IFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----ERKFEKFEE--GEVDVLVGVASYYGVLVRGIDLPERIRYAIF 405 (1176)
T ss_pred EEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHHHHHHC--CCCCEEEEecCCCCceeecCCCCcceeEEEE
Confidence 99998776 9999999999999999999999 234699997 456664443 789999999998 899999
Q ss_pred eCCCC------CcchhhhHhHhhHhc
Q 004880 574 YDSDW------NPQMDLQAMDRCHRI 593 (725)
Q Consensus 574 ~D~~w------Np~~~~Qa~gR~~Ri 593 (725)
||.|- ....+.+++||.-++
T Consensus 406 y~vP~~~~~~~~~~~~~~~~~r~~~~ 431 (1176)
T PRK09401 406 YGVPKFKFSLEEELAPPFLLLRLLSL 431 (1176)
T ss_pred eCCCCEEEeccccccCHHHHHHHHhh
Confidence 99998 677788999998644
No 81
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.81 E-value=5.3e-19 Score=196.61 Aligned_cols=351 Identities=17% Similarity=0.210 Sum_probs=227.4
Q ss_pred cccccCCcccchHHHHHHHHHHHhcCCCC-eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc-CccHHHHHHHHHH
Q 004880 148 VSLLTGGKLKSYQLKGVKWLISLWQNGLN-GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP-LSTLSNWVNEISR 225 (725)
Q Consensus 148 ~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~-~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P-~sll~~W~~E~~~ 225 (725)
.|......+|+||..+++.+...+.+|.+ .+|++.+|+|||.+||+++..|+..+..+++|+++- ++++.|=...|..
T Consensus 158 ~~~~s~i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~ 237 (875)
T COG4096 158 IDIDSAIGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFED 237 (875)
T ss_pred CcccccccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHH
Confidence 44556778999999999999998887764 799999999999999999999999999999999999 6688888889999
Q ss_pred hCCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHh------hhhcCccEEEEccccccCCcchHH
Q 004880 226 FVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKY------LRHYNWKYLVVDEGHRLKNPKCKL 299 (725)
Q Consensus 226 ~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~------l~~~~~~~vIvDEaH~ikn~~s~~ 299 (725)
|.|....+....... ....+.|+|+||..+....... +..-.||+||||||||- ....
T Consensus 238 ~~P~~~~~n~i~~~~-------------~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRg---i~~~ 301 (875)
T COG4096 238 FLPFGTKMNKIEDKK-------------GDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRG---IYSE 301 (875)
T ss_pred hCCCccceeeeeccc-------------CCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhh---HHhh
Confidence 999876555433221 1236789999999988765221 22334899999999994 2333
Q ss_pred HHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhh
Q 004880 300 LKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAIL 379 (725)
Q Consensus 300 ~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l 379 (725)
++.+..+-...+++|||||-..--..=+.+++ +.|....
T Consensus 302 ~~~I~dYFdA~~~gLTATP~~~~d~~T~~~F~-----------------g~Pt~~Y------------------------ 340 (875)
T COG4096 302 WSSILDYFDAATQGLTATPKETIDRSTYGFFN-----------------GEPTYAY------------------------ 340 (875)
T ss_pred hHHHHHHHHHHHHhhccCcccccccccccccC-----------------CCcceee------------------------
Confidence 44555555566778899996522111111111 1110000
Q ss_pred hhhhhheehhhHhh-c-CCCce-EEEEEecCCH-------HHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHH
Q 004880 380 RPFLLRRMKSDVEQ-M-LPRKK-EIILYATMTE-------HQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQL 449 (725)
Q Consensus 380 ~p~~lRR~k~dv~~-~-lP~k~-e~~v~~~ls~-------~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~L 449 (725)
-.+.-|.+ . .|++. ...++++..- .+.+.+...+
T Consensus 341 ------sleeAV~DGfLvpy~vi~i~~~~~~~G~~~~~~serek~~g~~i------------------------------ 384 (875)
T COG4096 341 ------SLEEAVEDGFLVPYKVIRIDTDFDLDGWKPDAGSEREKLQGEAI------------------------------ 384 (875)
T ss_pred ------cHHHHhhccccCCCCceEEeeeccccCcCcCccchhhhhhcccc------------------------------
Confidence 00011111 1 22111 1112211110 0111110000
Q ss_pred HHhcCChhhhhhhccCCCCC-CchHHHHHhhcHHHHHHHHHHHHhhC---C---CcEEEEccchhHHHHHHHHHhhc---
Q 004880 450 RKNCNHPDLLESAFSDSCFY-PPVEQIVEQCGKFRLLDRLLARLFAR---N---HKVLVFSQWTKILDIMEYYFNEK--- 519 (725)
Q Consensus 450 r~~~~hp~l~~~~~~~~~~~-~~~~~l~~~s~K~~~L~~ll~~l~~~---~---~kvlIFsq~~~~ld~l~~~L~~~--- 519 (725)
+. ++.+.. ...+.-+-.-..-+.+...+.....+ | .|.||||....+++.|...|...
T Consensus 385 ----~~--------dd~~~~~~d~dr~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype 452 (875)
T COG4096 385 ----DE--------DDQNFEARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPE 452 (875)
T ss_pred ----Cc--------ccccccccccchhccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCcc
Confidence 00 000000 00000000112233444444444443 3 59999999999999999988764
Q ss_pred --CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhc----
Q 004880 520 --GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRI---- 593 (725)
Q Consensus 520 --g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~Ri---- 593 (725)
|-=++.|+|+.. +=+..|+.|-. +.....|.+|.+-+..|||.+.|-.++++-.--+...+.|.+||.-|+
T Consensus 453 ~~~~~a~~IT~d~~--~~q~~Id~f~~-ke~~P~IaitvdlL~TGiDvpev~nlVF~r~VrSktkF~QMvGRGTRl~~~~ 529 (875)
T COG4096 453 YNGRYAMKITGDAE--QAQALIDNFID-KEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQMVGRGTRLCPDL 529 (875)
T ss_pred ccCceEEEEeccch--hhHHHHHHHHh-cCCCCceEEehhhhhcCCCchheeeeeehhhhhhHHHHHHHhcCccccCccc
Confidence 233667888876 55678899976 455566799999999999999999999999999999999999999996
Q ss_pred ---CCCCc-eEEEEEec
Q 004880 594 ---GQTKP-VHVYRLAT 606 (725)
Q Consensus 594 ---GQ~k~-V~Vyrli~ 606 (725)
||.|. ..|+.++-
T Consensus 530 ~~~~~dK~~F~ifDf~~ 546 (875)
T COG4096 530 GGPEQDKEFFTIFDFVD 546 (875)
T ss_pred cCccccceeEEEEEhhh
Confidence 45566 78887763
No 82
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.80 E-value=3.1e-18 Score=192.84 Aligned_cols=132 Identities=17% Similarity=0.235 Sum_probs=106.8
Q ss_pred HhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 477 EQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 477 ~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
....|...|.+++..+...+..+||||+.....+.+...|...|+++..++|... +|+..+..|....+. ++|+|
T Consensus 454 t~~~K~~aL~~~i~~~~~~~~pvLIft~t~~~se~L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag~~g~---VlVAT 528 (656)
T PRK12898 454 TAAAKWAAVAARVRELHAQGRPVLVGTRSVAASERLSALLREAGLPHQVLNAKQD--AEEAAIVARAGQRGR---ITVAT 528 (656)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcCCCCc---EEEEc
Confidence 3456999999999988777889999999999999999999999999999999865 566666666542233 69999
Q ss_pred ccccCCCCCC---CCC-----EEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHH
Q 004880 557 RAGGLGINLT---AAD-----TCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRA 618 (725)
Q Consensus 557 ~agg~GiNL~---~a~-----~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~ 618 (725)
+.+|+|+|+. .+. +||+||.|-|+..|.|++||++|.|..-.+ +.|++ .|+.++.+.
T Consensus 529 dmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~s--~~~is---~eD~l~~~~ 593 (656)
T PRK12898 529 NMAGRGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDPGSY--EAILS---LEDDLLQSF 593 (656)
T ss_pred cchhcccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCCeEE--EEEec---hhHHHHHhh
Confidence 9999999998 444 999999999999999999999999965443 23333 355665543
No 83
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.80 E-value=3.5e-18 Score=188.04 Aligned_cols=306 Identities=17% Similarity=0.231 Sum_probs=206.0
Q ss_pred CCcccchHHHHHHHHHHHhcCCC--CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH-HHHHHHHHHhCC-
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGL--NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL-SNWVNEISRFVP- 228 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~--~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll-~~W~~E~~~~~p- 228 (725)
+.+|...|..++.-+..-..... +-+|--++|+|||++|+..+......| .-+...+|+.++ .|-.+.+.+|++
T Consensus 260 PF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G--~Q~ALMAPTEILA~QH~~~~~~~l~~ 337 (677)
T COG1200 260 PFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAG--YQAALMAPTEILAEQHYESLRKWLEP 337 (677)
T ss_pred CCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcC--CeeEEeccHHHHHHHHHHHHHHHhhh
Confidence 35788999999988876444433 347888899999999887766666664 468899999966 678889999987
Q ss_pred -CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhc-C
Q 004880 229 -SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKY-I 306 (725)
Q Consensus 229 -~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~-l 306 (725)
++.+....|+...+.. +........+..++||.|+..+.... ...+..+||+||=||+.-.. ...|+. -
T Consensus 338 ~~i~V~lLtG~~kgk~r--~~~l~~l~~G~~~ivVGTHALiQd~V----~F~~LgLVIiDEQHRFGV~Q---R~~L~~KG 408 (677)
T COG1200 338 LGIRVALLTGSLKGKAR--KEILEQLASGEIDIVVGTHALIQDKV----EFHNLGLVIIDEQHRFGVHQ---RLALREKG 408 (677)
T ss_pred cCCeEEEeecccchhHH--HHHHHHHhCCCCCEEEEcchhhhcce----eecceeEEEEeccccccHHH---HHHHHHhC
Confidence 5677888887654332 11122234467899999999876543 23456899999999985322 222222 2
Q ss_pred C-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 004880 307 P-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLR 385 (725)
Q Consensus 307 ~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lR 385 (725)
. .++.|.+||||++-.+.=- .|++.
T Consensus 409 ~~~Ph~LvMTATPIPRTLAlt----------~fgDl-------------------------------------------- 434 (677)
T COG1200 409 EQNPHVLVMTATPIPRTLALT----------AFGDL-------------------------------------------- 434 (677)
T ss_pred CCCCcEEEEeCCCchHHHHHH----------Hhccc--------------------------------------------
Confidence 3 6899999999998775420 01100
Q ss_pred eehhhHhhcCCCc-eEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhcc
Q 004880 386 RMKSDVEQMLPRK-KEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFS 464 (725)
Q Consensus 386 R~k~dv~~~lP~k-~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~ 464 (725)
.-.+.+++|+. +++.-++-....-..+|..+
T Consensus 435 --dvS~IdElP~GRkpI~T~~i~~~~~~~v~e~i---------------------------------------------- 466 (677)
T COG1200 435 --DVSIIDELPPGRKPITTVVIPHERRPEVYERI---------------------------------------------- 466 (677)
T ss_pred --cchhhccCCCCCCceEEEEeccccHHHHHHHH----------------------------------------------
Confidence 01233467776 33333322222222222222
Q ss_pred CCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhH--------HHHHHHHHhhc--CceEEEEeCCCCHHH
Q 004880 465 DSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKI--------LDIMEYYFNEK--GYEVCRIDGSVRLDE 534 (725)
Q Consensus 465 ~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~--------ld~l~~~L~~~--g~~~~~l~G~~~~~~ 534 (725)
.+-...|+++.+-|.-+.. ...+...|... ++++..+||.|+.++
T Consensus 467 -------------------------~~ei~~GrQaY~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~e 521 (677)
T COG1200 467 -------------------------REEIAKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAE 521 (677)
T ss_pred -------------------------HHHHHcCCEEEEEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHH
Confidence 2222356777777665442 22233334322 677999999999999
Q ss_pred HHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCC-CCcchhhhHhHhhHhcCCCCce
Q 004880 535 RKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSD-WNPQMDLQAMDRCHRIGQTKPV 599 (725)
Q Consensus 535 R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~-wNp~~~~Qa~gR~~RiGQ~k~V 599 (725)
+.+++.+|+++..+ +|+||.+..+|||++.|+.+|++|+. +--+..-|-.||++|=+...-|
T Consensus 522 Kd~vM~~Fk~~e~~---ILVaTTVIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~qSyC 584 (677)
T COG1200 522 KDAVMEAFKEGEID---ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQSYC 584 (677)
T ss_pred HHHHHHHHHcCCCc---EEEEeeEEEecccCCCCeEEEEechhhhhHHHHHHhccccCCCCcceEE
Confidence 99999999984444 59999999999999999999999986 4667778999999995544433
No 84
>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=99.80 E-value=2.1e-17 Score=178.53 Aligned_cols=85 Identities=16% Similarity=0.282 Sum_probs=71.3
Q ss_pred CCCcEEEEccchhHHHHHHHHHhhcC--ceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEE
Q 004880 495 RNHKVLVFSQWTKILDIMEYYFNEKG--YEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCI 572 (725)
Q Consensus 495 ~~~kvlIFsq~~~~ld~l~~~L~~~g--~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI 572 (725)
.+.++||||+....++.+...|...| +.+..++|.++..+|.+.. .. .+|++|+++++|||+.. +.||
T Consensus 271 ~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~~--------~~-~iLVaTdv~~rGiDi~~-~~vi 340 (357)
T TIGR03158 271 PGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERAM--------QF-DILLGTSTVDVGVDFKR-DWLI 340 (357)
T ss_pred CCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHhc--------cC-CEEEEecHHhcccCCCC-ceEE
Confidence 57899999999999999999998764 5788999999998887543 12 26999999999999986 4666
Q ss_pred EeCCCCCcchhhhHhHhhH
Q 004880 573 LYDSDWNPQMDLQAMDRCH 591 (725)
Q Consensus 573 ~~D~~wNp~~~~Qa~gR~~ 591 (725)
++ |-++..|+||+||++
T Consensus 341 -~~-p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 341 -FS-ARDAAAFWQRLGRLG 357 (357)
T ss_pred -EC-CCCHHHHhhhcccCC
Confidence 66 678999999999975
No 85
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.79 E-value=4.3e-18 Score=173.77 Aligned_cols=309 Identities=20% Similarity=0.301 Sum_probs=203.2
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHH--HH---HHH--HhCCCCCCcEEEEcCccH-HHHHHHHHHh
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIA--FL---AHL--KGNGLHGPYLVIAPLSTL-SNWVNEISRF 226 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaia--li---~~l--~~~~~~~~~LIV~P~sll-~~W~~E~~~~ 226 (725)
+..|.|-.+-.-+ .+|..+|....+|.|||+.-+. ++ +.. ++......+||++|..-+ .+-.-|..++
T Consensus 242 KPtPIqSQaWPI~----LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~ky 317 (629)
T KOG0336|consen 242 KPTPIQSQAWPIL----LQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKY 317 (629)
T ss_pred CCCcchhccccee----ecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHh
Confidence 6777777654444 4599999999999999977442 11 111 122233458999997755 4455566655
Q ss_pred -CCCce-EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-HHhhhhcCccEEEEccccccCC--cchHHHH
Q 004880 227 -VPSVS-AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA-RKYLRHYNWKYLVVDEGHRLKN--PKCKLLK 301 (725)
Q Consensus 227 -~p~~~-v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~-~~~l~~~~~~~vIvDEaH~ikn--~~s~~~~ 301 (725)
+.+.. +++|.|....-. +.. ....++++|.|+..+..-. ..++.-....|+|+|||+++.. ...++.+
T Consensus 318 syng~ksvc~ygggnR~eq-ie~------lkrgveiiiatPgrlndL~~~n~i~l~siTYlVlDEADrMLDMgFEpqIrk 390 (629)
T KOG0336|consen 318 SYNGLKSVCVYGGGNRNEQ-IED------LKRGVEIIIATPGRLNDLQMDNVINLASITYLVLDEADRMLDMGFEPQIRK 390 (629)
T ss_pred hhcCcceEEEecCCCchhH-HHH------HhcCceEEeeCCchHhhhhhcCeeeeeeeEEEEecchhhhhcccccHHHHH
Confidence 33444 455555443322 211 1257899999999875442 1233344578999999999974 4567888
Q ss_pred HHhcCCCCcEEEE-eccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhh
Q 004880 302 ELKYIPIGNKLLL-TGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILR 380 (725)
Q Consensus 302 ~l~~l~~~~rllL-TgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~ 380 (725)
.|..++..+-..| |||- +.
T Consensus 391 illdiRPDRqtvmTSATW-P~----------------------------------------------------------- 410 (629)
T KOG0336|consen 391 ILLDIRPDRQTVMTSATW-PE----------------------------------------------------------- 410 (629)
T ss_pred HhhhcCCcceeeeecccC-ch-----------------------------------------------------------
Confidence 8888877766554 4551 00
Q ss_pred hhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhh
Q 004880 381 PFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLE 460 (725)
Q Consensus 381 p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~ 460 (725)
-+||+..... |...++|+.--+ .++.|. +.
T Consensus 411 --~VrrLa~sY~-----Kep~~v~vGsLd-----------------------------------------L~a~~s--Vk 440 (629)
T KOG0336|consen 411 --GVRRLAQSYL-----KEPMIVYVGSLD-----------------------------------------LVAVKS--VK 440 (629)
T ss_pred --HHHHHHHHhh-----hCceEEEecccc-----------------------------------------eeeeee--ee
Confidence 0111111110 111122210000 000000 00
Q ss_pred hhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHH
Q 004880 461 SAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQ 540 (725)
Q Consensus 461 ~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~ 540 (725)
.. . -+...+.|+..+..++..+ ...+|+|||+....+.|.|..-|...|+..-.+||.-.+.+|+..++
T Consensus 441 Q~---------i-~v~~d~~k~~~~~~f~~~m-s~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~ 509 (629)
T KOG0336|consen 441 QN---------I-IVTTDSEKLEIVQFFVANM-SSNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALE 509 (629)
T ss_pred ee---------E-EecccHHHHHHHHHHHHhc-CCCceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHH
Confidence 00 0 0011234555555555544 57899999999999999999999999999999999999999999999
Q ss_pred HHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCc
Q 004880 541 DFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKP 598 (725)
Q Consensus 541 ~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~ 598 (725)
.|.+ +.++| |++|+.+++||+++...+|+.||.|-|-..|.+|+||++|-|.+-.
T Consensus 510 ~~ks--G~vrI-LvaTDlaSRGlDv~DiTHV~NyDFP~nIeeYVHRvGrtGRaGr~G~ 564 (629)
T KOG0336|consen 510 DFKS--GEVRI-LVATDLASRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTGT 564 (629)
T ss_pred hhhc--CceEE-EEEechhhcCCCchhcceeeccCCCccHHHHHHHhcccccCCCCcc
Confidence 9997 45555 9999999999999999999999999999999999999999996654
No 86
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.78 E-value=1.7e-17 Score=173.62 Aligned_cols=320 Identities=21% Similarity=0.273 Sum_probs=213.3
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHH-HHHHHHh----CCCCCCc-EEEEcCc-cHHHHHHHHHHhC
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIA-FLAHLKG----NGLHGPY-LVIAPLS-TLSNWVNEISRFV 227 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaia-li~~l~~----~~~~~~~-LIV~P~s-ll~~W~~E~~~~~ 227 (725)
+.+|.|..+|.-.++ ++..|--.-+|+|||-..+- .+.++.. ....+|+ ||+||.. +..|-..|.++|+
T Consensus 245 kptpiq~qalptals----grdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKkf~ 320 (731)
T KOG0339|consen 245 KPTPIQCQALPTALS----GRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFG 320 (731)
T ss_pred cCCcccccccccccc----cccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHHhh
Confidence 566777777766654 77777777899999966442 2233332 1234665 6677865 6678888999985
Q ss_pred C--CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH-HhhhhcCccEEEEccccccCCcc--hHHHHH
Q 004880 228 P--SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR-KYLRHYNWKYLVVDEGHRLKNPK--CKLLKE 302 (725)
Q Consensus 228 p--~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~-~~l~~~~~~~vIvDEaH~ikn~~--s~~~~~ 302 (725)
. ++++++.+|....-..... ......+||+|++.+...++ +...-.+..|+|+|||.++.... .+.-..
T Consensus 321 K~ygl~~v~~ygGgsk~eQ~k~------Lk~g~EivVaTPgRlid~VkmKatn~~rvS~LV~DEadrmfdmGfe~qVrSI 394 (731)
T KOG0339|consen 321 KAYGLRVVAVYGGGSKWEQSKE------LKEGAEIVVATPGRLIDMVKMKATNLSRVSYLVLDEADRMFDMGFEPQVRSI 394 (731)
T ss_pred hhccceEEEeecCCcHHHHHHh------hhcCCeEEEechHHHHHHHHhhcccceeeeEEEEechhhhhccccHHHHHHH
Confidence 3 4566555554432222211 11467899999999887652 22233456899999999997533 444445
Q ss_pred HhcCCCCc-EEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHH-HHhhh
Q 004880 303 LKYIPIGN-KLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKL-HAILR 380 (725)
Q Consensus 303 l~~l~~~~-rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L-~~~l~ 380 (725)
..+++..+ .|+.++|- .. .+.+| +.+|.
T Consensus 395 ~~hirpdrQtllFsaTf--------------------------~~------------------------kIe~lard~L~ 424 (731)
T KOG0339|consen 395 KQHIRPDRQTLLFSATF--------------------------KK------------------------KIEKLARDILS 424 (731)
T ss_pred HhhcCCcceEEEeeccc--------------------------hH------------------------HHHHHHHHHhc
Confidence 55565544 47777771 11 11111 11110
Q ss_pred hhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhh
Q 004880 381 PFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLE 460 (725)
Q Consensus 381 p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~ 460 (725)
- -+|++.-+|.. -..-..++|++-.++
T Consensus 425 d-pVrvVqg~vge-an~dITQ~V~V~~s~--------------------------------------------------- 451 (731)
T KOG0339|consen 425 D-PVRVVQGEVGE-ANEDITQTVSVCPSE--------------------------------------------------- 451 (731)
T ss_pred C-CeeEEEeehhc-cccchhheeeeccCc---------------------------------------------------
Confidence 0 02222222221 011111122211111
Q ss_pred hhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHH
Q 004880 461 SAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQ 540 (725)
Q Consensus 461 ~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~ 540 (725)
-.|+.+|.+-|..... ..+||||..-....+-|...|..+|+++..+||++.+++|.+.+.
T Consensus 452 ------------------~~Kl~wl~~~L~~f~S-~gkvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls 512 (731)
T KOG0339|consen 452 ------------------EKKLNWLLRHLVEFSS-EGKVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLS 512 (731)
T ss_pred ------------------HHHHHHHHHHhhhhcc-CCcEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHH
Confidence 2377777777766544 357999999888999999999999999999999999999999999
Q ss_pred HHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHH
Q 004880 541 DFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVE 611 (725)
Q Consensus 541 ~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiE 611 (725)
+|.... +. +|+.|+++.+|+++....+||+||.--+...+.||+||.+|-|-+ -..|.|+|....+
T Consensus 513 ~fKkk~--~~-VlvatDvaargldI~~ikTVvnyD~ardIdththrigrtgRag~k--GvayTlvTeKDa~ 578 (731)
T KOG0339|consen 513 KFKKKR--KP-VLVATDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEK--GVAYTLVTEKDAE 578 (731)
T ss_pred HHhhcC--Cc-eEEEeeHhhcCCCccccceeecccccchhHHHHHHhhhccccccc--ceeeEEechhhHH
Confidence 999733 33 599999999999999999999999999999999999999999966 5678899876544
No 87
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.78 E-value=2.9e-17 Score=192.91 Aligned_cols=333 Identities=19% Similarity=0.189 Sum_probs=223.8
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhC---C-C
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFV---P-S 229 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~---p-~ 229 (725)
.|+.||.++++.+.+ |++.|+.-.||+|||..-+..+....-++...+.|+|-|.. |.....+.|.+|. | .
T Consensus 70 ~lY~HQ~~A~~~~~~----G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~ 145 (851)
T COG1205 70 RLYSHQVDALRLIRE----GRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPGK 145 (851)
T ss_pred cccHHHHHHHHHHHC----CCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCCCc
Confidence 499999999998875 89999999999999999665555444445566899999966 5566788888874 4 5
Q ss_pred ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-----HHhhhhcCccEEEEccccccCC-cchHHHHHH
Q 004880 230 VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA-----RKYLRHYNWKYLVVDEGHRLKN-PKCKLLKEL 303 (725)
Q Consensus 230 ~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~-----~~~l~~~~~~~vIvDEaH~ikn-~~s~~~~~l 303 (725)
+.+..|+|.........- ..+..+|++|+|+|+-..+ .-.....++++|||||+|.++. ..|.+.-.+
T Consensus 146 v~~~~y~Gdt~~~~r~~~------~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYrGv~GS~vA~ll 219 (851)
T COG1205 146 VTFGRYTGDTPPEERRAI------IRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRGVQGSEVALLL 219 (851)
T ss_pred ceeeeecCCCChHHHHHH------HhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceeccccchhHHHHHH
Confidence 678899997654332100 1257799999999986532 1112222489999999999974 334333333
Q ss_pred hcC-------C-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHH
Q 004880 304 KYI-------P-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKL 375 (725)
Q Consensus 304 ~~l-------~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 375 (725)
+++ . ....++.|||- ++..+|...+....
T Consensus 220 RRL~~~~~~~~~~~q~i~~SAT~--------------------~np~e~~~~l~~~~----------------------- 256 (851)
T COG1205 220 RRLLRRLRRYGSPLQIICTSATL--------------------ANPGEFAEELFGRD----------------------- 256 (851)
T ss_pred HHHHHHHhccCCCceEEEEeccc--------------------cChHHHHHHhcCCc-----------------------
Confidence 333 1 34568888883 22333332221000
Q ss_pred HHhhhhhhhheehhhHhh-cCCCc-eEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhc
Q 004880 376 HAILRPFLLRRMKSDVEQ-MLPRK-KEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNC 453 (725)
Q Consensus 376 ~~~l~p~~lRR~k~dv~~-~lP~k-~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~ 453 (725)
| ...+.. .-|.- +..+++-+........
T Consensus 257 ------f-----~~~v~~~g~~~~~~~~~~~~p~~~~~~~~--------------------------------------- 286 (851)
T COG1205 257 ------F-----EVPVDEDGSPRGLRYFVRREPPIRELAES--------------------------------------- 286 (851)
T ss_pred ------c-----eeeccCCCCCCCceEEEEeCCcchhhhhh---------------------------------------
Confidence 0 000111 12211 1222222221111100
Q ss_pred CChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHH----HHHhhcC----ceEEE
Q 004880 454 NHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIME----YYFNEKG----YEVCR 525 (725)
Q Consensus 454 ~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~----~~L~~~g----~~~~~ 525 (725)
..-.+...+..++..+...|-++|+|+.+...+..+. ..+...+ ..+..
T Consensus 287 -----------------------~r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~ 343 (851)
T COG1205 287 -----------------------IRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVST 343 (851)
T ss_pred -----------------------cccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheee
Confidence 0013555666777777789999999999999998886 3333344 67889
Q ss_pred EeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCC-CcchhhhHhHhhHhcCCCCceEEEEE
Q 004880 526 IDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDW-NPQMDLQAMDRCHRIGQTKPVHVYRL 604 (725)
Q Consensus 526 l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~w-Np~~~~Qa~gR~~RiGQ~k~V~Vyrl 604 (725)
+.|++...+|.++...|+.++.. ++++|.|+-.||++...+.||.+..|- .-..+.|+.||++|-||.-. ++..
T Consensus 344 ~~~~~~~~er~~ie~~~~~g~~~---~~~st~AlelgidiG~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~l--~~~v 418 (851)
T COG1205 344 YRAGLHREERRRIEAEFKEGELL---GVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESL--VLVV 418 (851)
T ss_pred ccccCCHHHHHHHHHHHhcCCcc---EEecchhhhhceeehhhhhHhhcCCCCchHHHHHHhhhhccCCCCCce--EEEE
Confidence 99999999999999999985444 699999999999999999999999998 77999999999999995544 2233
Q ss_pred ecCCCHHHHHHHHH
Q 004880 605 ATAQSVEGRILKRA 618 (725)
Q Consensus 605 i~~~TiEe~i~~~~ 618 (725)
...+-++..+...-
T Consensus 419 ~~~~~~d~yy~~~p 432 (851)
T COG1205 419 LRSDPLDSYYLRHP 432 (851)
T ss_pred eCCCccchhhhhCc
Confidence 33666888776543
No 88
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.77 E-value=3.2e-17 Score=166.18 Aligned_cols=124 Identities=19% Similarity=0.313 Sum_probs=101.1
Q ss_pred cHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccc
Q 004880 480 GKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAG 559 (725)
Q Consensus 480 ~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~ag 559 (725)
.|+++|.++...+ . =...||||+...+...|...+...|+.+..++|.+...+|..++++|+.+... +||+|.+.
T Consensus 316 ~K~~~l~~lyg~~-t-igqsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~k---VLitTnV~ 390 (477)
T KOG0332|consen 316 DKYQALVNLYGLL-T-IGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEK---VLITTNVC 390 (477)
T ss_pred hHHHHHHHHHhhh-h-hhheEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcce---EEEEechh
Confidence 3666666633322 2 23579999999999999999999999999999999999999999999985444 59999999
Q ss_pred cCCCCCCCCCEEEEeCCCC------CcchhhhHhHhhHhcCCCCceEEEEEec-CCCH
Q 004880 560 GLGINLTAADTCILYDSDW------NPQMDLQAMDRCHRIGQTKPVHVYRLAT-AQSV 610 (725)
Q Consensus 560 g~GiNL~~a~~VI~~D~~w------Np~~~~Qa~gR~~RiGQ~k~V~Vyrli~-~~Ti 610 (725)
++||+.+.++.||+||.|- +|..|++|+||++|+|.+ -+-|- |+- .++.
T Consensus 391 ARGiDv~qVs~VvNydlP~~~~~~pD~etYlHRiGRtGRFGkk-G~a~n-~v~~~~s~ 446 (477)
T KOG0332|consen 391 ARGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKK-GLAIN-LVDDKDSM 446 (477)
T ss_pred hcccccceEEEEEecCCccccCCCCCHHHHHHHhccccccccc-ceEEE-eecccCcH
Confidence 9999999999999999984 788999999999999943 34433 443 4443
No 89
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.76 E-value=3.5e-17 Score=189.71 Aligned_cols=309 Identities=23% Similarity=0.210 Sum_probs=193.5
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhC-CCceE
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFV-PSVSA 232 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~-p~~~v 232 (725)
.|+|.|..+|.-.+. .+.|.+++.+||+|||+.|...+..-...+ .++++.|||.. +..+-.++|.+|- -+++|
T Consensus 31 el~~~qq~av~~~~~---~~~N~li~aPTgsGKTlIA~lai~~~l~~~-~~k~vYivPlkALa~Ek~~~~~~~~~~GirV 106 (766)
T COG1204 31 ELFNPQQEAVEKGLL---SDENVLISAPTGSGKTLIALLAILSTLLEG-GGKVVYIVPLKALAEEKYEEFSRLEELGIRV 106 (766)
T ss_pred HhhHHHHHHhhcccc---CCCcEEEEcCCCCchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHhhhHHhcCCEE
Confidence 899999999965553 278999999999999999876665555443 57999999954 6777888888553 27899
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhh-hhcCccEEEEccccccCCc-chH----HHHHHhcC
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYL-RHYNWKYLVVDEGHRLKNP-KCK----LLKELKYI 306 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l-~~~~~~~vIvDEaH~ikn~-~s~----~~~~l~~l 306 (725)
.+++|+...... ....++|+|||||.+-+-.++.- --...++|||||+|.+... ... +...+...
T Consensus 107 ~~~TgD~~~~~~---------~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~~RG~~lE~iv~r~~~~ 177 (766)
T COG1204 107 GISTGDYDLDDE---------RLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRTRGPVLESIVARMRRL 177 (766)
T ss_pred EEecCCcccchh---------hhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCcccCceehhHHHHHHhh
Confidence 999998865432 12578999999998754432211 1114589999999999765 222 22222223
Q ss_pred C-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 004880 307 P-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLLR 385 (725)
Q Consensus 307 ~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lR 385 (725)
. .-+.++||||- ++..++..|.+...... ..+|.-++
T Consensus 178 ~~~~rivgLSATl--------------------pN~~evA~wL~a~~~~~----------------------~~rp~~l~ 215 (766)
T COG1204 178 NELIRIVGLSATL--------------------PNAEEVADWLNAKLVES----------------------DWRPVPLR 215 (766)
T ss_pred CcceEEEEEeeec--------------------CCHHHHHHHhCCccccc----------------------CCCCcccc
Confidence 2 34679999993 33334444432110000 00111000
Q ss_pred eehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccC
Q 004880 386 RMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSD 465 (725)
Q Consensus 386 R~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~ 465 (725)
| ..|... ......-...
T Consensus 216 ~-------~v~~~~-~~~~~~~~~k------------------------------------------------------- 232 (766)
T COG1204 216 R-------GVPYVG-AFLGADGKKK------------------------------------------------------- 232 (766)
T ss_pred c-------CCccce-EEEEecCccc-------------------------------------------------------
Confidence 0 011110 0110000000
Q ss_pred CCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhh---------------------------
Q 004880 466 SCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNE--------------------------- 518 (725)
Q Consensus 466 ~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~--------------------------- 518 (725)
.....+...+..++....+.|+.+|||++++.........+..
T Consensus 233 ----------~~~~~~~~~~~~~v~~~~~~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 302 (766)
T COG1204 233 ----------TWPLLIDNLALELVLESLAEGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETP 302 (766)
T ss_pred ----------cccccchHHHHHHHHHHHhcCCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhcccccccccccccc
Confidence 0001122334445555567788888888887644333333321
Q ss_pred ----------cCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEE-----eC-----CCC
Q 004880 519 ----------KGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCIL-----YD-----SDW 578 (725)
Q Consensus 519 ----------~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~-----~D-----~~w 578 (725)
.-..+...|.+++.++|+-+-+.|+. +.++| |+||...+.|+||++ ++||+ || -+-
T Consensus 303 ~~~~~~l~e~v~~GvafHhAGL~~~~R~~vE~~Fr~--g~ikV-lv~TpTLA~GVNLPA-~~VIIk~~~~y~~~~g~~~i 378 (766)
T COG1204 303 TSEDEELAELVLRGVAFHHAGLPREDRQLVEDAFRK--GKIKV-LVSTPTLAAGVNLPA-RTVIIKDTRRYDPKGGIVDI 378 (766)
T ss_pred ccchHHHHHHHHhCccccccCCCHHHHHHHHHHHhc--CCceE-EEechHHhhhcCCcc-eEEEEeeeEEEcCCCCeEEC
Confidence 01124567888999999999999997 56666 999999999999994 55555 56 344
Q ss_pred CcchhhhHhHhhHhcCC
Q 004880 579 NPQMDLQAMDRCHRIGQ 595 (725)
Q Consensus 579 Np~~~~Qa~gR~~RiGQ 595 (725)
++..+.|..|||+|.|=
T Consensus 379 ~~~dv~QM~GRAGRPg~ 395 (766)
T COG1204 379 PVLDVLQMAGRAGRPGY 395 (766)
T ss_pred chhhHhhccCcCCCCCc
Confidence 77888999999999983
No 90
>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=99.76 E-value=6.8e-17 Score=189.16 Aligned_cols=108 Identities=19% Similarity=0.298 Sum_probs=92.3
Q ss_pred CCcEEEEccchhHHHHHHHHHhh---cCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEE
Q 004880 496 NHKVLVFSQWTKILDIMEYYFNE---KGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCI 572 (725)
Q Consensus 496 ~~kvlIFsq~~~~ld~l~~~L~~---~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI 572 (725)
+..+|||++....++.+...|.. .++.++.+||+++.++|.++++.|.+ +..+ +|+||+.++.||++.++++||
T Consensus 209 ~g~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~--G~rk-VlVATnIAErgItIp~V~~VI 285 (819)
T TIGR01970 209 TGSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQ--GRRK-VVLATNIAETSLTIEGIRVVI 285 (819)
T ss_pred CCcEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhccc--CCeE-EEEecchHhhcccccCceEEE
Confidence 56799999999999999988876 47899999999999999999999986 3333 599999999999999999999
Q ss_pred EeCCC----CCcch--------------hhhHhHhhHhcCCCCceEEEEEecCCC
Q 004880 573 LYDSD----WNPQM--------------DLQAMDRCHRIGQTKPVHVYRLATAQS 609 (725)
Q Consensus 573 ~~D~~----wNp~~--------------~~Qa~gR~~RiGQ~k~V~Vyrli~~~T 609 (725)
.++.+ +||.. +.||.||++|. ++=.+|+|+++..
T Consensus 286 D~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~---~~G~cyrL~t~~~ 337 (819)
T TIGR01970 286 DSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRL---EPGVCYRLWSEEQ 337 (819)
T ss_pred EcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCC---CCCEEEEeCCHHH
Confidence 99875 56655 67999999886 5778899998653
No 91
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.76 E-value=2.7e-17 Score=174.68 Aligned_cols=318 Identities=21% Similarity=0.249 Sum_probs=213.1
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHH-HHHHHHHHhCCCCCCcEEEEcCccHHH-HHHHHHHhCC--
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQT-IAFLAHLKGNGLHGPYLVIAPLSTLSN-WVNEISRFVP-- 228 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qa-iali~~l~~~~~~~~~LIV~P~sll~~-W~~E~~~~~p-- 228 (725)
...|.|.|.-+|..-+ -+|.|-++...|++|||+++ +|-+..+... .+++|.++|...+.| =.++|++-+.
T Consensus 214 ~~eLlPVQ~laVe~GL---LeG~nllVVSaTasGKTLIgElAGi~~~l~~--g~KmlfLvPLVALANQKy~dF~~rYs~L 288 (830)
T COG1202 214 IEELLPVQVLAVEAGL---LEGENLLVVSATASGKTLIGELAGIPRLLSG--GKKMLFLVPLVALANQKYEDFKERYSKL 288 (830)
T ss_pred cceecchhhhhhhhcc---ccCCceEEEeccCCCcchHHHhhCcHHHHhC--CCeEEEEehhHHhhcchHHHHHHHhhcc
Confidence 3579999999987654 45889999999999999775 4445555543 478999999886655 4456765543
Q ss_pred CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCc--ch---HHHHHH
Q 004880 229 SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNP--KC---KLLKEL 303 (725)
Q Consensus 229 ~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~--~s---~~~~~l 303 (725)
++.+-+-.|...-+.. .........++.||||.||+-+---++.--.--+...|||||.|.+... .. .+...+
T Consensus 289 glkvairVG~srIk~~--~~pv~~~t~~dADIIVGTYEGiD~lLRtg~~lgdiGtVVIDEiHtL~deERG~RLdGLI~RL 366 (830)
T COG1202 289 GLKVAIRVGMSRIKTR--EEPVVVDTSPDADIIVGTYEGIDYLLRTGKDLGDIGTVVIDEIHTLEDEERGPRLDGLIGRL 366 (830)
T ss_pred cceEEEEechhhhccc--CCccccCCCCCCcEEEeechhHHHHHHcCCcccccceEEeeeeeeccchhcccchhhHHHHH
Confidence 3455455565533321 1112223446889999999976333322111124679999999999752 22 244444
Q ss_pred hcC-CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 004880 304 KYI-PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPF 382 (725)
Q Consensus 304 ~~l-~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~ 382 (725)
+.+ +....|.||||- .|+.||..-|+.=..
T Consensus 367 r~l~~~AQ~i~LSATV--gNp~elA~~l~a~lV----------------------------------------------- 397 (830)
T COG1202 367 RYLFPGAQFIYLSATV--GNPEELAKKLGAKLV----------------------------------------------- 397 (830)
T ss_pred HHhCCCCeEEEEEeec--CChHHHHHHhCCeeE-----------------------------------------------
Confidence 544 457789999994 566666554432100
Q ss_pred hhheehhhHhhcCCC-ceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhh
Q 004880 383 LLRRMKSDVEQMLPR-KKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLES 461 (725)
Q Consensus 383 ~lRR~k~dv~~~lP~-k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~ 461 (725)
.-+.-|- ...+.++|.=...
T Consensus 398 --------~y~~RPVplErHlvf~~~e~e--------------------------------------------------- 418 (830)
T COG1202 398 --------LYDERPVPLERHLVFARNESE--------------------------------------------------- 418 (830)
T ss_pred --------eecCCCCChhHeeeeecCchH---------------------------------------------------
Confidence 0011221 1223333321111
Q ss_pred hccCCCCCCchHHHHHhhcHHHHHHHHHHHHh----h--CCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHH
Q 004880 462 AFSDSCFYPPVEQIVEQCGKFRLLDRLLARLF----A--RNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDER 535 (725)
Q Consensus 462 ~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~----~--~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R 535 (725)
|...+.++.+.-. + -...+|||+.++.-...|.++|..+|++...+|++++..+|
T Consensus 419 -------------------K~~ii~~L~k~E~~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eR 479 (830)
T COG1202 419 -------------------KWDIIARLVKREFSTESSKGYRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKER 479 (830)
T ss_pred -------------------HHHHHHHHHHHHHhhhhccCcCCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHH
Confidence 2222222221111 1 12469999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEE----eCCCC-CcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 536 KRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCIL----YDSDW-NPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 536 ~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~----~D~~w-Np~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
+.+-..|.+ ..+.+ +++|.|.|-|+|+++ +.||+ +...| +|+.+.|..|||+|.|=+..-.||-++-.|
T Consensus 480 k~vE~~F~~--q~l~~-VVTTAAL~AGVDFPA-SQVIFEsLaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg 553 (830)
T COG1202 480 KSVERAFAA--QELAA-VVTTAALAAGVDFPA-SQVIFESLAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPG 553 (830)
T ss_pred HHHHHHHhc--CCcce-EeehhhhhcCCCCch-HHHHHHHHHcccccCCHHHHHHHhcccCCCCcccCceEEEEecCC
Confidence 999999987 34444 999999999999995 55665 66677 999999999999999988778888888665
No 92
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.76 E-value=4.7e-16 Score=180.65 Aligned_cols=155 Identities=17% Similarity=0.136 Sum_probs=105.7
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCce
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSVS 231 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~~ 231 (725)
...|+++|.++++.+...+ .+...+|...+|+|||...+.++......| +.+||++|.. +..||.+.|.++++ ..
T Consensus 142 ~~~Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g--~~vLvLvPt~~L~~Q~~~~l~~~fg-~~ 217 (679)
T PRK05580 142 PPTLNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQG--KQALVLVPEIALTPQMLARFRARFG-AP 217 (679)
T ss_pred CCCCCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHcC--CeEEEEeCcHHHHHHHHHHHHHHhC-CC
Confidence 4579999999999987632 345689999999999999887777666653 5799999966 77999999998874 57
Q ss_pred EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCC--cch-----H-HHHHH
Q 004880 232 AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKN--PKC-----K-LLKEL 303 (725)
Q Consensus 232 v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn--~~s-----~-~~~~l 303 (725)
+.+++|.......... +.....+..+|||+|+..+. +.-.++++|||||+|...- ... . +....
T Consensus 218 v~~~~s~~s~~~r~~~--~~~~~~g~~~IVVgTrsal~------~p~~~l~liVvDEeh~~s~~~~~~p~y~~r~va~~r 289 (679)
T PRK05580 218 VAVLHSGLSDGERLDE--WRKAKRGEAKVVIGARSALF------LPFKNLGLIIVDEEHDSSYKQQEGPRYHARDLAVVR 289 (679)
T ss_pred EEEEECCCCHHHHHHH--HHHHHcCCCCEEEeccHHhc------ccccCCCEEEEECCCccccccCcCCCCcHHHHHHHH
Confidence 7788876433222111 00112245789999987543 2223578999999997642 111 1 11111
Q ss_pred hcCCCCcEEEEeccCC
Q 004880 304 KYIPIGNKLLLTGTPL 319 (725)
Q Consensus 304 ~~l~~~~rllLTgTP~ 319 (725)
........+++||||.
T Consensus 290 a~~~~~~~il~SATps 305 (679)
T PRK05580 290 AKLENIPVVLGSATPS 305 (679)
T ss_pred hhccCCCEEEEcCCCC
Confidence 2334567899999994
No 93
>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=99.74 E-value=2.4e-16 Score=191.10 Aligned_cols=134 Identities=19% Similarity=0.236 Sum_probs=95.5
Q ss_pred ccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhC
Q 004880 149 SLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFV 227 (725)
Q Consensus 149 p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~ 227 (725)
....+..++|+|..++..++. |.+.++..+||+|||..++.++..+... ..++|||+|.. +..|+.+.+.+++
T Consensus 72 ~~~~g~~p~~iQ~~~i~~il~----G~d~vi~ApTGsGKT~f~l~~~~~l~~~--g~~vLIL~PTreLa~Qi~~~l~~l~ 145 (1171)
T TIGR01054 72 KKAVGSEPWSIQKMWAKRVLR----GDSFAIIAPTGVGKTTFGLAMSLFLAKK--GKRCYIILPTTLLVIQVAEKISSLA 145 (1171)
T ss_pred HHhcCCCCcHHHHHHHHHHhC----CCeEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEeCHHHHHHHHHHHHHHHH
Confidence 334566899999999988875 8899999999999998666555554443 35799999977 6688999999887
Q ss_pred CCc--e---EEEEeCChhhHH--HHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCC
Q 004880 228 PSV--S---AIIYHGSKKERD--EIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKN 294 (725)
Q Consensus 228 p~~--~---v~~~~g~~~~r~--~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn 294 (725)
+.. . +..|+|...... ..... + ..+.++|+|+|+..+...... +.. +++++||||||++-.
T Consensus 146 ~~~~i~~~~i~~~~Gg~~~~e~~~~~~~-l---~~~~~dIlV~Tp~rL~~~~~~-l~~-~~~~iVvDEaD~~L~ 213 (1171)
T TIGR01054 146 EKAGVGTVNIGAYHSRLPTKEKKEFMER-I---ENGDFDILITTTMFLSKNYDE-LGP-KFDFIFVDDVDALLK 213 (1171)
T ss_pred HhcCCceeeeeeecCCCCHHHHHHHHHH-H---hcCCCCEEEECHHHHHHHHHH-hcC-CCCEEEEeChHhhhh
Confidence 532 2 335667543322 11111 1 124689999999998876533 333 799999999999854
No 94
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.74 E-value=4.2e-17 Score=190.27 Aligned_cols=317 Identities=17% Similarity=0.186 Sum_probs=222.9
Q ss_pred cccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhC-C
Q 004880 150 LLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFV-P 228 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~-p 228 (725)
.+.....||-|+++|+-.+. |..+++-..+|.||. ++..+...-..+-+|||.| +++-..+++.+.. .
T Consensus 259 ~Fg~~~FR~~Q~eaI~~~l~----Gkd~fvlmpTG~GKS-----LCYQlPA~l~~gitvVISP--L~SLm~DQv~~L~~~ 327 (941)
T KOG0351|consen 259 VFGHKGFRPNQLEAINATLS----GKDCFVLMPTGGGKS-----LCYQLPALLLGGVTVVISP--LISLMQDQVTHLSKK 327 (941)
T ss_pred HhccccCChhHHHHHHHHHc----CCceEEEeecCCcee-----eEeeccccccCCceEEecc--HHHHHHHHHHhhhhc
Confidence 34456899999999986654 999999999999999 4444444333457899999 4455556665553 3
Q ss_pred CceEEEEeCChhhHHH--HHHhcCCCCCCCCCCEEEecHHHHHHHH--HHhhh-hcC---ccEEEEccccccCC------
Q 004880 229 SVSAIIYHGSKKERDE--IRRKHMPRAIGPKFPIVVTSYEVALSDA--RKYLR-HYN---WKYLVVDEGHRLKN------ 294 (725)
Q Consensus 229 ~~~v~~~~g~~~~r~~--~~~~~~~~~~~~~~~vvItsye~~~~~~--~~~l~-~~~---~~~vIvDEaH~ikn------ 294 (725)
++....+++....... +.... ....+.+.++..|+|.+.... ...+. ... ..++||||||....
T Consensus 328 ~I~a~~L~s~q~~~~~~~i~q~l--~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAHCVSqWgHdFR 405 (941)
T KOG0351|consen 328 GIPACFLSSIQTAAERLAILQKL--ANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVIDEAHCVSQWGHDFR 405 (941)
T ss_pred CcceeeccccccHHHHHHHHHHH--hCCCCeEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEecHHHHhhhhccccc
Confidence 5666666666654322 22221 112247889999999987642 11222 222 57999999998754
Q ss_pred -cchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHH
Q 004880 295 -PKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVA 373 (725)
Q Consensus 295 -~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 373 (725)
...++.....++.....++||||--..--.++...|++-+|.++.+. |
T Consensus 406 p~Yk~l~~l~~~~~~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~s------f------------------------- 454 (941)
T KOG0351|consen 406 PSYKRLGLLRIRFPGVPFIALTATATERVREDVIRSLGLRNPELFKSS------F------------------------- 454 (941)
T ss_pred HHHHHHHHHHhhCCCCCeEEeehhccHHHHHHHHHHhCCCCcceeccc------C-------------------------
Confidence 23334444445566788999999888888888888888777654321 1
Q ss_pred HHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhc
Q 004880 374 KLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNC 453 (725)
Q Consensus 374 ~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~ 453 (725)
.++...+.|....+ ...+...+..
T Consensus 455 ---------------------nR~NL~yeV~~k~~------------------------------~~~~~~~~~~----- 478 (941)
T KOG0351|consen 455 ---------------------NRPNLKYEVSPKTD------------------------------KDALLDILEE----- 478 (941)
T ss_pred ---------------------CCCCceEEEEeccC------------------------------ccchHHHHHH-----
Confidence 11111222211111 0000000000
Q ss_pred CChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHH
Q 004880 454 NHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLD 533 (725)
Q Consensus 454 ~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~ 533 (725)
+ +....+.-.||||.+..+.+.+...|...|++...+|++++..
T Consensus 479 -----------------------------------~-~~~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~ 522 (941)
T KOG0351|consen 479 -----------------------------------S-KLRHPDQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPK 522 (941)
T ss_pred -----------------------------------h-hhcCCCCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHH
Confidence 1 1123466799999999999999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEe
Q 004880 534 ERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLA 605 (725)
Q Consensus 534 ~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli 605 (725)
+|+.+-..|.. +.++| +++|=|.|.|||-..+.-||||..|-+...|.|..|||+|.|+...++.|+=.
T Consensus 523 ~R~~Vq~~w~~--~~~~V-ivATVAFGMGIdK~DVR~ViH~~lPks~E~YYQE~GRAGRDG~~s~C~l~y~~ 591 (941)
T KOG0351|consen 523 ERETVQKAWMS--DKIRV-IVATVAFGMGIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSSCVLLYGY 591 (941)
T ss_pred HHHHHHHHHhc--CCCeE-EEEEeeccCCCCCCceeEEEECCCchhHHHHHHhccccCcCCCcceeEEecch
Confidence 99999999997 44655 99999999999999999999999999999999999999999999987776543
No 95
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.74 E-value=2.4e-16 Score=184.95 Aligned_cols=110 Identities=15% Similarity=0.241 Sum_probs=92.1
Q ss_pred CCCcEEEEccchhHHHHHHHHHhh---cCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEE
Q 004880 495 RNHKVLVFSQWTKILDIMEYYFNE---KGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTC 571 (725)
Q Consensus 495 ~~~kvlIFsq~~~~ld~l~~~L~~---~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~V 571 (725)
.++.+|||++....++.+...|.. .++.++.+||+++.++|.+++..|.+ +. +-+|+||+.+..||++.++++|
T Consensus 211 ~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~--G~-rkVlvATnIAErsLtIp~V~~V 287 (812)
T PRK11664 211 ESGSLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPA--GR-RKVVLATNIAETSLTIEGIRLV 287 (812)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccC--CC-eEEEEecchHHhcccccCceEE
Confidence 357899999999999999999986 57889999999999999999999975 33 3469999999999999999999
Q ss_pred EEeCCC----CCcc--------------hhhhHhHhhHhcCCCCceEEEEEecCCCH
Q 004880 572 ILYDSD----WNPQ--------------MDLQAMDRCHRIGQTKPVHVYRLATAQSV 610 (725)
Q Consensus 572 I~~D~~----wNp~--------------~~~Qa~gR~~RiGQ~k~V~Vyrli~~~Ti 610 (725)
|.++.+ |+|. .+.||.||++|. .+=.+|||+++...
T Consensus 288 ID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~---~~G~cyrL~t~~~~ 341 (812)
T PRK11664 288 VDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL---EPGICLHLYSKEQA 341 (812)
T ss_pred EECCCcccccccccCCcceeEEEeechhhhhhhccccCCC---CCcEEEEecCHHHH
Confidence 997765 3333 578888888886 47899999986643
No 96
>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=99.73 E-value=1.8e-17 Score=152.65 Aligned_cols=120 Identities=28% Similarity=0.456 Sum_probs=110.8
Q ss_pred cHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccc
Q 004880 480 GKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAG 559 (725)
Q Consensus 480 ~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~ag 559 (725)
.|...+..++......+.++||||++...++.+..+|...+.++..++|+++..+|..+++.|++++ ..+|++|.++
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~---~~ili~t~~~ 88 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGE---IVVLVATDVI 88 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCC---CcEEEEcChh
Confidence 5888899999888777899999999999999999999988999999999999999999999999843 3468899999
Q ss_pred cCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEE
Q 004880 560 GLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVY 602 (725)
Q Consensus 560 g~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vy 602 (725)
++|+|++.+++||+++++||+..+.|++||++|.||+..|.+|
T Consensus 89 ~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 89 ARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred hcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCceEEeC
Confidence 9999999999999999999999999999999999998887764
No 97
>PRK09694 helicase Cas3; Provisional
Probab=99.73 E-value=6.8e-16 Score=180.79 Aligned_cols=338 Identities=19% Similarity=0.169 Sum_probs=193.1
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCcc-HHHHHHHHHH----hC
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLST-LSNWVNEISR----FV 227 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sl-l~~W~~E~~~----~~ 227 (725)
+..++|+|..+..-. .++...||-++||.|||..++.++..+...+..+.+++..|... ..+....+.+ .+
T Consensus 284 ~~~p~p~Q~~~~~~~----~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f 359 (878)
T PRK09694 284 GYQPRQLQTLVDALP----LQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASKLF 359 (878)
T ss_pred CCCChHHHHHHHhhc----cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHHhc
Confidence 568999999653221 23455799999999999999998888887777778999999764 4455555554 45
Q ss_pred CCceEEEEeCChhhHHHHHH-------------------hcCC--CCCCCCCCEEEecHHHHHHHHH----Hhhhh--cC
Q 004880 228 PSVSAIIYHGSKKERDEIRR-------------------KHMP--RAIGPKFPIVVTSYEVALSDAR----KYLRH--YN 280 (725)
Q Consensus 228 p~~~v~~~~g~~~~r~~~~~-------------------~~~~--~~~~~~~~vvItsye~~~~~~~----~~l~~--~~ 280 (725)
+...+.+.||.......... ..+. ....--.+|+|+|.+.++...- .+++. ..
T Consensus 360 ~~~~v~L~Hg~a~l~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~kh~~lR~~~La 439 (878)
T PRK09694 360 PSPNLILAHGNSRFNHLFQSLKSRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGFGLG 439 (878)
T ss_pred CCCceEeecCcchhhhhhhhhhcccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHccchHHHHHHhhc
Confidence 55677788886542111100 0000 0000125899999988874321 12222 22
Q ss_pred ccEEEEccccccCCcchH-HHHHHhcC--CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchh
Q 004880 281 WKYLVVDEGHRLKNPKCK-LLKELKYI--PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSE 357 (725)
Q Consensus 281 ~~~vIvDEaH~ikn~~s~-~~~~l~~l--~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~ 357 (725)
-.+|||||+|.+-..... +...++.+ .....|+||||+-..-..+|...+..-.+ ... ...| +......
T Consensus 440 ~svvIiDEVHAyD~ym~~lL~~~L~~l~~~g~~vIllSATLP~~~r~~L~~a~~~~~~-~~~-----~~~Y--Plvt~~~ 511 (878)
T PRK09694 440 RSVLIVDEVHAYDAYMYGLLEAVLKAQAQAGGSVILLSATLPATLKQKLLDTYGGHDP-VEL-----SSAY--PLITWRG 511 (878)
T ss_pred cCeEEEechhhCCHHHHHHHHHHHHHHHhcCCcEEEEeCCCCHHHHHHHHHHhccccc-ccc-----cccc--ccccccc
Confidence 468999999998543333 33333333 23568999999733222222211100000 000 0000 0000000
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEE-ecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 004880 358 VMKEELEEKRRGQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILY-ATMTEHQRNFQDHLINKTLENHLREKVFSAGR 436 (725)
Q Consensus 358 ~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~-~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~ 436 (725)
. . -..++-++. -...+|......+. ...
T Consensus 512 ~----------------~--~~~~~~~~~----~~~~~~~~~~v~v~~~~~----------------------------- 540 (878)
T PRK09694 512 V----------------N--GAQRFDLSA----HPEQLPARFTIQLEPICL----------------------------- 540 (878)
T ss_pred c----------------c--cceeeeccc----cccccCcceEEEEEeecc-----------------------------
Confidence 0 0 000000000 00000111100000 000
Q ss_pred cchhHHHHHHHHHHHhcCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHH
Q 004880 437 GMKGKLNNLMVQLRKNCNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYF 516 (725)
Q Consensus 437 ~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L 516 (725)
. .......++..++. ....|+++||||+.+..+..+...|
T Consensus 541 ---------------------------~------------~~~~~~~~l~~i~~-~~~~g~~vLVf~NTV~~Aq~ly~~L 580 (878)
T PRK09694 541 ---------------------------A------------DMLPDLTLLQRMIA-AANAGAQVCLICNLVDDAQKLYQRL 580 (878)
T ss_pred ---------------------------c------------cccCHHHHHHHHHH-HHhcCCEEEEEECCHHHHHHHHHHH
Confidence 0 00011122223333 3357889999999999999999999
Q ss_pred hhcC---ceEEEEeCCCCHHHH----HHHHHHHh-CCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhH
Q 004880 517 NEKG---YEVCRIDGSVRLDER----KRQIQDFN-DVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMD 588 (725)
Q Consensus 517 ~~~g---~~~~~l~G~~~~~~R----~~~i~~F~-~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~g 588 (725)
...+ .++..+||.++..+| +++++.|. ++......+|++|.+...|||+ .+|.+|....| ...++||+|
T Consensus 581 ~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDI-d~DvlItdlaP--idsLiQRaG 657 (878)
T PRK09694 581 KELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDL-DFDWLITQLCP--VDLLFQRLG 657 (878)
T ss_pred HhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeec-CCCeEEECCCC--HHHHHHHHh
Confidence 8764 689999999999999 46788883 3221113469999999999999 57998887766 568999999
Q ss_pred hhHhcCCC
Q 004880 589 RCHRIGQT 596 (725)
Q Consensus 589 R~~RiGQ~ 596 (725)
|+||.|..
T Consensus 658 R~~R~~~~ 665 (878)
T PRK09694 658 RLHRHHRK 665 (878)
T ss_pred ccCCCCCC
Confidence 99999864
No 98
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.73 E-value=3.3e-16 Score=161.86 Aligned_cols=318 Identities=19% Similarity=0.221 Sum_probs=201.2
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhC-----CCCC-CcEEEEcCc-cHHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGN-----GLHG-PYLVIAPLS-TLSNWVNEIS 224 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~-----~~~~-~~LIV~P~s-ll~~W~~E~~ 224 (725)
..+..-.|..++..+++ |.+.+.-.-+|+|||.. +|.++..++.. +..+ ..+|++|+. +..|-...+.
T Consensus 39 ~ekpTlIQs~aIplaLE----gKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~vie 114 (569)
T KOG0346|consen 39 WEKPTLIQSSAIPLALE----GKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIE 114 (569)
T ss_pred cCCcchhhhcccchhhc----CcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHH
Confidence 34555688889988886 88888889999999988 56666666542 2223 368999977 5566666665
Q ss_pred Hh---CC-CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-h-hhhcCccEEEEccccccCCcchH
Q 004880 225 RF---VP-SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-Y-LRHYNWKYLVVDEGHRLKNPKCK 298 (725)
Q Consensus 225 ~~---~p-~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~-l~~~~~~~vIvDEaH~ikn~~s~ 298 (725)
+. |+ .++++-+..+..+-.. + .......+|||+|+..+.+.+.. . ...-...++|+|||+-+...+.
T Consensus 115 kL~~~c~k~lr~~nl~s~~sdsv~-~-----~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDEADLllsfGY- 187 (569)
T KOG0346|consen 115 KLVEYCSKDLRAINLASSMSDSVN-S-----VALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEADLLLSFGY- 187 (569)
T ss_pred HHHHHHHHhhhhhhhhcccchHHH-H-----HHHccCCCeEEeChHHHHHHHhhccchhhhheeeEEechhhhhhhccc-
Confidence 54 44 3444433322221110 1 11225679999999998877532 1 2222467999999998754321
Q ss_pred HHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHh
Q 004880 299 LLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAI 378 (725)
Q Consensus 299 ~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 378 (725)
.+++
T Consensus 188 ------------------------------------------eedl---------------------------------- 191 (569)
T KOG0346|consen 188 ------------------------------------------EEDL---------------------------------- 191 (569)
T ss_pred ------------------------------------------HHHH----------------------------------
Confidence 0000
Q ss_pred hhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHH-hcCChh
Q 004880 379 LRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRK-NCNHPD 457 (725)
Q Consensus 379 l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~-~~~hp~ 457 (725)
..+...||+... .++. ...+..-+..|.+ +|..|.
T Consensus 192 ----------k~l~~~LPr~~Q----------------~~Lm------------------SATl~dDv~~LKkL~l~nPv 227 (569)
T KOG0346|consen 192 ----------KKLRSHLPRIYQ----------------CFLM------------------SATLSDDVQALKKLFLHNPV 227 (569)
T ss_pred ----------HHHHHhCCchhh----------------heee------------------hhhhhhHHHHHHHHhccCCe
Confidence 011122442211 1000 0111112223333 344555
Q ss_pred hhhhhccCCCCCCch---HHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHH
Q 004880 458 LLESAFSDSCFYPPV---EQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDE 534 (725)
Q Consensus 458 l~~~~~~~~~~~~~~---~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~ 534 (725)
.+.-...+......+ .-.+..-.|+..+..+++--+ -..|.|||.+.++..-.|.-+|..-|++.|.++|.++...
T Consensus 228 iLkl~e~el~~~dqL~Qy~v~cse~DKflllyallKL~L-I~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NS 306 (569)
T KOG0346|consen 228 ILKLTEGELPNPDQLTQYQVKCSEEDKFLLLYALLKLRL-IRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANS 306 (569)
T ss_pred EEEeccccCCCcccceEEEEEeccchhHHHHHHHHHHHH-hcCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccc
Confidence 443222111100000 011223458888887776433 2468999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCCCCceEEEEecc--------------------------c---------ccCCCCCCCCCEEEEeCCCCC
Q 004880 535 RKRQIQDFNDVNSSYRIFLLSTR--------------------------A---------GGLGINLTAADTCILYDSDWN 579 (725)
Q Consensus 535 R~~~i~~F~~~~~~~~v~Llst~--------------------------a---------gg~GiNL~~a~~VI~~D~~wN 579 (725)
|..+|++||. +-+. ++|+|+ + .++|||++.++.||+||.|-+
T Consensus 307 R~Hii~QFNk--G~Yd-ivIAtD~s~~~~~~eee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t 383 (569)
T KOG0346|consen 307 RCHIIEQFNK--GLYD-IVIATDDSADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPET 383 (569)
T ss_pred hhhHHHHhhC--ccee-EEEEccCccchhhhhccccccccccCCCCccccccccCchhchhccccchheeeeeecCCCCc
Confidence 9999999997 3444 477776 1 257999999999999999999
Q ss_pred cchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 580 PQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 580 p~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
+..|++|+||..|-|.+-.+. -|+..
T Consensus 384 ~~sYIHRvGRTaRg~n~Gtal--Sfv~P 409 (569)
T KOG0346|consen 384 VTSYIHRVGRTARGNNKGTAL--SFVSP 409 (569)
T ss_pred hHHHHHhccccccCCCCCceE--EEecc
Confidence 999999999999988665543 44444
No 99
>PRK14701 reverse gyrase; Provisional
Probab=99.72 E-value=8.2e-16 Score=190.00 Aligned_cols=133 Identities=20% Similarity=0.270 Sum_probs=92.8
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCC--
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVP-- 228 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p-- 228 (725)
.|..++|.|..++..++. |.+.++..+||+|||...+.++..+... ...+|||+|+. ++.|..+.+..++.
T Consensus 76 ~G~~pt~iQ~~~i~~il~----G~d~li~APTGsGKTl~~~~~al~~~~~--g~~aLVl~PTreLa~Qi~~~l~~l~~~~ 149 (1638)
T PRK14701 76 TGFEFWSIQKTWAKRILR----GKSFSIVAPTGMGKSTFGAFIALFLALK--GKKCYIILPTTLLVKQTVEKIESFCEKA 149 (1638)
T ss_pred hCCCCCHHHHHHHHHHHc----CCCEEEEEcCCCCHHHHHHHHHHHHHhc--CCeEEEEECHHHHHHHHHHHHHHHHhhc
Confidence 355799999999998876 8899999999999998433322222222 24799999976 66888889988764
Q ss_pred --CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccC
Q 004880 229 --SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLK 293 (725)
Q Consensus 229 --~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ik 293 (725)
+..+..++|+........... ....+.++|+|+|++.+.......+ ..+++++||||||++-
T Consensus 150 ~~~v~v~~~~g~~s~~e~~~~~~--~l~~g~~dILV~TPgrL~~~~~~l~-~~~i~~iVVDEAD~ml 213 (1638)
T PRK14701 150 NLDVRLVYYHSNLRKKEKEEFLE--RIENGDFDILVTTAQFLARNFPEMK-HLKFDFIFVDDVDAFL 213 (1638)
T ss_pred CCceeEEEEeCCCCHHHHHHHHH--HHhcCCCCEEEECCchhHHhHHHHh-hCCCCEEEEECceecc
Confidence 356677777654332211000 0012468999999998876654333 3678999999999984
No 100
>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=99.71 E-value=9.8e-17 Score=156.86 Aligned_cols=153 Identities=25% Similarity=0.368 Sum_probs=111.1
Q ss_pred CcccchHHHHHHHHHHHhcCC---CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcC-ccHHHHHHHHHHhCCC
Q 004880 154 GKLKSYQLKGVKWLISLWQNG---LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPL-STLSNWVNEISRFVPS 229 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~---~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~-sll~~W~~E~~~~~p~ 229 (725)
.+|||||.+++.-+...+... .++++..+||+|||++++.++..+.. +++|+||. +++.||.++|..+.+.
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~-----~~l~~~p~~~l~~Q~~~~~~~~~~~ 76 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR-----KVLIVAPNISLLEQWYDEFDDFGSE 76 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC-----EEEEEESSHHHHHHHHHHHHHHSTT
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc-----ceeEecCHHHHHHHHHHHHHHhhhh
Confidence 379999999999999877765 78999999999999999998888877 89999997 5889999999888765
Q ss_pred ceEEEEeCC-------------hhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH------------hhhhcCccEE
Q 004880 230 VSAIIYHGS-------------KKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK------------YLRHYNWKYL 284 (725)
Q Consensus 230 ~~v~~~~g~-------------~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~------------~l~~~~~~~v 284 (725)
......... ....... . ......+++++++..+...... .+....+++|
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-----~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~v 150 (184)
T PF04851_consen 77 KYNFFEKSIKPAYDSKEFISIQDDISDKS-E-----SDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLV 150 (184)
T ss_dssp SEEEEE--GGGCCE-SEEETTTTEEEHHH-H-----HCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEE
T ss_pred hhhhccccccccccccccccccccccccc-c-----cccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEE
Confidence 444422211 0000100 0 1124678999999998876532 1233468999
Q ss_pred EEccccccCCcchHHHHHHhcCCCCcEEEEeccCC
Q 004880 285 VVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPL 319 (725)
Q Consensus 285 IvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~ 319 (725)
|+||||++.+... ++.+......++|+|||||.
T Consensus 151 I~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 151 IIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp EEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred EEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 9999999965443 56665588899999999994
No 101
>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=99.71 E-value=1.6e-15 Score=170.19 Aligned_cols=128 Identities=17% Similarity=0.157 Sum_probs=87.7
Q ss_pred EEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCceEEEEeCChhh--HHHHHHhcCCCCCC
Q 004880 179 LADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSVSAIIYHGSKKE--RDEIRRKHMPRAIG 255 (725)
Q Consensus 179 LademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~~v~~~~g~~~~--r~~~~~~~~~~~~~ 255 (725)
|.-.||+|||.+.+.++.+....| +.+||++|.. +..|+.+.|++.++ ..+.++|+.... |...... ...
T Consensus 2 L~g~TGsGKT~v~l~~i~~~l~~g--~~vLvlvP~i~L~~Q~~~~l~~~f~-~~v~vlhs~~~~~er~~~~~~----~~~ 74 (505)
T TIGR00595 2 LFGVTGSGKTEVYLQAIEKVLALG--KSVLVLVPEIALTPQMIQRFKYRFG-SQVAVLHSGLSDSEKLQAWRK----VKN 74 (505)
T ss_pred ccCCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCcHHHHHHHHHHHHHHhC-CcEEEEECCCCHHHHHHHHHH----HHc
Confidence 556899999999988887777654 5799999965 77899999998874 567777775433 3222111 123
Q ss_pred CCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccC--Ccch------HHHHHHhcCCCCcEEEEeccCC
Q 004880 256 PKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLK--NPKC------KLLKELKYIPIGNKLLLTGTPL 319 (725)
Q Consensus 256 ~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ik--n~~s------~~~~~l~~l~~~~rllLTgTP~ 319 (725)
+..+|||+|+..+. +.-.++++|||||.|... .... .+............|++||||.
T Consensus 75 g~~~IVVGTrsalf------~p~~~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~ra~~~~~~vil~SATPs 140 (505)
T TIGR00595 75 GEILVVIGTRSALF------LPFKNLGLIIVDEEHDSSYKQEEGPRYHARDVAVYRAKKFNCPVVLGSATPS 140 (505)
T ss_pred CCCCEEECChHHHc------CcccCCCEEEEECCCccccccccCCCCcHHHHHHHHHHhcCCCEEEEeCCCC
Confidence 46789999988653 223357999999999864 2211 1222233445677899999995
No 102
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.70 E-value=2.4e-16 Score=179.45 Aligned_cols=123 Identities=20% Similarity=0.286 Sum_probs=110.0
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEeccc
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRA 558 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~a 558 (725)
..|+..|..+|..... ..++||||+....+|.|.+-|...|+.+..+||+.++.+|...+.+|+++ ...+|++|++
T Consensus 597 ~eKf~kL~eLl~e~~e-~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~---~~~LLvaTsv 672 (997)
T KOG0334|consen 597 NEKFLKLLELLGERYE-DGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNG---VVNLLVATSV 672 (997)
T ss_pred hHHHHHHHHHHHHHhh-cCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhcc---CceEEEehhh
Confidence 4589999999988765 77999999999999999999999999999999999999999999999973 3347999999
Q ss_pred ccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 559 GGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 559 gg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
++.||+...-..||+||.|--...|.+|.||++|-|-+- ..|.|++.
T Consensus 673 varGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg--~AvtFi~p 719 (997)
T KOG0334|consen 673 VARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKG--AAVTFITP 719 (997)
T ss_pred hhcccccccceEEEEcccchhHHHHHHHhcccccCCccc--eeEEEeCh
Confidence 999999999999999999988888999999999998766 55666665
No 103
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.70 E-value=1.6e-16 Score=170.64 Aligned_cols=318 Identities=17% Similarity=0.185 Sum_probs=200.4
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhCC----C-CCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGNG----L-HGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~~----~-~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
....|-|..++..++. +.+++-+..+|+|||+. .+-++.++.... . .-..+|+.|.. +..|-..|+.++
T Consensus 157 ~~Pt~iq~~aipvfl~----~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~ 232 (593)
T KOG0344|consen 157 DEPTPIQKQAIPVFLE----KRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKY 232 (593)
T ss_pred CCCCcccchhhhhhhc----ccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhc
Confidence 4677899999998886 88999999999999988 344555665432 2 23679999966 667888899888
Q ss_pred C--CC--ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHh---hhhcCccEEEEccccccCCcch--
Q 004880 227 V--PS--VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKY---LRHYNWKYLVVDEGHRLKNPKC-- 297 (725)
Q Consensus 227 ~--p~--~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~---l~~~~~~~vIvDEaH~ikn~~s-- 297 (725)
. ++ ..+.-+..+..... .........++++|.|+..+...+..- +.-.+...+|+|||.++.++.+
T Consensus 233 ~~~~~t~~~a~~~~~~~~~~q-----k~a~~~~~k~dili~TP~ri~~~~~~~~~~idl~~V~~lV~dEaD~lfe~~~f~ 307 (593)
T KOG0344|consen 233 SIDEGTSLRAAQFSKPAYPSQ-----KPAFLSDEKYDILISTPMRIVGLLGLGKLNIDLSKVEWLVVDEADLLFEPEFFV 307 (593)
T ss_pred CCCCCCchhhhhcccccchhh-----ccchhHHHHHHHHhcCHHHHHHHhcCCCccchhheeeeEeechHHhhhChhhHH
Confidence 6 32 12222222111100 000011136789999998877665221 2333457899999999987721
Q ss_pred -HHHHHHhcCCC--CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHH
Q 004880 298 -KLLKELKYIPI--GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAK 374 (725)
Q Consensus 298 -~~~~~l~~l~~--~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 374 (725)
++...+....+ -++=++|||- | ..+++
T Consensus 308 ~Qla~I~sac~s~~i~~a~FSat~----------------~----------------------------------~~VEE 337 (593)
T KOG0344|consen 308 EQLADIYSACQSPDIRVALFSATI----------------S----------------------------------VYVEE 337 (593)
T ss_pred HHHHHHHHHhcCcchhhhhhhccc----------------c----------------------------------HHHHH
Confidence 11111111111 1111222220 0 00001
Q ss_pred HHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcC
Q 004880 375 LHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCN 454 (725)
Q Consensus 375 L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~ 454 (725)
+........ ..+.+...+.+. ..+...+.-|
T Consensus 338 ~~~~i~~~~-----------------~~vivg~~~sa~------------------------------~~V~QelvF~-- 368 (593)
T KOG0344|consen 338 WAELIKSDL-----------------KRVIVGLRNSAN------------------------------ETVDQELVFC-- 368 (593)
T ss_pred HHHHhhccc-----------------eeEEEecchhHh------------------------------hhhhhhheee--
Confidence 100000000 011111111110 0000000000
Q ss_pred ChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHH-hhcCceEEEEeCCCCHH
Q 004880 455 HPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYF-NEKGYEVCRIDGSVRLD 533 (725)
Q Consensus 455 hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L-~~~g~~~~~l~G~~~~~ 533 (725)
...-+|+..+.+++..-. .-.+|||.|.......|...| ..-++.+..+||..++.
T Consensus 369 ---------------------gse~~K~lA~rq~v~~g~--~PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~ 425 (593)
T KOG0344|consen 369 ---------------------GSEKGKLLALRQLVASGF--KPPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQK 425 (593)
T ss_pred ---------------------ecchhHHHHHHHHHhccC--CCCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchh
Confidence 012467777777777653 346999999999999999888 67799999999999999
Q ss_pred HHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 534 ERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 534 ~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
+|.+.+++|+. +.+.| |++|...++||++.+++.||+||.|-.-..|++|+||++|-|+.- +.|.|++.
T Consensus 426 qrde~~~~FR~--g~Iwv-LicTdll~RGiDf~gvn~VInyD~p~s~~syihrIGRtgRag~~g--~Aitfytd 494 (593)
T KOG0344|consen 426 QRDETMERFRI--GKIWV-LICTDLLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRSG--KAITFYTD 494 (593)
T ss_pred HHHHHHHHHhc--cCeeE-EEehhhhhccccccCcceEEecCCCchhHHHHHHhhccCCCCCCc--ceEEEecc
Confidence 99999999998 56777 999999999999999999999999999999999999999999765 44445554
No 104
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.69 E-value=3.4e-15 Score=173.33 Aligned_cols=312 Identities=20% Similarity=0.214 Sum_probs=209.3
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCC--eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHH-HHHHHHHHhCC
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLN--GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLS-NWVNEISRFVP 228 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~--~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~-~W~~E~~~~~p 228 (725)
++..-.|=|+.+++-...-.+++.- -+||-++|.|||=+|+=.+......| +-+.|+||+.++. |-.+.|+.-+.
T Consensus 591 FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~G--KQVAvLVPTTlLA~QHy~tFkeRF~ 668 (1139)
T COG1197 591 FPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDG--KQVAVLVPTTLLAQQHYETFKERFA 668 (1139)
T ss_pred CCCcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCC--CeEEEEcccHHhHHHHHHHHHHHhc
Confidence 3456779999999999887776664 49999999999999874433333333 6799999998774 55566666555
Q ss_pred CceEEEEe----CChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHh
Q 004880 229 SVSAIIYH----GSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELK 304 (725)
Q Consensus 229 ~~~v~~~~----g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~ 304 (725)
+++|-+-. -+.++...+... ...+..||||.|+..+.++. .-.+..+|||||=||+.-. .-..++
T Consensus 669 ~fPV~I~~LSRF~s~kE~~~il~~----la~G~vDIvIGTHrLL~kdv----~FkdLGLlIIDEEqRFGVk---~KEkLK 737 (1139)
T COG1197 669 GFPVRIEVLSRFRSAKEQKEILKG----LAEGKVDIVIGTHRLLSKDV----KFKDLGLLIIDEEQRFGVK---HKEKLK 737 (1139)
T ss_pred CCCeeEEEecccCCHHHHHHHHHH----HhcCCccEEEechHhhCCCc----EEecCCeEEEechhhcCcc---HHHHHH
Confidence 55444322 223333332222 23478999999999887764 2234579999999998532 234556
Q ss_pred cCC-CCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 305 YIP-IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 305 ~l~-~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
.++ ....|-|||||++-.+.-=.+ ..
T Consensus 738 ~Lr~~VDvLTLSATPIPRTL~Msm~--Gi--------------------------------------------------- 764 (1139)
T COG1197 738 ELRANVDVLTLSATPIPRTLNMSLS--GI--------------------------------------------------- 764 (1139)
T ss_pred HHhccCcEEEeeCCCCcchHHHHHh--cc---------------------------------------------------
Confidence 664 567899999999876542100 00
Q ss_pred hheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc
Q 004880 384 LRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF 463 (725)
Q Consensus 384 lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~ 463 (725)
|--+.+ .-||.....|..-..+....+.
T Consensus 765 --RdlSvI--~TPP~~R~pV~T~V~~~d~~~i------------------------------------------------ 792 (1139)
T COG1197 765 --RDLSVI--ATPPEDRLPVKTFVSEYDDLLI------------------------------------------------ 792 (1139)
T ss_pred --hhhhhc--cCCCCCCcceEEEEecCChHHH------------------------------------------------
Confidence 000111 1344433333222221111110
Q ss_pred cCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc--CceEEEEeCCCCHHHHHHHHHH
Q 004880 464 SDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK--GYEVCRIDGSVRLDERKRQIQD 541 (725)
Q Consensus 464 ~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~--g~~~~~l~G~~~~~~R~~~i~~ 541 (725)
=..+++++ .+|..|..-.+....+..+...|... ..+++..||.|+..+-++++.+
T Consensus 793 ---------------------reAI~REl-~RgGQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~ 850 (1139)
T COG1197 793 ---------------------REAILREL-LRGGQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLD 850 (1139)
T ss_pred ---------------------HHHHHHHH-hcCCEEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHH
Confidence 11223333 45677777778888888888888765 5678999999999999999999
Q ss_pred HhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCC-CCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 542 FNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSD-WNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 542 F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~-wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
|.+++-+ +|+||.....|||++.|||+|+-+.+ +--+...|-.||++|-. +.-+.|.++..+
T Consensus 851 F~~g~~d---VLv~TTIIEtGIDIPnANTiIIe~AD~fGLsQLyQLRGRVGRS~--~~AYAYfl~p~~ 913 (1139)
T COG1197 851 FYNGEYD---VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSN--KQAYAYFLYPPQ 913 (1139)
T ss_pred HHcCCCC---EEEEeeeeecCcCCCCCceEEEeccccccHHHHHHhccccCCcc--ceEEEEEeecCc
Confidence 9985444 49999999999999999999998886 46677889999999953 456888887753
No 105
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.67 E-value=9.9e-14 Score=139.87 Aligned_cols=311 Identities=18% Similarity=0.214 Sum_probs=208.8
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCce
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSVS 231 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~~ 231 (725)
+|+|.|+|..+-+-++..+.+....|+-.-+|.|||-+....+...+..| +.+.|..|.. ++-.-...++.-+++..
T Consensus 95 ~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G--~~vciASPRvDVclEl~~Rlk~aF~~~~ 172 (441)
T COG4098 95 KGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQG--GRVCIASPRVDVCLELYPRLKQAFSNCD 172 (441)
T ss_pred ccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcC--CeEEEecCcccchHHHHHHHHHhhccCC
Confidence 68999999999999999999999999999999999999888888877765 6899999955 66777778888888888
Q ss_pred EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccC-CcchHHHHHHhcC--CC
Q 004880 232 AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLK-NPKCKLLKELKYI--PI 308 (725)
Q Consensus 232 v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ik-n~~s~~~~~l~~l--~~ 308 (725)
+.+.||.....- ..++||+|-..+.+-. ..||++||||.+.+- ..+-.+..+++.- ..
T Consensus 173 I~~Lyg~S~~~f-------------r~plvVaTtHQLlrFk------~aFD~liIDEVDAFP~~~d~~L~~Av~~ark~~ 233 (441)
T COG4098 173 IDLLYGDSDSYF-------------RAPLVVATTHQLLRFK------QAFDLLIIDEVDAFPFSDDQSLQYAVKKARKKE 233 (441)
T ss_pred eeeEecCCchhc-------------cccEEEEehHHHHHHH------hhccEEEEeccccccccCCHHHHHHHHHhhccc
Confidence 888888765431 2456665555444332 257999999999885 2333344455443 35
Q ss_pred CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhh-hhhee
Q 004880 309 GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPF-LLRRM 387 (725)
Q Consensus 309 ~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~-~lRR~ 387 (725)
...|.|||||-..-..++- +.-+.+. +-+|.
T Consensus 234 g~~IylTATp~k~l~r~~~------------------------------------------------~g~~~~~klp~Rf 265 (441)
T COG4098 234 GATIYLTATPTKKLERKIL------------------------------------------------KGNLRILKLPARF 265 (441)
T ss_pred CceEEEecCChHHHHHHhh------------------------------------------------hCCeeEeecchhh
Confidence 6789999999311100000 0000000 00111
Q ss_pred hhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCCC
Q 004880 388 KSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDSC 467 (725)
Q Consensus 388 k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~ 467 (725)
. ...||-.+ .+++ ...-+ .++
T Consensus 266 H---~~pLpvPk--f~w~--~~~~k--------------------------------~l~-------------------- 286 (441)
T COG4098 266 H---GKPLPVPK--FVWI--GNWNK--------------------------------KLQ-------------------- 286 (441)
T ss_pred c---CCCCCCCc--eEEe--ccHHH--------------------------------Hhh--------------------
Confidence 0 01133211 1221 11100 000
Q ss_pred CCCchHHHHHhhcHHH-HHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc-C-ceEEEEeCCCCHHHHHHHHHHHhC
Q 004880 468 FYPPVEQIVEQCGKFR-LLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK-G-YEVCRIDGSVRLDERKRQIQDFND 544 (725)
Q Consensus 468 ~~~~~~~l~~~s~K~~-~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~-g-~~~~~l~G~~~~~~R~~~i~~F~~ 544 (725)
-+|+. .|...|++....|..++||...+.++......|... + ..+..++.... .|.+.++.|++
T Consensus 287 -----------r~kl~~kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~d~--~R~EkV~~fR~ 353 (441)
T COG4098 287 -----------RNKLPLKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSEDQ--HRKEKVEAFRD 353 (441)
T ss_pred -----------hccCCHHHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHhhCCccceeeeeccCc--cHHHHHHHHHc
Confidence 01222 466778888888999999999999999999988543 2 23344555544 89999999997
Q ss_pred CCCCceEEEEecccccCCCCCCCCCEEEEeC--CCCCcchhhhHhHhhHhcCCCCceEEEEEecC
Q 004880 545 VNSSYRIFLLSTRAGGLGINLTAADTCILYD--SDWNPQMDLQAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 545 ~~~~~~v~Llst~agg~GiNL~~a~~VI~~D--~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
+ .+ -+|++|..+.+|+.++..|+.++=. +-++-+...|.-||++|--..-.-.|+.|..-
T Consensus 354 G--~~-~lLiTTTILERGVTfp~vdV~Vlgaeh~vfTesaLVQIaGRvGRs~~~PtGdv~FFH~G 415 (441)
T COG4098 354 G--KI-TLLITTTILERGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRSLERPTGDVLFFHYG 415 (441)
T ss_pred C--ce-EEEEEeehhhcccccccceEEEecCCcccccHHHHHHHhhhccCCCcCCCCcEEEEecc
Confidence 3 33 3699999999999999999999844 34888999999999999754333444444433
No 106
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.67 E-value=9.5e-15 Score=167.07 Aligned_cols=116 Identities=16% Similarity=0.175 Sum_probs=101.8
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEeccc
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRA 558 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~a 558 (725)
..|+..+.+.+......|..|||||.+....+.|...|...|+++..++|.....++.-+...+.. +. ++|+|..
T Consensus 423 ~~K~~al~~~i~~~~~~g~pvLI~t~si~~se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~--g~---VtIATnm 497 (796)
T PRK12906 423 DSKFNAVVKEIKERHAKGQPVLVGTVAIESSERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQR--GA---VTIATNM 497 (796)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCC--ce---EEEEecc
Confidence 458999999998888899999999999999999999999999999999999886555555555543 23 7999999
Q ss_pred ccCCCCCC---CCC-----EEEEeCCCCCcchhhhHhHhhHhcCCCCce
Q 004880 559 GGLGINLT---AAD-----TCILYDSDWNPQMDLQAMDRCHRIGQTKPV 599 (725)
Q Consensus 559 gg~GiNL~---~a~-----~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V 599 (725)
+|+|+|+. .+. +||.++.|-|+..|.|+.||++|.|..-..
T Consensus 498 AGRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s 546 (796)
T PRK12906 498 AGRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLRGRSGRQGDPGSS 546 (796)
T ss_pred ccCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHhhhhccCCCCcce
Confidence 99999995 667 999999999999999999999999977664
No 107
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.67 E-value=6e-15 Score=169.46 Aligned_cols=122 Identities=15% Similarity=0.136 Sum_probs=108.6
Q ss_pred HhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 477 EQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 477 ~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
....|+.++.+-+..+.+.|..|||||.+....+.|..+|...|+++..++|.....+|..+.+.|+.+ . ++|+|
T Consensus 425 t~~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G--~---VtIAT 499 (896)
T PRK13104 425 TQADKFQAIIEDVRECGVRKQPVLVGTVSIEASEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRPG--A---VTIAT 499 (896)
T ss_pred CHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCCC--c---EEEec
Confidence 345699999999999999999999999999999999999999999999999999999999999999973 3 69999
Q ss_pred ccccCCCCCC--------------------------------------CCCEEEEeCCCCCcchhhhHhHhhHhcCCCCc
Q 004880 557 RAGGLGINLT--------------------------------------AADTCILYDSDWNPQMDLQAMDRCHRIGQTKP 598 (725)
Q Consensus 557 ~agg~GiNL~--------------------------------------~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~ 598 (725)
..+|+|+|+. +.=+||--..+-|-..+.|-.||++|.|..-.
T Consensus 500 NmAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGs 579 (896)
T PRK13104 500 NMAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGS 579 (896)
T ss_pred cCccCCcceecCCchhhhhhccccchhhHHHHHHHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCc
Confidence 9999999986 23478888899999999999999999998776
Q ss_pred eEEEE
Q 004880 599 VHVYR 603 (725)
Q Consensus 599 V~Vyr 603 (725)
...|-
T Consensus 580 s~f~l 584 (896)
T PRK13104 580 SRFYL 584 (896)
T ss_pred eEEEE
Confidence 55543
No 108
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.66 E-value=7.1e-15 Score=175.70 Aligned_cols=109 Identities=17% Similarity=0.181 Sum_probs=88.6
Q ss_pred CCCcEEEEccchhHHHHHHHHHhhcCce---EEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEE
Q 004880 495 RNHKVLVFSQWTKILDIMEYYFNEKGYE---VCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTC 571 (725)
Q Consensus 495 ~~~kvlIFsq~~~~ld~l~~~L~~~g~~---~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~V 571 (725)
....+|||++....++.+...|...+++ +..++|+++.++|..+++.+ +. +-+|+||++++.||+++++++|
T Consensus 285 ~~GdILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~~----g~-rkIIVATNIAEtSITIpgI~yV 359 (1294)
T PRK11131 285 GPGDILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQSH----SG-RRIVLATNVAETSLTVPGIKYV 359 (1294)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhccc----CC-eeEEEeccHHhhccccCcceEE
Confidence 4567999999999999999999887765 67899999999999887642 23 3469999999999999999999
Q ss_pred EEeC---------------CCCCc---chhhhHhHhhHhcCCCCceEEEEEecCCCHH
Q 004880 572 ILYD---------------SDWNP---QMDLQAMDRCHRIGQTKPVHVYRLATAQSVE 611 (725)
Q Consensus 572 I~~D---------------~~wNp---~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiE 611 (725)
|.++ .+-.| ..+.||.||++|. .+=.+|+|++....+
T Consensus 360 ID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~---~~G~c~rLyte~d~~ 414 (1294)
T PRK11131 360 IDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV---SEGICIRLYSEDDFL 414 (1294)
T ss_pred EECCCccccccccccCcccCCeeecCHhhHhhhccccCCC---CCcEEEEeCCHHHHH
Confidence 9975 33334 5788999999997 467788999876443
No 109
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.66 E-value=7e-15 Score=151.36 Aligned_cols=323 Identities=18% Similarity=0.207 Sum_probs=210.0
Q ss_pred chHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCceEEEEe
Q 004880 158 SYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSVSAIIYH 236 (725)
Q Consensus 158 ~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~~v~~~~ 236 (725)
|-|..+++-+.. ....+.+++++|.||++ +..|..--..+-++||.|.- ++....+.+.+.--....+-..
T Consensus 23 ~LQE~A~~c~VK---~k~DVyVsMPTGaGKSL-----CyQLPaL~~~gITIV~SPLiALIkDQiDHL~~LKVp~~SLNSK 94 (641)
T KOG0352|consen 23 RLQEQAINCIVK---RKCDVYVSMPTGAGKSL-----CYQLPALVHGGITIVISPLIALIKDQIDHLKRLKVPCESLNSK 94 (641)
T ss_pred hHHHHHHHHHHh---ccCcEEEeccCCCchhh-----hhhchHHHhCCeEEEehHHHHHHHHHHHHHHhcCCchhHhcch
Confidence 689999988874 45678999999999994 33333221234788999954 5555666666653222222223
Q ss_pred CChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-HHh----hhhcCccEEEEccccccCC------cchHHHHHHhc
Q 004880 237 GSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA-RKY----LRHYNWKYLVVDEGHRLKN------PKCKLLKELKY 305 (725)
Q Consensus 237 g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~-~~~----l~~~~~~~vIvDEaH~ikn------~~s~~~~~l~~ 305 (725)
-+..+|+.+.... ....+...++.+|+++...+. ... ..+....|++|||||.... +.....-+|+.
T Consensus 95 lSt~ER~ri~~DL--~~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDEAHCVSQWGHDFRPDYL~LG~LRS 172 (641)
T KOG0352|consen 95 LSTVERSRIMGDL--AKEKPTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVDEAHCVSQWGHDFRPDYLTLGSLRS 172 (641)
T ss_pred hhHHHHHHHHHHH--HhcCCceeEEEEchhhhhhhhHHHHHHHHhhhceeeeEEechhhhHhhhccccCcchhhhhhHHh
Confidence 3455555443221 112345678889998865542 222 2334478999999998853 33333334433
Q ss_pred -CCCCcEEEEeccCCCCChHHhhhhhccccCC-CCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 306 -IPIGNKLLLTGTPLQNNLAELWSLLHFILPD-IFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 306 -l~~~~rllLTgTP~~n~~~el~sll~~l~p~-~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
+....-++||||.-..--++++..|++-.|- +|.+. .|.
T Consensus 173 ~~~~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFkTP-~FR-------------------------------------- 213 (641)
T KOG0352|consen 173 VCPGVPWVALTATANAKVQEDIAFQLKLRNPVAIFKTP-TFR-------------------------------------- 213 (641)
T ss_pred hCCCCceEEeecccChhHHHHHHHHHhhcCcHHhccCc-chh--------------------------------------
Confidence 3455668999998777778888888776662 12111 111
Q ss_pred hheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc
Q 004880 384 LRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF 463 (725)
Q Consensus 384 lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~ 463 (725)
-.-+|+..+...+.. .+.++-...+++...|.-+....
T Consensus 214 ---------------------------~NLFYD~~~K~~I~D---------------~~~~LaDF~~~~LG~~~~~~~~~ 251 (641)
T KOG0352|consen 214 ---------------------------DNLFYDNHMKSFITD---------------CLTVLADFSSSNLGKHEKASQNK 251 (641)
T ss_pred ---------------------------hhhhHHHHHHHHhhh---------------HhHhHHHHHHHhcCChhhhhcCC
Confidence 111233332222211 11112222222222222221110
Q ss_pred cCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 004880 464 SDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFN 543 (725)
Q Consensus 464 ~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~ 543 (725)
. ....=-||||..+...+.+.-.|..+|++...+|.+....+|.++-+.|.
T Consensus 252 K-----------------------------~~~GCGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM 302 (641)
T KOG0352|consen 252 K-----------------------------TFTGCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWM 302 (641)
T ss_pred C-----------------------------CcCcceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHh
Confidence 0 01123599999999999999999999999999999999999999999998
Q ss_pred CCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEE
Q 004880 544 DVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYR 603 (725)
Q Consensus 544 ~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyr 603 (725)
+ .++.| |++|-..|.|++-+.+..|||.|++-|.+.|.|-.||++|.|-..=++.|+
T Consensus 303 ~--~~~Pv-I~AT~SFGMGVDKp~VRFViHW~~~qn~AgYYQESGRAGRDGk~SyCRLYY 359 (641)
T KOG0352|consen 303 N--NEIPV-IAATVSFGMGVDKPDVRFVIHWSPSQNLAGYYQESGRAGRDGKRSYCRLYY 359 (641)
T ss_pred c--CCCCE-EEEEeccccccCCcceeEEEecCchhhhHHHHHhccccccCCCccceeeee
Confidence 7 34444 999999999999999999999999999999999999999999776677765
No 110
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.66 E-value=3.3e-14 Score=163.38 Aligned_cols=402 Identities=16% Similarity=0.178 Sum_probs=222.8
Q ss_pred ccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHH----HHHHHHHHh
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLS----NWVNEISRF 226 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~----~W~~E~~~~ 226 (725)
..|-..++-|+-|.--| ..|.|.-..||.|||+++...+....-.| ..+-||+|+..|. +|...+-++
T Consensus 77 ~lg~~~~dvQlig~l~L------~~G~Iaem~TGeGKTLva~lpa~l~aL~G--~~V~IvTpn~yLA~rd~e~~~~l~~~ 148 (830)
T PRK12904 77 VLGMRHFDVQLIGGMVL------HEGKIAEMKTGEGKTLVATLPAYLNALTG--KGVHVVTVNDYLAKRDAEWMGPLYEF 148 (830)
T ss_pred HhCCCCCccHHHhhHHh------cCCchhhhhcCCCcHHHHHHHHHHHHHcC--CCEEEEecCHHHHHHHHHHHHHHHhh
Confidence 45678888999887544 34568889999999998654432111122 2466999988663 377777666
Q ss_pred CCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHH-HHHhh-------hhcCccEEEEccccccCCcchH
Q 004880 227 VPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSD-ARKYL-------RHYNWKYLVVDEGHRLKNPKCK 298 (725)
Q Consensus 227 ~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~-~~~~l-------~~~~~~~vIvDEaH~ikn~~s~ 298 (725)
+ ++.+.+..|.......... -..+|++.|+..+--| +++.+ ...++.++|||||..+.=..
T Consensus 149 L-Glsv~~i~~~~~~~er~~~--------y~~dI~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDsiLIDe-- 217 (830)
T PRK12904 149 L-GLSVGVILSGMSPEERREA--------YAADITYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDSILIDE-- 217 (830)
T ss_pred c-CCeEEEEcCCCCHHHHHHh--------cCCCeEEECCcchhhhhhhcccccchhhhcccccceEEEechhhheecc--
Confidence 6 5677777665433322111 1368999998887332 22222 23467899999999874221
Q ss_pred HHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCC------------------HHHHHHHhcccCCCchhhhH
Q 004880 299 LLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSS------------------LEEFQSWFDLSGKCNSEVMK 360 (725)
Q Consensus 299 ~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~------------------~~~F~~~~~~~~~~~~~~~~ 360 (725)
++.-+.+||.+-. ..++|..++-+-+.+-.. .......+.......
T Consensus 218 ---------ArtpLiiSg~~~~--~~~~y~~~~~~v~~l~~~~dy~vde~~~~v~lte~G~~~~e~~~~~~~ly~----- 281 (830)
T PRK12904 218 ---------ARTPLIISGPAED--SSELYKRANKIVPTLEKEGDYTVDEKSRTVGLTEEGIEKAEKLLGIENLYD----- 281 (830)
T ss_pred ---------CCCceeeECCCCc--ccHHHHHHHHHHHhcCCCCCeEEEcCCCeeeECHHHHHHHHHHhCCccccC-----
Confidence 2334677776432 234444444332222110 001111111100000
Q ss_pred HHHHHHHHHHHHHHHHHhhhhh-hhheehhhHhhcCCCceEEEEEecCCH-------HHHHHHHHHHHHH----------
Q 004880 361 EELEEKRRGQMVAKLHAILRPF-LLRRMKSDVEQMLPRKKEIILYATMTE-------HQRNFQDHLINKT---------- 422 (725)
Q Consensus 361 ~~~~~~~~~~~~~~L~~~l~p~-~lRR~k~dv~~~lP~k~e~~v~~~ls~-------~q~~~y~~l~~~~---------- 422 (725)
.........+...|+.. ++.|-+.-+.. .. +.++.-..|- ++.-+.+.+-.+.
T Consensus 282 -----~~~~~~~~~i~~AL~A~~l~~~d~dYiV~---dg-~V~ivDe~TGR~~~gr~ws~GLHQaiEaKE~v~i~~e~~t 352 (830)
T PRK12904 282 -----PENIALVHHLNQALRAHELFKRDVDYIVK---DG-EVVIVDEFTGRLMPGRRYSDGLHQAIEAKEGVKIQNENQT 352 (830)
T ss_pred -----hhhhHHHHHHHHHHHHHHHHhcCCcEEEE---CC-EEEEEECCCCccCCCCccchHHHHHHHHhcCCCCCCCcee
Confidence 00001122222333322 22332221111 01 1111111111 1111111111000
Q ss_pred -----HHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCCCCCC-chHHHHHhhcHHHHHHHHHHHHhhCC
Q 004880 423 -----LENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDSCFYP-PVEQIVEQCGKFRLLDRLLARLFARN 496 (725)
Q Consensus 423 -----~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~~~~-~~~~l~~~s~K~~~L~~ll~~l~~~~ 496 (725)
...+++. ...-.++.++...-...+.++.+-+...-.+..+..... +..-......|+..+.+.+.++...|
T Consensus 353 ~a~It~qn~Fr~--Y~kl~GmTGTa~te~~E~~~iY~l~vv~IPtnkp~~r~d~~d~i~~t~~~K~~aI~~~I~~~~~~g 430 (830)
T PRK12904 353 LASITFQNYFRM--YEKLAGMTGTADTEAEEFREIYNLDVVVIPTNRPMIRIDHPDLIYKTEKEKFDAVVEDIKERHKKG 430 (830)
T ss_pred eeeeeHHHHHHh--cchhcccCCCcHHHHHHHHHHhCCCEEEcCCCCCeeeeeCCCeEEECHHHHHHHHHHHHHHHHhcC
Confidence 0000000 000011112222223344444444333222211110000 00111233469999999999988899
Q ss_pred CcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCC-C--------
Q 004880 497 HKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLT-A-------- 567 (725)
Q Consensus 497 ~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~-~-------- 567 (725)
..|||||.+....+.|...|...|+++..++|. ..+|+..+..|...... ++|+|+.+|+|+|+. +
T Consensus 431 rpVLIft~Si~~se~Ls~~L~~~gi~~~vLnak--q~eREa~Iia~Ag~~g~---VtIATNmAGRGtDI~LgGn~~~~~~ 505 (830)
T PRK12904 431 QPVLVGTVSIEKSELLSKLLKKAGIPHNVLNAK--NHEREAEIIAQAGRPGA---VTIATNMAGRGTDIKLGGNPEMLAA 505 (830)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHCCCceEeccCc--hHHHHHHHHHhcCCCce---EEEecccccCCcCccCCCchhhhhh
Confidence 999999999999999999999999999999996 67999999999863333 699999999999985 3
Q ss_pred -----------------------------CCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEE
Q 004880 568 -----------------------------ADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYR 603 (725)
Q Consensus 568 -----------------------------a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyr 603 (725)
.=+||.-..+-|-..+.|..||++|.|..-....|-
T Consensus 506 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~QlrGRagRQGdpGss~f~l 570 (830)
T PRK12904 506 ALLEEETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYL 570 (830)
T ss_pred hhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhhcccccCCCCCceeEEE
Confidence 447888889999999999999999999887755543
No 111
>COG4889 Predicted helicase [General function prediction only]
Probab=99.65 E-value=1.3e-15 Score=168.16 Aligned_cols=166 Identities=19% Similarity=0.208 Sum_probs=105.6
Q ss_pred cccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 148 VSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 148 ~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
+|.....+|||||..++....+.+..+.+|=|-+.+|.|||.+++-+...+.. .++|.++|.- +++|-.+|...-
T Consensus 154 l~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala~----~~iL~LvPSIsLLsQTlrew~~~ 229 (1518)
T COG4889 154 LPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALAA----ARILFLVPSISLLSQTLREWTAQ 229 (1518)
T ss_pred cccCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHhh----hheEeecchHHHHHHHHHHHhhc
Confidence 45666789999999999999999988888988899999999999998887766 4899999954 666644433221
Q ss_pred C-CCceEEEE-eCChhh-------------------HHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH-HhhhhcCccEE
Q 004880 227 V-PSVSAIIY-HGSKKE-------------------RDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR-KYLRHYNWKYL 284 (725)
Q Consensus 227 ~-p~~~v~~~-~g~~~~-------------------r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~-~~l~~~~~~~v 284 (725)
. -.++.... ..++.. +..+. ..-.+....+.-||.+||+.+..-.. ...---.|++|
T Consensus 230 ~~l~~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~-~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fDli 308 (1518)
T COG4889 230 KELDFRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILS-EMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFDLI 308 (1518)
T ss_pred cCccceeEEEecCccccccccccccccCCCCCcccHHHHHH-HHHHhhccCCcEEEEEcccchHHHHHHHHcCCCCccEE
Confidence 1 11222221 111111 11111 00011123456789999998765421 22333468999
Q ss_pred EEccccccCC------cchHHHHH--HhcCCCCcEEEEeccC
Q 004880 285 VVDEGHRLKN------PKCKLLKE--LKYIPIGNKLLLTGTP 318 (725)
Q Consensus 285 IvDEaH~ikn------~~s~~~~~--l~~l~~~~rllLTgTP 318 (725)
|||||||--. ..+..++. -..+++..|+.+||||
T Consensus 309 icDEAHRTtGa~~a~dd~saFt~vHs~~niKa~kRlYmTATP 350 (1518)
T COG4889 309 ICDEAHRTTGATLAGDDKSAFTRVHSDQNIKAAKRLYMTATP 350 (1518)
T ss_pred EecchhccccceecccCcccceeecCcchhHHHHhhhcccCc
Confidence 9999999632 11122111 1234567889999999
No 112
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.64 E-value=1.2e-15 Score=156.41 Aligned_cols=321 Identities=21% Similarity=0.256 Sum_probs=207.6
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh-CCCCCCcEEEEcCccHHHHHHH-HHHhCCCc-
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG-NGLHGPYLVIAPLSTLSNWVNE-ISRFVPSV- 230 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~-~~~~~~~LIV~P~sll~~W~~E-~~~~~p~~- 230 (725)
.+....|..|+.-.+. |.+.+.-.+.|+|||.+-...+..... .....-+||++|...+.+...+ ...+.+..
T Consensus 47 ekPSaIQqraI~p~i~----G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~~v~~~lg~~~~ 122 (397)
T KOG0327|consen 47 EKPSAIQQRAILPCIK----GHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRALGDHMD 122 (397)
T ss_pred CCchHHHhcccccccc----CCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHHHHHHhhhcccc
Confidence 4667789988877765 899999999999999984333333322 2223458999999977654443 34444433
Q ss_pred -eEEEE-eCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH-HhhhhcCccEEEEccccccC--CcchHHHHHHhc
Q 004880 231 -SAIIY-HGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR-KYLRHYNWKYLVVDEGHRLK--NPKCKLLKELKY 305 (725)
Q Consensus 231 -~v~~~-~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~-~~l~~~~~~~vIvDEaH~ik--n~~s~~~~~l~~ 305 (725)
.+... .|....++.... .....+|++.|++.+...+. ..|.....++.|+|||..+. +...+.......
T Consensus 123 ~~v~~~igg~~~~~~~~~i------~~~~~hivvGTpgrV~dml~~~~l~~~~iKmfvlDEaDEmLs~gfkdqI~~if~~ 196 (397)
T KOG0327|consen 123 VSVHACIGGTNVRREDQAL------LKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDEADEMLSRGFKDQIYDIFQE 196 (397)
T ss_pred eeeeeecCcccchhhhhhh------hccCceeecCCchhHHHhhccccccccceeEEeecchHhhhccchHHHHHHHHHH
Confidence 44433 333333232111 11346799999987654431 23455567899999999886 444556666666
Q ss_pred CCC-CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q 004880 306 IPI-GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLL 384 (725)
Q Consensus 306 l~~-~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~l 384 (725)
++. ...+++|||-- .++. .-.+.|. -.|..+
T Consensus 197 lp~~vQv~l~SAT~p----~~vl---------------~vt~~f~-----------------------------~~pv~i 228 (397)
T KOG0327|consen 197 LPSDVQVVLLSATMP----SDVL---------------EVTKKFM-----------------------------REPVRI 228 (397)
T ss_pred cCcchhheeecccCc----HHHH---------------HHHHHhc-----------------------------cCceEE
Confidence 654 35578888831 0000 0000000 000000
Q ss_pred heehhhHhhcCCCceEEEEEecCC-HHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc
Q 004880 385 RRMKSDVEQMLPRKKEIILYATMT-EHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF 463 (725)
Q Consensus 385 RR~k~dv~~~lP~k~e~~v~~~ls-~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~ 463 (725)
-+.|.+ +| +.|+.+|-..
T Consensus 229 ~vkk~~----------------ltl~gikq~~i~v--------------------------------------------- 247 (397)
T KOG0327|consen 229 LVKKDE----------------LTLEGIKQFYINV--------------------------------------------- 247 (397)
T ss_pred Eecchh----------------hhhhheeeeeeec---------------------------------------------
Confidence 000100 11 0011111000
Q ss_pred cCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 004880 464 SDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFN 543 (725)
Q Consensus 464 ~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~ 543 (725)
..-.|+..|.++.. +-...+|||+...-++.|...|..+|+.+..++|.+.+.+|..++..|+
T Consensus 248 -------------~k~~k~~~l~dl~~----~~~q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~ 310 (397)
T KOG0327|consen 248 -------------EKEEKLDTLCDLYR----RVTQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFR 310 (397)
T ss_pred -------------cccccccHHHHHHH----hhhcceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhh
Confidence 00116666777666 3356899999999999999999999999999999999999999999999
Q ss_pred CCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHH
Q 004880 544 DVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKR 617 (725)
Q Consensus 544 ~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~ 617 (725)
.+.+. +||+|...+.||+++.++.||+||.|-|+..|.+|+||++|.|- +-.+..++++. |++++..
T Consensus 311 ~gssr---vlIttdl~argidv~~~slvinydlP~~~~~yihR~gr~gr~gr--kg~~in~v~~~--d~~~lk~ 377 (397)
T KOG0327|consen 311 SGSSR---VLITTDLLARGIDVQQVSLVVNYDLPARKENYIHRIGRAGRFGR--KGVAINFVTEE--DVRDLKD 377 (397)
T ss_pred cCCce---EEeeccccccccchhhcceeeeeccccchhhhhhhcccccccCC--CceeeeeehHh--hHHHHHh
Confidence 84443 49999999999999999999999999999999999999999993 33445566665 3444443
No 113
>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=99.63 E-value=3.9e-16 Score=130.22 Aligned_cols=78 Identities=33% Similarity=0.603 Sum_probs=72.8
Q ss_pred HHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhc
Q 004880 514 YYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRI 593 (725)
Q Consensus 514 ~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~Ri 593 (725)
.+|...|+++..++|+++..+|..+++.|++++. .+|++|.++++|||++.+++||+|+++||+..+.|++||++|.
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~---~vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~ 77 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEI---RVLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRI 77 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSS---SEEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTT
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCc---eEEEeeccccccccccccccccccccCCCHHHHHHHhhcCCCC
Confidence 3678899999999999999999999999998544 3699999999999999999999999999999999999999999
Q ss_pred C
Q 004880 594 G 594 (725)
Q Consensus 594 G 594 (725)
|
T Consensus 78 g 78 (78)
T PF00271_consen 78 G 78 (78)
T ss_dssp T
T ss_pred C
Confidence 8
No 114
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.63 E-value=3.7e-15 Score=146.85 Aligned_cols=160 Identities=29% Similarity=0.358 Sum_probs=117.0
Q ss_pred cCCcccchHHHHHHHHHHHhcCC-CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc-CccHHHHHHHHHHhCCC
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNG-LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP-LSTLSNWVNEISRFVPS 229 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~-~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P-~sll~~W~~E~~~~~p~ 229 (725)
...+++|||.+++..+.. . .++++..++|+|||..++.++......+..+++||++| ..+..+|..++..+++.
T Consensus 5 ~~~~~~~~Q~~~~~~~~~----~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~ 80 (201)
T smart00487 5 GFEPLRPYQKEAIEALLS----GLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPS 80 (201)
T ss_pred CCCCCCHHHHHHHHHHHc----CCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhcc
Confidence 456899999999998874 4 78999999999999988888777777665679999999 55778999999998865
Q ss_pred ---ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHh-hhhcCccEEEEccccccCC--cchHHHHHH
Q 004880 230 ---VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKY-LRHYNWKYLVVDEGHRLKN--PKCKLLKEL 303 (725)
Q Consensus 230 ---~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~-l~~~~~~~vIvDEaH~ikn--~~s~~~~~l 303 (725)
.....+++..... .+.... ...++++++||+.+....... +...+++++|+||+|.+.+ ........+
T Consensus 81 ~~~~~~~~~~~~~~~~-~~~~~~-----~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~ 154 (201)
T smart00487 81 LGLKVVGLYGGDSKRE-QLRKLE-----SGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLL 154 (201)
T ss_pred CCeEEEEEeCCcchHH-HHHHHh-----cCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhcCCcHHHHHHHH
Confidence 3444555544222 211111 123489999999988776332 3455688999999999985 333444444
Q ss_pred hcC-CCCcEEEEeccCCCC
Q 004880 304 KYI-PIGNKLLLTGTPLQN 321 (725)
Q Consensus 304 ~~l-~~~~rllLTgTP~~n 321 (725)
..+ +..+++++||||..+
T Consensus 155 ~~~~~~~~~v~~saT~~~~ 173 (201)
T smart00487 155 KLLPKNVQLLLLSATPPEE 173 (201)
T ss_pred HhCCccceEEEEecCCchh
Confidence 444 578889999999633
No 115
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.60 E-value=2.4e-13 Score=155.87 Aligned_cols=120 Identities=13% Similarity=0.122 Sum_probs=107.1
Q ss_pred hhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecc
Q 004880 478 QCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTR 557 (725)
Q Consensus 478 ~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~ 557 (725)
.-.|+..+.+-+..+.+.|..|||||.+....+.+..+|...|+++..+++..+..+|..+.+.|+. +. ++|+|.
T Consensus 431 ~~~K~~Aii~ei~~~~~~GrpVLV~t~sv~~se~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~--G~---VtIATn 505 (908)
T PRK13107 431 ADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRT--GA---VTIATN 505 (908)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEeCcHHHHHHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCC--Cc---EEEecC
Confidence 3568999999999999999999999999999999999999999999999999999999999999987 33 699999
Q ss_pred cccCCCCCC-------------------------------------CCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceE
Q 004880 558 AGGLGINLT-------------------------------------AADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVH 600 (725)
Q Consensus 558 agg~GiNL~-------------------------------------~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~ 600 (725)
.+|+|+|+. +.=+||.-..+-|-..+.|..||++|.|..-.-.
T Consensus 506 mAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrGRaGRQGDPGss~ 585 (908)
T PRK13107 506 MAGRGTDIVLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRGRAGRQGDAGSSR 585 (908)
T ss_pred CcCCCcceecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhcccccCCCCCcee
Confidence 999999986 2347888999999999999999999999876644
Q ss_pred EE
Q 004880 601 VY 602 (725)
Q Consensus 601 Vy 602 (725)
.|
T Consensus 586 f~ 587 (908)
T PRK13107 586 FY 587 (908)
T ss_pred EE
Confidence 43
No 116
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=99.60 E-value=4e-14 Score=143.52 Aligned_cols=316 Identities=17% Similarity=0.169 Sum_probs=212.3
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcC-ccHHHHHHHHHHhCCCceE
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPL-STLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~-sll~~W~~E~~~~~p~~~v 232 (725)
.+.||.|+.+++..+. +...+|..++|-||++ +..|...-..|-.|||||. |++....-.++...-+...
T Consensus 93 ekfrplq~~ain~~ma----~ed~~lil~tgggksl-----cyqlpal~adg~alvi~plislmedqil~lkqlgi~as~ 163 (695)
T KOG0353|consen 93 EKFRPLQLAAINATMA----GEDAFLILPTGGGKSL-----CYQLPALCADGFALVICPLISLMEDQILQLKQLGIDASM 163 (695)
T ss_pred HhcChhHHHHhhhhhc----cCceEEEEeCCCccch-----hhhhhHHhcCCceEeechhHHHHHHHHHHHHHhCcchhh
Confidence 4789999999998886 8899999999999994 3444333335789999994 3555555556665433333
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHH------HHHhhhhcCccEEEEccccccCC------cc-hHH
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSD------ARKYLRHYNWKYLVVDEGHRLKN------PK-CKL 299 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~------~~~~l~~~~~~~vIvDEaH~ikn------~~-s~~ 299 (725)
+-...++.+-..+.... ......+.++..|++.+.+. +.+.+..-.|.++-|||.|.+.. +. ..+
T Consensus 164 lnansske~~k~v~~~i--~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~~iaidevhccsqwghdfr~dy~~l 241 (695)
T KOG0353|consen 164 LNANSSKEEAKRVEAAI--TNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKLIAIDEVHCCSQWGHDFRPDYKAL 241 (695)
T ss_pred ccCcccHHHHHHHHHHH--cCCCceeEEEEecHHHHHHHHHHHHHHHHHhhcceeEEEeecceeehhhhCcccCcchHHH
Confidence 33334443333222221 22345788999999876543 23344445689999999998853 22 334
Q ss_pred HHHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhh
Q 004880 300 LKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAIL 379 (725)
Q Consensus 300 ~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l 379 (725)
.-.-++++....++||||..++-+.+.-.+|..-.. -.|..-|.
T Consensus 242 ~ilkrqf~~~~iigltatatn~vl~d~k~il~ie~~------~tf~a~fn------------------------------ 285 (695)
T KOG0353|consen 242 GILKRQFKGAPIIGLTATATNHVLDDAKDILCIEAA------FTFRAGFN------------------------------ 285 (695)
T ss_pred HHHHHhCCCCceeeeehhhhcchhhHHHHHHhHHhh------heeecccC------------------------------
Confidence 444456788899999999988777765554432100 00111110
Q ss_pred hhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhh
Q 004880 380 RPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLL 459 (725)
Q Consensus 380 ~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~ 459 (725)
-|.....++--|-+.. .+
T Consensus 286 ---------------r~nl~yev~qkp~n~d--d~--------------------------------------------- 303 (695)
T KOG0353|consen 286 ---------------RPNLKYEVRQKPGNED--DC--------------------------------------------- 303 (695)
T ss_pred ---------------CCCceeEeeeCCCChH--HH---------------------------------------------
Confidence 1211111111100000 00
Q ss_pred hhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHH
Q 004880 460 ESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQI 539 (725)
Q Consensus 460 ~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i 539 (725)
.+-+.+++..- -.|..-||||-+..-.+.+...|...|+....+|..+.+.+|.-+.
T Consensus 304 ----------------------~edi~k~i~~~-f~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~h 360 (695)
T KOG0353|consen 304 ----------------------IEDIAKLIKGD-FAGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAH 360 (695)
T ss_pred ----------------------HHHHHHHhccc-cCCCcceEEEeccccHHHHHHHHHhcCccccccccccCcccccccc
Confidence 01111122211 1367789999999999999999999999999999999999999999
Q ss_pred HHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhh----------------------------------
Q 004880 540 QDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQ---------------------------------- 585 (725)
Q Consensus 540 ~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Q---------------------------------- 585 (725)
..|-. +.++| +++|-|.|.||+-+.+..|||-..|-+...|.|
T Consensus 361 q~w~a--~eiqv-ivatvafgmgidkpdvrfvihhsl~ksienyyqasarillrmtkqknksdtggstqinilevctnfk 437 (695)
T KOG0353|consen 361 QGWIA--GEIQV-IVATVAFGMGIDKPDVRFVIHHSLPKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFK 437 (695)
T ss_pred ccccc--cceEE-EEEEeeecccCCCCCeeEEEecccchhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccce
Confidence 88876 56766 889999999999999999999999999999999
Q ss_pred ---------HhHhhHhcCCCCceEEEEE
Q 004880 586 ---------AMDRCHRIGQTKPVHVYRL 604 (725)
Q Consensus 586 ---------a~gR~~RiGQ~k~V~Vyrl 604 (725)
-.||++|.|++-.+..|+=
T Consensus 438 iffavfsekesgragrd~~~a~cilyy~ 465 (695)
T KOG0353|consen 438 IFFAVFSEKESGRAGRDDMKADCILYYG 465 (695)
T ss_pred eeeeeecchhccccccCCCcccEEEEec
Confidence 5689999999999776653
No 117
>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=99.60 E-value=8.9e-14 Score=167.00 Aligned_cols=109 Identities=17% Similarity=0.238 Sum_probs=88.6
Q ss_pred CCCcEEEEccchhHHHHHHHHHhhcC---ceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEE
Q 004880 495 RNHKVLVFSQWTKILDIMEYYFNEKG---YEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTC 571 (725)
Q Consensus 495 ~~~kvlIFsq~~~~ld~l~~~L~~~g---~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~V 571 (725)
....+|||+.....++.+...|...+ +.+..++|+++.++|.+++..+ +. +-+|+||..+..||++.++++|
T Consensus 278 ~~GdILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~----~~-rkIVLATNIAEtSLTIpgV~yV 352 (1283)
T TIGR01967 278 GPGDILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH----SG-RRIVLATNVAETSLTVPGIHYV 352 (1283)
T ss_pred CCCCEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC----CC-ceEEEeccHHHhccccCCeeEE
Confidence 34689999999999999999998764 4588899999999999885443 22 3469999999999999999999
Q ss_pred EEeCCC----C--------------CcchhhhHhHhhHhcCCCCceEEEEEecCCCHH
Q 004880 572 ILYDSD----W--------------NPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVE 611 (725)
Q Consensus 572 I~~D~~----w--------------Np~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiE 611 (725)
|.++.+ + +-..+.||.||++|.| +-.+|+|++....+
T Consensus 353 IDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~---~G~cyRLyte~~~~ 407 (1283)
T TIGR01967 353 IDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA---PGICIRLYSEEDFN 407 (1283)
T ss_pred EeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC---CceEEEecCHHHHH
Confidence 998732 1 3357899999999987 76789999876543
No 118
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.59 E-value=5.7e-14 Score=159.02 Aligned_cols=323 Identities=18% Similarity=0.215 Sum_probs=184.6
Q ss_pred HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhC----C----CCCCcEEEEcCc-cHHHHHHHHHHhCC--CceEEEEeCC
Q 004880 170 LWQNGLNGILADQMGLGKTIQTIAFLAHLKGN----G----LHGPYLVIAPLS-TLSNWVNEISRFVP--SVSAIIYHGS 238 (725)
Q Consensus 170 ~~~~~~~~ILademGlGKT~qaiali~~l~~~----~----~~~~~LIV~P~s-ll~~W~~E~~~~~p--~~~v~~~~g~ 238 (725)
.|..+.|.|++.+||+|||..+...|..+... + ..-+++.|+|.. +.....+-+.+-+. ++.+.-++|+
T Consensus 122 aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~~gi~v~ELTGD 201 (1230)
T KOG0952|consen 122 AYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAPLGISVRELTGD 201 (1230)
T ss_pred hhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcccccceEEEecCc
Confidence 35778999999999999998876544444332 1 223689999944 55444444444433 6788899997
Q ss_pred hhhHHHHHHhcCCCCCCCCCCEEEecHHHHH---HH---HHHhhhhcCccEEEEccccccCCcchHHHH-----HHhc--
Q 004880 239 KKERDEIRRKHMPRAIGPKFPIVVTSYEVAL---SD---ARKYLRHYNWKYLVVDEGHRLKNPKCKLLK-----ELKY-- 305 (725)
Q Consensus 239 ~~~r~~~~~~~~~~~~~~~~~vvItsye~~~---~~---~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~-----~l~~-- 305 (725)
..--..- -...+|+|||+|..- +. ...++. ...+|||||.|.+......... .++.
T Consensus 202 ~ql~~te---------i~~tqiiVTTPEKwDvvTRk~~~d~~l~~--~V~LviIDEVHlLhd~RGpvlEtiVaRtlr~ve 270 (1230)
T KOG0952|consen 202 TQLTKTE---------IADTQIIVTTPEKWDVVTRKSVGDSALFS--LVRLVIIDEVHLLHDDRGPVLETIVARTLRLVE 270 (1230)
T ss_pred chhhHHH---------HHhcCEEEecccceeeeeeeeccchhhhh--heeeEEeeeehhhcCcccchHHHHHHHHHHHHH
Confidence 7543221 136789999998641 10 012222 3579999999999876554333 3322
Q ss_pred --CCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 306 --IPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 306 --l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
...-+.++||||- + |..| +-.||..+.......|...|. |
T Consensus 271 ssqs~IRivgLSATl-P-N~eD---vA~fL~vn~~~glfsFd~~yR-------------------------------P-- 312 (1230)
T KOG0952|consen 271 SSQSMIRIVGLSATL-P-NYED---VARFLRVNPYAGLFSFDQRYR-------------------------------P-- 312 (1230)
T ss_pred hhhhheEEEEeeccC-C-CHHH---HHHHhcCCCccceeeeccccc-------------------------------c--
Confidence 2345669999993 2 3333 334444443333334443331 1
Q ss_pred hheehhhHhhcCCCceEEEEEecCC--HHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhh
Q 004880 384 LRRMKSDVEQMLPRKKEIILYATMT--EHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLES 461 (725)
Q Consensus 384 lRR~k~dv~~~lP~k~e~~v~~~ls--~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~ 461 (725)
.|-. ...+-++.. ..|......
T Consensus 313 -----------vpL~-~~~iG~k~~~~~~~~~~~d~-------------------------------------------- 336 (1230)
T KOG0952|consen 313 -----------VPLT-QGFIGIKGKKNRQQKKNIDE-------------------------------------------- 336 (1230)
T ss_pred -----------ccee-eeEEeeecccchhhhhhHHH--------------------------------------------
Confidence 0100 001100000 011111110
Q ss_pred hccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhh----cC-----------------
Q 004880 462 AFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNE----KG----------------- 520 (725)
Q Consensus 462 ~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~----~g----------------- 520 (725)
.++..+ .+...+|+.|+||+..+...-.....|.. .|
T Consensus 337 ------------------~~~~kv----~e~~~~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~el 394 (1230)
T KOG0952|consen 337 ------------------VCYDKV----VEFLQEGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKEL 394 (1230)
T ss_pred ------------------HHHHHH----HHHHHcCCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHHHHH
Confidence 011111 22234678888888766532222222221 11
Q ss_pred --ceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcch----------hhhHhH
Q 004880 521 --YEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQM----------DLQAMD 588 (725)
Q Consensus 521 --~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~----------~~Qa~g 588 (725)
.....-|.++.-.+|+-+-+.|.. +.++| |++|...+.|+||++--.+|-=..-|++.. .+|-.|
T Consensus 395 f~~g~~iHhAGm~r~DR~l~E~~F~~--G~i~v-L~cTaTLAwGVNLPA~aViIKGT~~ydsskg~f~dlgilDVlQifG 471 (1230)
T KOG0952|consen 395 FQQGMGIHHAGMLRSDRQLVEKEFKE--GHIKV-LCCTATLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLGILDVLQIFG 471 (1230)
T ss_pred HHhhhhhcccccchhhHHHHHHHHhc--CCceE-EEecceeeeccCCcceEEEecCCcccccccCceeeehHHHHHHHHh
Confidence 124456778888999999999987 55666 999999999999997777776555566554 579999
Q ss_pred hhHhcCCCCceEEEEEecC-------------CCHHHHHHHHHHHHH
Q 004880 589 RCHRIGQTKPVHVYRLATA-------------QSVEGRILKRAFSKL 622 (725)
Q Consensus 589 R~~RiGQ~k~V~Vyrli~~-------------~TiEe~i~~~~~~K~ 622 (725)
||+|.+=.+.-..+-.-+. +-||.+.+.++..-+
T Consensus 472 RAGRPqFd~~G~giIiTt~dkl~~Y~sLl~~~~piES~~~~~L~dnL 518 (1230)
T KOG0952|consen 472 RAGRPQFDSSGEGIIITTRDKLDHYESLLTGQNPIESQLLPCLIDNL 518 (1230)
T ss_pred ccCCCCCCCCceEEEEecccHHHHHHHHHcCCChhHHHHHHHHHHhh
Confidence 9999864444333333222 236666666655433
No 119
>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=99.58 E-value=2.3e-14 Score=132.76 Aligned_cols=138 Identities=26% Similarity=0.310 Sum_probs=103.2
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHH-HHHHHHHHhCC-CceEEEEeCChhhHHHHHHhcCCC
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLS-NWVNEISRFVP-SVSAIIYHGSKKERDEIRRKHMPR 252 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~-~W~~E~~~~~p-~~~v~~~~g~~~~r~~~~~~~~~~ 252 (725)
.++++.+++|+|||.+++.++..+...+..++++|+||...+. +|...+..+.+ ...+..+++..........
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----- 75 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQEKL----- 75 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHHHH-----
Confidence 3679999999999999999999988876778999999988554 55666777765 4666677776554433211
Q ss_pred CCCCCCCEEEecHHHHHHHHHHh-hhhcCccEEEEccccccCCcchHHH---HHHhcCCCCcEEEEeccC
Q 004880 253 AIGPKFPIVVTSYEVALSDARKY-LRHYNWKYLVVDEGHRLKNPKCKLL---KELKYIPIGNKLLLTGTP 318 (725)
Q Consensus 253 ~~~~~~~vvItsye~~~~~~~~~-l~~~~~~~vIvDEaH~ikn~~s~~~---~~l~~l~~~~rllLTgTP 318 (725)
.....+++++||+.+....... +....|+++|+||+|.+.+...... .........+++++||||
T Consensus 76 -~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 76 -LSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLSATP 144 (144)
T ss_pred -hcCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCCccceEEEEeccC
Confidence 1247789999999887665221 2344789999999999987765543 444556788899999998
No 120
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.58 E-value=4.5e-13 Score=154.07 Aligned_cols=132 Identities=20% Similarity=0.208 Sum_probs=112.7
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEeccc
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRA 558 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~a 558 (725)
.+++..|.+.+..+...|.++||||.....++.|..+|...|+++..+||.++..+|.+++..|.. +.+. +|++|..
T Consensus 425 ~~qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~--G~i~-VLV~t~~ 501 (655)
T TIGR00631 425 DGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRL--GEFD-VLVGINL 501 (655)
T ss_pred cchHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhc--CCce-EEEEcCh
Confidence 467788888888888899999999999999999999999999999999999999999999999987 4444 4899999
Q ss_pred ccCCCCCCCCCEEEEeC-----CCCCcchhhhHhHhhHhcCCCCceEEEEEecCCC--HHHHHHH
Q 004880 559 GGLGINLTAADTCILYD-----SDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQS--VEGRILK 616 (725)
Q Consensus 559 gg~GiNL~~a~~VI~~D-----~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~T--iEe~i~~ 616 (725)
+++|++++.++.||++| .+-+...++|++||++|.. +-.|+.|+...| +...|.+
T Consensus 502 L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~~---~G~vi~~~~~~~~~~~~ai~~ 563 (655)
T TIGR00631 502 LREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNV---NGKVIMYADKITDSMQKAIEE 563 (655)
T ss_pred hcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCCC---CCEEEEEEcCCCHHHHHHHHH
Confidence 99999999999999999 4668889999999999963 345666666655 4444444
No 121
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.58 E-value=1.7e-14 Score=148.77 Aligned_cols=317 Identities=22% Similarity=0.280 Sum_probs=216.7
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHH-HHHHHHHHhCC-CCCCcEEEEcCccH-HH---HHHHHHHhC
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQT-IAFLAHLKGNG-LHGPYLVIAPLSTL-SN---WVNEISRFV 227 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qa-iali~~l~~~~-~~~~~LIV~P~sll-~~---W~~E~~~~~ 227 (725)
.+..|.|.+.++-++. +....--.-+|+|||..- |-.+..|.... ..-+.||+.|..-+ .| ...++.+++
T Consensus 42 ~~ptpiqRKTipliLe----~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlkvvkdlgrgt 117 (529)
T KOG0337|consen 42 NTPTPIQRKTIPLILE----GRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLKVVKDLGRGT 117 (529)
T ss_pred CCCCchhcccccceee----ccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHHHHHHhcccc
Confidence 3567899999888875 666666677999999874 44555555543 23478999998744 33 455566655
Q ss_pred CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-HHhhhhcCccEEEEccccccCC--cchHHHHHHh
Q 004880 228 PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA-RKYLRHYNWKYLVVDEGHRLKN--PKCKLLKELK 304 (725)
Q Consensus 228 p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~-~~~l~~~~~~~vIvDEaH~ikn--~~s~~~~~l~ 304 (725)
.--.+++|+|...+...... ....|+|+.|+..+.--. .-.|.-....|||+|||.+|-. ..-++.+.+.
T Consensus 118 ~lr~s~~~ggD~~eeqf~~l-------~~npDii~ATpgr~~h~~vem~l~l~sveyVVfdEadrlfemgfqeql~e~l~ 190 (529)
T KOG0337|consen 118 KLRQSLLVGGDSIEEQFILL-------NENPDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEADRLFEMGFQEQLHEILS 190 (529)
T ss_pred chhhhhhcccchHHHHHHHh-------ccCCCEEEecCceeeeeehheeccccceeeeeehhhhHHHhhhhHHHHHHHHH
Confidence 43445577777766543322 246789999998764321 1123334568999999999964 4567888888
Q ss_pred cCCC-CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 004880 305 YIPI-GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFL 383 (725)
Q Consensus 305 ~l~~-~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~ 383 (725)
+++. ...+++|||- ++. +.+|...= +..|..
T Consensus 191 rl~~~~QTllfSatl-p~~------------------lv~fakaG-----------------------------l~~p~l 222 (529)
T KOG0337|consen 191 RLPESRQTLLFSATL-PRD------------------LVDFAKAG-----------------------------LVPPVL 222 (529)
T ss_pred hCCCcceEEEEeccC-chh------------------hHHHHHcc-----------------------------CCCCce
Confidence 8864 4569999993 111 11221100 011111
Q ss_pred hheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhc
Q 004880 384 LRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAF 463 (725)
Q Consensus 384 lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~ 463 (725)
+| -||+..+ ++. .+.+.+.
T Consensus 223 VR---ldvetki------------se~------------------------------------lk~~f~~---------- 241 (529)
T KOG0337|consen 223 VR---LDVETKI------------SEL------------------------------------LKVRFFR---------- 241 (529)
T ss_pred EE---eehhhhc------------chh------------------------------------hhhheee----------
Confidence 11 1111100 000 0000000
Q ss_pred cCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 004880 464 SDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFN 543 (725)
Q Consensus 464 ~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~ 543 (725)
+....|...|..++..... .++.+||+.....++++...|...|+.+.-+.|++.+..|..-+.+|+
T Consensus 242 ------------~~~a~K~aaLl~il~~~~~-~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~ 308 (529)
T KOG0337|consen 242 ------------VRKAEKEAALLSILGGRIK-DKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFR 308 (529)
T ss_pred ------------eccHHHHHHHHHHHhcccc-ccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhcccccc
Confidence 1123477777777776543 568999999999999999999999999999999999999999999999
Q ss_pred CCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 544 DVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 544 ~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
....+ +|++|+++++|++++.-+.||.||.|-.+..+.+|.||+.|-|.+ -..|-||+..
T Consensus 309 ~~k~~---~lvvTdvaaRG~diplldnvinyd~p~~~klFvhRVgr~aragrt--g~aYs~V~~~ 368 (529)
T KOG0337|consen 309 GRKTS---ILVVTDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRT--GRAYSLVAST 368 (529)
T ss_pred CCccc---eEEEehhhhccCCCccccccccccCCCCCceEEEEecchhhcccc--ceEEEEEecc
Confidence 75444 799999999999999999999999999999999999999999854 3556666654
No 122
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.54 E-value=2.1e-12 Score=149.74 Aligned_cols=125 Identities=18% Similarity=0.209 Sum_probs=108.9
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEeccc
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRA 558 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~a 558 (725)
.+++..|...|..+...|.++||||.....++.|...|...|+++..+||.++..+|..++..|.. +.+. +|++|..
T Consensus 429 ~~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~--g~i~-vlV~t~~ 505 (652)
T PRK05298 429 KGQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRL--GEFD-VLVGINL 505 (652)
T ss_pred cccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHc--CCce-EEEEeCH
Confidence 357778888888888899999999999999999999999999999999999999999999999986 4444 4899999
Q ss_pred ccCCCCCCCCCEEEEeCC-----CCCcchhhhHhHhhHhcCCCCceEEEEEecCCC
Q 004880 559 GGLGINLTAADTCILYDS-----DWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQS 609 (725)
Q Consensus 559 gg~GiNL~~a~~VI~~D~-----~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~T 609 (725)
+++|++++.++.||++|. |-++..++|++||++|- +.-.++.|++..|
T Consensus 506 L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~---~~G~~i~~~~~~~ 558 (652)
T PRK05298 506 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN---VNGKVILYADKIT 558 (652)
T ss_pred HhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC---CCCEEEEEecCCC
Confidence 999999999999999996 46889999999999994 2445666776443
No 123
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.54 E-value=1.3e-12 Score=150.63 Aligned_cols=116 Identities=14% Similarity=0.175 Sum_probs=102.1
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEeccc
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRA 558 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~a 558 (725)
..|+..+.+.+..+...|..|||||++....+.|..+|...|+++..+++ .+.+|+..+..|....+ -++|+|..
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--KQHDREAEIVAEAGQKG---AVTIATNM 655 (1025)
T ss_pred HHHHHHHHHHHHHHhhCCCCEEEEeCcHHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCC---eEEEeccC
Confidence 45999999999998899999999999999999999999999999999998 56799999999986333 36999999
Q ss_pred ccCCCCCCCCC--------EEEEeCCCCCcchhhhHhHhhHhcCCCCce
Q 004880 559 GGLGINLTAAD--------TCILYDSDWNPQMDLQAMDRCHRIGQTKPV 599 (725)
Q Consensus 559 gg~GiNL~~a~--------~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V 599 (725)
+|+|+|+.-.. +||.++.|-+...|.|++||++|.|..-..
T Consensus 656 AGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpGsS 704 (1025)
T PRK12900 656 AGRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPGES 704 (1025)
T ss_pred cCCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCcce
Confidence 99999998333 348899999999999999999999976654
No 124
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.50 E-value=5.6e-14 Score=117.79 Aligned_cols=81 Identities=28% Similarity=0.548 Sum_probs=74.7
Q ss_pred HHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhh
Q 004880 511 IMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRC 590 (725)
Q Consensus 511 ~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~ 590 (725)
.+..+|...++.+..++|+++..+|..+++.|++++. .+|++|.++++|+|++.+++||+++++||+..+.|++||+
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 4677788889999999999999999999999997433 5799999999999999999999999999999999999999
Q ss_pred HhcC
Q 004880 591 HRIG 594 (725)
Q Consensus 591 ~RiG 594 (725)
+|.|
T Consensus 79 ~R~g 82 (82)
T smart00490 79 GRAG 82 (82)
T ss_pred ccCC
Confidence 9987
No 125
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.45 E-value=2.5e-12 Score=147.66 Aligned_cols=71 Identities=28% Similarity=0.455 Sum_probs=60.4
Q ss_pred CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEE-----eCCC---C---CcchhhhHhH
Q 004880 520 GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCIL-----YDSD---W---NPQMDLQAMD 588 (725)
Q Consensus 520 g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~-----~D~~---w---Np~~~~Qa~g 588 (725)
.+.++..|.+++-.+|...-+-|.+ +.++| ++||...+.|+||+ |++||+ |||. | .|....|+.|
T Consensus 607 pygfaIHhAGl~R~dR~~~EdLf~~--g~iqv-lvstatlawgvnlp-ahtViikgtqvy~pekg~w~elsp~dv~qmlg 682 (1674)
T KOG0951|consen 607 PYGFAIHHAGLNRKDRELVEDLFAD--GHIQV-LVSTATLAWGVNLP-AHTVIIKGTQVYDPEKGRWTELSPLDVMQMLG 682 (1674)
T ss_pred hccceeeccCCCcchHHHHHHHHhc--CceeE-EEeehhhhhhcCCC-cceEEecCccccCcccCccccCCHHHHHHHHh
Confidence 4568889999999999999999987 56666 99999999999999 456665 7775 4 6888999999
Q ss_pred hhHhcC
Q 004880 589 RCHRIG 594 (725)
Q Consensus 589 R~~RiG 594 (725)
|++|.+
T Consensus 683 ragrp~ 688 (1674)
T KOG0951|consen 683 RAGRPQ 688 (1674)
T ss_pred hcCCCc
Confidence 999975
No 126
>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=99.44 E-value=9.1e-13 Score=127.08 Aligned_cols=157 Identities=22% Similarity=0.299 Sum_probs=110.2
Q ss_pred cchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCC--ceEE
Q 004880 157 KSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPS--VSAI 233 (725)
Q Consensus 157 r~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~--~~v~ 233 (725)
.|+|.+++.-+.. +.+.++..++|+|||..++..+......+..+.++|++|.. ++.+-.+++.+++.. ..+.
T Consensus 1 t~~Q~~~~~~i~~----~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~ 76 (169)
T PF00270_consen 1 TPLQQEAIEAIIS----GKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTNVRVV 76 (169)
T ss_dssp -HHHHHHHHHHHT----TSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEE
T ss_pred CHHHHHHHHHHHc----CCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccccccccc
Confidence 3899999988874 78899999999999999886665555444556899999966 778888889888754 6777
Q ss_pred EEeCChhhH-HHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEccccccCCc--chHHHHHHhcC---
Q 004880 234 IYHGSKKER-DEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRLKNP--KCKLLKELKYI--- 306 (725)
Q Consensus 234 ~~~g~~~~r-~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~ikn~--~s~~~~~l~~l--- 306 (725)
.++|..... ...... ....+|+|+|++.+...... .+.-.+.++||+||+|.+... .......+..+
T Consensus 77 ~~~~~~~~~~~~~~~~------~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~ 150 (169)
T PF00270_consen 77 LLHGGQSISEDQREVL------SNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSDETFRAMLKSILRRLKRF 150 (169)
T ss_dssp EESTTSCHHHHHHHHH------HTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHHTTHHHHHHHHHHHSHTT
T ss_pred cccccccccccccccc------cccccccccCcchhhccccccccccccceeeccCcccccccccHHHHHHHHHHHhcCC
Confidence 777755422 211111 14679999999999877643 112234789999999998652 22333333333
Q ss_pred CCCcEEEEeccCCCCChH
Q 004880 307 PIGNKLLLTGTPLQNNLA 324 (725)
Q Consensus 307 ~~~~rllLTgTP~~n~~~ 324 (725)
+..+.+++||||- .++.
T Consensus 151 ~~~~~i~~SAT~~-~~~~ 167 (169)
T PF00270_consen 151 KNIQIILLSATLP-SNVE 167 (169)
T ss_dssp TTSEEEEEESSST-HHHH
T ss_pred CCCcEEEEeeCCC-hhHh
Confidence 4567899999996 4443
No 127
>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=99.44 E-value=1.8e-12 Score=129.20 Aligned_cols=156 Identities=24% Similarity=0.246 Sum_probs=110.2
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHH-HHHHHHHHhC--CCCCCcEEEEcCc-cHHHHHHHHHHhCC-
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQT-IAFLAHLKGN--GLHGPYLVIAPLS-TLSNWVNEISRFVP- 228 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qa-iali~~l~~~--~~~~~~LIV~P~s-ll~~W~~E~~~~~p- 228 (725)
..+++||.++++.+.. +.+.+++.++|.|||+.. +.++..+... ....+++||||.. ++.||...+..+..
T Consensus 20 ~~~~~~Q~~~~~~~~~----~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~ 95 (203)
T cd00268 20 EKPTPIQARAIPPLLS----GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKH 95 (203)
T ss_pred CCCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhcc
Confidence 4689999999988875 889999999999999885 4445555544 3455799999966 77889888888854
Q ss_pred -CceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHh-hhhcCccEEEEccccccCCcc--hHHHHHHh
Q 004880 229 -SVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKY-LRHYNWKYLVVDEGHRLKNPK--CKLLKELK 304 (725)
Q Consensus 229 -~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~-l~~~~~~~vIvDEaH~ikn~~--s~~~~~l~ 304 (725)
+..+..++|........... ....+|+|+|++.+...+... +.-..++++|+||+|.+.+.. ..+...+.
T Consensus 96 ~~~~~~~~~~~~~~~~~~~~~------~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~~~~~~~~~~~~~~ 169 (203)
T cd00268 96 TNLKVVVIYGGTSIDKQIRKL------KRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQIREILK 169 (203)
T ss_pred CCceEEEEECCCCHHHHHHHh------cCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHhhccChHHHHHHHHH
Confidence 56777788866554332221 146789999999886654321 222347899999999986543 22333344
Q ss_pred cCC-CCcEEEEeccCC
Q 004880 305 YIP-IGNKLLLTGTPL 319 (725)
Q Consensus 305 ~l~-~~~rllLTgTP~ 319 (725)
.+. ....+++||||-
T Consensus 170 ~l~~~~~~~~~SAT~~ 185 (203)
T cd00268 170 LLPKDRQTLLFSATMP 185 (203)
T ss_pred hCCcccEEEEEeccCC
Confidence 444 466799999985
No 128
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.43 E-value=4e-11 Score=138.11 Aligned_cols=120 Identities=13% Similarity=0.216 Sum_probs=97.4
Q ss_pred hhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecc
Q 004880 478 QCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTR 557 (725)
Q Consensus 478 ~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~ 557 (725)
...|+..+.+-+..+.+.|..|||-|.+...-+.|...|...|+++..++.... +.-.++|..- + ....+.|+|.
T Consensus 550 ~~~k~~ai~~ei~~~~~~grPvLigt~si~~se~ls~~L~~~gi~h~vLNak~~-~~Ea~iia~A--G--~~g~VTIATN 624 (970)
T PRK12899 550 EREKYHAIVAEIASIHRKGNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKNH-AQEAEIIAGA--G--KLGAVTVATN 624 (970)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCcceecccchh-hhHHHHHHhc--C--CCCcEEEeec
Confidence 347899999999999999999999999999999999999999999999988744 2223444432 2 2234799999
Q ss_pred cccCCCCCC--------CCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEE
Q 004880 558 AGGLGINLT--------AADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVY 602 (725)
Q Consensus 558 agg~GiNL~--------~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vy 602 (725)
.+|+|.|+. +.=+||.-..+-|...+.|..||++|.|..-....|
T Consensus 625 mAGRGTDIkl~~~v~~~GGLhVIgTer~es~Rid~Ql~GRagRQGdpGss~f~ 677 (970)
T PRK12899 625 MAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLGDPGAAKFF 677 (970)
T ss_pred cccCCcccccCchHHhcCCcEEEeeccCchHHHHHHHhcccccCCCCCceeEE
Confidence 999998875 334788889999999999999999999987664444
No 129
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.43 E-value=1.9e-10 Score=122.74 Aligned_cols=126 Identities=21% Similarity=0.269 Sum_probs=104.1
Q ss_pred HHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCC
Q 004880 489 LARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAA 568 (725)
Q Consensus 489 l~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a 568 (725)
+....+.+.|+||-+=...|.+-|.+||...|+++..+|.....-+|.++|.+.+.+ .+.| |+...-+-+|||++.+
T Consensus 439 I~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G--~~Dv-LVGINLLREGLDiPEV 515 (663)
T COG0556 439 IRKRVAKNERVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLG--EFDV-LVGINLLREGLDLPEV 515 (663)
T ss_pred HHHHHhcCCeEEEEeehHHHHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcC--CccE-EEeehhhhccCCCcce
Confidence 334456789999999999999999999999999999999999999999999999974 4444 8899999999999999
Q ss_pred CEEEEeCCCC-----CcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHH
Q 004880 569 DTCILYDSDW-----NPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRA 618 (725)
Q Consensus 569 ~~VI~~D~~w-----Np~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~ 618 (725)
+.|.++|.+- +-...+|-+|||.|--.- .|..|-=...+++...|-+..
T Consensus 516 sLVAIlDADKeGFLRse~SLIQtIGRAARN~~G-kvIlYAD~iT~sM~~Ai~ET~ 569 (663)
T COG0556 516 SLVAILDADKEGFLRSERSLIQTIGRAARNVNG-KVILYADKITDSMQKAIDETE 569 (663)
T ss_pred eEEEEeecCccccccccchHHHHHHHHhhccCC-eEEEEchhhhHHHHHHHHHHH
Confidence 9999999874 788899999999995322 255554445556666665543
No 130
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.43 E-value=4.3e-12 Score=149.14 Aligned_cols=354 Identities=19% Similarity=0.184 Sum_probs=211.3
Q ss_pred ccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC--CCCCcEEEEcCcc-HHHHHHHHHHhC
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG--LHGPYLVIAPLST-LSNWVNEISRFV 227 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~--~~~~~LIV~P~sl-l~~W~~E~~~~~ 227 (725)
..+...+++|..++++.......+..++|-++||.|||..++.++.+....+ ...+++.+.|..+ +....+.+..++
T Consensus 191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~ 270 (733)
T COG1203 191 FIEHEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIF 270 (733)
T ss_pred ccCchhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhh
Confidence 3345668999999999998766665789999999999999998887777653 4567888888664 456777788776
Q ss_pred CCceEEE--EeCChhhHHHHHHhc---C-----CCCCCCCCCEEEecHHHHHHH-HH----HhhhhcCccEEEEcccccc
Q 004880 228 PSVSAII--YHGSKKERDEIRRKH---M-----PRAIGPKFPIVVTSYEVALSD-AR----KYLRHYNWKYLVVDEGHRL 292 (725)
Q Consensus 228 p~~~v~~--~~g~~~~r~~~~~~~---~-----~~~~~~~~~vvItsye~~~~~-~~----~~l~~~~~~~vIvDEaH~i 292 (725)
....+.. +||+........... . ......-+.+.+++....... .. .++..+...++|+||+|.+
T Consensus 271 ~~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h~~ 350 (733)
T COG1203 271 GLFSVIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLY 350 (733)
T ss_pred cccccccccccccccchhhhccccccceeEEecccccceeccccccCHhHhhhhhccccchHHHHHHHhhchhhccHHhh
Confidence 5444433 366554432211110 0 000011223333333332221 00 1133445678999999998
Q ss_pred CCc-c-hHHHHHHhcC--CCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHH
Q 004880 293 KNP-K-CKLLKELKYI--PIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRR 368 (725)
Q Consensus 293 kn~-~-s~~~~~l~~l--~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~ 368 (725)
-.. . ..+...+..+ .....|++|||+- . .|.+.+.
T Consensus 351 ~~~~~~~~l~~~i~~l~~~g~~ill~SATlP----------------~------~~~~~l~------------------- 389 (733)
T COG1203 351 ADETMLAALLALLEALAEAGVPVLLMSATLP----------------P------FLKEKLK------------------- 389 (733)
T ss_pred cccchHHHHHHHHHHHHhCCCCEEEEecCCC----------------H------HHHHHHH-------------------
Confidence 755 2 2333333333 3677899999961 1 1111110
Q ss_pred HHHHHHHHHhhhhhhhheehhhHh--hcCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCCcchhHHHHHH
Q 004880 369 GQMVAKLHAILRPFLLRRMKSDVE--QMLPRKKEIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGRGMKGKLNNLM 446 (725)
Q Consensus 369 ~~~~~~L~~~l~p~~lRR~k~dv~--~~lP~k~e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l 446 (725)
..+... . .... ...|...+
T Consensus 390 --------~~~~~~----~-~~~~~~~~~~~~~e---------------------------------------------- 410 (733)
T COG1203 390 --------KALGKG----R-EVVENAKFCPKEDE---------------------------------------------- 410 (733)
T ss_pred --------HHHhcc----c-ceeccccccccccc----------------------------------------------
Confidence 000000 0 0000 00000000
Q ss_pred HHHHHhcCChhhhhhhccCCCCCCchHHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEE
Q 004880 447 VQLRKNCNHPDLLESAFSDSCFYPPVEQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRI 526 (725)
Q Consensus 447 ~~Lr~~~~hp~l~~~~~~~~~~~~~~~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l 526 (725)
|.+......+ +...+. ..+......-...|.+|+|-++....+..+...|+..+.+++.+
T Consensus 411 ---------~~~~~~~~~~----------~~~~~~-~~~~~~~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v~Ll 470 (733)
T COG1203 411 ---------PGLKRKERVD----------VEDGPQ-EELIELISEEVKEGKKVLVIVNTVDRAIELYEKLKEKGPKVLLL 470 (733)
T ss_pred ---------cccccccchh----------hhhhhh-HhhhhcchhhhccCCcEEEEEecHHHHHHHHHHHHhcCCCEEEE
Confidence 0000000000 000000 11222333344678999999999999999999999887789999
Q ss_pred eCCCCHHHHHHHHHHHhCC--CCCceEEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcC--CCCceEEE
Q 004880 527 DGSVRLDERKRQIQDFNDV--NSSYRIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIG--QTKPVHVY 602 (725)
Q Consensus 527 ~G~~~~~~R~~~i~~F~~~--~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiG--Q~k~V~Vy 602 (725)
||.....+|.+.++...+- .... .++|+|.+...|+|+. .|.+|- |+ --....+||.|||+|.| ....+.||
T Consensus 471 HSRf~~~dR~~ke~~l~~~~~~~~~-~IvVaTQVIEagvDid-fd~mIT-e~-aPidSLIQR~GRv~R~g~~~~~~~~v~ 546 (733)
T COG1203 471 HSRFTLKDREEKERELKKLFKQNEG-FIVVATQVIEAGVDID-FDVLIT-EL-APIDSLIQRAGRVNRHGKKENGKIYVY 546 (733)
T ss_pred ecccchhhHHHHHHHHHHHHhccCC-eEEEEeeEEEEEeccc-cCeeee-cC-CCHHHHHHHHHHHhhcccccCCceeEe
Confidence 9999999999998865421 1222 3699999999999988 666653 22 12356789999999999 45558888
Q ss_pred EEecCCCHHHHHHHHHHHHHHHHHHH
Q 004880 603 RLATAQSVEGRILKRAFSKLKLEHVV 628 (725)
Q Consensus 603 rli~~~TiEe~i~~~~~~K~~l~~~v 628 (725)
..........+.++....+..-....
T Consensus 547 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 572 (733)
T COG1203 547 NDEERGPYLKYSYEKLEKKLKSLEEL 572 (733)
T ss_pred ecccCCCchhhhhhcchhhhcccccc
Confidence 88888888888877776665544433
No 131
>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=99.40 E-value=9.4e-12 Score=129.35 Aligned_cols=219 Identities=21% Similarity=0.244 Sum_probs=136.5
Q ss_pred EEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhhhcCC---------cchhHHHHHHHHHHHhcCChhhhhhhccCC--CC
Q 004880 400 EIILYATMTEHQRNFQDHLINKTLENHLREKVFSAGR---------GMKGKLNNLMVQLRKNCNHPDLLESAFSDS--CF 468 (725)
Q Consensus 400 e~~v~~~ls~~q~~~y~~l~~~~~~~~~~~~~~~~~~---------~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~--~~ 468 (725)
++.+.++|+..|+++|+.++.......+..-...... .....+..++.+|+.+|+||+|+...+.+. ..
T Consensus 5 ~y~lP~pmt~~QKdl~e~iislh~~~il~~~~~~~~~~~i~~~~~~~~~~~~~~~~~nl~~V~~HP~LlvdH~mPk~ll~ 84 (297)
T PF11496_consen 5 EYYLPTPMTSFQKDLYEQIISLHYSDILKFCETNDSSESIDSLLDESLVQSMELLIENLRLVANHPSLLVDHYMPKQLLL 84 (297)
T ss_dssp EEEEEE---HHHHHHHHHHHHHTHHHHHHHHHSTTT--HHHH-------HHHHHHHHHHHHHHH-GGGT--TT--S-S-S
T ss_pred eEEEecCccHHHHHHHHHHHHHHHHHHHHHHcccCccccccchhhhhhHHHHHHHHHHHHHhccCccccccccCcccccc
Confidence 5678899999999999999876554443322111111 122566778889999999999987766443 23
Q ss_pred CCchHHHHHhhcHHHHHHHHHHHH-----hhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHH----
Q 004880 469 YPPVEQIVEQCGKFRLLDRLLARL-----FARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQI---- 539 (725)
Q Consensus 469 ~~~~~~l~~~s~K~~~L~~ll~~l-----~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i---- 539 (725)
..+.+.+...|||+.+|.+++..+ ...+.+++|.|+...++|+|+.+|..+++.|-|++|.....+....-
T Consensus 85 ~e~~~~~~~tS~KF~~L~~Li~~li~~~~~~~~~~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~~l~~~~~~~~~~~~ 164 (297)
T PF11496_consen 85 SEPAEWLAYTSGKFQFLNDLIDSLIDRDRREYPLHILIVSRSGKELDLLEGLLLGKKLNYKRYSGESLYDEKHKVPKNGN 164 (297)
T ss_dssp TTHHHHHHHT-HHHHHHHHHHHHH-----TTSSEEEEEEE-STHHHHHHHHHHTTSSSEEEESSS--S--S---S-----
T ss_pred chHHHHHHHcCchHHHHHHHHHHHHhhhcccCCceEEEEecCccHHHHHHHHHccCCeeEEecCCCCCcCccccCCcccc
Confidence 456778899999999999999999 67788999999999999999999999999999999976654433322
Q ss_pred --------HHH-hCCCCCceEEEEecccccCC----CCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEec
Q 004880 540 --------QDF-NDVNSSYRIFLLSTRAGGLG----INLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLAT 606 (725)
Q Consensus 540 --------~~F-~~~~~~~~v~Llst~agg~G----iNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~ 606 (725)
... ..+...+.|+|++|+-.... ++-...|.||-||+.+++....-..-|...-.+ +.+-|+||+.
T Consensus 165 ~~~~~~~~~~~~~~~~~~~~i~L~ts~~l~~~~~~~~~~~~~d~IIsfD~~~d~~~p~i~~lR~~~~~~-~~~PiirLv~ 243 (297)
T PF11496_consen 165 TESNSSNNSKKKDKGSLSVWIHLITSDQLYNNKPPLLSNYNFDLIISFDPSFDTSLPSIEQLRTQNRRN-RLCPIIRLVP 243 (297)
T ss_dssp -----------------SEEEEEEESS---TTTS--TT-S-EEEEEE-SST--TTSHHHHHHH--------S--EEEEEE
T ss_pred cccccccccccccccccceEEEEecCccccccCCCccccCCcCEEEEecCCCCCCChHHHHHHhhcCCC-CCCcEEEEee
Confidence 111 11234667778877755442 334577999999999999886544444443333 8899999999
Q ss_pred CCCHHHHHHHHHH
Q 004880 607 AQSVEGRILKRAF 619 (725)
Q Consensus 607 ~~TiEe~i~~~~~ 619 (725)
.+|+|-.++..-.
T Consensus 244 ~nSiEHi~L~~~~ 256 (297)
T PF11496_consen 244 SNSIEHIELCFPK 256 (297)
T ss_dssp TTSHHHHHHHHTT
T ss_pred CCCHHHHHHHccC
Confidence 9999998876554
No 132
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.38 E-value=4.4e-11 Score=134.46 Aligned_cols=404 Identities=15% Similarity=0.123 Sum_probs=219.1
Q ss_pred ccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHH----HHHHHHHHh
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLS----NWVNEISRF 226 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~----~W~~E~~~~ 226 (725)
..|-..++-|+-|...|+ .|-|.=+.||-|||+++...+...... ...+-||+|+..|. +|...+-+|
T Consensus 74 ~lg~r~ydvQlig~l~Ll------~G~VaEM~TGEGKTLvA~l~a~l~AL~--G~~VhvvT~NdyLA~RDae~m~~ly~~ 145 (764)
T PRK12326 74 TLGLRPFDVQLLGALRLL------AGDVIEMATGEGKTLAGAIAAAGYALQ--GRRVHVITVNDYLARRDAEWMGPLYEA 145 (764)
T ss_pred HcCCCcchHHHHHHHHHh------CCCcccccCCCCHHHHHHHHHHHHHHc--CCCeEEEcCCHHHHHHHHHHHHHHHHh
Confidence 456788899999887775 355777899999999987555433333 25789999988773 488888777
Q ss_pred CCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHH-----HHHH---HHhhhhcCccEEEEccccccCCcchH
Q 004880 227 VPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVA-----LSDA---RKYLRHYNWKYLVVDEGHRLKNPKCK 298 (725)
Q Consensus 227 ~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~-----~~~~---~~~l~~~~~~~vIvDEaH~ikn~~s~ 298 (725)
+ ++.+.+..+....... +.. -.++|+.+|-.-+ +..+ ......-++.+.||||+..+.=.
T Consensus 146 L-GLsvg~i~~~~~~~er--r~a------Y~~DItYgTn~e~gFDyLRDnm~~~~~~~v~R~~~faIVDEvDSiLID--- 213 (764)
T PRK12326 146 L-GLTVGWITEESTPEER--RAA------YACDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEADSVLVD--- 213 (764)
T ss_pred c-CCEEEEECCCCCHHHH--HHH------HcCCCEEcCCcccccccchhhhccChHhhcCCccceeeecchhhheec---
Confidence 7 6777777665443321 111 1456776664432 2211 01122345889999999976421
Q ss_pred HHHHHhcCCCCcEEEEeccCC-CCChHHhhhhhccccCCC-CC----------C---HHHHHHHhcccCCCchhhhHHHH
Q 004880 299 LLKELKYIPIGNKLLLTGTPL-QNNLAELWSLLHFILPDI-FS----------S---LEEFQSWFDLSGKCNSEVMKEEL 363 (725)
Q Consensus 299 ~~~~l~~l~~~~rllLTgTP~-~n~~~el~sll~~l~p~~-~~----------~---~~~F~~~~~~~~~~~~~~~~~~~ 363 (725)
.++.-+++||.+- ++....++.+..-|.++. |. + .......+........
T Consensus 214 --------eArtPLiISg~~~~~~~y~~~~~~v~~L~~~~dy~ide~~k~v~LTe~G~~~~e~~l~~~~ly~~------- 278 (764)
T PRK12326 214 --------EALVPLVLAGSTPGEAPRGEIAELVRRLREGKDYEIDDDGRNVHLTDKGARKVEKALGGIDLYSE------- 278 (764)
T ss_pred --------cccCceeeeCCCcchhHHHHHHHHHHhcCcCCcEEEEcCCCeeEecHHHHHHHHHHcCCccccCc-------
Confidence 1345577877543 333334444444443321 10 0 0011111111000000
Q ss_pred HHHHHHHHHHHHHHhhhh-hhhheehhhHhhcCCCceEEEEEecCCH-------HHHHHHHHHHHH--------------
Q 004880 364 EEKRRGQMVAKLHAILRP-FLLRRMKSDVEQMLPRKKEIILYATMTE-------HQRNFQDHLINK-------------- 421 (725)
Q Consensus 364 ~~~~~~~~~~~L~~~l~p-~~lRR~k~dv~~~lP~k~e~~v~~~ls~-------~q~~~y~~l~~~-------------- 421 (725)
......+..+...|+. +++.|-+.-+.. ..+.++.-+.|. ++.-+.+.+-.+
T Consensus 279 --~~~~~~~~~i~~AL~A~~l~~~d~dYiV~----dgeV~iVDe~TGRvm~grrwsdGLHQaIEaKE~v~i~~e~~t~As 352 (764)
T PRK12326 279 --EHVGTTLTQVNVALHAHALLQRDVHYIVR----DGKVHLINASRGRIAQLQRWPDGLQAAVEAKEGLETTETGEVLDT 352 (764)
T ss_pred --chhHHHHHHHHHHHHHHHHHhcCCcEEEE----CCEEEEEECCCCCcCCCCccChHHHHHHHHHcCCCCCCCceeeeh
Confidence 0000111222222222 223332221111 111111111111 111111111100
Q ss_pred -HHHHHHHHhhhhcCCcchhHHHHHHHHHHHhcCChhhhhhhccCCCCC-CchHHHHHhhcHHHHHHHHHHHHhhCCCcE
Q 004880 422 -TLENHLREKVFSAGRGMKGKLNNLMVQLRKNCNHPDLLESAFSDSCFY-PPVEQIVEQCGKFRLLDRLLARLFARNHKV 499 (725)
Q Consensus 422 -~~~~~~~~~~~~~~~~~~~~l~~~l~~Lr~~~~hp~l~~~~~~~~~~~-~~~~~l~~~s~K~~~L~~ll~~l~~~~~kv 499 (725)
+...+++. +..-.++.++.......++++.+-+...-.+..+.... .+..-......|+..+.+-+..+.+.|..|
T Consensus 353 IT~QnfFr~--Y~kLsGMTGTa~t~~~Ef~~iY~l~Vv~IPtnkp~~R~d~~d~iy~t~~~k~~Aii~ei~~~~~~GrPV 430 (764)
T PRK12326 353 ITVQALIGR--YPTVCGMTGTAVAAGEQLRQFYDLGVSVIPPNKPNIREDEADRVYATAAEKNDAIVEHIAEVHETGQPV 430 (764)
T ss_pred hhHHHHHHh--cchheeecCCChhHHHHHHHHhCCcEEECCCCCCceeecCCCceEeCHHHHHHHHHHHHHHHHHcCCCE
Confidence 00000000 00011122222233345555555443322221111000 011112233468999999999999999999
Q ss_pred EEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCC-------------
Q 004880 500 LVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLT------------- 566 (725)
Q Consensus 500 lIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~------------- 566 (725)
||.+.+....+.|...|...|+++..++.... +.-.++|.+- +....+-|+|..+|+|.|+.
T Consensus 431 LVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~-~~EA~IIa~A----G~~gaVTIATNMAGRGTDIkLg~~~~~~~~~V~ 505 (764)
T PRK12326 431 LVGTHDVAESEELAERLRAAGVPAVVLNAKND-AEEARIIAEA----GKYGAVTVSTQMAGRGTDIRLGGSDEADRDRVA 505 (764)
T ss_pred EEEeCCHHHHHHHHHHHHhCCCcceeeccCch-HhHHHHHHhc----CCCCcEEEEecCCCCccCeecCCCcccchHHHH
Confidence 99999999999999999999999999998744 3334555442 22234799999999998875
Q ss_pred --CCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEE
Q 004880 567 --AADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVY 602 (725)
Q Consensus 567 --~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vy 602 (725)
+.=+||.-..+-|-..+.|..||++|.|..-....|
T Consensus 506 ~~GGLhVIgTerheSrRID~QLrGRaGRQGDpGss~f~ 543 (764)
T PRK12326 506 ELGGLHVIGTGRHRSERLDNQLRGRAGRQGDPGSSVFF 543 (764)
T ss_pred HcCCcEEEeccCCchHHHHHHHhcccccCCCCCceeEE
Confidence 344888899999999999999999999987665444
No 133
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=99.29 E-value=2e-10 Score=129.37 Aligned_cols=155 Identities=20% Similarity=0.281 Sum_probs=109.2
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHH-HHHHHHHhCCCce
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSN-WVNEISRFVPSVS 231 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~-W~~E~~~~~p~~~ 231 (725)
+..|-++|++++-.|.. |...++|.-|-.|||++|=..++-...+ ..+.+.-+|-..++| =.++|+.-|.+..
T Consensus 295 pFelD~FQk~Ai~~ler----g~SVFVAAHTSAGKTvVAEYAialaq~h--~TR~iYTSPIKALSNQKfRDFk~tF~Dvg 368 (1248)
T KOG0947|consen 295 PFELDTFQKEAIYHLER----GDSVFVAAHTSAGKTVVAEYAIALAQKH--MTRTIYTSPIKALSNQKFRDFKETFGDVG 368 (1248)
T ss_pred CCCccHHHHHHHHHHHc----CCeEEEEecCCCCcchHHHHHHHHHHhh--ccceEecchhhhhccchHHHHHHhccccc
Confidence 45788999999977754 8899999999999999975444433232 246788889777766 4577877775554
Q ss_pred EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH---HhhhhcCccEEEEccccccCCcc-hHHHHHHhcCC
Q 004880 232 AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR---KYLRHYNWKYLVVDEGHRLKNPK-CKLLKELKYIP 307 (725)
Q Consensus 232 v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~---~~l~~~~~~~vIvDEaH~ikn~~-s~~~~~l~~l~ 307 (725)
+++|.-. ..+...++|+|-+++++.+- ..++. ...||+||.|++.+.. .-.|..+--+-
T Consensus 369 --LlTGDvq-------------inPeAsCLIMTTEILRsMLYrgadliRD--vE~VIFDEVHYiND~eRGvVWEEViIMl 431 (1248)
T KOG0947|consen 369 --LLTGDVQ-------------INPEASCLIMTTEILRSMLYRGADLIRD--VEFVIFDEVHYINDVERGVVWEEVIIML 431 (1248)
T ss_pred --eeeccee-------------eCCCcceEeehHHHHHHHHhcccchhhc--cceEEEeeeeecccccccccceeeeeec
Confidence 6666542 33677899999999887651 23443 5789999999998643 34555555443
Q ss_pred C--CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcc
Q 004880 308 I--GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDL 350 (725)
Q Consensus 308 ~--~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~ 350 (725)
. ...|+||||- ++..+|..|...
T Consensus 432 P~HV~~IlLSATV--------------------PN~~EFA~WIGR 456 (1248)
T KOG0947|consen 432 PRHVNFILLSATV--------------------PNTLEFADWIGR 456 (1248)
T ss_pred cccceEEEEeccC--------------------CChHHHHHHhhh
Confidence 3 3459999993 344578888754
No 134
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.23 E-value=1.2e-10 Score=113.08 Aligned_cols=128 Identities=22% Similarity=0.222 Sum_probs=86.5
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHH-HHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHH---HHHhCCC
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQ-TIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNE---ISRFVPS 229 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~q-aiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E---~~~~~p~ 229 (725)
.....|.+++...+- |...+.-.-.|+|||.. +++.+..+-.....-.+||+|-.. +..|..+| |.++.|+
T Consensus 64 hpsevqhecipqail----gmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rfskymP~ 139 (387)
T KOG0329|consen 64 HPSEVQHECIPQAIL----GMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERFSKYMPS 139 (387)
T ss_pred CchHhhhhhhhHHhh----cchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHHHHHHHHHhhCCC
Confidence 455688888876664 67777888899999966 455555544433334678999876 34555555 4556899
Q ss_pred ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hhhhcCccEEEEcccccc
Q 004880 230 VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YLRHYNWKYLVVDEGHRL 292 (725)
Q Consensus 230 ~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l~~~~~~~vIvDEaH~i 292 (725)
.++.++.|....+...... ..-.+|+|.|++.+..-.++ .|.-.+....|+||+..+
T Consensus 140 vkvaVFfGG~~Ikkdee~l------k~~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkm 197 (387)
T KOG0329|consen 140 VKVSVFFGGLFIKKDEELL------KNCPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKM 197 (387)
T ss_pred ceEEEEEcceeccccHHHH------hCCCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHHH
Confidence 9999999876543221111 12568999999998766543 344445678999999865
No 135
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.22 E-value=9.9e-10 Score=126.70 Aligned_cols=122 Identities=16% Similarity=0.178 Sum_probs=99.3
Q ss_pred HhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 477 EQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 477 ~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
....|+..+.+-+..+.+.|..|||-+.+....+.|..+|...|+++-.++.... +.-.++|.+ .+.++ .+-|+|
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 3456999999999999999999999999999999999999999999988888644 233344442 32233 479999
Q ss_pred ccccCCCCCC-------------------------------------CCCEEEEeCCCCCcchhhhHhHhhHhcCCCCce
Q 004880 557 RAGGLGINLT-------------------------------------AADTCILYDSDWNPQMDLQAMDRCHRIGQTKPV 599 (725)
Q Consensus 557 ~agg~GiNL~-------------------------------------~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V 599 (725)
..+|+|-|+. +.=+||--..+-|-..+.|..||++|.|..-..
T Consensus 505 NMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLrGRaGRQGDPGsS 584 (913)
T PRK13103 505 NMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLRGRAGRQGDPGSS 584 (913)
T ss_pred cCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHHHHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCce
Confidence 9999999884 344788899999999999999999999987765
Q ss_pred EEEE
Q 004880 600 HVYR 603 (725)
Q Consensus 600 ~Vyr 603 (725)
..|-
T Consensus 585 ~f~l 588 (913)
T PRK13103 585 RFYL 588 (913)
T ss_pred EEEE
Confidence 5543
No 136
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=99.20 E-value=2.7e-09 Score=121.91 Aligned_cols=122 Identities=12% Similarity=0.168 Sum_probs=99.9
Q ss_pred HhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 477 EQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 477 ~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
....|+..+.+-+..+.+.|..|||.|.+....+.|..+|...|+++..++.... +++..|=. +.+ ....+.|+|
T Consensus 407 t~~~K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~--e~EA~IIa-~AG--~~GaVTIAT 481 (925)
T PRK12903 407 TKHAKWKAVVKEVKRVHKKGQPILIGTAQVEDSETLHELLLEANIPHTVLNAKQN--AREAEIIA-KAG--QKGAITIAT 481 (925)
T ss_pred cHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCceeecccch--hhHHHHHH-hCC--CCCeEEEec
Confidence 3457899999999999899999999999999999999999999999999998644 44443332 333 233479999
Q ss_pred ccccCCCCCCCCC--------EEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEE
Q 004880 557 RAGGLGINLTAAD--------TCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYR 603 (725)
Q Consensus 557 ~agg~GiNL~~a~--------~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyr 603 (725)
..+|+|.|+.-.. +||....+-|-..+.|..||++|.|..-....|-
T Consensus 482 NMAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRaGRQGDpGss~f~l 536 (925)
T PRK12903 482 NMAGRGTDIKLSKEVLELGGLYVLGTDKAESRRIDNQLRGRSGRQGDVGESRFFI 536 (925)
T ss_pred ccccCCcCccCchhHHHcCCcEEEecccCchHHHHHHHhcccccCCCCCcceEEE
Confidence 9999999986433 8999999999999999999999999877655443
No 137
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.15 E-value=2.1e-09 Score=125.86 Aligned_cols=159 Identities=19% Similarity=0.260 Sum_probs=110.9
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH-HHHHHHHHHhCCCc
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL-SNWVNEISRFVPSV 230 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll-~~W~~E~~~~~p~~ 230 (725)
.+..|-|+|.+++.-+- .+.+.+++..||+|||+.+-.+++.-...+. ++...+|.-.+ .|=.++|..-+..+
T Consensus 116 ~~F~LD~fQ~~a~~~Le----r~esVlV~ApTssGKTvVaeyAi~~al~~~q--rviYTsPIKALsNQKyrdl~~~fgdv 189 (1041)
T COG4581 116 YPFELDPFQQEAIAILE----RGESVLVCAPTSSGKTVVAEYAIALALRDGQ--RVIYTSPIKALSNQKYRDLLAKFGDV 189 (1041)
T ss_pred CCCCcCHHHHHHHHHHh----CCCcEEEEccCCCCcchHHHHHHHHHHHcCC--ceEeccchhhhhhhHHHHHHHHhhhh
Confidence 46799999999987775 4899999999999999999877776666543 48999995544 55556665555322
Q ss_pred --eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHh-hhhcCccEEEEccccccCCcc-hHHHHHHh-c
Q 004880 231 --SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKY-LRHYNWKYLVVDEGHRLKNPK-CKLLKELK-Y 305 (725)
Q Consensus 231 --~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~-l~~~~~~~vIvDEaH~ikn~~-s~~~~~l~-~ 305 (725)
-+.+++|+. ...++.+|+|+|-+++++.+..- ..-.....||+||.|.+.... .-.+..+- .
T Consensus 190 ~~~vGL~TGDv-------------~IN~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D~eRG~VWEE~Ii~ 256 (1041)
T COG4581 190 ADMVGLMTGDV-------------SINPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDRERGVVWEEVIIL 256 (1041)
T ss_pred hhhccceecce-------------eeCCCCceEEeeHHHHHHHhccCcccccccceEEEEeeeeccccccchhHHHHHHh
Confidence 234555544 23467889999999887664211 112245789999999998544 33444433 3
Q ss_pred CCC-CcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhc
Q 004880 306 IPI-GNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFD 349 (725)
Q Consensus 306 l~~-~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~ 349 (725)
++. -+.++|||| .++..+|..|+.
T Consensus 257 lP~~v~~v~LSAT--------------------v~N~~EF~~Wi~ 281 (1041)
T COG4581 257 LPDHVRFVFLSAT--------------------VPNAEEFAEWIQ 281 (1041)
T ss_pred cCCCCcEEEEeCC--------------------CCCHHHHHHHHH
Confidence 333 377999999 356678999985
No 138
>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=99.13 E-value=5.7e-09 Score=125.50 Aligned_cols=85 Identities=15% Similarity=0.222 Sum_probs=61.5
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCcc-HHHHHH-HH---HHh
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLST-LSNWVN-EI---SRF 226 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sl-l~~W~~-E~---~~~ 226 (725)
.+...||+|.+.+..+...+.++..+++-.+||+|||+..+.-+..... ...+++|.||+.. ..||.. ++ .+.
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~--~~~~vvi~t~t~~Lq~Ql~~~~~~~l~~~ 319 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI--TEKPVVISTNTKVLQSQLLEKDIPLLNEI 319 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc--CCCeEEEEeCcHHHHHHHHHHHHHHHHHH
Confidence 4567999999999988888888888899999999999997665544333 3458999999764 567654 44 444
Q ss_pred CC-CceEEEEeCC
Q 004880 227 VP-SVSAIIYHGS 238 (725)
Q Consensus 227 ~p-~~~v~~~~g~ 238 (725)
++ .+++.+..|.
T Consensus 320 ~~~~~~~~~~kG~ 332 (850)
T TIGR01407 320 LNFKINAALIKGK 332 (850)
T ss_pred cCCCceEEEEEcc
Confidence 43 3566655554
No 139
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.05 E-value=2.9e-08 Score=113.68 Aligned_cols=134 Identities=22% Similarity=0.303 Sum_probs=96.2
Q ss_pred hcccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHH
Q 004880 147 LVSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISR 225 (725)
Q Consensus 147 ~~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~ 225 (725)
+.....|..+...|.--+..+.. |..--+..+||+|||.-.+....++...| ++++||.|+. ++.|-.+-+.+
T Consensus 74 fF~k~~G~~~ws~QR~WakR~~r----g~SFaiiAPTGvGKTTfg~~~sl~~a~kg--kr~yii~PT~~Lv~Q~~~kl~~ 147 (1187)
T COG1110 74 FFKKATGFRPWSAQRVWAKRLVR----GKSFAIIAPTGVGKTTFGLLMSLYLAKKG--KRVYIIVPTTTLVRQVYERLKK 147 (1187)
T ss_pred HHHHhhCCCchHHHHHHHHHHHc----CCceEEEcCCCCchhHHHHHHHHHHHhcC--CeEEEEecCHHHHHHHHHHHHH
Confidence 34455677999999865554443 55555556899999977766666665555 7999999987 55777788888
Q ss_pred hCC-----CceEEEEeCCh--hhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEcccccc
Q 004880 226 FVP-----SVSAIIYHGSK--KERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRL 292 (725)
Q Consensus 226 ~~p-----~~~v~~~~g~~--~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~i 292 (725)
+.+ ...++ ||+.- .++..... +...++|+|+|||-..+.+.+ ..|.+++|++|+||.++.+
T Consensus 148 ~~e~~~~~~~~~~-yh~~l~~~ekee~le----~i~~gdfdIlitTs~FL~k~~-e~L~~~kFdfifVDDVDA~ 215 (1187)
T COG1110 148 FAEDAGSLDVLVV-YHSALPTKEKEEALE----RIESGDFDILITTSQFLSKRF-EELSKLKFDFIFVDDVDAI 215 (1187)
T ss_pred HHhhcCCcceeee-eccccchHHHHHHHH----HHhcCCccEEEEeHHHHHhhH-HHhcccCCCEEEEccHHHH
Confidence 863 33344 89873 33322222 223468999999999999887 6677799999999999875
No 140
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=99.05 E-value=9.7e-10 Score=113.91 Aligned_cols=96 Identities=22% Similarity=0.338 Sum_probs=87.1
Q ss_pred CCCcEEEEccchhHHHHHHHHHhhc---CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEE
Q 004880 495 RNHKVLVFSQWTKILDIMEYYFNEK---GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTC 571 (725)
Q Consensus 495 ~~~kvlIFsq~~~~ld~l~~~L~~~---g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~V 571 (725)
.-+|.||||....-.|-|++++..+ .+.++.++|.-.+.+|.+.++.|...+-. |||+|+++++||++++.-.+
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 3578999999999999999999987 46889999999999999999999974433 79999999999999999999
Q ss_pred EEeCCCCCcchhhhHhHhhHhc
Q 004880 572 ILYDSDWNPQMDLQAMDRCHRI 593 (725)
Q Consensus 572 I~~D~~wNp~~~~Qa~gR~~Ri 593 (725)
|...+|-.-+.|.+||||++|.
T Consensus 581 invtlpd~k~nyvhrigrvgra 602 (725)
T KOG0349|consen 581 INVTLPDDKTNYVHRIGRVGRA 602 (725)
T ss_pred EEEecCcccchhhhhhhccchh
Confidence 9999999999999999988874
No 141
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=99.03 E-value=1.6e-08 Score=103.33 Aligned_cols=237 Identities=19% Similarity=0.187 Sum_probs=143.9
Q ss_pred ccCCcccchHHHHHHHHHHHhcC------CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHH
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQN------GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEIS 224 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~------~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~ 224 (725)
...+.|-+-|+++|-+....++. +.+-+|+|.+|.||..|+.++|.+-..+|..+++.|-+...|...-.+.+.
T Consensus 33 ~~~g~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~r~vwvS~s~dL~~Da~RDl~ 112 (303)
T PF13872_consen 33 IDSGLLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGRKRAVWVSVSNDLKYDAERDLR 112 (303)
T ss_pred HhcccccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCCCceEEEECChhhhhHHHHHHH
Confidence 45678999999999999876653 556699999999999999999988888877666666666667766666676
Q ss_pred HhCCC-ceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH------Hhhhh-c-----Cc-cEEEEcccc
Q 004880 225 RFVPS-VSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR------KYLRH-Y-----NW-KYLVVDEGH 290 (725)
Q Consensus 225 ~~~p~-~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~------~~l~~-~-----~~-~~vIvDEaH 290 (725)
..... +.+.....-+ ......-+..|+.+||..+..... ..|.. . .| .+||+||||
T Consensus 113 DIG~~~i~v~~l~~~~----------~~~~~~~~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH 182 (303)
T PF13872_consen 113 DIGADNIPVHPLNKFK----------YGDIIRLKEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECH 182 (303)
T ss_pred HhCCCcccceechhhc----------cCcCCCCCCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccch
Confidence 55321 2222211110 001112355799999999887631 11211 1 22 389999999
Q ss_pred ccCCcch------HHHHHHh----cCCCCcEEEEeccCCCC--ChHHhhhhhccccC-CCCCCHHHHHHHhcccCCCchh
Q 004880 291 RLKNPKC------KLLKELK----YIPIGNKLLLTGTPLQN--NLAELWSLLHFILP-DIFSSLEEFQSWFDLSGKCNSE 357 (725)
Q Consensus 291 ~ikn~~s------~~~~~l~----~l~~~~rllLTgTP~~n--~~~el~sll~~l~p-~~~~~~~~F~~~~~~~~~~~~~ 357 (725)
..||..+ +...++. .++..+.+..|||...+ |+. +++-|.+-.+ ..|.+..+|..-+...+....+
T Consensus 183 ~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgasep~Nma-Ym~RLGLWG~gtpf~~~~~f~~a~~~gGv~amE 261 (303)
T PF13872_consen 183 KAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASEPRNMA-YMSRLGLWGPGTPFPDFDDFLEAMEKGGVGAME 261 (303)
T ss_pred hcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCCCceee-eeeeccccCCCCCCCCHHHHHHHHHhcCchHHH
Confidence 9998655 3444433 45667789999998743 332 1222221121 2356677776665433221111
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhhhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHH
Q 004880 358 VMKEELEEKRRGQMVAKLHAILRPFLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDH 417 (725)
Q Consensus 358 ~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~ 417 (725)
.. ..-.+ .+-..++|..+ +-.....++.+++|+.|..+|+.
T Consensus 262 ~v-------------A~dlK-a~G~yiaR~LS-----f~gvef~~~e~~l~~~~~~~Yd~ 302 (303)
T PF13872_consen 262 MV-------------AMDLK-ARGMYIARQLS-----FEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred HH-------------HHHHH-hcchheeeecc-----cCCceEEEEEecCCHHHHHHhcC
Confidence 11 00000 12234444432 33445678889999999999974
No 142
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=99.00 E-value=7.1e-09 Score=114.37 Aligned_cols=140 Identities=19% Similarity=0.282 Sum_probs=94.7
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHH-HHHHHHHhCCCCCCcEEEEcCccHHH-HHHHHHHhCCCce
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTI-AFLAHLKGNGLHGPYLVIAPLSTLSN-WVNEISRFVPSVS 231 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qai-ali~~l~~~~~~~~~LIV~P~sll~~-W~~E~~~~~p~~~ 231 (725)
.+|-|+|..++.-+ .++...++..-+..|||+.|- |++..|+.+ .+++.-.|-..++| =.+|+..-|. .
T Consensus 128 F~LDpFQ~~aI~Ci----dr~eSVLVSAHTSAGKTVVAeYAIA~sLr~k---QRVIYTSPIKALSNQKYREl~~EF~--D 198 (1041)
T KOG0948|consen 128 FTLDPFQSTAIKCI----DRGESVLVSAHTSAGKTVVAEYAIAMSLREK---QRVIYTSPIKALSNQKYRELLEEFK--D 198 (1041)
T ss_pred cccCchHhhhhhhh----cCCceEEEEeecCCCcchHHHHHHHHHHHhc---CeEEeeChhhhhcchhHHHHHHHhc--c
Confidence 47888888776544 678889999999999999974 555566665 47888899665655 4567655443 3
Q ss_pred EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH---HHhhhhcCccEEEEccccccCCcchH-HHHH-HhcC
Q 004880 232 AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA---RKYLRHYNWKYLVVDEGHRLKNPKCK-LLKE-LKYI 306 (725)
Q Consensus 232 v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~---~~~l~~~~~~~vIvDEaH~ikn~~s~-~~~~-l~~l 306 (725)
|.+.+|.- .+.+...++|+|-+++++.+ ...++.+. .||+||.|.++..... .|.. +--+
T Consensus 199 VGLMTGDV-------------TInP~ASCLVMTTEILRsMLYRGSEvmrEVa--WVIFDEIHYMRDkERGVVWEETIIll 263 (1041)
T KOG0948|consen 199 VGLMTGDV-------------TINPDASCLVMTTEILRSMLYRGSEVMREVA--WVIFDEIHYMRDKERGVVWEETIILL 263 (1041)
T ss_pred cceeecce-------------eeCCCCceeeeHHHHHHHHHhccchHhheee--eEEeeeehhccccccceeeeeeEEec
Confidence 44555543 13367789999999987764 13455554 4999999999865422 2222 1122
Q ss_pred -CCCcEEEEecc
Q 004880 307 -PIGNKLLLTGT 317 (725)
Q Consensus 307 -~~~~rllLTgT 317 (725)
...+-++||||
T Consensus 264 P~~vr~VFLSAT 275 (1041)
T KOG0948|consen 264 PDNVRFVFLSAT 275 (1041)
T ss_pred cccceEEEEecc
Confidence 34456899999
No 143
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.99 E-value=1e-07 Score=109.40 Aligned_cols=370 Identities=18% Similarity=0.182 Sum_probs=201.6
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc-CccHHHHHHHHHHhCCCceE
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP-LSTLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P-~sll~~W~~E~~~~~p~~~v 232 (725)
..|-+-|..++.-+..........+|.-.+|+|||-.-+.+++..+..| +-+||++| -++.+|....|+..|+ .++
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~G--kqvLvLVPEI~Ltpq~~~rf~~rFg-~~v 273 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQG--KQVLVLVPEIALTPQLLARFKARFG-AKV 273 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcC--CEEEEEeccccchHHHHHHHHHHhC-CCh
Confidence 4788899999999987542234468999999999999999999888876 68999999 5588998899988885 777
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEcccccc--CCcch------HHHHHHh
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRL--KNPKC------KLLKELK 304 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~i--kn~~s------~~~~~l~ 304 (725)
.++|..-....... .+.+...+...|||.|...+..- --+..+|||||=|-- |..+. .+.....
T Consensus 274 ~vlHS~Ls~~er~~--~W~~~~~G~~~vVIGtRSAlF~P------f~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra 345 (730)
T COG1198 274 AVLHSGLSPGERYR--VWRRARRGEARVVIGTRSALFLP------FKNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRA 345 (730)
T ss_pred hhhcccCChHHHHH--HHHHHhcCCceEEEEechhhcCc------hhhccEEEEeccccccccCCcCCCcCHHHHHHHHH
Confidence 78877543332211 11122336778999997754322 224589999999964 33221 1222222
Q ss_pred cCCCCcEEEEeccCCCCChHHhhhhhccccCCCCCCHHHHHHHhcccCCCchhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q 004880 305 YIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFSSLEEFQSWFDLSGKCNSEVMKEELEEKRRGQMVAKLHAILRPFLL 384 (725)
Q Consensus 305 ~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~l 384 (725)
+......++=||||- ++-++.. .... +.+
T Consensus 346 ~~~~~pvvLgSATPS---LES~~~~---~~g~---------------------------------------------y~~ 374 (730)
T COG1198 346 KKENAPVVLGSATPS---LESYANA---ESGK---------------------------------------------YKL 374 (730)
T ss_pred HHhCCCEEEecCCCC---HHHHHhh---hcCc---------------------------------------------eEE
Confidence 334556788999993 2222221 0000 000
Q ss_pred heehhhH-hhcCCCceEEEEEecCCHHHHHH----HHHHHHHHHHHHHHHhh----hhcCCcchhHHHHHHHHHHHhcCC
Q 004880 385 RRMKSDV-EQMLPRKKEIILYATMTEHQRNF----QDHLINKTLENHLREKV----FSAGRGMKGKLNNLMVQLRKNCNH 455 (725)
Q Consensus 385 RR~k~dv-~~~lP~k~e~~v~~~ls~~q~~~----y~~l~~~~~~~~~~~~~----~~~~~~~~~~l~~~l~~Lr~~~~h 455 (725)
-++..-. ...+|.... ++|....... -..++. .+...+..+. +...++-.. . -+.+.|.|
T Consensus 375 ~~L~~R~~~a~~p~v~i----iDmr~e~~~~~~~lS~~Ll~-~i~~~l~~geQ~llflnRRGys~-----~-l~C~~Cg~ 443 (730)
T COG1198 375 LRLTNRAGRARLPRVEI----IDMRKEPLETGRSLSPALLE-AIRKTLERGEQVLLFLNRRGYAP-----L-LLCRDCGY 443 (730)
T ss_pred EEccccccccCCCcceE----EeccccccccCccCCHHHHH-HHHHHHhcCCeEEEEEccCCccc-----e-eecccCCC
Confidence 0000000 111222211 1121111110 011111 1111111110 000000000 0 01122322
Q ss_pred hhhhhhhccCCCCCCch------HHHHHhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc--CceEEEEe
Q 004880 456 PDLLESAFSDSCFYPPV------EQIVEQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK--GYEVCRID 527 (725)
Q Consensus 456 p~l~~~~~~~~~~~~~~------~~l~~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~--g~~~~~l~ 527 (725)
.. . +..|..... .-.+..||.-.- +-..+-+-|...|+++-. -.+.+++.|... +.++.++|
T Consensus 444 v~--~---Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~---~p~~Cp~Cgs~~L~~~G~--GterieeeL~~~FP~~rv~r~d 513 (730)
T COG1198 444 IA--E---CPNCDSPLTLHKATGQLRCHYCGYQEP---IPQSCPECGSEHLRAVGP--GTERIEEELKRLFPGARIIRID 513 (730)
T ss_pred cc--c---CCCCCcceEEecCCCeeEeCCCCCCCC---CCCCCCCCCCCeeEEecc--cHHHHHHHHHHHCCCCcEEEEc
Confidence 21 1 111111100 000111211100 000011123334554322 235555555544 78999999
Q ss_pred CCCCHHH--HHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeCCCC------------CcchhhhHhHhhHhc
Q 004880 528 GSVRLDE--RKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYDSDW------------NPQMDLQAMDRCHRI 593 (725)
Q Consensus 528 G~~~~~~--R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D~~w------------Np~~~~Qa~gR~~Ri 593 (725)
++++... -+..++.|.++..+ |||.|....-|.|++....|.++|.|- ..+.+.|..||++|-
T Consensus 514 ~Dtt~~k~~~~~~l~~~~~ge~d---ILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~QvaGRAgR~ 590 (730)
T COG1198 514 SDTTRRKGALEDLLDQFANGEAD---ILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRA 590 (730)
T ss_pred cccccchhhHHHHHHHHhCCCCC---eeecchhhhcCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHHHhhhccC
Confidence 9887533 46789999986555 699999999999999999999887652 234567999999998
Q ss_pred CCCCceEEEEEecCCC
Q 004880 594 GQTKPVHVYRLATAQS 609 (725)
Q Consensus 594 GQ~k~V~Vyrli~~~T 609 (725)
+-.-.|.|-.+.....
T Consensus 591 ~~~G~VvIQT~~P~hp 606 (730)
T COG1198 591 GKPGEVVIQTYNPDHP 606 (730)
T ss_pred CCCCeEEEEeCCCCcH
Confidence 7666677777766665
No 144
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.94 E-value=3.8e-08 Score=115.20 Aligned_cols=152 Identities=16% Similarity=0.223 Sum_probs=96.5
Q ss_pred HHhhcHHHHHHHHHHHHhhC---------CCcEEEEccchhHHHHHHHHHhhcCc-----eEE--------EEeCCCCH-
Q 004880 476 VEQCGKFRLLDRLLARLFAR---------NHKVLVFSQWTKILDIMEYYFNEKGY-----EVC--------RIDGSVRL- 532 (725)
Q Consensus 476 ~~~s~K~~~L~~ll~~l~~~---------~~kvlIFsq~~~~ld~l~~~L~~~g~-----~~~--------~l~G~~~~- 532 (725)
.+..+|+..|.++|.++... +.+|||||++..++..|.++|...++ .+. ...|..+.
T Consensus 266 lEe~PKw~~L~eiL~eI~~~~~~~~~~~~~~~iLI~~~d~~T~~qL~~~L~~~~~~~~~~~fm~~~l~~y~~~~~~~~k~ 345 (814)
T TIGR00596 266 LEENPKWEVLTDVLKEISHEMRMTNRLQGPGKVLIMCSDNRTCLQLRDYLTTSNKKRGSRAFLLNKLRWYRKWREETSKL 345 (814)
T ss_pred cccCCCHHHHHHHHHHHHhHHhhhcccCCCCcEEEEEcchHHHHHHHHHHHhccccccHHHHHHHHHHHHHhhhhhhhhh
Confidence 35789999999999886543 46899999999999999998865222 111 01011100
Q ss_pred ----------------------------H--HH-----HHHHHHHhCCCCC-c------eEE------------------
Q 004880 533 ----------------------------D--ER-----KRQIQDFNDVNSS-Y------RIF------------------ 552 (725)
Q Consensus 533 ----------------------------~--~R-----~~~i~~F~~~~~~-~------~v~------------------ 552 (725)
. .| +..+.+|+.++.+ . .++
T Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~krrr~rG~s~~~~~~~r~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 425 (814)
T TIGR00596 346 AKEVQSQDTFPENASSNVNKTFRKEQVPTKRRRVRGGSEVAVEKLRNANTNDMQHFEEDHELEEEGDDLEDGPAQEINAA 425 (814)
T ss_pred hHhhhhccccccccccccccccccccccccccccccchhHHHhhhcccccccccccchhhhhhhhhhhhccccccccccc
Confidence 0 00 1125566443221 0 011
Q ss_pred ----EEecccccCCCCCCC----------------------C----------CEEEEeCCCCCcchhhhHhHhhHhcCCC
Q 004880 553 ----LLSTRAGGLGINLTA----------------------A----------DTCILYDSDWNPQMDLQAMDRCHRIGQT 596 (725)
Q Consensus 553 ----Llst~agg~GiNL~~----------------------a----------~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~ 596 (725)
.++|..+.+|+|... + +.||+|||+-...+-+|. -|++|.|
T Consensus 426 ~~~~~~~~~~~~e~~d~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~L~e~~P~~VImYEP~~sfIR~IEv-yra~r~~-- 502 (814)
T TIGR00596 426 NDSKIFEIIDEENDIDIYSGAEFDNLPQHITHFLWGERDEYVLRCSLEELMPRYVIMYEPDISFIRQLEV-YKASRPL-- 502 (814)
T ss_pred cccccccccccccccccchhhccccccceeeeecccccchhhHHHHHhhhCCCEEEEECCChHHHHHHHH-HHccCCC--
Confidence 155677778898886 4 899999997666666662 1334444
Q ss_pred CceEEEEEecCCCHHHHHHHHHHHHHH-HHHHHhc
Q 004880 597 KPVHVYRLATAQSVEGRILKRAFSKLK-LEHVVIG 630 (725)
Q Consensus 597 k~V~Vyrli~~~TiEe~i~~~~~~K~~-l~~~vi~ 630 (725)
+++.||.|+..+|+||.-|-...+|.+ .+..+|.
T Consensus 503 r~~rVyfL~y~~S~EEq~yl~sirrEK~AFe~LIr 537 (814)
T TIGR00596 503 RPLRVYFLYYGGSIEEQRYLTSLRREKDAFTKLIR 537 (814)
T ss_pred CCcEEEEEEECCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 348999999999999988776666555 4444554
No 145
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.90 E-value=8.9e-08 Score=110.36 Aligned_cols=85 Identities=8% Similarity=0.141 Sum_probs=68.0
Q ss_pred hhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCC-HHHHHHHHHHHhCCCCCceEEEEec
Q 004880 478 QCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVR-LDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 478 ~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~-~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
...|+..+.+-+....+.|..|||-|.++..-+.|...|...|+++-.++.... .+.-.++|.+ .+ ....+-|+|
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--AG--RKGSITIAT 481 (870)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHHHHHHHHHHcCCccceeeCCCccchhHHHHHHh--cC--CCCcEEEec
Confidence 345888888888888899999999999999999999999999999999999743 3344455554 22 223479999
Q ss_pred ccccCCCCCC
Q 004880 557 RAGGLGINLT 566 (725)
Q Consensus 557 ~agg~GiNL~ 566 (725)
..+|+|.|+.
T Consensus 482 NMAGRGTDI~ 491 (870)
T CHL00122 482 NMAGRGTDII 491 (870)
T ss_pred cccCCCcCee
Confidence 9999997763
No 146
>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=98.78 E-value=1.5e-06 Score=102.77 Aligned_cols=73 Identities=18% Similarity=0.141 Sum_probs=58.1
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh-CCCCCCcEEEEcCc-cHHHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG-NGLHGPYLVIAPLS-TLSNWVNEISR 225 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~-~~~~~~~LIV~P~s-ll~~W~~E~~~ 225 (725)
...+||.|.+.+..+.....++.++++-.+||+|||+.+++.+..... .+...++++.+.++ .+.|-.+|+++
T Consensus 8 y~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 8 YEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 346799999999999999999999999999999999998765544333 44344666666655 67889999988
No 147
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=98.78 E-value=6e-08 Score=104.25 Aligned_cols=101 Identities=25% Similarity=0.311 Sum_probs=79.6
Q ss_pred hCCCcEEEEccchhHHHHHHHHHhhcCce-EEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEE
Q 004880 494 ARNHKVLVFSQWTKILDIMEYYFNEKGYE-VCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCI 572 (725)
Q Consensus 494 ~~~~kvlIFsq~~~~ld~l~~~L~~~g~~-~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI 572 (725)
..|+=|+-||.-. +-.+...+..+|.. ++.|.|+.+++.|.+.-..||++++++.| |++|+|.|.|+||. .++||
T Consensus 356 k~GDCvV~FSkk~--I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dv-lVAsDAIGMGLNL~-IrRii 431 (700)
T KOG0953|consen 356 KPGDCVVAFSKKD--IFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDV-LVASDAIGMGLNLN-IRRII 431 (700)
T ss_pred CCCCeEEEeehhh--HHHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccce-EEeecccccccccc-eeEEE
Confidence 4677788887532 22344445555554 99999999999999999999998888877 99999999999996 78999
Q ss_pred EeCCC---------CCcchhhhHhHhhHhcCCCCc
Q 004880 573 LYDSD---------WNPQMDLQAMDRCHRIGQTKP 598 (725)
Q Consensus 573 ~~D~~---------wNp~~~~Qa~gR~~RiGQ~k~ 598 (725)
+|+.- -......|--|||+|.|..-+
T Consensus 432 F~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~~ 466 (700)
T KOG0953|consen 432 FYSLIKYSGRETEDITVSQIKQIAGRAGRFGSKYP 466 (700)
T ss_pred EeecccCCcccceeccHHHHHHHhhcccccccCCc
Confidence 98864 234456799999999987655
No 148
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.78 E-value=1.4e-07 Score=113.52 Aligned_cols=159 Identities=19% Similarity=0.159 Sum_probs=103.5
Q ss_pred cccchHHHHHHHHHH-----Hh-----cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHH
Q 004880 155 KLKSYQLKGVKWLIS-----LW-----QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEI 223 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~-----~~-----~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~ 223 (725)
..|+||.-...+.+. .. ..+.+|++.|-+|+|||++++-++..+........++||+--. |-.|-.++|
T Consensus 244 ~~k~~~~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f 323 (962)
T COG0610 244 VKKKYQRYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEF 323 (962)
T ss_pred cchhHHHHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHH
Confidence 677776655554443 11 2346799999999999999998888888775556677777755 557888899
Q ss_pred HHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHh---hhhcCccEEEEccccccCCcchHHH
Q 004880 224 SRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKY---LRHYNWKYLVVDEGHRLKNPKCKLL 300 (725)
Q Consensus 224 ~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~---l~~~~~~~vIvDEaH~ikn~~s~~~ 300 (725)
..+........ ...+...+++..-. ....|||||-+.+....... ....+.-+||+|||||--. ..+.
T Consensus 324 ~~~~~~~~~~~---~~~s~~~Lk~~l~~----~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRSQ~--G~~~ 394 (962)
T COG0610 324 QSFGKVAFNDP---KAESTSELKELLED----GKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRSQY--GELA 394 (962)
T ss_pred HHHHHhhhhcc---cccCHHHHHHHHhc----CCCcEEEEEecccchhhhcccccccCCCcEEEEEechhhccc--cHHH
Confidence 98865443322 22233333333211 14579999999886654321 2233456899999999643 3333
Q ss_pred HHHh-cCCCCcEEEEeccCCCCC
Q 004880 301 KELK-YIPIGNKLLLTGTPLQNN 322 (725)
Q Consensus 301 ~~l~-~l~~~~rllLTgTP~~n~ 322 (725)
+.++ .++...-++.||||+...
T Consensus 395 ~~~~~~~~~a~~~gFTGTPi~~~ 417 (962)
T COG0610 395 KLLKKALKKAIFIGFTGTPIFKE 417 (962)
T ss_pred HHHHHHhccceEEEeeCCccccc
Confidence 3333 345577799999998654
No 149
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.76 E-value=2.6e-07 Score=102.63 Aligned_cols=244 Identities=16% Similarity=0.237 Sum_probs=130.5
Q ss_pred cccccCCcccchHHHHHHHHHHHhcC----C--CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHH
Q 004880 148 VSLLTGGKLKSYQLKGVKWLISLWQN----G--LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVN 221 (725)
Q Consensus 148 ~p~~~~~~Lr~yQ~~gv~~l~~~~~~----~--~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~ 221 (725)
+|....+.|..-|+++|-+.....+. | -|-+|.|.-|.||-.++..+|..-.-+|..+..++-+..-+-..-.+
T Consensus 257 lP~i~sg~lSALQLEav~YAcQ~He~llPsG~RaGfLiGDGAGVGKGRTvAgiIfeNyLkGRKrAlW~SVSsDLKfDAER 336 (1300)
T KOG1513|consen 257 LPSIDSGHLSALQLEAVTYACQAHEVLLPSGQRAGFLIGDGAGVGKGRTVAGIIFENYLKGRKRALWFSVSSDLKFDAER 336 (1300)
T ss_pred cccCcccchhHHHHHHHHHHHhhhhhcCCCCccceeeeccCcccCCCceeEEEEehhhhcccceeEEEEeccccccchhh
Confidence 34556788999999999999875542 2 24489999998886665555544333444445555555556666677
Q ss_pred HHHHhC-CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH-------Hhhh-hcCc------cEEEE
Q 004880 222 EISRFV-PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR-------KYLR-HYNW------KYLVV 286 (725)
Q Consensus 222 E~~~~~-p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~-------~~l~-~~~~------~~vIv 286 (725)
.+.... +.+.|..+ ++..-..+... ....-+-.|+++||..+..+.. ..|+ -.+| .+||+
T Consensus 337 DL~DigA~~I~V~al--nK~KYakIss~---en~n~krGViFaTYtaLIGEs~~~~~kyrtR~rQllqW~Ge~feGvIvf 411 (1300)
T KOG1513|consen 337 DLRDIGATGIAVHAL--NKFKYAKISSK---ENTNTKRGVIFATYTALIGESQGKGGKYRTRFRQLLQWCGEDFEGVIVF 411 (1300)
T ss_pred chhhcCCCCccceeh--hhccccccccc---ccCCccceeEEEeeHhhhhhccccCchHHHHHHHHHHHhhhccceeEEe
Confidence 777663 33333221 11100000000 0011245699999998765531 1111 1122 48999
Q ss_pred ccccccCC-------cchHHH----HHHhcCCCCcEEEEeccCCCCChHHhhhhhccccCCCCC------CHHHHHHHhc
Q 004880 287 DEGHRLKN-------PKCKLL----KELKYIPIGNKLLLTGTPLQNNLAELWSLLHFILPDIFS------SLEEFQSWFD 349 (725)
Q Consensus 287 DEaH~ikn-------~~s~~~----~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~p~~~~------~~~~F~~~~~ 349 (725)
||||+.|| ..++.. ..-+.++..+.+..|||-.. |=-+|..+.+-++|+ .+.+|-.-..
T Consensus 412 DECHkAKNL~p~~~~k~TKtG~tVLdLQk~LP~ARVVYASATGAs----EPrNMaYM~RLGlWGegtaf~eF~eFi~AvE 487 (1300)
T KOG1513|consen 412 DECHKAKNLVPTAGAKSTKTGKTVLDLQKKLPNARVVYASATGAS----EPRNMAYMVRLGLWGEGTAFPEFEEFIHAVE 487 (1300)
T ss_pred hhhhhhcccccccCCCcCcccHhHHHHHHhCCCceEEEeeccCCC----CcchhhhhhhhccccCCCcCccHHHHHHHHH
Confidence 99999998 223333 33345677888999999543 223333344444444 4444443332
Q ss_pred ccCCCchhhhHHHHHHHHHHHHHHHHHHhhhh-hhhheehhhHhhcCCCceEEEEEecCCHHHHHHHHHHHH
Q 004880 350 LSGKCNSEVMKEELEEKRRGQMVAKLHAILRP-FLLRRMKSDVEQMLPRKKEIILYATMTEHQRNFQDHLIN 420 (725)
Q Consensus 350 ~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p-~~lRR~k~dv~~~lP~k~e~~v~~~ls~~q~~~y~~l~~ 420 (725)
..+-...+.. ..+.+ ++. |+-|.+ .+-.....+-.++|++.-+..|+....
T Consensus 488 kRGvGAMEIV--AMDMK------------~rGmYiARQL------SFkgVsFrieEv~ls~eF~k~Yn~a~~ 539 (1300)
T KOG1513|consen 488 KRGVGAMEIV--AMDMK------------LRGMYIARQL------SFKGVSFRIEEVPLSKEFRKVYNRAAE 539 (1300)
T ss_pred hcCCceeeee--ehhhh------------hhhhhhhhhc------cccCceEEEEecccCHHHHHHHHHHHH
Confidence 2221111111 01111 111 221211 133344567779999999999987543
No 150
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=98.73 E-value=1.1e-06 Score=97.20 Aligned_cols=111 Identities=22% Similarity=0.312 Sum_probs=80.7
Q ss_pred cEEEEccchhHHHHHHHHHhhc----Cc----eEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCC
Q 004880 498 KVLVFSQWTKILDIMEYYFNEK----GY----EVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAAD 569 (725)
Q Consensus 498 kvlIFsq~~~~ld~l~~~L~~~----g~----~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~ 569 (725)
-+|||=.....++.....|... +- -+..++|+++.++..++ |.....+.+-+++||..+...|.+.+..
T Consensus 260 DILvFLtGqeEIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rv---F~p~p~g~RKvIlsTNIAETSlTI~GI~ 336 (674)
T KOG0922|consen 260 DILVFLTGQEEIEAACELLRERAKSLPEDCPELILPLYGALPSEEQSRV---FDPAPPGKRKVILSTNIAETSLTIDGIR 336 (674)
T ss_pred CEEEEeCCHHHHHHHHHHHHHHhhhccccCcceeeeecccCCHHHhhcc---ccCCCCCcceEEEEcceeeeeEEecceE
Confidence 4899987777666666555543 21 24678999998776655 6655557777899999999999999988
Q ss_pred EEEEeC----CCCCc-----------chhhhHhHhhHhcCCCCceEEEEEecCCCHH
Q 004880 570 TCILYD----SDWNP-----------QMDLQAMDRCHRIGQTKPVHVYRLATAQSVE 611 (725)
Q Consensus 570 ~VI~~D----~~wNp-----------~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiE 611 (725)
.||=-. ..||| ..-.||.-|++|-|.+.|..+|||+++.-++
T Consensus 337 YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~~ 393 (674)
T KOG0922|consen 337 YVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAYD 393 (674)
T ss_pred EEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHHh
Confidence 886211 12344 2445777788888889999999999988763
No 151
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=98.73 E-value=6e-07 Score=104.80 Aligned_cols=110 Identities=20% Similarity=0.282 Sum_probs=80.4
Q ss_pred CCcEEEEccchhHHHHHHHHHhh----cCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEE
Q 004880 496 NHKVLVFSQWTKILDIMEYYFNE----KGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTC 571 (725)
Q Consensus 496 ~~kvlIFsq~~~~ld~l~~~L~~----~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~V 571 (725)
..-+|||-.-...++.....|.. ..+.++-++|..+.++..++ |+....+.+-+++||..+..+|.+.++..|
T Consensus 259 ~GdILvFLpG~~EI~~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~rv---F~p~~~~~RKVVlATNIAETSLTI~gIr~V 335 (845)
T COG1643 259 SGSILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVRV---FEPAPGGKRKVVLATNIAETSLTIPGIRYV 335 (845)
T ss_pred CCCEEEECCcHHHHHHHHHHHHhccccCCcEEeeccccCCHHHHHhh---cCCCCCCcceEEEEccccccceeeCCeEEE
Confidence 45699998888888777777776 35789999999999888775 554334445469999999999999999988
Q ss_pred EE--------eCCCC----------CcchhhhHhHhhHhcCCCCceEEEEEecCCCHH
Q 004880 572 IL--------YDSDW----------NPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVE 611 (725)
Q Consensus 572 I~--------~D~~w----------Np~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiE 611 (725)
|= ||+-- +-+.-.||.|||+| +.+=..|||++++..+
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 73 33321 11222355565555 7788999999986655
No 152
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.72 E-value=5.7e-07 Score=98.67 Aligned_cols=128 Identities=21% Similarity=0.314 Sum_probs=83.6
Q ss_pred EEEEccchh----HHHHHHHHHhhc------CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCC
Q 004880 499 VLVFSQWTK----ILDIMEYYFNEK------GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAA 568 (725)
Q Consensus 499 vlIFsq~~~----~ld~l~~~L~~~------g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a 568 (725)
+|||-.-.. +.++|...|... ++.+.-|...++..-..++ |+...++++-.+++|..+...|.+++.
T Consensus 566 ilIfmtGqediE~t~~~i~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~ki---Fq~a~~~vRK~IvATNIAETSLTi~gI 642 (1042)
T KOG0924|consen 566 ILIFMTGQEDIECTCDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAKI---FQKAEGGVRKCIVATNIAETSLTIPGI 642 (1042)
T ss_pred EEEecCCCcchhHHHHHHHHHHHhhhcCCCCceEEEeehhhCchhhhhhh---cccCCCCceeEEEeccchhhceeecce
Confidence 566643222 344555444432 6778888888887655444 665567888889999999999999999
Q ss_pred CEEEEeCC----CCCc-----------chhhhHhHhhHhcCCCCceEEEEEecCCCHHHHHHHHH---HHHHHHHHHHh
Q 004880 569 DTCILYDS----DWNP-----------QMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRILKRA---FSKLKLEHVVI 629 (725)
Q Consensus 569 ~~VI~~D~----~wNp-----------~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i~~~~---~~K~~l~~~vi 629 (725)
..||=-.. -+|| ..-.+|--|++|-|.+.|-..||++|+.+....|+..- ..+.++.+.|+
T Consensus 643 ~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~AnA~QRaGRAGRt~pG~cYRlYTe~ay~~eml~stvPEIqRTNl~nvVL 721 (1042)
T KOG0924|consen 643 RYVIDTGYCKLKVYNPRIGMDALQIVPISQANADQRAGRAGRTGPGTCYRLYTEDAYKNEMLPSTVPEIQRTNLSNVVL 721 (1042)
T ss_pred EEEEecCceeeeecccccccceeEEEechhccchhhccccCCCCCcceeeehhhhHHHhhcccCCCchhhhcchhhHHH
Confidence 98884221 1333 23345555666666688999999999998777665321 23444555544
No 153
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=98.71 E-value=2.8e-06 Score=98.12 Aligned_cols=85 Identities=13% Similarity=0.230 Sum_probs=68.4
Q ss_pred hhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCC-CCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 478 QCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGS-VRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 478 ~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~-~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
...|+..+.+-+..+.+.|..|||-|.+...-+.|...|...|+++-.++.. ...+.-.++|.+ .+..+ .+-|+|
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 3568999999999999999999999999999999999999999999999997 333344455554 22222 379999
Q ss_pred ccccCCCCCC
Q 004880 557 RAGGLGINLT 566 (725)
Q Consensus 557 ~agg~GiNL~ 566 (725)
..+|+|-|+.
T Consensus 497 NMAGRGTDIk 506 (939)
T PRK12902 497 NMAGRGTDII 506 (939)
T ss_pred cCCCCCcCEe
Confidence 9999997754
No 154
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.71 E-value=1.3e-06 Score=101.75 Aligned_cols=120 Identities=13% Similarity=0.183 Sum_probs=98.2
Q ss_pred hhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecc
Q 004880 478 QCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTR 557 (725)
Q Consensus 478 ~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~ 557 (725)
...|+.++.+-+..+.+.|..|||-+.+...-+.|...|..+|+++-.++.... +.-.++|.+= +.++ .+-|+|.
T Consensus 610 ~~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK~h-~~EAeIVA~A--G~~G--aVTIATN 684 (1112)
T PRK12901 610 KREKYNAVIEEITELSEAGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAKLH-QKEAEIVAEA--GQPG--TVTIATN 684 (1112)
T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhccch-hhHHHHHHhc--CCCC--cEEEecc
Confidence 346999999999999999999999999999999999999999999988888644 2223444432 2222 3799999
Q ss_pred cccCCCCCC--------CCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEE
Q 004880 558 AGGLGINLT--------AADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVY 602 (725)
Q Consensus 558 agg~GiNL~--------~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vy 602 (725)
-+|+|-|+. +.=+||.-..+-|...+.|..||++|.|..-....|
T Consensus 685 MAGRGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPGsS~f~ 737 (1112)
T PRK12901 685 MAGRGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGSSQFY 737 (1112)
T ss_pred CcCCCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCCcceEE
Confidence 999999886 456888899999999999999999999987664444
No 155
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=98.71 E-value=1.1e-06 Score=99.99 Aligned_cols=152 Identities=15% Similarity=0.144 Sum_probs=100.4
Q ss_pred HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHH-HHh-CCCceEEE-EeCChhhHHHH
Q 004880 170 LWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEI-SRF-VPSVSAII-YHGSKKERDEI 245 (725)
Q Consensus 170 ~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~-~~~-~p~~~v~~-~~g~~~~r~~~ 245 (725)
....+...+|..++-.|||..+--++...++....+-++.|+|.- ++.|-..++ .+| ++.+...+ ..|.- .+
T Consensus 522 svDr~eSavIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg~sl~g~l-tq--- 597 (1330)
T KOG0949|consen 522 SVDRNESAVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFLRGVSLLGDL-TQ--- 597 (1330)
T ss_pred hhhcccceEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCccccchhhHhhh-hH---
Confidence 335577889999999999999988888888777788999999955 555554444 333 33332222 12211 11
Q ss_pred HHhcCCCCCCCCCCEEEecHHHHHHHHHH---hhh-hcCccEEEEccccccCCcc-hHHHHHHhcCCCCcEEEEeccCCC
Q 004880 246 RRKHMPRAIGPKFPIVVTSYEVALSDARK---YLR-HYNWKYLVVDEGHRLKNPK-CKLLKELKYIPIGNKLLLTGTPLQ 320 (725)
Q Consensus 246 ~~~~~~~~~~~~~~vvItsye~~~~~~~~---~l~-~~~~~~vIvDEaH~ikn~~-s~~~~~l~~l~~~~rllLTgTP~~ 320 (725)
....+ .-.++|.||-++.+-..+.. ... --+..|+|+||.|.+.|.. +..+..+-.+-....|+|||| +
T Consensus 598 -EYsin---p~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~li~CP~L~LSAT--i 671 (1330)
T KOG0949|consen 598 -EYSIN---PWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLLIPCPFLVLSAT--I 671 (1330)
T ss_pred -HhcCC---chhceEEEEchHHHHHHhcCchhhhhhhhcceEEEechhhhccccccchHHHHHHHhcCCCeeEEecc--c
Confidence 11111 12678999999987554321 000 0135799999999998754 567777777777788999999 4
Q ss_pred CChHHhhhhhc
Q 004880 321 NNLAELWSLLH 331 (725)
Q Consensus 321 n~~~el~sll~ 331 (725)
+|+..+.-.++
T Consensus 672 gN~~l~qkWln 682 (1330)
T KOG0949|consen 672 GNPNLFQKWLN 682 (1330)
T ss_pred CCHHHHHHHHH
Confidence 67766666665
No 156
>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=98.68 E-value=1.2e-07 Score=86.26 Aligned_cols=129 Identities=19% Similarity=0.168 Sum_probs=71.4
Q ss_pred CCCeEEEcCCCCcHHHHHHH-HHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCC
Q 004880 174 GLNGILADQMGLGKTIQTIA-FLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPR 252 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaia-li~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~ 252 (725)
|.--+|-.-+|.|||...+. ++.+...+ .+++||++|..++ .+|+.+...+.. +.++.+...+.
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~--~~rvLvL~PTRvv---a~em~~aL~~~~-~~~~t~~~~~~--------- 68 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKR--RLRVLVLAPTRVV---AEEMYEALKGLP-VRFHTNARMRT--------- 68 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHT--T--EEEEESSHHH---HHHHHHHTTTSS-EEEESTTSS-----------
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHc--cCeEEEecccHHH---HHHHHHHHhcCC-cccCceeeecc---------
Confidence 44457788899999998664 34434443 3699999998865 344444444444 33333222111
Q ss_pred CCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC---CCCcEEEEeccC
Q 004880 253 AIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI---PIGNKLLLTGTP 318 (725)
Q Consensus 253 ~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l---~~~~rllLTgTP 318 (725)
..+...|-+++|..+...+..-....+|++||+||||-.-...-...-.+..+ .....|++||||
T Consensus 69 -~~g~~~i~vMc~at~~~~~~~p~~~~~yd~II~DEcH~~Dp~sIA~rg~l~~~~~~g~~~~i~mTATP 136 (148)
T PF07652_consen 69 -HFGSSIIDVMCHATYGHFLLNPCRLKNYDVIIMDECHFTDPTSIAARGYLRELAESGEAKVIFMTATP 136 (148)
T ss_dssp ---SSSSEEEEEHHHHHHHHHTSSCTTS-SEEEECTTT--SHHHHHHHHHHHHHHHTTS-EEEEEESS-
T ss_pred -ccCCCcccccccHHHHHHhcCcccccCccEEEEeccccCCHHHHhhheeHHHhhhccCeeEEEEeCCC
Confidence 12466788999998766543334456799999999998532222222223322 224579999999
No 157
>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=98.67 E-value=2.5e-06 Score=97.41 Aligned_cols=78 Identities=18% Similarity=0.186 Sum_probs=56.3
Q ss_pred HHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhC-----CCceEE
Q 004880 160 QLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFV-----PSVSAI 233 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~-----p~~~v~ 233 (725)
|.+.+.++...+.++...++-..+|+|||+..+.-+..........++||.+|+. +..|+.+++..+. ..+++.
T Consensus 2 Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~ 81 (636)
T TIGR03117 2 QALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAG 81 (636)
T ss_pred HHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHHHhhcCCCeeEE
Confidence 7888888888888888888999999999998765543333322347899999976 5578888776554 244555
Q ss_pred EEeC
Q 004880 234 IYHG 237 (725)
Q Consensus 234 ~~~g 237 (725)
+..|
T Consensus 82 ~lkG 85 (636)
T TIGR03117 82 FFPG 85 (636)
T ss_pred EEEC
Confidence 5444
No 158
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=98.65 E-value=1.2e-06 Score=100.29 Aligned_cols=154 Identities=19% Similarity=0.146 Sum_probs=91.3
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHH-HHHHHhCCCCCCcEEEEcCccHHH-HHHHHHHhCC--Cc
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAF-LAHLKGNGLHGPYLVIAPLSTLSN-WVNEISRFVP--SV 230 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaial-i~~l~~~~~~~~~LIV~P~sll~~-W~~E~~~~~p--~~ 230 (725)
+++++|.+.+. ......+.|.|.+.+++-|||+++=.+ +...... .+.+|.+.|-..+.+ =..++..+.- ++
T Consensus 223 ~~fewq~ecls--~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~--rr~~llilp~vsiv~Ek~~~l~~~~~~~G~ 298 (1008)
T KOG0950|consen 223 KLFEWQAECLS--LPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCR--RRNVLLILPYVSIVQEKISALSPFSIDLGF 298 (1008)
T ss_pred HHHHHHHHHhc--chhhhcccceEEeCCCccchHHHHHHHHHHHHHHH--hhceeEecceeehhHHHHhhhhhhccccCC
Confidence 45555655542 122246889999999999999987433 3444433 246788888443333 3334444432 45
Q ss_pred eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcC---ccEEEEccccccCC--cchH----HHH
Q 004880 231 SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYN---WKYLVVDEGHRLKN--PKCK----LLK 301 (725)
Q Consensus 231 ~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~---~~~vIvDEaH~ikn--~~s~----~~~ 301 (725)
++-.|.|.... ......-.+.|+|.+.........+..-+ ..+|||||-|.+.. .+.- +.+
T Consensus 299 ~ve~y~g~~~p----------~~~~k~~sv~i~tiEkanslin~lie~g~~~~~g~vvVdElhmi~d~~rg~~lE~~l~k 368 (1008)
T KOG0950|consen 299 PVEEYAGRFPP----------EKRRKRESVAIATIEKANSLINSLIEQGRLDFLGMVVVDELHMIGDKGRGAILELLLAK 368 (1008)
T ss_pred cchhhcccCCC----------CCcccceeeeeeehHhhHhHHHHHHhcCCccccCcEEEeeeeeeeccccchHHHHHHHH
Confidence 66666653321 11223567999999998777655554433 46899999999953 2222 222
Q ss_pred HHhcCCCC--cEEEEeccCCCCC
Q 004880 302 ELKYIPIG--NKLLLTGTPLQNN 322 (725)
Q Consensus 302 ~l~~l~~~--~rllLTgTP~~n~ 322 (725)
.+..-... ..+++|||-.+|.
T Consensus 369 ~~y~~~~~~~~iIGMSATi~N~~ 391 (1008)
T KOG0950|consen 369 ILYENLETSVQIIGMSATIPNNS 391 (1008)
T ss_pred HHHhccccceeEeeeecccCChH
Confidence 22222222 3699999965444
No 159
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=98.64 E-value=2.3e-06 Score=99.71 Aligned_cols=127 Identities=18% Similarity=0.241 Sum_probs=88.9
Q ss_pred HHHHHHHHHHHhh--CCCcEEEEccchhHHHHHHHHHhh----c---CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEE
Q 004880 482 FRLLDRLLARLFA--RNHKVLVFSQWTKILDIMEYYFNE----K---GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIF 552 (725)
Q Consensus 482 ~~~L~~ll~~l~~--~~~kvlIFsq~~~~ld~l~~~L~~----~---g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~ 552 (725)
..++..++..+.. ....+|||-.-..-+..+...|.. . .+-+..+|++++..+.+.+ |+.+..+++-+
T Consensus 397 ~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~V---F~~pp~g~RKI 473 (924)
T KOG0920|consen 397 YDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAV---FKRPPKGTRKI 473 (924)
T ss_pred HHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHh---cCCCCCCcchh
Confidence 3444455544433 346899999888777666666643 2 2567788999998877776 66655666778
Q ss_pred EEecccccCCCCCCCCCEEEE--------eCCCCC----------cchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHH
Q 004880 553 LLSTRAGGLGINLTAADTCIL--------YDSDWN----------PQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRI 614 (725)
Q Consensus 553 Llst~agg~GiNL~~a~~VI~--------~D~~wN----------p~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i 614 (725)
+++|.-+...|.+..+-.||= ||+.-| -+.-.||.||++| ..+=.+|+|++..-.+..+
T Consensus 474 IlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGR---v~~G~cy~L~~~~~~~~~~ 550 (924)
T KOG0920|consen 474 ILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGR---VRPGICYHLYTRSRYEKLM 550 (924)
T ss_pred hhhhhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccC---ccCCeeEEeechhhhhhcc
Confidence 999999999999998777763 555432 2333588888877 5677899999887655444
No 160
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.64 E-value=8.2e-06 Score=97.31 Aligned_cols=86 Identities=12% Similarity=0.049 Sum_probs=60.4
Q ss_pred HHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCC
Q 004880 487 RLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLT 566 (725)
Q Consensus 487 ~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~ 566 (725)
+.+..+...+++++|+..+..+++.+...|....++. ...|... .|.+++++|+.++.. +|+.|....+|||++
T Consensus 638 ~~i~~~~~~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~~---vLlG~~sFwEGVD~p 711 (820)
T PRK07246 638 KRLEELKQLQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQQ---ILLGLGSFWEGVDFV 711 (820)
T ss_pred HHHHHHHhcCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCCe---EEEecchhhCCCCCC
Confidence 3333344556788888888888888888887655544 5556443 367799999874333 688889999999996
Q ss_pred --CCCEEEEeCCCC
Q 004880 567 --AADTCILYDSDW 578 (725)
Q Consensus 567 --~a~~VI~~D~~w 578 (725)
.+..||+.-.|+
T Consensus 712 ~~~~~~viI~kLPF 725 (820)
T PRK07246 712 QADRMIEVITRLPF 725 (820)
T ss_pred CCCeEEEEEecCCC
Confidence 456677766554
No 161
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.63 E-value=6.7e-06 Score=96.93 Aligned_cols=80 Identities=14% Similarity=0.172 Sum_probs=62.1
Q ss_pred hCCCcEEEEccchhHHHHHHHHHhhcCce-EEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCC--CCCE
Q 004880 494 ARNHKVLVFSQWTKILDIMEYYFNEKGYE-VCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLT--AADT 570 (725)
Q Consensus 494 ~~~~kvlIFsq~~~~ld~l~~~L~~~g~~-~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~--~a~~ 570 (725)
..+.++|||+.+-.++..+.+++...... .....|..+ +.++++.|...... .|++.+....+|||++ .+..
T Consensus 477 ~~~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~---~~~~l~~f~~~~~~--~~lv~~gsf~EGVD~~g~~l~~ 551 (654)
T COG1199 477 ASPGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDE---REELLEKFKASGEG--LILVGGGSFWEGVDFPGDALRL 551 (654)
T ss_pred hcCCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCCc---HHHHHHHHHHhcCC--eEEEeeccccCcccCCCCCeeE
Confidence 44568999999999999999998876553 445555555 44899999874433 5899999999999997 5688
Q ss_pred EEEeCCCC
Q 004880 571 CILYDSDW 578 (725)
Q Consensus 571 VI~~D~~w 578 (725)
||+.-.|+
T Consensus 552 vvI~~lPf 559 (654)
T COG1199 552 VVIVGLPF 559 (654)
T ss_pred EEEEecCC
Confidence 89987776
No 162
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.55 E-value=3.8e-05 Score=93.25 Aligned_cols=92 Identities=16% Similarity=0.235 Sum_probs=61.8
Q ss_pred HHHHHHHHHh-hCCCcEEEEccchhHHHHHHHHHhhcCc--eEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEeccccc
Q 004880 484 LLDRLLARLF-ARNHKVLVFSQWTKILDIMEYYFNEKGY--EVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGG 560 (725)
Q Consensus 484 ~L~~ll~~l~-~~~~kvlIFsq~~~~ld~l~~~L~~~g~--~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg 560 (725)
.+.+.+..+. ..+.++|||..+..++..+.+.|..... .+..+.=+++...|.+++++|+..+.. +|+.|....
T Consensus 739 ~la~~i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~~---iLlG~~sFw 815 (928)
T PRK08074 739 EVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDKA---ILLGTSSFW 815 (928)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCCe---EEEecCccc
Confidence 3444444433 4566888888888888888888865321 132332222224689999999874333 578889999
Q ss_pred CCCCCCC--CCEEEEeCCCC
Q 004880 561 LGINLTA--ADTCILYDSDW 578 (725)
Q Consensus 561 ~GiNL~~--a~~VI~~D~~w 578 (725)
+|||+++ +..||+.-.|+
T Consensus 816 EGVD~pg~~l~~viI~kLPF 835 (928)
T PRK08074 816 EGIDIPGDELSCLVIVRLPF 835 (928)
T ss_pred CccccCCCceEEEEEecCCC
Confidence 9999985 58888987776
No 163
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.54 E-value=7.6e-07 Score=104.49 Aligned_cols=162 Identities=12% Similarity=0.142 Sum_probs=104.9
Q ss_pred cchHHHHHHHHHHHhcC----------------------------------CCCeEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 157 KSYQLKGVKWLISLWQN----------------------------------GLNGILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 157 r~yQ~~gv~~l~~~~~~----------------------------------~~~~ILademGlGKT~qaiali~~l~~~~ 202 (725)
-|||.++|..++..+.. ..+..+.++||+|||.+++..+.+|....
T Consensus 8 l~hQ~~av~ai~~~F~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~n~~~~M~TGtGKT~~~~~~i~~l~~~~ 87 (986)
T PRK15483 8 LPHQEQALAAILAAFTGIDIASADPNHYANPLIKLRYENGIPGRSRTRIDDKANIDIKMETGTGKTYVYTRLMYELHQKY 87 (986)
T ss_pred ChhHHHHHHHHHHHhcCCCccCCccccccCcccccchhhccccccccccCccceEEEEeCCCCCHHHHHHHHHHHHHHHc
Confidence 48888888888775421 13568999999999999999999998877
Q ss_pred CCCCcEEEEcCccHHH-HH---------HHHHHhCCC--ceEEEEeCChhh---H----HHHHHhcCCC-CCCCCCCEEE
Q 004880 203 LHGPYLVIAPLSTLSN-WV---------NEISRFVPS--VSAIIYHGSKKE---R----DEIRRKHMPR-AIGPKFPIVV 262 (725)
Q Consensus 203 ~~~~~LIV~P~sll~~-W~---------~E~~~~~p~--~~v~~~~g~~~~---r----~~~~~~~~~~-~~~~~~~vvI 262 (725)
....+||+||...+.. .. ..|...+++ +...+|.+.+.. | ..++...-.. .......|+|
T Consensus 88 ~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~~k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv 167 (986)
T PRK15483 88 GLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDKKKSGRKNFPAQLSNFVKASRQNSNTIHVLL 167 (986)
T ss_pred CCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCcccccccccChHHHHHHHhccccCCCceEEEE
Confidence 7789999999764422 22 223333333 445566544311 1 1111111000 1122568999
Q ss_pred ecHHHHHHHHH------Hhh-hh--cCc-------cEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccCC
Q 004880 263 TSYEVALSDAR------KYL-RH--YNW-------KYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPL 319 (725)
Q Consensus 263 tsye~~~~~~~------~~l-~~--~~~-------~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~ 319 (725)
+|.+.+.++.. .++ .. .+| -+||+||+|++.. ..+.+.++..++..+.+.-|||--
T Consensus 168 ~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh~~~~-~~k~~~~i~~lnpl~~lrysAT~~ 239 (986)
T PRK15483 168 INAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPHRFPR-DNKFYQAIEALKPQMIIRFGATFP 239 (986)
T ss_pred EehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCCCCCc-chHHHHHHHhcCcccEEEEeeecC
Confidence 99998765321 111 11 233 3799999999965 345778899999999999999963
No 164
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.52 E-value=2e-06 Score=96.05 Aligned_cols=79 Identities=25% Similarity=0.452 Sum_probs=56.5
Q ss_pred EEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEE--------eCC---------CC-Ccchhh
Q 004880 523 VCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCIL--------YDS---------DW-NPQMDL 584 (725)
Q Consensus 523 ~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~--------~D~---------~w-Np~~~~ 584 (725)
+.-+..-.+.++..++ |.....+.+..+++|.++...|.+++..+||= ||. .| +-+.-.
T Consensus 607 vLPLYSLLs~~~Q~RV---F~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASad 683 (1172)
T KOG0926|consen 607 VLPLYSLLSTEKQMRV---FDEVPKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASAD 683 (1172)
T ss_pred EeehhhhcCHHHhhhh---ccCCCCCceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccc
Confidence 4445555565554444 66556678899999999999999999999973 554 34 334446
Q ss_pred hHhHhhHhcCCCCceEEEEEecC
Q 004880 585 QAMDRCHRIGQTKPVHVYRLATA 607 (725)
Q Consensus 585 Qa~gR~~RiGQ~k~V~Vyrli~~ 607 (725)
||.|||+|+| +-|.|||+..
T Consensus 684 QRAGRAGRtg---pGHcYRLYSS 703 (1172)
T KOG0926|consen 684 QRAGRAGRTG---PGHCYRLYSS 703 (1172)
T ss_pred hhccccCCCC---CCceeehhhh
Confidence 8888888866 6688999764
No 165
>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=98.51 E-value=2.5e-06 Score=97.56 Aligned_cols=112 Identities=20% Similarity=0.389 Sum_probs=79.8
Q ss_pred HHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEeccccc
Q 004880 481 KFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGG 560 (725)
Q Consensus 481 K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg 560 (725)
...+...++..+ ..|+++.|||......+++++++...+.++..++|..+..+ ++.+. +++| ++=|.+..
T Consensus 268 ~~tF~~~L~~~L-~~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~d----v~~W~----~~~V-viYT~~it 337 (824)
T PF02399_consen 268 ETTFFSELLARL-NAGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLED----VESWK----KYDV-VIYTPVIT 337 (824)
T ss_pred hhhHHHHHHHHH-hCCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCccc----ccccc----ceeE-EEEeceEE
Confidence 334555555554 67999999999999999999999999999999999777552 23333 4555 77788889
Q ss_pred CCCCCC--CCCEEEEe--CCCCCcch--hhhHhHhhHhcCCCCceEEEE
Q 004880 561 LGINLT--AADTCILY--DSDWNPQM--DLQAMDRCHRIGQTKPVHVYR 603 (725)
Q Consensus 561 ~GiNL~--~a~~VI~~--D~~wNp~~--~~Qa~gR~~RiGQ~k~V~Vyr 603 (725)
.|+++- .-|.+..| .....|.. ..|.+||+-.++ ++.+.||.
T Consensus 338 vG~Sf~~~HF~~~f~yvk~~~~gpd~~s~~Q~lgRvR~l~-~~ei~v~~ 385 (824)
T PF02399_consen 338 VGLSFEEKHFDSMFAYVKPMSYGPDMVSVYQMLGRVRSLL-DNEIYVYI 385 (824)
T ss_pred EEeccchhhceEEEEEecCCCCCCcHHHHHHHHHHHHhhc-cCeEEEEE
Confidence 999985 34556555 22233443 589999999987 34455553
No 166
>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=98.38 E-value=7.5e-05 Score=87.96 Aligned_cols=167 Identities=15% Similarity=0.133 Sum_probs=87.5
Q ss_pred cccchHHHHHHHHHHHhc----CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCc-----------------------
Q 004880 155 KLKSYQLKGVKWLISLWQ----NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPY----------------------- 207 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~----~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~----------------------- 207 (725)
.=+-+|-++++.+..+.+ .|.-|+--..||+|||+.=.-++..|...+..-++
T Consensus 408 ~rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNARImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~L 487 (1110)
T TIGR02562 408 PRFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANARAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRLNL 487 (1110)
T ss_pred CCcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHHHHHHHhCCCCCCceEEEEccccceeccchHHHHHhcCC
Confidence 345789999988887543 33345777889999999977777666654332222
Q ss_pred -----EEEEcCccHH----HHHHHHH-----------HhCCCce---EEEEeCChhhHHHHHHhcCC-C-CCCCCCCEEE
Q 004880 208 -----LVIAPLSTLS----NWVNEIS-----------RFVPSVS---AIIYHGSKKERDEIRRKHMP-R-AIGPKFPIVV 262 (725)
Q Consensus 208 -----LIV~P~sll~----~W~~E~~-----------~~~p~~~---v~~~~g~~~~r~~~~~~~~~-~-~~~~~~~vvI 262 (725)
-|++-.+.+. .+.+... .|++... .+.|.|+-.+-.......-. + ...-..+|+|
T Consensus 488 ~~ddLAVlIGs~Av~~L~e~~~~~~~~~~~~GSeS~e~l~~e~~~~~~~~~~g~l~~~~l~~~l~~~~k~~rll~apv~V 567 (1110)
T TIGR02562 488 SDDDLAVLIGGTAVQTLFDLSKEKIEQVDEDGSESAPIFLAEGQDCNLPDWDGPLDTIELLGRLSLDDKEKTLLAAPVLV 567 (1110)
T ss_pred CccceEEEECHHHHHHHHHHHhhhccccccCCCccchhhhcccCcCCeeeccCCccchhhhhhhccChhhhhhhcCCeEE
Confidence 2333322221 1222110 1111111 34455443221110000000 0 0001357999
Q ss_pred ecHHHHHHHHH------Hhh--hhcCccEEEEccccccCCcchHH-HHHHh--cCCCCcEEEEeccCCCC
Q 004880 263 TSYEVALSDAR------KYL--RHYNWKYLVVDEGHRLKNPKCKL-LKELK--YIPIGNKLLLTGTPLQN 321 (725)
Q Consensus 263 tsye~~~~~~~------~~l--~~~~~~~vIvDEaH~ikn~~s~~-~~~l~--~l~~~~rllLTgTP~~n 321 (725)
+|.+.++.... ..+ ...--..|||||.|-+-...... .+.+. ..-..+.++||||--+.
T Consensus 568 ~TIDQlL~a~~~~r~~~~~l~ll~La~svlVlDEVHaYD~~~~~~L~rlL~w~~~lG~~VlLmSATLP~~ 637 (1110)
T TIGR02562 568 CTIDHLIPATESHRGGHHIAPMLRLMSSDLILDEPDDYEPEDLPALLRLVQLAGLLGSRVLLSSATLPPA 637 (1110)
T ss_pred ecHHHHHHHhhhcccchhHHHHHHhcCCCEEEECCccCCHHHHHHHHHHHHHHHHcCCCEEEEeCCCCHH
Confidence 99998876541 111 12234789999999986443332 23333 33567889999995443
No 167
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.37 E-value=7.2e-06 Score=86.04 Aligned_cols=73 Identities=16% Similarity=0.204 Sum_probs=53.3
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHH-HHHhCCC---CCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLA-HLKGNGL---HGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~-~l~~~~~---~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
...||.|.+-+..+...+.++.++|+-.++|+|||+..+..+. ++...+. ..+++++++.. ...+-..++++.
T Consensus 7 y~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 7 YEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 3459999999999999999999999999999999999876653 4444332 23778888755 334444555544
No 168
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.37 E-value=7.2e-06 Score=86.04 Aligned_cols=73 Identities=16% Similarity=0.204 Sum_probs=53.3
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHH-HHHhCCC---CCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLA-HLKGNGL---HGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~-~l~~~~~---~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
...||.|.+-+..+...+.++.++|+-.++|+|||+..+..+. ++...+. ..+++++++.. ...+-..++++.
T Consensus 7 y~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 7 YEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 3459999999999999999999999999999999999876653 4444332 23778888755 334444555544
No 169
>PF13871 Helicase_C_4: Helicase_C-like
Probab=98.36 E-value=9.3e-07 Score=90.30 Aligned_cols=94 Identities=22% Similarity=0.295 Sum_probs=75.0
Q ss_pred HHHHHHhCCCCCceEEEEecccccCCCCCCCC-------C-EEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCC
Q 004880 537 RQIQDFNDVNSSYRIFLLSTRAGGLGINLTAA-------D-TCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQ 608 (725)
Q Consensus 537 ~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a-------~-~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~ 608 (725)
...+.|++ +...|+++ ++||+.||+|++- . .-|.+++||+....+|-.||+||-||..+.....+++.-
T Consensus 52 ~e~~~F~~--g~k~v~ii-s~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~~ 128 (278)
T PF13871_consen 52 AEKQAFMD--GEKDVAII-SDAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTDL 128 (278)
T ss_pred HHHHHHhC--CCceEEEE-ecccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecCC
Confidence 56678997 45556555 5999999999953 2 336799999999999999999999999986555566666
Q ss_pred CHHHHHHHHHHHHHHHHHHHhcCCc
Q 004880 609 SVEGRILKRAFSKLKLEHVVIGKGQ 633 (725)
Q Consensus 609 TiEe~i~~~~~~K~~l~~~vi~~~~ 633 (725)
..|.+......+|+.-..+...+..
T Consensus 129 ~gE~Rfas~va~rL~sLgAlt~gdr 153 (278)
T PF13871_consen 129 PGERRFASTVARRLESLGALTRGDR 153 (278)
T ss_pred HHHHHHHHHHHHHHhhccccccCcc
Confidence 7899999999999987777766543
No 170
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.34 E-value=2e-05 Score=86.82 Aligned_cols=107 Identities=21% Similarity=0.272 Sum_probs=69.2
Q ss_pred cEEEEccchhHHHH----HHHHHhhc-----CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCC
Q 004880 498 KVLVFSQWTKILDI----MEYYFNEK-----GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAA 568 (725)
Q Consensus 498 kvlIFsq~~~~ld~----l~~~L~~~-----g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a 568 (725)
-+|||-.-...+.. |.+.+... .+-+|-|+...+.+....+ |....++.+-++++|..+...|.+.+.
T Consensus 475 DILVFltGQeEIEt~~e~l~~~~~~LGski~eliv~PiYaNLPselQakI---FePtP~gaRKVVLATNIAETSlTIdgI 551 (902)
T KOG0923|consen 475 DILVFLTGQEEIETVKENLKERCRRLGSKIRELIVLPIYANLPSELQAKI---FEPTPPGARKVVLATNIAETSLTIDGI 551 (902)
T ss_pred cEEEEeccHHHHHHHHHHHHHHHHHhccccceEEEeeccccCChHHHHhh---cCCCCCCceeEEEeecchhhceeecCe
Confidence 36777554443333 33333332 3457888999997766665 544345566679999999999999988
Q ss_pred CEEEEeCCC------CCcc--------------hhhhHhHhhHhcCCCCceEEEEEecCCCHHH
Q 004880 569 DTCILYDSD------WNPQ--------------MDLQAMDRCHRIGQTKPVHVYRLATAQSVEG 612 (725)
Q Consensus 569 ~~VI~~D~~------wNp~--------------~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe 612 (725)
..|| ||. +||. .-.||.|||+| +-|-..|||+++.+..-
T Consensus 552 ~yVi--DpGf~K~nsynprtGmesL~v~piSKAsA~QRaGRAGR---tgPGKCfRLYt~~aY~~ 610 (902)
T KOG0923|consen 552 KYVI--DPGFVKQNSYNPRTGMESLLVTPISKASANQRAGRAGR---TGPGKCFRLYTAWAYEH 610 (902)
T ss_pred EEEe--cCccccccCcCCCcCceeEEEeeechhhhhhhccccCC---CCCCceEEeechhhhhh
Confidence 8776 443 3432 33466666666 55777899999766443
No 171
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.10 E-value=7.7e-05 Score=80.72 Aligned_cols=131 Identities=17% Similarity=0.203 Sum_probs=96.7
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhh----cCc----eEEEEeCCCCHHHHHHHHHHHhCCCCCce
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNE----KGY----EVCRIDGSVRLDERKRQIQDFNDVNSSYR 550 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~----~g~----~~~~l~G~~~~~~R~~~i~~F~~~~~~~~ 550 (725)
+.|..-...++.++...|-|.|-||..+...+++...-+. -|- .+..+.|+.+.++|.++-.+.-. ++..
T Consensus 508 ~~~i~E~s~~~~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~--G~L~ 585 (1034)
T KOG4150|consen 508 SSKVVEVSHLFAEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFG--GKLC 585 (1034)
T ss_pred hhHHHHHHHHHHHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhC--Ceee
Confidence 5566667777888888899999999999877766543221 111 24456799999999998777553 3333
Q ss_pred EEEEecccccCCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCCCCceEEEEEecCCCHHHHH
Q 004880 551 IFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEGRI 614 (725)
Q Consensus 551 v~Llst~agg~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe~i 614 (725)
-+|+|.|+.+||++-.-|.|++...|.+.+...|..||++|-.... ..|| .+..+.||+.-
T Consensus 586 -giIaTNALELGIDIG~LDAVl~~GFP~S~aNl~QQ~GRAGRRNk~S-Lavy-va~~~PVDQ~Y 646 (1034)
T KOG4150|consen 586 -GIIATNALELGIDIGHLDAVLHLGFPGSIANLWQQAGRAGRRNKPS-LAVY-VAFLGPVDQYY 646 (1034)
T ss_pred -EEEecchhhhccccccceeEEEccCchhHHHHHHHhccccccCCCc-eEEE-EEeccchhhHh
Confidence 4899999999999999999999999999999999999999976332 3332 23334455543
No 172
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=98.00 E-value=0.00038 Score=80.56 Aligned_cols=113 Identities=15% Similarity=0.185 Sum_probs=90.7
Q ss_pred HhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 477 EQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 477 ~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
..-.|+..+.+-+......|..|||-+.+...-+.+...|...|++...++..-. .|+..|-.+. +....+-++|
T Consensus 410 t~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h--~~EA~Iia~A---G~~gaVTiAT 484 (822)
T COG0653 410 TEEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNH--AREAEIIAQA---GQPGAVTIAT 484 (822)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHhcCCCceeeccccH--HHHHHHHhhc---CCCCcccccc
Confidence 3456999999999999999999999999999999999999999999999988777 4555444443 2222368899
Q ss_pred ccccCCCCCC-CCC----------EEEEeCCCCCcchhhhHhHhhHhcC
Q 004880 557 RAGGLGINLT-AAD----------TCILYDSDWNPQMDLQAMDRCHRIG 594 (725)
Q Consensus 557 ~agg~GiNL~-~a~----------~VI~~D~~wNp~~~~Qa~gR~~RiG 594 (725)
.-+|+|-++. +.+ .||=-.-.-+-..+.|-.||++|.|
T Consensus 485 NMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQG 533 (822)
T COG0653 485 NMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQG 533 (822)
T ss_pred ccccCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccccCC
Confidence 9999999986 443 4555566666677779999999999
No 173
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.92 E-value=4.5e-05 Score=77.24 Aligned_cols=67 Identities=21% Similarity=0.321 Sum_probs=48.8
Q ss_pred cccchHHHHHHHHHHHhcCCCC-eEEEcCCCCcHHHHHHHHHHHHH------hCCCCCCcEEEEcCc-cHHHHHHHHHH
Q 004880 155 KLKSYQLKGVKWLISLWQNGLN-GILADQMGLGKTIQTIAFLAHLK------GNGLHGPYLVIAPLS-TLSNWVNEISR 225 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~-~ILademGlGKT~qaiali~~l~------~~~~~~~~LIV~P~s-ll~~W~~E~~~ 225 (725)
+|-+.|.+++..++. ... .++.-+.|+|||.+..+++..+. .....+++||+||.. .+.+-...+.+
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 467899999987764 344 78899999999988888888873 355678999999966 67777777766
No 174
>PF13892 DBINO: DNA-binding domain
Probab=97.86 E-value=1.6e-05 Score=71.57 Aligned_cols=31 Identities=32% Similarity=0.484 Sum_probs=26.1
Q ss_pred ccccchhhhhhhHHHHhhhHHHHHHHhhhhh
Q 004880 47 EDHLNDLQFNKLDELLTQTQMYAEFLLEKME 77 (725)
Q Consensus 47 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 77 (725)
+....+++.+||+|||+|||+|+|||..++.
T Consensus 104 E~~e~~rq~~rl~fLl~QTElfsHF~~~k~~ 134 (139)
T PF13892_consen 104 EKREAKRQQRRLNFLLTQTELFSHFMQNKAK 134 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Confidence 4445677889999999999999999988764
No 175
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.69 E-value=0.00046 Score=73.84 Aligned_cols=63 Identities=27% Similarity=0.432 Sum_probs=48.0
Q ss_pred eEEEEecccccCCCCCCCCCEEEEeCCC------CC-----------cchhhhHhHhhHhcCCCCceEEEEEecCCCHHH
Q 004880 550 RIFLLSTRAGGLGINLTAADTCILYDSD------WN-----------PQMDLQAMDRCHRIGQTKPVHVYRLATAQSVEG 612 (725)
Q Consensus 550 ~v~Llst~agg~GiNL~~a~~VI~~D~~------wN-----------p~~~~Qa~gR~~RiGQ~k~V~Vyrli~~~TiEe 612 (725)
+-+++||..+...+.+.+.-.|| ||. +| |..-.||.-|++|.|.++|-..|+|+++..++.
T Consensus 314 RkvVvstniaetsltidgiv~VI--DpGf~kqkVYNPRIRvesllv~PISkasA~qR~gragrt~pGkcfrLYte~~~~~ 391 (699)
T KOG0925|consen 314 RKVVVSTNIAETSLTIDGIVFVI--DPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFEK 391 (699)
T ss_pred ceEEEEecchheeeeeccEEEEe--cCchhhhcccCcceeeeeeeeccchHhHHHHHhhhccCCCCCceEEeecHHhhhh
Confidence 34599999999888887765555 543 34 445569999999999999999999999876554
Q ss_pred HH
Q 004880 613 RI 614 (725)
Q Consensus 613 ~i 614 (725)
.+
T Consensus 392 em 393 (699)
T KOG0925|consen 392 EM 393 (699)
T ss_pred cC
Confidence 33
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=97.65 E-value=0.00021 Score=70.31 Aligned_cols=151 Identities=20% Similarity=0.216 Sum_probs=71.5
Q ss_pred ccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEE
Q 004880 156 LKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIY 235 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~ 235 (725)
+-++|...++.+.. ..-.++.-..|+|||+.|++...++...+...+++|+-|..-...+ + -|.|+-.--.+
T Consensus 5 ~~~~Q~~~~~al~~----~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~---l-GflpG~~~eK~ 76 (205)
T PF02562_consen 5 KNEEQKFALDALLN----NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGED---L-GFLPGDLEEKM 76 (205)
T ss_dssp -SHHHHHHHHHHHH-----SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT--------SS--------
T ss_pred CCHHHHHHHHHHHh----CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccc---c-ccCCCCHHHHH
Confidence 44689998888873 5567888999999999999999888888888888888886643221 1 12222100000
Q ss_pred eCCh-hhHHHHHHhcCCCC----CCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCc
Q 004880 236 HGSK-KERDEIRRKHMPRA----IGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGN 310 (725)
Q Consensus 236 ~g~~-~~r~~~~~~~~~~~----~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~ 310 (725)
.... .-.+.+.. .+... ......|-+.+...++. +.++..+||||||+++.. ..+-..+.++-...
T Consensus 77 ~p~~~p~~d~l~~-~~~~~~~~~~~~~~~Ie~~~~~~iRG------rt~~~~~iIvDEaQN~t~--~~~k~ilTR~g~~s 147 (205)
T PF02562_consen 77 EPYLRPIYDALEE-LFGKEKLEELIQNGKIEIEPLAFIRG------RTFDNAFIIVDEAQNLTP--EELKMILTRIGEGS 147 (205)
T ss_dssp -TTTHHHHHHHTT-TS-TTCHHHHHHTTSEEEEEGGGGTT--------B-SEEEEE-SGGG--H--HHHHHHHTTB-TT-
T ss_pred HHHHHHHHHHHHH-HhChHhHHHHhhcCeEEEEehhhhcC------ccccceEEEEecccCCCH--HHHHHHHcccCCCc
Confidence 0000 00000000 00000 00122344444332211 133458999999999853 33555577788889
Q ss_pred EEEEeccCCCCCh
Q 004880 311 KLLLTGTPLQNNL 323 (725)
Q Consensus 311 rllLTgTP~~n~~ 323 (725)
++.++|-|.|.+.
T Consensus 148 kii~~GD~~Q~D~ 160 (205)
T PF02562_consen 148 KIIITGDPSQIDL 160 (205)
T ss_dssp EEEEEE-------
T ss_pred EEEEecCceeecC
Confidence 9999999987653
No 177
>PRK10536 hypothetical protein; Provisional
Probab=97.65 E-value=0.00019 Score=72.58 Aligned_cols=144 Identities=15% Similarity=0.078 Sum_probs=85.4
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCce---
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVS--- 231 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~--- 231 (725)
..-..|...+.++.. +..+++--+.|+|||+.++++.......+...+++|.=|.... .+...|.|+-.
T Consensus 59 p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~----ge~LGfLPG~~~eK 130 (262)
T PRK10536 59 ARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQA----DEDLGFLPGDIAEK 130 (262)
T ss_pred CCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCc----hhhhCcCCCCHHHH
Confidence 344578877776653 5577888999999999999988865533444455555453322 34444444310
Q ss_pred EE-----------EEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHH
Q 004880 232 AI-----------IYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLL 300 (725)
Q Consensus 232 v~-----------~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~ 300 (725)
.. .+.|.......+. .....|.|.+...++.. .+.-++||||||+++.- ....
T Consensus 131 ~~p~~~pi~D~L~~~~~~~~~~~~~~--------~~~~~Iei~~l~ymRGr------tl~~~~vIvDEaqn~~~--~~~k 194 (262)
T PRK10536 131 FAPYFRPVYDVLVRRLGASFMQYCLR--------PEIGKVEIAPFAYMRGR------TFENAVVILDEAQNVTA--AQMK 194 (262)
T ss_pred HHHHHHHHHHHHHHHhChHHHHHHHH--------hccCcEEEecHHHhcCC------cccCCEEEEechhcCCH--HHHH
Confidence 00 0011110000000 01233555555543221 22348999999999864 5566
Q ss_pred HHHhcCCCCcEEEEeccCCCCC
Q 004880 301 KELKYIPIGNKLLLTGTPLQNN 322 (725)
Q Consensus 301 ~~l~~l~~~~rllLTgTP~~n~ 322 (725)
..+.++....+++++|-|-|.+
T Consensus 195 ~~ltR~g~~sk~v~~GD~~QiD 216 (262)
T PRK10536 195 MFLTRLGENVTVIVNGDITQCD 216 (262)
T ss_pred HHHhhcCCCCEEEEeCChhhcc
Confidence 6678888999999999997765
No 178
>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=97.58 E-value=0.00073 Score=69.37 Aligned_cols=123 Identities=21% Similarity=0.140 Sum_probs=75.9
Q ss_pred ccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH----HHHHHHHHHh
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL----SNWVNEISRF 226 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll----~~W~~E~~~~ 226 (725)
..+..+++-|+-|+-.| ..|-|.=..||=|||+++...+....-.| .++=|||.+..+ .+|...|-++
T Consensus 73 ~~g~~p~~vQll~~l~L------~~G~laEm~TGEGKTli~~l~a~~~AL~G--~~V~vvT~NdyLA~RD~~~~~~~y~~ 144 (266)
T PF07517_consen 73 TLGLRPYDVQLLGALAL------HKGRLAEMKTGEGKTLIAALPAALNALQG--KGVHVVTSNDYLAKRDAEEMRPFYEF 144 (266)
T ss_dssp HTS----HHHHHHHHHH------HTTSEEEESTTSHHHHHHHHHHHHHHTTS--S-EEEEESSHHHHHHHHHHHHHHHHH
T ss_pred HcCCcccHHHHhhhhhc------ccceeEEecCCCCcHHHHHHHHHHHHHhc--CCcEEEeccHHHhhccHHHHHHHHHH
Confidence 44678888898877544 23558889999999999864443333332 478888887766 4588888888
Q ss_pred CCCceEEEEeCChhh--HHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-HHhh-------hhcCccEEEEcccccc
Q 004880 227 VPSVSAIIYHGSKKE--RDEIRRKHMPRAIGPKFPIVVTSYEVALSDA-RKYL-------RHYNWKYLVVDEGHRL 292 (725)
Q Consensus 227 ~p~~~v~~~~g~~~~--r~~~~~~~~~~~~~~~~~vvItsye~~~~~~-~~~l-------~~~~~~~vIvDEaH~i 292 (725)
+ ++.+.+..+.... |... . ..+|+.+|...+.-|+ ++.+ ...+++++||||+..+
T Consensus 145 L-Glsv~~~~~~~~~~~r~~~--Y--------~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs~ 209 (266)
T PF07517_consen 145 L-GLSVGIITSDMSSEERREA--Y--------AADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDSI 209 (266)
T ss_dssp T-T--EEEEETTTEHHHHHHH--H--------HSSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHHH
T ss_pred h-hhccccCccccCHHHHHHH--H--------hCcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccceE
Confidence 8 5666555554332 2221 1 3579988887776553 2221 1236889999999865
No 179
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.44 E-value=0.00019 Score=65.75 Aligned_cols=115 Identities=21% Similarity=0.196 Sum_probs=65.4
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhC----CCCCCcEEEEcCcc-HHHHHHHHHHhCC-CceEEEEeCChhhHHHHH
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGN----GLHGPYLVIAPLST-LSNWVNEISRFVP-SVSAIIYHGSKKERDEIR 246 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~----~~~~~~LIV~P~sl-l~~W~~E~~~~~p-~~~v~~~~g~~~~r~~~~ 246 (725)
++..+++.-+.|+|||..+-.++..+... ....-+.+-||... ...+..++...+. ...
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~--------------- 67 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLK--------------- 67 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSS---------------
T ss_pred CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCcccc---------------
Confidence 35567889999999999998888877541 11112344445443 4445455433321 000
Q ss_pred HhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC--CCCcEEEEeccC
Q 004880 247 RKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI--PIGNKLLLTGTP 318 (725)
Q Consensus 247 ~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l--~~~~rllLTgTP 318 (725)
. -.+...+...+...+....-.+|||||+|++. .......++.+ .....++|+|||
T Consensus 68 ----------~----~~~~~~l~~~~~~~l~~~~~~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 68 ----------S----RQTSDELRSLLIDALDRRRVVLLVIDEADHLF--SDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp ----------S----TS-HHHHHHHHHHHHHHCTEEEEEEETTHHHH--THHHHHHHHHHTCSCBEEEEEEESS
T ss_pred ----------c----cCCHHHHHHHHHHHHHhcCCeEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEEEEECh
Confidence 0 12233344444455666665799999999983 24455555544 566679999999
No 180
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.23 E-value=0.00097 Score=73.68 Aligned_cols=66 Identities=27% Similarity=0.304 Sum_probs=53.5
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEI 223 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~ 223 (725)
...|-+-|..++.++.. +..-.++--++|+|||.+..-++..+...+ .++||.+|.. .++|-.+.+
T Consensus 183 ~~~ln~SQk~Av~~~~~---~k~l~~I~GPPGTGKT~TlvEiI~qlvk~~--k~VLVcaPSn~AVdNiverl 249 (649)
T KOG1803|consen 183 NKNLNSSQKAAVSFAIN---NKDLLIIHGPPGTGKTRTLVEIISQLVKQK--KRVLVCAPSNVAVDNIVERL 249 (649)
T ss_pred CccccHHHHHHHHHHhc---cCCceEeeCCCCCCceeeHHHHHHHHHHcC--CeEEEEcCchHHHHHHHHHh
Confidence 45788899999999884 224457888999999999999999988875 7899999977 578877743
No 181
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.22 E-value=0.004 Score=61.55 Aligned_cols=126 Identities=23% Similarity=0.276 Sum_probs=69.5
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEE
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAII 234 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~ 234 (725)
+|.+-|.+++..++. ....-.+|.-..|+|||...-.+...+...+ .++++++|.+-... ++.+-. +.....
T Consensus 1 ~L~~~Q~~a~~~~l~--~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g--~~v~~~apT~~Aa~---~L~~~~-~~~a~T 72 (196)
T PF13604_consen 1 TLNEEQREAVRAILT--SGDRVSVLQGPAGTGKTTLLKALAEALEAAG--KRVIGLAPTNKAAK---ELREKT-GIEAQT 72 (196)
T ss_dssp -S-HHHHHHHHHHHH--CTCSEEEEEESTTSTHHHHHHHHHHHHHHTT----EEEEESSHHHHH---HHHHHH-TS-EEE
T ss_pred CCCHHHHHHHHHHHh--cCCeEEEEEECCCCCHHHHHHHHHHHHHhCC--CeEEEECCcHHHHH---HHHHhh-Ccchhh
Confidence 477899999999875 2223357778899999988777666666654 78999999774322 232221 011111
Q ss_pred EeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH-hh----hhcCccEEEEccccccCCcchHHHHHHhcCCC-
Q 004880 235 YHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK-YL----RHYNWKYLVVDEGHRLKNPKCKLLKELKYIPI- 308 (725)
Q Consensus 235 ~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~-~l----~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~- 308 (725)
...+...... .. .....++||||||-.+-+. .+...+...+.
T Consensus 73 ------------------------------i~~~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~~--~~~~ll~~~~~~ 120 (196)
T PF13604_consen 73 ------------------------------IHSFLYRIPNGDDEGRPELPKKDVLIVDEASMVDSR--QLARLLRLAKKS 120 (196)
T ss_dssp ------------------------------HHHHTTEECCEECCSSCC-TSTSEEEESSGGG-BHH--HHHHHHHHS-T-
T ss_pred ------------------------------HHHHHhcCCcccccccccCCcccEEEEecccccCHH--HHHHHHHHHHhc
Confidence 1100000000 00 0224579999999998533 34444444543
Q ss_pred CcEEEEeccCCC
Q 004880 309 GNKLLLTGTPLQ 320 (725)
Q Consensus 309 ~~rllLTgTP~~ 320 (725)
..+++|.|-|.|
T Consensus 121 ~~klilvGD~~Q 132 (196)
T PF13604_consen 121 GAKLILVGDPNQ 132 (196)
T ss_dssp T-EEEEEE-TTS
T ss_pred CCEEEEECCcch
Confidence 678999999865
No 182
>PRK14873 primosome assembly protein PriA; Provisional
Probab=97.17 E-value=0.0021 Score=74.75 Aligned_cols=126 Identities=11% Similarity=0.034 Sum_probs=87.3
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEE
Q 004880 183 MGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIV 261 (725)
Q Consensus 183 mGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vv 261 (725)
.|+|||-.-+.++...+..| +.+||++|.. +..|+...|+..++...+.++|+........+... ....+...||
T Consensus 169 ~GSGKTevyl~~i~~~l~~G--k~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~--~~~~G~~~IV 244 (665)
T PRK14873 169 PGEDWARRLAAAAAATLRAG--RGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWL--AVLRGQARVV 244 (665)
T ss_pred CCCcHHHHHHHHHHHHHHcC--CeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHH--HHhCCCCcEE
Confidence 49999999999998888875 4699999954 78999999999997677888988665544332221 2234567899
Q ss_pred EecHHHHHHHHHHhhhhcCccEEEEcccccc--CCcch-----H-HHHHHhcCCCCcEEEEeccC
Q 004880 262 VTSYEVALSDARKYLRHYNWKYLVVDEGHRL--KNPKC-----K-LLKELKYIPIGNKLLLTGTP 318 (725)
Q Consensus 262 Itsye~~~~~~~~~l~~~~~~~vIvDEaH~i--kn~~s-----~-~~~~l~~l~~~~rllLTgTP 318 (725)
|.|...+ |+--.+..+|||||=|.- |...+ . +.....+...-..|+-|+||
T Consensus 245 iGtRSAv------FaP~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgSaTP 303 (665)
T PRK14873 245 VGTRSAV------FAPVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGGHAR 303 (665)
T ss_pred EEcceeE------EeccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEECCCC
Confidence 9998753 222335689999999964 33211 1 22222233455668889999
No 183
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=97.14 E-value=0.0013 Score=75.37 Aligned_cols=45 Identities=22% Similarity=0.237 Sum_probs=38.8
Q ss_pred cccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHH
Q 004880 148 VSLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTI 192 (725)
Q Consensus 148 ~p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qai 192 (725)
+|.-...++||-|+.-+..++.......+|+|-.++|+|||+.-|
T Consensus 14 v~V~fP~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLL 58 (945)
T KOG1132|consen 14 VPVEFPFQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLL 58 (945)
T ss_pred ceeeccCCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHH
Confidence 445555678999999999999999999999999999999998743
No 184
>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=97.11 E-value=0.0032 Score=73.36 Aligned_cols=68 Identities=24% Similarity=0.313 Sum_probs=54.6
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHh
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~ 226 (725)
..|-+.|..+|.+.+. +....++--..|+|||.+++.++..+...+. ++||++|.. .+.+....+...
T Consensus 156 ~~ln~~Q~~Av~~~l~---~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~--~VLv~a~sn~Avd~l~e~l~~~ 224 (637)
T TIGR00376 156 PNLNESQKEAVSFALS---SKDLFLIHGPPGTGKTRTLVELIRQLVKRGL--RVLVTAPSNIAVDNLLERLALC 224 (637)
T ss_pred CCCCHHHHHHHHHHhc---CCCeEEEEcCCCCCHHHHHHHHHHHHHHcCC--CEEEEcCcHHHHHHHHHHHHhC
Confidence 5788999999988763 2356788889999999999999988887654 899999977 567777777653
No 185
>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=97.04 E-value=0.0025 Score=69.14 Aligned_cols=91 Identities=15% Similarity=0.212 Sum_probs=56.1
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHH-HHHHhC-CCceEEEEeCChhhHHHHHHhcCCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVN-EISRFV-PSVSAIIYHGSKKERDEIRRKHMPRAI 254 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~-E~~~~~-p~~~v~~~~g~~~~r~~~~~~~~~~~~ 254 (725)
.|+--..|+|||+.++.++..+.........+++|+...+.+... .+..-. +
T Consensus 4 ~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~-------------------------- 57 (352)
T PF09848_consen 4 ILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNP-------------------------- 57 (352)
T ss_pred EEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhccc--------------------------
Confidence 356667999999999999999843344567889999876666444 343322 0
Q ss_pred CCCCCEEEecHHHHHHHHH-HhhhhcCccEEEEccccccCC
Q 004880 255 GPKFPIVVTSYEVALSDAR-KYLRHYNWKYLVVDEGHRLKN 294 (725)
Q Consensus 255 ~~~~~vvItsye~~~~~~~-~~l~~~~~~~vIvDEaH~ikn 294 (725)
......+..+..+..... .......+++|||||||++..
T Consensus 58 -~~~~~~~~~~~~~i~~~~~~~~~~~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 58 -KLKKSDFRKPTSFINNYSESDKEKNKYDVIIVDEAQRLRT 97 (352)
T ss_pred -chhhhhhhhhHHHHhhcccccccCCcCCEEEEehhHhhhh
Confidence 011122333333333221 112234689999999999976
No 186
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=97.03 E-value=0.00029 Score=86.03 Aligned_cols=182 Identities=25% Similarity=0.267 Sum_probs=106.0
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCc--HHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCc
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLG--KTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSV 230 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlG--KT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~ 230 (725)
...+.+||.....-... .......+++..|+| ||+.+..+.......+...+.++++|..+..+|..+...++...
T Consensus 82 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 159 (866)
T COG0553 82 RFILIPHQLDIALEVLN--ELALRVLIADEVGLGDLKTIEAGAILKELLLRGEIKRVLILVPKTLRAQWVVELLEKFNIR 159 (866)
T ss_pred ccccCcchhhhhhhhhh--hhhhchhhcccccccccccccccccchHhhhhhhhccceeccchHHHHHHHHHhhhhcccc
Confidence 45677888766644333 223337999999999 99998888888877778889999999888899999987763211
Q ss_pred e-EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH---HHhhhhcCc---cEEEEccccccCCcc-------
Q 004880 231 S-AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA---RKYLRHYNW---KYLVVDEGHRLKNPK------- 296 (725)
Q Consensus 231 ~-v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~---~~~l~~~~~---~~vIvDEaH~ikn~~------- 296 (725)
. +....+.......... . ......+.++.+.+...... ...+....| +++++||+|...+..
T Consensus 160 ~~~~~~~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 (866)
T COG0553 160 LAVLDKEGLRYLLKQYDA--Y--NPFSTEDLVLISLDLAKRSDSKRREALLEAEWGERDLLVIDEAHNLGSSEGTRKLAP 235 (866)
T ss_pred chhhhhhhhhhhhhhhcc--c--ccccchhhhhhhhhhhhhhhhhhhhhhhcccccchhhhhcchHhhcccccccccccc
Confidence 1 1111111100000000 0 00001111334444333321 123344446 899999999987642
Q ss_pred --hHHHHHHhcCC--------CCcEEEEeccCCCCChHHhhhhhccccCCCCCC
Q 004880 297 --CKLLKELKYIP--------IGNKLLLTGTPLQNNLAELWSLLHFILPDIFSS 340 (725)
Q Consensus 297 --s~~~~~l~~l~--------~~~rllLTgTP~~n~~~el~sll~~l~p~~~~~ 340 (725)
......+.... ......+++||......+++...+++.+..+.+
T Consensus 236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 (866)
T COG0553 236 LETLEYELLKQLAEKIPSKLLDLKVLLLSATPEQLKEEDLFARLRLLDPLRLAD 289 (866)
T ss_pred hhhhHHHHHHHHhhcccccccccchhhhccchhhccccccchhhhhccccchhh
Confidence 22223332221 112358999999998888877667766655544
No 187
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=96.97 E-value=0.042 Score=65.67 Aligned_cols=109 Identities=18% Similarity=0.218 Sum_probs=75.9
Q ss_pred hcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH-----HHHHHHHHHhCCCceEEEEeCChhhHHHH
Q 004880 171 WQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL-----SNWVNEISRFVPSVSAIIYHGSKKERDEI 245 (725)
Q Consensus 171 ~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll-----~~W~~E~~~~~p~~~v~~~~g~~~~r~~~ 245 (725)
|+.+.+.+++...|+|||+.|=..+. .....+++.-|+|...+ .-|..-|.+. .+..++...|...-...+
T Consensus 1156 y~~nd~v~vga~~gsgkt~~ae~a~l---~~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~-~G~~~~~l~ge~s~~lkl 1231 (1674)
T KOG0951|consen 1156 YNTNDNVLVGAPNGSGKTACAELALL---RPDTIGRAVYIAPLEEIADEQYRDWEKKFSKL-LGLRIVKLTGETSLDLKL 1231 (1674)
T ss_pred ecccceEEEecCCCCchhHHHHHHhc---CCccceEEEEecchHHHHHHHHHHHHHhhccc-cCceEEecCCccccchHH
Confidence 45677889999999999976532222 25566789999997755 4588888777 467777777765433221
Q ss_pred HHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcc
Q 004880 246 RRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPK 296 (725)
Q Consensus 246 ~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~ 296 (725)
....+|+|.|++.+-.- ...+ ..++.|+||.|.+....
T Consensus 1232 ---------~~~~~vii~tpe~~d~l--q~iQ--~v~l~i~d~lh~igg~~ 1269 (1674)
T KOG0951|consen 1232 ---------LQKGQVIISTPEQWDLL--QSIQ--QVDLFIVDELHLIGGVY 1269 (1674)
T ss_pred ---------hhhcceEEechhHHHHH--hhhh--hcceEeeehhhhhcccC
Confidence 14668999999986433 2222 35899999999997533
No 188
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.97 E-value=0.0043 Score=71.10 Aligned_cols=135 Identities=17% Similarity=0.133 Sum_probs=85.5
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHH--------HHHHH-HHhCCCc--eEEEEeCChhh
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSN--------WVNEI-SRFVPSV--SAIIYHGSKKE 241 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~--------W~~E~-~~~~p~~--~v~~~~g~~~~ 241 (725)
+..|+=+-+|||+|||.+-+-.+..|........++||||.-.+.- -.++| ..++.+. ..++|. ....
T Consensus 73 ~~lNiDI~METGTGKTy~YlrtmfeLhk~YG~~KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~-~~~~ 151 (985)
T COG3587 73 DKLNIDILMETGTGKTYTYLRTMFELHKKYGLFKFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYD-EDIE 151 (985)
T ss_pred CcceeeEEEecCCCceeeHHHHHHHHHHHhCceeEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeec-hHHH
Confidence 3445667899999999999988888888777789999999654411 22334 4444333 334443 1111
Q ss_pred HHHHHHhcCCCCCCCCCCEEEecHHHHHHH---H--------------------HHhhhhcCccEEEEccccccCCcchH
Q 004880 242 RDEIRRKHMPRAIGPKFPIVVTSYEVALSD---A--------------------RKYLRHYNWKYLVVDEGHRLKNPKCK 298 (725)
Q Consensus 242 r~~~~~~~~~~~~~~~~~vvItsye~~~~~---~--------------------~~~l~~~~~~~vIvDEaH~ikn~~s~ 298 (725)
+... .......|++.+.+.+.++ . -+.+...+ -+|||||.|++... .+
T Consensus 152 ~~~~-------~~~~~~~vLl~~~~Afnk~~inan~iN~~s~~~~~~~~~~~spvd~la~~r-PIvIvDEPh~f~~~-~k 222 (985)
T COG3587 152 KFKF-------KSNNKPCVLLIFVSAFNKEEINANMINSESMENTNLFNGATSPVDALASMR-PIVIVDEPHRFLGD-DK 222 (985)
T ss_pred HHhh-------ccCCCceEEEEehhhhccccccccccchhhhcccCccccccCHHHHHHhcC-CEEEecChhhcccc-hH
Confidence 1111 1113445666665554443 0 01122222 47999999999865 78
Q ss_pred HHHHHhcCCCCcEEEEecc
Q 004880 299 LLKELKYIPIGNKLLLTGT 317 (725)
Q Consensus 299 ~~~~l~~l~~~~rllLTgT 317 (725)
.+.++..+++-..+=.+||
T Consensus 223 ~~~~i~~l~pl~ilRfgAT 241 (985)
T COG3587 223 TYGAIKQLNPLLILRFGAT 241 (985)
T ss_pred HHHHHHhhCceEEEEeccc
Confidence 8999999999888888888
No 189
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=96.87 E-value=0.0038 Score=67.54 Aligned_cols=63 Identities=13% Similarity=0.065 Sum_probs=47.5
Q ss_pred cccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCC-CCCcEEEEc
Q 004880 150 LLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGL-HGPYLVIAP 212 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~-~~~~LIV~P 212 (725)
++.-...+|-|..-..-+......+++|+|-++.|+|||+.-++++..+....+ ...-||-|.
T Consensus 11 ~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCS 74 (755)
T KOG1131|consen 11 YFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCS 74 (755)
T ss_pred ecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEec
Confidence 455568899998777667777788999999999999999999888765554333 334566665
No 190
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=96.77 E-value=0.0045 Score=59.45 Aligned_cols=78 Identities=21% Similarity=0.222 Sum_probs=54.9
Q ss_pred hCCCcEEEEccchhHHHHHHHHHhhcC----ceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecc--cccCCCCCC-
Q 004880 494 ARNHKVLVFSQWTKILDIMEYYFNEKG----YEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTR--AGGLGINLT- 566 (725)
Q Consensus 494 ~~~~kvlIFsq~~~~ld~l~~~L~~~g----~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~--agg~GiNL~- 566 (725)
..+..+|||+.+-..++.+...+...+ +.+..- + ..++.++++.|....+ .+|+++. ...+|||+.
T Consensus 7 ~~~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q-~---~~~~~~~l~~~~~~~~---~il~~v~~g~~~EGiD~~~ 79 (167)
T PF13307_consen 7 AVPGGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQ-G---SKSRDELLEEFKRGEG---AILLAVAGGSFSEGIDFPG 79 (167)
T ss_dssp CCSSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEES-T---CCHHHHHHHHHCCSSS---EEEEEETTSCCGSSS--EC
T ss_pred cCCCCEEEEeCCHHHHHHHHHHHHhhcccccceeeec-C---cchHHHHHHHHHhccC---eEEEEEecccEEEeecCCC
Confidence 456889999999999999999887653 333222 2 3478999999998333 3688887 899999997
Q ss_pred -CCCEEEEeCCCC
Q 004880 567 -AADTCILYDSDW 578 (725)
Q Consensus 567 -~a~~VI~~D~~w 578 (725)
.|..||+.-.|+
T Consensus 80 ~~~r~vii~glPf 92 (167)
T PF13307_consen 80 DLLRAVIIVGLPF 92 (167)
T ss_dssp ESEEEEEEES---
T ss_pred chhheeeecCCCC
Confidence 588999988886
No 191
>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=96.72 E-value=0.0093 Score=70.60 Aligned_cols=136 Identities=23% Similarity=0.195 Sum_probs=85.4
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCce
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVS 231 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~ 231 (725)
.+..|.+-|.+++..+.. +.-.+|.-..|+|||..+-+++..+...+...++++++|+........+.. +..
T Consensus 320 ~~~~l~~~Q~~Ai~~~~~----~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~----g~~ 391 (720)
T TIGR01448 320 LRKGLSEEQKQALDTAIQ----HKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVT----GLT 391 (720)
T ss_pred cCCCCCHHHHHHHHHHHh----CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhc----CCc
Confidence 356799999999988753 556899999999999988888777766544467888999876665444421 110
Q ss_pred EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcE
Q 004880 232 AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNK 311 (725)
Q Consensus 232 v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~r 311 (725)
...+ ..+.. . .+... ..... . .....++||||||+.+-.. ...+.+..++...+
T Consensus 392 a~Ti-------h~lL~--~----~~~~~--------~~~~~-~--~~~~~~llIvDEaSMvd~~--~~~~Ll~~~~~~~r 445 (720)
T TIGR01448 392 ASTI-------HRLLG--Y----GPDTF--------RHNHL-E--DPIDCDLLIVDESSMMDTW--LALSLLAALPDHAR 445 (720)
T ss_pred cccH-------HHHhh--c----cCCcc--------chhhh-h--ccccCCEEEEeccccCCHH--HHHHHHHhCCCCCE
Confidence 0000 00000 0 00000 00000 0 1235689999999999533 34555667788889
Q ss_pred EEEeccCCCC
Q 004880 312 LLLTGTPLQN 321 (725)
Q Consensus 312 llLTgTP~~n 321 (725)
++|-|=|-|-
T Consensus 446 lilvGD~~QL 455 (720)
T TIGR01448 446 LLLVGDTDQL 455 (720)
T ss_pred EEEECccccc
Confidence 9999988653
No 192
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=96.66 E-value=0.0061 Score=71.94 Aligned_cols=92 Identities=12% Similarity=0.194 Sum_probs=61.2
Q ss_pred HHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc-CceEEEEeCCCCHHHHHHHHHHHhCC-CCCceEEEEeccccc
Q 004880 483 RLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK-GYEVCRIDGSVRLDERKRQIQDFNDV-NSSYRIFLLSTRAGG 560 (725)
Q Consensus 483 ~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~-g~~~~~l~G~~~~~~R~~~i~~F~~~-~~~~~v~Llst~agg 560 (725)
..+.+.+..+...+..+|||..+..+++.+...|... +++ +...|.. .|.++++.|.+. +.+-..+|+++....
T Consensus 521 ~~~~~~i~~l~~~~gg~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~~---~~~~ll~~f~~~~~~~~~~VL~g~~sf~ 596 (697)
T PRK11747 521 AEMAEFLPELLEKHKGSLVLFASRRQMQKVADLLPRDLRLM-LLVQGDQ---PRQRLLEKHKKRVDEGEGSVLFGLQSFA 596 (697)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCCc---hHHHHHHHHHHHhccCCCeEEEEecccc
Confidence 3444445444445556888888888888888888643 333 3445642 578888777641 001122588889999
Q ss_pred CCCCCC--CCCEEEEeCCCC
Q 004880 561 LGINLT--AADTCILYDSDW 578 (725)
Q Consensus 561 ~GiNL~--~a~~VI~~D~~w 578 (725)
+|||++ .+..||+.-.|+
T Consensus 597 EGVD~pGd~l~~vII~kLPF 616 (697)
T PRK11747 597 EGLDLPGDYLTQVIITKIPF 616 (697)
T ss_pred ccccCCCCceEEEEEEcCCC
Confidence 999997 478999988776
No 193
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=96.63 E-value=0.013 Score=65.37 Aligned_cols=77 Identities=23% Similarity=0.366 Sum_probs=61.9
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCceE
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~~v 232 (725)
.+|-.-|..+|...+. ..=.||--+.|+|||+++.+++.++..+ ..+|+||++|.. .++|-..-|++- +++|
T Consensus 409 pkLN~SQ~~AV~~VL~----rplsLIQGPPGTGKTvtsa~IVyhl~~~-~~~~VLvcApSNiAVDqLaeKIh~t--gLKV 481 (935)
T KOG1802|consen 409 PKLNASQSNAVKHVLQ----RPLSLIQGPPGTGKTVTSATIVYHLARQ-HAGPVLVCAPSNIAVDQLAEKIHKT--GLKV 481 (935)
T ss_pred hhhchHHHHHHHHHHc----CCceeeecCCCCCceehhHHHHHHHHHh-cCCceEEEcccchhHHHHHHHHHhc--CceE
Confidence 3788899999999884 4557999999999999999999998887 568999999977 567877777765 3666
Q ss_pred EEEeC
Q 004880 233 IIYHG 237 (725)
Q Consensus 233 ~~~~g 237 (725)
+.+..
T Consensus 482 vRl~a 486 (935)
T KOG1802|consen 482 VRLCA 486 (935)
T ss_pred eeeeh
Confidence 64443
No 194
>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=96.56 E-value=0.031 Score=51.28 Aligned_cols=106 Identities=19% Similarity=0.078 Sum_probs=58.9
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCC
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRA 253 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~ 253 (725)
+...++.-+.|+|||..+-.++..+... ..+++++........+.........
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~------------------------- 71 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHF------------------------- 71 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhh-------------------------
Confidence 5667899999999998877777766532 2455555544333333222111100
Q ss_pred CCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCC-cchHHHHHHhcCC------CCcEEEEeccCCC
Q 004880 254 IGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKN-PKCKLLKELKYIP------IGNKLLLTGTPLQ 320 (725)
Q Consensus 254 ~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l~------~~~rllLTgTP~~ 320 (725)
..... ..........++|+||+|++.. ....+...+..+. ....+++|+++..
T Consensus 72 -----------~~~~~---~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~ 131 (151)
T cd00009 72 -----------LVRLL---FELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL 131 (151)
T ss_pred -----------hHhHH---HHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence 00000 1112233568999999999832 2233444455542 4556788887654
No 195
>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=96.50 E-value=0.0051 Score=61.25 Aligned_cols=75 Identities=23% Similarity=0.238 Sum_probs=61.1
Q ss_pred ccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhC
Q 004880 151 LTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFV 227 (725)
Q Consensus 151 ~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~ 227 (725)
..+..+||-|.+.+..|+.. ..+.|.++-.-||-|||-+.+-+++.+...|. .=+-+|+|++++.+-..-+...+
T Consensus 19 e~~iliR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTsVI~Pmla~~LAdg~-~LvrviVpk~Ll~q~~~~L~~~l 93 (229)
T PF12340_consen 19 ESNILIRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTSVIVPMLALALADGS-RLVRVIVPKALLEQMRQMLRSRL 93 (229)
T ss_pred HcCceeeHHHHHHHHHHhCC-CCCCCeEeeecccCCccchHHHHHHHHHcCCC-cEEEEEcCHHHHHHHHHHHHHHH
Confidence 34668999999999999863 45678899999999999999998888887653 45778999999988777776554
No 196
>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=96.46 E-value=0.01 Score=61.44 Aligned_cols=28 Identities=25% Similarity=0.198 Sum_probs=22.8
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l~~~~ 202 (725)
.+.+|.-+.|+|||..|-+++..+...+
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~~~ 70 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKEMN 70 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHhcC
Confidence 4568999999999999988887776543
No 197
>PRK04296 thymidine kinase; Provisional
Probab=96.39 E-value=0.022 Score=55.93 Aligned_cols=34 Identities=21% Similarity=0.289 Sum_probs=26.9
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
.++.-+||.|||..++.++..+...+ .+++|+.|
T Consensus 5 ~litG~~GsGKTT~~l~~~~~~~~~g--~~v~i~k~ 38 (190)
T PRK04296 5 EFIYGAMNSGKSTELLQRAYNYEERG--MKVLVFKP 38 (190)
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHcC--CeEEEEec
Confidence 46778899999999999988877653 56777765
No 198
>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=96.36 E-value=0.019 Score=66.11 Aligned_cols=139 Identities=22% Similarity=0.228 Sum_probs=81.7
Q ss_pred chHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCC---CCCcEEEEcCccHH-HHHHHHHHhCCCceEE
Q 004880 158 SYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGL---HGPYLVIAPLSTLS-NWVNEISRFVPSVSAI 233 (725)
Q Consensus 158 ~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~---~~~~LIV~P~sll~-~W~~E~~~~~p~~~v~ 233 (725)
+.|..++...+. +.-.+|.-..|+|||.++..++..+..... ..++++++|+.--. ...+-+......+..
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 789999887775 566799999999999998888887765432 24689999976433 333333332211110
Q ss_pred EEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHH------HH-HhhhhcCccEEEEccccccCCcchHHHHHHhcC
Q 004880 234 IYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSD------AR-KYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI 306 (725)
Q Consensus 234 ~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~------~~-~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l 306 (725)
...... ..++-..|...+... .. ..-...++++||||||-.+-.. .+.+.+..+
T Consensus 223 ----~~~~~~-------------~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIiDEaSMvd~~--l~~~ll~al 283 (586)
T TIGR01447 223 ----AEALIA-------------ALPSEAVTIHRLLGIKPDTKRFRHHERNPLPLDVLVVDEASMVDLP--LMAKLLKAL 283 (586)
T ss_pred ----chhhhh-------------ccccccchhhhhhcccCCcchhhhcccCCCcccEEEEcccccCCHH--HHHHHHHhc
Confidence 000000 000001111111100 00 0011236799999999998533 455667778
Q ss_pred CCCcEEEEeccCCC
Q 004880 307 PIGNKLLLTGTPLQ 320 (725)
Q Consensus 307 ~~~~rllLTgTP~~ 320 (725)
+...|++|.|-|.|
T Consensus 284 ~~~~rlIlvGD~~Q 297 (586)
T TIGR01447 284 PPNTKLILLGDKNQ 297 (586)
T ss_pred CCCCEEEEECChhh
Confidence 88889999998765
No 199
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=96.15 E-value=0.043 Score=59.19 Aligned_cols=143 Identities=15% Similarity=0.278 Sum_probs=76.3
Q ss_pred HHHHHHHHHHHhcCCCC---eEEEcCCCCcHHHHHHHHHHHHHhCCC--CCCcEEEEcCccHHHHHHHHHHhCCCceEEE
Q 004880 160 QLKGVKWLISLWQNGLN---GILADQMGLGKTIQTIAFLAHLKGNGL--HGPYLVIAPLSTLSNWVNEISRFVPSVSAII 234 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~~---~ILademGlGKT~qaiali~~l~~~~~--~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~ 234 (725)
|..++..+...+..++. .++.-+.|+|||..+..++..+..... ..|.-...|......+..-...-.|++..+.
T Consensus 28 h~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~~~~hPdl~~l~ 107 (351)
T PRK09112 28 HEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIAQGAHPNLLHIT 107 (351)
T ss_pred cHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHHcCCCCCEEEee
Confidence 45567788877777763 588999999999999999998877321 2232222243333333322233345544332
Q ss_pred EeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHHHhcCCCC
Q 004880 235 YHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKELKYIPIG 309 (725)
Q Consensus 235 ~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l~~~ 309 (725)
-.... +. .+.. -.++.+.++. +..++. .-+|.++||||||.+.. ....+.+.+...+..
T Consensus 108 ~~~~~--~~------------~~~~-~~I~vd~iR~-l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~ 171 (351)
T PRK09112 108 RPFDE--KT------------GKFK-TAITVDEIRR-VGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPAR 171 (351)
T ss_pred ccccc--cc------------cccc-ccCCHHHHHH-HHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCC
Confidence 11000 00 0000 0122343332 234443 23689999999999952 223355555555444
Q ss_pred cE-EEEeccC
Q 004880 310 NK-LLLTGTP 318 (725)
Q Consensus 310 ~r-llLTgTP 318 (725)
.. +++|..|
T Consensus 172 ~~fiLit~~~ 181 (351)
T PRK09112 172 ALFILISHSS 181 (351)
T ss_pred ceEEEEECCh
Confidence 44 4555444
No 200
>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=95.94 E-value=0.042 Score=49.89 Aligned_cols=44 Identities=25% Similarity=0.232 Sum_probs=32.0
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNW 219 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W 219 (725)
+...+|.-++|+|||..+..++..+...+ ..++++.+......|
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~ 45 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEV 45 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccC
Confidence 45678899999999999888887766553 457777776554443
No 201
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.88 E-value=0.053 Score=60.26 Aligned_cols=43 Identities=21% Similarity=0.132 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHhcCCCC---eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 159 YQLKGVKWLISLWQNGLN---GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~~---~ILademGlGKT~qaiali~~l~~~ 201 (725)
.|...+..|.....++.- .|+.-+.|+|||..|..++..+...
T Consensus 22 GQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce 67 (484)
T PRK14956 22 HQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCE 67 (484)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcc
Confidence 355555555544444442 3899999999999999988887653
No 202
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=95.86 E-value=0.087 Score=61.23 Aligned_cols=145 Identities=23% Similarity=0.185 Sum_probs=72.5
Q ss_pred HHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEe
Q 004880 160 QLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYH 236 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~ 236 (725)
|...+..|...+.+++ +. |+.-.-|+|||..+..|+..+....... ..|...+.. ..++..- ....++.+.
T Consensus 21 Qe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~----~~PCG~C~s-Cr~I~~G-~h~DviEID 94 (830)
T PRK07003 21 QEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVT----SQPCGVCRA-CREIDEG-RFVDYVEMD 94 (830)
T ss_pred cHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCC----CCCCcccHH-HHHHhcC-CCceEEEec
Confidence 4555555555445443 33 8889999999999999888876432110 012222222 1122110 111223222
Q ss_pred CChh-hHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcc-hHHHHHHhcCCCCcEEEE
Q 004880 237 GSKK-ERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPK-CKLLKELKYIPIGNKLLL 314 (725)
Q Consensus 237 g~~~-~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~-s~~~~~l~~l~~~~rllL 314 (725)
.... ..+.++. +..........-+|+++||||+|++.+.. ..+.+.|.......+++|
T Consensus 95 Aas~rgVDdIRe--------------------LIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FIL 154 (830)
T PRK07003 95 AASNRGVDEMAA--------------------LLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFIL 154 (830)
T ss_pred ccccccHHHHHH--------------------HHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEE
Confidence 2110 0000100 11111001112368999999999996533 334455555566677888
Q ss_pred eccCCCCChHHhhhhh
Q 004880 315 TGTPLQNNLAELWSLL 330 (725)
Q Consensus 315 TgTP~~n~~~el~sll 330 (725)
+.|-.+.-+.-|.|-+
T Consensus 155 aTtd~~KIp~TIrSRC 170 (830)
T PRK07003 155 ATTDPQKIPVTVLSRC 170 (830)
T ss_pred EECChhhccchhhhhe
Confidence 8876555544555444
No 203
>PLN03025 replication factor C subunit; Provisional
Probab=95.79 E-value=0.11 Score=55.64 Aligned_cols=42 Identities=31% Similarity=0.358 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhcCC--CCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNG--LNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~--~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
|.+.+.++.....++ .+.++.-+.|+|||..+.+++..+...
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~ 61 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP 61 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 344455554433333 356999999999999999998887653
No 204
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.59 E-value=0.014 Score=64.51 Aligned_cols=135 Identities=18% Similarity=0.124 Sum_probs=71.0
Q ss_pred EcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc-CccHHHHHHHH----HHhCCCceEEEEeCChhhHHHHHHhcCCCCC
Q 004880 180 ADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP-LSTLSNWVNEI----SRFVPSVSAIIYHGSKKERDEIRRKHMPRAI 254 (725)
Q Consensus 180 ademGlGKT~qaiali~~l~~~~~~~~~LIV~P-~sll~~W~~E~----~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~ 254 (725)
-+.+|+|||+++.++|.++...|. ..+|..|- .+++..-...| ..-+--...+.+.+..-. ++...+-...
T Consensus 3 ~matgsgkt~~ma~lil~~y~kgy-r~flffvnq~nilekt~~nftd~~s~kylf~e~i~~~d~~i~---ikkvn~fseh 78 (812)
T COG3421 3 EMATGSGKTLVMAGLILECYKKGY-RNFLFFVNQANILEKTKLNFTDSVSSKYLFSENININDENIE---IKKVNNFSEH 78 (812)
T ss_pred ccccCCChhhHHHHHHHHHHHhch-hhEEEEecchhHHHHHHhhcccchhhhHhhhhhhhcCCceee---eeeecccCcc
Confidence 367999999999999999988765 45666665 44554322222 111100111222222211 1111111112
Q ss_pred CCCCCEEEecHHHHHHHHHHh---------hhhcCccEEEEccccccC---------------CcchHHHHHHhcCCCCc
Q 004880 255 GPKFPIVVTSYEVALSDARKY---------LRHYNWKYLVVDEGHRLK---------------NPKCKLLKELKYIPIGN 310 (725)
Q Consensus 255 ~~~~~vvItsye~~~~~~~~~---------l~~~~~~~vIvDEaH~ik---------------n~~s~~~~~l~~l~~~~ 310 (725)
.....|+.||.+.+..++... |...+ -+.+-||||++. |..+-+.-++..-+...
T Consensus 79 nd~iei~fttiq~l~~d~~~~ken~itledl~~~k-lvfl~deahhln~~tkkk~~de~~~~~~we~~v~la~~~nkd~~ 157 (812)
T COG3421 79 NDAIEIYFTTIQGLFSDFTRAKENAITLEDLKDQK-LVFLADEAHHLNTETKKKLNDEASEKRNWESVVKLALEQNKDNL 157 (812)
T ss_pred CCceEEEEeehHHHHHHHHhhccccccHhhHhhCc-eEEEechhhhhhhhhhhhcccHHHHHhhHHHHHHHHHhcCCCce
Confidence 345678999998887775221 22221 245669999983 22333334444445555
Q ss_pred EEEEeccCC
Q 004880 311 KLLLTGTPL 319 (725)
Q Consensus 311 rllLTgTP~ 319 (725)
.+..|||-.
T Consensus 158 ~lef~at~~ 166 (812)
T COG3421 158 LLEFSATIP 166 (812)
T ss_pred eehhhhcCC
Confidence 566677643
No 205
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=95.58 E-value=0.065 Score=61.96 Aligned_cols=141 Identities=15% Similarity=0.180 Sum_probs=82.0
Q ss_pred ccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC--CCCCcEEEEcCccHHHHHHH-HHHhCCCceE
Q 004880 156 LKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG--LHGPYLVIAPLSTLSNWVNE-ISRFVPSVSA 232 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~--~~~~~LIV~P~sll~~W~~E-~~~~~p~~~v 232 (725)
.-+.|+.++.-.+. ..-.+|.-..|+|||.++..++..+.... ...++++++|+.--..=..| +..-...+..
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 45899999977764 55679999999999999988888776532 23468888997644332222 2221111100
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHH------H-HHhhhhcCccEEEEccccccCCcchHHHHHHhc
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSD------A-RKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKY 305 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~------~-~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~ 305 (725)
....+. ..+.-..|...+... . ...-...++++||||||..+- ...+...+..
T Consensus 229 -----~~~~~~-------------~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd--~~lm~~ll~a 288 (615)
T PRK10875 229 -----TDEQKK-------------RIPEEASTLHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEASMVD--LPMMARLIDA 288 (615)
T ss_pred -----chhhhh-------------cCCCchHHHHHHhCcCCCccchhhccccCCCCCeEEEChHhccc--HHHHHHHHHh
Confidence 000000 000001111111110 0 000112356999999999984 3345566777
Q ss_pred CCCCcEEEEeccCCC
Q 004880 306 IPIGNKLLLTGTPLQ 320 (725)
Q Consensus 306 l~~~~rllLTgTP~~ 320 (725)
++...||+|-|-|-|
T Consensus 289 l~~~~rlIlvGD~~Q 303 (615)
T PRK10875 289 LPPHARVIFLGDRDQ 303 (615)
T ss_pred cccCCEEEEecchhh
Confidence 888899999998866
No 206
>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=95.58 E-value=0.031 Score=58.59 Aligned_cols=38 Identities=21% Similarity=0.276 Sum_probs=27.6
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCC--CCcEEEE
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLH--GPYLVIA 211 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~--~~~LIV~ 211 (725)
+.+.++.-++|+|||..|-++...+...+.. ++++.+.
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 4467888999999999998888877765432 3444444
No 207
>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=95.57 E-value=0.082 Score=54.86 Aligned_cols=42 Identities=17% Similarity=0.161 Sum_probs=28.2
Q ss_pred chHHHHHHHHHHHhcCCC-CeEEEcCCCCcHHHHHHHHHHHHH
Q 004880 158 SYQLKGVKWLISLWQNGL-NGILADQMGLGKTIQTIAFLAHLK 199 (725)
Q Consensus 158 ~yQ~~gv~~l~~~~~~~~-~~ILademGlGKT~qaiali~~l~ 199 (725)
+.+..++..+......+. ..+|.-+.|+|||..+-.++..+.
T Consensus 26 ~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 26 KGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 444556666654444444 468899999999988777665544
No 208
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.57 E-value=0.19 Score=54.86 Aligned_cols=130 Identities=13% Similarity=0.062 Sum_probs=74.6
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCC--CCCCcEEEEcCc--cHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCC
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNG--LHGPYLVIAPLS--TLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMP 251 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~--~~~~~LIV~P~s--ll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~ 251 (725)
..++.-.+|.|||.++.-+++++.... ...++.+|+=.. .-..|+ ++.|+-.+.+-+
T Consensus 176 vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQ--L~~~a~~lgvpv----------------- 236 (388)
T PRK12723 176 VFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQ--IQTYGDIMGIPV----------------- 236 (388)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHH--HHHHhhcCCcce-----------------
Confidence 457888999999999988877766432 234566666533 112222 444442111111
Q ss_pred CCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcch---HHHHHHhcCC--CCcEEEEeccCCCCChHHh
Q 004880 252 RAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKC---KLLKELKYIP--IGNKLLLTGTPLQNNLAEL 326 (725)
Q Consensus 252 ~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s---~~~~~l~~l~--~~~rllLTgTP~~n~~~el 326 (725)
.++.+++.+...+. .+ .+.++||||++.+...... .+...+.... ....|.|+||--++.+.++
T Consensus 237 --------~~~~~~~~l~~~L~-~~--~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~ 305 (388)
T PRK12723 237 --------KAIESFKDLKEEIT-QS--KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEI 305 (388)
T ss_pred --------EeeCcHHHHHHHHH-Hh--CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHH
Confidence 12234444433331 22 3579999999998863322 2333333333 2456899999888888887
Q ss_pred hhhhccccC
Q 004880 327 WSLLHFILP 335 (725)
Q Consensus 327 ~sll~~l~p 335 (725)
+.-...+.+
T Consensus 306 ~~~~~~~~~ 314 (388)
T PRK12723 306 FHQFSPFSY 314 (388)
T ss_pred HHHhcCCCC
Confidence 776655433
No 209
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=95.50 E-value=0.098 Score=56.22 Aligned_cols=43 Identities=23% Similarity=0.151 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhcCCC--CeEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 160 QLKGVKWLISLWQNGL--NGILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~~ILademGlGKT~qaiali~~l~~~~ 202 (725)
|...+.++......+. +.++.-+.|+|||..+.+++..+...+
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~ 64 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDP 64 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcc
Confidence 3334555555555555 679999999999999999988876543
No 210
>CHL00181 cbbX CbbX; Provisional
Probab=95.50 E-value=0.038 Score=57.94 Aligned_cols=30 Identities=27% Similarity=0.310 Sum_probs=24.1
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCC
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGL 203 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~ 203 (725)
+.+.+|.-++|+|||..|-+++..+...+.
T Consensus 59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~ 88 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALKMADILYKLGY 88 (287)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence 345689999999999999998887766543
No 211
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=95.45 E-value=1.5 Score=52.46 Aligned_cols=67 Identities=16% Similarity=0.076 Sum_probs=46.9
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhC-C-CCCCcEEEEcCc-cHHHHHHHHHHhC
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGN-G-LHGPYLVIAPLS-TLSNWVNEISRFV 227 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~-~-~~~~~LIV~P~s-ll~~W~~E~~~~~ 227 (725)
.|-|-|.++|.+- .+..++-...|+|||.+.+.-+++|... + ....+|+|+-+. ......+.+.+..
T Consensus 9 ~Ln~~Q~~av~~~------~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~ 78 (721)
T PRK11773 9 SLNDKQREAVAAP------LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLL 78 (721)
T ss_pred hcCHHHHHHHhCC------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHh
Confidence 4889999988643 4566777789999999999999999874 3 234578888744 3334444454443
No 212
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=95.28 E-value=0.21 Score=54.82 Aligned_cols=123 Identities=17% Similarity=0.220 Sum_probs=62.1
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGP 256 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~ 256 (725)
-|+.-+.|+|||..|.+++..+......+ .|-..+..=..-....+|++.++.-.|..
T Consensus 39 ~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~-----~~Cg~C~~C~~~~~~~hpD~~~i~~~~~~----------------- 96 (394)
T PRK07940 39 WLFTGPPGSGRSVAARAFAAALQCTDPDE-----PGCGECRACRTVLAGTHPDVRVVAPEGLS----------------- 96 (394)
T ss_pred EEEECCCCCcHHHHHHHHHHHhCCCCCCC-----CCCCCCHHHHHHhcCCCCCEEEecccccc-----------------
Confidence 47889999999999999988876543211 13223322222222334444333211111
Q ss_pred CCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCCcc-hHHHHHHhcCCCCcEEEEeccCCCCChHHhhh
Q 004880 257 KFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKNPK-CKLLKELKYIPIGNKLLLTGTPLQNNLAELWS 328 (725)
Q Consensus 257 ~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn~~-s~~~~~l~~l~~~~rllLTgTP~~n~~~el~s 328 (725)
.+.+.++.- ...+. .-++.++||||+|++.... ..+.+.+...+....++|++|-...-+.-+.|
T Consensus 97 ------i~i~~iR~l-~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrS 166 (394)
T PRK07940 97 ------IGVDEVREL-VTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRS 166 (394)
T ss_pred ------CCHHHHHHH-HHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHh
Confidence 112222211 11111 2357899999999995322 23444454445555566665543333333443
No 213
>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=95.21 E-value=0.2 Score=47.82 Aligned_cols=141 Identities=21% Similarity=0.282 Sum_probs=78.0
Q ss_pred HHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHH-HhCCCceEEEE
Q 004880 160 QLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEIS-RFVPSVSAIIY 235 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~-~~~p~~~v~~~ 235 (725)
|.+.+..+...+.++. .. |+.-+.|.||+-.|..++..+........ |-.....-. .+. .-.|++..+
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~-----~c~~c~~c~-~~~~~~~~d~~~~-- 73 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNED-----PCGECRSCR-RIEEGNHPDFIII-- 73 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT-------SSSHHHH-HHHTT-CTTEEEE--
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCC-----CCCCCHHHH-HHHhccCcceEEE--
Confidence 5666777777776653 33 88889999999999999999987654444 322333222 232 223443333
Q ss_pred eCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHHHhcCCCCc
Q 004880 236 HGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKELKYIPIGN 310 (725)
Q Consensus 236 ~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l~~~~ 310 (725)
......+ . ..-+.++ ++..++. ..+++++|||+||++.. ....+.+.+-..+...
T Consensus 74 ~~~~~~~----------------~---i~i~~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~ 133 (162)
T PF13177_consen 74 KPDKKKK----------------S---IKIDQIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENT 133 (162)
T ss_dssp ETTTSSS----------------S---BSHHHHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTE
T ss_pred ecccccc----------------h---hhHHHHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCE
Confidence 2221100 0 1112232 2122221 13588999999999863 4445666667777788
Q ss_pred EEEEeccCCCCChHHhhh
Q 004880 311 KLLLTGTPLQNNLAELWS 328 (725)
Q Consensus 311 rllLTgTP~~n~~~el~s 328 (725)
+++|+.+-..+-+.-+.|
T Consensus 134 ~fiL~t~~~~~il~TI~S 151 (162)
T PF13177_consen 134 YFILITNNPSKILPTIRS 151 (162)
T ss_dssp EEEEEES-GGGS-HHHHT
T ss_pred EEEEEECChHHChHHHHh
Confidence 888888765555544444
No 214
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=95.20 E-value=0.18 Score=58.39 Aligned_cols=42 Identities=19% Similarity=0.156 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhcCCC--C-eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGL--N-GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~-~ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+..|...+.+++ + .|+.-+.|+|||..+-.++..+...
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 4444555555555543 2 3789999999999999998888763
No 215
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.14 E-value=0.12 Score=59.37 Aligned_cols=41 Identities=17% Similarity=0.191 Sum_probs=28.0
Q ss_pred HHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 161 LKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 161 ~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~~ 201 (725)
...+..|...+.+++ +. |+.-..|+|||..+..++..+...
T Consensus 22 e~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~ 65 (700)
T PRK12323 22 EHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCT 65 (700)
T ss_pred HHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 333344444334443 33 888999999999999999888753
No 216
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=95.11 E-value=0.14 Score=60.12 Aligned_cols=150 Identities=19% Similarity=0.258 Sum_probs=87.9
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHHHHHhCCCceEE
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNEISRFVPSVSAI 233 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E~~~~~p~~~v~ 233 (725)
.|-.-|..|+...+. ......|+.+ +|+|||-+...++..|...| +.+|+.+=++ .++|-.--++.+. +.++
T Consensus 669 ~LN~dQr~A~~k~L~--aedy~LI~GM-PGTGKTTtI~~LIkiL~~~g--kkVLLtsyThsAVDNILiKL~~~~--i~~l 741 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALA--AEDYALILGM-PGTGKTTTISLLIKILVALG--KKVLLTSYTHSAVDNILIKLKGFG--IYIL 741 (1100)
T ss_pred hcCHHHHHHHHHHHh--ccchheeecC-CCCCchhhHHHHHHHHHHcC--CeEEEEehhhHHHHHHHHHHhccC--ccee
Confidence 577789999876664 3334445555 89999999999999888875 5788888754 6777766666553 2222
Q ss_pred EEeCCh-hhHHHHHHhcCCC-----------CCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHH
Q 004880 234 IYHGSK-KERDEIRRKHMPR-----------AIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLK 301 (725)
Q Consensus 234 ~~~g~~-~~r~~~~~~~~~~-----------~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~ 301 (725)
- .|+. ..-..+...-... .......||.+|-=-+. ...|..-+|||+|||||-.+--+-+
T Consensus 742 R-LG~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~---~plf~~R~FD~cIiDEASQI~lP~~---- 813 (1100)
T KOG1805|consen 742 R-LGSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGIN---HPLFVNRQFDYCIIDEASQILLPLC---- 813 (1100)
T ss_pred e-cCCccccchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCC---chhhhccccCEEEEccccccccchh----
Confidence 1 2222 1111111111000 01133455555532221 2346666799999999988754432
Q ss_pred HHhcCCCCcEEEEeccCCC
Q 004880 302 ELKYIPIGNKLLLTGTPLQ 320 (725)
Q Consensus 302 ~l~~l~~~~rllLTgTP~~ 320 (725)
|--+....+..|-|-+.|
T Consensus 814 -LgPL~~s~kFVLVGDh~Q 831 (1100)
T KOG1805|consen 814 -LGPLSFSNKFVLVGDHYQ 831 (1100)
T ss_pred -hhhhhhcceEEEeccccc
Confidence 233345567777776644
No 217
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=95.09 E-value=0.14 Score=57.92 Aligned_cols=43 Identities=23% Similarity=0.074 Sum_probs=31.5
Q ss_pred hHHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 159 YQLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~ 201 (725)
-|...+..+...+.+++ ..|+.-+.|+|||..|-.++..+...
T Consensus 25 Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~ 70 (507)
T PRK06645 25 GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCS 70 (507)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 35555555555445444 56899999999999999998888653
No 218
>PRK06526 transposase; Provisional
Probab=95.00 E-value=0.12 Score=53.13 Aligned_cols=54 Identities=20% Similarity=0.276 Sum_probs=38.1
Q ss_pred HHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHH
Q 004880 162 KGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISR 225 (725)
Q Consensus 162 ~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~ 225 (725)
.+..|+- .+.|.+|.-++|+|||..+.++...+...|. +++++ ....|.+++..
T Consensus 90 ~~~~fi~----~~~nlll~Gp~GtGKThLa~al~~~a~~~g~--~v~f~----t~~~l~~~l~~ 143 (254)
T PRK06526 90 GTLDFVT----GKENVVFLGPPGTGKTHLAIGLGIRACQAGH--RVLFA----TAAQWVARLAA 143 (254)
T ss_pred hcCchhh----cCceEEEEeCCCCchHHHHHHHHHHHHHCCC--chhhh----hHHHHHHHHHH
Confidence 3445664 4778899999999999999999888876642 44443 33567776653
No 219
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=94.98 E-value=0.18 Score=59.66 Aligned_cols=66 Identities=12% Similarity=0.045 Sum_probs=43.1
Q ss_pred cccCCcccchHHHHHHHHHHHhcCC-----CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH
Q 004880 150 LLTGGKLKSYQLKGVKWLISLWQNG-----LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL 216 (725)
Q Consensus 150 ~~~~~~Lr~yQ~~gv~~l~~~~~~~-----~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll 216 (725)
.+.+...||-|.+.+..+...+..+ ..+++=..||+|||+.-+.-+..... ....+++|-+.+..+
T Consensus 20 ~~~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~-~~~k~vVIST~T~~L 90 (697)
T PRK11747 20 QLPGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIAR-AEKKKLVISTATVAL 90 (697)
T ss_pred hCCCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHH-HcCCeEEEEcCCHHH
Confidence 3456789999999888888877763 45566679999999885543332222 122455555554444
No 220
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.86 E-value=0.19 Score=54.71 Aligned_cols=42 Identities=21% Similarity=0.139 Sum_probs=30.7
Q ss_pred hHHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHh
Q 004880 159 YQLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~ 200 (725)
-|...+..+...+..+. +. ++.-+.|+|||..|-+++..+..
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c 64 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNC 64 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcC
Confidence 45556666666555443 34 89999999999999998888764
No 221
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.85 E-value=0.18 Score=57.20 Aligned_cols=42 Identities=19% Similarity=0.214 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+..|...+.++. +. |+.-+.|+|||..|-.++..+...
T Consensus 21 q~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~ 65 (509)
T PRK14958 21 QAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCE 65 (509)
T ss_pred CHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 4455555555544432 33 889999999999999998888653
No 222
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=94.81 E-value=0.27 Score=52.62 Aligned_cols=137 Identities=14% Similarity=0.075 Sum_probs=74.8
Q ss_pred cccchHHHHHHHHHHHhcCCCC-eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEE
Q 004880 155 KLKSYQLKGVKWLISLWQNGLN-GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAI 233 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~-~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~ 233 (725)
.++|+|.....-++.. .+-.. -++.-+.|+|||..|..++..+.-..+.+. .|-..+.....-...-.|++..+
T Consensus 3 ~~yPWl~~~~~~~~~~-~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~----~~Cg~C~sC~~~~~g~HPD~~~i 77 (328)
T PRK05707 3 EIYPWQQSLWQQLAGR-GRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGG----GACGSCKGCQLLRAGSHPDNFVL 77 (328)
T ss_pred cCCCCcHHHHHHHHHC-CCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCC----CCCCCCHHHHHHhcCCCCCEEEE
Confidence 3579998888777753 11122 368899999999999999999886432211 13334444333233334544333
Q ss_pred EEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHHHhcCCC
Q 004880 234 IYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKELKYIPI 308 (725)
Q Consensus 234 ~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l~~ 308 (725)
.-.+... . .+-+.++.- ...+. .-+++++||||||++.. ....+.+.+-.-+.
T Consensus 78 ~~~~~~~------------------~---i~id~iR~l-~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~ 135 (328)
T PRK05707 78 EPEEADK------------------T---IKVDQVREL-VSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSG 135 (328)
T ss_pred eccCCCC------------------C---CCHHHHHHH-HHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCC
Confidence 2211100 0 111222221 12221 23589999999999963 33345555555555
Q ss_pred CcEEEEeccC
Q 004880 309 GNKLLLTGTP 318 (725)
Q Consensus 309 ~~rllLTgTP 318 (725)
...++|+.+-
T Consensus 136 ~~~fiL~t~~ 145 (328)
T PRK05707 136 DTVLLLISHQ 145 (328)
T ss_pred CeEEEEEECC
Confidence 5555555553
No 223
>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=94.78 E-value=0.98 Score=49.84 Aligned_cols=148 Identities=14% Similarity=0.185 Sum_probs=106.0
Q ss_pred cHHHHHHH-HHHHHh--hCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 480 GKFRLLDR-LLARLF--ARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 480 ~K~~~L~~-ll~~l~--~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
.++....+ +|+.+. ....++|||.++=--.-.|..+|...++.|+.++--++..+-.++-..|.. +...++|.+-
T Consensus 281 ~Rf~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~--G~~~iLL~TE 358 (442)
T PF06862_consen 281 ARFKYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFH--GRKPILLYTE 358 (442)
T ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHc--CCceEEEEEh
Confidence 35555444 666665 345789999877666667889999999999999999999999999999997 4666777776
Q ss_pred cccc-CCCCCCCCCEEEEeCCCCCcchhhhHhHhhHhcCC----CCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcC
Q 004880 557 RAGG-LGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQ----TKPVHVYRLATAQSVEGRILKRAFSKLKLEHVVIGK 631 (725)
Q Consensus 557 ~agg-~GiNL~~a~~VI~~D~~wNp~~~~Qa~gR~~RiGQ----~k~V~Vyrli~~~TiEe~i~~~~~~K~~l~~~vi~~ 631 (725)
|+-= .=..+.++.+||+|.||-+|.-|...+.-...-.+ ..++.|.-|+++ .|..-++|...-.+..+++-++
T Consensus 359 R~HFfrRy~irGi~~viFY~~P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk--~D~~~LErIVGt~ra~~ml~~~ 436 (442)
T PF06862_consen 359 RFHFFRRYRIRGIRHVIFYGPPENPQFYSELLNMLDESSGGEVDAADATVTVLYSK--YDALRLERIVGTERASKMLQSD 436 (442)
T ss_pred HHhhhhhceecCCcEEEEECCCCChhHHHHHHhhhcccccccccccCceEEEEecH--hHHHHHHHHhCHHHHHHHhcCC
Confidence 6432 23456679999999999999999887765544333 344566666665 4666666666655555555443
No 224
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.69 E-value=0.47 Score=54.62 Aligned_cols=42 Identities=21% Similarity=0.151 Sum_probs=31.0
Q ss_pred hHHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHh
Q 004880 159 YQLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~ 200 (725)
.|...+..|...+.++. +. |+.-..|+|||..+..++..+..
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 35566666666555543 33 78999999999999999988875
No 225
>PRK08181 transposase; Validated
Probab=94.57 E-value=0.36 Score=50.04 Aligned_cols=47 Identities=26% Similarity=0.147 Sum_probs=34.7
Q ss_pred ccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 156 LKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~ 202 (725)
+.+-|...+..+-....++.|.+|.-++|+|||..+.++...+...|
T Consensus 88 ~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g 134 (269)
T PRK08181 88 VSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENG 134 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcC
Confidence 44566666644422235678899999999999999999988887764
No 226
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=94.52 E-value=3.1 Score=49.89 Aligned_cols=53 Identities=25% Similarity=0.083 Sum_probs=40.6
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCC--CCcEEEEcC
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLH--GPYLVIAPL 213 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~--~~~LIV~P~ 213 (725)
.|-|-|.++|.+. .+..++-...|+|||.+.+.-++++...+.. ..+|+++-+
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 4889999988643 4567777789999999999999999875322 347777765
No 227
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.50 E-value=0.34 Score=55.85 Aligned_cols=41 Identities=22% Similarity=0.221 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHh
Q 004880 160 QLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~ 200 (725)
|...+..|...+.+++ ++ |+.-..|+|||..|.+++..+..
T Consensus 20 Qe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC 63 (702)
T PRK14960 20 QNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNC 63 (702)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 3333444444444443 33 89999999999999988888764
No 228
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.47 E-value=0.29 Score=58.11 Aligned_cols=42 Identities=19% Similarity=0.196 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhcCC--CCe-EEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNG--LNG-ILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~--~~~-ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+..|...+.++ .+. |+.-+.|+|||..+-.|+..+...
T Consensus 21 Qe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce 65 (944)
T PRK14949 21 QSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCE 65 (944)
T ss_pred cHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCc
Confidence 444444444444433 234 799999999999999999887653
No 229
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=94.44 E-value=0.63 Score=49.58 Aligned_cols=145 Identities=16% Similarity=0.147 Sum_probs=80.4
Q ss_pred ccchHHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceE
Q 004880 156 LKSYQLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v 232 (725)
++|+|...-..+...+.+++ ++ ++.-+.|+||+..|.+++..+.-....+. -|-..+..-..-...-.|++..
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~----~~Cg~C~sC~~~~~g~HPD~~~ 78 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGD----QPCGQCHSCHLFQAGNHPDFHI 78 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCC----CCCCCCHHHHHHhcCCCCCEEE
Confidence 57888888877887777654 34 67899999999999999999886432210 1222333222212222454433
Q ss_pred EEE-eCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhh----hhcCccEEEEccccccCC-cchHHHHHHhcC
Q 004880 233 IIY-HGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYL----RHYNWKYLVVDEGHRLKN-PKCKLLKELKYI 306 (725)
Q Consensus 233 ~~~-~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l----~~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l 306 (725)
+.- .|.. ..-+.++.- .+.+ ..-+++++|||+||++.. ....+.+.+-.-
T Consensus 79 i~p~~~~~-----------------------I~id~iR~l-~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEP 134 (325)
T PRK06871 79 LEPIDNKD-----------------------IGVDQVREI-NEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEP 134 (325)
T ss_pred EccccCCC-----------------------CCHHHHHHH-HHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCC
Confidence 311 0100 112222221 1222 123589999999999963 333455555555
Q ss_pred CCCcEEEEeccCCCCChHHhhh
Q 004880 307 PIGNKLLLTGTPLQNNLAELWS 328 (725)
Q Consensus 307 ~~~~rllLTgTP~~n~~~el~s 328 (725)
+....++|+.+-...-+.-+.|
T Consensus 135 p~~~~fiL~t~~~~~llpTI~S 156 (325)
T PRK06871 135 RPNTYFLLQADLSAALLPTIYS 156 (325)
T ss_pred CCCeEEEEEECChHhCchHHHh
Confidence 5666667766644444444443
No 230
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.27 E-value=0.51 Score=53.57 Aligned_cols=43 Identities=19% Similarity=0.248 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhcCCCC--e-EEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 160 QLKGVKWLISLWQNGLN--G-ILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~~--~-ILademGlGKT~qaiali~~l~~~~ 202 (725)
|...+..|......+.- . ++.-+.|+|||..+.+++..+...+
T Consensus 19 q~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~ 64 (504)
T PRK14963 19 QEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSG 64 (504)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence 44455555555454443 3 8999999999999999998887544
No 231
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=94.20 E-value=0.47 Score=50.40 Aligned_cols=155 Identities=15% Similarity=0.147 Sum_probs=85.5
Q ss_pred CcccchHHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCc
Q 004880 154 GKLKSYQLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSV 230 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~ 230 (725)
..++|+|......+...+.+++ .-++.-+.|+||+..|.+++..+.-.+....- .|+ .-+|.. ..-+|++
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~--~c~---~c~~~~--~g~HPD~ 75 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAA--AQR---TRQLIA--AGTHPDL 75 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCC--cch---HHHHHh--cCCCCCE
Confidence 4688999999988888776655 24788999999999999999998865422100 111 112211 1224555
Q ss_pred eEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHHHhc
Q 004880 231 SAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKELKY 305 (725)
Q Consensus 231 ~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~l~~ 305 (725)
.++-......... .+.. ++-+.++.- ..++. .-+++++|||+|+++.. ....+.+.+-.
T Consensus 76 ~~i~~~p~~~~~k------------~~~~---I~idqIR~l-~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEE 139 (319)
T PRK08769 76 QLVSFIPNRTGDK------------LRTE---IVIEQVREI-SQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEE 139 (319)
T ss_pred EEEecCCCccccc------------cccc---ccHHHHHHH-HHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhC
Confidence 4442111100000 0011 122333222 12222 12578999999999963 33345555556
Q ss_pred CCCCcEEEEeccCCCCChHHhhhhhc
Q 004880 306 IPIGNKLLLTGTPLQNNLAELWSLLH 331 (725)
Q Consensus 306 l~~~~rllLTgTP~~n~~~el~sll~ 331 (725)
-+....++|++.-...-+.-+-|-..
T Consensus 140 Pp~~~~fiL~~~~~~~lLpTIrSRCq 165 (319)
T PRK08769 140 PSPGRYLWLISAQPARLPATIRSRCQ 165 (319)
T ss_pred CCCCCeEEEEECChhhCchHHHhhhe
Confidence 56666677776644444444444333
No 232
>PF13173 AAA_14: AAA domain
Probab=94.16 E-value=0.3 Score=44.46 Aligned_cols=41 Identities=24% Similarity=0.199 Sum_probs=27.9
Q ss_pred CccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccCCCC
Q 004880 280 NWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPLQN 321 (725)
Q Consensus 280 ~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n 321 (725)
+-.+|++||+|++.+....+-..+.. ....++++||+-...
T Consensus 61 ~~~~i~iDEiq~~~~~~~~lk~l~d~-~~~~~ii~tgS~~~~ 101 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDWEDALKFLVDN-GPNIKIILTGSSSSL 101 (128)
T ss_pred CCcEEEEehhhhhccHHHHHHHHHHh-ccCceEEEEccchHH
Confidence 56899999999998654433333332 245689999986443
No 233
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.13 E-value=0.66 Score=50.28 Aligned_cols=124 Identities=15% Similarity=0.200 Sum_probs=67.6
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc----cHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS----TLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPR 252 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s----ll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~ 252 (725)
..|.-..|+|||..+..++..+...+ .++.+|+-.. .+.||.. |...
T Consensus 244 I~LVGptGvGKTTTiaKLA~~L~~~G--kkVglI~aDt~RiaAvEQLk~----yae~----------------------- 294 (436)
T PRK11889 244 IALIGPTGVGKTTTLAKMAWQFHGKK--KTVGFITTDHSRIGTVQQLQD----YVKT----------------------- 294 (436)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHcC--CcEEEEecCCcchHHHHHHHH----Hhhh-----------------------
Confidence 46778899999999998888776543 4566666522 3445443 3211
Q ss_pred CCCCCCCEE-EecHHHHHHHHHHhhhh-cCccEEEEccccccCCcchH---HHHHHhcCCC-CcEEEEeccCCCCChHHh
Q 004880 253 AIGPKFPIV-VTSYEVALSDARKYLRH-YNWKYLVVDEGHRLKNPKCK---LLKELKYIPI-GNKLLLTGTPLQNNLAEL 326 (725)
Q Consensus 253 ~~~~~~~vv-Itsye~~~~~~~~~l~~-~~~~~vIvDEaH~ikn~~s~---~~~~l~~l~~-~~rllLTgTP~~n~~~el 326 (725)
...+++ +.+...+...+ ..+.. .++++||||-+=+..+.... +.+.+..... ...|.|+||--++.+.++
T Consensus 295 ---lgipv~v~~d~~~L~~aL-~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i 370 (436)
T PRK11889 295 ---IGFEVIAVRDEAAMTRAL-TYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEI 370 (436)
T ss_pred ---cCCcEEecCCHHHHHHHH-HHHHhccCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHH
Confidence 112333 23444444333 33332 35899999998775433222 2222222222 223557777666666666
Q ss_pred hhhhccc
Q 004880 327 WSLLHFI 333 (725)
Q Consensus 327 ~sll~~l 333 (725)
...++-+
T Consensus 371 ~~~F~~~ 377 (436)
T PRK11889 371 ITNFKDI 377 (436)
T ss_pred HHHhcCC
Confidence 6555543
No 234
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=94.07 E-value=0.76 Score=49.32 Aligned_cols=148 Identities=16% Similarity=0.090 Sum_probs=83.9
Q ss_pred cccchHHHHHHHHHHHhcCCCC---eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCce
Q 004880 155 KLKSYQLKGVKWLISLWQNGLN---GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVS 231 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~---~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~ 231 (725)
.++|+|...-..+...+.+++- -+++-+.|+||+..|.+++.++.-.++.+.. |-..+..-..-...-+|++.
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~----~Cg~C~sC~~~~~g~HPD~~ 77 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHK----SCGHCRGCQLMQAGTHPDYY 77 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCC----CCCCCHHHHHHHcCCCCCEE
Confidence 4689998888888888776653 3788999999999999999998864322110 22233332222223345554
Q ss_pred EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHHHhcC
Q 004880 232 AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKELKYI 306 (725)
Q Consensus 232 v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l 306 (725)
.+.-.+++. ..+-+.++.-. +.+. .-+|+++|||+|+++.. ....+.+.|-.-
T Consensus 78 ~i~p~~~~~---------------------~I~idqiR~l~-~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEP 135 (334)
T PRK07993 78 TLTPEKGKS---------------------SLGVDAVREVT-EKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEP 135 (334)
T ss_pred EEecccccc---------------------cCCHHHHHHHH-HHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCC
Confidence 332111100 11223332221 2221 23689999999999963 334455555555
Q ss_pred CCCcEEEEeccCCCCChHHhhh
Q 004880 307 PIGNKLLLTGTPLQNNLAELWS 328 (725)
Q Consensus 307 ~~~~rllLTgTP~~n~~~el~s 328 (725)
+....++|+++-...-+.-+.|
T Consensus 136 p~~t~fiL~t~~~~~lLpTIrS 157 (334)
T PRK07993 136 PENTWFFLACREPARLLATLRS 157 (334)
T ss_pred CCCeEEEEEECChhhChHHHHh
Confidence 5666666666543444444443
No 235
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.06 E-value=0.49 Score=52.50 Aligned_cols=131 Identities=18% Similarity=0.201 Sum_probs=70.8
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHH-hCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCC
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHLK-GNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRA 253 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l~-~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~ 253 (725)
...+++-.+|.|||.+++.++..+. ..+ ..++.+|+-..--..=..++..|.-..
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~-g~~V~li~~D~~r~~a~eqL~~~a~~~----------------------- 277 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYG-KKKVALITLDTYRIGAVEQLKTYAKIM----------------------- 277 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcC-CCeEEEEECCccHHHHHHHHHHHHHHh-----------------------
Confidence 3457778899999999998888776 332 235555554321100112333332100
Q ss_pred CCCCCCE-EEecHHHHHHHHHHhhhhcCccEEEEccccccCCcch---HHHHHHhc--CCCCcEEEEeccCCCCChHHhh
Q 004880 254 IGPKFPI-VVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKC---KLLKELKY--IPIGNKLLLTGTPLQNNLAELW 327 (725)
Q Consensus 254 ~~~~~~v-vItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s---~~~~~l~~--l~~~~rllLTgTP~~n~~~el~ 327 (725)
..++ ++.+...+...+. .+ .++++||||-+-+...... .+...+.. .+....++|++|+-++.+.+++
T Consensus 278 ---~vp~~~~~~~~~l~~~l~-~~--~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~ 351 (424)
T PRK05703 278 ---GIPVEVVYDPKELAKALE-QL--RDCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIY 351 (424)
T ss_pred ---CCceEccCCHHhHHHHHH-Hh--CCCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHH
Confidence 0111 1222332322221 12 2579999999877543221 12222221 1334568999999888888888
Q ss_pred hhhccccC
Q 004880 328 SLLHFILP 335 (725)
Q Consensus 328 sll~~l~p 335 (725)
..++.+.+
T Consensus 352 ~~f~~~~~ 359 (424)
T PRK05703 352 KHFSRLPL 359 (424)
T ss_pred HHhCCCCC
Confidence 77776654
No 236
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=94.03 E-value=0.34 Score=56.02 Aligned_cols=136 Identities=21% Similarity=0.186 Sum_probs=70.5
Q ss_pred hHHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhCCC--C-CCcEEEEcCccHHHHHHHHHHhCCCceE
Q 004880 159 YQLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGNGL--H-GPYLVIAPLSTLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~~~--~-~~~LIV~P~sll~~W~~E~~~~~p~~~v 232 (725)
.|...+..+...+..++ .-|+.-..|+|||..|..++..+...+. . +|.+- |...+.+...-.....|++
T Consensus 28 Gq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~--~cg~c~~C~~i~~g~h~Dv-- 103 (598)
T PRK09111 28 GQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID--LCGVGEHCQAIMEGRHVDV-- 103 (598)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc--cCcccHHHHHHhcCCCCce--
Confidence 35555666666555554 3588899999999999999988875432 1 34332 2233333322222222332
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCCc-chHHHHHHhcCC
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKNP-KCKLLKELKYIP 307 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn~-~s~~~~~l~~l~ 307 (725)
+.+.... .+..+.++.- ...+. .-++++|||||+|.+... ...+.+.|...+
T Consensus 104 ~e~~a~s----------------------~~gvd~IReI-ie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp 160 (598)
T PRK09111 104 LEMDAAS----------------------HTGVDDIREI-IESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPP 160 (598)
T ss_pred EEecccc----------------------cCCHHHHHHH-HHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCC
Confidence 2221110 0111222111 11111 225789999999999632 233444455555
Q ss_pred CCcEEEEeccCCCC
Q 004880 308 IGNKLLLTGTPLQN 321 (725)
Q Consensus 308 ~~~rllLTgTP~~n 321 (725)
....++|+.|-...
T Consensus 161 ~~~~fIl~tte~~k 174 (598)
T PRK09111 161 PHVKFIFATTEIRK 174 (598)
T ss_pred CCeEEEEEeCChhh
Confidence 56666666664444
No 237
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=94.03 E-value=0.14 Score=53.98 Aligned_cols=56 Identities=18% Similarity=0.122 Sum_probs=35.6
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHH-HHHHhCCCCCCcEEEEcCccH
Q 004880 159 YQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFL-AHLKGNGLHGPYLVIAPLSTL 216 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali-~~l~~~~~~~~~LIV~P~sll 216 (725)
+|.-++..|+. ..-.=+.|.-.-|+|||+-|+|.. ....+++...+++|-=|..-+
T Consensus 232 eQ~~ALdlLld--~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpv 288 (436)
T COG1875 232 EQRVALDLLLD--DDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPV 288 (436)
T ss_pred HHHHHHHHhcC--CCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCc
Confidence 77777776663 112224677889999998887543 344556666677776675444
No 238
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=93.99 E-value=1 Score=52.45 Aligned_cols=42 Identities=26% Similarity=0.228 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+..|...+..++ ..|+.-..|+|||..+.+++..+...
T Consensus 21 Qe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 21 QEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 4444444444444443 34889999999999999988887654
No 239
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=93.97 E-value=0.6 Score=56.00 Aligned_cols=24 Identities=21% Similarity=0.225 Sum_probs=21.3
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~ 200 (725)
-|+.-..|+|||..+..|+..|..
T Consensus 40 ~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 40 YLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCc
Confidence 378999999999999999988875
No 240
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=93.95 E-value=0.68 Score=49.65 Aligned_cols=132 Identities=18% Similarity=0.122 Sum_probs=75.9
Q ss_pred hHHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEE
Q 004880 159 YQLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIY 235 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~ 235 (725)
.|...+..+...+.+++ +. ++.-+.|.|||..+..++..+......+.. |-..+.....-....+|++..+..
T Consensus 10 ~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~----~cg~C~~c~~~~~~~hpD~~~i~~ 85 (329)
T PRK08058 10 LQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE----PCGTCTNCKRIDSGNHPDVHLVAP 85 (329)
T ss_pred hHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC----CCCcCHHHHHHhcCCCCCEEEecc
Confidence 45556666666665543 34 899999999999999999888754321111 333344444444445666655544
Q ss_pred eCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHHHhcCCCCc
Q 004880 236 HGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKELKYIPIGN 310 (725)
Q Consensus 236 ~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l~~~~ 310 (725)
.|.. .+.+.++... ..+. .-+++++||||+|++.. ....+.+.+...+...
T Consensus 86 ~~~~-----------------------i~id~ir~l~-~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~ 141 (329)
T PRK08058 86 DGQS-----------------------IKKDQIRYLK-EEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGT 141 (329)
T ss_pred cccc-----------------------CCHHHHHHHH-HHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCc
Confidence 3321 1122232221 2221 22578999999999963 2334555555555666
Q ss_pred EEEEeccC
Q 004880 311 KLLLTGTP 318 (725)
Q Consensus 311 rllLTgTP 318 (725)
.++|+.+-
T Consensus 142 ~~Il~t~~ 149 (329)
T PRK08058 142 TAILLTEN 149 (329)
T ss_pred eEEEEeCC
Confidence 67776653
No 241
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=93.93 E-value=1 Score=47.79 Aligned_cols=152 Identities=13% Similarity=0.049 Sum_probs=87.2
Q ss_pred cccchHHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCce
Q 004880 155 KLKSYQLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVS 231 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~ 231 (725)
.++|+|...-..+...+.+++ .-++.-+.|+||+..|..++..+.-..... .|-..+..-..-...-+|++.
T Consensus 3 ~~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~-----~~Cg~C~sC~~~~~g~HPD~~ 77 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQS-----EACGFCHSCELMQSGNHPDLH 77 (319)
T ss_pred cCcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCC-----CCCCCCHHHHHHHcCCCCCEE
Confidence 467888888888887776665 347889999999999999999888654211 133333332222223345544
Q ss_pred EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHHHhcC
Q 004880 232 AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKELKYI 306 (725)
Q Consensus 232 v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l 306 (725)
.+.-.+.. .. ++-+.++. +..++. .-+++++|||+||++.. ....+.+.+-.-
T Consensus 78 ~i~p~~~~------------------~~---I~vdqiR~-l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEP 135 (319)
T PRK06090 78 VIKPEKEG------------------KS---ITVEQIRQ-CNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEP 135 (319)
T ss_pred EEecCcCC------------------Cc---CCHHHHHH-HHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCC
Confidence 33211100 00 12233322 122222 23589999999999963 333455555555
Q ss_pred CCCcEEEEeccCCCCChHHhhhhhccc
Q 004880 307 PIGNKLLLTGTPLQNNLAELWSLLHFI 333 (725)
Q Consensus 307 ~~~~rllLTgTP~~n~~~el~sll~~l 333 (725)
+....++|+++-...-+.-+.|-...+
T Consensus 136 p~~t~fiL~t~~~~~lLpTI~SRCq~~ 162 (319)
T PRK06090 136 APNCLFLLVTHNQKRLLPTIVSRCQQW 162 (319)
T ss_pred CCCeEEEEEECChhhChHHHHhcceeE
Confidence 666666666665444455555544433
No 242
>PHA02533 17 large terminase protein; Provisional
Probab=93.84 E-value=0.21 Score=56.95 Aligned_cols=153 Identities=16% Similarity=0.201 Sum_probs=78.4
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHH-HHHHHHHHh---CCC
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLS-NWVNEISRF---VPS 229 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~-~W~~E~~~~---~p~ 229 (725)
-.|.|+|..-+..+.. ++-.++.-.=..|||..+.+++.++.-......+++++|..-.. .-.+.++.. .|.
T Consensus 58 f~L~p~Q~~i~~~~~~----~R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik~~ie~~P~ 133 (534)
T PHA02533 58 VQMRDYQKDMLKIMHK----NRFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTKQAIELLPD 133 (534)
T ss_pred cCCcHHHHHHHHHHhc----CeEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHHHHhCHH
Confidence 4688999988877632 33446777789999998876665444333345788888843211 111333322 232
Q ss_pred ce-EEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhc-CC
Q 004880 230 VS-AIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKY-IP 307 (725)
Q Consensus 230 ~~-v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~-l~ 307 (725)
+. ..+...+ +. .+. ..+...|.+.|-+ . ...+....+++|+||+|.+++.. .+..++.. +.
T Consensus 134 l~~~~i~~~~---~~-----~I~--l~NGS~I~~lss~-----~-~t~rG~~~~~liiDE~a~~~~~~-e~~~ai~p~la 196 (534)
T PHA02533 134 FLQPGIVEWN---KG-----SIE--LENGSKIGAYASS-----P-DAVRGNSFAMIYIDECAFIPNFI-DFWLAIQPVIS 196 (534)
T ss_pred HhhcceeecC---cc-----EEE--eCCCCEEEEEeCC-----C-CccCCCCCceEEEeccccCCCHH-HHHHHHHHHHH
Confidence 11 0000000 00 000 0122223222221 1 23456678899999999998753 22232221 22
Q ss_pred --CCcEEEEeccCC-CCChHHhh
Q 004880 308 --IGNKLLLTGTPL-QNNLAELW 327 (725)
Q Consensus 308 --~~~rllLTgTP~-~n~~~el~ 327 (725)
...++.+..||- .|+..++|
T Consensus 197 sg~~~r~iiiSTp~G~n~fye~~ 219 (534)
T PHA02533 197 SGRSSKIIITSTPNGLNHFYDIW 219 (534)
T ss_pred cCCCceEEEEECCCchhhHHHHH
Confidence 224688888884 23344443
No 243
>PF13245 AAA_19: Part of AAA domain
Probab=93.81 E-value=0.2 Score=41.04 Aligned_cols=41 Identities=27% Similarity=0.223 Sum_probs=32.2
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhC--CCCCCcEEEEcCccH
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGN--GLHGPYLVIAPLSTL 216 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~--~~~~~~LIV~P~sll 216 (725)
-.+|--..|+|||.+++..+.++... ....++||++|....
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 35668999999999999888888742 235689999997644
No 244
>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=93.77 E-value=0.59 Score=48.69 Aligned_cols=133 Identities=19% Similarity=0.195 Sum_probs=68.6
Q ss_pred chHHHHHHHHHHHhcCC-----CCeEEEcCCCCcHHHHHHHHHHHHHhC-C---CCCCcE-EEEcCc-cHHHHHHHHHHh
Q 004880 158 SYQLKGVKWLISLWQNG-----LNGILADQMGLGKTIQTIAFLAHLKGN-G---LHGPYL-VIAPLS-TLSNWVNEISRF 226 (725)
Q Consensus 158 ~yQ~~gv~~l~~~~~~~-----~~~ILademGlGKT~qaiali~~l~~~-~---~~~~~L-IV~P~s-ll~~W~~E~~~~ 226 (725)
|.=.+++..|-.++... .|.+|.-++|-|||..+=-|....... + ..-|++ |-+|.. ........+-..
T Consensus 40 ~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~ 119 (302)
T PF05621_consen 40 PRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEA 119 (302)
T ss_pred HHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHH
Confidence 44445566666655433 356888999999997655444432211 0 111433 334432 334444443322
Q ss_pred CCCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccC-Ccc---hHHHHH
Q 004880 227 VPSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLK-NPK---CKLLKE 302 (725)
Q Consensus 227 ~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ik-n~~---s~~~~~ 302 (725)
.. .+ ..+.. +-..........|+.++..++||||.|++- ... ......
T Consensus 120 lg---------------------aP--~~~~~-----~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~ 171 (302)
T PF05621_consen 120 LG---------------------AP--YRPRD-----RVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNA 171 (302)
T ss_pred hC---------------------cc--cCCCC-----CHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHH
Confidence 10 00 00000 111222223467888999999999999974 222 334455
Q ss_pred HhcCCCCcE--EEEeccC
Q 004880 303 LKYIPIGNK--LLLTGTP 318 (725)
Q Consensus 303 l~~l~~~~r--llLTgTP 318 (725)
++.+..... +.+.||+
T Consensus 172 LK~L~NeL~ipiV~vGt~ 189 (302)
T PF05621_consen 172 LKFLGNELQIPIVGVGTR 189 (302)
T ss_pred HHHHhhccCCCeEEeccH
Confidence 555544333 5677886
No 245
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.74 E-value=0.59 Score=53.32 Aligned_cols=41 Identities=17% Similarity=0.156 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHhcCCCC---eEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 160 QLKGVKWLISLWQNGLN---GILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~~---~ILademGlGKT~qaiali~~l~~ 200 (725)
|...+..+...+.++.. .|+.-+.|+|||..|-.++..+..
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 34444445554454432 478999999999999999988765
No 246
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=93.55 E-value=0.55 Score=51.04 Aligned_cols=142 Identities=15% Similarity=0.180 Sum_probs=75.6
Q ss_pred hHHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhCCCC--------CCcEEEEcCccHHHHHHHHHHhC
Q 004880 159 YQLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGNGLH--------GPYLVIAPLSTLSNWVNEISRFV 227 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~~~~--------~~~LIV~P~sll~~W~~E~~~~~ 227 (725)
-|..++..+...+.+++ .-++.-+.|+|||..|.+++..++..... ...|-+|+.. .....-...-.
T Consensus 23 Gq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c--~~c~~i~~~~H 100 (365)
T PRK07471 23 GHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDH--PVARRIAAGAH 100 (365)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCC--hHHHHHHccCC
Confidence 36666777777776654 24788999999999999999999864321 1234445533 22222222335
Q ss_pred CCceEEEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHH
Q 004880 228 PSVSAIIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKE 302 (725)
Q Consensus 228 p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~ 302 (725)
|++.++.-....... . ....| +.+.++.- ..++. .-+|.++||||+|++-. ....+.+.
T Consensus 101 PDl~~i~~~~~~~~~------~------~~~~I---~VdqiR~l-~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~ 164 (365)
T PRK07471 101 GGLLTLERSWNEKGK------R------LRTVI---TVDEVREL-ISFFGLTAAEGGWRVVIVDTADEMNANAANALLKV 164 (365)
T ss_pred CCeEEEecccccccc------c------ccccc---cHHHHHHH-HHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHH
Confidence 665544321111000 0 00111 23333322 23322 23688999999999852 22345555
Q ss_pred HhcCCCCcEEEE-eccC
Q 004880 303 LKYIPIGNKLLL-TGTP 318 (725)
Q Consensus 303 l~~l~~~~rllL-TgTP 318 (725)
+...+....++| |-.|
T Consensus 165 LEepp~~~~~IL~t~~~ 181 (365)
T PRK07471 165 LEEPPARSLFLLVSHAP 181 (365)
T ss_pred HhcCCCCeEEEEEECCc
Confidence 555554444444 4444
No 247
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.44 E-value=0.68 Score=52.08 Aligned_cols=142 Identities=25% Similarity=0.254 Sum_probs=71.6
Q ss_pred HHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEe
Q 004880 160 QLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYH 236 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~ 236 (725)
|...+..|...+..++ .-|+.-..|+|||..|..++..+.... +|. .-|-..+.+...-.....| .++.+.
T Consensus 18 Qe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~--~~~--~~pCg~C~~C~~i~~~~~~--Dv~eid 91 (491)
T PRK14964 18 QDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSN--GPT--SDPCGTCHNCISIKNSNHP--DVIEID 91 (491)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcC--CCC--CCCccccHHHHHHhccCCC--CEEEEe
Confidence 3444555544444443 358999999999999988887776532 121 1244445554433333333 333333
Q ss_pred CCh-hhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhh-hhcCccEEEEccccccCCc-chHHHHHHhcCCCCcEEE
Q 004880 237 GSK-KERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYL-RHYNWKYLVVDEGHRLKNP-KCKLLKELKYIPIGNKLL 313 (725)
Q Consensus 237 g~~-~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l-~~~~~~~vIvDEaH~ikn~-~s~~~~~l~~l~~~~rll 313 (725)
+.. ...+.++. +.... .+. ..-+++++||||+|.+... ...+.+.+...+..-+++
T Consensus 92 aas~~~vddIR~--------------------Iie~~-~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fI 150 (491)
T PRK14964 92 AASNTSVDDIKV--------------------ILENS-CYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFI 150 (491)
T ss_pred cccCCCHHHHHH--------------------HHHHH-HhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEE
Confidence 321 11111110 11111 111 1125789999999999642 223444444445555666
Q ss_pred EeccCCCCChHHhhh
Q 004880 314 LTGTPLQNNLAELWS 328 (725)
Q Consensus 314 LTgTP~~n~~~el~s 328 (725)
|+.|-...-+..+-+
T Consensus 151 latte~~Kl~~tI~S 165 (491)
T PRK14964 151 LATTEVKKIPVTIIS 165 (491)
T ss_pred EEeCChHHHHHHHHH
Confidence 666644433333333
No 248
>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=93.44 E-value=0.45 Score=46.93 Aligned_cols=131 Identities=18% Similarity=0.213 Sum_probs=69.1
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCC
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPK 257 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~ 257 (725)
++.-.+|.|||.++.-+++++..+ ..++.+||-..--.-=.++++.|.-.+.+-++......
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~---------------- 66 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTES---------------- 66 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTS----------------
T ss_pred EEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcch----------------
Confidence 677889999999999999888877 45666666643322233445555422222222111100
Q ss_pred CCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcch---HHHHHHhcC-CCCcEEEEeccCCCCChHHhhhhhcc
Q 004880 258 FPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKC---KLLKELKYI-PIGNKLLLTGTPLQNNLAELWSLLHF 332 (725)
Q Consensus 258 ~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s---~~~~~l~~l-~~~~rllLTgTP~~n~~~el~sll~~ 332 (725)
....+..+....+..-++++|+||-+.+..+... .+.+.+... +....+.|++|--+..+..+......
T Consensus 67 ------~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~ 139 (196)
T PF00448_consen 67 ------DPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEA 139 (196)
T ss_dssp ------CHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHH
T ss_pred ------hhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhc
Confidence 0111111111334455689999999987754332 122222222 34556888888765555544443333
No 249
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=93.41 E-value=0.62 Score=52.90 Aligned_cols=131 Identities=21% Similarity=0.159 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHhcCCCC--e-EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEe
Q 004880 160 QLKGVKWLISLWQNGLN--G-ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYH 236 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~~--~-ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~ 236 (725)
|...+..|...+.++.- . |+.-+.|+|||..+-+++..+....... ..|...+.+...-...+.|. ++...
T Consensus 19 qe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~----~~pC~~C~~C~~~~~~~h~d--v~eld 92 (535)
T PRK08451 19 QESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPS----STPCDTCIQCQSALENRHID--IIEMD 92 (535)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCC----CCCCcccHHHHHHhhcCCCe--EEEec
Confidence 44445555544444432 2 7899999999999999998886532111 12333333333333333222 22222
Q ss_pred CChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHH--hh-hhcCccEEEEccccccCCcc-hHHHHHHhcCCCCcEE
Q 004880 237 GSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARK--YL-RHYNWKYLVVDEGHRLKNPK-CKLLKELKYIPIGNKL 312 (725)
Q Consensus 237 g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~--~l-~~~~~~~vIvDEaH~ikn~~-s~~~~~l~~l~~~~rl 312 (725)
+... + ..+.++..... +. ..-++.++||||||++.... ..+.+.+...+...++
T Consensus 93 aas~-~---------------------gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~F 150 (535)
T PRK08451 93 AASN-R---------------------GIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKF 150 (535)
T ss_pred cccc-c---------------------CHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEE
Confidence 2110 0 01222211111 00 11357899999999996422 3344555555555666
Q ss_pred EEeccC
Q 004880 313 LLTGTP 318 (725)
Q Consensus 313 lLTgTP 318 (725)
+|++|-
T Consensus 151 IL~ttd 156 (535)
T PRK08451 151 ILATTD 156 (535)
T ss_pred EEEECC
Confidence 776654
No 250
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=93.41 E-value=0.52 Score=52.97 Aligned_cols=56 Identities=13% Similarity=0.005 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHhcCC----CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCcc
Q 004880 160 QLKGVKWLISLWQNG----LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLST 215 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~----~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sl 215 (725)
...++..+.....+. ...+|.-+.|+|||..+-++...+...++...++.+.....
T Consensus 130 n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~ 189 (450)
T PRK00149 130 NRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKF 189 (450)
T ss_pred cHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHH
Confidence 333455454433321 23688999999999999998888877654445555544333
No 251
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.40 E-value=0.53 Score=54.76 Aligned_cols=43 Identities=16% Similarity=-0.028 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHHhcCCCC---eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 159 YQLKGVKWLISLWQNGLN---GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~~---~ILademGlGKT~qaiali~~l~~~ 201 (725)
.|...+..|...+..++- .|+.-+.|+|||..|.+++..+...
T Consensus 20 Gq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~ 65 (620)
T PRK14948 20 GQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCL 65 (620)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCC
Confidence 355556666665555543 3889999999999999999988764
No 252
>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=93.31 E-value=0.57 Score=51.00 Aligned_cols=44 Identities=18% Similarity=0.157 Sum_probs=31.9
Q ss_pred cchHHHHHHHHHHHhcC---CCCeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 157 KSYQLKGVKWLISLWQN---GLNGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 157 r~yQ~~gv~~l~~~~~~---~~~~ILademGlGKT~qaiali~~l~~ 200 (725)
|..|++.+...+..+.. +.+.+|.-+.|+|||..+-.++..+..
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 67777777555443322 246789999999999999888887754
No 253
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=93.29 E-value=0.18 Score=56.74 Aligned_cols=147 Identities=18% Similarity=0.214 Sum_probs=80.2
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH-----HHHHHHHHHhCCCceEEEEeCChhhHHHHHHh
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL-----SNWVNEISRFVPSVSAIIYHGSKKERDEIRRK 248 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll-----~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~ 248 (725)
.-.+.|. +=--|||+..+++|+-++..-..=.+..++--.-+ ..-...+++|+|.-.+..-.+..-
T Consensus 203 kaTVFLV-PRRHGKTWf~VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~~~vi~~k~~tI-------- 273 (668)
T PHA03372 203 KATVFLV-PRRHGKTWFIIPIISFLLKNIIGISIGYVAHQKHVSQFVLKEVEFRCRRMFPRKHTIENKDNVI-------- 273 (668)
T ss_pred cceEEEe-cccCCceehHHHHHHHHHHhhcCceEEEEeeHHHHHHHHHHHHHHHHhhhcCccceeeecCcEE--------
Confidence 3334443 45679999999999888874333467777763322 334455789998765432211110
Q ss_pred cCCCCCCCCCCEEEec-HHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccC---------
Q 004880 249 HMPRAIGPKFPIVVTS-YEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTP--------- 318 (725)
Q Consensus 249 ~~~~~~~~~~~vvIts-ye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP--------- 318 (725)
.+... +.+.-++..| ++ .+-++...|++++|||||-++-..-...--+..-+....|.+|-|-
T Consensus 274 ~~s~p-g~Kst~~fasc~n------~NsiRGQ~fnll~VDEA~FI~~~a~~tilgfm~q~~~KiIfISS~Nsg~~sTSfL 346 (668)
T PHA03372 274 SIDHR-GAKSTALFASCYN------TNSIRGQNFHLLLVDEAHFIKKDAFNTILGFLAQNTTKIIFISSTNTTNDATCFL 346 (668)
T ss_pred EEecC-CCcceeeehhhcc------CccccCCCCCEEEEehhhccCHHHHHHhhhhhcccCceEEEEeCCCCCCccchHH
Confidence 00000 1111122222 33 2456778899999999999975433322233333555567776552
Q ss_pred --CCCChHHhhhhhccccCC
Q 004880 319 --LQNNLAELWSLLHFILPD 336 (725)
Q Consensus 319 --~~n~~~el~sll~~l~p~ 336 (725)
+.|...++.+..+|+.++
T Consensus 347 ~~Lk~~~~~~lnVVsYvC~~ 366 (668)
T PHA03372 347 TKLNNSPFDMLNVVSYVCEE 366 (668)
T ss_pred HhccCchhhheeeEEEEchh
Confidence 234444555555565553
No 254
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.28 E-value=0.47 Score=54.93 Aligned_cols=42 Identities=19% Similarity=0.196 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+..|...+.+++ +. |+.-..|+|||..+..++..+...
T Consensus 21 Qe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~ 65 (618)
T PRK14951 21 QEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQ 65 (618)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 5556666666555553 23 889999999999999998888754
No 255
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.26 E-value=0.68 Score=49.29 Aligned_cols=48 Identities=17% Similarity=0.155 Sum_probs=29.5
Q ss_pred CccEEEEccccccCCcc--hHHHHHHhcCCCCcEEEEeccCCCCChHHhh
Q 004880 280 NWKYLVVDEGHRLKNPK--CKLLKELKYIPIGNKLLLTGTPLQNNLAELW 327 (725)
Q Consensus 280 ~~~~vIvDEaH~ikn~~--s~~~~~l~~l~~~~rllLTgTP~~n~~~el~ 327 (725)
..++|||||+|++.... ..+...+.......++++|++....-...|.
T Consensus 100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~ 149 (316)
T PHA02544 100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLR 149 (316)
T ss_pred CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHH
Confidence 46899999999983322 2333345555666788888875443333333
No 256
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.19 E-value=0.73 Score=51.86 Aligned_cols=24 Identities=29% Similarity=0.259 Sum_probs=20.8
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~ 200 (725)
.|+.-+.|+|||..|-+++..+..
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcc
Confidence 489999999999999988887764
No 257
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=93.18 E-value=0.21 Score=57.05 Aligned_cols=147 Identities=16% Similarity=0.164 Sum_probs=79.4
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHH----HHHhCCCceEEEEeCChhhHHHHHHhcC
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNE----ISRFVPSVSAIIYHGSKKERDEIRRKHM 250 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E----~~~~~p~~~v~~~~g~~~~r~~~~~~~~ 250 (725)
-.+..-+=--|||..+.+++..+...-..-.+++++|-. +...-.++ +++|+|...+-...|.. + ...+
T Consensus 256 ~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~vkGe~-----I-~i~f 329 (738)
T PHA03368 256 ATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHVKGET-----I-SFSF 329 (738)
T ss_pred ceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeeecCcE-----E-EEEe
Confidence 346666678899998877777666544456789999943 44444444 45677654333323311 0 0001
Q ss_pred CCCCCCCCCEEEe-cHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccC-----------
Q 004880 251 PRAIGPKFPIVVT-SYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTP----------- 318 (725)
Q Consensus 251 ~~~~~~~~~vvIt-sye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP----------- 318 (725)
. .+.+..+... +++ .+.++...++++||||||.|+...-....-...-.....|.+|-|-
T Consensus 330 ~--nG~kstI~FaSarn------tNsiRGqtfDLLIVDEAqFIk~~al~~ilp~l~~~n~k~I~ISS~Ns~~~sTSFL~n 401 (738)
T PHA03368 330 P--DGSRSTIVFASSHN------TNGIRGQDFNLLFVDEANFIRPDAVQTIMGFLNQTNCKIIFVSSTNTGKASTSFLYN 401 (738)
T ss_pred c--CCCccEEEEEeccC------CCCccCCcccEEEEechhhCCHHHHHHHHHHHhccCccEEEEecCCCCccchHHHHh
Confidence 0 0111223333 221 2456777899999999999985321111112222355567777552
Q ss_pred CCCChHHhhhhhccccCC
Q 004880 319 LQNNLAELWSLLHFILPD 336 (725)
Q Consensus 319 ~~n~~~el~sll~~l~p~ 336 (725)
+.|...++.+.++|+.++
T Consensus 402 Lk~a~~~lLNVVsYvCde 419 (738)
T PHA03368 402 LKGAADELLNVVTYICDE 419 (738)
T ss_pred hcCchhhheeeEEEEChh
Confidence 334445556656666553
No 258
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.98 E-value=0.87 Score=52.50 Aligned_cols=37 Identities=22% Similarity=0.165 Sum_probs=26.6
Q ss_pred HHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 164 VKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 164 v~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~ 200 (725)
+..|...+.+++ .-|+.-+.|+|||..|..++..+..
T Consensus 25 ~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 25 KAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence 444444444443 3467899999999999999988864
No 259
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.87 E-value=0.78 Score=52.46 Aligned_cols=42 Identities=19% Similarity=0.174 Sum_probs=29.0
Q ss_pred hHHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHh
Q 004880 159 YQLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~ 200 (725)
.|...+..+...+.++. ++ |+.-+.|+|||..|-.++..+..
T Consensus 20 Gq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527)
T PRK14969 20 GQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNC 64 (527)
T ss_pred CcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34445555554444432 33 79999999999999988888764
No 260
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=92.86 E-value=1.1 Score=53.56 Aligned_cols=67 Identities=16% Similarity=0.062 Sum_probs=47.9
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC--CCCCcEEEEcCc-cHHHHHHHHHHhC
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG--LHGPYLVIAPLS-TLSNWVNEISRFV 227 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~--~~~~~LIV~P~s-ll~~W~~E~~~~~ 227 (725)
.|-|-|.++|.+- .+..++....|+|||.+.+.-+++|...+ ....+|+|+.+. ......+.+.+..
T Consensus 4 ~Ln~~Q~~av~~~------~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~ 73 (715)
T TIGR01075 4 GLNDKQREAVAAP------PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALL 73 (715)
T ss_pred ccCHHHHHHHcCC------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHh
Confidence 4789999988632 45678888899999999999999998753 234578888754 3344555555544
No 261
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=92.86 E-value=1.3 Score=46.92 Aligned_cols=42 Identities=29% Similarity=0.273 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHhcCC--CCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNG--LNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~--~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
|.+.+..+......+ .+.+|.-+.|+|||..+-+++..+...
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~ 65 (319)
T PRK00440 22 QEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGE 65 (319)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 334455555444433 347999999999999988888777543
No 262
>PRK06835 DNA replication protein DnaC; Validated
Probab=92.84 E-value=1.1 Score=47.97 Aligned_cols=49 Identities=18% Similarity=0.116 Sum_probs=35.7
Q ss_pred CcccchHHHHHHHHHHHh----cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 154 GKLKSYQLKGVKWLISLW----QNGLNGILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~----~~~~~~ILademGlGKT~qaiali~~l~~~~ 202 (725)
+..+.++..++.++.... ..+.+.+|.-++|+|||..+.+++..+...+
T Consensus 159 ~~~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g 211 (329)
T PRK06835 159 LSPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRG 211 (329)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHCC
Confidence 356666666666444322 2456778999999999999999999988764
No 263
>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=92.82 E-value=0.59 Score=55.80 Aligned_cols=59 Identities=17% Similarity=0.134 Sum_probs=44.8
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL 216 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll 216 (725)
+..|.+-|.+++..++. .+.-.+|.-..|+|||...-+++..+...| .++++++|....
T Consensus 350 ~~~Ls~~Q~~Av~~i~~---s~~~~il~G~aGTGKTtll~~i~~~~~~~g--~~V~~~ApTg~A 408 (744)
T TIGR02768 350 HYRLSEEQYEAVRHVTG---SGDIAVVVGRAGTGKSTMLKAAREAWEAAG--YRVIGAALSGKA 408 (744)
T ss_pred cCCCCHHHHHHHHHHhc---CCCEEEEEecCCCCHHHHHHHHHHHHHhCC--CeEEEEeCcHHH
Confidence 45789999999988763 234568999999999988777766665543 578888997754
No 264
>PRK07952 DNA replication protein DnaC; Validated
Probab=92.79 E-value=0.72 Score=47.08 Aligned_cols=62 Identities=18% Similarity=0.199 Sum_probs=41.1
Q ss_pred chHHHHHHHHHHHhc---CC-CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHH
Q 004880 158 SYQLKGVKWLISLWQ---NG-LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISR 225 (725)
Q Consensus 158 ~yQ~~gv~~l~~~~~---~~-~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~ 225 (725)
+.|..++..+..... .+ .+.+|.-..|+|||..+.+++.++...+ .+++++ .+..|...++.
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g--~~v~~i----t~~~l~~~l~~ 144 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRG--KSVLII----TVADIMSAMKD 144 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEE----EHHHHHHHHHH
Confidence 345555555544222 22 3568999999999999999999988764 345555 35667766654
No 265
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=92.79 E-value=1.2 Score=51.22 Aligned_cols=43 Identities=23% Similarity=0.159 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhcCCC--C-eEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 160 QLKGVKWLISLWQNGL--N-GILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~-~ILademGlGKT~qaiali~~l~~~~ 202 (725)
|...+..+...+.++. + -|+.-+.|+|||..|.+++..+...+
T Consensus 21 Qe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~ 66 (605)
T PRK05896 21 QELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLN 66 (605)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCC
Confidence 4444555555554442 2 47899999999999999998887543
No 266
>PRK08084 DNA replication initiation factor; Provisional
Probab=92.70 E-value=1.2 Score=45.21 Aligned_cols=40 Identities=18% Similarity=0.011 Sum_probs=26.7
Q ss_pred HHHHHHHHHh--cCCCCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 162 KGVKWLISLW--QNGLNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 162 ~gv~~l~~~~--~~~~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
.++.++.... ..+.+.+|.-+.|+|||..+.+++.++...
T Consensus 31 ~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~ 72 (235)
T PRK08084 31 SLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR 72 (235)
T ss_pred HHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC
Confidence 3444444432 223456899999999998888777766654
No 267
>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=92.65 E-value=0.12 Score=59.37 Aligned_cols=166 Identities=17% Similarity=0.196 Sum_probs=100.0
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHH-HHHh---
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNE-ISRF--- 226 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E-~~~~--- 226 (725)
-.....|||.+-++.+.. ..-....+.-..-+|||..++.++.+.....+ +|+|++.|.. ....|..+ |...
T Consensus 13 w~~~~~Py~~eimd~~~~--~~v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~P-~~~l~v~Pt~~~a~~~~~~rl~Pmi~~ 89 (557)
T PF05876_consen 13 WRTDRTPYLREIMDALSD--PSVREVVVMKSAQVGKTELLLNWIGYSIDQDP-GPMLYVQPTDDAAKDFSKERLDPMIRA 89 (557)
T ss_pred CCCCCChhHHHHHHhcCC--cCccEEEEEEcchhhHhHHHHhhceEEEEeCC-CCEEEEEEcHHHHHHHHHHHHHHHHHh
Confidence 345788999988877753 12335678888999999988888887777654 7999999966 45556543 3332
Q ss_pred CCCceEEEEe-CChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccC----CcchHH--
Q 004880 227 VPSVSAIIYH-GSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLK----NPKCKL-- 299 (725)
Q Consensus 227 ~p~~~v~~~~-g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ik----n~~s~~-- 299 (725)
.|.+.-.+.. ......+.+..+.+ +...+.+..... ...|.....++|++||...+- .....+
T Consensus 90 sp~l~~~~~~~~~~~~~~t~~~k~f-----~gg~l~~~ga~S-----~~~l~s~~~r~~~~DEvD~~p~~~~~eGdp~~l 159 (557)
T PF05876_consen 90 SPVLRRKLSPSKSRDSGNTILYKRF-----PGGFLYLVGANS-----PSNLRSRPARYLLLDEVDRYPDDVGGEGDPVEL 159 (557)
T ss_pred CHHHHHHhCchhhcccCCchhheec-----CCCEEEEEeCCC-----CcccccCCcCEEEEechhhccccCccCCCHHHH
Confidence 3333322211 01111111111111 123344444332 245677788999999999983 233333
Q ss_pred -HHHHhcCCCCcEEEEeccCCCCChHHhhhhh
Q 004880 300 -LKELKYIPIGNKLLLTGTPLQNNLAELWSLL 330 (725)
Q Consensus 300 -~~~l~~l~~~~rllLTgTP~~n~~~el~sll 330 (725)
.+....+....++++..||.......++.+.
T Consensus 160 a~~R~~tf~~~~K~~~~STPt~~~~~~I~~~~ 191 (557)
T PF05876_consen 160 AEKRTKTFGSNRKILRISTPTIEGTSRIERLY 191 (557)
T ss_pred HHHHHhhhccCcEEEEeCCCCCCCCCHHHHHH
Confidence 3334455567889999999877555554443
No 268
>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=92.63 E-value=0.93 Score=50.18 Aligned_cols=35 Identities=20% Similarity=0.186 Sum_probs=27.1
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEE
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIA 211 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~ 211 (725)
.+|.-+.|+|||..+-++..++........++.+.
T Consensus 139 l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 139 LFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 47999999999999999888887764444555554
No 269
>PRK14974 cell division protein FtsY; Provisional
Probab=92.60 E-value=1.4 Score=47.27 Aligned_cols=47 Identities=21% Similarity=0.198 Sum_probs=31.3
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcC----ccHHHHHHHHHH
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPL----STLSNWVNEISR 225 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~----sll~~W~~E~~~ 225 (725)
.++.-..|+|||.++..++.++...+ .++++++.. ....||......
T Consensus 143 i~~~G~~GvGKTTtiakLA~~l~~~g--~~V~li~~Dt~R~~a~eqL~~~a~~ 193 (336)
T PRK14974 143 IVFVGVNGTGKTTTIAKLAYYLKKNG--FSVVIAAGDTFRAGAIEQLEEHAER 193 (336)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcC--CeEEEecCCcCcHHHHHHHHHHHHH
Confidence 46778999999999888888776653 356666543 233556444433
No 270
>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=92.54 E-value=0.76 Score=46.14 Aligned_cols=29 Identities=21% Similarity=-0.004 Sum_probs=23.2
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
.+.+.+|.-+.|+|||..+.+++......
T Consensus 37 ~~~~lll~G~~G~GKT~la~~~~~~~~~~ 65 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQAACAAAEER 65 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 34567889999999999998888776654
No 271
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.53 E-value=1.4 Score=48.59 Aligned_cols=42 Identities=19% Similarity=0.185 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHhcCCC--C-eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGL--N-GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~-~ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+..|...+.++. + -|+.-+.|+|||..|.+++..+...
T Consensus 21 q~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~ 65 (397)
T PRK14955 21 QEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQ 65 (397)
T ss_pred hHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 5555555665555553 2 4788999999999999999888753
No 272
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=92.47 E-value=1 Score=51.83 Aligned_cols=25 Identities=20% Similarity=0.210 Sum_probs=20.8
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~ 201 (725)
-|+.-+.|+|||..|-.++..+...
T Consensus 41 yLf~Gp~GtGKTt~Ak~lAkal~c~ 65 (559)
T PRK05563 41 YLFSGPRGTGKTSAAKIFAKAVNCL 65 (559)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcCC
Confidence 3679999999999999888877653
No 273
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=92.45 E-value=1.3 Score=52.52 Aligned_cols=66 Identities=17% Similarity=0.155 Sum_probs=46.2
Q ss_pred ccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhC-C-CCCCcEEEEcCc-cHHHHHHHHHHhC
Q 004880 156 LKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGN-G-LHGPYLVIAPLS-TLSNWVNEISRFV 227 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~-~-~~~~~LIV~P~s-ll~~W~~E~~~~~ 227 (725)
|-|-|.++|.+- .++.++-...|+|||.+.+.-+.++... + ....+|+|+.+. ...+..+.+.+..
T Consensus 2 Ln~~Q~~av~~~------~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l 70 (664)
T TIGR01074 2 LNPQQQEAVEYV------TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTL 70 (664)
T ss_pred CCHHHHHHHhCC------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHh
Confidence 668898887643 4567777889999999999999999864 3 234477776533 4455555565544
No 274
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=92.42 E-value=0.53 Score=43.76 Aligned_cols=54 Identities=15% Similarity=0.266 Sum_probs=35.8
Q ss_pred EEEeCCCCHHHHHHHHHHHhCCCCCceEEEEeccc--ccCCCCCC--CCCEEEEeCCCC
Q 004880 524 CRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRA--GGLGINLT--AADTCILYDSDW 578 (725)
Q Consensus 524 ~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~a--gg~GiNL~--~a~~VI~~D~~w 578 (725)
+.+.+..+ .+..++++.|+........+|+++.. .++|||++ .+..||+...|+
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 44455443 25578999998632211235666665 79999998 478899988775
No 275
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=92.40 E-value=0.72 Score=44.92 Aligned_cols=147 Identities=17% Similarity=0.161 Sum_probs=81.9
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHH-HHH--HHHhCCCceEEEEeCChhhHHHHHHhc
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNW-VNE--ISRFVPSVSAIIYHGSKKERDEIRRKH 249 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W-~~E--~~~~~p~~~v~~~~g~~~~r~~~~~~~ 249 (725)
...+.++.-..|-|||-.|++++......| .+++||== +-..| ..| +-+.+|.+.+..+..+-...
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G--~~V~ivQF--lKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~------- 89 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHG--KKVGVVQF--IKGAWSTGERNLLEFGGGVEFHVMGTGFTWE------- 89 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHHHHCC--CeEEEEEE--ecCCCccCHHHHHhcCCCcEEEECCCCCccc-------
Confidence 355678889999999999999888777765 35555432 11122 122 22223443333322110000
Q ss_pred CCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCC----cchHHHHHHhcCCCCcEEEEeccCCCCChHH
Q 004880 250 MPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKN----PKCKLLKELKYIPIGNKLLLTGTPLQNNLAE 325 (725)
Q Consensus 250 ~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn----~~s~~~~~l~~l~~~~rllLTgTP~~n~~~e 325 (725)
. ....--+..........+..+..-.|++||+||.-..-+ +...+...+..-+..--|.|||--.+..+.+
T Consensus 90 --~---~~~~e~~~~~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p~~Lie 164 (191)
T PRK05986 90 --T---QDRERDIAAAREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAPRELIE 164 (191)
T ss_pred --C---CCcHHHHHHHHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCCHHHHH
Confidence 0 000000011111222334556677899999999877654 3445667777666677899999966666666
Q ss_pred hhhhhccccC
Q 004880 326 LWSLLHFILP 335 (725)
Q Consensus 326 l~sll~~l~p 335 (725)
+..++.-+.+
T Consensus 165 ~ADlVTEm~~ 174 (191)
T PRK05986 165 AADLVTEMRP 174 (191)
T ss_pred hCchheeccc
Confidence 5555554443
No 276
>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=92.35 E-value=0.39 Score=46.59 Aligned_cols=48 Identities=21% Similarity=0.281 Sum_probs=38.6
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
.+|+-+.|+|||..++.++......| .++++++......+..+.+..+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g--~~v~~~s~e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARG--EPGLYVTLEESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCC--CcEEEEECCCCHHHHHHHHHHc
Confidence 47888999999999999988776553 6899999877777777776655
No 277
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.30 E-value=2.1 Score=48.41 Aligned_cols=42 Identities=24% Similarity=0.090 Sum_probs=29.5
Q ss_pred hHHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHh
Q 004880 159 YQLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~ 200 (725)
-|...+..+.....++. ++ ++.-+.|+|||..|-.++..+..
T Consensus 20 Gq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c 64 (486)
T PRK14953 20 GQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNC 64 (486)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 35555555655555543 33 68999999999999888887764
No 278
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=92.12 E-value=0.87 Score=50.89 Aligned_cols=37 Identities=19% Similarity=0.080 Sum_probs=28.5
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
..+|.-+.|+|||..+-++..++...++...++.+..
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 4689999999999999888888877654455666554
No 279
>PRK08116 hypothetical protein; Validated
Probab=92.01 E-value=0.86 Score=47.33 Aligned_cols=36 Identities=22% Similarity=0.337 Sum_probs=28.5
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEE
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIA 211 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~ 211 (725)
+.+.+|.-++|+|||..+.+++.++...+ .+++++.
T Consensus 114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~--~~v~~~~ 149 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAACIANELIEKG--VPVIFVN 149 (268)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEE
Confidence 34578999999999999999999998763 4555554
No 280
>PRK09165 replicative DNA helicase; Provisional
Probab=91.81 E-value=0.88 Score=51.68 Aligned_cols=127 Identities=16% Similarity=0.082 Sum_probs=70.4
Q ss_pred HHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC-------------CCCCcEEEEcCccHHHHHHHHHHhCCCc
Q 004880 164 VKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG-------------LHGPYLVIAPLSTLSNWVNEISRFVPSV 230 (725)
Q Consensus 164 v~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~-------------~~~~~LIV~P~sll~~W~~E~~~~~p~~ 230 (725)
+.-++.-+..|.=.|||..+|.|||.-++.++....... ...++++++.-....++...+.....++
T Consensus 207 LD~~~gG~~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~~ql~~R~la~~s~v 286 (497)
T PRK09165 207 LDSKLGGLHPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSAEQLATRILSEQSEI 286 (497)
T ss_pred HhhhcCCCCCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCHHHHHHHHHHHhcCC
Confidence 444443334444469999999999999988877664321 2357899988777777766654432222
Q ss_pred eEEE-EeCCh--hhHHHHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhcCccEEEEccccccC
Q 004880 231 SAII-YHGSK--KERDEIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHYNWKYLVVDEGHRLK 293 (725)
Q Consensus 231 ~v~~-~~g~~--~~r~~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~~~~~vIvDEaH~ik 293 (725)
.... ..|.- .+...+.... . .....++.| .|.+.+...++......+.++||||=.|.+.
T Consensus 287 ~~~~i~~~~l~~~e~~~l~~a~--~-~l~~~~l~I~d~~~~ti~~i~~~ir~l~~~~~~~lvvIDyLqli~ 354 (497)
T PRK09165 287 SSSKIRRGKISEEDFEKLVDAS--Q-ELQKLPLYIDDTPALSISQLRARARRLKRQHGLDLLVVDYLQLIR 354 (497)
T ss_pred CHHHHhcCCCCHHHHHHHHHHH--H-HHhcCCeEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcc
Confidence 2111 12211 1111111100 0 001233443 2455565555555556678999999988775
No 281
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=91.80 E-value=1.4 Score=47.24 Aligned_cols=167 Identities=18% Similarity=0.106 Sum_probs=80.7
Q ss_pred ccchHHHHHHHHHHHhcCCCCe-EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEE
Q 004880 156 LKSYQLKGVKWLISLWQNGLNG-ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAII 234 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~-ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~ 234 (725)
++|+|...-+.+..+...-..+ ++.-+.|.|||..|..++..+.-.++.+.. .|-..+..-..-...-+|++..+.
T Consensus 2 ~yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~---~~Cg~C~~C~~~~~~~HPD~~~i~ 78 (342)
T PRK06964 2 LYPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDG---EPCGTCAACNWFAQGNHPDYRIVR 78 (342)
T ss_pred CCcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCC---CCCCCCHHHHHHHcCCCCCEEEEe
Confidence 4788877777777652222234 678899999999999999988865421100 122222222211222245544332
Q ss_pred EeCCh-------hhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHH
Q 004880 235 YHGSK-------KERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKE 302 (725)
Q Consensus 235 ~~g~~-------~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~ 302 (725)
-.+.. +............ ......-..+-+.++.-. ..+. .-+++++|||+||++.. ....+.+.
T Consensus 79 p~~~~~~~~~~~~~~~~~~~~~~~~--k~~~~~~~I~idqiR~l~-~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKt 155 (342)
T PRK06964 79 PEALAAEAPGAADEAKEADADEGGK--KTKAPSKEIKIEQVRALL-DFCGVGTHRGGARVVVLYPAEALNVAAANALLKT 155 (342)
T ss_pred cccccccccccccccccchhhcccc--cccccccccCHHHHHHHH-HHhccCCccCCceEEEEechhhcCHHHHHHHHHH
Confidence 11110 0000000000000 000000112333333221 2221 23589999999999963 23345555
Q ss_pred HhcCCCCcEEEEeccCCCCChHHhhh
Q 004880 303 LKYIPIGNKLLLTGTPLQNNLAELWS 328 (725)
Q Consensus 303 l~~l~~~~rllLTgTP~~n~~~el~s 328 (725)
+-.-+....++|+++-...-+.-+.|
T Consensus 156 LEEPp~~t~fiL~t~~~~~LLpTI~S 181 (342)
T PRK06964 156 LEEPPPGTVFLLVSARIDRLLPTILS 181 (342)
T ss_pred hcCCCcCcEEEEEECChhhCcHHHHh
Confidence 55556666677766654444444444
No 282
>PRK08727 hypothetical protein; Validated
Probab=91.76 E-value=1.9 Score=43.73 Aligned_cols=26 Identities=31% Similarity=0.337 Sum_probs=22.0
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~ 202 (725)
.+|.-+.|+|||..+.+++..+...+
T Consensus 44 l~l~G~~G~GKThL~~a~~~~~~~~~ 69 (233)
T PRK08727 44 LYLSGPAGTGKTHLALALCAAAEQAG 69 (233)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence 68999999999998888888776653
No 283
>PRK08760 replicative DNA helicase; Provisional
Probab=91.73 E-value=0.95 Score=51.08 Aligned_cols=127 Identities=16% Similarity=0.080 Sum_probs=72.7
Q ss_pred HHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEE-EEeCC--h
Q 004880 163 GVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAI-IYHGS--K 239 (725)
Q Consensus 163 gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~-~~~g~--~ 239 (725)
.+.-+..-+..|.=.|||..+|.|||.-++.++...... ...++++++.-....+|...+......+... +..|. .
T Consensus 218 ~LD~~t~G~~~G~LivIaarPg~GKTafal~iA~~~a~~-~g~~V~~fSlEMs~~ql~~Rl~a~~s~i~~~~i~~g~l~~ 296 (476)
T PRK08760 218 DFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIK-SKKGVAVFSMEMSASQLAMRLISSNGRINAQRLRTGALED 296 (476)
T ss_pred HHHHHhcCCCCCceEEEEeCCCCChhHHHHHHHHHHHHh-cCCceEEEeccCCHHHHHHHHHHhhCCCcHHHHhcCCCCH
Confidence 344454434445556999999999999999888776532 1258999999888888887765543222211 11221 1
Q ss_pred hhHHHHHHhcCCCCCCCCCCEEEe-----cHHHHHHHHHHhhhhcCccEEEEccccccC
Q 004880 240 KERDEIRRKHMPRAIGPKFPIVVT-----SYEVALSDARKYLRHYNWKYLVVDEGHRLK 293 (725)
Q Consensus 240 ~~r~~~~~~~~~~~~~~~~~vvIt-----sye~~~~~~~~~l~~~~~~~vIvDEaH~ik 293 (725)
.+...+.... ......++.|. |.+.+...++......+.++||||=.|.+.
T Consensus 297 ~e~~~~~~a~---~~l~~~~l~I~d~~~~t~~~I~~~~r~l~~~~~~~lVvIDyLql~~ 352 (476)
T PRK08760 297 EDWARVTGAI---KMLKETKIFIDDTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQLMS 352 (476)
T ss_pred HHHHHHHHHH---HHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEecHHhcC
Confidence 1111110000 00012234432 445555555555455678999999888775
No 284
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=91.64 E-value=1.4 Score=52.35 Aligned_cols=92 Identities=12% Similarity=0.149 Sum_probs=65.0
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHH----HHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEE
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILD----IMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLL 554 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld----~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Ll 554 (725)
|||-.+..-.+-.....|.+++|.++....+. .+..++...|+++..++|+++..+|.+++....++ .+.| ++
T Consensus 293 SGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g--~~~I-vV 369 (681)
T PRK10917 293 SGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASG--EADI-VI 369 (681)
T ss_pred CcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCC--CCCE-EE
Confidence 67776544443334457889999998877654 44555555689999999999999999999998874 3445 55
Q ss_pred ecc-cccCCCCCCCCCEEEE
Q 004880 555 STR-AGGLGINLTAADTCIL 573 (725)
Q Consensus 555 st~-agg~GiNL~~a~~VI~ 573 (725)
+|. .....+.+.....||+
T Consensus 370 gT~~ll~~~v~~~~l~lvVI 389 (681)
T PRK10917 370 GTHALIQDDVEFHNLGLVII 389 (681)
T ss_pred chHHHhcccchhcccceEEE
Confidence 554 3445667777777665
No 285
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=91.53 E-value=1.9 Score=43.63 Aligned_cols=110 Identities=25% Similarity=0.298 Sum_probs=59.5
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHH------HHHHHHHHhCCCceEEEEeCChhhHHHHHHhc
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLS------NWVNEISRFVPSVSAIIYHGSKKERDEIRRKH 249 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~------~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~ 249 (725)
-+.+.-++|+|||+.+=+++..+.+. ....|+.|+.++. -|..++.- -|
T Consensus 53 ~~~vtGevGsGKTv~~Ral~~s~~~d---~~~~v~i~~~~~s~~~~~~ai~~~l~~-~p--------------------- 107 (269)
T COG3267 53 ILAVTGEVGSGKTVLRRALLASLNED---QVAVVVIDKPTLSDATLLEAIVADLES-QP--------------------- 107 (269)
T ss_pred eEEEEecCCCchhHHHHHHHHhcCCC---ceEEEEecCcchhHHHHHHHHHHHhcc-Cc---------------------
Confidence 45777899999999877555544432 3445677876653 25555542 11
Q ss_pred CCCCCCCCCCEEEecHHHHHHHHHHhhhhcC-ccEEEEccccccCCcchHHHHHHhcC----CCCcEEEEeccC
Q 004880 250 MPRAIGPKFPIVVTSYEVALSDARKYLRHYN-WKYLVVDEGHRLKNPKCKLLKELKYI----PIGNKLLLTGTP 318 (725)
Q Consensus 250 ~~~~~~~~~~vvItsye~~~~~~~~~l~~~~-~~~vIvDEaH~ikn~~s~~~~~l~~l----~~~~rllLTgTP 318 (725)
.+.+- +.-+..-+.+...+..-+ .-+++|||||.+..+.-...+.+..+ ...-+++|-|-|
T Consensus 108 -------~~~~~-~~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp 173 (269)
T COG3267 108 -------KVNVN-AVLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQP 173 (269)
T ss_pred -------cchhH-HHHHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCc
Confidence 11100 011112222222333333 47899999999865443333333333 233457787777
No 286
>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=91.29 E-value=1.1 Score=54.29 Aligned_cols=41 Identities=20% Similarity=0.316 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHh--cCCCCeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 160 QLKGVKWLISLW--QNGLNGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 160 Q~~gv~~l~~~~--~~~~~~ILademGlGKT~qaiali~~l~~ 200 (725)
|..-+.+++..+ ....|.||.-+.|.|||..+=+++..+..
T Consensus 192 r~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~ 234 (852)
T TIGR03345 192 RDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAA 234 (852)
T ss_pred CHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhh
Confidence 444577776533 23457799999999999888777776644
No 287
>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=91.23 E-value=1.4 Score=47.95 Aligned_cols=103 Identities=14% Similarity=0.150 Sum_probs=59.9
Q ss_pred HHHHHHHHH-HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCCh
Q 004880 161 LKGVKWLIS-LWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSK 239 (725)
Q Consensus 161 ~~gv~~l~~-~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~ 239 (725)
..++..++. -+..|.-.+|.-++|.|||..++.++..+...+ +++++|.-.-...+......++.-..
T Consensus 68 i~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g--~~VlYvs~EEs~~qi~~Ra~rlg~~~--------- 136 (372)
T cd01121 68 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG--GKVLYVSGEESPEQIKLRADRLGIST--------- 136 (372)
T ss_pred CHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcC--CeEEEEECCcCHHHHHHHHHHcCCCc---------
Confidence 345666652 112233348899999999999998888776643 58888876555555544444332100
Q ss_pred hhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccC
Q 004880 240 KERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLK 293 (725)
Q Consensus 240 ~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ik 293 (725)
-++.+..... ...+...+...+.++||||+.+.+.
T Consensus 137 ------------------~~l~l~~e~~-le~I~~~i~~~~~~lVVIDSIq~l~ 171 (372)
T cd01121 137 ------------------ENLYLLAETN-LEDILASIEELKPDLVIIDSIQTVY 171 (372)
T ss_pred ------------------ccEEEEccCc-HHHHHHHHHhcCCcEEEEcchHHhh
Confidence 0111211111 1122234456688999999999874
No 288
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=91.09 E-value=0.71 Score=44.25 Aligned_cols=62 Identities=18% Similarity=0.211 Sum_probs=42.6
Q ss_pred HHhhhhcCccEEEEccccccCC----cchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhcccc
Q 004880 273 RKYLRHYNWKYLVVDEGHRLKN----PKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFIL 334 (725)
Q Consensus 273 ~~~l~~~~~~~vIvDEaH~ikn----~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~ 334 (725)
+..+..-.||+||+||.-..-+ +...+...+..-+..--+.|||.-.+..+.++..++.-+.
T Consensus 90 ~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~AD~VTEm~ 155 (173)
T TIGR00708 90 KEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLELADLVTEMR 155 (173)
T ss_pred HHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCceeeeec
Confidence 4556667899999999886543 2345667777767777899999966655555555554443
No 289
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=91.09 E-value=1.2 Score=47.40 Aligned_cols=119 Identities=20% Similarity=0.182 Sum_probs=62.3
Q ss_pred CCC-eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCC
Q 004880 174 GLN-GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPR 252 (725)
Q Consensus 174 ~~~-~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~ 252 (725)
... -+++-+.|.|||..|.+++..+......+..--.+. ......-..+.|++. .+..+...
T Consensus 23 ~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~----~~~~~~~~~~~~d~l--el~~s~~~----------- 85 (325)
T COG0470 23 LPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHC----RSCKLIPAGNHPDFL--ELNPSDLR----------- 85 (325)
T ss_pred CCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccch----hhhhHHhhcCCCceE--EecccccC-----------
Confidence 344 688899999999999999999986543221111111 222222233333322 22221110
Q ss_pred CCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCC-cchHHHHHHhcCCCCcEEEEecc
Q 004880 253 AIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKN-PKCKLLKELKYIPIGNKLLLTGT 317 (725)
Q Consensus 253 ~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l~~~~rllLTgT 317 (725)
..++ ..+.+..-. ..+. ..+|.+||||||+.+.. ....+.+.+-..+...+++|+..
T Consensus 86 ----~~~i---~~~~vr~~~-~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n 147 (325)
T COG0470 86 ----KIDI---IVEQVRELA-EFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITN 147 (325)
T ss_pred ----CCcc---hHHHHHHHH-HHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcC
Confidence 1111 122222111 1111 24689999999999863 33344444445566777777764
No 290
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=91.06 E-value=1.1 Score=50.21 Aligned_cols=41 Identities=15% Similarity=-0.050 Sum_probs=29.2
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL 216 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll 216 (725)
..+|.-++|+|||..+-++..++........++.+.+...+
T Consensus 143 pl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~ 183 (450)
T PRK14087 143 PLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFA 183 (450)
T ss_pred ceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH
Confidence 35789999999998888888877765444556655554333
No 291
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.00 E-value=1.7 Score=50.36 Aligned_cols=41 Identities=20% Similarity=0.207 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHh
Q 004880 160 QLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~ 200 (725)
|...+..|.....++. +. |+.-+-|+|||..+..++..+..
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 4444455554444442 33 78899999999999999888765
No 292
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=90.97 E-value=1.7 Score=47.79 Aligned_cols=28 Identities=25% Similarity=0.293 Sum_probs=24.0
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l~~~~ 202 (725)
.+.+|.-+.|+|||..+-.++..+...+
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 5679999999999999999988887654
No 293
>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=90.96 E-value=0.19 Score=48.46 Aligned_cols=39 Identities=26% Similarity=0.416 Sum_probs=26.4
Q ss_pred CCCCEEEecHHHHHHHH-HHhh--hhcCccEEEEccccccCC
Q 004880 256 PKFPIVVTSYEVALSDA-RKYL--RHYNWKYLVVDEGHRLKN 294 (725)
Q Consensus 256 ~~~~vvItsye~~~~~~-~~~l--~~~~~~~vIvDEaH~ikn 294 (725)
...+|||++|..+.... +..+ ....-.+|||||||+|-+
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 35789999999987653 1222 223457899999999853
No 294
>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=90.89 E-value=3.4 Score=40.17 Aligned_cols=25 Identities=24% Similarity=0.356 Sum_probs=21.8
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~ 201 (725)
-++.-+.|.|||..+..++..+...
T Consensus 17 ~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 17 YLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHHHcCC
Confidence 5789999999999999999888754
No 295
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.89 E-value=1.6 Score=50.83 Aligned_cols=42 Identities=19% Similarity=0.142 Sum_probs=31.9
Q ss_pred hHHHHHHHHHHHhcCCCCe---EEEcCCCCcHHHHHHHHHHHHHh
Q 004880 159 YQLKGVKWLISLWQNGLNG---ILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~~~---ILademGlGKT~qaiali~~l~~ 200 (725)
.|...+..|...+.++.-+ |+.-+.|+|||..+..++..+..
T Consensus 20 Gq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c 64 (585)
T PRK14950 20 GQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNC 64 (585)
T ss_pred CCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4666667776666655433 88999999999999999888764
No 296
>PRK06921 hypothetical protein; Provisional
Probab=90.83 E-value=1.7 Score=45.03 Aligned_cols=29 Identities=28% Similarity=0.088 Sum_probs=24.7
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
.+.+.+|.-++|+|||..+.+++..+...
T Consensus 116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~ 144 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLTAAANELMRK 144 (266)
T ss_pred CCCeEEEECCCCCcHHHHHHHHHHHHhhh
Confidence 35667899999999999999999888765
No 297
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=90.63 E-value=1.8 Score=49.88 Aligned_cols=99 Identities=15% Similarity=0.148 Sum_probs=57.1
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGP 256 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~ 256 (725)
.+|.-..|+|||..+.+++.++........++.+....++..+...+..-
T Consensus 317 L~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~------------------------------ 366 (617)
T PRK14086 317 LFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDG------------------------------ 366 (617)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhc------------------------------
Confidence 68889999999999888888776543334555554433333332222110
Q ss_pred CCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcch---HHHHHHhcCCC-CcEEEEeccC
Q 004880 257 KFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKC---KLLKELKYIPI-GNKLLLTGTP 318 (725)
Q Consensus 257 ~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s---~~~~~l~~l~~-~~rllLTgTP 318 (725)
.++.+ +..+. ..++||||+.|.+.+... .++..+..+.. ...|++|+.-
T Consensus 367 -------~~~~f----~~~y~--~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~ 419 (617)
T PRK14086 367 -------KGDSF----RRRYR--EMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDR 419 (617)
T ss_pred -------cHHHH----HHHhh--cCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCC
Confidence 01112 12223 358999999999976443 34444444432 3457777753
No 298
>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=90.55 E-value=0.34 Score=51.17 Aligned_cols=64 Identities=19% Similarity=0.111 Sum_probs=44.6
Q ss_pred ccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC--CCCCcEEEEcCccH-HHHHHHHHH
Q 004880 156 LKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG--LHGPYLVIAPLSTL-SNWVNEISR 225 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~--~~~~~LIV~P~sll-~~W~~E~~~ 225 (725)
|.+-|..+|.+ . .++.++-...|+|||.+.+.-+.++...+ ....+|+|+++... ......+..
T Consensus 1 l~~eQ~~~i~~-~-----~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~ 67 (315)
T PF00580_consen 1 LTDEQRRIIRS-T-----EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRE 67 (315)
T ss_dssp S-HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-C-----CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHH
Confidence 45678888887 3 56677777799999999999998888765 34568999997643 333333433
No 299
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=90.53 E-value=1.4 Score=47.76 Aligned_cols=124 Identities=18% Similarity=0.083 Sum_probs=65.5
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCC--CceEEEEeCChhhHHHHHHhcC
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVP--SVSAIIYHGSKKERDEIRRKHM 250 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p--~~~v~~~~g~~~~r~~~~~~~~ 250 (725)
.+...+|.-.+|.|||.++..++..+.......++.+|+.......=.+.+..|.. ++.+.
T Consensus 136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~----------------- 198 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH----------------- 198 (374)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE-----------------
Confidence 35566889999999999999888876543222356666553322111233333321 11111
Q ss_pred CCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC-----CCCcEEEEeccCCCCChHH
Q 004880 251 PRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI-----PIGNKLLLTGTPLQNNLAE 325 (725)
Q Consensus 251 ~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l-----~~~~rllLTgTP~~n~~~e 325 (725)
.+.+...+...+ ..+ .+.++|+||.+=+.-.. ..+...+..+ .....+.|+||--...+.+
T Consensus 199 ----------~~~~~~~l~~~l-~~l--~~~DlVLIDTaG~~~~d-~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~e 264 (374)
T PRK14722 199 ----------AVKDGGDLQLAL-AEL--RNKHMVLIDTIGMSQRD-RTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNE 264 (374)
T ss_pred ----------ecCCcccHHHHH-HHh--cCCCEEEEcCCCCCccc-HHHHHHHHHHhccCCCCeEEEEecCccChHHHHH
Confidence 111111122221 112 24599999999765322 2233333333 2344688899976666665
Q ss_pred hh
Q 004880 326 LW 327 (725)
Q Consensus 326 l~ 327 (725)
.+
T Consensus 265 vi 266 (374)
T PRK14722 265 VV 266 (374)
T ss_pred HH
Confidence 43
No 300
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=90.48 E-value=4.5 Score=43.89 Aligned_cols=133 Identities=21% Similarity=0.182 Sum_probs=77.5
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCC
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRA 253 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~ 253 (725)
++-..|.-++|.|||.+..-+++.+.......++=||+-.+----=..+++.++. .+
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~--------------------im--- 259 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYAD--------------------IM--- 259 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHH--------------------Hh---
Confidence 4555788999999998877776666633444566666554322222334444321 00
Q ss_pred CCCCCC-EEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC-----CCCcEEEEeccCCCCChHHhh
Q 004880 254 IGPKFP-IVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI-----PIGNKLLLTGTPLQNNLAELW 327 (725)
Q Consensus 254 ~~~~~~-vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l-----~~~~rllLTgTP~~n~~~el~ 327 (725)
+.+ .++.++.-+...+ ..+..+ |+|.||=+-+--- +-.....+..+ ....-|.||+|-=.+.+.+++
T Consensus 260 ---~vp~~vv~~~~el~~ai-~~l~~~--d~ILVDTaGrs~~-D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~ 332 (407)
T COG1419 260 ---GVPLEVVYSPKELAEAI-EALRDC--DVILVDTAGRSQY-DKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEII 332 (407)
T ss_pred ---CCceEEecCHHHHHHHH-HHhhcC--CEEEEeCCCCCcc-CHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHH
Confidence 112 2445555454443 444443 8999997655321 11222333332 344568999999889999999
Q ss_pred hhhccccCC
Q 004880 328 SLLHFILPD 336 (725)
Q Consensus 328 sll~~l~p~ 336 (725)
..+..+..+
T Consensus 333 ~~f~~~~i~ 341 (407)
T COG1419 333 KQFSLFPID 341 (407)
T ss_pred HHhccCCcc
Confidence 988887654
No 301
>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=90.46 E-value=2.1 Score=48.82 Aligned_cols=94 Identities=15% Similarity=0.191 Sum_probs=71.8
Q ss_pred hhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc-CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEec
Q 004880 478 QCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK-GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLST 556 (725)
Q Consensus 478 ~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~-g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst 556 (725)
.|||-.+...++......|.++||.+........+.+.|... |..+..++|+++..+|.+...+-..+ ...| ++.|
T Consensus 7 GsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g--~~~I-VVGT 83 (505)
T TIGR00595 7 GSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNG--EILV-VIGT 83 (505)
T ss_pred CCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcC--CCCE-EECC
Confidence 489999988888888888999999999998887777777654 77899999999999998888777653 3444 6666
Q ss_pred ccccCCCCCCCCCEEEEeC
Q 004880 557 RAGGLGINLTAADTCILYD 575 (725)
Q Consensus 557 ~agg~GiNL~~a~~VI~~D 575 (725)
+.+- =+-+.....||+=+
T Consensus 84 rsal-f~p~~~l~lIIVDE 101 (505)
T TIGR00595 84 RSAL-FLPFKNLGLIIVDE 101 (505)
T ss_pred hHHH-cCcccCCCEEEEEC
Confidence 6532 23455667777644
No 302
>PRK06904 replicative DNA helicase; Validated
Probab=90.38 E-value=2.2 Score=48.12 Aligned_cols=129 Identities=15% Similarity=0.093 Sum_probs=72.4
Q ss_pred HHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEE-EeC-C-
Q 004880 162 KGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAII-YHG-S- 238 (725)
Q Consensus 162 ~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~-~~g-~- 238 (725)
.++..+..-+..|.=.|||.-+|.|||.-++-++...... ...|+++++.-....++...+--....+.... ..| .
T Consensus 209 ~~LD~~t~Gl~~G~LiiIaarPg~GKTafalnia~~~a~~-~g~~Vl~fSlEMs~~ql~~Rlla~~s~v~~~~i~~g~~l 287 (472)
T PRK06904 209 TDLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMA-SEKPVLVFSLEMPAEQIMMRMLASLSRVDQTKIRTGQNL 287 (472)
T ss_pred HHHHHHHhccCCCcEEEEEeCCCCChHHHHHHHHHHHHHh-cCCeEEEEeccCCHHHHHHHHHHhhCCCCHHHhccCCCC
Confidence 3455555545555556999999999999988877765432 23589999998877887766543332222111 123 1
Q ss_pred -hhhHHHHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhc-CccEEEEccccccC
Q 004880 239 -KKERDEIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHY-NWKYLVVDEGHRLK 293 (725)
Q Consensus 239 -~~~r~~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~-~~~~vIvDEaH~ik 293 (725)
..+...+.... .......++.| .|...+....+...... +.++||||=-|.+.
T Consensus 288 ~~~e~~~~~~a~--~~l~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~ 347 (472)
T PRK06904 288 DQQDWAKISSTV--GMFKQKPNLYIDDSSGLTPTELRSRARRVYRENGGLSLIMVDYLQLMR 347 (472)
T ss_pred CHHHHHHHHHHH--HHHhcCCCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEecHHhcC
Confidence 11111111100 00001222444 24555655554444433 57899999888886
No 303
>PRK06893 DNA replication initiation factor; Validated
Probab=90.38 E-value=3 Score=42.19 Aligned_cols=26 Identities=19% Similarity=-0.051 Sum_probs=22.0
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~ 202 (725)
.+|.-+.|+|||..+.+++.++...+
T Consensus 42 l~l~G~~G~GKThL~~ai~~~~~~~~ 67 (229)
T PRK06893 42 FYIWGGKSSGKSHLLKAVSNHYLLNQ 67 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence 47999999999999988888876653
No 304
>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=90.27 E-value=1.7 Score=48.55 Aligned_cols=130 Identities=14% Similarity=0.090 Sum_probs=70.7
Q ss_pred HHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEE-EEeCC
Q 004880 160 QLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAI-IYHGS 238 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~-~~~g~ 238 (725)
-..++.-++.-+..|.-.+|+..+|.|||.-++.++.+.... ...++++++.-....+....+.....++... +..|.
T Consensus 181 G~~~LD~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~-~g~~vl~~SlEm~~~~i~~R~~~~~~~v~~~~~~~g~ 259 (434)
T TIGR00665 181 GFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIK-EGKPVAFFSLEMSAEQLAMRMLSSESRVDSQKLRTGK 259 (434)
T ss_pred CchhhHhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHh-CCCeEEEEeCcCCHHHHHHHHHHHhcCCCHHHhccCC
Confidence 344455555434445556999999999999999888776542 1258899988666655554443332222211 11221
Q ss_pred hh--hHHHHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhcCccEEEEccccccC
Q 004880 239 KK--ERDEIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHYNWKYLVVDEGHRLK 293 (725)
Q Consensus 239 ~~--~r~~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~~~~~vIvDEaH~ik 293 (725)
-. +...+.... . .....++.| .|.+.+...++......+.++||||=.|.+.
T Consensus 260 l~~~~~~~~~~a~--~-~l~~~~l~i~d~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~i~ 318 (434)
T TIGR00665 260 LSDEDWEKLTSAA--G-KLSEAPLYIDDTPGLTITELRAKARRLKREHGLGLIVIDYLQLMS 318 (434)
T ss_pred CCHHHHHHHHHHH--H-HHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcC
Confidence 11 111111000 0 001223444 2445555555455556678999999888875
No 305
>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=90.09 E-value=1.2 Score=48.61 Aligned_cols=61 Identities=26% Similarity=0.304 Sum_probs=46.1
Q ss_pred cccchHHHHHHHHHHHh--cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHH
Q 004880 155 KLKSYQLKGVKWLISLW--QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLS 217 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~--~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~ 217 (725)
+|-+-|..++.+++..+ ..+.+..|--.-|+|||...=++...+... ..+++++||..+..
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~--~~~~~~~a~tg~AA 63 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR--GKKVLVTAPTGIAA 63 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc--cceEEEecchHHHH
Confidence 35677999988887665 445566888999999999887777776553 35789999977543
No 306
>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=90.01 E-value=3.2 Score=38.69 Aligned_cols=36 Identities=14% Similarity=0.224 Sum_probs=27.1
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCcc
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLST 215 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sl 215 (725)
+|.-+.|+|||..+..++..+... .++++++.....
T Consensus 3 ~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~e~~ 38 (165)
T cd01120 3 LVFGPTGSGKTTLALQLALNIATK--GGKVVYVDIEEE 38 (165)
T ss_pred eEeCCCCCCHHHHHHHHHHHHHhc--CCEEEEEECCcc
Confidence 567789999999999888877663 457777766443
No 307
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=90.00 E-value=3.2 Score=48.80 Aligned_cols=42 Identities=21% Similarity=0.215 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+..+......+. ++ |+.-+.|.|||..|-+++..+...
T Consensus 23 Qe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~ 67 (725)
T PRK07133 23 QDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCS 67 (725)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 4444444444444442 33 789999999999999988877653
No 308
>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=89.98 E-value=6.6 Score=37.19 Aligned_cols=138 Identities=16% Similarity=0.103 Sum_probs=75.5
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc-CccHHHHHHHHHHhCCCceEEEEeCChh----hHHHHHHhcCCC
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP-LSTLSNWVNEISRFVPSVSAIIYHGSKK----ERDEIRRKHMPR 252 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P-~sll~~W~~E~~~~~p~~~v~~~~g~~~----~r~~~~~~~~~~ 252 (725)
.+.-..|.|||-.|++++......| .++++|== +.-...=...+-+.+|++.+..+..+.. .....
T Consensus 6 ~vy~g~G~Gkt~~a~g~~~ra~~~g--~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~------- 76 (159)
T cd00561 6 QVYTGNGKGKTTAALGLALRALGHG--YRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEED------- 76 (159)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHH-------
Confidence 4567789999999999887776664 35555211 1100000122333345555444322110 00000
Q ss_pred CCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCC----cchHHHHHHhcCCCCcEEEEeccCCCCChHHhhh
Q 004880 253 AIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKN----PKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWS 328 (725)
Q Consensus 253 ~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn----~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~s 328 (725)
...........+..+....+++||+||.=..-+ ....+...+..-+...-+.|||--.+..+.++..
T Consensus 77 ---------~~~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~~l~e~AD 147 (159)
T cd00561 77 ---------IAAAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPKELIEAAD 147 (159)
T ss_pred ---------HHHHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCc
Confidence 000011122223456667899999999877643 3346777777777777899999876666655555
Q ss_pred hhccc
Q 004880 329 LLHFI 333 (725)
Q Consensus 329 ll~~l 333 (725)
++.-+
T Consensus 148 ~VTEm 152 (159)
T cd00561 148 LVTEM 152 (159)
T ss_pred eeeec
Confidence 44433
No 309
>PRK05642 DNA replication initiation factor; Validated
Probab=89.83 E-value=2 Score=43.65 Aligned_cols=37 Identities=16% Similarity=0.342 Sum_probs=24.7
Q ss_pred ccEEEEccccccCCcc---hHHHHHHhcCC-CCcEEEEecc
Q 004880 281 WKYLVVDEGHRLKNPK---CKLLKELKYIP-IGNKLLLTGT 317 (725)
Q Consensus 281 ~~~vIvDEaH~ikn~~---s~~~~~l~~l~-~~~rllLTgT 317 (725)
.+++|||+.|.+.+.. ..++..+..+. ...++++|+|
T Consensus 98 ~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~ 138 (234)
T PRK05642 98 YELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS 138 (234)
T ss_pred CCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence 4799999999886432 23444444443 3567888887
No 310
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=89.82 E-value=3.3 Score=41.90 Aligned_cols=52 Identities=13% Similarity=0.167 Sum_probs=37.0
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISR 225 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~ 225 (725)
..+.-.+|.-+.|+|||..+..++..+...+ .+++.|+......+-.+.+..
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g--~~~~yi~~e~~~~~~~~~~~~ 73 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQRLAYGFLQNG--YSVSYVSTQLTTTEFIKQMMS 73 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEeCCCCHHHHHHHHHH
Confidence 3455568999999999999988888876654 577888875555444444443
No 311
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=89.74 E-value=2.7 Score=48.46 Aligned_cols=42 Identities=26% Similarity=0.118 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhcCCCC---eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGLN---GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~~---~ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+..|...+.++.- -|+.-+.|.|||..+-+++..+...
T Consensus 21 qe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~ 65 (563)
T PRK06647 21 QDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCV 65 (563)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccc
Confidence 33334444444344432 3899999999999999999888753
No 312
>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=89.58 E-value=1.4 Score=49.95 Aligned_cols=28 Identities=25% Similarity=0.178 Sum_probs=22.8
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~ 200 (725)
...+.+|.-++|+|||..+-+++..+..
T Consensus 215 ~p~GILLyGPPGTGKT~LAKAlA~eL~~ 242 (512)
T TIGR03689 215 PPKGVLLYGPPGCGKTLIAKAVANSLAQ 242 (512)
T ss_pred CCcceEEECCCCCcHHHHHHHHHHhhcc
Confidence 3567799999999999998888877644
No 313
>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=89.42 E-value=1.9 Score=43.38 Aligned_cols=101 Identities=19% Similarity=0.196 Sum_probs=63.3
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhC-CCCCCcEEEEcCccHHHHHHHHHHhCCCc-------eEEEEeCChhhHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGN-GLHGPYLVIAPLSTLSNWVNEISRFVPSV-------SAIIYHGSKKERDEI 245 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~-~~~~~~LIV~P~sll~~W~~E~~~~~p~~-------~v~~~~g~~~~r~~~ 245 (725)
|.-.+|+-+.|+|||.-++.++...... | .++++|+-.....++.+.+..+..++ ...++........
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~g--e~vlyvs~ee~~~~l~~~~~s~g~d~~~~~~~g~l~~~d~~~~~~~-- 94 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFG--EKVLYVSFEEPPEELIENMKSFGWDLEEYEDSGKLKIIDAFPERIG-- 94 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT----EEEEESSS-HHHHHHHHHTTTS-HHHHHHTTSEEEEESSGGGST--
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcC--CcEEEEEecCCHHHHHHHHHHcCCcHHHHhhcCCEEEEeccccccc--
Confidence 3345889999999999999988766554 4 47899998777788888887664221 1222222221100
Q ss_pred HHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEcccccc
Q 004880 246 RRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRL 292 (725)
Q Consensus 246 ~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~i 292 (725)
.. -.+.+.+...+...+...+.+++|||=...+
T Consensus 95 ------------~~--~~~~~~l~~~i~~~i~~~~~~~vVIDsls~l 127 (226)
T PF06745_consen 95 ------------WS--PNDLEELLSKIREAIEELKPDRVVIDSLSAL 127 (226)
T ss_dssp -------------T--SCCHHHHHHHHHHHHHHHTSSEEEEETHHHH
T ss_pred ------------cc--ccCHHHHHHHHHHHHHhcCCCEEEEECHHHH
Confidence 00 2344555566566677777899999977666
No 314
>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=89.40 E-value=1.7 Score=45.17 Aligned_cols=118 Identities=13% Similarity=0.043 Sum_probs=62.2
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEe---CCh-hhHHHHHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYH---GSK-KERDEIRR 247 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~---g~~-~~r~~~~~ 247 (725)
..|.-.+|+-.+|.|||..++.++.++... ...+++++.--....++...+....-+..+.... +.. ..-..+..
T Consensus 28 ~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~-~g~~vl~iS~E~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 106 (271)
T cd01122 28 RKGELIILTAGTGVGKTTFLREYALDLITQ-HGVRVGTISLEEPVVRTARRLLGQYAGKRLHLPDTVFIYTLEEFDAAFD 106 (271)
T ss_pred cCCcEEEEEcCCCCCHHHHHHHHHHHHHHh-cCceEEEEEcccCHHHHHHHHHHHHhCCCcccCCccccccHHHHHHHHH
Confidence 445567999999999999999888776543 1257888887554444444443322122111110 111 11110001
Q ss_pred hcCCCCCCCCCCEEEe-----cHHHHHHHHHHhhhhcCccEEEEccccccCC
Q 004880 248 KHMPRAIGPKFPIVVT-----SYEVALSDARKYLRHYNWKYLVVDEGHRLKN 294 (725)
Q Consensus 248 ~~~~~~~~~~~~vvIt-----sye~~~~~~~~~l~~~~~~~vIvDEaH~ikn 294 (725)
. +.. .+.+ +++- +.+.+...++......+.++||||-.+.+..
T Consensus 107 ~-~~~--~~~l-~i~d~~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~l~~ 154 (271)
T cd01122 107 E-FEG--TGRL-FMYDSFGEYSMDSVLEKVRYMAVSHGIQHIIIDNLSIMVS 154 (271)
T ss_pred H-hcC--CCcE-EEEcCCCccCHHHHHHHHHHHHhcCCceEEEECCHHHHhc
Confidence 1 100 0111 1111 3444555554455566789999999887754
No 315
>PRK05748 replicative DNA helicase; Provisional
Probab=89.35 E-value=2.2 Score=47.97 Aligned_cols=129 Identities=12% Similarity=0.079 Sum_probs=71.8
Q ss_pred HHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEE-EEeCCh
Q 004880 161 LKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAI-IYHGSK 239 (725)
Q Consensus 161 ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~-~~~g~~ 239 (725)
..++..+..-+..|.-.+||..+|.|||.-++.++...... ...++++++.-..-.++...+-.....+... +..|.-
T Consensus 190 ~~~LD~~~~G~~~G~livIaarpg~GKT~~al~ia~~~a~~-~g~~v~~fSlEms~~~l~~R~l~~~~~v~~~~i~~~~l 268 (448)
T PRK05748 190 FTDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVATK-TDKNVAIFSLEMGAESLVMRMLCAEGNIDAQRLRTGQL 268 (448)
T ss_pred hHHHHHhcCCCCCCceEEEEeCCCCCchHHHHHHHHHHHHh-CCCeEEEEeCCCCHHHHHHHHHHHhcCCCHHHhhcCCC
Confidence 44555555444555556999999999999999988776432 1358899988776666666553222222211 112211
Q ss_pred hhHH--HHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhc-CccEEEEccccccC
Q 004880 240 KERD--EIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHY-NWKYLVVDEGHRLK 293 (725)
Q Consensus 240 ~~r~--~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~-~~~~vIvDEaH~ik 293 (725)
.... .+.... . .....++.| .|.+.+...++...... +.++||||=-|.+.
T Consensus 269 ~~~e~~~~~~a~--~-~l~~~~~~i~d~~~~ti~~i~~~~r~~~~~~~~~~~vvIDyL~li~ 327 (448)
T PRK05748 269 TDDDWPKLTIAM--G-SLSDAPIYIDDTPGIKVTEIRARCRRLAQEHGGLGLILIDYLQLIQ 327 (448)
T ss_pred CHHHHHHHHHHH--H-HHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccchhcC
Confidence 1111 110000 0 001233444 24455555554444454 68999999998885
No 316
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.34 E-value=3.7 Score=47.75 Aligned_cols=43 Identities=16% Similarity=0.098 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHhcCCC--C-eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 159 YQLKGVKWLISLWQNGL--N-GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~--~-~ILademGlGKT~qaiali~~l~~~ 201 (725)
.|...+..+...+.++. + -|+.-+.|.|||..|..++..+...
T Consensus 20 GQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~ 65 (620)
T PRK14954 20 AQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQ 65 (620)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence 36666666766665543 2 4788999999999999998887653
No 317
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=89.08 E-value=5.3 Score=41.86 Aligned_cols=147 Identities=13% Similarity=0.062 Sum_probs=75.8
Q ss_pred cccchHHHHHHHHHHHhcCCC--CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceE
Q 004880 155 KLKSYQLKGVKWLISLWQNGL--NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~--~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v 232 (725)
.|...|-..+..+...+.+++ .++|... |.||+..|..|+..+.-.+..+. .|-..+..-..-...-+|++..
T Consensus 2 ~l~~~q~~~~~~L~~~~~~~rl~hAyLf~G-~~G~~~~A~~~A~~llC~~~~~~----~~Cg~C~~C~~i~~~~HPD~~~ 76 (290)
T PRK07276 2 DLKQKQPKVFQRFQTILEQDRLNHAYLFSG-DFASFEMALFLAQSLFCEQKEGV----LPCGHCRSCRLIEQGEFSDVTV 76 (290)
T ss_pred cHHHHHHHHHHHHHHHHHcCCcceeeeeeC-CccHHHHHHHHHHHHcCCCCCCC----CCCCCCHHHHHHhcCCCCCeee
Confidence 355677777877777766664 3455544 68999999999988876542211 0222222222222223455433
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh----hcCccEEEEccccccCCcc-hHHHHHHhcCC
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR----HYNWKYLVVDEGHRLKNPK-CKLLKELKYIP 307 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~----~~~~~~vIvDEaH~ikn~~-s~~~~~l~~l~ 307 (725)
+.-.|. ..+-+.++.-. ..+. .-+|+++|||+||++.... ..+.+.+-.-+
T Consensus 77 i~p~~~-----------------------~I~idqIR~l~-~~~~~~p~~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp 132 (290)
T PRK07276 77 IEPQGQ-----------------------VIKTDTIRELV-KNFSQSGYEGKQQVFIIKDADKMHVNAANSLLKVIEEPQ 132 (290)
T ss_pred ecCCCC-----------------------cCCHHHHHHHH-HHHhhCcccCCcEEEEeehhhhcCHHHHHHHHHHhcCCC
Confidence 311110 11223333221 2222 2258999999999996322 23444444545
Q ss_pred CCcEEEEeccCCCCChHHhhhhh
Q 004880 308 IGNKLLLTGTPLQNNLAELWSLL 330 (725)
Q Consensus 308 ~~~rllLTgTP~~n~~~el~sll 330 (725)
....++|++.-...-+.-+.|-.
T Consensus 133 ~~t~~iL~t~~~~~lLpTI~SRc 155 (290)
T PRK07276 133 SEIYIFLLTNDENKVLPTIKSRT 155 (290)
T ss_pred CCeEEEEEECChhhCchHHHHcc
Confidence 54555555543334444444433
No 318
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=89.00 E-value=2.2 Score=49.20 Aligned_cols=150 Identities=16% Similarity=0.125 Sum_probs=79.2
Q ss_pred ccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cHHHHHHH----HH-----H
Q 004880 156 LKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TLSNWVNE----IS-----R 225 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll~~W~~E----~~-----~ 225 (725)
.-|+=..-|..+...|.+...++.++ =|-|||..+..++.++.... ...++|.+|.. +...-.+. +. .
T Consensus 170 ~~~~~~~~id~~~~~fkq~~tV~taP-RqrGKS~iVgi~l~~La~f~-Gi~IlvTAH~~~ts~evF~rv~~~le~lg~~~ 247 (752)
T PHA03333 170 PSPRTLREIDRIFDEYGKCYTAATVP-RRCGKTTIMAIILAAMISFL-EIDIVVQAQRKTMCLTLYNRVETVVHAYQHKP 247 (752)
T ss_pred CChhhHHHHHHHHHHHhhcceEEEec-cCCCcHHHHHHHHHHHHHhc-CCeEEEECCChhhHHHHHHHHHHHHHHhcccc
Confidence 33555666888888888888777765 89999998876666665422 24688999943 33332222 22 4
Q ss_pred hCCCce-EEEEeCChhhHHHHHHhcCCCCCC-CCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHH
Q 004880 226 FVPSVS-AIIYHGSKKERDEIRRKHMPRAIG-PKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKEL 303 (725)
Q Consensus 226 ~~p~~~-v~~~~g~~~~r~~~~~~~~~~~~~-~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l 303 (725)
|+|... +....|....- ....+.... +...+...+-. ....+...+++||||||+.+... .+...+
T Consensus 248 ~fp~~~~iv~vkgg~E~I----~f~~p~gak~G~sti~F~Ars------~~s~RG~~~DLLIVDEAAfI~~~--~l~aIl 315 (752)
T PHA03333 248 WFPEEFKIVTLKGTDENL----EYISDPAAKEGKTTAHFLASS------PNAARGQNPDLVIVDEAAFVNPG--ALLSVL 315 (752)
T ss_pred ccCCCceEEEeeCCeeEE----EEecCcccccCcceeEEeccc------CCCcCCCCCCEEEEECcccCCHH--HHHHHH
Confidence 666442 22222221100 000000000 00111111111 13355567899999999999752 222222
Q ss_pred hcCC-CCcEEEEeccCC
Q 004880 304 KYIP-IGNKLLLTGTPL 319 (725)
Q Consensus 304 ~~l~-~~~rllLTgTP~ 319 (725)
-.+. ...++.+.-||.
T Consensus 316 P~l~~~~~k~IiISS~~ 332 (752)
T PHA03333 316 PLMAVKGTKQIHISSPV 332 (752)
T ss_pred HHHccCCCceEEEeCCC
Confidence 2222 355666666665
No 319
>PRK13342 recombination factor protein RarA; Reviewed
Probab=88.96 E-value=2.8 Score=46.53 Aligned_cols=22 Identities=27% Similarity=0.178 Sum_probs=18.1
Q ss_pred CeEEEcCCCCcHHHHHHHHHHH
Q 004880 176 NGILADQMGLGKTIQTIAFLAH 197 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~ 197 (725)
+.+|.-+.|+|||..+-++...
T Consensus 38 ~ilL~GppGtGKTtLA~~ia~~ 59 (413)
T PRK13342 38 SMILWGPPGTGKTTLARIIAGA 59 (413)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 5789999999999887776554
No 320
>PRK05580 primosome assembly protein PriA; Validated
Probab=88.91 E-value=3.6 Score=48.71 Aligned_cols=93 Identities=15% Similarity=0.197 Sum_probs=71.7
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc-CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecc
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK-GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTR 557 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~-g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~ 557 (725)
|||.......+......|.++||.+........+...|... |..+..++|+++..+|.+...+...++ ..| +++|+
T Consensus 173 SGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~--~~I-VVgTr 249 (679)
T PRK05580 173 SGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGE--AKV-VIGAR 249 (679)
T ss_pred ChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCC--CCE-EEecc
Confidence 78998888888877788999999999998888777777654 788999999999999988888877633 344 67776
Q ss_pred cccCCCCCCCCCEEEEeC
Q 004880 558 AGGLGINLTAADTCILYD 575 (725)
Q Consensus 558 agg~GiNL~~a~~VI~~D 575 (725)
..- =+.+.....||+=+
T Consensus 250 sal-~~p~~~l~liVvDE 266 (679)
T PRK05580 250 SAL-FLPFKNLGLIIVDE 266 (679)
T ss_pred HHh-cccccCCCEEEEEC
Confidence 432 24556677777654
No 321
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=88.87 E-value=4.8 Score=45.55 Aligned_cols=38 Identities=16% Similarity=0.135 Sum_probs=26.7
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEE
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIA 211 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~ 211 (725)
+....|.-.+|.|||..+..++..+...+..+.+.+|.
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 44446677899999999888887766654344566655
No 322
>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=88.86 E-value=3 Score=42.29 Aligned_cols=43 Identities=21% Similarity=0.214 Sum_probs=32.3
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCcc
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLST 215 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sl 215 (725)
..|.-.+|+-.+|+|||..++.++....... ..++++++.-..
T Consensus 11 ~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~-g~~vly~s~E~~ 53 (242)
T cd00984 11 QPGDLIIIAARPSMGKTAFALNIAENIAKKQ-GKPVLFFSLEMS 53 (242)
T ss_pred CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCceEEEeCCCC
Confidence 3444569999999999999998887776542 358899986443
No 323
>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=88.85 E-value=4.6 Score=40.51 Aligned_cols=98 Identities=19% Similarity=0.250 Sum_probs=54.4
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGP 256 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~ 256 (725)
.+|.-+.|+|||--.-|++.++....+..+++.+.. ..+.+++......
T Consensus 37 l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~----~~f~~~~~~~~~~--------------------------- 85 (219)
T PF00308_consen 37 LFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA----EEFIREFADALRD--------------------------- 85 (219)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH----HHHHHHHHHHHHT---------------------------
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhccccccceeecH----HHHHHHHHHHHHc---------------------------
Confidence 589999999999877777766665444344444433 2222333222100
Q ss_pred CCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcch---HHHHHHhcC-CCCcEEEEecc
Q 004880 257 KFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKC---KLLKELKYI-PIGNKLLLTGT 317 (725)
Q Consensus 257 ~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s---~~~~~l~~l-~~~~rllLTgT 317 (725)
...+.+ ...+. ..++++||..|.+.+... .++..+..+ ....++++|+-
T Consensus 86 ------~~~~~~----~~~~~--~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~ 138 (219)
T PF00308_consen 86 ------GEIEEF----KDRLR--SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSD 138 (219)
T ss_dssp ------TSHHHH----HHHHC--TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEES
T ss_pred ------ccchhh----hhhhh--cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeC
Confidence 001111 12222 579999999999987542 333444443 34567777773
No 324
>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=88.81 E-value=1.9 Score=38.79 Aligned_cols=34 Identities=26% Similarity=0.304 Sum_probs=23.2
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL 216 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll 216 (725)
+|.-+.|+|||..+-.++.++. -+++.+....+.
T Consensus 2 ll~G~~G~GKT~l~~~la~~l~-----~~~~~i~~~~~~ 35 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYLG-----FPFIEIDGSELI 35 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHTT-----SEEEEEETTHHH
T ss_pred EEECcCCCCeeHHHHHHHhhcc-----cccccccccccc
Confidence 5677899999988887777652 245555554443
No 325
>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=88.80 E-value=3 Score=46.39 Aligned_cols=130 Identities=12% Similarity=0.047 Sum_probs=68.6
Q ss_pred HHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEE-EeCCh
Q 004880 161 LKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAII-YHGSK 239 (725)
Q Consensus 161 ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~-~~g~~ 239 (725)
...+..++.-+..|.-.+||..+|.|||.-++.++.++... ...|+++++.-....++...+-....++.... ..|..
T Consensus 181 ~~~LD~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~-~g~~v~~fSlEm~~~~l~~Rl~~~~~~v~~~~~~~~~l 259 (421)
T TIGR03600 181 LPKLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALR-EGKPVLFFSLEMSAEQLGERLLASKSGINTGNIRTGRF 259 (421)
T ss_pred ChhHHHHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCCCHHHHHHHHHHHHcCCCHHHHhcCCC
Confidence 44465565444555556999999999999999988766522 23689999876655555544332221221111 11211
Q ss_pred --hhHHHHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhc-CccEEEEccccccCC
Q 004880 240 --KERDEIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHY-NWKYLVVDEGHRLKN 294 (725)
Q Consensus 240 --~~r~~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~-~~~~vIvDEaH~ikn 294 (725)
.+...+.... . .....++.| .|.+.+...++..-... +.++||||=.|.+..
T Consensus 260 ~~~~~~~~~~~~-~--~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDyLql~~~ 319 (421)
T TIGR03600 260 NDSDFNRLLNAV-D--RLSEKDLYIDDTGGLTVAQIRSIARRIKRKKGGLDLIVVDYIQLMAP 319 (421)
T ss_pred CHHHHHHHHHHH-H--HHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEecccccCC
Confidence 1111111000 0 001223333 23444554443333333 588999998888763
No 326
>PRK10865 protein disaggregation chaperone; Provisional
Probab=88.78 E-value=2.1 Score=52.11 Aligned_cols=41 Identities=17% Similarity=0.246 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHh--cCCCCeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 160 QLKGVKWLISLW--QNGLNGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 160 Q~~gv~~l~~~~--~~~~~~ILademGlGKT~qaiali~~l~~ 200 (725)
|..-++.++..+ ....|.||.-+.|.|||..+-+++..+..
T Consensus 183 r~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~ 225 (857)
T PRK10865 183 RDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIIN 225 (857)
T ss_pred CHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhc
Confidence 444477777533 34457899999999999998887776654
No 327
>PRK04132 replication factor C small subunit; Provisional
Probab=88.73 E-value=1.8 Score=51.84 Aligned_cols=108 Identities=14% Similarity=0.192 Sum_probs=63.9
Q ss_pred cCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCcc--HHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCCC
Q 004880 181 DQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLST--LSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPKF 258 (725)
Q Consensus 181 demGlGKT~qaiali~~l~~~~~~~~~LIV~P~sl--l~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~ 258 (725)
.+.++|||-.|.+++..+...+...+++-+-+... +..-.+-++.+.. .
T Consensus 573 lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~----------------------------~- 623 (846)
T PRK04132 573 LPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFAR----------------------------T- 623 (846)
T ss_pred CCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHh----------------------------c-
Confidence 47889999999999888766544445666666442 2222211221110 0
Q ss_pred CEEEecHHHHHHHHHHhhhhcCccEEEEccccccCC-cchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhcc
Q 004880 259 PIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKN-PKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHF 332 (725)
Q Consensus 259 ~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~ 332 (725)
..+...++.++|+||+|++.. ....+.+.+...+...+++|+.++...-+.-|-|-...
T Consensus 624 ---------------~~~~~~~~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~ 683 (846)
T PRK04132 624 ---------------KPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAI 683 (846)
T ss_pred ---------------CCcCCCCCEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceE
Confidence 001112578999999999953 22334444555566778899988876665555554433
No 328
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=88.68 E-value=2.9 Score=42.11 Aligned_cols=37 Identities=16% Similarity=0.042 Sum_probs=26.4
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEE
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIA 211 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~ 211 (725)
.+...+|.-+.|+|||..+.++...+...+ .+++++.
T Consensus 41 ~~~~~~l~G~~G~GKT~La~ai~~~~~~~~--~~~~~i~ 77 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHLLQALVADASYGG--RNARYLD 77 (227)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEe
Confidence 345679999999999999888887765542 3444443
No 329
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=88.66 E-value=2 Score=52.47 Aligned_cols=129 Identities=16% Similarity=0.091 Sum_probs=73.3
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceE
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v 232 (725)
+..|.+-|.++|..++. ...-.+|--..|+|||.+.-++...+...| ..++.++|+..... .+..-. ++.
T Consensus 344 g~~Ls~eQr~Av~~il~---s~~v~vv~G~AGTGKTT~l~~~~~~~e~~G--~~V~~~ApTGkAA~---~L~e~t-Gi~- 413 (988)
T PRK13889 344 GLVLSGEQADALAHVTD---GRDLGVVVGYAGTGKSAMLGVAREAWEAAG--YEVRGAALSGIAAE---NLEGGS-GIA- 413 (988)
T ss_pred CCCCCHHHHHHHHHHhc---CCCeEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEecCcHHHHH---HHhhcc-Ccc-
Confidence 55799999999998773 122467888899999987554444443333 46888888764432 222110 000
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHH-HhhhhcCccEEEEccccccCCcchHHHHHHhcC-CCCc
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDAR-KYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI-PIGN 310 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~-~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l-~~~~ 310 (725)
. .|...+...+. ........++|||||+-.+... .+.+.+... ....
T Consensus 414 --------a---------------------~TI~sll~~~~~~~~~l~~~~vlIVDEASMv~~~--~m~~LL~~a~~~ga 462 (988)
T PRK13889 414 --------S---------------------RTIASLEHGWGQGRDLLTSRDVLVIDEAGMVGTR--QLERVLSHAADAGA 462 (988)
T ss_pred --------h---------------------hhHHHHHhhhcccccccccCcEEEEECcccCCHH--HHHHHHHhhhhCCC
Confidence 0 00000100000 0001124579999999998543 233444333 5678
Q ss_pred EEEEeccCCCCC
Q 004880 311 KLLLTGTPLQNN 322 (725)
Q Consensus 311 rllLTgTP~~n~ 322 (725)
+|+|.|=|-|-.
T Consensus 463 rvVLVGD~~QLp 474 (988)
T PRK13889 463 KVVLVGDPQQLQ 474 (988)
T ss_pred EEEEECCHHHcC
Confidence 999999886543
No 330
>PRK08506 replicative DNA helicase; Provisional
Probab=88.63 E-value=2.4 Score=47.82 Aligned_cols=131 Identities=11% Similarity=0.068 Sum_probs=72.2
Q ss_pred chHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEE-Ee
Q 004880 158 SYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAII-YH 236 (725)
Q Consensus 158 ~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~-~~ 236 (725)
|.-...+.-+..-+..|.-.|||..+|.|||.-++.++.+.... ..++++++.-....++...+-....++.... ..
T Consensus 176 ~TG~~~LD~~~~G~~~G~LivIaarpg~GKT~fal~ia~~~~~~--g~~V~~fSlEMs~~ql~~Rlla~~s~v~~~~i~~ 253 (472)
T PRK08506 176 DTGFVELNKMTKGFNKGDLIIIAARPSMGKTTLCLNMALKALNQ--DKGVAFFSLEMPAEQLMLRMLSAKTSIPLQNLRT 253 (472)
T ss_pred cCChHHHHhhcCCCCCCceEEEEcCCCCChHHHHHHHHHHHHhc--CCcEEEEeCcCCHHHHHHHHHHHhcCCCHHHHhc
Confidence 33344566665445555556999999999999999888877543 3589999887776676655533222221110 11
Q ss_pred CC--hhhHHHHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhc-CccEEEEccccccC
Q 004880 237 GS--KKERDEIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHY-NWKYLVVDEGHRLK 293 (725)
Q Consensus 237 g~--~~~r~~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~-~~~~vIvDEaH~ik 293 (725)
|. ..+...+.... ... ...++.| .|...+...++.+.... +.++||||=.|.+.
T Consensus 254 ~~l~~~e~~~~~~a~--~~l-~~~~l~I~d~~~~ti~~I~~~~r~l~~~~~~~~lvvIDyLql~~ 315 (472)
T PRK08506 254 GDLDDDEWERLSDAC--DEL-SKKKLFVYDSGYVNIHQVRAQLRKLKSQHPEIGLAVIDYLQLMS 315 (472)
T ss_pred CCCCHHHHHHHHHHH--HHH-HcCCeEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEcChhhcc
Confidence 21 11111111000 000 1223444 24455555544433332 47899999988876
No 331
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=88.54 E-value=2.8 Score=46.66 Aligned_cols=35 Identities=23% Similarity=0.214 Sum_probs=26.8
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
..+++-.+|+|||.++..++.++...+ .++++|+.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~~g--~kV~lV~~ 131 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKKKG--LKVGLVAA 131 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcC--CeEEEecC
Confidence 457888999999999999988887654 35555554
No 332
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=88.50 E-value=3.4 Score=48.58 Aligned_cols=92 Identities=13% Similarity=0.151 Sum_probs=62.3
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHH----HHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEE
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIME----YYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLL 554 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~----~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Ll 554 (725)
|||-.+..--+-.....|.+++|-++....+..+. .++...|++++.++|+++..+|..+++...++ .+.| ++
T Consensus 267 SGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g--~~~I-iV 343 (630)
T TIGR00643 267 SGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASG--QIHL-VV 343 (630)
T ss_pred CcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCC--CCCE-EE
Confidence 67776543333333456889999998877655444 44445589999999999999999999988864 3445 44
Q ss_pred ecc-cccCCCCCCCCCEEEE
Q 004880 555 STR-AGGLGINLTAADTCIL 573 (725)
Q Consensus 555 st~-agg~GiNL~~a~~VI~ 573 (725)
+|. ..-..+++.....||+
T Consensus 344 gT~~ll~~~~~~~~l~lvVI 363 (630)
T TIGR00643 344 GTHALIQEKVEFKRLALVII 363 (630)
T ss_pred ecHHHHhccccccccceEEE
Confidence 554 3344566666666665
No 333
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=88.38 E-value=2.2 Score=47.68 Aligned_cols=35 Identities=29% Similarity=0.276 Sum_probs=26.2
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
..+|.-+.|+|||..+-+++..+...+ .+++.+..
T Consensus 143 pl~L~G~~G~GKTHLl~Ai~~~l~~~~--~~v~yi~~ 177 (445)
T PRK12422 143 PIYLFGPEGSGKTHLMQAAVHALRESG--GKILYVRS 177 (445)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcC--CCEEEeeH
Confidence 358889999999999988888887653 45555543
No 334
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=88.32 E-value=3.7 Score=48.93 Aligned_cols=46 Identities=17% Similarity=0.232 Sum_probs=31.9
Q ss_pred cccchHHHHHHHHHHH-hc-CCC-Ce-EEEcCCCCcHHHHHHHHHHHHHh
Q 004880 155 KLKSYQLKGVKWLISL-WQ-NGL-NG-ILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~-~~-~~~-~~-ILademGlGKT~qaiali~~l~~ 200 (725)
.=|+-|.+-|...+.- .. .+. ++ +|.-.+|+|||.++-.++..|..
T Consensus 758 PhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 758 PCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred CChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3467777777555543 32 233 33 38999999999999998887754
No 335
>PRK08840 replicative DNA helicase; Provisional
Probab=88.25 E-value=3.3 Score=46.57 Aligned_cols=127 Identities=14% Similarity=0.102 Sum_probs=68.9
Q ss_pred HHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEE-EeCC--hh
Q 004880 164 VKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAII-YHGS--KK 240 (725)
Q Consensus 164 v~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~-~~g~--~~ 240 (725)
++.+..-+..|.=.|||.-+|.|||.-++-++...... ...|++++..-....++...+-.....+.... ..|. ..
T Consensus 207 LD~~~~G~~~g~LiviaarPg~GKTafalnia~~~a~~-~~~~v~~fSlEMs~~ql~~Rlla~~s~v~~~~i~~~~l~~~ 285 (464)
T PRK08840 207 LNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMD-QDKPVLIFSLEMPAEQLMMRMLASLSRVDQTKIRTGQLDDE 285 (464)
T ss_pred HHHhhcCCCCCceEEEEeCCCCchHHHHHHHHHHHHHh-CCCeEEEEeccCCHHHHHHHHHHhhCCCCHHHHhcCCCCHH
Confidence 55555445555556999999999999988777665432 24689999987777777665533322221111 1121 11
Q ss_pred hHHHHHHhcCCCCCCCCCCEEEe-----cHHHHHHHHHHhhhhc-CccEEEEccccccC
Q 004880 241 ERDEIRRKHMPRAIGPKFPIVVT-----SYEVALSDARKYLRHY-NWKYLVVDEGHRLK 293 (725)
Q Consensus 241 ~r~~~~~~~~~~~~~~~~~vvIt-----sye~~~~~~~~~l~~~-~~~~vIvDEaH~ik 293 (725)
+...+.... .......++.|. |...+....+.+.... +.++||||=-|.++
T Consensus 286 e~~~~~~a~--~~l~~~~~l~I~d~~~~ti~~i~~~~r~~~~~~~~~~lvvIDYLql~~ 342 (464)
T PRK08840 286 DWARISSTM--GILMEKKNMYIDDSSGLTPTEVRSRARRIAREHGGLSMIMVDYLQLMR 342 (464)
T ss_pred HHHHHHHHH--HHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHhcC
Confidence 211111000 000011233332 3344554444443333 47899999999886
No 336
>PRK11054 helD DNA helicase IV; Provisional
Probab=88.19 E-value=0.94 Score=53.39 Aligned_cols=70 Identities=20% Similarity=0.108 Sum_probs=52.0
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCC--CCCcEEEEcCccHHHHHHH-HHHhC
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGL--HGPYLVIAPLSTLSNWVNE-ISRFV 227 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~--~~~~LIV~P~sll~~W~~E-~~~~~ 227 (725)
....|.+-|.++|..- ..+.++....|+|||.+.++-++++...+. ...+|++|......+..++ +....
T Consensus 193 e~~~L~~~Q~~av~~~------~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~l 265 (684)
T PRK11054 193 ESSPLNPSQARAVVNG------EDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERL 265 (684)
T ss_pred cCCCCCHHHHHHHhCC------CCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhc
Confidence 3467999999998532 334566667999999999999999987653 3469999998877665554 55444
No 337
>PRK08006 replicative DNA helicase; Provisional
Probab=88.17 E-value=3.5 Score=46.51 Aligned_cols=127 Identities=13% Similarity=0.080 Sum_probs=70.5
Q ss_pred HHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEE-eCC--hh
Q 004880 164 VKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIY-HGS--KK 240 (725)
Q Consensus 164 v~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~-~g~--~~ 240 (725)
++.+..-++.|.=.|||.-+|.|||.-++-++...... ...|++++..-....++...+---...+....+ .|. ..
T Consensus 214 LD~~~~Gl~~G~LiiIaarPgmGKTafalnia~~~a~~-~g~~V~~fSlEM~~~ql~~Rlla~~~~v~~~~i~~~~l~~~ 292 (471)
T PRK08006 214 LNKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAML-QDKPVLIFSLEMPGEQIMMRMLASLSRVDQTRIRTGQLDDE 292 (471)
T ss_pred HHHhhcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHh-cCCeEEEEeccCCHHHHHHHHHHHhcCCCHHHhhcCCCCHH
Confidence 55555445555556999999999999998888776432 235899998877777776655433222221111 121 11
Q ss_pred hHHHHHHhcCCCCCCCCCCEEEe-----cHHHHHHHHHHhhhhc-CccEEEEccccccC
Q 004880 241 ERDEIRRKHMPRAIGPKFPIVVT-----SYEVALSDARKYLRHY-NWKYLVVDEGHRLK 293 (725)
Q Consensus 241 ~r~~~~~~~~~~~~~~~~~vvIt-----sye~~~~~~~~~l~~~-~~~~vIvDEaH~ik 293 (725)
+...+.... .......++.|. |...+....+...... +.++||||=-|.+.
T Consensus 293 e~~~~~~a~--~~~~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~ 349 (471)
T PRK08006 293 DWARISGTM--GILLEKRNMYIDDSSGLTPTEVRSRARRIFREHGGLSLIMIDYLQLMR 349 (471)
T ss_pred HHHHHHHHH--HHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHHcc
Confidence 111111100 000012334442 4445555554444444 57999999888875
No 338
>PRK09183 transposase/IS protein; Provisional
Probab=88.14 E-value=2.4 Score=43.81 Aligned_cols=38 Identities=24% Similarity=0.152 Sum_probs=28.2
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEE
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIA 211 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~ 211 (725)
.++.+.+|.-+.|+|||..+.++...+...| ..++++.
T Consensus 100 ~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G--~~v~~~~ 137 (259)
T PRK09183 100 ERNENIVLLGPSGVGKTHLAIALGYEAVRAG--IKVRFTT 137 (259)
T ss_pred hcCCeEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEe
Confidence 4578889999999999999988876655543 3455543
No 339
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=87.91 E-value=6.5 Score=39.43 Aligned_cols=50 Identities=16% Similarity=0.058 Sum_probs=38.9
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhC
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFV 227 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~ 227 (725)
-.+++.+.|+|||..++.++...... ..++++++......+-.+.+..+.
T Consensus 18 ~~li~G~~G~GKt~~~~~~~~~~~~~--g~~~~y~s~e~~~~~l~~~~~~~~ 67 (224)
T TIGR03880 18 VIVVIGEYGTGKTTFSLQFLYQGLKN--GEKAMYISLEEREERILGYAKSKG 67 (224)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCCCHHHHHHHHHHcC
Confidence 34788899999999999888776655 368999998777777767766654
No 340
>PRK04195 replication factor C large subunit; Provisional
Probab=87.76 E-value=5.8 Score=45.01 Aligned_cols=25 Identities=24% Similarity=0.178 Sum_probs=20.7
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHL 198 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l 198 (725)
....+|.-+.|+|||..+-+++..+
T Consensus 39 ~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHc
Confidence 4567999999999998888877765
No 341
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=87.62 E-value=6.7 Score=39.81 Aligned_cols=63 Identities=17% Similarity=0.132 Sum_probs=41.0
Q ss_pred HHHHHHHH-HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 162 KGVKWLIS-LWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 162 ~gv~~l~~-~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
.++..++. -+..|...+++-+.|+|||..++-++...... ..++++|+--....+-.+.+..+
T Consensus 8 ~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~--ge~~lyvs~ee~~~~i~~~~~~~ 71 (237)
T TIGR03877 8 PGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGIYVALEEHPVQVRRNMAQF 71 (237)
T ss_pred HhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEEeeCCHHHHHHHHHHh
Confidence 44554442 12234445889999999999999888776554 35888888655555555545443
No 342
>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]
Probab=87.62 E-value=3.6 Score=45.31 Aligned_cols=131 Identities=18% Similarity=0.151 Sum_probs=80.0
Q ss_pred HHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEE-eCChhhH
Q 004880 164 VKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIY-HGSKKER 242 (725)
Q Consensus 164 v~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~-~g~~~~r 242 (725)
+.-+..-|+++.-.|+|.-+|.|||--|+-++.+.... ..+|+.|..--..-.||...+-.-...+....+ .|.-.+
T Consensus 186 LD~~t~G~~~~dLii~AaRP~mGKTafalnia~n~a~~-~~~~v~iFSLEM~~eql~~R~Ls~~s~v~~~kirtg~l~~- 263 (435)
T COG0305 186 LDEITSGFRPGDLIIVAARPGMGKTALALNIALNAAAD-GRKPVAIFSLEMSEEQLVMRLLSSESGIESSKLRTGRLSD- 263 (435)
T ss_pred hHHHhcCCccCCEEEEccCCCCChHHHHHHHHHHHHHh-cCCCeEEEEccCCHHHHHHHhhccccccchhccccccccH-
Confidence 45555556666667999999999999999888877663 346788888888889998877554433332221 222111
Q ss_pred HHHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhcCccEEEEccccccCCcc
Q 004880 243 DEIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPK 296 (725)
Q Consensus 243 ~~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~ 296 (725)
..+.+...........++.| .|+..++...++.-...+.+++++|=-|-+....
T Consensus 264 ~d~~~l~~a~~~l~~~~i~IdD~~~~si~eir~~aRrlk~~~~l~~i~iDYLqLm~~~~ 322 (435)
T COG0305 264 DEWERLIKAASELSEAPIFIDDTPGLTITEIRSKARRLKLKHNLGLIVIDYLQLMTGGK 322 (435)
T ss_pred HHHHHHHHHHHHHhhCCeeecCCCcCCHHHHHHHHHHHHHhcCccEEEEEEEEeecccc
Confidence 11111110000112333444 3445556665666667778999999999886443
No 343
>PRK05595 replicative DNA helicase; Provisional
Probab=87.56 E-value=1.6 Score=49.05 Aligned_cols=128 Identities=13% Similarity=0.092 Sum_probs=69.3
Q ss_pred HHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHH-hCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEE-eCC
Q 004880 161 LKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLK-GNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIY-HGS 238 (725)
Q Consensus 161 ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~-~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~-~g~ 238 (725)
...+.-+..-+..|.=.+||..+|.|||.-++.++.++. .. ..+++++..-..-.++...+-....++....+ .|.
T Consensus 188 ~~~ld~~~~G~~~g~liviaarpg~GKT~~al~ia~~~a~~~--g~~vl~fSlEms~~~l~~R~~a~~~~v~~~~~~~~~ 265 (444)
T PRK05595 188 FRELDAKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALRE--GKSVAIFSLEMSKEQLAYKLLCSEANVDMLRLRTGN 265 (444)
T ss_pred hHHHHHhcCCCCCCcEEEEEecCCCChHHHHHHHHHHHHHHc--CCcEEEEecCCCHHHHHHHHHHHhcCCCHHHHhcCC
Confidence 444665554445555568999999999999998887654 33 35889998877667766664433222221111 121
Q ss_pred --hhhHHHHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhcCccEEEEccccccC
Q 004880 239 --KKERDEIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHYNWKYLVVDEGHRLK 293 (725)
Q Consensus 239 --~~~r~~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~~~~~vIvDEaH~ik 293 (725)
..+...+.... . .....++.| .|.+.+...++.+....+.++||||=.|.+.
T Consensus 266 l~~~e~~~~~~~~-~--~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~~~~~~vvIDylql~~ 324 (444)
T PRK05595 266 LEDKDWENIARAS-G--PLAAAKIFIDDTAGVSVMEMRSKCRRLKIEHGIDMILIDYLQLMS 324 (444)
T ss_pred CCHHHHHHHHHHH-H--HHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEeHHHhcc
Confidence 11111111100 0 001122322 2344555555444455678999999666553
No 344
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=87.51 E-value=0.45 Score=56.42 Aligned_cols=110 Identities=24% Similarity=0.258 Sum_probs=73.2
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc-cH----HHHHHHHHHhCCCceEEEEeCChhhHHHHHH
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS-TL----SNWVNEISRFVPSVSAIIYHGSKKERDEIRR 247 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s-ll----~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~ 247 (725)
-..+.++.+.+|.|||+.+-..+.......+.+++.+|+|.. ++ ..|..-+. .|+.+++-..|.....-.
T Consensus 942 td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap~kalvker~~Dw~~r~~--~~g~k~ie~tgd~~pd~~--- 1016 (1230)
T KOG0952|consen 942 TDLNFLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAPDKALVKERSDDWSKRDE--LPGIKVIELTGDVTPDVK--- 1016 (1230)
T ss_pred cchhhhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcCCchhhcccccchhhhcc--cCCceeEeccCccCCChh---
Confidence 345568899999999999876666666666678999999954 33 44655443 356777777665432210
Q ss_pred hcCCCCCCCCCCEEEecHHHHHHHH-----HHhhhhcCccEEEEccccccCCc
Q 004880 248 KHMPRAIGPKFPIVVTSYEVALSDA-----RKYLRHYNWKYLVVDEGHRLKNP 295 (725)
Q Consensus 248 ~~~~~~~~~~~~vvItsye~~~~~~-----~~~l~~~~~~~vIvDEaH~ikn~ 295 (725)
.-...+++|||++..-... +++++ ....+|+||.|.+...
T Consensus 1017 ------~v~~~~~~ittpek~dgi~Rsw~~r~~v~--~v~~iv~de~hllg~~ 1061 (1230)
T KOG0952|consen 1017 ------AVREADIVITTPEKWDGISRSWQTRKYVQ--SVSLIVLDEIHLLGED 1061 (1230)
T ss_pred ------heecCceEEcccccccCccccccchhhhc--cccceeecccccccCC
Confidence 1135689999998754332 12333 3467999999998754
No 345
>PTZ00293 thymidine kinase; Provisional
Probab=87.44 E-value=2.1 Score=42.49 Aligned_cols=35 Identities=17% Similarity=0.201 Sum_probs=27.0
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS 214 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s 214 (725)
++.-+||+|||...|-.+..+... ..+++++-|..
T Consensus 8 vi~GpMfSGKTteLLr~i~~y~~a--g~kv~~~kp~~ 42 (211)
T PTZ00293 8 VIIGPMFSGKTTELMRLVKRFTYS--EKKCVVIKYSK 42 (211)
T ss_pred EEECCCCChHHHHHHHHHHHHHHc--CCceEEEEecc
Confidence 678899999998877766665554 36889999954
No 346
>CHL00095 clpC Clp protease ATP binding subunit
Probab=87.26 E-value=2 Score=52.08 Aligned_cols=28 Identities=25% Similarity=0.291 Sum_probs=22.8
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~ 200 (725)
...|.||.-+.|.|||..+-+++..+..
T Consensus 199 ~~~n~lL~G~pGvGKTal~~~la~~i~~ 226 (821)
T CHL00095 199 TKNNPILIGEPGVGKTAIAEGLAQRIVN 226 (821)
T ss_pred ccCCeEEECCCCCCHHHHHHHHHHHHHh
Confidence 3457799999999999998888777654
No 347
>PRK10867 signal recognition particle protein; Provisional
Probab=87.21 E-value=6.3 Score=43.79 Aligned_cols=35 Identities=23% Similarity=0.236 Sum_probs=26.4
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
.+++-..|+|||.++.-++.++.... ..++++|+=
T Consensus 103 I~~vG~~GsGKTTtaakLA~~l~~~~-G~kV~lV~~ 137 (433)
T PRK10867 103 IMMVGLQGAGKTTTAGKLAKYLKKKK-KKKVLLVAA 137 (433)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhc-CCcEEEEEc
Confidence 46788999999999999998887662 245555554
No 348
>PRK07004 replicative DNA helicase; Provisional
Probab=86.95 E-value=2.4 Score=47.69 Aligned_cols=129 Identities=12% Similarity=0.083 Sum_probs=69.5
Q ss_pred HHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEE-EEeCC-
Q 004880 161 LKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAI-IYHGS- 238 (725)
Q Consensus 161 ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~-~~~g~- 238 (725)
..++.-+..-+..|.-.|||..+|.|||.-++.++.+.... ...|+++++.-..-.++...+---...+... +..|.
T Consensus 200 ~~~LD~~t~G~~~g~liviaarpg~GKT~~al~ia~~~a~~-~~~~v~~fSlEM~~~ql~~R~la~~~~v~~~~i~~g~l 278 (460)
T PRK07004 200 FVDLDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVE-YGLPVAVFSMEMPGTQLAMRMLGSVGRLDQHRMRTGRL 278 (460)
T ss_pred cHHhcccccCCCCCceEEEEeCCCCCccHHHHHHHHHHHHH-cCCeEEEEeCCCCHHHHHHHHHHhhcCCCHHHHhcCCC
Confidence 33455554444555556999999999999999888766432 2358899988777777665553221121111 11121
Q ss_pred -hhhHHHHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhc-CccEEEEccccccC
Q 004880 239 -KKERDEIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHY-NWKYLVVDEGHRLK 293 (725)
Q Consensus 239 -~~~r~~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~-~~~~vIvDEaH~ik 293 (725)
..+...+.... . .....++.| .|...+....+.+.... ..++||||=-|.+.
T Consensus 279 ~~~e~~~~~~a~--~-~l~~~~l~I~d~~~~~~~~i~~~~r~l~~~~~~~~lviIDYLql~~ 337 (460)
T PRK07004 279 TDEDWPKLTHAV--Q-KMSEAQLFIDETGGLNPMELRSRARRLARQCGKLGLIIIDYLQLMS 337 (460)
T ss_pred CHHHHHHHHHHH--H-HHhcCCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEChhhhcc
Confidence 11111111100 0 001234444 24444555544443333 37899999888886
No 349
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=86.92 E-value=2 Score=46.77 Aligned_cols=105 Identities=22% Similarity=0.302 Sum_probs=62.4
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGP 256 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~ 256 (725)
.+++-=-|+|||.++.-++.++..+ ..++|+||-..--+-=.++++.....+.+-+|.... ..+
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk~--~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~-~~~------------- 166 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKKK--GKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGT-EKD------------- 166 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHHc--CCceEEEecccCChHHHHHHHHHHHHcCCceecCCC-CCC-------------
Confidence 3566678999999999999988883 345666665444444455565555444444443311 110
Q ss_pred CCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC
Q 004880 257 KFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI 306 (725)
Q Consensus 257 ~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l 306 (725)
+ .++..+.+ ..+....+|+||||=|-|+.- +..+...+..+
T Consensus 167 --P-----v~Iak~al-~~ak~~~~DvvIvDTAGRl~i-de~Lm~El~~I 207 (451)
T COG0541 167 --P-----VEIAKAAL-EKAKEEGYDVVIVDTAGRLHI-DEELMDELKEI 207 (451)
T ss_pred --H-----HHHHHHHH-HHHHHcCCCEEEEeCCCcccc-cHHHHHHHHHH
Confidence 0 12233333 456666789999999988754 44455555544
No 350
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=86.85 E-value=5 Score=45.01 Aligned_cols=42 Identities=21% Similarity=0.109 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhcCCC--C-eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGL--N-GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~-~ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+.++...+..+. + .|+.-+.|+|||..|.+++..+...
T Consensus 22 q~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~ 66 (451)
T PRK06305 22 QDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQ 66 (451)
T ss_pred cHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence 5556667766655543 2 4788999999999999999888754
No 351
>PRK05973 replicative DNA helicase; Provisional
Probab=86.84 E-value=3.1 Score=42.21 Aligned_cols=59 Identities=15% Similarity=0.094 Sum_probs=41.3
Q ss_pred HHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 166 WLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 166 ~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
++..-+..|.-.+|+-.+|+|||.-++-++.+.... ..++++++--..-.+-.+.+..+
T Consensus 56 ~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~--Ge~vlyfSlEes~~~i~~R~~s~ 114 (237)
T PRK05973 56 ELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMKS--GRTGVFFTLEYTEQDVRDRLRAL 114 (237)
T ss_pred HhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEEeCCHHHHHHHHHHc
Confidence 344444556667999999999999999988877655 35788888655555544444444
No 352
>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=86.27 E-value=3.4 Score=41.44 Aligned_cols=41 Identities=29% Similarity=0.537 Sum_probs=30.7
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCCCcEEEE--cCccHHHHHHHHHH
Q 004880 183 MGLGKTIQTIAFLAHLKGNGLHGPYLVIA--PLSTLSNWVNEISR 225 (725)
Q Consensus 183 mGlGKT~qaiali~~l~~~~~~~~~LIV~--P~sll~~W~~E~~~ 225 (725)
=|.|||-.+++++..+..+| +++.+|= |..-+..|.+-..+
T Consensus 11 GGaGKTT~~~~LAs~la~~G--~~V~lIDaDpn~pl~~W~~~a~~ 53 (231)
T PF07015_consen 11 GGAGKTTAAMALASELAARG--ARVALIDADPNQPLAKWAENAQR 53 (231)
T ss_pred CCCcHHHHHHHHHHHHHHCC--CeEEEEeCCCCCcHHHHHHhccc
Confidence 48999999999999998876 3555553 56678899665433
No 353
>PRK06321 replicative DNA helicase; Provisional
Probab=86.25 E-value=4.2 Score=45.83 Aligned_cols=127 Identities=15% Similarity=0.134 Sum_probs=71.4
Q ss_pred HHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEE-EeCC--h
Q 004880 163 GVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAII-YHGS--K 239 (725)
Q Consensus 163 gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~-~~g~--~ 239 (725)
.+.-++.-+..|.=.|||.-+|.|||.-++.++...... ...|+++++.-..-.++...+--....+...- ..|. .
T Consensus 215 ~LD~~t~Gl~~G~LiiiaarPgmGKTafal~ia~~~a~~-~g~~v~~fSLEMs~~ql~~Rlla~~s~v~~~~i~~~~l~~ 293 (472)
T PRK06321 215 DLDKMINGFSPSNLMILAARPAMGKTALALNIAENFCFQ-NRLPVGIFSLEMTVDQLIHRIICSRSEVESKKISVGDLSG 293 (472)
T ss_pred HHHHHhcCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHh-cCCeEEEEeccCCHHHHHHHHHHhhcCCCHHHhhcCCCCH
Confidence 355555544555556999999999999998877765422 13588999887777777665532211111110 1121 1
Q ss_pred hhHHHHHHhcCCCCCCCCCCEEEe-----cHHHHHHHHHHhhhhcCccEEEEccccccC
Q 004880 240 KERDEIRRKHMPRAIGPKFPIVVT-----SYEVALSDARKYLRHYNWKYLVVDEGHRLK 293 (725)
Q Consensus 240 ~~r~~~~~~~~~~~~~~~~~vvIt-----sye~~~~~~~~~l~~~~~~~vIvDEaH~ik 293 (725)
.+...+.... ......++.|- |.+.+....+......+.++||||=-|.+.
T Consensus 294 ~e~~~~~~a~---~~l~~~~~~idd~~~~ti~~i~~~~r~~~~~~~~~lvvIDyLql~~ 349 (472)
T PRK06321 294 RDFQRIVSVV---NEMQEHTLLIDDQPGLKITDLRARARRMKESYDIQFLIIDYLQLLS 349 (472)
T ss_pred HHHHHHHHHH---HHHHcCCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHHcC
Confidence 1111111000 00012345553 445566665555555678999999888875
No 354
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=86.03 E-value=14 Score=38.41 Aligned_cols=126 Identities=13% Similarity=0.168 Sum_probs=68.1
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc----cHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhc
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS----TLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKH 249 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s----ll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~ 249 (725)
+....+.-..|+|||..+..++..+... ..++.+|+-.. .+.||.......
T Consensus 75 ~~~i~~~G~~g~GKTtl~~~l~~~l~~~--~~~v~~i~~D~~ri~~~~ql~~~~~~~----------------------- 129 (270)
T PRK06731 75 VQTIALIGPTGVGKTTTLAKMAWQFHGK--KKTVGFITTDHSRIGTVQQLQDYVKTI----------------------- 129 (270)
T ss_pred CCEEEEECCCCCcHHHHHHHHHHHHHHc--CCeEEEEecCCCCHHHHHHHHHHhhhc-----------------------
Confidence 4556778889999998887777766543 24555555522 445554332211
Q ss_pred CCCCCCCCCCEEE-ecHHHHHHHHHHhhhh-cCccEEEEccccccCCcchHHHHHHhc----CCC-CcEEEEeccCCCCC
Q 004880 250 MPRAIGPKFPIVV-TSYEVALSDARKYLRH-YNWKYLVVDEGHRLKNPKCKLLKELKY----IPI-GNKLLLTGTPLQNN 322 (725)
Q Consensus 250 ~~~~~~~~~~vvI-tsye~~~~~~~~~l~~-~~~~~vIvDEaH~ikn~~s~~~~~l~~----l~~-~~rllLTgTP~~n~ 322 (725)
.++++. .+...+...+ ..+.. .++++||||-+=+.-+.. .....+.. ... ...+.|+||--.+.
T Consensus 130 -------~~~~~~~~~~~~l~~~l-~~l~~~~~~D~ViIDt~Gr~~~~~-~~l~el~~~~~~~~~~~~~LVl~a~~~~~d 200 (270)
T PRK06731 130 -------GFEVIAVRDEAAMTRAL-TYFKEEARVDYILIDTAGKNYRAS-ETVEEMIETMGQVEPDYICLTLSASMKSKD 200 (270)
T ss_pred -------CceEEecCCHHHHHHHH-HHHHhcCCCCEEEEECCCCCcCCH-HHHHHHHHHHhhhCCCeEEEEEcCccCHHH
Confidence 122222 2333333322 22332 368999999987764322 22222322 222 23466888876666
Q ss_pred hHHhhhhhccc
Q 004880 323 LAELWSLLHFI 333 (725)
Q Consensus 323 ~~el~sll~~l 333 (725)
..+....++-+
T Consensus 201 ~~~~~~~f~~~ 211 (270)
T PRK06731 201 MIEIITNFKDI 211 (270)
T ss_pred HHHHHHHhCCC
Confidence 66665554443
No 355
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=85.98 E-value=3.7 Score=41.56 Aligned_cols=49 Identities=14% Similarity=0.214 Sum_probs=37.3
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
-.+++-+.|+|||.-+..++.....+ ..+++++.=........+.+..+
T Consensus 27 ~~~i~G~~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~~~~~~~~~~~~~ 75 (234)
T PRK06067 27 LILIEGDHGTGKSVLSQQFVYGALKQ--GKKVYVITTENTSKSYLKQMESV 75 (234)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhC--CCEEEEEEcCCCHHHHHHHHHHC
Confidence 35888999999999999988765554 35788888766666777766665
No 356
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=85.95 E-value=4.5 Score=39.35 Aligned_cols=109 Identities=17% Similarity=0.115 Sum_probs=59.5
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCC
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPK 257 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~ 257 (725)
++.-.|++|||..-|-.+..+...| .+++|..|..-- .+....+..-.|.. .
T Consensus 8 ~i~gpM~SGKT~eLl~r~~~~~~~g--~~v~vfkp~iD~---------R~~~~~V~Sr~G~~-----------------~ 59 (201)
T COG1435 8 FIYGPMFSGKTEELLRRARRYKEAG--MKVLVFKPAIDT---------RYGVGKVSSRIGLS-----------------S 59 (201)
T ss_pred EEEccCcCcchHHHHHHHHHHHHcC--CeEEEEeccccc---------ccccceeeeccCCc-----------------c
Confidence 6778999999998777666666653 578999885411 11111111111111 1
Q ss_pred CCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCC--CcEEEEecc
Q 004880 258 FPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPI--GNKLLLTGT 317 (725)
Q Consensus 258 ~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~--~~rllLTgT 317 (725)
--++|-+-..+...+...-.+...++|.|||||-+.. .+...+..+.. ..++++.|.
T Consensus 60 ~A~~i~~~~~i~~~i~~~~~~~~~~~v~IDEaQF~~~---~~v~~l~~lad~lgi~Vi~~GL 118 (201)
T COG1435 60 EAVVIPSDTDIFDEIAALHEKPPVDCVLIDEAQFFDE---ELVYVLNELADRLGIPVICYGL 118 (201)
T ss_pred cceecCChHHHHHHHHhcccCCCcCEEEEehhHhCCH---HHHHHHHHHHhhcCCEEEEecc
Confidence 1233334333433332211222268999999999854 45555555543 455666664
No 357
>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=85.94 E-value=11 Score=36.05 Aligned_cols=33 Identities=30% Similarity=0.393 Sum_probs=24.4
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEE
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIA 211 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~ 211 (725)
.++.-..|+|||..+..++..+...+ .++++|.
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~g--~~v~~i~ 35 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKKG--KKVLLVA 35 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEE
Confidence 36678899999999999888877663 3444444
No 358
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.91 E-value=1.8 Score=46.24 Aligned_cols=96 Identities=17% Similarity=0.233 Sum_probs=54.9
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCC
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPK 257 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~ 257 (725)
+++-=-|+|||.++.-++.++..+| .++.| ||-..--.--.++++.+.....+-.|...... +
T Consensus 105 mfVGLqG~GKTTtc~KlA~y~kkkG-~K~~L-vcaDTFRagAfDQLkqnA~k~~iP~ygsyte~-d-------------- 167 (483)
T KOG0780|consen 105 MFVGLQGSGKTTTCTKLAYYYKKKG-YKVAL-VCADTFRAGAFDQLKQNATKARVPFYGSYTEA-D-------------- 167 (483)
T ss_pred EEEeccCCCcceeHHHHHHHHHhcC-CceeE-EeecccccchHHHHHHHhHhhCCeeEeccccc-c--------------
Confidence 5566689999999888888777764 34444 45433333334556666543343333321111 0
Q ss_pred CCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcch
Q 004880 258 FPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKC 297 (725)
Q Consensus 258 ~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s 297 (725)
++. +...--+.+.+-+|++||||=+-|.+...+
T Consensus 168 -pv~------ia~egv~~fKke~fdvIIvDTSGRh~qe~s 200 (483)
T KOG0780|consen 168 -PVK------IASEGVDRFKKENFDVIIVDTSGRHKQEAS 200 (483)
T ss_pred -hHH------HHHHHHHHHHhcCCcEEEEeCCCchhhhHH
Confidence 111 122212456777899999998888775443
No 359
>PRK14873 primosome assembly protein PriA; Provisional
Probab=85.71 E-value=4 Score=47.99 Aligned_cols=79 Identities=18% Similarity=0.147 Sum_probs=67.3
Q ss_pred hhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc-C-ceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEe
Q 004880 478 QCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK-G-YEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLS 555 (725)
Q Consensus 478 ~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~-g-~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Lls 555 (725)
.|||-+...+++......|+.+||...-......+...|..+ | ..+..+|++.+..+|.+...+..+ +..+| ++.
T Consensus 170 GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~--G~~~I-ViG 246 (665)
T PRK14873 170 GEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLR--GQARV-VVG 246 (665)
T ss_pred CCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhC--CCCcE-EEE
Confidence 489999999999999999999999999999888888888765 4 679999999999999999988876 34444 777
Q ss_pred cccc
Q 004880 556 TRAG 559 (725)
Q Consensus 556 t~ag 559 (725)
|+.+
T Consensus 247 tRSA 250 (665)
T PRK14873 247 TRSA 250 (665)
T ss_pred ccee
Confidence 7765
No 360
>PRK05636 replicative DNA helicase; Provisional
Probab=85.64 E-value=4.2 Score=46.24 Aligned_cols=127 Identities=17% Similarity=0.173 Sum_probs=68.2
Q ss_pred HHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEE-EEeCC--h
Q 004880 163 GVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAI-IYHGS--K 239 (725)
Q Consensus 163 gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~-~~~g~--~ 239 (725)
.+..+..-+..|.=.||+..+|.|||.-++.++.....+. ..++++++.-....++...+--....+... +..|. .
T Consensus 254 ~LD~~t~Gl~~G~Liiiaarpg~GKT~~al~~a~~~a~~~-g~~v~~fSlEMs~~ql~~R~ls~~s~v~~~~i~~g~l~~ 332 (505)
T PRK05636 254 DLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRSASIKH-NKASVIFSLEMSKSEIVMRLLSAEAEVRLSDMRGGKMDE 332 (505)
T ss_pred HHhhhcCCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhC-CCeEEEEEeeCCHHHHHHHHHHHhcCCCHHHHhcCCCCH
Confidence 3444443334444458999999999999888876654321 358889888666666655442221111110 11121 1
Q ss_pred hhHHHHHHhcCCCCCCCCCCEEEe-----cHHHHHHHHHHhhhhcCccEEEEccccccC
Q 004880 240 KERDEIRRKHMPRAIGPKFPIVVT-----SYEVALSDARKYLRHYNWKYLVVDEGHRLK 293 (725)
Q Consensus 240 ~~r~~~~~~~~~~~~~~~~~vvIt-----sye~~~~~~~~~l~~~~~~~vIvDEaH~ik 293 (725)
.+...+.... ......++.|. |...+....+.+....+.++||||=.|.+.
T Consensus 333 ~e~~~~~~a~---~~l~~~~l~I~d~~~~ti~~I~~~~r~~~~~~~~~lvvIDYLql~~ 388 (505)
T PRK05636 333 DAWEKLVQRL---GKIAQAPIFIDDSANLTMMEIRSKARRLKQKHDLKLIVVDYLQLMS 388 (505)
T ss_pred HHHHHHHHHH---HHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcC
Confidence 1111111110 00123345542 444555555444455678999999999886
No 361
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=85.61 E-value=6.5 Score=41.83 Aligned_cols=43 Identities=19% Similarity=0.369 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhCC
Q 004880 160 QLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~~ 202 (725)
|..++..+...+.+++ .-++.-+.|.||+..|.+++..+...+
T Consensus 9 q~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~ 54 (314)
T PRK07399 9 QPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQG 54 (314)
T ss_pred HHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 5566667777666663 348889999999999999999988754
No 362
>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=85.37 E-value=4.6 Score=49.25 Aligned_cols=41 Identities=17% Similarity=0.238 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHhc--CCCCeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 160 QLKGVKWLISLWQ--NGLNGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 160 Q~~gv~~l~~~~~--~~~~~ILademGlGKT~qaiali~~l~~ 200 (725)
|..-+.+++..+. ...+.||.-+.|.|||..+-+++..+..
T Consensus 178 r~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~ 220 (852)
T TIGR03346 178 RDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVN 220 (852)
T ss_pred cHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhc
Confidence 4445777776443 3457799999999999998887776644
No 363
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=85.28 E-value=3.4 Score=47.02 Aligned_cols=67 Identities=18% Similarity=0.183 Sum_probs=47.3
Q ss_pred cccchHHHHHHHHHHHhc--------CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 155 KLKSYQLKGVKWLISLWQ--------NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~--------~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
..++...+.+.|.+..-. ...+.+|+-..|+|||+.|-++... ...+++-|-...+++.|.-|..+.
T Consensus 249 ~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~-----~~~~fi~v~~~~l~sk~vGesek~ 323 (494)
T COG0464 249 EAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALE-----SRSRFISVKGSELLSKWVGESEKN 323 (494)
T ss_pred HHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhh-----CCCeEEEeeCHHHhccccchHHHH
Confidence 456677777777775332 3446799999999999888777663 234666665558888898877654
No 364
>PRK11823 DNA repair protein RadA; Provisional
Probab=85.24 E-value=3.3 Score=46.38 Aligned_cols=63 Identities=16% Similarity=0.188 Sum_probs=41.8
Q ss_pred HHHHHHHH-HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 162 KGVKWLIS-LWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 162 ~gv~~l~~-~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
.+++.++. -+..|.-.+|.-++|.|||..++.++..+... .+++|.|+-.....++.....++
T Consensus 67 ~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ees~~qi~~ra~rl 130 (446)
T PRK11823 67 GELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGEESASQIKLRAERL 130 (446)
T ss_pred HHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccccHHHHHHHHHHc
Confidence 45666652 11222234789999999999999988877644 35788888766666655544444
No 365
>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=85.15 E-value=7 Score=42.18 Aligned_cols=42 Identities=26% Similarity=0.209 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~ 201 (725)
|...++.+.....++. ..++.-+.|+|||..+-+++..+...
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~ 63 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQ 63 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 4444555544444443 23789999999999999888887653
No 366
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=85.13 E-value=8.5 Score=40.91 Aligned_cols=41 Identities=12% Similarity=0.172 Sum_probs=27.9
Q ss_pred HHHHHHHHHHhcCCC--Ce-EEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 161 LKGVKWLISLWQNGL--NG-ILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 161 ~~gv~~l~~~~~~~~--~~-ILademGlGKT~qaiali~~l~~~ 201 (725)
...+..+...+..+. +. ++.-+-|.|||..+..++..+...
T Consensus 10 ~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~ 53 (313)
T PRK05564 10 ENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGK 53 (313)
T ss_pred HHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 333444444444332 33 789999999999999999887654
No 367
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=84.97 E-value=4.7 Score=43.46 Aligned_cols=35 Identities=29% Similarity=0.334 Sum_probs=22.2
Q ss_pred ccEEEEccccccCCcchHHHHHHhcCCCCcEEEEecc
Q 004880 281 WKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGT 317 (725)
Q Consensus 281 ~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgT 317 (725)
-.+++|||.||+. .++.-..|-.+.....+++-||
T Consensus 105 ~tiLflDEIHRfn--K~QQD~lLp~vE~G~iilIGAT 139 (436)
T COG2256 105 RTILFLDEIHRFN--KAQQDALLPHVENGTIILIGAT 139 (436)
T ss_pred ceEEEEehhhhcC--hhhhhhhhhhhcCCeEEEEecc
Confidence 4689999999994 3333344444555555666666
No 368
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=84.77 E-value=6.2 Score=41.66 Aligned_cols=123 Identities=23% Similarity=0.284 Sum_probs=68.5
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCCC
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGPK 257 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~ 257 (725)
++.---|.|||.+..-++.++...| .++|+.+--.--.-=.++++-|.....+-++.+... .+
T Consensus 143 l~vGVNG~GKTTTIaKLA~~l~~~g--~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G---------------~D 205 (340)
T COG0552 143 LFVGVNGVGKTTTIAKLAKYLKQQG--KSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEG---------------AD 205 (340)
T ss_pred EEEecCCCchHhHHHHHHHHHHHCC--CeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCC---------------CC
Confidence 5567789999988888888877764 355555554333344555666653333333222110 00
Q ss_pred CCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC---------CCCcEEEEe--ccCCCCChHH
Q 004880 258 FPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI---------PIGNKLLLT--GTPLQNNLAE 325 (725)
Q Consensus 258 ~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l---------~~~~rllLT--gTP~~n~~~e 325 (725)
+..+.-+.-..-...++|+|+||=|-|+-|.. .++..|.++ .++|.++|+ ||-=||.+..
T Consensus 206 -------pAaVafDAi~~Akar~~DvvliDTAGRLhnk~-nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal~Q 276 (340)
T COG0552 206 -------PAAVAFDAIQAAKARGIDVVLIDTAGRLHNKK-NLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALSQ 276 (340)
T ss_pred -------cHHHHHHHHHHHHHcCCCEEEEeCcccccCch-hHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHHHH
Confidence 01111121233455688999999999997644 344444433 244555544 7776776543
No 369
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=84.72 E-value=3.5 Score=49.41 Aligned_cols=29 Identities=21% Similarity=0.275 Sum_probs=23.5
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
...|.||.-+.|.|||..+-+++..+...
T Consensus 202 ~~~n~lL~G~pG~GKT~l~~~la~~~~~~ 230 (731)
T TIGR02639 202 KKNNPLLVGEPGVGKTAIAEGLALRIAEG 230 (731)
T ss_pred CCCceEEECCCCCCHHHHHHHHHHHHHhC
Confidence 34578999999999999988888777653
No 370
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=84.52 E-value=9 Score=39.53 Aligned_cols=34 Identities=15% Similarity=0.179 Sum_probs=27.6
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
.+++-+.|+|||.-++.++.+.... ..++++++-
T Consensus 39 ~lI~G~pGtGKT~l~~qf~~~~a~~--Ge~vlyis~ 72 (259)
T TIGR03878 39 INITGVSDTGKSLMVEQFAVTQASR--GNPVLFVTV 72 (259)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEe
Confidence 4889999999999999988876654 358888884
No 371
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=84.48 E-value=2.3 Score=45.28 Aligned_cols=132 Identities=17% Similarity=0.152 Sum_probs=73.2
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceE
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v 232 (725)
.+.+.+.|..-+.. +...+.|.+++-.||+|||-..-+++..+.......++++|=... |+. ++..+.
T Consensus 126 ~g~~~~~~~~~L~~---~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~-------El~--~~~~n~ 193 (323)
T PRK13833 126 SKIMTEAQASVIRS---AIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTA-------EIQ--CAAENA 193 (323)
T ss_pred cCCCCHHHHHHHHH---HHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCc-------ccc--cCCCCE
Confidence 34566666654444 445678889999999999998888887765433333444433222 111 122222
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEE
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKL 312 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rl 312 (725)
+.+... . ..++..+.. ..| ..++++||+.|.- ... ...++....+.+.-
T Consensus 194 v~l~~~-----------------~-----~~~~~~lv~---~aL-R~~PD~IivGEiR---g~e--a~~~l~a~~tGh~G 242 (323)
T PRK13833 194 VALHTS-----------------D-----TVDMARLLK---STM-RLRPDRIIVGEVR---DGA--ALTLLKAWNTGHPG 242 (323)
T ss_pred EEeccC-----------------C-----CcCHHHHHH---HHh-CCCCCEEEEeecC---CHH--HHHHHHHHcCCCCc
Confidence 222110 0 123443332 223 4678999999964 222 34556666666653
Q ss_pred EEeccCCCCChHHhhh
Q 004880 313 LLTGTPLQNNLAELWS 328 (725)
Q Consensus 313 lLTgTP~~n~~~el~s 328 (725)
.+ +|-+-|+..+...
T Consensus 243 ~i-tTiHA~s~~~a~~ 257 (323)
T PRK13833 243 GV-TTIHSNTAMSALR 257 (323)
T ss_pred eE-EEECCCCHHHHHH
Confidence 33 5666777666544
No 372
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=84.47 E-value=0.85 Score=45.26 Aligned_cols=29 Identities=31% Similarity=0.392 Sum_probs=24.6
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
+-.+.|++-..|.|||..+.++++.|+..
T Consensus 47 nmP~liisGpPG~GKTTsi~~LAr~LLG~ 75 (333)
T KOG0991|consen 47 NMPNLIISGPPGTGKTTSILCLARELLGD 75 (333)
T ss_pred CCCceEeeCCCCCchhhHHHHHHHHHhCh
Confidence 34577999999999999999999888764
No 373
>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=84.39 E-value=5 Score=42.88 Aligned_cols=125 Identities=18% Similarity=0.232 Sum_probs=67.0
Q ss_pred CCcHHHHHHHHHHHHHhCCC-------------CCCcEEEEcCccHHHHHHH---HHHhCCCceEEEEeCChhhHHHHHH
Q 004880 184 GLGKTIQTIAFLAHLKGNGL-------------HGPYLVIAPLSTLSNWVNE---ISRFVPSVSAIIYHGSKKERDEIRR 247 (725)
Q Consensus 184 GlGKT~qaiali~~l~~~~~-------------~~~~LIV~P~sll~~W~~E---~~~~~p~~~v~~~~g~~~~r~~~~~ 247 (725)
|+|||-.++.++.++..+|. .+..++|.|.+.-..--+| +.+.+| ..+ +.|....+.....
T Consensus 47 GTGKTP~v~~L~~~L~~~G~~~~IlSRGYg~~~~~~~~~v~~~~~~~~~GDEp~lla~~~~-~~V--~V~~dR~~~~~~~ 123 (326)
T PF02606_consen 47 GTGKTPLVIWLARLLQARGYRPAILSRGYGRKSKGEPILVSDGSDAEEVGDEPLLLARKLP-VPV--IVGPDRVAAARAA 123 (326)
T ss_pred CCCchHHHHHHHHHHHhcCCceEEEcCCCCCCCCCCeEEEeCCCChhhhcCHHHHHHHhcC-CcE--EEeCcHHHHHHHH
Confidence 99999999999999987642 1237888888865555555 455565 333 3333322221111
Q ss_pred hcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCC----cchHHHHHHhcCCCCcEEEEeccCCCC
Q 004880 248 KHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKN----PKCKLLKELKYIPIGNKLLLTGTPLQN 321 (725)
Q Consensus 248 ~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn----~~s~~~~~l~~l~~~~rllLTgTP~~n 321 (725)
.. . ...+|+|.--.+ ++.--.-+.++|++|-.+-+.| +...+..-+..++....+++|+.+...
T Consensus 124 ~~----~-~~~dviilDDGf-----Qh~~L~rDl~Ivl~D~~~~~gng~lLPaG~LREp~~~l~rAD~vi~~~~~~~~ 191 (326)
T PF02606_consen 124 LK----E-FPADVIILDDGF-----QHRRLKRDLDIVLVDADRPFGNGFLLPAGPLREPLSALKRADAVIVTGCDASD 191 (326)
T ss_pred HH----H-CCCCEEEEcCCc-----ccccccCCcEEEEEeCCCCCcCCccCCCCcccCChhHhCcccEEEEcCCCcch
Confidence 10 0 125666653221 1111122467788887665554 333333334455555556667766443
No 374
>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=84.21 E-value=9.6 Score=42.30 Aligned_cols=35 Identities=23% Similarity=0.124 Sum_probs=25.7
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
.+++-..|+|||.++.-++.++..... .++++|+=
T Consensus 102 i~~vG~~GsGKTTtaakLA~~l~~~~g-~kV~lV~~ 136 (428)
T TIGR00959 102 ILMVGLQGSGKTTTCGKLAYYLKKKQG-KKVLLVAC 136 (428)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhCC-CeEEEEec
Confidence 578899999999999999888764222 35555554
No 375
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=83.94 E-value=2.9 Score=42.97 Aligned_cols=62 Identities=24% Similarity=0.323 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 159 YQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
.+...+.-+...+.++.|.++.-.+|.|||..++|+...+...| .+++++.- ..|..+++..
T Consensus 90 ~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g--~sv~f~~~----~el~~~Lk~~ 151 (254)
T COG1484 90 KALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAG--ISVLFITA----PDLLSKLKAA 151 (254)
T ss_pred HHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcC--CeEEEEEH----HHHHHHHHHH
Confidence 33444444444455788899999999999999999999998442 35555544 4445555443
No 376
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=83.85 E-value=6.7 Score=48.46 Aligned_cols=128 Identities=18% Similarity=0.152 Sum_probs=75.6
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceE
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSA 232 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v 232 (725)
+..|.+-|.++|..+. ..+.-++|--.-|+|||.+.-++...+...| .+++.++|..--. ..+.+-+ ++..
T Consensus 379 ~~~Ls~eQ~~Av~~i~---~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G--~~V~g~ApTgkAA---~~L~e~~-Gi~a 449 (1102)
T PRK13826 379 HARLSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKAAREAWEAAG--YRVVGGALAGKAA---EGLEKEA-GIQS 449 (1102)
T ss_pred CCCCCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEcCcHHHH---HHHHHhh-CCCe
Confidence 3579999999998774 2234467788899999988777666555543 4788888865433 2232221 1111
Q ss_pred EEEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHH-HHH--HHHhhhhcCccEEEEccccccCCcchHHHHHHhcC-CC
Q 004880 233 IIYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVA-LSD--ARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI-PI 308 (725)
Q Consensus 233 ~~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~-~~~--~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l-~~ 308 (725)
. |...+ ... ....+ ..-++||||||..+-... +...+... ..
T Consensus 450 ~------------------------------TIas~ll~~~~~~~~l--~~~~vlVIDEAsMv~~~~--m~~Ll~~~~~~ 495 (1102)
T PRK13826 450 R------------------------------TLSSWELRWNQGRDQL--DNKTVFVLDEAGMVASRQ--MALFVEAVTRA 495 (1102)
T ss_pred e------------------------------eHHHHHhhhccCccCC--CCCcEEEEECcccCCHHH--HHHHHHHHHhc
Confidence 1 00100 000 00011 124699999999984332 33444444 36
Q ss_pred CcEEEEeccCCCCCh
Q 004880 309 GNKLLLTGTPLQNNL 323 (725)
Q Consensus 309 ~~rllLTgTP~~n~~ 323 (725)
..+++|.|-|-|--.
T Consensus 496 garvVLVGD~~QL~~ 510 (1102)
T PRK13826 496 GAKLVLVGDPEQLQP 510 (1102)
T ss_pred CCEEEEECCHHHcCC
Confidence 789999999876543
No 377
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=83.80 E-value=13 Score=40.43 Aligned_cols=46 Identities=17% Similarity=0.097 Sum_probs=31.1
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc----cHHHHHHHH
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS----TLSNWVNEI 223 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s----ll~~W~~E~ 223 (725)
..+++-..|+|||.++..++..+...+ .++.+|+-.. .+.||..-.
T Consensus 208 ii~lvGptGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~ya 257 (407)
T PRK12726 208 IISLIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYA 257 (407)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHh
Confidence 346778899999999988887776654 4566665422 256775433
No 378
>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=83.80 E-value=1.4 Score=45.38 Aligned_cols=119 Identities=18% Similarity=0.206 Sum_probs=62.7
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHH-HHHHHhCCCceEE-EEeCC--hhhHHHHHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWV-NEISRFVPSVSAI-IYHGS--KKERDEIRR 247 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~-~E~~~~~p~~~v~-~~~g~--~~~r~~~~~ 247 (725)
..|.=.+||..+|.|||.-++-++..+...+. .|+++++.-..-.+.. +-+.... .+..- +..|. ..+...+..
T Consensus 17 ~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~-~~vly~SlEm~~~~l~~R~la~~s-~v~~~~i~~g~l~~~e~~~~~~ 94 (259)
T PF03796_consen 17 RPGELTVIAARPGVGKTAFALQIALNAALNGG-YPVLYFSLEMSEEELAARLLARLS-GVPYNKIRSGDLSDEEFERLQA 94 (259)
T ss_dssp -TT-EEEEEESTTSSHHHHHHHHHHHHHHTTS-SEEEEEESSS-HHHHHHHHHHHHH-TSTHHHHHCCGCHHHHHHHHHH
T ss_pred CcCcEEEEEecccCCchHHHHHHHHHHHHhcC-CeEEEEcCCCCHHHHHHHHHHHhh-cchhhhhhccccCHHHHHHHHH
Confidence 33444699999999999999999988877632 6899999865544433 3333321 11100 01111 111111111
Q ss_pred hcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhh-cCccEEEEccccccCCc
Q 004880 248 KHMPRAIGPKFPIVV-----TSYEVALSDARKYLRH-YNWKYLVVDEGHRLKNP 295 (725)
Q Consensus 248 ~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~-~~~~~vIvDEaH~ikn~ 295 (725)
.. . ......++| +|.+.+...++..-.. .+.++||||=.|.+...
T Consensus 95 ~~--~-~l~~~~l~i~~~~~~~~~~i~~~i~~~~~~~~~~~~v~IDyl~ll~~~ 145 (259)
T PF03796_consen 95 AA--E-KLSDLPLYIEDTPSLTIDDIESKIRRLKREGKKVDVVFIDYLQLLKSE 145 (259)
T ss_dssp HH--H-HHHTSEEEEEESSS-BHHHHHHHHHHHHHHSTTEEEEEEEEGGGSBTS
T ss_pred HH--H-HHhhCcEEEECCCCCCHHHHHHHHHHHHhhccCCCEEEechHHHhcCC
Confidence 00 0 001222333 2444455444333333 67789999999988763
No 379
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=83.80 E-value=2 Score=46.96 Aligned_cols=48 Identities=23% Similarity=0.248 Sum_probs=36.9
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
.++.+|+-+.|.|||+.+.+++.+... .+-=|.|.++...|.-|-.+.
T Consensus 186 ~rglLLfGPpgtGKtmL~~aiAsE~~a-----tff~iSassLtsK~~Ge~eK~ 233 (428)
T KOG0740|consen 186 VRGLLLFGPPGTGKTMLAKAIATESGA-----TFFNISASSLTSKYVGESEKL 233 (428)
T ss_pred cchhheecCCCCchHHHHHHHHhhhcc-----eEeeccHHHhhhhccChHHHH
Confidence 345689999999999998888876543 467788988988886665443
No 380
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=83.74 E-value=16 Score=39.01 Aligned_cols=24 Identities=25% Similarity=0.230 Sum_probs=20.1
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHH
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHL 198 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l 198 (725)
.+.++.-+.|+|||..+-+++..+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 457999999999999888777665
No 381
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=83.64 E-value=4.2 Score=48.57 Aligned_cols=28 Identities=21% Similarity=0.240 Sum_probs=22.2
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~ 200 (725)
...|.||.-+.|+|||..+-++...+..
T Consensus 206 ~~~n~LLvGppGvGKT~lae~la~~i~~ 233 (758)
T PRK11034 206 RKNNPLLVGESGVGKTAIAEGLAWRIVQ 233 (758)
T ss_pred CCCCeEEECCCCCCHHHHHHHHHHHHHh
Confidence 3567899999999999988777765544
No 382
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.52 E-value=9 Score=41.70 Aligned_cols=43 Identities=16% Similarity=0.119 Sum_probs=29.6
Q ss_pred hHHHHHHHHHHHhcCCC---CeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 159 YQLKGVKWLISLWQNGL---NGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~---~~ILademGlGKT~qaiali~~l~~~ 201 (725)
.|...+..+.....++. +.++.-+.|+|||..+-+++..+...
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~ 66 (367)
T PRK14970 21 GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQP 66 (367)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 34445555555555443 45789999999999888887766553
No 383
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=83.41 E-value=16 Score=38.91 Aligned_cols=33 Identities=21% Similarity=0.227 Sum_probs=25.0
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
.+.-..|.|||.++..++..+... .+++++++-
T Consensus 118 ~lvGpnGsGKTTt~~kLA~~l~~~--g~~V~Li~~ 150 (318)
T PRK10416 118 LVVGVNGVGKTTTIGKLAHKYKAQ--GKKVLLAAG 150 (318)
T ss_pred EEECCCCCcHHHHHHHHHHHHHhc--CCeEEEEec
Confidence 455699999999998888877654 356777654
No 384
>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=83.40 E-value=8.5 Score=47.07 Aligned_cols=93 Identities=12% Similarity=0.070 Sum_probs=65.7
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhh----cCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEE
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNE----KGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLL 554 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~----~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Ll 554 (725)
|||-.+....+-.....|.+++|.++.+..+......+.. .++++..++|.++..++.++++.+.++ .+.|++.
T Consensus 483 sGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g--~~dIVIG 560 (926)
T TIGR00580 483 FGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASG--KIDILIG 560 (926)
T ss_pred ccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcC--CceEEEc
Confidence 6777655444333445678999999998877766655543 477889999999999999999998863 4455444
Q ss_pred ecccccCCCCCCCCCEEEE
Q 004880 555 STRAGGLGINLTAADTCIL 573 (725)
Q Consensus 555 st~agg~GiNL~~a~~VI~ 573 (725)
+.+.....+.+.....||+
T Consensus 561 Tp~ll~~~v~f~~L~llVI 579 (926)
T TIGR00580 561 THKLLQKDVKFKDLGLLII 579 (926)
T ss_pred hHHHhhCCCCcccCCEEEe
Confidence 4444555677777777776
No 385
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=83.38 E-value=3.1 Score=39.94 Aligned_cols=53 Identities=23% Similarity=0.201 Sum_probs=29.2
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc---cHHHHHHHHHHhC
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS---TLSNWVNEISRFV 227 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s---ll~~W~~E~~~~~ 227 (725)
+...+|.-+.|+|||...-.++..+...+.. .+-+-|... -...|..-+...+
T Consensus 24 ~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~ 79 (185)
T PF13191_consen 24 PRNLLLTGESGSGKTSLLRALLDRLAERGGY-VISINCDDSERNPYSPFRSALRQLI 79 (185)
T ss_dssp ---EEE-B-TTSSHHHHHHHHHHHHHHHT---EEEEEEETTTS-HHHHHHHHHHHHS
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhcCCE-EEEEEEeccccchhhHHHHHHHHHH
Confidence 4557899999999999988888877776322 222223333 2345644455554
No 386
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=83.24 E-value=4.8 Score=42.14 Aligned_cols=37 Identities=19% Similarity=0.110 Sum_probs=26.6
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
..+++-.+|+|||.++..++.++.......++.+|+-
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 4467788999999999998888865422235666654
No 387
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=83.22 E-value=2.3 Score=45.15 Aligned_cols=52 Identities=19% Similarity=0.284 Sum_probs=35.4
Q ss_pred HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 170 LWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 170 ~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
++....|.+|..+.|+|||+.|-++.... ..+++=|.=..+.+.|.-|-.+.
T Consensus 123 Ll~p~kGiLL~GPpG~GKTmlAKA~Akea-----ga~fInv~~s~lt~KWfgE~eKl 174 (386)
T KOG0737|consen 123 LLRPPKGILLYGPPGTGKTMLAKAIAKEA-----GANFINVSVSNLTSKWFGEAQKL 174 (386)
T ss_pred cccCCccceecCCCCchHHHHHHHHHHHc-----CCCcceeeccccchhhHHHHHHH
Confidence 34467888999999999998887766542 23444455555667787665554
No 388
>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=83.14 E-value=1.5 Score=42.46 Aligned_cols=48 Identities=31% Similarity=0.372 Sum_probs=33.9
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISR 225 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~ 225 (725)
.++.|.+|.-++|.|||..|.+++..+...| .+++++. ...+.++++.
T Consensus 45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g--~~v~f~~----~~~L~~~l~~ 92 (178)
T PF01695_consen 45 ENGENLILYGPPGTGKTHLAVAIANEAIRKG--YSVLFIT----ASDLLDELKQ 92 (178)
T ss_dssp SC--EEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEE----HHHHHHHHHC
T ss_pred ccCeEEEEEhhHhHHHHHHHHHHHHHhccCC--cceeEee----cCceeccccc
Confidence 5577889999999999999999999888854 3555554 3556666653
No 389
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=83.05 E-value=2.1 Score=50.73 Aligned_cols=67 Identities=16% Similarity=0.181 Sum_probs=47.3
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhC-CC-CCCcEEEEcCc-cHHHHHHHHHHhC
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGN-GL-HGPYLVIAPLS-TLSNWVNEISRFV 227 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~-~~-~~~~LIV~P~s-ll~~W~~E~~~~~ 227 (725)
.|-|-|.++|.+. .+..++....|+|||.+.+.-+++|... +. ...+|+|+.+. ........+.+.+
T Consensus 2 ~Ln~~Q~~av~~~------~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l 71 (672)
T PRK10919 2 RLNPGQQQAVEFV------TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTL 71 (672)
T ss_pred CCCHHHHHHHhCC------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHh
Confidence 3678899888653 4566777789999999999999999864 42 34588888855 3334444454443
No 390
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=82.89 E-value=9.4 Score=42.18 Aligned_cols=55 Identities=16% Similarity=0.132 Sum_probs=33.6
Q ss_pred CccEEEEccccccCCcchHHHHHHhcCC-----CCcEEEEeccCCCCChHHhhhhhccccC
Q 004880 280 NWKYLVVDEGHRLKNPKCKLLKELKYIP-----IGNKLLLTGTPLQNNLAELWSLLHFILP 335 (725)
Q Consensus 280 ~~~~vIvDEaH~ikn~~s~~~~~l~~l~-----~~~rllLTgTP~~n~~~el~sll~~l~p 335 (725)
+.++++||.+=+..+ ...+...+..+. ....|.|+||--.+.+.++...+..+.+
T Consensus 269 ~~d~VLIDTaGrsqr-d~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~~~~~ 328 (420)
T PRK14721 269 GKHMVLIDTVGMSQR-DQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQGHGI 328 (420)
T ss_pred CCCEEEecCCCCCcc-hHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhcCCCC
Confidence 568999998744432 233444444442 2445889999777777776665554433
No 391
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=82.71 E-value=7.7 Score=35.95 Aligned_cols=53 Identities=13% Similarity=0.234 Sum_probs=37.7
Q ss_pred EEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCC--CCCEEEEeCCCC
Q 004880 523 VCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLT--AADTCILYDSDW 578 (725)
Q Consensus 523 ~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~--~a~~VI~~D~~w 578 (725)
.+.+-|. ...+...+++.|.....+ .+|+++....+|||++ .+..||+.-.|+
T Consensus 25 ~i~~e~~-~~~~~~~~l~~f~~~~~~--~iL~~~~~~~EGiD~~g~~~r~vii~glPf 79 (141)
T smart00492 25 LLLVQGE-DGKETGKLLEKYVEACEN--AILLATARFSEGVDFPGDYLRAVIIDGLPF 79 (141)
T ss_pred eEEEeCC-ChhHHHHHHHHHHHcCCC--EEEEEccceecceecCCCCeeEEEEEecCC
Confidence 3344443 334678999999863222 3678887799999997 478899988886
No 392
>PRK07773 replicative DNA helicase; Validated
Probab=82.47 E-value=4.1 Score=49.84 Aligned_cols=132 Identities=14% Similarity=0.087 Sum_probs=74.6
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEE-EeC
Q 004880 159 YQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAII-YHG 237 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~-~~g 237 (725)
.-..++..+..-+..|.=.|||..+|.|||.-++.++...... ...++++++--....+....+.....++.... ..|
T Consensus 202 TG~~~LD~l~~Gl~~G~livIagrPg~GKT~fal~ia~~~a~~-~~~~V~~fSlEms~~ql~~R~~s~~~~i~~~~i~~g 280 (886)
T PRK07773 202 TGFTELDAMTNGLHPGQLIIVAARPSMGKTTFGLDFARNCAIR-HRLAVAIFSLEMSKEQLVMRLLSAEAKIKLSDMRSG 280 (886)
T ss_pred CChhHhccccCCCCCCcEEEEEeCCCCCcHHHHHHHHHHHHHh-cCCeEEEEecCCCHHHHHHHHHHHhcCCCHHHHhcC
Confidence 3345566555444555556999999999999999988876543 23588999886666666655544322221111 111
Q ss_pred Ch--hhHHHHHHhcCCCCCCCCCCEEE-----ecHHHHHHHHHHhhhhcCccEEEEccccccCC
Q 004880 238 SK--KERDEIRRKHMPRAIGPKFPIVV-----TSYEVALSDARKYLRHYNWKYLVVDEGHRLKN 294 (725)
Q Consensus 238 ~~--~~r~~~~~~~~~~~~~~~~~vvI-----tsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn 294 (725)
.- .+...+... +. .....++.| .|.+.+...++......+.++||||=.+.+.+
T Consensus 281 ~l~~~~~~~~~~a-~~--~l~~~~i~i~d~~~~~i~~i~~~~r~~~~~~~~~lvvIDyLql~~~ 341 (886)
T PRK07773 281 RMSDDDWTRLARA-MG--EISEAPIFIDDTPNLTVMEIRAKARRLRQEANLGLIVVDYLQLMTS 341 (886)
T ss_pred CCCHHHHHHHHHH-HH--HHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchhhcCC
Confidence 11 111111100 00 001234444 24555665555555566789999999888863
No 393
>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=82.45 E-value=20 Score=37.32 Aligned_cols=34 Identities=26% Similarity=0.331 Sum_probs=25.7
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
.++.-..|.|||.++..++.++...+ .++++|+-
T Consensus 75 i~l~G~~G~GKTTt~akLA~~l~~~g--~~V~li~~ 108 (272)
T TIGR00064 75 ILFVGVNGVGKTTTIAKLANKLKKQG--KSVLLAAG 108 (272)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHhcC--CEEEEEeC
Confidence 35557999999999998888876553 46777764
No 394
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.32 E-value=13 Score=43.36 Aligned_cols=41 Identities=17% Similarity=0.105 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHhcCCC--C-eEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 160 QLKGVKWLISLWQNGL--N-GILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~--~-~ILademGlGKT~qaiali~~l~~ 200 (725)
|...+..+...+.++. + -|+.-+.|.|||..+..++..+..
T Consensus 22 q~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c 65 (614)
T PRK14971 22 QEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINC 65 (614)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 4444444444444442 2 479999999999988877777753
No 395
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=81.98 E-value=2.9 Score=49.15 Aligned_cols=80 Identities=20% Similarity=0.298 Sum_probs=67.9
Q ss_pred HhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc-CceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEe
Q 004880 477 EQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK-GYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLS 555 (725)
Q Consensus 477 ~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~-g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Lls 555 (725)
..|||.++..+++...++.|+.+||-..-+.....+...|..+ |.++..+|++.+..+|.+...+... +..+| +|.
T Consensus 226 TGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~--G~~~v-VIG 302 (730)
T COG1198 226 TGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARR--GEARV-VIG 302 (730)
T ss_pred CCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhc--CCceE-EEE
Confidence 4489999999999999999999999999988888777777766 8899999999999999999999887 45556 555
Q ss_pred cccc
Q 004880 556 TRAG 559 (725)
Q Consensus 556 t~ag 559 (725)
|+.+
T Consensus 303 tRSA 306 (730)
T COG1198 303 TRSA 306 (730)
T ss_pred echh
Confidence 5543
No 396
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=81.66 E-value=10 Score=41.84 Aligned_cols=125 Identities=12% Similarity=0.130 Sum_probs=65.5
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHH-hCCCCCCcEEEEcCc--cHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLK-GNGLHGPYLVIAPLS--TLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRA 253 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~-~~~~~~~~LIV~P~s--ll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~ 253 (725)
.++.-..|+|||.++.-++..+. ..| .++++++=.. ....| .+..|+...
T Consensus 226 i~lvGptGvGKTTtaaKLA~~~~~~~G--~~V~Lit~Dt~R~aA~e--QLk~yAe~l----------------------- 278 (432)
T PRK12724 226 VFFVGPTGSGKTTSIAKLAAKYFLHMG--KSVSLYTTDNYRIAAIE--QLKRYADTM----------------------- 278 (432)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHhcC--CeEEEecccchhhhHHH--HHHHHHHhc-----------------------
Confidence 45778999999999998887653 332 3454444322 22333 333332111
Q ss_pred CCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhc----C----CCCcEEEEeccCCCCChHH
Q 004880 254 IGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKY----I----PIGNKLLLTGTPLQNNLAE 325 (725)
Q Consensus 254 ~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~----l----~~~~rllLTgTP~~n~~~e 325 (725)
..+++.. ..+ .+....+...++++||||=+-+.-... .....+.. . +....|.|+||--++.+.+
T Consensus 279 ---gvp~~~~--~~~-~~l~~~l~~~~~D~VLIDTaGr~~rd~-~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~ 351 (432)
T PRK12724 279 ---GMPFYPV--KDI-KKFKETLARDGSELILIDTAGYSHRNL-EQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLT 351 (432)
T ss_pred ---CCCeeeh--HHH-HHHHHHHHhCCCCEEEEeCCCCCccCH-HHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHH
Confidence 1111111 111 122233444578999999876653222 22222222 2 2345688899987767666
Q ss_pred hhhhhccccC
Q 004880 326 LWSLLHFILP 335 (725)
Q Consensus 326 l~sll~~l~p 335 (725)
....+..+.+
T Consensus 352 ~~~~f~~~~~ 361 (432)
T PRK12724 352 VLKAYESLNY 361 (432)
T ss_pred HHHHhcCCCC
Confidence 6665544433
No 397
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=81.55 E-value=10 Score=41.39 Aligned_cols=30 Identities=20% Similarity=0.300 Sum_probs=21.5
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
..|..+.|..+.|.|||..+-.++..+...
T Consensus 166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n 195 (415)
T TIGR00767 166 GKGQRGLIVAPPKAGKTVLLQKIAQAITRN 195 (415)
T ss_pred CCCCEEEEECCCCCChhHHHHHHHHhhccc
Confidence 346667888899999998766655554443
No 398
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=81.32 E-value=23 Score=39.29 Aligned_cols=45 Identities=20% Similarity=0.099 Sum_probs=33.6
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccH-HHHHHHHHHhC
Q 004880 183 MGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTL-SNWVNEISRFV 227 (725)
Q Consensus 183 mGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll-~~W~~E~~~~~ 227 (725)
-|+|||..-..=++++...++..+++|-|=+.++ ++..+-+.+|+
T Consensus 185 AGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~ 230 (660)
T COG3972 185 AGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFF 230 (660)
T ss_pred cCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHH
Confidence 5999999887778888888889999999986655 44444444443
No 399
>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=81.23 E-value=3.2 Score=43.81 Aligned_cols=124 Identities=20% Similarity=0.134 Sum_probs=67.2
Q ss_pred HHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHH
Q 004880 165 KWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDE 244 (725)
Q Consensus 165 ~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~ 244 (725)
.+|..+...+.+.+++-.||+|||..+-+++..+....+..++++|=.. .|+. .+..+.+.+...
T Consensus 123 ~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~-------~El~--~~~~~~v~~~~~------ 187 (299)
T TIGR02782 123 DVLREAVLARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDT-------RELQ--CAAPNVVQLRTS------ 187 (299)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCc-------hhhc--CCCCCEEEEEec------
Confidence 4455555677889999999999999888888776553333444444322 1221 111122222110
Q ss_pred HHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccCCCCChH
Q 004880 245 IRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPLQNNLA 324 (725)
Q Consensus 245 ~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n~~~ 324 (725)
.. . .++..+.+. .| ..++++||+.|.= ... ....+....+.+.-.+ +|-+.++..
T Consensus 188 -----------~~--~--~~~~~~l~~---aL-R~~pD~iivGEiR---~~e--a~~~l~a~~tGh~G~~-tTiHa~~~~ 242 (299)
T TIGR02782 188 -----------DD--A--ISMTRLLKA---TL-RLRPDRIIVGEVR---GGE--ALDLLKAWNTGHPGGI-ATIHANNAK 242 (299)
T ss_pred -----------CC--C--CCHHHHHHH---Hh-cCCCCEEEEeccC---CHH--HHHHHHHHHcCCCCeE-EeeccCCHH
Confidence 01 0 155544432 23 4578999999954 333 3445666666665222 455556655
Q ss_pred Hhhh
Q 004880 325 ELWS 328 (725)
Q Consensus 325 el~s 328 (725)
+...
T Consensus 243 ~ai~ 246 (299)
T TIGR02782 243 AALD 246 (299)
T ss_pred HHHH
Confidence 5433
No 400
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=81.22 E-value=8 Score=43.52 Aligned_cols=34 Identities=21% Similarity=0.166 Sum_probs=22.9
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEE
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIA 211 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~ 211 (725)
.|.-.+|.|||.++.-++..+.......++.+|+
T Consensus 260 ~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 260 ALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred EEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 5778999999999888887775432222444443
No 401
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=80.99 E-value=9.6 Score=41.76 Aligned_cols=53 Identities=21% Similarity=0.330 Sum_probs=32.2
Q ss_pred CccEEEEccccccCCcc---hHHHHHHhcCC-CCcEEEEec--cCCCCC--hHHhhhhhcc
Q 004880 280 NWKYLVVDEGHRLKNPK---CKLLKELKYIP-IGNKLLLTG--TPLQNN--LAELWSLLHF 332 (725)
Q Consensus 280 ~~~~vIvDEaH~ikn~~---s~~~~~l~~l~-~~~rllLTg--TP~~n~--~~el~sll~~ 332 (725)
..++++||..|.+.+.. -.++.....+. ....|++|+ +|-+-+ ..+|.|-+.+
T Consensus 175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~ 235 (408)
T COG0593 175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEW 235 (408)
T ss_pred ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhc
Confidence 56899999999987653 23444444443 344899999 664332 2345444433
No 402
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=80.97 E-value=4.7 Score=42.89 Aligned_cols=27 Identities=30% Similarity=0.412 Sum_probs=21.5
Q ss_pred CCCCcHHHHHHHHHHHHHhCCCCCCcEEE
Q 004880 182 QMGLGKTIQTIAFLAHLKGNGLHGPYLVI 210 (725)
Q Consensus 182 emGlGKT~qaiali~~l~~~~~~~~~LIV 210 (725)
-=|.|||-+++|++..+...| .+ +|+|
T Consensus 10 KGGVGKTT~aaA~A~~lA~~g-~k-vLlv 36 (322)
T COG0003 10 KGGVGKTTIAAATAVKLAESG-KK-VLLV 36 (322)
T ss_pred CCcccHHHHHHHHHHHHHHcC-Cc-EEEE
Confidence 348999999999999988887 44 5555
No 403
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=80.75 E-value=15 Score=39.17 Aligned_cols=46 Identities=17% Similarity=0.276 Sum_probs=34.1
Q ss_pred ccchHHHHHHHHHHHhcCCCCe-EEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 156 LKSYQLKGVKWLISLWQNGLNG-ILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~-ILademGlGKT~qaiali~~l~~~ 201 (725)
++|+|...-.-+...+..-.++ ++.-+.|+|||..|..++..+.-.
T Consensus 2 ~yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~ 48 (325)
T PRK08699 2 IYPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQALLCE 48 (325)
T ss_pred CCCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 4677777776666654433343 688999999999999999888753
No 404
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=80.69 E-value=13 Score=36.02 Aligned_cols=54 Identities=22% Similarity=0.235 Sum_probs=38.2
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhC--------CCCCCcEEEEcCccHHHHHHHHHHhC
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGN--------GLHGPYLVIAPLSTLSNWVNEISRFV 227 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~--------~~~~~~LIV~P~sll~~W~~E~~~~~ 227 (725)
|.-++++-+.|.|||..++.++.++... ...+++|+|..-....++.+.+....
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~ 93 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALL 93 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHh
Confidence 4457999999999999999998887742 14568999988777777777776654
No 405
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=80.44 E-value=3.9 Score=43.55 Aligned_cols=131 Identities=20% Similarity=0.164 Sum_probs=71.0
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEE
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAI 233 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~ 233 (725)
+.+.+.|.+.+ ......+.+.+++-.+|+|||-..-+++.++.......++++|-... |+. ++..+.+
T Consensus 131 g~~~~~~~~~L---~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~-------El~--~~~~~~v 198 (319)
T PRK13894 131 GIMTAAQREAI---IAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTG-------EIQ--CAAENYV 198 (319)
T ss_pred CCCCHHHHHHH---HHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCC-------ccc--cCCCCEE
Confidence 34455565544 33445688899999999999977777777664333334555544433 221 1111222
Q ss_pred EEeCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEEE
Q 004880 234 IYHGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLL 313 (725)
Q Consensus 234 ~~~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rll 313 (725)
.+... . . .++..+.. ..| ..++|+||+.|.- ... ....+....+.+.-.
T Consensus 199 ~~~~~-----------------~--~---~~~~~ll~---~aL-R~~PD~IivGEiR---~~E--a~~~l~A~~tGh~G~ 247 (319)
T PRK13894 199 QYHTS-----------------I--D---VNMTALLK---TTL-RMRPDRILVGEVR---GPE--ALDLLMAWNTGHEGG 247 (319)
T ss_pred EEecC-----------------C--C---CCHHHHHH---HHh-cCCCCEEEEeccC---CHH--HHHHHHHHHcCCCce
Confidence 21110 0 0 13443332 223 4678999999964 332 344566666666532
Q ss_pred EeccCCCCChHHhhh
Q 004880 314 LTGTPLQNNLAELWS 328 (725)
Q Consensus 314 LTgTP~~n~~~el~s 328 (725)
+ +|-+.|+..+...
T Consensus 248 ~-tTiHa~s~~~ai~ 261 (319)
T PRK13894 248 A-ATLHANNAKAGLD 261 (319)
T ss_pred E-EEECCCCHHHHHH
Confidence 2 4556666666443
No 406
>PRK10689 transcription-repair coupling factor; Provisional
Probab=80.31 E-value=12 Score=46.85 Aligned_cols=93 Identities=11% Similarity=0.040 Sum_probs=63.1
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhh----cCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEE
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNE----KGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLL 554 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~----~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Ll 554 (725)
+||-.+.....-.....|.+++|.++.+..+..+...+.. .++.+..++|..+..++.+++.....+ .+.|++.
T Consensus 632 sGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g--~~dIVVg 709 (1147)
T PRK10689 632 FGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEG--KIDILIG 709 (1147)
T ss_pred cCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhC--CCCEEEE
Confidence 6777654433333345688999999998877666655543 356788899999999999999888763 4455444
Q ss_pred ecccccCCCCCCCCCEEEE
Q 004880 555 STRAGGLGINLTAADTCIL 573 (725)
Q Consensus 555 st~agg~GiNL~~a~~VI~ 573 (725)
+......++++.....+|+
T Consensus 710 Tp~lL~~~v~~~~L~lLVI 728 (1147)
T PRK10689 710 THKLLQSDVKWKDLGLLIV 728 (1147)
T ss_pred CHHHHhCCCCHhhCCEEEE
Confidence 4444444566666666665
No 407
>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=80.22 E-value=17 Score=36.54 Aligned_cols=52 Identities=15% Similarity=0.234 Sum_probs=36.0
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISR 225 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~ 225 (725)
..|...+|+-+.|+|||..+..++...... ..++++++......+..+....
T Consensus 18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~--g~~~~~is~e~~~~~i~~~~~~ 69 (229)
T TIGR03881 18 PRGFFVAVTGEPGTGKTIFCLHFAYKGLRD--GDPVIYVTTEESRESIIRQAAQ 69 (229)
T ss_pred cCCeEEEEECCCCCChHHHHHHHHHHHHhc--CCeEEEEEccCCHHHHHHHHHH
Confidence 334456889999999999998887765544 3477888876555555444433
No 408
>PRK04328 hypothetical protein; Provisional
Probab=79.91 E-value=14 Score=37.92 Aligned_cols=51 Identities=22% Similarity=0.176 Sum_probs=34.4
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
|...+|+-+.|+|||..++-++......| .++++|+=-....+-.+.+..+
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~g--e~~lyis~ee~~~~i~~~~~~~ 73 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMG--EPGVYVALEEHPVQVRRNMRQF 73 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEEeeCCHHHHHHHHHHc
Confidence 33457899999999999999888765553 5777777544444444444433
No 409
>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=79.90 E-value=5 Score=40.34 Aligned_cols=41 Identities=29% Similarity=0.429 Sum_probs=27.6
Q ss_pred CccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccCCCCCh
Q 004880 280 NWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPLQNNL 323 (725)
Q Consensus 280 ~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n~~ 323 (725)
..+++||||++.+-... +.- +........+.|-|=|.|-..
T Consensus 62 ~~~~liiDE~~~~~~g~--l~~-l~~~~~~~~~~l~GDp~Q~~~ 102 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGY--LLL-LLSLSPAKNVILFGDPLQIPY 102 (234)
T ss_pred cCCEEEEeccccCChHH--HHH-HHhhccCcceEEEECchhccC
Confidence 57999999999974322 222 444444456888899988653
No 410
>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=79.86 E-value=29 Score=38.53 Aligned_cols=33 Identities=15% Similarity=0.168 Sum_probs=25.5
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
.++-..|+|||.++..++.++...| .++++|+-
T Consensus 104 ~lvG~~GvGKTTtaaKLA~~l~~~G--~kV~lV~~ 136 (429)
T TIGR01425 104 MFVGLQGSGKTTTCTKLAYYYQRKG--FKPCLVCA 136 (429)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCC--CCEEEEcC
Confidence 5777899999999998888877654 36666665
No 411
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=79.34 E-value=4.3 Score=44.66 Aligned_cols=25 Identities=24% Similarity=0.167 Sum_probs=20.5
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHL 198 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l 198 (725)
..+.+|.-+.|+|||..|-+++..+
T Consensus 165 p~gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 165 PKGVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred CCceEEECCCCCChHHHHHHHHHHh
Confidence 4567999999999999888777653
No 412
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=79.30 E-value=84 Score=32.85 Aligned_cols=48 Identities=19% Similarity=0.351 Sum_probs=34.4
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhC
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFV 227 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~ 227 (725)
++.+|.-+.|.||+..|-|++... ...+.-|...-+++.|.-|-++..
T Consensus 167 rgiLLyGPPGTGKSYLAKAVATEA-----nSTFFSvSSSDLvSKWmGESEkLV 214 (439)
T KOG0739|consen 167 RGILLYGPPGTGKSYLAKAVATEA-----NSTFFSVSSSDLVSKWMGESEKLV 214 (439)
T ss_pred eeEEEeCCCCCcHHHHHHHHHhhc-----CCceEEeehHHHHHHHhccHHHHH
Confidence 356888999999998776665432 245666666669999988877653
No 413
>CHL00176 ftsH cell division protein; Validated
Probab=79.03 E-value=7.2 Score=45.67 Aligned_cols=24 Identities=25% Similarity=0.254 Sum_probs=19.9
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAH 197 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~ 197 (725)
..+.+|.-+.|+|||..+=+++..
T Consensus 216 p~gVLL~GPpGTGKT~LAralA~e 239 (638)
T CHL00176 216 PKGVLLVGPPGTGKTLLAKAIAGE 239 (638)
T ss_pred CceEEEECCCCCCHHHHHHHHHHH
Confidence 456899999999999988777654
No 414
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=79.01 E-value=15 Score=43.45 Aligned_cols=133 Identities=21% Similarity=0.123 Sum_probs=70.5
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHH-hCC--CCCCcEEEEcCc-----cHHHHHHHHHHhCCCceEEEEeCChhhHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLK-GNG--LHGPYLVIAPLS-----TLSNWVNEISRFVPSVSAIIYHGSKKERD 243 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~-~~~--~~~~~LIV~P~s-----ll~~W~~E~~~~~p~~~v~~~~g~~~~r~ 243 (725)
..+.-.|+--++|+|||.|...+|..-. ..+ ......+.-|.. ++....+|=..-. ...+.|.- .+.
T Consensus 391 ~dn~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva~er~e~~--g~tvgy~v---Rf~ 465 (1282)
T KOG0921|consen 391 AENRVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVANERGEEV--GETCGYNV---RFD 465 (1282)
T ss_pred hcCceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHHHhhHHhh--cccccccc---ccc
Confidence 4566678999999999999877665443 322 112222222333 3332322221111 11122111 000
Q ss_pred HHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCc----EEEEeccC
Q 004880 244 EIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGN----KLLLTGTP 318 (725)
Q Consensus 244 ~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~----rllLTgTP 318 (725)
... ..+..-+..+|-+.+.+.....+. ....+|+||.|..--..--+...++.+...+ .+++++|-
T Consensus 466 ----Sa~---prpyg~i~fctvgvllr~~e~glr--g~sh~i~deiherdv~~dfll~~lr~m~~ty~dl~v~lmsatI 535 (1282)
T KOG0921|consen 466 ----SAT---PRPYGSIMFCTVGVLLRMMENGLR--GISHVIIDEIHERDVDTDFVLIVLREMISTYRDLRVVLMSATI 535 (1282)
T ss_pred ----ccc---cccccceeeeccchhhhhhhhccc--ccccccchhhhhhccchHHHHHHHHhhhccchhhhhhhhhccc
Confidence 001 112334667888887776644443 4578999999987554445555555554433 47888884
No 415
>CHL00095 clpC Clp protease ATP binding subunit
Probab=78.97 E-value=1.4e+02 Score=36.47 Aligned_cols=43 Identities=21% Similarity=0.177 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHhcC--------C--C-CeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 159 YQLKGVKWLISLWQN--------G--L-NGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 159 yQ~~gv~~l~~~~~~--------~--~-~~ILademGlGKT~qaiali~~l~~~ 201 (725)
-|-+++..+...... + . ..+++-++|.|||..|-+++..+...
T Consensus 513 GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~ 566 (821)
T CHL00095 513 GQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGS 566 (821)
T ss_pred ChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCC
Confidence 477777666543321 1 1 24799999999999999888877654
No 416
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=78.72 E-value=3.2 Score=46.88 Aligned_cols=47 Identities=21% Similarity=0.222 Sum_probs=35.9
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCC----CCCCcEEEEcCccHHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNG----LHGPYLVIAPLSTLSNWV 220 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~----~~~~~LIV~P~sll~~W~ 220 (725)
+.-.|+--..|+|||..|+.-+++|.... ..+|+||+.|+.+.....
T Consensus 226 ~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYi 276 (747)
T COG3973 226 NKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYI 276 (747)
T ss_pred CCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHH
Confidence 33346778899999999999899888632 246899999998765443
No 417
>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=78.61 E-value=14 Score=39.34 Aligned_cols=55 Identities=15% Similarity=0.064 Sum_probs=37.1
Q ss_pred HHHHHHHH--HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHH
Q 004880 162 KGVKWLIS--LWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSN 218 (725)
Q Consensus 162 ~gv~~l~~--~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~ 218 (725)
.++..++. -+..|.-..|+-+.|+|||..++.++...... .+++++|........
T Consensus 41 ~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~ 97 (321)
T TIGR02012 41 LSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDP 97 (321)
T ss_pred HHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHH
Confidence 34555542 22333334788899999999999988887665 367888877665544
No 418
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=78.34 E-value=15 Score=35.00 Aligned_cols=112 Identities=13% Similarity=0.157 Sum_probs=62.8
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc--Cc-cHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCC
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP--LS-TLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAI 254 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P--~s-ll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~ 254 (725)
+..-.-|.|||..++.++..+...| .++|+|-= .. .+. |. |. +..
T Consensus 4 v~s~kgG~GKTt~a~~LA~~la~~g--~~vllvD~D~q~~~~~-~~-----~~---------~~~--------------- 51 (169)
T cd02037 4 VMSGKGGVGKSTVAVNLALALAKLG--YKVGLLDADIYGPSIP-KM-----WR---------GPM--------------- 51 (169)
T ss_pred EecCCCcCChhHHHHHHHHHHHHcC--CcEEEEeCCCCCCCch-HH-----Hh---------Ccc---------------
Confidence 4556679999999999998887764 46777632 11 121 11 10 000
Q ss_pred CCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhcccc
Q 004880 255 GPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFIL 334 (725)
Q Consensus 255 ~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l~ 334 (725)
....+.... ..+..-++++||+|=...+-+ ... .+..+.....+++..+|-..++.+...++.++.
T Consensus 52 ---------~~~~l~~~~-~~~~~~~yD~VIiD~pp~~~~---~~~-~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~ 117 (169)
T cd02037 52 ---------KMGAIKQFL-TDVDWGELDYLVIDMPPGTGD---EHL-TLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFK 117 (169)
T ss_pred ---------hHHHHHHHH-HHhhcCCCCEEEEeCCCCCcH---HHH-HHHhccCCCeEEEEECCchhhHHHHHHHHHHHH
Confidence 001111111 112224689999998776521 111 122223446677777888888888877777764
Q ss_pred C
Q 004880 335 P 335 (725)
Q Consensus 335 p 335 (725)
.
T Consensus 118 ~ 118 (169)
T cd02037 118 K 118 (169)
T ss_pred h
Confidence 3
No 419
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=78.30 E-value=5 Score=43.64 Aligned_cols=29 Identities=21% Similarity=0.328 Sum_probs=20.9
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
.|.+++|..+.|.|||..+-.+...+...
T Consensus 168 kGQR~lIvgppGvGKTTLaK~Ian~I~~n 196 (416)
T PRK09376 168 KGQRGLIVAPPKAGKTVLLQNIANSITTN 196 (416)
T ss_pred cCceEEEeCCCCCChhHHHHHHHHHHHhh
Confidence 45667777889999997776666655543
No 420
>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=78.28 E-value=6.8 Score=43.96 Aligned_cols=64 Identities=14% Similarity=0.145 Sum_probs=43.5
Q ss_pred HHHHHHHHH-HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 161 LKGVKWLIS-LWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 161 ~~gv~~l~~-~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
..++..++. -+..|.-.+|+-++|.|||..++.++..+...+ +++|.|..-....++.....++
T Consensus 80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g--~kvlYvs~EEs~~qi~~ra~rl 144 (454)
T TIGR00416 80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQ--MKVLYVSGEESLQQIKMRAIRL 144 (454)
T ss_pred cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEECcCCHHHHHHHHHHc
Confidence 455666652 112222348899999999999998888776653 5789998866666665555544
No 421
>PHA02542 41 41 helicase; Provisional
Probab=78.15 E-value=12 Score=42.19 Aligned_cols=61 Identities=13% Similarity=0.036 Sum_probs=42.4
Q ss_pred HHHHHHHH-HHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHH
Q 004880 161 LKGVKWLI-SLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEI 223 (725)
Q Consensus 161 ~~gv~~l~-~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~ 223 (725)
...+..+. .-+..|.=.|||..+|.|||..++.++...... ..+++++.--.-..++...+
T Consensus 176 ~~~LD~~t~gGl~~G~LiiIaarPgmGKTtfalniA~~~a~~--g~~Vl~fSLEM~~~ql~~Rl 237 (473)
T PHA02542 176 LEILNKITKGGAERKTLNVLLAGVNVGKSLGLCSLAADYLQQ--GYNVLYISMEMAEEVIAKRI 237 (473)
T ss_pred cHHHHHhccCCCCCCcEEEEEcCCCccHHHHHHHHHHHHHhc--CCcEEEEeccCCHHHHHHHH
Confidence 44566665 333444446999999999999999988777643 46888888655556655544
No 422
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=77.96 E-value=13 Score=39.57 Aligned_cols=39 Identities=18% Similarity=0.096 Sum_probs=31.2
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHH
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLS 217 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~ 217 (725)
..++-+.|+|||..++.++...... .+++++|.+...++
T Consensus 58 teI~Gp~GsGKTtLal~~~~~~~~~--g~~~vyId~E~~~~ 96 (325)
T cd00983 58 IEIYGPESSGKTTLALHAIAEAQKL--GGTVAFIDAEHALD 96 (325)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHc--CCCEEEECccccHH
Confidence 4788899999999999988877655 36888888866554
No 423
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=77.95 E-value=12 Score=36.05 Aligned_cols=139 Identities=12% Similarity=0.072 Sum_probs=73.7
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHH---HHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNW---VNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRA 253 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W---~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~ 253 (725)
..+.-.-|=|||-.|+.++.....+| .+++||== +-..| ...+.+.+|++.+..+.....-. .
T Consensus 24 i~VYtGdGKGKTTAAlGlalRAaG~G--~rV~iiQF--lKg~~~~GE~~~l~~~~~v~~~~~g~~~~~~---------~- 89 (178)
T PRK07414 24 VQVFTSSQRNFFTSVMAQALRIAGQG--TPVLIVQF--LKGGIQQGPDRPIQLGQNLDWVRCDLPRCLD---------T- 89 (178)
T ss_pred EEEEeCCCCCchHHHHHHHHHHhcCC--CEEEEEEE--ecCCCcchHHHHHHhCCCcEEEECCCCCeee---------C-
Confidence 35666778999999988776555543 56666532 11222 12233334554444332110000 0
Q ss_pred CCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCC----cchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhh
Q 004880 254 IGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKN----PKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSL 329 (725)
Q Consensus 254 ~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn----~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sl 329 (725)
......-...+.......+..+..-.|++||+||.-..-+ ....+...+..-+..--+.|||--.+..+.++..+
T Consensus 90 -~~~~~~~~~~~~~~~~~a~~~l~~~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR~~p~~Lie~AD~ 168 (178)
T PRK07414 90 -PHLDESEKKALQELWQYTQAVVDEGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPEMPESLLAIADQ 168 (178)
T ss_pred -CCcCHHHHHHHHHHHHHHHHHHhCCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCCe
Confidence 0000000011122223334556677899999999876644 23456666776667778999998555555544444
Q ss_pred h
Q 004880 330 L 330 (725)
Q Consensus 330 l 330 (725)
+
T Consensus 169 V 169 (178)
T PRK07414 169 I 169 (178)
T ss_pred e
Confidence 3
No 424
>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=77.94 E-value=5.5 Score=41.15 Aligned_cols=49 Identities=16% Similarity=0.186 Sum_probs=36.4
Q ss_pred chHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEE
Q 004880 158 SYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIA 211 (725)
Q Consensus 158 ~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~ 211 (725)
|+....+..++.....+.+.+|..+.|+|||..|-++...+ ..|++.++
T Consensus 5 ~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~l-----g~~~~~i~ 53 (262)
T TIGR02640 5 DAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVARKR-----DRPVMLIN 53 (262)
T ss_pred HHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHh-----CCCEEEEe
Confidence 45555666666666778899999999999999988877533 24666664
No 425
>CHL00206 ycf2 Ycf2; Provisional
Probab=77.82 E-value=6.5 Score=50.63 Aligned_cols=41 Identities=12% Similarity=0.156 Sum_probs=29.8
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNW 219 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W 219 (725)
.+|.+|.-++|+|||+.|=|++... .-|++-|....++..|
T Consensus 1630 PKGILLiGPPGTGKTlLAKALA~es-----~VPFIsISgs~fl~~~ 1670 (2281)
T CHL00206 1630 SRGILVIGSIGTGRSYLVKYLATNS-----YVPFITVFLNKFLDNK 1670 (2281)
T ss_pred CCceEEECCCCCCHHHHHHHHHHhc-----CCceEEEEHHHHhhcc
Confidence 4577899999999998877776642 2367666666666665
No 426
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=77.80 E-value=5.2 Score=45.14 Aligned_cols=42 Identities=26% Similarity=0.221 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhcCCCC---eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 160 QLKGVKWLISLWQNGLN---GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~~---~ILademGlGKT~qaiali~~l~~~ 201 (725)
|...+..|...+.+++- -++.-.=|+|||-.|=.++..+...
T Consensus 21 Qe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~ 65 (515)
T COG2812 21 QEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCE 65 (515)
T ss_pred cHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCC
Confidence 44555555555555443 3788899999998887777777654
No 427
>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=77.79 E-value=2.4 Score=40.83 Aligned_cols=121 Identities=22% Similarity=0.171 Sum_probs=46.0
Q ss_pred EEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhC-CCceEEEEeCChhhHHHHHHhcCCCCCCCC
Q 004880 179 LADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFV-PSVSAIIYHGSKKERDEIRRKHMPRAIGPK 257 (725)
Q Consensus 179 LademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~-p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~ 257 (725)
|-.+=|=|||-....+++.+...+. .+++|.+|.. .|- ..+-+|. ..+..+-|......+.. .........
T Consensus 2 ltA~RGRGKSa~lGl~~a~l~~~~~-~~I~vtAP~~--~~~-~~lf~~~~~~l~~~~~~~~~~~~~~----~~~~~~~~~ 73 (177)
T PF05127_consen 2 LTADRGRGKSAALGLAAAALIQKGK-IRILVTAPSP--ENV-QTLFEFAEKGLKALGYKEEKKKRIG----QIIKLRFNK 73 (177)
T ss_dssp EEE-TTSSHHHHHHHCCCCSSS------EEEE-SS----S--HHHHHCC------------------------------C
T ss_pred ccCCCCCCHHHHHHHHHHHHHHhcC-ceEEEecCCH--HHH-HHHHHHHHhhccccccccccccccc----ccccccccc
Confidence 4445899999766555555555443 5788888944 221 2222222 12222222111100000 000001123
Q ss_pred CCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccC
Q 004880 258 FPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTP 318 (725)
Q Consensus 258 ~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP 318 (725)
..+-...++.+.. .....|+||||||=.|- -..+.+. +....++++|.|-
T Consensus 74 ~~i~f~~Pd~l~~------~~~~~DlliVDEAAaIp--~p~L~~l---l~~~~~vv~stTi 123 (177)
T PF05127_consen 74 QRIEFVAPDELLA------EKPQADLLIVDEAAAIP--LPLLKQL---LRRFPRVVFSTTI 123 (177)
T ss_dssp CC--B--HHHHCC------T----SCEEECTGGGS---HHHHHHH---HCCSSEEEEEEEB
T ss_pred ceEEEECCHHHHh------CcCCCCEEEEechhcCC--HHHHHHH---HhhCCEEEEEeec
Confidence 3444444443221 12246999999998873 2222222 3456788888884
No 428
>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=77.56 E-value=7.3 Score=41.29 Aligned_cols=20 Identities=35% Similarity=0.378 Sum_probs=17.5
Q ss_pred CCCcHHHHHHHHHHHHHhCC
Q 004880 183 MGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 183 mGlGKT~qaiali~~l~~~~ 202 (725)
=|+|||=.++.++..+..+|
T Consensus 39 GGTGKTP~v~~La~~l~~~G 58 (311)
T TIGR00682 39 GGTGKTPVVVWLAELLKDRG 58 (311)
T ss_pred CCcChHHHHHHHHHHHHHCC
Confidence 49999999999999988764
No 429
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=77.49 E-value=5.4 Score=43.92 Aligned_cols=36 Identities=19% Similarity=0.209 Sum_probs=25.2
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcC
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPL 213 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~ 213 (725)
.+.+.+|.-+.|+|||..+-+++..+ ..+++.+.+.
T Consensus 178 ~pkgvLL~GppGTGKT~LAkalA~~l-----~~~fi~i~~s 213 (398)
T PTZ00454 178 PPRGVLLYGPPGTGKTMLAKAVAHHT-----TATFIRVVGS 213 (398)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHhc-----CCCEEEEehH
Confidence 35678999999999998887766543 2345555543
No 430
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=76.80 E-value=29 Score=37.77 Aligned_cols=48 Identities=15% Similarity=0.106 Sum_probs=34.1
Q ss_pred CcccchHHHHHHHHHHHhcC---CCCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 154 GKLKSYQLKGVKWLISLWQN---GLNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~---~~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
..-|+-|+.-+...+.-+-. +.|.++.-.+|+|||.++--++..+...
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhh
Confidence 34566777766554443322 3457999999999999998888888764
No 431
>PHA00012 I assembly protein
Probab=76.76 E-value=6.8 Score=41.32 Aligned_cols=33 Identities=21% Similarity=0.424 Sum_probs=23.6
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS 214 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s 214 (725)
++.-..|+|||+.|++-+...+..|. .|++-..
T Consensus 5 lITGkPGSGKSl~aV~~I~~~L~~Gr----~VaTNid 37 (361)
T PHA00012 5 VVTGKLGAGKTLVAVSRIQDKLVKGC----IVATNLN 37 (361)
T ss_pred EEecCCCCCchHHHHHHHHHHHHcCC----EEEeCCc
Confidence 45556899999999987777777653 5555543
No 432
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=76.63 E-value=11 Score=44.81 Aligned_cols=122 Identities=16% Similarity=0.125 Sum_probs=63.9
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc----cHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS----TLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPR 252 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s----ll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~ 252 (725)
..+.-.+|.|||.++.-++..+........+.+|+-.. ...||..--... ++.+
T Consensus 188 i~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~--gvpv-------------------- 245 (767)
T PRK14723 188 LALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRIL--GVPV-------------------- 245 (767)
T ss_pred EEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhC--CCCc--------------------
Confidence 36788999999988887777664332223455554422 234443222211 1111
Q ss_pred CCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC-----CCCcEEEEeccCCCCChHHhh
Q 004880 253 AIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI-----PIGNKLLLTGTPLQNNLAELW 327 (725)
Q Consensus 253 ~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l-----~~~~rllLTgTP~~n~~~el~ 327 (725)
.++.++..+...+ ..+. +.++||||=+=+.-+.. .+...+..+ +....+.|++|.-...+.++.
T Consensus 246 -------~~~~~~~~l~~al-~~~~--~~D~VLIDTAGRs~~d~-~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~ 314 (767)
T PRK14723 246 -------HAVKDAADLRFAL-AALG--DKHLVLIDTVGMSQRDR-NVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVV 314 (767)
T ss_pred -------cccCCHHHHHHHH-HHhc--CCCEEEEeCCCCCccCH-HHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHH
Confidence 1223444443333 2222 45899999888765332 244444443 234457888886555556555
Q ss_pred hhhc
Q 004880 328 SLLH 331 (725)
Q Consensus 328 sll~ 331 (725)
.-++
T Consensus 315 ~~f~ 318 (767)
T PRK14723 315 HAYR 318 (767)
T ss_pred HHHh
Confidence 4443
No 433
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=76.50 E-value=1.7 Score=49.62 Aligned_cols=81 Identities=16% Similarity=0.256 Sum_probs=48.3
Q ss_pred CcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCH-----HHHHHHHHHHhCC-CCCceEEEEecc--cccCCCCCC--
Q 004880 497 HKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRL-----DERKRQIQDFNDV-NSSYRIFLLSTR--AGGLGINLT-- 566 (725)
Q Consensus 497 ~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~-----~~R~~~i~~F~~~-~~~~~v~Llst~--agg~GiNL~-- 566 (725)
.=|++|..+-..+..+..++...|+- .+|.|.-+. ..-.++++.|... +.+.-.+|++.- -.++|||+.
T Consensus 630 gGvV~FfPSy~yL~~v~k~w~~~gil-~ri~~kK~vF~E~k~~~~dvl~~Ya~a~~~g~GaiLlaVVGGKlSEGINF~D~ 708 (821)
T KOG1133|consen 630 GGVVCFFPSYAYLGQVRKRWEQNGIL-ARIVGKKKVFYEPKDTVEDVLEGYAEAAERGRGAILLAVVGGKLSEGINFSDD 708 (821)
T ss_pred CcEEEEeccHHHHHHHHHHHHhcchH-HHhhccchhhccCcccHHHHHHHHHHHhhcCCCeEEEEEeccccccccccccc
Confidence 34888888888888888888765541 222221110 0134567777532 111123555543 346899997
Q ss_pred CCCEEEEeCCCC
Q 004880 567 AADTCILYDSDW 578 (725)
Q Consensus 567 ~a~~VI~~D~~w 578 (725)
-+..||....|+
T Consensus 709 LgRaVvvVGlPy 720 (821)
T KOG1133|consen 709 LGRAVVVVGLPY 720 (821)
T ss_pred cccEEEEeecCC
Confidence 488888888877
No 434
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=76.39 E-value=11 Score=44.98 Aligned_cols=23 Identities=30% Similarity=0.245 Sum_probs=18.8
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHH
Q 004880 175 LNGILADQMGLGKTIQTIAFLAH 197 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~ 197 (725)
.+.||.-+.|+|||..+-++...
T Consensus 53 ~slLL~GPpGtGKTTLA~aIA~~ 75 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARIIANH 75 (725)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 36799999999999887776654
No 435
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=75.81 E-value=5.7 Score=43.26 Aligned_cols=25 Identities=24% Similarity=0.167 Sum_probs=20.3
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHL 198 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l 198 (725)
..+.+|.-+.|+|||..+-+++..+
T Consensus 156 p~gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 156 PKGVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhC
Confidence 4567999999999998887776653
No 436
>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=75.61 E-value=6.5 Score=40.27 Aligned_cols=25 Identities=20% Similarity=0.264 Sum_probs=17.2
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLA 196 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~ 196 (725)
..|..++|--+.|.|||..+-.++.
T Consensus 14 ~~Gqr~~I~G~~G~GKTTLlr~I~n 38 (249)
T cd01128 14 GKGQRGLIVAPPKAGKTTLLQSIAN 38 (249)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHh
Confidence 3466677888899999965444333
No 437
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=75.52 E-value=10 Score=43.27 Aligned_cols=50 Identities=16% Similarity=0.177 Sum_probs=37.9
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhC
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFV 227 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~ 227 (725)
..++.-++|+|||.-+..++......+ .++++|+-.....+-.+.+..+.
T Consensus 275 ~~li~G~~G~GKT~l~~~~~~~~~~~g--~~~~yis~e~~~~~i~~~~~~~g 324 (509)
T PRK09302 275 IILVSGATGTGKTLLASKFAEAACRRG--ERCLLFAFEESRAQLIRNARSWG 324 (509)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHhCC--CcEEEEEecCCHHHHHHHHHHcC
Confidence 347889999999999999988776654 58888887666666666665553
No 438
>PRK12608 transcription termination factor Rho; Provisional
Probab=75.51 E-value=11 Score=40.77 Aligned_cols=43 Identities=19% Similarity=0.312 Sum_probs=30.4
Q ss_pred chHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 158 SYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 158 ~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~ 201 (725)
+.-..++..+.-. -.|.+++|..+.|.|||..+..++..+...
T Consensus 118 ~~~~RvID~l~Pi-GkGQR~LIvG~pGtGKTTLl~~la~~i~~~ 160 (380)
T PRK12608 118 DLSMRVVDLVAPI-GKGQRGLIVAPPRAGKTVLLQQIAAAVAAN 160 (380)
T ss_pred chhHhhhhheeec-CCCceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 3334455555432 356778999999999999988888877664
No 439
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=75.29 E-value=14 Score=41.99 Aligned_cols=66 Identities=12% Similarity=0.085 Sum_probs=47.0
Q ss_pred hHHHHHHHHHH-HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 159 YQLKGVKWLIS-LWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 159 yQ~~gv~~l~~-~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
--..++..++. -+..|.-.+|.-++|.|||..++-|+.....+| .++++|+---...+.......+
T Consensus 247 tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~g--e~~~y~s~eEs~~~i~~~~~~l 313 (484)
T TIGR02655 247 SGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANK--ERAILFAYEESRAQLLRNAYSW 313 (484)
T ss_pred CChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEEeeCCHHHHHHHHHHc
Confidence 34556666652 122233358999999999999999998877664 4789988877777777777665
No 440
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=74.83 E-value=8.8 Score=39.53 Aligned_cols=104 Identities=19% Similarity=0.201 Sum_probs=61.8
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCc-------eEEEEeCChhhHHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSV-------SAIIYHGSKKERDE 244 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~-------~v~~~~g~~~~r~~ 244 (725)
..|...++.-.+|+|||+-++-|+...... ..|++.|+-...-..-.+.+..|..++ ...++........
T Consensus 21 p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~--ge~vlyvs~~e~~~~l~~~~~~~g~d~~~~~~~g~l~i~d~~~~~~~- 97 (260)
T COG0467 21 PRGSVVLITGPPGTGKTIFALQFLYEGARE--GEPVLYVSTEESPEELLENARSFGWDLEVYIEKGKLAILDAFLSEKG- 97 (260)
T ss_pred cCCcEEEEEcCCCCcHHHHHHHHHHHHHhc--CCcEEEEEecCCHHHHHHHHHHcCCCHHHHhhcCCEEEEEccccccc-
Confidence 345566899999999999999999888877 468999987655544444444432221 2222222221110
Q ss_pred HHHhcCCCCCCCCCCEE---EecHHHHHHHHHHhhhhcCccEEEEcccc
Q 004880 245 IRRKHMPRAIGPKFPIV---VTSYEVALSDARKYLRHYNWKYLVVDEGH 290 (725)
Q Consensus 245 ~~~~~~~~~~~~~~~vv---Itsye~~~~~~~~~l~~~~~~~vIvDEaH 290 (725)
....+ ....+.+...+.......+...+|+|=.-
T Consensus 98 ------------~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~ 134 (260)
T COG0467 98 ------------LVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSIT 134 (260)
T ss_pred ------------cccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCc
Confidence 00011 12344455555566666677889999655
No 441
>PRK06749 replicative DNA helicase; Provisional
Probab=74.72 E-value=10 Score=42.20 Aligned_cols=60 Identities=12% Similarity=0.081 Sum_probs=43.8
Q ss_pred HHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHH
Q 004880 163 GVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEIS 224 (725)
Q Consensus 163 gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~ 224 (725)
++..+..-++.|.=.|||.-+|.|||.-++.++.+.... ..+++++..-..-.++...+-
T Consensus 175 ~LD~~t~Gl~~G~LiiIaarPgmGKTafal~ia~~~a~~--g~~v~~fSlEMs~~ql~~R~l 234 (428)
T PRK06749 175 SLNKMTCGLQEGDFVVLGARPSMGKTAFALNVGLHAAKS--GAAVGLFSLEMSSKQLLKRMA 234 (428)
T ss_pred HHHHHhCCCCCCcEEEEEeCCCCCchHHHHHHHHHHHhc--CCCEEEEEeeCCHHHHHHHHH
Confidence 355555545555556999999999999999888877644 368899988766666665543
No 442
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=74.69 E-value=17 Score=47.33 Aligned_cols=61 Identities=16% Similarity=0.180 Sum_probs=42.3
Q ss_pred CcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh--CCCCCCcEEEEcCccH
Q 004880 154 GKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG--NGLHGPYLVIAPLSTL 216 (725)
Q Consensus 154 ~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~--~~~~~~~LIV~P~sll 216 (725)
..|-+-|.+++..++. ....-.+|--..|+|||.+.-+++..+.. ......++.++|..-.
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 4688999999998875 22345678888999999887666655432 1222357778897643
No 443
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=74.63 E-value=16 Score=35.07 Aligned_cols=141 Identities=16% Similarity=0.159 Sum_probs=63.6
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHH-HHH--HHHhCCCceEEEEeCChhhHHHHHHhcCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNW-VNE--ISRFVPSVSAIIYHGSKKERDEIRRKHMPRA 253 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W-~~E--~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~ 253 (725)
..+.--.|=|||-.|+.++......| .+++||== +-..| ..| +-+.+|++.+..+.. ..... ..
T Consensus 6 i~vytG~GKGKTTAAlGlalRA~G~G--~rV~ivQF--lKg~~~~GE~~~l~~l~~~~~~~~g~-~f~~~---~~----- 72 (172)
T PF02572_consen 6 IQVYTGDGKGKTTAALGLALRAAGHG--MRVLIVQF--LKGGRYSGELKALKKLPNVEIERFGK-GFVWR---MN----- 72 (172)
T ss_dssp EEEEESSSS-HHHHHHHHHHHHHCTT----EEEEES--S--SS--HHHHHHGGGT--EEEE--T-T-------GG-----
T ss_pred EEEEeCCCCCchHHHHHHHHHHHhCC--CEEEEEEE--ecCCCCcCHHHHHHhCCeEEEEEcCC-ccccc---CC-----
Confidence 35566678999999888776655553 46666543 11212 123 233344433322211 00000 00
Q ss_pred CCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCC----cchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhh
Q 004880 254 IGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKN----PKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSL 329 (725)
Q Consensus 254 ~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn----~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sl 329 (725)
....+ ...........+..+..-.|++||+||.-..-+ ....+...+..-+...-|.|||--.+..+.++..+
T Consensus 73 -~~~~~--~~~~~~~~~~a~~~i~~~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evVlTGR~~~~~l~e~ADl 149 (172)
T PF02572_consen 73 -EEEED--RAAAREGLEEAKEAISSGEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVVLTGRNAPEELIEAADL 149 (172)
T ss_dssp -GHHHH--HHHHHHHHHHHHHHTT-TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEEEE-SS--HHHHHH-SE
T ss_pred -CcHHH--HHHHHHHHHHHHHHHhCCCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEEEECCCCCHHHHHhCCe
Confidence 00000 001111122224456667899999999876533 33456666676667777999998766555555555
Q ss_pred hccc
Q 004880 330 LHFI 333 (725)
Q Consensus 330 l~~l 333 (725)
+.-+
T Consensus 150 VTem 153 (172)
T PF02572_consen 150 VTEM 153 (172)
T ss_dssp EEEE
T ss_pred eeee
Confidence 4444
No 444
>PF12846 AAA_10: AAA-like domain
Probab=74.34 E-value=9.5 Score=39.74 Aligned_cols=46 Identities=20% Similarity=0.277 Sum_probs=33.9
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHH
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNE 222 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E 222 (725)
.+.++.-.+|+|||..+..++..+...+ .+++|+=|..-...|.+.
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g--~~~~i~D~~g~~~~~~~~ 47 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRG--PRVVIFDPKGDYSPLARA 47 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcC--CCEEEEcCCchHHHHHHh
Confidence 4678888999999999988888888775 467777666544444333
No 445
>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=74.31 E-value=13 Score=44.60 Aligned_cols=26 Identities=23% Similarity=0.157 Sum_probs=19.9
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHH
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHL 198 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l 198 (725)
.+.+.+|.-+.|+|||..+-+++..+
T Consensus 211 ~~~giLL~GppGtGKT~laraia~~~ 236 (733)
T TIGR01243 211 PPKGVLLYGPPGTGKTLLAKAVANEA 236 (733)
T ss_pred CCceEEEECCCCCChHHHHHHHHHHh
Confidence 35667899999999998776665543
No 446
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=74.21 E-value=14 Score=47.46 Aligned_cols=60 Identities=18% Similarity=0.199 Sum_probs=41.4
Q ss_pred cccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh--CCCCCCcEEEEcCccH
Q 004880 155 KLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG--NGLHGPYLVIAPLSTL 216 (725)
Q Consensus 155 ~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~--~~~~~~~LIV~P~sll 216 (725)
.|.+-|.+++..++. ...+-.+|--..|+|||.+.-+++..+.. ......++.++|..-.
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 789999999988774 23345688888999999886555544332 1223457778896643
No 447
>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=74.15 E-value=8.8 Score=46.04 Aligned_cols=41 Identities=22% Similarity=0.314 Sum_probs=28.4
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNW 219 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W 219 (725)
..+.+|.-+.|+|||..+-+++..+ ..+++.|-+..++..|
T Consensus 487 ~~giLL~GppGtGKT~lakalA~e~-----~~~fi~v~~~~l~~~~ 527 (733)
T TIGR01243 487 PKGVLLFGPPGTGKTLLAKAVATES-----GANFIAVRGPEILSKW 527 (733)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhc-----CCCEEEEehHHHhhcc
Confidence 4456889999999998887776653 2366666665554444
No 448
>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=73.86 E-value=25 Score=35.64 Aligned_cols=39 Identities=13% Similarity=0.080 Sum_probs=29.1
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHh----------CCCCCCcEEEEcCc
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKG----------NGLHGPYLVIAPLS 214 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~----------~~~~~~~LIV~P~s 214 (725)
-++|+-+.|+|||..++.++..+.. ....+++|+++--.
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed 51 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAED 51 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCC
Confidence 4789999999999999988876542 12356788888533
No 449
>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=72.95 E-value=6.9 Score=40.53 Aligned_cols=43 Identities=23% Similarity=0.210 Sum_probs=32.5
Q ss_pred ccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 156 LKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~ 200 (725)
+.+.|.+.+.+++. ..+...+++-++|+|||-..-+++.++..
T Consensus 64 ~~~~~~~~l~~~~~--~~~GlilisG~tGSGKTT~l~all~~i~~ 106 (264)
T cd01129 64 LKPENLEIFRKLLE--KPHGIILVTGPTGSGKTTTLYSALSELNT 106 (264)
T ss_pred CCHHHHHHHHHHHh--cCCCEEEEECCCCCcHHHHHHHHHhhhCC
Confidence 66788888877764 23334689999999999988888877643
No 450
>PRK09354 recA recombinase A; Provisional
Probab=72.95 E-value=24 Score=37.98 Aligned_cols=40 Identities=18% Similarity=0.110 Sum_probs=31.5
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHH
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSN 218 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~ 218 (725)
..|+-+.|+|||..++.++...... .+++++|..-..+..
T Consensus 63 teI~G~~GsGKTtLal~~~~~~~~~--G~~~~yId~E~s~~~ 102 (349)
T PRK09354 63 VEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDP 102 (349)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchHH
Confidence 4688899999999999888877655 367888887766654
No 451
>PF05729 NACHT: NACHT domain
Probab=72.65 E-value=24 Score=32.80 Aligned_cols=29 Identities=14% Similarity=0.075 Sum_probs=22.9
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHG 205 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~ 205 (725)
.+|.-+.|.|||..+-.++..+.......
T Consensus 3 l~I~G~~G~GKStll~~~~~~~~~~~~~~ 31 (166)
T PF05729_consen 3 LWISGEPGSGKSTLLRKLAQQLAEEEPPP 31 (166)
T ss_pred EEEECCCCCChHHHHHHHHHHHHhcCccc
Confidence 46778899999999988888887765433
No 452
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=72.49 E-value=6.5 Score=45.11 Aligned_cols=47 Identities=23% Similarity=0.234 Sum_probs=38.8
Q ss_pred cCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHH-HHHHH
Q 004880 152 TGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIA-FLAHL 198 (725)
Q Consensus 152 ~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaia-li~~l 198 (725)
.+.++++.|.+-.+-+....+.|.-||+-.+||+|||+..|. .+.+|
T Consensus 12 fPy~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL 59 (821)
T KOG1133|consen 12 FPYTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWL 59 (821)
T ss_pred CCCCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHH
Confidence 456888999988888888889999999999999999998654 33444
No 453
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=72.23 E-value=52 Score=29.28 Aligned_cols=48 Identities=23% Similarity=0.234 Sum_probs=31.6
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVP 228 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p 228 (725)
.++.-..|.|||..+..+..++...+ .++++|--.. ..+.+++..+..
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g--~~V~~id~D~--~~~~~~~~~~~~ 49 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKG--KPVLAIDADP--DDLPERLSVEVG 49 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEECCc--hhhHHHHhhccC
Confidence 35667799999999988888876653 3555554322 555566655543
No 454
>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=71.77 E-value=9 Score=38.94 Aligned_cols=97 Identities=19% Similarity=0.276 Sum_probs=53.5
Q ss_pred EEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEE--EcCccH-----------H----------HHHHHHHHhCCCceEEEE
Q 004880 179 LADQMGLGKTIQTIAFLAHLKGNGLHGPYLVI--APLSTL-----------S----------NWVNEISRFVPSVSAIIY 235 (725)
Q Consensus 179 LademGlGKT~qaiali~~l~~~~~~~~~LIV--~P~sll-----------~----------~W~~E~~~~~p~~~v~~~ 235 (725)
..--=|.|||-.+.+++..|...|. ++|+| +|.+.+ . .|.....+..+++.++.|
T Consensus 7 ~s~kGGvG~TTltAnLA~aL~~~G~--~VlaID~dpqN~Lrlhfg~~~~~~~G~a~a~l~~~~W~~~~~~~~~g~~~LPf 84 (243)
T PF06564_consen 7 VSPKGGVGKTTLTANLAWALARLGE--SVLAIDLDPQNLLRLHFGLPLDDRDGWARALLDGADWQQAAYRYSDGVDFLPF 84 (243)
T ss_pred ecCCCCCCHHHHHHHHHHHHHHCCC--cEEEEeCCcHHHHHHhcCCCCcccccHHHHHhCCCCHHHHhhccCCCCEEEcC
Confidence 3334599999999999988888753 55554 454444 1 144444445556666666
Q ss_pred eCChhhHHHHHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhh-hcCccEEEEcccc
Q 004880 236 HGSKKERDEIRRKHMPRAIGPKFPIVVTSYEVALSDARKYLR-HYNWKYLVVDEGH 290 (725)
Q Consensus 236 ~g~~~~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~-~~~~~~vIvDEaH 290 (725)
..-...... . +.-.......+.+.+ ..+. ...|++||+|=.+
T Consensus 85 G~l~~~~~~-~-----------~~~l~~~~~~l~~~l-~~l~~~~~~~~iliD~P~ 127 (243)
T PF06564_consen 85 GQLTEAERE-A-----------FEQLAQDPQWLARAL-AALKALGPYDWILIDTPP 127 (243)
T ss_pred CCCCHHHHH-H-----------HHHhhcCHHHHHHHH-HHHhccCCCCEEEEeCCC
Confidence 543322211 0 011122233344443 3333 5678999999655
No 455
>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=71.62 E-value=1.5e+02 Score=36.32 Aligned_cols=25 Identities=24% Similarity=0.251 Sum_probs=21.2
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~ 201 (725)
.++.-++|+|||..|-++...+...
T Consensus 598 ~Lf~Gp~GvGKt~lA~~La~~l~~~ 622 (852)
T TIGR03346 598 FLFLGPTGVGKTELAKALAEFLFDD 622 (852)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhcCC
Confidence 5789999999999999888877653
No 456
>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=71.61 E-value=4.1 Score=44.92 Aligned_cols=36 Identities=22% Similarity=0.100 Sum_probs=23.7
Q ss_pred EEEcCCCCcHHHHHHHHHHH-HHhCCCCCCcEEEEcC
Q 004880 178 ILADQMGLGKTIQTIAFLAH-LKGNGLHGPYLVIAPL 213 (725)
Q Consensus 178 ILademGlGKT~qaiali~~-l~~~~~~~~~LIV~P~ 213 (725)
++.-..|+|||..++..+.. +........++|+.|.
T Consensus 5 i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~ 41 (396)
T TIGR01547 5 IAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKV 41 (396)
T ss_pred EEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehh
Confidence 55667899999887654443 3332244678888883
No 457
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=71.22 E-value=13 Score=35.21 Aligned_cols=126 Identities=17% Similarity=0.196 Sum_probs=64.3
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCC
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIG 255 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~ 255 (725)
...+--.+|+|||..+.-++..|...| .+-.=|+||..- +.=+++ ++.++-....... .+.........-
T Consensus 7 ki~ITG~PGvGKtTl~~ki~e~L~~~g-~kvgGf~t~EVR-----~gGkR~--GF~Ivdl~tg~~~--~la~~~~~~~rv 76 (179)
T COG1618 7 KIFITGRPGVGKTTLVLKIAEKLREKG-YKVGGFITPEVR-----EGGKRI--GFKIVDLATGEEG--ILARVGFSRPRV 76 (179)
T ss_pred EEEEeCCCCccHHHHHHHHHHHHHhcC-ceeeeEEeeeee-----cCCeEe--eeEEEEccCCceE--EEEEcCCCCccc
Confidence 456778899999988888887877764 223345566321 000011 2333332211100 000001111122
Q ss_pred CCCCEEEecHHHHH-HHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcC-CCCcEEE
Q 004880 256 PKFPIVVTSYEVAL-SDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYI-PIGNKLL 313 (725)
Q Consensus 256 ~~~~vvItsye~~~-~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l-~~~~rll 313 (725)
++|.|-+-..+.+. ..++..+.. -|++||||.--+-+..-+...++... .+...++
T Consensus 77 GkY~V~v~~le~i~~~al~rA~~~--aDvIIIDEIGpMElks~~f~~~ve~vl~~~kpli 134 (179)
T COG1618 77 GKYGVNVEGLEEIAIPALRRALEE--ADVIIIDEIGPMELKSKKFREAVEEVLKSGKPLI 134 (179)
T ss_pred ceEEeeHHHHHHHhHHHHHHHhhc--CCEEEEecccchhhccHHHHHHHHHHhcCCCcEE
Confidence 35555555555222 222222332 59999999998877666677777655 3444433
No 458
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=71.21 E-value=12 Score=39.78 Aligned_cols=53 Identities=17% Similarity=0.003 Sum_probs=36.5
Q ss_pred ccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEc
Q 004880 156 LKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAP 212 (725)
Q Consensus 156 Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P 212 (725)
..+-|..=+..+.. ..=.+---+-|+|||+-+.+........+...++|.-=|
T Consensus 129 kt~~Q~~y~eai~~----~di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP 181 (348)
T COG1702 129 KTPGQNMYPEAIEE----HDIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP 181 (348)
T ss_pred cChhHHHHHHHHHh----cCeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc
Confidence 34577766666654 111111228899999999999988888887777776666
No 459
>PRK12377 putative replication protein; Provisional
Probab=70.88 E-value=21 Score=36.50 Aligned_cols=42 Identities=21% Similarity=0.266 Sum_probs=30.2
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHH
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSN 218 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~ 218 (725)
.+.+|.-++|+|||..+.+++..+...+ .+++++.-..++..
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g--~~v~~i~~~~l~~~ 143 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLLAKG--RSVIVVTVPDVMSR 143 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcC--CCeEEEEHHHHHHH
Confidence 4568889999999999999999988764 24444443444443
No 460
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=70.75 E-value=33 Score=36.15 Aligned_cols=41 Identities=24% Similarity=0.293 Sum_probs=27.7
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHh--------CCCCCCcEEEEc
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKG--------NGLHGPYLVIAP 212 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~--------~~~~~~~LIV~P 212 (725)
..+...||+-+-|+|||...|-++-++.. ....|.+|+|.-
T Consensus 87 r~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvsl 135 (402)
T COG3598 87 RKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSL 135 (402)
T ss_pred hcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEe
Confidence 44778899999999999887655544322 123456777653
No 461
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=70.43 E-value=18 Score=38.94 Aligned_cols=47 Identities=17% Similarity=0.305 Sum_probs=32.3
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
++.+++-+.|+|||+.|=|++...- ..|.=|.-..+.+.|.-|-++.
T Consensus 246 kgvLm~GPPGTGKTlLAKAvATEc~-----tTFFNVSsstltSKwRGeSEKl 292 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLLAKAVATECG-----TTFFNVSSSTLTSKWRGESEKL 292 (491)
T ss_pred ceeeeeCCCCCcHHHHHHHHHHhhc-----CeEEEechhhhhhhhccchHHH
Confidence 4678999999999988777665421 2344455555778887666554
No 462
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=70.40 E-value=30 Score=37.73 Aligned_cols=88 Identities=17% Similarity=0.162 Sum_probs=62.9
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHHHHHhcCCCCCCC
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDEIRRKHMPRAIGP 256 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~ 256 (725)
.+|.-+.|.||+..-+-+++.+..++ ++|.|+----..||.-...+..-.
T Consensus 96 iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEES~~QiklRA~RL~~~--------------------------- 145 (456)
T COG1066 96 ILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEESLQQIKLRADRLGLP--------------------------- 145 (456)
T ss_pred EEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCcCHHHHHHHHHHhCCC---------------------------
Confidence 37889999999988777777777664 999999988889998877776311
Q ss_pred CCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCc
Q 004880 257 KFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNP 295 (725)
Q Consensus 257 ~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~ 295 (725)
..++.+..... ..++...+...+++++|||=.+.+-++
T Consensus 146 ~~~l~l~aEt~-~e~I~~~l~~~~p~lvVIDSIQT~~s~ 183 (456)
T COG1066 146 TNNLYLLAETN-LEDIIAELEQEKPDLVVIDSIQTLYSE 183 (456)
T ss_pred ccceEEehhcC-HHHHHHHHHhcCCCEEEEeccceeecc
Confidence 12233333222 223345667788999999999988543
No 463
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=70.29 E-value=17 Score=36.83 Aligned_cols=38 Identities=24% Similarity=0.401 Sum_probs=28.2
Q ss_pred CCCCcHHHHHHHHHHHHHhCCCCCCcEEEE--cCccHHHHHH
Q 004880 182 QMGLGKTIQTIAFLAHLKGNGLHGPYLVIA--PLSTLSNWVN 221 (725)
Q Consensus 182 emGlGKT~qaiali~~l~~~~~~~~~LIV~--P~sll~~W~~ 221 (725)
-=|.|||..++.++..+...| .+++||= |...+..|..
T Consensus 10 KGGvGKTT~a~nLA~~la~~G--~~VlliD~DpQ~s~~~w~~ 49 (231)
T PRK13849 10 KGGAGKTTALMGLCAALASDG--KRVALFEADENRPLTRWKE 49 (231)
T ss_pred CCCccHHHHHHHHHHHHHhCC--CcEEEEeCCCCCCHHHHHH
Confidence 348999999999998888764 3666553 5556778865
No 464
>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=69.99 E-value=5.5 Score=41.27 Aligned_cols=122 Identities=21% Similarity=0.226 Sum_probs=62.4
Q ss_pred HHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHhCCCceEEEEeCChhhHHH
Q 004880 165 KWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRFVPSVSAIIYHGSKKERDE 244 (725)
Q Consensus 165 ~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~~p~~~v~~~~g~~~~r~~ 244 (725)
.+|......+.+.+++-++|+|||-+.-+++.++... ..++++|-... |+ ..+......+....
T Consensus 118 ~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~--~~~iv~iEd~~-------E~--~l~~~~~~~~~~~~----- 181 (270)
T PF00437_consen 118 EFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE--DERIVTIEDPP-------EL--RLPGPNQIQIQTRR----- 181 (270)
T ss_dssp HHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT--TSEEEEEESSS--------S----SCSSEEEEEEET-----
T ss_pred HHHhhccccceEEEEECCCccccchHHHHHhhhcccc--ccceEEecccc-------ce--eecccceEEEEeec-----
Confidence 4455445667788999999999999988887665544 23444444322 11 01111111111100
Q ss_pred HHHhcCCCCCCCCCCEEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcchHHHHHHhcCCCCcEEEEeccCCCCChH
Q 004880 245 IRRKHMPRAIGPKFPIVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPKCKLLKELKYIPIGNKLLLTGTPLQNNLA 324 (725)
Q Consensus 245 ~~~~~~~~~~~~~~~vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~s~~~~~l~~l~~~~rllLTgTP~~n~~~ 324 (725)
. ..+|..+.. ..|+ .++|++|++|.- +.. ....+....+.+...+| |-+.++..
T Consensus 182 -----------~-----~~~~~~~l~---~~LR-~~pD~iiigEiR---~~e--~~~~~~a~~tGh~~~~t-T~Ha~s~~ 235 (270)
T PF00437_consen 182 -----------D-----EISYEDLLK---SALR-QDPDVIIIGEIR---DPE--AAEAIQAANTGHLGSLT-TLHANSAE 235 (270)
T ss_dssp -----------T-----TBSHHHHHH---HHTT-S--SEEEESCE----SCH--HHHHHHHHHTT-EEEEE-EEE-SSHH
T ss_pred -----------C-----cccHHHHHH---HHhc-CCCCcccccccC---CHh--HHHHHHhhccCCceeee-eeecCCHH
Confidence 0 123444433 2344 468999999964 333 33446666677777544 44555555
Q ss_pred Hhhh
Q 004880 325 ELWS 328 (725)
Q Consensus 325 el~s 328 (725)
+...
T Consensus 236 ~~i~ 239 (270)
T PF00437_consen 236 DAIE 239 (270)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 5444
No 465
>PRK08939 primosomal protein DnaI; Reviewed
Probab=69.82 E-value=12 Score=39.62 Aligned_cols=46 Identities=17% Similarity=0.225 Sum_probs=32.3
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISR 225 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~ 225 (725)
+.|.+|.-.+|+|||..+.|++..+...| .+++++.- +.+..+++.
T Consensus 156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g--~~v~~~~~----~~l~~~lk~ 201 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLAAIANELAKKG--VSSTLLHF----PEFIRELKN 201 (306)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcC--CCEEEEEH----HHHHHHHHH
Confidence 45667888999999999999999988664 34444433 344455543
No 466
>PRK09087 hypothetical protein; Validated
Probab=69.76 E-value=23 Score=35.68 Aligned_cols=36 Identities=14% Similarity=0.197 Sum_probs=25.6
Q ss_pred cEEEEccccccCCcchHHHHHHhcCC-CCcEEEEecc
Q 004880 282 KYLVVDEGHRLKNPKCKLLKELKYIP-IGNKLLLTGT 317 (725)
Q Consensus 282 ~~vIvDEaH~ikn~~s~~~~~l~~l~-~~~rllLTgT 317 (725)
++|++|+.|.+......++..+..+. ....+++|++
T Consensus 89 ~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~ 125 (226)
T PRK09087 89 GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSR 125 (226)
T ss_pred CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECC
Confidence 58999999998644455666665553 3567888887
No 467
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=69.72 E-value=74 Score=37.03 Aligned_cols=92 Identities=13% Similarity=0.172 Sum_probs=62.7
Q ss_pred hcHHHHHHHHHHHHhhCCCcEEEEccch----hHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEE
Q 004880 479 CGKFRLLDRLLARLFARNHKVLVFSQWT----KILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLL 554 (725)
Q Consensus 479 s~K~~~L~~ll~~l~~~~~kvlIFsq~~----~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Ll 554 (725)
|||-.+..--.-.....|..+.+-...- ...+-+..+|...|+.+..++|+++...|.++++.-.++ .+.+ +|
T Consensus 294 SGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G--~~~i-vV 370 (677)
T COG1200 294 SGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASG--EIDI-VV 370 (677)
T ss_pred CCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCC--CCCE-EE
Confidence 6665433322223345677777666542 245667788888899999999999999999999999874 4444 77
Q ss_pred ecccc-cCCCCCCCCCEEEE
Q 004880 555 STRAG-GLGINLTAADTCIL 573 (725)
Q Consensus 555 st~ag-g~GiNL~~a~~VI~ 573 (725)
.|-|. -..++++..-.||+
T Consensus 371 GTHALiQd~V~F~~LgLVIi 390 (677)
T COG1200 371 GTHALIQDKVEFHNLGLVII 390 (677)
T ss_pred EcchhhhcceeecceeEEEE
Confidence 77665 45666666655554
No 468
>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=67.97 E-value=46 Score=32.74 Aligned_cols=36 Identities=17% Similarity=0.136 Sum_probs=28.5
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS 214 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s 214 (725)
..+.-+.|+|||..++.++......+ .+++.|.-..
T Consensus 15 ~~i~G~~GsGKT~l~~~~~~~~~~~g--~~v~yi~~e~ 50 (209)
T TIGR02237 15 TQIYGPPGSGKTNICMILAVNAARQG--KKVVYIDTEG 50 (209)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhCC--CeEEEEECCC
Confidence 37888999999999998888776553 5777777754
No 469
>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=67.95 E-value=22 Score=32.71 Aligned_cols=83 Identities=13% Similarity=0.085 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccC
Q 004880 482 FRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGL 561 (725)
Q Consensus 482 ~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~ 561 (725)
...+.+++.+....|+|++|+|.....++.|-+.|-...-.-..=||-... .......| +|++....
T Consensus 15 ~~~~c~L~~k~~~~g~rv~V~~~d~~~a~~lD~~LW~~~~~sFlPH~~~~~-----------~~~~~~PV-~i~~~~~~- 81 (137)
T PF04364_consen 15 ERFACRLAEKAYRQGQRVLVLCPDEEQAEALDELLWTFSPDSFLPHGLAGE-----------PPAARQPV-LITWDQEA- 81 (137)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-SSHHHHHHHHHHTTTSSTT----EEETT------------SSTT--SE-EEE-TTS--
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHCCCCCCCCCCcccCC-----------CCCCCCeE-EEecCccc-
Confidence 578889999999999999999999999999999997642222222222110 00112234 55553322
Q ss_pred CCCCCCCCEEEEeCCCC
Q 004880 562 GINLTAADTCILYDSDW 578 (725)
Q Consensus 562 GiNL~~a~~VI~~D~~w 578 (725)
-....++.+|++++.+
T Consensus 82 -~~~~~~~vLinL~~~~ 97 (137)
T PF04364_consen 82 -NPNNHADVLINLSGEV 97 (137)
T ss_dssp ----S--SEEEE--SS-
T ss_pred -CCCCCCCEEEECCCCC
Confidence 2344599999999887
No 470
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=67.89 E-value=56 Score=35.00 Aligned_cols=49 Identities=24% Similarity=0.262 Sum_probs=31.1
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCcc-----HHHHHHHHHHh
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLST-----LSNWVNEISRF 226 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sl-----l~~W~~E~~~~ 226 (725)
-+.-..|+|||..+-.++..+...+..-.++-+=|.+. +-.|...+.+.
T Consensus 60 gi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~Dp~s~~~~gallgd~~r~~~~ 113 (332)
T PRK09435 60 GITGVPGVGKSTFIEALGMHLIEQGHKVAVLAVDPSSTRTGGSILGDKTRMERL 113 (332)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeCCCccccchhhhchHhHHHhh
Confidence 45667999999888888888876643222333335554 34476666654
No 471
>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=67.78 E-value=39 Score=28.96 Aligned_cols=48 Identities=8% Similarity=0.009 Sum_probs=36.7
Q ss_pred CCcEEEEcc------chhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHh
Q 004880 496 NHKVLVFSQ------WTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFN 543 (725)
Q Consensus 496 ~~kvlIFsq------~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~ 543 (725)
.++|+||+. +......+..+|...|++|..++=....+.|..+.....
T Consensus 11 ~~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~~~tg 64 (97)
T TIGR00365 11 ENPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGIKEYSN 64 (97)
T ss_pred cCCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHhC
Confidence 579999974 456678888999999999999887666666666655544
No 472
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=67.63 E-value=38 Score=36.27 Aligned_cols=61 Identities=13% Similarity=0.319 Sum_probs=26.6
Q ss_pred EEEecHHHHHHHHHHhhhhcCccEEEEccccccCCcc-hHHHHHHhcCCCCcE-EEEeccCCCCC
Q 004880 260 IVVTSYEVALSDARKYLRHYNWKYLVVDEGHRLKNPK-CKLLKELKYIPIGNK-LLLTGTPLQNN 322 (725)
Q Consensus 260 vvItsye~~~~~~~~~l~~~~~~~vIvDEaH~ikn~~-s~~~~~l~~l~~~~r-llLTgTP~~n~ 322 (725)
+.+.+.+.-. . ...+....++++|+||+-.+.... ......+........ ++.|.||-.++
T Consensus 79 i~~~~~~~~~-~-~~~~~G~~~~~i~iDE~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~p~~~~~ 141 (384)
T PF03237_consen 79 IQFRGADSPD-S-GDNIRGFEYDLIIIDEAAKVPDDAFSELIRRLRATWGGSIRMYISTPPNPGG 141 (384)
T ss_dssp EEEES------S-HHHHHTS--SEEEEESGGGSTTHHHHHHHHHHHHCSTT--EEEEEE---SSS
T ss_pred EEEecccccc-c-cccccccccceeeeeecccCchHHHHHHHHhhhhcccCcceEEeecCCCCCC
Confidence 5555544211 1 134566788999999988875432 223333333333333 36666664443
No 473
>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=67.52 E-value=9.4 Score=43.47 Aligned_cols=24 Identities=25% Similarity=0.242 Sum_probs=19.6
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAH 197 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~ 197 (725)
..+.+|.-+.|+|||..+=+++..
T Consensus 88 ~~giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 88 PKGVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHH
Confidence 456799999999999888777654
No 474
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=67.41 E-value=73 Score=30.97 Aligned_cols=61 Identities=21% Similarity=0.276 Sum_probs=42.0
Q ss_pred HHhhhhcCccEEEEccccccCC----cchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhhhccc
Q 004880 273 RKYLRHYNWKYLVVDEGHRLKN----PKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSLLHFI 333 (725)
Q Consensus 273 ~~~l~~~~~~~vIvDEaH~ikn----~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sll~~l 333 (725)
+..+..-.|++||+||.-..-. +-..+...+..-+...-+.+||.-.+..+-|+..++.=+
T Consensus 115 ~~~l~~~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTGr~ap~~lie~ADlVTEm 179 (198)
T COG2109 115 KEALADGKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITGRGAPPELIELADLVTEM 179 (198)
T ss_pred HHHHhCCCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEECCCCCHHHHHHHHHHhhc
Confidence 4567777899999999865433 233456666666677779999976666666666555444
No 475
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=66.99 E-value=72 Score=37.99 Aligned_cols=41 Identities=12% Similarity=0.086 Sum_probs=27.1
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCc
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLS 214 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~s 214 (725)
..+.+.+|.-|+|+|||..|-++-... ....+|++.|--..
T Consensus 397 ~~~~pVLI~GE~GTGK~~lA~~ih~~s--~r~~~~~v~i~c~~ 437 (686)
T PRK15429 397 QSDSTVLILGETGTGKELIARAIHNLS--GRNNRRMVKMNCAA 437 (686)
T ss_pred CCCCCEEEECCCCcCHHHHHHHHHHhc--CCCCCCeEEEeccc
Confidence 456688999999999998776554332 22345776654433
No 476
>PRK06646 DNA polymerase III subunit chi; Provisional
Probab=66.70 E-value=26 Score=32.97 Aligned_cols=43 Identities=5% Similarity=0.050 Sum_probs=38.4
Q ss_pred HhhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhc
Q 004880 477 EQCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEK 519 (725)
Q Consensus 477 ~~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~ 519 (725)
..+++..++.+|+.+....|.||+|+|.....++.|-+.|-..
T Consensus 10 ~~~~~~~~acrL~~Ka~~~G~rv~I~~~d~~~~~~LD~~LWtf 52 (154)
T PRK06646 10 SDELLLKSILLLIEKCYYSDLKSVILTADADQQEMLNKNLWTY 52 (154)
T ss_pred CCChHHHHHHHHHHHHHHcCCEEEEEcCCHHHHHHHHHHhcCC
Confidence 3467999999999999999999999999999999999998653
No 477
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=66.54 E-value=11 Score=42.00 Aligned_cols=26 Identities=27% Similarity=0.171 Sum_probs=20.8
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHH
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHL 198 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l 198 (725)
.+.+.+|.-+.|+|||..+=+++..+
T Consensus 216 ~p~gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 216 PPKGVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence 45577999999999998887776653
No 478
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=66.49 E-value=41 Score=34.30 Aligned_cols=24 Identities=25% Similarity=0.358 Sum_probs=19.8
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHhC
Q 004880 178 ILADQMGLGKTIQTIAFLAHLKGN 201 (725)
Q Consensus 178 ILademGlGKT~qaiali~~l~~~ 201 (725)
+++--+|+|||..|-.+..++...
T Consensus 3 vl~G~pGSGKST~a~~La~~l~~~ 26 (249)
T TIGR03574 3 ILTGLPGVGKSTFSKELAKKLSEK 26 (249)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHc
Confidence 677789999999998888877654
No 479
>PRK05728 DNA polymerase III subunit chi; Validated
Probab=66.07 E-value=39 Score=31.31 Aligned_cols=86 Identities=16% Similarity=0.014 Sum_probs=56.1
Q ss_pred hhcHHHHHHHHHHHHhhCCCcEEEEccchhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecc
Q 004880 478 QCGKFRLLDRLLARLFARNHKVLVFSQWTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTR 557 (725)
Q Consensus 478 ~s~K~~~L~~ll~~l~~~~~kvlIFsq~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~ 557 (725)
...+...+.+++.+....|+||+|+|.....++.|-+.|-...-.-..=||-.... ......| +|+.
T Consensus 11 ~~~~~~~~c~L~~ka~~~g~rv~I~~~d~~~a~~lD~~LW~~~~~sFlPH~~~~~~-----------~~~~~PV-~l~~- 77 (142)
T PRK05728 11 LSALEALLCELAEKALRAGWRVLVQCEDEEQAEALDEALWTFRDESFLPHGLAGEG-----------PAAGQPV-LLTW- 77 (142)
T ss_pred chhHHHHHHHHHHHHHHCCCEEEEEcCCHHHHHHHHHHhcCCCCCcCCCCCcCCCC-----------CCCCCCE-EEEc-
Confidence 35688999999999999999999999999999999999865421111112211100 0123345 4441
Q ss_pred cccCCCCCCCCCEEEEeCCCC
Q 004880 558 AGGLGINLTAADTCILYDSDW 578 (725)
Q Consensus 558 agg~GiNL~~a~~VI~~D~~w 578 (725)
+..-|...++.+|+++..+
T Consensus 78 --~~~~~~~~~~~LinL~~~~ 96 (142)
T PRK05728 78 --PGKRNANHRDLLINLDGAV 96 (142)
T ss_pred --CCCCCCCCCcEEEECCCCC
Confidence 1124566788899888764
No 480
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=66.06 E-value=17 Score=42.40 Aligned_cols=85 Identities=20% Similarity=0.133 Sum_probs=59.7
Q ss_pred ccccCCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCC----CCCCcEEEEc-CccHHHHHHHH
Q 004880 149 SLLTGGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKGNG----LHGPYLVIAP-LSTLSNWVNEI 223 (725)
Q Consensus 149 p~~~~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~~~----~~~~~LIV~P-~sll~~W~~E~ 223 (725)
|...-..|..-|..+...+.. ..-.|+--+.|+|||.+++-++..++... ..-|+||+|- .+.++|...-+
T Consensus 372 p~~g~~ildsSq~~A~qs~lt----yelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligi 447 (1025)
T KOG1807|consen 372 PGPGLVILDSSQQFAKQSKLT----YELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGI 447 (1025)
T ss_pred CCCCceeecHHHHHHHHHHhh----hhhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHH
Confidence 333344677789999888875 45568899999999999999988888643 3458999998 44777776665
Q ss_pred HHhCCCceEEEEeCCh
Q 004880 224 SRFVPSVSAIIYHGSK 239 (725)
Q Consensus 224 ~~~~p~~~v~~~~g~~ 239 (725)
-.. .-..++..|+.
T Consensus 448 y~~--qrpsImr~gsr 461 (1025)
T KOG1807|consen 448 YYH--QRPSIMRQGSR 461 (1025)
T ss_pred Hhc--CCceEEEeccc
Confidence 432 23344445544
No 481
>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed
Probab=66.02 E-value=27 Score=37.23 Aligned_cols=20 Identities=40% Similarity=0.522 Sum_probs=17.3
Q ss_pred CCCcHHHHHHHHHHHHHhCC
Q 004880 183 MGLGKTIQTIAFLAHLKGNG 202 (725)
Q Consensus 183 mGlGKT~qaiali~~l~~~~ 202 (725)
=|+|||-.++.++.++..+|
T Consensus 60 GGtGKTP~v~~L~~~l~~~g 79 (325)
T PRK00652 60 GGTGKTPVVIALAEQLQARG 79 (325)
T ss_pred CCCChHHHHHHHHHHHHHCC
Confidence 49999999999999987654
No 482
>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=65.49 E-value=43 Score=37.92 Aligned_cols=56 Identities=14% Similarity=0.053 Sum_probs=33.9
Q ss_pred chHHHHHHHHHHHhcCC------CCeEEEcCCCCcHHHHHHHHHHHHH-hCCCCCC-cEEEEcCc
Q 004880 158 SYQLKGVKWLISLWQNG------LNGILADQMGLGKTIQTIAFLAHLK-GNGLHGP-YLVIAPLS 214 (725)
Q Consensus 158 ~yQ~~gv~~l~~~~~~~------~~~ILademGlGKT~qaiali~~l~-~~~~~~~-~LIV~P~s 214 (725)
|+|...+..+... ..+ ..++|.-.=|-|||..+.+++.+.. -.+..++ ++++++..
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 PWQKFILRSIFGW-RKDDGRRRFREVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTR 64 (477)
T ss_pred CcHHHHHHHHhce-EcCCCCEEEEEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCH
Confidence 6788666655532 211 1257777889999988777665444 3444444 56666643
No 483
>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=65.13 E-value=17 Score=39.95 Aligned_cols=57 Identities=19% Similarity=0.089 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHH-HHhCCCCCCcEEEEcCccHHHHHH
Q 004880 160 QLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAH-LKGNGLHGPYLVIAPLSTLSNWVN 221 (725)
Q Consensus 160 Q~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~-l~~~~~~~~~LIV~P~sll~~W~~ 221 (725)
++..+..++...+++.|.|+--+.|+|||..+.++..+ ....| ..+++..++.+-..
T Consensus 195 k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~~l~~~~a~~sG-----~f~T~a~Lf~~L~~ 252 (449)
T TIGR02688 195 KLLLLARLLPLVEPNYNLIELGPKGTGKSYIYNNLSPYVILISG-----GTITVAKLFYNIST 252 (449)
T ss_pred HHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHHHHhHHHHHHcC-----CcCcHHHHHHHHHH
Confidence 33444445455678999999999999999888877666 44444 44555556655544
No 484
>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=64.89 E-value=34 Score=45.65 Aligned_cols=60 Identities=17% Similarity=0.093 Sum_probs=40.1
Q ss_pred CCcccchHHHHHHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHH---HhCCCCCCcEEEEcCcc
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHL---KGNGLHGPYLVIAPLST 215 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~~ILademGlGKT~qaiali~~l---~~~~~~~~~LIV~P~sl 215 (725)
...|.+-|..++..++. ..++-.+|--.-|+|||.+..+++..+ ... ....++.++|.+-
T Consensus 1017 ~~~Lt~~Q~~Ai~~il~--~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~-~g~~v~glApT~~ 1079 (1960)
T TIGR02760 1017 LERLTHGQKQAIHLIIS--TKDRFVAVQGLAGVGKTTMLESRYKPVLQAFES-EQLQVIGLAPTHE 1079 (1960)
T ss_pred cCCCCHHHHHHHHHHHh--CCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHh-cCCeEEEEeChHH
Confidence 35799999999988865 223345677889999998875443333 222 1246777889653
No 485
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=64.65 E-value=70 Score=36.01 Aligned_cols=46 Identities=13% Similarity=0.322 Sum_probs=28.5
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNW 219 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W 219 (725)
......++.-+.|+|||..|-++-.. .....+|+++|--..+-..|
T Consensus 159 ~~~~~vli~Ge~GtGK~~lA~~ih~~--s~~~~~~~i~i~c~~~~~~~ 204 (469)
T PRK10923 159 RSSISVLINGESGTGKELVAHALHRH--SPRAKAPFIALNMAAIPKDL 204 (469)
T ss_pred ccCCeEEEEeCCCCcHHHHHHHHHhc--CCCCCCCeEeeeCCCCCHHH
Confidence 45667899999999999765443332 22234677766554443333
No 486
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=64.63 E-value=11 Score=40.32 Aligned_cols=36 Identities=25% Similarity=0.149 Sum_probs=28.1
Q ss_pred HHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHH
Q 004880 164 VKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLK 199 (725)
Q Consensus 164 v~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~ 199 (725)
..||..+...+.+.+++-.+|+|||-..-+++.++.
T Consensus 150 ~~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~ip 185 (332)
T PRK13900 150 KEFLEHAVISKKNIIISGGTSTGKTTFTNAALREIP 185 (332)
T ss_pred HHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhCC
Confidence 355555667788999999999999988777776553
No 487
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=64.09 E-value=39 Score=38.63 Aligned_cols=65 Identities=15% Similarity=0.255 Sum_probs=44.3
Q ss_pred HHHHHHHHH-HhcCCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh
Q 004880 161 LKGVKWLIS-LWQNGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF 226 (725)
Q Consensus 161 ~~gv~~l~~-~~~~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~ 226 (725)
..++.-++. -+..|.-.+|+-+.|+|||.-++.++.....+. ..++|+|+=-....+-.+.+..+
T Consensus 17 I~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~-ge~~lyis~ee~~~~i~~~~~~~ 82 (509)
T PRK09302 17 IEGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRF-DEPGVFVTFEESPEDIIRNVASF 82 (509)
T ss_pred chhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhc-CCCEEEEEccCCHHHHHHHHHHc
Confidence 345555552 223344458999999999999998887655441 35888888776666666666655
No 488
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=63.98 E-value=33 Score=31.65 Aligned_cols=86 Identities=17% Similarity=0.163 Sum_probs=55.5
Q ss_pred cEEEEccchhHHHHHHHHHhhcCce--EEEEeCCCCHHHHHHHHHHHhCCCCCceEEEEecccccCCCCCCCCCEEEEeC
Q 004880 498 KVLVFSQWTKILDIMEYYFNEKGYE--VCRIDGSVRLDERKRQIQDFNDVNSSYRIFLLSTRAGGLGINLTAADTCILYD 575 (725)
Q Consensus 498 kvlIFsq~~~~ld~l~~~L~~~g~~--~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~Llst~agg~GiNL~~a~~VI~~D 575 (725)
.|=++||+-.+...+..++..+|+. +..=.|....-.-.+.++-|.+ |+..+++++- ++
T Consensus 3 ~valisQSG~~~~~~~~~~~~~g~g~s~~vs~Gn~~dv~~~d~l~~~~~-D~~t~~I~ly------------------~E 63 (138)
T PF13607_consen 3 GVALISQSGALGTAILDWAQDRGIGFSYVVSVGNEADVDFADLLEYLAE-DPDTRVIVLY------------------LE 63 (138)
T ss_dssp SEEEEES-HHHHHHHHHHHHHTT-EESEEEE-TT-SSS-HHHHHHHHCT--SS--EEEEE------------------ES
T ss_pred CEEEEECCHHHHHHHHHHHHHcCCCeeEEEEeCccccCCHHHHHHHHhc-CCCCCEEEEE------------------cc
Confidence 4778999999999999999887554 4556676655567788999987 6777775544 45
Q ss_pred CCCCcchhhhHhHhhHhcCCCCceEEEEEe
Q 004880 576 SDWNPQMDLQAMDRCHRIGQTKPVHVYRLA 605 (725)
Q Consensus 576 ~~wNp~~~~Qa~gR~~RiGQ~k~V~Vyrli 605 (725)
.--||..+..+.-|+.|. |||.+|+-=
T Consensus 64 ~~~d~~~f~~~~~~a~~~---KPVv~lk~G 90 (138)
T PF13607_consen 64 GIGDGRRFLEAARRAARR---KPVVVLKAG 90 (138)
T ss_dssp --S-HHHHHHHHHHHCCC---S-EEEEE--
T ss_pred CCCCHHHHHHHHHHHhcC---CCEEEEeCC
Confidence 555888888888877763 999998753
No 489
>KOG0442 consensus Structure-specific endonuclease ERCC1-XPF, catalytic component XPF/ERCC4 [Replication, recombination and repair]
Probab=63.96 E-value=1e+02 Score=36.67 Aligned_cols=44 Identities=20% Similarity=0.314 Sum_probs=32.8
Q ss_pred HHHhhcHHHHHHHHHHH-Hhh---------CCCcEEEEccchhHHHHHHHHHhh
Q 004880 475 IVEQCGKFRLLDRLLAR-LFA---------RNHKVLVFSQWTKILDIMEYYFNE 518 (725)
Q Consensus 475 l~~~s~K~~~L~~ll~~-l~~---------~~~kvlIFsq~~~~ld~l~~~L~~ 518 (725)
..+.++|+..|.+++.+ ... ....|+|-|..-.+...+.+++..
T Consensus 347 ~lE~~pKw~~Ltdil~~e~~~~~~~~~~~~~~~~Vlv~c~dertC~ql~d~lt~ 400 (892)
T KOG0442|consen 347 ELEECPKWEVLTDILFKEIEHEKERADRSNDQGSVLVACSDERTCAQLRDYLTL 400 (892)
T ss_pred ccccCCCcHHHHHHHHhhhhhHHHHhhhcCCCCceEEEeccchhHHHHHHHHhc
Confidence 45678999999999933 221 234699999998888888888764
No 490
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=63.48 E-value=15 Score=40.73 Aligned_cols=37 Identities=24% Similarity=0.249 Sum_probs=28.6
Q ss_pred HHHHHHHhcCCCCeEEEcCCCCcHHHHHHHHHHHHHh
Q 004880 164 VKWLISLWQNGLNGILADQMGLGKTIQTIAFLAHLKG 200 (725)
Q Consensus 164 v~~l~~~~~~~~~~ILademGlGKT~qaiali~~l~~ 200 (725)
+..++.....+.+.||...+|+|||..|-.++..+..
T Consensus 184 le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~~ 220 (459)
T PRK11331 184 IETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLTG 220 (459)
T ss_pred HHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4455555566889999999999999999877766543
No 491
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=63.28 E-value=47 Score=33.04 Aligned_cols=39 Identities=21% Similarity=0.261 Sum_probs=28.4
Q ss_pred eEEEcCCCCcHHHHHHHHHHHHHhCC----CCCCcEEEEcCcc
Q 004880 177 GILADQMGLGKTIQTIAFLAHLKGNG----LHGPYLVIAPLST 215 (725)
Q Consensus 177 ~ILademGlGKT~qaiali~~l~~~~----~~~~~LIV~P~sl 215 (725)
..|+-+.|+|||..++.++......+ ....++.|.....
T Consensus 22 ~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~ 64 (226)
T cd01393 22 TEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGA 64 (226)
T ss_pred EEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCC
Confidence 47888999999999998887655432 2356777777553
No 492
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=62.88 E-value=33 Score=38.86 Aligned_cols=62 Identities=15% Similarity=0.112 Sum_probs=44.5
Q ss_pred CCcccchHHHHHHHHHHHhcCCCC------eEEEcCCCCcHHHHHHHHHHH--HHhCCCCCCcEEEEcCc
Q 004880 153 GGKLKSYQLKGVKWLISLWQNGLN------GILADQMGLGKTIQTIAFLAH--LKGNGLHGPYLVIAPLS 214 (725)
Q Consensus 153 ~~~Lr~yQ~~gv~~l~~~~~~~~~------~ILademGlGKT~qaiali~~--l~~~~~~~~~LIV~P~s 214 (725)
+..|-|||...+.-+...+..+.+ ++|-..=|=|||..+.+++.+ +........+.|++|.-
T Consensus 59 p~~l~PwQkFiia~l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~ 128 (546)
T COG4626 59 PESLEPWQKFIVAALFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSV 128 (546)
T ss_pred ccccchHHHHHHHHHhceeecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEeccH
Confidence 457999999988888766665554 378888999999776655543 34444445788888854
No 493
>PRK05818 DNA polymerase III subunit delta'; Validated
Probab=62.42 E-value=48 Score=34.10 Aligned_cols=124 Identities=18% Similarity=0.072 Sum_probs=66.1
Q ss_pred CeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcCccHHHHHHHHHHh-CCCceEEEEeCChhhHHHHHHhcCCCCC
Q 004880 176 NGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPLSTLSNWVNEISRF-VPSVSAIIYHGSKKERDEIRRKHMPRAI 254 (725)
Q Consensus 176 ~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~sll~~W~~E~~~~-~p~~~v~~~~g~~~~r~~~~~~~~~~~~ 254 (725)
.-++.-+.|+||.-.|.+++.++.-....+ |-..+.. ...+... +|++..+.-.+..
T Consensus 9 A~Lf~G~~G~G~~~lA~~~A~~llC~~~~~------~Cg~C~s-C~~i~~~~HPDl~~i~p~~~~--------------- 66 (261)
T PRK05818 9 PLLLIERKGSFLKPFLYEYLTSIVCTKANG------FCKTCES-CLKILNGKYNDFYLIFDQKNP--------------- 66 (261)
T ss_pred ceeeeCCCCCcHHHHHHHHHHHHcCCCCCC------CCCCCHH-HHHHhcCCCCCEEEecCCccc---------------
Confidence 347778899999999999999887654322 2222222 2223222 4554433111110
Q ss_pred CCCCCEEEecHHHHHHHHHHh----hhhcCccEEEEccccccCC-cchHHHHHHhcCCCCcEEEEeccCCCCChHHhhhh
Q 004880 255 GPKFPIVVTSYEVALSDARKY----LRHYNWKYLVVDEGHRLKN-PKCKLLKELKYIPIGNKLLLTGTPLQNNLAELWSL 329 (725)
Q Consensus 255 ~~~~~vvItsye~~~~~~~~~----l~~~~~~~vIvDEaH~ikn-~~s~~~~~l~~l~~~~rllLTgTP~~n~~~el~sl 329 (725)
..-+.++.-...+ +...+++++|||+|+++.. ....+.+.+-.-+....++|+++-..+-+.-+.|-
T Consensus 67 --------I~id~ir~l~~~l~~~s~e~~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SR 138 (261)
T PRK05818 67 --------IKKEDALSIINKLNRPSVESNGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSR 138 (261)
T ss_pred --------CCHHHHHHHHHHHccCchhcCCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhh
Confidence 1112222111111 1123589999999999963 33345555555456666667666545555555553
No 494
>CHL00195 ycf46 Ycf46; Provisional
Probab=62.35 E-value=13 Score=42.20 Aligned_cols=35 Identities=20% Similarity=0.178 Sum_probs=25.0
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEEEEcC
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLVIAPL 213 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LIV~P~ 213 (725)
..+.+|.-+.|+|||..|=+++..+ .-|++.+-+.
T Consensus 259 pkGILL~GPpGTGKTllAkaiA~e~-----~~~~~~l~~~ 293 (489)
T CHL00195 259 PRGLLLVGIQGTGKSLTAKAIANDW-----QLPLLRLDVG 293 (489)
T ss_pred CceEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEEhH
Confidence 4567899999999998887776653 2356666553
No 495
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=62.23 E-value=15 Score=39.99 Aligned_cols=37 Identities=14% Similarity=0.170 Sum_probs=27.0
Q ss_pred CCCCeEEEcCCCCcHHHHHHHHHHHHHhCCCCCCcEE
Q 004880 173 NGLNGILADQMGLGKTIQTIAFLAHLKGNGLHGPYLV 209 (725)
Q Consensus 173 ~~~~~ILademGlGKT~qaiali~~l~~~~~~~~~LI 209 (725)
.++..+++-++|+|||...-+++.++........++.
T Consensus 148 ~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 148 AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 3456789999999999999888888876433333333
No 496
>PHA00350 putative assembly protein
Probab=61.99 E-value=24 Score=38.66 Aligned_cols=24 Identities=8% Similarity=0.212 Sum_probs=15.9
Q ss_pred EEEcCCCCcHHHHHHHH-HHHHHhC
Q 004880 178 ILADQMGLGKTIQTIAF-LAHLKGN 201 (725)
Q Consensus 178 ILademGlGKT~qaial-i~~l~~~ 201 (725)
++---.|+|||.-|+.. +......
T Consensus 5 l~tG~pGSGKT~~aV~~~i~palk~ 29 (399)
T PHA00350 5 AIVGRPGSYKSYEAVVYHIIPALKD 29 (399)
T ss_pred EEecCCCCchhHHHHHHHHHHHHHC
Confidence 34456899999999873 3333344
No 497
>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=61.36 E-value=11 Score=39.21 Aligned_cols=97 Identities=19% Similarity=0.238 Sum_probs=55.9
Q ss_pred CCeEEEcCCCCcHHHHHHHHHHHHHhC----CCCCCcEEEEcCc-cH-----HHHHHHHHHh--C--CCceEEEEeCChh
Q 004880 175 LNGILADQMGLGKTIQTIAFLAHLKGN----GLHGPYLVIAPLS-TL-----SNWVNEISRF--V--PSVSAIIYHGSKK 240 (725)
Q Consensus 175 ~~~ILademGlGKT~qaiali~~l~~~----~~~~~~LIV~P~s-ll-----~~W~~E~~~~--~--p~~~v~~~~g~~~ 240 (725)
.=|++.-++|+||+- +++.++.. .....+.+|+|.. ++ .-|..++..= . |+..++.-.|+
T Consensus 88 ~I~~VYGPTG~GKSq----LlRNLis~~lI~P~PETVfFItP~~~mIpp~E~~aW~~Ql~EgNY~~~~~gTi~P~t~t-- 161 (369)
T PF02456_consen 88 FIGVVYGPTGSGKSQ----LLRNLISCQLIQPPPETVFFITPQKDMIPPQEITAWETQLCEGNYDCGPDGTIVPQTGT-- 161 (369)
T ss_pred eEEEEECCCCCCHHH----HHHHhhhcCcccCCCCceEEECCCCCCCCHHHHHHHHHHHHhcCCCCCCCCeecccccc--
Confidence 346889999999994 45555543 3345689999943 43 4488877542 1 11112221111
Q ss_pred hHHHHHHhcCCCCCCCCCCEEEecHHHHHHHH-------HHh---hhhcCccEEEEcccccc
Q 004880 241 ERDEIRRKHMPRAIGPKFPIVVTSYEVALSDA-------RKY---LRHYNWKYLVVDEGHRL 292 (725)
Q Consensus 241 ~r~~~~~~~~~~~~~~~~~vvItsye~~~~~~-------~~~---l~~~~~~~vIvDEaH~i 292 (725)
-..++|-+||+-+..+. .+. ....+.-.||+||+=.-
T Consensus 162 ---------------~~P~Fv~msy~e~t~~~NldI~~p~NiF~~Aa~~GPiaIImDECMe~ 208 (369)
T PF02456_consen 162 ---------------FRPKFVEMSYDEATSPENLDITNPNNIFAQAAKKGPIAIIMDECMEK 208 (369)
T ss_pred ---------------ccccceeecHhhhCCccccCCCCchHHHHHHHhcCCEEEEhHHHHHH
Confidence 13456778887765542 111 12345678999998643
No 498
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=60.15 E-value=21 Score=38.16 Aligned_cols=26 Identities=23% Similarity=0.194 Sum_probs=21.5
Q ss_pred cCCCCeEEEcCCCCcHHHHHHHHHHH
Q 004880 172 QNGLNGILADQMGLGKTIQTIAFLAH 197 (725)
Q Consensus 172 ~~~~~~ILademGlGKT~qaiali~~ 197 (725)
....|.+|.-+.|+|||+.|=|.+.+
T Consensus 183 ~PPKGVLLYGPPGTGKTLLAkAVA~~ 208 (406)
T COG1222 183 DPPKGVLLYGPPGTGKTLLAKAVANQ 208 (406)
T ss_pred CCCCceEeeCCCCCcHHHHHHHHHhc
Confidence 56788999999999999877776654
No 499
>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=59.71 E-value=47 Score=27.88 Aligned_cols=46 Identities=13% Similarity=0.096 Sum_probs=34.6
Q ss_pred CCcEEEEcc------chhHHHHHHHHHhhcCceEEEEeCCCCHHHHHHHHHH
Q 004880 496 NHKVLVFSQ------WTKILDIMEYYFNEKGYEVCRIDGSVRLDERKRQIQD 541 (725)
Q Consensus 496 ~~kvlIFsq------~~~~ld~l~~~L~~~g~~~~~l~G~~~~~~R~~~i~~ 541 (725)
+++|+||+. +......+.++|...|++|..++=....+.|..+.+.
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 578999986 5667888999999999999998865555445544443
No 500
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=59.64 E-value=27 Score=34.58 Aligned_cols=25 Identities=28% Similarity=0.298 Sum_probs=18.5
Q ss_pred CCCeEEEcCCCCcHHHHHHHHHHHH
Q 004880 174 GLNGILADQMGLGKTIQTIAFLAHL 198 (725)
Q Consensus 174 ~~~~ILademGlGKT~qaiali~~l 198 (725)
....+|.-+-|+|||-..-.++..+
T Consensus 20 ~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 20 SQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred CcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 3556888999999997665555554
Done!