Query 002135
Match_columns 961
No_of_seqs 591 out of 3794
Neff 7.6
Searched_HMMs 46136
Date Thu Mar 28 17:18:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002135.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002135hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4150 Predicted ATP-dependen 100.0 8E-127 2E-131 1042.1 38.4 876 13-957 19-954 (1034)
2 TIGR03817 DECH_helic helicase/ 100.0 2E-122 5E-127 1125.7 76.0 688 220-958 1-689 (742)
3 COG1205 Distinct helicase fami 100.0 4.6E-91 1E-95 852.3 43.8 710 204-958 19-739 (851)
4 COG1201 Lhr Lhr-like helicases 100.0 1.3E-60 2.9E-65 568.2 49.4 492 239-802 7-528 (814)
5 PRK13767 ATP-dependent helicas 100.0 6.3E-57 1.4E-61 561.0 55.8 505 238-802 16-573 (876)
6 PRK09751 putative ATP-dependen 100.0 1.3E-53 2.8E-58 537.2 49.0 484 275-801 1-564 (1490)
7 PTZ00110 helicase; Provisional 100.0 2.5E-52 5.4E-57 496.9 41.5 388 183-640 84-484 (545)
8 KOG0330 ATP-dependent RNA heli 100.0 1.2E-52 2.7E-57 446.6 31.9 381 230-681 60-446 (476)
9 KOG0331 ATP-dependent RNA heli 100.0 2.6E-52 5.5E-57 473.3 29.7 346 232-639 92-447 (519)
10 PRK01297 ATP-dependent RNA hel 100.0 5E-51 1.1E-55 481.2 39.3 356 231-659 87-459 (475)
11 PLN00206 DEAD-box ATP-dependen 100.0 8.6E-51 1.9E-55 482.3 39.3 380 190-639 82-474 (518)
12 PRK04837 ATP-dependent RNA hel 100.0 5.7E-49 1.2E-53 457.6 36.9 360 230-660 7-380 (423)
13 PRK04537 ATP-dependent RNA hel 100.0 1.9E-48 4.2E-53 465.1 38.9 361 231-659 9-381 (572)
14 PRK11776 ATP-dependent RNA hel 100.0 3.7E-48 8E-53 455.5 39.9 360 231-660 4-367 (460)
15 PRK10590 ATP-dependent RNA hel 100.0 5E-48 1.1E-52 453.0 39.3 358 232-662 2-372 (456)
16 KOG0333 U5 snRNP-like RNA heli 100.0 2.8E-48 6E-53 425.6 31.5 364 222-644 236-628 (673)
17 COG0513 SrmB Superfamily II DN 100.0 1.2E-47 2.7E-52 452.6 39.1 357 231-659 29-398 (513)
18 KOG0336 ATP-dependent RNA heli 100.0 6.9E-49 1.5E-53 417.9 23.3 396 175-640 159-572 (629)
19 PRK11634 ATP-dependent RNA hel 100.0 3.7E-47 8E-52 456.5 41.2 363 231-664 6-374 (629)
20 PRK11192 ATP-dependent RNA hel 100.0 8.1E-47 1.8E-51 441.2 40.4 358 232-660 2-370 (434)
21 KOG0340 ATP-dependent RNA heli 100.0 9.2E-48 2E-52 405.0 29.0 399 230-696 6-413 (442)
22 PRK02362 ski2-like helicase; P 100.0 1.4E-46 3.1E-51 464.1 42.6 426 232-715 2-485 (737)
23 PTZ00424 helicase 45; Provisio 100.0 8.5E-46 1.8E-50 428.6 36.9 363 231-663 28-395 (401)
24 KOG0338 ATP-dependent RNA heli 100.0 9E-47 1.9E-51 412.0 26.8 351 231-649 181-540 (691)
25 KOG0341 DEAD-box protein abstr 100.0 1.1E-47 2.5E-52 406.1 18.8 411 142-641 104-529 (610)
26 KOG0345 ATP-dependent RNA heli 100.0 1.2E-45 2.7E-50 401.1 35.0 346 231-639 4-363 (567)
27 KOG0328 Predicted ATP-dependen 100.0 1E-46 2.2E-51 385.6 24.2 365 230-664 26-395 (400)
28 KOG0342 ATP-dependent RNA heli 100.0 8.1E-46 1.8E-50 405.7 31.2 380 232-677 83-469 (543)
29 KOG0348 ATP-dependent RNA heli 100.0 6.2E-46 1.3E-50 407.7 28.7 400 223-651 128-563 (708)
30 PRK00254 ski2-like helicase; P 100.0 1.3E-44 2.8E-49 445.7 41.9 419 233-714 3-474 (720)
31 PLN03137 ATP-dependent DNA hel 100.0 7.1E-45 1.5E-49 440.6 36.8 344 230-639 434-786 (1195)
32 KOG0339 ATP-dependent RNA heli 100.0 2E-45 4.4E-50 400.6 27.1 443 128-640 118-575 (731)
33 TIGR00614 recQ_fam ATP-depende 100.0 9.2E-44 2E-48 418.3 37.3 322 250-640 6-333 (470)
34 KOG0343 RNA Helicase [RNA proc 100.0 1.4E-44 3E-49 398.0 27.4 387 228-683 66-463 (758)
35 KOG0326 ATP-dependent RNA heli 100.0 1.2E-44 2.5E-49 375.8 20.5 364 227-663 81-450 (459)
36 PRK01172 ski2-like helicase; P 100.0 1.2E-42 2.6E-47 426.3 42.1 416 233-713 3-462 (674)
37 KOG0335 ATP-dependent RNA heli 100.0 6.1E-44 1.3E-48 398.4 24.1 355 222-638 65-442 (482)
38 PRK11057 ATP-dependent DNA hel 100.0 6.3E-42 1.4E-46 413.1 38.4 325 242-639 11-342 (607)
39 TIGR01389 recQ ATP-dependent D 100.0 7.3E-42 1.6E-46 413.4 36.4 321 246-639 3-330 (591)
40 COG0514 RecQ Superfamily II DN 100.0 3.2E-42 7E-47 398.0 31.3 325 246-641 7-338 (590)
41 KOG0346 RNA helicase [RNA proc 100.0 9.9E-43 2.1E-47 375.2 24.2 359 231-654 19-422 (569)
42 KOG0334 RNA helicase [RNA proc 100.0 2.6E-42 5.7E-47 408.6 29.6 398 178-639 314-719 (997)
43 KOG0347 RNA helicase [RNA proc 100.0 1.7E-41 3.6E-46 373.8 25.6 356 228-641 178-571 (731)
44 COG1202 Superfamily II helicas 100.0 1.5E-40 3.2E-45 367.6 29.7 412 233-715 196-637 (830)
45 KOG0332 ATP-dependent RNA heli 100.0 3.2E-40 6.8E-45 349.8 25.2 371 231-673 90-473 (477)
46 KOG0350 DEAD-box ATP-dependent 100.0 9.4E-40 2E-44 357.2 28.2 362 239-650 143-549 (620)
47 PRK10917 ATP-dependent DNA hel 100.0 4.8E-37 1E-41 374.5 39.5 315 246-638 253-587 (681)
48 COG1204 Superfamily II helicas 100.0 5.3E-38 1.1E-42 380.3 29.6 358 240-647 16-415 (766)
49 TIGR00580 mfd transcription-re 100.0 3.7E-37 7.9E-42 380.2 37.5 318 242-639 438-769 (926)
50 KOG0327 Translation initiation 100.0 1.7E-38 3.6E-43 340.6 21.4 360 232-664 27-392 (397)
51 TIGR00643 recG ATP-dependent D 100.0 3.1E-36 6.8E-41 365.2 39.4 320 244-638 225-564 (630)
52 KOG0344 ATP-dependent RNA heli 100.0 1.8E-37 3.9E-42 347.9 24.1 371 221-653 122-506 (593)
53 KOG4284 DEAD box protein [Tran 100.0 9E-38 1.9E-42 348.6 21.4 358 223-642 17-381 (980)
54 KOG0337 ATP-dependent RNA heli 100.0 8.2E-38 1.8E-42 336.0 18.9 360 230-659 20-385 (529)
55 PRK10689 transcription-repair 100.0 3.9E-35 8.5E-40 369.4 38.1 316 244-639 590-918 (1147)
56 KOG0352 ATP-dependent DNA heli 100.0 1.7E-36 3.8E-41 325.1 21.0 339 242-644 5-366 (641)
57 TIGR02621 cas3_GSU0051 CRISPR- 100.0 4.2E-35 9.1E-40 352.1 33.1 333 251-637 12-388 (844)
58 COG1111 MPH1 ERCC4-like helica 100.0 1.7E-34 3.8E-39 319.4 30.4 360 253-647 13-488 (542)
59 KOG0351 ATP-dependent DNA heli 100.0 3.7E-35 7.9E-40 357.4 26.7 334 242-640 250-592 (941)
60 KOG0952 DNA/RNA helicase MER3/ 100.0 3.2E-34 6.9E-39 336.2 31.5 352 251-645 106-496 (1230)
61 TIGR01970 DEAH_box_HrpB ATP-de 100.0 6.9E-34 1.5E-38 347.9 33.4 375 258-715 5-401 (819)
62 TIGR01587 cas3_core CRISPR-ass 100.0 6.7E-34 1.5E-38 324.3 31.2 299 272-630 1-322 (358)
63 PHA02653 RNA helicase NPH-II; 100.0 1.4E-33 2.9E-38 337.9 32.9 319 258-640 167-514 (675)
64 TIGR03158 cas3_cyano CRISPR-as 100.0 1.7E-33 3.7E-38 319.3 31.6 320 259-625 1-357 (357)
65 PRK11664 ATP-dependent RNA hel 100.0 6.2E-34 1.4E-38 349.2 29.8 379 257-716 7-405 (812)
66 KOG0353 ATP-dependent DNA heli 100.0 6E-34 1.3E-38 300.9 22.9 347 230-639 68-466 (695)
67 PHA02558 uvsW UvsW helicase; P 100.0 1.6E-32 3.4E-37 324.9 34.5 328 254-637 113-449 (501)
68 PRK14701 reverse gyrase; Provi 100.0 1.9E-31 4.1E-36 343.1 34.1 320 242-634 66-450 (1638)
69 PRK13766 Hef nuclease; Provisi 100.0 7E-31 1.5E-35 328.0 35.9 351 254-647 14-487 (773)
70 KOG0354 DEAD-box like helicase 100.0 2.1E-31 4.6E-36 311.1 28.2 351 253-638 60-527 (746)
71 PRK09401 reverse gyrase; Revie 100.0 2.6E-30 5.6E-35 326.6 33.4 311 244-627 69-431 (1176)
72 PRK09200 preprotein translocas 100.0 5.9E-30 1.3E-34 307.9 31.9 328 250-639 74-540 (790)
73 PRK12898 secA preprotein trans 100.0 7.7E-30 1.7E-34 301.0 31.9 344 250-639 99-585 (656)
74 PRK11131 ATP-dependent RNA hel 100.0 4.2E-30 9.1E-35 319.7 30.9 374 257-713 76-474 (1294)
75 TIGR03714 secA2 accessory Sec 100.0 1.5E-29 3.3E-34 301.6 31.0 327 251-639 67-536 (762)
76 KOG0947 Cytoplasmic exosomal R 100.0 1.1E-29 2.5E-34 294.6 25.8 346 249-640 292-723 (1248)
77 KOG0329 ATP-dependent RNA heli 100.0 8.1E-31 1.8E-35 265.3 14.3 323 232-654 43-368 (387)
78 KOG0948 Nuclear exosomal RNA h 100.0 1.6E-30 3.5E-35 295.1 17.4 341 251-638 126-537 (1041)
79 TIGR01054 rgy reverse gyrase. 100.0 1.5E-28 3.3E-33 311.0 35.7 300 242-612 65-409 (1171)
80 TIGR00963 secA preprotein tran 100.0 1.3E-28 2.9E-33 291.7 32.3 329 250-639 52-516 (745)
81 TIGR00603 rad25 DNA repair hel 100.0 7.5E-29 1.6E-33 295.8 30.2 346 254-654 254-621 (732)
82 KOG0349 Putative DEAD-box RNA 100.0 2.6E-30 5.6E-35 277.6 13.8 313 301-643 287-618 (725)
83 KOG0951 RNA helicase BRR2, DEA 100.0 1.2E-28 2.6E-33 292.0 28.7 360 240-648 296-709 (1674)
84 COG4581 Superfamily II RNA hel 100.0 5.4E-29 1.2E-33 301.4 26.3 351 249-641 114-538 (1041)
85 TIGR01967 DEAH_box_HrpA ATP-de 100.0 1E-28 2.3E-33 308.6 28.7 379 257-714 69-468 (1283)
86 PRK09694 helicase Cas3; Provis 100.0 1.1E-27 2.4E-32 293.4 35.4 335 253-629 284-664 (878)
87 COG1200 RecG RecG-like helicas 100.0 7.5E-27 1.6E-31 269.4 32.2 319 246-639 254-590 (677)
88 PRK05580 primosome assembly pr 100.0 1.3E-26 2.9E-31 282.0 34.4 316 255-638 144-547 (679)
89 KOG0950 DNA polymerase theta/e 100.0 1.2E-27 2.7E-32 280.7 22.1 367 240-642 207-613 (1008)
90 KOG0922 DEAH-box RNA helicase 99.9 3.9E-25 8.5E-30 252.6 28.6 385 255-716 51-456 (674)
91 COG1061 SSL2 DNA or RNA helica 99.9 4.4E-25 9.5E-30 256.8 28.3 314 255-627 36-376 (442)
92 TIGR00595 priA primosomal prot 99.9 3.2E-25 6.9E-30 261.0 26.9 292 274-637 1-378 (505)
93 PRK04914 ATP-dependent helicas 99.9 1.2E-24 2.5E-29 268.4 29.8 351 255-650 152-615 (956)
94 COG1643 HrpA HrpA-like helicas 99.9 3.5E-24 7.5E-29 258.8 28.4 383 256-716 51-454 (845)
95 COG1197 Mfd Transcription-repa 99.9 1E-23 2.2E-28 255.8 32.2 318 242-639 581-912 (1139)
96 PRK12906 secA preprotein trans 99.9 3E-23 6.5E-28 248.4 28.7 349 250-639 76-552 (796)
97 cd00268 DEADc DEAD-box helicas 99.9 2.6E-23 5.6E-28 217.8 22.5 183 233-450 1-188 (203)
98 PRK13104 secA preprotein trans 99.9 2.2E-22 4.8E-27 241.9 30.4 346 250-637 78-584 (896)
99 PRK11448 hsdR type I restricti 99.9 1.6E-22 3.6E-27 254.7 29.2 343 255-628 413-801 (1123)
100 PRK12904 preprotein translocas 99.9 4.3E-22 9.3E-27 239.4 30.7 329 250-638 77-571 (830)
101 KOG0949 Predicted helicase, DE 99.9 1.3E-22 2.9E-27 236.5 23.5 352 255-637 511-1045(1330)
102 COG4098 comFA Superfamily II D 99.9 2.4E-21 5.2E-26 205.0 29.7 298 255-630 97-404 (441)
103 KOG0923 mRNA splicing factor A 99.9 1E-21 2.2E-26 221.8 26.2 393 251-718 261-675 (902)
104 PRK12899 secA preprotein trans 99.9 7.5E-21 1.6E-25 228.2 32.5 152 239-411 68-228 (970)
105 PF00270 DEAD: DEAD/DEAH box h 99.9 7.7E-22 1.7E-26 199.9 17.2 160 257-447 1-163 (169)
106 KOG0924 mRNA splicing factor A 99.9 1.3E-20 2.7E-25 212.9 25.0 388 252-716 353-764 (1042)
107 PRK13107 preprotein translocas 99.9 5.9E-20 1.3E-24 220.4 29.9 346 250-637 78-588 (908)
108 PLN03142 Probable chromatin-re 99.9 2.3E-19 4.9E-24 222.4 32.2 343 255-648 169-607 (1033)
109 KOG0926 DEAH-box RNA helicase 99.9 9.2E-20 2E-24 209.2 26.0 385 261-715 262-770 (1172)
110 COG1203 CRISPR-associated heli 99.9 6.6E-20 1.4E-24 225.6 26.9 325 255-638 195-548 (733)
111 KOG0920 ATP-dependent RNA heli 99.8 1.9E-20 4.2E-25 225.4 19.9 409 255-715 173-612 (924)
112 TIGR01407 dinG_rel DnaQ family 99.8 1.6E-18 3.5E-23 217.5 34.5 96 239-337 230-330 (850)
113 TIGR00631 uvrb excinuclease AB 99.8 3.1E-18 6.6E-23 206.7 33.0 121 510-639 427-552 (655)
114 KOG0925 mRNA splicing factor A 99.8 2.7E-18 5.9E-23 188.4 24.5 401 231-720 25-458 (699)
115 PRK05298 excinuclease ABC subu 99.8 1.9E-17 4.1E-22 201.2 32.2 119 511-638 432-555 (652)
116 COG4096 HsdR Type I site-speci 99.8 4.2E-17 9.2E-22 191.1 23.6 326 255-627 165-525 (875)
117 COG1110 Reverse gyrase [DNA re 99.8 2.8E-16 6E-21 186.5 30.2 293 244-612 71-417 (1187)
118 TIGR00348 hsdR type I site-spe 99.8 5.7E-17 1.2E-21 197.8 25.5 326 256-627 239-634 (667)
119 COG1198 PriA Primosomal protei 99.8 1E-16 2.2E-21 191.8 25.7 318 254-637 197-600 (730)
120 COG0556 UvrB Helicase subunit 99.7 2.9E-16 6.2E-21 175.3 25.3 118 512-638 433-555 (663)
121 PRK12326 preprotein translocas 99.7 9.3E-16 2E-20 180.6 30.5 326 250-637 74-544 (764)
122 PRK12900 secA preprotein trans 99.7 2.7E-16 5.8E-21 189.8 25.8 121 508-638 581-709 (1025)
123 PRK07246 bifunctional ATP-depe 99.7 2.8E-15 6E-20 186.1 34.4 118 512-640 634-783 (820)
124 KOG4150 Predicted ATP-dependen 99.7 1.2E-16 2.6E-21 177.6 15.0 274 49-348 194-467 (1034)
125 smart00487 DEXDc DEAD-like hel 99.7 8.3E-16 1.8E-20 158.2 19.2 174 250-455 3-179 (201)
126 KOG0385 Chromatin remodeling c 99.7 1.8E-15 3.9E-20 174.4 21.1 347 255-652 167-611 (971)
127 PRK13103 secA preprotein trans 99.7 1.3E-14 2.8E-19 174.9 27.0 105 250-362 78-182 (913)
128 PRK08074 bifunctional ATP-depe 99.7 5.6E-14 1.2E-18 177.5 33.0 123 512-640 738-893 (928)
129 TIGR03117 cas_csf4 CRISPR-asso 99.6 1.5E-13 3.2E-18 163.9 33.8 65 260-324 2-70 (636)
130 KOG0951 RNA helicase BRR2, DEA 99.6 2E-15 4.2E-20 181.0 17.7 330 255-649 1143-1502(1674)
131 KOG1123 RNA polymerase II tran 99.6 2.6E-15 5.5E-20 165.5 14.8 343 254-651 301-664 (776)
132 cd00079 HELICc Helicase superf 99.6 5.9E-15 1.3E-19 142.5 12.7 118 510-635 13-130 (131)
133 PRK12903 secA preprotein trans 99.6 2.3E-13 5E-18 162.5 28.6 104 251-362 75-178 (925)
134 CHL00122 secA preprotein trans 99.5 1.4E-12 3.1E-17 156.9 27.9 105 250-362 72-176 (870)
135 COG4889 Predicted helicase [Ge 99.5 9.3E-15 2E-19 169.4 8.9 101 527-627 462-572 (1518)
136 PF00271 Helicase_C: Helicase 99.5 2.3E-14 5.1E-19 126.1 9.0 73 556-628 6-78 (78)
137 PRK11747 dinG ATP-dependent DN 99.5 7.1E-12 1.5E-16 153.9 33.1 119 511-640 520-674 (697)
138 PF04851 ResIII: Type III rest 99.5 9.5E-14 2.1E-18 142.2 11.9 164 255-447 3-183 (184)
139 KOG0384 Chromodomain-helicase 99.5 2.2E-12 4.7E-17 156.0 24.0 342 254-646 369-817 (1373)
140 KOG0953 Mitochondrial RNA heli 99.5 5.8E-13 1.3E-17 149.4 17.3 260 270-630 191-464 (700)
141 KOG0387 Transcription-coupled 99.5 2.2E-12 4.8E-17 150.1 21.4 345 254-642 204-660 (923)
142 cd00046 DEXDc DEAD-like helica 99.4 1.5E-12 3.1E-17 126.1 14.8 143 271-446 1-144 (144)
143 PRK12902 secA preprotein trans 99.4 4.6E-11 1E-15 143.7 29.9 105 250-362 81-185 (939)
144 KOG0390 DNA repair protein, SN 99.4 3.5E-11 7.6E-16 143.9 26.5 338 255-634 238-699 (776)
145 COG1199 DinG Rad3-related DNA 99.4 1.5E-10 3.3E-15 142.8 30.0 71 251-322 11-85 (654)
146 KOG1000 Chromatin remodeling p 99.4 2.8E-10 6E-15 126.5 27.2 350 254-653 197-616 (689)
147 TIGR02562 cas3_yersinia CRISPR 99.4 7.4E-11 1.6E-15 143.9 24.8 97 529-630 760-882 (1110)
148 smart00490 HELICc helicase sup 99.4 3.1E-12 6.7E-17 112.7 9.4 72 557-628 11-82 (82)
149 TIGR00604 rad3 DNA repair heli 99.3 2E-09 4.2E-14 133.4 31.1 74 251-324 6-84 (705)
150 KOG0392 SNF2 family DNA-depend 99.3 3.3E-10 7.1E-15 136.9 21.5 119 525-648 1340-1462(1549)
151 PRK14873 primosome assembly pr 99.2 1.9E-10 4.2E-15 139.2 19.4 301 279-637 169-536 (665)
152 KOG0389 SNF2 family DNA-depend 99.2 2.5E-09 5.4E-14 125.0 22.5 132 508-647 760-895 (941)
153 cd08674 Cdt1_m The middle wing 99.2 4.9E-11 1.1E-15 122.0 7.6 75 8-84 14-88 (185)
154 PF02399 Herpes_ori_bp: Origin 99.2 5.1E-09 1.1E-13 125.3 24.9 305 271-631 50-380 (824)
155 PRK12901 secA preprotein trans 99.1 1.3E-08 2.7E-13 124.2 23.2 120 507-637 610-738 (1112)
156 KOG0921 Dosage compensation co 99.0 5.6E-09 1.2E-13 122.9 15.4 379 260-682 383-817 (1282)
157 KOG0952 DNA/RNA helicase MER3/ 98.9 3.3E-10 7E-15 135.7 2.1 177 256-458 928-1105(1230)
158 PF00176 SNF2_N: SNF2 family N 98.9 8E-09 1.7E-13 114.5 11.3 156 259-447 1-173 (299)
159 smart00488 DEXDc2 DEAD-like he 98.8 2.4E-08 5.3E-13 110.3 12.8 72 251-323 5-84 (289)
160 smart00489 DEXDc3 DEAD-like he 98.8 2.4E-08 5.3E-13 110.3 12.8 72 251-323 5-84 (289)
161 PF08839 CDT1: DNA replication 98.8 1.2E-08 2.7E-13 102.8 6.9 65 14-80 2-66 (163)
162 KOG1002 Nucleotide excision re 98.7 5.4E-07 1.2E-11 100.5 19.2 114 526-647 639-756 (791)
163 KOG0386 Chromatin remodeling c 98.7 4.9E-08 1.1E-12 117.0 11.6 331 254-634 393-830 (1157)
164 KOG0388 SNF2 family DNA-depend 98.7 5.2E-07 1.1E-11 104.2 18.5 119 506-632 1025-1144(1185)
165 PF07652 Flavi_DEAD: Flaviviru 98.7 6.9E-08 1.5E-12 93.4 9.0 136 269-448 3-138 (148)
166 KOG4439 RNA polymerase II tran 98.7 8.7E-07 1.9E-11 102.9 19.1 94 556-649 769-867 (901)
167 COG0553 HepA Superfamily II DN 98.7 1.4E-06 3E-11 111.3 23.0 117 510-634 693-814 (866)
168 COG0610 Type I site-specific r 98.6 3.1E-06 6.8E-11 107.3 25.1 331 271-640 274-651 (962)
169 PF09369 DUF1998: Domain of un 98.6 1.2E-08 2.6E-13 91.3 2.2 57 902-958 1-57 (84)
170 KOG1015 Transcription regulato 98.6 5E-06 1.1E-10 99.0 21.9 121 514-634 1131-1269(1567)
171 COG0653 SecA Preprotein transl 98.5 4.2E-06 9.1E-11 101.4 20.0 104 251-362 77-180 (822)
172 PRK15483 type III restriction- 98.5 2E-06 4.3E-11 106.3 16.8 94 272-365 61-176 (986)
173 PF07517 SecA_DEAD: SecA DEAD- 98.5 2E-06 4.4E-11 93.0 14.9 138 250-411 73-210 (266)
174 PF06862 DUF1253: Protein of u 98.2 0.00034 7.3E-09 80.7 25.6 95 525-627 300-396 (442)
175 PF13086 AAA_11: AAA domain; P 98.0 2.8E-05 6.2E-10 82.5 10.7 67 255-322 1-75 (236)
176 TIGR00596 rad1 DNA repair prot 98.0 9.9E-05 2.1E-09 91.5 16.0 72 347-448 3-74 (814)
177 PF02562 PhoH: PhoH-like prote 98.0 1.1E-05 2.3E-10 84.1 6.2 60 253-312 2-61 (205)
178 PF13872 AAA_34: P-loop contai 97.8 0.00036 7.7E-09 76.1 14.8 188 225-447 16-221 (303)
179 PF12340 DUF3638: Protein of u 97.7 0.00037 8E-09 73.4 12.1 113 251-366 20-145 (229)
180 KOG0391 SNF2 family DNA-depend 97.7 0.00017 3.7E-09 87.9 10.2 125 509-641 1260-1388(1958)
181 PF13307 Helicase_C_2: Helicas 97.6 0.00025 5.4E-09 72.1 8.8 108 524-639 8-149 (167)
182 PF13604 AAA_30: AAA domain; P 97.5 0.00031 6.6E-09 73.4 8.5 63 255-319 1-65 (196)
183 KOG2340 Uncharacterized conser 97.4 0.007 1.5E-07 69.4 18.5 330 254-628 215-652 (698)
184 PRK10536 hypothetical protein; 97.4 0.00076 1.6E-08 72.4 10.2 62 251-312 55-116 (262)
185 PF13245 AAA_19: Part of AAA d 97.4 0.00059 1.3E-08 59.7 7.4 58 263-320 2-62 (76)
186 KOG0391 SNF2 family DNA-depend 97.1 0.0037 7.9E-08 76.9 12.6 127 255-412 615-751 (1958)
187 KOG1802 RNA helicase nonsense 97.1 0.0031 6.7E-08 73.8 10.8 75 248-323 403-477 (935)
188 PF00580 UvrD-helicase: UvrD/R 97.1 0.0014 3E-08 73.1 8.1 102 256-366 1-104 (315)
189 KOG1016 Predicted DNA helicase 96.8 0.028 6.1E-07 66.9 16.1 110 525-634 719-841 (1387)
190 PF09848 DUF2075: Uncharacteri 96.7 0.0038 8.3E-08 71.3 8.1 51 272-322 3-53 (352)
191 COG3587 Restriction endonuclea 96.6 0.012 2.6E-07 71.1 11.3 47 581-627 481-527 (985)
192 PRK12723 flagellar biosynthesi 96.4 0.055 1.2E-06 62.3 14.9 52 269-320 173-228 (388)
193 PRK10875 recD exonuclease V su 96.3 0.04 8.6E-07 67.2 13.9 68 256-323 153-222 (615)
194 COG2805 PilT Tfp pilus assembl 96.1 0.021 4.6E-07 61.9 8.8 64 219-304 94-158 (353)
195 KOG1132 Helicase of the DEAD s 96.1 0.025 5.4E-07 68.8 10.2 39 255-293 21-63 (945)
196 TIGR01447 recD exodeoxyribonuc 96.1 0.058 1.3E-06 65.6 13.5 65 258-322 148-215 (586)
197 PF05970 PIF1: PIF1-like helic 96.0 0.032 6.8E-07 64.1 10.1 60 255-316 1-66 (364)
198 PF13401 AAA_22: AAA domain; P 95.8 0.055 1.2E-06 51.9 9.6 23 269-291 3-25 (131)
199 TIGR01448 recD_rel helicase, p 95.7 0.12 2.7E-06 64.4 14.7 63 250-314 319-382 (720)
200 COG1875 NYN ribonuclease and A 95.5 0.046 1E-06 60.7 8.5 66 250-315 223-291 (436)
201 cd00009 AAA The AAA+ (ATPases 95.5 0.074 1.6E-06 51.2 9.3 18 270-287 19-36 (151)
202 PRK13889 conjugal transfer rel 95.5 0.097 2.1E-06 66.8 12.4 61 251-314 343-404 (988)
203 TIGR02760 TraI_TIGR conjugativ 95.4 0.93 2E-05 62.6 22.3 61 255-317 429-491 (1960)
204 TIGR00376 DNA helicase, putati 95.3 0.051 1.1E-06 66.8 9.0 66 255-322 157-223 (637)
205 PRK10919 ATP-dependent DNA hel 95.3 0.033 7.1E-07 69.1 7.3 83 255-339 2-87 (672)
206 TIGR01075 uvrD DNA helicase II 95.2 0.033 7.1E-07 69.9 7.2 83 254-338 3-87 (715)
207 TIGR02768 TraA_Ti Ti-type conj 95.2 0.16 3.4E-06 63.8 13.0 59 255-315 352-411 (744)
208 PRK11773 uvrD DNA-dependent he 95.1 0.043 9.4E-07 68.8 7.7 84 254-339 8-93 (721)
209 PHA02533 17 large terminase pr 94.8 0.26 5.5E-06 59.3 12.8 73 255-327 59-131 (534)
210 smart00492 HELICc3 helicase su 94.8 0.21 4.6E-06 49.2 10.0 76 562-637 26-135 (141)
211 cd01122 GP4d_helicase GP4d_hel 94.7 0.17 3.7E-06 55.5 10.4 55 267-323 27-81 (271)
212 cd01120 RecA-like_NTPases RecA 94.7 0.62 1.3E-05 45.9 13.4 38 273-312 2-39 (165)
213 PRK10917 ATP-dependent DNA hel 94.7 0.18 3.9E-06 62.8 11.4 84 521-608 306-390 (681)
214 PRK11054 helD DNA helicase IV; 94.6 0.12 2.6E-06 64.1 9.5 75 247-323 188-264 (684)
215 KOG1803 DNA helicase [Replicat 94.5 0.083 1.8E-06 62.2 7.2 66 254-321 184-250 (649)
216 TIGR01074 rep ATP-dependent DN 94.4 0.084 1.8E-06 65.7 7.7 83 255-339 1-86 (664)
217 TIGR01073 pcrA ATP-dependent D 94.3 0.083 1.8E-06 66.4 7.5 84 254-339 3-88 (726)
218 PF05876 Terminase_GpA: Phage 94.3 0.11 2.4E-06 62.8 8.3 138 255-428 16-167 (557)
219 KOG1805 DNA replication helica 94.2 0.11 2.4E-06 64.0 7.9 89 229-323 646-736 (1100)
220 TIGR00595 priA primosomal prot 94.1 0.31 6.7E-06 58.4 11.4 92 510-609 10-101 (505)
221 PF00448 SRP54: SRP54-type pro 94.1 1.2 2.6E-05 46.5 14.3 50 272-323 3-54 (196)
222 PRK08181 transposase; Validate 94.0 0.83 1.8E-05 50.1 13.4 46 267-315 103-148 (269)
223 PF05621 TniB: Bacterial TniB 94.0 0.34 7.4E-06 53.4 10.3 43 399-445 146-188 (302)
224 PRK00149 dnaA chromosomal repl 93.9 0.42 9.1E-06 56.6 12.0 43 271-314 149-191 (450)
225 PF00308 Bac_DnaA: Bacterial d 93.9 0.77 1.7E-05 48.8 12.7 36 272-308 36-72 (219)
226 PRK14873 primosome assembly pr 93.8 0.45 9.7E-06 58.7 12.2 94 509-609 172-265 (665)
227 PRK05580 primosome assembly pr 93.8 0.41 8.8E-06 59.6 12.0 88 514-609 179-266 (679)
228 PRK13826 Dtr system oriT relax 93.7 0.37 8E-06 62.1 11.4 59 255-315 381-440 (1102)
229 TIGR01547 phage_term_2 phage t 93.6 0.36 7.8E-06 56.1 10.4 57 272-328 3-61 (396)
230 smart00382 AAA ATPases associa 93.6 0.15 3.3E-06 48.3 6.2 43 270-314 2-44 (148)
231 TIGR00643 recG ATP-dependent D 93.6 0.38 8.3E-06 59.4 11.1 85 520-608 279-364 (630)
232 smart00491 HELICc2 helicase su 93.5 0.49 1.1E-05 46.7 9.7 68 570-637 31-136 (142)
233 TIGR02785 addA_Gpos recombinat 93.2 0.34 7.4E-06 64.4 10.4 69 255-325 1-70 (1232)
234 PRK06526 transposase; Provisio 93.1 0.83 1.8E-05 49.7 11.5 38 267-306 95-132 (254)
235 TIGR00362 DnaA chromosomal rep 93.0 0.66 1.4E-05 54.1 11.5 36 271-307 137-173 (405)
236 PF13871 Helicase_C_4: Helicas 93.0 0.35 7.5E-06 52.9 8.3 76 575-650 53-138 (278)
237 PRK07952 DNA replication prote 93.0 1.5 3.3E-05 47.3 13.2 34 271-306 100-133 (244)
238 PRK13894 conjugal transfer ATP 92.8 0.3 6.5E-06 54.9 7.8 62 248-312 127-190 (319)
239 COG2256 MGS1 ATPase related to 92.7 0.49 1.1E-05 53.6 9.2 39 400-450 106-144 (436)
240 PRK08903 DnaA regulatory inact 92.7 1 2.2E-05 47.9 11.5 20 269-288 41-60 (227)
241 TIGR02782 TrbB_P P-type conjug 92.6 0.42 9.2E-06 53.3 8.7 63 248-313 111-175 (299)
242 PRK08084 DNA replication initi 92.6 0.89 1.9E-05 48.9 10.8 36 270-307 45-80 (235)
243 TIGR00580 mfd transcription-re 92.4 0.64 1.4E-05 59.5 10.9 83 522-608 497-580 (926)
244 PRK08727 hypothetical protein; 92.4 1 2.2E-05 48.4 11.0 35 271-307 42-76 (233)
245 PRK05703 flhF flagellar biosyn 92.3 1.4 3.1E-05 51.6 12.8 51 269-319 220-272 (424)
246 PRK05707 DNA polymerase III su 92.3 0.65 1.4E-05 52.5 9.7 42 255-296 3-48 (328)
247 COG1110 Reverse gyrase [DNA re 92.1 0.41 8.9E-06 59.7 8.3 70 522-593 122-191 (1187)
248 PRK14087 dnaA chromosomal repl 92.1 0.99 2.2E-05 53.3 11.4 47 271-319 142-189 (450)
249 COG1444 Predicted P-loop ATPas 92.1 1 2.2E-05 55.6 11.6 81 248-329 207-290 (758)
250 PRK08006 replicative DNA helic 92.0 2 4.3E-05 51.1 13.8 44 399-445 337-385 (471)
251 cd01124 KaiC KaiC is a circadi 92.0 1.6 3.5E-05 44.5 11.6 48 273-323 2-49 (187)
252 cd00984 DnaB_C DnaB helicase C 92.0 0.33 7.1E-06 52.2 6.6 39 268-307 11-49 (242)
253 PRK06904 replicative DNA helic 91.9 1.9 4.1E-05 51.3 13.5 147 268-445 219-383 (472)
254 TIGR03877 thermo_KaiC_1 KaiC d 91.9 1.8 3.9E-05 46.5 12.3 52 269-323 20-71 (237)
255 PRK13833 conjugal transfer pro 91.9 0.5 1.1E-05 53.1 8.2 61 250-313 125-187 (323)
256 COG1419 FlhF Flagellar GTP-bin 91.9 3 6.6E-05 47.8 14.2 122 269-448 202-325 (407)
257 PRK06921 hypothetical protein; 91.8 2.6 5.7E-05 46.2 13.6 39 269-308 116-154 (266)
258 PRK11889 flhF flagellar biosyn 91.8 3.6 7.8E-05 47.4 14.7 47 271-319 242-290 (436)
259 KOG0298 DEAD box-containing he 91.5 0.66 1.4E-05 59.0 9.2 158 269-446 373-550 (1394)
260 COG4962 CpaF Flp pilus assembl 91.5 0.28 6.1E-06 54.7 5.4 62 252-316 154-216 (355)
261 PRK14088 dnaA chromosomal repl 91.4 1.6 3.5E-05 51.4 12.2 38 271-308 131-168 (440)
262 PRK08769 DNA polymerase III su 91.3 1.5 3.3E-05 49.2 11.2 44 254-297 3-53 (319)
263 PRK05973 replicative DNA helic 91.2 2.9 6.3E-05 45.0 12.6 54 267-323 61-114 (237)
264 TIGR03881 KaiC_arch_4 KaiC dom 91.2 3.3 7.1E-05 44.1 13.3 38 269-308 19-56 (229)
265 TIGR03600 phage_DnaB phage rep 91.0 1.1 2.5E-05 52.5 10.4 45 399-446 306-354 (421)
266 PLN03025 replication factor C 90.9 2.5 5.4E-05 47.6 12.6 21 271-291 35-55 (319)
267 PRK14086 dnaA chromosomal repl 90.8 1.2 2.6E-05 54.0 10.3 42 272-315 316-358 (617)
268 COG1198 PriA Primosomal protei 90.8 0.63 1.4E-05 57.5 8.1 91 508-606 228-318 (730)
269 TIGR03420 DnaA_homol_Hda DnaA 90.8 1.5 3.3E-05 46.3 10.2 21 269-289 37-57 (226)
270 PRK14964 DNA polymerase III su 90.6 1.4 3E-05 52.4 10.5 23 271-293 36-58 (491)
271 TIGR02881 spore_V_K stage V sp 90.6 1.9 4.1E-05 47.1 11.0 20 271-290 43-62 (261)
272 KOG0701 dsRNA-specific nucleas 90.4 0.18 3.8E-06 66.3 3.0 95 527-628 294-399 (1606)
273 PRK10689 transcription-repair 90.3 1.5 3.2E-05 57.6 11.4 82 522-607 646-728 (1147)
274 PRK06893 DNA replication initi 90.3 1.2 2.6E-05 47.7 8.9 35 271-307 40-74 (229)
275 PRK12377 putative replication 90.2 3.2 6.9E-05 45.0 12.0 44 270-316 101-144 (248)
276 PRK05642 DNA replication initi 90.0 2 4.2E-05 46.2 10.3 35 271-307 46-80 (234)
277 COG3972 Superfamily I DNA and 89.9 0.61 1.3E-05 53.9 6.3 79 244-324 152-230 (660)
278 PRK11823 DNA repair protein Ra 89.9 2.3 5E-05 50.3 11.5 50 269-321 79-128 (446)
279 KOG1513 Nuclear helicase MOP-3 89.9 0.35 7.6E-06 58.3 4.6 172 255-446 264-454 (1300)
280 PHA03368 DNA packaging termina 89.5 3 6.5E-05 50.7 11.9 81 242-327 229-311 (738)
281 PRK14722 flhF flagellar biosyn 89.4 1.1 2.5E-05 51.3 8.2 90 268-362 135-227 (374)
282 PRK08116 hypothetical protein; 89.4 3.8 8.2E-05 45.0 12.1 41 271-314 115-155 (268)
283 KOG1133 Helicase of the DEAD s 89.3 0.45 9.8E-06 56.9 4.9 43 255-297 15-61 (821)
284 PF00004 AAA: ATPase family as 89.3 4.2 9.2E-05 38.5 11.1 15 273-287 1-15 (132)
285 PTZ00112 origin recognition co 89.2 4.4 9.6E-05 50.8 13.3 18 272-289 782-800 (1164)
286 PRK00411 cdc6 cell division co 89.2 3.5 7.5E-05 47.8 12.3 35 271-306 56-91 (394)
287 PRK14974 cell division protein 89.0 6.2 0.00013 44.8 13.7 47 271-319 141-189 (336)
288 PRK05595 replicative DNA helic 88.9 1.7 3.8E-05 51.3 9.7 46 399-447 312-362 (444)
289 PRK08840 replicative DNA helic 88.7 2.6 5.6E-05 50.1 10.8 44 399-445 330-378 (464)
290 PRK09111 DNA polymerase III su 88.6 2.1 4.6E-05 52.3 10.2 23 272-294 48-70 (598)
291 cd01121 Sms Sms (bacterial rad 88.5 4.1 8.9E-05 46.9 12.0 39 269-309 81-119 (372)
292 PRK14723 flhF flagellar biosyn 88.4 5.2 0.00011 50.0 13.4 23 269-291 184-206 (767)
293 PF05127 Helicase_RecD: Helica 88.3 0.26 5.6E-06 50.4 1.8 50 274-324 1-50 (177)
294 COG3973 Superfamily I DNA and 88.2 2.7 5.8E-05 50.1 10.1 84 241-324 191-284 (747)
295 PRK06964 DNA polymerase III su 88.1 2.4 5.1E-05 48.2 9.6 41 256-296 2-47 (342)
296 PRK12323 DNA polymerase III su 88.0 2.7 5.9E-05 51.2 10.4 23 272-294 40-62 (700)
297 PRK12422 chromosomal replicati 87.9 3.4 7.4E-05 48.8 11.2 36 271-308 142-177 (445)
298 COG3421 Uncharacterized protei 87.9 0.59 1.3E-05 55.1 4.5 113 276-412 3-126 (812)
299 PF03354 Terminase_1: Phage Te 87.8 3.2 6.9E-05 49.6 11.0 70 258-327 1-81 (477)
300 TIGR02880 cbbX_cfxQ probable R 87.7 2.9 6.3E-05 46.3 9.8 20 270-289 58-77 (284)
301 COG0593 DnaA ATPase involved i 87.5 3.3 7.2E-05 47.9 10.3 38 271-308 114-151 (408)
302 TIGR03015 pepcterm_ATPase puta 87.3 9.5 0.00021 41.4 13.7 34 256-289 24-62 (269)
303 cd01130 VirB11-like_ATPase Typ 87.3 1.6 3.5E-05 45.0 7.1 32 256-287 10-42 (186)
304 COG2804 PulE Type II secretory 87.2 1.2 2.5E-05 52.3 6.5 41 256-297 242-284 (500)
305 PF03796 DnaB_C: DnaB-like hel 87.2 2.2 4.8E-05 46.4 8.5 147 269-446 18-180 (259)
306 TIGR03499 FlhF flagellar biosy 87.1 2.3 4.9E-05 47.1 8.6 21 269-289 193-213 (282)
307 TIGR02928 orc1/cdc6 family rep 86.9 4.5 9.8E-05 46.2 11.3 18 271-288 41-58 (365)
308 PRK08506 replicative DNA helic 86.9 3.4 7.3E-05 49.3 10.4 144 269-445 191-351 (472)
309 PRK06321 replicative DNA helic 86.8 8 0.00017 46.0 13.4 45 399-446 337-389 (472)
310 PRK10263 DNA translocase FtsK; 86.8 2.9 6.2E-05 54.4 10.1 43 400-445 1142-1184(1355)
311 PRK00771 signal recognition pa 86.7 9.4 0.0002 44.9 13.7 48 271-320 96-145 (437)
312 TIGR01054 rgy reverse gyrase. 86.7 3 6.5E-05 55.0 10.6 85 522-607 118-205 (1171)
313 PRK05748 replicative DNA helic 86.7 3 6.4E-05 49.4 9.8 148 268-446 201-365 (448)
314 PF13481 AAA_25: AAA domain; P 86.7 9.6 0.00021 39.1 12.6 55 269-324 31-93 (193)
315 PRK14962 DNA polymerase III su 86.7 5 0.00011 47.8 11.6 20 272-291 38-57 (472)
316 PRK07004 replicative DNA helic 86.5 2.2 4.8E-05 50.6 8.6 44 399-445 325-373 (460)
317 PRK07003 DNA polymerase III su 86.5 6.6 0.00014 48.8 12.5 22 272-293 40-61 (830)
318 PRK14958 DNA polymerase III su 86.4 3.9 8.4E-05 49.2 10.6 22 272-293 40-61 (509)
319 PRK14963 DNA polymerase III su 86.4 3.6 7.9E-05 49.3 10.3 20 273-292 39-58 (504)
320 PRK06871 DNA polymerase III su 86.3 3.4 7.3E-05 46.6 9.5 41 256-296 3-50 (325)
321 TIGR02525 plasmid_TraJ plasmid 86.1 2.3 5E-05 48.9 8.2 67 220-307 119-186 (372)
322 PF13173 AAA_14: AAA domain 86.0 3.5 7.7E-05 39.6 8.3 19 269-287 1-19 (128)
323 PRK14956 DNA polymerase III su 86.0 4.3 9.3E-05 48.0 10.4 22 272-293 42-63 (484)
324 PRK06067 flagellar accessory p 85.9 12 0.00025 40.1 13.1 51 269-322 24-74 (234)
325 PRK09165 replicative DNA helic 85.9 3 6.4E-05 50.0 9.3 44 399-445 342-392 (497)
326 PRK13851 type IV secretion sys 85.9 1.1 2.3E-05 51.0 5.2 44 267-313 159-202 (344)
327 PF01695 IstB_IS21: IstB-like 85.8 1.9 4E-05 44.3 6.6 46 267-315 44-89 (178)
328 TIGR00665 DnaB replicative DNA 85.8 4 8.6E-05 48.1 10.3 45 399-446 306-355 (434)
329 COG1200 RecG RecG-like helicas 85.7 4.9 0.00011 48.8 10.8 86 519-608 305-391 (677)
330 PRK07764 DNA polymerase III su 85.7 3.5 7.6E-05 52.3 10.1 24 272-295 39-62 (824)
331 TIGR03878 thermo_KaiC_2 KaiC d 85.7 17 0.00036 39.7 14.3 37 269-307 35-71 (259)
332 COG1474 CDC6 Cdc6-related prot 85.6 3.8 8.3E-05 47.1 9.6 25 271-296 43-67 (366)
333 KOG1001 Helicase-like transcri 85.6 1.7 3.7E-05 53.6 7.1 122 258-412 135-268 (674)
334 PRK08699 DNA polymerase III su 85.4 4.5 9.7E-05 45.8 9.9 41 256-296 2-47 (325)
335 PRK14721 flhF flagellar biosyn 85.4 7.7 0.00017 45.3 12.0 51 268-318 189-241 (420)
336 PRK14954 DNA polymerase III su 85.3 3.4 7.5E-05 50.7 9.6 23 272-294 40-62 (620)
337 PRK12727 flagellar biosynthesi 85.2 10 0.00023 45.3 13.0 21 269-289 349-369 (559)
338 PRK04328 hypothetical protein; 85.2 11 0.00023 40.9 12.5 52 269-323 22-73 (249)
339 PRK07994 DNA polymerase III su 85.1 6.5 0.00014 48.4 11.7 21 273-293 41-61 (647)
340 PF13177 DNA_pol3_delta2: DNA 85.1 5.7 0.00012 40.0 9.6 24 272-295 21-44 (162)
341 PHA03333 putative ATPase subun 85.0 14 0.00029 45.4 14.0 66 262-328 179-244 (752)
342 PRK13341 recombination factor 84.8 4.9 0.00011 50.3 10.7 19 271-289 53-71 (725)
343 PRK08760 replicative DNA helic 84.8 4.5 9.7E-05 48.3 10.0 145 269-445 228-388 (476)
344 KOG0991 Replication factor C, 84.7 1.1 2.4E-05 47.1 4.2 21 271-291 49-69 (333)
345 COG1219 ClpX ATP-dependent pro 84.7 0.63 1.4E-05 51.1 2.5 21 268-288 95-115 (408)
346 PRK13342 recombination factor 84.7 4.8 0.0001 47.1 10.2 19 271-289 37-55 (413)
347 PRK08691 DNA polymerase III su 84.7 4.7 0.0001 49.7 10.2 22 272-293 40-61 (709)
348 PRK14960 DNA polymerase III su 84.5 3.7 8E-05 50.3 9.0 22 272-293 39-60 (702)
349 PRK14955 DNA polymerase III su 84.3 4.1 8.9E-05 47.4 9.3 23 272-294 40-62 (397)
350 TIGR02524 dot_icm_DotB Dot/Icm 83.9 2.6 5.5E-05 48.3 7.2 56 219-296 103-159 (358)
351 cd01129 PulE-GspE PulE/GspE Th 83.8 2.2 4.8E-05 46.7 6.5 50 256-307 64-115 (264)
352 PRK05636 replicative DNA helic 83.7 4.6 0.0001 48.4 9.5 44 399-445 376-424 (505)
353 PF03969 AFG1_ATPase: AFG1-lik 83.6 14 0.00031 42.4 13.0 49 270-323 62-110 (362)
354 PRK14961 DNA polymerase III su 83.6 5.7 0.00012 45.6 10.0 19 273-291 41-59 (363)
355 PF02534 T4SS-DNA_transf: Type 83.5 0.87 1.9E-05 54.2 3.3 48 271-322 45-92 (469)
356 PRK06090 DNA polymerase III su 83.3 5.4 0.00012 44.9 9.4 43 255-297 3-52 (319)
357 PRK14952 DNA polymerase III su 83.2 7.2 0.00016 47.6 11.0 21 273-293 38-58 (584)
358 TIGR01425 SRP54_euk signal rec 83.2 22 0.00048 41.7 14.5 49 272-322 102-152 (429)
359 PRK14949 DNA polymerase III su 83.1 4.9 0.00011 50.8 9.6 20 273-292 41-60 (944)
360 COG0470 HolB ATPase involved i 83.1 6.4 0.00014 43.9 10.1 28 270-297 23-51 (325)
361 COG5008 PilU Tfp pilus assembl 83.1 0.68 1.5E-05 49.6 1.9 43 223-286 100-143 (375)
362 PRK13900 type IV secretion sys 82.9 1.4 3E-05 50.0 4.5 43 267-312 157-199 (332)
363 KOG0989 Replication factor C, 82.5 3.1 6.8E-05 45.8 6.7 25 270-294 57-81 (346)
364 PRK14701 reverse gyrase; Provi 82.3 6.6 0.00014 53.4 11.0 67 524-592 121-187 (1638)
365 PRK07993 DNA polymerase III su 82.3 4.6 9.9E-05 45.9 8.3 42 255-296 2-50 (334)
366 COG0210 UvrD Superfamily I DNA 82.3 2.6 5.7E-05 52.4 7.1 85 255-341 2-89 (655)
367 TIGR02012 tigrfam_recA protein 82.1 11 0.00024 42.4 11.2 44 269-314 54-97 (321)
368 cd01126 TraG_VirD4 The TraG/Tr 82.1 0.81 1.7E-05 53.0 2.3 47 272-322 1-47 (384)
369 PRK07471 DNA polymerase III su 82.1 9.8 0.00021 43.8 11.0 26 272-297 43-68 (365)
370 PF12846 AAA_10: AAA-like doma 82.1 1.9 4.2E-05 47.3 5.3 43 270-314 1-43 (304)
371 COG3598 RepA RecA-family ATPas 82.0 16 0.00034 40.7 11.7 150 257-446 75-242 (402)
372 TIGR03880 KaiC_arch_3 KaiC dom 81.9 12 0.00025 39.7 10.9 51 269-322 15-65 (224)
373 PRK09112 DNA polymerase III su 81.8 9.7 0.00021 43.5 10.8 21 272-292 47-67 (351)
374 PRK04195 replication factor C 81.8 9 0.0002 45.8 11.1 19 270-288 39-57 (482)
375 PRK06645 DNA polymerase III su 81.8 8.2 0.00018 46.3 10.5 24 271-294 44-67 (507)
376 COG0552 FtsY Signal recognitio 81.6 40 0.00087 37.9 14.9 50 272-323 141-192 (340)
377 PRK14957 DNA polymerase III su 81.5 9.7 0.00021 46.1 11.1 20 273-292 41-60 (546)
378 COG1484 DnaC DNA replication p 81.2 3 6.6E-05 45.4 6.2 49 269-320 104-152 (254)
379 PRK14951 DNA polymerase III su 81.1 8.1 0.00018 47.4 10.4 23 273-295 41-63 (618)
380 PRK07940 DNA polymerase III su 81.0 7.6 0.00016 45.1 9.7 22 271-292 37-58 (394)
381 TIGR02639 ClpA ATP-dependent C 80.6 17 0.00037 45.9 13.4 21 270-290 203-223 (731)
382 PF05729 NACHT: NACHT domain 80.3 13 0.00028 36.5 10.1 43 272-315 2-48 (166)
383 KOG2028 ATPase related to the 80.2 5.9 0.00013 44.5 7.8 47 271-319 163-209 (554)
384 COG1197 Mfd Transcription-repa 80.2 8.9 0.00019 49.4 10.5 83 521-607 639-722 (1139)
385 CHL00095 clpC Clp protease ATP 80.0 17 0.00037 46.5 13.3 38 873-910 739-777 (821)
386 PF06745 KaiC: KaiC; InterPro 80.0 7.1 0.00015 41.4 8.5 52 269-322 18-69 (226)
387 PF00437 T2SE: Type II/IV secr 79.9 1.8 3.9E-05 47.4 4.0 51 260-312 116-167 (270)
388 cd01393 recA_like RecA is a b 79.8 19 0.00041 38.0 11.7 41 270-310 19-63 (226)
389 PRK10416 signal recognition pa 79.7 50 0.0011 37.3 15.4 50 269-320 113-164 (318)
390 PRK09354 recA recombinase A; P 79.7 19 0.0004 41.1 12.0 44 269-314 59-102 (349)
391 COG0513 SrmB Superfamily II DN 79.6 9 0.00019 46.2 10.1 74 528-608 102-181 (513)
392 cd01123 Rad51_DMC1_radA Rad51_ 79.6 13 0.00027 39.6 10.3 40 269-308 18-61 (235)
393 PRK14950 DNA polymerase III su 79.5 8.6 0.00019 47.2 10.0 20 272-291 40-59 (585)
394 PRK11034 clpA ATP-dependent Cl 79.2 11 0.00024 47.5 10.9 20 270-289 207-226 (758)
395 PRK14959 DNA polymerase III su 78.9 12 0.00027 45.7 10.8 24 271-294 39-62 (624)
396 PRK09361 radB DNA repair and r 78.8 17 0.00036 38.6 10.9 37 270-308 23-59 (225)
397 PHA02544 44 clamp loader, smal 78.6 9.2 0.0002 42.8 9.3 16 272-287 44-60 (316)
398 PRK05896 DNA polymerase III su 78.5 12 0.00026 45.6 10.5 24 271-294 39-62 (605)
399 cd01131 PilT Pilus retraction 78.5 2.7 5.9E-05 43.8 4.6 35 273-308 4-38 (198)
400 PRK14969 DNA polymerase III su 78.4 9.4 0.0002 46.2 9.7 22 272-293 40-61 (527)
401 PRK06995 flhF flagellar biosyn 78.3 6.5 0.00014 46.7 8.1 90 270-363 256-347 (484)
402 PRK14712 conjugal transfer nic 78.3 6 0.00013 53.2 8.5 62 255-316 835-900 (1623)
403 PRK13897 type IV secretion sys 78.2 1.6 3.4E-05 53.4 3.1 49 271-323 159-207 (606)
404 TIGR03819 heli_sec_ATPase heli 78.2 4.8 0.0001 45.8 6.8 60 248-312 157-217 (340)
405 COG0630 VirB11 Type IV secreto 78.1 4.3 9.4E-05 45.6 6.3 54 255-311 127-181 (312)
406 PRK06731 flhF flagellar biosyn 78.1 45 0.00098 36.6 14.1 24 269-292 74-97 (270)
407 PRK00440 rfc replication facto 78.0 26 0.00056 39.0 12.7 18 272-289 40-57 (319)
408 PF01637 Arch_ATPase: Archaeal 77.9 10 0.00022 39.8 8.9 39 270-310 20-58 (234)
409 PRK10436 hypothetical protein; 77.7 3.7 8E-05 48.6 5.9 40 256-296 202-243 (462)
410 COG0466 Lon ATP-dependent Lon 77.6 84 0.0018 38.9 16.9 95 269-425 349-445 (782)
411 TIGR01420 pilT_fam pilus retra 77.1 3.4 7.4E-05 47.1 5.2 42 269-311 121-162 (343)
412 PRK10867 signal recognition pa 77.0 9.9 0.00021 44.7 9.1 86 272-363 102-196 (433)
413 KOG0347 RNA helicase [RNA proc 76.8 7.5 0.00016 45.8 7.7 63 521-591 257-321 (731)
414 TIGR02655 circ_KaiC circadian 76.6 28 0.00061 41.7 13.0 60 261-323 249-313 (484)
415 PRK14965 DNA polymerase III su 76.5 16 0.00034 44.8 11.0 21 272-292 40-60 (576)
416 KOG1133 Helicase of the DEAD s 76.4 79 0.0017 38.8 16.0 121 511-637 614-777 (821)
417 KOG1131 RNA polymerase II tran 76.4 13 0.00028 43.6 9.3 74 251-324 12-91 (755)
418 PRK07133 DNA polymerase III su 76.0 13 0.00028 46.3 10.0 22 272-293 42-63 (725)
419 PRK06835 DNA replication prote 75.9 5.8 0.00013 44.9 6.6 57 255-314 160-224 (329)
420 PRK07773 replicative DNA helic 75.9 18 0.0004 46.6 11.9 45 399-446 328-377 (886)
421 TIGR00416 sms DNA repair prote 75.7 17 0.00036 43.2 10.6 50 269-321 93-142 (454)
422 TIGR00767 rho transcription te 75.6 14 0.0003 42.8 9.5 28 268-296 166-193 (415)
423 TIGR02397 dnaX_nterm DNA polym 75.6 18 0.00039 41.1 10.7 18 272-289 38-55 (355)
424 TIGR00678 holB DNA polymerase 75.5 25 0.00054 36.1 10.8 22 271-292 15-36 (188)
425 PRK05563 DNA polymerase III su 75.5 9.6 0.00021 46.5 8.7 23 271-293 39-61 (559)
426 TIGR02538 type_IV_pilB type IV 74.6 4.8 0.0001 49.1 5.9 45 248-296 295-341 (564)
427 COG4650 RtcR Sigma54-dependent 74.6 36 0.00079 37.2 11.6 42 244-286 178-224 (531)
428 TIGR02640 gas_vesic_GvpN gas v 74.5 2.9 6.2E-05 45.7 3.6 28 262-289 13-40 (262)
429 PRK12726 flagellar biosynthesi 74.5 8 0.00017 44.4 7.1 86 269-363 205-298 (407)
430 TIGR02533 type_II_gspE general 74.5 5.4 0.00012 47.6 6.2 45 248-296 221-267 (486)
431 TIGR00635 ruvB Holliday juncti 74.5 7.5 0.00016 43.2 7.1 18 271-288 31-48 (305)
432 PHA02542 41 41 helicase; Provi 74.3 43 0.00093 40.0 13.5 44 399-445 302-353 (473)
433 PF14617 CMS1: U3-containing 9 74.2 4.4 9.6E-05 43.8 4.9 85 299-409 125-212 (252)
434 PRK09183 transposase/IS protei 74.2 4 8.6E-05 44.6 4.6 45 267-314 99-143 (259)
435 TIGR03754 conj_TOL_TraD conjug 74.1 8.3 0.00018 47.3 7.7 55 270-328 180-234 (643)
436 PRK09401 reverse gyrase; Revie 73.9 18 0.00038 48.0 11.1 83 522-606 120-206 (1176)
437 COG1485 Predicted ATPase [Gene 73.8 44 0.00095 37.9 12.5 108 271-448 66-173 (367)
438 COG1074 RecB ATP-dependent exo 73.6 5.4 0.00012 52.8 6.4 58 269-326 15-75 (1139)
439 PHA00012 I assembly protein 73.6 8.8 0.00019 42.9 7.0 55 400-458 83-140 (361)
440 PRK13850 type IV secretion sys 73.6 2.9 6.3E-05 51.7 3.7 48 271-322 140-187 (670)
441 PF02456 Adeno_IVa2: Adenoviru 73.6 3 6.4E-05 45.9 3.3 40 273-317 90-134 (369)
442 TIGR00064 ftsY signal recognit 73.5 13 0.00027 41.0 8.3 51 270-322 72-124 (272)
443 cd01128 rho_factor Transcripti 73.4 24 0.00052 38.3 10.3 20 267-286 13-32 (249)
444 PRK14948 DNA polymerase III su 73.4 13 0.00028 45.8 9.2 24 271-294 39-62 (620)
445 PF08423 Rad51: Rad51; InterP 73.0 31 0.00067 37.6 11.2 51 262-312 25-84 (256)
446 TIGR03345 VI_ClpV1 type VI sec 72.5 34 0.00073 44.0 12.9 18 271-288 209-226 (852)
447 PRK13764 ATPase; Provisional 71.9 6.4 0.00014 48.0 6.0 42 269-312 256-297 (602)
448 TIGR03743 SXT_TraD conjugative 71.6 6.6 0.00014 48.4 6.1 52 270-323 176-229 (634)
449 PF13555 AAA_29: P-loop contai 71.6 3.1 6.7E-05 34.9 2.3 18 269-286 22-39 (62)
450 PHA00350 putative assembly pro 71.3 10 0.00022 43.9 7.1 25 273-297 4-29 (399)
451 PF04665 Pox_A32: Poxvirus A32 71.2 5.1 0.00011 43.1 4.4 40 267-308 9-49 (241)
452 PF01935 DUF87: Domain of unkn 71.1 5.6 0.00012 42.2 4.8 44 270-314 23-66 (229)
453 TIGR02788 VirB11 P-type DNA tr 70.9 4.4 9.5E-05 45.5 4.1 26 262-287 135-161 (308)
454 COG1435 Tdk Thymidine kinase [ 70.5 20 0.00044 37.1 8.3 38 270-309 4-41 (201)
455 PRK13709 conjugal transfer nic 70.3 13 0.00028 50.9 8.7 61 255-315 967-1031(1747)
456 PRK05800 cobU adenosylcobinami 70.2 51 0.0011 33.5 11.3 47 271-322 2-48 (170)
457 KOG2004 Mitochondrial ATP-depe 70.2 11 0.00024 46.0 7.2 109 255-425 415-533 (906)
458 cd01127 TrwB Bacterial conjuga 70.2 3.4 7.4E-05 48.3 3.1 45 268-314 40-84 (410)
459 KOG0745 Putative ATP-dependent 69.8 3.1 6.8E-05 47.7 2.5 20 269-288 225-244 (564)
460 COG0467 RAD55 RecA-superfamily 69.6 7.1 0.00015 42.5 5.3 52 269-323 22-73 (260)
461 TIGR03346 chaperone_ClpB ATP-d 69.2 33 0.00071 44.2 11.8 18 271-288 195-212 (852)
462 TIGR02760 TraI_TIGR conjugativ 69.1 12 0.00026 52.3 8.3 63 254-316 1018-1084(1960)
463 PRK14953 DNA polymerase III su 69.0 24 0.00052 42.2 9.9 21 273-293 41-61 (486)
464 PRK13876 conjugal transfer cou 68.5 4 8.6E-05 50.5 3.3 49 270-322 144-192 (663)
465 PF10412 TrwB_AAD_bind: Type I 68.3 6.8 0.00015 45.4 5.0 45 268-314 13-57 (386)
466 TIGR00959 ffh signal recogniti 67.9 24 0.00051 41.5 9.3 86 272-363 101-195 (428)
467 PF01078 Mg_chelatase: Magnesi 67.6 4.9 0.00011 42.2 3.3 20 268-287 20-39 (206)
468 cd00268 DEADc DEAD-box helicas 67.5 33 0.00071 35.4 9.6 74 525-606 69-148 (203)
469 PRK13822 conjugal transfer cou 67.5 4.7 0.0001 49.8 3.6 49 270-322 224-272 (641)
470 KOG0741 AAA+-type ATPase [Post 67.5 8.2 0.00018 45.4 5.2 17 271-287 257-273 (744)
471 PRK04296 thymidine kinase; Pro 67.1 7.6 0.00016 40.2 4.7 37 270-308 2-38 (190)
472 TIGR02767 TraG-Ti Ti-type conj 67.0 5.4 0.00012 49.0 4.0 48 271-322 212-259 (623)
473 KOG1806 DEAD box containing he 66.8 8.3 0.00018 48.5 5.4 72 252-323 735-806 (1320)
474 TIGR01243 CDC48 AAA family ATP 66.7 19 0.00042 45.4 9.0 18 270-287 487-504 (733)
475 PF01580 FtsK_SpoIIIE: FtsK/Sp 66.5 8.4 0.00018 40.2 4.9 38 271-308 39-77 (205)
476 PRK13880 conjugal transfer cou 66.4 3.9 8.3E-05 50.6 2.6 43 271-317 176-218 (636)
477 COG1674 FtsK DNA segregation A 66.2 20 0.00043 46.1 9.0 45 399-447 640-684 (858)
478 PRK09519 recA DNA recombinatio 66.1 56 0.0012 41.3 12.5 44 269-314 59-102 (790)
479 PF12775 AAA_7: P-loop contain 66.1 3.8 8.2E-05 45.1 2.3 21 267-287 30-50 (272)
480 PRK07399 DNA polymerase III su 65.9 42 0.00091 37.8 10.6 23 271-293 27-49 (314)
481 TIGR01243 CDC48 AAA family ATP 65.9 34 0.00074 43.3 11.0 19 269-287 211-229 (733)
482 cd00561 CobA_CobO_BtuR ATP:cor 65.7 65 0.0014 32.5 10.7 36 273-310 5-40 (159)
483 PRK10865 protein disaggregatio 65.6 40 0.00087 43.4 11.6 111 261-443 188-314 (857)
484 TIGR02784 addA_alphas double-s 65.6 14 0.0003 49.2 7.7 56 270-325 10-66 (1141)
485 PLN02165 adenylate isopentenyl 65.2 2.8 6.1E-05 47.2 1.0 30 259-288 32-61 (334)
486 PRK08533 flagellar accessory p 65.0 11 0.00024 40.3 5.6 39 268-308 22-60 (230)
487 PRK06305 DNA polymerase III su 64.8 36 0.00079 40.3 10.3 24 271-294 40-63 (451)
488 PRK08451 DNA polymerase III su 64.7 29 0.00063 41.9 9.4 21 273-293 39-59 (535)
489 KOG0736 Peroxisome assembly fa 64.7 48 0.001 41.2 11.0 18 270-287 705-722 (953)
490 TIGR02237 recomb_radB DNA repa 64.6 7.7 0.00017 40.5 4.2 39 269-309 11-49 (209)
491 cd00544 CobU Adenosylcobinamid 64.1 9 0.0002 39.0 4.4 45 273-322 2-46 (169)
492 TIGR00602 rad24 checkpoint pro 64.0 20 0.00044 44.1 8.1 19 271-289 111-129 (637)
493 COG4626 Phage terminase-like p 63.9 99 0.0021 37.2 13.3 72 255-326 61-144 (546)
494 cd01125 repA Hexameric Replica 63.6 84 0.0018 33.6 12.1 56 271-327 2-67 (239)
495 PRK09376 rho transcription ter 63.6 28 0.0006 40.3 8.5 27 269-296 168-194 (416)
496 CHL00176 ftsH cell division pr 63.4 31 0.00066 42.8 9.5 19 270-288 216-234 (638)
497 PHA02244 ATPase-like protein 63.1 8 0.00017 44.2 4.1 23 265-287 114-136 (383)
498 PLN03187 meiotic recombination 63.0 57 0.0012 37.2 10.9 40 270-309 126-169 (344)
499 COG4608 AppF ABC-type oligopep 62.9 24 0.00052 38.5 7.5 41 400-446 129-170 (268)
500 PRK14971 DNA polymerase III su 62.6 37 0.00081 41.9 10.1 23 272-294 41-63 (614)
No 1
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=8.3e-127 Score=1042.11 Aligned_cols=876 Identities=35% Similarity=0.496 Sum_probs=749.3
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHhhcccee-chhhhHHHHHHhhhcCCccchhhhhhhhhhcCCceEEeecCccccCCC--
Q 002135 13 CPVWLKKIVEAFAFVSIFSAHLQLRREKV-ILSHVKGALNQLEKFGVRVGIEDIENLAVLCPKVVQFANDDMESKNHD-- 89 (961)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 89 (961)
=-..|....|+|+.+|+.|||+.||||+. ||+++..+++-.+ +|-++-+|+|.|.+++|+.+.|.|+|++++.++
T Consensus 19 ~~~~~~~~~Q~~~~~~~~~~~~~~~~~~~P~~~s~~~~~~~~~--~~~~~~~~~A~i~~~~~~~~~~~~~~~~~~~~~~K 96 (1034)
T KOG4150|consen 19 SINGESTTVQVSSDGTIRDLKKALKSCFPPASSSSNFHLYIKG--EKLKLDTRVAAITINDGDILGLFPFKKKELRQTPK 96 (1034)
T ss_pred cccccceeEEEEecccHHHHHHHHHhhCCCccccccceeeeec--hhhhhhhhhhhhhccCCCeEEEeecchhhhccCCC
Confidence 34578889999999999999999999999 6999999999554 789999999999999999999999999999877
Q ss_pred -------------CcEE-EEecccccc---c----ccccccCCCc------------cccCHHHHHHHHHHhhHhhhhhH
Q 002135 90 -------------DSIV-IINVSTEER---D----KVEDNLGSGQ------------KAISLSKIFNAMKKRERSFKTNL 136 (961)
Q Consensus 90 -------------~~~~-~~~~~~~~~---~----~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~ 136 (961)
|+|+ +.+...|.. + .+++.+|.-+ +-...++|.+++++|+..+...+
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~~~~~~~~~~~S~~~~~~K~~~TE~~~~~~~~R~~L~~~~~ 176 (1034)
T KOG4150|consen 97 PDLSKPSSLSSRTSTMKDENAKRAEDHCVGEKRKRDEEACPYGFFNDDLESECKDAFKGQNTEKLAEVLKSRNCLTSPGS 176 (1034)
T ss_pred ccccCCcccccccchhhhhhcchhhhhhhhhhhhhhHhhCCcccccchhhhHHHHhhccccHHHHHHHHhhhhhhcCCcc
Confidence 3555 333332211 1 5666666311 22458999999999999998877
Q ss_pred HHHHHHHHHHHhhhhcCcCHHHHHHHHh----hccCCCCc----hhhhhhhccCCCCCCCcccccccccccCCChHHHHH
Q 002135 137 WEAVNLLMCKLQKRVMSLSVEDLLTYVK----ERRTDVRG----NEVKRARRSQSSTSSSHSFQRRCSDKSQLLPLEMVE 208 (961)
Q Consensus 137 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 208 (961)
. ++|-+....... +..|++..+. ..+.+.++ ..+|.....+.-+..++ ..+-..-++|++
T Consensus 177 ~----~~~~~~~~s~~~-P~~E~~~~~~~~~~R~R~~~~~~~s~~~~K~~s~~~~~~NY~N-------~~VI~~~~~M~E 244 (1034)
T KOG4150|consen 177 T----KCLMSWDSSSSC-PDWESLSRLAMSGVRVRIQDVKNLSVICPKVITDDYEAVNYEN-------AIVIADYLEMDE 244 (1034)
T ss_pred h----hheeecccccCC-ccHHHHHHHHhhcCceeecccchhhhhcccccccccccccccC-------ceeeechHhHhh
Confidence 6 444321222222 4445453332 22211111 23444444444333322 111222367776
Q ss_pred HHHccCCCCCceEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHH
Q 002135 209 HLRKGIGSQGQMVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 209 ~lr~~~~~~~~iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~ 288 (961)
++...+..++-+...+|.|.++|..+. -+.+.+.+.++..+..+.||.++++.+.+|+++++...|.+||++||+
T Consensus 245 --KS~~~~~~~~K~~~~~~~R~A~~K~~~---~E~~~~~~~~~~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~ 319 (1034)
T KOG4150|consen 245 --KSGRKKIPLAKLFSAMKKREASFKSDF---WESIRSLLNKNTGESGIAISLELLKFASEGRADGGNEARQAGKGTCPT 319 (1034)
T ss_pred --hcccccchHHHHHhhccchhhhhhhhH---HHHHHHHHhcccccchhhhhHHHHhhhhhcccccccchhhcCCccCcc
Confidence 445556677888889999999998763 344445566777789999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCC--CCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhh
Q 002135 289 LPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFD--ASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSI 366 (961)
Q Consensus 289 Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~--~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~l 366 (961)
+.+...+...+....++++|++++++++.+.+.-....+. ....|..++|++...++..++.+.++++++|++.+..+
T Consensus 320 ~~s~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~V~~~~I~~~K~A~V~~~D~~sE~~~~A~~R~~~~~~~s~~~~~~s~~ 399 (1034)
T KOG4150|consen 320 SGSRKFQTLCHATNSLLPSEMVEHLRNGSKGQVVHVEVIKARKSAYVEMSDKLSETTKSALKRIGLNTLYSHQAEAISAA 399 (1034)
T ss_pred cchhhhhhcCcccceecchhHHHHhhccCCceEEEEEehhhhhcceeecccCCCchhHHHHHhcCcceeecCHHHHHHHH
Confidence 9999988888888999999999999998766533222221 13458899999999999999999999999999999999
Q ss_pred cCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccC-CCCcEEEeccC
Q 002135 367 LPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYG-SDPSFVFSTAT 445 (961)
Q Consensus 367 L~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~-~~~q~I~lSAT 445 (961)
|+++..|+.++-.+ .++++||+|.|.+.||++++..||+|.++|..++. .+.|++-+|||
T Consensus 400 L~~~~~~~~~~~~~-------------------~~~~~~~~~~Y~~~~~~~~~~~~R~L~~L~~~F~~~~~~~~~~~~~~ 460 (1034)
T KOG4150|consen 400 LAKSLCYNVPVFEE-------------------LCKDTNSCALYLFPTKALAQDQLRALSDLIKGFEASINMGVYDGDTP 460 (1034)
T ss_pred hhhccccccHHHHH-------------------HHhcccceeeeecchhhHHHHHHHHHHHHHHHHHhhcCcceEeCCCC
Confidence 99999999999888 89999999999999999999999999999876553 46799999999
Q ss_pred CCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCC
Q 002135 446 SANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHG 525 (961)
Q Consensus 446 l~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g 525 (961)
..+|..+.+.+++...+.+|..||+|.+.+.+++|||+..... ...++++..+...++.+++.+|
T Consensus 461 ~K~~~~~~~~~~~~~E~~Li~~DGSPs~~K~~V~WNP~~~P~~---------------~~~~~~~i~E~s~~~~~~i~~~ 525 (1034)
T KOG4150|consen 461 YKDRTRLRSELANLSELELVTIDGSPSSEKLFVLWNPSAPPTS---------------KSEKSSKVVEVSHLFAEMVQHG 525 (1034)
T ss_pred cCCHHHHHHHhcCCcceEEEEecCCCCccceEEEeCCCCCCcc---------------hhhhhhHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999999999999999999876322 2346678889999999999999
Q ss_pred CcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEE
Q 002135 526 LRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVT 605 (961)
Q Consensus 526 ~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~V 605 (961)
.++|.||.+|+.||.+....++.+.+..+++...++.|+||++.++|++|+++++.|++..+||||+||+||||+++|+|
T Consensus 526 ~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALELGIDIG~LDAV 605 (1034)
T KOG4150|consen 526 LRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELGIDIGHLDAV 605 (1034)
T ss_pred CcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCCeeeEEEecchhhhccccccceeE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCC
Q 002135 606 LHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLS 685 (961)
Q Consensus 606 I~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~ 685 (961)
++.|+|.|+++++|+.|||||++++++++++++..|.||+|+.||+.++..|.+++.+|..|..+|.+|++|||.|+|++
T Consensus 606 l~~GFP~S~aNl~QQ~GRAGRRNk~SLavyva~~~PVDQ~Y~~HP~~l~~~pN~EL~LD~~N~~iL~~HlQCAA~ELPIN 685 (1034)
T KOG4150|consen 606 LHLGFPGSIANLWQQAGRAGRRNKPSLAVYVAFLGPVDQYYMSHPDKLFGSPNEELHLDSQNKHVLMQHLQCAALELPIN 685 (1034)
T ss_pred EEccCchhHHHHHHHhccccccCCCceEEEEEeccchhhHhhcCcHHHhCCCcceeEEecccHHHHHHHHhHHhhcCccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhccC-CHHHHHHHHHHCCccccCCCCCcccchhhhccCCCCCCccccccccCCCceEEEeccCC--ceeeeccc
Q 002135 686 LIYDEKYFGS-GLSSGITTLKNRGYLSSDPSLDSSAKIFEYIGHEKMPSHTISIRAIESERYEVIDMQSN--EVLEEIEE 762 (961)
Q Consensus 686 ~~~~~~~f~~-~~~~~l~~L~~~g~l~~~~~~~~~~~~~~~~~~~~~p~~~v~lr~~~~~~~~v~d~~~~--~~i~~~~~ 762 (961)
+.+|+++|++ .+.+++..- |....+.+ .+.|.|. ++|+..|+||+++++.|.+||.+++ .+||++++
T Consensus 686 ~~~D~q~Fg~~~lr~IC~~~-----L~~~~dsY--~~~~~yL---P~P~~~VriRs~~ED~F~~VDvTN~kN~IlEeiE~ 755 (1034)
T KOG4150|consen 686 LQYDQQHFGSGELRNICFLS-----LDPSRDSY--SRIWNYL---PRPKNPVRIRSIREDEFVRVDVTNKKNDILEEIEE 755 (1034)
T ss_pred cchhhhhcccHHHHhhHHhh-----cCcccccc--ccccccC---CCCCCceEeeeeccceEEEEEecCCchhHHHHHhh
Confidence 9999999997 677766542 22222222 3456664 5899999999999999999999864 57899999
Q ss_pred chhhhhhccCcEEEEcCeEEEEEEEecCCCeEEEEEcCCCcccccCCceeeEEecccccccccccccccccceeEeEEEE
Q 002135 763 SKAFFQVYEGAVYMHQGHTYLVKELNLSSKIALCQKADLKYFTKTRDYTDIHVSGGNNAYATKISKDQLTKTTAQALACT 842 (961)
Q Consensus 763 ~~a~~~~~~gai~~~~g~~y~v~~~d~~~~~~~v~~~~~~~~T~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 842 (961)
+|+++++|+||||+|||++|+|+++|+++|+|.++++||+|||.+||+|||++.+.+..++... +++++|||.|+
T Consensus 756 sR~~fT~YeGaiy~~QG~~ylv~~lNi~eR~a~~~~VDVdW~T~QRDFTDVDP~~~~~~~~~~~-----S~~~~YFGa~K 830 (1034)
T KOG4150|consen 756 SRAFFTVYEGAIYMNQGRNYLVTSLNIKERVALCELVDVDWYTRQRDFTDVDPTGGDTAYPVKA-----SKPTPYFGACK 830 (1034)
T ss_pred hhheeEeecccEEEecCcceeeeecCchhheeeeEEecceeeeccccccccCCcccceeeeccC-----CCCCcceeeeE
Confidence 9999999999999999999999999999999999999999999999999999999887765532 37899999999
Q ss_pred EEEEEEEEEEEEcCCCceEeEEeCCCCcceeeeEEEEEEeChhhHHhhh-ccCChhhHHHHHHHHHHhhcccccccCCCC
Q 002135 843 VTTTWFGFYRLWRGSGIIFDTVELYLPKYSYESQAVWIQVPQSVKAVVE-QNFSFRSGLHAASHALLHVVPIYVRCNFSD 921 (961)
Q Consensus 843 v~~~v~g~~~~~~~~~~~~~~~~~~~p~~~~~t~~~w~~~~~~~~~~~~-~~~~~~~~~ha~~ha~~~~~p~~~~~~~~d 921 (961)
+|..||||+|++++ .+++|.+++.+||++++++|+|||+|..+++.++ ++++++|+||||+|||++++|.|+.|+-+|
T Consensus 831 ~T~~VFGfFKV~K~-K~IiD~ve~~~pPV~I~S~G~WIDvP~~~~E~~~~K~lN~Aa~IHaAQHAl~~~~P~FI~~~~~d 909 (1034)
T KOG4150|consen 831 VTTKVFGFFKVRKR-KEIIDDVELSLPPVTIQSQGVWIDVPMSVKEAVETKNLNFAAGIHAAQHALVNVVPTFITCNYSD 909 (1034)
T ss_pred EEEEEEEEEEEech-hhhhhhhhccCCCEEEecceEEEeCcHHHHHHHhhcCCCchhhhHHHHHHHHhhcceEEecCchh
Confidence 99999999999987 8999999999999999999999999999999999 999999999999999999999999999999
Q ss_pred CCccCCCC-------CCCCCCCcEEEEEcCCCC--cchhhhhhhh
Q 002135 922 LAPECPNP-------HDSRYFPERILLYDRHPG--GTGVSKQVTD 957 (961)
Q Consensus 922 i~~~~~~~-------~~~~~~~~~i~~yD~~~g--G~G~~~~~~~ 957 (961)
|.|+|++| +++|+||+|++|||...| |+|++-|+|+
T Consensus 910 I~TECKApEKEfaErqt~R~RPaRLIFYD~~G~~~GaGLC~KAfE 954 (1034)
T KOG4150|consen 910 IATECKAPEKEFAERQTQRYRPARLIFYDPGGTGIGAGLCPKAFE 954 (1034)
T ss_pred hcccCCCchHHHHHhhhhccCcceEEEEcCCCCcccccccHHHHH
Confidence 99999999 478999999999999977 8899999996
No 2
>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=100.00 E-value=2.5e-122 Score=1125.68 Aligned_cols=688 Identities=39% Similarity=0.639 Sum_probs=622.4
Q ss_pred eEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC
Q 002135 220 MVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL 299 (961)
Q Consensus 220 iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~ 299 (961)
+++++.+|++++.|.+++..|++.+.++|++.||++||+||.+||+.+++|+|++++||||||||+||++|+++.+.+++
T Consensus 1 i~~~~~~p~~~a~~~~~~~~l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~ 80 (742)
T TIGR03817 1 LTHVEHLPARAGRTAPWPAWAHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADDP 80 (742)
T ss_pred CcceeecCCCCcccCCCCCcCCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCC
Confidence 46889999999999999999999999999999999999999999999999999999999999999999999999998877
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhh
Q 002135 300 SSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSN 379 (961)
Q Consensus 300 ~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~ 379 (961)
+.++|||+||||||+||.++++++. ..++++.+++|+++..++.+++++++|+++||++|+..+++.+.+|..++++
T Consensus 81 ~~~aL~l~PtraLa~q~~~~l~~l~---~~~i~v~~~~Gdt~~~~r~~i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~ 157 (742)
T TIGR03817 81 RATALYLAPTKALAADQLRAVRELT---LRGVRPATYDGDTPTEERRWAREHARYVLTNPDMLHRGILPSHARWARFLRR 157 (742)
T ss_pred CcEEEEEcChHHHHHHHHHHHHHhc---cCCeEEEEEeCCCCHHHHHHHhcCCCEEEEChHHHHHhhccchhHHHHHHhc
Confidence 8899999999999999999999986 2257889999999999988899999999999999998888888889999999
Q ss_pred hhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHccc
Q 002135 380 LRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANL 459 (961)
Q Consensus 380 l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~ 459 (961)
+ ++|||||||.|.+.||.+++.++++|++++.+ ++.++|+|++|||++||.+++.++++.
T Consensus 158 l-------------------~~vViDEah~~~g~fg~~~~~il~rL~ri~~~-~g~~~q~i~~SATi~n~~~~~~~l~g~ 217 (742)
T TIGR03817 158 L-------------------RYVVIDECHSYRGVFGSHVALVLRRLRRLCAR-YGASPVFVLASATTADPAAAASRLIGA 217 (742)
T ss_pred C-------------------CEEEEeChhhccCccHHHHHHHHHHHHHHHHh-cCCCCEEEEEecCCCCHHHHHHHHcCC
Confidence 8 99999999999988999999999999999876 477899999999999999999898885
Q ss_pred CCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHH
Q 002135 460 STLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCE 539 (961)
Q Consensus 460 ~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae 539 (961)
. ..++..++++.+.+.+.+|+|........ .....+.+...+...++..+...+.++||||+||+.||
T Consensus 218 ~-~~~i~~~~~~~~~~~~~~~~p~~~~~~~~-----------~~~~~r~~~~~~~~~~l~~l~~~~~~~IVF~~sr~~ae 285 (742)
T TIGR03817 218 P-VVAVTEDGSPRGARTVALWEPPLTELTGE-----------NGAPVRRSASAEAADLLADLVAEGARTLTFVRSRRGAE 285 (742)
T ss_pred C-eEEECCCCCCcCceEEEEecCCccccccc-----------cccccccchHHHHHHHHHHHHHCCCCEEEEcCCHHHHH
Confidence 4 66788888888888888888864310000 00001123334566677777778899999999999999
Q ss_pred HHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHH
Q 002135 540 LVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQ 619 (961)
Q Consensus 540 ~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~Q 619 (961)
.++..+++.+....+.+..++..||||+++++|++++++|++|++++||||+++++|||||++++||++|+|.++++|+|
T Consensus 286 ~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~G~i~vLVaTd~lerGIDI~~vd~VI~~~~P~s~~~y~q 365 (742)
T TIGR03817 286 LVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRDGELLGVATTNALELGVDISGLDAVVIAGFPGTRASLWQ 365 (742)
T ss_pred HHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHcCCceEEEECchHhccCCcccccEEEEeCCCCCHHHHHH
Confidence 99999988766555556678999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCCHHH
Q 002135 620 QAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSGLSS 699 (961)
Q Consensus 620 R~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~~~~ 699 (961)
|+|||||.|+.|.++++...++.|++++++|+++++.++|...+++.|+.++.+|+.|++.|.|++. .+..+|++.+.+
T Consensus 366 RiGRaGR~G~~g~ai~v~~~~~~d~~~~~~~~~~~~~~~e~~~~~~~n~~il~~hl~~aa~e~~l~~-~~~~~~~~~~~~ 444 (742)
T TIGR03817 366 QAGRAGRRGQGALVVLVARDDPLDTYLVHHPEALFDRPVEATVFDPDNPYVLGPHLCCAAAELPLTE-ADLELFGPAAAE 444 (742)
T ss_pred hccccCCCCCCcEEEEEeCCChHHHHHHhCHHHHhcCCCccceeCCCcHHHHHHHHHHHHhcCCCCh-HHHHhhchhHHH
Confidence 9999999999999999988889999999999999999999999999999999999999999999986 456788888999
Q ss_pred HHHHHHHCCccccCCCCCcccchhhhccCCCCCCccccccccCCCceEEEeccCCceeeecccchhhhhhccCcEEEEcC
Q 002135 700 GITTLKNRGYLSSDPSLDSSAKIFEYIGHEKMPSHTISIRAIESERYEVIDMQSNEVLEEIEESKAFFQVYEGAVYMHQG 779 (961)
Q Consensus 700 ~l~~L~~~g~l~~~~~~~~~~~~~~~~~~~~~p~~~v~lr~~~~~~~~v~d~~~~~~i~~~~~~~a~~~~~~gai~~~~g 779 (961)
+++.|.++|.|..++++ |.| .....|+..++||+++++.|.|+|..+|++||++|+++|++++||||||+|||
T Consensus 445 ~~~~l~~~g~l~~~~~~------~~~-~~~~~~~~~i~lr~~~~~~~~v~~~~~~~~ig~~d~~~a~~~~~~gavy~~~g 517 (742)
T TIGR03817 445 VLDQLVEQGLLRRRPAG------WFW-TRRERAHDAVDIRGGGGAPVAIVEAETGRLLGTVDAGAAHSTVHPGAVYLHQG 517 (742)
T ss_pred HHHHHHHCCcEEecCCc------eEe-cCCCCcccceEeecCCCCcEEEEECCCCeEEEEECHHHHHHHhCCCcEEEECC
Confidence 99999999999877653 223 33457899999999999999999988899999999999999999999999999
Q ss_pred eEEEEEEEecCCCeEEEEEcCCCcccccCCceeeEEecccccccccccccccccceeEeEEEEEEEEEEEEEEEEcCCCc
Q 002135 780 HTYLVKELNLSSKIALCQKADLKYFTKTRDYTDIHVSGGNNAYATKISKDQLTKTTAQALACTVTTTWFGFYRLWRGSGI 859 (961)
Q Consensus 780 ~~y~v~~~d~~~~~~~v~~~~~~~~T~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~g~~~v~~~v~g~~~~~~~~~~ 859 (961)
++|+|+++|+++++|+|++++++|||+|+++|+|++++....+. ..++++++|+|+|+++|+||++++..+++
T Consensus 518 ~~y~v~~~d~~~~~~~v~~~~~~y~T~~~~~~~v~~~~~~~~~~-------~~~~~~~~g~~~v~~~v~gy~~~~~~~~~ 590 (742)
T TIGR03817 518 ESYVVDELDLEDGVALVHAEDPDYTTFARETTDISVVEERRRRA-------WGDVRVALGEVEVTSQVVGYLRRRLITGE 590 (742)
T ss_pred eEEEEEEEECCCCEEEEEECCCCcEEeccceeeeeeeeeeeeee-------eCCEEEEEEEEEEEEEEEeEEEEEccCCc
Confidence 99999999999999999999999999999999999998654321 13789999999999999999999999999
Q ss_pred eEeEEeCCCCcceeeeEEEEEEeChhhHHhhh-ccCChhhHHHHHHHHHHhhcccccccCCCCCCccCCCCCCCCCCCcE
Q 002135 860 IFDTVELYLPKYSYESQAVWIQVPQSVKAVVE-QNFSFRSGLHAASHALLHVVPIYVRCNFSDLAPECPNPHDSRYFPER 938 (961)
Q Consensus 860 ~~~~~~~~~p~~~~~t~~~w~~~~~~~~~~~~-~~~~~~~~~ha~~ha~~~~~p~~~~~~~~di~~~~~~~~~~~~~~~~ 938 (961)
+++.+++++||++|+|+|+||++|+.+++.++ ...+++||+||+|||||+++|+|+|||++||||.|++.|+++++| +
T Consensus 591 ~~~~~~~~~p~~~~~T~~~w~~~p~~~~~~~~~~~~~~~~~~ha~eh~~i~~~pl~~~~d~~D~gg~s~~~~~~~~~~-~ 669 (742)
T TIGR03817 591 VLDEVPLDLPPRTLRTRAVWYTVTPELLDDAGIDAADVPGALHAAEHAAIGLLPLVATCDRWDIGGVSTAVHPDTGLP-T 669 (742)
T ss_pred EeeeEecCCCCEEeeeeEEEEEcCHHHHHHhccCccchhhHHHHHHHHHHHHhhheEEechhhcCcccccCCCCCCCC-e
Confidence 99999999999999999999999999998876 677899999999999999999999999999999999999998887 7
Q ss_pred EEEEcCCCCcchhhhhhhhc
Q 002135 939 ILLYDRHPGGTGVSKQVTDM 958 (961)
Q Consensus 939 i~~yD~~~gG~G~~~~~~~~ 958 (961)
|||||++|||+|+|+++|+.
T Consensus 670 i~iyD~~~GG~G~~~~~~~~ 689 (742)
T TIGR03817 670 VFVYDGHPGGAGFAERGFAK 689 (742)
T ss_pred EEEEcCCCCcHhHHHHHHHh
Confidence 99999999999999999985
No 3
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=100.00 E-value=4.6e-91 Score=852.26 Aligned_cols=710 Identities=33% Similarity=0.518 Sum_probs=618.4
Q ss_pred HHHHHHHHccCCCCCceEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchh
Q 002135 204 LEMVEHLRKGIGSQGQMVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGK 283 (961)
Q Consensus 204 ~~~~~~lr~~~~~~~~iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGK 283 (961)
+.+.+.++......+.+++...++.+.+.+.+++......+..+|.+.|+..||+||.+|+..+.+|+|+||++||||||
T Consensus 19 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGK 98 (851)
T COG1205 19 EYLEDEFKDAEGQEGSILRDPEIEARPGKTSEFPELRDESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGK 98 (851)
T ss_pred HHHHHHHhcchhhcchhhhcccccCCcCccccchhhhhhHHHHHHHHhccccccHHHHHHHHHHHCCCCEEEECCCCCch
Confidence 45556666666666788888889998888877776666677889999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHH-HHHhcCCcEEEeChhHH
Q 002135 284 SLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDR-MWLRDNARLLITNPDML 362 (961)
Q Consensus 284 Tla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r-~~l~~~~~IlItTPe~L 362 (961)
|+||++|+++.+++++..++|||+||+|||+||.+++.++...++..+.++.|+||++..++ ..+++.++|++|||+||
T Consensus 99 Te~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~~pp~IllTNpdML 178 (851)
T COG1205 99 TESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLTNPDML 178 (851)
T ss_pred hHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCCCcceeeeecCCCChHHHHHHHhCCCCEEEeCHHHH
Confidence 99999999999999999999999999999999999999999988878999999999999998 45566799999999999
Q ss_pred HHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEe
Q 002135 363 HMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFS 442 (961)
Q Consensus 363 ~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~l 442 (961)
|.++++++..|..+++++ +|||+||+|.|.|.||++++.++|||++++.. +++++|+|++
T Consensus 179 h~~llr~~~~~~~~~~~L-------------------k~lVvDElHtYrGv~GS~vA~llRRL~~~~~~-~~~~~q~i~~ 238 (851)
T COG1205 179 HYLLLRNHDAWLWLLRNL-------------------KYLVVDELHTYRGVQGSEVALLLRRLLRRLRR-YGSPLQIICT 238 (851)
T ss_pred HHHhccCcchHHHHHhcC-------------------cEEEEecceeccccchhHHHHHHHHHHHHHhc-cCCCceEEEE
Confidence 999999999999999999 99999999999999999999999999999876 5789999999
Q ss_pred ccCCCChHHHHHHHcccCCeEE-EecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHH
Q 002135 443 TATSANPREHCMELANLSTLEL-IQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEM 521 (961)
Q Consensus 443 SATl~n~~e~~~~L~~~~~~~~-i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l 521 (961)
|||++||.++++.+++.. +.. +..++.|.+.+.++.++|+..... ...+.+.......++..+
T Consensus 239 SAT~~np~e~~~~l~~~~-f~~~v~~~g~~~~~~~~~~~~p~~~~~~---------------~~~r~s~~~~~~~~~~~~ 302 (851)
T COG1205 239 SATLANPGEFAEELFGRD-FEVPVDEDGSPRGLRYFVRREPPIRELA---------------ESIRRSALAELATLAALL 302 (851)
T ss_pred eccccChHHHHHHhcCCc-ceeeccCCCCCCCceEEEEeCCcchhhh---------------hhcccchHHHHHHHHHHH
Confidence 999999999999999865 555 999999999999999999776321 113557778888889999
Q ss_pred HHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCC
Q 002135 522 VQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGH 601 (961)
Q Consensus 522 ~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~ 601 (961)
+.++.++|+|+++++.+|.+....+..+....+.+...+..|||+|.+++|++++..|++|++.++++|++|+.||||++
T Consensus 303 ~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~~~~st~AlelgidiG~ 382 (851)
T COG1205 303 VRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIATNALELGIDIGS 382 (851)
T ss_pred HHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhcCCccEEecchhhhhceeehh
Confidence 99999999999999999999876666655544556678999999999999999999999999999999999999999999
Q ss_pred ccEEEEeCCCC-CHhhHHHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhc---CCCcccccCCCCHHHHHHHHHH
Q 002135 602 IDVTLHLGFPG-SIASLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFK---SPIECCHIDAQNHKVLEQHLVC 677 (961)
Q Consensus 602 vd~VI~~~~P~-s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~---~~ie~~~~~~~n~~vl~~~l~~ 677 (961)
+++||.+++|. ++.+++||+|||||.++.+..+++...++.|+||..+|+.+++ .+.+...+++.|+.++..|+.|
T Consensus 383 ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~l~~~v~~~~~~d~yy~~~p~~~~~~~~~~~e~~~~~~~n~~~l~~hl~~ 462 (851)
T COG1205 383 LDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVVLRSDPLDSYYLRHPEELLETGFGPVESVRVDDNNEYLLDGHLLC 462 (851)
T ss_pred hhhHhhcCCCCchHHHHHHhhhhccCCCCCceEEEEeCCCccchhhhhCcHhhhhcccCcccccccCCCCcchhhhhHHh
Confidence 99999999999 9999999999999999999999999999999999999999999 8999999999999999999999
Q ss_pred HHhcCCCChhhhhhhccCCHHHHHHHHHHCCccccCCCCCcccchhhhccCCCCCCccccccccCCCceEEEec---cCC
Q 002135 678 AALEHPLSLIYDEKYFGSGLSSGITTLKNRGYLSSDPSLDSSAKIFEYIGHEKMPSHTISIRAIESERYEVIDM---QSN 754 (961)
Q Consensus 678 aa~e~p~~~~~~~~~f~~~~~~~l~~L~~~g~l~~~~~~~~~~~~~~~~~~~~~p~~~v~lr~~~~~~~~v~d~---~~~ 754 (961)
++.|.|+........++....+..+.|...+.+...++....+..- .-...|+..+++|+.....+..++. .++
T Consensus 463 ~~~E~p~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~s~~~---~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 539 (851)
T COG1205 463 ADAELPLKDRELLPSDGSLEEEIARSLVGEGQLHHENDKYRPSSRG---LCPREGASQVSLRGLSEDSIVAIDVSLKETG 539 (851)
T ss_pred hCccCCccchhccccchhHHHHHHhhhhccceecccCCcccccccc---cCCchhhhhhhhccccccCceecchhhhhcc
Confidence 9999998764333333444667777888888887765532111000 0012346778999988888888873 468
Q ss_pred ceeeecccchhhhhhccCcEEEEcCeEEEEEEEecCCCeEEEEEcCC-CcccccCCceeeEEeccccccccccccccccc
Q 002135 755 EVLEEIEESKAFFQVYEGAVYMHQGHTYLVKELNLSSKIALCQKADL-KYFTKTRDYTDIHVSGGNNAYATKISKDQLTK 833 (961)
Q Consensus 755 ~~i~~~~~~~a~~~~~~gai~~~~g~~y~v~~~d~~~~~~~v~~~~~-~~~T~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 833 (961)
+.+++++...+.+++|||++|+|+|.+|.+.++|..++++.|++.++ +|+|.|++++++.+++....... .. .+
T Consensus 540 ~~~~e~~~~~~~r~~~~gai~~~~g~~y~~~~ld~~~~~~~v~~~~~~~~~t~~~~~~~~~~~~~~~e~~~---~~--~~ 614 (851)
T COG1205 540 RLLEEVDESSAIRSLHPGAIYLHRGVTYAAVDLDLAEKKAFVRADDVAEYVTLPLDFTDLRVLEELGEREI---RG--LK 614 (851)
T ss_pred cccccccchhHHHhhcccceeeecceeeeecccchhhheeEEeecchhhhccCcchhhhhHHHHhhhhhcc---cc--cc
Confidence 89999999999999999999999999999999999999999999999 99999999999988775332211 10 01
Q ss_pred ceeEeEEEEEEEEEEEEEEEEcCCCceEeEEeCCCCcceeeeEEEEEEeChhhHHhhh-ccCChhhHHHHHHHHHHhhcc
Q 002135 834 TTAQALACTVTTTWFGFYRLWRGSGIIFDTVELYLPKYSYESQAVWIQVPQSVKAVVE-QNFSFRSGLHAASHALLHVVP 912 (961)
Q Consensus 834 ~~~~~g~~~v~~~v~g~~~~~~~~~~~~~~~~~~~p~~~~~t~~~w~~~~~~~~~~~~-~~~~~~~~~ha~~ha~~~~~p 912 (961)
.-..++.++++..|+||...+ ...++++...+++|+..+.|.+.|+++|..+..... .....++++||+||++|.++|
T Consensus 615 ~~~~~~~~~~~~~v~g~~~~~-~~~e~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~eh~~i~~~p 693 (851)
T COG1205 615 LASFLEEVKATETVFGRLDFD-VYSEFLDRARLGLPLERLGTRAAGVDFPKDATEDEAEKTEEIPQALHAAEHVLILVLP 693 (851)
T ss_pred chhccchhhHHHHHHHHhhhe-eeccccCccccCCcchheeeceecccCCcchhhhhhhcccccccccccchhhhhhhcc
Confidence 236678899999999999844 458999999999999999999999999998555555 667799999999999999999
Q ss_pred cccccCCCCCCccCCCCCCCCCCCcEEEEEcCCCCcchhhhhhhhc
Q 002135 913 IYVRCNFSDLAPECPNPHDSRYFPERILLYDRHPGGTGVSKQVTDM 958 (961)
Q Consensus 913 ~~~~~~~~di~~~~~~~~~~~~~~~~i~~yD~~~gG~G~~~~~~~~ 958 (961)
+.+.|+++|+|+.|+..|+...+.+++|+||.++||+|++..+|+.
T Consensus 694 l~~~~~~~d~~~~~~~~~~~~~~~~~~~~yd~~~gg~G~~~~~~~~ 739 (851)
T COG1205 694 LVIGCDRRDLGGISTPKGAVWRGKPTIFLYDGCEGGSGLARTLFPQ 739 (851)
T ss_pred hhheeecccccceecccchhhcCCceEEEEecCCCCceecccchHH
Confidence 9999999999999999888664555899999999999999988863
No 4
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=100.00 E-value=1.3e-60 Score=568.24 Aligned_cols=492 Identities=25% Similarity=0.319 Sum_probs=395.3
Q ss_pred cccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC------CCeEEEEcccHHH
Q 002135 239 ALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL------SSSALYMFPTKAL 312 (961)
Q Consensus 239 ~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~------~~~aLvl~PtraL 312 (961)
.|+|.++++++.. |.+||++|.+||+.+.+|+|++|+||||||||++++||++..+.+.. +..+|||+|+|||
T Consensus 7 ~l~~~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkAL 85 (814)
T COG1201 7 ILDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKAL 85 (814)
T ss_pred hcCHHHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHH
Confidence 5889999999987 99999999999999999999999999999999999999999998761 3579999999999
Q ss_pred HHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhc-CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhh
Q 002135 313 AQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRD-NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTE 391 (961)
Q Consensus 313 a~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~-~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~ 391 (961)
++|+.+++..++..++ +.+.+.+||+++.+|+...+ .|+|++||||.|..+| ...+++..|+++
T Consensus 86 n~Di~~rL~~~~~~~G--~~v~vRhGDT~~~er~r~~~~PPdILiTTPEsL~lll--~~~~~r~~l~~v----------- 150 (814)
T COG1201 86 NNDIRRRLEEPLRELG--IEVAVRHGDTPQSEKQKMLKNPPHILITTPESLAILL--NSPKFRELLRDV----------- 150 (814)
T ss_pred HHHHHHHHHHHHHHcC--CccceecCCCChHHhhhccCCCCcEEEeChhHHHHHh--cCHHHHHHhcCC-----------
Confidence 9999999999999776 66699999999999877655 4899999999997654 345788888888
Q ss_pred hhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccC-CeEEEecCC
Q 002135 392 VYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLS-TLELIQNDG 469 (961)
Q Consensus 392 ~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~-~~~~i~~~g 469 (961)
++|||||+|.+.+ .+|.|++..|.||+.++ + ++|.|++|||.++|.+.+++|.+.. .+.++...+
T Consensus 151 --------r~VIVDEiHel~~sKRG~~Lsl~LeRL~~l~----~-~~qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~ 217 (814)
T COG1201 151 --------RYVIVDEIHALAESKRGVQLALSLERLRELA----G-DFQRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSA 217 (814)
T ss_pred --------cEEEeehhhhhhccccchhhhhhHHHHHhhC----c-ccEEEeehhccCCHHHHHHHhcCCCCceEEEEccc
Confidence 9999999999987 49999999999999886 3 7899999999999999999998876 677777665
Q ss_pred CccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHH
Q 002135 470 SPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREIL 549 (961)
Q Consensus 470 ~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l 549 (961)
.....-... .|.... .............+.+++++...+|||+|||..+|.++..|++..
T Consensus 218 ~k~~~i~v~--~p~~~~------------------~~~~~~~~~~~~~i~~~v~~~~ttLIF~NTR~~aE~l~~~L~~~~ 277 (814)
T COG1201 218 AKKLEIKVI--SPVEDL------------------IYDEELWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLG 277 (814)
T ss_pred CCcceEEEE--ecCCcc------------------ccccchhHHHHHHHHHHHhhcCcEEEEEeChHHHHHHHHHHHHhc
Confidence 443322221 222110 000222334555666777777799999999999999999888743
Q ss_pred HhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCC-C
Q 002135 550 EETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRR-E 628 (961)
Q Consensus 550 ~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~-g 628 (961)
. ..+..|||+++.++|..+|++|++|+++++|||+.||+|||++++|.|||++.|.+++.++||+||+|++ +
T Consensus 278 ~-------~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLELGIDiG~vdlVIq~~SP~sV~r~lQRiGRsgHr~~ 350 (814)
T COG1201 278 P-------DIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGRAGHRLG 350 (814)
T ss_pred C-------CceeeecccccHHHHHHHHHHHhcCCceEEEEccchhhccccCCceEEEEeCCcHHHHHHhHhccccccccC
Confidence 2 5789999999999999999999999999999999999999999999999999999999999999999998 6
Q ss_pred CCceEEEEeeCCcchhHHHhc--hHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhh------hhcc----CC
Q 002135 629 RPSLAVYVAFEGPLDQYFMKY--PEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDE------KYFG----SG 696 (961)
Q Consensus 629 ~~g~~i~l~~~~~~d~~~~~~--~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~------~~f~----~~ 696 (961)
..+.++++... .+..+... ........++...++-+..++|.+|+++++.+.+.....-. .+|. +.
T Consensus 351 ~~Skg~ii~~~--r~dllE~~vi~~~a~~g~le~~~i~~~~LDVLaq~ivg~~~~~~~~~~~~y~~vrraypy~~L~~e~ 428 (814)
T COG1201 351 EVSKGIIIAED--RDDLLECLVLADLALEGKLERIKIPKNPLDVLAQQIVGMALEKVWEVEEAYRVVRRAYPYADLSRED 428 (814)
T ss_pred CcccEEEEecC--HHHHHHHHHHHHHHHhCCcccCCCCCcchhHHHHHHHHHHhhCcCCHHHHHHHHHhccccccCCHHH
Confidence 67888877754 33333222 35666788888888888899999999999999876652211 2221 35
Q ss_pred HHHHHHHHHH--CCccccCCCC----Ccccchh--hhccCCCCCCccccccccCCCceEEEeccCCceeeecccchhhhh
Q 002135 697 LSSGITTLKN--RGYLSSDPSL----DSSAKIF--EYIGHEKMPSHTISIRAIESERYEVIDMQSNEVLEEIEESKAFFQ 768 (961)
Q Consensus 697 ~~~~l~~L~~--~g~l~~~~~~----~~~~~~~--~~~~~~~~p~~~v~lr~~~~~~~~v~d~~~~~~i~~~~~~~a~~~ 768 (961)
+..+++.|.. .+++....+. ...+..| +|.+..++| ++..|.|++.. +.+|++|+.++...
T Consensus 429 f~~v~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~y~~n~~tIp---------de~~y~V~~~~--k~vG~ldE~fv~~~ 497 (814)
T COG1201 429 FRLVLRYLAGEKNVYAKIWLDEDGLFGRGKGTRMIYYMNYGTIP---------DEAEYTVKDET--KYIGTLDEEFVERL 497 (814)
T ss_pred HHHHHHHHhhcccceeEEeecCcceeccCccceeeeeecccccC---------CCcceeEEEcC--cceeecchHhHhhc
Confidence 7888888988 5555432221 1112222 233334555 56789999865 89999999976644
Q ss_pred hccCcEEEEcCeEEEEEEEecCCCeEEEEEcCCC
Q 002135 769 VYEGAVYMHQGHTYLVKELNLSSKIALCQKADLK 802 (961)
Q Consensus 769 ~~~gai~~~~g~~y~v~~~d~~~~~~~v~~~~~~ 802 (961)
. ||.+|+..|++|+|+++|.++ ++|+++...
T Consensus 498 ~-~Gd~Fvl~G~~wrv~~i~~~~--v~V~~a~~~ 528 (814)
T COG1201 498 L-PGDIFVLGGRTWRVLEIDGNK--VIVKPAEGA 528 (814)
T ss_pred c-CCCEEEEcCcEEEEEEEeCCE--EEEEECCCC
Confidence 4 999999999999999999766 999998663
No 5
>PRK13767 ATP-dependent helicase; Provisional
Probab=100.00 E-value=6.3e-57 Score=561.04 Aligned_cols=505 Identities=23% Similarity=0.284 Sum_probs=365.2
Q ss_pred ccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-------CCCeEEEEcccH
Q 002135 238 DALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-------LSSSALYMFPTK 310 (961)
Q Consensus 238 ~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-------~~~~aLvl~Ptr 310 (961)
+.|++.+.+.+++ +|..|+|+|.+||+.+++|+|++++||||||||++|.+|+++.+... .+.++|||+|||
T Consensus 16 ~~l~~~v~~~~~~-~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtr 94 (876)
T PRK13767 16 DLLRPYVREWFKE-KFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLR 94 (876)
T ss_pred hhcCHHHHHHHHH-ccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHH
Confidence 3578888888876 78899999999999999999999999999999999999999888642 245799999999
Q ss_pred HHHHHHHHHHHHhH-------hhCCC---CccEEEEcCCCcHHHHHH-HhcCCcEEEeChhHHHHhhcCCCchhHHHhhh
Q 002135 311 ALAQDQLRALLAMT-------KAFDA---SIDIGVYDGDTTQKDRMW-LRDNARLLITNPDMLHMSILPYHGQFSRILSN 379 (961)
Q Consensus 311 aLa~qq~~~l~~l~-------~~~~~---~i~v~~~~Gd~~~~~r~~-l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~ 379 (961)
||++|+++++.... ...+. .+.+.+++||++..++.. +.+.++|+||||++|..++ ....+...+++
T Consensus 95 aLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l~~~p~IlVtTPE~L~~ll--~~~~~~~~l~~ 172 (876)
T PRK13767 95 ALNNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKMLKKPPHILITTPESLAILL--NSPKFREKLRT 172 (876)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHHhCCCCEEEecHHHHHHHh--cChhHHHHHhc
Confidence 99999998776432 21221 578999999998877654 4557899999999997554 33445566777
Q ss_pred hhhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcc
Q 002135 380 LRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELAN 458 (961)
Q Consensus 380 l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~ 458 (961)
+ ++|||||+|.+.+ .+|.++...+.++.+++ +..+|+|++|||++|+.+...++.+
T Consensus 173 l-------------------~~VVIDE~H~l~~~~RG~~l~~~L~rL~~l~----~~~~q~IglSATl~~~~~va~~L~~ 229 (876)
T PRK13767 173 V-------------------KWVIVDEIHSLAENKRGVHLSLSLERLEELA----GGEFVRIGLSATIEPLEEVAKFLVG 229 (876)
T ss_pred C-------------------CEEEEechhhhccCccHHHHHHHHHHHHHhc----CCCCeEEEEecccCCHHHHHHHhcC
Confidence 7 9999999999986 59999999999998875 3468999999999999888888865
Q ss_pred cC------CeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEe
Q 002135 459 LS------TLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFC 532 (961)
Q Consensus 459 ~~------~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~ 532 (961)
.. .+.++...... . ....+..|... . . ..........+...+..+...+.++||||
T Consensus 230 ~~~~~~~r~~~iv~~~~~k-~-~~i~v~~p~~~--------l------~--~~~~~~~~~~l~~~L~~~i~~~~~~LVF~ 291 (876)
T PRK13767 230 YEDDGEPRDCEIVDARFVK-P-FDIKVISPVDD--------L------I--HTPAEEISEALYETLHELIKEHRTTLIFT 291 (876)
T ss_pred ccccCCCCceEEEccCCCc-c-ceEEEeccCcc--------c------c--ccccchhHHHHHHHHHHHHhcCCCEEEEe
Confidence 31 12232221111 0 00111111100 0 0 00011122334455666666778999999
Q ss_pred cChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC
Q 002135 533 RSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG 612 (961)
Q Consensus 533 ~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~ 612 (961)
+|++.|+.++..|++.+... .....+.+|||++++++|..++++|++|++++||||+++++|||+|++++||+++.|.
T Consensus 292 nTr~~ae~la~~L~~~~~~~--~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i~vLVaTs~Le~GIDip~Vd~VI~~~~P~ 369 (876)
T PRK13767 292 NTRSGAERVLYNLRKRFPEE--YDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSSTSLELGIDIGYIDLVVLLGSPK 369 (876)
T ss_pred CCHHHHHHHHHHHHHhchhh--ccccceeeeeCCCCHHHHHHHHHHHHcCCCeEEEECChHHhcCCCCCCcEEEEeCCCC
Confidence 99999999999887754321 1234789999999999999999999999999999999999999999999999999999
Q ss_pred CHhhHHHHhccCCCC-CCCceEEEEeeCCcchh-HHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhh
Q 002135 613 SIASLWQQAGRSGRR-ERPSLAVYVAFEGPLDQ-YFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDE 690 (961)
Q Consensus 613 s~~sy~QR~GRAGR~-g~~g~~i~l~~~~~~d~-~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~ 690 (961)
|+++|+||+|||||. |..+.++++.... .|. ......+......+|....+..+.++|.+|+.+++.+.+++.....
T Consensus 370 sv~~ylQRiGRaGR~~g~~~~g~ii~~~~-~~l~e~~~~~~~~~~~~ie~~~~~~~~~dvl~q~i~~~~~~~~~~~~~~~ 448 (876)
T PRK13767 370 SVSRLLQRIGRAGHRLGEVSKGRIIVVDR-DDLVECAVLLKKAREGKIDRVHIPKNPLDVLAQHIVGMAIERPWDIEEAY 448 (876)
T ss_pred CHHHHHHhcccCCCCCCCCCcEEEEEcCc-hhHHHHHHHHHHHHhCCCCCCCCCCCcHHHHHHHHHHHHHcCCCCHHHHH
Confidence 999999999999998 4455555555322 221 1111233445666777766667788999999999999776643222
Q ss_pred hh------cc----CCHHHHHHHHHHCCc----------cccCCCC---Cccc---chhhhccCCCCCCccccccccCCC
Q 002135 691 KY------FG----SGLSSGITTLKNRGY----------LSSDPSL---DSSA---KIFEYIGHEKMPSHTISIRAIESE 744 (961)
Q Consensus 691 ~~------f~----~~~~~~l~~L~~~g~----------l~~~~~~---~~~~---~~~~~~~~~~~p~~~v~lr~~~~~ 744 (961)
.. |. +.+..+++.|.+.+. |..+++. ...+ +...|.+...+| +..
T Consensus 449 ~~~~~~~~~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~i~---------~~~ 519 (876)
T PRK13767 449 NIVRRAYPYRDLSDEDFESVLRYLAGDYGGLEEKNVYAKIWLDEEEGKFGKRGKLARMIYYTNIGTIP---------DEF 519 (876)
T ss_pred HHHhccCCcccCCHHHHHHHHHHHhccCcccccccccceeEEcCCCCeEecCCHHHHHHHHHcCCCCC---------CCC
Confidence 11 11 346788888876542 1112111 0011 111111112222 345
Q ss_pred ceEEEeccCCceeeecccchhhhhhccCcEEEEcCeEEEEEEEecCCCeEEEEEcCCC
Q 002135 745 RYEVIDMQSNEVLEEIEESKAFFQVYEGAVYMHQGHTYLVKELNLSSKIALCQKADLK 802 (961)
Q Consensus 745 ~~~v~d~~~~~~i~~~~~~~a~~~~~~gai~~~~g~~y~v~~~d~~~~~~~v~~~~~~ 802 (961)
.|.|++ .+|+.||++|+..+ .++.||++|+++|+.|++.. .++++++|+|++..
T Consensus 520 ~~~V~~-~~g~~iG~lde~f~-~~l~~g~~f~l~g~~w~~~~--~~~~~v~V~~a~~~ 573 (876)
T PRK13767 520 KCDVYT-EDGKYVGNLEEEFL-ERLEPGDVFVLGGRTYEFLY--SRGSKVYVDPAEGE 573 (876)
T ss_pred eEEEEe-cCCCEEEEechHHH-ccCCCCCEEEECCCEEEEEE--EeCCEEEEEECCCC
Confidence 677776 56889999999865 46999999999999999965 45789999999653
No 6
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=100.00 E-value=1.3e-53 Score=537.21 Aligned_cols=484 Identities=23% Similarity=0.271 Sum_probs=336.1
Q ss_pred EEecCCchhHHHHHHHHHHHHhcC-----------CCCeEEEEcccHHHHHHHHHHHHHhHhhC----------CCCccE
Q 002135 275 VATMTSSGKSLCYNLPVLEALSHD-----------LSSSALYMFPTKALAQDQLRALLAMTKAF----------DASIDI 333 (961)
Q Consensus 275 v~apTGSGKTla~~Lpil~~l~~~-----------~~~~aLvl~PtraLa~qq~~~l~~l~~~~----------~~~i~v 333 (961)
|+||||||||+||.||+++.+..+ .+.++|||+|+|||++|+.++++.....+ ..++++
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V 80 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRV 80 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEE
Confidence 579999999999999999998653 24689999999999999999987633211 235889
Q ss_pred EEEcCCCcHHHHHHH-hcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc
Q 002135 334 GVYDGDTTQKDRMWL-RDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG 412 (961)
Q Consensus 334 ~~~~Gd~~~~~r~~l-~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~ 412 (961)
++++||++..++..+ ++.++||||||++|+.+|. + +.+..|+++ ++|||||+|.+.+
T Consensus 81 ~vrtGDt~~~eR~rll~~ppdILVTTPEsL~~LLt-s--k~r~~L~~V-------------------r~VIVDE~H~L~g 138 (1490)
T PRK09751 81 GIRTGDTPAQERSKLTRNPPDILITTPESLYLMLT-S--RARETLRGV-------------------ETVIIDEVHAVAG 138 (1490)
T ss_pred EEEECCCCHHHHHHHhcCCCCEEEecHHHHHHHHh-h--hhhhhhccC-------------------CEEEEecHHHhcc
Confidence 999999999887655 4578999999999987653 2 234567777 9999999999998
Q ss_pred c-cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCcccccccc
Q 002135 413 A-FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLN 491 (961)
Q Consensus 413 ~-fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~ 491 (961)
. +|.|++..++||.+++ +.++|+|++|||++|+++.+++|.+...+.++.............+ |....... .
T Consensus 139 ~kRG~~Lel~LeRL~~l~----~~~~QrIgLSATI~n~eevA~~L~g~~pv~Iv~~~~~r~~~l~v~v--p~~d~~~~-~ 211 (1490)
T PRK09751 139 SKRGAHLALSLERLDALL----HTSAQRIGLSATVRSASDVAAFLGGDRPVTVVNPPAMRHPQIRIVV--PVANMDDV-S 211 (1490)
T ss_pred cccccHHHHHHHHHHHhC----CCCCeEEEEEeeCCCHHHHHHHhcCCCCEEEECCCCCcccceEEEE--ecCchhhc-c
Confidence 5 9999999999999875 4578999999999999988888876444555543332221111111 11100000 0
Q ss_pred ccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhC-------------Cc---
Q 002135 492 KSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETA-------------PH--- 555 (961)
Q Consensus 492 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~-------------~~--- 555 (961)
.......... ...........+...+...+..+.++|||||||+.||.++..|++...+.. ..
T Consensus 212 ~~~~~~~~~~-~~~r~~~i~~~v~~~il~~i~~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~ 290 (1490)
T PRK09751 212 SVASGTGEDS-HAGREGSIWPYIETGILDEVLRHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSG 290 (1490)
T ss_pred cccccccccc-chhhhhhhhHHHHHHHHHHHhcCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccc
Confidence 0000000000 000000111111111222234567999999999999999999976532110 00
Q ss_pred ---------ccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCC
Q 002135 556 ---------LVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGR 626 (961)
Q Consensus 556 ---------l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR 626 (961)
....+..|||++++++|..+++.|++|++++||||+++++||||+++++|||++.|.|+++|+||+|||||
T Consensus 291 ~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~fK~G~LrvLVATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR 370 (1490)
T PRK09751 291 ATSNRVQSSDVFIARSHHGSVSKEQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGH 370 (1490)
T ss_pred cchhccccccceeeeeccccCCHHHHHHHHHHHHhCCceEEEeCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCC
Confidence 01126789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred C-CCCceEEEEeeCCcchhH-HHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhh------hhhcc----
Q 002135 627 R-ERPSLAVYVAFEGPLDQY-FMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYD------EKYFG---- 694 (961)
Q Consensus 627 ~-g~~g~~i~l~~~~~~d~~-~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~------~~~f~---- 694 (961)
. |..+.++++.. +..|.. ..-.++..+...+|+...+.+..++|.+|++|++.+.++....- ..+|.
T Consensus 371 ~~gg~s~gli~p~-~r~dlle~~~~ve~~l~g~iE~~~~p~nplDVLaqqiva~a~~~~~~~d~l~~~vrra~pf~~L~~ 449 (1490)
T PRK09751 371 QVGGVSKGLFFPR-TRRDLVDSAVIVECMFAGRLENLTPPHNPLDVLAQQTVAAAAMDALQVDEWYSRVRRAAPWKDLPR 449 (1490)
T ss_pred CCCCccEEEEEeC-cHHHHHhhHHHHHHHhcCCCCccCCCCChHHHHHHHHHHHHhcCCCCHHHHHHHhhccCCcccCCH
Confidence 8 44556664432 222211 11126788889999977776666899999999999888764221 12222
Q ss_pred CCHHHHHHHHHHCC----------ccccCCCC--Cc--c-cchhhhccCCCCCCccccccccCCCceEEEe-----ccCC
Q 002135 695 SGLSSGITTLKNRG----------YLSSDPSL--DS--S-AKIFEYIGHEKMPSHTISIRAIESERYEVID-----MQSN 754 (961)
Q Consensus 695 ~~~~~~l~~L~~~g----------~l~~~~~~--~~--~-~~~~~~~~~~~~p~~~v~lr~~~~~~~~v~d-----~~~~ 754 (961)
+.++.+++.|...+ .+..+... .. . .....+.+...+| +...|.|+- ..++
T Consensus 450 ~~f~~vl~~L~~~y~~~~~~~~~~ri~~d~~~~~l~~r~g~~~~~~~~ggtIp---------d~~~y~V~~~~~~~~~~~ 520 (1490)
T PRK09751 450 RVFDATLDMLSGRYPSGDFSAFRPKLVWNRETGILTARPGAQLLAVTSGGTIP---------DRGMYSVLLPEGEEQAGS 520 (1490)
T ss_pred HHHHHHHHHHhccccccccccccceeEEecCCCeEEEChHHHHHHHHcCCccC---------cCCeEEEEEccccccCCC
Confidence 35678888887521 11111110 00 0 0111111223344 345788862 2457
Q ss_pred ceeeecccchhhhhhccCcEEEEcCeEEEEEEEecCCCeEEEEEcCC
Q 002135 755 EVLEEIEESKAFFQVYEGAVYMHQGHTYLVKELNLSSKIALCQKADL 801 (961)
Q Consensus 755 ~~i~~~~~~~a~~~~~~gai~~~~g~~y~v~~~d~~~~~~~v~~~~~ 801 (961)
+.||++|+++++ ++-+|.+|+.+|++|+|++++. +.++|+++..
T Consensus 521 ~~vG~ldE~fv~-e~~~Gdvf~lgg~~Wri~~i~~--~~V~V~pa~g 564 (1490)
T PRK09751 521 RRVGELDEEMVY-ESRVNDIITLGATSWRIQQITR--DQVIVTPAPG 564 (1490)
T ss_pred ceeEEechHHHh-hCCCCCEEEECCcEEEEEEEEC--CEEEEEECCC
Confidence 899999999876 6899999999999999999985 7999999865
No 7
>PTZ00110 helicase; Provisional
Probab=100.00 E-value=2.5e-52 Score=496.91 Aligned_cols=388 Identities=18% Similarity=0.204 Sum_probs=303.1
Q ss_pred CCCCCCcccccccccccCCChHHHHHHHHccCCCCCceEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHH
Q 002135 183 SSTSSSHSFQRRCSDKSQLLPLEMVEHLRKGIGSQGQMVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAE 262 (961)
Q Consensus 183 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~~~~~~~~iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ 262 (961)
...++..+++|..++.+..++.+.++.+|+... -.+++..+.|.+..+|.++ +|++.++++|++.||++|+++|.+
T Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--i~~~~g~~~p~p~~~f~~~--~l~~~l~~~l~~~g~~~pt~iQ~~ 159 (545)
T PTZ00110 84 INLVPFEKNFYKEHPEVSALSSKEVDEIRKEKE--ITIIAGENVPKPVVSFEYT--SFPDYILKSLKNAGFTEPTPIQVQ 159 (545)
T ss_pred ccccchhhhcccCChhhhcCCHHHHHHHHHhcC--cEEecCCCCCcccCCHhhc--CCCHHHHHHHHHCCCCCCCHHHHH
Confidence 344556678888888888999999998887653 2345778899999999998 699999999999999999999999
Q ss_pred HHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC------CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccE-EE
Q 002135 263 SIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD------LSSSALYMFPTKALAQDQLRALLAMTKAFDASIDI-GV 335 (961)
Q Consensus 263 ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~------~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v-~~ 335 (961)
||+.+++|+|+|++||||||||++|++|++..+... .++.+|||+||+|||+|+.+.+.++....+ +.+ .+
T Consensus 160 aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~--i~~~~~ 237 (545)
T PTZ00110 160 GWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGASSK--IRNTVA 237 (545)
T ss_pred HHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHhcccC--ccEEEE
Confidence 999999999999999999999999999999887643 257899999999999999999999876554 444 45
Q ss_pred EcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-cc
Q 002135 336 YDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AF 414 (961)
Q Consensus 336 ~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~f 414 (961)
++|.....+...+..+++|+|+||++|.+++... ...+.++ ++|||||||++.+ +|
T Consensus 238 ~gg~~~~~q~~~l~~~~~IlVaTPgrL~d~l~~~----~~~l~~v-------------------~~lViDEAd~mld~gf 294 (545)
T PTZ00110 238 YGGVPKRGQIYALRRGVEILIACPGRLIDFLESN----VTNLRRV-------------------TYLVLDEADRMLDMGF 294 (545)
T ss_pred eCCCCHHHHHHHHHcCCCEEEECHHHHHHHHHcC----CCChhhC-------------------cEEEeehHHhhhhcch
Confidence 5666666666778888999999999998776321 1234455 9999999999986 46
Q ss_pred chHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHH-HHHHHcccCCeEEEecCCC--c--cceeEEEEeCCCcccccc
Q 002135 415 GCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPRE-HCMELANLSTLELIQNDGS--P--CAQKLFVLWNPTSCLRSV 489 (961)
Q Consensus 415 g~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e-~~~~L~~~~~~~~i~~~g~--p--~~~~~~~l~~p~~~~~~~ 489 (961)
..++..++..+ ..+.|++++|||++...+ .+..++..... .+..... . ...+..+
T Consensus 295 ~~~i~~il~~~--------~~~~q~l~~SAT~p~~v~~l~~~l~~~~~v-~i~vg~~~l~~~~~i~q~~----------- 354 (545)
T PTZ00110 295 EPQIRKIVSQI--------RPDRQTLMWSATWPKEVQSLARDLCKEEPV-HVNVGSLDLTACHNIKQEV----------- 354 (545)
T ss_pred HHHHHHHHHhC--------CCCCeEEEEEeCCCHHHHHHHHHHhccCCE-EEEECCCccccCCCeeEEE-----------
Confidence 66655554433 356799999999975543 33444432212 1111100 0 0000000
Q ss_pred ccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCH
Q 002135 490 LNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVA 569 (961)
Q Consensus 490 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~ 569 (961)
.......+...+..++..+...+.++||||++++.|+.+++.|+. .+..+..+||++++
T Consensus 355 -------------~~~~~~~k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~--------~g~~~~~ihg~~~~ 413 (545)
T PTZ00110 355 -------------FVVEEHEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRL--------DGWPALCIHGDKKQ 413 (545)
T ss_pred -------------EEEechhHHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHH--------cCCcEEEEECCCcH
Confidence 011122344556666666655678999999999999999988864 34467899999999
Q ss_pred HHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCC
Q 002135 570 EDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEG 640 (961)
Q Consensus 570 ~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~ 640 (961)
++|+.+++.|++|+.+|||||+++++|||+|+|++||+||+|.++++|+||+||+||.|+.|.+++++..+
T Consensus 414 ~eR~~il~~F~~G~~~ILVaTdv~~rGIDi~~v~~VI~~d~P~s~~~yvqRiGRtGR~G~~G~ai~~~~~~ 484 (545)
T PTZ00110 414 EERTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTPD 484 (545)
T ss_pred HHHHHHHHHHhcCCCcEEEEcchhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccccCCCCceEEEEECcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999877543
No 8
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.2e-52 Score=446.55 Aligned_cols=381 Identities=20% Similarity=0.247 Sum_probs=306.7
Q ss_pred ccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCC-CeEEEEcc
Q 002135 230 KAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLS-SSALYMFP 308 (961)
Q Consensus 230 ~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~-~~aLvl~P 308 (961)
..+|.++ +++|++.++++..||+.|+++|.+|||.++.|+|+|+.|.||||||.+|.||++++|++++. ..+|+++|
T Consensus 60 ~~sf~dL--gv~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtP 137 (476)
T KOG0330|consen 60 FKSFADL--GVHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTP 137 (476)
T ss_pred hcchhhc--CcCHHHHHHHHHhCcCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecC
Confidence 4568888 89999999999999999999999999999999999999999999999999999999998764 68999999
Q ss_pred cHHHHHHHHHHHHHhHhhCCCCccEE-EEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhc
Q 002135 309 TKALAQDQLRALLAMTKAFDASIDIG-VYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSL 387 (961)
Q Consensus 309 traLa~qq~~~l~~l~~~~~~~i~v~-~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~ 387 (961)
||+||.|+.+.+..+++.++ ++++ +.+|.....+...+.+.++|+|+||++|.+++.... ...++++
T Consensus 138 tRELA~QI~e~fe~Lg~~ig--lr~~~lvGG~~m~~q~~~L~kkPhilVaTPGrL~dhl~~Tk---gf~le~l------- 205 (476)
T KOG0330|consen 138 TRELAQQIAEQFEALGSGIG--LRVAVLVGGMDMMLQANQLSKKPHILVATPGRLWDHLENTK---GFSLEQL------- 205 (476)
T ss_pred cHHHHHHHHHHHHHhccccC--eEEEEEecCchHHHHHHHhhcCCCEEEeCcHHHHHHHHhcc---CccHHHh-------
Confidence 99999999999999988766 5554 455666677778888999999999999988763221 1235555
Q ss_pred chhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEe
Q 002135 388 VTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQ 466 (961)
Q Consensus 388 ~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~ 466 (961)
+++|+||||++.+ +|+..+..||+.+. ...|.+++|||++.-....... ...++.-+.
T Consensus 206 ------------k~LVlDEADrlLd~dF~~~ld~ILk~ip--------~erqt~LfsATMt~kv~kL~ra-sl~~p~~v~ 264 (476)
T KOG0330|consen 206 ------------KFLVLDEADRLLDMDFEEELDYILKVIP--------RERQTFLFSATMTKKVRKLQRA-SLDNPVKVA 264 (476)
T ss_pred ------------HHHhhchHHhhhhhhhHHHHHHHHHhcC--------ccceEEEEEeecchhhHHHHhh-ccCCCeEEe
Confidence 9999999999987 59999999888775 3568899999998544333321 122222222
Q ss_pred cCCCcc---ceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHH
Q 002135 467 NDGSPC---AQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLS 543 (961)
Q Consensus 467 ~~g~p~---~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~ 543 (961)
....-. ..+..++ ......+...+.+++.+. .|.++||||++...+..++-
T Consensus 265 ~s~ky~tv~~lkQ~yl------------------------fv~~k~K~~yLV~ll~e~--~g~s~iVF~~t~~tt~~la~ 318 (476)
T KOG0330|consen 265 VSSKYQTVDHLKQTYL------------------------FVPGKDKDTYLVYLLNEL--AGNSVIVFCNTCNTTRFLAL 318 (476)
T ss_pred ccchhcchHHhhhheE------------------------eccccccchhHHHHHHhh--cCCcEEEEEeccchHHHHHH
Confidence 211100 0111111 222345556677777765 46799999999999999988
Q ss_pred HHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhcc
Q 002135 544 YTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGR 623 (961)
Q Consensus 544 ~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GR 623 (961)
.|+. ++..+..+||.|+++.|-.+++.|++|...||||||+++||+|||.||+|||||+|.+..+|+||+||
T Consensus 319 ~L~~--------lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVaSRGLDip~Vd~VVNyDiP~~skDYIHRvGR 390 (476)
T KOG0330|consen 319 LLRN--------LGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGR 390 (476)
T ss_pred HHHh--------cCcceecccchhhHHHHHHHHHHHhccCCcEEEecchhcccCCCCCceEEEecCCCCcHHHHHHHccc
Confidence 8876 66778899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhc
Q 002135 624 SGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALE 681 (961)
Q Consensus 624 AGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e 681 (961)
+||+|++|.+|.+++. .|....+.+|..+++..+...++-++...+...+..|..+
T Consensus 391 taRaGrsG~~ItlVtq--yDve~~qrIE~~~gkkl~~~~~~~~~~~~l~erv~eA~~~ 446 (476)
T KOG0330|consen 391 TARAGRSGKAITLVTQ--YDVELVQRIEHALGKKLPEYKVDKNEVMSLNERVAEAQKE 446 (476)
T ss_pred ccccCCCcceEEEEeh--hhhHHHHHHHHHHhcCCCccCcchHHHHHHHHHHHHHHHH
Confidence 9999999999988865 6666678899999988877777776666666666554433
No 9
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.6e-52 Score=473.27 Aligned_cols=346 Identities=20% Similarity=0.284 Sum_probs=278.4
Q ss_pred ccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhc-------CCCCeEE
Q 002135 232 VLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSH-------DLSSSAL 304 (961)
Q Consensus 232 ~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~-------~~~~~aL 304 (961)
.|.++ +|++++..+|+..||+.|+|+|+++|+.++.|+|++..|.|||||||+|++|++.++.. ..++++|
T Consensus 92 ~f~~~--~ls~~~~~~lk~~g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vL 169 (519)
T KOG0331|consen 92 AFQEL--GLSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVL 169 (519)
T ss_pred hhhcc--cccHHHHHHHHhcCCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEE
Confidence 68887 69999999999999999999999999999999999999999999999999999999875 2268899
Q ss_pred EEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhh
Q 002135 305 YMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIA 384 (961)
Q Consensus 305 vl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~ 384 (961)
+|+||||||.|+.+.+.++...+.. ..+++|+|.....|...+..+.+|+|+||++|.++|- .
T Consensus 170 VL~PTRELA~QV~~~~~~~~~~~~~-~~~cvyGG~~~~~Q~~~l~~gvdiviaTPGRl~d~le----~------------ 232 (519)
T KOG0331|consen 170 VLAPTRELAVQVQAEAREFGKSLRL-RSTCVYGGAPKGPQLRDLERGVDVVIATPGRLIDLLE----E------------ 232 (519)
T ss_pred EEcCcHHHHHHHHHHHHHHcCCCCc-cEEEEeCCCCccHHHHHHhcCCcEEEeCChHHHHHHH----c------------
Confidence 9999999999999999999887662 3678888888889999999999999999999988762 1
Q ss_pred hhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCe
Q 002135 385 FSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTL 462 (961)
Q Consensus 385 ~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~ 462 (961)
+...++++.|+|+||||+|++ +|.+++..|+..+. ....|.++.|||++.-. .++..+.+ . .
T Consensus 233 -------g~~~l~~v~ylVLDEADrMldmGFe~qI~~Il~~i~-------~~~rQtlm~saTwp~~v~~lA~~fl~-~-~ 296 (519)
T KOG0331|consen 233 -------GSLNLSRVTYLVLDEADRMLDMGFEPQIRKILSQIP-------RPDRQTLMFSATWPKEVRQLAEDFLN-N-P 296 (519)
T ss_pred -------CCccccceeEEEeccHHhhhccccHHHHHHHHHhcC-------CCcccEEEEeeeccHHHHHHHHHHhc-C-c
Confidence 122334459999999999998 69999999888773 34458999999997654 34444555 2 2
Q ss_pred EEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHH-HCCCcEEEEecChHHHHHH
Q 002135 463 ELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMV-QHGLRCIAFCRSRKLCELV 541 (961)
Q Consensus 463 ~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~-~~g~k~IVF~~sr~~ae~l 541 (961)
..+...+..... ......+... ......+...+..++.... ..+.|+||||+|++.|+++
T Consensus 297 ~~i~ig~~~~~~------------------a~~~i~qive-~~~~~~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l 357 (519)
T KOG0331|consen 297 IQINVGNKKELK------------------ANHNIRQIVE-VCDETAKLRKLGKLLEDISSDSEGKVIIFCETKRTCDEL 357 (519)
T ss_pred eEEEecchhhhh------------------hhcchhhhhh-hcCHHHHHHHHHHHHHHHhccCCCcEEEEecchhhHHHH
Confidence 222221110000 0000011111 1112344455566666554 3456999999999999999
Q ss_pred HHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHh
Q 002135 542 LSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQA 621 (961)
Q Consensus 542 ~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~ 621 (961)
+..++. ...++.++||+.++++|..+++.|++|+..||||||++++|+|||+|++|||||+|.++++|+||+
T Consensus 358 ~~~l~~--------~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGLDi~dV~lVInydfP~~vEdYVHRi 429 (519)
T KOG0331|consen 358 ARNLRR--------KGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDVPDVDLVINYDFPNNVEDYVHRI 429 (519)
T ss_pred HHHHHh--------cCcceeeecccccHHHHHHHHHhcccCCcceEEEcccccccCCCccccEEEeCCCCCCHHHHHhhc
Confidence 998876 335789999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCceEEEEeeC
Q 002135 622 GRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 622 GRAGR~g~~g~~i~l~~~ 639 (961)
||+||+|+.|.++.+...
T Consensus 430 GRTGRa~~~G~A~tfft~ 447 (519)
T KOG0331|consen 430 GRTGRAGKKGTAITFFTS 447 (519)
T ss_pred CccccCCCCceEEEEEeH
Confidence 999999999999987753
No 10
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=5e-51 Score=481.24 Aligned_cols=356 Identities=18% Similarity=0.205 Sum_probs=271.6
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC--------CCe
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL--------SSS 302 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~--------~~~ 302 (961)
..|.++ +|++.++++|.++||..||+||++||+.+++|+|+|++||||||||++|++|+++.+.+++ ..+
T Consensus 87 ~~f~~~--~l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~ 164 (475)
T PRK01297 87 TRFHDF--NLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPR 164 (475)
T ss_pred CCHhHC--CCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCce
Confidence 346666 7999999999999999999999999999999999999999999999999999999987654 468
Q ss_pred EEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCc-HHHHHHH-hcCCcEEEeChhHHHHhhcCCCchhHHHhhhh
Q 002135 303 ALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTT-QKDRMWL-RDNARLLITNPDMLHMSILPYHGQFSRILSNL 380 (961)
Q Consensus 303 aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~-~~~r~~l-~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l 380 (961)
+|||+||++|++|+.+.++.+....+ +.+..+.|+.. ..+...+ ...++|+|+||++|...+ ..|..+++++
T Consensus 165 aLil~PtreLa~Q~~~~~~~l~~~~~--~~v~~~~gg~~~~~~~~~~~~~~~~Iiv~TP~~Ll~~~----~~~~~~l~~l 238 (475)
T PRK01297 165 ALIIAPTRELVVQIAKDAAALTKYTG--LNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFN----QRGEVHLDMV 238 (475)
T ss_pred EEEEeCcHHHHHHHHHHHHHhhccCC--CEEEEEEccCChHHHHHHHhCCCCCEEEECHHHHHHHH----HcCCcccccC
Confidence 99999999999999999999877654 55666666543 3333444 456899999999997653 3445566676
Q ss_pred hhhhhhcchhhhhhhhcceeEEEEecchhhhcc-cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCCh-HHHHHHHcc
Q 002135 381 RLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA-FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANP-REHCMELAN 458 (961)
Q Consensus 381 ~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~-fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~-~e~~~~L~~ 458 (961)
++|||||+|++.+. |..++..++ +.+.. ....|+|++|||+++. .+.+..+..
T Consensus 239 -------------------~~lViDEah~l~~~~~~~~l~~i~----~~~~~--~~~~q~i~~SAT~~~~~~~~~~~~~~ 293 (475)
T PRK01297 239 -------------------EVMVLDEADRMLDMGFIPQVRQII----RQTPR--KEERQTLLFSATFTDDVMNLAKQWTT 293 (475)
T ss_pred -------------------ceEEechHHHHHhcccHHHHHHHH----HhCCC--CCCceEEEEEeecCHHHHHHHHHhcc
Confidence 99999999999762 443333332 22211 2356999999998643 344444443
Q ss_pred cCCeEEEecCCCccc---eeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHC--CCcEEEEec
Q 002135 459 LSTLELIQNDGSPCA---QKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQH--GLRCIAFCR 533 (961)
Q Consensus 459 ~~~~~~i~~~g~p~~---~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~--g~k~IVF~~ 533 (961)
.. ..+........ ....+. .....++. .++..++.. ..++||||+
T Consensus 294 ~~--~~v~~~~~~~~~~~~~~~~~------------------------~~~~~~k~----~~l~~ll~~~~~~~~IVF~~ 343 (475)
T PRK01297 294 DP--AIVEIEPENVASDTVEQHVY------------------------AVAGSDKY----KLLYNLVTQNPWERVMVFAN 343 (475)
T ss_pred CC--EEEEeccCcCCCCcccEEEE------------------------EecchhHH----HHHHHHHHhcCCCeEEEEeC
Confidence 22 22211111000 000000 00011122 233333333 359999999
Q ss_pred ChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCC
Q 002135 534 SRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGS 613 (961)
Q Consensus 534 sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s 613 (961)
+++.|+.+++.|.. .+..+..+||++++++|+++++.|++|++++||||+++++|||||++++||++++|.|
T Consensus 344 s~~~~~~l~~~L~~--------~~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l~~GIDi~~v~~VI~~~~P~s 415 (475)
T PRK01297 344 RKDEVRRIEERLVK--------DGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPED 415 (475)
T ss_pred CHHHHHHHHHHHHH--------cCCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEccccccCCcccCCCEEEEeCCCCC
Confidence 99999999988754 3456889999999999999999999999999999999999999999999999999999
Q ss_pred HhhHHHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCc
Q 002135 614 IASLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIE 659 (961)
Q Consensus 614 ~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie 659 (961)
+.+|+||+|||||.|++|.+++++.. .|++++.+++++++.+++
T Consensus 416 ~~~y~Qr~GRaGR~g~~g~~i~~~~~--~d~~~~~~~~~~~~~~~~ 459 (475)
T PRK01297 416 PDDYVHRIGRTGRAGASGVSISFAGE--DDAFQLPEIEELLGRKIS 459 (475)
T ss_pred HHHHHHhhCccCCCCCCceEEEEecH--HHHHHHHHHHHHhCCCCc
Confidence 99999999999999999999988754 489999999999998764
No 11
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=100.00 E-value=8.6e-51 Score=482.26 Aligned_cols=380 Identities=19% Similarity=0.231 Sum_probs=289.1
Q ss_pred cccccccccc-CCChHHHHHHHHccCCCCCceEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHh
Q 002135 190 SFQRRCSDKS-QLLPLEMVEHLRKGIGSQGQMVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASL 268 (961)
Q Consensus 190 ~~~~~~~~~~-~~~~~~~~~~lr~~~~~~~~iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il 268 (961)
+++|-.++.. ..+..+.++.+|+... ..+.....|.+..+|.++ +|++.+.+.|++.||..|+|+|.+||+.++
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~r~~~~---i~~~g~~~p~pi~~f~~~--~l~~~l~~~L~~~g~~~ptpiQ~~aip~il 156 (518)
T PLN00206 82 ECFYVRDPGSTSGLSSSQAELLRRKLE---IHVKGEAVPPPILSFSSC--GLPPKLLLNLETAGYEFPTPIQMQAIPAAL 156 (518)
T ss_pred CcCCccCcchhccCCHHHHHHHHHHCC---CEecCCCCCchhcCHHhC--CCCHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 3444443433 3377888888998763 345667788888899988 699999999999999999999999999999
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhc--------CCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCC
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSH--------DLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDT 340 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~--------~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~ 340 (961)
+|+|++++||||||||++|++|++..+.. ..++++|||+||++||.|+.+.++.+...++. ..+.+++|+.
T Consensus 157 ~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~-~~~~~~gG~~ 235 (518)
T PLN00206 157 SGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPF-KTALVVGGDA 235 (518)
T ss_pred cCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHHhCCCCc-eEEEEECCcc
Confidence 99999999999999999999999988753 23578999999999999999999888765542 2345667777
Q ss_pred cHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHH
Q 002135 341 TQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTA 419 (961)
Q Consensus 341 ~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~ 419 (961)
...+...+..+++|+|+||++|.+++... ...++++ ++|||||||++.+ +|..++.
T Consensus 236 ~~~q~~~l~~~~~IiV~TPgrL~~~l~~~----~~~l~~v-------------------~~lViDEad~ml~~gf~~~i~ 292 (518)
T PLN00206 236 MPQQLYRIQQGVELIVGTPGRLIDLLSKH----DIELDNV-------------------SVLVLDEVDCMLERGFRDQVM 292 (518)
T ss_pred hHHHHHHhcCCCCEEEECHHHHHHHHHcC----Cccchhe-------------------eEEEeecHHHHhhcchHHHHH
Confidence 77777778888999999999998776322 2234444 9999999999986 4666655
Q ss_pred HHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecC--CCccc-eeEEEEeCCCccccccccccccc
Q 002135 420 LILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQND--GSPCA-QKLFVLWNPTSCLRSVLNKSQTD 496 (961)
Q Consensus 420 ~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~--g~p~~-~~~~~l~~p~~~~~~~~~~~~~~ 496 (961)
.+++.+ +++|++++|||+++..+.+...... +...+... ..+.. .+....+.
T Consensus 293 ~i~~~l---------~~~q~l~~SATl~~~v~~l~~~~~~-~~~~i~~~~~~~~~~~v~q~~~~~--------------- 347 (518)
T PLN00206 293 QIFQAL---------SQPQVLLFSATVSPEVEKFASSLAK-DIILISIGNPNRPNKAVKQLAIWV--------------- 347 (518)
T ss_pred HHHHhC---------CCCcEEEEEeeCCHHHHHHHHHhCC-CCEEEEeCCCCCCCcceeEEEEec---------------
Confidence 544332 3579999999998765444332221 22223221 11111 11111111
Q ss_pred cchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHH
Q 002135 497 MDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIE 576 (961)
Q Consensus 497 ~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie 576 (961)
....+...+..++........++||||+++..|+.+++.+... .+..+..+||++++++|..++
T Consensus 348 ---------~~~~k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~~-------~g~~~~~~Hg~~~~~eR~~il 411 (518)
T PLN00206 348 ---------ETKQKKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVV-------TGLKALSIHGEKSMKERREVM 411 (518)
T ss_pred ---------cchhHHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhhc-------cCcceEEeeCCCCHHHHHHHH
Confidence 1112233344444433333468999999999999998877541 234688999999999999999
Q ss_pred HHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeC
Q 002135 577 RDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 577 ~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
+.|++|+++|||||+++++|||+|++++||+||+|.++.+|+||+|||||.|..|.+++++..
T Consensus 412 ~~Fr~G~~~ILVaTdvl~rGiDip~v~~VI~~d~P~s~~~yihRiGRaGR~g~~G~ai~f~~~ 474 (518)
T PLN00206 412 KSFLVGEVPVIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFVNE 474 (518)
T ss_pred HHHHCCCCCEEEEecHhhccCCcccCCEEEEeCCCCCHHHHHHhccccccCCCCeEEEEEEch
Confidence 999999999999999999999999999999999999999999999999999999999987754
No 12
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=5.7e-49 Score=457.56 Aligned_cols=360 Identities=19% Similarity=0.222 Sum_probs=268.3
Q ss_pred ccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC--------CC
Q 002135 230 KAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL--------SS 301 (961)
Q Consensus 230 ~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~--------~~ 301 (961)
..+|.++ +|++.++++|++.||..|+++|.+||+.+++|+|++++||||||||++|++|+++.+...+ +.
T Consensus 7 ~~~f~~~--~l~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~ 84 (423)
T PRK04837 7 EQKFSDF--ALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQP 84 (423)
T ss_pred CCCHhhC--CCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCc
Confidence 3578888 6999999999999999999999999999999999999999999999999999999886432 36
Q ss_pred eEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCC-cHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhh
Q 002135 302 SALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDT-TQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNL 380 (961)
Q Consensus 302 ~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~-~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l 380 (961)
++|||+||++||.|+++.+..+....+ +.+..+.|+. ...+...+.++++|+|+||++|.+++... ...+.++
T Consensus 85 ~~lil~PtreLa~Qi~~~~~~l~~~~~--~~v~~~~gg~~~~~~~~~l~~~~~IlV~TP~~l~~~l~~~----~~~l~~v 158 (423)
T PRK04837 85 RALIMAPTRELAVQIHADAEPLAQATG--LKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQN----HINLGAI 158 (423)
T ss_pred eEEEECCcHHHHHHHHHHHHHHhccCC--ceEEEEECCCCHHHHHHHhcCCCCEEEECHHHHHHHHHcC----Ccccccc
Confidence 899999999999999999999887655 5666555554 45555667778999999999997765211 1123444
Q ss_pred hhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHH-HHHHcc
Q 002135 381 RLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREH-CMELAN 458 (961)
Q Consensus 381 ~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~-~~~L~~ 458 (961)
++|||||||++.+ +|..++..+++.+.. ....+.+++|||++..... ......
T Consensus 159 -------------------~~lViDEad~l~~~~f~~~i~~i~~~~~~------~~~~~~~l~SAT~~~~~~~~~~~~~~ 213 (423)
T PRK04837 159 -------------------QVVVLDEADRMFDLGFIKDIRWLFRRMPP------ANQRLNMLFSATLSYRVRELAFEHMN 213 (423)
T ss_pred -------------------cEEEEecHHHHhhcccHHHHHHHHHhCCC------ccceeEEEEeccCCHHHHHHHHHHCC
Confidence 9999999999976 466666555544321 1234678899999754432 222222
Q ss_pred cCCeEEEecCCCcc---ceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecCh
Q 002135 459 LSTLELIQNDGSPC---AQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSR 535 (961)
Q Consensus 459 ~~~~~~i~~~g~p~---~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr 535 (961)
. ...+....... ..+...+ ......+...+..++.. ....++||||+++
T Consensus 214 ~--p~~i~v~~~~~~~~~i~~~~~------------------------~~~~~~k~~~l~~ll~~--~~~~~~lVF~~t~ 265 (423)
T PRK04837 214 N--PEYVEVEPEQKTGHRIKEELF------------------------YPSNEEKMRLLQTLIEE--EWPDRAIIFANTK 265 (423)
T ss_pred C--CEEEEEcCCCcCCCceeEEEE------------------------eCCHHHHHHHHHHHHHh--cCCCeEEEEECCH
Confidence 2 22222111100 0000000 00011122222222221 1356899999999
Q ss_pred HHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHh
Q 002135 536 KLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIA 615 (961)
Q Consensus 536 ~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~ 615 (961)
+.|+.+++.|+. .+..+..+||++++++|.+++++|++|++++||||+++++|||+|++++||+||+|.+.+
T Consensus 266 ~~~~~l~~~L~~--------~g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv~~rGiDip~v~~VI~~d~P~s~~ 337 (423)
T PRK04837 266 HRCEEIWGHLAA--------DGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCE 337 (423)
T ss_pred HHHHHHHHHHHh--------CCCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEechhhcCCCccccCEEEEeCCCCchh
Confidence 999999988865 355789999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcc
Q 002135 616 SLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIEC 660 (961)
Q Consensus 616 sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~ 660 (961)
+|+||+||+||.|+.|.+++++.+ .+.......+..+...++.
T Consensus 338 ~yiqR~GR~gR~G~~G~ai~~~~~--~~~~~~~~i~~~~~~~~~~ 380 (423)
T PRK04837 338 DYVHRIGRTGRAGASGHSISLACE--EYALNLPAIETYIGHSIPV 380 (423)
T ss_pred heEeccccccCCCCCeeEEEEeCH--HHHHHHHHHHHHhCCCCCC
Confidence 999999999999999999977643 4445555566666665543
No 13
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=1.9e-48 Score=465.09 Aligned_cols=361 Identities=18% Similarity=0.217 Sum_probs=271.4
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC--------CCe
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL--------SSS 302 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~--------~~~ 302 (961)
.+|.++ +|++.++++|++.||+.|+++|.++|+.+++|+|+|++||||||||++|++|+++.+..++ ..+
T Consensus 9 ~~f~~l--~l~~~l~~~L~~~g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~r 86 (572)
T PRK04537 9 LTFSSF--DLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPR 86 (572)
T ss_pred CChhhc--CCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCce
Confidence 458888 6999999999999999999999999999999999999999999999999999999886432 368
Q ss_pred EEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcH-HHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhh
Q 002135 303 ALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQ-KDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLR 381 (961)
Q Consensus 303 aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~-~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~ 381 (961)
+|||+||++|+.|+++.+.++....+ +.+..+.|.... .++..+.++++|+|+||++|.+.+... . ...+.++
T Consensus 87 aLIl~PTreLa~Qi~~~~~~l~~~~~--i~v~~l~Gg~~~~~q~~~l~~~~dIiV~TP~rL~~~l~~~-~--~~~l~~v- 160 (572)
T PRK04537 87 ALILAPTRELAIQIHKDAVKFGADLG--LRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQH-K--VVSLHAC- 160 (572)
T ss_pred EEEEeCcHHHHHHHHHHHHHHhccCC--ceEEEEECCCCHHHHHHHHhCCCCEEEECHHHHHHHHHhc-c--ccchhhe-
Confidence 99999999999999999999877654 667766666554 445566777999999999998765211 0 1123444
Q ss_pred hhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHccc
Q 002135 382 LIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANL 459 (961)
Q Consensus 382 ~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~ 459 (961)
++|||||||+|.+ +|..++..+++.+.. ....|++++|||+++.. +.....+..
T Consensus 161 ------------------~~lViDEAh~lld~gf~~~i~~il~~lp~------~~~~q~ll~SATl~~~v~~l~~~~l~~ 216 (572)
T PRK04537 161 ------------------EICVLDEADRMFDLGFIKDIRFLLRRMPE------RGTRQTLLFSATLSHRVLELAYEHMNE 216 (572)
T ss_pred ------------------eeeEecCHHHHhhcchHHHHHHHHHhccc------ccCceEEEEeCCccHHHHHHHHHHhcC
Confidence 9999999999986 477777766665532 12569999999997653 223333322
Q ss_pred CCeEEEecCCCc-cceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHH
Q 002135 460 STLELIQNDGSP-CAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLC 538 (961)
Q Consensus 460 ~~~~~i~~~g~p-~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~a 538 (961)
.....+...... ...+..+.. .....+...+..++.. ..+.++||||+|++.|
T Consensus 217 p~~i~v~~~~~~~~~i~q~~~~------------------------~~~~~k~~~L~~ll~~--~~~~k~LVF~nt~~~a 270 (572)
T PRK04537 217 PEKLVVETETITAARVRQRIYF------------------------PADEEKQTLLLGLLSR--SEGARTMVFVNTKAFV 270 (572)
T ss_pred CcEEEeccccccccceeEEEEe------------------------cCHHHHHHHHHHHHhc--ccCCcEEEEeCCHHHH
Confidence 111111111100 001111110 0011122222222221 2467999999999999
Q ss_pred HHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHH
Q 002135 539 ELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLW 618 (961)
Q Consensus 539 e~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~ 618 (961)
+.+++.|.+ .+..+..+||++++.+|.++++.|++|+++|||||+++++|||+|++++|||||+|.+..+|+
T Consensus 271 e~l~~~L~~--------~g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv~arGIDip~V~~VInyd~P~s~~~yv 342 (572)
T PRK04537 271 ERVARTLER--------HGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDAEDYV 342 (572)
T ss_pred HHHHHHHHH--------cCCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehhhhcCCCccCCCEEEEcCCCCCHHHHh
Confidence 999988865 345799999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCc
Q 002135 619 QQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIE 659 (961)
Q Consensus 619 QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie 659 (961)
||+||+||.|+.|.+++++.. .+...+...+..+...++
T Consensus 343 qRiGRaGR~G~~G~ai~~~~~--~~~~~l~~i~~~~~~~~~ 381 (572)
T PRK04537 343 HRIGRTARLGEEGDAISFACE--RYAMSLPDIEAYIEQKIP 381 (572)
T ss_pred hhhcccccCCCCceEEEEecH--HHHHHHHHHHHHHcCCCC
Confidence 999999999999999987643 455556666666665554
No 14
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=100.00 E-value=3.7e-48 Score=455.52 Aligned_cols=360 Identities=18% Similarity=0.220 Sum_probs=275.1
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC-CCeEEEEccc
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL-SSSALYMFPT 309 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~-~~~aLvl~Pt 309 (961)
.+|.++ +|++.+.++|.++||..|+|+|.+||+.+++|+|++++||||||||++|.+|+++.+.... ..++||++||
T Consensus 4 ~~f~~l--~l~~~l~~~l~~~g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~Pt 81 (460)
T PRK11776 4 TAFSTL--PLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPT 81 (460)
T ss_pred CChhhc--CCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCC
Confidence 468888 5999999999999999999999999999999999999999999999999999999986543 4589999999
Q ss_pred HHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcH-HHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcc
Q 002135 310 KALAQDQLRALLAMTKAFDASIDIGVYDGDTTQ-KDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLV 388 (961)
Q Consensus 310 raLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~-~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~ 388 (961)
++||.|+.+.++.+..... ++.+..+.|+.+. .+...+..+++|+|+||++|.+++.. ....++++
T Consensus 82 reLa~Q~~~~~~~~~~~~~-~~~v~~~~Gg~~~~~~~~~l~~~~~IvV~Tp~rl~~~l~~----~~~~l~~l-------- 148 (460)
T PRK11776 82 RELADQVAKEIRRLARFIP-NIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRK----GTLDLDAL-------- 148 (460)
T ss_pred HHHHHHHHHHHHHHHhhCC-CcEEEEEECCCChHHHHHHhcCCCCEEEEChHHHHHHHHc----CCccHHHC--------
Confidence 9999999999998876543 3667777776654 45566777899999999999876532 12235555
Q ss_pred hhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHH-HHHHcccCCeEEEe
Q 002135 389 TTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREH-CMELANLSTLELIQ 466 (961)
Q Consensus 389 ~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~-~~~L~~~~~~~~i~ 466 (961)
++||+||||++.+ +|...+..++..+ ....|++++|||+++.... ...+........+.
T Consensus 149 -----------~~lViDEad~~l~~g~~~~l~~i~~~~--------~~~~q~ll~SAT~~~~~~~l~~~~~~~~~~i~~~ 209 (460)
T PRK11776 149 -----------NTLVLDEADRMLDMGFQDAIDAIIRQA--------PARRQTLLFSATYPEGIAAISQRFQRDPVEVKVE 209 (460)
T ss_pred -----------CEEEEECHHHHhCcCcHHHHHHHHHhC--------CcccEEEEEEecCcHHHHHHHHHhcCCCEEEEEC
Confidence 9999999999986 4666655554433 3456999999999765433 33333322111111
Q ss_pred cCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHH
Q 002135 467 NDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTR 546 (961)
Q Consensus 467 ~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~ 546 (961)
...........+.. .....+...+..++.. ..+.++||||++++.|+.+++.|+
T Consensus 210 ~~~~~~~i~~~~~~------------------------~~~~~k~~~l~~ll~~--~~~~~~lVF~~t~~~~~~l~~~L~ 263 (460)
T PRK11776 210 STHDLPAIEQRFYE------------------------VSPDERLPALQRLLLH--HQPESCVVFCNTKKECQEVADALN 263 (460)
T ss_pred cCCCCCCeeEEEEE------------------------eCcHHHHHHHHHHHHh--cCCCceEEEECCHHHHHHHHHHHH
Confidence 11111111111110 0011223333333322 134689999999999999999886
Q ss_pred HHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCC
Q 002135 547 EILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGR 626 (961)
Q Consensus 547 ~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR 626 (961)
+ .+..+..+||++++.+|+.+++.|++|++++||||+++++|||+|++++||++|+|.+..+|+||+||+||
T Consensus 264 ~--------~~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~~rGiDi~~v~~VI~~d~p~~~~~yiqR~GRtGR 335 (460)
T PRK11776 264 A--------QGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGR 335 (460)
T ss_pred h--------CCCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEecccccccchhcCCeEEEecCCCCHhHhhhhcccccC
Confidence 6 34578999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCceEEEEeeCCcchhHHHhchHHhhcCCCcc
Q 002135 627 RERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIEC 660 (961)
Q Consensus 627 ~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~ 660 (961)
.|+.|.+++++.. .|.+..+.+++.++..++.
T Consensus 336 ~g~~G~ai~l~~~--~e~~~~~~i~~~~~~~~~~ 367 (460)
T PRK11776 336 AGSKGLALSLVAP--EEMQRANAIEDYLGRKLNW 367 (460)
T ss_pred CCCcceEEEEEch--hHHHHHHHHHHHhCCCCce
Confidence 9999999987743 4666677777777766544
No 15
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=100.00 E-value=5e-48 Score=453.03 Aligned_cols=358 Identities=19% Similarity=0.217 Sum_probs=269.4
Q ss_pred ccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC-------CCeEE
Q 002135 232 VLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL-------SSSAL 304 (961)
Q Consensus 232 ~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~-------~~~aL 304 (961)
+|.++ +|++.+.++|.+.||..|+++|.+||+.+++|+|+|++||||||||++|++|+++.+.... ..++|
T Consensus 2 ~f~~l--~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aL 79 (456)
T PRK10590 2 SFDSL--GLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRAL 79 (456)
T ss_pred CHHHc--CCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEE
Confidence 46777 6999999999999999999999999999999999999999999999999999999986532 24799
Q ss_pred EEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCC-CcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhh
Q 002135 305 YMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGD-TTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLI 383 (961)
Q Consensus 305 vl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd-~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~ 383 (961)
||+||++||.|+.+.+..+....+ +.+....|+ ....+...+..+++|+|+||++|.+.+... ...++++
T Consensus 80 il~PtreLa~Qi~~~~~~~~~~~~--~~~~~~~gg~~~~~~~~~l~~~~~IiV~TP~rL~~~~~~~----~~~l~~v--- 150 (456)
T PRK10590 80 ILTPTRELAAQIGENVRDYSKYLN--IRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDLEHQN----AVKLDQV--- 150 (456)
T ss_pred EEeCcHHHHHHHHHHHHHHhccCC--CEEEEEECCcCHHHHHHHHcCCCcEEEEChHHHHHHHHcC----Ccccccc---
Confidence 999999999999999999877654 444444444 444555566778999999999997654211 1124444
Q ss_pred hhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCC
Q 002135 384 AFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLST 461 (961)
Q Consensus 384 ~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~ 461 (961)
++|||||||++.+ +|...+..++..+ ....|++++|||+++.. +...++.....
T Consensus 151 ----------------~~lViDEah~ll~~~~~~~i~~il~~l--------~~~~q~l~~SAT~~~~~~~l~~~~~~~~~ 206 (456)
T PRK10590 151 ----------------EILVLDEADRMLDMGFIHDIRRVLAKL--------PAKRQNLLFSATFSDDIKALAEKLLHNPL 206 (456)
T ss_pred ----------------eEEEeecHHHHhccccHHHHHHHHHhC--------CccCeEEEEeCCCcHHHHHHHHHHcCCCe
Confidence 9999999999986 3555544443332 34568999999998653 44445544321
Q ss_pred eEEEecCC-CccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHC--CCcEEEEecChHHH
Q 002135 462 LELIQNDG-SPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQH--GLRCIAFCRSRKLC 538 (961)
Q Consensus 462 ~~~i~~~g-~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~--g~k~IVF~~sr~~a 538 (961)
...+.... ........+.. ... .....++..+... ..++||||+++..|
T Consensus 207 ~i~~~~~~~~~~~i~~~~~~------------------------~~~----~~k~~~l~~l~~~~~~~~~lVF~~t~~~~ 258 (456)
T PRK10590 207 EIEVARRNTASEQVTQHVHF------------------------VDK----KRKRELLSQMIGKGNWQQVLVFTRTKHGA 258 (456)
T ss_pred EEEEecccccccceeEEEEE------------------------cCH----HHHHHHHHHHHHcCCCCcEEEEcCcHHHH
Confidence 11111110 00011111100 000 1112334444433 36899999999999
Q ss_pred HHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHH
Q 002135 539 ELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLW 618 (961)
Q Consensus 539 e~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~ 618 (961)
+.+++.|.. .+..+..+||++++++|.++++.|++|+++|||||+++++|||+|+|++||||++|.+..+|+
T Consensus 259 ~~l~~~L~~--------~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTdv~~rGiDip~v~~VI~~~~P~~~~~yv 330 (456)
T PRK10590 259 NHLAEQLNK--------DGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNYELPNVPEDYV 330 (456)
T ss_pred HHHHHHHHH--------CCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEccHHhcCCCcccCCEEEEeCCCCCHHHhh
Confidence 999988865 345688999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccc
Q 002135 619 QQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCH 662 (961)
Q Consensus 619 QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~ 662 (961)
||+|||||.|..|.+++++.. .|..+++.++..+..+++...
T Consensus 331 qR~GRaGR~g~~G~ai~l~~~--~d~~~~~~ie~~l~~~~~~~~ 372 (456)
T PRK10590 331 HRIGRTGRAAATGEALSLVCV--DEHKLLRDIEKLLKKEIPRIA 372 (456)
T ss_pred hhccccccCCCCeeEEEEecH--HHHHHHHHHHHHhcCCCcccc
Confidence 999999999999999987754 455667778888777664443
No 16
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=100.00 E-value=2.8e-48 Score=425.65 Aligned_cols=364 Identities=18% Similarity=0.186 Sum_probs=291.3
Q ss_pred EeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC--
Q 002135 222 HVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL-- 299 (961)
Q Consensus 222 ~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~-- 299 (961)
....+|.+...|.+. +|+.++++.+++.||..|+|+|.+|||..++.+|+|..|.||||||++|++|++..+.+-|
T Consensus 236 kg~~lpnplrnwEE~--~~P~e~l~~I~~~~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~ 313 (673)
T KOG0333|consen 236 KGGRLPNPLRNWEES--GFPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPM 313 (673)
T ss_pred cCCCCCccccChhhc--CCCHHHHHHHHhcCCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCc
Confidence 456799999999998 5999999999999999999999999999999999999999999999999999998886543
Q ss_pred --------CCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCc
Q 002135 300 --------SSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHG 371 (961)
Q Consensus 300 --------~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~ 371 (961)
++.++++.|||+|++|+..+-.+++..++. -.+.+++|-...++-..+..+|+|+|+||++|.+.| .
T Consensus 314 ~~~en~~~gpyaiilaptReLaqqIeeEt~kf~~~lg~-r~vsvigg~s~EEq~fqls~gceiviatPgrLid~L----e 388 (673)
T KOG0333|consen 314 ARLENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGI-RTVSVIGGLSFEEQGFQLSMGCEIVIATPGRLIDSL----E 388 (673)
T ss_pred chhhhcccCceeeeechHHHHHHHHHHHHHHhcccccc-eEEEEecccchhhhhhhhhccceeeecCchHHHHHH----H
Confidence 689999999999999999999999988773 235666666666665678999999999999998765 2
Q ss_pred hhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHH---------------hhcccCC
Q 002135 372 QFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRL---------------CSHVYGS 435 (961)
Q Consensus 372 ~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~---------------~~~~~~~ 435 (961)
+-...++. +.|||+|||++|.+ +|.+++..+|..+... ...+...
T Consensus 389 nr~lvl~q-------------------ctyvvldeadrmiDmgfE~dv~~iL~~mPssn~k~~tde~~~~~~~~~~~~~~ 449 (673)
T KOG0333|consen 389 NRYLVLNQ-------------------CTYVVLDEADRMIDMGFEPDVQKILEQMPSSNAKPDTDEKEGEERVRKNFSSS 449 (673)
T ss_pred HHHHHhcc-------------------CceEeccchhhhhcccccHHHHHHHHhCCccccCCCccchhhHHHHHhhcccc
Confidence 22233333 49999999999988 7999999998765322 1112222
Q ss_pred C--CcEEEeccCCCChHH-HHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHH
Q 002135 436 D--PSFVFSTATSANPRE-HCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPIS 512 (961)
Q Consensus 436 ~--~q~I~lSATl~n~~e-~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 (961)
. .|.+++|||++...+ .++.++..+-...|...|.+.+.....+. +....++..
T Consensus 450 k~yrqT~mftatm~p~verlar~ylr~pv~vtig~~gk~~~rveQ~v~-----------------------m~~ed~k~k 506 (673)
T KOG0333|consen 450 KKYRQTVMFTATMPPAVERLARSYLRRPVVVTIGSAGKPTPRVEQKVE-----------------------MVSEDEKRK 506 (673)
T ss_pred cceeEEEEEecCCChHHHHHHHHHhhCCeEEEeccCCCCccchheEEE-----------------------EecchHHHH
Confidence 2 689999999986654 44445554444555556665544322221 112223344
Q ss_pred HHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccc
Q 002135 513 EVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNA 592 (961)
Q Consensus 513 ~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~a 592 (961)
.+..++... ...++|||+|+++.|+.+++.|.+ .+..+..+|||-++++|+.+++.|++|...|||||++
T Consensus 507 kL~eil~~~--~~ppiIIFvN~kk~~d~lAk~LeK--------~g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlVaTDv 576 (673)
T KOG0333|consen 507 KLIEILESN--FDPPIIIFVNTKKGADALAKILEK--------AGYKVTTLHGGKSQEQRENALADFREGTGDILVATDV 576 (673)
T ss_pred HHHHHHHhC--CCCCEEEEEechhhHHHHHHHHhh--------ccceEEEeeCCccHHHHHHHHHHHHhcCCCEEEEecc
Confidence 444444332 246999999999999999998866 5678999999999999999999999999999999999
Q ss_pred cccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCCcchh
Q 002135 593 LELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEGPLDQ 644 (961)
Q Consensus 593 Le~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~ 644 (961)
+++|||||+|.+|||||++.|+..|.||+||+||+|+.|.++.+++..+.+.
T Consensus 577 AgRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~GtaiSflt~~dt~v 628 (673)
T KOG0333|consen 577 AGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGTAISFLTPADTAV 628 (673)
T ss_pred cccCCCCCccceeeecchhhhHHHHHHHhccccccccCceeEEEeccchhHH
Confidence 9999999999999999999999999999999999999999998886654443
No 17
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-47 Score=452.61 Aligned_cols=357 Identities=22% Similarity=0.262 Sum_probs=277.3
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhc--CCCCe-EEEEc
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSH--DLSSS-ALYMF 307 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~--~~~~~-aLvl~ 307 (961)
..|+++ +|++.++++|++.||..|+|+|.++||.++.|+|+++.|+||||||++|.+|+++.+.. ..... +|+++
T Consensus 29 ~~F~~l--~l~~~ll~~l~~~gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~ 106 (513)
T COG0513 29 PEFASL--GLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILA 106 (513)
T ss_pred CCHhhc--CCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEEC
Confidence 568888 69999999999999999999999999999999999999999999999999999999873 33223 99999
Q ss_pred ccHHHHHHHHHHHHHhHhhCCCCcc-EEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhh
Q 002135 308 PTKALAQDQLRALLAMTKAFDASID-IGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFS 386 (961)
Q Consensus 308 PtraLa~qq~~~l~~l~~~~~~~i~-v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~ 386 (961)
|||+||.|+.+.+..+..... .++ +.+++|.....+...+..+++|+|+||++|.+++-.. ...+.++
T Consensus 107 PTRELA~Qi~~~~~~~~~~~~-~~~~~~i~GG~~~~~q~~~l~~~~~ivVaTPGRllD~i~~~----~l~l~~v------ 175 (513)
T COG0513 107 PTRELAVQIAEELRKLGKNLG-GLRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRG----KLDLSGV------ 175 (513)
T ss_pred CCHHHHHHHHHHHHHHHhhcC-CccEEEEECCCCHHHHHHHHhcCCCEEEECccHHHHHHHcC----Ccchhhc------
Confidence 999999999999999988763 344 4555555666677777778999999999998776211 2334444
Q ss_pred cchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHH-HHHHHcccCCeEE
Q 002135 387 LVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPRE-HCMELANLSTLEL 464 (961)
Q Consensus 387 ~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e-~~~~L~~~~~~~~ 464 (961)
+++|+||||+|.+ +|..++..++..+. .+.|.+++|||++++.. .+..+... ...
T Consensus 176 -------------~~lVlDEADrmLd~Gf~~~i~~I~~~~p--------~~~qtllfSAT~~~~i~~l~~~~l~~--p~~ 232 (513)
T COG0513 176 -------------ETLVLDEADRMLDMGFIDDIEKILKALP--------PDRQTLLFSATMPDDIRELARRYLND--PVE 232 (513)
T ss_pred -------------CEEEeccHhhhhcCCCHHHHHHHHHhCC--------cccEEEEEecCCCHHHHHHHHHHccC--CcE
Confidence 9999999999988 68888887776663 26799999999987543 33334442 223
Q ss_pred EecC--CC---ccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHC--CCcEEEEecChHH
Q 002135 465 IQND--GS---PCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQH--GLRCIAFCRSRKL 537 (961)
Q Consensus 465 i~~~--g~---p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~--g~k~IVF~~sr~~ 537 (961)
+... .. ......+++. +....++. .++..++.. ..++||||+|+..
T Consensus 233 i~v~~~~~~~~~~~i~q~~~~-----------------------v~~~~~k~----~~L~~ll~~~~~~~~IVF~~tk~~ 285 (513)
T COG0513 233 IEVSVEKLERTLKKIKQFYLE-----------------------VESEEEKL----ELLLKLLKDEDEGRVIVFVRTKRL 285 (513)
T ss_pred EEEccccccccccCceEEEEE-----------------------eCCHHHHH----HHHHHHHhcCCCCeEEEEeCcHHH
Confidence 3222 11 1111111111 00011132 333333332 2369999999999
Q ss_pred HHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhH
Q 002135 538 CELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASL 617 (961)
Q Consensus 538 ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy 617 (961)
|+.++..|.. .+..+..+||++++++|.++++.|++|+.+|||||++++|||||++|++|||||+|.+.++|
T Consensus 286 ~~~l~~~l~~--------~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDvaaRGiDi~~v~~VinyD~p~~~e~y 357 (513)
T COG0513 286 VEELAESLRK--------RGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVINYDLPLDPEDY 357 (513)
T ss_pred HHHHHHHHHH--------CCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechhhccCCccccceeEEccCCCCHHHh
Confidence 9999988876 45679999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCc
Q 002135 618 WQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIE 659 (961)
Q Consensus 618 ~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie 659 (961)
+||+||+||+|+.|.++.++.. ..|.......+..+...++
T Consensus 358 vHRiGRTgRaG~~G~ai~fv~~-~~e~~~l~~ie~~~~~~~~ 398 (513)
T COG0513 358 VHRIGRTGRAGRKGVAISFVTE-EEEVKKLKRIEKRLERKLP 398 (513)
T ss_pred eeccCccccCCCCCeEEEEeCc-HHHHHHHHHHHHHHhcccc
Confidence 9999999999999999988754 2356666667776655443
No 18
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.9e-49 Score=417.95 Aligned_cols=396 Identities=19% Similarity=0.211 Sum_probs=306.0
Q ss_pred hhhhhccCCCCCCCcccccccccccCCChHHHHHHHHccCCCC--CceE--EeeecCCcccccccCCccccHHHHHHHHh
Q 002135 175 VKRARRSQSSTSSSHSFQRRCSDKSQLLPLEMVEHLRKGIGSQ--GQMV--HVEDISARKAVLVEIPDALLDNTKSALKS 250 (961)
Q Consensus 175 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~~~~~~--~~iv--~~~~~p~~~~~f~~l~~~L~~~l~~~L~~ 250 (961)
.+.++..|.-.|+-.+++|++....+.++++.++.+|+....- .... .-+-||.+.-+|.+.. +-.+++++.+++
T Consensus 159 l~~e~~kW~~lpPi~knfYke~~e~s~ls~~q~~~~r~en~~it~dd~K~gekrpIPnP~ctFddAF-q~~pevmenIkK 237 (629)
T KOG0336|consen 159 LKDEKFKWAKLPPIKKNFYKESNETSNLSKEQLQEWRKENFNITCDDLKEGEKRPIPNPVCTFDDAF-QCYPEVMENIKK 237 (629)
T ss_pred hhhhhcccccCCchhhhhhhcCchhccCCHHHHHHHHHcCCcEEecccccCCcccCCCCcCcHHHHH-hhhHHHHHHHHh
Confidence 4556667888888889999999999999999999999875310 0011 1223777777787764 667899999999
Q ss_pred CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-------CCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 251 TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-------LSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-------~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
.||.+|+|+|.+|||.+++|+|+|.+|.||+|||++|++|.+.++... .++.+|+++||++||.|+.-+..++
T Consensus 238 ~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~ky 317 (629)
T KOG0336|consen 238 TGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKY 317 (629)
T ss_pred ccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHh
Confidence 999999999999999999999999999999999999999998776543 3678999999999999998888776
Q ss_pred HhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEE
Q 002135 324 TKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVV 403 (961)
Q Consensus 324 ~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VV 403 (961)
.- .....+++|+|.....+.+.+..+.+|+++||++|.+.... + ...+..+.|+|
T Consensus 318 sy--ng~ksvc~ygggnR~eqie~lkrgveiiiatPgrlndL~~~----------n-------------~i~l~siTYlV 372 (629)
T KOG0336|consen 318 SY--NGLKSVCVYGGGNRNEQIEDLKRGVEIIIATPGRLNDLQMD----------N-------------VINLASITYLV 372 (629)
T ss_pred hh--cCcceEEEecCCCchhHHHHHhcCceEEeeCCchHhhhhhc----------C-------------eeeeeeeEEEE
Confidence 43 22367899999999999999999999999999999865421 1 12334459999
Q ss_pred Eecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEEecCCCcc-----ceeE
Q 002135 404 IDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELIQNDGSPC-----AQKL 476 (961)
Q Consensus 404 IDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~g~p~-----~~~~ 476 (961)
+||||+|++ +|.+++..+|-.++ ++.|.++.|||++... .++..++..+ . +...|+-. ..+.
T Consensus 373 lDEADrMLDMgFEpqIrkilldiR--------PDRqtvmTSATWP~~VrrLa~sY~Kep-~--~v~vGsLdL~a~~sVkQ 441 (629)
T KOG0336|consen 373 LDEADRMLDMGFEPQIRKILLDIR--------PDRQTVMTSATWPEGVRRLAQSYLKEP-M--IVYVGSLDLVAVKSVKQ 441 (629)
T ss_pred ecchhhhhcccccHHHHHHhhhcC--------CcceeeeecccCchHHHHHHHHhhhCc-e--EEEecccceeeeeeeee
Confidence 999999998 79999888876653 5789999999998654 3333333321 1 11111110 0111
Q ss_pred EEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcc
Q 002135 477 FVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHL 556 (961)
Q Consensus 477 ~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l 556 (961)
+++ +.....+. .+...+........++||||.++..|+.|...|.- .
T Consensus 442 ~i~------------------------v~~d~~k~-~~~~~f~~~ms~ndKvIiFv~~K~~AD~LSSd~~l--------~ 488 (629)
T KOG0336|consen 442 NII------------------------VTTDSEKL-EIVQFFVANMSSNDKVIIFVSRKVMADHLSSDFCL--------K 488 (629)
T ss_pred eEE------------------------ecccHHHH-HHHHHHHHhcCCCceEEEEEechhhhhhccchhhh--------c
Confidence 111 11122222 22333333334457999999999999887765532 2
Q ss_pred cccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEE
Q 002135 557 VDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYV 636 (961)
Q Consensus 557 ~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l 636 (961)
+.....+||+-.+.+|+..++.|++|+++|||||+.+++|+|++++.+|+|||+|.+++.|+||+||+||+|+.|.++.+
T Consensus 489 gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDlaSRGlDv~DiTHV~NyDFP~nIeeYVHRvGrtGRaGr~G~sis~ 568 (629)
T KOG0336|consen 489 GISSQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTGTSISF 568 (629)
T ss_pred ccchhhccCChhhhhHHHHHHhhhcCceEEEEEechhhcCCCchhcceeeccCCCccHHHHHHHhcccccCCCCcceEEE
Confidence 34567899999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred eeCC
Q 002135 637 AFEG 640 (961)
Q Consensus 637 ~~~~ 640 (961)
...+
T Consensus 569 lt~~ 572 (629)
T KOG0336|consen 569 LTRN 572 (629)
T ss_pred Eehh
Confidence 7654
No 19
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=100.00 E-value=3.7e-47 Score=456.54 Aligned_cols=363 Identities=19% Similarity=0.228 Sum_probs=277.4
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-CCCeEEEEccc
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-LSSSALYMFPT 309 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-~~~~aLvl~Pt 309 (961)
.+|.++ +|++.+.++|.++||.+|+|+|.++|+.+++|+|+|++||||||||++|.+|+++.+... ..+++|||+||
T Consensus 6 ~~f~~l--~L~~~ll~al~~~G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PT 83 (629)
T PRK11634 6 TTFADL--GLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPT 83 (629)
T ss_pred CCHhhc--CCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCc
Confidence 357777 699999999999999999999999999999999999999999999999999999988653 35689999999
Q ss_pred HHHHHHHHHHHHHhHhhCCCCccE-EEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcc
Q 002135 310 KALAQDQLRALLAMTKAFDASIDI-GVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLV 388 (961)
Q Consensus 310 raLa~qq~~~l~~l~~~~~~~i~v-~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~ 388 (961)
++||.|+.+.+.++...+. ++.+ .+++|.....+...+..+++|+|+||++|.+++... ...++++
T Consensus 84 reLa~Qv~~~l~~~~~~~~-~i~v~~~~gG~~~~~q~~~l~~~~~IVVgTPgrl~d~l~r~----~l~l~~l-------- 150 (629)
T PRK11634 84 RELAVQVAEAMTDFSKHMR-GVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRG----TLDLSKL-------- 150 (629)
T ss_pred HHHHHHHHHHHHHHHhhcC-CceEEEEECCcCHHHHHHHhcCCCCEEEECHHHHHHHHHcC----Ccchhhc--------
Confidence 9999999999999877653 2444 455555555566667778999999999998776321 1224555
Q ss_pred hhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHH-HHHcccCCeEEEe
Q 002135 389 TTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHC-MELANLSTLELIQ 466 (961)
Q Consensus 389 ~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~-~~L~~~~~~~~i~ 466 (961)
++|||||||++.. +|...+..++..+ ....|++++|||+++....+ ..+... ...+.
T Consensus 151 -----------~~lVlDEAd~ml~~gf~~di~~Il~~l--------p~~~q~llfSAT~p~~i~~i~~~~l~~--~~~i~ 209 (629)
T PRK11634 151 -----------SGLVLDEADEMLRMGFIEDVETIMAQI--------PEGHQTALFSATMPEAIRRITRRFMKE--PQEVR 209 (629)
T ss_pred -----------eEEEeccHHHHhhcccHHHHHHHHHhC--------CCCCeEEEEEccCChhHHHHHHHHcCC--CeEEE
Confidence 9999999999876 4666666555443 34678999999998765433 334332 22222
Q ss_pred cCCCc--cceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHH
Q 002135 467 NDGSP--CAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSY 544 (961)
Q Consensus 467 ~~g~p--~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~ 544 (961)
..... ........+ ......+...+..++.. ....++||||+|+..|+.++..
T Consensus 210 i~~~~~~~~~i~q~~~-----------------------~v~~~~k~~~L~~~L~~--~~~~~~IVF~~tk~~a~~l~~~ 264 (629)
T PRK11634 210 IQSSVTTRPDISQSYW-----------------------TVWGMRKNEALVRFLEA--EDFDAAIIFVRTKNATLEVAEA 264 (629)
T ss_pred ccCccccCCceEEEEE-----------------------EechhhHHHHHHHHHHh--cCCCCEEEEeccHHHHHHHHHH
Confidence 11110 000000000 00111222333333322 1235899999999999999988
Q ss_pred HHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccC
Q 002135 545 TREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRS 624 (961)
Q Consensus 545 L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRA 624 (961)
|.. .+..+..+||++++.+|+++++.|++|+++|||||+++++|||+|+|++|||||+|.+.++|+||+|||
T Consensus 265 L~~--------~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~arGIDip~V~~VI~~d~P~~~e~yvqRiGRt 336 (629)
T PRK11634 265 LER--------NGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRT 336 (629)
T ss_pred HHh--------CCCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchHhcCCCcccCCEEEEeCCCCCHHHHHHHhccc
Confidence 865 345788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccC
Q 002135 625 GRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHID 664 (961)
Q Consensus 625 GR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~ 664 (961)
||.|+.|.+++++. +.+..+.+.++..+...++...++
T Consensus 337 GRaGr~G~ai~~v~--~~e~~~l~~ie~~~~~~i~~~~~p 374 (629)
T PRK11634 337 GRAGRAGRALLFVE--NRERRLLRNIERTMKLTIPEVELP 374 (629)
T ss_pred cCCCCcceEEEEec--hHHHHHHHHHHHHhCCCcceecCC
Confidence 99999999998774 456677788888888877766554
No 20
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=100.00 E-value=8.1e-47 Score=441.24 Aligned_cols=358 Identities=20% Similarity=0.291 Sum_probs=271.8
Q ss_pred ccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-----CCCeEEEE
Q 002135 232 VLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-----LSSSALYM 306 (961)
Q Consensus 232 ~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-----~~~~aLvl 306 (961)
+|+++ +|++.++++|+..||.+|+++|.++|+++++|+|++++||||||||++|++|+++.+... ...++||+
T Consensus 2 ~f~~l--~l~~~l~~~l~~~g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil 79 (434)
T PRK11192 2 TFSEL--ELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILIL 79 (434)
T ss_pred CHhhc--CCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEE
Confidence 47777 699999999999999999999999999999999999999999999999999999988642 24689999
Q ss_pred cccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHH-HHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhh
Q 002135 307 FPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKD-RMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAF 385 (961)
Q Consensus 307 ~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~-r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~ 385 (961)
+||++|+.|+.+.+..+....+ +.+..+.|+..... ...+..+++|+|+||++|.+.+... ...+.++
T Consensus 80 ~Pt~eLa~Q~~~~~~~l~~~~~--~~v~~~~gg~~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~~----~~~~~~v----- 148 (434)
T PRK11192 80 TPTRELAMQVADQARELAKHTH--LDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEE----NFDCRAV----- 148 (434)
T ss_pred CCcHHHHHHHHHHHHHHHccCC--cEEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcC----CcCcccC-----
Confidence 9999999999999999887654 67788888766544 3445667999999999998765211 1123444
Q ss_pred hcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCCh--HHHHHHHcccCCe
Q 002135 386 SLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANP--REHCMELANLSTL 462 (961)
Q Consensus 386 ~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~--~e~~~~L~~~~~~ 462 (961)
++|||||||++.+ +|+..+..+...+ ....|++++|||+... .+...++... .
T Consensus 149 --------------~~lViDEah~~l~~~~~~~~~~i~~~~--------~~~~q~~~~SAT~~~~~~~~~~~~~~~~--~ 204 (434)
T PRK11192 149 --------------ETLILDEADRMLDMGFAQDIETIAAET--------RWRKQTLLFSATLEGDAVQDFAERLLND--P 204 (434)
T ss_pred --------------CEEEEECHHHHhCCCcHHHHHHHHHhC--------ccccEEEEEEeecCHHHHHHHHHHHccC--C
Confidence 9999999999986 4666665554333 2356899999999643 2334444332 2
Q ss_pred EEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHH--CCCcEEEEecChHHHHH
Q 002135 463 ELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQ--HGLRCIAFCRSRKLCEL 540 (961)
Q Consensus 463 ~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~--~g~k~IVF~~sr~~ae~ 540 (961)
..+..............+. ...+.......++..+.. ...++||||++++.|+.
T Consensus 205 ~~i~~~~~~~~~~~i~~~~------------------------~~~~~~~~k~~~l~~l~~~~~~~~~lVF~~s~~~~~~ 260 (434)
T PRK11192 205 VEVEAEPSRRERKKIHQWY------------------------YRADDLEHKTALLCHLLKQPEVTRSIVFVRTRERVHE 260 (434)
T ss_pred EEEEecCCcccccCceEEE------------------------EEeCCHHHHHHHHHHHHhcCCCCeEEEEeCChHHHHH
Confidence 2222221111100000000 000111222344444444 35799999999999999
Q ss_pred HHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHH
Q 002135 541 VLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQ 620 (961)
Q Consensus 541 l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR 620 (961)
++..|+. .+..+..+||++++.+|..+++.|++|+++|||||+++++|||+|++++||++|+|.|...|+||
T Consensus 261 l~~~L~~--------~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd~~~~GiDip~v~~VI~~d~p~s~~~yiqr 332 (434)
T PRK11192 261 LAGWLRK--------AGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINFDMPRSADTYLHR 332 (434)
T ss_pred HHHHHHh--------CCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEccccccCccCCCCCEEEEECCCCCHHHHhhc
Confidence 9998865 34578999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcc
Q 002135 621 AGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIEC 660 (961)
Q Consensus 621 ~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~ 660 (961)
+||+||.|..|.+++++. ..|..+...+++++..+++.
T Consensus 333 ~GR~gR~g~~g~ai~l~~--~~d~~~~~~i~~~~~~~~~~ 370 (434)
T PRK11192 333 IGRTGRAGRKGTAISLVE--AHDHLLLGKIERYIEEPLKA 370 (434)
T ss_pred ccccccCCCCceEEEEec--HHHHHHHHHHHHHHhccccc
Confidence 999999999999997764 45666677777766665544
No 21
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=9.2e-48 Score=405.03 Aligned_cols=399 Identities=19% Similarity=0.237 Sum_probs=304.9
Q ss_pred ccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC-CCeEEEEcc
Q 002135 230 KAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL-SSSALYMFP 308 (961)
Q Consensus 230 ~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~-~~~aLvl~P 308 (961)
...|..+ +|++++.+.|+.+|+++|+|+|..+||.|+.|+|+|.+|.||||||.+|.+|+++++.++| +.-+++++|
T Consensus 6 ~~~F~~L--Gl~~Wlve~l~~l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTP 83 (442)
T KOG0340|consen 6 AKPFSIL--GLSPWLVEQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTP 83 (442)
T ss_pred cCchhhc--CccHHHHHHHHHhcCCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecc
Confidence 3568888 8999999999999999999999999999999999999999999999999999999999988 456999999
Q ss_pred cHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcH-HHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhc
Q 002135 309 TKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQ-KDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSL 387 (961)
Q Consensus 309 traLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~-~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~ 387 (961)
||+||-|+.+.|..+++.++ +++.++.|.+.. .+...+.++++++++||++|.+.+-.+...-...+.++
T Consensus 84 TrELA~QiaEQF~alGk~l~--lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rl------- 154 (442)
T KOG0340|consen 84 TRELALQIAEQFIALGKLLN--LKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRL------- 154 (442)
T ss_pred hHHHHHHHHHHHHHhccccc--ceEEEEEccHHHhhhhhhcccCCCeEecCccccccccccCCccchhhhhce-------
Confidence 99999999999999887665 666666666543 44456778899999999999887654433344455666
Q ss_pred chhhhhhhhcceeEEEEecchhhhcc-cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCe----
Q 002135 388 VTTEVYLIFLFIRFVVIDEAHAYKGA-FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTL---- 462 (961)
Q Consensus 388 ~~~~~~~~~~~i~~VVIDEaH~~~~~-fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~---- 462 (961)
+++|+|||+.+..+ |..+++.+.+-+ +...|.+++|||+.+ ..+.+.+...-
T Consensus 155 ------------kflVlDEADrvL~~~f~d~L~~i~e~l--------P~~RQtLlfSATitd---~i~ql~~~~i~k~~a 211 (442)
T KOG0340|consen 155 ------------KFLVLDEADRVLAGCFPDILEGIEECL--------PKPRQTLLFSATITD---TIKQLFGCPITKSIA 211 (442)
T ss_pred ------------eeEEecchhhhhccchhhHHhhhhccC--------CCccceEEEEeehhh---HHHHhhcCCcccccc
Confidence 99999999999864 766665554333 334588999999974 45566554211
Q ss_pred EEEe-cCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHH-CCCcEEEEecChHHHHH
Q 002135 463 ELIQ-NDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQ-HGLRCIAFCRSRKLCEL 540 (961)
Q Consensus 463 ~~i~-~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~-~g~k~IVF~~sr~~ae~ 540 (961)
...+ .++.+..... +..........+...+..++..... ....++||+++..+|+.
T Consensus 212 ~~~e~~~~vstvetL----------------------~q~yI~~~~~vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~ 269 (442)
T KOG0340|consen 212 FELEVIDGVSTVETL----------------------YQGYILVSIDVKDAYLVHLLRDFENKENGSIMIFVNTTRECQL 269 (442)
T ss_pred eEEeccCCCCchhhh----------------------hhheeecchhhhHHHHHHHHhhhhhccCceEEEEeehhHHHHH
Confidence 1111 1111111100 0011111222333344555555544 35789999999999999
Q ss_pred HHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHH
Q 002135 541 VLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQ 620 (961)
Q Consensus 541 l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR 620 (961)
++..|+. +...+..+|+-|++.+|-..+.+|+++.+++||||+++++|+|||.|++|||||.|.++..|+||
T Consensus 270 l~~~l~~--------le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVAsRGLDIP~V~LVvN~diPr~P~~yiHR 341 (442)
T KOG0340|consen 270 LSMTLKN--------LEVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHR 341 (442)
T ss_pred HHHHHhh--------hceeeeehhhcchHHHHHHHHHHHhhcCccEEEEechhhcCCCCCceeEEEecCCCCCHHHHHHh
Confidence 9988866 56678999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCC
Q 002135 621 AGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSG 696 (961)
Q Consensus 621 ~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~ 696 (961)
+||+.|+|+.|.++.++. +.|..+.+.+|+-.+..+++....+.+......++..|-.|..+ ..+..-||+.
T Consensus 342 vGRtARAGR~G~aiSivt--~rDv~l~~aiE~~igkKl~e~~~~~~~~~~~~t~V~~akrea~m--~m~~~~F~er 413 (442)
T KOG0340|consen 342 VGRTARAGRKGMAISIVT--QRDVELLQAIEEEIGKKLTEYNKVQRTVELYVTQVTVAKREAEM--KMDNNGFGER 413 (442)
T ss_pred hcchhcccCCcceEEEec--hhhHHHHHHHHHHHhcccccccccchhhheehhhHHHHHHHHHH--HhhhcchhHH
Confidence 999999999999997775 66777888899999998888877776655444444444333222 2344455543
No 22
>PRK02362 ski2-like helicase; Provisional
Probab=100.00 E-value=1.4e-46 Score=464.14 Aligned_cols=426 Identities=23% Similarity=0.325 Sum_probs=315.0
Q ss_pred ccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHH-HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccH
Q 002135 232 VLVEIPDALLDNTKSALKSTGISKLYSHQAESIMA-SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTK 310 (961)
Q Consensus 232 ~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~-il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptr 310 (961)
.|.++ +|++.+.+++++.||.+|||+|.+|++. +++|+|++++||||||||++|.+|++..+.. +.++|||+|++
T Consensus 2 ~~~~l--~lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~--~~kal~i~P~r 77 (737)
T PRK02362 2 KIAEL--PLPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR--GGKALYIVPLR 77 (737)
T ss_pred Chhhc--CCCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc--CCcEEEEeChH
Confidence 35666 5899999999999999999999999998 7899999999999999999999999998863 67899999999
Q ss_pred HHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchh
Q 002135 311 ALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTT 390 (961)
Q Consensus 311 aLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~ 390 (961)
+|+.|+++.++++.. + ++++..++|+...... ....++|+|+||+++...+ .+. ...+.++
T Consensus 78 aLa~q~~~~~~~~~~-~--g~~v~~~tGd~~~~~~--~l~~~~IiV~Tpek~~~ll-r~~---~~~l~~v---------- 138 (737)
T PRK02362 78 ALASEKFEEFERFEE-L--GVRVGISTGDYDSRDE--WLGDNDIIVATSEKVDSLL-RNG---APWLDDI---------- 138 (737)
T ss_pred HHHHHHHHHHHHhhc-C--CCEEEEEeCCcCcccc--ccCCCCEEEECHHHHHHHH-hcC---hhhhhhc----------
Confidence 999999999987642 2 4788899998754431 2345899999999997654 221 2335666
Q ss_pred hhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCC
Q 002135 391 EVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDG 469 (961)
Q Consensus 391 ~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g 469 (961)
++||+||+|.+.+ .+|..++.++.+++++. ...|+|++|||++|+.+...|+.. ..+..+.
T Consensus 139 ---------~lvViDE~H~l~d~~rg~~le~il~rl~~~~-----~~~qii~lSATl~n~~~la~wl~~----~~~~~~~ 200 (737)
T PRK02362 139 ---------TCVVVDEVHLIDSANRGPTLEVTLAKLRRLN-----PDLQVVALSATIGNADELADWLDA----ELVDSEW 200 (737)
T ss_pred ---------CEEEEECccccCCCcchHHHHHHHHHHHhcC-----CCCcEEEEcccCCCHHHHHHHhCC----CcccCCC
Confidence 9999999999976 59999999999998653 467999999999999998888743 2344555
Q ss_pred CccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHH
Q 002135 470 SPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREIL 549 (961)
Q Consensus 470 ~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l 549 (961)
+|......+.+.+...... .. .... ...+ .....++......+.++||||+||+.|+.++..+...+
T Consensus 201 rpv~l~~~v~~~~~~~~~~----~~-------~~~~-~~~~-~~~~~~~~~~~~~~~~~LVF~~sr~~~~~~a~~L~~~~ 267 (737)
T PRK02362 201 RPIDLREGVFYGGAIHFDD----SQ-------REVE-VPSK-DDTLNLVLDTLEEGGQCLVFVSSRRNAEGFAKRAASAL 267 (737)
T ss_pred CCCCCeeeEecCCeecccc----cc-------ccCC-Cccc-hHHHHHHHHHHHcCCCeEEEEeCHHHHHHHHHHHHHHh
Confidence 6655544333222111000 00 0000 1111 23344455555677899999999999999998886543
Q ss_pred Hhh----------------------------CCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCC
Q 002135 550 EET----------------------------APHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGH 601 (961)
Q Consensus 550 ~~~----------------------------~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~ 601 (961)
... ...+..+|++||||+++++|+.+++.|++|.++|||||+++++|||+|.
T Consensus 268 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~l~~gva~hHagl~~~eR~~ve~~Fr~G~i~VLvaT~tla~GvnlPa 347 (737)
T PRK02362 268 KKTLTAAERAELAELAEEIREVSDTETSKDLADCVAKGAAFHHAGLSREHRELVEDAFRDRLIKVISSTPTLAAGLNLPA 347 (737)
T ss_pred hhcCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhCEEeecCCCCHHHHHHHHHHHHcCCCeEEEechhhhhhcCCCc
Confidence 210 0011247899999999999999999999999999999999999999999
Q ss_pred ccEEEE----eC-----CCCCHhhHHHHhccCCCCCCC--ceEEEEeeCCc-chhHHHhchHHhhcCCCcccccCCCCHH
Q 002135 602 IDVTLH----LG-----FPGSIASLWQQAGRSGRRERP--SLAVYVAFEGP-LDQYFMKYPEKLFKSPIECCHIDAQNHK 669 (961)
Q Consensus 602 vd~VI~----~~-----~P~s~~sy~QR~GRAGR~g~~--g~~i~l~~~~~-~d~~~~~~~e~l~~~~ie~~~~~~~n~~ 669 (961)
+++||+ |+ .|.+..+|+||+|||||.|.+ |.+++++.... ...++ +.++..+.++......+..
T Consensus 348 ~~VVI~~~~~yd~~~g~~~~s~~~y~Qm~GRAGR~g~d~~G~~ii~~~~~~~~~~~~----~~~l~~~~~~i~S~l~~~~ 423 (737)
T PRK02362 348 RRVIIRDYRRYDGGAGMQPIPVLEYHQMAGRAGRPGLDPYGEAVLLAKSYDELDELF----ERYIWADPEDVRSKLATEP 423 (737)
T ss_pred eEEEEecceeecCCCCceeCCHHHHHHHhhcCCCCCCCCCceEEEEecCchhHHHHH----HHHHhCCCCceeecCCChh
Confidence 999997 55 588999999999999999876 78887775432 22222 2334344455555566678
Q ss_pred HHHHHHHHHHhcCCCChhhh-hh---------------hccCCHHHHHHHHHHCCccccCCC
Q 002135 670 VLEQHLVCAALEHPLSLIYD-EK---------------YFGSGLSSGITTLKNRGYLSSDPS 715 (961)
Q Consensus 670 vl~~~l~~aa~e~p~~~~~~-~~---------------~f~~~~~~~l~~L~~~g~l~~~~~ 715 (961)
.+..|+.+.....-.....+ .. +..+.++++++.|.+.|++..+++
T Consensus 424 ~l~~~lla~I~~~~~~~~~d~~~~l~~Tf~~~~~~~~~~l~~~v~~~l~~L~~~~~i~~~~~ 485 (737)
T PRK02362 424 ALRTHVLSTIASGFARTRDGLLEFLEATFYATQTDDTGRLERVVDDVLDFLERNGMIEEDGE 485 (737)
T ss_pred hHHHHHHHHHHhCccCCHHHHHHHHHhChHHhhccchHHHHHHHHHHHHHHHHCCCeeecCC
Confidence 89999987765543221111 11 112236788999999999987654
No 23
>PTZ00424 helicase 45; Provisional
Probab=100.00 E-value=8.5e-46 Score=428.59 Aligned_cols=363 Identities=20% Similarity=0.285 Sum_probs=268.5
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-CCCeEEEEccc
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-LSSSALYMFPT 309 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-~~~~aLvl~Pt 309 (961)
.+|.++ +|++.+.++|.++||..|+++|.+||+.+++|+|++++||||||||++|++|++..+... .+.++|||+||
T Consensus 28 ~~~~~l--~l~~~~~~~l~~~~~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt 105 (401)
T PTZ00424 28 DSFDAL--KLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPT 105 (401)
T ss_pred CCHhhC--CCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCC
Confidence 457777 699999999999999999999999999999999999999999999999999999987643 35689999999
Q ss_pred HHHHHHHHHHHHHhHhhCCCCccEEEEcCCC-cHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcc
Q 002135 310 KALAQDQLRALLAMTKAFDASIDIGVYDGDT-TQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLV 388 (961)
Q Consensus 310 raLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~-~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~ 388 (961)
++|+.|+.+.+..++.... +.+....|+. ...+...+..+++|+|+||++|...+.... ..++++
T Consensus 106 ~~L~~Q~~~~~~~~~~~~~--~~~~~~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~----~~l~~i-------- 171 (401)
T PTZ00424 106 RELAQQIQKVVLALGDYLK--VRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRH----LRVDDL-------- 171 (401)
T ss_pred HHHHHHHHHHHHHHhhhcC--ceEEEEECCcCHHHHHHHHcCCCCEEEECcHHHHHHHHhCC----cccccc--------
Confidence 9999999999988876543 4455445554 344445566778999999999877653211 224444
Q ss_pred hhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHH-HHcccCCeEEEe
Q 002135 389 TTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCM-ELANLSTLELIQ 466 (961)
Q Consensus 389 ~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~-~L~~~~~~~~i~ 466 (961)
++|||||+|++.. +++..+..+++++ ..+.|++++|||+++...... .+........+.
T Consensus 172 -----------~lvViDEah~~~~~~~~~~~~~i~~~~--------~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~ 232 (401)
T PTZ00424 172 -----------KLFILDEADEMLSRGFKGQIYDVFKKL--------PPDVQVALFSATMPNEILELTTKFMRDPKRILVK 232 (401)
T ss_pred -----------cEEEEecHHHHHhcchHHHHHHHHhhC--------CCCcEEEEEEecCCHHHHHHHHHHcCCCEEEEeC
Confidence 9999999999876 3555544443322 356799999999987543222 222211111111
Q ss_pred cCC-CccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHH
Q 002135 467 NDG-SPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYT 545 (961)
Q Consensus 467 ~~g-~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L 545 (961)
.+. .....+.++... .....+...+..++... ...++||||++++.|+.+++.+
T Consensus 233 ~~~~~~~~~~~~~~~~-----------------------~~~~~~~~~l~~~~~~~--~~~~~ivF~~t~~~~~~l~~~l 287 (401)
T PTZ00424 233 KDELTLEGIRQFYVAV-----------------------EKEEWKFDTLCDLYETL--TITQAIIYCNTRRKVDYLTKKM 287 (401)
T ss_pred CCCcccCCceEEEEec-----------------------ChHHHHHHHHHHHHHhc--CCCeEEEEecCcHHHHHHHHHH
Confidence 110 011111111100 00011112222222211 3468999999999999999887
Q ss_pred HHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCC
Q 002135 546 REILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSG 625 (961)
Q Consensus 546 ~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAG 625 (961)
++ .+..+..+||++++.+|..+++.|++|+++|||||+++++|||+|++++||++++|.|..+|+||+||||
T Consensus 288 ~~--------~~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~l~~GiDip~v~~VI~~~~p~s~~~y~qr~GRag 359 (401)
T PTZ00424 288 HE--------RDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSG 359 (401)
T ss_pred HH--------CCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcccccCCcCcccCCEEEEECCCCCHHHEeecccccc
Confidence 65 3446899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCceEEEEeeCCcchhHHHhchHHhhcCCCccccc
Q 002135 626 RRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHI 663 (961)
Q Consensus 626 R~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~ 663 (961)
|.|+.|.+++++. +.+..+++.+++.++..+++...
T Consensus 360 R~g~~G~~i~l~~--~~~~~~~~~~e~~~~~~~~~~~~ 395 (401)
T PTZ00424 360 RFGRKGVAINFVT--PDDIEQLKEIERHYNTQIEEMPM 395 (401)
T ss_pred cCCCCceEEEEEc--HHHHHHHHHHHHHHCCcccccCc
Confidence 9999999998774 34556677778888877765543
No 24
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=9e-47 Score=412.04 Aligned_cols=351 Identities=21% Similarity=0.270 Sum_probs=270.7
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCC----CeEEEE
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLS----SSALYM 306 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~----~~aLvl 306 (961)
.+|.++ .|+..+++++..+||..|+|+|..+||..+-|+|++.||.||||||.+|.||+|++|+-.|. .++|||
T Consensus 181 ~sF~~m--NLSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL 258 (691)
T KOG0338|consen 181 ESFQSM--NLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVL 258 (691)
T ss_pred hhHHhc--ccchHHHHHHHhcCCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEE
Confidence 357777 69999999999999999999999999999999999999999999999999999999986553 489999
Q ss_pred cccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCc-HHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhh
Q 002135 307 FPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTT-QKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAF 385 (961)
Q Consensus 307 ~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~-~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~ 385 (961)
+|||+||.|.+...++++.... +.+++.-|+.. ..|...++..|+|+|+||++|.++|- ......+.++
T Consensus 259 ~PTRELaiQv~sV~~qlaqFt~--I~~~L~vGGL~lk~QE~~LRs~PDIVIATPGRlIDHlr---Ns~sf~ldsi----- 328 (691)
T KOG0338|consen 259 VPTRELAIQVHSVTKQLAQFTD--ITVGLAVGGLDLKAQEAVLRSRPDIVIATPGRLIDHLR---NSPSFNLDSI----- 328 (691)
T ss_pred eccHHHHHHHHHHHHHHHhhcc--ceeeeeecCccHHHHHHHHhhCCCEEEecchhHHHHhc---cCCCccccce-----
Confidence 9999999999999999988665 67776666544 55667788999999999999988862 2233446666
Q ss_pred hcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEE
Q 002135 386 SLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLEL 464 (961)
Q Consensus 386 ~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~ 464 (961)
.++|+||||+|+. +|..++..|++ +| ..+.|.+++|||+......+..+.-..++.+
T Consensus 329 --------------EVLvlDEADRMLeegFademnEii~----lc----pk~RQTmLFSATMteeVkdL~slSL~kPvri 386 (691)
T KOG0338|consen 329 --------------EVLVLDEADRMLEEGFADEMNEIIR----LC----PKNRQTMLFSATMTEEVKDLASLSLNKPVRI 386 (691)
T ss_pred --------------eEEEechHHHHHHHHHHHHHHHHHH----hc----cccccceeehhhhHHHHHHHHHhhcCCCeEE
Confidence 9999999999987 48777766654 44 3367889999999854443333322222333
Q ss_pred EecCCCccce---eEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHH
Q 002135 465 IQNDGSPCAQ---KLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELV 541 (961)
Q Consensus 465 i~~~g~p~~~---~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l 541 (961)
+......... ..|+-.. .........-+..++..+. ..++|||+.|++.|..+
T Consensus 387 fvd~~~~~a~~LtQEFiRIR----------------------~~re~dRea~l~~l~~rtf--~~~~ivFv~tKk~AHRl 442 (691)
T KOG0338|consen 387 FVDPNKDTAPKLTQEFIRIR----------------------PKREGDREAMLASLITRTF--QDRTIVFVRTKKQAHRL 442 (691)
T ss_pred EeCCccccchhhhHHHheec----------------------cccccccHHHHHHHHHHhc--ccceEEEEehHHHHHHH
Confidence 2221111110 0011000 1122334444555555544 34899999999999876
Q ss_pred HHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHh
Q 002135 542 LSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQA 621 (961)
Q Consensus 542 ~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~ 621 (961)
.-.|- - ++-++.-+||++++++|-+.++.|+++++++||||+++++|+||++|..||||.+|.++..|+||+
T Consensus 443 ~IllG----L----lgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRGLDI~gV~tVINy~mP~t~e~Y~HRV 514 (691)
T KOG0338|consen 443 RILLG----L----LGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRGLDIEGVQTVINYAMPKTIEHYLHRV 514 (691)
T ss_pred HHHHH----H----hhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhccCCccceeEEEeccCchhHHHHHHHh
Confidence 43332 1 455678899999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCceEEEEeeCCcchhHHHhc
Q 002135 622 GRSGRRERPSLAVYVAFEGPLDQYFMKY 649 (961)
Q Consensus 622 GRAGR~g~~g~~i~l~~~~~~d~~~~~~ 649 (961)
||+.|+|+.|.++.++.++ |..+.+.
T Consensus 515 GRTARAGRaGrsVtlvgE~--dRkllK~ 540 (691)
T KOG0338|consen 515 GRTARAGRAGRSVTLVGES--DRKLLKE 540 (691)
T ss_pred hhhhhcccCcceEEEeccc--cHHHHHH
Confidence 9999999999999888655 5544443
No 25
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=100.00 E-value=1.1e-47 Score=406.15 Aligned_cols=411 Identities=18% Similarity=0.218 Sum_probs=311.9
Q ss_pred HHHHHHhhhhcCcCHHHHHHHHhhccCCCCchhhhhhhccCCCCCCCcccccccccccCCChHHHHHHHHccCCCCCceE
Q 002135 142 LLMCKLQKRVMSLSVEDLLTYVKERRTDVRGNEVKRARRSQSSTSSSHSFQRRCSDKSQLLPLEMVEHLRKGIGSQGQMV 221 (961)
Q Consensus 142 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~~~~~~~~iv 221 (961)
++|+.....+.+.++.+|.+.+. ...+...+|.|+.. +..++.+.-+.+|+++. .++
T Consensus 104 e~me~v~~~k~LmsV~ElakGi~---------Y~ePi~T~WkPP~h-----------ir~mS~e~~e~vRk~~~---I~v 160 (610)
T KOG0341|consen 104 EIMESVADGKALMSVAELAKGIT---------YEEPIKTAWKPPRH-----------IRKMSEEQRELVRKQLH---ILV 160 (610)
T ss_pred HHHHHHhcCccceeHHHHhCCCc---------ccCcchhccCCcHH-----------HHHhhHHHHHHHHHhhe---EEe
Confidence 56776666666778888665541 23345567887653 33445566777888773 678
Q ss_pred EeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHh-----
Q 002135 222 HVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALS----- 296 (961)
Q Consensus 222 ~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~----- 296 (961)
.++++|++..+|.++ .++..+++.|++.|+..|+|+|.+.+|.+++|+|+|..|-||||||++|.||++-..+
T Consensus 161 eGd~ipPPIksF~eM--KFP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~ 238 (610)
T KOG0341|consen 161 EGDDIPPPIKSFKEM--KFPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMM 238 (610)
T ss_pred eCCCCCCchhhhhhc--cCCHHHHHHHHhcCCCCCCceeecCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHHhc
Confidence 999999999999999 6899999999999999999999999999999999999999999999999999875433
Q ss_pred ----cCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC----CccEEEEcCC-CcHHHHHHHhcCCcEEEeChhHHHHhhc
Q 002135 297 ----HDLSSSALYMFPTKALAQDQLRALLAMTKAFDA----SIDIGVYDGD-TTQKDRMWLRDNARLLITNPDMLHMSIL 367 (961)
Q Consensus 297 ----~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~----~i~v~~~~Gd-~~~~~r~~l~~~~~IlItTPe~L~~~lL 367 (961)
++.++..|+|+|+|+||+|.+.-+..++..+.. .++.+++-|. ...++-..++.+.+|+|+||++|.++|-
T Consensus 239 lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v~~GvHivVATPGRL~DmL~ 318 (610)
T KOG0341|consen 239 LPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDVVRRGVHIVVATPGRLMDMLA 318 (610)
T ss_pred CccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHHHhcCeeEEEcCcchHHHHHH
Confidence 245789999999999999999998887765421 3444444454 4456667788999999999999998872
Q ss_pred CCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 368 PYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 368 ~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
+....|.-. +|+++||||+|.+ +|..++..++..++ ...|.+++|||+
T Consensus 319 ----KK~~sLd~C-------------------RyL~lDEADRmiDmGFEddir~iF~~FK--------~QRQTLLFSATM 367 (610)
T KOG0341|consen 319 ----KKIMSLDAC-------------------RYLTLDEADRMIDMGFEDDIRTIFSFFK--------GQRQTLLFSATM 367 (610)
T ss_pred ----HhhccHHHH-------------------HHhhhhhHHHHhhccchhhHHHHHHHHh--------hhhheeeeeccc
Confidence 222333344 9999999999988 68888877766554 356889999999
Q ss_pred CChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCC
Q 002135 447 ANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGL 526 (961)
Q Consensus 447 ~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~ 526 (961)
+.-.+.+..-.-.. ...++. |+.-.... +..+.. .. ......+.+++..+.+...
T Consensus 368 P~KIQ~FAkSALVK-PvtvNV-GRAGAAsl-------------------dViQev-Ey---VkqEaKiVylLeCLQKT~P 422 (610)
T KOG0341|consen 368 PKKIQNFAKSALVK-PVTVNV-GRAGAASL-------------------DVIQEV-EY---VKQEAKIVYLLECLQKTSP 422 (610)
T ss_pred cHHHHHHHHhhccc-ceEEec-ccccccch-------------------hHHHHH-HH---HHhhhhhhhHHHHhccCCC
Confidence 86544443322211 111111 11111000 000000 01 1122345667766666678
Q ss_pred cEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEE
Q 002135 527 RCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTL 606 (961)
Q Consensus 527 k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI 606 (961)
++||||..+..++.+.++|-- .+-.+..+|||..+++|....+.|+.|+-+|||||++++.|+|+|++.+||
T Consensus 423 pVLIFaEkK~DVD~IhEYLLl--------KGVEavaIHGGKDQedR~~ai~afr~gkKDVLVATDVASKGLDFp~iqHVI 494 (610)
T KOG0341|consen 423 PVLIFAEKKADVDDIHEYLLL--------KGVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVASKGLDFPDIQHVI 494 (610)
T ss_pred ceEEEeccccChHHHHHHHHH--------ccceeEEeecCcchhHHHHHHHHHhcCCCceEEEecchhccCCCccchhhc
Confidence 999999999999999988743 234577899999999999999999999999999999999999999999999
Q ss_pred EeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCCc
Q 002135 607 HLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEGP 641 (961)
Q Consensus 607 ~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~ 641 (961)
|||+|..+++|+||+||+||.|++|.+.++...+.
T Consensus 495 NyDMP~eIENYVHRIGRTGRsg~~GiATTfINK~~ 529 (610)
T KOG0341|consen 495 NYDMPEEIENYVHRIGRTGRSGKTGIATTFINKNQ 529 (610)
T ss_pred cCCChHHHHHHHHHhcccCCCCCcceeeeeecccc
Confidence 99999999999999999999999999998775443
No 26
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.2e-45 Score=401.14 Aligned_cols=346 Identities=21% Similarity=0.258 Sum_probs=268.7
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC----CC--CeEE
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD----LS--SSAL 304 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~----~~--~~aL 304 (961)
..|.++...|++++.+++...||..+||+|..+||.+++++||++.|+||||||+||++|+++.+.+. +. ..+|
T Consensus 4 ~~~~~l~~~L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgal 83 (567)
T KOG0345|consen 4 KSFSSLAPPLSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGAL 83 (567)
T ss_pred cchhhcCCCccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEE
Confidence 46888888899999999999999999999999999999999999999999999999999999999542 22 3699
Q ss_pred EEcccHHHHHHHHHHHHHhHhhCCCCccEEEE-cCCCcHHHHHHH-hcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhh
Q 002135 305 YMFPTKALAQDQLRALLAMTKAFDASIDIGVY-DGDTTQKDRMWL-RDNARLLITNPDMLHMSILPYHGQFSRILSNLRL 382 (961)
Q Consensus 305 vl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~-~Gd~~~~~r~~l-~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~ 382 (961)
||+|||+||.|+.+.+..+...+. .+++.++ +|.+...+...+ .++++|+|+||++|.+++- +..-...+.++
T Consensus 84 IIsPTRELa~QI~~V~~~F~~~l~-~l~~~l~vGG~~v~~Di~~fkee~~nIlVgTPGRL~di~~--~~~~~l~~rsL-- 158 (567)
T KOG0345|consen 84 IISPTRELARQIREVAQPFLEHLP-NLNCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQ--REAEKLSFRSL-- 158 (567)
T ss_pred EecCcHHHHHHHHHHHHHHHHhhh-ccceEEEecCccHHHHHHHHHHhCCcEEEeCchhHHHHHh--chhhhcccccc--
Confidence 999999999999999999988754 3555544 454555554444 4569999999999988762 11111124466
Q ss_pred hhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCC
Q 002135 383 IAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLST 461 (961)
Q Consensus 383 ~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~ 461 (961)
.++|+||||++.+ +|..++..||..|.+. .+.=++|||.....+.... +|..+
T Consensus 159 -----------------e~LVLDEADrLldmgFe~~~n~ILs~LPKQ--------RRTGLFSATq~~~v~dL~r-aGLRN 212 (567)
T KOG0345|consen 159 -----------------EILVLDEADRLLDMGFEASVNTILSFLPKQ--------RRTGLFSATQTQEVEDLAR-AGLRN 212 (567)
T ss_pred -----------------ceEEecchHhHhcccHHHHHHHHHHhcccc--------cccccccchhhHHHHHHHH-hhccC
Confidence 9999999999998 7999999999988643 3445679998766554332 35554
Q ss_pred eEEEecCC-----CccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChH
Q 002135 462 LELIQNDG-----SPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRK 536 (961)
Q Consensus 462 ~~~i~~~g-----~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~ 536 (961)
...|.+.. .|+.....++. .....+...+..++.. ....++|||.+|..
T Consensus 213 pv~V~V~~k~~~~tPS~L~~~Y~v------------------------~~a~eK~~~lv~~L~~--~~~kK~iVFF~TCa 266 (567)
T KOG0345|consen 213 PVRVSVKEKSKSATPSSLALEYLV------------------------CEADEKLSQLVHLLNN--NKDKKCIVFFPTCA 266 (567)
T ss_pred ceeeeecccccccCchhhcceeeE------------------------ecHHHHHHHHHHHHhc--cccccEEEEecCcc
Confidence 44433321 23223222221 1112233333444333 13469999999999
Q ss_pred HHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhh
Q 002135 537 LCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIAS 616 (961)
Q Consensus 537 ~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~s 616 (961)
.++.....+...+ ....+..+||.+++..|..+++.|+.-.-.+|+||+++++|||||++|+|||+|+|.+..+
T Consensus 267 sVeYf~~~~~~~l------~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVaARGlDip~iD~VvQ~DpP~~~~~ 340 (567)
T KOG0345|consen 267 SVEYFGKLFSRLL------KKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVAARGLDIPGIDLVVQFDPPKDPSS 340 (567)
T ss_pred hHHHHHHHHHHHh------CCCcEEEecchhcchhHHHHHHHHHhccCceEEeehhhhccCCCCCceEEEecCCCCChhH
Confidence 9998888776642 2346899999999999999999999988889999999999999999999999999999999
Q ss_pred HHHHhccCCCCCCCceEEEEeeC
Q 002135 617 LWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 617 y~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
|.||+||+||.|+.|.++++..+
T Consensus 341 FvHR~GRTaR~gr~G~Aivfl~p 363 (567)
T KOG0345|consen 341 FVHRCGRTARAGREGNAIVFLNP 363 (567)
T ss_pred HHhhcchhhhccCccceEEEecc
Confidence 99999999999999999988765
No 27
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1e-46 Score=385.59 Aligned_cols=365 Identities=20% Similarity=0.301 Sum_probs=284.1
Q ss_pred ccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC-CCeEEEEcc
Q 002135 230 KAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL-SSSALYMFP 308 (961)
Q Consensus 230 ~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~-~~~aLvl~P 308 (961)
.++|.++ +|.+++++.+...||++|..+|+.||+.+++|+|||++|..|+|||.+|.+.+++.+.-.. ...+|+++|
T Consensus 26 ~~~F~~M--gl~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsP 103 (400)
T KOG0328|consen 26 IPTFDDM--GLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSP 103 (400)
T ss_pred ccchhhc--CchHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecC
Confidence 3568888 8999999999999999999999999999999999999999999999999998887765432 367999999
Q ss_pred cHHHHHHHHHHHHHhHhhCCCCccEEEE-cCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhc
Q 002135 309 TKALAQDQLRALLAMTKAFDASIDIGVY-DGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSL 387 (961)
Q Consensus 309 traLa~qq~~~l~~l~~~~~~~i~v~~~-~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~ 387 (961)
||+||.|+.+.+..++..++ +.+..+ +|.+..++.+.+.-+.+++.+||+++.+++-. .+|+.
T Consensus 104 TRELa~Qi~~vi~alg~~mn--vq~hacigg~n~gedikkld~G~hvVsGtPGrv~dmikr---------~~L~t----- 167 (400)
T KOG0328|consen 104 TRELAVQIQKVILALGDYMN--VQCHACIGGKNLGEDIKKLDYGQHVVSGTPGRVLDMIKR---------RSLRT----- 167 (400)
T ss_pred hHHHHHHHHHHHHHhccccc--ceEEEEecCCccchhhhhhcccceEeeCCCchHHHHHHh---------ccccc-----
Confidence 99999999999999988766 555444 44454556566777899999999999888621 11211
Q ss_pred chhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEE
Q 002135 388 VTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELI 465 (961)
Q Consensus 388 ~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i 465 (961)
..++++|+||||.|+. +|+.++..+++.| ++..|+++.|||++... +....+...+-..++
T Consensus 168 ---------r~vkmlVLDEaDemL~kgfk~Qiydiyr~l--------p~~~Qvv~~SATlp~eilemt~kfmtdpvrilv 230 (400)
T KOG0328|consen 168 ---------RAVKMLVLDEADEMLNKGFKEQIYDIYRYL--------PPGAQVVLVSATLPHEILEMTEKFMTDPVRILV 230 (400)
T ss_pred ---------cceeEEEeccHHHHHHhhHHHHHHHHHHhC--------CCCceEEEEeccCcHHHHHHHHHhcCCceeEEE
Confidence 1249999999999987 5999988877655 45779999999997543 323333332222223
Q ss_pred ecCCCc-cceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHH
Q 002135 466 QNDGSP-CAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSY 544 (961)
Q Consensus 466 ~~~g~p-~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~ 544 (961)
..++.+ .+.+.+++ .+...+.+...+.++...+.- .+++|||||++.++.|.+.
T Consensus 231 krdeltlEgIKqf~v-----------------------~ve~EewKfdtLcdLYd~LtI--tQavIFcnTk~kVdwLtek 285 (400)
T KOG0328|consen 231 KRDELTLEGIKQFFV-----------------------AVEKEEWKFDTLCDLYDTLTI--TQAVIFCNTKRKVDWLTEK 285 (400)
T ss_pred ecCCCchhhhhhhee-----------------------eechhhhhHhHHHHHhhhheh--heEEEEecccchhhHHHHH
Confidence 333322 12333222 233344566666776665532 4799999999999999888
Q ss_pred HHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccC
Q 002135 545 TREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRS 624 (961)
Q Consensus 545 L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRA 624 (961)
+++ ....|.+.||+|.+++|++++.+|++|+.+||++|++.++|||+|.|.+|||||+|.+.+.|+||+||+
T Consensus 286 m~~--------~nftVssmHGDm~qkERd~im~dFRsg~SrvLitTDVwaRGiDv~qVslviNYDLP~nre~YIHRIGRS 357 (400)
T KOG0328|consen 286 MRE--------ANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRS 357 (400)
T ss_pred HHh--------hCceeeeccCCcchhHHHHHHHHhhcCCceEEEEechhhccCCcceeEEEEecCCCccHHHHhhhhccc
Confidence 876 345789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccC
Q 002135 625 GRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHID 664 (961)
Q Consensus 625 GR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~ 664 (961)
||.|+.|.++-+... .|....+.++..+...+.+.+.+
T Consensus 358 GRFGRkGvainFVk~--~d~~~lrdieq~yst~i~emp~n 395 (400)
T KOG0328|consen 358 GRFGRKGVAINFVKS--DDLRILRDIEQYYSTQIDEMPMN 395 (400)
T ss_pred cccCCcceEEEEecH--HHHHHHHHHHHHHhhhcccccch
Confidence 999999999977644 34455566677666665555443
No 28
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=100.00 E-value=8.1e-46 Score=405.69 Aligned_cols=380 Identities=19% Similarity=0.236 Sum_probs=291.4
Q ss_pred ccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-----CCCeEEEE
Q 002135 232 VLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-----LSSSALYM 306 (961)
Q Consensus 232 ~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-----~~~~aLvl 306 (961)
.|.+. .|++...++++.+||+.++++|+..|+.++.|+|+++.|.||||||++|++|+++.+.+. .+..+++|
T Consensus 83 ~f~~~--~LS~~t~kAi~~~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi 160 (543)
T KOG0342|consen 83 RFEEG--SLSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLII 160 (543)
T ss_pred Hhhcc--ccCHHHHHHHHhcCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEe
Confidence 35555 699999999999999999999999999999999999999999999999999999998753 24579999
Q ss_pred cccHHHHHHHHHHHHHhHhhCCCCccEEEE-cCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhh
Q 002135 307 FPTKALAQDQLRALLAMTKAFDASIDIGVY-DGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAF 385 (961)
Q Consensus 307 ~PtraLa~qq~~~l~~l~~~~~~~i~v~~~-~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~ 385 (961)
+|||+||.|.+.+++++..... .+.+++. +|.....+.+.+.++++|+|+||++|.++|-.... ..+.++
T Consensus 161 ~PTRELA~Q~~~eak~Ll~~h~-~~~v~~viGG~~~~~e~~kl~k~~niliATPGRLlDHlqNt~~---f~~r~~----- 231 (543)
T KOG0342|consen 161 CPTRELAMQIFAEAKELLKYHE-SITVGIVIGGNNFSVEADKLVKGCNILIATPGRLLDHLQNTSG---FLFRNL----- 231 (543)
T ss_pred cccHHHHHHHHHHHHHHHhhCC-CcceEEEeCCccchHHHHHhhccccEEEeCCchHHhHhhcCCc---chhhcc-----
Confidence 9999999999999999988763 3455544 44455556677778999999999999888632222 344455
Q ss_pred hcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEE
Q 002135 386 SLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLEL 464 (961)
Q Consensus 386 ~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~ 464 (961)
+++|+||||++++ +|...+..|+.-+. ...|.+++|||.+.-.+....+.-..++..
T Consensus 232 --------------k~lvlDEADrlLd~GF~~di~~Ii~~lp--------k~rqt~LFSAT~~~kV~~l~~~~L~~d~~~ 289 (543)
T KOG0342|consen 232 --------------KCLVLDEADRLLDIGFEEDVEQIIKILP--------KQRQTLLFSATQPSKVKDLARGALKRDPVF 289 (543)
T ss_pred --------------ceeEeecchhhhhcccHHHHHHHHHhcc--------ccceeeEeeCCCcHHHHHHHHHhhcCCceE
Confidence 8999999999988 68888777776553 466889999999866555555433334555
Q ss_pred EecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHH
Q 002135 465 IQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSY 544 (961)
Q Consensus 465 i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~ 544 (961)
+..+........--+- ....+.........+..++.+... ..++||||+|...+..++..
T Consensus 290 v~~~d~~~~~The~l~-------------------Qgyvv~~~~~~f~ll~~~LKk~~~-~~KiiVF~sT~~~vk~~~~l 349 (543)
T KOG0342|consen 290 VNVDDGGERETHERLE-------------------QGYVVAPSDSRFSLLYTFLKKNIK-RYKIIVFFSTCMSVKFHAEL 349 (543)
T ss_pred eecCCCCCcchhhccc-------------------ceEEeccccchHHHHHHHHHHhcC-CceEEEEechhhHHHHHHHH
Confidence 5544322211110000 000111122233444444444332 27999999999999988887
Q ss_pred HHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccC
Q 002135 545 TREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRS 624 (961)
Q Consensus 545 L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRA 624 (961)
|+. +.-.|..+||+.++..|..+...|++.+.-||||||+.+||+|+|+|+.|||||+|.+..+|+||+||+
T Consensus 350 L~~--------~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVaARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRT 421 (543)
T KOG0342|consen 350 LNY--------IDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRT 421 (543)
T ss_pred Hhh--------cCCchhhhhcCCcccccchHHHHHhhcccceEEecchhhccCCCCCceEEEEeCCCCCHHHHHHHhccc
Confidence 764 445788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHH
Q 002135 625 GRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVC 677 (961)
Q Consensus 625 GR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~ 677 (961)
||.|+.|.++++. .|.+.++.+... .-|+++....+..+..+...+..
T Consensus 422 aR~gk~G~alL~l--~p~El~Flr~LK---~lpl~~~e~~~~~~~~v~~~~~~ 469 (543)
T KOG0342|consen 422 AREGKEGKALLLL--APWELGFLRYLK---KLPLEEFEFPPLKPEDVQSQLEK 469 (543)
T ss_pred cccCCCceEEEEe--ChhHHHHHHHHh---hCCCcccCCCCCCHHHHHHHHHH
Confidence 9999999999876 567778887766 45677777777666665555443
No 29
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.2e-46 Score=407.65 Aligned_cols=400 Identities=21% Similarity=0.259 Sum_probs=291.5
Q ss_pred eeecCCcccccccCCccccHHHHHHHH-hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhc----
Q 002135 223 VEDISARKAVLVEIPDALLDNTKSALK-STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSH---- 297 (961)
Q Consensus 223 ~~~~p~~~~~f~~l~~~L~~~l~~~L~-~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~---- 297 (961)
+..-|-....|.++ +|++.+.+.|+ .+++..||.+|.++||.+++|+|++|-++||||||++|++|+++.|..
T Consensus 128 v~e~~fts~~f~~L--GL~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~k 205 (708)
T KOG0348|consen 128 VSEAPFTSAAFASL--GLHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPK 205 (708)
T ss_pred ccccccccccchhc--CCCHHHHHHHHHHhccCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCcc
Confidence 44455566678888 89999999997 599999999999999999999999999999999999999999998864
Q ss_pred ---CCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhH
Q 002135 298 ---DLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFS 374 (961)
Q Consensus 298 ---~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~ 374 (961)
..|.-+|||+|||+||.|.++.++++...+.--+...+.+|.....++.+++++++|+|+||++|.++|.... .
T Consensus 206 i~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLvDHLknT~---~ 282 (708)
T KOG0348|consen 206 IQRSDGPYALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKNTK---S 282 (708)
T ss_pred ccccCCceEEEEechHHHHHHHHHHHHHHhcCceEEeeceeecccccccHHHHHhcCceEEEcCchHHHHHHhccc---h
Confidence 2367899999999999999999999988766545567788889999999999999999999999999874321 2
Q ss_pred HHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHH----Hhhcc-cCCCCcEEEeccCCCC
Q 002135 375 RILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCR----LCSHV-YGSDPSFVFSTATSAN 448 (961)
Q Consensus 375 ~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~----~~~~~-~~~~~q~I~lSATl~n 448 (961)
..++++ ++||+||+|++.+ +|+..+..|+..+.. .|... .....|-++||||+.+
T Consensus 283 i~~s~L-------------------RwlVlDEaDrlleLGfekdit~Il~~v~~~~~~e~~~~~lp~q~q~mLlSATLtd 343 (708)
T KOG0348|consen 283 IKFSRL-------------------RWLVLDEADRLLELGFEKDITQILKAVHSIQNAECKDPKLPHQLQNMLLSATLTD 343 (708)
T ss_pred heeeee-------------------eEEEecchhHHHhccchhhHHHHHHHHhhccchhcccccccHHHHhHhhhhhhHH
Confidence 334445 9999999999988 699999999988843 23210 0113577899999985
Q ss_pred hHHHHHHHcccCCeEEEecCCCccceeE----EEEeCCCccccccccccccccchhhhc--ccCCCCcHHHHHHHHHHHH
Q 002135 449 PREHCMELANLSTLELIQNDGSPCAQKL----FVLWNPTSCLRSVLNKSQTDMDDTRNA--ANKTSSPISEVSYLFAEMV 522 (961)
Q Consensus 449 ~~e~~~~L~~~~~~~~i~~~g~p~~~~~----~~l~~p~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ll~~l~ 522 (961)
.......+. ..+...|..|.+...... ....++.... ... .....+++.... +....-....++.++....
T Consensus 344 ~V~rLa~~s-LkDpv~I~ld~s~~~~~p~~~a~~ev~~~~~~-~~l-~~~~iPeqL~qry~vVPpKLRLV~Laa~L~~~~ 420 (708)
T KOG0348|consen 344 GVNRLADLS-LKDPVYISLDKSHSQLNPKDKAVQEVDDGPAG-DKL-DSFAIPEQLLQRYTVVPPKLRLVALAALLLNKV 420 (708)
T ss_pred HHHHHhhcc-ccCceeeeccchhhhcCcchhhhhhcCCcccc-ccc-ccccCcHHhhhceEecCCchhHHHHHHHHHHHh
Confidence 544333332 234555553332222110 0000111000 000 001111111111 1111112222333343333
Q ss_pred H--CCCcEEEEecChHHHHHHHHHHHHHHHhh------CC--------cccccEEEEcCCCCHHHHHHHHHHHhCCCceE
Q 002135 523 Q--HGLRCIAFCRSRKLCELVLSYTREILEET------AP--------HLVDSICVYRAGYVAEDRRRIERDFFGGKLCG 586 (961)
Q Consensus 523 ~--~g~k~IVF~~sr~~ae~l~~~L~~~l~~~------~~--------~l~~~v~~~hggls~~eR~~ie~~f~~G~~~v 586 (961)
+ ...++|||..+.+.+|.-+..|.+.+... .+ ....++.-+||+|++++|..+++.|...+-.|
T Consensus 421 k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~V 500 (708)
T KOG0348|consen 421 KFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRAV 500 (708)
T ss_pred hhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccceE
Confidence 2 24589999999999998888887755431 00 01225778999999999999999999999899
Q ss_pred EEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCCcchhHHHhchH
Q 002135 587 VAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPE 651 (961)
Q Consensus 587 LVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e 651 (961)
|.||++++||+|+|+|++||+||.|.+.++|+||+||+.|.|..|.++++....+.+ |+++..
T Consensus 501 LLcTDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~alLfL~P~Eae--y~~~l~ 563 (708)
T KOG0348|consen 501 LLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEALLFLLPSEAE--YVNYLK 563 (708)
T ss_pred EEehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceEEEecccHHH--HHHHHH
Confidence 999999999999999999999999999999999999999999999999888665544 555543
No 30
>PRK00254 ski2-like helicase; Provisional
Probab=100.00 E-value=1.3e-44 Score=445.71 Aligned_cols=419 Identities=21% Similarity=0.292 Sum_probs=302.9
Q ss_pred cccCCccccHHHHHHHHhCCCCCCcHHHHHHHHH-HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHH
Q 002135 233 LVEIPDALLDNTKSALKSTGISKLYSHQAESIMA-SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKA 311 (961)
Q Consensus 233 f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~-il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptra 311 (961)
|.++ ++++.+.+.|++.||++|+|+|.+|++. +++|+|+++++|||||||++|.+|++..+.. .+.++|||+|+++
T Consensus 3 ~~~l--~l~~~~~~~l~~~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~-~~~~~l~l~P~~a 79 (720)
T PRK00254 3 VDEL--RVDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLR-EGGKAVYLVPLKA 79 (720)
T ss_pred HHHc--CCCHHHHHHHHhCCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHh-cCCeEEEEeChHH
Confidence 4556 5899999999999999999999999986 7899999999999999999999999998875 3679999999999
Q ss_pred HHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhh
Q 002135 312 LAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTE 391 (961)
Q Consensus 312 La~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~ 391 (961)
|+.|+++++..+. .+ ++++..++|+..... . ....++|+|+||+++..++ .+.. ..++++
T Consensus 80 La~q~~~~~~~~~-~~--g~~v~~~~Gd~~~~~-~-~~~~~~IiV~Tpe~~~~ll-~~~~---~~l~~l----------- 139 (720)
T PRK00254 80 LAEEKYREFKDWE-KL--GLRVAMTTGDYDSTD-E-WLGKYDIIIATAEKFDSLL-RHGS---SWIKDV----------- 139 (720)
T ss_pred HHHHHHHHHHHHh-hc--CCEEEEEeCCCCCch-h-hhccCCEEEEcHHHHHHHH-hCCc---hhhhcC-----------
Confidence 9999999998753 23 478899999986543 2 2356899999999987654 2222 335666
Q ss_pred hhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCC
Q 002135 392 VYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGS 470 (961)
Q Consensus 392 ~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~ 470 (961)
++||+||+|.+.+ .+|..+..++.++. .++|+|++|||++|+.+...|+.. ..+..+.+
T Consensus 140 --------~lvViDE~H~l~~~~rg~~le~il~~l~--------~~~qiI~lSATl~n~~~la~wl~~----~~~~~~~r 199 (720)
T PRK00254 140 --------KLVVADEIHLIGSYDRGATLEMILTHML--------GRAQILGLSATVGNAEELAEWLNA----ELVVSDWR 199 (720)
T ss_pred --------CEEEEcCcCccCCccchHHHHHHHHhcC--------cCCcEEEEEccCCCHHHHHHHhCC----ccccCCCC
Confidence 9999999999975 58988888776652 367999999999999888887742 23444555
Q ss_pred ccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHH
Q 002135 471 PCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILE 550 (961)
Q Consensus 471 p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~ 550 (961)
|.+.+............ . ............++.+.+..+.++||||+||+.|+.++..+...+.
T Consensus 200 pv~l~~~~~~~~~~~~~--------~--------~~~~~~~~~~~~~~~~~i~~~~~vLVF~~sr~~~~~~a~~l~~~~~ 263 (720)
T PRK00254 200 PVKLRKGVFYQGFLFWE--------D--------GKIERFPNSWESLVYDAVKKGKGALVFVNTRRSAEKEALELAKKIK 263 (720)
T ss_pred CCcceeeEecCCeeecc--------C--------cchhcchHHHHHHHHHHHHhCCCEEEEEcChHHHHHHHHHHHHHHH
Confidence 55443322221111000 0 0000001122334455566788999999999999998877754321
Q ss_pred hhC-------------------------CcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEE
Q 002135 551 ETA-------------------------PHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVT 605 (961)
Q Consensus 551 ~~~-------------------------~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~V 605 (961)
... ..+..+|.+|||||++++|+.+++.|++|.++|||||+++++|||+|.+++|
T Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHagl~~~eR~~ve~~F~~G~i~VLvaT~tLa~Gvnipa~~vV 343 (720)
T PRK00254 264 RFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHAGLGRTERVLIEDAFREGLIKVITATPTLSAGINLPAFRVI 343 (720)
T ss_pred HhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCCCCCHHHHHHHHHHHHCCCCeEEEeCcHHhhhcCCCceEEE
Confidence 100 0123469999999999999999999999999999999999999999999999
Q ss_pred EE-------eCCCC-CHhhHHHHhccCCCCC--CCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHH
Q 002135 606 LH-------LGFPG-SIASLWQQAGRSGRRE--RPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHL 675 (961)
Q Consensus 606 I~-------~~~P~-s~~sy~QR~GRAGR~g--~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l 675 (961)
|+ +++|. ++.+|+||+|||||.| ..|.+++++.......++ +.++....+.+.-.+.++..+..|+
T Consensus 344 I~~~~~~~~~~~~~~~~~~~~Qm~GRAGR~~~d~~G~~ii~~~~~~~~~~~----~~~~~~~pe~l~s~l~~es~l~~~l 419 (720)
T PRK00254 344 IRDTKRYSNFGWEDIPVLEIQQMMGRAGRPKYDEVGEAIIVATTEEPSKLM----ERYIFGKPEKLFSMLSNESAFRSQV 419 (720)
T ss_pred ECCceEcCCCCceeCCHHHHHHhhhccCCCCcCCCceEEEEecCcchHHHH----HHHHhCCchhhhccCCchHHHHHHH
Confidence 94 56554 6889999999999975 568888887644322222 2222333333333456678889999
Q ss_pred HHHHhcCCCChhhh------hhhc----------cCCHHHHHHHHHHCCccccCC
Q 002135 676 VCAALEHPLSLIYD------EKYF----------GSGLSSGITTLKNRGYLSSDP 714 (961)
Q Consensus 676 ~~aa~e~p~~~~~~------~~~f----------~~~~~~~l~~L~~~g~l~~~~ 714 (961)
.+...........+ ..++ .+.+++++..|.+.|++..+.
T Consensus 420 l~~i~~~~~~~~~~~~~~l~~Tf~~~~~~~~~~~~~~v~~~l~~L~~~~~i~~~~ 474 (720)
T PRK00254 420 LALITNFGVSNFKELVNFLERTFYAHQRKDLYSLEEKAKEIVYFLLENEFIDIDL 474 (720)
T ss_pred HHHHHhCCCCCHHHHHHHHHhCHHHHhhcChHhHHHHHHHHHHHHHHCCCeEEcC
Confidence 98877654321111 0000 123567888899999988754
No 31
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=100.00 E-value=7.1e-45 Score=440.64 Aligned_cols=344 Identities=23% Similarity=0.277 Sum_probs=249.9
Q ss_pred ccccccCCccccHHHHHHHHh-CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 230 KAVLVEIPDALLDNTKSALKS-TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 230 ~~~f~~l~~~L~~~l~~~L~~-~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
...|..-.+.+...+...++. +|+..|+|+|.++|++++.|+|+++++|||+|||+||++|++.. ++.+|||+|
T Consensus 434 ~~~W~~~~fpw~~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~-----~GiTLVISP 508 (1195)
T PLN03137 434 DKKWSSRNFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALIC-----PGITLVISP 508 (1195)
T ss_pred CccccccCCCchHHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHc-----CCcEEEEeC
Confidence 445665555677788777764 99999999999999999999999999999999999999999863 468999999
Q ss_pred cHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHH-HHh------cCCcEEEeChhHHHHhhcCCCchhHHHhhhhh
Q 002135 309 TKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRM-WLR------DNARLLITNPDMLHMSILPYHGQFSRILSNLR 381 (961)
Q Consensus 309 traLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~-~l~------~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~ 381 (961)
+++|++||...+... ++.+..+.|.....+.. .+. ..++|+++||++|... ..+...+..+.
T Consensus 509 LiSLmqDQV~~L~~~------GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~-----d~ll~~L~~L~ 577 (1195)
T PLN03137 509 LVSLIQDQIMNLLQA------NIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKS-----DSLLRHLENLN 577 (1195)
T ss_pred HHHHHHHHHHHHHhC------CCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcc-----hHHHHHHHhhh
Confidence 999999998887653 36666666766544332 222 3479999999998521 01112222220
Q ss_pred hhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccC
Q 002135 382 LIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLS 460 (961)
Q Consensus 382 ~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~ 460 (961)
....+.+|||||||+++. ||..++..++.|..+...+ +..+++++|||++... +.+...++..
T Consensus 578 -------------~~~~LslIVIDEAHcVSq-WGhDFRpdYr~L~~Lr~~f--p~vPilALTATAT~~V~eDI~~~L~l~ 641 (1195)
T PLN03137 578 -------------SRGLLARFVIDEAHCVSQ-WGHDFRPDYQGLGILKQKF--PNIPVLALTATATASVKEDVVQALGLV 641 (1195)
T ss_pred -------------hccccceeccCcchhhhh-cccchHHHHHHHHHHHHhC--CCCCeEEEEecCCHHHHHHHHHHcCCC
Confidence 001248999999999986 7777766666655444432 3567899999986443 3344444544
Q ss_pred CeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHH
Q 002135 461 TLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCEL 540 (961)
Q Consensus 461 ~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~ 540 (961)
+..++......... .+...+ ........+..++... ..+.++||||.|++.|+.
T Consensus 642 ~~~vfr~Sf~RpNL--~y~Vv~-----------------------k~kk~le~L~~~I~~~-~~~esgIIYC~SRke~E~ 695 (1195)
T PLN03137 642 NCVVFRQSFNRPNL--WYSVVP-----------------------KTKKCLEDIDKFIKEN-HFDECGIIYCLSRMDCEK 695 (1195)
T ss_pred CcEEeecccCccce--EEEEec-----------------------cchhHHHHHHHHHHhc-ccCCCceeEeCchhHHHH
Confidence 33333222111111 111000 0001112222222211 124579999999999999
Q ss_pred HHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHH
Q 002135 541 VLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQ 620 (961)
Q Consensus 541 l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR 620 (961)
++..|+. .+..+..|||||++++|..++++|.+|+++|||||+++++|||+|+|++||||++|.|+++|+||
T Consensus 696 LAe~L~~--------~Gika~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdAFGMGIDkPDVR~VIHydlPkSiEsYyQr 767 (1195)
T PLN03137 696 VAERLQE--------FGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQE 767 (1195)
T ss_pred HHHHHHH--------CCCCeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEechhhcCCCccCCcEEEEcCCCCCHHHHHhh
Confidence 9998865 45678999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCCCCCceEEEEeeC
Q 002135 621 AGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 621 ~GRAGR~g~~g~~i~l~~~ 639 (961)
+|||||.|.+|.|++++..
T Consensus 768 iGRAGRDG~~g~cILlys~ 786 (1195)
T PLN03137 768 CGRAGRDGQRSSCVLYYSY 786 (1195)
T ss_pred hcccCCCCCCceEEEEecH
Confidence 9999999999999988743
No 32
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2e-45 Score=400.61 Aligned_cols=443 Identities=15% Similarity=0.189 Sum_probs=341.4
Q ss_pred hhHhhhhhHHHHHHHHHHHHhhhhcCcCHHHHHHHHhhccCCCCc-----hhhhhhhccCCCCCCCcccccccccccCCC
Q 002135 128 RERSFKTNLWEAVNLLMCKLQKRVMSLSVEDLLTYVKERRTDVRG-----NEVKRARRSQSSTSSSHSFQRRCSDKSQLL 202 (961)
Q Consensus 128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 202 (961)
|.++..++..++.+++|+++...+.....++....+.++++|+.+ .......++.+-..++++++|.+|+.+..+
T Consensus 118 r~dI~~e~aae~~~kym~e~k~~~~~~e~~~~~leydsd~nPi~~~kr~idpl~~idhs~i~y~p~~kdfy~e~esI~gl 197 (731)
T KOG0339|consen 118 RADIDEEDAAEALFKYMSENKRAGAAKECDDMCLEYDSDGNPIAPDKRQIDPLPPIDHSEIDYEPFNKDFYEEHESIEGL 197 (731)
T ss_pred hcchhhHHhHHHHHHHhhhcccchhhhhcccceeecCCCCCccCcccccCCCCCCcchhhccccccccccccChhhhhcc
Confidence 445567777888889999865553322223333345555555432 112344556667777889999999999999
Q ss_pred hHHHHHHHHccCCCCCceEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCch
Q 002135 203 PLEMVEHLRKGIGSQGQMVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSG 282 (961)
Q Consensus 203 ~~~~~~~lr~~~~~~~~iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSG 282 (961)
....+-.+|..+. .-+.....|.+...|+.. +++..+..++++..|.+|||+|.+|++.++.|++|+.+|-||||
T Consensus 198 ~~~d~~~~r~~Ln---lrv~g~s~~rpvtsfeh~--gfDkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSg 272 (731)
T KOG0339|consen 198 TKMDVIDLRLTLN---LRVSGSSPPRPVTSFEHF--GFDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSG 272 (731)
T ss_pred ccccchhhHhhhc---ceeccCCCCCCcchhhhc--CchHHHHHHHhhhhcccCCcccccccccccccccchheeeccCc
Confidence 8877777887773 344556677777788888 78999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHhcC------CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEE
Q 002135 283 KSLCYNLPVLEALSHD------LSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLI 356 (961)
Q Consensus 283 KTla~~Lpil~~l~~~------~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlI 356 (961)
||.+|++|++.+++.. .++..||++|||+||.|++.+++++++..+.. .+++|+|.....|...+..++.|||
T Consensus 273 ktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~-~v~~ygGgsk~eQ~k~Lk~g~EivV 351 (731)
T KOG0339|consen 273 KTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFGKAYGLR-VVAVYGGGSKWEQSKELKEGAEIVV 351 (731)
T ss_pred chhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHHhhhhccce-EEEeecCCcHHHHHHhhhcCCeEEE
Confidence 9999999999888753 36889999999999999999999998877753 3788999999999899999999999
Q ss_pred eChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCC
Q 002135 357 TNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGS 435 (961)
Q Consensus 357 tTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~ 435 (961)
+||++|.+++- .... ++.++.|+|+||+++|.+ +|..++..|-..+ .+
T Consensus 352 aTPgRlid~Vk----mKat-------------------n~~rvS~LV~DEadrmfdmGfe~qVrSI~~hi--------rp 400 (731)
T KOG0339|consen 352 ATPGRLIDMVK----MKAT-------------------NLSRVSYLVLDEADRMFDMGFEPQVRSIKQHI--------RP 400 (731)
T ss_pred echHHHHHHHH----hhcc-------------------cceeeeEEEEechhhhhccccHHHHHHHHhhc--------CC
Confidence 99999988762 1112 233449999999999976 5888877765544 46
Q ss_pred CCcEEEeccCCCChHH-HHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHH
Q 002135 436 DPSFVFSTATSANPRE-HCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEV 514 (961)
Q Consensus 436 ~~q~I~lSATl~n~~e-~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 (961)
+.|.|++|||...-.+ .++.+++. .+.++..+-...+. ++...+....+....+
T Consensus 401 drQtllFsaTf~~kIe~lard~L~d-pVrvVqg~vgean~------------------------dITQ~V~V~~s~~~Kl 455 (731)
T KOG0339|consen 401 DRQTLLFSATFKKKIEKLARDILSD-PVRVVQGEVGEANE------------------------DITQTVSVCPSEEKKL 455 (731)
T ss_pred cceEEEeeccchHHHHHHHHHHhcC-CeeEEEeehhcccc------------------------chhheeeeccCcHHHH
Confidence 7899999999975443 33444443 24443332111110 0011112223334445
Q ss_pred HHHHHHHHHC--CCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccc
Q 002135 515 SYLFAEMVQH--GLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNA 592 (961)
Q Consensus 515 ~~ll~~l~~~--g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~a 592 (961)
..++++|... .+++|+|+.-+..++.++..|+- .+..|...||++.+.+|.+++..|+.+...|||||++
T Consensus 456 ~wl~~~L~~f~S~gkvlifVTKk~~~e~i~a~Lkl--------k~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatDv 527 (731)
T KOG0339|consen 456 NWLLRHLVEFSSEGKVLIFVTKKADAEEIAANLKL--------KGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDV 527 (731)
T ss_pred HHHHHHhhhhccCCcEEEEEeccCCHHHHHHHhcc--------ccceeeeecCchhhHHHHHHHHHHhhcCCceEEEeeH
Confidence 5566666553 34999999999999999887754 3557899999999999999999999999999999999
Q ss_pred cccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCC
Q 002135 593 LELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEG 640 (961)
Q Consensus 593 Le~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~ 640 (961)
..+|+||+++..||+||+-.+++.|.||+||+||.|..|.++.++++.
T Consensus 528 aargldI~~ikTVvnyD~ardIdththrigrtgRag~kGvayTlvTeK 575 (731)
T KOG0339|consen 528 AARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEKGVAYTLVTEK 575 (731)
T ss_pred hhcCCCccccceeecccccchhHHHHHHhhhcccccccceeeEEechh
Confidence 999999999999999999999999999999999999999999887543
No 33
>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=100.00 E-value=9.2e-44 Score=418.28 Aligned_cols=322 Identities=25% Similarity=0.321 Sum_probs=239.2
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
.+||+.|+|+|.+||+++++|+|+++++|||||||+||++|++.. +..+|||+||++|++||.+.+..+
T Consensus 6 ~~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~~-----~~~~lVi~P~~~L~~dq~~~l~~~------ 74 (470)
T TIGR00614 6 VFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALCS-----DGITLVISPLISLMEDQVLQLKAS------ 74 (470)
T ss_pred hcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHHc-----CCcEEEEecHHHHHHHHHHHHHHc------
Confidence 489999999999999999999999999999999999999999852 567999999999999999998763
Q ss_pred CccEEEEcCCCcHHHHHHH----h-cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEE
Q 002135 330 SIDIGVYDGDTTQKDRMWL----R-DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVI 404 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l----~-~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVI 404 (961)
++.+..++|+....++..+ . ...+|+++||+++.... .+...+. ....+++|||
T Consensus 75 gi~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~~~~-----~~~~~l~----------------~~~~i~~iVi 133 (470)
T TIGR00614 75 GIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASN-----RLLQTLE----------------ERKGITLIAV 133 (470)
T ss_pred CCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHcCch-----hHHHHHH----------------hcCCcCEEEE
Confidence 3667778888776654332 2 34799999999975321 1111111 1123499999
Q ss_pred ecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEEecCCCccceeEEEEeCCC
Q 002135 405 DEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELIQNDGSPCAQKLFVLWNPT 483 (961)
Q Consensus 405 DEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~ 483 (961)
||||++++ ||.++...++++..+...+ ++.+++++|||+++.. +.+...++.....++............+
T Consensus 134 DEaH~i~~-~g~~fr~~~~~l~~l~~~~--~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~s~~r~nl~~~v----- 205 (470)
T TIGR00614 134 DEAHCISQ-WGHDFRPDYKALGSLKQKF--PNVPIMALTATASPSVREDILRQLNLKNPQIFCTSFDRPNLYYEV----- 205 (470)
T ss_pred eCCcccCc-cccccHHHHHHHHHHHHHc--CCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeCCCCCCCcEEEE-----
Confidence 99999976 7777776666665554432 4578999999987543 2333333433333322221111110000
Q ss_pred ccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEE
Q 002135 484 SCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVY 563 (961)
Q Consensus 484 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~ 563 (961)
..........+..++.. ...+.++||||+|++.|+.++..|+. .+..+..|
T Consensus 206 --------------------~~~~~~~~~~l~~~l~~-~~~~~~~IIF~~s~~~~e~la~~L~~--------~g~~~~~~ 256 (470)
T TIGR00614 206 --------------------RRKTPKILEDLLRFIRK-EFKGKSGIIYCPSRKKSEQVTASLQN--------LGIAAGAY 256 (470)
T ss_pred --------------------EeCCccHHHHHHHHHHH-hcCCCceEEEECcHHHHHHHHHHHHh--------cCCCeeEe
Confidence 00011222223333321 12456779999999999999998875 34578899
Q ss_pred cCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCC
Q 002135 564 RAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEG 640 (961)
Q Consensus 564 hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~ 640 (961)
||++++++|++++++|++|+++|||||+++++|||+|+|++|||+++|.|+++|+||+|||||.|.+|.+++++...
T Consensus 257 H~~l~~~eR~~i~~~F~~g~~~vLVaT~~~~~GID~p~V~~VI~~~~P~s~~~y~Qr~GRaGR~G~~~~~~~~~~~~ 333 (470)
T TIGR00614 257 HAGLEISARDDVHHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFYAPA 333 (470)
T ss_pred eCCCCHHHHHHHHHHHHcCCCcEEEEechhhccCCcccceEEEEeCCCCCHHHHHhhhcCcCCCCCCceEEEEechh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999877543
No 34
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=100.00 E-value=1.4e-44 Score=397.99 Aligned_cols=387 Identities=20% Similarity=0.238 Sum_probs=295.5
Q ss_pred CcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-----CCCe
Q 002135 228 ARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-----LSSS 302 (961)
Q Consensus 228 ~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-----~~~~ 302 (961)
.....|+++| |+....+.|+..+|..++.+|.++|+..+.|+||+..|.|||||||+|++|++++|.+. .|--
T Consensus 66 ~~~~kF~dlp--ls~~t~kgLke~~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlG 143 (758)
T KOG0343|consen 66 TTIKKFADLP--LSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLG 143 (758)
T ss_pred hhhhhHHhCC--CchHHHHhHhhcCCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCce
Confidence 3445699995 99999999999999999999999999999999999999999999999999999999763 2567
Q ss_pred EEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhh
Q 002135 303 ALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRL 382 (961)
Q Consensus 303 aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~ 382 (961)
+|||+|||+||.|++..+.+.+.... ++.+++-|+........--.+.+|+||||++|.+++-. .....-+++
T Consensus 144 alIISPTRELA~QtFevL~kvgk~h~--fSaGLiiGG~~~k~E~eRi~~mNILVCTPGRLLQHmde---~~~f~t~~l-- 216 (758)
T KOG0343|consen 144 ALIISPTRELALQTFEVLNKVGKHHD--FSAGLIIGGKDVKFELERISQMNILVCTPGRLLQHMDE---NPNFSTSNL-- 216 (758)
T ss_pred eEEecchHHHHHHHHHHHHHHhhccc--cccceeecCchhHHHHHhhhcCCeEEechHHHHHHhhh---cCCCCCCcc--
Confidence 99999999999999999999987654 56666666655443333335689999999999877621 111222334
Q ss_pred hhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCC
Q 002135 383 IAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLST 461 (961)
Q Consensus 383 ~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~ 461 (961)
.++|+||||++++ +|...+..|+..|. ...|.+++|||..+....+.+|.- .+
T Consensus 217 -----------------QmLvLDEADR~LDMGFk~tL~~Ii~~lP--------~~RQTLLFSATqt~svkdLaRLsL-~d 270 (758)
T KOG0343|consen 217 -----------------QMLVLDEADRMLDMGFKKTLNAIIENLP--------KKRQTLLFSATQTKSVKDLARLSL-KD 270 (758)
T ss_pred -----------------eEEEeccHHHHHHHhHHHHHHHHHHhCC--------hhheeeeeecccchhHHHHHHhhc-CC
Confidence 9999999999987 68888888877663 456889999999877666666532 22
Q ss_pred eEEEec-----CCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChH
Q 002135 462 LELIQN-----DGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRK 536 (961)
Q Consensus 462 ~~~i~~-----~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~ 536 (961)
+..|.. .+.|.....+++. ....+++..+...+..- -..+.|||+.|.+
T Consensus 271 P~~vsvhe~a~~atP~~L~Q~y~~------------------------v~l~~Ki~~L~sFI~sh--lk~K~iVF~SscK 324 (758)
T KOG0343|consen 271 PVYVSVHENAVAATPSNLQQSYVI------------------------VPLEDKIDMLWSFIKSH--LKKKSIVFLSSCK 324 (758)
T ss_pred CcEEEEeccccccChhhhhheEEE------------------------EehhhHHHHHHHHHHhc--cccceEEEEehhh
Confidence 333322 1223333322221 22334433333333221 2468999999999
Q ss_pred HHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhh
Q 002135 537 LCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIAS 616 (961)
Q Consensus 537 ~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~s 616 (961)
++..+++.++. + ..+..+..+||+|++..|.++...|...+.-||+||+++++|+|+|.||+||++|.|.++.+
T Consensus 325 qvkf~~e~F~r----l--rpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv~aRGLDFpaVdwViQ~DCPedv~t 398 (758)
T KOG0343|consen 325 QVKFLYEAFCR----L--RPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDVAARGLDFPAVDWVIQVDCPEDVDT 398 (758)
T ss_pred HHHHHHHHHHh----c--CCCCceeeeccchhHHHHHHHHHHHHHhcceEEEeehhhhccCCCcccceEEEecCchhHHH
Confidence 99998887765 2 24557899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCC
Q 002135 617 LWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHP 683 (961)
Q Consensus 617 y~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p 683 (961)
|+||+||+.|.+..|.++++...++.+. +....++- ..++++..+++.....+...+....++.|
T Consensus 399 YIHRvGRtAR~~~~G~sll~L~psEeE~-~l~~Lq~k-~I~i~~i~i~~~k~~~i~~~l~~ll~~~~ 463 (758)
T KOG0343|consen 399 YIHRVGRTARYKERGESLLMLTPSEEEA-MLKKLQKK-KIPIKEIKIDPEKLTSIRNKLEALLAKDP 463 (758)
T ss_pred HHHHhhhhhcccCCCceEEEEcchhHHH-HHHHHHHc-CCCHHhhccCHHHhhhHHHHHHHHHhhCH
Confidence 9999999999999999998887665443 33333332 25777788887766666677766666554
No 35
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.2e-44 Score=375.83 Aligned_cols=364 Identities=21% Similarity=0.276 Sum_probs=285.5
Q ss_pred CCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC-CCeEEE
Q 002135 227 SARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL-SSSALY 305 (961)
Q Consensus 227 p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~-~~~aLv 305 (961)
..+...|+++ .|.++++..+.+.||++|.|+|.++||.++.|+|++.-|..|+|||.+|.+|+++.+.... ...+++
T Consensus 81 ~TkG~efEd~--~Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~i 158 (459)
T KOG0326|consen 81 ATKGNEFEDY--CLKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAII 158 (459)
T ss_pred cccCccHHHh--hhhHHHHHHHHHhccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCccccceeEEE
Confidence 3445568877 6899999999999999999999999999999999999999999999999999999987543 457999
Q ss_pred EcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcH-HHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhh
Q 002135 306 MFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQ-KDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIA 384 (961)
Q Consensus 306 l~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~-~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~ 384 (961)
++|||+||-|..+.++.+.+.++ +.+.+..|.+.. ++..++.+..+++|+||+++.++. .+.-..++.
T Consensus 159 lVPtrelALQtSqvc~~lskh~~--i~vmvttGGT~lrDDI~Rl~~~VH~~vgTPGRIlDL~----~KgVa~ls~----- 227 (459)
T KOG0326|consen 159 LVPTRELALQTSQVCKELSKHLG--IKVMVTTGGTSLRDDIMRLNQTVHLVVGTPGRILDLA----KKGVADLSD----- 227 (459)
T ss_pred EeecchhhHHHHHHHHHHhcccC--eEEEEecCCcccccceeeecCceEEEEcCChhHHHHH----hcccccchh-----
Confidence 99999999999999999988776 677777777654 444556677999999999998765 222223344
Q ss_pred hhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHH-HHHHHcccCCe
Q 002135 385 FSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPRE-HCMELANLSTL 462 (961)
Q Consensus 385 ~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e-~~~~L~~~~~~ 462 (961)
..++|+||||.++. .|+..+..++..| +...|+++.|||.+.... ++.+....+
T Consensus 228 --------------c~~lV~DEADKlLs~~F~~~~e~li~~l--------P~~rQillySATFP~tVk~Fm~~~l~kP-- 283 (459)
T KOG0326|consen 228 --------------CVILVMDEADKLLSVDFQPIVEKLISFL--------PKERQILLYSATFPLTVKGFMDRHLKKP-- 283 (459)
T ss_pred --------------ceEEEechhhhhhchhhhhHHHHHHHhC--------CccceeeEEecccchhHHHHHHHhccCc--
Confidence 49999999999987 4887777766555 456799999999986553 333332221
Q ss_pred EEEe--cCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHH
Q 002135 463 ELIQ--NDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCEL 540 (961)
Q Consensus 463 ~~i~--~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~ 540 (961)
..|. .+-.+.+...++- ......+..-+-.++..+.- .+.||||||.+.+|.
T Consensus 284 y~INLM~eLtl~GvtQyYa------------------------fV~e~qKvhCLntLfskLqI--NQsIIFCNS~~rVEL 337 (459)
T KOG0326|consen 284 YEINLMEELTLKGVTQYYA------------------------FVEERQKVHCLNTLFSKLQI--NQSIIFCNSTNRVEL 337 (459)
T ss_pred ceeehhhhhhhcchhhhee------------------------eechhhhhhhHHHHHHHhcc--cceEEEeccchHhHH
Confidence 1111 1111112221111 12223344444445554432 379999999999999
Q ss_pred HHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHH
Q 002135 541 VLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQ 620 (961)
Q Consensus 541 l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR 620 (961)
+|+.+.+ ++..+.++|+.|.+++|.++..+|++|.++.||||+.+.+||||+.+++|||+|+|.+.++|+||
T Consensus 338 LAkKITe--------lGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGIDiqavNvVINFDfpk~aEtYLHR 409 (459)
T KOG0326|consen 338 LAKKITE--------LGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQAVNVVINFDFPKNAETYLHR 409 (459)
T ss_pred HHHHHHh--------ccchhhHHHHHHHHhhhhhhhhhhhccccceeeehhhhhcccccceeeEEEecCCCCCHHHHHHH
Confidence 9998876 77788899999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCccccc
Q 002135 621 AGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHI 663 (961)
Q Consensus 621 ~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~ 663 (961)
+||+||.|..|.++.+.... |.+.+..+|..++.++.+...
T Consensus 410 IGRsGRFGhlGlAInLitye--drf~L~~IE~eLGtEI~pip~ 450 (459)
T KOG0326|consen 410 IGRSGRFGHLGLAINLITYE--DRFNLYRIEQELGTEIKPIPS 450 (459)
T ss_pred ccCCccCCCcceEEEEEehh--hhhhHHHHHHHhccccccCCC
Confidence 99999999999999888654 566667788888888766553
No 36
>PRK01172 ski2-like helicase; Provisional
Probab=100.00 E-value=1.2e-42 Score=426.30 Aligned_cols=416 Identities=20% Similarity=0.222 Sum_probs=294.9
Q ss_pred cccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHH
Q 002135 233 LVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKAL 312 (961)
Q Consensus 233 f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraL 312 (961)
|.++ +|++.+.+.+++.+++ |+++|.+|++.+.+|+|++++||||||||+++.+++++.+.. +.+++|++|+++|
T Consensus 3 ~~~~--~l~~~~~~~~~~~~~~-l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~--~~k~v~i~P~raL 77 (674)
T PRK01172 3 ISDL--GYDDEFLNLFTGNDFE-LYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLA--GLKSIYIVPLRSL 77 (674)
T ss_pred Hhhc--CCCHHHHHHHhhCCCC-CCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHh--CCcEEEEechHHH
Confidence 5566 5899999999999996 999999999999999999999999999999999999988865 5689999999999
Q ss_pred HHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhh
Q 002135 313 AQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEV 392 (961)
Q Consensus 313 a~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~ 392 (961)
|+|+++++.++. .. +..+....|+...... ..+.++|+|+||+++...+. ++...+.++
T Consensus 78 a~q~~~~~~~l~-~~--g~~v~~~~G~~~~~~~--~~~~~dIiv~Tpek~~~l~~----~~~~~l~~v------------ 136 (674)
T PRK01172 78 AMEKYEELSRLR-SL--GMRVKISIGDYDDPPD--FIKRYDVVILTSEKADSLIH----HDPYIINDV------------ 136 (674)
T ss_pred HHHHHHHHHHHh-hc--CCeEEEEeCCCCCChh--hhccCCEEEECHHHHHHHHh----CChhHHhhc------------
Confidence 999999998753 23 4677777787654321 23468999999999876542 234456666
Q ss_pred hhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCc
Q 002135 393 YLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSP 471 (961)
Q Consensus 393 ~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p 471 (961)
++||+||+|++.+ .+|..+..++.+++.. +.+.|+|++|||++|+.+...|+.. ..+....+|
T Consensus 137 -------~lvViDEaH~l~d~~rg~~le~ll~~~~~~-----~~~~riI~lSATl~n~~~la~wl~~----~~~~~~~r~ 200 (674)
T PRK01172 137 -------GLIVADEIHIIGDEDRGPTLETVLSSARYV-----NPDARILALSATVSNANELAQWLNA----SLIKSNFRP 200 (674)
T ss_pred -------CEEEEecchhccCCCccHHHHHHHHHHHhc-----CcCCcEEEEeCccCCHHHHHHHhCC----CccCCCCCC
Confidence 9999999999975 5899999988887754 3468999999999999888877632 334455556
Q ss_pred cceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHh
Q 002135 472 CAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEE 551 (961)
Q Consensus 472 ~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~ 551 (961)
.+............. .........+..++......+.++||||++++.|+.++..+.+.+..
T Consensus 201 vpl~~~i~~~~~~~~------------------~~~~~~~~~~~~~i~~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~ 262 (674)
T PRK01172 201 VPLKLGILYRKRLIL------------------DGYERSQVDINSLIKETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPE 262 (674)
T ss_pred CCeEEEEEecCeeee------------------cccccccccHHHHHHHHHhCCCcEEEEeccHHHHHHHHHHHHHhhhh
Confidence 555443332211110 00000011133455555667889999999999999999988765432
Q ss_pred hCC-----------------cccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCC----
Q 002135 552 TAP-----------------HLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGF---- 610 (961)
Q Consensus 552 ~~~-----------------~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~---- 610 (961)
... .+..++.+||||+++++|+.+++.|++|.++|||||+++++|||+|+..+|| .+.
T Consensus 263 ~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~g~i~VLvaT~~la~Gvnipa~~VII-~~~~~~~ 341 (674)
T PRK01172 263 FNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVATPTLAAGVNLPARLVIV-RDITRYG 341 (674)
T ss_pred cccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHcCCCeEEEecchhhccCCCcceEEEE-cCceEeC
Confidence 110 0123689999999999999999999999999999999999999999875555 332
Q ss_pred -----CCCHhhHHHHhccCCCCCC--CceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCC
Q 002135 611 -----PGSIASLWQQAGRSGRRER--PSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHP 683 (961)
Q Consensus 611 -----P~s~~sy~QR~GRAGR~g~--~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p 683 (961)
|.|..+|.||+|||||.|. .|.+++++.......+ ..+++..+.++......+...+..++.+.....-
T Consensus 342 ~~~~~~~s~~~~~Qm~GRAGR~g~d~~g~~~i~~~~~~~~~~----~~~~l~~~~~pi~S~l~~~~~~~~~~l~~i~~g~ 417 (674)
T PRK01172 342 NGGIRYLSNMEIKQMIGRAGRPGYDQYGIGYIYAASPASYDA----AKKYLSGEPEPVISYMGSQRKVRFNTLAAISMGL 417 (674)
T ss_pred CCCceeCCHHHHHHHhhcCCCCCCCCcceEEEEecCcccHHH----HHHHHcCCCCceeecCCCcccHHHHHHHHHHhcc
Confidence 5588999999999999985 4667766543321122 2333433333333333444444555444333222
Q ss_pred C-Chhhhhh--------------hccCCHHHHHHHHHHCCccccC
Q 002135 684 L-SLIYDEK--------------YFGSGLSSGITTLKNRGYLSSD 713 (961)
Q Consensus 684 ~-~~~~~~~--------------~f~~~~~~~l~~L~~~g~l~~~ 713 (961)
. +...... +..+.++++++.|.+.|++..+
T Consensus 418 ~~~~~d~~~~l~~tf~~~~~~~~~l~~~v~~~l~~L~~~~~i~~~ 462 (674)
T PRK01172 418 ASSMEDLILFYNETLMAIQNGVDEIDYYIESSLKFLKENGFIKGD 462 (674)
T ss_pred cCCHHHHHHHHHhhhhHhcCchHHHHHHHHHHHHHHHHCCCcccC
Confidence 1 1100011 1122367899999999999754
No 37
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.1e-44 Score=398.36 Aligned_cols=355 Identities=17% Similarity=0.198 Sum_probs=275.9
Q ss_pred EeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC--
Q 002135 222 HVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL-- 299 (961)
Q Consensus 222 ~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~-- 299 (961)
...+.|.....|.+. .+.+.+...++..|+..|+|+|+.+|+.+..|++++++|+||||||.+|++|++..+.++.
T Consensus 65 ~G~~~p~~i~~f~~~--~l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~ 142 (482)
T KOG0335|consen 65 SGRDVPPHIPTFDEA--ILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPE 142 (482)
T ss_pred cCCccCCCccccccc--chhHHHhhccccccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcc
Confidence 456777777788765 5888888889999999999999999999999999999999999999999999999987642
Q ss_pred ---------CCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCC
Q 002135 300 ---------SSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYH 370 (961)
Q Consensus 300 ---------~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~ 370 (961)
.+++|+++|||+|+.|++.+.+++...... -.+..|.|.....+...+..+++|+++||++|.+.+
T Consensus 143 ~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~-~~~~~ygg~~~~~q~~~~~~gcdIlvaTpGrL~d~~---- 217 (482)
T KOG0335|consen 143 DRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGM-KSVVVYGGTDLGAQLRFIKRGCDILVATPGRLKDLI---- 217 (482)
T ss_pred cCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccc-eeeeeeCCcchhhhhhhhccCccEEEecCchhhhhh----
Confidence 378999999999999999999998654442 224556665555666778889999999999998765
Q ss_pred chhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc--ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCC
Q 002135 371 GQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG--AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSAN 448 (961)
Q Consensus 371 ~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~--~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n 448 (961)
......|.++ +|+|+||||+|.+ +|++++..++.+.... .....|.+++|||.+.
T Consensus 218 e~g~i~l~~~-------------------k~~vLDEADrMlD~mgF~p~Ir~iv~~~~~~----~~~~~qt~mFSAtfp~ 274 (482)
T KOG0335|consen 218 ERGKISLDNC-------------------KFLVLDEADRMLDEMGFEPQIRKIVEQLGMP----PKNNRQTLLFSATFPK 274 (482)
T ss_pred hcceeehhhC-------------------cEEEecchHHhhhhccccccHHHHhcccCCC----CccceeEEEEeccCCh
Confidence 2233445565 9999999999988 5999988887666422 1245688999999975
Q ss_pred hHHHHHHHcccCC--eEEEec-CCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHC-
Q 002135 449 PREHCMELANLST--LELIQN-DGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQH- 524 (961)
Q Consensus 449 ~~e~~~~L~~~~~--~~~i~~-~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~- 524 (961)
..+.....+-..+ ..-|.. .+.......-++|.. ..++...+.+++......
T Consensus 275 ~iq~l~~~fl~~~yi~laV~rvg~~~~ni~q~i~~V~------------------------~~~kr~~Lldll~~~~~~~ 330 (482)
T KOG0335|consen 275 EIQRLAADFLKDNYIFLAVGRVGSTSENITQKILFVN------------------------EMEKRSKLLDLLNKDDGPP 330 (482)
T ss_pred hhhhhHHHHhhccceEEEEeeeccccccceeEeeeec------------------------chhhHHHHHHHhhcccCCc
Confidence 5443333222211 112222 222222333333311 233444455554433211
Q ss_pred -C-----CcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccc
Q 002135 525 -G-----LRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGID 598 (961)
Q Consensus 525 -g-----~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GID 598 (961)
. .+++|||.+++.|..++..+.. .+.....+||..++.+|.+.++.|++|.+.+||||+++++|+|
T Consensus 331 ~~~~~~~e~tlvFvEt~~~~d~l~~~l~~--------~~~~~~sIhg~~tq~er~~al~~Fr~g~~pvlVaT~VaaRGlD 402 (482)
T KOG0335|consen 331 SDGEPKWEKTLVFVETKRGADELAAFLSS--------NGYPAKSIHGDRTQIEREQALNDFRNGKAPVLVATNVAARGLD 402 (482)
T ss_pred ccCCcccceEEEEeeccchhhHHHHHHhc--------CCCCceeecchhhhhHHHHHHHHhhcCCcceEEEehhhhcCCC
Confidence 1 2799999999999999988876 5567889999999999999999999999999999999999999
Q ss_pred cCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEee
Q 002135 599 VGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 599 Ip~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
||+|++||+||+|.+..+|+||+||+||.|..|.++.++.
T Consensus 403 i~~V~hVInyDmP~d~d~YvHRIGRTGR~Gn~G~atsf~n 442 (482)
T KOG0335|consen 403 IPNVKHVINYDMPADIDDYVHRIGRTGRVGNGGRATSFFN 442 (482)
T ss_pred CCCCceeEEeecCcchhhHHHhccccccCCCCceeEEEec
Confidence 9999999999999999999999999999999999997775
No 38
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=100.00 E-value=6.3e-42 Score=413.10 Aligned_cols=325 Identities=26% Similarity=0.353 Sum_probs=238.8
Q ss_pred HHHHHHHHh-CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHH
Q 002135 242 DNTKSALKS-TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRAL 320 (961)
Q Consensus 242 ~~l~~~L~~-~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l 320 (961)
+...+.|++ +||..|+|+|.++|+++++|+|+++++|||||||+||++|++.. .+.+|||+|+++|+.||.+.+
T Consensus 11 ~~~~~~l~~~fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~-----~g~tlVisPl~sL~~dqv~~l 85 (607)
T PRK11057 11 SLAKQVLQETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL-----DGLTLVVSPLISLMKDQVDQL 85 (607)
T ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc-----CCCEEEEecHHHHHHHHHHHH
Confidence 344455654 89999999999999999999999999999999999999999853 457999999999999999998
Q ss_pred HHhHhhCCCCccEEEEcCCCcHHHHHH----Hh-cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhh
Q 002135 321 LAMTKAFDASIDIGVYDGDTTQKDRMW----LR-DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLI 395 (961)
Q Consensus 321 ~~l~~~~~~~i~v~~~~Gd~~~~~r~~----l~-~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~ 395 (961)
... ++.+..+.+.....+... +. ...+++++||++|... .+...+..
T Consensus 86 ~~~------gi~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe~l~~~------~~~~~l~~---------------- 137 (607)
T PRK11057 86 LAN------GVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMD------NFLEHLAH---------------- 137 (607)
T ss_pred HHc------CCcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEEChHHhcCh------HHHHHHhh----------------
Confidence 764 256667777766554332 22 2378999999998531 11111111
Q ss_pred hcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEEecCCCccce
Q 002135 396 FLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELIQNDGSPCAQ 474 (961)
Q Consensus 396 ~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~g~p~~~ 474 (961)
.++++|||||||++.. ||..+...++.|..+...+ ++.+++++|||+++.. ..+....+..+..+.......
T Consensus 138 -~~l~~iVIDEaH~i~~-~G~~fr~~y~~L~~l~~~~--p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~~~~r--- 210 (607)
T PRK11057 138 -WNPALLAVDEAHCISQ-WGHDFRPEYAALGQLRQRF--PTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDR--- 210 (607)
T ss_pred -CCCCEEEEeCcccccc-ccCcccHHHHHHHHHHHhC--CCCcEEEEecCCChhHHHHHHHHhCCCCeEEEECCCCC---
Confidence 1249999999999986 6666665555555554432 3578999999987654 223333333322221111100
Q ss_pred eEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCC
Q 002135 475 KLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAP 554 (961)
Q Consensus 475 ~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~ 554 (961)
|... ............+...+.. ..+.++||||+|++.|+.++..|++
T Consensus 211 -------~nl~----------------~~v~~~~~~~~~l~~~l~~--~~~~~~IIFc~tr~~~e~la~~L~~------- 258 (607)
T PRK11057 211 -------PNIR----------------YTLVEKFKPLDQLMRYVQE--QRGKSGIIYCNSRAKVEDTAARLQS------- 258 (607)
T ss_pred -------Ccce----------------eeeeeccchHHHHHHHHHh--cCCCCEEEEECcHHHHHHHHHHHHh-------
Confidence 1000 0000111122223333221 2567999999999999999998876
Q ss_pred cccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEE
Q 002135 555 HLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAV 634 (961)
Q Consensus 555 ~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i 634 (961)
.+..+..|||++++++|.++++.|++|+++|||||+++++|||+|+|++|||+++|.|.++|+||+|||||.|.+|.++
T Consensus 259 -~g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~~~GIDip~V~~VI~~d~P~s~~~y~Qr~GRaGR~G~~~~~i 337 (607)
T PRK11057 259 -RGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAM 337 (607)
T ss_pred -CCCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEechhhccCCCCCcCEEEEeCCCCCHHHHHHHhhhccCCCCCceEE
Confidence 3457899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeC
Q 002135 635 YVAFE 639 (961)
Q Consensus 635 ~l~~~ 639 (961)
+++..
T Consensus 338 ll~~~ 342 (607)
T PRK11057 338 LFYDP 342 (607)
T ss_pred EEeCH
Confidence 87653
No 39
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=100.00 E-value=7.3e-42 Score=413.36 Aligned_cols=321 Identities=26% Similarity=0.345 Sum_probs=241.0
Q ss_pred HHHH-hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 246 SALK-STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 246 ~~L~-~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
+.|+ .+||++|+++|.++|+++++|+|+++++|||+|||+||++|++.. +..++||+|+++|++||.+.++.+
T Consensus 3 ~~l~~~fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~~-----~g~~lVisPl~sL~~dq~~~l~~~- 76 (591)
T TIGR01389 3 QVLKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLL-----KGLTVVISPLISLMKDQVDQLRAA- 76 (591)
T ss_pred HHHHHhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHHc-----CCcEEEEcCCHHHHHHHHHHHHHc-
Confidence 3464 489999999999999999999999999999999999999999852 457899999999999999998874
Q ss_pred hhCCCCccEEEEcCCCcHHHHHHH-----hcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcce
Q 002135 325 KAFDASIDIGVYDGDTTQKDRMWL-----RDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFI 399 (961)
Q Consensus 325 ~~~~~~i~v~~~~Gd~~~~~r~~l-----~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i 399 (961)
++.+..++|+....+...+ ....+|+++||++|... .|...+.. ..+
T Consensus 77 -----gi~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~~~------~~~~~l~~-----------------~~l 128 (591)
T TIGR01389 77 -----GVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQD------YFLNMLQR-----------------IPI 128 (591)
T ss_pred -----CCcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhHhcCh------HHHHHHhc-----------------CCC
Confidence 3667788888776654432 23479999999998532 22222222 134
Q ss_pred eEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEEecCCCccceeEEE
Q 002135 400 RFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELIQNDGSPCAQKLFV 478 (961)
Q Consensus 400 ~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~g~p~~~~~~~ 478 (961)
++|||||||+++. ||.++...++++..+...+ +..+++++|||.+... ..+....+..+...+......
T Consensus 129 ~~iViDEaH~i~~-~g~~frp~y~~l~~l~~~~--~~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~~~~r------- 198 (591)
T TIGR01389 129 ALVAVDEAHCVSQ-WGHDFRPEYQRLGSLAERF--PQVPRIALTATADAETRQDIRELLRLADANEFITSFDR------- 198 (591)
T ss_pred CEEEEeCCccccc-ccCccHHHHHHHHHHHHhC--CCCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEecCCCC-------
Confidence 9999999999975 7877777777777666543 2345999999986543 233333333222222111100
Q ss_pred EeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccc
Q 002135 479 LWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVD 558 (961)
Q Consensus 479 l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~ 558 (961)
|... ........+...+..++... .+.++||||+|++.|+.+++.|+. .+.
T Consensus 199 ---~nl~----------------~~v~~~~~~~~~l~~~l~~~--~~~~~IIf~~sr~~~e~la~~L~~--------~g~ 249 (591)
T TIGR01389 199 ---PNLR----------------FSVVKKNNKQKFLLDYLKKH--RGQSGIIYASSRKKVEELAERLES--------QGI 249 (591)
T ss_pred ---CCcE----------------EEEEeCCCHHHHHHHHHHhc--CCCCEEEEECcHHHHHHHHHHHHh--------CCC
Confidence 1000 00001112223333333321 357899999999999999998865 345
Q ss_pred cEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEee
Q 002135 559 SICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 559 ~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
.+..|||+|++++|+.+++.|.+|+++|||||+++++|||+|++++|||+++|.|+++|+||+|||||.|.++.+++++.
T Consensus 250 ~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRaGR~G~~~~~il~~~ 329 (591)
T TIGR01389 250 SALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILLYS 329 (591)
T ss_pred CEEEEECCCCHHHHHHHHHHHHcCCCcEEEEechhhccCcCCCCCEEEEcCCCCCHHHHhhhhccccCCCCCceEEEecC
Confidence 68899999999999999999999999999999999999999999999999999999999999999999999999987664
Q ss_pred C
Q 002135 639 E 639 (961)
Q Consensus 639 ~ 639 (961)
.
T Consensus 330 ~ 330 (591)
T TIGR01389 330 P 330 (591)
T ss_pred H
Confidence 3
No 40
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=100.00 E-value=3.2e-42 Score=397.97 Aligned_cols=325 Identities=29% Similarity=0.416 Sum_probs=251.3
Q ss_pred HHHH-hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 246 SALK-STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 246 ~~L~-~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
..|+ .+|+..+++-|.++|.++++|+|+++.+|||+|||+||++|++-. .+.+|+|+|..+|++||.+.++..
T Consensus 7 ~~L~~~fGy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~-----~G~TLVVSPLiSLM~DQV~~l~~~- 80 (590)
T COG0514 7 QVLKQVFGYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL-----EGLTLVVSPLISLMKDQVDQLEAA- 80 (590)
T ss_pred HHHHHHhCccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc-----CCCEEEECchHHHHHHHHHHHHHc-
Confidence 4465 389999999999999999999999999999999999999999864 458999999999999999999885
Q ss_pred hhCCCCccEEEEcCCCcHHHHHHHh----c-CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcce
Q 002135 325 KAFDASIDIGVYDGDTTQKDRMWLR----D-NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFI 399 (961)
Q Consensus 325 ~~~~~~i~v~~~~Gd~~~~~r~~l~----~-~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i 399 (961)
++.++..++....+++..+. . ..++++.+||+|.. ..+...++.. .+
T Consensus 81 -----Gi~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl~~------~~f~~~L~~~-----------------~i 132 (590)
T COG0514 81 -----GIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMS------PRFLELLKRL-----------------PI 132 (590)
T ss_pred -----CceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcC------hHHHHHHHhC-----------------CC
Confidence 36677778887777665442 2 26899999999853 2333444433 35
Q ss_pred eEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEEecCCCccceeEEE
Q 002135 400 RFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELIQNDGSPCAQKLFV 478 (961)
Q Consensus 400 ~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~g~p~~~~~~~ 478 (961)
.++|||||||++. ||++++.-+++|..+...+ +++.++++|||..... +.+...++.....++....
T Consensus 133 ~l~vIDEAHCiSq-WGhdFRP~Y~~lg~l~~~~--~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~sf--------- 200 (590)
T COG0514 133 SLVAIDEAHCISQ-WGHDFRPDYRRLGRLRAGL--PNPPVLALTATATPRVRDDIREQLGLQDANIFRGSF--------- 200 (590)
T ss_pred ceEEechHHHHhh-cCCccCHhHHHHHHHHhhC--CCCCEEEEeCCCChHHHHHHHHHhcCCCcceEEecC---------
Confidence 9999999999997 8888888888888877664 2789999999975432 4444444443332222111
Q ss_pred EeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccc
Q 002135 479 LWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVD 558 (961)
Q Consensus 479 l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~ 558 (961)
-.|.+. ..+....+...+...+.......+...||||.||+.+|.++++|.. .+.
T Consensus 201 -dRpNi~----------------~~v~~~~~~~~q~~fi~~~~~~~~~~GIIYc~sRk~~E~ia~~L~~--------~g~ 255 (590)
T COG0514 201 -DRPNLA----------------LKVVEKGEPSDQLAFLATVLPQLSKSGIIYCLTRKKVEELAEWLRK--------NGI 255 (590)
T ss_pred -CCchhh----------------hhhhhcccHHHHHHHHHhhccccCCCeEEEEeeHHhHHHHHHHHHH--------CCC
Confidence 111111 0111111223333322221223356789999999999999999977 356
Q ss_pred cEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEee
Q 002135 559 SICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 559 ~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
.+..|||||+.++|+.++++|.+++++|+|||.|+++|||.|+|++||||++|.|+++|+|.+|||||+|.++.|++++.
T Consensus 256 ~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~lP~s~EsYyQE~GRAGRDG~~a~aill~~ 335 (590)
T COG0514 256 SAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAILLYS 335 (590)
T ss_pred ceEEecCCCCHHHHHHHHHHHhcCCCcEEEEeccccCccCCCCceEEEEecCCCCHHHHHHHHhhccCCCCcceEEEeec
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999998875
Q ss_pred CCc
Q 002135 639 EGP 641 (961)
Q Consensus 639 ~~~ 641 (961)
..+
T Consensus 336 ~~D 338 (590)
T COG0514 336 PED 338 (590)
T ss_pred ccc
Confidence 443
No 41
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=9.9e-43 Score=375.19 Aligned_cols=359 Identities=20% Similarity=0.264 Sum_probs=268.9
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-------CCCeE
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-------LSSSA 303 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-------~~~~a 303 (961)
.+|+++ +|++.+++++.+.||++|+.+|..|||.+++|+|++..|.||||||++|++|+++.+... .+..+
T Consensus 19 ktFe~~--gLD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa 96 (569)
T KOG0346|consen 19 KTFEEF--GLDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSA 96 (569)
T ss_pred ccHHHh--CCCHHHHHHHHHhCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhccccccccee
Confidence 568888 899999999999999999999999999999999999999999999999999999998752 25789
Q ss_pred EEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEc-CCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhh
Q 002135 304 LYMFPTKALAQDQLRALLAMTKAFDASIDIGVYD-GDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRL 382 (961)
Q Consensus 304 Lvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~-Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~ 382 (961)
++++|||+||+|.+..+.++...+...+++.-.. .......+.++.+.++|+|+||.+|..++- ......+..+
T Consensus 97 ~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~---~~~~~~~~~l-- 171 (569)
T KOG0346|consen 97 VILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLA---AGVLEYLDSL-- 171 (569)
T ss_pred EEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHh---hccchhhhhe--
Confidence 9999999999999999999887776555544333 334444557888899999999999876641 1111334444
Q ss_pred hhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCC
Q 002135 383 IAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLST 461 (961)
Q Consensus 383 ~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~ 461 (961)
+++|+||||.+.. ++..++..+...| ++..|.+++|||+.+..+.++.|+-..+
T Consensus 172 -----------------~~LVvDEADLllsfGYeedlk~l~~~L--------Pr~~Q~~LmSATl~dDv~~LKkL~l~nP 226 (569)
T KOG0346|consen 172 -----------------SFLVVDEADLLLSFGYEEDLKKLRSHL--------PRIYQCFLMSATLSDDVQALKKLFLHNP 226 (569)
T ss_pred -----------------eeEEechhhhhhhcccHHHHHHHHHhC--------CchhhheeehhhhhhHHHHHHHHhccCC
Confidence 9999999999986 2333443333333 3455889999999887777777765443
Q ss_pred eEEEecCCC-ccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHH
Q 002135 462 LELIQNDGS-PCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCEL 540 (961)
Q Consensus 462 ~~~i~~~g~-p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~ 540 (961)
+.+--.++. +.+.+....| ......++...+..++.--+-. ++.|||+||...|-.
T Consensus 227 viLkl~e~el~~~dqL~Qy~----------------------v~cse~DKflllyallKL~LI~-gKsliFVNtIdr~Yr 283 (569)
T KOG0346|consen 227 VILKLTEGELPNPDQLTQYQ----------------------VKCSEEDKFLLLYALLKLRLIR-GKSLIFVNTIDRCYR 283 (569)
T ss_pred eEEEeccccCCCcccceEEE----------------------EEeccchhHHHHHHHHHHHHhc-CceEEEEechhhhHH
Confidence 333222221 1111111111 1122344444444444322223 489999999999998
Q ss_pred HHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc-----------------------------
Q 002135 541 VLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN----------------------------- 591 (961)
Q Consensus 541 l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~----------------------------- 591 (961)
+.-.|.. .+.+.+.+.|.|+..-|-.|++.|..|-.++||||+
T Consensus 284 LkLfLeq--------FGiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s~~~~~~eee~kgk~~e~~~kndkkskk 355 (569)
T KOG0346|consen 284 LKLFLEQ--------FGIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDDSADGDKLEEEVKGKSDEKNPKNDKKSKK 355 (569)
T ss_pred HHHHHHH--------hCcHhhhhcccccccchhhHHHHhhCcceeEEEEccCccchhhhhccccccccccCCCCcccccc
Confidence 8766654 455678899999999999999999999999999999
Q ss_pred ------ccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhh
Q 002135 592 ------ALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLF 654 (961)
Q Consensus 592 ------aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~ 654 (961)
-.+||||+..|..|+|||+|.+..+|+||+||++|++++|.++.++ .|.+.+-....+.++
T Consensus 356 K~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg~n~GtalSfv--~P~e~~g~~~le~~~ 422 (569)
T KOG0346|consen 356 KLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARGNNKGTALSFV--SPKEEFGKESLESIL 422 (569)
T ss_pred ccCchhchhccccchheeeeeecCCCCchHHHHHhccccccCCCCCceEEEe--cchHHhhhhHHHHHH
Confidence 2468999999999999999999999999999999999999998665 445555444454444
No 42
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.6e-42 Score=408.59 Aligned_cols=398 Identities=21% Similarity=0.250 Sum_probs=318.9
Q ss_pred hhccCCCCCCCcccccccccccCCChHHHHHHHHccCCCCCceEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCc
Q 002135 178 ARRSQSSTSSSHSFQRRCSDKSQLLPLEMVEHLRKGIGSQGQMVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLY 257 (961)
Q Consensus 178 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~~~~~~~~iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~ 257 (961)
..+|.+...+.-+++|.+.+++..+....++++|..+.+ ..+...+.|.+..+|... +++..++..++++||.+++
T Consensus 314 ~~~S~~~~epFRknfy~e~~di~~ms~~eV~~yr~~l~~--i~v~g~~~pkpv~sW~q~--gl~~~il~tlkkl~y~k~~ 389 (997)
T KOG0334|consen 314 VDHSKISYEPFRKNFYIEVRDIKRMSAAEVDEYRCELDG--IKVKGKECPKPVTSWTQC--GLSSKILETLKKLGYEKPT 389 (997)
T ss_pred cccccccchhhhhcccccchhHHHHHHHHHHHhhcCccc--eeeccCCCCcccchHhhC--CchHHHHHHHHHhcCCCCc
Confidence 344555566666688888888889999999999988853 455677888888899988 7999999999999999999
Q ss_pred HHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC------CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCc
Q 002135 258 SHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD------LSSSALYMFPTKALAQDQLRALLAMTKAFDASI 331 (961)
Q Consensus 258 ~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~------~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i 331 (961)
++|.+|||+|+.|++||.+|-||||||++|+||++.++... .++.+||++||++|+.|+.+.+++++..++. .
T Consensus 390 ~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf~k~l~i-r 468 (997)
T KOG0334|consen 390 PIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAMQIHREVRKFLKLLGI-R 468 (997)
T ss_pred chhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHHHhhcCc-e
Confidence 99999999999999999999999999999999999777643 3789999999999999999999999887653 3
Q ss_pred cEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhh
Q 002135 332 DIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYK 411 (961)
Q Consensus 332 ~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~ 411 (961)
.+++|+|.....+...++.++.|+|+||++..+.+..++.+. .++ .++.|||+||||+|.
T Consensus 469 ~v~vygg~~~~~qiaelkRg~eIvV~tpGRmiD~l~~n~grv----tnl----------------rR~t~lv~deaDrmf 528 (997)
T KOG0334|consen 469 VVCVYGGSGISQQIAELKRGAEIVVCTPGRMIDILCANSGRV----TNL----------------RRVTYLVLDEADRMF 528 (997)
T ss_pred EEEecCCccHHHHHHHHhcCCceEEeccchhhhhHhhcCCcc----ccc----------------cccceeeechhhhhh
Confidence 367777777777888899999999999999988876666543 333 123799999999998
Q ss_pred c-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHH-HcccCCeEEEecCCCccceeEEEEeCCCcccccc
Q 002135 412 G-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCME-LANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSV 489 (961)
Q Consensus 412 ~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~-L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~ 489 (961)
+ +|.++...|+..++ +..|.+++|||.+...+.+.. +.. .++.++ ..+...-.+...
T Consensus 529 dmgfePq~~~Ii~nlr--------pdrQtvlfSatfpr~m~~la~~vl~-~Pveii-v~~~svV~k~V~----------- 587 (997)
T KOG0334|consen 529 DMGFEPQITRILQNLR--------PDRQTVLFSATFPRSMEALARKVLK-KPVEII-VGGRSVVCKEVT----------- 587 (997)
T ss_pred eeccCcccchHHhhcc--------hhhhhhhhhhhhhHHHHHHHHHhhc-CCeeEE-EccceeEeccce-----------
Confidence 7 58888877777773 466999999999766544433 333 333322 222221111000
Q ss_pred ccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCH
Q 002135 490 LNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVA 569 (961)
Q Consensus 490 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~ 569 (961)
...........+...+..++.+... ..++||||.+...|..+.+.|.+ .+..+..+|||.++
T Consensus 588 ---------q~v~V~~~e~eKf~kL~eLl~e~~e-~~~tiiFv~~qe~~d~l~~~L~~--------ag~~~~slHGgv~q 649 (997)
T KOG0334|consen 588 ---------QVVRVCAIENEKFLKLLELLGERYE-DGKTIIFVDKQEKADALLRDLQK--------AGYNCDSLHGGVDQ 649 (997)
T ss_pred ---------EEEEEecCchHHHHHHHHHHHHHhh-cCCEEEEEcCchHHHHHHHHHHh--------cCcchhhhcCCCch
Confidence 0000111244566677777776655 55999999999999998887765 44456779999999
Q ss_pred HHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeC
Q 002135 570 EDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 570 ~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
.+|..++++|++|.+.+||||+++++|+|++++.+||||++|.-.+.|+||+||+||.|+.|.|++|...
T Consensus 650 ~dR~sti~dfK~~~~~LLvaTsvvarGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg~AvtFi~p 719 (997)
T KOG0334|consen 650 HDRSSTIEDFKNGVVNLLVATSVVARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKGAAVTFITP 719 (997)
T ss_pred HHHHhHHHHHhccCceEEEehhhhhcccccccceEEEEcccchhHHHHHHHhcccccCCccceeEEEeCh
Confidence 9999999999999999999999999999999999999999999999999999999999999999987755
No 43
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.7e-41 Score=373.82 Aligned_cols=356 Identities=20% Similarity=0.246 Sum_probs=256.5
Q ss_pred CcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCC-CcEEEEecCCchhHHHHHHHHHHHHhcC--------
Q 002135 228 ARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAG-KNVVVATMTSSGKSLCYNLPVLEALSHD-------- 298 (961)
Q Consensus 228 ~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G-~~vIv~apTGSGKTla~~Lpil~~l~~~-------- 298 (961)
.....|.++ .|+.+++++|..+||..|+++|+..||++..| .|++..|.|||||||+|-+|+++.+.+.
T Consensus 178 ~DvsAW~~l--~lp~~iL~aL~~~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~ 255 (731)
T KOG0347|consen 178 VDVSAWKNL--FLPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELS 255 (731)
T ss_pred cChHHHhcC--CCCHHHHHHHHhcCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhh
Confidence 334568888 69999999999999999999999999999999 6999999999999999999999966532
Q ss_pred ------CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCC-CcHHHHHHHhcCCcEEEeChhHHHHhhcCCCc
Q 002135 299 ------LSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGD-TTQKDRMWLRDNARLLITNPDMLHMSILPYHG 371 (961)
Q Consensus 299 ------~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd-~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~ 371 (961)
+...+||++|||+||.|+.+.+..++...+ +++..+.|+ ....|.+.+...++|+|+||++|..++-
T Consensus 256 ~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~--i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlweli~---- 329 (731)
T KOG0347|consen 256 NTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQ--IRVASITGGLAVQKQQRLLNQRPDIVVATPGRLWELIE---- 329 (731)
T ss_pred hHHhccCcceeEEecChHHHHHHHHHHHHHhccccC--eEEEEeechhHHHHHHHHHhcCCCEEEecchHHHHHHH----
Confidence 123499999999999999999999887544 666655555 5556666677789999999999977652
Q ss_pred hhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH
Q 002135 372 QFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR 450 (961)
Q Consensus 372 ~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~ 450 (961)
....++.++ .+++++|+||+|+|.. +.=..+..+|..|.. .-++...|.+.+|||+.-..
T Consensus 330 e~n~~l~~~----------------k~vkcLVlDEaDRmvekghF~Els~lL~~L~e---~~~~~qrQTlVFSATlt~~~ 390 (731)
T KOG0347|consen 330 EDNTHLGNF----------------KKVKCLVLDEADRMVEKGHFEELSKLLKHLNE---EQKNRQRQTLVFSATLTLVL 390 (731)
T ss_pred hhhhhhhhh----------------hhceEEEEccHHHHhhhccHHHHHHHHHHhhh---hhcccccceEEEEEEeehhh
Confidence 222234443 3459999999999986 333445555555542 22345668888899984210
Q ss_pred ---------------------HHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCC
Q 002135 451 ---------------------EHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSS 509 (961)
Q Consensus 451 ---------------------e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~ 509 (961)
+++....|. .+.| .++-.+|..........+. .......
T Consensus 391 ~~~~~~~~k~~~k~~~~~~kiq~Lmk~ig~--------~~kp----kiiD~t~q~~ta~~l~Es~--------I~C~~~e 450 (731)
T KOG0347|consen 391 QQPLSSSRKKKDKEDELNAKIQHLMKKIGF--------RGKP----KIIDLTPQSATASTLTESL--------IECPPLE 450 (731)
T ss_pred cChhHHhhhccchhhhhhHHHHHHHHHhCc--------cCCC----eeEecCcchhHHHHHHHHh--------hcCCccc
Confidence 111111121 1111 1111111111000000000 0000000
Q ss_pred cHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEe
Q 002135 510 PISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAA 589 (961)
Q Consensus 510 ~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVA 589 (961)
+...+.++ +....+++|||||+...+..|+.+|.. +......+|+.|.+.+|-+-+++|++..-.||||
T Consensus 451 KD~ylyYf---l~ryPGrTlVF~NsId~vKRLt~~L~~--------L~i~p~~LHA~M~QKqRLknLEkF~~~~~~VLia 519 (731)
T KOG0347|consen 451 KDLYLYYF---LTRYPGRTLVFCNSIDCVKRLTVLLNN--------LDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIA 519 (731)
T ss_pred cceeEEEE---EeecCCceEEEechHHHHHHHHHHHhh--------cCCCCchhhHHHHHHHHHHhHHHHhcCCCeEEEe
Confidence 00000111 112456999999999999999888765 5556678999999999999999999999999999
Q ss_pred ccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCCc
Q 002135 590 TNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEGP 641 (961)
Q Consensus 590 T~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~ 641 (961)
|++++||+|||+|++||||-.|.+.+.|+||.||+.|++..|..++++...+
T Consensus 520 TDVAARGLDIp~V~HVIHYqVPrtseiYVHRSGRTARA~~~Gvsvml~~P~e 571 (731)
T KOG0347|consen 520 TDVAARGLDIPGVQHVIHYQVPRTSEIYVHRSGRTARANSEGVSVMLCGPQE 571 (731)
T ss_pred ehhhhccCCCCCcceEEEeecCCccceeEecccccccccCCCeEEEEeChHH
Confidence 9999999999999999999999999999999999999999999998875544
No 44
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=100.00 E-value=1.5e-40 Score=367.61 Aligned_cols=412 Identities=23% Similarity=0.319 Sum_probs=317.6
Q ss_pred cccCCccccHHHHHHHHhCCCCCCcHHHHHHHHH-HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHH
Q 002135 233 LVEIPDALLDNTKSALKSTGISKLYSHQAESIMA-SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKA 311 (961)
Q Consensus 233 f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~-il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptra 311 (961)
..++ .+++++.+.|+..|++.|.|+|.-|+++ ++.|+|.+|+++|+|||||+..++-+..++. .+.+.||++|+.|
T Consensus 196 vdeL--dipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~-~g~KmlfLvPLVA 272 (830)
T COG1202 196 VDEL--DIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS-GGKKMLFLVPLVA 272 (830)
T ss_pred cccc--CCcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHh-CCCeEEEEehhHH
Confidence 4456 5899999999999999999999999998 7899999999999999999999999988886 3788999999999
Q ss_pred HHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHH-----HhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhh
Q 002135 312 LAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMW-----LRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFS 386 (961)
Q Consensus 312 La~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~-----l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~ 386 (961)
||+|.++.|+.-.+.++ +.+.+.-|...-..+.. ...+++|||+|.+-+-.+| ... ..+.++
T Consensus 273 LANQKy~dF~~rYs~Lg--lkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lL-Rtg----~~lgdi------ 339 (830)
T COG1202 273 LANQKYEDFKERYSKLG--LKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLL-RTG----KDLGDI------ 339 (830)
T ss_pred hhcchHHHHHHHhhccc--ceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHH-HcC----Cccccc------
Confidence 99999999988777665 55666666554333321 2234799999999875443 221 345555
Q ss_pred cchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEE
Q 002135 387 LVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELI 465 (961)
Q Consensus 387 ~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i 465 (961)
..|||||+|++.+ .+|+-+.-++.||+.++. ..|+|++|||++||.+.++.|- ..++
T Consensus 340 -------------GtVVIDEiHtL~deERG~RLdGLI~RLr~l~~-----~AQ~i~LSATVgNp~elA~~l~----a~lV 397 (830)
T COG1202 340 -------------GTVVIDEIHTLEDEERGPRLDGLIGRLRYLFP-----GAQFIYLSATVGNPEELAKKLG----AKLV 397 (830)
T ss_pred -------------ceEEeeeeeeccchhcccchhhHHHHHHHhCC-----CCeEEEEEeecCChHHHHHHhC----CeeE
Confidence 9999999999988 599999999999999863 5799999999999999888873 5788
Q ss_pred ecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHH----C--CCcEEEEecChHHHH
Q 002135 466 QNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQ----H--GLRCIAFCRSRKLCE 539 (961)
Q Consensus 466 ~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~----~--g~k~IVF~~sr~~ae 539 (961)
..+.+|.+...+.++... ...+...+..+...-.. . .++||||++||+.|+
T Consensus 398 ~y~~RPVplErHlvf~~~-----------------------e~eK~~ii~~L~k~E~~~~sskg~rGQtIVFT~SRrr~h 454 (830)
T COG1202 398 LYDERPVPLERHLVFARN-----------------------ESEKWDIIARLVKREFSTESSKGYRGQTIVFTYSRRRCH 454 (830)
T ss_pred eecCCCCChhHeeeeecC-----------------------chHHHHHHHHHHHHHHhhhhccCcCCceEEEecchhhHH
Confidence 888888887665554221 22333444444433221 2 369999999999999
Q ss_pred HHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEE---EeCCCC-CHh
Q 002135 540 LVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTL---HLGFPG-SIA 615 (961)
Q Consensus 540 ~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI---~~~~P~-s~~ 615 (961)
.++.+|.. -+.++.+||+|++..+|+.++.+|.++++.++|+|.+|+.|+|+|.-.+++ -.|.-| |+.
T Consensus 455 ~lA~~L~~--------kG~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAAL~AGVDFPASQVIFEsLaMG~~WLs~~ 526 (830)
T COG1202 455 ELADALTG--------KGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAAGVDFPASQVIFESLAMGIEWLSVR 526 (830)
T ss_pred HHHHHhhc--------CCcccccccCCCcHHHHHHHHHHHhcCCcceEeehhhhhcCCCCchHHHHHHHHHcccccCCHH
Confidence 99998865 355788999999999999999999999999999999999999999866654 234444 899
Q ss_pred hHHHHhccCCCCCC--CceEEEEeeCCcchhHHHh-------chHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCCh
Q 002135 616 SLWQQAGRSGRRER--PSLAVYVAFEGPLDQYFMK-------YPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSL 686 (961)
Q Consensus 616 sy~QR~GRAGR~g~--~g~~i~l~~~~~~d~~~~~-------~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~ 686 (961)
.|.||.|||||.+- .|.++++...+ ..|..+ -.-+++..++|++.++-+..+..++-|+.++.-.....
T Consensus 527 EF~QM~GRAGRp~yHdrGkVyllvepg--~~Y~~~m~~TEdevA~kLL~s~~e~V~vey~ee~e~e~vLA~~~v~~s~~~ 604 (830)
T COG1202 527 EFQQMLGRAGRPDYHDRGKVYLLVEPG--KKYHASMEETEDEVAFKLLESEPEPVIVEYDEEDEEENVLASAGVTNSLSV 604 (830)
T ss_pred HHHHHhcccCCCCcccCceEEEEecCC--hhhcccccccHHHHHHHHhcCCCCcceeccCcHHHHHHHHHHhhhcCcHHH
Confidence 99999999999965 46777666443 222221 12467888999999999988888887776554432221
Q ss_pred h--hhhhhccC--CHHHHHHHHHHCCccccCCC
Q 002135 687 I--YDEKYFGS--GLSSGITTLKNRGYLSSDPS 715 (961)
Q Consensus 687 ~--~~~~~f~~--~~~~~l~~L~~~g~l~~~~~ 715 (961)
. .....+|. ..+.++..|.+.|++..+++
T Consensus 605 i~~v~~~~~g~~~~~~k~l~~Lee~g~i~~~G~ 637 (830)
T COG1202 605 IERVNSLMLGAAFDPKKALSKLEEYGMIKKKGN 637 (830)
T ss_pred HhhcChhhccccCCHHHHHHHHHhcCCeeccCC
Confidence 0 11123333 57889999999999988765
No 45
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3.2e-40 Score=349.84 Aligned_cols=371 Identities=18% Similarity=0.255 Sum_probs=278.5
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCC--CcEEEEecCCchhHHHHHHHHHHHHhcC-CCCeEEEEc
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAG--KNVVVATMTSSGKSLCYNLPVLEALSHD-LSSSALYMF 307 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G--~~vIv~apTGSGKTla~~Lpil~~l~~~-~~~~aLvl~ 307 (961)
.+|.+| .|.|++++.|..++|.+|+.+|..|+|.++.. +|+|.++..|+|||.||.|.+|.++.-+ ..+.++.|+
T Consensus 90 ksFeeL--~LkPellkgly~M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~PQ~iCLa 167 (477)
T KOG0332|consen 90 KSFEEL--RLKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCICLA 167 (477)
T ss_pred ccHHhh--CCCHHHHhHHHHhccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccCCCceeeC
Confidence 458888 79999999999999999999999999999976 6999999999999999999999987643 357899999
Q ss_pred ccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhc
Q 002135 308 PTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSL 387 (961)
Q Consensus 308 PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~ 387 (961)
||++||.|..+.+.+.++..+.....++-++..+... .-..+|+|+||+.+.++++ .|+.+
T Consensus 168 PtrELA~Q~~eVv~eMGKf~~ita~yair~sk~~rG~----~i~eqIviGTPGtv~Dlm~--------klk~i------- 228 (477)
T KOG0332|consen 168 PTRELAPQTGEVVEEMGKFTELTASYAIRGSKAKRGN----KLTEQIVIGTPGTVLDLML--------KLKCI------- 228 (477)
T ss_pred chHHHHHHHHHHHHHhcCceeeeEEEEecCcccccCC----cchhheeeCCCccHHHHHH--------HHHhh-------
Confidence 9999999999999998876543232333232111100 0125899999999877652 22221
Q ss_pred chhhhhhhhcceeEEEEecchhhhc--ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEE
Q 002135 388 VTTEVYLIFLFIRFVVIDEAHAYKG--AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLEL 464 (961)
Q Consensus 388 ~~~~~~~~~~~i~~VVIDEaH~~~~--~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~ 464 (961)
.+..++.+|+|||+.+.. +|+.+-..+++.+ +++.|+|++|||..... .++..+....+...
T Consensus 229 -------d~~kikvfVlDEAD~Mi~tqG~~D~S~rI~~~l--------P~~~QllLFSATf~e~V~~Fa~kivpn~n~i~ 293 (477)
T KOG0332|consen 229 -------DLEKIKVFVLDEADVMIDTQGFQDQSIRIMRSL--------PRNQQLLLFSATFVEKVAAFALKIVPNANVII 293 (477)
T ss_pred -------ChhhceEEEecchhhhhhcccccccchhhhhhc--------CCcceEEeeechhHHHHHHHHHHhcCCCceee
Confidence 122349999999999986 5788776666554 35789999999998766 34444444332222
Q ss_pred EecC-CCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHH
Q 002135 465 IQND-GSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLS 543 (961)
Q Consensus 465 i~~~-g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~ 543 (961)
+... -.-.+.+.+++ ....+.++...+..++..+ .- ++.||||.|++.|.+++.
T Consensus 294 Lk~eel~L~~IkQlyv-----------------------~C~~~~~K~~~l~~lyg~~-ti-gqsiIFc~tk~ta~~l~~ 348 (477)
T KOG0332|consen 294 LKREELALDNIKQLYV-----------------------LCACRDDKYQALVNLYGLL-TI-GQSIIFCHTKATAMWLYE 348 (477)
T ss_pred eehhhccccchhhhee-----------------------eccchhhHHHHHHHHHhhh-hh-hheEEEEeehhhHHHHHH
Confidence 2111 11111111111 1234556666666654332 12 489999999999999999
Q ss_pred HHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC------CHhhH
Q 002135 544 YTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG------SIASL 617 (961)
Q Consensus 544 ~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~------s~~sy 617 (961)
.+++ .++.|..+||.|+.++|..+.++|+.|.-+|||+||+.+||||++.|.+|||||+|- +.+.|
T Consensus 349 ~m~~--------~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~ARGiDv~qVs~VvNydlP~~~~~~pD~etY 420 (477)
T KOG0332|consen 349 EMRA--------EGHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCARGIDVAQVSVVVNYDLPVKYTGEPDYETY 420 (477)
T ss_pred HHHh--------cCceeEEeeccchhHHHHHHHHHHhcCcceEEEEechhhcccccceEEEEEecCCccccCCCCCHHHH
Confidence 8876 567899999999999999999999999999999999999999999999999999996 78999
Q ss_pred HHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHH
Q 002135 618 WQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQ 673 (961)
Q Consensus 618 ~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~ 673 (961)
+||+||+||.|+.|.++-+.. +..+.-.+..+++.|+..+.. +++++.+.++.
T Consensus 421 lHRiGRtGRFGkkG~a~n~v~-~~~s~~~mn~iq~~F~~~i~~--~~~~d~~E~ek 473 (477)
T KOG0332|consen 421 LHRIGRTGRFGKKGLAINLVD-DKDSMNIMNKIQKHFNMKIKR--LDPDDLDELEK 473 (477)
T ss_pred HHHhcccccccccceEEEeec-ccCcHHHHHHHHHHHhhccee--cCCccHHHHHH
Confidence 999999999999999998664 445667777888888876643 44566666553
No 46
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=9.4e-40 Score=357.25 Aligned_cols=362 Identities=19% Similarity=0.217 Sum_probs=254.3
Q ss_pred cccHHHHHHHHhCCCCCCcHHHHHHHHHHh---------CCCcEEEEecCCchhHHHHHHHHHHHHhcCC--CCeEEEEc
Q 002135 239 ALLDNTKSALKSTGISKLYSHQAESIMASL---------AGKNVVVATMTSSGKSLCYNLPVLEALSHDL--SSSALYMF 307 (961)
Q Consensus 239 ~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il---------~G~~vIv~apTGSGKTla~~Lpil~~l~~~~--~~~aLvl~ 307 (961)
.|...+..++.+++++.++|+|...++.++ .++|++|.||||||||+||.+||++.+.+.+ .-++++|+
T Consensus 143 ~lea~~~q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavViv 222 (620)
T KOG0350|consen 143 TLEATIDQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIV 222 (620)
T ss_pred HHHHHHHHHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEe
Confidence 355667777899999999999999999985 2579999999999999999999999998764 35799999
Q ss_pred ccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHH-HHHHHh-cCC----cEEEeChhHHHHhhcCCCchhHHHhhhhh
Q 002135 308 PTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQK-DRMWLR-DNA----RLLITNPDMLHMSILPYHGQFSRILSNLR 381 (961)
Q Consensus 308 PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~-~r~~l~-~~~----~IlItTPe~L~~~lL~~~~~~~~~L~~l~ 381 (961)
||++|+.|+++.+.++....+ +.|+.+.|...-. +..++. ..+ +|+|+||++|.++|-. --...|++|
T Consensus 223 Ptr~L~~QV~~~f~~~~~~tg--L~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~---~k~f~Lk~L- 296 (620)
T KOG0350|consen 223 PTRELALQVYDTFKRLNSGTG--LAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNN---TKSFDLKHL- 296 (620)
T ss_pred eHHHHHHHHHHHHHHhccCCc--eEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhccC---CCCcchhhc-
Confidence 999999999999999988554 7789999987643 333343 334 8999999999998732 223467777
Q ss_pred hhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHH---------hhc---------------ccC--
Q 002135 382 LIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRL---------CSH---------------VYG-- 434 (961)
Q Consensus 382 ~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~---------~~~---------------~~~-- 434 (961)
+|+||||||++.. .|...+..++..+... .+. ++.
T Consensus 297 ------------------rfLVIDEADRll~qsfQ~Wl~~v~~~~~~~k~~~~~~nii~~~~~~~pt~~~e~~t~~~~~~ 358 (620)
T KOG0350|consen 297 ------------------RFLVIDEADRLLDQSFQEWLDTVMSLCKTMKRVACLDNIIRQRQAPQPTVLSELLTKLGKLY 358 (620)
T ss_pred ------------------eEEEechHHHHHHHHHHHHHHHHHHHhCCchhhcChhhhhhhcccCCchhhHHHHhhcCCcC
Confidence 9999999999987 3665555544433211 000 011
Q ss_pred CCCcEEEeccCCCChHHHHHHHc-ccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHH
Q 002135 435 SDPSFVFSTATSANPREHCMELA-NLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISE 513 (961)
Q Consensus 435 ~~~q~I~lSATl~n~~e~~~~L~-~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 (961)
.+.+.+..|||+......+..|. +.+....+... .. ..+.-|.... .........-+...
T Consensus 359 ~~l~kL~~satLsqdP~Kl~~l~l~~Prl~~v~~~---~~---~ryslp~~l~-------------~~~vv~~~~~kpl~ 419 (620)
T KOG0350|consen 359 PPLWKLVFSATLSQDPSKLKDLTLHIPRLFHVSKP---LI---GRYSLPSSLS-------------HRLVVTEPKFKPLA 419 (620)
T ss_pred chhHhhhcchhhhcChHHHhhhhcCCCceEEeecc---cc---eeeecChhhh-------------hceeecccccchHh
Confidence 12245666777754334344432 22111111110 00 0001111110 00000111111112
Q ss_pred HHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecccc
Q 002135 514 VSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNAL 593 (961)
Q Consensus 514 ~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aL 593 (961)
+..++.. .+..++|+|+++...+..++..|+-.+.. ...++..|.|+++...|.+.++.|..|++++|||++++
T Consensus 420 ~~~lI~~--~k~~r~lcf~~S~~sa~Rl~~~L~v~~~~----~~~~~s~~t~~l~~k~r~k~l~~f~~g~i~vLIcSD~l 493 (620)
T KOG0350|consen 420 VYALITS--NKLNRTLCFVNSVSSANRLAHVLKVEFCS----DNFKVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDAL 493 (620)
T ss_pred HHHHHHH--hhcceEEEEecchHHHHHHHHHHHHHhcc----ccchhhhhhhhhhHHHHHHHHHHHhcCCceEEEehhhh
Confidence 2222222 24569999999999999998887644433 33456678999999999999999999999999999999
Q ss_pred ccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCCcchhHHHhch
Q 002135 594 ELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYP 650 (961)
Q Consensus 594 e~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~ 650 (961)
+||||+.+++.|||||+|.+..+|+||+||++|+|+.|.|+.+...... ..+.+..
T Consensus 494 aRGiDv~~v~~VINYd~P~~~ktyVHR~GRTARAgq~G~a~tll~~~~~-r~F~klL 549 (620)
T KOG0350|consen 494 ARGIDVNDVDNVINYDPPASDKTYVHRAGRTARAGQDGYAITLLDKHEK-RLFSKLL 549 (620)
T ss_pred hcCCcccccceEeecCCCchhhHHHHhhcccccccCCceEEEeeccccc-hHHHHHH
Confidence 9999999999999999999999999999999999999999998865433 3344333
No 47
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=100.00 E-value=4.8e-37 Score=374.51 Aligned_cols=315 Identities=24% Similarity=0.302 Sum_probs=235.8
Q ss_pred HHHHhCCCCCCcHHHHHHHHHHhCC------CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHH
Q 002135 246 SALKSTGISKLYSHQAESIMASLAG------KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRA 319 (961)
Q Consensus 246 ~~L~~~g~~~l~~~Q~~ai~~il~G------~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~ 319 (961)
.....++| +||++|.+|++.+.++ .++++++|||||||++|++|++..+.. +.+++|++||++||.|+++.
T Consensus 253 ~~~~~l~f-~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~--g~q~lilaPT~~LA~Q~~~~ 329 (681)
T PRK10917 253 KFLASLPF-ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA--GYQAALMAPTEILAEQHYEN 329 (681)
T ss_pred HHHHhCCC-CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc--CCeEEEEeccHHHHHHHHHH
Confidence 33456788 6999999999999876 489999999999999999999988764 67899999999999999999
Q ss_pred HHHhHhhCCCCccEEEEcCCCcHHHHHH----Hhc-CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhh
Q 002135 320 LLAMTKAFDASIDIGVYDGDTTQKDRMW----LRD-NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYL 394 (961)
Q Consensus 320 l~~l~~~~~~~i~v~~~~Gd~~~~~r~~----l~~-~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~ 394 (961)
+++++..++ +++++++|+.+..++.. +.. .++|+|+||+.+... ..+.++
T Consensus 330 l~~l~~~~~--i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~---------v~~~~l-------------- 384 (681)
T PRK10917 330 LKKLLEPLG--IRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDD---------VEFHNL-------------- 384 (681)
T ss_pred HHHHHhhcC--cEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhccc---------chhccc--------------
Confidence 999987654 78999999988665543 333 489999999877432 134566
Q ss_pred hhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccce
Q 002135 395 IFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQ 474 (961)
Q Consensus 395 ~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~ 474 (961)
++|||||+|++ |......+. . .+..++++++|||+ .|......+.+..+...+.. .|.+.
T Consensus 385 -----~lvVIDE~Hrf----g~~qr~~l~---~-----~~~~~~iL~~SATp-~prtl~~~~~g~~~~s~i~~--~p~~r 444 (681)
T PRK10917 385 -----GLVIIDEQHRF----GVEQRLALR---E-----KGENPHVLVMTATP-IPRTLAMTAYGDLDVSVIDE--LPPGR 444 (681)
T ss_pred -----ceEEEechhhh----hHHHHHHHH---h-----cCCCCCEEEEeCCC-CHHHHHHHHcCCCceEEEec--CCCCC
Confidence 99999999985 333322221 1 13468999999996 45555555555433433322 12111
Q ss_pred eEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHH--------HHHHHHHH
Q 002135 475 KLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLC--------ELVLSYTR 546 (961)
Q Consensus 475 ~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~a--------e~l~~~L~ 546 (961)
+.... .....+....+...+.....++.+++|||+..+.+ +.+++.++
T Consensus 445 ~~i~~------------------------~~~~~~~~~~~~~~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~ 500 (681)
T PRK10917 445 KPITT------------------------VVIPDSRRDEVYERIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQ 500 (681)
T ss_pred CCcEE------------------------EEeCcccHHHHHHHHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHH
Confidence 10000 00011222344455555567889999999965543 44444444
Q ss_pred HHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC-CHhhHHHHhccCC
Q 002135 547 EILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG-SIASLWQQAGRSG 625 (961)
Q Consensus 547 ~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~-s~~sy~QR~GRAG 625 (961)
+. .+ ...+..+||+|++++|++++++|++|+++|||||+++++|||+|++++||+++.|. +.++|.||+||+|
T Consensus 501 ~~----~~--~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvG 574 (681)
T PRK10917 501 EA----FP--ELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVG 574 (681)
T ss_pred HH----CC--CCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhccc
Confidence 32 11 24799999999999999999999999999999999999999999999999999997 6889999999999
Q ss_pred CCCCCceEEEEee
Q 002135 626 RRERPSLAVYVAF 638 (961)
Q Consensus 626 R~g~~g~~i~l~~ 638 (961)
|.|..|.|++++.
T Consensus 575 R~g~~g~~ill~~ 587 (681)
T PRK10917 575 RGAAQSYCVLLYK 587 (681)
T ss_pred CCCCceEEEEEEC
Confidence 9999999998874
No 48
>COG1204 Superfamily II helicase [General function prediction only]
Probab=100.00 E-value=5.3e-38 Score=380.34 Aligned_cols=358 Identities=25% Similarity=0.289 Sum_probs=268.1
Q ss_pred ccHHHHHHHHhCCCCCCcHHHHHHHHHHh-CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHH
Q 002135 240 LLDNTKSALKSTGISKLYSHQAESIMASL-AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLR 318 (961)
Q Consensus 240 L~~~l~~~L~~~g~~~l~~~Q~~ai~~il-~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~ 318 (961)
+++.+.+.++..|+..+++.|+.++.... +|+|++|++|||||||+.+++.++..+.+. +.+++||+|+||||++.++
T Consensus 16 ~~~~v~~i~~~~~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~-~~k~vYivPlkALa~Ek~~ 94 (766)
T COG1204 16 LDDRVLEILKGDGIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEG-GGKVVYIVPLKALAEEKYE 94 (766)
T ss_pred ccHHHHHHhccCChHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHH
Confidence 66788888888999999999999998855 569999999999999999999999999875 6799999999999999999
Q ss_pred HHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcc
Q 002135 319 ALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLF 398 (961)
Q Consensus 319 ~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~ 398 (961)
+++++ ..+ +++|...+||.+.... -..+++|+|+|||.+-.. +.+... ++..+
T Consensus 95 ~~~~~-~~~--GirV~~~TgD~~~~~~--~l~~~~ViVtT~EK~Dsl-~R~~~~---~~~~V------------------ 147 (766)
T COG1204 95 EFSRL-EEL--GIRVGISTGDYDLDDE--RLARYDVIVTTPEKLDSL-TRKRPS---WIEEV------------------ 147 (766)
T ss_pred HhhhH-Hhc--CCEEEEecCCcccchh--hhccCCEEEEchHHhhHh-hhcCcc---hhhcc------------------
Confidence 99943 334 4899999999875441 234689999999998543 333222 34444
Q ss_pred eeEEEEecchhhhcc-cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEE
Q 002135 399 IRFVVIDEAHAYKGA-FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLF 477 (961)
Q Consensus 399 i~~VVIDEaH~~~~~-fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~ 477 (961)
++|||||+|.+.+. +|+.+..++.++++.+ ...|++++|||++|..+.+.||-.. .+..+++|.+....
T Consensus 148 -~lvViDEiH~l~d~~RG~~lE~iv~r~~~~~-----~~~rivgLSATlpN~~evA~wL~a~----~~~~~~rp~~l~~~ 217 (766)
T COG1204 148 -DLVVIDEIHLLGDRTRGPVLESIVARMRRLN-----ELIRIVGLSATLPNAEEVADWLNAK----LVESDWRPVPLRRG 217 (766)
T ss_pred -cEEEEeeeeecCCcccCceehhHHHHHHhhC-----cceEEEEEeeecCCHHHHHHHhCCc----ccccCCCCcccccC
Confidence 99999999999986 9999999999999875 3479999999999999999998542 22444444332221
Q ss_pred EEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhh-----
Q 002135 478 VLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEET----- 552 (961)
Q Consensus 478 ~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~----- 552 (961)
+........ ..... ..........+..++....+.|.++||||+||+.++..++.++......
T Consensus 218 v~~~~~~~~-----~~~~~-------k~~~~~~~~~~~~~v~~~~~~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~ 285 (766)
T COG1204 218 VPYVGAFLG-----ADGKK-------KTWPLLIDNLALELVLESLAEGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDE 285 (766)
T ss_pred CccceEEEE-----ecCcc-------ccccccchHHHHHHHHHHHhcCCeEEEEEecCchHHHHHHHHHHHHhhcCChhh
Confidence 111111100 00000 0001122334555666677788999999999999999999887421100
Q ss_pred ------------------------CCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEE--
Q 002135 553 ------------------------APHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTL-- 606 (961)
Q Consensus 553 ------------------------~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI-- 606 (961)
...+..++++||+|++.++|..+++.|+.|.++|||||++|+.|+|.|.-.+||
T Consensus 286 ~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~R~~vE~~Fr~g~ikVlv~TpTLA~GVNLPA~~VIIk~ 365 (766)
T COG1204 286 KIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPREDRQLVEDAFRKGKIKVLVSTPTLAAGVNLPARTVIIKD 365 (766)
T ss_pred hhhccccccccccccccccchHHHHHHHHhCccccccCCCHHHHHHHHHHHhcCCceEEEechHHhhhcCCcceEEEEee
Confidence 001223688999999999999999999999999999999999999999877766
Q ss_pred --EeC-----CCCCHhhHHHHhccCCCCCCC--ceEEEEeeCCcchhHHH
Q 002135 607 --HLG-----FPGSIASLWQQAGRSGRRERP--SLAVYVAFEGPLDQYFM 647 (961)
Q Consensus 607 --~~~-----~P~s~~sy~QR~GRAGR~g~~--g~~i~l~~~~~~d~~~~ 647 (961)
.|+ .+-++.++.|++|||||.|-+ |.+++++.....+.++.
T Consensus 366 ~~~y~~~~g~~~i~~~dv~QM~GRAGRPg~d~~G~~~i~~~~~~~~~~~~ 415 (766)
T COG1204 366 TRRYDPKGGIVDIPVLDVLQMAGRAGRPGYDDYGEAIILATSHDELEYLA 415 (766)
T ss_pred eEEEcCCCCeEECchhhHhhccCcCCCCCcCCCCcEEEEecCccchhHHH
Confidence 445 455899999999999999754 56676664444444433
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=100.00 E-value=3.7e-37 Score=380.18 Aligned_cols=318 Identities=18% Similarity=0.239 Sum_probs=239.2
Q ss_pred HHHHHHH-HhCCCCCCcHHHHHHHHHHhCC------CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 242 DNTKSAL-KSTGISKLYSHQAESIMASLAG------KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 242 ~~l~~~L-~~~g~~~l~~~Q~~ai~~il~G------~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
..+.+.+ ..++| +||+.|.+||+.++++ +|.++++|||||||++|++|++..+.. +.+++|++||++||+
T Consensus 438 ~~~~~~~~~~~~f-~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~--g~qvlvLvPT~~LA~ 514 (926)
T TIGR00580 438 LEWQQEFEDSFPF-EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD--GKQVAVLVPTTLLAQ 514 (926)
T ss_pred HHHHHHHHHhCCC-CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh--CCeEEEEeCcHHHHH
Confidence 4444555 45789 5999999999999875 699999999999999999999998875 578999999999999
Q ss_pred HHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHH----Hhc-CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcch
Q 002135 315 DQLRALLAMTKAFDASIDIGVYDGDTTQKDRMW----LRD-NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVT 389 (961)
Q Consensus 315 qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~----l~~-~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~ 389 (961)
|+++.+++++..++ +++..++|..+..++.. +.. .++|+|+||..+... ..+.++
T Consensus 515 Q~~~~f~~~~~~~~--i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll~~~---------v~f~~L--------- 574 (926)
T TIGR00580 515 QHFETFKERFANFP--VTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLLQKD---------VKFKDL--------- 574 (926)
T ss_pred HHHHHHHHHhccCC--cEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHhhCC---------CCcccC---------
Confidence 99999999877554 77888888876554433 333 489999999544211 134566
Q ss_pred hhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCC
Q 002135 390 TEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDG 469 (961)
Q Consensus 390 ~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g 469 (961)
++|||||+|++ |......+ +.+ ..++|++++|||+ .|+.....+.+..+...+....
T Consensus 575 ----------~llVIDEahrf----gv~~~~~L---~~~-----~~~~~vL~~SATp-iprtl~~~l~g~~d~s~I~~~p 631 (926)
T TIGR00580 575 ----------GLLIIDEEQRF----GVKQKEKL---KEL-----RTSVDVLTLSATP-IPRTLHMSMSGIRDLSIIATPP 631 (926)
T ss_pred ----------CEEEeeccccc----chhHHHHH---Hhc-----CCCCCEEEEecCC-CHHHHHHHHhcCCCcEEEecCC
Confidence 99999999994 44333322 221 3568999999996 4665555566655555554321
Q ss_pred Cc-cceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHH
Q 002135 470 SP-CAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREI 548 (961)
Q Consensus 470 ~p-~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~ 548 (961)
.. .+.+.++. .. + ...+...+.....++.++++||++++.++.+++.|++.
T Consensus 632 ~~R~~V~t~v~--------------------------~~-~-~~~i~~~i~~el~~g~qv~if~n~i~~~e~l~~~L~~~ 683 (926)
T TIGR00580 632 EDRLPVRTFVM--------------------------EY-D-PELVREAIRRELLRGGQVFYVHNRIESIEKLATQLREL 683 (926)
T ss_pred CCccceEEEEE--------------------------ec-C-HHHHHHHHHHHHHcCCeEEEEECCcHHHHHHHHHHHHh
Confidence 10 00111000 00 1 11222223333456789999999999999998888763
Q ss_pred HHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC-CHhhHHHHhccCCCC
Q 002135 549 LEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG-SIASLWQQAGRSGRR 627 (961)
Q Consensus 549 l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~-s~~sy~QR~GRAGR~ 627 (961)
+ + ..++..+||+|++.+|++++++|++|+.+|||||+++++|||+|++++||+++.|. +.++|+||+||+||.
T Consensus 684 ~----p--~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~iie~GIDIp~v~~VIi~~a~~~gls~l~Qr~GRvGR~ 757 (926)
T TIGR00580 684 V----P--EARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRS 757 (926)
T ss_pred C----C--CCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhcccccccCCEEEEecCCCCCHHHHHHHhcCCCCC
Confidence 2 1 24689999999999999999999999999999999999999999999999999976 788999999999999
Q ss_pred CCCceEEEEeeC
Q 002135 628 ERPSLAVYVAFE 639 (961)
Q Consensus 628 g~~g~~i~l~~~ 639 (961)
|+.|.|++++..
T Consensus 758 g~~g~aill~~~ 769 (926)
T TIGR00580 758 KKKAYAYLLYPH 769 (926)
T ss_pred CCCeEEEEEECC
Confidence 999999988753
No 50
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.7e-38 Score=340.62 Aligned_cols=360 Identities=19% Similarity=0.296 Sum_probs=276.4
Q ss_pred ccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-CCCeEEEEcccH
Q 002135 232 VLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-LSSSALYMFPTK 310 (961)
Q Consensus 232 ~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-~~~~aLvl~Ptr 310 (961)
+|.++ +|++.+++.+...||++|+.+|+.||..+..|.|+++.+++|+|||.+|.+++++.+.-. ....||+++|++
T Consensus 27 sfddm--~L~e~LLrgiy~yGFekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtr 104 (397)
T KOG0327|consen 27 SFDDM--NLKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTR 104 (397)
T ss_pred hhhhc--CCCHHHHhHHHhhccCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchH
Confidence 68888 799999999999999999999999999999999999999999999999999999987542 245699999999
Q ss_pred HHHHHHHHHHHHhHhhCCCCccEEEE-cCCCcHHHHHHHh-cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcc
Q 002135 311 ALAQDQLRALLAMTKAFDASIDIGVY-DGDTTQKDRMWLR-DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLV 388 (961)
Q Consensus 311 aLa~qq~~~l~~l~~~~~~~i~v~~~-~Gd~~~~~r~~l~-~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~ 388 (961)
+||+|.......++...+ .++..+ +|.....+-..+. ..++|+++||+++.+++- +..+
T Consensus 105 eLa~qi~~v~~~lg~~~~--~~v~~~igg~~~~~~~~~i~~~~~hivvGTpgrV~dml~-----~~~l------------ 165 (397)
T KOG0327|consen 105 ELAQQIQKVVRALGDHMD--VSVHACIGGTNVRREDQALLKDKPHIVVGTPGRVFDMLN-----RGSL------------ 165 (397)
T ss_pred HHHHHHHHHHHhhhcccc--eeeeeecCcccchhhhhhhhccCceeecCCchhHHHhhc-----cccc------------
Confidence 999999988888877665 455534 4444443434444 458999999999987751 1111
Q ss_pred hhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHH-HcccCCeEEEe
Q 002135 389 TTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCME-LANLSTLELIQ 466 (961)
Q Consensus 389 ~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~-L~~~~~~~~i~ 466 (961)
....+++.|+||++.+.. +|..++..+.+.+ +.+.|++++|||.+.....+.. +...+-...+.
T Consensus 166 ------~~~~iKmfvlDEaDEmLs~gfkdqI~~if~~l--------p~~vQv~l~SAT~p~~vl~vt~~f~~~pv~i~vk 231 (397)
T KOG0327|consen 166 ------STDGIKMFVLDEADEMLSRGFKDQIYDIFQEL--------PSDVQVVLLSATMPSDVLEVTKKFMREPVRILVK 231 (397)
T ss_pred ------cccceeEEeecchHhhhccchHHHHHHHHHHc--------CcchhheeecccCcHHHHHHHHHhccCceEEEec
Confidence 112349999999999976 5777776666555 5577999999999765543433 32222112222
Q ss_pred cCCC-ccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHH
Q 002135 467 NDGS-PCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYT 545 (961)
Q Consensus 467 ~~g~-p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L 545 (961)
.++. ..+.+.++.. .....+...+.++.. .-.+.+||||+++.+..+...|
T Consensus 232 k~~ltl~gikq~~i~------------------------v~k~~k~~~l~dl~~----~~~q~~if~nt~r~v~~l~~~L 283 (397)
T KOG0327|consen 232 KDELTLEGIKQFYIN------------------------VEKEEKLDTLCDLYR----RVTQAVIFCNTRRKVDNLTDKL 283 (397)
T ss_pred chhhhhhheeeeeee------------------------ccccccccHHHHHHH----hhhcceEEecchhhHHHHHHHH
Confidence 2221 1112222111 001123344444444 4457899999999999998877
Q ss_pred HHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCC
Q 002135 546 REILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSG 625 (961)
Q Consensus 546 ~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAG 625 (961)
.. .+..+...||.+.+.+|..+.+.|++|..++||.|+.+++|||+..+..||+|+.|...++|+||+||+|
T Consensus 284 ~~--------~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvlIttdl~argidv~~~slvinydlP~~~~~yihR~gr~g 355 (397)
T KOG0327|consen 284 RA--------HGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGIDVQQVSLVVNYDLPARKENYIHRIGRAG 355 (397)
T ss_pred hh--------CCceEEEeecccchhhhhHHHHHhhcCCceEEeeccccccccchhhcceeeeeccccchhhhhhhccccc
Confidence 44 4557889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccC
Q 002135 626 RRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHID 664 (961)
Q Consensus 626 R~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~ 664 (961)
|.|++|.++.++ ...|...++.++++++.++++++.+
T Consensus 356 r~grkg~~in~v--~~~d~~~lk~ie~~y~~~i~e~p~~ 392 (397)
T KOG0327|consen 356 RFGRKGVAINFV--TEEDVRDLKDIEKFYNTPIEELPSN 392 (397)
T ss_pred ccCCCceeeeee--hHhhHHHHHhHHHhcCCcceecccc
Confidence 999999998665 4557778899999999999887654
No 51
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=100.00 E-value=3.1e-36 Score=365.15 Aligned_cols=320 Identities=20% Similarity=0.261 Sum_probs=233.5
Q ss_pred HHHHHHhCCCCCCcHHHHHHHHHHhCC------CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHH
Q 002135 244 TKSALKSTGISKLYSHQAESIMASLAG------KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQL 317 (961)
Q Consensus 244 l~~~L~~~g~~~l~~~Q~~ai~~il~G------~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~ 317 (961)
+.+.++.++| +||+.|.+||+.++++ .+.++++|||||||++|++|++..+.. +.+++|++||++||.|++
T Consensus 225 ~~~~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~--g~qvlilaPT~~LA~Q~~ 301 (630)
T TIGR00643 225 LTKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA--GYQVALMAPTEILAEQHY 301 (630)
T ss_pred HHHHHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc--CCcEEEECCHHHHHHHHH
Confidence 4455677899 7999999999999876 268999999999999999999988764 678999999999999999
Q ss_pred HHHHHhHhhCCCCccEEEEcCCCcHHHHHH----Hhc-CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhh
Q 002135 318 RALLAMTKAFDASIDIGVYDGDTTQKDRMW----LRD-NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEV 392 (961)
Q Consensus 318 ~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~----l~~-~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~ 392 (961)
+.+++++..++ +++++++|+....++.. +.. .++|+|+||..+... ..+.++
T Consensus 302 ~~~~~l~~~~g--i~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~~---------~~~~~l------------ 358 (630)
T TIGR00643 302 NSLRNLLAPLG--IEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEK---------VEFKRL------------ 358 (630)
T ss_pred HHHHHHhcccC--cEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhcc---------cccccc------------
Confidence 99999887654 78899999887766543 333 479999999877532 124556
Q ss_pred hhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCcc
Q 002135 393 YLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPC 472 (961)
Q Consensus 393 ~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~ 472 (961)
++|||||+|++ |......+. .... ....++++++|||+. |......+.+..+...+. ..|.
T Consensus 359 -------~lvVIDEaH~f----g~~qr~~l~---~~~~--~~~~~~~l~~SATp~-prtl~l~~~~~l~~~~i~--~~p~ 419 (630)
T TIGR00643 359 -------ALVIIDEQHRF----GVEQRKKLR---EKGQ--GGFTPHVLVMSATPI-PRTLALTVYGDLDTSIID--ELPP 419 (630)
T ss_pred -------ceEEEechhhc----cHHHHHHHH---Hhcc--cCCCCCEEEEeCCCC-cHHHHHHhcCCcceeeec--cCCC
Confidence 99999999984 433322221 1111 012678999999964 444444444432222221 1111
Q ss_pred ceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHH--------HHHHHHH
Q 002135 473 AQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKL--------CELVLSY 544 (961)
Q Consensus 473 ~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~--------ae~l~~~ 544 (961)
+....... .. ..+....+...+.....++.+++|||+..+. ++.+++.
T Consensus 420 ~r~~i~~~-----------------------~~-~~~~~~~~~~~i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~ 475 (630)
T TIGR00643 420 GRKPITTV-----------------------LI-KHDEKDIVYEFIEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYER 475 (630)
T ss_pred CCCceEEE-----------------------Ee-CcchHHHHHHHHHHHHHhCCcEEEEEccccccccchHHHHHHHHHH
Confidence 11000000 00 1111234444555555678899999998744 4444444
Q ss_pred HHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC-CHhhHHHHhcc
Q 002135 545 TREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG-SIASLWQQAGR 623 (961)
Q Consensus 545 L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~-s~~sy~QR~GR 623 (961)
+++.+ ....+..+||+|++++|++++++|++|+.+|||||+++++|||+|++++||+++.|. +.++|.||+||
T Consensus 476 L~~~~------~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~~GR 549 (630)
T TIGR00643 476 LKKAF------PKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGR 549 (630)
T ss_pred HHhhC------CCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECceeecCcccCCCcEEEEeCCCcCCHHHHHHHhhh
Confidence 44321 234689999999999999999999999999999999999999999999999999997 78999999999
Q ss_pred CCCCCCCceEEEEee
Q 002135 624 SGRRERPSLAVYVAF 638 (961)
Q Consensus 624 AGR~g~~g~~i~l~~ 638 (961)
+||.|+.|.|++++.
T Consensus 550 vGR~g~~g~~il~~~ 564 (630)
T TIGR00643 550 VGRGDHQSYCLLVYK 564 (630)
T ss_pred cccCCCCcEEEEEEC
Confidence 999999999998873
No 52
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.8e-37 Score=347.91 Aligned_cols=371 Identities=20% Similarity=0.235 Sum_probs=268.1
Q ss_pred EEeeecCCcccccccCCc--cccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC
Q 002135 221 VHVEDISARKAVLVEIPD--ALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD 298 (961)
Q Consensus 221 v~~~~~p~~~~~f~~l~~--~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~ 298 (961)
+.+..+|.+..+|.++.. ..++.+.+.+...+|..|+|+|.+|++.++.+++++.|+|||||||++|.+|++..|...
T Consensus 122 v~G~~~~~~l~~f~~lt~~~~~~~~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~ 201 (593)
T KOG0344|consen 122 VDGFHLPPPLLSFSDLTYDYSMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDL 201 (593)
T ss_pred ccCCCCCCccccccccchhhhhcHHHHHhHhhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHh
Confidence 456778888889987543 578888999999999999999999999999999999999999999999999999988642
Q ss_pred ------CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHH--HHhcCCcEEEeChhHHHHhhcCCC
Q 002135 299 ------LSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRM--WLRDNARLLITNPDMLHMSILPYH 370 (961)
Q Consensus 299 ------~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~--~l~~~~~IlItTPe~L~~~lL~~~ 370 (961)
.+-+++|+.|||+|+.|.++++.++...-+....+..+.......++. .....++++++||-++...+- .
T Consensus 202 ~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~~~~~--~ 279 (593)
T KOG0344|consen 202 SQEKHKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMRIVGLLG--L 279 (593)
T ss_pred hcccCccceEEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhcccccchhhccchhHHHHHHHHhcCHHHHHHHhc--C
Confidence 246899999999999999999999874334445555555554444332 233457999999998765441 1
Q ss_pred chhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcc--cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCC
Q 002135 371 GQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA--FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSAN 448 (961)
Q Consensus 371 ~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~--fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n 448 (961)
......+++ +.++|+||+|.+... |-.|++.++ ..|. .++..+-++|||.+.
T Consensus 280 ~~~~idl~~-------------------V~~lV~dEaD~lfe~~~f~~Qla~I~----sac~---s~~i~~a~FSat~~~ 333 (593)
T KOG0344|consen 280 GKLNIDLSK-------------------VEWLVVDEADLLFEPEFFVEQLADIY----SACQ---SPDIRVALFSATISV 333 (593)
T ss_pred CCccchhhe-------------------eeeEeechHHhhhChhhHHHHHHHHH----HHhc---CcchhhhhhhccccH
Confidence 111123444 499999999999763 333433333 3332 356677788999987
Q ss_pred hHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCC--C
Q 002135 449 PREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHG--L 526 (961)
Q Consensus 449 ~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g--~ 526 (961)
..+....+.......++ ..-.+.. ....++..........+...+. +++..| .
T Consensus 334 ~VEE~~~~i~~~~~~vi-vg~~~sa--------------------~~~V~QelvF~gse~~K~lA~r----q~v~~g~~P 388 (593)
T KOG0344|consen 334 YVEEWAELIKSDLKRVI-VGLRNSA--------------------NETVDQELVFCGSEKGKLLALR----QLVASGFKP 388 (593)
T ss_pred HHHHHHHHhhccceeEE-EecchhH--------------------hhhhhhhheeeecchhHHHHHH----HHHhccCCC
Confidence 66544444332111111 1111100 0000111111222333333333 344443 6
Q ss_pred cEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEE
Q 002135 527 RCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTL 606 (961)
Q Consensus 527 k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI 606 (961)
+++||+.+.+.|..|+..|.. . -...|.++||..++.+|++.+++|+.|++.+||||+++++|||+.++++||
T Consensus 389 P~lIfVQs~eRak~L~~~L~~-----~--~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTdll~RGiDf~gvn~VI 461 (593)
T KOG0344|consen 389 PVLIFVQSKERAKQLFEELEI-----Y--DNINVDVIHGERSQKQRDETMERFRIGKIWVLICTDLLARGIDFKGVNLVI 461 (593)
T ss_pred CeEEEEecHHHHHHHHHHhhh-----c--cCcceeeEecccchhHHHHHHHHHhccCeeEEEehhhhhccccccCcceEE
Confidence 899999999999998877641 1 234688999999999999999999999999999999999999999999999
Q ss_pred EeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHh
Q 002135 607 HLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKL 653 (961)
Q Consensus 607 ~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l 653 (961)
|||+|.+..+|+||+||+||+|+.|.+++++.. .|.-+.+.+.+.
T Consensus 462 nyD~p~s~~syihrIGRtgRag~~g~Aitfytd--~d~~~ir~iae~ 506 (593)
T KOG0344|consen 462 NYDFPQSDLSYIHRIGRTGRAGRSGKAITFYTD--QDMPRIRSIAEV 506 (593)
T ss_pred ecCCCchhHHHHHHhhccCCCCCCcceEEEecc--ccchhhhhHHHH
Confidence 999999999999999999999999999988865 344445544443
No 53
>KOG4284 consensus DEAD box protein [Transcription]
Probab=100.00 E-value=9e-38 Score=348.57 Aligned_cols=358 Identities=15% Similarity=0.209 Sum_probs=278.6
Q ss_pred eeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-CCC
Q 002135 223 VEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD-LSS 301 (961)
Q Consensus 223 ~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~-~~~ 301 (961)
....++..+.|+++ .|..+++..|+..+|..|+++|..|||.++.+-|+||+|..|+|||++|.+.+++.+..+ ...
T Consensus 17 ~DV~~~~~~~fe~l--~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~ 94 (980)
T KOG4284|consen 17 IDVQSNCTPGFEQL--ALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHI 94 (980)
T ss_pred cccccCCCCCHHHH--HHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcc
Confidence 34567777889988 699999999999999999999999999999999999999999999999999999888643 357
Q ss_pred eEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhh
Q 002135 302 SALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLR 381 (961)
Q Consensus 302 ~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~ 381 (961)
.++|++|||+||.|+...+.+++..+. +.++.+|-|+++..+-..-.+.++|+|+||+++..++-
T Consensus 95 q~~Iv~PTREiaVQI~~tv~~v~~sf~-g~~csvfIGGT~~~~d~~rlk~~rIvIGtPGRi~qL~e-------------- 159 (980)
T KOG4284|consen 95 QKVIVTPTREIAVQIKETVRKVAPSFT-GARCSVFIGGTAHKLDLIRLKQTRIVIGTPGRIAQLVE-------------- 159 (980)
T ss_pred eeEEEecchhhhhHHHHHHHHhccccc-CcceEEEecCchhhhhhhhhhhceEEecCchHHHHHHH--------------
Confidence 899999999999999999999988765 57888888988876644445679999999999976541
Q ss_pred hhhhhcchhhhhhhhcceeEEEEecchhhhc--ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcc
Q 002135 382 LIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG--AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELAN 458 (961)
Q Consensus 382 ~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~--~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~ 458 (961)
.+..+++.++++|+||||.+.+ .|..++..|+..|.. ..|++++|||.+.-. +.+..+.
T Consensus 160 ---------l~~~n~s~vrlfVLDEADkL~~t~sfq~~In~ii~slP~--------~rQv~a~SATYp~nLdn~Lsk~m- 221 (980)
T KOG4284|consen 160 ---------LGAMNMSHVRLFVLDEADKLMDTESFQDDINIIINSLPQ--------IRQVAAFSATYPRNLDNLLSKFM- 221 (980)
T ss_pred ---------hcCCCccceeEEEeccHHhhhchhhHHHHHHHHHHhcch--------hheeeEEeccCchhHHHHHHHHh-
Confidence 1223445669999999999986 488888888877754 459999999985322 2233332
Q ss_pred cCCeEEEecCCCc---cceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecCh
Q 002135 459 LSTLELIQNDGSP---CAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSR 535 (961)
Q Consensus 459 ~~~~~~i~~~g~p---~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr 535 (961)
++..+|....+. .+.+.++...+.... .......+.+.+..++..+ .-.++||||+..
T Consensus 222 -rdp~lVr~n~~d~~L~GikQyv~~~~s~nn----------------sveemrlklq~L~~vf~~i--py~QAlVF~~~~ 282 (980)
T KOG4284|consen 222 -RDPALVRFNADDVQLFGIKQYVVAKCSPNN----------------SVEEMRLKLQKLTHVFKSI--PYVQALVFCDQI 282 (980)
T ss_pred -cccceeecccCCceeechhheeeeccCCcc----------------hHHHHHHHHHHHHHHHhhC--chHHHHhhhhhh
Confidence 234455443322 233443332221110 0111112223333333332 124789999999
Q ss_pred HHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHh
Q 002135 536 KLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIA 615 (961)
Q Consensus 536 ~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~ 615 (961)
..|+-++.+|.. -+..+.++.|.|++.+|..+.+.+++-.++|||+|+..++|||-+++++|||.|.|.+..
T Consensus 283 sra~~~a~~L~s--------sG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGIDa~~vNLVVNiD~p~d~e 354 (980)
T KOG4284|consen 283 SRAEPIATHLKS--------SGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGIDADNVNLVVNIDAPADEE 354 (980)
T ss_pred hhhhHHHHHhhc--------cCCCeEEeccccchhHHHHHHHHhhhceEEEEEecchhhccCCccccceEEecCCCcchH
Confidence 999999998876 455788999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHhccCCCCCCCceEEEEeeCCcc
Q 002135 616 SLWQQAGRSGRRERPSLAVYVAFEGPL 642 (961)
Q Consensus 616 sy~QR~GRAGR~g~~g~~i~l~~~~~~ 642 (961)
+|.||+|||||.|..|.+++++.....
T Consensus 355 TY~HRIGRAgRFG~~G~aVT~~~~~~e 381 (980)
T KOG4284|consen 355 TYFHRIGRAGRFGAHGAAVTLLEDERE 381 (980)
T ss_pred HHHHHhhhcccccccceeEEEeccchh
Confidence 999999999999999999988765433
No 54
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=8.2e-38 Score=335.99 Aligned_cols=360 Identities=21% Similarity=0.248 Sum_probs=274.9
Q ss_pred ccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEc
Q 002135 230 KAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMF 307 (961)
Q Consensus 230 ~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~ 307 (961)
...|..+ +|+..+.+++.+.||+.|+|+|.+.||.+++|++++..+-||||||.||++|+++++... .+.++++++
T Consensus 20 ~g~fqsm--gL~~~v~raI~kkg~~~ptpiqRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~Ralils 97 (529)
T KOG0337|consen 20 SGGFQSM--GLDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILS 97 (529)
T ss_pred CCCcccc--CCCHHHHHHHHHhhcCCCCchhcccccceeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeecc
Confidence 4568888 899999999999999999999999999999999999999999999999999999998753 367999999
Q ss_pred ccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhc
Q 002135 308 PTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSL 387 (961)
Q Consensus 308 PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~ 387 (961)
||++|+.|..+.++.+++..+. -.+..++||...++...+..+++||++||+++..+. ....-.|+.+
T Consensus 98 ptreLa~qtlkvvkdlgrgt~l-r~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~----vem~l~l~sv------- 165 (529)
T KOG0337|consen 98 PTRELALQTLKVVKDLGRGTKL-RQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLG----VEMTLTLSSV------- 165 (529)
T ss_pred CcHHHHHHHHHHHHHhccccch-hhhhhcccchHHHHHHHhccCCCEEEecCceeeeee----hheeccccce-------
Confidence 9999999999999999875542 224578889888888888889999999999975322 1222234444
Q ss_pred chhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEE
Q 002135 388 VTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELI 465 (961)
Q Consensus 388 ~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i 465 (961)
.|||+||++.+.+ +|..++..++.++. ...|.+++|||+++.. ++++ .|..+..++
T Consensus 166 ------------eyVVfdEadrlfemgfqeql~e~l~rl~--------~~~QTllfSatlp~~lv~fak--aGl~~p~lV 223 (529)
T KOG0337|consen 166 ------------EYVVFDEADRLFEMGFQEQLHEILSRLP--------ESRQTLLFSATLPRDLVDFAK--AGLVPPVLV 223 (529)
T ss_pred ------------eeeeehhhhHHHhhhhHHHHHHHHHhCC--------CcceEEEEeccCchhhHHHHH--ccCCCCceE
Confidence 9999999999987 58888888877763 3449999999998642 2222 233323333
Q ss_pred ecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCC--CcEEEEecChHHHHHHHH
Q 002135 466 QNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHG--LRCIAFCRSRKLCELVLS 543 (961)
Q Consensus 466 ~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g--~k~IVF~~sr~~ae~l~~ 543 (961)
..|-... .....+.... ...+....+.|+..+-... .+++|||.|+..+|.+..
T Consensus 224 Rldvetk---------------------ise~lk~~f~---~~~~a~K~aaLl~il~~~~~~~~t~vf~~tk~hve~~~~ 279 (529)
T KOG0337|consen 224 RLDVETK---------------------ISELLKVRFF---RVRKAEKEAALLSILGGRIKDKQTIVFVATKHHVEYVRG 279 (529)
T ss_pred Eeehhhh---------------------cchhhhhhee---eeccHHHHHHHHHHHhccccccceeEEecccchHHHHHH
Confidence 2111000 0000000001 1122233334443333333 489999999999998887
Q ss_pred HHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhcc
Q 002135 544 YTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGR 623 (961)
Q Consensus 544 ~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GR 623 (961)
.++. .+..+..+.|.+.+..|..-.++|..++..++|.|+++.+|+|||-++.|||||+|.+..-|+||+||
T Consensus 280 ll~~--------~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~diplldnvinyd~p~~~klFvhRVgr 351 (529)
T KOG0337|consen 280 LLRD--------FGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGR 351 (529)
T ss_pred HHHh--------cCCCccccccccChHhhhhccccccCCccceEEEehhhhccCCCccccccccccCCCCCceEEEEecc
Confidence 7766 34456778899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCc
Q 002135 624 SGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIE 659 (961)
Q Consensus 624 AGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie 659 (961)
+.|+|+.|.+|-++.. .|..|.-....++++++.
T Consensus 352 ~aragrtg~aYs~V~~--~~~~yl~DL~lflgr~~~ 385 (529)
T KOG0337|consen 352 VARAGRTGRAYSLVAS--TDDPYLLDLQLFLGRPLI 385 (529)
T ss_pred hhhccccceEEEEEec--ccchhhhhhhhhcCCcee
Confidence 9999999999877644 355666666666666553
No 55
>PRK10689 transcription-repair coupling factor; Provisional
Probab=100.00 E-value=3.9e-35 Score=369.40 Aligned_cols=316 Identities=19% Similarity=0.233 Sum_probs=230.6
Q ss_pred HHHHHHhCCCCCCcHHHHHHHHHHhCC------CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHH
Q 002135 244 TKSALKSTGISKLYSHQAESIMASLAG------KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQL 317 (961)
Q Consensus 244 l~~~L~~~g~~~l~~~Q~~ai~~il~G------~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~ 317 (961)
..+...+++| .|++.|.+||+.++++ +|++++++||||||++|+.+++..+.. +.++++|+||++||.|++
T Consensus 590 ~~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~--g~qvlvLvPT~eLA~Q~~ 666 (1147)
T PRK10689 590 YQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVEN--HKQVAVLVPTTLLAQQHY 666 (1147)
T ss_pred HHHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHc--CCeEEEEeCcHHHHHHHH
Confidence 3344566788 6999999999999987 799999999999999999998877653 678999999999999999
Q ss_pred HHHHHhHhhCCCCccEEEEcCCCcHHHHHHH----h-cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhh
Q 002135 318 RALLAMTKAFDASIDIGVYDGDTTQKDRMWL----R-DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEV 392 (961)
Q Consensus 318 ~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l----~-~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~ 392 (961)
+.+++.+..++ +.+.++.|..+..++..+ . ..++|+|+||+.+... ..+.++
T Consensus 667 ~~f~~~~~~~~--v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL~~~---------v~~~~L------------ 723 (1147)
T PRK10689 667 DNFRDRFANWP--VRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSD---------VKWKDL------------ 723 (1147)
T ss_pred HHHHHhhccCC--ceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHHhCC---------CCHhhC------------
Confidence 99998766543 677777777666554432 2 3589999999765321 123455
Q ss_pred hhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCcc
Q 002135 393 YLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPC 472 (961)
Q Consensus 393 ~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~ 472 (961)
+++||||+|++ |.... ..++.+ ..+.|++++|||+. |......+.+..+...|.......
T Consensus 724 -------~lLVIDEahrf----G~~~~---e~lk~l-----~~~~qvLl~SATpi-prtl~l~~~gl~d~~~I~~~p~~r 783 (1147)
T PRK10689 724 -------GLLIVDEEHRF----GVRHK---ERIKAM-----RADVDILTLTATPI-PRTLNMAMSGMRDLSIIATPPARR 783 (1147)
T ss_pred -------CEEEEechhhc----chhHH---HHHHhc-----CCCCcEEEEcCCCC-HHHHHHHHhhCCCcEEEecCCCCC
Confidence 99999999996 32222 223221 35789999999974 443333344444454443321100
Q ss_pred -ceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHh
Q 002135 473 -AQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEE 551 (961)
Q Consensus 473 -~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~ 551 (961)
..+.+.. ..........++.++. ++.+++|||++++.++.+++.|++.+.
T Consensus 784 ~~v~~~~~---------------------------~~~~~~~k~~il~el~-r~gqv~vf~n~i~~ie~la~~L~~~~p- 834 (1147)
T PRK10689 784 LAVKTFVR---------------------------EYDSLVVREAILREIL-RGGQVYYLYNDVENIQKAAERLAELVP- 834 (1147)
T ss_pred CCceEEEE---------------------------ecCcHHHHHHHHHHHh-cCCeEEEEECCHHHHHHHHHHHHHhCC-
Confidence 0000000 0011111223344443 567999999999999999988876321
Q ss_pred hCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCC-CCHhhHHHHhccCCCCCCC
Q 002135 552 TAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFP-GSIASLWQQAGRSGRRERP 630 (961)
Q Consensus 552 ~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P-~s~~sy~QR~GRAGR~g~~ 630 (961)
..++..+||+|++++|++++.+|++|+++|||||+++++|||+|++++||..+.. .+..+|+||+||+||.|+.
T Consensus 835 -----~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIierGIDIP~v~~VIi~~ad~fglaq~~Qr~GRvGR~g~~ 909 (1147)
T PRK10689 835 -----EARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQ 909 (1147)
T ss_pred -----CCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchhhcccccccCCEEEEecCCCCCHHHHHHHhhccCCCCCc
Confidence 2368899999999999999999999999999999999999999999999965543 3667899999999999999
Q ss_pred ceEEEEeeC
Q 002135 631 SLAVYVAFE 639 (961)
Q Consensus 631 g~~i~l~~~ 639 (961)
|.|++++..
T Consensus 910 g~a~ll~~~ 918 (1147)
T PRK10689 910 AYAWLLTPH 918 (1147)
T ss_pred eEEEEEeCC
Confidence 999987743
No 56
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.7e-36 Score=325.09 Aligned_cols=339 Identities=22% Similarity=0.309 Sum_probs=237.8
Q ss_pred HHHHHHHHh-CCCCCC-cHHHHHHHHHHhCC-CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHH
Q 002135 242 DNTKSALKS-TGISKL-YSHQAESIMASLAG-KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLR 318 (961)
Q Consensus 242 ~~l~~~L~~-~g~~~l-~~~Q~~ai~~il~G-~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~ 318 (961)
..+.++|++ +|+.++ ++.|.+|+.++..+ +||.|++|||+||||||+||+|-. ++.+|+++|+.||.+||.+
T Consensus 5 r~VreaLKK~FGh~kFKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~~-----~gITIV~SPLiALIkDQiD 79 (641)
T KOG0352|consen 5 RKVREALKKLFGHKKFKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALVH-----GGITIVISPLIALIKDQID 79 (641)
T ss_pred HHHHHHHHHHhCchhhcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHHh-----CCeEEEehHHHHHHHHHHH
Confidence 356678865 899877 78999999998866 599999999999999999999864 4589999999999999999
Q ss_pred HHHHhHhhCCCCccEEEEcCCCcHHHHHHHh-------cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhh
Q 002135 319 ALLAMTKAFDASIDIGVYDGDTTQKDRMWLR-------DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTE 391 (961)
Q Consensus 319 ~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~-------~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~ 391 (961)
.|.++- +.+..+....+..+|..+. .+..+++.||++-.. ..++..|..|-.
T Consensus 80 HL~~LK------Vp~~SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITPE~AAt------~~FQ~lLn~L~~--------- 138 (641)
T KOG0352|consen 80 HLKRLK------VPCESLNSKLSTVERSRIMGDLAKEKPTIKMLYITPEGAAT------DGFQKLLNGLAN--------- 138 (641)
T ss_pred HHHhcC------CchhHhcchhhHHHHHHHHHHHHhcCCceeEEEEchhhhhh------hhHHHHHHHHhh---------
Confidence 998862 3344445555556665432 235799999998643 345555555511
Q ss_pred hhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-H-HHHHHcccCCeEEEecCC
Q 002135 392 VYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-E-HCMELANLSTLELIQNDG 469 (961)
Q Consensus 392 ~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e-~~~~L~~~~~~~~i~~~g 469 (961)
-..++|+|+||||+.++ ||.++.--.-+|-.+...+ ++...+.+|||..... + ....| .+..+.. .-.
T Consensus 139 ----r~~L~Y~vVDEAHCVSQ-WGHDFRPDYL~LG~LRS~~--~~vpwvALTATA~~~VqEDi~~qL-~L~~PVA--iFk 208 (641)
T KOG0352|consen 139 ----RDVLRYIVVDEAHCVSQ-WGHDFRPDYLTLGSLRSVC--PGVPWVALTATANAKVQEDIAFQL-KLRNPVA--IFK 208 (641)
T ss_pred ----hceeeeEEechhhhHhh-hccccCcchhhhhhHHhhC--CCCceEEeecccChhHHHHHHHHH-hhcCcHH--hcc
Confidence 11249999999999987 7776654444444443332 3568899999964322 2 22233 2211110 001
Q ss_pred CccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHH---------C--CCcEEEEecChHHH
Q 002135 470 SPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQ---------H--GLRCIAFCRSRKLC 538 (961)
Q Consensus 470 ~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~---------~--g~k~IVF~~sr~~a 538 (961)
.|.-.... ++ +.. ....-.+....+.+.-...+. + .+-.||||+||..|
T Consensus 209 TP~FR~NL-FY----------D~~---------~K~~I~D~~~~LaDF~~~~LG~~~~~~~~~K~~~GCGIVYCRTR~~c 268 (641)
T KOG0352|consen 209 TPTFRDNL-FY----------DNH---------MKSFITDCLTVLADFSSSNLGKHEKASQNKKTFTGCGIVYCRTRNEC 268 (641)
T ss_pred Ccchhhhh-hH----------HHH---------HHHHhhhHhHhHHHHHHHhcCChhhhhcCCCCcCcceEEEeccHHHH
Confidence 11110000 00 000 000112223333333322221 1 13579999999999
Q ss_pred HHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHH
Q 002135 539 ELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLW 618 (961)
Q Consensus 539 e~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~ 618 (961)
|.++-.+.. -+.+...||+|+...||.++.++|.++++.||+||..+++|+|.|+|++|||+++|.|++.|.
T Consensus 269 Eq~AI~l~~--------~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI~AT~SFGMGVDKp~VRFViHW~~~qn~AgYY 340 (641)
T KOG0352|consen 269 EQVAIMLEI--------AGIPAMAYHAGLKKKERTEVQEKWMNNEIPVIAATVSFGMGVDKPDVRFVIHWSPSQNLAGYY 340 (641)
T ss_pred HHHHHHhhh--------cCcchHHHhcccccchhHHHHHHHhcCCCCEEEEEeccccccCCcceeEEEecCchhhhHHHH
Confidence 999876644 344678899999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccCCCCCCCceEEEEeeCCcchh
Q 002135 619 QQAGRSGRRERPSLAVYVAFEGPLDQ 644 (961)
Q Consensus 619 QR~GRAGR~g~~g~~i~l~~~~~~d~ 644 (961)
|..|||||.|.+++|-+.+...+.++
T Consensus 341 QESGRAGRDGk~SyCRLYYsR~D~~~ 366 (641)
T KOG0352|consen 341 QESGRAGRDGKRSYCRLYYSRQDKNA 366 (641)
T ss_pred HhccccccCCCccceeeeecccchHH
Confidence 99999999999999988887666554
No 57
>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=100.00 E-value=4.2e-35 Score=352.10 Aligned_cols=333 Identities=18% Similarity=0.131 Sum_probs=219.3
Q ss_pred CCCCCCcHHHHHHHHHHhCCC-cEEEEecCCchhHHHHHHHHHHHHhcCCCC-eEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 251 TGISKLYSHQAESIMASLAGK-NVVVATMTSSGKSLCYNLPVLEALSHDLSS-SALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~G~-~vIv~apTGSGKTla~~Lpil~~l~~~~~~-~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
.||+ |||+|.++|+.++.|+ ++++++|||||||.++.++.+........+ +.+|++|||+|+.|+++.+.++++.+.
T Consensus 12 ~G~~-PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l~ 90 (844)
T TIGR02621 12 HGYS-PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIGERLP 90 (844)
T ss_pred hCCC-CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHHHHhc
Confidence 5897 9999999999999998 577789999999997765555322222234 455577999999999999999988652
Q ss_pred ---------------------CCccEEEEcCCC-cHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhh
Q 002135 329 ---------------------ASIDIGVYDGDT-TQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFS 386 (961)
Q Consensus 329 ---------------------~~i~v~~~~Gd~-~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~ 386 (961)
..+++..+.|.. ...+...+..+++|||+|+|++....+.+.......+.++
T Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~~l~~~p~IIVgT~D~i~sr~L~~gYg~~~~~~pi------ 164 (844)
T TIGR02621 91 DVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWMLDPHRPAVIVGTVDMIGSRLLFSGYGCGFKSRPL------ 164 (844)
T ss_pred ccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHHHhcCCCCcEEEECHHHHcCCccccccccccccccc------
Confidence 135566555554 4566677778899999999888654442221111111111
Q ss_pred cchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHH-HHHcccCCeEEE
Q 002135 387 LVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHC-MELANLSTLELI 465 (961)
Q Consensus 387 ~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~-~~L~~~~~~~~i 465 (961)
..+.+.+++++|+|||| +..+|...+..|++.+.+ ... ..+.|++++|||++...... ..+.. .+. .+
T Consensus 165 -----~ag~L~~v~~LVLDEAD-Ld~gF~~~l~~Il~~l~r-p~~--~rprQtLLFSAT~p~ei~~l~~~~~~-~p~-~i 233 (844)
T TIGR02621 165 -----HAGFLGQDALIVHDEAH-LEPAFQELLKQIMNEQQR-PPD--FLPLRVVELTATSRTDGPDRTTLLSA-EDY-KH 233 (844)
T ss_pred -----hhhhhccceEEEEehhh-hccccHHHHHHHHHhccc-Ccc--cccceEEEEecCCCccHHHHHHHHcc-CCc-ee
Confidence 11123445999999999 555687777777765421 100 11359999999997543322 22322 111 11
Q ss_pred ecCCC-ccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHH-HHHHHCCCcEEEEecChHHHHHHHH
Q 002135 466 QNDGS-PCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLF-AEMVQHGLRCIAFCRSRKLCELVLS 543 (961)
Q Consensus 466 ~~~g~-p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll-~~l~~~g~k~IVF~~sr~~ae~l~~ 543 (961)
..... ....+...++ + .....+.......+ ..+...+.++||||||++.|+.+++
T Consensus 234 ~V~~~~l~a~ki~q~v-~----------------------v~~e~Kl~~lv~~L~~ll~e~g~~vLVF~NTv~~Aq~L~~ 290 (844)
T TIGR02621 234 PVLKKRLAAKKIVKLV-P----------------------PSDEKFLSTMVKELNLLMKDSGGAILVFCRTVKHVRKVFA 290 (844)
T ss_pred ecccccccccceEEEE-e----------------------cChHHHHHHHHHHHHHHHhhCCCcEEEEECCHHHHHHHHH
Confidence 11110 0000000000 0 00011121222222 2223456799999999999999999
Q ss_pred HHHHHHHhhCCcccccEEEEcCCCCHHHHH-----HHHHHHhC----CC-------ceEEEeccccccccccCCccEEEE
Q 002135 544 YTREILEETAPHLVDSICVYRAGYVAEDRR-----RIERDFFG----GK-------LCGVAATNALELGIDVGHIDVTLH 607 (961)
Q Consensus 544 ~L~~~l~~~~~~l~~~v~~~hggls~~eR~-----~ie~~f~~----G~-------~~vLVAT~aLe~GIDIp~vd~VI~ 607 (961)
.|++. .+..+||+|++.+|. .++++|++ |+ .++||||+++|+||||+. ++||+
T Consensus 291 ~L~~~----------g~~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVaerGLDId~-d~VI~ 359 (844)
T TIGR02621 291 KLPKE----------KFELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGEVGVNISA-DHLVC 359 (844)
T ss_pred HHHhc----------CCeEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccceEEeccchhhhcccCCc-ceEEE
Confidence 88651 127899999999999 78899987 54 689999999999999986 89998
Q ss_pred eCCCCCHhhHHHHhccCCCCCCCc-eEEEEe
Q 002135 608 LGFPGSIASLWQQAGRSGRRERPS-LAVYVA 637 (961)
Q Consensus 608 ~~~P~s~~sy~QR~GRAGR~g~~g-~~i~l~ 637 (961)
+..| .++|+||+||+||.|+.+ ..+.++
T Consensus 360 d~aP--~esyIQRiGRtgR~G~~~~~~i~vv 388 (844)
T TIGR02621 360 DLAP--FESMQQRFGRVNRFGELQACQIAVV 388 (844)
T ss_pred CCCC--HHHHHHHhcccCCCCCCCCceEEEE
Confidence 7777 799999999999998854 334444
No 58
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.7e-34 Score=319.40 Aligned_cols=360 Identities=18% Similarity=0.243 Sum_probs=254.3
Q ss_pred CCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCcc
Q 002135 253 ISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASID 332 (961)
Q Consensus 253 ~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~ 332 (961)
.-+++.+|......++.+ |++++.|||-|||.++.+-+...+...++ ++|+++|||-|+.|+.+.+.+...- ..-.
T Consensus 13 ~ie~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~-kvlfLAPTKPLV~Qh~~~~~~v~~i--p~~~ 88 (542)
T COG1111 13 TIEPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGG-KVLFLAPTKPLVLQHAEFCRKVTGI--PEDE 88 (542)
T ss_pred cccHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCC-eEEEecCCchHHHHHHHHHHHHhCC--Chhh
Confidence 347899999988888775 99999999999999999999988888766 9999999999999999999887542 1245
Q ss_pred EEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc
Q 002135 333 IGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG 412 (961)
Q Consensus 333 v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~ 412 (961)
++.++|..+.++|..+....+|+|+||+.+.+.|+. .+-.+. ++.++|+||||+-.|
T Consensus 89 i~~ltGev~p~~R~~~w~~~kVfvaTPQvveNDl~~----Grid~~-------------------dv~~lifDEAHRAvG 145 (542)
T COG1111 89 IAALTGEVRPEEREELWAKKKVFVATPQVVENDLKA----GRIDLD-------------------DVSLLIFDEAHRAVG 145 (542)
T ss_pred eeeecCCCChHHHHHHHhhCCEEEeccHHHHhHHhc----CccChH-------------------HceEEEechhhhccC
Confidence 788999999999999999999999999998776632 112233 349999999999876
Q ss_pred ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeE--EEecCCCccc----eeEEEEeCCCccc
Q 002135 413 AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLE--LIQNDGSPCA----QKLFVLWNPTSCL 486 (961)
Q Consensus 413 ~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~--~i~~~g~p~~----~~~~~l~~p~~~~ 486 (961)
. ..+..+.+...+. ..++.++++|||+++..+.+++.+...... .+..+.++.- .+.-+-|-.....
T Consensus 146 n--yAYv~Va~~y~~~-----~k~~~ilgLTASPGs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp 218 (542)
T COG1111 146 N--YAYVFVAKEYLRS-----AKNPLILGLTASPGSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLP 218 (542)
T ss_pred c--chHHHHHHHHHHh-----ccCceEEEEecCCCCCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCc
Confidence 3 3344555544432 457899999999998887777764322222 2222222211 1111112111000
Q ss_pred cccc-----------------------cc-c------------------ccccchhhh----------------------
Q 002135 487 RSVL-----------------------NK-S------------------QTDMDDTRN---------------------- 502 (961)
Q Consensus 487 ~~~~-----------------------~~-~------------------~~~~~~~~~---------------------- 502 (961)
.... .. + .........
T Consensus 219 ~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~~~~~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqG 298 (542)
T COG1111 219 EEIKEIRDLLRDALKPRLKPLKELGVIESSSPVSKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQG 298 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCceeccCcccHhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 0000 00 0 000000000
Q ss_pred -------------------------------------------cccCCCCcHHHHHHHHHHHHH--CCCcEEEEecChHH
Q 002135 503 -------------------------------------------AANKTSSPISEVSYLFAEMVQ--HGLRCIAFCRSRKL 537 (961)
Q Consensus 503 -------------------------------------------~~~~~~~~~~~~~~ll~~l~~--~g~k~IVF~~sr~~ 537 (961)
.......+...+..++.+..+ .+.++|||++.|.+
T Consensus 299 i~~~~~Yl~~l~e~~~~~~sk~a~~l~~d~~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdT 378 (542)
T COG1111 299 IRPFYQYLEKLEEEATKGGSKAAKSLLADPYFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDT 378 (542)
T ss_pred hHHHHHHHHHHHHHhcccchHHHHHHhcChhhHHHHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhH
Confidence 001122334445556655553 34699999999999
Q ss_pred HHHHHHHHHHHHHhhC-CcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhh
Q 002135 538 CELVLSYTREILEETA-PHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIAS 616 (961)
Q Consensus 538 ae~l~~~L~~~l~~~~-~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~s 616 (961)
||.+..+|.+...... ...+..-.-+..||++.++.++++.|++|+.++||||++.|.|+|||++|+||.|++-.|...
T Consensus 379 ae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~nVLVaTSVgEEGLDIp~vDlVifYEpvpSeIR 458 (542)
T COG1111 379 AEEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVPSEIR 458 (542)
T ss_pred HHHHHHHHHhcCCcceeEEeeccccccccccCHHHHHHHHHHHhcCCceEEEEcccccccCCCCcccEEEEecCCcHHHH
Confidence 9999999877432211 111112223346899999999999999999999999999999999999999999999999999
Q ss_pred HHHHhccCCCCCCCceEEEEeeCCcchhHHH
Q 002135 617 LWQQAGRSGRRERPSLAVYVAFEGPLDQYFM 647 (961)
Q Consensus 617 y~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~ 647 (961)
++||.||+||. +.|.++++...+..|..|.
T Consensus 459 ~IQR~GRTGR~-r~Grv~vLvt~gtrdeayy 488 (542)
T COG1111 459 SIQRKGRTGRK-RKGRVVVLVTEGTRDEAYY 488 (542)
T ss_pred HHHhhCccccC-CCCeEEEEEecCchHHHHH
Confidence 99999999998 8899988888876665444
No 59
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=3.7e-35 Score=357.42 Aligned_cols=334 Identities=27% Similarity=0.342 Sum_probs=255.1
Q ss_pred HHHHHHH-HhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHH
Q 002135 242 DNTKSAL-KSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRAL 320 (961)
Q Consensus 242 ~~l~~~L-~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l 320 (961)
++....+ ..+|+..+++-|.+||..++.|++++|.+|||+||++||+||++-. ++.+|+|.|+.+|++||...+
T Consensus 250 ~~~~~~l~~~Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~-----~gitvVISPL~SLm~DQv~~L 324 (941)
T KOG0351|consen 250 KELELLLKEVFGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALLL-----GGVTVVISPLISLMQDQVTHL 324 (941)
T ss_pred hHHHHHHHHHhccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeecccccc-----CCceEEeccHHHHHHHHHHhh
Confidence 3455555 4699999999999999999999999999999999999999999853 458999999999999999988
Q ss_pred HHhHhhCCCCccEEEEcCCCcHHHHHH----HhcC---CcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhh
Q 002135 321 LAMTKAFDASIDIGVYDGDTTQKDRMW----LRDN---ARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVY 393 (961)
Q Consensus 321 ~~l~~~~~~~i~v~~~~Gd~~~~~r~~----l~~~---~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~ 393 (961)
... ++....+++.....++.. +..+ .+|++.|||++... ......+..+..
T Consensus 325 ~~~------~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~~~-----~~l~~~~~~L~~----------- 382 (941)
T KOG0351|consen 325 SKK------GIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTPEKVVAS-----EGLLESLADLYA----------- 382 (941)
T ss_pred hhc------CcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCHHHhhcc-----cchhhHHHhccC-----------
Confidence 442 366677777776655432 3333 68999999998532 333444444411
Q ss_pred hhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEEecCCCcc
Q 002135 394 LIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELIQNDGSPC 472 (961)
Q Consensus 394 ~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~g~p~ 472 (961)
...+.++||||||+.++ ||.+++.-.++|..+...+. ...+|++|||..... +.+...+++.++.++.....+.
T Consensus 383 --~~~lal~vIDEAHCVSq-WgHdFRp~Yk~l~~l~~~~~--~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~sfnR~ 457 (941)
T KOG0351|consen 383 --RGLLALFVIDEAHCVSQ-WGHDFRPSYKRLGLLRIRFP--GVPFIALTATATERVREDVIRSLGLRNPELFKSSFNRP 457 (941)
T ss_pred --CCeeEEEEecHHHHhhh-hcccccHHHHHHHHHHhhCC--CCCeEEeehhccHHHHHHHHHHhCCCCcceecccCCCC
Confidence 01148999999999997 88888888888877765532 378999999975332 5555556766666655544443
Q ss_pred ceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhh
Q 002135 473 AQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEET 552 (961)
Q Consensus 473 ~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~ 552 (961)
..++-+.... .......+...+.. ...+..+||||.+|++||.++..|+.
T Consensus 458 NL~yeV~~k~------------------------~~~~~~~~~~~~~~-~~~~~s~IIYC~sr~~ce~vs~~L~~----- 507 (941)
T KOG0351|consen 458 NLKYEVSPKT------------------------DKDALLDILEESKL-RHPDQSGIIYCLSRKECEQVSAVLRS----- 507 (941)
T ss_pred CceEEEEecc------------------------CccchHHHHHHhhh-cCCCCCeEEEeCCcchHHHHHHHHHH-----
Confidence 3333222110 01111111111111 12457999999999999999999987
Q ss_pred CCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCce
Q 002135 553 APHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSL 632 (961)
Q Consensus 553 ~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~ 632 (961)
.+.....||+||++.+|+.+.++|..++++|+|||=|+++|||.|+|+.||||++|.|++.|.|.+|||||.|.++.
T Consensus 508 ---~~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK~DVR~ViH~~lPks~E~YYQE~GRAGRDG~~s~ 584 (941)
T KOG0351|consen 508 ---LGKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSS 584 (941)
T ss_pred ---hchhhHhhhcCCCHHHHHHHHHHHhcCCCeEEEEEeeccCCCCCCceeEEEECCCchhHHHHHHhccccCcCCCcce
Confidence 33567899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEeeCC
Q 002135 633 AVYVAFEG 640 (961)
Q Consensus 633 ~i~l~~~~ 640 (961)
|++++...
T Consensus 585 C~l~y~~~ 592 (941)
T KOG0351|consen 585 CVLLYGYA 592 (941)
T ss_pred eEEecchh
Confidence 99888665
No 60
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=3.2e-34 Score=336.24 Aligned_cols=352 Identities=20% Similarity=0.244 Sum_probs=261.5
Q ss_pred CCCCCCcHHHHHHHHHHh-CCCcEEEEecCCchhHHHHHHHHHHHHhcC--------CCCeEEEEcccHHHHHHHHHHHH
Q 002135 251 TGISKLYSHQAESIMASL-AGKNVVVATMTSSGKSLCYNLPVLEALSHD--------LSSSALYMFPTKALAQDQLRALL 321 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il-~G~~vIv~apTGSGKTla~~Lpil~~l~~~--------~~~~aLvl~PtraLa~qq~~~l~ 321 (961)
++|+.+..+|.+++|.+. ++.|+|||||||||||-.|+|.++..+.+. .+.+++||+|+||||.+.++.+.
T Consensus 106 f~f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~ 185 (1230)
T KOG0952|consen 106 FSFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFS 185 (1230)
T ss_pred ccHHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHh
Confidence 688899999999999876 567999999999999999999999998751 25689999999999999999987
Q ss_pred HhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCc-hhHHHhhhhhhhhhhcchhhhhhhhccee
Q 002135 322 AMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHG-QFSRILSNLRLIAFSLVTTEVYLIFLFIR 400 (961)
Q Consensus 322 ~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~-~~~~~L~~l~~~~~~~~~~~~~~~~~~i~ 400 (961)
+-+..++ ++|.-++||+....-+ -..++|+|||||..- +..+.. .-..+++. ++
T Consensus 186 kkl~~~g--i~v~ELTGD~ql~~te--i~~tqiiVTTPEKwD--vvTRk~~~d~~l~~~-------------------V~ 240 (1230)
T KOG0952|consen 186 KKLAPLG--ISVRELTGDTQLTKTE--IADTQIIVTTPEKWD--VVTRKSVGDSALFSL-------------------VR 240 (1230)
T ss_pred hhccccc--ceEEEecCcchhhHHH--HHhcCEEEeccccee--eeeeeeccchhhhhh-------------------ee
Confidence 7666554 8899999999765533 346899999999862 122211 11233333 49
Q ss_pred EEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHccc--CCeEEEecCCCccceeEEE
Q 002135 401 FVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANL--STLELIQNDGSPCAQKLFV 478 (961)
Q Consensus 401 ~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~--~~~~~i~~~g~p~~~~~~~ 478 (961)
+|||||+|.+-+.+|+.++.++.|..+..+. .-...++|++|||++|-.+.+.+|--. .....++...+|.+.+..+
T Consensus 241 LviIDEVHlLhd~RGpvlEtiVaRtlr~ves-sqs~IRivgLSATlPN~eDvA~fL~vn~~~glfsFd~~yRPvpL~~~~ 319 (1230)
T KOG0952|consen 241 LVIIDEVHLLHDDRGPVLETIVARTLRLVES-SQSMIRIVGLSATLPNYEDVARFLRVNPYAGLFSFDQRYRPVPLTQGF 319 (1230)
T ss_pred eEEeeeehhhcCcccchHHHHHHHHHHHHHh-hhhheEEEEeeccCCCHHHHHHHhcCCCccceeeecccccccceeeeE
Confidence 9999999999999999999999999887653 235679999999999999988888432 2234445555666655544
Q ss_pred EeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCC----
Q 002135 479 LWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAP---- 554 (961)
Q Consensus 479 l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~---- 554 (961)
+-.+.... ......-......-+.+.+..|.+++|||.+|..+-..|+.|.+.......
T Consensus 320 iG~k~~~~-----------------~~~~~~~d~~~~~kv~e~~~~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f 382 (1230)
T KOG0952|consen 320 IGIKGKKN-----------------RQQKKNIDEVCYDKVVEFLQEGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLF 382 (1230)
T ss_pred Eeeecccc-----------------hhhhhhHHHHHHHHHHHHHHcCCeEEEEEecChHHHHHHHHHHHHHHhcCccccc
Confidence 43222100 000001111223334556678999999999999999999988764422110
Q ss_pred -----------cccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEE----EeCCCC------C
Q 002135 555 -----------HLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTL----HLGFPG------S 613 (961)
Q Consensus 555 -----------~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI----~~~~P~------s 613 (961)
-....+..||+||..++|.-.++.|+.|.+++|+||++|+.|+++|+--++| .||.-. +
T Consensus 383 ~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F~~G~i~vL~cTaTLAwGVNLPA~aViIKGT~~ydsskg~f~dlg 462 (1230)
T KOG0952|consen 383 LPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEFKEGHIKVLCCTATLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLG 462 (1230)
T ss_pred CCChhhHHHHHHHHhhhhhcccccchhhHHHHHHHHhcCCceEEEecceeeeccCCcceEEEecCCcccccccCceeeeh
Confidence 0113678999999999999999999999999999999999999999755555 233222 5
Q ss_pred HhhHHHHhccCCCC--CCCceEEEEeeCCcchhH
Q 002135 614 IASLWQQAGRSGRR--ERPSLAVYVAFEGPLDQY 645 (961)
Q Consensus 614 ~~sy~QR~GRAGR~--g~~g~~i~l~~~~~~d~~ 645 (961)
+...+|..|||||. +..|.++++...+..+.|
T Consensus 463 ilDVlQifGRAGRPqFd~~G~giIiTt~dkl~~Y 496 (1230)
T KOG0952|consen 463 ILDVLQIFGRAGRPQFDSSGEGIIITTRDKLDHY 496 (1230)
T ss_pred HHHHHHHHhccCCCCCCCCceEEEEecccHHHHH
Confidence 67889999999998 566888887766655543
No 61
>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=100.00 E-value=6.9e-34 Score=347.90 Aligned_cols=375 Identities=18% Similarity=0.144 Sum_probs=247.9
Q ss_pred HHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhH-hhCCCCccEEEE
Q 002135 258 SHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMT-KAFDASIDIGVY 336 (961)
Q Consensus 258 ~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~-~~~~~~i~v~~~ 336 (961)
.+-.+.+.++.+++++|++|+||||||.+|.+|+++... .+.+++++.|||++|.|.++++.+.. ...+ ..|+..
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~--~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g--~~VGy~ 80 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG--IGGKIIMLEPRRLAARSAAQRLASQLGEAVG--QTVGYR 80 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc--cCCeEEEEeCcHHHHHHHHHHHHHHhCCCcC--cEEEEE
Confidence 444566777778899999999999999999999998763 35689999999999999999986543 2222 334432
Q ss_pred cCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh-hhc-cc
Q 002135 337 DGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA-YKG-AF 414 (961)
Q Consensus 337 ~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~-~~~-~f 414 (961)
.+.. .....+++|+|+||++|...+.. ...|+++ ++|||||+|. ... ++
T Consensus 81 vr~~-----~~~s~~t~I~v~T~G~Llr~l~~-----d~~L~~v-------------------~~VIiDEaHER~L~~Dl 131 (819)
T TIGR01970 81 VRGE-----NKVSRRTRLEVVTEGILTRMIQD-----DPELDGV-------------------GALIFDEFHERSLDADL 131 (819)
T ss_pred Eccc-----cccCCCCcEEEECCcHHHHHHhh-----CcccccC-------------------CEEEEeccchhhhccch
Confidence 2221 12334689999999999776521 1234555 9999999996 333 33
Q ss_pred chHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccc
Q 002135 415 GCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQ 494 (961)
Q Consensus 415 g~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~ 494 (961)
+-. +++.+.... ..+.|+|+||||+.+. .+..+++. ..+|...|+..+.+.+++..+.
T Consensus 132 ~L~---ll~~i~~~l----r~dlqlIlmSATl~~~--~l~~~l~~--~~vI~~~gr~~pVe~~y~~~~~----------- 189 (819)
T TIGR01970 132 GLA---LALDVQSSL----REDLKILAMSATLDGE--RLSSLLPD--APVVESEGRSFPVEIRYLPLRG----------- 189 (819)
T ss_pred HHH---HHHHHHHhc----CCCceEEEEeCCCCHH--HHHHHcCC--CcEEEecCcceeeeeEEeecch-----------
Confidence 322 222333221 3568999999999753 34555542 4456666654443333221100
Q ss_pred cccchhhhcccCCCCcHHHHHHHHHHHH-HCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHH
Q 002135 495 TDMDDTRNAANKTSSPISEVSYLFAEMV-QHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRR 573 (961)
Q Consensus 495 ~~~~~~~~~~~~~~~~~~~~~~ll~~l~-~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~ 573 (961)
.......+...+..+. ..++++|||++++++++.+++.|++.+. ....+..+||++++++|.
T Consensus 190 ------------~~~~~~~v~~~l~~~l~~~~g~iLVFlpg~~eI~~l~~~L~~~~~-----~~~~v~pLHg~L~~~eq~ 252 (819)
T TIGR01970 190 ------------DQRLEDAVSRAVEHALASETGSILVFLPGQAEIRRVQEQLAERLD-----SDVLICPLYGELSLAAQD 252 (819)
T ss_pred ------------hhhHHHHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHHHHhhcC-----CCcEEEEecCCCCHHHHH
Confidence 0000111122222222 2457899999999999999988876321 234688999999999999
Q ss_pred HHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC------------------CHhhHHHHhccCCCCCCCceEEE
Q 002135 574 RIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG------------------SIASLWQQAGRSGRRERPSLAVY 635 (961)
Q Consensus 574 ~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~------------------s~~sy~QR~GRAGR~g~~g~~i~ 635 (961)
++++.|++|+.+||||||++|+|||||+|++||++|+|. |.+++.||+|||||. ++|.|+.
T Consensus 253 ~~~~~~~~G~rkVlVATnIAErgItIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~-~~G~cyr 331 (819)
T TIGR01970 253 RAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRL-EPGVCYR 331 (819)
T ss_pred HHHhhcccCCeEEEEecchHhhcccccCceEEEEcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCC-CCCEEEE
Confidence 999999999999999999999999999999999999885 346799999999999 8999998
Q ss_pred EeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCCHHHHHHHHHHCCccccCCC
Q 002135 636 VAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSGLSSGITTLKNRGYLSSDPS 715 (961)
Q Consensus 636 l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~~~~~l~~L~~~g~l~~~~~ 715 (961)
++....... + ......++ ...+ ..-+..++.+.....|..+.+.+.+....+..+++.|...|+|..++.
T Consensus 332 L~t~~~~~~-l----~~~~~PEI--~r~~---L~~~~L~l~~~g~~~~~~~~~l~~P~~~~i~~a~~~L~~lgald~~~~ 401 (819)
T TIGR01970 332 LWSEEQHQR-L----PAQDEPEI--LQAD---LSGLALELAQWGAKDPSDLRWLDAPPSVALAAARQLLQRLGALDAQGR 401 (819)
T ss_pred eCCHHHHHh-h----hcCCCcce--eccC---cHHHHHHHHHcCCCChhhCCCCCCcCHHHHHHHHHHHHHCCCCCCCCC
Confidence 875432211 1 11111111 1122 222333344333222322323333333568889999999999976654
No 62
>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=100.00 E-value=6.7e-34 Score=324.28 Aligned_cols=299 Identities=16% Similarity=0.189 Sum_probs=195.0
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCc----------
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTT---------- 341 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~---------- 341 (961)
+++++||||||||++|++|++..+.+..+.+++|++|+++|+.|+++++..++.. .++.++|...
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~~-----~~~~~~~~~~~~~~~~~~~~ 75 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGS-----NLGLLHSSSSFKRIKEMGDS 75 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhCc-----ccEEeeccHHHHHHhccCCc
Confidence 5899999999999999999999887666789999999999999999999987532 2333333322
Q ss_pred -HHHH--HHH-h-----cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc
Q 002135 342 -QKDR--MWL-R-----DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG 412 (961)
Q Consensus 342 -~~~r--~~l-~-----~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~ 412 (961)
...+ ... . ..++|+++||+++...+..........+.++ ..++||+||+|.+.+
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~-----------------~~~~iViDE~h~~~~ 138 (358)
T TIGR01587 76 EEFEHLFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASI-----------------ANSLLIFDEVHFYDE 138 (358)
T ss_pred hhHHHHHHHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHh-----------------cCCEEEEeCCCCCCH
Confidence 1111 111 1 1367999999999876654222111122222 117999999999976
Q ss_pred ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccc
Q 002135 413 AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNK 492 (961)
Q Consensus 413 ~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~ 492 (961)
.....+..+++.+. ..+.|+|++|||++ +.+..+................... .......
T Consensus 139 ~~~~~l~~~l~~l~-------~~~~~~i~~SATlp---~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-------- 198 (358)
T TIGR01587 139 YTLALILAVLEVLK-------DNDVPILLMSATLP---KFLKEYAEKIGYVEFNEPLDLKEER--RFERHRF-------- 198 (358)
T ss_pred HHHHHHHHHHHHHH-------HcCCCEEEEecCch---HHHHHHHhcCCCcccccCCCCcccc--ccccccc--------
Confidence 32222333333332 23578999999996 2333332211010000000000000 0000000
Q ss_pred cccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHH
Q 002135 493 SQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDR 572 (961)
Q Consensus 493 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR 572 (961)
.........+...+..++. ....+.++||||++++.|+.+++.|++.. ....+..+||++++.+|
T Consensus 199 --------~~~~~~~~~~~~~l~~l~~-~~~~~~~~lVf~~t~~~~~~~~~~L~~~~------~~~~~~~~h~~~~~~~r 263 (358)
T TIGR01587 199 --------IKIESDKVGEISSLERLLE-FIKKGGKIAIIVNTVDRAQEFYQQLKENA------PEEEIMLLHSRFTEKDR 263 (358)
T ss_pred --------eeeccccccCHHHHHHHHH-HhhCCCeEEEEECCHHHHHHHHHHHHhhc------CCCeEEEEECCCCHHHH
Confidence 0000011123333444443 33457799999999999999999887632 11258899999999999
Q ss_pred HHH----HHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCC
Q 002135 573 RRI----ERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERP 630 (961)
Q Consensus 573 ~~i----e~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~ 630 (961)
.++ ++.|++|+.++||||+++++|||++ +++||++..| ..+|+||+||+||.|+.
T Consensus 264 ~~~~~~~~~~f~~~~~~ilvaT~~~~~GiDi~-~~~vi~~~~~--~~~~iqr~GR~gR~g~~ 322 (358)
T TIGR01587 264 AKKEAELLEEMKKNEKFVIVATQVIEASLDIS-ADVMITELAP--IDSLIQRLGRLHRYGRK 322 (358)
T ss_pred HHHHHHHHHHhcCCCCeEEEECcchhceeccC-CCEEEEcCCC--HHHHHHHhccccCCCCC
Confidence 774 7889999999999999999999995 8899988776 88999999999999765
No 63
>PHA02653 RNA helicase NPH-II; Provisional
Probab=100.00 E-value=1.4e-33 Score=337.87 Aligned_cols=319 Identities=18% Similarity=0.134 Sum_probs=216.4
Q ss_pred HHHHHHHHHHhCCCcEEEEecCCchhHHH---------HHHHHHHHHh----cCCCCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 258 SHQAESIMASLAGKNVVVATMTSSGKSLC---------YNLPVLEALS----HDLSSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 258 ~~Q~~ai~~il~G~~vIv~apTGSGKTla---------~~Lpil~~l~----~~~~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
.+|.++++.+++|+++|++|+||||||.+ |++|.+..+. .....+++++.||++||.|...++.+..
T Consensus 167 ~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~v 246 (675)
T PHA02653 167 DVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKSL 246 (675)
T ss_pred HHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHHh
Confidence 36999999999999999999999999997 4555655543 2235689999999999999998887755
Q ss_pred hhCC-CCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEE
Q 002135 325 KAFD-ASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVV 403 (961)
Q Consensus 325 ~~~~-~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VV 403 (961)
.... .+..+.+..|+.+..+........+|+++|+.... ..|+++ ++||
T Consensus 247 g~~~~~g~~v~v~~Gg~~~~~~~t~~k~~~Ilv~T~~L~l-----------~~L~~v-------------------~~VV 296 (675)
T PHA02653 247 GFDEIDGSPISLKYGSIPDELINTNPKPYGLVFSTHKLTL-----------NKLFDY-------------------GTVI 296 (675)
T ss_pred CccccCCceEEEEECCcchHHhhcccCCCCEEEEeCcccc-----------cccccC-------------------CEEE
Confidence 3311 13556666676664433333346799999975311 134555 9999
Q ss_pred EecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCc-cceeEEEEeCC
Q 002135 404 IDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSP-CAQKLFVLWNP 482 (961)
Q Consensus 404 IDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p-~~~~~~~l~~p 482 (961)
|||||++.. .+..+ +..++... ....|++++|||++...+.+..+++ +...+...+.. .+.+..++..+
T Consensus 297 IDEaHEr~~-~~Dll---L~llk~~~----~~~rq~ILmSATl~~dv~~l~~~~~--~p~~I~I~grt~~pV~~~yi~~~ 366 (675)
T PHA02653 297 IDEVHEHDQ-IGDII---IAVARKHI----DKIRSLFLMTATLEDDRDRIKEFFP--NPAFVHIPGGTLFPISEVYVKNK 366 (675)
T ss_pred ccccccCcc-chhHH---HHHHHHhh----hhcCEEEEEccCCcHhHHHHHHHhc--CCcEEEeCCCcCCCeEEEEeecC
Confidence 999999865 33333 23333222 1234899999999754444455554 24455555543 33343333221
Q ss_pred CccccccccccccccchhhhcccCCCCcHHHHHHHHHHHH-HCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEE
Q 002135 483 TSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMV-QHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSIC 561 (961)
Q Consensus 483 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~-~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~ 561 (961)
.... . ... . .......+...+.... ..++++||||++++.|+.+++.|++.. ....+.
T Consensus 367 ~~~~-------~--~~~----y--~~~~k~~~l~~L~~~~~~~~g~iLVFlpg~~ei~~l~~~L~~~~------~~~~v~ 425 (675)
T PHA02653 367 YNPK-------N--KRA----Y--IEEEKKNIVTALKKYTPPKGSSGIVFVASVSQCEEYKKYLEKRL------PIYDFY 425 (675)
T ss_pred cccc-------c--chh----h--hHHHHHHHHHHHHHhhcccCCcEEEEECcHHHHHHHHHHHHhhc------CCceEE
Confidence 1000 0 000 0 0000111222232222 245689999999999999998886532 124688
Q ss_pred EEcCCCCHHHHHHHHHHH-hCCCceEEEeccccccccccCCccEEEEeC---CCC---------CHhhHHHHhccCCCCC
Q 002135 562 VYRAGYVAEDRRRIERDF-FGGKLCGVAATNALELGIDVGHIDVTLHLG---FPG---------SIASLWQQAGRSGRRE 628 (961)
Q Consensus 562 ~~hggls~~eR~~ie~~f-~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~---~P~---------s~~sy~QR~GRAGR~g 628 (961)
.+||++++. ++.+++| ++|+.+||||||++|+|||||+|++||++| .|. |.++|.||+|||||.
T Consensus 426 ~LHG~Lsq~--eq~l~~ff~~gk~kILVATdIAERGIDIp~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~- 502 (675)
T PHA02653 426 IIHGKVPNI--DEILEKVYSSKNPSIIISTPYLESSVTIRNATHVYDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRV- 502 (675)
T ss_pred eccCCcCHH--HHHHHHHhccCceeEEeccChhhccccccCeeEEEECCCccCCCcccCcccccCHHHHHHhccCcCCC-
Confidence 999999975 4666777 689999999999999999999999999999 665 889999999999999
Q ss_pred CCceEEEEeeCC
Q 002135 629 RPSLAVYVAFEG 640 (961)
Q Consensus 629 ~~g~~i~l~~~~ 640 (961)
++|.|+.++...
T Consensus 503 ~~G~c~rLyt~~ 514 (675)
T PHA02653 503 SPGTYVYFYDLD 514 (675)
T ss_pred CCCeEEEEECHH
Confidence 899999887544
No 64
>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=100.00 E-value=1.7e-33 Score=319.29 Aligned_cols=320 Identities=19% Similarity=0.212 Sum_probs=200.5
Q ss_pred HHHHHHHHHhCCCc--EEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCC--CCccEE
Q 002135 259 HQAESIMASLAGKN--VVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFD--ASIDIG 334 (961)
Q Consensus 259 ~Q~~ai~~il~G~~--vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~--~~i~v~ 334 (961)
||.++++++.++.+ ++++||||||||++|++|++.. ..+++|++|+++|++||+++++++...+. .+..+.
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~~-----~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v~ 75 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLHG-----ENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNLL 75 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceEE
Confidence 79999999998874 8899999999999999999852 45789999999999999999999886553 246788
Q ss_pred EEcCCCcHHHHH--------------------HH-hcCCcEEEeChhHHHHhhcCC----CchhHHHhhhhhhhhhhcch
Q 002135 335 VYDGDTTQKDRM--------------------WL-RDNARLLITNPDMLHMSILPY----HGQFSRILSNLRLIAFSLVT 389 (961)
Q Consensus 335 ~~~Gd~~~~~r~--------------------~l-~~~~~IlItTPe~L~~~lL~~----~~~~~~~L~~l~~~~~~~~~ 389 (961)
.++|++..+.+. .+ ...+.|++|||++|+.++... ...+..++.++
T Consensus 76 ~~~g~~~~d~~~~~~~~~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~--------- 146 (357)
T TIGR03158 76 HVSKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKF--------- 146 (357)
T ss_pred EecCCchHHHHHhhhhhcccCccchhhhhHHHHHhcCCCCEEEecHHHHHHHHhhhccCcccchhhhhcCC---------
Confidence 888886544111 11 235889999999998654211 11123344555
Q ss_pred hhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEEecC
Q 002135 390 TEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELIQND 468 (961)
Q Consensus 390 ~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~ 468 (961)
++||+||+|.|.......+...+....-+.. .....++|++|||++.+. +.+..... ....++...
T Consensus 147 ----------~~iV~DE~H~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~i~lSAT~~~~~~~~l~~~~~-~~~~~~~v~ 213 (357)
T TIGR03158 147 ----------STVIFDEFHLYDAKQLVGMLFLLAYMQLIRF--FECRRKFVFLSATPDPALILRLQNAKQ-AGVKIAPID 213 (357)
T ss_pred ----------CEEEEecccccCcccchhhhhhhHHHHHHHh--hhcCCcEEEEecCCCHHHHHHHHhccc-cCceeeeec
Confidence 9999999999986333333322222221111 122479999999986542 22222210 112333333
Q ss_pred CCccceeEEEEeCCCccccccc-ccccc-ccchhhhcccCCCCcHHHHHHHHHHH---H--HCCCcEEEEecChHHHHHH
Q 002135 469 GSPCAQKLFVLWNPTSCLRSVL-NKSQT-DMDDTRNAANKTSSPISEVSYLFAEM---V--QHGLRCIAFCRSRKLCELV 541 (961)
Q Consensus 469 g~p~~~~~~~l~~p~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~ll~~l---~--~~g~k~IVF~~sr~~ae~l 541 (961)
|.. +...-+|........ ..... ...... .......+...+..++..+ . ..+.++||||+|++.|+.+
T Consensus 214 g~~----~~~~~~~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~~~~~l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l 288 (357)
T TIGR03158 214 GEK----YQFPDNPELEADNKTQSFRPVLPPVELE-LIPAPDFKEEELSELAEEVIERFRQLPGERGAIILDSLDEVNRL 288 (357)
T ss_pred Ccc----cccCCChhhhccccccccceeccceEEE-EEeCCchhHHHHHHHHHHHHHHHhccCCCeEEEEECCHHHHHHH
Confidence 320 000000000000000 00000 000000 0001111222222333322 2 2467999999999999999
Q ss_pred HHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHh
Q 002135 542 LSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQA 621 (961)
Q Consensus 542 ~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~ 621 (961)
+..|++. .....+..+||.+++.+|.++ ++.++||||+++++|||++.+ .|| ++ |.+.++|+||+
T Consensus 289 ~~~L~~~------~~~~~~~~l~g~~~~~~R~~~------~~~~iLVaTdv~~rGiDi~~~-~vi-~~-p~~~~~yiqR~ 353 (357)
T TIGR03158 289 SDLLQQQ------GLGDDIGRITGFAPKKDRERA------MQFDILLGTSTVDVGVDFKRD-WLI-FS-ARDAAAFWQRL 353 (357)
T ss_pred HHHHhhh------CCCceEEeeecCCCHHHHHHh------ccCCEEEEecHHhcccCCCCc-eEE-EC-CCCHHHHhhhc
Confidence 9988762 122357789999999998754 478999999999999999986 566 45 89999999999
Q ss_pred ccCC
Q 002135 622 GRSG 625 (961)
Q Consensus 622 GRAG 625 (961)
||+|
T Consensus 354 GR~g 357 (357)
T TIGR03158 354 GRLG 357 (357)
T ss_pred ccCC
Confidence 9997
No 65
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=100.00 E-value=6.2e-34 Score=349.16 Aligned_cols=379 Identities=18% Similarity=0.157 Sum_probs=246.0
Q ss_pred cHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhH-hhCCCCccEEE
Q 002135 257 YSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMT-KAFDASIDIGV 335 (961)
Q Consensus 257 ~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~-~~~~~~i~v~~ 335 (961)
+.+-.+.+.++.+++++|++|+||||||++|.+|+++.... ..+++++.|||++|.|.++++.+.. ... +..++.
T Consensus 7 ~~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~--~~~ilvlqPrR~aA~qia~rva~~l~~~~--g~~VGy 82 (812)
T PRK11664 7 AAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGI--NGKIIMLEPRRLAARNVAQRLAEQLGEKP--GETVGY 82 (812)
T ss_pred HHHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCc--CCeEEEECChHHHHHHHHHHHHHHhCccc--CceEEE
Confidence 44455677778888999999999999999999999986432 4589999999999999999986543 222 244544
Q ss_pred EcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccc
Q 002135 336 YDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFG 415 (961)
Q Consensus 336 ~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg 415 (961)
..+... ...+..+|+|+||++|.+.+.. ...++++ ++|||||+|...-...
T Consensus 83 ~vr~~~-----~~~~~t~I~v~T~G~Llr~l~~-----d~~L~~v-------------------~~IIlDEaHER~l~~D 133 (812)
T PRK11664 83 RMRAES-----KVGPNTRLEVVTEGILTRMIQR-----DPELSGV-------------------GLVILDEFHERSLQAD 133 (812)
T ss_pred EecCcc-----ccCCCCcEEEEChhHHHHHHhh-----CCCcCcC-------------------cEEEEcCCCccccccc
Confidence 333221 1223568999999999776521 1234555 9999999998321111
Q ss_pred hHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCcccccccccccc
Q 002135 416 CHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQT 495 (961)
Q Consensus 416 ~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~ 495 (961)
-.+..+ ..+.+ . ...+.|+|+||||+... .+..+++. ..++...|+..+.+..++..+.
T Consensus 134 l~L~ll-~~i~~---~-lr~~lqlilmSATl~~~--~l~~~~~~--~~~I~~~gr~~pV~~~y~~~~~------------ 192 (812)
T PRK11664 134 LALALL-LDVQQ---G-LRDDLKLLIMSATLDND--RLQQLLPD--APVIVSEGRSFPVERRYQPLPA------------ 192 (812)
T ss_pred hHHHHH-HHHHH---h-CCccceEEEEecCCCHH--HHHHhcCC--CCEEEecCccccceEEeccCch------------
Confidence 112222 22221 1 14567999999999643 34455442 4455666654443333221110
Q ss_pred ccchhhhcccCCCCcHHHHHHHHHHHHH-CCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHH
Q 002135 496 DMDDTRNAANKTSSPISEVSYLFAEMVQ-HGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRR 574 (961)
Q Consensus 496 ~~~~~~~~~~~~~~~~~~~~~ll~~l~~-~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ 574 (961)
.......+...+..+.. .++++|||++++++++.+++.|++.+. ....+..+||++++++|++
T Consensus 193 -----------~~~~~~~v~~~l~~~l~~~~g~iLVFlpg~~ei~~l~~~L~~~~~-----~~~~v~~Lhg~l~~~eq~~ 256 (812)
T PRK11664 193 -----------HQRFDEAVARATAELLRQESGSLLLFLPGVGEIQRVQEQLASRVA-----SDVLLCPLYGALSLAEQQK 256 (812)
T ss_pred -----------hhhHHHHHHHHHHHHHHhCCCCEEEEcCCHHHHHHHHHHHHHhcc-----CCceEEEeeCCCCHHHHHH
Confidence 00011112223333333 357999999999999999998875321 1246889999999999999
Q ss_pred HHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC------------------CHhhHHHHhccCCCCCCCceEEEE
Q 002135 575 IERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG------------------SIASLWQQAGRSGRRERPSLAVYV 636 (961)
Q Consensus 575 ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~------------------s~~sy~QR~GRAGR~g~~g~~i~l 636 (961)
+++.|++|+.+||||||++|+||||++|++||++|+|. |.++|.||+|||||. ++|.|+.+
T Consensus 257 ~~~~~~~G~rkVlvATnIAErsLtIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~-~~G~cyrL 335 (812)
T PRK11664 257 AILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL-EPGICLHL 335 (812)
T ss_pred HhccccCCCeEEEEecchHHhcccccCceEEEECCCcccccccccCCcceeEEEeechhhhhhhccccCCC-CCcEEEEe
Confidence 99999999999999999999999999999999998875 347899999999999 79999988
Q ss_pred eeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCCHHHHHHHHHHCCccccCCCC
Q 002135 637 AFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSGLSSGITTLKNRGYLSSDPSL 716 (961)
Q Consensus 637 ~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~~~~~l~~L~~~g~l~~~~~~ 716 (961)
+.....+. .++ ...+ |-...+ ..-+..++.+.....+..+.+.+.+-...+.++++.|...|+|..++..
T Consensus 336 ~t~~~~~~----l~~-~~~P--EI~r~d---L~~~~L~l~~~g~~~~~~~~~ld~P~~~~~~~A~~~L~~lgald~~g~l 405 (812)
T PRK11664 336 YSKEQAER----AAA-QSEP--EILHSD---LSGLLLELLQWGCHDPAQLSWLDQPPAAALAAAKRLLQQLGALDGQGRL 405 (812)
T ss_pred cCHHHHhh----Ccc-CCCC--ceeccc---hHHHHHHHHHcCCCCHHhCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCc
Confidence 85432221 111 0011 111111 2222223333222222222222333334688999999999999876653
No 66
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=100.00 E-value=6e-34 Score=300.89 Aligned_cols=347 Identities=23% Similarity=0.319 Sum_probs=252.2
Q ss_pred ccccccCCccccHHHHHHHHh-CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 230 KAVLVEIPDALLDNTKSALKS-TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 230 ~~~f~~l~~~L~~~l~~~L~~-~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
++.|..-.++++.+..+.|+. +..++++|.|.++|++.+.|++++++.|||.||++||+||++-. .+.+|+|+|
T Consensus 68 paawdkd~fpws~e~~~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~a-----dg~alvi~p 142 (695)
T KOG0353|consen 68 PAAWDKDDFPWSDEAKDILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALCA-----DGFALVICP 142 (695)
T ss_pred ccccccCCCCCchHHHHHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHhc-----CCceEeech
Confidence 344544333588888888864 78889999999999999999999999999999999999999863 678999999
Q ss_pred cHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHh-----c--CCcEEEeChhHHHHhhcCCCchhHHHhhhhh
Q 002135 309 TKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLR-----D--NARLLITNPDMLHMSILPYHGQFSRILSNLR 381 (961)
Q Consensus 309 traLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~-----~--~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~ 381 (961)
+..|+.||.-.++.++ +........++.++..+.. + .-++++.||+.+... ..++..+.
T Consensus 143 lislmedqil~lkqlg------i~as~lnansske~~k~v~~~i~nkdse~kliyvtpekiaks--------k~~mnkle 208 (695)
T KOG0353|consen 143 LISLMEDQILQLKQLG------IDASMLNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIAKS--------KKFMNKLE 208 (695)
T ss_pred hHHHHHHHHHHHHHhC------cchhhccCcccHHHHHHHHHHHcCCCceeEEEEecHHHHHHH--------HHHHHHHH
Confidence 9999999999998863 3344455556555544432 1 247999999998532 23344441
Q ss_pred hhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccC
Q 002135 382 LIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLS 460 (961)
Q Consensus 382 ~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~ 460 (961)
+ ......+.++-|||+|+.+. ||.+++.-...|.-+-+++ ....+|+++||..|.. +.++.+++..
T Consensus 209 k----------a~~~~~~~~iaidevhccsq-wghdfr~dy~~l~ilkrqf--~~~~iigltatatn~vl~d~k~il~ie 275 (695)
T KOG0353|consen 209 K----------ALEAGFFKLIAIDEVHCCSQ-WGHDFRPDYKALGILKRQF--KGAPIIGLTATATNHVLDDAKDILCIE 275 (695)
T ss_pred H----------HhhcceeEEEeecceeehhh-hCcccCcchHHHHHHHHhC--CCCceeeeehhhhcchhhHHHHHHhHH
Confidence 1 11112248999999999987 6665543333333222232 3457899999987654 5566665543
Q ss_pred CeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHH
Q 002135 461 TLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCEL 540 (961)
Q Consensus 461 ~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~ 540 (961)
..-.+.........++-+.-.|. ...+...+++.++..- -.|...||||-|++.||.
T Consensus 276 ~~~tf~a~fnr~nl~yev~qkp~----------------------n~dd~~edi~k~i~~~-f~gqsgiiyc~sq~d~ek 332 (695)
T KOG0353|consen 276 AAFTFRAGFNRPNLKYEVRQKPG----------------------NEDDCIEDIAKLIKGD-FAGQSGIIYCFSQKDCEK 332 (695)
T ss_pred hhheeecccCCCCceeEeeeCCC----------------------ChHHHHHHHHHHhccc-cCCCcceEEEeccccHHH
Confidence 22222222222222222222221 1122333334433211 146788999999999999
Q ss_pred HHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHH-
Q 002135 541 VLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQ- 619 (961)
Q Consensus 541 l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~Q- 619 (961)
++..|+. .+.....||+.|.+++|..+-+.|..|++.|+|||-++++|||.|+|++|||..+|.|+++|.|
T Consensus 333 va~alkn--------~gi~a~~yha~lep~dks~~hq~w~a~eiqvivatvafgmgidkpdvrfvihhsl~ksienyyqa 404 (695)
T KOG0353|consen 333 VAKALKN--------HGIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVATVAFGMGIDKPDVRFVIHHSLPKSIENYYQA 404 (695)
T ss_pred HHHHHHh--------cCccccccccccCccccccccccccccceEEEEEEeeecccCCCCCeeEEEecccchhHHHHHHH
Confidence 9998876 5667889999999999999999999999999999999999999999999999999999999999
Q ss_pred ------------------------------------------HhccCCCCCCCceEEEEeeC
Q 002135 620 ------------------------------------------QAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 620 ------------------------------------------R~GRAGR~g~~g~~i~l~~~ 639 (961)
..|||||.+.+..|++.+..
T Consensus 405 sarillrmtkqknksdtggstqinilevctnfkiffavfsekesgragrd~~~a~cilyy~~ 466 (695)
T KOG0353|consen 405 SARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRAGRDDMKADCILYYGF 466 (695)
T ss_pred HHHHHHHHhhhcccccCCCcceeehhhhhccceeeeeeecchhccccccCCCcccEEEEech
Confidence 88999999999999987753
No 67
>PHA02558 uvsW UvsW helicase; Provisional
Probab=100.00 E-value=1.6e-32 Score=324.92 Aligned_cols=328 Identities=14% Similarity=0.154 Sum_probs=218.1
Q ss_pred CCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccE
Q 002135 254 SKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDI 333 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v 333 (961)
..|+++|.+|++.++.+++.++++|||||||+++...+ ..+......++|+|+||++|+.|+.+++.++..... ....
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~-~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~-~~~~ 190 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLS-RYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFPR-EAMH 190 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHH-HHHHhcCCCeEEEEECcHHHHHHHHHHHHHhccccc-ccee
Confidence 47999999999999999999999999999999875433 222333445999999999999999999998753211 1223
Q ss_pred EEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcc
Q 002135 334 GVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA 413 (961)
Q Consensus 334 ~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~ 413 (961)
.+++|.... ..++|+|+||+++.... ...+.++ ++||+||||++.+
T Consensus 191 ~i~~g~~~~-------~~~~I~VaT~qsl~~~~-------~~~~~~~-------------------~~iIvDEaH~~~~- 236 (501)
T PHA02558 191 KIYSGTAKD-------TDAPIVVSTWQSAVKQP-------KEWFDQF-------------------GMVIVDECHLFTG- 236 (501)
T ss_pred EEecCcccC-------CCCCEEEeeHHHHhhch-------hhhcccc-------------------CEEEEEchhcccc-
Confidence 455554321 35799999999985421 2234555 9999999999864
Q ss_pred cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHH---HHHcccCCeEEEec-----CCCccceeEEEEeCCCcc
Q 002135 414 FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHC---MELANLSTLELIQN-----DGSPCAQKLFVLWNPTSC 485 (961)
Q Consensus 414 fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~---~~L~~~~~~~~i~~-----~g~p~~~~~~~l~~p~~~ 485 (961)
..+..++..+ ....+++++|||+.+..... ..++|.. ...+.. .|.....+...+......
T Consensus 237 --~~~~~il~~~--------~~~~~~lGLTATp~~~~~~~~~~~~~fG~i-~~~v~~~~li~~g~l~~~~~~~v~~~~~~ 305 (501)
T PHA02558 237 --KSLTSIITKL--------DNCKFKFGLTGSLRDGKANILQYVGLFGDI-FKPVTTSQLMEEGQVTDLKINSIFLRYPD 305 (501)
T ss_pred --hhHHHHHHhh--------hccceEEEEeccCCCccccHHHHHHhhCCc-eEEecHHHHHhCCCcCCceEEEEeccCCH
Confidence 3444444433 12457899999997644322 2233321 111111 111111111111100000
Q ss_pred ccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcC
Q 002135 486 LRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRA 565 (961)
Q Consensus 486 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hg 565 (961)
...........................+..++..+...+.+++|||++.++++.+++.|++ .+..+..+||
T Consensus 306 -~~~~~~~~~~~~~~~~~l~~~~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~--------~g~~v~~i~G 376 (501)
T PHA02558 306 -EDRVKLKGEDYQEEIKYITSHTKRNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKK--------VYDKVYYVSG 376 (501)
T ss_pred -HHhhhhcccchHHHHHHHhccHHHHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHH--------cCCCEEEEeC
Confidence 0000000000000000111122233344555555666778999999999999999988876 3457899999
Q ss_pred CCCHHHHHHHHHHHhCCCceEEEec-cccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEe
Q 002135 566 GYVAEDRRRIERDFFGGKLCGVAAT-NALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 566 gls~~eR~~ie~~f~~G~~~vLVAT-~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
++++++|+.+++.|++|+..+|||| +.+++|+|+|++++||++.+|.|...|+||+||++|.+.....++++
T Consensus 377 ~~~~~eR~~i~~~~~~~~~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR~~R~~~~K~~~~i~ 449 (501)
T PHA02558 377 EVDTEDRNEMKKIAEGGKGIIIVASYGVFSTGISIKNLHHVIFAHPSKSKIIVLQSIGRVLRKHGSKSIATVW 449 (501)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEEcceeccccccccccEEEEecCCcchhhhhhhhhccccCCCCCceEEEE
Confidence 9999999999999999999999998 89999999999999999999999999999999999996554333334
No 68
>PRK14701 reverse gyrase; Provisional
Probab=100.00 E-value=1.9e-31 Score=343.07 Aligned_cols=320 Identities=16% Similarity=0.175 Sum_probs=224.0
Q ss_pred HHHHHHHHh-CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHH
Q 002135 242 DNTKSALKS-TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRAL 320 (961)
Q Consensus 242 ~~l~~~L~~-~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l 320 (961)
.++.+.+++ .|| +|+++|.++++.+++|+|++++||||||||++++++++.... .+.++|||+||++|+.|+.+.+
T Consensus 66 ~~~~~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~--~g~~aLVl~PTreLa~Qi~~~l 142 (1638)
T PRK14701 66 EEFEEFFEKITGF-EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLAL--KGKKCYIILPTTLLVKQTVEKI 142 (1638)
T ss_pred HHHHHHHHHhhCC-CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHh--cCCeEEEEECHHHHHHHHHHHH
Confidence 344556665 899 699999999999999999999999999999977777665432 3678999999999999999999
Q ss_pred HHhHhhCCCCccEEEEcCCCcHHHHH----HHhc-CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhh
Q 002135 321 LAMTKAFDASIDIGVYDGDTTQKDRM----WLRD-NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLI 395 (961)
Q Consensus 321 ~~l~~~~~~~i~v~~~~Gd~~~~~r~----~l~~-~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~ 395 (961)
+.++..++.++.+..++|+.+..++. .+.. .++|+|+||++|...+. .. ...++
T Consensus 143 ~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~----~l--~~~~i--------------- 201 (1638)
T PRK14701 143 ESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFP----EM--KHLKF--------------- 201 (1638)
T ss_pred HHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHH----HH--hhCCC---------------
Confidence 99988776667888888887766543 2344 48999999998864321 10 01233
Q ss_pred hcceeEEEEecchhhhc------------ccchHHHH----HHH---------------HHHHHhhcccCCCCc-EEEec
Q 002135 396 FLFIRFVVIDEAHAYKG------------AFGCHTAL----ILR---------------RLCRLCSHVYGSDPS-FVFST 443 (961)
Q Consensus 396 ~~~i~~VVIDEaH~~~~------------~fg~~~~~----ilr---------------rL~~~~~~~~~~~~q-~I~lS 443 (961)
+++||||||+++. +|..++.. +++ .++.....+ ...+| .+.+|
T Consensus 202 ----~~iVVDEAD~ml~~~knid~~L~llGF~~e~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~ll~~S 276 (1638)
T PRK14701 202 ----DFIFVDDVDAFLKASKNIDRSLQLLGFYEEIIEKAWKIIYLKKQGNIEDAMEKREILNKEIEKI-GNKIGCLIVAS 276 (1638)
T ss_pred ----CEEEEECceeccccccccchhhhcCCChHHHHHHHHHhhhcccccccchhhhhhhhhhhhhhhc-CCCccEEEEEe
Confidence 9999999999974 46666543 221 122222121 23344 67789
Q ss_pred cCCCChHHHHHHHcccCCeEEEecCCCccc---eeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHH
Q 002135 444 ATSANPREHCMELANLSTLELIQNDGSPCA---QKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAE 520 (961)
Q Consensus 444 ATl~n~~e~~~~L~~~~~~~~i~~~g~p~~---~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~ 520 (961)
||.+.-.+ ...++.. ...+........ ....++. ........+..++..
T Consensus 277 AT~~~r~~-~~~l~~~--~l~f~v~~~~~~lr~i~~~yi~-------------------------~~~~~k~~L~~ll~~ 328 (1638)
T PRK14701 277 ATGKAKGD-RVKLYRE--LLGFEVGSGRSALRNIVDVYLN-------------------------PEKIIKEHVRELLKK 328 (1638)
T ss_pred cCCCchhH-HHHHhhc--CeEEEecCCCCCCCCcEEEEEE-------------------------CCHHHHHHHHHHHHh
Confidence 99864222 2333321 111222111100 0000000 001111233344433
Q ss_pred HHHCCCcEEEEecChHHH---HHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEec----ccc
Q 002135 521 MVQHGLRCIAFCRSRKLC---ELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAAT----NAL 593 (961)
Q Consensus 521 l~~~g~k~IVF~~sr~~a---e~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT----~aL 593 (961)
.+.++||||+|++.+ +.+++.|++ .+.++..+||+ |..++++|++|+++||||| +++
T Consensus 329 ---~g~~gIVF~~t~~~~e~ae~la~~L~~--------~Gi~a~~~h~~-----R~~~l~~F~~G~~~VLVaT~s~~gva 392 (1638)
T PRK14701 329 ---LGKGGLIFVPIDEGAEKAEEIEKYLLE--------DGFKIELVSAK-----NKKGFDLFEEGEIDYLIGVATYYGTL 392 (1638)
T ss_pred ---CCCCeEEEEeccccchHHHHHHHHHHH--------CCCeEEEecch-----HHHHHHHHHcCCCCEEEEecCCCCee
Confidence 356899999998864 788887765 45678899995 8899999999999999999 589
Q ss_pred ccccccCC-ccEEEEeCCCC---CHhhHHHHh-------------ccCCCCCCCceEE
Q 002135 594 ELGIDVGH-IDVTLHLGFPG---SIASLWQQA-------------GRSGRRERPSLAV 634 (961)
Q Consensus 594 e~GIDIp~-vd~VI~~~~P~---s~~sy~QR~-------------GRAGR~g~~g~~i 634 (961)
+||||+|+ |++|||+|+|. |+..|.|.. |||||.|.++.++
T Consensus 393 aRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~~~~~ 450 (1638)
T PRK14701 393 VRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIPIEGV 450 (1638)
T ss_pred EecCccCCccCEEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCcchhH
Confidence 99999999 99999999999 888887776 9999999876664
No 69
>PRK13766 Hef nuclease; Provisional
Probab=100.00 E-value=7e-31 Score=328.00 Aligned_cols=351 Identities=19% Similarity=0.256 Sum_probs=239.5
Q ss_pred CCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccE
Q 002135 254 SKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDI 333 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v 333 (961)
-+++++|.+++..++.+ |+++++|||+|||+++.+++...+ ..++.++|||+||++|+.|+.+.++++.... ...+
T Consensus 14 ~~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l-~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~--~~~v 89 (773)
T PRK13766 14 IEARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERL-HKKGGKVLILAPTKPLVEQHAEFFRKFLNIP--EEKI 89 (773)
T ss_pred CCccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHH-HhCCCeEEEEeCcHHHHHHHHHHHHHHhCCC--CceE
Confidence 47899999999998887 999999999999999999998877 4567899999999999999999998875421 2467
Q ss_pred EEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcc
Q 002135 334 GVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA 413 (961)
Q Consensus 334 ~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~ 413 (961)
..++|+....+|..+..+++|+|+||+.+...++.... .+.++ ++|||||||++.+.
T Consensus 90 ~~~~g~~~~~~r~~~~~~~~iiv~T~~~l~~~l~~~~~----~~~~~-------------------~liVvDEaH~~~~~ 146 (773)
T PRK13766 90 VVFTGEVSPEKRAELWEKAKVIVATPQVIENDLIAGRI----SLEDV-------------------SLLIFDEAHRAVGN 146 (773)
T ss_pred EEEeCCCCHHHHHHHHhCCCEEEECHHHHHHHHHcCCC----ChhhC-------------------cEEEEECCcccccc
Confidence 88899988888888888899999999998766542211 13333 99999999998764
Q ss_pred cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecC--CCc--------cceeEEEEeCCC
Q 002135 414 FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQND--GSP--------CAQKLFVLWNPT 483 (961)
Q Consensus 414 fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~--g~p--------~~~~~~~l~~p~ 483 (961)
. ....+++.++.. ...+.++++|||+....+.+..+........+... ..+ .......+.-|.
T Consensus 147 ~--~~~~i~~~~~~~-----~~~~~il~lTaTP~~~~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~l~~ 219 (773)
T PRK13766 147 Y--AYVYIAERYHED-----AKNPLVLGLTASPGSDEEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVELPE 219 (773)
T ss_pred c--cHHHHHHHHHhc-----CCCCEEEEEEcCCCCCHHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeCCcH
Confidence 3 233455544432 24578999999986555444443322111111111 000 000000000000
Q ss_pred ccc--------------------cccccccc-cccch-------------------------------------------
Q 002135 484 SCL--------------------RSVLNKSQ-TDMDD------------------------------------------- 499 (961)
Q Consensus 484 ~~~--------------------~~~~~~~~-~~~~~------------------------------------------- 499 (961)
... ........ ....+
T Consensus 220 ~~~~i~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~ 299 (773)
T PRK13766 220 ELKEIRDLLNEALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDDSEGYEAISILAEAMKLRHAVELLETQG 299 (773)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 000 00000000 00000
Q ss_pred --------------------------------------hhhcccCCCCcHHHHHHHHHHHH--HCCCcEEEEecChHHHH
Q 002135 500 --------------------------------------TRNAANKTSSPISEVSYLFAEMV--QHGLRCIAFCRSRKLCE 539 (961)
Q Consensus 500 --------------------------------------~~~~~~~~~~~~~~~~~ll~~l~--~~g~k~IVF~~sr~~ae 539 (961)
..........+...+..++.+.. ..+.++||||++++.|+
T Consensus 300 ~~~~~~y~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~ 379 (773)
T PRK13766 300 VEALRRYLERLREEARSSGGSKASKRLVEDPRFRKAVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAE 379 (773)
T ss_pred HHHHHHHHHHHHhhccccCCcHHHHHHHhCHHHHHHHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHH
Confidence 00000111233444455555544 35679999999999999
Q ss_pred HHHHHHHHHHHhhCCcccccEEEEcC--------CCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCC
Q 002135 540 LVLSYTREILEETAPHLVDSICVYRA--------GYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFP 611 (961)
Q Consensus 540 ~l~~~L~~~l~~~~~~l~~~v~~~hg--------gls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P 611 (961)
.+.+.|.. .+..+..+|| |+++.+|.+++++|++|+.++||||+++++|+|+|++++||+||+|
T Consensus 380 ~L~~~L~~--------~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g~~~vLvaT~~~~eGldi~~~~~VI~yd~~ 451 (773)
T PRK13766 380 KIVDLLEK--------EGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPV 451 (773)
T ss_pred HHHHHHHh--------CCCceEEEEccccccccCCCCHHHHHHHHHHHHcCCCCEEEECChhhcCCCcccCCEEEEeCCC
Confidence 99988854 2334555655 4999999999999999999999999999999999999999999999
Q ss_pred CCHhhHHHHhccCCCCCCCceEEEEeeCCcc-hhHHH
Q 002135 612 GSIASLWQQAGRSGRRERPSLAVYVAFEGPL-DQYFM 647 (961)
Q Consensus 612 ~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~-d~~~~ 647 (961)
++...|+||+||+||.|. |.+++++..+.. +++|.
T Consensus 452 ~s~~r~iQR~GR~gR~~~-~~v~~l~~~~t~ee~~y~ 487 (773)
T PRK13766 452 PSEIRSIQRKGRTGRQEE-GRVVVLIAKGTRDEAYYW 487 (773)
T ss_pred CCHHHHHHHhcccCcCCC-CEEEEEEeCCChHHHHHH
Confidence 999999999999999854 777766655544 44554
No 70
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=100.00 E-value=2.1e-31 Score=311.12 Aligned_cols=351 Identities=19% Similarity=0.285 Sum_probs=235.3
Q ss_pred CCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCcc
Q 002135 253 ISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASID 332 (961)
Q Consensus 253 ~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~ 332 (961)
.-.++.+|.+.+..++ |+|+||++|||+|||.++..-+++++...+++++++++|++-|..||...+..++... -.
T Consensus 60 ~~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~~---~~ 135 (746)
T KOG0354|consen 60 NLELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIPY---SV 135 (746)
T ss_pred cccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCcc---cc
Confidence 3479999999999999 9999999999999999999999999999999999999999999999997777765431 22
Q ss_pred EEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc
Q 002135 333 IGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG 412 (961)
Q Consensus 333 v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~ 412 (961)
.+..+|..+...+..+....+|+|+||+.|...|...... .|+.+ .++||||||+-.+
T Consensus 136 T~~l~~~~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~---~ls~f-------------------s~iv~DE~Hra~k 193 (746)
T KOG0354|consen 136 TGQLGDTVPRSNRGEIVASKRVFFRTPQILENDLKSGLHD---ELSDF-------------------SLIVFDECHRTSK 193 (746)
T ss_pred eeeccCccCCCchhhhhcccceEEeChHhhhhhccccccc---ccceE-------------------EEEEEcccccccc
Confidence 3444555777777788888999999999998876432111 14444 9999999999876
Q ss_pred ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHc-ccC---CeE----------------EEecCCC--
Q 002135 413 AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELA-NLS---TLE----------------LIQNDGS-- 470 (961)
Q Consensus 413 ~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~-~~~---~~~----------------~i~~~g~-- 470 (961)
...+..+++.+...-. ...|+|++|||+++-.+.+.... ++. ++. .+..+-+
T Consensus 194 --n~~Y~~Vmr~~l~~k~----~~~qILgLTASpG~~~~~v~~~I~~L~asldvr~~ssi~~~y~~lr~~~~i~v~~~~~ 267 (746)
T KOG0354|consen 194 --NHPYNNIMREYLDLKN----QGNQILGLTASPGSKLEQVQNVIDNLCASLDVRTESSIKSNYEELREHVQIPVDLSLC 267 (746)
T ss_pred --cccHHHHHHHHHHhhh----ccccEEEEecCCCccHHHHHHHHHhhheecccchhhhhhhhHHHHhccCcccCcHHHh
Confidence 3456677776665532 23499999999987654443321 110 000 0000000
Q ss_pred ------cc-------------------c-ee-EEEEeC----CCcccccccccc--cc------------ccchhh----
Q 002135 471 ------PC-------------------A-QK-LFVLWN----PTSCLRSVLNKS--QT------------DMDDTR---- 501 (961)
Q Consensus 471 ------p~-------------------~-~~-~~~l~~----p~~~~~~~~~~~--~~------------~~~~~~---- 501 (961)
+. . .. ....|. +........... +. ..+..+
T Consensus 268 ~~~~~~~f~~~i~p~l~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~gir~~~~ 347 (746)
T KOG0354|consen 268 ERDIEDPFGMIIEPLLQQLQEEGLIEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDGIRFVDA 347 (746)
T ss_pred hhhhhhhHHHHHHHHHHHHHhcCccccccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhcchhhHHH
Confidence 00 0 00 000000 000000000000 00 000000
Q ss_pred ------------------------------------hc----ccCCCCcHHHHHHHHHHHHH--CCCcEEEEecChHHHH
Q 002135 502 ------------------------------------NA----ANKTSSPISEVSYLFAEMVQ--HGLRCIAFCRSRKLCE 539 (961)
Q Consensus 502 ------------------------------------~~----~~~~~~~~~~~~~ll~~l~~--~g~k~IVF~~sr~~ae 539 (961)
.. ......+...+...+.+..+ ...++||||.+|..|+
T Consensus 348 l~~~~~f~~e~~~~k~~~~~~e~~~~~~~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~ 427 (746)
T KOG0354|consen 348 LDYLEDFYEEVALKKYLKLELEARLIRNFTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESAL 427 (746)
T ss_pred HhhhhhhccccchhHHHHHHhcchhhHHHHHHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHH
Confidence 00 00112233333443333322 2469999999999999
Q ss_pred HHHHHHHHHHHhh--CCc--ccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHh
Q 002135 540 LVLSYTREILEET--APH--LVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIA 615 (961)
Q Consensus 540 ~l~~~L~~~l~~~--~~~--l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~ 615 (961)
.|.++|.+ +... .+. .+..-...-.||++.++.++++.|++|++++||||++.|+|+|||.|++||.||.-.|..
T Consensus 428 ~l~~~l~~-~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~~NvLVATSV~EEGLDI~ec~lVIcYd~~snpI 506 (746)
T KOG0354|consen 428 ALKKWLLQ-LHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECNLVICYDYSSNPI 506 (746)
T ss_pred HHHHHHHh-hhhcccccceeeeccccccccccCHHHHHHHHHHHhCCCccEEEEecchhccCCcccccEEEEecCCccHH
Confidence 99998875 2221 111 111111223689999999999999999999999999999999999999999999999999
Q ss_pred hHHHHhccCCCCCCCceEEEEee
Q 002135 616 SLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 616 sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
..+||.|| ||+ +.|.+++++.
T Consensus 507 rmIQrrGR-gRa-~ns~~vll~t 527 (746)
T KOG0354|consen 507 RMVQRRGR-GRA-RNSKCVLLTT 527 (746)
T ss_pred HHHHHhcc-ccc-cCCeEEEEEc
Confidence 99999999 999 7788888876
No 71
>PRK09401 reverse gyrase; Reviewed
Probab=99.97 E-value=2.6e-30 Score=326.59 Aligned_cols=311 Identities=19% Similarity=0.187 Sum_probs=209.3
Q ss_pred HHHHHHh-CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 244 TKSALKS-TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 244 l~~~L~~-~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
+.+.+++ .|+ +|+++|.++++.++.|+|++++||||||||+ |.+|+...+.. .+.++|||+||++|+.|+.+.+++
T Consensus 69 ~~~~f~~~~G~-~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~-f~l~~~~~l~~-~g~~alIL~PTreLa~Qi~~~l~~ 145 (1176)
T PRK09401 69 FEKFFKKKTGS-KPWSLQRTWAKRLLLGESFAIIAPTGVGKTT-FGLVMSLYLAK-KGKKSYIIFPTRLLVEQVVEKLEK 145 (1176)
T ss_pred HHHHHHHhcCC-CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHH-HHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHHHH
Confidence 3345543 577 8999999999999999999999999999996 55666555543 478999999999999999999999
Q ss_pred hHhhCCCCccEEEEcCCCcHHHH----HHHh-cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhc
Q 002135 323 MTKAFDASIDIGVYDGDTTQKDR----MWLR-DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFL 397 (961)
Q Consensus 323 l~~~~~~~i~v~~~~Gd~~~~~r----~~l~-~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~ 397 (961)
++...+..+.+...+|..+..++ ..+. ..++|+|+||++|.+.+ . .+.. .
T Consensus 146 l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~-------~-~l~~-----------------~ 200 (1176)
T PRK09401 146 FGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNF-------D-ELPK-----------------K 200 (1176)
T ss_pred HhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHH-------H-hccc-----------------c
Confidence 98866543333333444333332 2334 35899999999987543 1 1111 1
Q ss_pred ceeEEEEecchhhhc------------ccc-hHHHHHHHHHHH-------------Hhhc---ccCCCCcEEEeccCCCC
Q 002135 398 FIRFVVIDEAHAYKG------------AFG-CHTALILRRLCR-------------LCSH---VYGSDPSFVFSTATSAN 448 (961)
Q Consensus 398 ~i~~VVIDEaH~~~~------------~fg-~~~~~ilrrL~~-------------~~~~---~~~~~~q~I~lSATl~n 448 (961)
.++++||||||++.. +|. .++..++..++. +... .-+...|++++|||.+.
T Consensus 201 ~~~~lVvDEaD~~L~~~k~id~~l~~lGF~~~~i~~i~~~i~~~~~~~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~ 280 (1176)
T PRK09401 201 KFDFVFVDDVDAVLKSSKNIDKLLYLLGFSEEDIEKAMELIRLKRKYEEIYEKIRELEEKIAELKDKKGVLVVSSATGRP 280 (1176)
T ss_pred ccCEEEEEChHHhhhcccchhhHHHhCCCCHHHHHHHHHhcccccccchhhhHHHHHHHhhhhcccCCceEEEEeCCCCc
Confidence 239999999999874 343 345555544321 1110 11125789999999853
Q ss_pred h-H--HHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCC
Q 002135 449 P-R--EHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHG 525 (961)
Q Consensus 449 ~-~--e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g 525 (961)
. . ..+..+.+ +.+-............+. ...++...+..++.. .+
T Consensus 281 ~~~~~~l~~~ll~---~~v~~~~~~~rnI~~~yi--------------------------~~~~k~~~L~~ll~~---l~ 328 (1176)
T PRK09401 281 RGNRVKLFRELLG---FEVGSPVFYLRNIVDSYI--------------------------VDEDSVEKLVELVKR---LG 328 (1176)
T ss_pred cchHHHHhhccce---EEecCcccccCCceEEEE--------------------------EcccHHHHHHHHHHh---cC
Confidence 2 1 11222221 111000000000010000 011233334444433 35
Q ss_pred CcEEEEecChHH---HHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEe----ccccccccc
Q 002135 526 LRCIAFCRSRKL---CELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAA----TNALELGID 598 (961)
Q Consensus 526 ~k~IVF~~sr~~---ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVA----T~aLe~GID 598 (961)
.++||||++++. |+.+++.|+. .+.++..+||++ ++ .+++|++|++++||| |++++||||
T Consensus 329 ~~~LIFv~t~~~~~~ae~l~~~L~~--------~gi~v~~~hg~l----~~-~l~~F~~G~~~VLVatas~tdv~aRGID 395 (1176)
T PRK09401 329 DGGLIFVPSDKGKEYAEELAEYLED--------LGINAELAISGF----ER-KFEKFEEGEVDVLVGVASYYGVLVRGID 395 (1176)
T ss_pred CCEEEEEecccChHHHHHHHHHHHH--------CCCcEEEEeCcH----HH-HHHHHHCCCCCEEEEecCCCCceeecCC
Confidence 689999999888 9999888876 456789999999 22 359999999999999 689999999
Q ss_pred cCC-ccEEEEeCCCC------CHhhHHHHhccCCCC
Q 002135 599 VGH-IDVTLHLGFPG------SIASLWQQAGRSGRR 627 (961)
Q Consensus 599 Ip~-vd~VI~~~~P~------s~~sy~QR~GRAGR~ 627 (961)
+|+ |++|||||+|. ....|.||+||+-..
T Consensus 396 iP~~IryVI~y~vP~~~~~~~~~~~~~~~~~r~~~~ 431 (1176)
T PRK09401 396 LPERIRYAIFYGVPKFKFSLEEELAPPFLLLRLLSL 431 (1176)
T ss_pred CCcceeEEEEeCCCCEEEeccccccCHHHHHHHHhh
Confidence 999 89999999998 668899999999643
No 72
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.97 E-value=5.9e-30 Score=307.92 Aligned_cols=328 Identities=16% Similarity=0.162 Sum_probs=227.9
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
.+|. .||++|..++..+++|+ |+.+.||+|||++|.+|++..... +..+++++||++||.|.++.+..+...++
T Consensus 74 ~~g~-~p~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~--G~~v~VvTpt~~LA~qd~e~~~~l~~~lG- 147 (790)
T PRK09200 74 VLGM-RPYDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNALE--GKGVHLITVNDYLAKRDAEEMGQVYEFLG- 147 (790)
T ss_pred HhCC-CCchHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHHc--CCCeEEEeCCHHHHHHHHHHHHHHHhhcC-
Confidence 3687 79999999999988887 999999999999999999866554 67899999999999999999999998776
Q ss_pred CccEEEEcCCCc-HHHHHHHhcCCcEEEeChhHH-HHhhcCCC--chhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEe
Q 002135 330 SIDIGVYDGDTT-QKDRMWLRDNARLLITNPDML-HMSILPYH--GQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVID 405 (961)
Q Consensus 330 ~i~v~~~~Gd~~-~~~r~~l~~~~~IlItTPe~L-~~~lL~~~--~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVID 405 (961)
+++++..|+.+ ..+++.. ..++|+++||+.| .+.|..+. ......+.. +.++|||
T Consensus 148 -l~v~~i~g~~~~~~~r~~~-y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~-------------------~~~~IvD 206 (790)
T PRK09200 148 -LTVGLNFSDIDDASEKKAI-YEADIIYTTNSELGFDYLRDNLADSKEDKVQRP-------------------LNYAIID 206 (790)
T ss_pred -CeEEEEeCCCCcHHHHHHh-cCCCEEEECCccccchhHHhccccchhhhcccc-------------------cceEEEe
Confidence 88888888887 6666544 4699999999888 23322111 111122333 4999999
Q ss_pred cchhhhcc--------cc-----hHHH----HHHH---------------------------------------------
Q 002135 406 EAHAYKGA--------FG-----CHTA----LILR--------------------------------------------- 423 (961)
Q Consensus 406 EaH~~~~~--------fg-----~~~~----~ilr--------------------------------------------- 423 (961)
|||.++=+ .| ..+. .+.+
T Consensus 207 EaDsiLiDea~tpliisg~~~~~~~~y~~~~~~~~~l~~~~dy~~d~~~~~~~lt~~g~~~~e~~~~i~~l~~~~~~~~~ 286 (790)
T PRK09200 207 EIDSILLDEAQTPLIISGKPRVQSNLYHIAAKFVKTLEEDVDYEFDEEKKEVWLTDQGIEKAESYFGIDNLYSLEHQVLY 286 (790)
T ss_pred ccccceeccCCCceeeeCCCccccHHHHHHHHHHHhcccCCCeEEecCCCeEEecHhHHHHHHHhcCCccccChhhhHHH
Confidence 99986410 01 0100 0000
Q ss_pred -HHHHHhh-c-cc-------------------------C------------------------------------CCCcE
Q 002135 424 -RLCRLCS-H-VY-------------------------G------------------------------------SDPSF 439 (961)
Q Consensus 424 -rL~~~~~-~-~~-------------------------~------------------------------------~~~q~ 439 (961)
.+..... + ++ + .-..+
T Consensus 287 ~~i~~Al~A~~~~~~d~dYiV~~~~v~ivD~~TGr~~~gr~~s~GlhQaieaKe~v~i~~e~~t~a~It~q~~fr~Y~kl 366 (790)
T PRK09200 287 RHIILALRAHVLFKRDVDYIVYDGEIVLVDRFTGRVLPGRKLQDGLHQAIEAKEGVEITEENRTMASITIQNLFRMFPKL 366 (790)
T ss_pred HHHHHHHHHHHHhhcCCcEEEECCEEEEEECCCCcCCCCCccChHHHHHHHHhcCCCcCCCceehhhhhHHHHHHHhHHH
Confidence 0000000 0 00 0 00234
Q ss_pred EEeccCCCChHHHHHHHcccCCeEEEecC-CCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHH
Q 002135 440 VFSTATSANPREHCMELANLSTLELIQND-GSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLF 518 (961)
Q Consensus 440 I~lSATl~n~~e~~~~L~~~~~~~~i~~~-g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll 518 (961)
.+||.|.....+.+..+.+. .++... ..|.-. ...|.. .......+...+...+
T Consensus 367 ~GmTGTa~t~~~e~~~~Y~l---~v~~IPt~kp~~r----~d~~~~------------------i~~~~~~K~~al~~~i 421 (790)
T PRK09200 367 SGMTGTAKTEEKEFFEVYNM---EVVQIPTNRPIIR----IDYPDK------------------VFVTLDEKYKAVIEEV 421 (790)
T ss_pred hccCCCChHHHHHHHHHhCC---cEEECCCCCCccc----ccCCCe------------------EEcCHHHHHHHHHHHH
Confidence 56666665444444444443 222211 111100 000110 1122234445555555
Q ss_pred HHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccc
Q 002135 519 AEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGID 598 (961)
Q Consensus 519 ~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GID 598 (961)
......+.++||||+|++.++.++..|.+ .+..+..+||.+.+.+++.+..+++.| +|+|||++++||+|
T Consensus 422 ~~~~~~~~pvLIf~~t~~~se~l~~~L~~--------~gi~~~~L~~~~~~~e~~~i~~ag~~g--~VlIATdmAgRG~D 491 (790)
T PRK09200 422 KERHETGRPVLIGTGSIEQSETFSKLLDE--------AGIPHNLLNAKNAAKEAQIIAEAGQKG--AVTVATNMAGRGTD 491 (790)
T ss_pred HHHHhcCCCEEEEeCcHHHHHHHHHHHHH--------CCCCEEEecCCccHHHHHHHHHcCCCC--eEEEEccchhcCcC
Confidence 55555788999999999999999998876 355788999999999988888887776 79999999999999
Q ss_pred c---CCcc-----EEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeC
Q 002135 599 V---GHID-----VTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 599 I---p~vd-----~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
| ++|. +||++++|.|...|.||+|||||.|.+|.+++++..
T Consensus 492 I~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~GRtGR~G~~G~s~~~is~ 540 (790)
T PRK09200 492 IKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQGDPGSSQFFISL 540 (790)
T ss_pred CCcccccccccCcEEEeccCCCCHHHHHHhhccccCCCCCeeEEEEEcc
Confidence 9 6998 999999999999999999999999999999877643
No 73
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.97 E-value=7.7e-30 Score=300.98 Aligned_cols=344 Identities=18% Similarity=0.136 Sum_probs=224.3
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
..|. .||++|..+++.++.|+ |+.+.||+|||++|.+|++..... +..+++++||++||+|.++.+..+...++
T Consensus 99 ~lg~-~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~--G~~v~VvTptreLA~qdae~~~~l~~~lG- 172 (656)
T PRK12898 99 VLGQ-RHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALA--GLPVHVITVNDYLAERDAELMRPLYEALG- 172 (656)
T ss_pred HhCC-CCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhc--CCeEEEEcCcHHHHHHHHHHHHHHHhhcC-
Confidence 3677 79999999999999999 999999999999999999987664 67899999999999999999999988765
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCch-------hHHHhhhhhhhhhhcchhhhhhhhcceeEE
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQ-------FSRILSNLRLIAFSLVTTEVYLIFLFIRFV 402 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~-------~~~~L~~l~~~~~~~~~~~~~~~~~~i~~V 402 (961)
++++++.|+.+..+++ ...+++|+++|...|--..|..+-. .+..+..+. ............++.+.
T Consensus 173 -lsv~~i~gg~~~~~r~-~~y~~dIvygT~~e~~FDyLrd~~~~~~~~~~~~~~~~~l~----~~~~~~~~~v~r~~~~a 246 (656)
T PRK12898 173 -LTVGCVVEDQSPDERR-AAYGADITYCTNKELVFDYLRDRLALGQRASDARLALESLH----GRSSRSTQLLLRGLHFA 246 (656)
T ss_pred -CEEEEEeCCCCHHHHH-HHcCCCEEEECCCchhhhhccccccccccccchhhhhhhhc----cccCchhhhccccccee
Confidence 7788777776655543 4457999999998773222222111 111111110 00001111223456899
Q ss_pred EEecchhhh-----------cc-cchHHHHHHHHHHHHhhccc-------CCC---------------------------
Q 002135 403 VIDEAHAYK-----------GA-FGCHTALILRRLCRLCSHVY-------GSD--------------------------- 436 (961)
Q Consensus 403 VIDEaH~~~-----------~~-fg~~~~~ilrrL~~~~~~~~-------~~~--------------------------- 436 (961)
||||+|.++ +. -......++.....++..+. ..+
T Consensus 247 IvDEvDSiLiDeartpliis~~~~~~~~~~~y~~~~~~~~~l~~~~~y~~d~~~~~v~lt~~g~~~~e~~~~~l~~~~~~ 326 (656)
T PRK12898 247 IVDEADSVLIDEARTPLIISAPAKEADEAEVYRQALELAAQLKEGEDYTIDAAEKRIELTEAGRARIAELAESLPPAWRG 326 (656)
T ss_pred EeecccceeeccCCCceEEECCCCCCchhHHHHHHHHHHHhcCCCCceEEECCCCeEEEcHHHHHHHHHHhCcchhhccc
Confidence 999999753 11 01100111111111111000 000
Q ss_pred --------------------------------------------------------------------------------
Q 002135 437 -------------------------------------------------------------------------------- 436 (961)
Q Consensus 437 -------------------------------------------------------------------------------- 436 (961)
T Consensus 327 ~~~~~~~i~~Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~w~~GLhQaieaKE~v~i~~e~~t~a~It~q~~Fr 406 (656)
T PRK12898 327 AVRREELVRQALSALHLFRRDEHYIVRDGKVVIVDEFTGRVMPDRSWEDGLHQMIEAKEGCELTDPRETLARITYQRFFR 406 (656)
T ss_pred chHHHHHHHHHHHHHHHHhcCCceEEECCeEEEEECCCCeECCCCCcChHHHHHHHHhcCCCCCcCceeeeeehHHHHHH
Confidence
Q ss_pred --CcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHH
Q 002135 437 --PSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEV 514 (961)
Q Consensus 437 --~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 (961)
.++-+||||.+...+.+....+.. +..|... .|...+ ..| .........+...+
T Consensus 407 ~Y~kl~GmTGTa~~~~~El~~~y~l~-vv~IPt~-kp~~r~----~~~------------------~~v~~t~~~K~~aL 462 (656)
T PRK12898 407 RYLRLAGMTGTAREVAGELWSVYGLP-VVRIPTN-RPSQRR----HLP------------------DEVFLTAAAKWAAV 462 (656)
T ss_pred hhHHHhcccCcChHHHHHHHHHHCCC-eEEeCCC-CCccce----ecC------------------CEEEeCHHHHHHHH
Confidence 233455666554443344444432 1111111 111000 000 00111223344555
Q ss_pred HHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccc
Q 002135 515 SYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALE 594 (961)
Q Consensus 515 ~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe 594 (961)
..++..+...+.++||||+|++.++.++..|++ .+..+..+||.+. +|++....++.+...|+||||+++
T Consensus 463 ~~~i~~~~~~~~pvLIft~t~~~se~L~~~L~~--------~gi~~~~Lhg~~~--~rE~~ii~~ag~~g~VlVATdmAg 532 (656)
T PRK12898 463 AARVRELHAQGRPVLVGTRSVAASERLSALLRE--------AGLPHQVLNAKQD--AEEAAIVARAGQRGRITVATNMAG 532 (656)
T ss_pred HHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHH--------CCCCEEEeeCCcH--HHHHHHHHHcCCCCcEEEEccchh
Confidence 566655555678999999999999999998876 4557889999865 455555556666668999999999
Q ss_pred cccccC---Ccc-----EEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeC
Q 002135 595 LGIDVG---HID-----VTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 595 ~GIDIp---~vd-----~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
||+||+ +|. +||++++|.|...|.||+||+||.|.+|.+++++..
T Consensus 533 RGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~s~~~is~ 585 (656)
T PRK12898 533 RGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDPGSYEAILSL 585 (656)
T ss_pred cccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCCeEEEEEech
Confidence 999999 666 999999999999999999999999999999877753
No 74
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.97 E-value=4.2e-30 Score=319.73 Aligned_cols=374 Identities=20% Similarity=0.203 Sum_probs=228.0
Q ss_pred cHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHH-HhcCCCCeEEEEccc----HHHHHHHHHHHHHhHhhCCCCc
Q 002135 257 YSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEA-LSHDLSSSALYMFPT----KALAQDQLRALLAMTKAFDASI 331 (961)
Q Consensus 257 ~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~-l~~~~~~~aLvl~Pt----raLa~qq~~~l~~l~~~~~~~i 331 (961)
+.+-.+.++++.+++.+||+++||||||. ++|.+-. +.......+++.-|. ++||.++.+++... ++..+
T Consensus 76 ~~~r~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~~---lG~~V 150 (1294)
T PRK11131 76 SQKKQDILEAIRDHQVVIVAGETGSGKTT--QLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETE---LGGCV 150 (1294)
T ss_pred HHHHHHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhhh---hccee
Confidence 45566777777778889999999999999 6885433 222222345555685 46666666666531 12111
Q ss_pred cEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh-h
Q 002135 332 DIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA-Y 410 (961)
Q Consensus 332 ~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~-~ 410 (961)
...+-.. ....++++|+++||++|...+.. ...|+++ ++|||||||. .
T Consensus 151 GY~vrf~-------~~~s~~t~I~v~TpG~LL~~l~~-----d~~Ls~~-------------------~~IIIDEAHERs 199 (1294)
T PRK11131 151 GYKVRFN-------DQVSDNTMVKLMTDGILLAEIQQ-----DRLLMQY-------------------DTIIIDEAHERS 199 (1294)
T ss_pred ceeecCc-------cccCCCCCEEEEChHHHHHHHhc-----CCccccC-------------------cEEEecCccccc
Confidence 1111111 11245689999999999876631 2346666 9999999995 3
Q ss_pred hcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccc
Q 002135 411 KGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVL 490 (961)
Q Consensus 411 ~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~ 490 (961)
.+ ...++..+++++.. .++.|+|++|||+. +..+.+.+ +. ..++...|+..+....+. |....
T Consensus 200 Ln-----~DfLLg~Lk~lL~~--rpdlKvILmSATid-~e~fs~~F-~~--apvI~V~Gr~~pVei~y~--p~~~~---- 262 (1294)
T PRK11131 200 LN-----IDFILGYLKELLPR--RPDLKVIITSATID-PERFSRHF-NN--APIIEVSGRTYPVEVRYR--PIVEE---- 262 (1294)
T ss_pred cc-----cchHHHHHHHhhhc--CCCceEEEeeCCCC-HHHHHHHc-CC--CCEEEEcCccccceEEEe--ecccc----
Confidence 32 22233344444432 24679999999994 55444443 32 335666665544333222 21100
Q ss_pred cccccccchhhhcccCCCCcHHHHHHHHHHHH-HCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCH
Q 002135 491 NKSQTDMDDTRNAANKTSSPISEVSYLFAEMV-QHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVA 569 (961)
Q Consensus 491 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~-~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~ 569 (961)
. . ....+....+...+..+. ...+++|||++++.+++.+++.|++. . .....+..+||++++
T Consensus 263 -----~-~------~~~~d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~----~-~~~~~VlpLhg~Ls~ 325 (1294)
T PRK11131 263 -----A-D------DTERDQLQAIFDAVDELGREGPGDILIFMSGEREIRDTADALNKL----N-LRHTEILPLYARLSN 325 (1294)
T ss_pred -----c-c------hhhHHHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhc----C-CCcceEeecccCCCH
Confidence 0 0 000111222233333222 23468999999999999999888652 1 011247889999999
Q ss_pred HHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCC------------------CCCHhhHHHHhccCCCCCCCc
Q 002135 570 EDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGF------------------PGSIASLWQQAGRSGRRERPS 631 (961)
Q Consensus 570 ~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~------------------P~s~~sy~QR~GRAGR~g~~g 631 (961)
++|.++++. .|..+||||||++|+|||||+|++||++|. |.|.++|.||+|||||. ++|
T Consensus 326 ~eQ~~Vf~~--~g~rkIIVATNIAEtSITIpgI~yVID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~-~~G 402 (1294)
T PRK11131 326 SEQNRVFQS--HSGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV-SEG 402 (1294)
T ss_pred HHHHHHhcc--cCCeeEEEeccHHhhccccCcceEEEECCCccccccccccCcccCCeeecCHhhHhhhccccCCC-CCc
Confidence 999999886 588999999999999999999999999973 34778999999999999 789
Q ss_pred eEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCCHHHHHHHHHHCCccc
Q 002135 632 LAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSGLSSGITTLKNRGYLS 711 (961)
Q Consensus 632 ~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~~~~~l~~L~~~g~l~ 711 (961)
.|+.++.... +...++ +..+++ .-.|..-+.-++.+........+.+.+.+-.+.+.++++.|.+.|+|.
T Consensus 403 ~c~rLyte~d----~~~~~~-~~~PEI-----lR~~L~~viL~lk~lgl~di~~F~fldpP~~~~i~~al~~L~~LgAld 472 (1294)
T PRK11131 403 ICIRLYSEDD----FLSRPE-FTDPEI-----LRTNLASVILQMTALGLGDIAAFPFVEAPDKRNIQDGVRLLEELGAIT 472 (1294)
T ss_pred EEEEeCCHHH----HHhhhc-ccCCcc-----ccCCHHHHHHHHHHcCCCCcceeeCCCCCCHHHHHHHHHHHHHCCCCC
Confidence 9998875432 222221 111111 112222222233322222222222233333346888999999999997
Q ss_pred cC
Q 002135 712 SD 713 (961)
Q Consensus 712 ~~ 713 (961)
.+
T Consensus 473 ~~ 474 (1294)
T PRK11131 473 TD 474 (1294)
T ss_pred cc
Confidence 53
No 75
>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=99.97 E-value=1.5e-29 Score=301.58 Aligned_cols=327 Identities=16% Similarity=0.139 Sum_probs=209.4
Q ss_pred CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCC
Q 002135 251 TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDAS 330 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~ 330 (961)
+|. .|+++|..+...+..| .|+.++||+|||++|.+|++..... +..++|++|+++||.|+.+.+..+...++
T Consensus 67 lgl-rpydVQlig~l~l~~G--~Iaem~TGeGKTLta~Lpa~l~aL~--g~~V~VVTpn~yLA~Rdae~m~~l~~~LG-- 139 (762)
T TIGR03714 67 LGM-FPYDVQVLGAIVLHQG--NIAEMKTGEGKTLTATMPLYLNALT--GKGAMLVTTNDYLAKRDAEEMGPVYEWLG-- 139 (762)
T ss_pred cCC-CccHHHHHHHHHhcCC--ceeEecCCcchHHHHHHHHHHHhhc--CCceEEeCCCHHHHHHHHHHHHHHHhhcC--
Confidence 565 5566665555555555 7999999999999999998876654 45799999999999999999999988876
Q ss_pred ccEEEEcCC-----CcHHHHHHHhcCCcEEEeChhHHHHhhcCCC---chhHHHhhhhhhhhhhcchhhhhhhhcceeEE
Q 002135 331 IDIGVYDGD-----TTQKDRMWLRDNARLLITNPDMLHMSILPYH---GQFSRILSNLRLIAFSLVTTEVYLIFLFIRFV 402 (961)
Q Consensus 331 i~v~~~~Gd-----~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~---~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~V 402 (961)
+.+++..++ ....++ ....+++|+++||++|....|..+ ..+...+.++ .++
T Consensus 140 Lsv~~~~~~s~~~~~~~~~r-r~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l-------------------~~~ 199 (762)
T TIGR03714 140 LTVSLGVVDDPDEEYDANEK-RKIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPF-------------------NYV 199 (762)
T ss_pred CcEEEEECCCCccccCHHHH-HHhCCCCEEEECchhhhhhHHHHHhhcchhhcccccC-------------------cEE
Confidence 455554443 122233 333579999999999943322111 1122223334 999
Q ss_pred EEecchhhhcc--c------ch--HHHHHHHHHHHHhhcccC-------CC-----------------------------
Q 002135 403 VIDEAHAYKGA--F------GC--HTALILRRLCRLCSHVYG-------SD----------------------------- 436 (961)
Q Consensus 403 VIDEaH~~~~~--f------g~--~~~~ilrrL~~~~~~~~~-------~~----------------------------- 436 (961)
||||||.++-+ + |+ .-..+......++..+.. ..
T Consensus 200 IVDEaDsILiDeartpliisg~~~~~~~~y~~~~~~v~~l~~~~dy~~d~~~~~v~lt~~G~~~~e~~~~~~~l~~~~~~ 279 (762)
T TIGR03714 200 IVDEVDSVLLDSAQTPLVISGAPRVQSNLYHIADTFVRTLKEDVDYIFKKDKKEVWLTDKGIEKAEQYFKIDNLYSEEYF 279 (762)
T ss_pred EEecHhhHhhccCcCCeeeeCCCccchHHHHHHHHHHHhcCCCCCeEEEcCCCeeeecHhHHHHHHHHcCCCccCChhhH
Confidence 99999998421 0 10 000011111111110000 00
Q ss_pred --------------------------------------------------------------------------------
Q 002135 437 -------------------------------------------------------------------------------- 436 (961)
Q Consensus 437 -------------------------------------------------------------------------------- 436 (961)
T Consensus 280 ~~~~~i~~al~A~~~~~~d~dYiV~~~~v~ivD~~TGr~~~gr~~~~GLhQaieaKE~v~i~~e~~t~a~It~qn~Fr~Y 359 (762)
T TIGR03714 280 ELVRHINLALRAHYLFKRNKDYVVTNGEVVLLDRITGRLLEGTKLQSGIHQAIEAKEHVELSKETRAMASITYQNLFKMF 359 (762)
T ss_pred HHHHHHHHHHHHHHHHhcCCceEEECCEEEEEECCCCcCCCCCCcchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHhhC
Confidence
Q ss_pred CcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHH
Q 002135 437 PSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSY 516 (961)
Q Consensus 437 ~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 516 (961)
.++-+||.|.....+.+..+.+.. ++. -|+..... ..+...........+...+..
T Consensus 360 ~kl~GmTGTa~~~~~Ef~~iY~l~---v~~--------------IPt~kp~~-------r~d~~d~i~~~~~~K~~ai~~ 415 (762)
T TIGR03714 360 NKLSGMTGTGKVAEKEFIETYSLS---VVK--------------IPTNKPII-------RIDYPDKIYATLPEKLMATLE 415 (762)
T ss_pred chhcccCCCChhHHHHHHHHhCCC---EEE--------------cCCCCCee-------eeeCCCeEEECHHHHHHHHHH
Confidence 122333333322222222222211 111 11111000 000011112223345555666
Q ss_pred HHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccc
Q 002135 517 LFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELG 596 (961)
Q Consensus 517 ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~G 596 (961)
.+.+....+.++||||+|++.++.++..|.+ .+..+..+||.+.+.+|..+..+++.| .|+||||+++||
T Consensus 416 ~i~~~~~~~~pvLIft~s~~~se~ls~~L~~--------~gi~~~~L~a~~~~~E~~ii~~ag~~g--~VlIATdmAgRG 485 (762)
T TIGR03714 416 DVKEYHETGQPVLLITGSVEMSEIYSELLLR--------EGIPHNLLNAQNAAKEAQIIAEAGQKG--AVTVATSMAGRG 485 (762)
T ss_pred HHHHHhhCCCCEEEEECcHHHHHHHHHHHHH--------CCCCEEEecCCChHHHHHHHHHcCCCC--eEEEEccccccc
Confidence 6666666789999999999999999988866 345678899999999988887777777 799999999999
Q ss_pred cccC---------CccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeC
Q 002135 597 IDVG---------HIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 597 IDIp---------~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
+||+ ++.+|+++++|..... .||+|||||.|.+|.+++++..
T Consensus 486 tDI~l~~~v~~~GGL~vIit~~~ps~rid-~qr~GRtGRqG~~G~s~~~is~ 536 (762)
T TIGR03714 486 TDIKLGKGVAELGGLAVIGTERMENSRVD-LQLRGRSGRQGDPGSSQFFVSL 536 (762)
T ss_pred cCCCCCccccccCCeEEEEecCCCCcHHH-HHhhhcccCCCCceeEEEEEcc
Confidence 9999 9999999999998777 9999999999999999877643
No 76
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=99.97 E-value=1.1e-29 Score=294.64 Aligned_cols=346 Identities=21% Similarity=0.283 Sum_probs=250.3
Q ss_pred HhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 249 KSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 249 ~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
..++| +|-.+|.+||-++.+|.+|+|+|+|++|||+++..++.-.- ..+.+++|.+|.|||.+|.++.|+.-+.
T Consensus 292 ~~~pF-elD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAialaq--~h~TR~iYTSPIKALSNQKfRDFk~tF~--- 365 (1248)
T KOG0947|consen 292 LIYPF-ELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIALAQ--KHMTRTIYTSPIKALSNQKFRDFKETFG--- 365 (1248)
T ss_pred hhCCC-CccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHHHH--hhccceEecchhhhhccchHHHHHHhcc---
Confidence 34677 69999999999999999999999999999999877664332 3467999999999999999999877543
Q ss_pred CCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecch
Q 002135 329 ASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAH 408 (961)
Q Consensus 329 ~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH 408 (961)
.+++.+||.. +...+.++|+|.+.|..+|. +....++++ .+||+||+|
T Consensus 366 ---DvgLlTGDvq------inPeAsCLIMTTEILRsMLY----rgadliRDv-------------------E~VIFDEVH 413 (1248)
T KOG0947|consen 366 ---DVGLLTGDVQ------INPEASCLIMTTEILRSMLY----RGADLIRDV-------------------EFVIFDEVH 413 (1248)
T ss_pred ---ccceeeccee------eCCCcceEeehHHHHHHHHh----cccchhhcc-------------------ceEEEeeee
Confidence 2457788763 55678999999999988873 333445555 999999999
Q ss_pred hhhcc-cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHccc--CCeEEEecCCCccceeEEEEeCCCcc
Q 002135 409 AYKGA-FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANL--STLELIQNDGSPCAQKLFVLWNPTSC 485 (961)
Q Consensus 409 ~~~~~-fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~--~~~~~i~~~g~p~~~~~~~l~~p~~~ 485 (961)
.+.+. +|.-++.++-.| +.+.++|++|||++|+.+++.|+... ....+|....+|.+..++....-...
T Consensus 414 YiND~eRGvVWEEViIMl--------P~HV~~IlLSATVPN~~EFA~WIGRtK~K~IyViST~kRPVPLEh~l~t~~~l~ 485 (1248)
T KOG0947|consen 414 YINDVERGVVWEEVIIML--------PRHVNFILLSATVPNTLEFADWIGRTKQKTIYVISTSKRPVPLEHYLYTKKSLF 485 (1248)
T ss_pred ecccccccccceeeeeec--------cccceEEEEeccCCChHHHHHHhhhccCceEEEEecCCCccceEEEEEecccee
Confidence 99884 898888776444 45789999999999999999998543 45677888888988876554432211
Q ss_pred c----cc------ccc-cccc-------c--cchhh---------------hc--cc----CCCCcHHHHHHHHHHHHHC
Q 002135 486 L----RS------VLN-KSQT-------D--MDDTR---------------NA--AN----KTSSPISEVSYLFAEMVQH 524 (961)
Q Consensus 486 ~----~~------~~~-~~~~-------~--~~~~~---------------~~--~~----~~~~~~~~~~~ll~~l~~~ 524 (961)
. .. ... .... . ..... +. .. ....+......++..+..+
T Consensus 486 kiidq~g~fl~~~~~~a~~~~~~~ak~~~~~~~~~~~~rgs~~~ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~k~ 565 (1248)
T KOG0947|consen 486 KIIDQNGIFLLKGIKDAKDSLKKEAKFVDVEKSDARGGRGSQKRGGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLRKK 565 (1248)
T ss_pred hhhcccchhhhhcchhhhhhhcccccccccccccccccccccccCCcCCCCCCCcccccccccccccchHHHHHHHHhhc
Confidence 0 00 000 0000 0 00000 00 00 0000012356666666655
Q ss_pred C-CcEEEEecChHHHHHHHHHHHH------------------HHHhhC-------------CcccccEEEEcCCCCHHHH
Q 002135 525 G-LRCIAFCRSRKLCELVLSYTRE------------------ILEETA-------------PHLVDSICVYRAGYVAEDR 572 (961)
Q Consensus 525 g-~k~IVF~~sr~~ae~l~~~L~~------------------~l~~~~-------------~~l~~~v~~~hggls~~eR 572 (961)
+ .++||||-||+.|+..+.+|.. ...++. .-+..++++||||+.+--+
T Consensus 566 ~lLP~VvFvFSkkrCde~a~~L~~~nL~~~~EKseV~lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivK 645 (1248)
T KOG0947|consen 566 NLLPVVVFVFSKKRCDEYADYLTNLNLTDSKEKSEVHLFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVK 645 (1248)
T ss_pred ccCceEEEEEccccHHHHHHHHhccCcccchhHHHHHHHHHHHHHhcChhhccchHHHHHHHHHhhcchhhcccchHHHH
Confidence 4 6999999999999999887642 111110 0123378999999999999
Q ss_pred HHHHHHHhCCCceEEEeccccccccccCCccEEEEeCC--------CCCHhhHHHHhccCCCCCC--CceEEEEeeCC
Q 002135 573 RRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGF--------PGSIASLWQQAGRSGRRER--PSLAVYVAFEG 640 (961)
Q Consensus 573 ~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~--------P~s~~sy~QR~GRAGR~g~--~g~~i~l~~~~ 640 (961)
+-+|..|..|-++||+||-++++|||.|.-.+|+..-. --..-.|.|++|||||+|- +|++++++...
T Consensus 646 E~VE~LFqrGlVKVLFATETFAMGVNMPARtvVF~Sl~KhDG~efR~L~PGEytQMAGRAGRRGlD~tGTVii~~~~~ 723 (1248)
T KOG0947|consen 646 EVVELLFQRGLVKVLFATETFAMGVNMPARTVVFSSLRKHDGNEFRELLPGEYTQMAGRAGRRGLDETGTVIIMCKDS 723 (1248)
T ss_pred HHHHHHHhcCceEEEeehhhhhhhcCCCceeEEeeehhhccCcceeecCChhHHhhhccccccccCcCceEEEEecCC
Confidence 99999999999999999999999999998777763311 1156889999999999975 47777776554
No 77
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.97 E-value=8.1e-31 Score=265.30 Aligned_cols=323 Identities=17% Similarity=0.230 Sum_probs=224.4
Q ss_pred ccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCC-CeEEEEcccH
Q 002135 232 VLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLS-SSALYMFPTK 310 (961)
Q Consensus 232 ~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~-~~aLvl~Ptr 310 (961)
-|.++ .|.|++++++-..||+.|...|.++||...-|.|++.+|..|.|||.+|.+..++.+..-++ ..+|+++.||
T Consensus 43 gfrdf--llkpellraivdcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtr 120 (387)
T KOG0329|consen 43 GFRDF--LLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTR 120 (387)
T ss_pred chhhh--hcCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccH
Confidence 36666 59999999999999999999999999999999999999999999999999999999876444 4689999999
Q ss_pred HHHHHHHHHHHHhHhhCCCCccEEEEcCCCcH-HHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcch
Q 002135 311 ALAQDQLRALLAMTKAFDASIDIGVYDGDTTQ-KDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVT 389 (961)
Q Consensus 311 aLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~-~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~ 389 (961)
+||-|+.++..++.++++ .++++++.|+..- .....+.+-|+|+++||+++..+.- +....|+++
T Consensus 121 elafqi~~ey~rfskymP-~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGrilALvr----~k~l~lk~v--------- 186 (387)
T KOG0329|consen 121 ELAFQISKEYERFSKYMP-SVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRILALVR----NRSLNLKNV--------- 186 (387)
T ss_pred HHHHHHHHHHHHHHhhCC-CceEEEEEcceeccccHHHHhCCCeEEEcCcHHHHHHHH----hccCchhhc---------
Confidence 999999999999988876 4778887777654 3334455568999999999876541 112234454
Q ss_pred hhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHH-HHHcccCCeEEEecC
Q 002135 390 TEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHC-MELANLSTLELIQND 468 (961)
Q Consensus 390 ~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~-~~L~~~~~~~~i~~~ 468 (961)
+..|+|||+.+.+. .++. |.+..+.+. .+...|+.++|||+++...-+ ..+.. .+.++...+
T Consensus 187 ----------khFvlDEcdkmle~--lDMr---RDvQEifr~-tp~~KQvmmfsatlskeiRpvC~kFmQ-dPmEi~vDd 249 (387)
T KOG0329|consen 187 ----------KHFVLDECDKMLEQ--LDMR---RDVQEIFRM-TPHEKQVMMFSATLSKEIRPVCHKFMQ-DPMEIFVDD 249 (387)
T ss_pred ----------ceeehhhHHHHHHH--HHHH---HHHHHHhhc-CcccceeeeeeeecchhhHHHHHhhhc-Cchhhhccc
Confidence 99999999998762 1222 222333322 133568999999998654222 22222 222222111
Q ss_pred CCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHH
Q 002135 469 GSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREI 548 (961)
Q Consensus 469 g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~ 548 (961)
...- .+. + -+..........+...+.+++..+-- .+++||+.|....
T Consensus 250 E~KL-----tLH---------------G-LqQ~YvkLke~eKNrkl~dLLd~LeF--NQVvIFvKsv~Rl---------- 296 (387)
T KOG0329|consen 250 EAKL-----TLH---------------G-LQQYYVKLKENEKNRKLNDLLDVLEF--NQVVIFVKSVQRL---------- 296 (387)
T ss_pred hhhh-----hhh---------------h-HHHHHHhhhhhhhhhhhhhhhhhhhh--cceeEeeehhhhh----------
Confidence 1100 000 0 00000111223344455666655432 2799999875430
Q ss_pred HHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCC
Q 002135 549 LEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRE 628 (961)
Q Consensus 549 l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g 628 (961)
+ | +.+ +|||+.+++|+||..++.|+|||+|.+..+|+||+|||||.|
T Consensus 297 -------------------~----------f---~kr-~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfG 343 (387)
T KOG0329|consen 297 -------------------S----------F---QKR-LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFG 343 (387)
T ss_pred -------------------h----------h---hhh-hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhccc
Confidence 0 1 123 899999999999999999999999999999999999999999
Q ss_pred CCceEEEEeeCCcchhHHHhchHHhh
Q 002135 629 RPSLAVYVAFEGPLDQYFMKYPEKLF 654 (961)
Q Consensus 629 ~~g~~i~l~~~~~~d~~~~~~~e~l~ 654 (961)
..|.++.+.... .|........+-|
T Consensus 344 tkglaitfvs~e-~da~iLn~vqdRf 368 (387)
T KOG0329|consen 344 TKGLAITFVSDE-NDAKILNPVQDRF 368 (387)
T ss_pred cccceeehhcch-hhHHHhchhhHhh
Confidence 999999877433 3443333333333
No 78
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=99.97 E-value=1.6e-30 Score=295.08 Aligned_cols=341 Identities=22% Similarity=0.291 Sum_probs=250.3
Q ss_pred CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCC
Q 002135 251 TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDAS 330 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~ 330 (961)
.-| .|-|+|.+||..+-++.+|+|+|-|++|||.++..++...|.. +.+++|.+|.|||.+|.++++..-++
T Consensus 126 YPF-~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~--kQRVIYTSPIKALSNQKYREl~~EF~----- 197 (1041)
T KOG0948|consen 126 YPF-TLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLRE--KQRVIYTSPIKALSNQKYRELLEEFK----- 197 (1041)
T ss_pred CCc-ccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHh--cCeEEeeChhhhhcchhHHHHHHHhc-----
Confidence 344 6889999999999999999999999999999999988888765 57999999999999999999977554
Q ss_pred ccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhh
Q 002135 331 IDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAY 410 (961)
Q Consensus 331 i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~ 410 (961)
.|++.+||.. +..++..+|+|.+.|..+| .+....+..+ .+||+||+|.|
T Consensus 198 -DVGLMTGDVT------InP~ASCLVMTTEILRsML----YRGSEvmrEV-------------------aWVIFDEIHYM 247 (1041)
T KOG0948|consen 198 -DVGLMTGDVT------INPDASCLVMTTEILRSML----YRGSEVMREV-------------------AWVIFDEIHYM 247 (1041)
T ss_pred -ccceeeccee------eCCCCceeeeHHHHHHHHH----hccchHhhee-------------------eeEEeeeehhc
Confidence 3677889864 4456899999999998887 3344556666 99999999999
Q ss_pred hcc-cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHccc--CCeEEEecCCCccceeEEEEeC--CCcc
Q 002135 411 KGA-FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANL--STLELIQNDGSPCAQKLFVLWN--PTSC 485 (961)
Q Consensus 411 ~~~-fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~--~~~~~i~~~g~p~~~~~~~l~~--p~~~ 485 (961)
.+. +|.-++..+-. .+.+.+++++|||++|+.+++.|++.. ..+.++-.+.+|.+..++++-. ...+
T Consensus 248 RDkERGVVWEETIIl--------lP~~vr~VFLSATiPNA~qFAeWI~~ihkQPcHVVYTdyRPTPLQHyifP~ggdGly 319 (1041)
T KOG0948|consen 248 RDKERGVVWEETIIL--------LPDNVRFVFLSATIPNARQFAEWICHIHKQPCHVVYTDYRPTPLQHYIFPAGGDGLY 319 (1041)
T ss_pred cccccceeeeeeEEe--------ccccceEEEEeccCCCHHHHHHHHHHHhcCCceEEeecCCCCcceeeeecCCCCeeE
Confidence 884 77666543322 256789999999999999999999754 5688999999999887764421 1111
Q ss_pred ccccccccccccchhhh------------------------cccCCCCcHHHHHHHHHHHHHC-CCcEEEEecChHHHHH
Q 002135 486 LRSVLNKSQTDMDDTRN------------------------AANKTSSPISEVSYLFAEMVQH-GLRCIAFCRSRKLCEL 540 (961)
Q Consensus 486 ~~~~~~~~~~~~~~~~~------------------------~~~~~~~~~~~~~~ll~~l~~~-g~k~IVF~~sr~~ae~ 540 (961)
........+. .++... ...........+.+++.....+ ..++|||+-|++.||.
T Consensus 320 lvVDek~~Fr-ednF~~am~~l~~~~~~~~~~~~~~k~~kG~~~~~~~~~s~i~kiVkmi~~~~~~PVIvFSFSkkeCE~ 398 (1041)
T KOG0948|consen 320 LVVDEKGKFR-EDNFQKAMSVLRKAGESDGKKKANKKGRKGGTGGKGPGDSDIYKIVKMIMERNYLPVIVFSFSKKECEA 398 (1041)
T ss_pred EEEecccccc-hHHHHHHHHHhhccCCCccccccccccccCCcCCCCCCcccHHHHHHHHHhhcCCceEEEEecHhHHHH
Confidence 1000000000 000000 0000111222445566555544 5799999999999999
Q ss_pred HHHHHHH--------------HHH-----------------hhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEe
Q 002135 541 VLSYTRE--------------ILE-----------------ETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAA 589 (961)
Q Consensus 541 l~~~L~~--------------~l~-----------------~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVA 589 (961)
+|-.+.+ .+. ...|-+..+++.||+|+.+--++-|+-.|.+|-+++|+|
T Consensus 399 ~Alqm~kldfN~deEk~~V~~iF~nAi~~LseeDr~LPqie~iLPLL~RGIGIHHsGLLPIlKE~IEILFqEGLvKvLFA 478 (1041)
T KOG0948|consen 399 YALQMSKLDFNTDEEKELVETIFNNAIDQLSEEDRELPQIENILPLLRRGIGIHHSGLLPILKEVIEILFQEGLVKVLFA 478 (1041)
T ss_pred HHHhhccCcCCChhHHHHHHHHHHHHHHhcChhhccchHHHHHHHHHHhccccccccchHHHHHHHHHHHhccHHHHHHh
Confidence 8765432 111 111224448999999999999999999999999999999
Q ss_pred ccccccccccCCccEEEEeC-------CCC-CHhhHHHHhccCCCCCCC--ceEEEEee
Q 002135 590 TNALELGIDVGHIDVTLHLG-------FPG-SIASLWQQAGRSGRRERP--SLAVYVAF 638 (961)
Q Consensus 590 T~aLe~GIDIp~vd~VI~~~-------~P~-s~~sy~QR~GRAGR~g~~--g~~i~l~~ 638 (961)
|-+++.|+|.|.-.+|+..- +-+ |.-.|+|+.|||||+|.+ |.+|++.+
T Consensus 479 TETFsiGLNMPAkTVvFT~~rKfDG~~fRwissGEYIQMSGRAGRRG~DdrGivIlmiD 537 (1041)
T KOG0948|consen 479 TETFSIGLNMPAKTVVFTAVRKFDGKKFRWISSGEYIQMSGRAGRRGIDDRGIVILMID 537 (1041)
T ss_pred hhhhhhccCCcceeEEEeeccccCCcceeeecccceEEecccccccCCCCCceEEEEec
Confidence 99999999999877776331 111 677899999999999876 55665553
No 79
>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=99.97 E-value=1.5e-28 Score=311.04 Aligned_cols=300 Identities=16% Similarity=0.192 Sum_probs=199.3
Q ss_pred HHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHH
Q 002135 242 DNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALL 321 (961)
Q Consensus 242 ~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~ 321 (961)
.++.+.+++.....|+++|.++++.++.|+|++++||||||||+ |.+|+...+.. .+.++|||+||++||.|+.+.++
T Consensus 65 ~~f~~~f~~~~g~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~-f~l~~~~~l~~-~g~~vLIL~PTreLa~Qi~~~l~ 142 (1171)
T TIGR01054 65 KEFEEFFKKAVGSEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTT-FGLAMSLFLAK-KGKRCYIILPTTLLVIQVAEKIS 142 (1171)
T ss_pred HHHHHHHHHhcCCCCcHHHHHHHHHHhCCCeEEEECCCCCCHHH-HHHHHHHHHHh-cCCeEEEEeCHHHHHHHHHHHHH
Confidence 34445565433347999999999999999999999999999997 66777766654 37899999999999999999999
Q ss_pred HhHhhCCCCc-cEEEEcCCCcHHHHH----HHhc-CCcEEEeChhHHHHhhcCCCchhHHHhh-hhhhhhhhcchhhhhh
Q 002135 322 AMTKAFDASI-DIGVYDGDTTQKDRM----WLRD-NARLLITNPDMLHMSILPYHGQFSRILS-NLRLIAFSLVTTEVYL 394 (961)
Q Consensus 322 ~l~~~~~~~i-~v~~~~Gd~~~~~r~----~l~~-~~~IlItTPe~L~~~lL~~~~~~~~~L~-~l~~~~~~~~~~~~~~ 394 (961)
+++...+... .++.++|+.+..++. .+.+ +++|+|+||++|...+. .+. ++
T Consensus 143 ~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~--------~l~~~~-------------- 200 (1171)
T TIGR01054 143 SLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYD--------ELGPKF-------------- 200 (1171)
T ss_pred HHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHH--------HhcCCC--------------
Confidence 9988665322 245678887765542 2333 48999999999865431 111 34
Q ss_pred hhcceeEEEEecchhhhc------------ccchH-HHHHHHHH---------------HHHhhcccCCCC--cEEEecc
Q 002135 395 IFLFIRFVVIDEAHAYKG------------AFGCH-TALILRRL---------------CRLCSHVYGSDP--SFVFSTA 444 (961)
Q Consensus 395 ~~~~i~~VVIDEaH~~~~------------~fg~~-~~~ilrrL---------------~~~~~~~~~~~~--q~I~lSA 444 (961)
+++||||||++.+ +|..+ +..++..+ ....... .... +++++||
T Consensus 201 -----~~iVvDEaD~~L~~~k~vd~il~llGF~~e~i~~il~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~q~~li~~SA 274 (1171)
T TIGR01054 201 -----DFIFVDDVDALLKASKNVDKLLKLLGFSEELIEKAWKLIRLRLKLYRALHAKKRLELLEAI-PGKKRGCLIVSSA 274 (1171)
T ss_pred -----CEEEEeChHhhhhccccHHHHHHHcCCCHHHHHHHHHHhhhccccchHHHHHHHHHHHHhh-hhccCcEEEEEeC
Confidence 9999999999975 24332 34433221 1111121 1222 3667899
Q ss_pred CCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHC
Q 002135 445 TSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQH 524 (961)
Q Consensus 445 Tl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~ 524 (961)
|..+. .....++.. ...+.............. ...........+..++.. .
T Consensus 275 T~~p~-~~~~~l~r~--ll~~~v~~~~~~~r~I~~-----------------------~~~~~~~~~~~L~~ll~~---l 325 (1171)
T TIGR01054 275 TGRPR-GKRAKLFRE--LLGFEVGGGSDTLRNVVD-----------------------VYVEDEDLKETLLEIVKK---L 325 (1171)
T ss_pred CCCcc-ccHHHHccc--ccceEecCccccccceEE-----------------------EEEecccHHHHHHHHHHH---c
Confidence 94321 111122211 111111111000000000 000011112233444433 3
Q ss_pred CCcEEEEecCh---HHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEe----cccccccc
Q 002135 525 GLRCIAFCRSR---KLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAA----TNALELGI 597 (961)
Q Consensus 525 g~k~IVF~~sr---~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVA----T~aLe~GI 597 (961)
+.++||||+++ +.|+.++..|++ .+.++..+||++++ .++++|++|++++||| |++++|||
T Consensus 326 ~~~~IVFv~t~~~~~~a~~l~~~L~~--------~g~~a~~lhg~~~~----~~l~~Fr~G~~~vLVata~~tdv~aRGI 393 (1171)
T TIGR01054 326 GTGGIVYVSIDYGKEKAEEIAEFLEN--------HGVKAVAYHATKPK----EDYEKFAEGEIDVLIGVASYYGTLVRGL 393 (1171)
T ss_pred CCCEEEEEeccccHHHHHHHHHHHHh--------CCceEEEEeCCCCH----HHHHHHHcCCCCEEEEeccccCcccccC
Confidence 56899999999 999999988865 34578899999973 6899999999999999 58999999
Q ss_pred ccCC-ccEEEEeCCCC
Q 002135 598 DVGH-IDVTLHLGFPG 612 (961)
Q Consensus 598 DIp~-vd~VI~~~~P~ 612 (961)
|+|+ |++|||||+|.
T Consensus 394 Dip~~V~~vI~~~~P~ 409 (1171)
T TIGR01054 394 DLPERVRYAVFLGVPK 409 (1171)
T ss_pred CCCccccEEEEECCCC
Confidence 9999 89999999997
No 80
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.97 E-value=1.3e-28 Score=291.71 Aligned_cols=329 Identities=18% Similarity=0.105 Sum_probs=221.7
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
.+|. .||+.|..+...++.|+ |..++||+|||++|.+|++-..+. +..+++++||..||.|.++.+..+...++
T Consensus 52 ~lg~-~p~~vQlig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL~--G~~V~VvTpt~~LA~qdae~~~~l~~~LG- 125 (745)
T TIGR00963 52 VLGM-RPFDVQLIGGIALHKGK--IAEMKTGEGKTLTATLPAYLNALT--GKGVHVVTVNDYLAQRDAEWMGQVYRFLG- 125 (745)
T ss_pred HhCC-CccchHHhhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHHh--CCCEEEEcCCHHHHHHHHHHHHHHhccCC-
Confidence 3677 79999999999888877 999999999999999999643333 45799999999999999999999988776
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH-HHhhcCCC--chhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEec
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDML-HMSILPYH--GQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDE 406 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L-~~~lL~~~--~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDE 406 (961)
+++++..|+.+..++.... .++|+++||.+| .+.|..+. ..-...+. ++.++||||
T Consensus 126 -Lsv~~i~g~~~~~~r~~~y-~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r-------------------~l~~aIIDE 184 (745)
T TIGR00963 126 -LSVGLILSGMSPEERREAY-ACDITYGTNNELGFDYLRDNMAHSKEEKVQR-------------------PFHFAIIDE 184 (745)
T ss_pred -CeEEEEeCCCCHHHHHHhc-CCCEEEECCCchhhHHHhcccccchhhhhcc-------------------ccceeEeec
Confidence 7888888877766554333 589999999998 55442110 00112233 349999999
Q ss_pred chhhhcc--------cc----hH-HHHHHHHHHHHhh-c-cc--CCC---------------------------------
Q 002135 407 AHAYKGA--------FG----CH-TALILRRLCRLCS-H-VY--GSD--------------------------------- 436 (961)
Q Consensus 407 aH~~~~~--------fg----~~-~~~ilrrL~~~~~-~-~~--~~~--------------------------------- 436 (961)
+|.+.-+ -| .+ +......+.+... . .| ..+
T Consensus 185 aDs~LIDeaRtpLiisg~~~~~~~ly~~a~~i~r~L~~~~dy~~de~~k~v~Lt~~G~~~~e~~~~~~~ly~~~~~~~~~ 264 (745)
T TIGR00963 185 VDSILIDEARTPLIISGPAEKSTELYLQANRFAKALEKEVHYEVDEKNRAVLLTEKGIKKAEDLLGVDNLYDLENSPLIH 264 (745)
T ss_pred HHHHhHHhhhhHHhhcCCCCCchHHHHHHHHHHHhhccCCCeEEecCCCceeECHHHHHHHHHHcCCccccChhhhHHHH
Confidence 9987520 11 10 1111111111000 0 00 000
Q ss_pred ----------------------------------------------------------------------------CcEE
Q 002135 437 ----------------------------------------------------------------------------PSFV 440 (961)
Q Consensus 437 ----------------------------------------------------------------------------~q~I 440 (961)
..+-
T Consensus 265 ~i~~Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~ws~GLhQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~ 344 (745)
T TIGR00963 265 YINNALKAKELFEKDVDYIVRDGEVVIVDEFTGRIMEGRRWSDGLHQAIEAKEGVEIQNENQTLATITYQNFFRLYEKLS 344 (745)
T ss_pred HHHHHHHHHHHHhcCCcEEEECCEEEEEECCCCcCCCCCccchHHHHHHHHhcCCCcCCCceeeeeeeHHHHHhhCchhh
Confidence 1223
Q ss_pred EeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHH
Q 002135 441 FSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAE 520 (961)
Q Consensus 441 ~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~ 520 (961)
+||.|.....+.+..+.+.. ++. -|+...... .+.+.........+...+...+.+
T Consensus 345 GmTGTa~te~~E~~~iY~l~---vv~--------------IPtnkp~~R-------~d~~d~i~~t~~~k~~ai~~~i~~ 400 (745)
T TIGR00963 345 GMTGTAKTEEEEFEKIYNLE---VVV--------------VPTNRPVIR-------KDLSDLVYKTEEEKWKAVVDEIKE 400 (745)
T ss_pred ccCCCcHHHHHHHHHHhCCC---EEE--------------eCCCCCeee-------eeCCCeEEcCHHHHHHHHHHHHHH
Confidence 33333332222222222221 111 111110000 000011112223344555555666
Q ss_pred HHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccC
Q 002135 521 MVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVG 600 (961)
Q Consensus 521 l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp 600 (961)
....|.++||||+|...+|.+++.|.+ .+.....+||. +.+|+..+..|+.+...|+||||+++||+||+
T Consensus 401 ~~~~grpvLV~t~si~~se~ls~~L~~--------~gi~~~~Lna~--q~~rEa~ii~~ag~~g~VtIATnmAgRGtDI~ 470 (745)
T TIGR00963 401 RHAKGQPVLVGTTSVEKSELLSNLLKE--------RGIPHNVLNAK--NHEREAEIIAQAGRKGAVTIATNMAGRGTDIK 470 (745)
T ss_pred HHhcCCCEEEEeCcHHHHHHHHHHHHH--------cCCCeEEeeCC--hHHHHHHHHHhcCCCceEEEEeccccCCcCCC
Confidence 677899999999999999999998876 34456788997 88999999999999999999999999999998
Q ss_pred C-------ccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeC
Q 002135 601 H-------IDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 601 ~-------vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
. .-+||+++.|.|...|.|++||+||.|.+|.+.++...
T Consensus 471 l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~G~s~~~ls~ 516 (745)
T TIGR00963 471 LEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDPGSSRFFLSL 516 (745)
T ss_pred ccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCCcceEEEEec
Confidence 8 45999999999999999999999999999999877654
No 81
>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=99.97 E-value=7.5e-29 Score=295.75 Aligned_cols=346 Identities=14% Similarity=0.129 Sum_probs=220.0
Q ss_pred CCCcHHHHHHHHHHhC-C--CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCC
Q 002135 254 SKLYSHQAESIMASLA-G--KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDAS 330 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~-G--~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~ 330 (961)
..|++||.+|+..+.. | ++.++++|||+|||++.+..+. .+ +.++|||+|+..|+.|+.+++.++..- . .
T Consensus 254 ~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~-~l----~k~tLILvps~~Lv~QW~~ef~~~~~l-~-~ 326 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAAC-TV----KKSCLVLCTSAVSVEQWKQQFKMWSTI-D-D 326 (732)
T ss_pred CCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHH-Hh----CCCEEEEeCcHHHHHHHHHHHHHhcCC-C-C
Confidence 3699999999999873 4 4789999999999999875443 22 457999999999999999999987531 1 2
Q ss_pred ccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhh
Q 002135 331 IDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAY 410 (961)
Q Consensus 331 i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~ 410 (961)
..++.+.|+.... ......|+|+|++++.... .+.......+..+.. ..+++||+||||++
T Consensus 327 ~~I~~~tg~~k~~----~~~~~~VvVtTYq~l~~~~-~r~~~~~~~l~~l~~--------------~~~gLII~DEvH~l 387 (732)
T TIGR00603 327 SQICRFTSDAKER----FHGEAGVVVSTYSMVAHTG-KRSYESEKVMEWLTN--------------REWGLILLDEVHVV 387 (732)
T ss_pred ceEEEEecCcccc----cccCCcEEEEEHHHhhccc-ccchhhhHHHHHhcc--------------ccCCEEEEEccccc
Confidence 4567777764321 2234789999999875321 111111122222210 12389999999997
Q ss_pred hcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHH---HHHHHcccCCeEEEec-------CCCccceeEEEEe
Q 002135 411 KGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPRE---HCMELANLSTLELIQN-------DGSPCAQKLFVLW 480 (961)
Q Consensus 411 ~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e---~~~~L~~~~~~~~i~~-------~g~p~~~~~~~l~ 480 (961)
.. ..+..++..+ .....+++|||+....+ .+..++|. .+.+. .|--...+...+|
T Consensus 388 pA---~~fr~il~~l---------~a~~RLGLTATP~ReD~~~~~L~~LiGP---~vye~~~~eLi~~G~LA~~~~~ev~ 452 (732)
T TIGR00603 388 PA---AMFRRVLTIV---------QAHCKLGLTATLVREDDKITDLNFLIGP---KLYEANWMELQKKGFIANVQCAEVW 452 (732)
T ss_pred cH---HHHHHHHHhc---------CcCcEEEEeecCcccCCchhhhhhhcCC---eeeecCHHHHHhCCccccceEEEEE
Confidence 43 2333333222 12357999999964432 23344442 22222 1211222222223
Q ss_pred CCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccE
Q 002135 481 NPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSI 560 (961)
Q Consensus 481 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v 560 (961)
-|..... .....................+...+..++......+.++||||++...++.++..+ .+
T Consensus 453 v~~t~~~-~~~yl~~~~~~k~~l~~~np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L-------------~~ 518 (732)
T TIGR00603 453 CPMTPEF-YREYLRENSRKRMLLYVMNPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKL-------------GK 518 (732)
T ss_pred ecCCHHH-HHHHHHhcchhhhHHhhhChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHc-------------CC
Confidence 2221100 000000000000000111223333344455443346789999999998888777654 13
Q ss_pred EEEcCCCCHHHHHHHHHHHhCC-CceEEEeccccccccccCCccEEEEeCCC-CCHhhHHHHhccCCCCCCCceE-----
Q 002135 561 CVYRAGYVAEDRRRIERDFFGG-KLCGVAATNALELGIDVGHIDVTLHLGFP-GSIASLWQQAGRSGRRERPSLA----- 633 (961)
Q Consensus 561 ~~~hggls~~eR~~ie~~f~~G-~~~vLVAT~aLe~GIDIp~vd~VI~~~~P-~s~~sy~QR~GRAGR~g~~g~~----- 633 (961)
..+||++++.+|.+++++|++| .+++||+|+++.+|||+|++++||+++.| +|...|+||+||++|.+..+.+
T Consensus 519 ~~I~G~ts~~ER~~il~~Fr~~~~i~vLv~SkVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~~~~~~A 598 (732)
T TIGR00603 519 PFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNA 598 (732)
T ss_pred ceEECCCCHHHHHHHHHHHHhCCCccEEEEecccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCccccccc
Confidence 4679999999999999999965 88999999999999999999999999988 5999999999999999765543
Q ss_pred --EEEeeCCcchhHHHhchHHhh
Q 002135 634 --VYVAFEGPLDQYFMKYPEKLF 654 (961)
Q Consensus 634 --i~l~~~~~~d~~~~~~~e~l~ 654 (961)
+.++..+..+.++..+-..++
T Consensus 599 ~fY~lVs~dT~E~~~s~~Rq~fl 621 (732)
T TIGR00603 599 FFYSLVSKDTQEMYYSTKRQRFL 621 (732)
T ss_pred eEEEEecCCchHHHHHHHHHHHH
Confidence 666667777777766655444
No 82
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=99.97 E-value=2.6e-30 Score=277.61 Aligned_cols=313 Identities=17% Similarity=0.196 Sum_probs=207.4
Q ss_pred CeEEEEcccHHHHHHHHHHHHHhHhhCC-CCcc-EEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhh
Q 002135 301 SSALYMFPTKALAQDQLRALLAMTKAFD-ASID-IGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILS 378 (961)
Q Consensus 301 ~~aLvl~PtraLa~qq~~~l~~l~~~~~-~~i~-v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~ 378 (961)
+.++++-|.+||+.|....++++-.... ..++ ..+++|.....|...+.++.+|+++||++|.+.+- .....+.
T Consensus 287 p~avivepsrelaEqt~N~i~~Fk~h~~np~~r~lLmiggv~~r~Q~~ql~~g~~ivvGtpgRl~~~is----~g~~~lt 362 (725)
T KOG0349|consen 287 PEAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIGGVLKRTQCKQLKDGTHIVVGTPGRLLQPIS----KGLVTLT 362 (725)
T ss_pred cceeEecCcHHHHHHHHhhHHHHHhhcCChhhhhhhhhhhHHhHHHHHHhhcCceeeecCchhhhhhhh----ccceeee
Confidence 4799999999999999998877654432 1222 34556777788888899999999999999987651 1112333
Q ss_pred hhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH--HHHHH
Q 002135 379 NLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR--EHCME 455 (961)
Q Consensus 379 ~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~--e~~~~ 455 (961)
.. +++|+||++.+++ +...-+..+...|+.+++. +.++|.+.||||+.--+ ....+
T Consensus 363 ~c-------------------rFlvlDead~lL~qgy~d~I~r~h~qip~~tsd--g~rlq~~vCsatlh~feVkk~~er 421 (725)
T KOG0349|consen 363 HC-------------------RFLVLDEADLLLGQGYDDKIYRFHGQIPHMTSD--GFRLQSPVCSATLHIFEVKKVGER 421 (725)
T ss_pred ee-------------------EEEEecchhhhhhcccHHHHHHHhccchhhhcC--CcccccceeeeEEeEEEeeehhhh
Confidence 44 9999999999987 4666666667777777754 56889999999985322 22223
Q ss_pred HcccCC-eEEEecCCCccceeEEE-EeCCCccccccc-----cccccccchhhhcccCCCCcHHHHHHHHH------HHH
Q 002135 456 LANLST-LELIQNDGSPCAQKLFV-LWNPTSCLRSVL-----NKSQTDMDDTRNAANKTSSPISEVSYLFA------EMV 522 (961)
Q Consensus 456 L~~~~~-~~~i~~~g~p~~~~~~~-l~~p~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~ll~------~l~ 522 (961)
+...+. +.+-..|.-|.....++ +.+|........ ........+.............+...++. ...
T Consensus 422 vmhfptwVdLkgeD~vpetvHhvv~lv~p~~d~sw~~lr~~i~td~vh~kdn~~pg~~Spe~~s~a~kilkgEy~v~ai~ 501 (725)
T KOG0349|consen 422 VMHFPTWVDLKGEDLVPETVHHVVKLVCPSVDGSWCDLRQFIETDKVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIR 501 (725)
T ss_pred hccCceeEecccccccchhhccceeecCCccCccHHHHhhhhccCCcccccccccccCCCCChhhhhHHhcCchhhhhhh
Confidence 322211 11111222222222211 222222110000 00000000000000011111222222322 111
Q ss_pred H-CCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCC
Q 002135 523 Q-HGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGH 601 (961)
Q Consensus 523 ~-~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~ 601 (961)
+ +-.++||||+|+..|+.|-+++++.-. ....+.++||+..+.+|++-++.|+.++++.||||+++++|+||.+
T Consensus 502 ~h~mdkaiifcrtk~dcDnLer~~~qkgg-----~~~scvclhgDrkP~Erk~nle~Fkk~dvkflictdvaargldi~g 576 (725)
T KOG0349|consen 502 RHAMDKAIIFCRTKQDCDNLERMMNQKGG-----KHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDITG 576 (725)
T ss_pred hhccCceEEEEeccccchHHHHHHHHcCC-----ccceeEEEecCCChhHHHHHHHhhhhcCeEEEEEehhhhccccccC
Confidence 1 124899999999999999888876322 2346889999999999999999999999999999999999999999
Q ss_pred ccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeCCcch
Q 002135 602 IDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFEGPLD 643 (961)
Q Consensus 602 vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d 643 (961)
+-.+||..+|.+..+|+||+||.||+.+-|++|.++-..+..
T Consensus 577 ~p~~invtlpd~k~nyvhrigrvgraermglaislvat~~ek 618 (725)
T KOG0349|consen 577 LPFMINVTLPDDKTNYVHRIGRVGRAERMGLAISLVATVPEK 618 (725)
T ss_pred CceEEEEecCcccchhhhhhhccchhhhcceeEEEeeccchh
Confidence 999999999999999999999999999999998777555443
No 83
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.97 E-value=1.2e-28 Score=292.04 Aligned_cols=360 Identities=21% Similarity=0.238 Sum_probs=254.4
Q ss_pred ccHHHHHHHHhCCCCCCcHHHHHHHHHHhCC-CcEEEEecCCchhHHHHHHHHHHHHhcCC---------CCeEEEEccc
Q 002135 240 LLDNTKSALKSTGISKLYSHQAESIMASLAG-KNVVVATMTSSGKSLCYNLPVLEALSHDL---------SSSALYMFPT 309 (961)
Q Consensus 240 L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G-~~vIv~apTGSGKTla~~Lpil~~l~~~~---------~~~aLvl~Pt 309 (961)
+|..-..++ .|..+|.++|.....+++.+ .|+++|||||+|||..+++-+++.+..+. ..++.|++|+
T Consensus 296 lP~Wnq~aF--~g~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPm 373 (1674)
T KOG0951|consen 296 LPKWNQPAF--FGKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPM 373 (1674)
T ss_pred Ccchhhhhc--ccchhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeH
Confidence 444444444 47778999999999998876 59999999999999999999999987642 2489999999
Q ss_pred HHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcch
Q 002135 310 KALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVT 389 (961)
Q Consensus 310 raLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~ 389 (961)
++|++.+...+.+....++ +.|.-.+||...... -.++.+|+++|||.. .++.+...-+...+-+
T Consensus 374 KaLvqE~VgsfSkRla~~G--I~V~ElTgD~~l~~~--qieeTqVIV~TPEK~--DiITRk~gdraY~qlv--------- 438 (1674)
T KOG0951|consen 374 KALVQEMVGSFSKRLAPLG--ITVLELTGDSQLGKE--QIEETQVIVTTPEKW--DIITRKSGDRAYEQLV--------- 438 (1674)
T ss_pred HHHHHHHHHHHHhhccccC--cEEEEecccccchhh--hhhcceeEEeccchh--hhhhcccCchhHHHHH---------
Confidence 9999999999988777665 889999998754322 224689999999974 2232322222222223
Q ss_pred hhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHccc-CCeEEEecC
Q 002135 390 TEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANL-STLELIQND 468 (961)
Q Consensus 390 ~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~-~~~~~i~~~ 468 (961)
+++|+||.|.+-+.+|+-++.+..|..+.... .....+.+++|||++|-.+....|.-. ......+..
T Consensus 439 ----------rLlIIDEIHLLhDdRGpvLESIVaRt~r~ses-~~e~~RlVGLSATLPNy~DV~~Fl~v~~~glf~fd~s 507 (1674)
T KOG0951|consen 439 ----------RLLIIDEIHLLHDDRGPVLESIVARTFRRSES-TEEGSRLVGLSATLPNYEDVASFLRVDPEGLFYFDSS 507 (1674)
T ss_pred ----------HHHhhhhhhhcccccchHHHHHHHHHHHHhhh-cccCceeeeecccCCchhhhHHHhccCcccccccCcc
Confidence 89999999999888999999998888765543 245679999999999998766554221 122334446
Q ss_pred CCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHH--CCCcEEEEecChHHHHHHHHHHH
Q 002135 469 GSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQ--HGLRCIAFCRSRKLCELVLSYTR 546 (961)
Q Consensus 469 g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~--~g~k~IVF~~sr~~ae~l~~~L~ 546 (961)
.+|.+.+..++--.... . . .+.....++ .....++ ...++|||+.+|+++-+.|+.++
T Consensus 508 yRpvPL~qq~Igi~ek~-----------~------~-~~~qamNe~--~yeKVm~~agk~qVLVFVHsRkET~ktA~aIR 567 (1674)
T KOG0951|consen 508 YRPVPLKQQYIGITEKK-----------P------L-KRFQAMNEA--CYEKVLEHAGKNQVLVFVHSRKETAKTARAIR 567 (1674)
T ss_pred cCcCCccceEeccccCC-----------c------h-HHHHHHHHH--HHHHHHHhCCCCcEEEEEEechHHHHHHHHHH
Confidence 67777665554211100 0 0 000111111 1122222 13699999999999999998887
Q ss_pred HHH----------Hhh---------------CC----cccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecccccccc
Q 002135 547 EIL----------EET---------------AP----HLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGI 597 (961)
Q Consensus 547 ~~l----------~~~---------------~~----~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GI 597 (961)
+.. .+. .+ -+..+++.||+||+..+|..+++.|.+|.++++|+|.++++|+
T Consensus 568 d~~le~dtls~fmre~s~s~eilrtea~~~kn~dLkdLLpygfaIHhAGl~R~dR~~~EdLf~~g~iqvlvstatlawgv 647 (1674)
T KOG0951|consen 568 DKALEEDTLSRFMREDSASREILRTEAGQAKNPDLKDLLPYGFAIHHAGLNRKDRELVEDLFADGHIQVLVSTATLAWGV 647 (1674)
T ss_pred HHHhhhhHHHHHHhcccchhhhhhhhhhcccChhHHHHhhccceeeccCCCcchHHHHHHHHhcCceeEEEeehhhhhhc
Confidence 321 110 00 1334789999999999999999999999999999999999999
Q ss_pred ccCCccEEE----EeC------CCCCHhhHHHHhccCCCCCCC--ceEEEEeeCCcchhHHHh
Q 002135 598 DVGHIDVTL----HLG------FPGSIASLWQQAGRSGRRERP--SLAVYVAFEGPLDQYFMK 648 (961)
Q Consensus 598 DIp~vd~VI----~~~------~P~s~~sy~QR~GRAGR~g~~--g~~i~l~~~~~~d~~~~~ 648 (961)
++|.-.++| .|+ .+.+....+||.|||||.+.+ |..+++... ..-+||..
T Consensus 648 nlpahtViikgtqvy~pekg~w~elsp~dv~qmlgragrp~~D~~gegiiit~~-se~qyyls 709 (1674)
T KOG0951|consen 648 NLPAHTVIIKGTQVYDPEKGRWTELSPLDVMQMLGRAGRPQYDTCGEGIIITDH-SELQYYLS 709 (1674)
T ss_pred CCCcceEEecCccccCcccCccccCCHHHHHHHHhhcCCCccCcCCceeeccCc-hHhhhhHH
Confidence 999877666 333 244889999999999999654 455544433 33455554
No 84
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.97 E-value=5.4e-29 Score=301.37 Aligned_cols=351 Identities=24% Similarity=0.281 Sum_probs=252.7
Q ss_pred HhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 249 KSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 249 ~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
+.+|| +|.++|++|+..+.+|.+|+|+||||||||.+...++...+.. +.+++|.+|.|||.+|.++.+.......
T Consensus 114 ~~~~F-~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~--~qrviYTsPIKALsNQKyrdl~~~fgdv- 189 (1041)
T COG4581 114 REYPF-ELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRD--GQRVIYTSPIKALSNQKYRDLLAKFGDV- 189 (1041)
T ss_pred HhCCC-CcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHc--CCceEeccchhhhhhhHHHHHHHHhhhh-
Confidence 55788 6999999999999999999999999999999999888877775 4569999999999999999998765533
Q ss_pred CCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecch
Q 002135 329 ASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAH 408 (961)
Q Consensus 329 ~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH 408 (961)
.-.+++++||.. +..++.++|+|.+.|..++... ...+..+ .+||+||+|
T Consensus 190 -~~~vGL~TGDv~------IN~~A~clvMTTEILRnMlyrg----~~~~~~i-------------------~~ViFDEvH 239 (1041)
T COG4581 190 -ADMVGLMTGDVS------INPDAPCLVMTTEILRNMLYRG----SESLRDI-------------------EWVVFDEVH 239 (1041)
T ss_pred -hhhccceeccee------eCCCCceEEeeHHHHHHHhccC----ccccccc-------------------ceEEEEeee
Confidence 123688899874 4557899999999998887432 2234444 999999999
Q ss_pred hhhcc-cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHc--ccCCeEEEecCCCccceeEEEEeCCCcc
Q 002135 409 AYKGA-FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELA--NLSTLELIQNDGSPCAQKLFVLWNPTSC 485 (961)
Q Consensus 409 ~~~~~-fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~--~~~~~~~i~~~g~p~~~~~~~l~~p~~~ 485 (961)
.+.+. +|.-++.++-.+ ....++|++|||++|+.++..|+. ...+..+|..+.+|.+...++...-..+
T Consensus 240 yi~D~eRG~VWEE~Ii~l--------P~~v~~v~LSATv~N~~EF~~Wi~~~~~~~~~vv~t~~RpvPL~~~~~~~~~l~ 311 (1041)
T COG4581 240 YIGDRERGVVWEEVIILL--------PDHVRFVFLSATVPNAEEFAEWIQRVHSQPIHVVSTEHRPVPLEHFVYVGKGLF 311 (1041)
T ss_pred eccccccchhHHHHHHhc--------CCCCcEEEEeCCCCCHHHHHHHHHhccCCCeEEEeecCCCCCeEEEEecCCcee
Confidence 99884 888888776544 346799999999999999999986 3456889999999999887765542222
Q ss_pred cccccccccccc-------------------ch---hhhcccC-----CCCcHHHHHHHHHHHHH-CCCcEEEEecChHH
Q 002135 486 LRSVLNKSQTDM-------------------DD---TRNAANK-----TSSPISEVSYLFAEMVQ-HGLRCIAFCRSRKL 537 (961)
Q Consensus 486 ~~~~~~~~~~~~-------------------~~---~~~~~~~-----~~~~~~~~~~ll~~l~~-~g~k~IVF~~sr~~ 537 (961)
........+... ++ ....... .......-..++..+.. +..++|+|+-+++.
T Consensus 312 ~lvde~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~iv~~l~~~~~lP~I~F~FSr~~ 391 (1041)
T COG4581 312 DLVDEKKKFNAENFPSANRSLSCFSEKVRETDDGDVGRYARRTKALRGSAKGPAGRPEIVNKLDKDNLLPAIVFSFSRRG 391 (1041)
T ss_pred eeecccccchhhcchhhhhhhhccchhccccCccccccccccccccCCcccccccchHHHhhhhhhcCCceEEEEEchhh
Confidence 111111100000 00 0000000 00000011223443333 45799999999999
Q ss_pred HHHHHHHHH---------------HHHH----hh--------------CCcccccEEEEcCCCCHHHHHHHHHHHhCCCc
Q 002135 538 CELVLSYTR---------------EILE----ET--------------APHLVDSICVYRAGYVAEDRRRIERDFFGGKL 584 (961)
Q Consensus 538 ae~l~~~L~---------------~~l~----~~--------------~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~ 584 (961)
|+..+..+. ..+. .. ...+...+++||+||.+..|..++..|..|-+
T Consensus 392 Ce~~a~~~~~ldl~~~~~~e~~i~~ii~~~i~~L~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLv 471 (1041)
T COG4581 392 CEEAAQILSTLDLVLTEEKERAIREIIDHAIGDLAEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLV 471 (1041)
T ss_pred HHHHHHHhcccccccCCcHHHHHHHHHHHHHhhcChhhhcCcccHHHHHHHHhhhhhhhccccchHHHHHHHHHHhccce
Confidence 998876543 1111 00 01123367799999999999999999999999
Q ss_pred eEEEeccccccccccCCccEEE----EeC----CCCCHhhHHHHhccCCCCCCC--ceEEEEeeCCc
Q 002135 585 CGVAATNALELGIDVGHIDVTL----HLG----FPGSIASLWQQAGRSGRRERP--SLAVYVAFEGP 641 (961)
Q Consensus 585 ~vLVAT~aLe~GIDIp~vd~VI----~~~----~P~s~~sy~QR~GRAGR~g~~--g~~i~l~~~~~ 641 (961)
+|++||.+++.|+|.|.-.+|+ .++ -+-+...|.|+.|||||+|-+ |.++++....+
T Consensus 472 kvvFaTeT~s~GiNmPartvv~~~l~K~dG~~~r~L~~gEy~QmsGRAGRRGlD~~G~vI~~~~~~~ 538 (1041)
T COG4581 472 KVVFATETFAIGINMPARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLDVLGTVIVIEPPFE 538 (1041)
T ss_pred eEEeehhhhhhhcCCcccceeeeeeEEecCCceeecChhHHHHhhhhhccccccccceEEEecCCCC
Confidence 9999999999999999766665 122 233789999999999999876 55565544333
No 85
>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=99.96 E-value=1e-28 Score=308.57 Aligned_cols=379 Identities=18% Similarity=0.165 Sum_probs=232.1
Q ss_pred cHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhc-CCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEE
Q 002135 257 YSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSH-DLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGV 335 (961)
Q Consensus 257 ~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~-~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~ 335 (961)
+.+..+.+.++.+++.+||+|+||||||. ++|.+-.-.. ....++++.-|.|--|....+++.+... ...+-.|+.
T Consensus 69 ~~~~~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg-~~lG~~VGY 145 (1283)
T TIGR01967 69 SAKREDIAEAIAENQVVIIAGETGSGKTT--QLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELG-TPLGEKVGY 145 (1283)
T ss_pred HHHHHHHHHHHHhCceEEEeCCCCCCcHH--HHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhC-CCcceEEee
Confidence 33445666777777889999999999999 5676543221 2234677778999888888877765432 111122221
Q ss_pred EcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh-hhccc
Q 002135 336 YDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA-YKGAF 414 (961)
Q Consensus 336 ~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~-~~~~f 414 (961)
....+ .....+++|.++||++|...+.. ...|.++ ++|||||||. ...
T Consensus 146 ---~vR~~--~~~s~~T~I~~~TdGiLLr~l~~-----d~~L~~~-------------------~~IIIDEaHERsL~-- 194 (1283)
T TIGR01967 146 ---KVRFH--DQVSSNTLVKLMTDGILLAETQQ-----DRFLSRY-------------------DTIIIDEAHERSLN-- 194 (1283)
T ss_pred ---EEcCC--cccCCCceeeeccccHHHHHhhh-----CcccccC-------------------cEEEEcCcchhhcc--
Confidence 11111 11234689999999999876532 1245555 9999999995 332
Q ss_pred chHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccc
Q 002135 415 GCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQ 494 (961)
Q Consensus 415 g~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~ 494 (961)
...++..++++... .++.++|++|||+. +..+.+. ++. ..++...|+..+....+. |.... .
T Consensus 195 ---~D~LL~lLk~il~~--rpdLKlIlmSATld-~~~fa~~-F~~--apvI~V~Gr~~PVev~Y~--~~~~~-------~ 256 (1283)
T TIGR01967 195 ---IDFLLGYLKQLLPR--RPDLKIIITSATID-PERFSRH-FNN--APIIEVSGRTYPVEVRYR--PLVEE-------Q 256 (1283)
T ss_pred ---chhHHHHHHHHHhh--CCCCeEEEEeCCcC-HHHHHHH-hcC--CCEEEECCCcccceeEEe--ccccc-------c
Confidence 23333334444332 34679999999994 4444444 432 345666666544443321 11100 0
Q ss_pred cccchhhhcccCCCCcHHHHHHHHHHHHH-CCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHH
Q 002135 495 TDMDDTRNAANKTSSPISEVSYLFAEMVQ-HGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRR 573 (961)
Q Consensus 495 ~~~~~~~~~~~~~~~~~~~~~~ll~~l~~-~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~ 573 (961)
. ....+....+...+..+.. ..+.+|||++++++++.+++.|++.. . ....+..+||++++++|.
T Consensus 257 ~---------~~~~~~~~~i~~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~~~---~--~~~~VlpLhg~Ls~~eQ~ 322 (1283)
T TIGR01967 257 E---------DDDLDQLEAILDAVDELFAEGPGDILIFLPGEREIRDAAEILRKRN---L--RHTEILPLYARLSNKEQQ 322 (1283)
T ss_pred c---------chhhhHHHHHHHHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHhcC---C--CCcEEEeccCCCCHHHHH
Confidence 0 0001122333444444433 34689999999999999998886521 0 123578999999999999
Q ss_pred HHHHHHhCCCceEEEeccccccccccCCccEEEEeCCC------------------CCHhhHHHHhccCCCCCCCceEEE
Q 002135 574 RIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFP------------------GSIASLWQQAGRSGRRERPSLAVY 635 (961)
Q Consensus 574 ~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P------------------~s~~sy~QR~GRAGR~g~~g~~i~ 635 (961)
++++.+ +..+||||||++|+|||||+|++||++|++ -|.++|.||+|||||.+ +|.|+.
T Consensus 323 ~vf~~~--~~rkIVLATNIAEtSLTIpgV~yVIDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~-~G~cyR 399 (1283)
T TIGR01967 323 RVFQPH--SGRRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA-PGICIR 399 (1283)
T ss_pred HHhCCC--CCceEEEeccHHHhccccCCeeEEEeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC-CceEEE
Confidence 986543 347999999999999999999999999954 36789999999999996 999998
Q ss_pred EeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCCHHHHHHHHHHCCccccCC
Q 002135 636 VAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSGLSSGITTLKNRGYLSSDP 714 (961)
Q Consensus 636 l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~~~~~l~~L~~~g~l~~~~ 714 (961)
++.....+ ..++ ...+++ . -.|..-+.-++.+.....+..+.+.+.+-...+.++++.|.+.|+|..++
T Consensus 400 Lyte~~~~----~~~~-~~~PEI--l---R~~L~~viL~l~~lg~~di~~f~fldpP~~~~i~~A~~~L~~LGAld~~~ 468 (1283)
T TIGR01967 400 LYSEEDFN----SRPE-FTDPEI--L---RTNLASVILQMLALRLGDIAAFPFIEAPDPRAIRDGFRLLEELGALDDDE 468 (1283)
T ss_pred ecCHHHHH----hhhh-ccCccc--c---cccHHHHHHHHHhcCCCCcccccCCCCCCHHHHHHHHHHHHHCCCCCCCC
Confidence 87543222 2221 111111 1 11222222222222112122222223333346889999999999997665
No 86
>PRK09694 helicase Cas3; Provisional
Probab=99.96 E-value=1.1e-27 Score=293.39 Aligned_cols=335 Identities=20% Similarity=0.221 Sum_probs=210.7
Q ss_pred CCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCcc
Q 002135 253 ISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASID 332 (961)
Q Consensus 253 ~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~ 332 (961)
...|+|+|..+......+..+|+.||||+|||++++..+...+......+++|..||+++++++++++.++.........
T Consensus 284 ~~~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f~~~~ 363 (878)
T PRK09694 284 GYQPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASKLFPSPN 363 (878)
T ss_pred CCCChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 34899999988655445678999999999999999887776555544578999999999999999999886654432345
Q ss_pred EEEEcCCCcHHH----------------------HHHHh---cC---CcEEEeChhHHHHhhcCCCchhHHHhhhhhhhh
Q 002135 333 IGVYDGDTTQKD----------------------RMWLR---DN---ARLLITNPDMLHMSILPYHGQFSRILSNLRLIA 384 (961)
Q Consensus 333 v~~~~Gd~~~~~----------------------r~~l~---~~---~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~ 384 (961)
+.+.+|...... ..|+. +. ..|+|||++++....++....+.+.+. +.
T Consensus 364 v~L~Hg~a~l~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~kh~~lR~~~-La--- 439 (878)
T PRK09694 364 LILAHGNSRFNHLFQSLKSRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGFG-LG--- 439 (878)
T ss_pred eEeecCcchhhhhhhhhhcccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHccchHHHHHHh-hc---
Confidence 677777653210 12232 11 689999999998777765544444442 20
Q ss_pred hhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcc---cC-
Q 002135 385 FSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELAN---LS- 460 (961)
Q Consensus 385 ~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~---~~- 460 (961)
-++|||||+|.|... +..+|.++.+.... ....+|+||||++.. ..+.|.. ..
T Consensus 440 --------------~svvIiDEVHAyD~y----m~~lL~~~L~~l~~---~g~~vIllSATLP~~--~r~~L~~a~~~~~ 496 (878)
T PRK09694 440 --------------RSVLIVDEVHAYDAY----MYGLLEAVLKAQAQ---AGGSVILLSATLPAT--LKQKLLDTYGGHD 496 (878)
T ss_pred --------------cCeEEEechhhCCHH----HHHHHHHHHHHHHh---cCCcEEEEeCCCCHH--HHHHHHHHhcccc
Confidence 089999999998532 22233322222222 134689999999643 2223322 11
Q ss_pred C------eEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecC
Q 002135 461 T------LELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRS 534 (961)
Q Consensus 461 ~------~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~s 534 (961)
. ...+...... ..+.+.+...... ..... .................+...+......|.+++|||||
T Consensus 497 ~~~~~~~YPlvt~~~~~-~~~~~~~~~~~~~----~~~~~--~v~v~~~~~~~~~~~~~~l~~i~~~~~~g~~vLVf~NT 569 (878)
T PRK09694 497 PVELSSAYPLITWRGVN-GAQRFDLSAHPEQ----LPARF--TIQLEPICLADMLPDLTLLQRMIAAANAGAQVCLICNL 569 (878)
T ss_pred ccccccccccccccccc-cceeeeccccccc----cCcce--EEEEEeeccccccCHHHHHHHHHHHHhcCCEEEEEECC
Confidence 0 0001000000 0000000000000 00000 00000000000112233344444445678899999999
Q ss_pred hHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHH----HHHHH-hCCC---ceEEEeccccccccccCCccEEE
Q 002135 535 RKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRR----IERDF-FGGK---LCGVAATNALELGIDVGHIDVTL 606 (961)
Q Consensus 535 r~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~----ie~~f-~~G~---~~vLVAT~aLe~GIDIp~vd~VI 606 (961)
++.|+.+++.|++... ....+..+||.+++.+|.+ +++.| ++|+ .+|||||+++|+|+|| ++|++|
T Consensus 570 V~~Aq~ly~~L~~~~~-----~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDI-d~DvlI 643 (878)
T PRK09694 570 VDDAQKLYQRLKELNN-----TQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDL-DFDWLI 643 (878)
T ss_pred HHHHHHHHHHHHhhCC-----CCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeec-CCCeEE
Confidence 9999999998875321 1235889999999999955 45567 6666 4799999999999999 689999
Q ss_pred EeCCCCCHhhHHHHhccCCCCCC
Q 002135 607 HLGFPGSIASLWQQAGRSGRRER 629 (961)
Q Consensus 607 ~~~~P~s~~sy~QR~GRAGR~g~ 629 (961)
....| +++++||+||+||.++
T Consensus 644 tdlaP--idsLiQRaGR~~R~~~ 664 (878)
T PRK09694 644 TQLCP--VDLLFQRLGRLHRHHR 664 (878)
T ss_pred ECCCC--HHHHHHHHhccCCCCC
Confidence 99888 7899999999999975
No 87
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.96 E-value=7.5e-27 Score=269.43 Aligned_cols=319 Identities=23% Similarity=0.281 Sum_probs=248.4
Q ss_pred HHHHhCCCCCCcHHHHHHHHHHhCC------CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHH
Q 002135 246 SALKSTGISKLYSHQAESIMASLAG------KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRA 319 (961)
Q Consensus 246 ~~L~~~g~~~l~~~Q~~ai~~il~G------~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~ 319 (961)
+.+..+.| +||.-|.+++..|... .+-++++.-|||||+++++.++..+.. |..+..++||--||.|.++.
T Consensus 254 ~~~~~LPF-~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~--G~Q~ALMAPTEILA~QH~~~ 330 (677)
T COG1200 254 KFLAALPF-KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEA--GYQAALMAPTEILAEQHYES 330 (677)
T ss_pred HHHHhCCC-CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHc--CCeeEEeccHHHHHHHHHHH
Confidence 44467899 7999999999999854 378999999999999999999998875 67899999999999999999
Q ss_pred HHHhHhhCCCCccEEEEcCCCcHHHHHHH----hcC-CcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhh
Q 002135 320 LLAMTKAFDASIDIGVYDGDTTQKDRMWL----RDN-ARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYL 394 (961)
Q Consensus 320 l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l----~~~-~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~ 394 (961)
+.+++..++ +.|+...|.....+|+.+ .++ .+|+|+|.--+.+. ..|.++
T Consensus 331 ~~~~l~~~~--i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~---------V~F~~L-------------- 385 (677)
T COG1200 331 LRKWLEPLG--IRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDK---------VEFHNL-------------- 385 (677)
T ss_pred HHHHhhhcC--CeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhcc---------eeecce--------------
Confidence 999999776 889999999888777544 344 79999997655433 235566
Q ss_pred hhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCC-CCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccc
Q 002135 395 IFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGS-DPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCA 473 (961)
Q Consensus 395 ~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~-~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~ 473 (961)
.+||+||=|+ ||.+-+..|+.- +. .|.++.||||+ =|+..+...+|.-++..|+ .-|.+
T Consensus 386 -----gLVIiDEQHR----FGV~QR~~L~~K--------G~~~Ph~LvMTATP-IPRTLAlt~fgDldvS~Id--ElP~G 445 (677)
T COG1200 386 -----GLVIIDEQHR----FGVHQRLALREK--------GEQNPHVLVMTATP-IPRTLALTAFGDLDVSIID--ELPPG 445 (677)
T ss_pred -----eEEEEecccc----ccHHHHHHHHHh--------CCCCCcEEEEeCCC-chHHHHHHHhccccchhhc--cCCCC
Confidence 9999999999 787765544322 44 68999999995 6888888888865555443 33444
Q ss_pred eeEEE-EeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHH----HHHHHH
Q 002135 474 QKLFV-LWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVL----SYTREI 548 (961)
Q Consensus 474 ~~~~~-l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~----~~L~~~ 548 (961)
.+... .| .......++...+...+.+|.++.+.|+-.++.|.+- ..+.+.
T Consensus 446 RkpI~T~~-------------------------i~~~~~~~v~e~i~~ei~~GrQaY~VcPLIeESE~l~l~~a~~~~~~ 500 (677)
T COG1200 446 RKPITTVV-------------------------IPHERRPEVYERIREEIAKGRQAYVVCPLIEESEKLELQAAEELYEE 500 (677)
T ss_pred CCceEEEE-------------------------eccccHHHHHHHHHHHHHcCCEEEEEeccccccccchhhhHHHHHHH
Confidence 32211 11 1123345566667666779999999999888777332 222222
Q ss_pred HHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC-CHhhHHHHhccCCCC
Q 002135 549 LEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG-SIASLWQQAGRSGRR 627 (961)
Q Consensus 549 l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~-s~~sy~QR~GRAGR~ 627 (961)
+.... ...++..+||.|+++++++++++|++|+++|||||.+.|.|||+|+..+.|..+.-+ -.+++.|-.||.||.
T Consensus 501 L~~~~--~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG 578 (677)
T COG1200 501 LKSFL--PELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRG 578 (677)
T ss_pred HHHHc--ccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeEEEecccCCCCeEEEEechhhhhHHHHHHhccccCCC
Confidence 22222 233589999999999999999999999999999999999999999999988888765 789999999999999
Q ss_pred CCCceEEEEeeC
Q 002135 628 ERPSLAVYVAFE 639 (961)
Q Consensus 628 g~~g~~i~l~~~ 639 (961)
+..++|++++..
T Consensus 579 ~~qSyC~Ll~~~ 590 (677)
T COG1200 579 DLQSYCVLLYKP 590 (677)
T ss_pred CcceEEEEEeCC
Confidence 999999988743
No 88
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.96 E-value=1.3e-26 Score=281.96 Aligned_cols=316 Identities=19% Similarity=0.200 Sum_probs=211.4
Q ss_pred CCcHHHHHHHHHHhCC---CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCc
Q 002135 255 KLYSHQAESIMASLAG---KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASI 331 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G---~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i 331 (961)
.|++.|.+|++.+.++ +++++.++||||||++|+.++...+.. +.++|+++|+++|+.|+.+++++.+ + .
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~--g~~vLvLvPt~~L~~Q~~~~l~~~f---g--~ 216 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQ--GKQALVLVPEIALTPQMLARFRARF---G--A 216 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHc--CCeEEEEeCcHHHHHHHHHHHHHHh---C--C
Confidence 6999999999999874 789999999999999999888777764 6789999999999999999998753 2 5
Q ss_pred cEEEEcCCCcHHHHHH----Hh-cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEec
Q 002135 332 DIGVYDGDTTQKDRMW----LR-DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDE 406 (961)
Q Consensus 332 ~v~~~~Gd~~~~~r~~----l~-~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDE 406 (961)
.+.+++|+.+..++.. +. ..++|+|+||..+. ..+.++ ++|||||
T Consensus 217 ~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~-----------~p~~~l-------------------~liVvDE 266 (679)
T PRK05580 217 PVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF-----------LPFKNL-------------------GLIIVDE 266 (679)
T ss_pred CEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc-----------ccccCC-------------------CEEEEEC
Confidence 6888898877655432 22 34899999997653 124555 9999999
Q ss_pred chhhhcc--cc--hHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCcccee--EEEEe
Q 002135 407 AHAYKGA--FG--CHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQK--LFVLW 480 (961)
Q Consensus 407 aH~~~~~--fg--~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~--~~~l~ 480 (961)
+|..+-. .+ .+...+. .++. . ..+.++|++|||++ .+....-..|. ...+....++.+.. ...+.
T Consensus 267 eh~~s~~~~~~p~y~~r~va-~~ra---~--~~~~~~il~SATps-~~s~~~~~~g~--~~~~~l~~r~~~~~~p~v~~i 337 (679)
T PRK05580 267 EHDSSYKQQEGPRYHARDLA-VVRA---K--LENIPVVLGSATPS-LESLANAQQGR--YRLLRLTKRAGGARLPEVEII 337 (679)
T ss_pred CCccccccCcCCCCcHHHHH-HHHh---h--ccCCCEEEEcCCCC-HHHHHHHhccc--eeEEEeccccccCCCCeEEEE
Confidence 9986531 11 1222221 1111 1 24679999999964 33222222222 33333322221100 00000
Q ss_pred CCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHH-----------------------
Q 002135 481 NPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKL----------------------- 537 (961)
Q Consensus 481 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~----------------------- 537 (961)
+. ..... ......-...+...+.+.+++|.++|+|+|+|..
T Consensus 338 d~---------------~~~~~-~~~~~~ls~~l~~~i~~~l~~g~qvll~~nrrGy~~~~~C~~Cg~~~~C~~C~~~l~ 401 (679)
T PRK05580 338 DM---------------RELLR-GENGSFLSPPLLEAIKQRLERGEQVLLFLNRRGYAPFLLCRDCGWVAECPHCDASLT 401 (679)
T ss_pred ec---------------hhhhh-hcccCCCCHHHHHHHHHHHHcCCeEEEEEcCCCCCCceEhhhCcCccCCCCCCCcee
Confidence 00 00000 0000111234556666777788899999987532
Q ss_pred -------------------------------------HHHHHHHHHHHHHhhCCcccccEEEEcCCCC--HHHHHHHHHH
Q 002135 538 -------------------------------------CELVLSYTREILEETAPHLVDSICVYRAGYV--AEDRRRIERD 578 (961)
Q Consensus 538 -------------------------------------ae~l~~~L~~~l~~~~~~l~~~v~~~hggls--~~eR~~ie~~ 578 (961)
++.+++.+++ ..+ ..++...|++++ +.++++++++
T Consensus 402 ~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~l~~~g~G~e~~~e~l~~----~fp--~~~v~~~~~d~~~~~~~~~~~l~~ 475 (679)
T PRK05580 402 LHRFQRRLRCHHCGYQEPIPKACPECGSTDLVPVGPGTERLEEELAE----LFP--EARILRIDRDTTRRKGALEQLLAQ 475 (679)
T ss_pred EECCCCeEECCCCcCCCCCCCCCCCCcCCeeEEeeccHHHHHHHHHH----hCC--CCcEEEEeccccccchhHHHHHHH
Confidence 2333333332 222 236788899886 4679999999
Q ss_pred HhCCCceEEEeccccccccccCCccEEEEe--CCCCC----------HhhHHHHhccCCCCCCCceEEEEee
Q 002135 579 FFGGKLCGVAATNALELGIDVGHIDVTLHL--GFPGS----------IASLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 579 f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~--~~P~s----------~~sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
|++|+.+|||+|+++++|+|+|++++|+.. |.+-+ ...|+|++|||||.++.|.+++...
T Consensus 476 f~~g~~~ILVgT~~iakG~d~p~v~lV~il~aD~~l~~pdfra~Er~~~~l~q~~GRagR~~~~g~viiqT~ 547 (679)
T PRK05580 476 FARGEADILIGTQMLAKGHDFPNVTLVGVLDADLGLFSPDFRASERTFQLLTQVAGRAGRAEKPGEVLIQTY 547 (679)
T ss_pred HhcCCCCEEEEChhhccCCCCCCcCEEEEEcCchhccCCccchHHHHHHHHHHHHhhccCCCCCCEEEEEeC
Confidence 999999999999999999999999998655 44432 3679999999999999999986553
No 89
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=99.95 E-value=1.2e-27 Score=280.68 Aligned_cols=367 Identities=21% Similarity=0.259 Sum_probs=265.3
Q ss_pred ccHHHHHHH-HhCCCCCCcHHHHHHHH--HHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHH
Q 002135 240 LLDNTKSAL-KSTGISKLYSHQAESIM--ASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQ 316 (961)
Q Consensus 240 L~~~l~~~L-~~~g~~~l~~~Q~~ai~--~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq 316 (961)
+++.+.... +..|+.++|.+|++++. .++.++|.|..+||+.|||+++.+-++..+... ...++.+.|-.+.++.-
T Consensus 207 ~~~k~~~~~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~-rr~~llilp~vsiv~Ek 285 (1008)
T KOG0950|consen 207 LPTKVSHLYAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCR-RRNVLLILPYVSIVQEK 285 (1008)
T ss_pred CchHHHHHHHHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHH-hhceeEecceeehhHHH
Confidence 455555444 56899999999999985 588999999999999999999999888776643 56789999999999998
Q ss_pred HHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhh
Q 002135 317 LRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIF 396 (961)
Q Consensus 317 ~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~ 396 (961)
...+..+...+| +.+..|.|..+... .++.-.+.|+|.|+-+..+ ...+.. +.+
T Consensus 286 ~~~l~~~~~~~G--~~ve~y~g~~~p~~---~~k~~sv~i~tiEkansli-------n~lie~--------------g~~ 339 (1008)
T KOG0950|consen 286 ISALSPFSIDLG--FPVEEYAGRFPPEK---RRKRESVAIATIEKANSLI-------NSLIEQ--------------GRL 339 (1008)
T ss_pred HhhhhhhccccC--CcchhhcccCCCCC---cccceeeeeeehHhhHhHH-------HHHHhc--------------CCc
Confidence 888888877665 66777778766544 3455789999999865433 111111 122
Q ss_pred cceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCcccee
Q 002135 397 LFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQK 475 (961)
Q Consensus 397 ~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~ 475 (961)
..+++|||||.|.+.+ ++|..++.++..+...+.. ...|+|++|||++|-.....||- ..+.....+|.+.+
T Consensus 340 ~~~g~vvVdElhmi~d~~rg~~lE~~l~k~~y~~~~---~~~~iIGMSATi~N~~lL~~~L~----A~~y~t~fRPv~L~ 412 (1008)
T KOG0950|consen 340 DFLGMVVVDELHMIGDKGRGAILELLLAKILYENLE---TSVQIIGMSATIPNNSLLQDWLD----AFVYTTRFRPVPLK 412 (1008)
T ss_pred cccCcEEEeeeeeeeccccchHHHHHHHHHHHhccc---cceeEeeeecccCChHHHHHHhh----hhheecccCcccch
Confidence 3349999999999987 5999999999999887643 34789999999999877666663 44555666777666
Q ss_pred EEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhh---
Q 002135 476 LFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEET--- 552 (961)
Q Consensus 476 ~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~--- 552 (961)
.+....+..+... ...................++ +.+..+..+...++.++||||++|+.||.++..+...+...
T Consensus 413 E~ik~G~~i~~~~-r~~~lr~ia~l~~~~~g~~dp-D~~v~L~tet~~e~~~~lvfc~sk~~ce~~a~~~~~~vpk~~~~ 490 (1008)
T KOG0950|consen 413 EYIKPGSLIYESS-RNKVLREIANLYSSNLGDEDP-DHLVGLCTETAPEGSSVLVFCPSKKNCENVASLIAKKVPKHIKS 490 (1008)
T ss_pred hccCCCcccccch-hhHHHHHhhhhhhhhcccCCC-cceeeehhhhhhcCCeEEEEcCcccchHHHHHHHHHHhhHhhhh
Confidence 6554443333221 000000000000011112233 44556666777788899999999999999876543322110
Q ss_pred ---------------------------CCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEE
Q 002135 553 ---------------------------APHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVT 605 (961)
Q Consensus 553 ---------------------------~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~V 605 (961)
...+..++.+||+|++.++|+.++..|++|.+.+++||+++..|++.|..+++
T Consensus 491 e~~~~~~~~~s~s~~lr~~~~~ld~Vl~~ti~~GvAyHhaGLT~eER~~iE~afr~g~i~vl~aTSTlaaGVNLPArRVI 570 (1008)
T KOG0950|consen 491 EKRLGLWELLSISNLLRRIPGILDPVLAKTIPYGVAYHHAGLTSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVI 570 (1008)
T ss_pred hhhhhHHHHHHHHhHhhcCCcccchHHheeccccceecccccccchHHHHHHHHHhcCeEEEEecchhhccCcCCcceeE
Confidence 00123378899999999999999999999999999999999999999999998
Q ss_pred EEeCC----CCCHhhHHHHhccCCCCCCC--ceEEEEeeCCcc
Q 002135 606 LHLGF----PGSIASLWQQAGRSGRRERP--SLAVYVAFEGPL 642 (961)
Q Consensus 606 I~~~~----P~s~~sy~QR~GRAGR~g~~--g~~i~l~~~~~~ 642 (961)
|-.-+ ..+...|.||+|||||.|-+ |.+++++...+.
T Consensus 571 iraP~~g~~~l~~~~YkQM~GRAGR~gidT~GdsiLI~k~~e~ 613 (1008)
T KOG0950|consen 571 IRAPYVGREFLTRLEYKQMVGRAGRTGIDTLGDSILIIKSSEK 613 (1008)
T ss_pred EeCCccccchhhhhhHHhhhhhhhhcccccCcceEEEeeccch
Confidence 85532 34889999999999999764 667877765543
No 90
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=99.94 E-value=3.9e-25 Score=252.64 Aligned_cols=385 Identities=21% Similarity=0.216 Sum_probs=272.0
Q ss_pred CCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh-HhhCCCCccE
Q 002135 255 KLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM-TKAFDASIDI 333 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l-~~~~~~~i~v 333 (961)
..+.+-.+.+..+.+++-+||.++||||||..---.+.+.-... .+++-+.-|+|--|...+++...- ...+|..+..
T Consensus 51 PI~~~r~~il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~-~g~I~~TQPRRVAavslA~RVAeE~~~~lG~~VGY 129 (674)
T KOG0922|consen 51 PIYKYRDQILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFAS-SGKIACTQPRRVAAVSLAKRVAEEMGCQLGEEVGY 129 (674)
T ss_pred CHHHHHHHHHHHHHHCCEEEEEcCCCCCccccHhHHHHhccccc-CCcEEeecCchHHHHHHHHHHHHHhCCCcCceeee
Confidence 34666678888899999999999999999984322233332222 344788889998888887777543 2333333333
Q ss_pred EEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcc
Q 002135 334 GVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA 413 (961)
Q Consensus 334 ~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~ 413 (961)
.+..-|+.. +..+|.+.|-++|...++. ...|+.+ ++|||||||.
T Consensus 130 ~IRFed~ts-------~~TrikymTDG~LLRE~l~-----Dp~LskY-------------------svIIlDEAHE---- 174 (674)
T KOG0922|consen 130 TIRFEDSTS-------KDTRIKYMTDGMLLREILK-----DPLLSKY-------------------SVIILDEAHE---- 174 (674)
T ss_pred EEEecccCC-------CceeEEEecchHHHHHHhc-----CCccccc-------------------cEEEEechhh----
Confidence 333333322 2368999999999766542 2335555 9999999998
Q ss_pred cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCcccccccccc
Q 002135 414 FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKS 493 (961)
Q Consensus 414 fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~ 493 (961)
+.-+...++-.|+++... ..+.++|.+|||+. . +.+..+++. +.++...|+..+...++...|..
T Consensus 175 Rsl~TDiLlGlLKki~~~--R~~LklIimSATld-a-~kfS~yF~~--a~i~~i~GR~fPVei~y~~~p~~--------- 239 (674)
T KOG0922|consen 175 RSLHTDILLGLLKKILKK--RPDLKLIIMSATLD-A-EKFSEYFNN--APILTIPGRTFPVEILYLKEPTA--------- 239 (674)
T ss_pred hhhHHHHHHHHHHHHHhc--CCCceEEEEeeeec-H-HHHHHHhcC--CceEeecCCCCceeEEeccCCch---------
Confidence 667778888888888765 45679999999984 4 445555543 67888899988888777654432
Q ss_pred ccccchhhhcccCCCCcHHHHHHHHHHHH--HCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHH
Q 002135 494 QTDMDDTRNAANKTSSPISEVSYLFAEMV--QHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAED 571 (961)
Q Consensus 494 ~~~~~~~~~~~~~~~~~~~~~~~ll~~l~--~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~e 571 (961)
+-.......+.++. +..+-+|||....++.|..++.|.+...........-+.++||.|+.++
T Consensus 240 ---------------dYv~a~~~tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~ 304 (674)
T KOG0922|consen 240 ---------------DYVDAALITVIQIHLTEPPGDILVFLTGQEEIEAACELLRERAKSLPEDCPELILPLYGALPSEE 304 (674)
T ss_pred ---------------hhHHHHHHHHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHHhhhccccCcceeeeecccCCHHH
Confidence 11222222222222 2345899999999999999999988766554443335678999999999
Q ss_pred HHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCC------------------CCCHhhHHHHhccCCCCCCCceE
Q 002135 572 RRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGF------------------PGSIASLWQQAGRSGRRERPSLA 633 (961)
Q Consensus 572 R~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~------------------P~s~~sy~QR~GRAGR~g~~g~~ 633 (961)
+.++.+.-..|..+|++|||++|..|.|+++..||..|+ |-|.++-.||+|||||. ++|.|
T Consensus 305 Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt-~pGkc 383 (674)
T KOG0922|consen 305 QSRVFDPAPPGKRKVILSTNIAETSLTIDGIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRT-GPGKC 383 (674)
T ss_pred hhccccCCCCCcceEEEEcceeeeeEEecceEEEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCC-CCceE
Confidence 999999988999999999999999999999999997764 55889999999999998 68999
Q ss_pred EEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCCHHHHHHHHHHCCccccC
Q 002135 634 VYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSGLSSGITTLKNRGYLSSD 713 (961)
Q Consensus 634 i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~~~~~l~~L~~~g~l~~~ 713 (961)
+-++..+..+.+-... ..| +.-.|.....-.+.+.....++++.+.+.+-.+.+..+++.|...|.|..+
T Consensus 384 yRLYte~~~~~~~~~~-------~PE---I~R~~Ls~~vL~Lkalgi~d~l~F~f~d~P~~~~l~~AL~~L~~lgald~~ 453 (674)
T KOG0922|consen 384 YRLYTESAYDKMPLQT-------VPE---IQRVNLSSAVLQLKALGINDPLRFPFIDPPPPEALEEALEELYSLGALDDR 453 (674)
T ss_pred EEeeeHHHHhhcccCC-------CCc---eeeechHHHHHHHHhcCCCCcccCCCCCCCChHHHHHHHHHHHhcCcccCc
Confidence 9988755443221111 111 122233344445555555667777666766667789999999999999866
Q ss_pred CCC
Q 002135 714 PSL 716 (961)
Q Consensus 714 ~~~ 716 (961)
+..
T Consensus 454 g~l 456 (674)
T KOG0922|consen 454 GKL 456 (674)
T ss_pred CCc
Confidence 554
No 91
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.94 E-value=4.4e-25 Score=256.76 Aligned_cols=314 Identities=20% Similarity=0.202 Sum_probs=199.9
Q ss_pred CCcHHHHHHHHHHhC----CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCC
Q 002135 255 KLYSHQAESIMASLA----GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDAS 330 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~----G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~ 330 (961)
.|+++|.+|+.++.+ ++..++++|||+|||.++...+-.. ...+|||+|+++|+.|+.+.+...... .
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~-----~~~~Lvlv~~~~L~~Qw~~~~~~~~~~---~ 107 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAEL-----KRSTLVLVPTKELLDQWAEALKKFLLL---N 107 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHh-----cCCEEEEECcHHHHHHHHHHHHHhcCC---c
Confidence 699999999999988 8999999999999999886655443 334999999999999998777665431 1
Q ss_pred ccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhh
Q 002135 331 IDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAY 410 (961)
Q Consensus 331 i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~ 410 (961)
..++.++|+..... . ..|.|+|-+++...- ....+..+ .+.+||+||||+.
T Consensus 108 ~~~g~~~~~~~~~~-----~-~~i~vat~qtl~~~~-----~l~~~~~~------------------~~~liI~DE~Hh~ 158 (442)
T COG1061 108 DEIGIYGGGEKELE-----P-AKVTVATVQTLARRQ-----LLDEFLGN------------------EFGLIIFDEVHHL 158 (442)
T ss_pred cccceecCceeccC-----C-CcEEEEEhHHHhhhh-----hhhhhccc------------------ccCEEEEEccccC
Confidence 34677777654322 1 579999999875320 11122221 1399999999997
Q ss_pred hcccchHHHHHHHHHHHHhhcccCCCCc-EEEeccCCCChH-HHHHHHcccCCeEEEecC-------CCccceeEEEEeC
Q 002135 411 KGAFGCHTALILRRLCRLCSHVYGSDPS-FVFSTATSANPR-EHCMELANLSTLELIQND-------GSPCAQKLFVLWN 481 (961)
Q Consensus 411 ~~~fg~~~~~ilrrL~~~~~~~~~~~~q-~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~-------g~p~~~~~~~l~~ 481 (961)
... . .+++..... .+. ++++|||+.... .....+.......+.+.. +--.+......+.
T Consensus 159 ~a~---~----~~~~~~~~~-----~~~~~LGLTATp~R~D~~~~~~l~~~~g~~vy~~~~~~li~~g~Lap~~~~~i~~ 226 (442)
T COG1061 159 PAP---S----YRRILELLS-----AAYPRLGLTATPEREDGGRIGDLFDLIGPIVYEVSLKELIDEGYLAPYKYVEIKV 226 (442)
T ss_pred CcH---H----HHHHHHhhh-----cccceeeeccCceeecCCchhHHHHhcCCeEeecCHHHHHhCCCccceEEEEEEe
Confidence 642 1 122222221 223 899999975333 122222221111121111 1112222222222
Q ss_pred CCccccccccc--cccccc------------hhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHH
Q 002135 482 PTSCLRSVLNK--SQTDMD------------DTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTRE 547 (961)
Q Consensus 482 p~~~~~~~~~~--~~~~~~------------~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~ 547 (961)
+.......... ...... ...........+...+..++.... ++.+++|||.+...++.++..+..
T Consensus 227 ~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~lif~~~~~~a~~i~~~~~~ 305 (442)
T COG1061 227 TLTEDEEREYAKESARFRELLRARGTLRAENEARRIAIASERKIAAVRGLLLKHA-RGDKTLIFASDVEHAYEIAKLFLA 305 (442)
T ss_pred ccchHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHhhccHHHHHHHHHHHHHhc-CCCcEEEEeccHHHHHHHHHHhcC
Confidence 11100000000 000000 000001111111122222222221 577999999999999999887643
Q ss_pred HHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCC
Q 002135 548 ILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRR 627 (961)
Q Consensus 548 ~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~ 627 (961)
.+. +..+.|..+..+|..+++.|+.|.+++||++.++..|+|+|+++++|......|...|.||+||.-|.
T Consensus 306 --------~~~-~~~it~~t~~~eR~~il~~fr~g~~~~lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~ 376 (442)
T COG1061 306 --------PGI-VEAITGETPKEEREAILERFRTGGIKVLVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRP 376 (442)
T ss_pred --------CCc-eEEEECCCCHHHHHHHHHHHHcCCCCEEEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhccC
Confidence 111 67889999999999999999999999999999999999999999999999999999999999999994
No 92
>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=99.94 E-value=3.2e-25 Score=261.00 Aligned_cols=292 Identities=17% Similarity=0.216 Sum_probs=191.9
Q ss_pred EEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHH----Hh
Q 002135 274 VVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMW----LR 349 (961)
Q Consensus 274 Iv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~----l~ 349 (961)
++.++||||||++|+..+...+.+ +.++||++|+++|+.|+++++++.+ + ..+.+++|..+..++.. +.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~--g~~vLvlvP~i~L~~Q~~~~l~~~f---~--~~v~vlhs~~~~~er~~~~~~~~ 73 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLAL--GKSVLVLVPEIALTPQMIQRFKYRF---G--SQVAVLHSGLSDSEKLQAWRKVK 73 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCcHHHHHHHHHHHHHHh---C--CcEEEEECCCCHHHHHHHHHHHH
Confidence 467999999999997666555543 6789999999999999999998754 2 46788898877665532 22
Q ss_pred -cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc--ccch--HHHHHHHH
Q 002135 350 -DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG--AFGC--HTALILRR 424 (961)
Q Consensus 350 -~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~--~fg~--~~~~ilrr 424 (961)
..++|+|+|+..+.. .+.++ ++|||||.|..+- ..+. +...+..
T Consensus 74 ~g~~~IVVGTrsalf~-----------p~~~l-------------------~lIIVDEeh~~sykq~~~p~y~ar~~a~- 122 (505)
T TIGR00595 74 NGEILVVIGTRSALFL-----------PFKNL-------------------GLIIVDEEHDSSYKQEEGPRYHARDVAV- 122 (505)
T ss_pred cCCCCEEECChHHHcC-----------cccCC-------------------CEEEEECCCccccccccCCCCcHHHHHH-
Confidence 347999999976531 24555 9999999998653 1121 2222211
Q ss_pred HHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccce---eEEEEeCCCccccccccccccccchhh
Q 002135 425 LCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQ---KLFVLWNPTSCLRSVLNKSQTDMDDTR 501 (961)
Q Consensus 425 L~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~---~~~~l~~p~~~~~~~~~~~~~~~~~~~ 501 (961)
++ .. ..+.++|++|||++ .+.......|. ...+....++... ...++ + ...
T Consensus 123 ~r---a~--~~~~~vil~SATPs-les~~~~~~g~--~~~~~l~~r~~~~~~p~v~vi-d---------------~~~-- 176 (505)
T TIGR00595 123 YR---AK--KFNCPVVLGSATPS-LESYHNAKQKA--YRLLVLTRRVSGRKPPEVKLI-D---------------MRK-- 176 (505)
T ss_pred HH---HH--hcCCCEEEEeCCCC-HHHHHHHhcCC--eEEeechhhhcCCCCCeEEEE-e---------------ccc--
Confidence 11 11 13578999999954 43333222221 2222222111110 00000 0 000
Q ss_pred hcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHH--------------------------------------------
Q 002135 502 NAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKL-------------------------------------------- 537 (961)
Q Consensus 502 ~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~-------------------------------------------- 537 (961)
..........+...+.+.+++|.++|||+|+|..
T Consensus 177 --~~~~~~ls~~l~~~i~~~l~~g~qvLvflnrrGya~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~ 254 (505)
T TIGR00595 177 --EPRQSFLSPELITAIEQTLAAGEQSILFLNRRGYSKNLLCRSCGYILCCPNCDVSLTYHKKEGKLRCHYCGYQEPIPK 254 (505)
T ss_pred --ccccCCccHHHHHHHHHHHHcCCcEEEEEeCCcCCCeeEhhhCcCccCCCCCCCceEEecCCCeEEcCCCcCcCCCCC
Confidence 0000112234566677777889999999888764
Q ss_pred ----------------HHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHH--HHHHHHHhCCCceEEEecccccccccc
Q 002135 538 ----------------CELVLSYTREILEETAPHLVDSICVYRAGYVAEDR--RRIERDFFGGKLCGVAATNALELGIDV 599 (961)
Q Consensus 538 ----------------ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR--~~ie~~f~~G~~~vLVAT~aLe~GIDI 599 (961)
+|.+.+.|++ ..+ ..++..+|++++..++ +++++.|++|+.+|||+|++++.|+|+
T Consensus 255 ~Cp~C~s~~l~~~g~Gte~~~e~l~~----~fp--~~~v~~~d~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~i~kG~d~ 328 (505)
T TIGR00595 255 TCPQCGSEDLVYKGYGTEQVEEELAK----LFP--GARIARIDSDTTSRKGAHEALLNQFANGKADILIGTQMIAKGHHF 328 (505)
T ss_pred CCCCCCCCeeEeecccHHHHHHHHHh----hCC--CCcEEEEecccccCccHHHHHHHHHhcCCCCEEEeCcccccCCCC
Confidence 2444444443 222 2368889999877665 899999999999999999999999999
Q ss_pred CCccEEE--EeCC----CC------CHhhHHHHhccCCCCCCCceEEEEe
Q 002135 600 GHIDVTL--HLGF----PG------SIASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 600 p~vd~VI--~~~~----P~------s~~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
|+|++|+ ++|. |. ....|+|++|||||.++.|.+++..
T Consensus 329 ~~v~lV~vl~aD~~l~~pd~ra~E~~~~ll~q~~GRagR~~~~g~viiqt 378 (505)
T TIGR00595 329 PNVTLVGVLDADSGLHSPDFRAAERGFQLLTQVAGRAGRAEDPGQVIIQT 378 (505)
T ss_pred CcccEEEEEcCcccccCcccchHHHHHHHHHHHHhccCCCCCCCEEEEEe
Confidence 9999885 5553 32 3577999999999999999887544
No 93
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.93 E-value=1.2e-24 Score=268.40 Aligned_cols=351 Identities=15% Similarity=0.130 Sum_probs=214.1
Q ss_pred CCcHHHHHHHHHHhCC--CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCcc
Q 002135 255 KLYSHQAESIMASLAG--KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASID 332 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G--~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~ 332 (961)
.|.|||..++..++.. .++++...+|.|||..+.+.+-..+..+...++|||+|. .|..|+..++.+.+. +.
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~-sL~~QW~~El~~kF~-----l~ 225 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPE-TLQHQWLVEMLRRFN-----LR 225 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCH-HHHHHHHHHHHHHhC-----CC
Confidence 6999999999887653 479999999999999998777766666666789999997 899999999865432 44
Q ss_pred EEEEcCCCcHHHHH---HHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh
Q 002135 333 IGVYDGDTTQKDRM---WLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA 409 (961)
Q Consensus 333 v~~~~Gd~~~~~r~---~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~ 409 (961)
..++++........ ......+++|++.+.+... ..+...+.... +++|||||||+
T Consensus 226 ~~i~~~~~~~~~~~~~~~pf~~~~~vI~S~~~l~~~-----~~~~~~l~~~~-----------------wdlvIvDEAH~ 283 (956)
T PRK04914 226 FSLFDEERYAEAQHDADNPFETEQLVICSLDFLRRN-----KQRLEQALAAE-----------------WDLLVVDEAHH 283 (956)
T ss_pred eEEEcCcchhhhcccccCccccCcEEEEEHHHhhhC-----HHHHHHHhhcC-----------------CCEEEEechhh
Confidence 56666554221110 1112357999999877531 22222232221 29999999999
Q ss_pred hhcc--cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC--ChHHHHHHHcccCCeEEEe-------------------
Q 002135 410 YKGA--FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA--NPREHCMELANLSTLELIQ------------------- 466 (961)
Q Consensus 410 ~~~~--fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~--n~~e~~~~L~~~~~~~~i~------------------- 466 (961)
+... ..+... +.++.++. ..+.++++|||+- ++.++...| ...++..+.
T Consensus 284 lk~~~~~~s~~y---~~v~~La~----~~~~~LLLTATP~q~~~~e~falL-~lLdP~~f~~~~~F~~e~~~~~~~a~~v 355 (956)
T PRK04914 284 LVWSEEAPSREY---QVVEQLAE----VIPGVLLLTATPEQLGQESHFARL-RLLDPDRFHDYEAFVEEQQQYRPVADAV 355 (956)
T ss_pred hccCCCCcCHHH---HHHHHHhh----ccCCEEEEEcCcccCCcHHHHHhh-hhhCCCcCCCHHHHHHHHHhhHHHHHHH
Confidence 9631 122222 33333332 2356899999995 232322221 100000000
Q ss_pred ---cCCCc----------------------------------------------cceeEEEEeCCCcc-----ccccccc
Q 002135 467 ---NDGSP----------------------------------------------CAQKLFVLWNPTSC-----LRSVLNK 492 (961)
Q Consensus 467 ---~~g~p----------------------------------------------~~~~~~~l~~p~~~-----~~~~~~~ 492 (961)
.++.+ .+.....+.+.... .+.....
T Consensus 356 ~~l~~~~~~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~~fp~R~~~~~ 435 (956)
T PRK04914 356 QALLAGEKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVKGFPKRELHPI 435 (956)
T ss_pred HHHhcCCcCCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhcCCCcCceeEe
Confidence 00000 00000111110000 0000000
Q ss_pred cccccchhhh---------------------c------ccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHH
Q 002135 493 SQTDMDDTRN---------------------A------ANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYT 545 (961)
Q Consensus 493 ~~~~~~~~~~---------------------~------~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L 545 (961)
.......... . ......+...+..++... .+.|+||||+++..+..+.+.|
T Consensus 436 ~l~~~~~y~~~~~~~~~~~~~~~l~pe~~~~~~~~~~~~~~~d~Ki~~L~~~L~~~--~~~KvLVF~~~~~t~~~L~~~L 513 (956)
T PRK04914 436 PLPLPEQYQTAIKVSLEARARDMLYPEQIYQEFEDNATWWNFDPRVEWLIDFLKSH--RSEKVLVICAKAATALQLEQAL 513 (956)
T ss_pred ecCCCHHHHHHHHHhHHHHHHhhcCHHHHHHHHhhhhhccccCHHHHHHHHHHHhc--CCCeEEEEeCcHHHHHHHHHHH
Confidence 0000000000 0 000111222222222221 2579999999999999999888
Q ss_pred HHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCC--CceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhcc
Q 002135 546 REILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGG--KLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGR 623 (961)
Q Consensus 546 ~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G--~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GR 623 (961)
+.. .+..+..+||++++.+|.++.+.|+++ ..+|||||++.++|+|++.+++||+||+|++.+.|.||+||
T Consensus 514 ~~~-------~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VLIsTdvgseGlNlq~a~~VInfDlP~nP~~~eQRIGR 586 (956)
T PRK04914 514 RER-------EGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLCSEIGSEGRNFQFASHLVLFDLPFNPDLLEQRIGR 586 (956)
T ss_pred hhc-------cCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEEEechhhccCCCcccccEEEEecCCCCHHHHHHHhcc
Confidence 541 345688999999999999999999974 69999999999999999999999999999999999999999
Q ss_pred CCCCCCCceEEEEe--eCCcchhHHHhch
Q 002135 624 SGRRERPSLAVYVA--FEGPLDQYFMKYP 650 (961)
Q Consensus 624 AGR~g~~g~~i~l~--~~~~~d~~~~~~~ 650 (961)
+||.|+.+.+.+.. ..+..+..+.+..
T Consensus 587 ~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~ 615 (956)
T PRK04914 587 LDRIGQKHDIQIHVPYLEGTAQERLFRWY 615 (956)
T ss_pred cccCCCCceEEEEEccCCCCHHHHHHHHH
Confidence 99999988654333 2333444444433
No 94
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=99.93 E-value=3.5e-24 Score=258.81 Aligned_cols=383 Identities=18% Similarity=0.158 Sum_probs=259.1
Q ss_pred CcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHh-hCCCCccEE
Q 002135 256 LYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTK-AFDASIDIG 334 (961)
Q Consensus 256 l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~-~~~~~i~v~ 334 (961)
.+....+.+.++.+.+-+||+++||||||...-..+++... ..++++.+.-|.|--|....+++..... ..+..+...
T Consensus 51 v~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~-~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~ 129 (845)
T COG1643 51 VTAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGL-GIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYS 129 (845)
T ss_pred cHHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhc-ccCCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEE
Confidence 45566777788888899999999999999976555665544 2356788888999888888888765432 222212111
Q ss_pred EEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhccc
Q 002135 335 VYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAF 414 (961)
Q Consensus 335 ~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~f 414 (961)
+..-+ ......+|-++|.++|...+. ....|+.+ ++|||||+|+ +
T Consensus 130 iRfe~-------~~s~~Trik~mTdGiLlrei~-----~D~~Ls~y-------------------s~vIiDEaHE----R 174 (845)
T COG1643 130 IRFES-------KVSPRTRIKVMTDGILLREIQ-----NDPLLSGY-------------------SVVIIDEAHE----R 174 (845)
T ss_pred EEeec-------cCCCCceeEEeccHHHHHHHh-----hCcccccC-------------------CEEEEcchhh----h
Confidence 11111 123357899999999987763 22346666 9999999998 5
Q ss_pred chHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccc
Q 002135 415 GCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQ 494 (961)
Q Consensus 415 g~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~ 494 (961)
.-+...+|..++++.... ..+.++|.||||+. .+. +..+++. +.++..+|+..+....+...+...
T Consensus 175 Sl~tDilLgllk~~~~~r-r~DLKiIimSATld-~~r-fs~~f~~--apvi~i~GR~fPVei~Y~~~~~~d--------- 240 (845)
T COG1643 175 SLNTDILLGLLKDLLARR-RDDLKLIIMSATLD-AER-FSAYFGN--APVIEIEGRTYPVEIRYLPEAEAD--------- 240 (845)
T ss_pred hHHHHHHHHHHHHHHhhc-CCCceEEEEecccC-HHH-HHHHcCC--CCEEEecCCccceEEEecCCCCcc---------
Confidence 566777777777765542 34689999999984 444 4444442 778888998877766553222110
Q ss_pred cccchhhhcccCCCCcHHHHHHHHHHHHH-CCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHH
Q 002135 495 TDMDDTRNAANKTSSPISEVSYLFAEMVQ-HGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRR 573 (961)
Q Consensus 495 ~~~~~~~~~~~~~~~~~~~~~~ll~~l~~-~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~ 573 (961)
......+...+..... ..+.+|||.+..++.+..++.|.+ .... ....|.++||.++.+++.
T Consensus 241 -------------~~l~~ai~~~v~~~~~~~~GdILvFLpG~~EI~~~~~~L~~--~~l~--~~~~i~PLy~~L~~~eQ~ 303 (845)
T COG1643 241 -------------YILLDAIVAAVDIHLREGSGSILVFLPGQREIERTAEWLEK--AELG--DDLEILPLYGALSAEEQV 303 (845)
T ss_pred -------------hhHHHHHHHHHHHhccCCCCCEEEECCcHHHHHHHHHHHHh--cccc--CCcEEeeccccCCHHHHH
Confidence 0012233333333333 346999999999999999988876 1111 123688999999999999
Q ss_pred HHHHHHhCCCceEEEeccccccccccCCccEEEEeCC------------------CCCHhhHHHHhccCCCCCCCceEEE
Q 002135 574 RIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGF------------------PGSIASLWQQAGRSGRRERPSLAVY 635 (961)
Q Consensus 574 ~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~------------------P~s~~sy~QR~GRAGR~g~~g~~i~ 635 (961)
++++--..|+.+||+|||++|.+|.|++|.+||..|. |-|-++.-||+|||||. .+|.|+-
T Consensus 304 rvF~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR~-~pGicyR 382 (845)
T COG1643 304 RVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGRT-GPGICYR 382 (845)
T ss_pred hhcCCCCCCcceEEEEccccccceeeCCeEEEecCCcccccccccccCceeeeEEEechhhhhhhccccccC-CCceEEE
Confidence 9988888888889999999999999999999997774 44789999999999999 7899998
Q ss_pred EeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhc-CCCChhhhhhhccCCHHHHHHHHHHCCccccCC
Q 002135 636 VAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALE-HPLSLIYDEKYFGSGLSSGITTLKNRGYLSSDP 714 (961)
Q Consensus 636 l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e-~p~~~~~~~~~f~~~~~~~l~~L~~~g~l~~~~ 714 (961)
++..+....+....+.+++..++ .-+...+...... .+..+.+.+.+-...+.++++.|...|.|..++
T Consensus 383 Lyse~~~~~~~~~t~PEIlrtdL----------s~~vL~l~~~G~~~d~~~f~fld~P~~~~i~~A~~~L~~LGAld~~g 452 (845)
T COG1643 383 LYSEEDFLAFPEFTLPEILRTDL----------SGLVLQLKSLGIGQDIAPFPFLDPPPEAAIQAALTLLQELGALDDSG 452 (845)
T ss_pred ecCHHHHHhcccCCChhhhhcch----------HHHHHHHHhcCCCCCcccCccCCCCChHHHHHHHHHHHHcCCcCCCC
Confidence 88653333222222223332222 1122222222221 344444444444457889999999999998776
Q ss_pred CC
Q 002135 715 SL 716 (961)
Q Consensus 715 ~~ 716 (961)
..
T Consensus 453 ~L 454 (845)
T COG1643 453 KL 454 (845)
T ss_pred CC
Confidence 53
No 95
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.93 E-value=1e-23 Score=255.77 Aligned_cols=318 Identities=19% Similarity=0.235 Sum_probs=246.4
Q ss_pred HHHHHHHH-hCCCCCCcHHHHHHHHHHhC----C--CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 242 DNTKSALK-STGISKLYSHQAESIMASLA----G--KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 242 ~~l~~~L~-~~g~~~l~~~Q~~ai~~il~----G--~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
.+..+.+. .++| .-|+-|..||+.+.+ + .|-+||+.-|-|||.+++-+++..+.. ++.+.+++||.-||+
T Consensus 581 ~~~q~~F~~~FPy-eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~--GKQVAvLVPTTlLA~ 657 (1139)
T COG1197 581 TEWQEEFEASFPY-EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMD--GKQVAVLVPTTLLAQ 657 (1139)
T ss_pred hHHHHHHHhcCCC-cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcC--CCeEEEEcccHHhHH
Confidence 33344443 4666 579999999999874 3 389999999999999999999998876 689999999999999
Q ss_pred HHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHH----hcC-CcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcch
Q 002135 315 DQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWL----RDN-ARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVT 389 (961)
Q Consensus 315 qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l----~~~-~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~ 389 (961)
|.++.|++.+..++ ++|...+--...++...+ .++ .+|||+|.--|... ..++++
T Consensus 658 QHy~tFkeRF~~fP--V~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kd---------v~FkdL--------- 717 (1139)
T COG1197 658 QHYETFKERFAGFP--VRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKD---------VKFKDL--------- 717 (1139)
T ss_pred HHHHHHHHHhcCCC--eeEEEecccCCHHHHHHHHHHHhcCCccEEEechHhhCCC---------cEEecC---------
Confidence 99999999888665 778887777666655433 333 79999997544322 235566
Q ss_pred hhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCC
Q 002135 390 TEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDG 469 (961)
Q Consensus 390 ~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g 469 (961)
+++||||=|+ ||..-..-|+.|+ .+..++-+|||+ =|+..-+.+.|.++..+|...-
T Consensus 718 ----------GLlIIDEEqR----FGVk~KEkLK~Lr--------~~VDvLTLSATP-IPRTL~Msm~GiRdlSvI~TPP 774 (1139)
T COG1197 718 ----------GLLIIDEEQR----FGVKHKEKLKELR--------ANVDVLTLSATP-IPRTLNMSLSGIRDLSVIATPP 774 (1139)
T ss_pred ----------CeEEEechhh----cCccHHHHHHHHh--------ccCcEEEeeCCC-CcchHHHHHhcchhhhhccCCC
Confidence 9999999999 6765555555554 467899999995 6788888899988887776542
Q ss_pred Ccc-ceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHH
Q 002135 470 SPC-AQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREI 548 (961)
Q Consensus 470 ~p~-~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~ 548 (961)
..+ +.+.++. ..+. ..+...+..-+.+|+++..-+|..+..+.+++.|++.
T Consensus 775 ~~R~pV~T~V~---------------------------~~d~-~~ireAI~REl~RgGQvfYv~NrV~~Ie~~~~~L~~L 826 (1139)
T COG1197 775 EDRLPVKTFVS---------------------------EYDD-LLIREAILRELLRGGQVFYVHNRVESIEKKAERLREL 826 (1139)
T ss_pred CCCcceEEEEe---------------------------cCCh-HHHHHHHHHHHhcCCEEEEEecchhhHHHHHHHHHHh
Confidence 211 1111111 1111 2233344444457789999999999999999888774
Q ss_pred HHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC-CHhhHHHHhccCCCC
Q 002135 549 LEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG-SIASLWQQAGRSGRR 627 (961)
Q Consensus 549 l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~-s~~sy~QR~GRAGR~ 627 (961)
.. +. +|++-||.|+..+-++++.+|-+|+.+|||||.+.|.|||||+++.+|..+.-. -.+++.|-.||.||.
T Consensus 827 VP----Ea--rI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANTiIIe~AD~fGLsQLyQLRGRVGRS 900 (1139)
T COG1197 827 VP----EA--RIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRS 900 (1139)
T ss_pred CC----ce--EEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeeecCcCCCCCceEEEeccccccHHHHHHhccccCCc
Confidence 43 32 588999999999999999999999999999999999999999999988777654 789999999999999
Q ss_pred CCCceEEEEeeC
Q 002135 628 ERPSLAVYVAFE 639 (961)
Q Consensus 628 g~~g~~i~l~~~ 639 (961)
.+.++|++++..
T Consensus 901 ~~~AYAYfl~p~ 912 (1139)
T COG1197 901 NKQAYAYFLYPP 912 (1139)
T ss_pred cceEEEEEeecC
Confidence 999999988753
No 96
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.92 E-value=3e-23 Score=248.40 Aligned_cols=349 Identities=15% Similarity=0.097 Sum_probs=218.2
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
..|. .||+.|.-+.-.+..|+ |..+.||+|||+++.+|++...+. +..+-+++|+--||.+-++.+..+...++
T Consensus 76 ~~g~-~~~dvQlig~l~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~--G~~v~vvT~neyLA~Rd~e~~~~~~~~LG- 149 (796)
T PRK12906 76 VLGL-RPFDVQIIGGIVLHEGN--IAEMKTGEGKTLTATLPVYLNALT--GKGVHVVTVNEYLSSRDATEMGELYRWLG- 149 (796)
T ss_pred HhCC-CCchhHHHHHHHHhcCC--cccccCCCCCcHHHHHHHHHHHHc--CCCeEEEeccHHHHHhhHHHHHHHHHhcC-
Confidence 3677 79999998877777777 999999999999999999877765 66788999999999999999999999876
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA 409 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~ 409 (961)
+++++..|+.+..+|+... .++|+++|...+--..|..+-... ... ....++.+.||||+|.
T Consensus 150 -l~vg~i~~~~~~~~r~~~y-~~dI~Y~t~~e~gfDyLRD~m~~~--~~~--------------~v~r~~~~aIvDEvDS 211 (796)
T PRK12906 150 -LTVGLNLNSMSPDEKRAAY-NCDITYSTNSELGFDYLRDNMVVY--KEQ--------------MVQRPLNYAIVDEVDS 211 (796)
T ss_pred -CeEEEeCCCCCHHHHHHHh-cCCCeecCCccccccchhhccccc--hhh--------------hhccCcceeeeccchh
Confidence 8889999988877765554 689999998766422222111000 000 0112348999999997
Q ss_pred hh-----------ccc-c-hHH----HHHHHHHHHHhh----------cc-cCCCCcEEEecc-------------CCCC
Q 002135 410 YK-----------GAF-G-CHT----ALILRRLCRLCS----------HV-YGSDPSFVFSTA-------------TSAN 448 (961)
Q Consensus 410 ~~-----------~~f-g-~~~----~~ilrrL~~~~~----------~~-~~~~~q~I~lSA-------------Tl~n 448 (961)
++ |.- + ..+ ..+...|..-.. ++ ....-+.+.+|. .+-+
T Consensus 212 iLiDeartPLiisg~~~~~~~~y~~~~~~v~~l~~~~~~~~~~~~~~~dy~id~~~k~v~lte~G~~~~e~~~~i~~l~~ 291 (796)
T PRK12906 212 ILIDEARTPLIISGQAEKATDLYIRADRFVKTLIKDEAEDGDDDEDTGDYKIDEKTKTISLTEQGIRKAEKLFGLDNLYD 291 (796)
T ss_pred eeeccCCCceecCCCCCcchHHHHHHHHHHHHHHhhhhccccccCCCCceEEEcccCceeecHHHHHHHHHHcCCccccC
Confidence 53 100 0 111 111122211000 00 000011111111 0000
Q ss_pred hH--HHH---------HHHcccC--------CeEEEec-CCC--------------------------------ccceeE
Q 002135 449 PR--EHC---------MELANLS--------TLELIQN-DGS--------------------------------PCAQKL 476 (961)
Q Consensus 449 ~~--e~~---------~~L~~~~--------~~~~i~~-~g~--------------------------------p~~~~~ 476 (961)
+. ... ..++... .+.+|+. .|+ -+....
T Consensus 292 ~~~~~~~~~i~~Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~ws~GLHQaieaKe~v~i~~e~~t~a~It~qnf 371 (796)
T PRK12906 292 SENTALAHHIDQALRANYIMLKDIDYVVQDGEVLIVDEFTGRVMEGRRYSDGLHQAIEAKEGVKIQEENQTLATITYQNF 371 (796)
T ss_pred chhhhHHHHHHHHHHHHHHHhcCCcEEEECCEEEEEeCCCCCcCCCCccChHHHHHHHHhcCCCcCCCceeeeeehHHHH
Confidence 00 000 0111100 0111110 000 000000
Q ss_pred E---------------------------EEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEE
Q 002135 477 F---------------------------VLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCI 529 (961)
Q Consensus 477 ~---------------------------~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~I 529 (961)
| ++.-|....... .+.+.........+...+...+......+.++|
T Consensus 372 Fr~Y~kl~GmTGTa~~e~~Ef~~iY~l~vv~IPtnkp~~r-------~d~~d~i~~t~~~K~~al~~~i~~~~~~g~pvL 444 (796)
T PRK12906 372 FRMYKKLSGMTGTAKTEEEEFREIYNMEVITIPTNRPVIR-------KDSPDLLYPTLDSKFNAVVKEIKERHAKGQPVL 444 (796)
T ss_pred HHhcchhhccCCCCHHHHHHHHHHhCCCEEEcCCCCCeee-------eeCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEE
Confidence 0 111111110000 000111112223344555666666666889999
Q ss_pred EEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecccccccccc---CCcc---
Q 002135 530 AFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDV---GHID--- 603 (961)
Q Consensus 530 VF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDI---p~vd--- 603 (961)
|||+|+..++.+++.|.+ .+.....+||.+...++..+.++++.|. |+||||+++||+|| ++|.
T Consensus 445 I~t~si~~se~ls~~L~~--------~gi~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnmAGRGtDI~l~~~V~~~G 514 (796)
T PRK12906 445 VGTVAIESSERLSHLLDE--------AGIPHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNMAGRGTDIKLGPGVKELG 514 (796)
T ss_pred EEeCcHHHHHHHHHHHHH--------CCCCeeEecCCcHHHHHHHHHhcCCCce--EEEEeccccCCCCCCCCcchhhhC
Confidence 999999999999998876 3446778999998888888888877776 99999999999999 4888
Q ss_pred --EEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEeeC
Q 002135 604 --VTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 604 --~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
+||+++.|.|...|.|++|||||.|.+|.+.+++..
T Consensus 515 GLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s~~~~sl 552 (796)
T PRK12906 515 GLAVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYLSL 552 (796)
T ss_pred CcEEEeeecCCcHHHHHHHhhhhccCCCCcceEEEEec
Confidence 999999999999999999999999999999876643
No 97
>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=99.91 E-value=2.6e-23 Score=217.80 Aligned_cols=183 Identities=24% Similarity=0.313 Sum_probs=148.4
Q ss_pred cccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC---CCCeEEEEccc
Q 002135 233 LVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD---LSSSALYMFPT 309 (961)
Q Consensus 233 f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~---~~~~aLvl~Pt 309 (961)
|.++ .+++.+.+.|.+.|++.|+++|.++++.+.+|+|+++++|||+|||++|++|++..+... .+.+++|++|+
T Consensus 1 ~~~~--~~~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~ 78 (203)
T cd00268 1 FEEL--GLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPT 78 (203)
T ss_pred CCcC--CCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCC
Confidence 4455 588999999999999999999999999999999999999999999999999999998875 56789999999
Q ss_pred HHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHH-HHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcc
Q 002135 310 KALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRM-WLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLV 388 (961)
Q Consensus 310 raLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~-~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~ 388 (961)
++|+.|+.+.+..+.... ++.+..+.|+....... .+..+++|+|+||+.|...+.... ..+.++
T Consensus 79 ~~L~~q~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~----~~~~~l-------- 144 (203)
T cd00268 79 RELALQIAEVARKLGKHT--NLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGK----LDLSKV-------- 144 (203)
T ss_pred HHHHHHHHHHHHHHhccC--CceEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCC----CChhhC--------
Confidence 999999999999887643 46777888877765443 344479999999999987653221 234455
Q ss_pred hhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH
Q 002135 389 TTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR 450 (961)
Q Consensus 389 ~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~ 450 (961)
+++|+||+|.+.+ .++..+..+++.+ ....|++++|||+++..
T Consensus 145 -----------~~lIvDE~h~~~~~~~~~~~~~~~~~l--------~~~~~~~~~SAT~~~~~ 188 (203)
T cd00268 145 -----------KYLVLDEADRMLDMGFEDQIREILKLL--------PKDRQTLLFSATMPKEV 188 (203)
T ss_pred -----------CEEEEeChHHhhccChHHHHHHHHHhC--------CcccEEEEEeccCCHHH
Confidence 9999999999875 3666666655543 23679999999998654
No 98
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.91 E-value=2.2e-22 Score=241.91 Aligned_cols=346 Identities=15% Similarity=0.117 Sum_probs=217.8
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
.+|. .+|+.|.-.--.+..|+ |..++||+|||++|.+|++..... +..+++++||++||.|.++.+..+...++
T Consensus 78 ~lg~-~~ydvQliGg~~Lh~G~--Iaem~TGeGKTL~a~Lpa~~~al~--G~~V~VvTpn~yLA~qd~e~m~~l~~~lG- 151 (896)
T PRK13104 78 TLGL-RHFDVQLIGGMVLHEGN--IAEMRTGEGKTLVATLPAYLNAIS--GRGVHIVTVNDYLAKRDSQWMKPIYEFLG- 151 (896)
T ss_pred HcCC-CcchHHHhhhhhhccCc--cccccCCCCchHHHHHHHHHHHhc--CCCEEEEcCCHHHHHHHHHHHHHHhcccC-
Confidence 3676 68888987766666665 889999999999999999977764 45699999999999999999999988776
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH-HHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecch
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDML-HMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAH 408 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L-~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH 408 (961)
+.+++..|+.+..++.... .++|+++||++| .+.|-.+ ..+ .+.. .....+.++||||||
T Consensus 152 -Ltv~~i~gg~~~~~r~~~y-~~dIvygT~grlgfDyLrd~-~~~--~~~~--------------~v~r~l~~~IvDEaD 212 (896)
T PRK13104 152 -LTVGVIYPDMSHKEKQEAY-KADIVYGTNNEYGFDYLRDN-MAF--SLTD--------------KVQRELNFAIVDEVD 212 (896)
T ss_pred -ceEEEEeCCCCHHHHHHHh-CCCEEEECChhhhHHHHhcC-Ccc--chHh--------------hhccccceEEeccHh
Confidence 7788888877666554333 689999999998 5554221 111 0110 011234999999999
Q ss_pred hhhcc--------cc-----hH-H---HHHHHHHHHHh------hcccCCCCcEEEeccC--------------------
Q 002135 409 AYKGA--------FG-----CH-T---ALILRRLCRLC------SHVYGSDPSFVFSTAT-------------------- 445 (961)
Q Consensus 409 ~~~~~--------fg-----~~-~---~~ilrrL~~~~------~~~~~~~~q~I~lSAT-------------------- 445 (961)
.++=+ .| .. + ..+.+.|..-. ......+.+.+.+|-.
T Consensus 213 siLIDeArtPLIISg~~~~~~~~y~~~~~~v~~l~~~~~~~~~~dy~idek~~~v~Lte~G~~~~e~~~~~~~il~~~~~ 292 (896)
T PRK13104 213 SILIDEARTPLIISGAAEDSSELYIKINSLIPQLKKQEEEGDEGDYTIDEKQKQAHLTDAGHLHIEELLTKAKLLDPGES 292 (896)
T ss_pred hhhhhccCCceeeeCCCccchHHHHHHHHHHHHHHhccccCCCCCEEEEcCCCceEEchHHHHHHHHHHHhCCccCCccc
Confidence 87410 01 11 1 12222222210 0000111222323221
Q ss_pred CCChH-----HH------HHHHcccC--------CeEEEecC-C--------------------------------Cccc
Q 002135 446 SANPR-----EH------CMELANLS--------TLELIQND-G--------------------------------SPCA 473 (961)
Q Consensus 446 l~n~~-----e~------~~~L~~~~--------~~~~i~~~-g--------------------------------~p~~ 473 (961)
+-++. .+ +..++... .+.+|+.. | +-..
T Consensus 293 l~~~~~~~~~~~i~~aL~A~~lf~~d~dYiV~dg~V~iVDe~TGR~m~grr~s~GLHQaiEaKE~v~i~~e~~t~AsIT~ 372 (896)
T PRK13104 293 LYHASNIMLMHHVNAALKAHAMFHRDIDYIVKDNQVVIVDEHTGRTMPGRRWSEGLHQAVEAKEGVPIQNENQTLASITF 372 (896)
T ss_pred ccCchhhhHHHHHHHHHHHHHHhcCCCceEEECCEEEEEECCCCCcCCCCCcChHHHHHHHHHcCCCCCCCceeeeeehH
Confidence 10110 00 01111111 01111110 0 0011
Q ss_pred eeEE---------------------------EEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCC
Q 002135 474 QKLF---------------------------VLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGL 526 (961)
Q Consensus 474 ~~~~---------------------------~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~ 526 (961)
...| ++.-|...... ..+...........+...+..-+..+...|.
T Consensus 373 Qn~Fr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~IPtnkp~~-------R~d~~d~v~~t~~~k~~av~~~i~~~~~~g~ 445 (896)
T PRK13104 373 QNFFRMYNKLSGMTGTADTEAYEFQQIYNLEVVVIPTNRSMI-------RKDEADLVYLTQADKFQAIIEDVRECGVRKQ 445 (896)
T ss_pred HHHHHhcchhccCCCCChhHHHHHHHHhCCCEEECCCCCCcc-------eecCCCeEEcCHHHHHHHHHHHHHHHHhCCC
Confidence 1111 11112111000 0011111223334455556666667778899
Q ss_pred cEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCC-----
Q 002135 527 RCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGH----- 601 (961)
Q Consensus 527 k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~----- 601 (961)
++||||+|+..+|.+++.|.+ .+.....+|+.+.+.+|..+.++|+.|. |+||||+++||+||.-
T Consensus 446 PVLVgt~Sie~sE~ls~~L~~--------~gi~h~vLnak~~q~Ea~iia~Ag~~G~--VtIATNmAGRGtDI~Lggn~~ 515 (896)
T PRK13104 446 PVLVGTVSIEASEFLSQLLKK--------ENIKHQVLNAKFHEKEAQIIAEAGRPGA--VTIATNMAGRGTDIVLGGSLA 515 (896)
T ss_pred CEEEEeCcHHHHHHHHHHHHH--------cCCCeEeecCCCChHHHHHHHhCCCCCc--EEEeccCccCCcceecCCchh
Confidence 999999999999999998876 4556789999999999999999999994 9999999999999941
Q ss_pred ----------------------------c-----cEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEe
Q 002135 602 ----------------------------I-----DVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 602 ----------------------------v-----d~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
| =+||-...+.|.--=.|-.|||||.|.||.+-++.
T Consensus 516 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGss~f~l 584 (896)
T PRK13104 516 ADLANLPADASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGSSRFYL 584 (896)
T ss_pred hhhhccccchhhHHHHHHHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEE
Confidence 1 16888888888888899999999999999885544
No 99
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.91 E-value=1.6e-22 Score=254.71 Aligned_cols=343 Identities=18% Similarity=0.132 Sum_probs=198.1
Q ss_pred CCcHHHHHHHHHHh----CC-CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 255 KLYSHQAESIMASL----AG-KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G-~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
.++++|.+||.++. .| ++.+++++||||||.++..-+...+......++|+|+|+++|..|..+.+..+......
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~~~ 492 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEGDQ 492 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhccccccc
Confidence 58999999998875 33 68999999999999986544433333444579999999999999999998876321110
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA 409 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~ 409 (961)
.+ ..+++... ... .......+|+|+|...+...++...... ....+..+++||+||||+
T Consensus 493 ~~-~~i~~i~~-L~~-~~~~~~~~I~iaTiQtl~~~~~~~~~~~------------------~~~~~~~fdlIIiDEaHR 551 (1123)
T PRK11448 493 TF-ASIYDIKG-LED-KFPEDETKVHVATVQGMVKRILYSDDPM------------------DKPPVDQYDCIIVDEAHR 551 (1123)
T ss_pred ch-hhhhchhh-hhh-hcccCCCCEEEEEHHHHHHhhhcccccc------------------ccCCCCcccEEEEECCCC
Confidence 00 01111100 001 1122347999999998865432111100 001122348999999998
Q ss_pred hhc----------ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEe-----cCCCcc--
Q 002135 410 YKG----------AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQ-----NDGSPC-- 472 (961)
Q Consensus 410 ~~~----------~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~-----~~g~p~-- 472 (961)
-.. .++.+ ...+..++++..++ +..+|++|||+.. .-..++|.. +.... .+|--.
T Consensus 552 s~~~d~~~~~~~~~~~~~-~~~~~~yr~iL~yF---dA~~IGLTATP~r---~t~~~FG~p-v~~Ysl~eAI~DG~Lv~~ 623 (1123)
T PRK11448 552 GYTLDKEMSEGELQFRDQ-LDYVSKYRRVLDYF---DAVKIGLTATPAL---HTTEIFGEP-VYTYSYREAVIDGYLIDH 623 (1123)
T ss_pred CCccccccccchhccchh-hhHHHHHHHHHhhc---CccEEEEecCCcc---chhHHhCCe-eEEeeHHHHHhcCCcccC
Confidence 421 01111 11234455555432 3467999999852 223344421 11100 122111
Q ss_pred --ceeEEEEeC-CCccccccc-----cccc-----c-ccchhhhc---ccC---CCCcHHHHH-HHHHHHHH-CCCcEEE
Q 002135 473 --AQKLFVLWN-PTSCLRSVL-----NKSQ-----T-DMDDTRNA---ANK---TSSPISEVS-YLFAEMVQ-HGLRCIA 530 (961)
Q Consensus 473 --~~~~~~l~~-p~~~~~~~~-----~~~~-----~-~~~~~~~~---~~~---~~~~~~~~~-~ll~~l~~-~g~k~IV 530 (961)
+........ ..+...... +... . ..+..... ... ..+....++ .++..+.. .+.++||
T Consensus 624 ~~p~~i~t~~~~~gi~~~~~e~~~~~~~~~~~i~~~~l~d~~~~~~~~~~~~vi~~~~~~~i~~~l~~~l~~~~~~KtiI 703 (1123)
T PRK11448 624 EPPIRIETRLSQEGIHFEKGEEVEVINTQTGEIDLATLEDEVDFEVEDFNRRVITESFNRVVCEELAKYLDPTGEGKTLI 703 (1123)
T ss_pred cCCEEEEEEeccccccccccchhhhcchhhhhhhhccCcHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCcEEE
Confidence 000000000 000000000 0000 0 00000000 000 000011111 12222211 2369999
Q ss_pred EecChHHHHHHHHHHHHHHHhhCCcc-cccEEEEcCCCCHHHHHHHHHHHhCCCc-eEEEeccccccccccCCccEEEEe
Q 002135 531 FCRSRKLCELVLSYTREILEETAPHL-VDSICVYRAGYVAEDRRRIERDFFGGKL-CGVAATNALELGIDVGHIDVTLHL 608 (961)
Q Consensus 531 F~~sr~~ae~l~~~L~~~l~~~~~~l-~~~v~~~hggls~~eR~~ie~~f~~G~~-~vLVAT~aLe~GIDIp~vd~VI~~ 608 (961)
||.++.+|+.+.+.|++.+....+.. ...+..++|+.+ ++.+++++|+++.. +|+|+++++..|+|+|.|++||.+
T Consensus 704 F~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p~IlVsvdmL~TG~DvP~v~~vVf~ 781 (1123)
T PRK11448 704 FAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKNERLPNIVVTVDLLTTGIDVPSICNLVFL 781 (1123)
T ss_pred EEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhCCCCCeEEEEecccccCCCcccccEEEEe
Confidence 99999999999999887765543333 234667888764 57789999999987 689999999999999999999999
Q ss_pred CCCCCHhhHHHHhccCCCCC
Q 002135 609 GFPGSIASLWQQAGRSGRRE 628 (961)
Q Consensus 609 ~~P~s~~sy~QR~GRAGR~g 628 (961)
..+.|...|+||+||+.|.-
T Consensus 782 rpvkS~~lf~QmIGRgtR~~ 801 (1123)
T PRK11448 782 RRVRSRILYEQMLGRATRLC 801 (1123)
T ss_pred cCCCCHHHHHHHHhhhccCC
Confidence 99999999999999999973
No 100
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.90 E-value=4.3e-22 Score=239.42 Aligned_cols=329 Identities=17% Similarity=0.126 Sum_probs=218.0
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHH-HHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVL-EALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil-~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
.+|. .+|+.|.-..-.+..|+ |..+.||+|||+++.+|++ ..+. +..+-+++||..||.|.++.+..+...++
T Consensus 77 ~lg~-~~~dvQlig~l~L~~G~--Iaem~TGeGKTLva~lpa~l~aL~---G~~V~IvTpn~yLA~rd~e~~~~l~~~LG 150 (830)
T PRK12904 77 VLGM-RHFDVQLIGGMVLHEGK--IAEMKTGEGKTLVATLPAYLNALT---GKGVHVVTVNDYLAKRDAEWMGPLYEFLG 150 (830)
T ss_pred HhCC-CCCccHHHhhHHhcCCc--hhhhhcCCCcHHHHHHHHHHHHHc---CCCEEEEecCHHHHHHHHHHHHHHHhhcC
Confidence 3677 69999998877777775 9999999999999999996 5543 34577999999999999999999988776
Q ss_pred CCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH-HHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecc
Q 002135 329 ASIDIGVYDGDTTQKDRMWLRDNARLLITNPDML-HMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEA 407 (961)
Q Consensus 329 ~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L-~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEa 407 (961)
+++++..|+.+..++.... .++|+++||..| .+.| ...... .... ....++.++|||||
T Consensus 151 --lsv~~i~~~~~~~er~~~y-~~dI~ygT~~elgfDyL-rd~~~~--~~~~--------------~~~r~~~~aIvDEa 210 (830)
T PRK12904 151 --LSVGVILSGMSPEERREAY-AADITYGTNNEFGFDYL-RDNMVF--SLEE--------------RVQRGLNYAIVDEV 210 (830)
T ss_pred --CeEEEEcCCCCHHHHHHhc-CCCeEEECCcchhhhhh-hccccc--chhh--------------hcccccceEEEech
Confidence 7888888887777765554 499999999998 4444 211110 0000 11223499999999
Q ss_pred hhhhcc--------cch--HHHHHHHHHHHHhhccc-------CCC----------------------------------
Q 002135 408 HAYKGA--------FGC--HTALILRRLCRLCSHVY-------GSD---------------------------------- 436 (961)
Q Consensus 408 H~~~~~--------fg~--~~~~ilrrL~~~~~~~~-------~~~---------------------------------- 436 (961)
|.++=+ .|+ ....+...+.++...+. ...
T Consensus 211 DsiLIDeArtpLiiSg~~~~~~~~y~~~~~~v~~l~~~~dy~vde~~~~v~lte~G~~~~e~~~~~~~ly~~~~~~~~~~ 290 (830)
T PRK12904 211 DSILIDEARTPLIISGPAEDSSELYKRANKIVPTLEKEGDYTVDEKSRTVGLTEEGIEKAEKLLGIENLYDPENIALVHH 290 (830)
T ss_pred hhheeccCCCceeeECCCCcccHHHHHHHHHHHhcCCCCCeEEEcCCCeeeECHHHHHHHHHHhCCccccChhhhHHHHH
Confidence 987410 010 00011111111111100 000
Q ss_pred ---------------------------------------------------------------------------CcEEE
Q 002135 437 ---------------------------------------------------------------------------PSFVF 441 (961)
Q Consensus 437 ---------------------------------------------------------------------------~q~I~ 441 (961)
.++-+
T Consensus 291 i~~AL~A~~l~~~d~dYiV~dg~V~ivDe~TGR~~~gr~ws~GLHQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~G 370 (830)
T PRK12904 291 LNQALRAHELFKRDVDYIVKDGEVVIVDEFTGRLMPGRRYSDGLHQAIEAKEGVKIQNENQTLASITFQNYFRMYEKLAG 370 (830)
T ss_pred HHHHHHHHHHHhcCCcEEEECCEEEEEECCCCccCCCCccchHHHHHHHHhcCCCCCCCceeeeeeeHHHHHHhcchhcc
Confidence 12233
Q ss_pred eccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHH
Q 002135 442 STATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEM 521 (961)
Q Consensus 442 lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l 521 (961)
||.|.....+.+..+.+.. ++.. |+..... ..+.+.........+...+...+...
T Consensus 371 mTGTa~te~~E~~~iY~l~---vv~I--------------Ptnkp~~-------r~d~~d~i~~t~~~K~~aI~~~I~~~ 426 (830)
T PRK12904 371 MTGTADTEAEEFREIYNLD---VVVI--------------PTNRPMI-------RIDHPDLIYKTEKEKFDAVVEDIKER 426 (830)
T ss_pred cCCCcHHHHHHHHHHhCCC---EEEc--------------CCCCCee-------eeeCCCeEEECHHHHHHHHHHHHHHH
Confidence 4444433222233333321 1111 1111000 00001111223334556666777666
Q ss_pred HHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCC
Q 002135 522 VQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGH 601 (961)
Q Consensus 522 ~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~ 601 (961)
...|.++||||+|+..++.+++.|.+ .+.....+||. +.+|+..+.+|+.+...|+||||+++||+||+-
T Consensus 427 ~~~grpVLIft~Si~~se~Ls~~L~~--------~gi~~~vLnak--q~eREa~Iia~Ag~~g~VtIATNmAGRGtDI~L 496 (830)
T PRK12904 427 HKKGQPVLVGTVSIEKSELLSKLLKK--------AGIPHNVLNAK--NHEREAEIIAQAGRPGAVTIATNMAGRGTDIKL 496 (830)
T ss_pred HhcCCCEEEEeCcHHHHHHHHHHHHH--------CCCceEeccCc--hHHHHHHHHHhcCCCceEEEecccccCCcCccC
Confidence 67889999999999999999998876 34466788994 789999999999999999999999999999953
Q ss_pred c--------------------------------------cEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEee
Q 002135 602 I--------------------------------------DVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 602 v--------------------------------------d~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
= =+||....|.|.---.|-.|||||.|.||.+-++.+
T Consensus 497 gGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~QlrGRagRQGdpGss~f~lS 571 (830)
T PRK12904 497 GGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYLS 571 (830)
T ss_pred CCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhhcccccCCCCCceeEEEE
Confidence 2 168888899999999999999999999999865543
No 101
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=99.90 E-value=1.3e-22 Score=236.46 Aligned_cols=352 Identities=22% Similarity=0.212 Sum_probs=220.3
Q ss_pred CCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEE
Q 002135 255 KLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIG 334 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~ 334 (961)
.|-.+|.+.+..+-.++.++|+|||.+|||.+-...+=..+.......++|+.|+++|.+|....+......-...-.+
T Consensus 511 ~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg~- 589 (1330)
T KOG0949|consen 511 CPDEWQRELLDSVDRNESAVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFLRGV- 589 (1330)
T ss_pred CCcHHHHHHhhhhhcccceEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCccccch-
Confidence 5788999999999999999999999999998766655555555667889999999999999988887765321111111
Q ss_pred EEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhccc
Q 002135 335 VYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAF 414 (961)
Q Consensus 335 ~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~f 414 (961)
..-|+..++-+. -.-+|+|+||-|+.+...|+.. .....+.+.+ ++||+||+|.+...-
T Consensus 590 sl~g~ltqEYsi-np~nCQVLITvPecleslLlsp-p~~q~~cerI-------------------RyiIfDEVH~iG~~e 648 (1330)
T KOG0949|consen 590 SLLGDLTQEYSI-NPWNCQVLITVPECLESLLLSP-PHHQKFCERI-------------------RYIIFDEVHLIGNEE 648 (1330)
T ss_pred hhHhhhhHHhcC-CchhceEEEEchHHHHHHhcCc-hhhhhhhhcc-------------------eEEEechhhhccccc
Confidence 122333222211 1125899999999998877653 2223345555 999999999976521
Q ss_pred chHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHc-----ccCCeEEEecCCCccceeEEEEeCCCcccc--
Q 002135 415 GCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELA-----NLSTLELIQNDGSPCAQKLFVLWNPTSCLR-- 487 (961)
Q Consensus 415 g~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~-----~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~-- 487 (961)
+.. +..++.-+ ....+|++|||++||...-.|+- +..+++.+...-+.+.....+.-.......
T Consensus 649 d~l---~~Eqll~l------i~CP~L~LSATigN~~l~qkWlnq~~R~~sr~~eli~~~erySel~l~v~n~~~e~n~~y 719 (1330)
T KOG0949|consen 649 DGL---LWEQLLLL------IPCPFLVLSATIGNPNLFQKWLNQRGRAMSRNAELIDYGERYSELGLVVYNRMNEGNAYY 719 (1330)
T ss_pred cch---HHHHHHHh------cCCCeeEEecccCCHHHHHHHHHHHHhhcCCCeeeeehhhhhhhhcceeeccCCCCcchH
Confidence 222 22222222 24579999999999988777774 223444443322221111111000000000
Q ss_pred -------------------ccc-----------------------------cccccc-----------------------
Q 002135 488 -------------------SVL-----------------------------NKSQTD----------------------- 496 (961)
Q Consensus 488 -------------------~~~-----------------------------~~~~~~----------------------- 496 (961)
... +..+..
T Consensus 720 l~~~falgerai~~~~~~~~~s~dd~~~lafe~~~~l~~~k~~kl~~k~~p~~~fe~~~~~~k~~~e~~r~~~~l~~~f~ 799 (1330)
T KOG0949|consen 720 LLKLFALGERAIIVSLRELSESEDDNVVLAFEPLSCLTLRKLNKLLIKITPENFFESNIVTKKEVGEYGRHLLELFQGFI 799 (1330)
T ss_pred HHHHHhhchhhccchhhccccCCCCceEeeccchhHHHHHHHHHHHhhcCHHHhhhhhhheechHHHHHHHHHHHHHHhh
Confidence 000 000000
Q ss_pred ---cch---------------hhhcccCC---CCcHHHHHHHHHHHHHCC-CcEEEEecChHHHHHHHHHHHHHHHhhCC
Q 002135 497 ---MDD---------------TRNAANKT---SSPISEVSYLFAEMVQHG-LRCIAFCRSRKLCELVLSYTREILEETAP 554 (961)
Q Consensus 497 ---~~~---------------~~~~~~~~---~~~~~~~~~ll~~l~~~g-~k~IVF~~sr~~ae~l~~~L~~~l~~~~~ 554 (961)
..+ ..-..... +.....+..++..+.+++ .++|+|...|..||.++..+...+.....
T Consensus 800 e~s~~q~kik~~~ki~~k~Vnkqle~~~~ys~e~i~~nil~ll~dLkEK~~lpaicfn~dr~fcekla~kv~~~Le~~e~ 879 (1330)
T KOG0949|consen 800 EDSLTQKQIKYVYKLQTKEVNKQLESVVDYSSEYILENILDLLMDLKEKNMLPAICFNTDRDFCEKLALKVHRQLESMEM 879 (1330)
T ss_pred hcChHHHHHHHHHHhhhhhhhhHhhhcccCcHHHHHHHHHHHHHHHHhccccchhcccchHHHHHHHHHHHHHHHHHHHH
Confidence 000 00000000 011122455666666665 69999999999999886543221100000
Q ss_pred ---------------------------------------------------------------------c----------
Q 002135 555 ---------------------------------------------------------------------H---------- 555 (961)
Q Consensus 555 ---------------------------------------------------------------------~---------- 555 (961)
.
T Consensus 880 Ee~k~k~m~k~kk~~~~a~~r~Kt~e~~~k~~~~~ek~~~~k~d~~~~~~~f~dp~~~~~~~~f~~~~~~~g~~~~~~id 959 (1330)
T KOG0949|consen 880 EEKKDKLMEKMKKEAKRARDREKTKESWIKESIAAEKSFQMKNDKKNIKYTFLDPLTKLTDYEFEEETKFIGNTDFEFID 959 (1330)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccceEEecCcccccchhhhhhhccccCCCcHHHHH
Confidence 0
Q ss_pred -ccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeC-CCCCHhhHHHHhccCCCCCCC--c
Q 002135 556 -LVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLG-FPGSIASLWQQAGRSGRRERP--S 631 (961)
Q Consensus 556 -l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~-~P~s~~sy~QR~GRAGR~g~~--g 631 (961)
+..++++||+||....|..+|-.|+.|.+.||+||.+|++|||.|--.+|+-.| +--+...|.|++|||||+|-+ |
T Consensus 960 ~lyRGiG~HHaglNr~yR~~VEvLFR~g~L~VlfaT~TLsLGiNMPCrTVvF~gDsLQL~plny~QmaGRAGRRGFD~lG 1039 (1330)
T KOG0949|consen 960 MLYRGIGVHHAGLNRKYRSLVEVLFRQGHLQVLFATETLSLGINMPCRTVVFAGDSLQLDPLNYKQMAGRAGRRGFDTLG 1039 (1330)
T ss_pred HHHhcccccccccchHHHHHHHHHhhcCceEEEEEeeehhcccCCCceeEEEeccccccCchhHHhhhcccccccccccc
Confidence 011688999999999999999999999999999999999999999555555444 334889999999999999876 4
Q ss_pred eEEEEe
Q 002135 632 LAVYVA 637 (961)
Q Consensus 632 ~~i~l~ 637 (961)
.++++.
T Consensus 1040 nV~Fmg 1045 (1330)
T KOG0949|consen 1040 NVVFMG 1045 (1330)
T ss_pred ceEEEe
Confidence 455444
No 102
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.90 E-value=2.4e-21 Score=205.05 Aligned_cols=298 Identities=17% Similarity=0.204 Sum_probs=201.4
Q ss_pred CCcHHHHHHHHHHh----CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCC
Q 002135 255 KLYSHQAESIMASL----AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDAS 330 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~ 330 (961)
+|++.|..|-+.++ +.++.+|.|-||+|||... .+.++...+ .|.++.+.+|+...+.+.+.+++..+..
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMi-f~~i~~al~-~G~~vciASPRvDVclEl~~Rlk~aF~~---- 170 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMI-FQGIEQALN-QGGRVCIASPRVDVCLELYPRLKQAFSN---- 170 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhh-HHHHHHHHh-cCCeEEEecCcccchHHHHHHHHHhhcc----
Confidence 69999998877655 5689999999999999874 445555544 3789999999999999999999886653
Q ss_pred ccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhh
Q 002135 331 IDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAY 410 (961)
Q Consensus 331 i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~ 410 (961)
..+.+.+|+++...+ +.++|+|...|. ++-..+ +++||||+|.+
T Consensus 171 ~~I~~Lyg~S~~~fr------~plvVaTtHQLl-----------rFk~aF-------------------D~liIDEVDAF 214 (441)
T COG4098 171 CDIDLLYGDSDSYFR------APLVVATTHQLL-----------RFKQAF-------------------DLLIIDEVDAF 214 (441)
T ss_pred CCeeeEecCCchhcc------ccEEEEehHHHH-----------HHHhhc-------------------cEEEEeccccc
Confidence 557788888876553 678888875553 233444 99999999986
Q ss_pred hcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCC----CccceeEEEEeCCCccc
Q 002135 411 KGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDG----SPCAQKLFVLWNPTSCL 486 (961)
Q Consensus 411 ~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g----~p~~~~~~~l~~p~~~~ 486 (961)
--.-...+....+.-++ ..-..|.+|||+++ +.-+.+... +...+.... .|-+.-. .+|...
T Consensus 215 P~~~d~~L~~Av~~ark-------~~g~~IylTATp~k--~l~r~~~~g-~~~~~klp~RfH~~pLpvPk-f~w~~~--- 280 (441)
T COG4098 215 PFSDDQSLQYAVKKARK-------KEGATIYLTATPTK--KLERKILKG-NLRILKLPARFHGKPLPVPK-FVWIGN--- 280 (441)
T ss_pred cccCCHHHHHHHHHhhc-------ccCceEEEecCChH--HHHHHhhhC-CeeEeecchhhcCCCCCCCc-eEEecc---
Confidence 32222333333332222 23467899999864 333333221 122222211 1111110 111100
Q ss_pred cccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCC
Q 002135 487 RSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAG 566 (961)
Q Consensus 487 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hgg 566 (961)
... ...+..-...+...+..-...|.+++||+++.+..|.++..+++.+.. ..+...|+
T Consensus 281 -------------~~k-~l~r~kl~~kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~~~~~------~~i~~Vhs- 339 (441)
T COG4098 281 -------------WNK-KLQRNKLPLKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKLPK------ETIASVHS- 339 (441)
T ss_pred -------------HHH-HhhhccCCHHHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHhhCCc------cceeeeec-
Confidence 000 001112223456667766778899999999999999999988664322 24567777
Q ss_pred CCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEE-eCCC-CCHhhHHHHhccCCCCCCC
Q 002135 567 YVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLH-LGFP-GSIASLWQQAGRSGRRERP 630 (961)
Q Consensus 567 ls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~-~~~P-~s~~sy~QR~GRAGR~g~~ 630 (961)
....|.+..++|++|++.+||+|.+||||+.+|+|++.|. ..-+ .|-++++|.+||+||.-..
T Consensus 340 -~d~~R~EkV~~fR~G~~~lLiTTTILERGVTfp~vdV~Vlgaeh~vfTesaLVQIaGRvGRs~~~ 404 (441)
T COG4098 340 -EDQHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRSLER 404 (441)
T ss_pred -cCccHHHHHHHHHcCceEEEEEeehhhcccccccceEEEecCCcccccHHHHHHHhhhccCCCcC
Confidence 4577999999999999999999999999999999998653 3333 4889999999999999543
No 103
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.89 E-value=1e-21 Score=221.75 Aligned_cols=393 Identities=18% Similarity=0.139 Sum_probs=260.8
Q ss_pred CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH-hHhhCCC
Q 002135 251 TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA-MTKAFDA 329 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~-l~~~~~~ 329 (961)
+..-..|++-.+.+.++...+-+||.+.||||||...--.+.+.=....+.++-+.-|.|--|..+..+..+ +...+|.
T Consensus 261 RksLPVy~ykdell~av~e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~EMgvkLG~ 340 (902)
T KOG0923|consen 261 RKSLPVYPYKDELLKAVKEHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEEMGVKLGH 340 (902)
T ss_pred HhcCCchhhHHHHHHHHHhCcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHHhCccccc
Confidence 344467888999999999999999999999999984322233332333455588888999988888877644 3333333
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA 409 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~ 409 (961)
.+...+..-|... +...|=++|.+||+..+|.. ..|.+. ++|||||||.
T Consensus 341 eVGYsIRFEdcTS-------ekTvlKYMTDGmLlREfL~e-----pdLasY-------------------SViiiDEAHE 389 (902)
T KOG0923|consen 341 EVGYSIRFEDCTS-------EKTVLKYMTDGMLLREFLSE-----PDLASY-------------------SVIIVDEAHE 389 (902)
T ss_pred ccceEEEeccccC-------cceeeeeecchhHHHHHhcc-----ccccce-------------------eEEEeehhhh
Confidence 2322222232221 23568899999998766432 234555 9999999998
Q ss_pred hhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCcccccc
Q 002135 410 YKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSV 489 (961)
Q Consensus 410 ~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~ 489 (961)
+.-+...++..++.+++. .++..++.+|||+ +.+. +..+++ ++.++...|+..+...++-..|...
T Consensus 390 ----RTL~TDILfgLvKDIar~--RpdLKllIsSAT~-DAek-FS~fFD--dapIF~iPGRRyPVdi~Yt~~PEAd---- 455 (902)
T KOG0923|consen 390 ----RTLHTDILFGLVKDIARF--RPDLKLLISSATM-DAEK-FSAFFD--DAPIFRIPGRRYPVDIFYTKAPEAD---- 455 (902)
T ss_pred ----hhhhhhHHHHHHHHHHhh--CCcceEEeecccc-CHHH-HHHhcc--CCcEEeccCcccceeeecccCCchh----
Confidence 556666777777777654 4678999999998 4444 444444 4677778887766665554433211
Q ss_pred ccccccccchhhhcccCCCCcHHHHHHHHH--HHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccc-cEEEEcCC
Q 002135 490 LNKSQTDMDDTRNAANKTSSPISEVSYLFA--EMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVD-SICVYRAG 566 (961)
Q Consensus 490 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~--~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~-~v~~~hgg 566 (961)
-...+...+. ++.+..+-+|||....+..|.....|.+....+...... -++++|+.
T Consensus 456 --------------------YldAai~tVlqIH~tqp~GDILVFltGQeEIEt~~e~l~~~~~~LGski~eliv~PiYaN 515 (902)
T KOG0923|consen 456 --------------------YLDAAIVTVLQIHLTQPLGDILVFLTGQEEIETVKENLKERCRRLGSKIRELIVLPIYAN 515 (902)
T ss_pred --------------------HHHHHHhhheeeEeccCCccEEEEeccHHHHHHHHHHHHHHHHHhccccceEEEeecccc
Confidence 1111111111 112245689999999999988877777655554433222 47899999
Q ss_pred CCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCC------------------CCCHhhHHHHhccCCCCC
Q 002135 567 YVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGF------------------PGSIASLWQQAGRSGRRE 628 (961)
Q Consensus 567 ls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~------------------P~s~~sy~QR~GRAGR~g 628 (961)
++.+.+..|.+-.-.|..+|++|||++|..|.|++|..||.-|+ |-|-++-.||+|||||.
T Consensus 516 LPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yViDpGf~K~nsynprtGmesL~v~piSKAsA~QRaGRAGRt- 594 (902)
T KOG0923|consen 516 LPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVIDPGFVKQNSYNPRTGMESLLVTPISKASANQRAGRAGRT- 594 (902)
T ss_pred CChHHHHhhcCCCCCCceeEEEeecchhhceeecCeEEEecCccccccCcCCCcCceeEEEeeechhhhhhhccccCCC-
Confidence 99999999999999999999999999999999999999997664 45789999999999999
Q ss_pred CCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCCHHHHHHHHHHCC
Q 002135 629 RPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSGLSSGITTLKNRG 708 (961)
Q Consensus 629 ~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~~~~~l~~L~~~g 708 (961)
.||.|+-+++.- .|.+..+..-. .|-...++.|- ..-|.....-.-+++++.+++..+.+..+++.|...|
T Consensus 595 gPGKCfRLYt~~----aY~~eLE~~t~--PEIqRtnL~nv---VL~LkSLGI~Dl~~FdFmDpPp~etL~~aLE~LyaLG 665 (902)
T KOG0923|consen 595 GPGKCFRLYTAW----AYEHELEEMTV--PEIQRTNLGNV---VLLLKSLGIHDLIHFDFLDPPPTETLLKALEQLYALG 665 (902)
T ss_pred CCCceEEeechh----hhhhhhccCCC--cceeeccchhH---HHHHHhcCcchhcccccCCCCChHHHHHHHHHHHHhh
Confidence 589999888532 22222222111 11122222322 1122222222223444445555567888999999999
Q ss_pred ccccCCCCCc
Q 002135 709 YLSSDPSLDS 718 (961)
Q Consensus 709 ~l~~~~~~~~ 718 (961)
+|...+....
T Consensus 666 ALn~~GeLTk 675 (902)
T KOG0923|consen 666 ALNHLGELTK 675 (902)
T ss_pred ccccccchhh
Confidence 9988776543
No 104
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.89 E-value=7.5e-21 Score=228.18 Aligned_cols=152 Identities=13% Similarity=0.092 Sum_probs=114.4
Q ss_pred cccHHHHHHHH-----hCCCCCC---cHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccH
Q 002135 239 ALLDNTKSALK-----STGISKL---YSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTK 310 (961)
Q Consensus 239 ~L~~~l~~~L~-----~~g~~~l---~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptr 310 (961)
.+.+++.+.+. ..||..| +|+|.++++.++.++++|+.++||+|||++|.+|++..+... ..+++|+||+
T Consensus 68 al~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g--~~v~IVTpTr 145 (970)
T PRK12899 68 GVVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTG--KPVHLVTVND 145 (970)
T ss_pred CCCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhc--CCeEEEeCCH
Confidence 35566665554 5688887 999999999999999999999999999999999999887653 3589999999
Q ss_pred HHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH-HHhhcCCCchhHHHhhhhhhhhhhcch
Q 002135 311 ALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDML-HMSILPYHGQFSRILSNLRLIAFSLVT 389 (961)
Q Consensus 311 aLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L-~~~lL~~~~~~~~~L~~l~~~~~~~~~ 389 (961)
+||.|..+.+..+...++ ++++++.|+.+..++.... +++|+++||++| .++|-.+.-. ++..
T Consensus 146 ELA~Qdae~m~~L~k~lG--LsV~~i~GG~~~~eq~~~y-~~DIVygTPgRLgfDyLrd~~~~----~~~~--------- 209 (970)
T PRK12899 146 YLAQRDCEWVGSVLRWLG--LTTGVLVSGSPLEKRKEIY-QCDVVYGTASEFGFDYLRDNSIA----TRKE--------- 209 (970)
T ss_pred HHHHHHHHHHHHHHhhcC--CeEEEEeCCCCHHHHHHHc-CCCEEEECCChhHHHHhhCCCCC----cCHH---------
Confidence 999999999999988765 6777666665555443333 599999999999 7665221110 1100
Q ss_pred hhhhhhhcceeEEEEecchhhh
Q 002135 390 TEVYLIFLFIRFVVIDEAHAYK 411 (961)
Q Consensus 390 ~~~~~~~~~i~~VVIDEaH~~~ 411 (961)
.....++.++||||||.++
T Consensus 210 ---~~vqr~~~~~IIDEADsmL 228 (970)
T PRK12899 210 ---EQVGRGFYFAIIDEVDSIL 228 (970)
T ss_pred ---HhhcccccEEEEechhhhh
Confidence 0011234899999999875
No 105
>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=99.88 E-value=7.7e-22 Score=199.90 Aligned_cols=160 Identities=33% Similarity=0.447 Sum_probs=127.7
Q ss_pred cHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEE
Q 002135 257 YSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVY 336 (961)
Q Consensus 257 ~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~ 336 (961)
||+|.++++.+.+|+++++.+|||||||++|++|++..+.+....++++++|+++|++|+.+++.+++.. ..+.+..+
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~--~~~~~~~~ 78 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSN--TNVRVVLL 78 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTT--TTSSEEEE
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccc--cccccccc
Confidence 6899999999999999999999999999999999999988765579999999999999999999998775 34677787
Q ss_pred cCCCcHH--HHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-c
Q 002135 337 DGDTTQK--DRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-A 413 (961)
Q Consensus 337 ~Gd~~~~--~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~ 413 (961)
.|+.... ....+..+++|+|+||++|...+... . ..+.++ ++||+||+|.+.. .
T Consensus 79 ~~~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~~--~--~~~~~~-------------------~~iViDE~h~l~~~~ 135 (169)
T PF00270_consen 79 HGGQSISEDQREVLSNQADILVTTPEQLLDLISNG--K--INISRL-------------------SLIVIDEAHHLSDET 135 (169)
T ss_dssp STTSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHTT--S--STGTTE-------------------SEEEEETHHHHHHTT
T ss_pred cccccccccccccccccccccccCcchhhcccccc--c--cccccc-------------------eeeccCccccccccc
Confidence 8877643 34455567999999999998765321 1 122334 9999999999987 4
Q ss_pred cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC
Q 002135 414 FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA 447 (961)
Q Consensus 414 fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~ 447 (961)
++..+..+++.+.+ ..+.++|++|||++
T Consensus 136 ~~~~~~~i~~~~~~------~~~~~~i~~SAT~~ 163 (169)
T PF00270_consen 136 FRAMLKSILRRLKR------FKNIQIILLSATLP 163 (169)
T ss_dssp HHHHHHHHHHHSHT------TTTSEEEEEESSST
T ss_pred HHHHHHHHHHHhcC------CCCCcEEEEeeCCC
Confidence 66666666665542 23578999999997
No 106
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.87 E-value=1.3e-20 Score=212.94 Aligned_cols=388 Identities=16% Similarity=0.163 Sum_probs=250.2
Q ss_pred CCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh-HhhCCCC
Q 002135 252 GISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM-TKAFDAS 330 (961)
Q Consensus 252 g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l-~~~~~~~ 330 (961)
.+......+.+.+..+..++-+||++.||||||....-.+++.=.. ..+.+-+.-|.|.-|...++++..- ...+|..
T Consensus 353 q~LPvf~~R~~ll~~ir~n~vvvivgETGSGKTTQl~QyL~edGY~-~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~ 431 (1042)
T KOG0924|consen 353 QYLPVFACRDQLLSVIRENQVVVIVGETGSGKTTQLAQYLYEDGYA-DNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDT 431 (1042)
T ss_pred hhcchHHHHHHHHHHHhhCcEEEEEecCCCCchhhhHHHHHhcccc-cCCeeeecCchHHHHHHHHHHHHHHhCCccccc
Confidence 3445566777888888888999999999999998533222222111 1345667789999999888887553 2233322
Q ss_pred ccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhh
Q 002135 331 IDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAY 410 (961)
Q Consensus 331 i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~ 410 (961)
+...+..-|... +...|=++|-+.|....| ....|... +.||+||||.-
T Consensus 432 VGYsIRFEdvT~-------~~T~IkymTDGiLLrEsL-----~d~~L~kY-------------------SviImDEAHER 480 (1042)
T KOG0924|consen 432 VGYSIRFEDVTS-------EDTKIKYMTDGILLRESL-----KDRDLDKY-------------------SVIIMDEAHER 480 (1042)
T ss_pred cceEEEeeecCC-------CceeEEEeccchHHHHHh-----hhhhhhhe-------------------eEEEechhhhc
Confidence 322333333221 235788999998865433 22345555 99999999983
Q ss_pred hcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccc
Q 002135 411 KGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVL 490 (961)
Q Consensus 411 ~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~ 490 (961)
.-+...++-.|+...+. ..+.++|.+|||+ |. +++..++| ++..+...|+..+....+...|...
T Consensus 481 ----slNtDilfGllk~~lar--RrdlKliVtSATm-~a-~kf~nfFg--n~p~f~IpGRTyPV~~~~~k~p~eD----- 545 (1042)
T KOG0924|consen 481 ----SLNTDILFGLLKKVLAR--RRDLKLIVTSATM-DA-QKFSNFFG--NCPQFTIPGRTYPVEIMYTKTPVED----- 545 (1042)
T ss_pred ----ccchHHHHHHHHHHHHh--hccceEEEeeccc-cH-HHHHHHhC--CCceeeecCCccceEEEeccCchHH-----
Confidence 33444455555554433 3578999999998 34 45555666 3667777887777666555444321
Q ss_pred cccccccchhhhcccCCCCcHHHH-HHHHH-HHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcc--cccEEEEcCC
Q 002135 491 NKSQTDMDDTRNAANKTSSPISEV-SYLFA-EMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHL--VDSICVYRAG 566 (961)
Q Consensus 491 ~~~~~~~~~~~~~~~~~~~~~~~~-~~ll~-~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l--~~~v~~~hgg 566 (961)
-...+ .+.+. ++....+.+|||....+..|..+..+.+.+.+..... .-.|..+.+.
T Consensus 546 -------------------YVeaavkq~v~Ihl~~~~GdilIfmtGqediE~t~~~i~~~l~ql~~~~~~~L~vlpiYSQ 606 (1042)
T KOG0924|consen 546 -------------------YVEAAVKQAVQIHLSGPPGDILIFMTGQEDIECTCDIIKEKLEQLDSAPTTDLAVLPIYSQ 606 (1042)
T ss_pred -------------------HHHHHHhhheEeeccCCCCCEEEecCCCcchhHHHHHHHHHHHhhhcCCCCceEEEeehhh
Confidence 00000 01110 1111235799999999999988888887776644322 4478899999
Q ss_pred CCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCC------------------CCCHhhHHHHhccCCCCC
Q 002135 567 YVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGF------------------PGSIASLWQQAGRSGRRE 628 (961)
Q Consensus 567 ls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~------------------P~s~~sy~QR~GRAGR~g 628 (961)
|+++-+.++.+..-.|..++|||||++|..+.|+++.+||..|+ |-|.++-.||+|||||.
T Consensus 607 Lp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~AnA~QRaGRAGRt- 685 (1042)
T KOG0924|consen 607 LPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQANADQRAGRAGRT- 685 (1042)
T ss_pred CchhhhhhhcccCCCCceeEEEeccchhhceeecceEEEEecCceeeeecccccccceeEEEechhccchhhccccCCC-
Confidence 99999999999999999999999999999999999999997764 66889999999999999
Q ss_pred CCceEEEEeeCCcchhHHHhchHHhhcCCCcc-cccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCCHHHHHHHHHHC
Q 002135 629 RPSLAVYVAFEGPLDQYFMKYPEKLFKSPIEC-CHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSGLSSGITTLKNR 707 (961)
Q Consensus 629 ~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~-~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~~~~~l~~L~~~ 707 (961)
.+|.|+-+++.+... ++++..++++ ..-++.|.-.| |...-...-+.+.+.+.+..+.+...+-.|...
T Consensus 686 ~pG~cYRlYTe~ay~-------~eml~stvPEIqRTNl~nvVLl---LkslgV~dll~FdFmD~Pped~~~~sly~Lw~L 755 (1042)
T KOG0924|consen 686 GPGTCYRLYTEDAYK-------NEMLPSTVPEIQRTNLSNVVLL---LKSLGVDDLLKFDFMDPPPEDNLLNSLYQLWTL 755 (1042)
T ss_pred CCcceeeehhhhHHH-------hhcccCCCchhhhcchhhHHHH---HHhcChhhhhCCCcCCCCHHHHHHHHHHHHHHh
Confidence 689999888653221 2333333322 22333333222 222111111223333444445667777778888
Q ss_pred CccccCCCC
Q 002135 708 GYLSSDPSL 716 (961)
Q Consensus 708 g~l~~~~~~ 716 (961)
|+|...+..
T Consensus 756 GAl~~~g~L 764 (1042)
T KOG0924|consen 756 GALDNTGQL 764 (1042)
T ss_pred hccccCCcc
Confidence 888765543
No 107
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.86 E-value=5.9e-20 Score=220.41 Aligned_cols=346 Identities=14% Similarity=0.081 Sum_probs=214.8
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
.+|. .+|+.|.-.--.+..|+ |..++||.|||++|.+|++...+. +..+.+|+|+..||.+-.+.+..+...++
T Consensus 78 ~lgm-~~ydVQliGgl~L~~G~--IaEm~TGEGKTL~a~lp~~l~al~--g~~VhIvT~ndyLA~RD~e~m~~l~~~lG- 151 (908)
T PRK13107 78 VFEM-RHFDVQLLGGMVLDSNR--IAEMRTGEGKTLTATLPAYLNALT--GKGVHVITVNDYLARRDAENNRPLFEFLG- 151 (908)
T ss_pred HhCC-CcCchHHhcchHhcCCc--cccccCCCCchHHHHHHHHHHHhc--CCCEEEEeCCHHHHHHHHHHHHHHHHhcC-
Confidence 3676 68899986665555554 889999999999999999977765 45599999999999999999999998876
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH-HHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecch
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDML-HMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAH 408 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L-~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH 408 (961)
+++++..|+....++... -.++|+++||..| .+.| ..+-... ... .....+.++||||||
T Consensus 152 -lsv~~i~~~~~~~~r~~~-Y~~dI~YgT~~e~gfDyL-rdnm~~~--~~~--------------~vqr~~~~aIvDEvD 212 (908)
T PRK13107 152 -LTVGINVAGLGQQEKKAA-YNADITYGTNNEFGFDYL-RDNMAFS--PQE--------------RVQRPLHYALIDEVD 212 (908)
T ss_pred -CeEEEecCCCCHHHHHhc-CCCCeEEeCCCcccchhh-hccCccc--hhh--------------hhccccceeeecchh
Confidence 778877777766554322 2689999999998 4443 2211100 000 011234899999999
Q ss_pred hhhcc--c------c-----h-HHH---HHHHHHHHHhh----------cc-cCCCCcEEEeccC---------------
Q 002135 409 AYKGA--F------G-----C-HTA---LILRRLCRLCS----------HV-YGSDPSFVFSTAT--------------- 445 (961)
Q Consensus 409 ~~~~~--f------g-----~-~~~---~ilrrL~~~~~----------~~-~~~~~q~I~lSAT--------------- 445 (961)
.++-+ + | . .+. .++..|...-. ++ ....-+.|.+|-.
T Consensus 213 siLiDEArtPLIISg~~~~~~~~y~~~~~~v~~L~~~~~~~~~~~~~~~dy~idek~~~v~LTe~G~~~~e~~l~~~~~~ 292 (908)
T PRK13107 213 SILIDEARTPLIISGAAEDSSELYIKINTLIPNLIRQDKEDTEEYVGEGDYSIDEKAKQVHFTERGQEKVENLLIERGML 292 (908)
T ss_pred hhccccCCCceeecCCCccchHHHHHHHHHHHHHHhhhhccccccCCCCCEEEecCCCeeeechHHHHHHHHHHHhCCcc
Confidence 87521 1 1 1 111 12222221000 00 0011122222210
Q ss_pred -----CCChH--H---------HHHHHcccC--------CeEEEec-CCCc-----------------------------
Q 002135 446 -----SANPR--E---------HCMELANLS--------TLELIQN-DGSP----------------------------- 471 (961)
Q Consensus 446 -----l~n~~--e---------~~~~L~~~~--------~~~~i~~-~g~p----------------------------- 471 (961)
+-++. + .+..++... .+.+|+. .|+.
T Consensus 293 ~~~~~l~~~~~~~~~~~i~~aL~A~~lf~~d~dYiV~dg~V~IVDe~TGRim~grrwsdGLHQaIEaKE~v~I~~e~~t~ 372 (908)
T PRK13107 293 AEGDSLYSAANISLLHHVNAALRAHTLFEKDVDYIVQDNEVIIVDEHTGRTMPGRRWSEGLHQAVEAKEGVHIQNENQTL 372 (908)
T ss_pred cCcccccCchhhHHHHHHHHHHHHHHHHhcCCceEEECCEEEEEECCCCCCCCCCccchHHHHHHHHhcCCCCCCCceee
Confidence 00000 0 001111111 0111111 0100
Q ss_pred ---cceeEEEEe---------------------------CCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHH
Q 002135 472 ---CAQKLFVLW---------------------------NPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEM 521 (961)
Q Consensus 472 ---~~~~~~~l~---------------------------~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l 521 (961)
.....|.++ -|..... ...+...........+...+..-+..+
T Consensus 373 AsIT~QnfFr~Y~kL~GMTGTa~te~~Ef~~iY~l~Vv~IPTnkp~-------~R~d~~d~iy~t~~~K~~Aii~ei~~~ 445 (908)
T PRK13107 373 ASITFQNYFRQYEKLAGMTGTADTEAFEFQHIYGLDTVVVPTNRPM-------VRKDMADLVYLTADEKYQAIIKDIKDC 445 (908)
T ss_pred eeehHHHHHHhhhHhhcccCCChHHHHHHHHHhCCCEEECCCCCCc-------cceeCCCcEEeCHHHHHHHHHHHHHHH
Confidence 000011111 1111100 000111112233345555666667777
Q ss_pred HHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCC
Q 002135 522 VQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGH 601 (961)
Q Consensus 522 ~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~ 601 (961)
...|.++||||+|...+|.++..|.. .+.....+|+.+++.+|..+.++|+.|. |+||||+++||+||.=
T Consensus 446 ~~~GrpVLV~t~sv~~se~ls~~L~~--------~gi~~~vLnak~~~~Ea~ii~~Ag~~G~--VtIATnmAGRGTDIkL 515 (908)
T PRK13107 446 RERGQPVLVGTVSIEQSELLARLMVK--------EKIPHEVLNAKFHEREAEIVAQAGRTGA--VTIATNMAGRGTDIVL 515 (908)
T ss_pred HHcCCCEEEEeCcHHHHHHHHHHHHH--------CCCCeEeccCcccHHHHHHHHhCCCCCc--EEEecCCcCCCcceec
Confidence 78899999999999999999988876 3445678999999999999999999998 9999999999999941
Q ss_pred --------------------------------c-----cEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEe
Q 002135 602 --------------------------------I-----DVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 602 --------------------------------v-----d~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
| =+||-...+.|.--=.|-.|||||.|.||.+.++.
T Consensus 516 ggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrGRaGRQGDPGss~f~l 588 (908)
T PRK13107 516 GGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRGRAGRQGDAGSSRFYL 588 (908)
T ss_pred CCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhcccccCCCCCceeEEE
Confidence 1 26888888999888899999999999999886554
No 108
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.85 E-value=2.3e-19 Score=222.44 Aligned_cols=343 Identities=17% Similarity=0.193 Sum_probs=215.4
Q ss_pred CCcHHHHHHHHHHh----CCCcEEEEecCCchhHHHHHHHHHHHHhc--CCCCeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 255 KLYSHQAESIMASL----AGKNVVVATMTSSGKSLCYNLPVLEALSH--DLSSSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla~~Lpil~~l~~--~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
.|++||.+++..++ .|.+.|++..+|.|||+..+.. +..+.. .....+|||+|. +|..++.+++.+++.
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIal-L~~L~~~~~~~gp~LIVvP~-SlL~nW~~Ei~kw~p--- 243 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISL-LGYLHEYRGITGPHMVVAPK-STLGNWMNEIRRFCP--- 243 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHH-HHHHHHhcCCCCCEEEEeCh-HHHHHHHHHHHHHCC---
Confidence 69999999999875 5789999999999999976433 333322 234578999996 566779999988764
Q ss_pred CCccEEEEcCCCcHHHHH---HH-hcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEE
Q 002135 329 ASIDIGVYDGDTTQKDRM---WL-RDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVI 404 (961)
Q Consensus 329 ~~i~v~~~~Gd~~~~~r~---~l-~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVI 404 (961)
.+.+..++|........ .+ ....+|+|+|.+++... ...|..+.| ++|||
T Consensus 244 -~l~v~~~~G~~~eR~~~~~~~~~~~~~dVvITSYe~l~~e--------~~~L~k~~W-----------------~~VIv 297 (1033)
T PLN03142 244 -VLRAVKFHGNPEERAHQREELLVAGKFDVCVTSFEMAIKE--------KTALKRFSW-----------------RYIII 297 (1033)
T ss_pred -CCceEEEeCCHHHHHHHHHHHhcccCCCcceecHHHHHHH--------HHHhccCCC-----------------CEEEE
Confidence 35677888865432211 11 23478999999988532 233444422 89999
Q ss_pred ecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC--ChHHHHHHHcccCCeEEEec----------C----
Q 002135 405 DEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA--NPREHCMELANLSTLELIQN----------D---- 468 (961)
Q Consensus 405 DEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~--n~~e~~~~L~~~~~~~~i~~----------~---- 468 (961)
||||++.. ..+.....++.+. ....+++|+|+- ++.++. .|+....+..+.. .
T Consensus 298 DEAHrIKN-~~Sklskalr~L~---------a~~RLLLTGTPlqNnl~ELw-sLL~FL~P~~f~s~~~F~~~f~~~~~~~ 366 (1033)
T PLN03142 298 DEAHRIKN-ENSLLSKTMRLFS---------TNYRLLITGTPLQNNLHELW-ALLNFLLPEIFSSAETFDEWFQISGEND 366 (1033)
T ss_pred cCccccCC-HHHHHHHHHHHhh---------cCcEEEEecCCCCCCHHHHH-HHHhcCCCCcCCCHHHHHHHHccccccc
Confidence 99999875 2333333333332 234588899983 222222 2211111110000 0
Q ss_pred --------------------------CCccceeEEEEeCCCccc-c----ccccc------cccccchh-----------
Q 002135 469 --------------------------GSPCAQKLFVLWNPTSCL-R----SVLNK------SQTDMDDT----------- 500 (961)
Q Consensus 469 --------------------------g~p~~~~~~~l~~p~~~~-~----~~~~~------~~~~~~~~----------- 500 (961)
.-|. .....++.+.... . ..... ........
T Consensus 367 ~~e~i~~L~~~L~pf~LRR~KsdV~~~LPp-K~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~~g~~~~~LlnilmqLRk~c 445 (1033)
T PLN03142 367 QQEVVQQLHKVLRPFLLRRLKSDVEKGLPP-KKETILKVGMSQMQKQYYKALLQKDLDVVNAGGERKRLLNIAMQLRKCC 445 (1033)
T ss_pred hHHHHHHHHHHhhHHHhhhhHHHHhhhCCC-ceeEEEeeCCCHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence 0000 0011111110000 0 00000 00000000
Q ss_pred -----------------hhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEE
Q 002135 501 -----------------RNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVY 563 (961)
Q Consensus 501 -----------------~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~ 563 (961)
.........+...+..++..+...|.++|||+......+.|..++.. .+...+.+
T Consensus 446 nHP~L~~~~ep~~~~~~~e~lie~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~--------~g~~y~rI 517 (1033)
T PLN03142 446 NHPYLFQGAEPGPPYTTGEHLVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMY--------RGYQYCRI 517 (1033)
T ss_pred CCHHhhhcccccCcccchhHHhhhhhHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHH--------cCCcEEEE
Confidence 00001122344455666777777889999999988888777766643 34467889
Q ss_pred cCCCCHHHHHHHHHHHhCC---CceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceE--EEEee
Q 002135 564 RAGYVAEDRRRIERDFFGG---KLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLA--VYVAF 638 (961)
Q Consensus 564 hggls~~eR~~ie~~f~~G---~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~--i~l~~ 638 (961)
+|+.+..+|..+++.|.+. ...+|++|.+.+.|||+...++||+||.|+++....|++||+.|-|+...+ +.++.
T Consensus 518 dGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyRLIt 597 (1033)
T PLN03142 518 DGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCT 597 (1033)
T ss_pred CCCCCHHHHHHHHHHhccccCCceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEEEEe
Confidence 9999999999999999753 346789999999999999999999999999999999999999999987654 44445
Q ss_pred CCcchhHHHh
Q 002135 639 EGPLDQYFMK 648 (961)
Q Consensus 639 ~~~~d~~~~~ 648 (961)
.+..|..+..
T Consensus 598 ~gTIEEkIle 607 (1033)
T PLN03142 598 EYTIEEKVIE 607 (1033)
T ss_pred CCcHHHHHHH
Confidence 5555555443
No 109
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.85 E-value=9.2e-20 Score=209.15 Aligned_cols=385 Identities=17% Similarity=0.166 Sum_probs=239.0
Q ss_pred HHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC----CCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEE-
Q 002135 261 AESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL----SSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGV- 335 (961)
Q Consensus 261 ~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~----~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~- 335 (961)
++.+++|..+.-||||+.||||||...--.++++=...+ ++.+=|.-|+|--|--+.++...-+..++..+...+
T Consensus 262 q~IMEaIn~n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~EL~~~~~eVsYqIR 341 (1172)
T KOG0926|consen 262 QRIMEAINENPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAFELGVLGSEVSYQIR 341 (1172)
T ss_pred HHHHHHhhcCCeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHHHhccCccceeEEEE
Confidence 366777788888999999999999853333333322212 346667789998777777766443333443343333
Q ss_pred EcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccc
Q 002135 336 YDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFG 415 (961)
Q Consensus 336 ~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg 415 (961)
|+|. +.....|.++|.+.|...+ .....|..+ +.|||||||.-+- ..
T Consensus 342 fd~t--------i~e~T~IkFMTDGVLLrEi-----~~DflL~kY-------------------SvIIlDEAHERSv-nT 388 (1172)
T KOG0926|consen 342 FDGT--------IGEDTSIKFMTDGVLLREI-----ENDFLLTKY-------------------SVIILDEAHERSV-NT 388 (1172)
T ss_pred eccc--------cCCCceeEEecchHHHHHH-----HHhHhhhhc-------------------eeEEechhhhccc-hH
Confidence 3332 2345789999999987654 234456666 9999999998432 22
Q ss_pred hHHHHHHHHHHHHhhcccC-----CCCcEEEeccCCCChHHHH--HHHcccCCeEEEecCCCccceeEEEEeCCCccccc
Q 002135 416 CHTALILRRLCRLCSHVYG-----SDPSFVFSTATSANPREHC--MELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRS 488 (961)
Q Consensus 416 ~~~~~ilrrL~~~~~~~~~-----~~~q~I~lSATl~n~~e~~--~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~ 488 (961)
.-+--+|.|+-++...++. ...++|.||||+.-. ++. +.|+... ..+|.++.+..+...++-...+
T Consensus 389 DILiGmLSRiV~LR~k~~ke~~~~kpLKLIIMSATLRVs-DFtenk~LFpi~-pPlikVdARQfPVsIHF~krT~----- 461 (1172)
T KOG0926|consen 389 DILIGMLSRIVPLRQKYYKEQCQIKPLKLIIMSATLRVS-DFTENKRLFPIP-PPLIKVDARQFPVSIHFNKRTP----- 461 (1172)
T ss_pred HHHHHHHHHHHHHHHHHhhhhcccCceeEEEEeeeEEec-ccccCceecCCC-CceeeeecccCceEEEeccCCC-----
Confidence 2233345555555444332 256899999998532 222 3455544 3477777766655443322111
Q ss_pred cccccccccchhhhcccCCCCcHHHHHHHHHHHHH--CCCcEEEEecChHHHHHHHHHHHHHHHhhCC------------
Q 002135 489 VLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQ--HGLRCIAFCRSRKLCELVLSYTREILEETAP------------ 554 (961)
Q Consensus 489 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~--~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~------------ 554 (961)
.+.+.++.+-...+.+ ..+.+|||+....+++.+++.|++.+.....
T Consensus 462 -------------------~DYi~eAfrKtc~IH~kLP~G~ILVFvTGQqEV~qL~~kLRK~~p~~f~~~k~~k~~k~~~ 522 (1172)
T KOG0926|consen 462 -------------------DDYIAEAFRKTCKIHKKLPPGGILVFVTGQQEVDQLCEKLRKRFPESFGGVKMKKNVKAFK 522 (1172)
T ss_pred -------------------chHHHHHHHHHHHHhhcCCCCcEEEEEeChHHHHHHHHHHHhhCccccccchhhhhhhhcc
Confidence 1111222221112222 2357999999999999999988875321100
Q ss_pred cc------------------------------------------------------------------------------
Q 002135 555 HL------------------------------------------------------------------------------ 556 (961)
Q Consensus 555 ~l------------------------------------------------------------------------------ 556 (961)
.+
T Consensus 523 e~k~~~s~~~~~~k~~dfe~Ed~~~~~ed~d~~~~~~~~~~~raa~~~~~De~~~~nge~e~d~~e~~~E~~~~~~~~~~ 602 (1172)
T KOG0926|consen 523 ELKENPSDIGDSNKTDDFEEEDMYESDEDIDQELVDSGFASLRAAFNALADENGSVNGEPEKDESEEGQEAEQGKGKFSP 602 (1172)
T ss_pred ccccchhhhccCcccccchhcccccchhhhhhhhhcccchhhhhhhhccccccccccCCcccchhhhchhhhhccCCCCC
Confidence 00
Q ss_pred -cccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCC------------------CHhhH
Q 002135 557 -VDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPG------------------SIASL 617 (961)
Q Consensus 557 -~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~------------------s~~sy 617 (961)
.-.|.++++-++.+++.++.+.--.|..-++||||++|..+.||++.+||..|.-. |-++-
T Consensus 603 ~pLyvLPLYSLLs~~~Q~RVF~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASa 682 (1172)
T KOG0926|consen 603 GPLYVLPLYSLLSTEKQMRVFDEVPKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASA 682 (1172)
T ss_pred CceEEeehhhhcCHHHhhhhccCCCCCceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeecccc
Confidence 00244566667778888888888889999999999999999999999999877432 55777
Q ss_pred HHHhccCCCCCCCceEEEEeeCCcchhHHHhc-hHHhhcCCCcccccCCCCHHHHHHHHHHHHhcCCCChhhhhhhccCC
Q 002135 618 WQQAGRSGRRERPSLAVYVAFEGPLDQYFMKY-PEKLFKSPIECCHIDAQNHKVLEQHLVCAALEHPLSLIYDEKYFGSG 696 (961)
Q Consensus 618 ~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~-~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~p~~~~~~~~~f~~~ 696 (961)
-||+|||||. .+|.|+-++...-.+.-+..+ ..+++..|.| -+..|+.|+....-.++.+-..+-...
T Consensus 683 dQRAGRAGRt-gpGHcYRLYSSAVf~~~Fe~fS~PEIlk~Pve----------~lvLqMKsMnI~kVvnFPFPtpPd~~~ 751 (1172)
T KOG0926|consen 683 DQRAGRAGRT-GPGHCYRLYSSAVFSNDFEEFSLPEILKKPVE----------SLVLQMKSMNIDKVVNFPFPTPPDRSA 751 (1172)
T ss_pred chhccccCCC-CCCceeehhhhHHhhcchhhhccHHHhhCcHH----------HHHHHHHhcCccceecCCCCCCccHHH
Confidence 8999999999 589999888654333222221 2344455443 344567777665444433322222345
Q ss_pred HHHHHHHHHHCCccccCCC
Q 002135 697 LSSGITTLKNRGYLSSDPS 715 (961)
Q Consensus 697 ~~~~l~~L~~~g~l~~~~~ 715 (961)
++.+.+.|...|+|..++.
T Consensus 752 L~~Aer~L~~LgALd~~g~ 770 (1172)
T KOG0926|consen 752 LEKAERRLKALGALDSNGG 770 (1172)
T ss_pred HHHHHHHHHHhccccccCC
Confidence 7888888888888876554
No 110
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.85 E-value=6.6e-20 Score=225.59 Aligned_cols=325 Identities=21% Similarity=0.234 Sum_probs=201.9
Q ss_pred CCcHHHHHHHHHHhCC---C-cEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 255 KLYSHQAESIMASLAG---K-NVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G---~-~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
..++.|..++..+... . .+++.||||+|||++.+.+++..+... ...+++++.|++++.++++++++.......
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~~ 274 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLFS 274 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhcccc
Confidence 4589999999988753 4 789999999999999999999887763 468999999999999999999998765433
Q ss_pred CCccEEE-EcCCCcHHHHHHHh---------------cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhh
Q 002135 329 ASIDIGV-YDGDTTQKDRMWLR---------------DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEV 392 (961)
Q Consensus 329 ~~i~v~~-~~Gd~~~~~r~~l~---------------~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~ 392 (961)
. ... .+|.....-..... .-..+.++||....... ....++.. +..+
T Consensus 275 ~---~~~~~h~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~l------------ 337 (733)
T COG1203 275 V---IGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFS-VKGFKFEF-LALL------------ 337 (733)
T ss_pred c---ccccccccccchhhhccccccceeEEecccccceeccccccCHhHhhhhh-ccccchHH-HHHH------------
Confidence 1 111 34443322110000 00134444454432211 01112222 3333
Q ss_pred hhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEEecCCCc
Q 002135 393 YLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELIQNDGSP 471 (961)
Q Consensus 393 ~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~g~p 471 (961)
..+.+|+||+|.|...- ....++..+..+. .....+|+||||++... +.+....+.. ........ .
T Consensus 338 -----~~S~vIlDE~h~~~~~~--~~~~l~~~i~~l~----~~g~~ill~SATlP~~~~~~l~~~~~~~-~~~~~~~~-~ 404 (733)
T COG1203 338 -----LTSLVILDEVHLYADET--MLAALLALLEALA----EAGVPVLLMSATLPPFLKEKLKKALGKG-REVVENAK-F 404 (733)
T ss_pred -----HhhchhhccHHhhcccc--hHHHHHHHHHHHH----hCCCCEEEEecCCCHHHHHHHHHHHhcc-cceecccc-c
Confidence 11899999999997631 2333333333332 12568899999997543 2222222211 11111100 0
Q ss_pred cceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHh
Q 002135 472 CAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEE 551 (961)
Q Consensus 472 ~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~ 551 (961)
.+. .-.+... .....+ ...................+.+++|-|||++.|..++..+++
T Consensus 405 ~~~----~~e~~~~--------~~~~~~------~~~~~~~~~~~~~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~---- 462 (733)
T COG1203 405 CPK----EDEPGLK--------RKERVD------VEDGPQEELIELISEEVKEGKKVLVIVNTVDRAIELYEKLKE---- 462 (733)
T ss_pred ccc----ccccccc--------cccchh------hhhhhhHhhhhcchhhhccCCcEEEEEecHHHHHHHHHHHHh----
Confidence 000 0000000 000000 000000123334444556789999999999999999998876
Q ss_pred hCCcccccEEEEcCCCCHHHHHHHHHHHh----CCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCC
Q 002135 552 TAPHLVDSICVYRAGYVAEDRRRIERDFF----GGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRR 627 (961)
Q Consensus 552 ~~~~l~~~v~~~hggls~~eR~~ie~~f~----~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~ 627 (961)
....++.+||.++..+|.+.++.++ .+...|+|||++.|.|+|+. .|++|.-=.| +.+++||+||.+|.
T Consensus 463 ----~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagvDid-fd~mITe~aP--idSLIQR~GRv~R~ 535 (733)
T COG1203 463 ----KGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGVDID-FDVLITELAP--IDSLIQRAGRVNRH 535 (733)
T ss_pred ----cCCCEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeEEEEEeccc-cCeeeecCCC--HHHHHHHHHHHhhc
Confidence 2227999999999999999988654 57889999999999999995 7877755455 99999999999999
Q ss_pred C--CCceEEEEee
Q 002135 628 E--RPSLAVYVAF 638 (961)
Q Consensus 628 g--~~g~~i~l~~ 638 (961)
| ..|..+++..
T Consensus 536 g~~~~~~~~v~~~ 548 (733)
T COG1203 536 GKKENGKIYVYND 548 (733)
T ss_pred ccccCCceeEeec
Confidence 9 5566665543
No 111
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=99.85 E-value=1.9e-20 Score=225.35 Aligned_cols=409 Identities=17% Similarity=0.147 Sum_probs=256.0
Q ss_pred CCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhc-CCCCeEEEEcccHHHHHHHHHHHHHhH-hhCCCCcc
Q 002135 255 KLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSH-DLSSSALYMFPTKALAQDQLRALLAMT-KAFDASID 332 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~-~~~~~aLvl~PtraLa~qq~~~l~~l~-~~~~~~i~ 332 (961)
..+..+.+.++++.+.+.++|++.||+|||....-.+++.... ++..++++--|+|--|--.++++.+-. ...+. .
T Consensus 173 Pa~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~ER~~~~g~--~ 250 (924)
T KOG0920|consen 173 PAYKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKERGESLGE--E 250 (924)
T ss_pred ccHHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHHhccccCC--e
Confidence 4688899999999999999999999999999877777776543 334567888899988877777775432 22221 1
Q ss_pred EEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc
Q 002135 333 IGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG 412 (961)
Q Consensus 333 v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~ 412 (961)
|+---+ -+. .......++++|.+.|...|.. ...+.++ ..||+||+|.
T Consensus 251 VGYqvr----l~~-~~s~~t~L~fcTtGvLLr~L~~-----~~~l~~v-------------------thiivDEVHE--- 298 (924)
T KOG0920|consen 251 VGYQVR----LES-KRSRETRLLFCTTGVLLRRLQS-----DPTLSGV-------------------THIIVDEVHE--- 298 (924)
T ss_pred eeEEEe----eec-ccCCceeEEEecHHHHHHHhcc-----CcccccC-------------------ceeeeeeEEE---
Confidence 211111 011 1122378999999998776632 2334444 9999999998
Q ss_pred ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccc-c
Q 002135 413 AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVL-N 491 (961)
Q Consensus 413 ~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~-~ 491 (961)
++.+...+|--++.+... +++.++|+||||+. . +.+...++. +.++...|...+.+.+++-+-........ +
T Consensus 299 -R~i~~DflLi~lk~lL~~--~p~LkvILMSAT~d-a-e~fs~YF~~--~pvi~i~grtfpV~~~fLEDil~~~~~~~~~ 371 (924)
T KOG0920|consen 299 -RSINTDFLLILLKDLLPR--NPDLKVILMSATLD-A-ELFSDYFGG--CPVITIPGRTFPVKEYFLEDILSKTGYVSED 371 (924)
T ss_pred -ccCCcccHHHHHHHHhhh--CCCceEEEeeeecc-h-HHHHHHhCC--CceEeecCCCcchHHHHHHHHHHHhcccccc
Confidence 333344444444444433 46789999999985 3 556666663 67777777766554443211000000000 0
Q ss_pred cccc--ccch----hhhcccCCCCcHHHHHHHHHHHHHC--CCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEE
Q 002135 492 KSQT--DMDD----TRNAANKTSSPISEVSYLFAEMVQH--GLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVY 563 (961)
Q Consensus 492 ~~~~--~~~~----~~~~~~~~~~~~~~~~~ll~~l~~~--g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~ 563 (961)
.... .... .........-....+..++..+.+. .+.+|||.+....+..+.+.|.....- .+....-+.+.
T Consensus 372 ~~~~~~~~~~~~~~~~~~~~~~~id~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f-~~~~~~~ilpl 450 (924)
T KOG0920|consen 372 DSARSGPERSQLRLARLKLWEPEIDYDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPF-ADSLKFAILPL 450 (924)
T ss_pred cccccccccCccccccchhccccccHHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhcccc-ccccceEEEec
Confidence 0000 0000 0000000112223344444444333 368999999999998887766432111 11123457789
Q ss_pred cCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCC------------------CCHhhHHHHhccCC
Q 002135 564 RAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFP------------------GSIASLWQQAGRSG 625 (961)
Q Consensus 564 hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P------------------~s~~sy~QR~GRAG 625 (961)
|+.++.++++.+....-.|..+||+|||++|.+|.|++|-+||..|.- -|.++-.||.||||
T Consensus 451 Hs~~~s~eQ~~VF~~pp~g~RKIIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAG 530 (924)
T KOG0920|consen 451 HSSIPSEEQQAVFKRPPKGTRKIILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAG 530 (924)
T ss_pred cccCChHHHHHhcCCCCCCcchhhhhhhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhccccc
Confidence 999999999999999999999999999999999999999999976531 15678899999999
Q ss_pred CCCCCceEEEEeeCCcchhHHH-hchHHhhcCCCcccccCCCCHHHHHH-HHHHHHhcCCCChhhhhhhccCCHHHHHHH
Q 002135 626 RRERPSLAVYVAFEGPLDQYFM-KYPEKLFKSPIECCHIDAQNHKVLEQ-HLVCAALEHPLSLIYDEKYFGSGLSSGITT 703 (961)
Q Consensus 626 R~g~~g~~i~l~~~~~~d~~~~-~~~e~l~~~~ie~~~~~~~n~~vl~~-~l~~aa~e~p~~~~~~~~~f~~~~~~~l~~ 703 (961)
|. .+|.|+.++.....+.... ..+.+++..+++++.+...-...-.. -...-|.+- +-.+.+..++..
T Consensus 531 Rv-~~G~cy~L~~~~~~~~~~~~~q~PEilR~pL~~l~L~iK~l~~~~~~~fLskaldp---------P~~~~v~~a~~~ 600 (924)
T KOG0920|consen 531 RV-RPGICYHLYTRSRYEKLMLAYQLPEILRTPLEELCLHIKVLEQGSIKAFLSKALDP---------PPADAVDLAIER 600 (924)
T ss_pred Cc-cCCeeEEeechhhhhhcccccCChHHHhChHHHhhheeeeccCCCHHHHHHHhcCC---------CChHHHHHHHHH
Confidence 99 8999999887655554444 33455666666665554431110000 111111111 112346788889
Q ss_pred HHHCCccccCCC
Q 002135 704 LKNRGYLSSDPS 715 (961)
Q Consensus 704 L~~~g~l~~~~~ 715 (961)
|.+-|.|+.++.
T Consensus 601 L~~igaL~~~e~ 612 (924)
T KOG0920|consen 601 LKQIGALDESEE 612 (924)
T ss_pred HHHhccccCccc
Confidence 999999887664
No 112
>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=99.84 E-value=1.6e-18 Score=217.45 Aligned_cols=96 Identities=17% Similarity=0.204 Sum_probs=73.1
Q ss_pred cccHHHHHHHHhCCCCCCcHHHHHHHH----HHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 239 ALLDNTKSALKSTGISKLYSHQAESIM----ASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 239 ~L~~~l~~~L~~~g~~~l~~~Q~~ai~----~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
.+++...+.+...||+ +++.|.++++ ++.+|+++++.||||+|||++|++|++.... .+.+++|.+||++|..
T Consensus 230 ~~~~~~~~~~~~~~~~-~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~--~~~~vvi~t~t~~Lq~ 306 (850)
T TIGR01407 230 TLSSLFSKNIDRLGLE-YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI--TEKPVVISTNTKVLQS 306 (850)
T ss_pred cccHHHHHhhhhcCCc-cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc--CCCeEEEEeCcHHHHH
Confidence 4556677777778995 8999998777 4457899999999999999999999988765 3568999999999999
Q ss_pred HHHH-HHHHhHhhCCCCccEEEEc
Q 002135 315 DQLR-ALLAMTKAFDASIDIGVYD 337 (961)
Q Consensus 315 qq~~-~l~~l~~~~~~~i~v~~~~ 337 (961)
|... .+..+.+.++..+++.+..
T Consensus 307 Ql~~~~~~~l~~~~~~~~~~~~~k 330 (850)
T TIGR01407 307 QLLEKDIPLLNEILNFKINAALIK 330 (850)
T ss_pred HHHHHHHHHHHHHcCCCceEEEEE
Confidence 9865 4555544444334444333
No 113
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.83 E-value=3.1e-18 Score=206.67 Aligned_cols=121 Identities=21% Similarity=0.238 Sum_probs=105.5
Q ss_pred cHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEe
Q 002135 510 PISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAA 589 (961)
Q Consensus 510 ~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVA 589 (961)
....+..-+.....+|.++||||+|++.++.+++.|.+ .+..+..+||++++.+|.++++.|++|++.++||
T Consensus 427 qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~--------~gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~ 498 (655)
T TIGR00631 427 QVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKE--------LGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVG 498 (655)
T ss_pred hHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhh--------hccceeeeeCCCCHHHHHHHHHHHhcCCceEEEE
Confidence 33444555555566788999999999999999998876 3446788999999999999999999999999999
Q ss_pred ccccccccccCCccEEEEeC-----CCCCHhhHHHHhccCCCCCCCceEEEEeeC
Q 002135 590 TNALELGIDVGHIDVTLHLG-----FPGSIASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 590 T~aLe~GIDIp~vd~VI~~~-----~P~s~~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
|+.+++|+|+|++++||+++ +|.+..+|+||+|||||. ..|.+++++..
T Consensus 499 t~~L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~-~~G~vi~~~~~ 552 (655)
T TIGR00631 499 INLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-VNGKVIMYADK 552 (655)
T ss_pred cChhcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCC-CCCEEEEEEcC
Confidence 99999999999999999988 899999999999999998 68988877653
No 114
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.81 E-value=2.7e-18 Score=188.38 Aligned_cols=401 Identities=18% Similarity=0.183 Sum_probs=252.1
Q ss_pred cccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccH
Q 002135 231 AVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTK 310 (961)
Q Consensus 231 ~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptr 310 (961)
..|...| .++...+.|+++.--..|..+.+-++.+.+++-+++++.||||||...--..++..... ...+...-|.|
T Consensus 25 Npf~~~p--~s~rY~~ilk~R~~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~-~~~v~CTQprr 101 (699)
T KOG0925|consen 25 NPFNGKP--YSQRYYDILKKRRELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSH-LTGVACTQPRR 101 (699)
T ss_pred CCCCCCc--CcHHHHHHHHHHhcCchHHhHHHHHHHHhcCceEEEEecCCCCccccCcHHHHHHHHhh-ccceeecCchH
Confidence 4466663 67888888887655567888889999999999999999999999975433344444332 25577788999
Q ss_pred HHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchh
Q 002135 311 ALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTT 390 (961)
Q Consensus 311 aLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~ 390 (961)
--|.+...+...-. + +..+---|-.-.-+ .....+.-+-++|.+||....+. ...++..
T Consensus 102 vaamsva~RVadEM---D--v~lG~EVGysIrfE-dC~~~~T~Lky~tDgmLlrEams-----~p~l~~y---------- 160 (699)
T KOG0925|consen 102 VAAMSVAQRVADEM---D--VTLGEEVGYSIRFE-DCTSPNTLLKYCTDGMLLREAMS-----DPLLGRY---------- 160 (699)
T ss_pred HHHHHHHHHHHHHh---c--cccchhcccccccc-ccCChhHHHHHhcchHHHHHHhh-----Ccccccc----------
Confidence 88888877765432 1 21111112111100 00000111234666776543322 1234444
Q ss_pred hhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCC
Q 002135 391 EVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGS 470 (961)
Q Consensus 391 ~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~ 470 (961)
++||+||||.- .-....++-.|+.+... .++.++|.+|||+.- ..++.+++. +.++...|
T Consensus 161 ---------~viiLDeahER----tlATDiLmGllk~v~~~--rpdLk~vvmSatl~a--~Kfq~yf~n--~Pll~vpg- 220 (699)
T KOG0925|consen 161 ---------GVIILDEAHER----TLATDILMGLLKEVVRN--RPDLKLVVMSATLDA--EKFQRYFGN--APLLAVPG- 220 (699)
T ss_pred ---------cEEEechhhhh----hHHHHHHHHHHHHHHhh--CCCceEEEeecccch--HHHHHHhCC--CCeeecCC-
Confidence 99999999983 23334445555555543 358899999999843 345555553 67777777
Q ss_pred ccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHH--HCCCcEEEEecChHHHHHHHHHHHHH
Q 002135 471 PCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMV--QHGLRCIAFCRSRKLCELVLSYTREI 548 (961)
Q Consensus 471 p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~--~~g~k~IVF~~sr~~ae~l~~~L~~~ 548 (961)
..+...++.-.|. .+....+...+-++. +..+-+++|....++.|..++.+...
T Consensus 221 ~~PvEi~Yt~e~e------------------------rDylEaairtV~qih~~ee~GDilvFLtgeeeIe~aC~~i~re 276 (699)
T KOG0925|consen 221 THPVEIFYTPEPE------------------------RDYLEAAIRTVLQIHMCEEPGDILVFLTGEEEIEDACRKISRE 276 (699)
T ss_pred CCceEEEecCCCC------------------------hhHHHHHHHHHHHHHhccCCCCEEEEecCHHHHHHHHHHHHHH
Confidence 4444433322121 122222333332222 23468999999999999999988766
Q ss_pred HHhhCCccc-ccEEEEcCCCCHHHHHHHHHHHh---CC--CceEEEeccccccccccCCccEEEEeCC------------
Q 002135 549 LEETAPHLV-DSICVYRAGYVAEDRRRIERDFF---GG--KLCGVAATNALELGIDVGHIDVTLHLGF------------ 610 (961)
Q Consensus 549 l~~~~~~l~-~~v~~~hggls~~eR~~ie~~f~---~G--~~~vLVAT~aLe~GIDIp~vd~VI~~~~------------ 610 (961)
...+.+..+ .+|.++| +.+..+|.+... +| ..+|+|+|+.+|..+.|+++.+||.-|+
T Consensus 277 ~~~L~~~~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~RkvVvstniaetsltidgiv~VIDpGf~kqkVYNPRIRv 352 (699)
T KOG0925|consen 277 VDNLGPQVGPLKVVPLY----PAQQQRIFEPAPEKRNGAYGRKVVVSTNIAETSLTIDGIVFVIDPGFSKQKVYNPRIRV 352 (699)
T ss_pred HHhhccccCCceEEecC----chhhccccCCCCcccCCCccceEEEEecchheeeeeccEEEEecCchhhhcccCcceee
Confidence 655554443 3566777 444444444332 12 4689999999999999999999997764
Q ss_pred ------CCCHhhHHHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHHHHHHHHHhcC--
Q 002135 611 ------PGSIASLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLEQHLVCAALEH-- 682 (961)
Q Consensus 611 ------P~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~~~l~~aa~e~-- 682 (961)
|-|.++-.||+|||||. ++|.|+.++.+ +.|+... .+...+++++..|.....++
T Consensus 353 esllv~PISkasA~qR~gragrt-~pGkcfrLYte------------~~~~~em----~~~typeilrsNL~s~VL~LKk 415 (699)
T KOG0925|consen 353 ESLLVSPISKASAQQRAGRAGRT-RPGKCFRLYTE------------EAFEKEM----QPQTYPEILRSNLSSTVLQLKK 415 (699)
T ss_pred eeeeeccchHhHHHHHhhhccCC-CCCceEEeecH------------HhhhhcC----CCCCcHHHHHHhhHHHHHHHHh
Confidence 66889999999999998 89999988753 3333322 12344567777666555432
Q ss_pred -----CCChhhhhhhccCCHHHHHHHHHHCCccccCCCCCccc
Q 002135 683 -----PLSLIYDEKYFGSGLSSGITTLKNRGYLSSDPSLDSSA 720 (961)
Q Consensus 683 -----p~~~~~~~~~f~~~~~~~l~~L~~~g~l~~~~~~~~~~ 720 (961)
+....+...+-.+.+.++++.|...+.|..+++....+
T Consensus 416 lgI~dlvhfdfmDpPAPEtLMrALE~LnYLaaLdDdGnLT~lG 458 (699)
T KOG0925|consen 416 LGIDDLVHFDFMDPPAPETLMRALEVLNYLAALDDDGNLTSLG 458 (699)
T ss_pred cCcccccCCcCCCCCChHHHHHHHHHhhhhhhhCCCcccchhh
Confidence 23444445555567888888888877787777654433
No 115
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.80 E-value=1.9e-17 Score=201.21 Aligned_cols=119 Identities=22% Similarity=0.260 Sum_probs=105.2
Q ss_pred HHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEec
Q 002135 511 ISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAAT 590 (961)
Q Consensus 511 ~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT 590 (961)
...+...+......|.++||||+|++.++.++..|.+ .+..+..+||++++.+|..+++.|++|++.++|||
T Consensus 432 ~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~--------~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t 503 (652)
T PRK05298 432 VDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKE--------LGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGI 503 (652)
T ss_pred HHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhh--------cceeEEEEECCCCHHHHHHHHHHHHcCCceEEEEe
Confidence 4455555666667788999999999999999988865 34568889999999999999999999999999999
Q ss_pred cccccccccCCccEEEEeC-----CCCCHhhHHHHhccCCCCCCCceEEEEee
Q 002135 591 NALELGIDVGHIDVTLHLG-----FPGSIASLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 591 ~aLe~GIDIp~vd~VI~~~-----~P~s~~sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
+.+++|+|+|++++||+++ +|.+..+|+||+||+||. ..|.+++++.
T Consensus 504 ~~L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~-~~G~~i~~~~ 555 (652)
T PRK05298 504 NLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-VNGKVILYAD 555 (652)
T ss_pred CHHhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC-CCCEEEEEec
Confidence 9999999999999999887 588999999999999996 7899988775
No 116
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.76 E-value=4.2e-17 Score=191.11 Aligned_cols=326 Identities=17% Similarity=0.123 Sum_probs=185.2
Q ss_pred CCcHHHHHHHHHHh----CCC-cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 255 KLYSHQAESIMASL----AGK-NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G~-~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
.++.+|..||..+. +|+ .+++++.||+|||-+++--+...+..+..+++|+|+-+++|..|.+..+.++......
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~~~ 244 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFGTK 244 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCCccc
Confidence 68999999998754 453 5999999999999987554444444455789999999999999999988877543221
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA 409 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~ 409 (961)
...+.-..++. .++|.++|...+...+........ .+ ...-+++|||||||+
T Consensus 245 ~n~i~~~~~~~----------s~~i~lsTyqt~~~~~~~~~~~~~----~f--------------~~g~FDlIvIDEaHR 296 (875)
T COG4096 245 MNKIEDKKGDT----------SSEIYLSTYQTMTGRIEQKEDEYR----RF--------------GPGFFDLIVIDEAHR 296 (875)
T ss_pred eeeeecccCCc----------ceeEEEeehHHHHhhhhccccccc----cC--------------CCCceeEEEechhhh
Confidence 11122222222 478999999887654321101000 01 111259999999998
Q ss_pred hhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHH-HHHc-ccCCeEEE----ecCCCccceeEE--EE--
Q 002135 410 YKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHC-MELA-NLSTLELI----QNDGSPCAQKLF--VL-- 479 (961)
Q Consensus 410 ~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~-~~L~-~~~~~~~i----~~~g~p~~~~~~--~l-- 479 (961)
=.- .....++..+-. -.+++|||+.+..+.- -.++ |.+....- ..||--.+.+.. .+
T Consensus 297 gi~---~~~~~I~dYFdA----------~~~gLTATP~~~~d~~T~~~F~g~Pt~~YsleeAV~DGfLvpy~vi~i~~~~ 363 (875)
T COG4096 297 GIY---SEWSSILDYFDA----------ATQGLTATPKETIDRSTYGFFNGEPTYAYSLEEAVEDGFLVPYKVIRIDTDF 363 (875)
T ss_pred hHH---hhhHHHHHHHHH----------HHHhhccCcccccccccccccCCCcceeecHHHHhhccccCCCCceEEeeec
Confidence 332 111233333322 2245599986533211 1233 22110000 011111110000 00
Q ss_pred ----eCCCccc-cccccccccccchhhh------cccCCCCcHHHHHHHHHHHHHC---C---CcEEEEecChHHHHHHH
Q 002135 480 ----WNPTSCL-RSVLNKSQTDMDDTRN------AANKTSSPISEVSYLFAEMVQH---G---LRCIAFCRSRKLCELVL 542 (961)
Q Consensus 480 ----~~p~~~~-~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~ll~~l~~~---g---~k~IVF~~sr~~ae~l~ 542 (961)
|.|.... ...........++... ...........+...+.+.+.. | .||||||.+..+|+.+.
T Consensus 364 ~~~G~~~~~~serek~~g~~i~~dd~~~~~~d~dr~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~ 443 (875)
T COG4096 364 DLDGWKPDAGSEREKLQGEAIDEDDQNFEARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIR 443 (875)
T ss_pred cccCcCcCccchhhhhhccccCcccccccccccchhccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHH
Confidence 0011000 0000000000000000 0011122233455555555554 2 58999999999999998
Q ss_pred HHHHHHHHhhCCccc-ccEEEEcCCCCHHHHHHHHHHHh--CCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHH
Q 002135 543 SYTREILEETAPHLV-DSICVYRAGYVAEDRRRIERDFF--GGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQ 619 (961)
Q Consensus 543 ~~L~~~l~~~~~~l~-~~v~~~hggls~~eR~~ie~~f~--~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~Q 619 (961)
..|.....+ .. .-++.+.|.-.. . ...+..|. +.--+|.|+.++|..|||+|.|..+|.+..-.|...|+|
T Consensus 444 ~~~~~~ype----~~~~~a~~IT~d~~~-~-q~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF~r~VrSktkF~Q 517 (875)
T COG4096 444 EALVNEYPE----YNGRYAMKITGDAEQ-A-QALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQ 517 (875)
T ss_pred HHHHHhCcc----ccCceEEEEeccchh-h-HHHHHHHHhcCCCCceEEehhhhhcCCCchheeeeeehhhhhhHHHHHH
Confidence 887765443 33 235555554322 2 33344444 344568889999999999999999999999999999999
Q ss_pred HhccCCCC
Q 002135 620 QAGRSGRR 627 (961)
Q Consensus 620 R~GRAGR~ 627 (961)
|+||+-|.
T Consensus 518 MvGRGTRl 525 (875)
T COG4096 518 MVGRGTRL 525 (875)
T ss_pred HhcCcccc
Confidence 99999997
No 117
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.76 E-value=2.8e-16 Score=186.54 Aligned_cols=293 Identities=21% Similarity=0.229 Sum_probs=194.8
Q ss_pred HHHHHHh-CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 244 TKSALKS-TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 244 l~~~L~~-~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
+.+.+++ .|+ +||..|.--...+..|+++-++||||.|||.--++-.+- ....+.++++|+||+.|+.|..+++++
T Consensus 71 ~~~fF~k~~G~-~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~--~a~kgkr~yii~PT~~Lv~Q~~~kl~~ 147 (1187)
T COG1110 71 FEEFFKKATGF-RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLY--LAKKGKRVYIIVPTTTLVRQVYERLKK 147 (1187)
T ss_pred HHHHHHHhhCC-CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHH--HHhcCCeEEEEecCHHHHHHHHHHHHH
Confidence 3344544 466 899999999999999999999999999999644333222 223468999999999999999999999
Q ss_pred hHhhCC-CCccEEEEcCCCcHHHHHH----Hhc-CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhh
Q 002135 323 MTKAFD-ASIDIGVYDGDTTQKDRMW----LRD-NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIF 396 (961)
Q Consensus 323 l~~~~~-~~i~v~~~~Gd~~~~~r~~----l~~-~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~ 396 (961)
+....+ ..+.+. |||..+.++++. +.+ +.+|+|||..-|... + ..|.++
T Consensus 148 ~~e~~~~~~~~~~-yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~-------~-e~L~~~---------------- 202 (1187)
T COG1110 148 FAEDAGSLDVLVV-YHSALPTKEKEEALERIESGDFDILITTSQFLSKR-------F-EELSKL---------------- 202 (1187)
T ss_pred HHhhcCCcceeee-eccccchHHHHHHHHHHhcCCccEEEEeHHHHHhh-------H-HHhccc----------------
Confidence 987766 334444 999977776543 333 489999998766421 1 223322
Q ss_pred cceeEEEEecchhhhcccchHHHHHHH----------------HHHH-------------Hhhc-------ccCCCCcEE
Q 002135 397 LFIRFVVIDEAHAYKGAFGCHTALILR----------------RLCR-------------LCSH-------VYGSDPSFV 440 (961)
Q Consensus 397 ~~i~~VVIDEaH~~~~~fg~~~~~ilr----------------rL~~-------------~~~~-------~~~~~~q~I 440 (961)
++++|++|.+|.++.. +.++..+|+ .+++ .... .-...-++|
T Consensus 203 -kFdfifVDDVDA~Lka-skNvDriL~LlGf~eE~i~~a~~~~~lr~~~~~~~~~~~~~e~~~~~e~~~~~~r~k~g~Lv 280 (1187)
T COG1110 203 -KFDFIFVDDVDAILKA-SKNVDRLLRLLGFSEEVIESAYELIKLRRKLYGEKRAERVREELREVEREREKKRRKLGILV 280 (1187)
T ss_pred -CCCEEEEccHHHHHhc-cccHHHHHHHcCCCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhccCCceEE
Confidence 2499999999987531 122222211 1111 1000 012335889
Q ss_pred EeccCCCChH---HHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHH
Q 002135 441 FSTATSANPR---EHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYL 517 (961)
Q Consensus 441 ~lSATl~n~~---e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 517 (961)
.+|||...-. ..++.|+|.. + .+.....+..+- ... .......+..+
T Consensus 281 vsSATg~~rg~R~~LfReLlgFe---v---G~~~~~LRNIvD-----------------------~y~-~~~~~e~~~el 330 (1187)
T COG1110 281 VSSATGKPRGSRLKLFRELLGFE---V---GSGGEGLRNIVD-----------------------IYV-ESESLEKVVEL 330 (1187)
T ss_pred EeeccCCCCCchHHHHHHHhCCc---c---Cccchhhhheee-----------------------eec-cCccHHHHHHH
Confidence 9999974322 5667777642 1 111111111000 000 11333444555
Q ss_pred HHHHHHCCCcEEEEecC---hHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc---
Q 002135 518 FAEMVQHGLRCIAFCRS---RKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN--- 591 (961)
Q Consensus 518 l~~l~~~g~k~IVF~~s---r~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~--- 591 (961)
+..+ |...|||++. ++.+++++++|+. .+.++..+|++ .++.++.|..|++++||...
T Consensus 331 vk~l---G~GgLIfV~~d~G~e~aeel~e~Lr~--------~Gi~a~~~~a~-----~~~~le~F~~GeidvLVGvAsyY 394 (1187)
T COG1110 331 VKKL---GDGGLIFVPIDYGREKAEELAEYLRS--------HGINAELIHAE-----KEEALEDFEEGEVDVLVGVASYY 394 (1187)
T ss_pred HHHh---CCCeEEEEEcHHhHHHHHHHHHHHHh--------cCceEEEeecc-----chhhhhhhccCceeEEEEecccc
Confidence 5443 5578999999 8888888888876 55678888873 37789999999999998654
Q ss_pred -ccccccccCC-ccEEEEeCCCC
Q 002135 592 -ALELGIDVGH-IDVTLHLGFPG 612 (961)
Q Consensus 592 -aLe~GIDIp~-vd~VI~~~~P~ 612 (961)
++-+|||+|. ++.+|.+|.|.
T Consensus 395 G~lVRGlDLP~rirYaIF~GvPk 417 (1187)
T COG1110 395 GVLVRGLDLPHRIRYAVFYGVPK 417 (1187)
T ss_pred cceeecCCchhheeEEEEecCCc
Confidence 8999999998 69999999994
No 118
>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=99.76 E-value=5.7e-17 Score=197.78 Aligned_cols=326 Identities=13% Similarity=0.083 Sum_probs=181.3
Q ss_pred CcHHHHHHHHHHh----C------CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHh
Q 002135 256 LYSHQAESIMASL----A------GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTK 325 (961)
Q Consensus 256 l~~~Q~~ai~~il----~------G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~ 325 (961)
++.||.+|+..+. + .+..+++.+||||||++....+...+......++|+|+|+++|..|+.+.+.++..
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~ 318 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQK 318 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCC
Confidence 7889999998763 2 25799999999999999877665555444567999999999999999999988643
Q ss_pred hCCCCccEEEEcCCCcHHHHHHHhc-CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEE
Q 002135 326 AFDASIDIGVYDGDTTQKDRMWLRD-NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVI 404 (961)
Q Consensus 326 ~~~~~i~v~~~~Gd~~~~~r~~l~~-~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVI 404 (961)
.. . ........-+..+.+ ...|+|+|...+...+. ..+... ..-..--+||+
T Consensus 319 ~~---~----~~~~s~~~L~~~l~~~~~~iivtTiQk~~~~~~-------~~~~~~-------------~~~~~~~lvIv 371 (667)
T TIGR00348 319 DC---A----ERIESIAELKRLLEKDDGGIIITTIQKFDKKLK-------EEEEKF-------------PVDRKEVVVIF 371 (667)
T ss_pred CC---C----cccCCHHHHHHHHhCCCCCEEEEEhHHhhhhHh-------hhhhcc-------------CCCCCCEEEEE
Confidence 10 1 011111222233333 36899999998864220 111111 00000038999
Q ss_pred ecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHH-HHHHHcccCCeEEEe--------cCCCcccee
Q 002135 405 DEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPRE-HCMELANLSTLELIQ--------NDGSPCAQK 475 (961)
Q Consensus 405 DEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e-~~~~L~~~~~~~~i~--------~~g~p~~~~ 475 (961)
||||+... | .+. +.++... ++..++++|||+-...+ .-...++...-..+. .+|...+.
T Consensus 372 DEaHrs~~--~-~~~---~~l~~~~-----p~a~~lGfTaTP~~~~d~~t~~~f~~~fg~~i~~Y~~~~AI~dG~~~~i- 439 (667)
T TIGR00348 372 DEAHRSQY--G-ELA---KNLKKAL-----KNASFFGFTGTPIFKKDRDTSLTFAYVFGRYLHRYFITDAIRDGLTVKI- 439 (667)
T ss_pred EcCccccc--h-HHH---HHHHhhC-----CCCcEEEEeCCCcccccccccccccCCCCCeEEEeeHHHHhhcCCeeeE-
Confidence 99998532 2 122 2222221 34589999999853211 111122210001111 12211111
Q ss_pred EEEEeCCCccccccccccccc-cchh----------------hhc------ccCCCCcHHHH-HHHHHHHHH----CCCc
Q 002135 476 LFVLWNPTSCLRSVLNKSQTD-MDDT----------------RNA------ANKTSSPISEV-SYLFAEMVQ----HGLR 527 (961)
Q Consensus 476 ~~~l~~p~~~~~~~~~~~~~~-~~~~----------------~~~------~~~~~~~~~~~-~~ll~~l~~----~g~k 527 (961)
.+.+.............. .... ... ..........+ ..++.+... .+.+
T Consensus 440 ---~Y~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ia~~i~~h~~~~~~~~~~k 516 (667)
T TIGR00348 440 ---DYEDRLPEDHLDRKKLDAFFDEIFELLPERIREITKESLKEKLQKTKKILFNEDRLESIAKDIAEHYAKFKELFKFK 516 (667)
T ss_pred ---EEEecchhhccChHHHHHHHHHHHHhhhccccHHHHHHHHHHHHHHHhhhcChHHHHHHHHHHHHHHHHhhhcccCc
Confidence 111111100000000000 0000 000 00000111111 122222211 2479
Q ss_pred EEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHH---------------------HHHHHHHHHhC-CCce
Q 002135 528 CIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAE---------------------DRRRIERDFFG-GKLC 585 (961)
Q Consensus 528 ~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~---------------------eR~~ie~~f~~-G~~~ 585 (961)
++|||.++..|..+.+.+.+.+.... ......++++...+ ..+.+.++|++ +.++
T Consensus 517 amvv~~sr~~a~~~~~~l~~~~~~~~---~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~~~ 593 (667)
T TIGR00348 517 AMVVAISRYACVEEKNALDEELNEKF---EASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEENPK 593 (667)
T ss_pred eeEEEecHHHHHHHHHHHHhhccccc---CCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCCce
Confidence 99999999999999888776543321 11233444432221 23468888976 7899
Q ss_pred EEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCC
Q 002135 586 GVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRR 627 (961)
Q Consensus 586 vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~ 627 (961)
+||.++.+..|+|.|.+++++...+-.+ ..++|.+||+.|.
T Consensus 594 ilIVvdmllTGFDaP~l~tLyldKplk~-h~LlQai~R~nR~ 634 (667)
T TIGR00348 594 LLIVVDMLLTGFDAPILNTLYLDKPLKY-HGLLQAIARTNRI 634 (667)
T ss_pred EEEEEcccccccCCCccceEEEeccccc-cHHHHHHHHhccc
Confidence 9999999999999999999887776555 4689999999993
No 119
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.75 E-value=1e-16 Score=191.82 Aligned_cols=318 Identities=19% Similarity=0.250 Sum_probs=201.5
Q ss_pred CCCcHHHHHHHHHHhCC----CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 254 SKLYSHQAESIMASLAG----KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~G----~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
..+.+-|..|++.+... +..++.+.||||||.+|+-.+-+.+.. |..+|+|+|-.+|..|..++++..+.
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~--GkqvLvLVPEI~Ltpq~~~rf~~rFg---- 270 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQ--GKQVLVLVPEIALTPQLLARFKARFG---- 270 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHc--CCEEEEEeccccchHHHHHHHHHHhC----
Confidence 36788899999998765 679999999999999997776666654 68999999999999999999988654
Q ss_pred CccEEEEcCCCcHHHHHH----H-hcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEE
Q 002135 330 SIDIGVYDGDTTQKDRMW----L-RDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVI 404 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~----l-~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVI 404 (961)
.+++++++.....+|.. + ...++|+|+|--.|. .-|++| ++|||
T Consensus 271 -~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAlF-----------~Pf~~L-------------------GLIIv 319 (730)
T COG1198 271 -AKVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSALF-----------LPFKNL-------------------GLIIV 319 (730)
T ss_pred -CChhhhcccCChHHHHHHHHHHhcCCceEEEEechhhc-----------Cchhhc-------------------cEEEE
Confidence 56888898887776632 2 245899999976543 124566 99999
Q ss_pred ecchhhh--c--ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCcc---ceeEE
Q 002135 405 DEAHAYK--G--AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPC---AQKLF 477 (961)
Q Consensus 405 DEaH~~~--~--~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~---~~~~~ 477 (961)
||=|.-+ . ....|...+ .-...+ ..+.++|+.|||++ -+.......|. ...+....+.. .....
T Consensus 320 DEEHD~sYKq~~~prYhARdv----A~~Ra~--~~~~pvvLgSATPS-LES~~~~~~g~--y~~~~L~~R~~~a~~p~v~ 390 (730)
T COG1198 320 DEEHDSSYKQEDGPRYHARDV----AVLRAK--KENAPVVLGSATPS-LESYANAESGK--YKLLRLTNRAGRARLPRVE 390 (730)
T ss_pred eccccccccCCcCCCcCHHHH----HHHHHH--HhCCCEEEecCCCC-HHHHHhhhcCc--eEEEEccccccccCCCcce
Confidence 9999743 2 123333332 211111 13568899999975 22222222221 12211111110 11111
Q ss_pred EEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHH-------------
Q 002135 478 VLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSY------------- 544 (961)
Q Consensus 478 ~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~------------- 544 (961)
++ ++... .......-...+.+.+....+.|.++|+|.|.|..+-.++..
T Consensus 391 ii----------------Dmr~e--~~~~~~~lS~~Ll~~i~~~l~~geQ~llflnRRGys~~l~C~~Cg~v~~Cp~Cd~ 452 (730)
T COG1198 391 II----------------DMRKE--PLETGRSLSPALLEAIRKTLERGEQVLLFLNRRGYAPLLLCRDCGYIAECPNCDS 452 (730)
T ss_pred EE----------------ecccc--ccccCccCCHHHHHHHHHHHhcCCeEEEEEccCCccceeecccCCCcccCCCCCc
Confidence 10 00000 000000122455666777778899999999998877544221
Q ss_pred -------------------------------------------HHHHHHhhCCcccccEEEEcCCCCH--HHHHHHHHHH
Q 002135 545 -------------------------------------------TREILEETAPHLVDSICVYRAGYVA--EDRRRIERDF 579 (961)
Q Consensus 545 -------------------------------------------L~~~l~~~~~~l~~~v~~~hggls~--~eR~~ie~~f 579 (961)
+.+.+.+..|. .++..+-++.+. ..-+..+..|
T Consensus 453 ~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~~G~GterieeeL~~~FP~--~rv~r~d~Dtt~~k~~~~~~l~~~ 530 (730)
T COG1198 453 PLTLHKATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELKRLFPG--ARIIRIDSDTTRRKGALEDLLDQF 530 (730)
T ss_pred ceEEecCCCeeEeCCCCCCCCCCCCCCCCCCCeeEEecccHHHHHHHHHHHCCC--CcEEEEccccccchhhHHHHHHHH
Confidence 01111111111 122233333222 2345678899
Q ss_pred hCCCceEEEeccccccccccCCccEEEEeCC------CC------CHhhHHHHhccCCCCCCCceEEEEe
Q 002135 580 FGGKLCGVAATNALELGIDVGHIDVTLHLGF------PG------SIASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 580 ~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~------P~------s~~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
.+|+.+|||.|.++..|.|+|++.+|...+. |. +...+.|-+|||||.+++|.+++-.
T Consensus 531 ~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~QvaGRAgR~~~~G~VvIQT 600 (730)
T COG1198 531 ANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRAGKPGEVVIQT 600 (730)
T ss_pred hCCCCCeeecchhhhcCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHHHhhhccCCCCCeEEEEe
Confidence 9999999999999999999999998775543 22 4466899999999999999987654
No 120
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.74 E-value=2.9e-16 Score=175.30 Aligned_cols=118 Identities=22% Similarity=0.233 Sum_probs=103.4
Q ss_pred HHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc
Q 002135 512 SEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN 591 (961)
Q Consensus 512 ~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~ 591 (961)
..+..-+.....++.++||-+=|++.||.|.++|.+ .+.++..+|++...-+|.+|+++++.|..+|||.-|
T Consensus 433 dDL~~EI~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e--------~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGIN 504 (663)
T COG0556 433 DDLLSEIRKRVAKNERVLVTTLTKKMAEDLTEYLKE--------LGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGIN 504 (663)
T ss_pred HHHHHHHHHHHhcCCeEEEEeehHHHHHHHHHHHHh--------cCceEEeeeccchHHHHHHHHHHHhcCCccEEEeeh
Confidence 333344444556789999999999999999999987 677899999999999999999999999999999999
Q ss_pred ccccccccCCccEEEEeC-----CCCCHhhHHHHhccCCCCCCCceEEEEee
Q 002135 592 ALELGIDVGHIDVTLHLG-----FPGSIASLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 592 aLe~GIDIp~vd~VI~~~-----~P~s~~sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
.|-.|+|+|.|.+|...| +.+|-.+++|-+|||.|. -.|.+++.++
T Consensus 505 LLREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN-~~GkvIlYAD 555 (663)
T COG0556 505 LLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-VNGKVILYAD 555 (663)
T ss_pred hhhccCCCcceeEEEEeecCccccccccchHHHHHHHHhhc-cCCeEEEEch
Confidence 999999999999988775 677999999999999997 6788887664
No 121
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.74 E-value=9.3e-16 Score=180.58 Aligned_cols=326 Identities=18% Similarity=0.158 Sum_probs=205.7
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
.+|. .+|+.|.-+.-.++.|+ |..+.||+|||+++.+|++...+. +..+.+++|+--||++-++.+..+...++
T Consensus 74 ~lg~-r~ydvQlig~l~Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL~--G~~VhvvT~NdyLA~RDae~m~~ly~~LG- 147 (764)
T PRK12326 74 TLGL-RPFDVQLLGALRLLAGD--VIEMATGEGKTLAGAIAAAGYALQ--GRRVHVITVNDYLARRDAEWMGPLYEALG- 147 (764)
T ss_pred HcCC-CcchHHHHHHHHHhCCC--cccccCCCCHHHHHHHHHHHHHHc--CCCeEEEcCCHHHHHHHHHHHHHHHHhcC-
Confidence 3677 79999999999998875 779999999999999999877664 67789999999999999999999988776
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA 409 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~ 409 (961)
++++...++.+..+|+... .++|+++|..-+--..|..+-.. + .......++.+.||||+|.
T Consensus 148 -Lsvg~i~~~~~~~err~aY-~~DItYgTn~e~gFDyLRDnm~~-----~-----------~~~~v~R~~~faIVDEvDS 209 (764)
T PRK12326 148 -LTVGWITEESTPEERRAAY-ACDVTYASVNEIGFDVLRDQLVT-----D-----------VADLVSPNPDVAIIDEADS 209 (764)
T ss_pred -CEEEEECCCCCHHHHHHHH-cCCCEEcCCcccccccchhhhcc-----C-----------hHhhcCCccceeeecchhh
Confidence 8899999988888876665 58999999876532222211100 0 0001112348999999997
Q ss_pred hh-----------cc-cchHHHHHHHHHHHHhhcccC-------CC----------------------------------
Q 002135 410 YK-----------GA-FGCHTALILRRLCRLCSHVYG-------SD---------------------------------- 436 (961)
Q Consensus 410 ~~-----------~~-fg~~~~~ilrrL~~~~~~~~~-------~~---------------------------------- 436 (961)
++ |. -+. ..+..+.++...+.. .+
T Consensus 210 iLIDeArtPLiISg~~~~~---~~y~~~~~~v~~L~~~~dy~ide~~k~v~LTe~G~~~~e~~l~~~~ly~~~~~~~~~~ 286 (764)
T PRK12326 210 VLVDEALVPLVLAGSTPGE---APRGEIAELVRRLREGKDYEIDDDGRNVHLTDKGARKVEKALGGIDLYSEEHVGTTLT 286 (764)
T ss_pred heeccccCceeeeCCCcch---hHHHHHHHHHHhcCcCCcEEEEcCCCeeEecHHHHHHHHHHcCCccccCcchhHHHHH
Confidence 63 11 111 111111111111000 00
Q ss_pred ----------------------------------------------------------------------------CcEE
Q 002135 437 ----------------------------------------------------------------------------PSFV 440 (961)
Q Consensus 437 ----------------------------------------------------------------------------~q~I 440 (961)
+.+-
T Consensus 287 ~i~~AL~A~~l~~~d~dYiV~dgeV~iVDe~TGRvm~grrwsdGLHQaIEaKE~v~i~~e~~t~AsIT~QnfFr~Y~kLs 366 (764)
T PRK12326 287 QVNVALHAHALLQRDVHYIVRDGKVHLINASRGRIAQLQRWPDGLQAAVEAKEGLETTETGEVLDTITVQALIGRYPTVC 366 (764)
T ss_pred HHHHHHHHHHHHhcCCcEEEECCEEEEEECCCCCcCCCCccChHHHHHHHHHcCCCCCCCceeeehhhHHHHHHhcchhe
Confidence 1223
Q ss_pred EeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHH
Q 002135 441 FSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAE 520 (961)
Q Consensus 441 ~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~ 520 (961)
+||.|.....+.+..+.+.. + +.-|+..... ..+.+.........+...+..-+..
T Consensus 367 GMTGTa~t~~~Ef~~iY~l~---V--------------v~IPtnkp~~-------R~d~~d~iy~t~~~k~~Aii~ei~~ 422 (764)
T PRK12326 367 GMTGTAVAAGEQLRQFYDLG---V--------------SVIPPNKPNI-------REDEADRVYATAAEKNDAIVEHIAE 422 (764)
T ss_pred eecCCChhHHHHHHHHhCCc---E--------------EECCCCCCce-------eecCCCceEeCHHHHHHHHHHHHHH
Confidence 33444333333333333321 1 1111111000 0000111122233455556666666
Q ss_pred HHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCC-ceEEEecccccccccc
Q 002135 521 MVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGK-LCGVAATNALELGIDV 599 (961)
Q Consensus 521 l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~-~~vLVAT~aLe~GIDI 599 (961)
+.+.|.++||.|.|...+|.++..|.+. +.+...+++.....|-+-|- ..|+ -.|.||||+++||.||
T Consensus 423 ~~~~GrPVLVgt~sI~~SE~ls~~L~~~--------gI~h~vLNAk~~~~EA~IIa---~AG~~gaVTIATNMAGRGTDI 491 (764)
T PRK12326 423 VHETGQPVLVGTHDVAESEELAERLRAA--------GVPAVVLNAKNDAEEARIIA---EAGKYGAVTVSTQMAGRGTDI 491 (764)
T ss_pred HHHcCCCEEEEeCCHHHHHHHHHHHHhC--------CCcceeeccCchHhHHHHHH---hcCCCCcEEEEecCCCCccCe
Confidence 7778999999999999999999988762 22334455543322211122 2443 4678999999999999
Q ss_pred CC----------c-----cEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEe
Q 002135 600 GH----------I-----DVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 600 p~----------v-----d~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
.- | =+||....|.|.---.|-.|||||.|.||.+.++.
T Consensus 492 kLg~~~~~~~~~V~~~GGLhVIgTerheSrRID~QLrGRaGRQGDpGss~f~l 544 (764)
T PRK12326 492 RLGGSDEADRDRVAELGGLHVIGTGRHRSERLDNQLRGRAGRQGDPGSSVFFV 544 (764)
T ss_pred ecCCCcccchHHHHHcCCcEEEeccCCchHHHHHHHhcccccCCCCCceeEEE
Confidence 41 2 27888999999999999999999999999886554
No 122
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.74 E-value=2.7e-16 Score=189.78 Aligned_cols=121 Identities=21% Similarity=0.126 Sum_probs=103.2
Q ss_pred CCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEE
Q 002135 508 SSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGV 587 (961)
Q Consensus 508 ~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vL 587 (961)
..+...+...+......|.++||||+|+..++.+++.|+. .+.....+|+ .+.+|+..+.+|+.+...|+
T Consensus 581 ~eK~~Ali~~I~~~~~~grpVLIft~Sve~sE~Ls~~L~~--------~gI~h~vLna--kq~~REa~Iia~AG~~g~Vt 650 (1025)
T PRK12900 581 REKYNAIVLKVEELQKKGQPVLVGTASVEVSETLSRMLRA--------KRIAHNVLNA--KQHDREAEIVAEAGQKGAVT 650 (1025)
T ss_pred HHHHHHHHHHHHHHhhCCCCEEEEeCcHHHHHHHHHHHHH--------cCCCceeecC--CHHHhHHHHHHhcCCCCeEE
Confidence 3455566666666667899999999999999999998876 3345667886 68899999999999999999
Q ss_pred EeccccccccccC---Ccc-----EEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEee
Q 002135 588 AATNALELGIDVG---HID-----VTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 588 VAT~aLe~GIDIp---~vd-----~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
||||+++||+||+ .|. +||++..|.|...|.||+|||||.|.+|.+++++.
T Consensus 651 IATNMAGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpGsS~ffvS 709 (1025)
T PRK12900 651 IATNMAGRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPGESVFYVS 709 (1025)
T ss_pred EeccCcCCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCcceEEEec
Confidence 9999999999998 453 45889999999999999999999999999987764
No 123
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.73 E-value=2.8e-15 Score=186.10 Aligned_cols=118 Identities=19% Similarity=0.128 Sum_probs=80.9
Q ss_pred HHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc
Q 002135 512 SEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN 591 (961)
Q Consensus 512 ~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~ 591 (961)
..++..+..+...+++++|+++|.+..+.++..+... ...+ ...|.-. .|.++.++|++++-.||++|+
T Consensus 634 ~~~~~~i~~~~~~~g~~LVLFtS~~~l~~v~~~l~~~--------~~~~-l~Qg~~~--~~~~l~~~F~~~~~~vLlG~~ 702 (820)
T PRK07246 634 EEIAKRLEELKQLQQPILVLFNSKKHLLAVSDLLDQW--------QVSH-LAQEKNG--TAYNIKKRFDRGEQQILLGLG 702 (820)
T ss_pred HHHHHHHHHHHhcCCCEEEEECcHHHHHHHHHHHhhc--------CCcE-EEeCCCc--cHHHHHHHHHcCCCeEEEecc
Confidence 3455555555556779999999999999888777531 1122 2233111 256689999999889999999
Q ss_pred ccccccccCC--ccEEEEeCCCCC------------------------------HhhHHHHhccCCCCCCCceEEEEeeC
Q 002135 592 ALELGIDVGH--IDVTLHLGFPGS------------------------------IASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 592 aLe~GIDIp~--vd~VI~~~~P~s------------------------------~~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
.+.+|||+|+ ...||..++|.. +..+.|-+||.=|...+.-++++++.
T Consensus 703 sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv~ilD~ 782 (820)
T PRK07246 703 SFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAVLILDR 782 (820)
T ss_pred hhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcEEEEEECC
Confidence 9999999963 555676776631 24478999999998654334444543
Q ss_pred C
Q 002135 640 G 640 (961)
Q Consensus 640 ~ 640 (961)
.
T Consensus 783 R 783 (820)
T PRK07246 783 R 783 (820)
T ss_pred c
Confidence 3
No 124
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.70 E-value=1.2e-16 Score=177.58 Aligned_cols=274 Identities=53% Similarity=0.808 Sum_probs=241.1
Q ss_pred HHHHhhhcCCccchhhhhhhhhhcCCceEEeecCccccCCCCcEEEEecccccccccccccCCCccccCHHHHHHHHHHh
Q 002135 49 ALNQLEKFGVRVGIEDIENLAVLCPKVVQFANDDMESKNHDDSIVIINVSTEERDKVEDNLGSGQKAISLSKIFNAMKKR 128 (961)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 (961)
.+..+.|.+.++.+.|+..++++|||.+ ..|++..|++|.+++.++ .++...++..+.++...+..|.+|
T Consensus 194 ~~~~~~~~~~R~R~~~~~~~s~~~~K~~---s~~~~~~NY~N~~VI~~~-------~~M~EKS~~~~~~~~K~~~~~~~R 263 (1034)
T KOG4150|consen 194 SLSRLAMSGVRVRIQDVKNLSVICPKVI---TDDYEAVNYENAIVIADY-------LEMDEKSGRKKIPLAKLFSAMKKR 263 (1034)
T ss_pred HHHHHHhhcCceeecccchhhhhccccc---ccccccccccCceeeech-------HhHhhhcccccchHHHHHhhccch
Confidence 3344445689999999999999999998 788999999999998873 344557788899999999999999
Q ss_pred hHhhhhhHHHHHHHHHHHHhhhhcCcCHHHHHHHHhhccCCCCchhhhhhhccCCCCCCCcccccccccccCCChHHHHH
Q 002135 129 ERSFKTNLWEAVNLLMCKLQKRVMSLSVEDLLTYVKERRTDVRGNEVKRARRSQSSTSSSHSFQRRCSDKSQLLPLEMVE 208 (961)
Q Consensus 129 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 208 (961)
+..++.+.|+.+..++.++.++.+..---++++.+.+...+. +.++.....+.+|.+++-+..+.|+++.+.++.++.+
T Consensus 264 ~A~~K~~~~E~~~~~~~~~~~E~~~~~~~~~~~~~~~G~~~~-~~~~~~~GK~~~~~~~s~~~~~~~~~s~~~~~~~~~~ 342 (1034)
T KOG4150|consen 264 EASFKSDFWESIRSLLNKNTGESGIAISLELLKFASEGRADG-GNEARQAGKGTCPTSGSRKFQTLCHATNSLLPSEMVE 342 (1034)
T ss_pred hhhhhhhHHHHHHHHHhcccccchhhhhHHHHhhhhhccccc-ccchhhcCCccCcccchhhhhhcCcccceecchhHHH
Confidence 999999999999999999877765534456688888877765 5778888889999999888999999999999999999
Q ss_pred HHHccCCCCCceEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHH
Q 002135 209 HLRKGIGSQGQMVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 209 ~lr~~~~~~~~iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~ 288 (961)
++|.+.. ++.|+++.+|++...+-+..+++++...+++++.|...++.+|.+++.+++. |+++|-
T Consensus 343 ~~~~~~~--~~~V~~~~I~~~K~A~V~~~D~~sE~~~~A~~R~~~~~~~s~~~~~~s~~L~-------------~~~~~~ 407 (1034)
T KOG4150|consen 343 HLRNGSK--GQVVHVEVIKARKSAYVEMSDKLSETTKSALKRIGLNTLYSHQAEAISAALA-------------KSLCYN 407 (1034)
T ss_pred HhhccCC--ceEEEEEehhhhhcceeecccCCCchhHHHHHhcCcceeecCHHHHHHHHhh-------------hccccc
Confidence 9998764 7999999999999999999999999999999999999999999999999885 678999
Q ss_pred HHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHH
Q 002135 289 LPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWL 348 (961)
Q Consensus 289 Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l 348 (961)
.|+++.+.......+||+.|+++++++|.+++..++..+...+..++|+|+++.+.+-+.
T Consensus 408 ~~~~~~~~~~~~~~~~Y~~~~~~~~~~~~R~L~~L~~~F~~~~~~~~~~~~~~~K~~~~~ 467 (1034)
T KOG4150|consen 408 VPVFEELCKDTNSCALYLFPTKALAQDQLRALSDLIKGFEASINMGVYDGDTPYKDRTRL 467 (1034)
T ss_pred cHHHHHHHhcccceeeeecchhhHHHHHHHHHHHHHHHHHhhcCcceEeCCCCcCCHHHH
Confidence 999999988888899999999999999999999999988888889999999987765443
No 125
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.69 E-value=8.3e-16 Score=158.25 Aligned_cols=174 Identities=30% Similarity=0.419 Sum_probs=131.3
Q ss_pred hCCCCCCcHHHHHHHHHHhCC-CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 250 STGISKLYSHQAESIMASLAG-KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G-~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
..++..++++|.++++.+..+ +++++.++||||||.++..+++..+...+..++++++|+++++.|+...+.+......
T Consensus 3 ~~~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~ 82 (201)
T smart00487 3 KFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSLG 82 (201)
T ss_pred ccCCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccCC
Confidence 346778999999999999998 9999999999999999999999988876667899999999999999999988765332
Q ss_pred CCccEEEEcCCCcHHHHHHHhcCC-cEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecc
Q 002135 329 ASIDIGVYDGDTTQKDRMWLRDNA-RLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEA 407 (961)
Q Consensus 329 ~~i~v~~~~Gd~~~~~r~~l~~~~-~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEa 407 (961)
......+++.........+..+. +++++|++.+...+.... ..... ++++|+||+
T Consensus 83 -~~~~~~~~~~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~----~~~~~-------------------~~~iIiDE~ 138 (201)
T smart00487 83 -LKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDL----LELSN-------------------VDLVILDEA 138 (201)
T ss_pred -eEEEEEeCCcchHHHHHHHhcCCCCEEEeChHHHHHHHHcCC----cCHhH-------------------CCEEEEECH
Confidence 14466677766555555555665 999999999876542111 11222 389999999
Q ss_pred hhhhc-ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHH
Q 002135 408 HAYKG-AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCME 455 (961)
Q Consensus 408 H~~~~-~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~ 455 (961)
|.+.. .+...+..+++.+ ....+++++|||+.+......+
T Consensus 139 h~~~~~~~~~~~~~~~~~~--------~~~~~~v~~saT~~~~~~~~~~ 179 (201)
T smart00487 139 HRLLDGGFGDQLEKLLKLL--------PKNVQLLLLSATPPEEIENLLE 179 (201)
T ss_pred HHHhcCCcHHHHHHHHHhC--------CccceEEEEecCCchhHHHHHH
Confidence 99986 4555555554433 2356889999999765544433
No 126
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=99.68 E-value=1.8e-15 Score=174.43 Aligned_cols=347 Identities=19% Similarity=0.226 Sum_probs=220.4
Q ss_pred CCcHHHHHHHHHHh----CCCcEEEEecCCchhHHHHHHHHHHHHh--cCCCCeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 255 KLYSHQAESIMASL----AGKNVVVATMTSSGKSLCYNLPVLEALS--HDLSSSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla~~Lpil~~l~--~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
.++++|.+.++.+. +|-|.|+....|-|||+.- +..+..+. .+..+.-||++|...|.+ +.+++++++.
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQt-Is~l~yl~~~~~~~GPfLVi~P~StL~N-W~~Ef~rf~P--- 241 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQT-ISLLGYLKGRKGIPGPFLVIAPKSTLDN-WMNEFKRFTP--- 241 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHH-HHHHHHHHHhcCCCCCeEEEeeHhhHHH-HHHHHHHhCC---
Confidence 69999999999865 6789999999999999864 23333332 233456799999887765 7788887754
Q ss_pred CCccEEEEcCCCcHHHHHHHh------cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEE
Q 002135 329 ASIDIGVYDGDTTQKDRMWLR------DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFV 402 (961)
Q Consensus 329 ~~i~v~~~~Gd~~~~~r~~l~------~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~V 402 (961)
.+.+.+|.||.. +|..+. ..-+|+|||.++... -+.+|..+.| +|+
T Consensus 242 -~l~~~~~~Gdk~--eR~~~~r~~~~~~~fdV~iTsYEi~i~--------dk~~lk~~~W-----------------~yl 293 (971)
T KOG0385|consen 242 -SLNVVVYHGDKE--ERAALRRDIMLPGRFDVCITSYEIAIK--------DKSFLKKFNW-----------------RYL 293 (971)
T ss_pred -CcceEEEeCCHH--HHHHHHHHhhccCCCceEeehHHHHHh--------hHHHHhcCCc-----------------eEE
Confidence 577899999874 333322 246899999998753 2466777755 999
Q ss_pred EEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC-ChHHHHHHHcccCCeEEEe-------------cC
Q 002135 403 VIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA-NPREHCMELANLSTLELIQ-------------ND 468 (961)
Q Consensus 403 VIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~-n~~e~~~~L~~~~~~~~i~-------------~~ 468 (961)
||||||++.. -.+-+. +.|+... ....+++|.|+- |.....-.|++..-+.++. ..
T Consensus 294 vIDEaHRiKN-~~s~L~---~~lr~f~------~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~ 363 (971)
T KOG0385|consen 294 VIDEAHRIKN-EKSKLS---KILREFK------TDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCE 363 (971)
T ss_pred Eechhhhhcc-hhhHHH---HHHHHhc------ccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccc
Confidence 9999999865 222222 2233221 234577788872 2111111111110000000 00
Q ss_pred C--------------------------CccceeEEEEeCCCccccc----------c---cccc----------------
Q 002135 469 G--------------------------SPCAQKLFVLWNPTSCLRS----------V---LNKS---------------- 493 (961)
Q Consensus 469 g--------------------------~p~~~~~~~l~~p~~~~~~----------~---~~~~---------------- 493 (961)
+ +-.+.+...++.+...... . ....
T Consensus 364 ~~~e~v~~Lh~vL~pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~~~k~kL~NI~mQLRK 443 (971)
T KOG0385|consen 364 GDQELVSRLHKVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLDALNGEGKGEKTKLQNIMMQLRK 443 (971)
T ss_pred cCHHHHHHHHhhhhHHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcchhhcccccchhhHHHHHHHHHHH
Confidence 0 0011122222211110000 0 0000
Q ss_pred -------cc-----ccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEE
Q 002135 494 -------QT-----DMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSIC 561 (961)
Q Consensus 494 -------~~-----~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~ 561 (961)
+. ..-...........+...+-.++..+.+.|.++|||..--+..+.+-.+..- -+...+
T Consensus 444 ccnHPYLF~g~ePg~pyttdehLv~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~--------R~y~yc 515 (971)
T KOG0385|consen 444 CCNHPYLFDGAEPGPPYTTDEHLVTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCML--------RGYEYC 515 (971)
T ss_pred hcCCccccCCCCCCCCCCcchHHHhcCcceehHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHh--------cCceeE
Confidence 00 0000011123345556667788889999999999999876666555444321 344678
Q ss_pred EEcCCCCHHHHHHHHHHHhCC---CceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceE--EEE
Q 002135 562 VYRAGYVAEDRRRIERDFFGG---KLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLA--VYV 636 (961)
Q Consensus 562 ~~hggls~~eR~~ie~~f~~G---~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~--i~l 636 (961)
.+-|+.+-++|...++.|... ..-.|++|.|.++|||+...|+||.||.-+++..=+|..-||-|-|+...+ +-+
T Consensus 516 RiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RL 595 (971)
T KOG0385|consen 516 RLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRL 595 (971)
T ss_pred eecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEE
Confidence 889999999999999999854 345689999999999999999999999999999999999999999987654 455
Q ss_pred eeCCcchhHHHhchHH
Q 002135 637 AFEGPLDQYFMKYPEK 652 (961)
Q Consensus 637 ~~~~~~d~~~~~~~e~ 652 (961)
++.+..+..+....+.
T Consensus 596 itentVEe~IveRA~~ 611 (971)
T KOG0385|consen 596 ITENTVEEKIVERAAA 611 (971)
T ss_pred eccchHHHHHHHHHHH
Confidence 6666666665554433
No 127
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.66 E-value=1.3e-14 Score=174.93 Aligned_cols=105 Identities=13% Similarity=0.132 Sum_probs=87.1
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
..|. .+|+.|.-.--.+..| -|..+.||+|||+++.+|++-..+. +..+-+++|+.-||++.++.+..+...++
T Consensus 78 ~lGm-~~ydVQliGg~~Lh~G--~iaEM~TGEGKTLvA~l~a~l~al~--G~~VhvvT~ndyLA~RD~e~m~~l~~~lG- 151 (913)
T PRK13103 78 VMGM-RHFDVQLIGGMTLHEG--KIAEMRTGEGKTLVGTLAVYLNALS--GKGVHVVTVNDYLARRDANWMRPLYEFLG- 151 (913)
T ss_pred HhCC-CcchhHHHhhhHhccC--ccccccCCCCChHHHHHHHHHHHHc--CCCEEEEeCCHHHHHHHHHHHHHHhcccC-
Confidence 3575 6888998766555554 5889999999999999999876664 67789999999999999999999988776
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDML 362 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L 362 (961)
+++++..++.+..+|+.... ++|+++|..-+
T Consensus 152 -l~v~~i~~~~~~~err~~Y~-~dI~YGT~~e~ 182 (913)
T PRK13103 152 -LSVGIVTPFQPPEEKRAAYA-ADITYGTNNEF 182 (913)
T ss_pred -CEEEEECCCCCHHHHHHHhc-CCEEEEccccc
Confidence 88899999988888766554 99999998765
No 128
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.65 E-value=5.6e-14 Score=177.50 Aligned_cols=123 Identities=18% Similarity=0.182 Sum_probs=86.8
Q ss_pred HHHHHHHHHHHH-CCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEec
Q 002135 512 SEVSYLFAEMVQ-HGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAAT 590 (961)
Q Consensus 512 ~~~~~ll~~l~~-~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT 590 (961)
..++..+..+.. .++++|||++|.+..+.++..++..... .....+.-|++...|.++.+.|++++-.||++|
T Consensus 738 ~~la~~i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~~------~~~~ll~Qg~~~~~r~~l~~~F~~~~~~iLlG~ 811 (928)
T PRK08074 738 EEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEEL------EGYVLLAQGVSSGSRARLTKQFQQFDKAILLGT 811 (928)
T ss_pred HHHHHHHHHHHHhCCCCEEEEECCHHHHHHHHHHHhhcccc------cCceEEecCCCCCCHHHHHHHHHhcCCeEEEec
Confidence 345555555553 5569999999999999998887653211 112223334544568899999999988999999
Q ss_pred cccccccccCC--ccEEEEeCCCCC------------------------------HhhHHHHhccCCCCCCCceEEEEee
Q 002135 591 NALELGIDVGH--IDVTLHLGFPGS------------------------------IASLWQQAGRSGRRERPSLAVYVAF 638 (961)
Q Consensus 591 ~aLe~GIDIp~--vd~VI~~~~P~s------------------------------~~sy~QR~GRAGR~g~~g~~i~l~~ 638 (961)
..+.+|||+|+ +.+||..++|.. +..+.|-+||.=|...+.-++++.+
T Consensus 812 ~sFwEGVD~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v~ilD 891 (928)
T PRK08074 812 SSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTVFVLD 891 (928)
T ss_pred CcccCccccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEEEEec
Confidence 99999999987 578888886641 2346899999999865543454554
Q ss_pred CC
Q 002135 639 EG 640 (961)
Q Consensus 639 ~~ 640 (961)
..
T Consensus 892 ~R 893 (928)
T PRK08074 892 RR 893 (928)
T ss_pred Cc
Confidence 33
No 129
>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=99.65 E-value=1.5e-13 Score=163.87 Aligned_cols=65 Identities=22% Similarity=0.168 Sum_probs=55.2
Q ss_pred HHHHHHH----HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 260 QAESIMA----SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 260 Q~~ai~~----il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
|.+.+.. +.+++.+++.|+||+|||++|++|++..+....+.++||++||++|++|+.+.+..+.
T Consensus 2 Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 2 QALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred HHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHH
Confidence 5555444 4467899999999999999999999988775457899999999999999999888776
No 130
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.65 E-value=2e-15 Score=181.02 Aligned_cols=330 Identities=19% Similarity=0.275 Sum_probs=223.4
Q ss_pred CCcHHHHHHHHHHhC-CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccE
Q 002135 255 KLYSHQAESIMASLA-GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDI 333 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~-G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v 333 (961)
...++|.+.++.+.+ +.+|++.+|+|||||.|+.+.++. .....+++|+.|.-+.+..+++.|.+-+... .+..+
T Consensus 1143 ~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~---~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~-~G~~~ 1218 (1674)
T KOG0951|consen 1143 DFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR---PDTIGRAVYIAPLEEIADEQYRDWEKKFSKL-LGLRI 1218 (1674)
T ss_pred ccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC---CccceEEEEecchHHHHHHHHHHHHHhhccc-cCceE
Confidence 347789888888764 568999999999999999998876 4456799999999999999999997766655 56778
Q ss_pred EEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcc
Q 002135 334 GVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA 413 (961)
Q Consensus 334 ~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~ 413 (961)
...+|++....+ +....+|+|+||++.-. + +..+++ ++.|.||+|.+.|.
T Consensus 1219 ~~l~ge~s~~lk--l~~~~~vii~tpe~~d~--l-------q~iQ~v-------------------~l~i~d~lh~igg~ 1268 (1674)
T KOG0951|consen 1219 VKLTGETSLDLK--LLQKGQVIISTPEQWDL--L-------QSIQQV-------------------DLFIVDELHLIGGV 1268 (1674)
T ss_pred EecCCccccchH--HhhhcceEEechhHHHH--H-------hhhhhc-------------------ceEeeehhhhhccc
Confidence 888898876643 55668999999998632 1 133444 99999999999876
Q ss_pred cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEe--cCCCccceeEEEEeCCCcccccccc
Q 002135 414 FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQ--NDGSPCAQKLFVLWNPTSCLRSVLN 491 (961)
Q Consensus 414 fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~--~~g~p~~~~~~~l~~p~~~~~~~~~ 491 (961)
.|+.+..+.. .+.++.++ ..+.+++++|-.++|..+. .|.....++. .+.+|.+....+.-.....
T Consensus 1269 ~g~v~evi~S-~r~ia~q~-~k~ir~v~ls~~lana~d~----ig~s~~~v~Nf~p~~R~~Pl~i~i~~~~~~~------ 1336 (1674)
T KOG0951|consen 1269 YGAVYEVICS-MRYIASQL-EKKIRVVALSSSLANARDL----IGASSSGVFNFSPSVRPVPLEIHIQSVDISH------ 1336 (1674)
T ss_pred CCceEEEEee-HHHHHHHH-HhheeEEEeehhhccchhh----ccccccceeecCcccCCCceeEEEEEeccch------
Confidence 7776666555 66666554 5578999999999987664 4543333332 2334444333221100000
Q ss_pred ccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHH------------HH----HhhCCc
Q 002135 492 KSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTRE------------IL----EETAPH 555 (961)
Q Consensus 492 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~------------~l----~~~~~~ 555 (961)
.. .....-..-...-+.....++++++||+++|+.|..++..+-. .. ......
T Consensus 1337 -------~~----~~~~am~~~~~~ai~~~a~~~k~~~vf~p~rk~~~~~a~~~~~~s~~~~~~~l~~~~e~~~~~l~e~ 1405 (1674)
T KOG0951|consen 1337 -------FE----SRMLAMTKPTYTAIVRHAGNRKPAIVFLPTRKHARLVAVDLVTFSHADEPDYLLSELEECDETLRES 1405 (1674)
T ss_pred -------hH----HHHHHhhhhHHHHHHHHhcCCCCeEEEeccchhhhhhhhccchhhccCcHHHHHHHHhcchHhhhhc
Confidence 00 0000001111222333344678999999999999877653211 01 111223
Q ss_pred ccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeC-----------CCCCHhhHHHHhccC
Q 002135 556 LVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLG-----------FPGSIASLWQQAGRS 624 (961)
Q Consensus 556 l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~-----------~P~s~~sy~QR~GRA 624 (961)
+...|. |-|++..+.+-+...|..|.+.++|...- ..|+-... +.||-.| .+.+++...|+.|+|
T Consensus 1406 l~~gvg--~e~~s~~d~~iv~~l~e~g~i~v~v~s~~-~~~~~~~~-~lVvvmgt~~ydg~e~~~~~y~i~~ll~m~G~a 1481 (1674)
T KOG0951|consen 1406 LKHGVG--HEGLSSNDQEIVQQLFEAGAIQVCVMSRD-CYGTKLKA-HLVVVMGTQYYDGKEHSYEDYPIAELLQMVGLA 1481 (1674)
T ss_pred cccccc--ccccCcchHHHHHHHHhcCcEEEEEEEcc-cccccccc-eEEEEecceeecccccccccCchhHHHHHhhhh
Confidence 444555 89999999999999999999999987776 77876543 4444222 456799999999999
Q ss_pred CCCCCCceEEEEeeCCcchhHHHhc
Q 002135 625 GRRERPSLAVYVAFEGPLDQYFMKY 649 (961)
Q Consensus 625 GR~g~~g~~i~l~~~~~~d~~~~~~ 649 (961)
.|. |.+++++ ..+...||.++
T Consensus 1482 ~~~---~k~vi~~-~~~~k~yykkf 1502 (1674)
T KOG0951|consen 1482 SGA---GKCVIMC-HTPKKEYYKKF 1502 (1674)
T ss_pred cCC---ccEEEEe-cCchHHHHHHh
Confidence 984 5666554 55666677654
No 131
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.63 E-value=2.6e-15 Score=165.55 Aligned_cols=343 Identities=14% Similarity=0.148 Sum_probs=209.0
Q ss_pred CCCcHHHHHHHHHHhC-C--CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCC
Q 002135 254 SKLYSHQAESIMASLA-G--KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDAS 330 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~-G--~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~ 330 (961)
+.++|+|..++..+.. | ++-||+.|.|+|||++-.-++.. -..++|+++.+-.-+.|+...++.+..--+
T Consensus 301 t~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~t-----ikK~clvLcts~VSVeQWkqQfk~wsti~d-- 373 (776)
T KOG1123|consen 301 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACT-----IKKSCLVLCTSAVSVEQWKQQFKQWSTIQD-- 373 (776)
T ss_pred cccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeee-----ecccEEEEecCccCHHHHHHHHHhhcccCc--
Confidence 4689999999999874 3 58999999999999986544332 256799999988888888888887754222
Q ss_pred ccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhh
Q 002135 331 IDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAY 410 (961)
Q Consensus 331 i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~ 410 (961)
-.++.++.|... +...++.|+|+|..|+...-- +.......+.-++...| .++|+||+|..
T Consensus 374 ~~i~rFTsd~Ke----~~~~~~gvvvsTYsMva~t~k-RS~eaek~m~~l~~~EW--------------GllllDEVHvv 434 (776)
T KOG1123|consen 374 DQICRFTSDAKE----RFPSGAGVVVTTYSMVAYTGK-RSHEAEKIMDFLRGREW--------------GLLLLDEVHVV 434 (776)
T ss_pred cceEEeeccccc----cCCCCCcEEEEeeehhhhccc-ccHHHHHHHHHHhcCee--------------eeEEeehhccc
Confidence 346777776643 244678999999999854321 11222233333322222 89999999986
Q ss_pred hcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHH---HcccCCeEEEecCCCcc-------ceeEEEEe
Q 002135 411 KGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCME---LANLSTLELIQNDGSPC-------AQKLFVLW 480 (961)
Q Consensus 411 ~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~---L~~~~~~~~i~~~g~p~-------~~~~~~l~ 480 (961)
-. .+.||+..+... . --+++|||+-..++.+.. |.| +.+.+.++-.- ...-..+|
T Consensus 435 PA-------~MFRRVlsiv~a----H-cKLGLTATLvREDdKI~DLNFLIG---PKlYEAnWmdL~~kGhIA~VqCaEVW 499 (776)
T KOG1123|consen 435 PA-------KMFRRVLSIVQA----H-CKLGLTATLVREDDKITDLNFLIG---PKLYEANWMDLQKKGHIAKVQCAEVW 499 (776)
T ss_pred hH-------HHHHHHHHHHHH----H-hhccceeEEeeccccccccceeec---chhhhccHHHHHhCCceeEEeeeeee
Confidence 43 334444443322 1 238899999655443333 333 22222221110 01112245
Q ss_pred CCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccE
Q 002135 481 NPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSI 560 (961)
Q Consensus 481 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v 560 (961)
-|....-. .+..........-...-...+......|+.---+.|.++|||..+.-.....+-.+.+
T Consensus 500 CpMt~eFy-~eYL~~~t~kr~lLyvMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl~K------------- 565 (776)
T KOG1123|consen 500 CPMTPEFY-REYLRENTRKRMLLYVMNPNKFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKLGK------------- 565 (776)
T ss_pred cCCCHHHH-HHHHhhhhhhhheeeecCcchhHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHcCC-------------
Confidence 44322000 0000000000000111123444445555555555788999999986654444332211
Q ss_pred EEEcCCCCHHHHHHHHHHHh-CCCceEEEeccccccccccCCccEEEEeCCC-CCHhhHHHHhccCCCCCC---CceE--
Q 002135 561 CVYRAGYVAEDRRRIERDFF-GGKLCGVAATNALELGIDVGHIDVTLHLGFP-GSIASLWQQAGRSGRRER---PSLA-- 633 (961)
Q Consensus 561 ~~~hggls~~eR~~ie~~f~-~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P-~s~~sy~QR~GRAGR~g~---~g~~-- 633 (961)
-++.|.-++.+|.+|++.|+ +..++-|+-..+....||+|..+++|+...- +|.-+=.||.||.-|+.+ ++.-
T Consensus 566 pfIYG~Tsq~ERm~ILqnFq~n~~vNTIFlSKVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnaf 645 (776)
T KOG1123|consen 566 PFIYGPTSQNERMKILQNFQTNPKVNTIFLSKVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAF 645 (776)
T ss_pred ceEECCCchhHHHHHHHhcccCCccceEEEeeccCccccCCcccEEEEEcccccchHHHHHHHHHHHHHhhcCcccccee
Confidence 25689999999999999999 6688899999999999999999999988754 588888999999888732 2332
Q ss_pred -EEEeeCCcchhHHHhchH
Q 002135 634 -VYVAFEGPLDQYFMKYPE 651 (961)
Q Consensus 634 -i~l~~~~~~d~~~~~~~e 651 (961)
+.++..+..+.+|...-.
T Consensus 646 FYSLVS~DTqEM~YStKRQ 664 (776)
T KOG1123|consen 646 FYSLVSKDTQEMYYSTKRQ 664 (776)
T ss_pred eeeeeecchHHHHhhhhhh
Confidence 333334444555554433
No 132
>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=99.60 E-value=5.9e-15 Score=142.46 Aligned_cols=118 Identities=24% Similarity=0.417 Sum_probs=103.9
Q ss_pred cHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEe
Q 002135 510 PISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAA 589 (961)
Q Consensus 510 ~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVA 589 (961)
+...+..++......+.++||||+++..++.+++.|.+ ....+..+||+++..+|..+.+.|.+|...+|++
T Consensus 13 k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~--------~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~ 84 (131)
T cd00079 13 KLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRK--------PGIKVAALHGDGSQEEREEVLKDFREGEIVVLVA 84 (131)
T ss_pred HHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHh--------cCCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEE
Confidence 44455555555544577999999999999999988865 3446889999999999999999999999999999
Q ss_pred ccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEEE
Q 002135 590 TNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAVY 635 (961)
Q Consensus 590 T~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~ 635 (961)
|+++++|+|+|.+++||.++.|++...|.|++||+||.|+.|.+++
T Consensus 85 t~~~~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~ 130 (131)
T cd00079 85 TDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAIL 130 (131)
T ss_pred cChhhcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCceEEe
Confidence 9999999999999999999999999999999999999998887764
No 133
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=99.60 E-value=2.3e-13 Score=162.51 Aligned_cols=104 Identities=13% Similarity=0.112 Sum_probs=82.8
Q ss_pred CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCC
Q 002135 251 TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDAS 330 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~ 330 (961)
+|. .+|+.|.-.--.+..|+ |..+.||=||||++.+|+.-..+. |..+-+++..--||..-.+.+..+...+|
T Consensus 75 lG~-r~ydVQliGglvLh~G~--IAEMkTGEGKTLvAtLpayLnAL~--GkgVhVVTvNdYLA~RDae~mg~vy~fLG-- 147 (925)
T PRK12903 75 LGK-RPYDVQIIGGIILDLGS--VAEMKTGEGKTITSIAPVYLNALT--GKGVIVSTVNEYLAERDAEEMGKVFNFLG-- 147 (925)
T ss_pred hCC-CcCchHHHHHHHHhcCC--eeeecCCCCccHHHHHHHHHHHhc--CCceEEEecchhhhhhhHHHHHHHHHHhC--
Confidence 577 79999988877777764 799999999999999999754443 56678888899999988888888888776
Q ss_pred ccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH
Q 002135 331 IDIGVYDGDTTQKDRMWLRDNARLLITNPDML 362 (961)
Q Consensus 331 i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L 362 (961)
++|++...+....+|+... .|+|+++|..-|
T Consensus 148 LsvG~i~~~~~~~~rr~aY-~~DItYgTn~E~ 178 (925)
T PRK12903 148 LSVGINKANMDPNLKREAY-ACDITYSVHSEL 178 (925)
T ss_pred CceeeeCCCCChHHHHHhc-cCCCeeecCccc
Confidence 7778777766666665544 589999998765
No 134
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=99.54 E-value=1.4e-12 Score=156.92 Aligned_cols=105 Identities=12% Similarity=0.134 Sum_probs=84.6
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
..|. .+|+.|.-+.-.+. +.-|..+.||.|||+++.+|+.-..+. +..+-+++++..||..-.+.+..+...+|
T Consensus 72 ~lG~-r~ydvQlig~l~L~--~G~IaEm~TGEGKTL~a~l~ayl~aL~--G~~VhVvT~NdyLA~RD~e~m~pvy~~LG- 145 (870)
T CHL00122 72 TLGL-RHFDVQLIGGLVLN--DGKIAEMKTGEGKTLVATLPAYLNALT--GKGVHIVTVNDYLAKRDQEWMGQIYRFLG- 145 (870)
T ss_pred HhCC-CCCchHhhhhHhhc--CCccccccCCCCchHHHHHHHHHHHhc--CCceEEEeCCHHHHHHHHHHHHHHHHHcC-
Confidence 3677 58899987765444 557899999999999999999644332 67799999999999999999999988887
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDML 362 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L 362 (961)
+.+++..++.+..+|+... .++|+++|...+
T Consensus 146 -Lsvg~i~~~~~~~err~aY-~~DItYgTn~e~ 176 (870)
T CHL00122 146 -LTVGLIQEGMSSEERKKNY-LKDITYVTNSEL 176 (870)
T ss_pred -CceeeeCCCCChHHHHHhc-CCCCEecCCccc
Confidence 7888888888877765554 479999998655
No 135
>COG4889 Predicted helicase [General function prediction only]
Probab=99.54 E-value=9.3e-15 Score=169.36 Aligned_cols=101 Identities=22% Similarity=0.227 Sum_probs=79.9
Q ss_pred cEEEEecChHHHHHHHHHHHHHHH-------hhCCcccccEEEEcCCCCHHHHHHHHHH---HhCCCceEEEeccccccc
Q 002135 527 RCIAFCRSRKLCELVLSYTREILE-------ETAPHLVDSICVYRAGYVAEDRRRIERD---FFGGKLCGVAATNALELG 596 (961)
Q Consensus 527 k~IVF~~sr~~ae~l~~~L~~~l~-------~~~~~l~~~v~~~hggls~~eR~~ie~~---f~~G~~~vLVAT~aLe~G 596 (961)
++|.||.+.++...++..+....+ +....+...+....|.|...+|...+.. |...+++||-.-..|++|
T Consensus 462 RAIaF~k~I~tSK~i~~sFe~Vve~Y~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNaRcLSEG 541 (1518)
T COG4889 462 RAIAFAKDIKTSKQIAESFETVVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNECKILSNARCLSEG 541 (1518)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEeecccccccHHHHHHHHhccCCCCcchheeeccchhhhcC
Confidence 679999999999888776654332 2223344445555688999999555442 345788999888899999
Q ss_pred cccCCccEEEEeCCCCCHhhHHHHhccCCCC
Q 002135 597 IDVGHIDVTLHLGFPGSIASLWQQAGRSGRR 627 (961)
Q Consensus 597 IDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~ 627 (961)
||+|.+|.||.++.-.|+...+|-+||.-|.
T Consensus 542 VDVPaLDsViFf~pr~smVDIVQaVGRVMRK 572 (1518)
T COG4889 542 VDVPALDSVIFFDPRSSMVDIVQAVGRVMRK 572 (1518)
T ss_pred CCccccceEEEecCchhHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999998
No 136
>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=99.53 E-value=2.3e-14 Score=126.10 Aligned_cols=73 Identities=23% Similarity=0.307 Sum_probs=70.3
Q ss_pred ccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCC
Q 002135 556 LVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRE 628 (961)
Q Consensus 556 l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g 628 (961)
.+..+..+||++++.+|..+++.|.+|+..+||||+++++|||+|++++||+++.|+|...|.|++||+||.|
T Consensus 6 ~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 6 KGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp TTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTTT
T ss_pred CCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeeccccccccccccccccccccCCCHHHHHHHhhcCCCCC
Confidence 4567999999999999999999999999999999999999999999999999999999999999999999986
No 137
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.53 E-value=7.1e-12 Score=153.91 Aligned_cols=119 Identities=16% Similarity=0.159 Sum_probs=82.3
Q ss_pred HHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHh----CCCceE
Q 002135 511 ISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFF----GGKLCG 586 (961)
Q Consensus 511 ~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~----~G~~~v 586 (961)
...+...+..+...++.++||++|.+..+.++..+.... ...+ ..+|. ..|.++++.|+ +|+-.|
T Consensus 520 ~~~~~~~i~~l~~~~gg~LVlFtSy~~l~~v~~~l~~~~-------~~~l-l~Q~~---~~~~~ll~~f~~~~~~~~~~V 588 (697)
T PRK11747 520 TAEMAEFLPELLEKHKGSLVLFASRRQMQKVADLLPRDL-------RLML-LVQGD---QPRQRLLEKHKKRVDEGEGSV 588 (697)
T ss_pred HHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHhc-------CCcE-EEeCC---chHHHHHHHHHHHhccCCCeE
Confidence 345555665655566679999999999999888776421 1122 23443 24667776666 467789
Q ss_pred EEeccccccccccCC--ccEEEEeCCCCC----H--------------------------hhHHHHhccCCCCCCCceEE
Q 002135 587 VAATNALELGIDVGH--IDVTLHLGFPGS----I--------------------------ASLWQQAGRSGRRERPSLAV 634 (961)
Q Consensus 587 LVAT~aLe~GIDIp~--vd~VI~~~~P~s----~--------------------------~sy~QR~GRAGR~g~~g~~i 634 (961)
|++|..+..|||+|+ +.+||..++|.. . ..+.|-+||.=|...+.-++
T Consensus 589 L~g~~sf~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~~~F~~~~lP~A~~kl~Qg~GRlIRs~~D~G~i 668 (697)
T PRK11747 589 LFGLQSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPFMEISVPDASFKLIQAVGRLIRSEQDRGRV 668 (697)
T ss_pred EEEeccccccccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHhccccccCCceEEE
Confidence 999999999999987 788998887741 1 23678899999985553344
Q ss_pred EEeeCC
Q 002135 635 YVAFEG 640 (961)
Q Consensus 635 ~l~~~~ 640 (961)
++.+..
T Consensus 669 ~ilD~R 674 (697)
T PRK11747 669 TILDRR 674 (697)
T ss_pred EEEccc
Confidence 444433
No 138
>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=99.50 E-value=9.5e-14 Score=142.17 Aligned_cols=164 Identities=19% Similarity=0.107 Sum_probs=98.4
Q ss_pred CCcHHHHHHHHHHhC-------CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhC
Q 002135 255 KLYSHQAESIMASLA-------GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAF 327 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~-------G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~ 327 (961)
+|+++|.+|+..+.+ .+++++.+|||||||.++...+..... ++++++|++.|+.|+...+..+....
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~-----~~l~~~p~~~l~~Q~~~~~~~~~~~~ 77 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR-----KVLIVAPNISLLEQWYDEFDDFGSEK 77 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC-----EEEEEESSHHHHHHHHHHHHHHSTTS
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc-----ceeEecCHHHHHHHHHHHHHHhhhhh
Confidence 589999999999883 689999999999999998865555433 89999999999999999996654321
Q ss_pred CCC----------ccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhc
Q 002135 328 DAS----------IDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFL 397 (961)
Q Consensus 328 ~~~----------i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~ 397 (961)
... ......................+++++|.+++....-............ ......
T Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~------------~~~~~~ 145 (184)
T PF04851_consen 78 YNFFEKSIKPAYDSKEFISIQDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRS------------YKLLKN 145 (184)
T ss_dssp EEEEE--GGGCCE-SEEETTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GC------------HHGGGG
T ss_pred hhhcccccccccccccccccccccccccccccccccchhhHHHHHHhhcccccccccchhhh------------hhhccc
Confidence 100 0001111111112222234457899999999875431100000000000 001112
Q ss_pred ceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC
Q 002135 398 FIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA 447 (961)
Q Consensus 398 ~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~ 447 (961)
..++||+||||++.+..+ +..+++ .....+|++|||+.
T Consensus 146 ~~~~vI~DEaH~~~~~~~--~~~i~~----------~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 146 KFDLVIIDEAHHYPSDSS--YREIIE----------FKAAFILGLTATPF 183 (184)
T ss_dssp SESEEEEETGGCTHHHHH--HHHHHH----------SSCCEEEEEESS-S
T ss_pred cCCEEEEehhhhcCCHHH--HHHHHc----------CCCCeEEEEEeCcc
Confidence 348999999999865211 333333 23567899999974
No 139
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=99.49 E-value=2.2e-12 Score=155.98 Aligned_cols=342 Identities=16% Similarity=0.194 Sum_probs=215.5
Q ss_pred CCCcHHHHHHHHHHh----CCCcEEEEecCCchhHHH---HHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhh
Q 002135 254 SKLYSHQAESIMASL----AGKNVVVATMTSSGKSLC---YNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKA 326 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla---~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~ 326 (961)
..|+.+|.+.++.++ .+.|+|+.-..|-|||+. |+--+++... -.+..|+++|+.-+.. +.+++..+.
T Consensus 369 ~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~fl~~l~~~~~--~~gpflvvvplst~~~-W~~ef~~w~-- 443 (1373)
T KOG0384|consen 369 NELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTITFLSYLFHSLQ--IHGPFLVVVPLSTITA-WEREFETWT-- 443 (1373)
T ss_pred chhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHHHHHHHHHhhh--ccCCeEEEeehhhhHH-HHHHHHHHh--
Confidence 689999999999876 678999999999999964 3333333221 2456799999977666 567777765
Q ss_pred CCCCccEEEEcCCCcHHHHHH----Hh-c-----CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhh
Q 002135 327 FDASIDIGVYDGDTTQKDRMW----LR-D-----NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIF 396 (961)
Q Consensus 327 ~~~~i~v~~~~Gd~~~~~r~~----l~-~-----~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~ 396 (961)
.+++.+|+|+....+-.. .. . ..++++||.+++... ..+|+++.|
T Consensus 444 ---~mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~LkD--------k~~L~~i~w-------------- 498 (1373)
T KOG0384|consen 444 ---DMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLKD--------KAELSKIPW-------------- 498 (1373)
T ss_pred ---hhceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhcc--------HhhhccCCc--------------
Confidence 267889999987654321 11 2 258999999988532 356777755
Q ss_pred cceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC-ChHHHHHHHcccCCeE------------
Q 002135 397 LFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA-NPREHCMELANLSTLE------------ 463 (961)
Q Consensus 397 ~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~-n~~e~~~~L~~~~~~~------------ 463 (961)
.+++|||||++.. ..+.+...|..++ . -..+++|.|+- |..+.+..|.+...+.
T Consensus 499 ---~~~~vDeahrLkN-~~~~l~~~l~~f~--------~-~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~ 565 (1373)
T KOG0384|consen 499 ---RYLLVDEAHRLKN-DESKLYESLNQFK--------M-NHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEF 565 (1373)
T ss_pred ---ceeeecHHhhcCc-hHHHHHHHHHHhc--------c-cceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhh
Confidence 8999999999975 2333333333222 1 13466788873 2222222222110000
Q ss_pred -------------------------EEecCCCccceeEEEEeCCCcc---cccccc-------c-cc-------------
Q 002135 464 -------------------------LIQNDGSPCAQKLFVLWNPTSC---LRSVLN-------K-SQ------------- 494 (961)
Q Consensus 464 -------------------------~i~~~g~p~~~~~~~l~~p~~~---~~~~~~-------~-~~------------- 494 (961)
-++..-.|....+..+--.... ...... . ..
T Consensus 566 ~~~~e~~~~~L~~~L~P~~lRr~kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG~~g~~~~lLNimmEL 645 (1373)
T KOG0384|consen 566 DEETEEQVRKLQQILKPFLLRRLKKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTKGAKGSTPSLLNIMMEL 645 (1373)
T ss_pred cchhHHHHHHHHHHhhHHHHHHHHhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhccCCCCCchHHHHHHHH
Confidence 0000000001111000000000 000000 0 00
Q ss_pred ----------ccc-------------chhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHh
Q 002135 495 ----------TDM-------------DDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEE 551 (961)
Q Consensus 495 ----------~~~-------------~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~ 551 (961)
... +.....+...+.+..-+-.||..+...|.+||||..-.+..+.|+++|..
T Consensus 646 kKccNHpyLi~gaee~~~~~~~~~~~d~~L~~lI~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~---- 721 (1373)
T KOG0384|consen 646 KKCCNHPYLIKGAEEKILGDFRDKMRDEALQALIQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSL---- 721 (1373)
T ss_pred HHhcCCccccCcHHHHHHHhhhhcchHHHHHHHHHhcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHH----
Confidence 000 00001111223333445667777777889999999999999999988865
Q ss_pred hCCcccccEEEEcCCCCHHHHHHHHHHHhC---CCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCC
Q 002135 552 TAPHLVDSICVYRAGYVAEDRRRIERDFFG---GKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRE 628 (961)
Q Consensus 552 ~~~~l~~~v~~~hggls~~eR~~ie~~f~~---G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g 628 (961)
-+.....+-|+...+.|+.+++.|.. .....|.||.|.++|||+-..|.||.||.-+++.+=+|..-||-|-|
T Consensus 722 ----r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIG 797 (1373)
T KOG0384|consen 722 ----RGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIG 797 (1373)
T ss_pred ----cCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhc
Confidence 23344567899999999999999984 56778999999999999999999999999999999999999999999
Q ss_pred CCceE--EEEeeCCcchhHH
Q 002135 629 RPSLA--VYVAFEGPLDQYF 646 (961)
Q Consensus 629 ~~g~~--i~l~~~~~~d~~~ 646 (961)
+...+ |-+++.+..+.-+
T Consensus 798 Qkk~VnVYRLVTk~TvEeEi 817 (1373)
T KOG0384|consen 798 QKKHVNVYRLVTKNTVEEEI 817 (1373)
T ss_pred ccceEEEEEEecCCchHHHH
Confidence 87654 5555555544433
No 140
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=99.49 E-value=5.8e-13 Score=149.45 Aligned_cols=260 Identities=17% Similarity=0.187 Sum_probs=162.8
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHh
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLR 349 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~ 349 (961)
.+-++-++||.||||-- +++++.+ ..+.+|--|+|-||.++++++.+. ++.+.+++|......... .
T Consensus 191 RkIi~H~GPTNSGKTy~----ALqrl~~--aksGvycGPLrLLA~EV~~r~na~------gipCdL~TGeE~~~~~~~-~ 257 (700)
T KOG0953|consen 191 RKIIMHVGPTNSGKTYR----ALQRLKS--AKSGVYCGPLRLLAHEVYDRLNAL------GIPCDLLTGEERRFVLDN-G 257 (700)
T ss_pred heEEEEeCCCCCchhHH----HHHHHhh--hccceecchHHHHHHHHHHHhhhc------CCCccccccceeeecCCC-C
Confidence 34577789999999965 4566654 456799999999999999999885 366677778443221100 1
Q ss_pred cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-ccchHHHHHHHHHHHH
Q 002135 350 DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-AFGCHTALILRRLCRL 428 (961)
Q Consensus 350 ~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-~fg~~~~~ilrrL~~~ 428 (961)
..+..+-+|-||+... . .+++.||||++.|.+ .+|..+...|--+..-
T Consensus 258 ~~a~hvScTVEM~sv~-------------~------------------~yeVAViDEIQmm~Dp~RGwAWTrALLGl~Ad 306 (700)
T KOG0953|consen 258 NPAQHVSCTVEMVSVN-------------T------------------PYEVAVIDEIQMMRDPSRGWAWTRALLGLAAD 306 (700)
T ss_pred CcccceEEEEEEeecC-------------C------------------ceEEEEehhHHhhcCcccchHHHHHHHhhhhh
Confidence 1267788888876311 0 128999999999988 4776665444333221
Q ss_pred hhcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCC
Q 002135 429 CSHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTS 508 (961)
Q Consensus 429 ~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~ 508 (961)
...+-+ - +...+.++.++....-.+. ...+.-..|...
T Consensus 307 -------EiHLCG---e-psvldlV~~i~k~TGd~ve--------v~~YeRl~pL~v----------------------- 344 (700)
T KOG0953|consen 307 -------EIHLCG---E-PSVLDLVRKILKMTGDDVE--------VREYERLSPLVV----------------------- 344 (700)
T ss_pred -------hhhccC---C-chHHHHHHHHHhhcCCeeE--------EEeecccCccee-----------------------
Confidence 111111 1 1122555555432211111 111111122111
Q ss_pred CcHHHHHHHHHHH--HHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhC--CCc
Q 002135 509 SPISEVSYLFAEM--VQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFG--GKL 584 (961)
Q Consensus 509 ~~~~~~~~ll~~l--~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~--G~~ 584 (961)
...++..+ ++.| -||| |-|++..-.+...+.+ ....+++++.|+++++.|..--..|.+ ++.
T Consensus 345 -----~~~~~~sl~nlk~G-DCvV-~FSkk~I~~~k~kIE~-------~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~ 410 (700)
T KOG0953|consen 345 -----EETALGSLSNLKPG-DCVV-AFSKKDIFTVKKKIEK-------AGNHKCAVIYGSLPPETRLAQAALFNDPSNEC 410 (700)
T ss_pred -----hhhhhhhhccCCCC-CeEE-EeehhhHHHHHHHHHH-------hcCcceEEEecCCCCchhHHHHHHhCCCCCcc
Confidence 00111111 1234 4444 3456655555444433 134468999999999999999999986 899
Q ss_pred eEEEeccccccccccCCccEEEEeCC---------CCCHhhHHHHhccCCCCCCC
Q 002135 585 CGVAATNALELGIDVGHIDVTLHLGF---------PGSIASLWQQAGRSGRRERP 630 (961)
Q Consensus 585 ~vLVAT~aLe~GIDIp~vd~VI~~~~---------P~s~~sy~QR~GRAGR~g~~ 630 (961)
+|||||++.++|+|+ +++-||.++. |-+..+..|-+|||||.|..
T Consensus 411 dvlVAsDAIGMGLNL-~IrRiiF~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~ 464 (700)
T KOG0953|consen 411 DVLVASDAIGMGLNL-NIRRIIFYSLIKYSGRETEDITVSQIKQIAGRAGRFGSK 464 (700)
T ss_pred ceEEeeccccccccc-ceeEEEEeecccCCcccceeccHHHHHHHhhcccccccC
Confidence 999999999999998 5777887764 44788999999999999653
No 141
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=99.47 E-value=2.2e-12 Score=150.14 Aligned_cols=345 Identities=17% Similarity=0.188 Sum_probs=211.4
Q ss_pred CCCcHHHHHHHHHHh----CCCcEEEEecCCchhHHHH--HHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhC
Q 002135 254 SKLYSHQAESIMASL----AGKNVVVATMTSSGKSLCY--NLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAF 327 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla~--~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~ 327 (961)
..|++||++.+..+. ++..-|+....|-|||..- .|.++..-. .-...+|||||. .|+.|+.++|..+..
T Consensus 204 ~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~-k~~~paLIVCP~-Tii~qW~~E~~~w~p-- 279 (923)
T KOG0387|consen 204 SKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSG-KLTKPALIVCPA-TIIHQWMKEFQTWWP-- 279 (923)
T ss_pred HHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcc-cccCceEEEccH-HHHHHHHHHHHHhCc--
Confidence 468999999999875 4677899999999999643 233332211 123679999997 577889999988865
Q ss_pred CCCccEEEEcCCCcH---------HHHHHH-----hcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhh
Q 002135 328 DASIDIGVYDGDTTQ---------KDRMWL-----RDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVY 393 (961)
Q Consensus 328 ~~~i~v~~~~Gd~~~---------~~r~~l-----~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~ 393 (961)
..+|.+++|.... ..+..+ .....|++||.+.+... ...+.+..|
T Consensus 280 --~~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~--------~d~l~~~~W----------- 338 (923)
T KOG0387|consen 280 --PFRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQ--------GDDLLGILW----------- 338 (923)
T ss_pred --ceEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhccc--------Ccccccccc-----------
Confidence 3568888886652 111111 12357999999876421 112223322
Q ss_pred hhhcceeEEEEecchhhhcccchHHHH-----------------------------------------------------
Q 002135 394 LIFLFIRFVVIDEAHAYKGAFGCHTAL----------------------------------------------------- 420 (961)
Q Consensus 394 ~~~~~i~~VVIDEaH~~~~~fg~~~~~----------------------------------------------------- 420 (961)
.|+|+||.|.+... .+++..
T Consensus 339 ------~y~ILDEGH~IrNp-ns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~f~~pI~~ 411 (923)
T KOG0387|consen 339 ------DYVILDEGHRIRNP-NSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQNFEHPINR 411 (923)
T ss_pred ------cEEEecCcccccCC-ccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhhhhhheec
Confidence 99999999987541 112222
Q ss_pred ----------------------------HHHHHHHHhh--cccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCC
Q 002135 421 ----------------------------ILRRLCRLCS--HVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGS 470 (961)
Q Consensus 421 ----------------------------ilrrL~~~~~--~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~ 470 (961)
+|||++.-.. .++...-++++|+-|...-.- -+.+.....+.-| .+|.
T Consensus 412 GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~-Y~~fl~s~~v~~i-~ng~ 489 (923)
T KOG0387|consen 412 GGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRL-YQRFLNSSEVNKI-LNGK 489 (923)
T ss_pred cccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHH-HHHHhhhHHHHHH-HcCC
Confidence 2333322111 122223355555555421110 0000000000000 0111
Q ss_pred cc---c--eeEEEEeCCCccccccccccccccchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHH
Q 002135 471 PC---A--QKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYT 545 (961)
Q Consensus 471 p~---~--~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L 545 (961)
+. + ....++-.|.......... ...++. .....+..+...+..++....+.|.++|+|..++.....+-..|
T Consensus 490 ~~~l~Gi~iLrkICnHPdll~~~~~~~-~~~~D~--~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL 566 (923)
T KOG0387|consen 490 RNCLSGIDILRKICNHPDLLDRRDEDE-KQGPDY--EGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFL 566 (923)
T ss_pred ccceechHHHHhhcCCcccccCccccc-ccCCCc--CCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHH
Confidence 10 0 0011122333332211000 000000 02334567778889999999999999999999999998887777
Q ss_pred HHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCce--EEEeccccccccccCCccEEEEeCCCCCHhhHHHHhcc
Q 002135 546 REILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLC--GVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGR 623 (961)
Q Consensus 546 ~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~--vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GR 623 (961)
+. ..+......-|.-+...|..+.++|.++... .|++|.+-++|+++-..+-||.||+-++++.=.|..-|
T Consensus 567 ~~-------~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreR 639 (923)
T KOG0387|consen 567 RR-------AKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARER 639 (923)
T ss_pred Hh-------cCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEecccccccccccCceEEEECCCCCCccchHHHHH
Confidence 63 1234566778888999999999999977543 46899999999999999999999999999999999999
Q ss_pred CCCCCCCceE--EEEeeCCcc
Q 002135 624 SGRRERPSLA--VYVAFEGPL 642 (961)
Q Consensus 624 AGR~g~~g~~--i~l~~~~~~ 642 (961)
|-|-|+.--+ +-+...+..
T Consensus 640 awRiGQkkdV~VYRL~t~gTI 660 (923)
T KOG0387|consen 640 AWRIGQKKDVVVYRLMTAGTI 660 (923)
T ss_pred HHhhcCccceEEEEEecCCcH
Confidence 9999987544 333444443
No 142
>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=99.45 E-value=1.5e-12 Score=126.08 Aligned_cols=143 Identities=25% Similarity=0.329 Sum_probs=99.4
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHH-HHHh
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDR-MWLR 349 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r-~~l~ 349 (961)
+++++.+|||+|||.++...+......+...++++++|+++|++|+.+.+...... ...+..+.+....... ....
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~ 77 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE---GIKVGYLIGGTSIKQQEKLLS 77 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhC---CcEEEEEecCcchhHHHHHhc
Confidence 47899999999999999999888877656789999999999999999999887653 3556666665544432 2334
Q ss_pred cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHh
Q 002135 350 DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLC 429 (961)
Q Consensus 350 ~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~ 429 (961)
...+|+++|++++...+.... ..... .+++|+||+|.+......... .... .
T Consensus 78 ~~~~i~i~t~~~~~~~~~~~~----~~~~~-------------------~~~iiiDE~h~~~~~~~~~~~--~~~~---~ 129 (144)
T cd00046 78 GKTDIVVGTPGRLLDELERLK----LSLKK-------------------LDLLILDEAHRLLNQGFGLLG--LKIL---L 129 (144)
T ss_pred CCCCEEEECcHHHHHHHHcCC----cchhc-------------------CCEEEEeCHHHHhhcchHHHH--HHHH---h
Confidence 568999999998865432111 11122 289999999998763211111 0111 1
Q ss_pred hcccCCCCcEEEeccCC
Q 002135 430 SHVYGSDPSFVFSTATS 446 (961)
Q Consensus 430 ~~~~~~~~q~I~lSATl 446 (961)
. .....+++++|||+
T Consensus 130 ~--~~~~~~~i~~saTp 144 (144)
T cd00046 130 K--LPKDRQVLLLSATP 144 (144)
T ss_pred h--CCccceEEEEeccC
Confidence 1 13456899999996
No 143
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=99.44 E-value=4.6e-11 Score=143.70 Aligned_cols=105 Identities=15% Similarity=0.175 Sum_probs=84.5
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
..|. .+|+.|.-.--.+..| -|..+.||-||||++.+|++-..+. |..+-+|++.--||..=.+.+..+...+|
T Consensus 81 ~lG~-r~ydVQliGgl~Lh~G--~IAEM~TGEGKTL~atlpaylnAL~--GkgVhVVTvNdYLA~RDae~m~~vy~~LG- 154 (939)
T PRK12902 81 VLGM-RHFDVQLIGGMVLHEG--QIAEMKTGEGKTLVATLPSYLNALT--GKGVHVVTVNDYLARRDAEWMGQVHRFLG- 154 (939)
T ss_pred HhCC-CcchhHHHhhhhhcCC--ceeeecCCCChhHHHHHHHHHHhhc--CCCeEEEeCCHHHHHhHHHHHHHHHHHhC-
Confidence 3576 6888887776666554 5889999999999999999866554 56789999999999999999988888776
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDML 362 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L 362 (961)
+.|++..++....+|+.. -.++|+++|+..|
T Consensus 155 -Ltvg~i~~~~~~~err~a-Y~~DItYgTn~e~ 185 (939)
T PRK12902 155 -LSVGLIQQDMSPEERKKN-YACDITYATNSEL 185 (939)
T ss_pred -CeEEEECCCCChHHHHHh-cCCCeEEecCCcc
Confidence 778888777766665533 3699999999876
No 144
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=99.41 E-value=3.5e-11 Score=143.88 Aligned_cols=338 Identities=16% Similarity=0.076 Sum_probs=193.6
Q ss_pred CCcHHHHHHHHHHhC---C-------CcEEEEecCCchhHHHHHHHHHHHHhcCCC-----CeEEEEcccHHHHHHHHHH
Q 002135 255 KLYSHQAESIMASLA---G-------KNVVVATMTSSGKSLCYNLPVLEALSHDLS-----SSALYMFPTKALAQDQLRA 319 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~---G-------~~vIv~apTGSGKTla~~Lpil~~l~~~~~-----~~aLvl~PtraLa~qq~~~ 319 (961)
.++|||.+.+.-+.+ | ...|++-..|+|||+....-+...+...|. .++|||+|. .|...+.++
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~-sLv~nWkkE 316 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPS-SLVNNWKKE 316 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccH-HHHHHHHHH
Confidence 589999999987642 2 246777789999999877767777777788 899999996 688889999
Q ss_pred HHHhHhhCCCCccEEEEcCCCcH---HHHHHHhcC-----CcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhh
Q 002135 320 LLAMTKAFDASIDIGVYDGDTTQ---KDRMWLRDN-----ARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTE 391 (961)
Q Consensus 320 l~~l~~~~~~~i~v~~~~Gd~~~---~~r~~l~~~-----~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~ 391 (961)
+.++... ..+....++|.... ..+..+..+ .-+++.+.+.+.... +..+.
T Consensus 317 F~KWl~~--~~i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~-------~~il~------------- 374 (776)
T KOG0390|consen 317 FGKWLGN--HRINPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASDYC-------RKILL------------- 374 (776)
T ss_pred HHHhccc--cccceeeeecccchhhhhhHHHHHhhhhheeEEEEeccHHHHHHHH-------HHHhc-------------
Confidence 9988653 13555566665543 122222111 346677777664321 11111
Q ss_pred hhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC--ChHHHHHHH-------------
Q 002135 392 VYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA--NPREHCMEL------------- 456 (961)
Q Consensus 392 ~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~--n~~e~~~~L------------- 456 (961)
..++++|+||.|++...- ..++..|.++ .-++.|++|.|+= |-.|.+.-|
T Consensus 375 -----~~~glLVcDEGHrlkN~~----s~~~kaL~~l------~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~s 439 (776)
T KOG0390|consen 375 -----IRPGLLVCDEGHRLKNSD----SLTLKALSSL------KTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISS 439 (776)
T ss_pred -----CCCCeEEECCCCCccchh----hHHHHHHHhc------CCCceEEeeCCcccccHHHHHHHHhhcChhhccchHH
Confidence 124999999999987521 1222333322 2456788899982 111111111
Q ss_pred -------------------------------cccCCeEE------EecCCCccceeEEEEeCCCccccccccccccc---
Q 002135 457 -------------------------------ANLSTLEL------IQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTD--- 496 (961)
Q Consensus 457 -------------------------------~~~~~~~~------i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~--- 496 (961)
..+....+ +-.+.-|.-....++.+|..............
T Consensus 440 f~k~~~~~i~~~~~~~~s~e~~~~~~rl~eL~~~t~~fi~rrt~~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~~~ 519 (776)
T KOG0390|consen 440 FKKKFEIPILRGRDADASEEDREREERLQELRELTNKFILRRTGDILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSMKM 519 (776)
T ss_pred HHHHhhcccccccCCCcchhhhhhHHHHHHHHHHHHhheeecccchhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHHHh
Confidence 00000000 00111222222333444432211100000000
Q ss_pred --------------------------------------cchhh-----hcccCCCCcHHHHHHHHHHHHHCCCcEEEEec
Q 002135 497 --------------------------------------MDDTR-----NAANKTSSPISEVSYLFAEMVQHGLRCIAFCR 533 (961)
Q Consensus 497 --------------------------------------~~~~~-----~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~ 533 (961)
..... ........+...+..|+.-+...+.++++|+.
T Consensus 520 ~~~~~~~l~~~~~L~k~cnhP~L~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v 599 (776)
T KOG0390|consen 520 RTLKGYALELITKLKKLCNHPSLLLLCEKTEKEKAFKNPALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSV 599 (776)
T ss_pred hhhhcchhhHHHHHHHHhcCHHhhcccccccccccccChHhhhcccccccccccchhhhHHHHHHHHHHHHhhhcceEEE
Confidence 00000 00000111112222222222233345555554
Q ss_pred ChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCC--C-ceEEEeccccccccccCCccEEEEeCC
Q 002135 534 SRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGG--K-LCGVAATNALELGIDVGHIDVTLHLGF 610 (961)
Q Consensus 534 sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G--~-~~vLVAT~aLe~GIDIp~vd~VI~~~~ 610 (961)
-...-..+.+.+.... ...+..+..+||.++..+|+.+.+.|.+- . .-.|.+|-|-+.||++-+...||.+|.
T Consensus 600 ~Isny~~tldl~e~~~----~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~ 675 (776)
T KOG0390|consen 600 LISNYTQTLDLFEQLC----RWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDP 675 (776)
T ss_pred EeccHHHHHHHHHHHH----hhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCC
Confidence 4333333332222211 12356789999999999999999999853 3 335678889999999999999999999
Q ss_pred CCCHhhHHHHhccCCCCCCCceEE
Q 002135 611 PGSIASLWQQAGRSGRRERPSLAV 634 (961)
Q Consensus 611 P~s~~sy~QR~GRAGR~g~~g~~i 634 (961)
+++++.-.|.++||-|.|+.-.|+
T Consensus 676 dWNPa~d~QAmaR~~RdGQKk~v~ 699 (776)
T KOG0390|consen 676 DWNPAVDQQAMARAWRDGQKKPVY 699 (776)
T ss_pred CCCchhHHHHHHHhccCCCcceEE
Confidence 999999999999999999876654
No 145
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.38 E-value=1.5e-10 Score=142.75 Aligned_cols=71 Identities=25% Similarity=0.275 Sum_probs=59.1
Q ss_pred CCCCCCcHHHHHHHHHHh----CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 251 TGISKLYSHQAESIMASL----AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
+..-++|+.|.+++..+. +|+.+++.||||+|||++|++|++...... +.++++.++|+.|..|..++...
T Consensus 11 ~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~-~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 11 FPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREE-GKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred CCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHc-CCcEEEECCCHHHHHHHHHhhcc
Confidence 444589999999997643 456699999999999999999999876653 47899999999999998877544
No 146
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=99.36 E-value=2.8e-10 Score=126.47 Aligned_cols=350 Identities=15% Similarity=0.127 Sum_probs=201.7
Q ss_pred CCCcHHHHHHHHHHh-CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCcc
Q 002135 254 SKLYSHQAESIMASL-AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASID 332 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il-~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~ 332 (961)
..|.|+|.+.+...+ +|..+++....|-|||+.++--+--... .-..|+++|. .|--.+.+.+..++.....
T Consensus 197 s~LlPFQreGv~faL~RgGR~llADeMGLGKTiQAlaIA~yyra---EwplliVcPA-svrftWa~al~r~lps~~p--- 269 (689)
T KOG1000|consen 197 SRLLPFQREGVIFALERGGRILLADEMGLGKTIQALAIARYYRA---EWPLLIVCPA-SVRFTWAKALNRFLPSIHP--- 269 (689)
T ss_pred HhhCchhhhhHHHHHhcCCeEEEecccccchHHHHHHHHHHHhh---cCcEEEEecH-HHhHHHHHHHHHhcccccc---
Confidence 357899999998755 6889999999999999987543333222 2346889996 4566788888887654432
Q ss_pred EEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc
Q 002135 333 IGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG 412 (961)
Q Consensus 333 v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~ 412 (961)
+.+..+..... ..+-....|.|.+.+++... ...|..- ..++||+||.|.+..
T Consensus 270 i~vv~~~~D~~--~~~~t~~~v~ivSye~ls~l--------~~~l~~~-----------------~~~vvI~DEsH~Lk~ 322 (689)
T KOG1000|consen 270 IFVVDKSSDPL--PDVCTSNTVAIVSYEQLSLL--------HDILKKE-----------------KYRVVIFDESHMLKD 322 (689)
T ss_pred eEEEecccCCc--cccccCCeEEEEEHHHHHHH--------HHHHhcc-----------------cceEEEEechhhhhc
Confidence 33333322111 01122357888999887421 1111111 128999999999987
Q ss_pred ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC--ChHHH------------------HHHHcccCCeE-EEecCCCc
Q 002135 413 AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA--NPREH------------------CMELANLSTLE-LIQNDGSP 471 (961)
Q Consensus 413 ~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~--n~~e~------------------~~~L~~~~~~~-~i~~~g~p 471 (961)
+.......++..++.. .++|++|.|++ .|.+. ...++....+. ..+..|..
T Consensus 323 sktkr~Ka~~dllk~a--------khvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dykg~t 394 (689)
T KOG1000|consen 323 SKTKRTKAATDLLKVA--------KHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYKGCT 394 (689)
T ss_pred cchhhhhhhhhHHHHh--------hheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceeeecCCCC
Confidence 4333344444433322 36799999973 44332 22222211111 01111111
Q ss_pred ---------------------------cceeEEEEeCCCcccccccc---cccccc-ch--hhh-------cccCCCCcH
Q 002135 472 ---------------------------CAQKLFVLWNPTSCLRSVLN---KSQTDM-DD--TRN-------AANKTSSPI 511 (961)
Q Consensus 472 ---------------------------~~~~~~~l~~p~~~~~~~~~---~~~~~~-~~--~~~-------~~~~~~~~~ 511 (961)
...+..++..+........+ ...... .+ ... .......+.
T Consensus 395 nl~EL~~lL~k~lMIRRlK~dvL~qLPpKrr~Vv~~~~gr~da~~~~lv~~a~~~t~~~~~e~~~~~l~l~y~~tgiaK~ 474 (689)
T KOG1000|consen 395 NLEELAALLFKRLMIRRLKADVLKQLPPKRREVVYVSGGRIDARMDDLVKAAADYTKVNSMERKHESLLLFYSLTGIAKA 474 (689)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhhCCccceEEEEEcCCccchHHHHHHHHhhhcchhhhhhhhhHHHHHHHHHhccccc
Confidence 00111111111111000000 000000 00 000 000011111
Q ss_pred HHHHHHHHH----HHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhC-CCceE
Q 002135 512 SEVSYLFAE----MVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFG-GKLCG 586 (961)
Q Consensus 512 ~~~~~ll~~----l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~-G~~~v 586 (961)
..+.+.+.. ....+.|.+|||......+.+...+.+ -.-....+.|..++.+|...-+.|.. .+++|
T Consensus 475 ~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~--------r~vg~IRIDGst~s~~R~ll~qsFQ~seev~V 546 (689)
T KOG1000|consen 475 AAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNK--------RKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRV 546 (689)
T ss_pred HHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHH--------cCCCeEEecCCCCchhHHHHHHHhccccceEE
Confidence 222222222 122357999999998888877766654 12234566788999999999999984 45554
Q ss_pred -EEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEE--EEeeCCcchhHHHhchHHh
Q 002135 587 -VAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAV--YVAFEGPLDQYFMKYPEKL 653 (961)
Q Consensus 587 -LVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i--~l~~~~~~d~~~~~~~e~l 653 (961)
+++-.+.+.|+++...++||...++++..-++|.--|+-|.|+++.+. +++-.+..|.|.+.+..+.
T Consensus 547 AvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~~K 616 (689)
T KOG1000|consen 547 AVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPMLQQK 616 (689)
T ss_pred EEEEEeecccceeeeccceEEEEEecCCCceEEechhhhhhccccceeeEEEEEecCchHHHHHHHHHHH
Confidence 577789999999999999999999999999999999999999987653 3344566788887665443
No 147
>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=99.36 E-value=7.4e-11 Score=143.89 Aligned_cols=97 Identities=26% Similarity=0.246 Sum_probs=72.4
Q ss_pred EEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHH----------------------hC----C
Q 002135 529 IAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDF----------------------FG----G 582 (961)
Q Consensus 529 IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f----------------------~~----G 582 (961)
+|-..+.+.+-.++..+...+.. ......+++||+......|..+|+.+ ++ +
T Consensus 760 liR~anI~p~V~~A~~L~~~~~~--~~~~i~~~~yHSr~~l~~Rs~~E~~Ld~~L~R~~~~~~~~~~~i~~~l~~~~~~~ 837 (1110)
T TIGR02562 760 LIRVANIDPLIRLAQFLYALLAE--EKYQIHLCCYHAQDPLLLRSYIERRLDQLLTRHKPEQLFQDDEIIDLMQNSPALN 837 (1110)
T ss_pred EEEEcCchHHHHHHHHHHhhccc--cCCceeEEEecccChHHHHHHHHHHHHHHhcccChhhhhchHHHHHHHhcccccC
Confidence 56667777777777777654332 12334689999999999998888764 11 4
Q ss_pred CceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCC
Q 002135 583 KLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERP 630 (961)
Q Consensus 583 ~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~ 630 (961)
...|+|||++.|.|+|+. .|.+| --|.++.+.+||+||..|.+..
T Consensus 838 ~~~i~v~Tqv~E~g~D~d-fd~~~--~~~~~~~sliQ~aGR~~R~~~~ 882 (1110)
T TIGR02562 838 HLFIVLATPVEEVGRDHD-YDWAI--ADPSSMRSIIQLAGRVNRHRLE 882 (1110)
T ss_pred CCeEEEEeeeEEEEeccc-CCeee--eccCcHHHHHHHhhcccccccC
Confidence 678999999999999973 55554 3466799999999999998653
No 148
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.35 E-value=3.1e-12 Score=112.70 Aligned_cols=72 Identities=31% Similarity=0.427 Sum_probs=69.1
Q ss_pred cccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCC
Q 002135 557 VDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRE 628 (961)
Q Consensus 557 ~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g 628 (961)
...+..+||++++++|..+++.|.+|...+||+|++++.|+|++.++.||.++.|.+...|.|++||++|.|
T Consensus 11 ~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~~R~g 82 (82)
T smart00490 11 GIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82 (82)
T ss_pred CCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhcccccCC
Confidence 457889999999999999999999999999999999999999999999999999999999999999999975
No 149
>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=99.27 E-value=2e-09 Score=133.43 Aligned_cols=74 Identities=14% Similarity=0.180 Sum_probs=62.8
Q ss_pred CCCCCCcHHHHHHHHHHh----CCCcEEEEecCCchhHHHHHHHHHHHHhcCC-CCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 251 TGISKLYSHQAESIMASL----AGKNVVVATMTSSGKSLCYNLPVLEALSHDL-SSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla~~Lpil~~l~~~~-~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
+.|..+||.|.+.+..+. .|++.++.+|||+|||++.+.|++....+.+ ..+++|.+.|..=..|..+++++..
T Consensus 6 FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~~ 84 (705)
T TIGR00604 6 FPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKLM 84 (705)
T ss_pred cCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhhh
Confidence 467778999998887654 6889999999999999999999999876432 3689999999999999999998853
No 150
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=99.25 E-value=3.3e-10 Score=136.92 Aligned_cols=119 Identities=17% Similarity=0.216 Sum_probs=94.4
Q ss_pred CCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCC-CceEE-EeccccccccccCCc
Q 002135 525 GLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGG-KLCGV-AATNALELGIDVGHI 602 (961)
Q Consensus 525 g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G-~~~vL-VAT~aLe~GIDIp~v 602 (961)
+.++||||.-+...+.+-+-|.+ ...+.. .-+.+-|+.++.+|.++.++|.++ .+++| .+|.+.++|+|+.+.
T Consensus 1340 qHRiLIFcQlK~mlDlVekDL~k---~~mpsV--tymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGA 1414 (1549)
T KOG0392|consen 1340 QHRILIFCQLKSMLDLVEKDLFK---KYMPSV--TYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGA 1414 (1549)
T ss_pred cceeEEeeeHHHHHHHHHHHHhh---hhcCce--eEEEecCCCCcHHHHHHHHHhcCCCceeEEEEeeeccccccccCCC
Confidence 34899999999988887665433 211211 234678999999999999999999 78886 677799999999999
Q ss_pred cEEEEeCCCCCHhhHHHHhccCCCCCCCceE--EEEeeCCcchhHHHh
Q 002135 603 DVTLHLGFPGSIASLWQQAGRSGRRERPSLA--VYVAFEGPLDQYFMK 648 (961)
Q Consensus 603 d~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~--i~l~~~~~~d~~~~~ 648 (961)
|.||.++.-|++..=+|..-||-|-|++-.+ +-+...+..+...|.
T Consensus 1415 DTVVFvEHDWNPMrDLQAMDRAHRIGQKrvVNVyRlItrGTLEEKVMg 1462 (1549)
T KOG0392|consen 1415 DTVVFVEHDWNPMRDLQAMDRAHRIGQKRVVNVYRLITRGTLEEKVMG 1462 (1549)
T ss_pred ceEEEEecCCCchhhHHHHHHHHhhcCceeeeeeeehhcccHHHHHhh
Confidence 9999999999999999999999999987654 445555666655553
No 151
>PRK14873 primosome assembly protein PriA; Provisional
Probab=99.24 E-value=1.9e-10 Score=139.16 Aligned_cols=301 Identities=13% Similarity=0.057 Sum_probs=163.3
Q ss_pred CCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHH----HhcC-Cc
Q 002135 279 TSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMW----LRDN-AR 353 (961)
Q Consensus 279 TGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~----l~~~-~~ 353 (961)
+|||||.+|+-.+-+.+.. +..+|+++|..+|+.|..++|++.+. .-.+.++++.....+|.. +..+ ++
T Consensus 169 ~GSGKTevyl~~i~~~l~~--Gk~vLvLvPEi~lt~q~~~rl~~~f~----~~~v~~lhS~l~~~~R~~~w~~~~~G~~~ 242 (665)
T PRK14873 169 PGEDWARRLAAAAAATLRA--GRGALVVVPDQRDVDRLEAALRALLG----AGDVAVLSAGLGPADRYRRWLAVLRGQAR 242 (665)
T ss_pred CCCcHHHHHHHHHHHHHHc--CCeEEEEecchhhHHHHHHHHHHHcC----CCcEEEECCCCCHHHHHHHHHHHhCCCCc
Confidence 5999999998777666654 67899999999999999999987643 135788999887776532 3333 79
Q ss_pred EEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhh--cc--cchHHHHHHHHHHHHh
Q 002135 354 LLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYK--GA--FGCHTALILRRLCRLC 429 (961)
Q Consensus 354 IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~--~~--fg~~~~~ilrrL~~~~ 429 (961)
|+|+|-..+.. -+.++ ++|||||=|..+ +. ...|...+.....+
T Consensus 243 IViGtRSAvFa-----------P~~~L-------------------gLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~-- 290 (665)
T PRK14873 243 VVVGTRSAVFA-----------PVEDL-------------------GLVAIWDDGDDLLAEPRAPYPHAREVALLRAH-- 290 (665)
T ss_pred EEEEcceeEEe-----------ccCCC-------------------CEEEEEcCCchhhcCCCCCCccHHHHHHHHHH--
Confidence 99999765421 13444 999999999754 22 12233333221111
Q ss_pred hcccCCCCcEEEeccCCCChHHHHHHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccccchhhhcccCCCC
Q 002135 430 SHVYGSDPSFVFSTATSANPREHCMELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSS 509 (961)
Q Consensus 430 ~~~~~~~~q~I~lSATl~n~~e~~~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~ 509 (961)
..+..+|+.|||++- +.......|. ...+....+.... .-|.+.... .... ....+.......
T Consensus 291 ----~~~~~lvLgSaTPSl-es~~~~~~g~--~~~~~~~~~~~~~-----~~P~v~~vd---~~~~--~~~~~~~~~g~~ 353 (665)
T PRK14873 291 ----QHGCALLIGGHARTA-EAQALVESGW--AHDLVAPRPVVRA-----RAPRVRALG---DSGL--ALERDPAARAAR 353 (665)
T ss_pred ----HcCCcEEEECCCCCH-HHHHHHhcCc--ceeeccccccccC-----CCCeEEEEe---Cchh--hhccccccccCc
Confidence 135688999999752 2211111221 1111110000000 001110000 0000 000000000001
Q ss_pred cHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhh---CCcc-----cccEEEEcCCCC-------------
Q 002135 510 PISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEET---APHL-----VDSICVYRAGYV------------- 568 (961)
Q Consensus 510 ~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~---~~~l-----~~~v~~~hggls------------- 568 (961)
-...+...+.+.+++| ++|+|.|.|..+-.+...-.....++ ...+ .....++|=|..
T Consensus 354 ls~~l~~~i~~~L~~g-qvll~lnRrGyap~l~C~~Cg~~~~C~~C~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~~ 432 (665)
T PRK14873 354 LPSLAFRAARDALEHG-PVLVQVPRRGYVPSLACARCRTPARCRHCTGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGSDR 432 (665)
T ss_pred cCHHHHHHHHHHHhcC-cEEEEecCCCCCCeeEhhhCcCeeECCCCCCceeEecCCCeeECCCCcCCCcCccCCCCcCCc
Confidence 2234556667777788 99999999987765433211100000 0000 000101110110
Q ss_pred -------H------------------HHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeC------CCC-----
Q 002135 569 -------A------------------EDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLG------FPG----- 612 (961)
Q Consensus 569 -------~------------------~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~------~P~----- 612 (961)
. .+++.+++.|. ++.+|||+|..++.=+. +++.+|+..| .|.
T Consensus 433 l~~~g~Gter~eeeL~~~FP~~~V~r~d~d~~l~~~~-~~~~IlVGTqgaepm~~-g~~~lV~ildaD~~L~~pDfRA~E 510 (665)
T PRK14873 433 LRAVVVGARRTAEELGRAFPGVPVVTSGGDQVVDTVD-AGPALVVATPGAEPRVE-GGYGAALLLDAWALLGRQDLRAAE 510 (665)
T ss_pred ceeeeccHHHHHHHHHHHCCCCCEEEEChHHHHHhhc-cCCCEEEECCCCccccc-CCceEEEEEcchhhhcCCCcChHH
Confidence 0 12455677775 58999999993222222 4677766554 232
Q ss_pred -CHhhHHHHhccCCCCCCCceEEEEe
Q 002135 613 -SIASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 613 -s~~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
....+.|-+|||||..++|.+++..
T Consensus 511 r~~qll~qvagragr~~~~G~V~iq~ 536 (665)
T PRK14873 511 DTLRRWMAAAALVRPRADGGQVVVVA 536 (665)
T ss_pred HHHHHHHHHHHhhcCCCCCCEEEEEe
Confidence 3466789999999999999988653
No 152
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=99.16 E-value=2.5e-09 Score=124.97 Aligned_cols=132 Identities=13% Similarity=0.135 Sum_probs=101.5
Q ss_pred CCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCC-c-e
Q 002135 508 SSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGK-L-C 585 (961)
Q Consensus 508 ~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~-~-~ 585 (961)
+.+...+..++..+..+|.++|+|..=-...+.|-..|.. ++.+...+-|.-.-.+|+.++..|...+ + -
T Consensus 760 SgK~r~L~~LLp~~k~~G~RVLiFSQFTqmLDILE~~L~~--------l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difV 831 (941)
T KOG0389|consen 760 SGKCRKLKELLPKIKKKGDRVLIFSQFTQMLDILEVVLDT--------LGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFV 831 (941)
T ss_pred hhhHhHHHHHHHHHhhcCCEEEEeeHHHHHHHHHHHHHHh--------cCceEEeecCCccchHHHHHHHhhccCCceEE
Confidence 4455667788888888999999999765555544433332 4445667788888899999999998664 3 3
Q ss_pred EEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCc--eEEEEeeCCcchhHHH
Q 002135 586 GVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPS--LAVYVAFEGPLDQYFM 647 (961)
Q Consensus 586 vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g--~~i~l~~~~~~d~~~~ 647 (961)
.|.+|-+.+.|||+-..++||.+|.-.++-.=.|.--||-|.|+.- .++-++..+..+..+.
T Consensus 832 FLLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAEDRcHRvGQtkpVtV~rLItk~TIEE~I~ 895 (941)
T KOG0389|consen 832 FLLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPVTVYRLITKSTIEEGIL 895 (941)
T ss_pred EEEeeccCcceecccccceEEEeecCCCCcccchhHHHHHhhCCcceeEEEEEEecCcHHHHHH
Confidence 5799999999999999999999999999988999999999998764 4455555555554443
No 153
>cd08674 Cdt1_m The middle winged helix fold of replication licensing factor Cdt1 binds geminin to inhibit binding of the MCM complex to origins of replication and DNA. Cdt1 is a replication licensing factor in eukaryotes that recruits the Minichromosome Maintenance Complex (MCM2-7) to the origin recognition complex (ORC). The Cdt1 protein is divided into three regions based on sequence comparison and biochemical analyses: the N-terminal region (Cdt1_n) binds DNA in a sequence-, strand-, and conformation-independent manner; the middle winged helix fold (Cdt1_m) binds geminin to inhibit both binding of the MCM complex to origins of replication and DNA; and the C-terminal region (Cdt1_c) is essential for Cdt1 activity and directly interacts with the MCM2-7 helicase. Precise duplication of chromosomal DNA is required for genomic stability during replication. Assembly of replication factors to start DNA replication in eukaryotes must occur only once per cell cycle. To form a pre-replicative
Probab=99.16 E-value=4.9e-11 Score=121.97 Aligned_cols=75 Identities=15% Similarity=0.228 Sum_probs=70.1
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHHHHHHhhccceechhhhHHHHHHhhhcCCccchhhhhhhhhhcCCceEEeecCcc
Q 002135 8 NSSCLCPVWLKKIVEAFAFVSIFSAHLQLRREKVILSHVKGALNQLEKFGVRVGIEDIENLAVLCPKVVQFANDDME 84 (961)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (961)
-++=+||+.|+.|.++|++||++|+||++|||..||++||.+||.+. ||.++++|+|+|+.|.|+.+.|+|+-..
T Consensus 14 ~~~~~lP~ky~~L~~~F~~ldtv~~~l~~R~~~~tf~~ik~~Ve~~~--~r~f~~~~LaQI~~l~P~~y~~~~~~~~ 88 (185)
T cd08674 14 RPSLKLPEKYEVLAELFRSLDTIVRLLFNRKETCTFDKLKPAVERMT--RRRFSEKHLAQIKHIYPEAYTLRQEKNH 88 (185)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH--CCCccHHHhhhhheeccCceeEEEEEec
Confidence 35678999999999999999999999999999999999999999774 8999999999999999999999998655
No 154
>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=99.15 E-value=5.1e-09 Score=125.27 Aligned_cols=305 Identities=15% Similarity=0.138 Sum_probs=180.6
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHh-
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLR- 349 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~- 349 (961)
.-.+|-+|.|||||.+..- -+......++.++|+|+-+++|+++...+++...-. +. ..|...... .+.
T Consensus 50 ~V~vVRSpMGTGKTtaLi~-wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l~---gF--v~Y~d~~~~----~i~~ 119 (824)
T PF02399_consen 50 GVLVVRSPMGTGKTTALIR-WLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGLS---GF--VNYLDSDDY----IIDG 119 (824)
T ss_pred CeEEEECCCCCCcHHHHHH-HHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCCC---cc--eeeeccccc----cccc
Confidence 3468899999999987644 444443456889999999999999999998764210 11 112211110 111
Q ss_pred cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcc-cc---hHHHHHHHHH
Q 002135 350 DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA-FG---CHTALILRRL 425 (961)
Q Consensus 350 ~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~-fg---~~~~~ilrrL 425 (961)
...+-++++.+.|+..- ...+.+. ++|||||+-..... +. .+...++..+
T Consensus 120 ~~~~rLivqIdSL~R~~-------~~~l~~y-------------------DvVIIDEv~svL~qL~S~Tm~~~~~v~~~L 173 (824)
T PF02399_consen 120 RPYDRLIVQIDSLHRLD-------GSLLDRY-------------------DVVIIDEVMSVLNQLFSPTMRQREEVDNLL 173 (824)
T ss_pred cccCeEEEEehhhhhcc-------ccccccc-------------------CEEEEehHHHHHHHHhHHHHhhHHHHHHHH
Confidence 13467778888887532 1234445 99999999876653 22 2334444444
Q ss_pred HHHhhcccCCCCcEEEeccCCCChH-HHHHHHcccCCeEEEecCCCc--cceeEEEEeCCCccccccc-------ccccc
Q 002135 426 CRLCSHVYGSDPSFVFSTATSANPR-EHCMELANLSTLELIQNDGSP--CAQKLFVLWNPTSCLRSVL-------NKSQT 495 (961)
Q Consensus 426 ~~~~~~~~~~~~q~I~lSATl~n~~-e~~~~L~~~~~~~~i~~~g~p--~~~~~~~l~~p~~~~~~~~-------~~~~~ 495 (961)
..+. .....+|++-||+.+.- ++++.+-+..++.+|..+... ...+.-.+.. ........ +....
T Consensus 174 ~~lI----~~ak~VI~~DA~ln~~tvdFl~~~Rp~~~i~vI~n~y~~~~fs~R~~~~~~-~l~~~~l~~~~~~~~~~~~~ 248 (824)
T PF02399_consen 174 KELI----RNAKTVIVMDADLNDQTVDFLASCRPDENIHVIVNTYASPGFSNRRCTFLR-SLGTDTLAAALNPEDENADT 248 (824)
T ss_pred HHHH----HhCCeEEEecCCCCHHHHHHHHHhCCCCcEEEEEeeeecCCcccceEEEec-ccCcHHHHHHhCCccccccc
Confidence 4444 33568899999998765 777777777777777766332 2222222211 11100000 00000
Q ss_pred c-----cchhhhcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHH
Q 002135 496 D-----MDDTRNAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAE 570 (961)
Q Consensus 496 ~-----~~~~~~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~ 570 (961)
. ......... ...........+..-+..|.++-||+.|...++.+++..+. ...+|..+.|.-...
T Consensus 249 ~~~~~~~~~~~~~~~-~~~~~~tF~~~L~~~L~~gknIcvfsSt~~~~~~v~~~~~~--------~~~~Vl~l~s~~~~~ 319 (824)
T PF02399_consen 249 SPTPKHSPDPTATAA-ISNDETTFFSELLARLNAGKNICVFSSTVSFAEIVARFCAR--------FTKKVLVLNSTDKLE 319 (824)
T ss_pred CCCcCCCCccccccc-cccchhhHHHHHHHHHhCCCcEEEEeChHHHHHHHHHHHHh--------cCCeEEEEcCCCCcc
Confidence 0 000000000 11111223333444445788888999999999988877655 355788888765555
Q ss_pred HHHHHHHHHhCCCceEEEeccccccccccCCc--cEEEEeCCC----CCHhhHHHHhccCCCCCCCc
Q 002135 571 DRRRIERDFFGGKLCGVAATNALELGIDVGHI--DVTLHLGFP----GSIASLWQQAGRSGRRERPS 631 (961)
Q Consensus 571 eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~v--d~VI~~~~P----~s~~sy~QR~GRAGR~g~~g 631 (961)
.++. =++.+|++=|+++..|+++... +-+.-|=-| .++.+..|++||.-.-...-
T Consensus 320 ---dv~~---W~~~~VviYT~~itvG~Sf~~~HF~~~f~yvk~~~~gpd~~s~~Q~lgRvR~l~~~e 380 (824)
T PF02399_consen 320 ---DVES---WKKYDVVIYTPVITVGLSFEEKHFDSMFAYVKPMSYGPDMVSVYQMLGRVRSLLDNE 380 (824)
T ss_pred ---cccc---ccceeEEEEeceEEEEeccchhhceEEEEEecCCCCCCcHHHHHHHHHHHHhhccCe
Confidence 3332 3678999999999999999765 334444112 36778999999996554433
No 155
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=99.06 E-value=1.3e-08 Score=124.24 Aligned_cols=120 Identities=18% Similarity=0.110 Sum_probs=85.0
Q ss_pred CCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCC-Cce
Q 002135 507 TSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGG-KLC 585 (961)
Q Consensus 507 ~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G-~~~ 585 (961)
...+...+..-+..+...|.|+||-|.|....|.+++.|+..- +.+ .++++..- +++.-+-+ ..| .-.
T Consensus 610 ~~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~SE~lS~~L~~~g------I~H--~VLNAK~h--~~EAeIVA-~AG~~Ga 678 (1112)
T PRK12901 610 KREKYNAVIEEITELSEAGRPVLVGTTSVEISELLSRMLKMRK------IPH--NVLNAKLH--QKEAEIVA-EAGQPGT 678 (1112)
T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHHHcC------CcH--HHhhccch--hhHHHHHH-hcCCCCc
Confidence 3455566666677777899999999999999999999887621 111 11222211 22222211 234 346
Q ss_pred EEEeccccccccccC---Cc-----cEEEEeCCCCCHhhHHHHhccCCCCCCCceEEEEe
Q 002135 586 GVAATNALELGIDVG---HI-----DVTLHLGFPGSIASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 586 vLVAT~aLe~GIDIp---~v-----d~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
|-||||+++||.||. .| =+||-...+.|.---.|-.|||||.|.||.+-++.
T Consensus 679 VTIATNMAGRGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPGsS~f~l 738 (1112)
T PRK12901 679 VTIATNMAGRGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGSSQFYV 738 (1112)
T ss_pred EEEeccCcCCCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCCcceEEE
Confidence 789999999999994 22 26888889999999999999999999999885544
No 156
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=98.99 E-value=5.6e-09 Score=122.90 Aligned_cols=379 Identities=16% Similarity=0.140 Sum_probs=206.4
Q ss_pred HHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCC---CeEEEEcccHHHHHHHHHHHHHh-HhhCCCCccEEE
Q 002135 260 QAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLS---SSALYMFPTKALAQDQLRALLAM-TKAFDASIDIGV 335 (961)
Q Consensus 260 Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~---~~aLvl~PtraLa~qq~~~l~~l-~~~~~~~i~v~~ 335 (961)
-.+.+.++....-++|-..||.|||.-+.--+|+.+.++.. ..+.+--|++--+.-.++++..- +...+.
T Consensus 383 ~~~i~q~v~dn~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva~er~e~~g~------ 456 (1282)
T KOG0921|consen 383 RSEILQAVAENRVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVANERGEEVGE------ 456 (1282)
T ss_pred HHHHHHHHhcCceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHHHhhHHhhcc------
Confidence 44556666677889999999999999999999998887542 34677779988887777776432 222211
Q ss_pred EcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccc
Q 002135 336 YDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFG 415 (961)
Q Consensus 336 ~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg 415 (961)
.-|-.+..+...-+....|+++|-+.+...+ ..-+.. +.++++||.|...
T Consensus 457 tvgy~vRf~Sa~prpyg~i~fctvgvllr~~-------e~glrg-------------------~sh~i~deiherd---- 506 (1282)
T KOG0921|consen 457 TCGYNVRFDSATPRPYGSIMFCTVGVLLRMM-------ENGLRG-------------------ISHVIIDEIHERD---- 506 (1282)
T ss_pred cccccccccccccccccceeeeccchhhhhh-------hhcccc-------------------cccccchhhhhhc----
Confidence 1111111111111122468899988876543 111222 3899999999842
Q ss_pred hHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHccc-CCe-------------------EEEecCCCcccee
Q 002135 416 CHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELANL-STL-------------------ELIQNDGSPCAQK 475 (961)
Q Consensus 416 ~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~~-~~~-------------------~~i~~~g~p~~~~ 475 (961)
.....++.-++.+... -.+..++++|||+.. +++..+++. .++ ......+.+...+
T Consensus 507 v~~dfll~~lr~m~~t--y~dl~v~lmsatIdT--d~f~~~f~~~p~~~~~grt~pvq~F~led~~~~~~~vp~~~~~~k 582 (1282)
T KOG0921|consen 507 VDTDFVLIVLREMIST--YRDLRVVLMSATIDT--DLFTNFFSSIPDVTVHGRTFPVQSFFLEDIIQMTQFVPSEPSQKK 582 (1282)
T ss_pred cchHHHHHHHHhhhcc--chhhhhhhhhcccch--hhhhhhhccccceeeccccccHHHHHHHHhhhhhhccCCCcCccc
Confidence 2233333333333322 134567777888742 222222221 111 1111222222222
Q ss_pred EEEEe--CCCccccccccccccccchh------hhc---ccCCCCcHHHHHHHHHHHHHCC--CcEEEEecChHHHHHHH
Q 002135 476 LFVLW--NPTSCLRSVLNKSQTDMDDT------RNA---ANKTSSPISEVSYLFAEMVQHG--LRCIAFCRSRKLCELVL 542 (961)
Q Consensus 476 ~~~l~--~p~~~~~~~~~~~~~~~~~~------~~~---~~~~~~~~~~~~~ll~~l~~~g--~k~IVF~~sr~~ae~l~ 542 (961)
....- .+.... ..........+. ... ...+.........++......+ +-+++|.+-....-.|.
T Consensus 583 ~k~~~~~~~~~~d--dK~~n~n~~~dd~~~~~~~~am~~~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L~ 660 (1282)
T KOG0921|consen 583 RKKDDDEEDEEVD--DKGRNMNILCDPSYNESTRTAMSRLSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTLC 660 (1282)
T ss_pred hhhcccccCchhh--hcccccccccChhhcchhhhhhhcchhhcchhHHHHHHHhhhcccCCccceeeecCchHHhhhhh
Confidence 11110 010000 000000000000 000 1111112222222333332232 46889998877777777
Q ss_pred HHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccccccccccCCccEEEEeCCC-----------
Q 002135 543 SYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNALELGIDVGHIDVTLHLGFP----------- 611 (961)
Q Consensus 543 ~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P----------- 611 (961)
.++...-. ....-...+...|+-+...+.+++.+....|..++|++|++.+.-|.|.++..||..+.-
T Consensus 661 ~~ll~~~~-fg~~~~y~ilp~Hsq~~~~eqrkvf~~~p~gv~kii~stniaetsiTidd~v~vid~cka~~~~~~s~nn~ 739 (1282)
T KOG0921|consen 661 NRLLEHQE-FGQANKYEILPLHSQLTSQEQRKVFEPVPEGVTKIILSTNIAETSITIDDVVYVIDSCKAKEKLFTSHNNM 739 (1282)
T ss_pred hhhhhhhh-hccchhcccccchhhcccHhhhhccCcccccccccccccceeeEeeeecceeEEEeeeeeeeeeeccccce
Confidence 66643211 111122356788999999999999999899999999999999999999998777744321
Q ss_pred -------CCHhhHHHHhccCCCCCCCceEEEEeeCCcchhHHHhchHHhhcCCCcccccCCCCHHHHH-HHHHHHHhcC
Q 002135 612 -------GSIASLWQQAGRSGRRERPSLAVYVAFEGPLDQYFMKYPEKLFKSPIECCHIDAQNHKVLE-QHLVCAALEH 682 (961)
Q Consensus 612 -------~s~~sy~QR~GRAGR~g~~g~~i~l~~~~~~d~~~~~~~e~l~~~~ie~~~~~~~n~~vl~-~~l~~aa~e~ 682 (961)
.|..+..||.||+||. ++|.|..++...-....-...-++++..+.++..+.+.-+-... .|+...+.+.
T Consensus 740 ~~~Atvw~sktn~eqr~gr~grv-R~G~~f~lcs~arF~~l~~~~t~em~r~plhemalTikll~l~SI~~fl~kal~~ 817 (1282)
T KOG0921|consen 740 THYATVWASKTNLEQRKGRAGRV-RPGFCFHLCSRARFEALEDHGTAEMFRTPLHEIALTIKLLRLGSIGEFLGKALQP 817 (1282)
T ss_pred eeeeeecccccchHhhcccCcee-cccccccccHHHHHHHHHhcCcHhhhcCccHHHHhhHHHHHhhhHHHHHhhccCC
Confidence 2567889999999998 78888766532222222222245666777766666554433333 2334444443
No 157
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=98.92 E-value=3.3e-10 Score=135.71 Aligned_cols=177 Identities=20% Similarity=0.224 Sum_probs=130.6
Q ss_pred CcHHHHHHHHHHh-CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEE
Q 002135 256 LYSHQAESIMASL-AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIG 334 (961)
Q Consensus 256 l~~~Q~~ai~~il-~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~ 334 (961)
+.|.|.+.+..+. ...++++-+|||||||++|.+.++..+...|+.+++||+|.++|...-.+.+.+.... + ++++.
T Consensus 928 fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap~kalvker~~Dw~~r~~~-~-g~k~i 1005 (1230)
T KOG0952|consen 928 FNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAPDKALVKERSDDWSKRDEL-P-GIKVI 1005 (1230)
T ss_pred cCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcCCchhhcccccchhhhccc-C-CceeE
Confidence 3445555544432 3468999999999999999999999999999999999999999999888777664332 2 57788
Q ss_pred EEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhccc
Q 002135 335 VYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAF 414 (961)
Q Consensus 335 ~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~f 414 (961)
-.+|+...+- .-...++++|+||+..-.. .+.+..+..+.++ +.+|+||.|++..++
T Consensus 1006 e~tgd~~pd~--~~v~~~~~~ittpek~dgi--~Rsw~~r~~v~~v-------------------~~iv~de~hllg~~r 1062 (1230)
T KOG0952|consen 1006 ELTGDVTPDV--KAVREADIVITTPEKWDGI--SRSWQTRKYVQSV-------------------SLIVLDEIHLLGEDR 1062 (1230)
T ss_pred eccCccCCCh--hheecCceEEcccccccCc--cccccchhhhccc-------------------cceeecccccccCCC
Confidence 8889876652 2334689999999986432 2333445666666 999999999998888
Q ss_pred chHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcc
Q 002135 415 GCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELAN 458 (961)
Q Consensus 415 g~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~ 458 (961)
|+-+..+..+...+..+ .....+.+++|--+.|..+...||.-
T Consensus 1063 gPVle~ivsr~n~~s~~-t~~~vr~~glsta~~na~dla~wl~~ 1105 (1230)
T KOG0952|consen 1063 GPVLEVIVSRMNYISSQ-TEEPVRYLGLSTALANANDLADWLNI 1105 (1230)
T ss_pred cceEEEEeeccccCccc-cCcchhhhhHhhhhhccHHHHHHhCC
Confidence 88877666665553332 23456888888878888888888743
No 158
>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=98.88 E-value=8e-09 Score=114.52 Aligned_cols=156 Identities=19% Similarity=0.152 Sum_probs=92.1
Q ss_pred HHHHHHHHHh-------------CCCcEEEEecCCchhHHHHHHHHHHHHhcCCC---CeEEEEcccHHHHHHHHHHHHH
Q 002135 259 HQAESIMASL-------------AGKNVVVATMTSSGKSLCYNLPVLEALSHDLS---SSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 259 ~Q~~ai~~il-------------~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~---~~aLvl~PtraLa~qq~~~l~~ 322 (961)
||.+++..++ ..+..+++..+|+|||+..+..+.......+. ..+|||+|. .+..++..++.+
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~ 79 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEK 79 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcc
Confidence 6888888763 33579999999999998876555433222222 259999999 778899999999
Q ss_pred hHhhCCCCccEEEEcCCCcH-HHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeE
Q 002135 323 MTKAFDASIDIGVYDGDTTQ-KDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRF 401 (961)
Q Consensus 323 l~~~~~~~i~v~~~~Gd~~~-~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~ 401 (961)
+.... ...+..++|.... ..........+++|+|.+.+... ........+... ++++
T Consensus 80 ~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~vvi~ty~~~~~~---~~~~~~~~l~~~-----------------~~~~ 137 (299)
T PF00176_consen 80 WFDPD--SLRVIIYDGDSERRRLSKNQLPKYDVVITTYETLRKA---RKKKDKEDLKQI-----------------KWDR 137 (299)
T ss_dssp HSGT---TS-EEEESSSCHHHHTTSSSCCCSSEEEEEHHHHH-----TSTHTTHHHHTS-----------------EEEE
T ss_pred ccccc--cccccccccccccccccccccccceeeeccccccccc---cccccccccccc-----------------ccee
Confidence 87532 3578888887711 11112234578999999988611 111222333333 2399
Q ss_pred EEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC
Q 002135 402 VVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA 447 (961)
Q Consensus 402 VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~ 447 (961)
||+||+|.+.+ ........+..++ ....+++|||+-
T Consensus 138 vIvDEaH~~k~-~~s~~~~~l~~l~---------~~~~~lLSgTP~ 173 (299)
T PF00176_consen 138 VIVDEAHRLKN-KDSKRYKALRKLR---------ARYRWLLSGTPI 173 (299)
T ss_dssp EEETTGGGGTT-TTSHHHHHHHCCC---------ECEEEEE-SS-S
T ss_pred EEEeccccccc-ccccccccccccc---------cceEEeeccccc
Confidence 99999999964 2333322222221 346788999974
No 159
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.83 E-value=2.4e-08 Score=110.33 Aligned_cols=72 Identities=21% Similarity=0.140 Sum_probs=58.5
Q ss_pred CCCCCCcHHHHHHHHH----HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCC----CeEEEEcccHHHHHHHHHHHHH
Q 002135 251 TGISKLYSHQAESIMA----SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLS----SSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~----il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~----~~aLvl~PtraLa~qq~~~l~~ 322 (961)
+.|+ +||.|.+.+.. +.+|+++++.||||+|||+++++|++..+..... .+++|.++|..+..|....+++
T Consensus 5 FPy~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 5 FPYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 3453 69999995554 5578999999999999999999999987665433 3899999999998887777765
Q ss_pred h
Q 002135 323 M 323 (961)
Q Consensus 323 l 323 (961)
.
T Consensus 84 ~ 84 (289)
T smart00488 84 L 84 (289)
T ss_pred c
Confidence 4
No 160
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.83 E-value=2.4e-08 Score=110.33 Aligned_cols=72 Identities=21% Similarity=0.140 Sum_probs=58.5
Q ss_pred CCCCCCcHHHHHHHHH----HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCC----CeEEEEcccHHHHHHHHHHHHH
Q 002135 251 TGISKLYSHQAESIMA----SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLS----SSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~----il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~----~~aLvl~PtraLa~qq~~~l~~ 322 (961)
+.|+ +||.|.+.+.. +.+|+++++.||||+|||+++++|++..+..... .+++|.++|..+..|....+++
T Consensus 5 FPy~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 5 FPYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 3453 69999995554 5578999999999999999999999987665433 3899999999998887777765
Q ss_pred h
Q 002135 323 M 323 (961)
Q Consensus 323 l 323 (961)
.
T Consensus 84 ~ 84 (289)
T smart00489 84 L 84 (289)
T ss_pred c
Confidence 4
No 161
>PF08839 CDT1: DNA replication factor CDT1 like; InterPro: IPR014939 CDT1 is a component of the replication licensing system and promotes the loading of the mini-chromosome maintenance complex onto chromatin. Geminin is an inhibitor of CDT1 and prevents inappropriate re-initiation of replication on an already fired origin. This region of CDT1 binds to Geminin []. ; PDB: 2WVR_C 2ZXX_F.
Probab=98.76 E-value=1.2e-08 Score=102.75 Aligned_cols=65 Identities=15% Similarity=0.274 Sum_probs=55.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHHhhccceechhhhHHHHHHhhhcCCccchhhhhhhhhhcCCceEEee
Q 002135 14 PVWLKKIVEAFAFVSIFSAHLQLRREKVILSHVKGALNQLEKFGVRVGIEDIENLAVLCPKVVQFAN 80 (961)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (961)
|+.|+.|.++|++|||+++||..|++.+||..||.+||.+ .+|+.+.+++|||+.|+|+++.|++
T Consensus 2 P~~y~~L~~~F~~ldtv~~~l~~R~~~~tf~~i~~~Ve~~--~kr~F~~~~LaQI~~i~P~a~~~~~ 66 (163)
T PF08839_consen 2 PEKYEFLAELFRALDTVVSMLRNRKETPTFQKIKPSVENM--TKRRFTEEHLAQIKYIYPEAYSLKQ 66 (163)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHTT---BHHHHHHHHHHH--HSS---HHHHHHHHHH-GGGEEEEE
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHH--hcCCcCHHHHHHHHHhCcccEEEee
Confidence 8999999999999999999999999999999999999988 4899999999999999999999994
No 162
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=98.73 E-value=5.4e-07 Score=100.54 Aligned_cols=114 Identities=13% Similarity=0.106 Sum_probs=87.2
Q ss_pred CcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCC-CceE-EEeccccccccccCCcc
Q 002135 526 LRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGG-KLCG-VAATNALELGIDVGHID 603 (961)
Q Consensus 526 ~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G-~~~v-LVAT~aLe~GIDIp~vd 603 (961)
.+.|||..--...+.+.-.|.+ .+..+.-+-|+|++..|...++.|++. .++| ||+-.+.+.-+++-...
T Consensus 639 ~KsIVFSQFTSmLDLi~~rL~k--------aGfscVkL~GsMs~~ardatik~F~nd~~c~vfLvSLkAGGVALNLteAS 710 (791)
T KOG1002|consen 639 AKSIVFSQFTSMLDLIEWRLGK--------AGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLVSLKAGGVALNLTEAS 710 (791)
T ss_pred hhhhhHHHHHHHHHHHHHHhhc--------cCceEEEeccCCChHHHHHHHHHhccCCCeEEEEEEeccCceEeeechhc
Confidence 4778888766555555443433 455677889999999999999999976 4444 68888999999999999
Q ss_pred EEEEeCCCCCHhhHHHHhccCCCCCC--CceEEEEeeCCcchhHHH
Q 002135 604 VTLHLGFPGSIASLWQQAGRSGRRER--PSLAVYVAFEGPLDQYFM 647 (961)
Q Consensus 604 ~VI~~~~P~s~~sy~QR~GRAGR~g~--~g~~i~l~~~~~~d~~~~ 647 (961)
.|++.|+-++.+-=||.--|.-|-|+ |-.++.++.++..+..+.
T Consensus 711 qVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEnsiE~kIi 756 (791)
T KOG1002|consen 711 QVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVRFCIENSIEEKII 756 (791)
T ss_pred eeEeecccccHHHHhhhhhhHHhhcCccceeEEEeehhccHHHHHH
Confidence 99999999999999998888888875 456666666665554443
No 163
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=98.73 E-value=4.9e-08 Score=116.99 Aligned_cols=331 Identities=16% Similarity=0.193 Sum_probs=191.4
Q ss_pred CCCcHHHHHHHHHHh---C-CCcEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEcccHHHHHHHHHHHHHhHhhC
Q 002135 254 SKLYSHQAESIMASL---A-GKNVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMFPTKALAQDQLRALLAMTKAF 327 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il---~-G~~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~PtraLa~qq~~~l~~l~~~~ 327 (961)
.++.++|...+..+. + +-|-|+.-.+|-|||..- +..+..+.+. ..+.-|||+|+--|.+ +..++..+.
T Consensus 393 G~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQt-IsLitYLmE~K~~~GP~LvivPlstL~N-W~~Ef~kWa--- 467 (1157)
T KOG0386|consen 393 GELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQT-ISLITYLMEHKQMQGPFLIIVPLSTLVN-WSSEFPKWA--- 467 (1157)
T ss_pred CCCchhhhhhhHHHhhccCCCcccccchhcccchHHHH-HHHHHHHHHHcccCCCeEEeccccccCC-chhhccccc---
Confidence 379999999998854 3 348999999999999764 3334444332 2345799999988877 344555543
Q ss_pred CCCccEEEEcCCCcHHHHHH----Hh-cCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEE
Q 002135 328 DASIDIGVYDGDTTQKDRMW----LR-DNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFV 402 (961)
Q Consensus 328 ~~~i~v~~~~Gd~~~~~r~~----l~-~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~V 402 (961)
..+....|.|.. .+|.. ++ ...+|++||.+-+. +-+.+|+.+.| .|+
T Consensus 468 -PSv~~i~YkGtp--~~R~~l~~qir~gKFnVLlTtyEyii--------kdk~lLsKI~W-----------------~yM 519 (1157)
T KOG0386|consen 468 -PSVQKIQYKGTP--QQRSGLTKQQRHGKFNVLLTTYEYII--------KDKALLSKISW-----------------KYM 519 (1157)
T ss_pred -cceeeeeeeCCH--HHHhhHHHHHhcccceeeeeeHHHhc--------CCHHHHhccCC-----------------cce
Confidence 346677777754 33322 22 34799999998763 23566777755 899
Q ss_pred EEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCCh-HHHHHHHcccCCeEEE--------------ec
Q 002135 403 VIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANP-REHCMELANLSTLELI--------------QN 467 (961)
Q Consensus 403 VIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~-~e~~~~L~~~~~~~~i--------------~~ 467 (961)
||||.|+|... ...+-..|.. .|. .+..+++|.|+-.. ....-.|++..-..++ ..
T Consensus 520 IIDEGHRmKNa----~~KLt~~L~t----~y~-~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PFan 590 (1157)
T KOG0386|consen 520 IIDEGHRMKNA----ICKLTDTLNT----HYR-AQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPFAN 590 (1157)
T ss_pred eecccccccch----hhHHHHHhhc----ccc-chhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhhhh
Confidence 99999998751 1122222221 122 23445567776211 1111111111000000 00
Q ss_pred CCCccc----------eeEEEEeCCCccccc------------------------------------cc-cc--cccccc
Q 002135 468 DGSPCA----------QKLFVLWNPTSCLRS------------------------------------VL-NK--SQTDMD 498 (961)
Q Consensus 468 ~g~p~~----------~~~~~l~~p~~~~~~------------------------------------~~-~~--~~~~~~ 498 (961)
.|.... .+.+-+..|-...+. .. +. ......
T Consensus 591 tGek~eLteEEtlLIIrRLHkVLRPFlLRRlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~~~g~~g~k 670 (1157)
T KOG0386|consen 591 TGEKVELTEEETLLIIRRLHKVLRPFLLRRLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDTAKGKKGYK 670 (1157)
T ss_pred cCCcccccchHHHHHHHHHHHhhhHHHHHhhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCchhccccch
Confidence 010000 000000000000000 00 00 000000
Q ss_pred h----------hh-------------------hcccCCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHH
Q 002135 499 D----------TR-------------------NAANKTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREIL 549 (961)
Q Consensus 499 ~----------~~-------------------~~~~~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l 549 (961)
. .. ........+..-+-.++-.+...|.+++.||.-.+.-..+-.+|.-
T Consensus 671 ~L~N~imqLRKiCNHP~lf~~ve~~~~~~~~~~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~-- 748 (1157)
T KOG0386|consen 671 PLFNTIMQLRKLCNHPYLFANVENSYTLHYDIKDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQI-- 748 (1157)
T ss_pred hhhhHhHHHHHhcCCchhhhhhccccccccChhHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhh--
Confidence 0 00 0011122333344455566666788999999876655555544432
Q ss_pred HhhCCcccccEEEEcCCCCHHHHHHHHHHHhCC---CceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCC
Q 002135 550 EETAPHLVDSICVYRAGYVAEDRRRIERDFFGG---KLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGR 626 (961)
Q Consensus 550 ~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G---~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR 626 (961)
-......+-|.-..++|-..++.|..- -...|.+|.+.++|+|+...|.||.||.-++...+.|+--||-|
T Consensus 749 ------~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahr 822 (1157)
T KOG0386|consen 749 ------REYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHR 822 (1157)
T ss_pred ------hhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHH
Confidence 112344556778889999999999854 34568999999999999999999999999999999999999999
Q ss_pred CCCCceEE
Q 002135 627 RERPSLAV 634 (961)
Q Consensus 627 ~g~~g~~i 634 (961)
-|+.-.+-
T Consensus 823 igq~~evR 830 (1157)
T KOG0386|consen 823 IGQKKEVR 830 (1157)
T ss_pred hhchhhee
Confidence 98765543
No 164
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=98.71 E-value=5.2e-07 Score=104.25 Aligned_cols=119 Identities=18% Similarity=0.195 Sum_probs=99.3
Q ss_pred CCCCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCce
Q 002135 506 KTSSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLC 585 (961)
Q Consensus 506 ~~~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~ 585 (961)
..+.+...+-.++..+...|.++|+|..-.+..+.+-.++.- -+..-..+.|+....+|+.+.++|...++-
T Consensus 1025 tdSgKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~y--------r~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiF 1096 (1185)
T KOG0388|consen 1025 TDSGKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVY--------RGYTYLRLDGSSKASDRRDVVRDWQASDIF 1096 (1185)
T ss_pred ccccceeeHHHHHHHhhcCCceEEehhHHHHHHHHHHHHHHh--------hccceEEecCcchhhHHHHHHhhccCCceE
Confidence 445566667778888888899999999988888877766643 233455678999999999999999976554
Q ss_pred -EEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCce
Q 002135 586 -GVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSL 632 (961)
Q Consensus 586 -vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~ 632 (961)
.|.+|.+.++||++...|.||.|+..+++..-.|...||-|.|++--
T Consensus 1097 vFLLSTRAGGLGINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrd 1144 (1185)
T KOG0388|consen 1097 VFLLSTRAGGLGINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRD 1144 (1185)
T ss_pred EEEEecccCcccccccccceEEEecCCCCcchhhHHHHHHHhccCccc
Confidence 57999999999999999999999999999999999999999988654
No 165
>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=6.9e-08 Score=93.37 Aligned_cols=136 Identities=16% Similarity=0.175 Sum_probs=75.5
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWL 348 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l 348 (961)
+|+-.++-..+|+|||--.+--++..-.+ .+.++|+|.|||.++....+.|+.. + +++. -..... ..
T Consensus 3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~-~~~rvLvL~PTRvva~em~~aL~~~----~--~~~~---t~~~~~---~~ 69 (148)
T PF07652_consen 3 KGELTVLDLHPGAGKTRRVLPEIVREAIK-RRLRVLVLAPTRVVAEEMYEALKGL----P--VRFH---TNARMR---TH 69 (148)
T ss_dssp TTEEEEEE--TTSSTTTTHHHHHHHHHHH-TT--EEEEESSHHHHHHHHHHTTTS----S--EEEE---STTSS------
T ss_pred CCceeEEecCCCCCCcccccHHHHHHHHH-ccCeEEEecccHHHHHHHHHHHhcC----C--cccC---ceeeec---cc
Confidence 45667899999999998654444433332 3789999999999999888777543 1 2111 111100 11
Q ss_pred hcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHH
Q 002135 349 RDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRL 428 (961)
Q Consensus 349 ~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~ 428 (961)
..+.-|-++|...+...++.. . .+.+. ++||+||+|.... ..+ ...-.++..
T Consensus 70 ~g~~~i~vMc~at~~~~~~~p-~----~~~~y-------------------d~II~DEcH~~Dp---~sI-A~rg~l~~~ 121 (148)
T PF07652_consen 70 FGSSIIDVMCHATYGHFLLNP-C----RLKNY-------------------DVIIMDECHFTDP---TSI-AARGYLREL 121 (148)
T ss_dssp -SSSSEEEEEHHHHHHHHHTS-S----CTTS--------------------SEEEECTTT--SH---HHH-HHHHHHHHH
T ss_pred cCCCcccccccHHHHHHhcCc-c----cccCc-------------------cEEEEeccccCCH---HHH-hhheeHHHh
Confidence 234567788888776655431 1 12344 9999999998542 111 112233333
Q ss_pred hhcccCCCCcEEEeccCCCC
Q 002135 429 CSHVYGSDPSFVFSTATSAN 448 (961)
Q Consensus 429 ~~~~~~~~~q~I~lSATl~n 448 (961)
.. .....+|++|||++-
T Consensus 122 ~~---~g~~~~i~mTATPPG 138 (148)
T PF07652_consen 122 AE---SGEAKVIFMTATPPG 138 (148)
T ss_dssp HH---TTS-EEEEEESS-TT
T ss_pred hh---ccCeeEEEEeCCCCC
Confidence 32 234579999999863
No 166
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=98.67 E-value=8.7e-07 Score=102.92 Aligned_cols=94 Identities=14% Similarity=0.067 Sum_probs=73.8
Q ss_pred ccccEEEEcCCCCHHHHHHHHHHHh--CCCceE-EEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCce
Q 002135 556 LVDSICVYRAGYVAEDRRRIERDFF--GGKLCG-VAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSL 632 (961)
Q Consensus 556 l~~~v~~~hggls~~eR~~ie~~f~--~G~~~v-LVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~ 632 (961)
.+.....+||.....+|..+.+.|. +|..+| |++-.+-+.|+|+-+.+++|..|+-|+++-=.|..-|.-|.|+.-.
T Consensus 769 ~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcDRIYR~GQkK~ 848 (901)
T KOG4439|consen 769 GGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQACDRIYRMGQKKD 848 (901)
T ss_pred CCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEecccCHHHHHHHHHHHHHhcccCc
Confidence 4556678999999999999999997 444454 5788899999999999999999999999999999999999988765
Q ss_pred EEE--EeeCCcchhHHHhc
Q 002135 633 AVY--VAFEGPLDQYFMKY 649 (961)
Q Consensus 633 ~i~--l~~~~~~d~~~~~~ 649 (961)
+++ +...+..++..+..
T Consensus 849 V~IhR~~~~gTvEqrV~~L 867 (901)
T KOG4439|consen 849 VFIHRLMCKGTVEQRVKSL 867 (901)
T ss_pred eEEEEEEecCcHHHHHHHH
Confidence 542 23344445544433
No 167
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=98.66 E-value=1.4e-06 Score=111.35 Aligned_cols=117 Identities=15% Similarity=0.152 Sum_probs=98.7
Q ss_pred cHHHHHHHH-HHHHHCCC--cEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCC--Cc
Q 002135 510 PISEVSYLF-AEMVQHGL--RCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGG--KL 584 (961)
Q Consensus 510 ~~~~~~~ll-~~l~~~g~--k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G--~~ 584 (961)
+...+..++ ..+...|. ++++|++-....+.+...+.. .......++|+.+..+|....+.|.++ ..
T Consensus 693 k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~l~~--------~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~ 764 (866)
T COG0553 693 KLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYLKA--------LGIKYVRLDGSTPAKRRQELIDRFNADEEEK 764 (866)
T ss_pred HHHHHHHHHHHHHHhhcccccEEEEeCcHHHHHHHHHHHHh--------cCCcEEEEeCCCChhhHHHHHHHhhcCCCCc
Confidence 445555666 56677787 999999999988888777765 224578899999999999999999986 45
Q ss_pred eEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEE
Q 002135 585 CGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAV 634 (961)
Q Consensus 585 ~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i 634 (961)
..+++|.+.+.|++.-..++||++|..++.+...|...|+-|.|++..+-
T Consensus 765 v~lls~kagg~glnLt~a~~vi~~d~~wnp~~~~Qa~dRa~RigQ~~~v~ 814 (866)
T COG0553 765 VFLLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQKRPVK 814 (866)
T ss_pred eEEEEecccccceeecccceEEEeccccChHHHHHHHHHHHHhcCcceeE
Confidence 56788889999999999999999999999999999999999998876553
No 168
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.65 E-value=3.1e-06 Score=107.34 Aligned_cols=331 Identities=15% Similarity=0.143 Sum_probs=171.4
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRD 350 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~ 350 (961)
+..+|.=-||||||++....+-..+.....+++++|+-+++|-.|..+.+.++...... .. .-++...-++.+..
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~---~~--~~~s~~~Lk~~l~~ 348 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFN---DP--KAESTSELKELLED 348 (962)
T ss_pred CceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHHHHHhhhh---cc--cccCHHHHHHHHhc
Confidence 56999999999999997766655444445689999999999999999999998654321 11 23333344455554
Q ss_pred C-CcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHh
Q 002135 351 N-ARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLC 429 (961)
Q Consensus 351 ~-~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~ 429 (961)
. ..|+|||-..+...+... .. ..+.+- =-+||+||||+-- +|.- -.+++...
T Consensus 349 ~~~~ii~TTIQKf~~~~~~~-~~--~~~~~~------------------~ivvI~DEaHRSQ--~G~~----~~~~~~~~ 401 (962)
T COG0610 349 GKGKIIVTTIQKFNKAVKED-EL--ELLKRK------------------NVVVIIDEAHRSQ--YGEL----AKLLKKAL 401 (962)
T ss_pred CCCcEEEEEecccchhhhcc-cc--cccCCC------------------cEEEEEechhhcc--ccHH----HHHHHHHh
Confidence 4 489999998886554221 00 001111 0578999999843 3322 22223322
Q ss_pred hcccCCCCcEEEeccCCCChHHHH--HHHcccCCeEEEecCCCccceeEEEEeCCCccccccccccccc-----------
Q 002135 430 SHVYGSDPSFVFSTATSANPREHC--MELANLSTLELIQNDGSPCAQKLFVLWNPTSCLRSVLNKSQTD----------- 496 (961)
Q Consensus 430 ~~~~~~~~q~I~lSATl~n~~e~~--~~L~~~~~~~~i~~~g~p~~~~~~~l~~p~~~~~~~~~~~~~~----------- 496 (961)
++..++++|.|+--..+.- ...+|..-....-.+.-..+...-+.+................
T Consensus 402 -----~~a~~~gFTGTPi~~~d~~tt~~~fg~ylh~Y~i~daI~Dg~vl~i~y~~~~~~~~~~~~~~~~~~~~~~~~~~~ 476 (962)
T COG0610 402 -----KKAIFIGFTGTPIFKEDKDTTKDVFGDYLHTYTITDAIRDGAVLPVYYENRVELELIEESIKEEAEELDERIEEI 476 (962)
T ss_pred -----ccceEEEeeCCccccccccchhhhhcceeEEEecchhhccCceeeEEEeecccccccccchhhhhhhhHHHHhhh
Confidence 2368999999984333221 2334432111111111111111111111110000000000000
Q ss_pred cch----hhh------c-ccCCCCcHHHHHHHHHHHHH---CCCcEEEEecChHHHHHHHHHHHHHHHhhC-Cccc----
Q 002135 497 MDD----TRN------A-ANKTSSPISEVSYLFAEMVQ---HGLRCIAFCRSRKLCELVLSYTREILEETA-PHLV---- 557 (961)
Q Consensus 497 ~~~----~~~------~-~~~~~~~~~~~~~ll~~l~~---~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~-~~l~---- 557 (961)
... ... . ..........+.++..+... .+.++.+-|.+++.|..+.+.......... ....
T Consensus 477 ~~~~~~~~~k~~~~~~~~~~~~~r~~~~a~~i~~~f~~~~~~~~kam~V~~sr~~~~~~~~~~~~~~~~~~~~~~~~~~i 556 (962)
T COG0610 477 TEDILEKIKKKTKNLEFLAMLAVRLIRAAKDIYDHFKKEEVFDLKAMVVASSRKVAVELYEAEIAARLDWHSKESLEGAI 556 (962)
T ss_pred HHHHHHHHHHHHhhhhHHhcchHHHHHHHHHHHHHHHhhcccCceEEEEEechHHHHHhHHHHhhhhhhhhhhhhhhhHH
Confidence 000 000 0 00011111122233333333 245788888888855555443322110000 0000
Q ss_pred ----------ccEEEEcCCCCHHHHHHHHHH--HhCCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCC
Q 002135 558 ----------DSICVYRAGYVAEDRRRIERD--FFGGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSG 625 (961)
Q Consensus 558 ----------~~v~~~hggls~~eR~~ie~~--f~~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAG 625 (961)
......|.. ....++....+ .....+++||-++++-.|.|-|.+... -.|-|----.++|-+-|+.
T Consensus 557 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~r~~~~~d~~kilIV~dmlLTGFDaP~L~Tm-YvDK~Lk~H~L~QAisRtN 634 (962)
T COG0610 557 KDYNTEFETDFDKKQSHAK-LKDEKKDLIKRFKLKDDPLDLLIVVDMLLTGFDAPCLNTL-YVDKPLKYHNLIQAISRTN 634 (962)
T ss_pred HHHHhhcccchhhhhhhHH-HHHHHhhhhhhhcCcCCCCCEEEEEccccccCCccccceE-EeccccccchHHHHHHHhc
Confidence 000001111 22334444445 346789999999999999999988765 4677777788999999999
Q ss_pred CC--CCCceEEEEeeCC
Q 002135 626 RR--ERPSLAVYVAFEG 640 (961)
Q Consensus 626 R~--g~~g~~i~l~~~~ 640 (961)
|. +....+.+|.+.+
T Consensus 635 R~~~~~K~~G~IVDf~g 651 (962)
T COG0610 635 RVFPGKKKFGLIVDFRG 651 (962)
T ss_pred cCCCCCCCCcEEEECcc
Confidence 98 3234444444433
No 169
>PF09369 DUF1998: Domain of unknown function (DUF1998); InterPro: IPR018973 This entry represents a family of DEAD/DEAH-box-containing family of helicases. It includes Hrq1 from Saccharomyces, a putative RecQ helicase []. RecQ helicases are involved in maintaining genomic integrity.
Probab=98.63 E-value=1.2e-08 Score=91.27 Aligned_cols=57 Identities=30% Similarity=0.585 Sum_probs=47.0
Q ss_pred HHHHHHHhhcccccccCCCCCCccCCCCCCCCCCCcEEEEEcCCCCcchhhhhhhhc
Q 002135 902 AASHALLHVVPIYVRCNFSDLAPECPNPHDSRYFPERILLYDRHPGGTGVSKQVTDM 958 (961)
Q Consensus 902 a~~ha~~~~~p~~~~~~~~di~~~~~~~~~~~~~~~~i~~yD~~~gG~G~~~~~~~~ 958 (961)
+++|||+..+|++++|+++||+.......+.+..+++|||||+.|||+|+++++|+.
T Consensus 1 sl~~aL~~~~~~~~~~~~~ei~~~~~~~~~~~~~~~~i~lyD~~~GG~G~~~~l~~~ 57 (84)
T PF09369_consen 1 SLAHALRRAAPLFLGCDPSEIGFSIYPRPEPRQGPPRIFLYDTVPGGAGYAERLFER 57 (84)
T ss_pred CHHHHHHHHHHHHHCCCHHHCceEeccCcCCCCCccEEEEEECCCCchhhHhhhcCh
Confidence 478999999999999999999765444322245566899999999999999999874
No 170
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=98.57 E-value=5e-06 Score=99.00 Aligned_cols=121 Identities=13% Similarity=0.063 Sum_probs=90.9
Q ss_pred HHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhC-------------Ccc-cccEEEEcCCCCHHHHHHHHHHH
Q 002135 514 VSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETA-------------PHL-VDSICVYRAGYVAEDRRRIERDF 579 (961)
Q Consensus 514 ~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~-------------~~l-~~~v~~~hggls~~eR~~ie~~f 579 (961)
+..++.....-|-+.|||..|......|-.+|...-.... ..+ +.....+.|..+..+|......|
T Consensus 1131 LleIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~~~~F 1210 (1567)
T KOG1015|consen 1131 LLEILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKWAEEF 1210 (1567)
T ss_pred HHHHHHHHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHHHHHHh
Confidence 4555555555688999999999888877666643211100 001 11234566888899999999999
Q ss_pred hCC-C---ceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEE
Q 002135 580 FGG-K---LCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAV 634 (961)
Q Consensus 580 ~~G-~---~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i 634 (961)
.+- . ...||+|.+.++|||+-..+-||.+|.-|++.-=.|-+=|+-|.|+.--++
T Consensus 1211 Ndp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvy 1269 (1567)
T KOG1015|consen 1211 NDPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVY 1269 (1567)
T ss_pred cCcccceeEEEEEeeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcCcee
Confidence 853 2 236899999999999999999999999999999999999999999865554
No 171
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=98.52 E-value=4.2e-06 Score=101.41 Aligned_cols=104 Identities=13% Similarity=0.131 Sum_probs=75.1
Q ss_pred CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCC
Q 002135 251 TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDAS 330 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~ 330 (961)
.|. .++..| .+-.+.-...-|.-+.||=||||++.+|+.-..+. +..+.+++..--||+--...+..+...++
T Consensus 77 lg~-~~~dVQ--liG~i~lh~g~iaEM~TGEGKTL~atlp~ylnaL~--gkgVhvVTvNdYLA~RDae~m~~l~~~LG-- 149 (822)
T COG0653 77 LGM-RHFDVQ--LLGGIVLHLGDIAEMRTGEGKTLVATLPAYLNALA--GKGVHVVTVNDYLARRDAEWMGPLYEFLG-- 149 (822)
T ss_pred cCC-ChhhHH--HhhhhhhcCCceeeeecCCchHHHHHHHHHHHhcC--CCCcEEeeehHHhhhhCHHHHHHHHHHcC--
Confidence 354 455555 44455555667889999999999999999755443 56688888888999988888888888776
Q ss_pred ccEEEEcCCCcHHHHHHHhcCCcEEEeChhHH
Q 002135 331 IDIGVYDGDTTQKDRMWLRDNARLLITNPDML 362 (961)
Q Consensus 331 i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L 362 (961)
+.+++.....+..+++.. -.|+|..+|-..|
T Consensus 150 lsvG~~~~~m~~~ek~~a-Y~~DItY~TnnEl 180 (822)
T COG0653 150 LSVGVILAGMSPEEKRAA-YACDITYGTNNEL 180 (822)
T ss_pred CceeeccCCCChHHHHHH-HhcCceecccccc
Confidence 666666555555554333 2589999997765
No 172
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.49 E-value=2e-06 Score=106.33 Aligned_cols=94 Identities=16% Similarity=0.245 Sum_probs=66.7
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHH-----HhHhh-C-CCCccEEEEcCCC----
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALL-----AMTKA-F-DASIDIGVYDGDT---- 340 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~-----~l~~~-~-~~~i~v~~~~Gd~---- 340 (961)
++.+.++||+|||.+|+-.+++......-.+.|+++|+.|+-..+...+. ..+.. . +..+...+|++..
T Consensus 61 n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~~k~ 140 (986)
T PRK15483 61 NIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDKKKS 140 (986)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCccccc
Confidence 78999999999999998888877666556789999999999888776654 22221 1 2346677777654
Q ss_pred -----cHHHHHHHhc------CCcEEEeChhHHHHh
Q 002135 341 -----TQKDRMWLRD------NARLLITNPDMLHMS 365 (961)
Q Consensus 341 -----~~~~r~~l~~------~~~IlItTPe~L~~~ 365 (961)
+..-+..... ...|+++|-++|+..
T Consensus 141 gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~niqa~n~~ 176 (986)
T PRK15483 141 GRKNFPAQLSNFVKASRQNSNTIHVLLINAGMLNSA 176 (986)
T ss_pred ccccChHHHHHHHhccccCCCceEEEEEehHHhccc
Confidence 3333333322 368999999999754
No 173
>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=98.49 E-value=2e-06 Score=92.98 Aligned_cols=138 Identities=15% Similarity=0.209 Sum_probs=97.3
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCC
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDA 329 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~ 329 (961)
..|+ .|++.|.-++-.+..|+ |+...||=|||++..+|+.-..+. |..+-+++...-||+.-++.+..+...++
T Consensus 73 ~~g~-~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL~--G~~V~vvT~NdyLA~RD~~~~~~~y~~LG- 146 (266)
T PF07517_consen 73 TLGL-RPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNALQ--GKGVHVVTSNDYLAKRDAEEMRPFYEFLG- 146 (266)
T ss_dssp HTS-----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHTT--SS-EEEEESSHHHHHHHHHHHHHHHHHTT-
T ss_pred HcCC-cccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHHh--cCCcEEEeccHHHhhccHHHHHHHHHHhh-
Confidence 4676 79999999988887776 999999999999999888766554 67788999999999999999999999887
Q ss_pred CccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchh
Q 002135 330 SIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA 409 (961)
Q Consensus 330 ~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~ 409 (961)
+.++...++.+..+|+... .++|+++|...+.-..|..+-.. ........++.++||||+|.
T Consensus 147 -lsv~~~~~~~~~~~r~~~Y-~~dI~Y~t~~~~~fD~Lrd~~~~----------------~~~~~~~r~~~~~ivDEvDs 208 (266)
T PF07517_consen 147 -LSVGIITSDMSSEERREAY-AADIVYGTNSEFGFDYLRDNLAL----------------SKNEQVQRGFDFAIVDEVDS 208 (266)
T ss_dssp ---EEEEETTTEHHHHHHHH-HSSEEEEEHHHHHHHHHHHTT-S----------------SGGG--SSSSSEEEECTHHH
T ss_pred -hccccCccccCHHHHHHHH-hCcccccccchhhHHHHHHHHhh----------------ccchhccCCCCEEEEeccce
Confidence 7888888888777665443 46899999987753322111000 00011123449999999998
Q ss_pred hh
Q 002135 410 YK 411 (961)
Q Consensus 410 ~~ 411 (961)
+.
T Consensus 209 ~L 210 (266)
T PF07517_consen 209 IL 210 (266)
T ss_dssp HT
T ss_pred EE
Confidence 75
No 174
>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=98.23 E-value=0.00034 Score=80.66 Aligned_cols=95 Identities=14% Similarity=0.006 Sum_probs=70.5
Q ss_pred CCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecccc--ccccccCCc
Q 002135 525 GLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNAL--ELGIDVGHI 602 (961)
Q Consensus 525 g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aL--e~GIDIp~v 602 (961)
...+|||++|--.--.+-++|++ -......+|-..++.+-.++-..|.+|+.++|+-|-=+ =+=..|.++
T Consensus 300 ~~~~LIfIPSYfDfVRlRN~lk~--------~~~sF~~i~EYts~~~isRAR~~F~~G~~~iLL~TER~HFfrRy~irGi 371 (442)
T PF06862_consen 300 MSGTLIFIPSYFDFVRLRNYLKK--------ENISFVQISEYTSNSDISRARSQFFHGRKPILLYTERFHFFRRYRIRGI 371 (442)
T ss_pred CCcEEEEecchhhhHHHHHHHHh--------cCCeEEEecccCCHHHHHHHHHHHHcCCceEEEEEhHHhhhhhceecCC
Confidence 36899999996655555555542 22245566777788888899999999999999999833 345678889
Q ss_pred cEEEEeCCCCCHhhHHHHhccCCCC
Q 002135 603 DVTLHLGFPGSIASLWQQAGRSGRR 627 (961)
Q Consensus 603 d~VI~~~~P~s~~sy~QR~GRAGR~ 627 (961)
..||.|++|....-|-..+.-.+..
T Consensus 372 ~~viFY~~P~~p~fY~El~n~~~~~ 396 (442)
T PF06862_consen 372 RHVIFYGPPENPQFYSELLNMLDES 396 (442)
T ss_pred cEEEEECCCCChhHHHHHHhhhccc
Confidence 9999999999887776666544443
No 175
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.01 E-value=2.8e-05 Score=82.49 Aligned_cols=67 Identities=24% Similarity=0.350 Sum_probs=51.3
Q ss_pred CCcHHHHHHHHHHhCCCc-EEEEecCCchhHHHHHHHHHHHH-------hcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 255 KLYSHQAESIMASLAGKN-VVVATMTSSGKSLCYNLPVLEAL-------SHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~~-vIv~apTGSGKTla~~Lpil~~l-------~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
+|.+.|.+|+..+++... .+|.+|.|+|||.+.. -++..+ ....+.++|+++|+.+-+.+..+++.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~-~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLA-SIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHH-HHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHH-HHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 467899999999999888 9999999999995433 333333 245678999999999999999999887
No 176
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=97.98 E-value=9.9e-05 Score=91.55 Aligned_cols=72 Identities=11% Similarity=0.031 Sum_probs=51.7
Q ss_pred HHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHH
Q 002135 347 WLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLC 426 (961)
Q Consensus 347 ~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~ 426 (961)
.+.....|+++||..|...||... .+++.+..|||||||+..+ ....++|++..+
T Consensus 3 ~ly~~ggi~~~T~rIl~~DlL~~r-----------------------i~~~~itgiiv~~Ahr~~~--~~~eaFI~rlyr 57 (814)
T TIGR00596 3 KVYLEGGIFSITSRILVVDLLTGI-----------------------IPPELITGILVLRADRIIE--SSQEAFILRLYR 57 (814)
T ss_pred hHhhcCCEEEEechhhHhHHhcCC-----------------------CCHHHccEEEEeecccccc--cccHHHHHHHHH
Confidence 355567899999998876664221 2333459999999999976 455667777776
Q ss_pred HHhhcccCCCCcEEEeccCCCC
Q 002135 427 RLCSHVYGSDPSFVFSTATSAN 448 (961)
Q Consensus 427 ~~~~~~~~~~~q~I~lSATl~n 448 (961)
.. +..+-+.++||.+..
T Consensus 58 ~~-----n~~gfIkafSdsP~~ 74 (814)
T TIGR00596 58 QK-----NKTGFIKAFSDNPEA 74 (814)
T ss_pred Hh-----CCCcceEEecCCCcc
Confidence 54 345678999999864
No 177
>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=97.97 E-value=1.1e-05 Score=84.12 Aligned_cols=60 Identities=18% Similarity=0.131 Sum_probs=44.7
Q ss_pred CCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHH
Q 002135 253 ISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKAL 312 (961)
Q Consensus 253 ~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraL 312 (961)
++..+..|..++.++++.+-+++.+|.|||||+.++..+++.+.++.-.+.+++-|..+.
T Consensus 2 I~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~ 61 (205)
T PF02562_consen 2 IKPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEA 61 (205)
T ss_dssp ----SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--T
T ss_pred ccCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCC
Confidence 446788999999999988899999999999999999999999888666788988888754
No 178
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=97.82 E-value=0.00036 Score=76.10 Aligned_cols=188 Identities=18% Similarity=0.185 Sum_probs=114.4
Q ss_pred ecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHh----------CCCcEEEEecCCchhHHHHHHHHHHH
Q 002135 225 DISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASL----------AGKNVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 225 ~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il----------~G~~vIv~apTGSGKTla~~Lpil~~ 294 (961)
.+++++.+|.. .|++.+.+ .| .|...|.+++-.+. .+...++--.||.||.-...--|++.
T Consensus 16 sv~~P~~~y~~---~lp~~~~~----~g--~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n 86 (303)
T PF13872_consen 16 SVAPPDPTYRL---HLPEEVID----SG--LLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILEN 86 (303)
T ss_pred cCCCCCCCccc---CCCHHHHh----cc--cccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHH
Confidence 34555555543 35654432 23 37888998886553 23468899999999987766667777
Q ss_pred HhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcC---CCc
Q 002135 295 LSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILP---YHG 371 (961)
Q Consensus 295 l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~---~~~ 371 (961)
..+. ..++|+++.+..|-.|..+.|+.++.. .+.+..+..-. ... ...-.-.|+++|...|...--. ...
T Consensus 87 ~l~G-r~r~vwvS~s~dL~~Da~RDl~DIG~~---~i~v~~l~~~~-~~~--~~~~~~GvlF~TYs~L~~~~~~~~~~~s 159 (303)
T PF13872_consen 87 WLRG-RKRAVWVSVSNDLKYDAERDLRDIGAD---NIPVHPLNKFK-YGD--IIRLKEGVLFSTYSTLISESQSGGKYRS 159 (303)
T ss_pred HHcC-CCceEEEECChhhhhHHHHHHHHhCCC---cccceechhhc-cCc--CCCCCCCccchhHHHHHhHHhccCCccc
Confidence 7764 457999999999999999999987543 12222211100 000 0122346999999887543211 112
Q ss_pred hhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhccc-----chHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 372 QFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAF-----GCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 372 ~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~f-----g~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
+....+..+. ..+. .+||+||||...+.. +.........|+..+ ++.+++.+|||-
T Consensus 160 Rl~ql~~W~g------------~dfd--gvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~L-----P~ARvvY~SATg 220 (303)
T PF13872_consen 160 RLDQLVDWCG------------EDFD--GVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRL-----PNARVVYASATG 220 (303)
T ss_pred hHHHHHHHHh------------cCCC--ceEEeccchhcCCCCccCccccHHHHHHHHHHHhC-----CCCcEEEecccc
Confidence 2222222220 0011 699999999987632 245555555666543 345789999997
Q ss_pred C
Q 002135 447 A 447 (961)
Q Consensus 447 ~ 447 (961)
.
T Consensus 221 a 221 (303)
T PF13872_consen 221 A 221 (303)
T ss_pred c
Confidence 5
No 179
>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=97.69 E-value=0.00037 Score=73.37 Aligned_cols=113 Identities=19% Similarity=0.174 Sum_probs=78.7
Q ss_pred CCCCCCcHHHHHHHHHHhC---CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhC
Q 002135 251 TGISKLYSHQAESIMASLA---GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAF 327 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~---G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~ 327 (961)
.++ -+++.|.+....+.+ |+|.+.+.-+|.|||-+ ++|++..+..+...-+.+++| ++|..|..+.+.+.+..+
T Consensus 20 ~~i-liR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsV-I~Pmla~~LAdg~~LvrviVp-k~Ll~q~~~~L~~~lg~l 96 (229)
T PF12340_consen 20 SNI-LIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSV-IVPMLALALADGSRLVRVIVP-KALLEQMRQMLRSRLGGL 96 (229)
T ss_pred cCc-eeeHHHHHHHHHHhCCCCCCCeEeeecccCCccch-HHHHHHHHHcCCCcEEEEEcC-HHHHHHHHHHHHHHHHHH
Confidence 355 589999999998875 68999999999999976 689998888776667777777 579999998887655433
Q ss_pred -CCCccEEEEcCCCcHH--HH---H----HHhcCCcEEEeChhHHHHhh
Q 002135 328 -DASIDIGVYDGDTTQK--DR---M----WLRDNARLLITNPDMLHMSI 366 (961)
Q Consensus 328 -~~~i~v~~~~Gd~~~~--~r---~----~l~~~~~IlItTPe~L~~~l 366 (961)
+..+-..-++-+++.. .. . ...+...|+++||+.+....
T Consensus 97 ~~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf~ 145 (229)
T PF12340_consen 97 LNRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSFK 145 (229)
T ss_pred hCCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHHH
Confidence 3222222233332211 11 1 22345679999999876543
No 180
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=97.66 E-value=0.00017 Score=87.94 Aligned_cols=125 Identities=14% Similarity=0.160 Sum_probs=86.8
Q ss_pred CcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCC--ceE
Q 002135 509 SPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGK--LCG 586 (961)
Q Consensus 509 ~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~--~~v 586 (961)
.+...++-|+..+...|.++|||+.-.+..+.|-.+|.- .+.-...+.|.-+-++|+..+++|..+. ...
T Consensus 1260 GKLQtLAiLLqQLk~eghRvLIfTQMtkmLDVLeqFLny--------HgylY~RLDg~t~vEqRQaLmerFNaD~RIfcf 1331 (1958)
T KOG0391|consen 1260 GKLQTLAILLQQLKSEGHRVLIFTQMTKMLDVLEQFLNY--------HGYLYVRLDGNTSVEQRQALMERFNADRRIFCF 1331 (1958)
T ss_pred chHHHHHHHHHHHHhcCceEEehhHHHHHHHHHHHHHhh--------cceEEEEecCCccHHHHHHHHHHhcCCCceEEE
Confidence 345556777778888888999998877766655544432 2333455667888999999999999764 346
Q ss_pred EEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCC--CceEEEEeeCCc
Q 002135 587 VAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRER--PSLAVYVAFEGP 641 (961)
Q Consensus 587 LVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~--~g~~i~l~~~~~ 641 (961)
|.+|..-+.|||+-+.|.||.||.-++..--.|---|+-|-|+ +-..|-++....
T Consensus 1332 ILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQAQDrChRIGqtRDVHIYRLISe~T 1388 (1958)
T KOG0391|consen 1332 ILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTRDVHIYRLISERT 1388 (1958)
T ss_pred EEeccCCccccccccCceEEEecCCCCchhhhHHHHHHHhhcCccceEEEEeeccch
Confidence 7899999999999999999999999876544444344433333 333444444433
No 181
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=97.57 E-value=0.00025 Score=72.06 Aligned_cols=108 Identities=23% Similarity=0.214 Sum_probs=71.1
Q ss_pred CCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc--ccccccccCC
Q 002135 524 HGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN--ALELGIDVGH 601 (961)
Q Consensus 524 ~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~--aLe~GIDIp~ 601 (961)
.++++|||++|.+..+.+...++..... ..+..+.. ...++..+++.|++++-.+|+|+. .+..|||+++
T Consensus 8 ~~g~~lv~f~Sy~~l~~~~~~~~~~~~~------~~~~v~~q--~~~~~~~~l~~~~~~~~~il~~v~~g~~~EGiD~~~ 79 (167)
T PF13307_consen 8 VPGGVLVFFPSYRRLEKVYERLKERLEE------KGIPVFVQ--GSKSRDELLEEFKRGEGAILLAVAGGSFSEGIDFPG 79 (167)
T ss_dssp CSSEEEEEESSHHHHHHHHTT-TSS-E-------ETSCEEES--TCCHHHHHHHHHCCSSSEEEEEETTSCCGSSS--EC
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHhhccc------ccceeeec--CcchHHHHHHHHHhccCeEEEEEecccEEEeecCCC
Confidence 4579999999999999887766542110 01122332 356788899999999999999999 9999999986
Q ss_pred --ccEEEEeCCCCC-H-----------------------------hhHHHHhccCCCCCCCceEEEEeeC
Q 002135 602 --IDVTLHLGFPGS-I-----------------------------ASLWQQAGRSGRRERPSLAVYVAFE 639 (961)
Q Consensus 602 --vd~VI~~~~P~s-~-----------------------------~sy~QR~GRAGR~g~~g~~i~l~~~ 639 (961)
++.||..++|.. . ....|-+||+=|...+--++++.+.
T Consensus 80 ~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~llD~ 149 (167)
T PF13307_consen 80 DLLRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVIILLDS 149 (167)
T ss_dssp ESEEEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEEEEEESG
T ss_pred chhheeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEEEEEEcC
Confidence 788999998851 1 2246889999998665444555543
No 182
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.50 E-value=0.00031 Score=73.38 Aligned_cols=63 Identities=22% Similarity=0.235 Sum_probs=44.0
Q ss_pred CCcHHHHHHHHHHhCCC--cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHH
Q 002135 255 KLYSHQAESIMASLAGK--NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRA 319 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~--~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~ 319 (961)
+|++-|.+|+..++.+. -.+++++.|+|||.+. -.+...+.. .+.++++++||...+.+..+.
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~-~g~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLL-KALAEALEA-AGKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHH-HHHHHHHHH-TT--EEEEESSHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHH-HHHHHHHHh-CCCeEEEECCcHHHHHHHHHh
Confidence 37889999999997543 4778899999999753 334444444 468999999999887764444
No 183
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.44 E-value=0.007 Score=69.37 Aligned_cols=330 Identities=16% Similarity=0.153 Sum_probs=177.6
Q ss_pred CCCcHHHHHHHHHHhCCCcEEEEecC-Cchh--HHHHHHHHHHHHhcC-----------------------------CCC
Q 002135 254 SKLYSHQAESIMASLAGKNVVVATMT-SSGK--SLCYNLPVLEALSHD-----------------------------LSS 301 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~G~~vIv~apT-GSGK--Tla~~Lpil~~l~~~-----------------------------~~~ 301 (961)
..+++.|.+.+....+-+|++....| +.|+ +-.|.+-++.++.+. ..+
T Consensus 215 ~pltalQ~~L~~~m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~tRp 294 (698)
T KOG2340|consen 215 EPLTALQKELFKIMFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGFTRP 294 (698)
T ss_pred CcchHHHHHHHHHHHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCCCCc
Confidence 46899999999999998998765444 3444 556778888776531 036
Q ss_pred eEEEEcccHHHHHHHHHHHHHhHhhCCCC-c-------cEEEEcCCCc---------HHH-------------------H
Q 002135 302 SALYMFPTKALAQDQLRALLAMTKAFDAS-I-------DIGVYDGDTT---------QKD-------------------R 345 (961)
Q Consensus 302 ~aLvl~PtraLa~qq~~~l~~l~~~~~~~-i-------~v~~~~Gd~~---------~~~-------------------r 345 (961)
++|+++|+|+-|-.+...+..++.+...+ . --+-|.|++. .+- +
T Consensus 295 kVLivvpfRe~A~riVn~lis~l~G~~q~k~~V~Nk~RF~~eys~~te~~~~~~~kP~D~~~lf~GNtDD~FriGl~ftk 374 (698)
T KOG2340|consen 295 KVLIVVPFRESAYRIVNLLISLLSGDDQGKSEVWNKKRFEGEYSGPTELPPPRAKKPEDFEELFSGNTDDAFRIGLAFTK 374 (698)
T ss_pred eEEEEecchHHHHHHHHHHHHHhcCccccchhhhhhhhhchhcCCCcccCCCCCCCchhHHHHhcCCCcchhhhhHHHHH
Confidence 89999999999999999998885433221 0 0223444221 110 0
Q ss_pred H--HHh---cCCcEEEeChhHHHHhhcCC---CchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchH
Q 002135 346 M--WLR---DNARLLITNPDMLHMSILPY---HGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCH 417 (961)
Q Consensus 346 ~--~l~---~~~~IlItTPe~L~~~lL~~---~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~ 417 (961)
+ .+. ...+|+||+|=-|.. ++.+ .++-..+|+++ .++|||-||.|...-..|
T Consensus 375 KtikLys~fy~SDIlVaSPLGLRm-il~n~gdkkrd~dfLSSI-------------------El~iIDQa~~~l~QNwEh 434 (698)
T KOG2340|consen 375 KTIKLYSKFYKSDILVASPLGLRM-ILGNTGDKKRDFDFLSSI-------------------ELLIIDQADIMLMQNWEH 434 (698)
T ss_pred HHHHHHhhhcccCeEEecchhhhh-hhcCCCcccccchhhhhh-------------------hhhhhhhHHHHHHhhHHH
Confidence 1 111 246999999976643 3432 23334556665 999999999998754556
Q ss_pred HHHHHHHHHHHhhcccCCC----------------CcEEEeccCCCChH--HH----HHHHcccCCeEEEecCCCcccee
Q 002135 418 TALILRRLCRLCSHVYGSD----------------PSFVFSTATSANPR--EH----CMELANLSTLELIQNDGSPCAQK 475 (961)
Q Consensus 418 ~~~ilrrL~~~~~~~~~~~----------------~q~I~lSATl~n~~--e~----~~~L~~~~~~~~i~~~g~p~~~~ 475 (961)
+..++..|..+-....+.+ .|.+++|+-. +|. .. +..+.|.-...-+...|+-...
T Consensus 435 l~~ifdHLn~~P~k~h~~DfSRVR~wyL~~qsr~~rQtl~Fs~y~-~~~~nS~fn~~c~N~~Gkv~~~~~~~~gsi~~v- 512 (698)
T KOG2340|consen 435 LLHIFDHLNLQPSKQHDVDFSRVRMWYLDGQSRYFRQTLLFSRYS-HPLFNSLFNQYCQNMAGKVKARNLQSGGSISNV- 512 (698)
T ss_pred HHHHHHHhhcCcccccCCChhheehheeccHHHHHHHHHHHHhhc-cHHHHHHHHHhhhhhcceeeeccccCCCchhhc-
Confidence 6666666643321111111 2444445432 221 11 1111111000000001000000
Q ss_pred EEEEeCCCccccccccccccccchhhhcccCCCCcHHH----HHHHHHHHHHCC-CcEEEEecChHHHHHHHHHHHHHHH
Q 002135 476 LFVLWNPTSCLRSVLNKSQTDMDDTRNAANKTSSPISE----VSYLFAEMVQHG-LRCIAFCRSRKLCELVLSYTREILE 550 (961)
Q Consensus 476 ~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~ll~~l~~~g-~k~IVF~~sr~~ae~l~~~L~~~l~ 550 (961)
.+.-+....+. ... ......... +..++-.+.... ..+|||.++--.--.+-.++++.-
T Consensus 513 --~~~l~Qvf~ri-------~~~------si~~~~D~RFkyFv~~ImPq~~k~t~s~~LiyIPSYfDFVRvRNy~K~e~- 576 (698)
T KOG2340|consen 513 --GIPLCQVFQRI-------EVK------SIIETPDARFKYFVDKIMPQLIKRTESGILIYIPSYFDFVRVRNYMKKEE- 576 (698)
T ss_pred --cchhhhhhhhe-------ecc------CcccCchHHHHHHHHhhchhhcccccCceEEEecchhhHHHHHHHhhhhh-
Confidence 00000000000 000 000011111 122233333322 457999998665555555554421
Q ss_pred hhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecccc--ccccccCCccEEEEeCCCCCH---hhHHHHhccCC
Q 002135 551 ETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNAL--ELGIDVGHIDVTLHLGFPGSI---ASLWQQAGRSG 625 (961)
Q Consensus 551 ~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aL--e~GIDIp~vd~VI~~~~P~s~---~sy~QR~GRAG 625 (961)
+. ...+|---+...-.++-+.|..|...+|+-|--+ =+-.+|.+|..||.|.+|..+ ..++.+.+|+.
T Consensus 577 -----i~--F~~i~EYssk~~vsRAR~lF~qgr~~vlLyTER~hffrR~~ikGVk~vVfYqpP~~P~FYsEiinm~~k~~ 649 (698)
T KOG2340|consen 577 -----IS--FVMINEYSSKSKVSRARELFFQGRKSVLLYTERAHFFRRYHIKGVKNVVFYQPPNNPHFYSEIINMSDKTT 649 (698)
T ss_pred -----cc--hHHHhhhhhHhhhhHHHHHHHhcCceEEEEehhhhhhhhheecceeeEEEecCCCCcHHHHHHHhhhhhhh
Confidence 10 1111222234444556678899999999999743 467889999999999999875 56678888876
Q ss_pred CCC
Q 002135 626 RRE 628 (961)
Q Consensus 626 R~g 628 (961)
-.|
T Consensus 650 ~~g 652 (698)
T KOG2340|consen 650 SQG 652 (698)
T ss_pred ccC
Confidence 554
No 184
>PRK10536 hypothetical protein; Provisional
Probab=97.41 E-value=0.00076 Score=72.39 Aligned_cols=62 Identities=18% Similarity=0.088 Sum_probs=49.6
Q ss_pred CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHH
Q 002135 251 TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKAL 312 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraL 312 (961)
.++...+..|...+.++.++..+++.+|+|+|||+.....+++.+..+.-.++++.-|+...
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ 116 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQA 116 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCc
Confidence 46777888999999999998899999999999999988878877755444556666677543
No 185
>PF13245 AAA_19: Part of AAA domain
Probab=97.38 E-value=0.00059 Score=59.69 Aligned_cols=58 Identities=28% Similarity=0.343 Sum_probs=41.9
Q ss_pred HHHHHhCC-CcEEEEecCCchhHHHHHHHHHHHHh--cCCCCeEEEEcccHHHHHHHHHHH
Q 002135 263 SIMASLAG-KNVVVATMTSSGKSLCYNLPVLEALS--HDLSSSALYMFPTKALAQDQLRAL 320 (961)
Q Consensus 263 ai~~il~G-~~vIv~apTGSGKTla~~Lpil~~l~--~~~~~~aLvl~PtraLa~qq~~~l 320 (961)
|+...+.+ .-++|.+|.|||||....--+...+. ..++.++++++|+++.+++..+++
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 55544444 44666999999999766555555542 223678999999999999888887
No 186
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=97.12 E-value=0.0037 Score=76.94 Aligned_cols=127 Identities=20% Similarity=0.286 Sum_probs=87.6
Q ss_pred CCcHHHHHHHHHHh----CCCcEEEEecCCchhHHHHHHHHHHHHhcCCC--CeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 255 KLYSHQAESIMASL----AGKNVVVATMTSSGKSLCYNLPVLEALSHDLS--SSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~--~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
.|+.+|...++.+. ++-|.|+....|-|||..- +.+|.+|..+.+ +--|||+||.-+.+ +.-+|++||.
T Consensus 615 qLReYQkiGLdWLatLYeknlNGILADEmGLGKTIQt-ISllAhLACeegnWGPHLIVVpTsviLn-WEMElKRwcP--- 689 (1958)
T KOG0391|consen 615 QLREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQT-ISLLAHLACEEGNWGPHLIVVPTSVILN-WEMELKRWCP--- 689 (1958)
T ss_pred HHHHHHHhhHHHHHHHHHhcccceehhhhcccchhHH-HHHHHHHHhcccCCCCceEEeechhhhh-hhHHHhhhCC---
Confidence 47899999998854 4568999999999999753 455555544322 34588999987665 7778888876
Q ss_pred CCccEEEEcCCCcHHH-H--HHHhcC-CcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEE
Q 002135 329 ASIDIGVYDGDTTQKD-R--MWLRDN-ARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVI 404 (961)
Q Consensus 329 ~~i~v~~~~Gd~~~~~-r--~~l~~~-~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVI 404 (961)
++++..|.|...... + .|...+ .++.||+...+...+ ..|+..+| +|+|+
T Consensus 690 -glKILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~qd~--------~AFkrkrW-----------------qyLvL 743 (1958)
T KOG0391|consen 690 -GLKILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQDL--------TAFKRKRW-----------------QYLVL 743 (1958)
T ss_pred -cceEeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHhHH--------HHHHhhcc-----------------ceeeh
Confidence 467889999764321 1 123333 478888887665443 23444433 99999
Q ss_pred ecchhhhc
Q 002135 405 DEAHAYKG 412 (961)
Q Consensus 405 DEaH~~~~ 412 (961)
||||.+.+
T Consensus 744 DEaqnIKn 751 (1958)
T KOG0391|consen 744 DEAQNIKN 751 (1958)
T ss_pred hhhhhhcc
Confidence 99998765
No 187
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=97.06 E-value=0.0031 Score=73.84 Aligned_cols=75 Identities=12% Similarity=0.154 Sum_probs=62.3
Q ss_pred HHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 248 LKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 248 L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
+...|..+|..-|..|+.++++..-.||++|.|+|||.+-.--+++.... ....+|+.+|+.--+.|..+.+.+.
T Consensus 403 ~s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~-~~~~VLvcApSNiAVDqLaeKIh~t 477 (935)
T KOG1802|consen 403 FSVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQ-HAGPVLVCAPSNIAVDQLAEKIHKT 477 (935)
T ss_pred hcCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHh-cCCceEEEcccchhHHHHHHHHHhc
Confidence 34467788999999999999999999999999999998876655555444 5788999999998888888877664
No 188
>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=97.06 E-value=0.0014 Score=73.08 Aligned_cols=102 Identities=17% Similarity=0.127 Sum_probs=69.9
Q ss_pred CcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccE
Q 002135 256 LYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMFPTKALAQDQLRALLAMTKAFDASIDI 333 (961)
Q Consensus 256 l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v 333 (961)
|++-|.+++.. ...+++|.|+.|||||.+..--+...+... +..++|++++|++.+.+...++...+......
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~~~~~--- 75 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEEEQQE--- 75 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHHCCHC---
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCccccc---
Confidence 56789999987 678999999999999998877776666654 35679999999999999999998876543210
Q ss_pred EEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhh
Q 002135 334 GVYDGDTTQKDRMWLRDNARLLITNPDMLHMSI 366 (961)
Q Consensus 334 ~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~l 366 (961)
......-+........+.|.|-+.+...+
T Consensus 76 ----~~~~~~~~~~~~~~~~~~i~T~hsf~~~l 104 (315)
T PF00580_consen 76 ----SSDNERLRRQLSNIDRIYISTFHSFCYRL 104 (315)
T ss_dssp ----CTT-HHHHHHHHHCTTSEEEEHHHHHHHH
T ss_pred ----ccccccccccccccchheeehhhhhhhhh
Confidence 00111222233344678888887765444
No 189
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=96.84 E-value=0.028 Score=66.88 Aligned_cols=110 Identities=14% Similarity=0.031 Sum_probs=77.2
Q ss_pred CCcEEEEecChHHHHHHHHHHHHHHHhhCCc-cc---------ccEEEEcCCCCHHHHHHHHHHHhCC--C-ceEEEecc
Q 002135 525 GLRCIAFCRSRKLCELVLSYTREILEETAPH-LV---------DSICVYRAGYVAEDRRRIERDFFGG--K-LCGVAATN 591 (961)
Q Consensus 525 g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~-l~---------~~v~~~hggls~~eR~~ie~~f~~G--~-~~vLVAT~ 591 (961)
|.++|||..+......+-+.+.+.-...... .+ ..-.-..|.-+..+|++.+++|.+- - ..++++|.
T Consensus 719 g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstr 798 (1387)
T KOG1016|consen 719 GEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTR 798 (1387)
T ss_pred CceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCCceeeeeehhc
Confidence 5578999988777766555544321111111 00 0111235667889999999999853 2 35789999
Q ss_pred ccccccccCCccEEEEeCCCCCHhhHHHHhccCCCCCCCceEE
Q 002135 592 ALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRERPSLAV 634 (961)
Q Consensus 592 aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~~i 634 (961)
+-..||++-+.+-+|.++.-++..--.|.+-|.-|.|+.--|+
T Consensus 799 ag~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~Kpcf 841 (1387)
T KOG1016|consen 799 AGSLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCF 841 (1387)
T ss_pred cccccceeeccceEEEEEeecCccccchhhhhhhhhcCcCcee
Confidence 9999999988888888998888888889888999988765554
No 190
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=96.71 E-value=0.0038 Score=71.31 Aligned_cols=51 Identities=14% Similarity=0.149 Sum_probs=38.3
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
-++|.+..|||||+.++--+........+.+++++++..+|.......+..
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~ 53 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAK 53 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhh
Confidence 478999999999998654443332234577899999999999877777655
No 191
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.61 E-value=0.012 Score=71.14 Aligned_cols=47 Identities=28% Similarity=0.153 Sum_probs=43.9
Q ss_pred CCCceEEEeccccccccccCCccEEEEeCCCCCHhhHHHHhccCCCC
Q 002135 581 GGKLCGVAATNALELGIDVGHIDVTLHLGFPGSIASLWQQAGRSGRR 627 (961)
Q Consensus 581 ~G~~~vLVAT~aLe~GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~ 627 (961)
+..++.|.+-.+|-.|-|=|+|=.+.-....+|..+=+|.+||..|-
T Consensus 481 d~plRFIFS~waLrEGWDNPNVFtIckL~~S~SeiSK~QeVGRGLRL 527 (985)
T COG3587 481 DEPLRFIFSKWALREGWDNPNVFTICKLRSSGSEISKLQEVGRGLRL 527 (985)
T ss_pred CCcceeeeehhHHhhcCCCCCeeEEEEecCCCcchHHHHHhccceee
Confidence 45689999999999999999999999999999999999999999996
No 192
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.43 E-value=0.055 Score=62.29 Aligned_cols=52 Identities=13% Similarity=0.019 Sum_probs=30.2
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhc--CCCCeEEEEc--ccHHHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSH--DLSSSALYMF--PTKALAQDQLRAL 320 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~--~~~~~aLvl~--PtraLa~qq~~~l 320 (961)
.++.+++++|||+|||.+..--+...... ..+.++.+++ +.|.-+.+|.+.+
T Consensus 173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~ 228 (388)
T PRK12723 173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTY 228 (388)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHH
Confidence 34678999999999998764333222211 1234444433 5567777664443
No 193
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=96.34 E-value=0.04 Score=67.15 Aligned_cols=68 Identities=18% Similarity=0.092 Sum_probs=50.1
Q ss_pred CcHHHHHHHHHHhCCCcEEEEecCCchhHHHH--HHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 256 LYSHQAESIMASLAGKNVVVATMTSSGKSLCY--NLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 256 l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~--~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
..++|.+|+...+.++-++|++++|+|||.+. ++..+..+...+..++++.+||.--|....+.+...
T Consensus 153 ~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~ 222 (615)
T PRK10875 153 EVDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKA 222 (615)
T ss_pred CCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhh
Confidence 35899999999999999999999999999764 222232222223457888999998888777666543
No 194
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.13 E-value=0.021 Score=61.90 Aligned_cols=64 Identities=19% Similarity=0.257 Sum_probs=45.4
Q ss_pred ceEEeeecCCcccccccCCccccHHHHHHHH-hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhc
Q 002135 219 QMVHVEDISARKAVLVEIPDALLDNTKSALK-STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSH 297 (961)
Q Consensus 219 ~iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~-~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~ 297 (961)
...-.+.+|...++|.++ ++++.+.+.+. ..|. ++|++|||||||.+ +-.+++.+.+
T Consensus 94 ~a~vlR~Ip~~i~~~e~L--glP~i~~~~~~~~~GL-------------------ILVTGpTGSGKSTT-lAamId~iN~ 151 (353)
T COG2805 94 YALVLRLIPSKIPTLEEL--GLPPIVRELAESPRGL-------------------ILVTGPTGSGKSTT-LAAMIDYINK 151 (353)
T ss_pred cEEEEeccCccCCCHHHc--CCCHHHHHHHhCCCce-------------------EEEeCCCCCcHHHH-HHHHHHHHhc
Confidence 345678899999999998 68877766443 2333 88999999999876 3456677766
Q ss_pred CCCCeEE
Q 002135 298 DLSSSAL 304 (961)
Q Consensus 298 ~~~~~aL 304 (961)
+....+|
T Consensus 152 ~~~~HIl 158 (353)
T COG2805 152 HKAKHIL 158 (353)
T ss_pred cCCcceE
Confidence 5444444
No 195
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=96.10 E-value=0.025 Score=68.82 Aligned_cols=39 Identities=26% Similarity=0.288 Sum_probs=32.2
Q ss_pred CCcHHHHHHHHHHh----CCCcEEEEecCCchhHHHHHHHHHH
Q 002135 255 KLYSHQAESIMASL----AGKNVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla~~Lpil~ 293 (961)
+||+.|...+..++ ...|.++..|||+|||++.+-..+.
T Consensus 21 qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LA 63 (945)
T KOG1132|consen 21 QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLA 63 (945)
T ss_pred CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHH
Confidence 68999998887765 4578999999999999987765553
No 196
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=96.09 E-value=0.058 Score=65.57 Aligned_cols=65 Identities=17% Similarity=0.075 Sum_probs=47.7
Q ss_pred HHHHHHHHHHhCCCcEEEEecCCchhHHHH--HHHHHHHHhcC-CCCeEEEEcccHHHHHHHHHHHHH
Q 002135 258 SHQAESIMASLAGKNVVVATMTSSGKSLCY--NLPVLEALSHD-LSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 258 ~~Q~~ai~~il~G~~vIv~apTGSGKTla~--~Lpil~~l~~~-~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
+.|++|+..++.++-++|+++.|+|||.+. ++.++...... .+.++++.+||-.-|....+.+..
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~ 215 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRK 215 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHh
Confidence 799999999999999999999999999763 22223222211 125789999998877766665544
No 197
>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=95.98 E-value=0.032 Score=64.13 Aligned_cols=60 Identities=22% Similarity=0.187 Sum_probs=44.9
Q ss_pred CCcHHHHHHHHHH------hCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHH
Q 002135 255 KLYSHQAESIMAS------LAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQ 316 (961)
Q Consensus 255 ~l~~~Q~~ai~~i------l~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq 316 (961)
+|.+-|.+++..+ ..+.++.+.++-|+|||.. +-.+....+..+..+++++||-.-|...
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l--~~~i~~~~~~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFL--IKAIIDYLRSRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHH--HHHHHHHhccccceEEEecchHHHHHhc
Confidence 3677899998887 6788999999999999964 4344444444567899999997655543
No 198
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.81 E-value=0.055 Score=51.93 Aligned_cols=23 Identities=17% Similarity=0.187 Sum_probs=14.5
Q ss_pred CCCcEEEEecCCchhHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPV 291 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpi 291 (961)
+++.++|.+++|+|||....--+
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~ 25 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLA 25 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHH
T ss_pred CCcccEEEcCCCCCHHHHHHHHH
Confidence 45679999999999998754433
No 199
>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=95.75 E-value=0.12 Score=64.44 Aligned_cols=63 Identities=16% Similarity=0.091 Sum_probs=47.5
Q ss_pred hCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCC-CCeEEEEcccHHHHH
Q 002135 250 STGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDL-SSSALYMFPTKALAQ 314 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~-~~~aLvl~PtraLa~ 314 (961)
..++ .+++-|.+|+..+..++-++++++.|+|||.+. -.+++.+.... ...+++++||-.-|.
T Consensus 319 ~~~~-~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l-~~i~~~~~~~~~~~~v~l~ApTg~AA~ 382 (720)
T TIGR01448 319 KLRK-GLSEEQKQALDTAIQHKVVILTGGPGTGKTTIT-RAIIELAEELGGLLPVGLAAPTGRAAK 382 (720)
T ss_pred hcCC-CCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHH-HHHHHHHHHcCCCceEEEEeCchHHHH
Confidence 3555 799999999999999899999999999999754 23334333321 157888999987665
No 200
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=95.53 E-value=0.046 Score=60.73 Aligned_cols=66 Identities=20% Similarity=0.149 Sum_probs=51.5
Q ss_pred hCCCCCCcHHHHHHHHHHhCCC--cEEEEecCCchhHHHHHHHHHHHHhcCC-CCeEEEEcccHHHHHH
Q 002135 250 STGISKLYSHQAESIMASLAGK--NVVVATMTSSGKSLCYNLPVLEALSHDL-SSSALYMFPTKALAQD 315 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~il~G~--~vIv~apTGSGKTla~~Lpil~~l~~~~-~~~aLvl~PtraLa~q 315 (961)
.+|++.....|.-|+..++... =|.+.++.|||||+-++-+.++.....+ -.++++.=|+..+.+|
T Consensus 223 vwGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~d 291 (436)
T COG1875 223 VWGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGED 291 (436)
T ss_pred hhccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccc
Confidence 4799888889999999998764 4778899999999999988887766543 4567777788766554
No 201
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=95.50 E-value=0.074 Score=51.15 Aligned_cols=18 Identities=22% Similarity=0.250 Sum_probs=15.7
Q ss_pred CCcEEEEecCCchhHHHH
Q 002135 270 GKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~ 287 (961)
++.+++.+|+|+|||...
T Consensus 19 ~~~v~i~G~~G~GKT~l~ 36 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLA 36 (151)
T ss_pred CCeEEEECCCCCCHHHHH
Confidence 678999999999999644
No 202
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=95.47 E-value=0.097 Score=66.80 Aligned_cols=61 Identities=21% Similarity=0.156 Sum_probs=46.3
Q ss_pred CCCCCCcHHHHHHHHHHhCCC-cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 251 TGISKLYSHQAESIMASLAGK-NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~il~G~-~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
.|+ .|++-|.+|+..++.++ -++++++.|+|||.+ +-++..+.+..+.+++.++||---|.
T Consensus 343 ~g~-~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~--l~~~~~~~e~~G~~V~~~ApTGkAA~ 404 (988)
T PRK13889 343 RGL-VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAM--LGVAREAWEAAGYEVRGAALSGIAAE 404 (988)
T ss_pred cCC-CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHH--HHHHHHHHHHcCCeEEEecCcHHHHH
Confidence 455 69999999999999865 478999999999975 33333333345778999999976554
No 203
>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=95.43 E-value=0.93 Score=62.64 Aligned_cols=61 Identities=10% Similarity=0.145 Sum_probs=46.3
Q ss_pred CCcHHHHHHHHHHhCC--CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHH
Q 002135 255 KLYSHQAESIMASLAG--KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQL 317 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G--~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~ 317 (961)
.|.+-|.+|+..++.. +-.+|+++.|+|||.+ +-.+..+.+..+.+++.++||-.-++...
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~--l~~l~~~~~~~G~~V~~lAPTgrAA~~L~ 491 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEI--AQLLLHLASEQGYEIQIITAGSLSAQELR 491 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHH--HHHHHHHHHhcCCeEEEEeCCHHHHHHHH
Confidence 5889999999998875 5688999999999975 33333444455789999999987555443
No 204
>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=95.31 E-value=0.051 Score=66.84 Aligned_cols=66 Identities=15% Similarity=0.178 Sum_probs=53.2
Q ss_pred CCcHHHHHHHHHHhCC-CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 255 KLYSHQAESIMASLAG-KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G-~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
.+.+.|.+|+..++.. ..++|.+|+|+|||.+..--+.+.+.. +.++|+++||..-+.+..+++..
T Consensus 157 ~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~--g~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 157 NLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKR--GLRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEEcCcHHHHHHHHHHHHh
Confidence 6889999999998876 678999999999997654434443433 56899999999999988888865
No 205
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=95.28 E-value=0.033 Score=69.12 Aligned_cols=83 Identities=11% Similarity=0.045 Sum_probs=61.6
Q ss_pred CCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhc-C-CCCeEEEEcccHHHHHHHHHHHHHhHhhC-CCCc
Q 002135 255 KLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSH-D-LSSSALYMFPTKALAQDQLRALLAMTKAF-DASI 331 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~-~-~~~~aLvl~PtraLa~qq~~~l~~l~~~~-~~~i 331 (961)
.|++-|.+|+.. ...+++|.|+.|||||.+..--+...+.. + +..++|+|+.|+..|++..+++.++.... ...+
T Consensus 2 ~Ln~~Q~~av~~--~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~~~v 79 (672)
T PRK10919 2 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARGL 79 (672)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcccccCc
Confidence 478999999875 35688999999999999876666665543 2 34579999999999999999998765421 2235
Q ss_pred cEEEEcCC
Q 002135 332 DIGVYDGD 339 (961)
Q Consensus 332 ~v~~~~Gd 339 (961)
.++++|+-
T Consensus 80 ~i~TfHS~ 87 (672)
T PRK10919 80 MISTFHTL 87 (672)
T ss_pred EEEcHHHH
Confidence 56666553
No 206
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=95.24 E-value=0.033 Score=69.85 Aligned_cols=83 Identities=22% Similarity=0.202 Sum_probs=61.9
Q ss_pred CCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCc
Q 002135 254 SKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMFPTKALAQDQLRALLAMTKAFDASI 331 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i 331 (961)
..|++-|.+|+.. ...+++|.|+.|||||.+..--+...+... +..++|+|+.|+..|++..+++.++.......+
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~~~~~~ 80 (715)
T TIGR01075 3 DGLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTSARGM 80 (715)
T ss_pred cccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcccccCc
Confidence 4689999999875 356899999999999988655555555432 345799999999999999999988765322235
Q ss_pred cEEEEcC
Q 002135 332 DIGVYDG 338 (961)
Q Consensus 332 ~v~~~~G 338 (961)
.++++|+
T Consensus 81 ~i~TfHs 87 (715)
T TIGR01075 81 WIGTFHG 87 (715)
T ss_pred EEEcHHH
Confidence 5666554
No 207
>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=95.21 E-value=0.16 Score=63.84 Aligned_cols=59 Identities=15% Similarity=0.070 Sum_probs=44.4
Q ss_pred CCcHHHHHHHHHHhCC-CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHH
Q 002135 255 KLYSHQAESIMASLAG-KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQD 315 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G-~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~q 315 (961)
.|++-|.+|+..++.+ +-++++++.|+|||... -.+..+.+..+.++++++||---++.
T Consensus 352 ~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll--~~i~~~~~~~g~~V~~~ApTg~Aa~~ 411 (744)
T TIGR02768 352 RLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTML--KAAREAWEAAGYRVIGAALSGKAAEG 411 (744)
T ss_pred CCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHH--HHHHHHHHhCCCeEEEEeCcHHHHHH
Confidence 5899999999998874 66899999999999653 23333333347789999999765543
No 208
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=95.09 E-value=0.043 Score=68.79 Aligned_cols=84 Identities=17% Similarity=0.149 Sum_probs=62.3
Q ss_pred CCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCc
Q 002135 254 SKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMFPTKALAQDQLRALLAMTKAFDASI 331 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i 331 (961)
..|++-|.+|+.. ...+++|.|+.|||||.+..--+...+... +..++|+|+-|+..|.+..+++.++.......+
T Consensus 8 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~~~~~ 85 (721)
T PRK11773 8 DSLNDKQREAVAA--PLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQGGM 85 (721)
T ss_pred HhcCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccCCCCC
Confidence 3589999999874 346899999999999988655555544321 345799999999999999999988765322235
Q ss_pred cEEEEcCC
Q 002135 332 DIGVYDGD 339 (961)
Q Consensus 332 ~v~~~~Gd 339 (961)
.++++|+-
T Consensus 86 ~i~TfHs~ 93 (721)
T PRK11773 86 WVGTFHGL 93 (721)
T ss_pred EEEcHHHH
Confidence 56666553
No 209
>PHA02533 17 large terminase protein; Provisional
Probab=94.83 E-value=0.26 Score=59.34 Aligned_cols=73 Identities=8% Similarity=0.051 Sum_probs=59.2
Q ss_pred CCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhC
Q 002135 255 KLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAF 327 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~ 327 (961)
.|.|+|.+.+..+..++-.++..+=..|||.+....++......++..+++++|++.-|+..++.++.+...+
T Consensus 59 ~L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik~~ie~~ 131 (534)
T PHA02533 59 QMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTKQAIELL 131 (534)
T ss_pred CCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHHHHhC
Confidence 5889999999888767777899999999999877555544444567799999999999999998888766544
No 210
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=94.76 E-value=0.21 Score=49.22 Aligned_cols=76 Identities=18% Similarity=0.188 Sum_probs=53.4
Q ss_pred EEcCCCCHHHHHHHHHHHhCCC-ceEEEeccccccccccCC--ccEEEEeCCCCC-------------------------
Q 002135 562 VYRAGYVAEDRRRIERDFFGGK-LCGVAATNALELGIDVGH--IDVTLHLGFPGS------------------------- 613 (961)
Q Consensus 562 ~~hggls~~eR~~ie~~f~~G~-~~vLVAT~aLe~GIDIp~--vd~VI~~~~P~s------------------------- 613 (961)
.+.-+....+...+++.|++.. ..||++|..+.+|||+++ ++.||..++|..
T Consensus 26 i~~e~~~~~~~~~~l~~f~~~~~~~iL~~~~~~~EGiD~~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~ 105 (141)
T smart00492 26 LLVQGEDGKETGKLLEKYVEACENAILLATARFSEGVDFPGDYLRAVIIDGLPFPYPDSPILKARLELLRDKGQIRPFDF 105 (141)
T ss_pred EEEeCCChhHHHHHHHHHHHcCCCEEEEEccceecceecCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhCCCCchhH
Confidence 3344455556788888888654 379999988999999987 578998887741
Q ss_pred ------HhhHHHHhccCCCCCCCceEEEEe
Q 002135 614 ------IASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 614 ------~~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
+..+.|-+||+=|...+--++++.
T Consensus 106 ~~~~~a~~~l~Qa~GR~iR~~~D~g~i~l~ 135 (141)
T smart00492 106 VSLPDAMRTLAQCVGRLIRGANDYGVVVIA 135 (141)
T ss_pred HHHHHHHHHHHHHhCccccCcCceEEEEEE
Confidence 133568889998885543344444
No 211
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=94.75 E-value=0.17 Score=55.46 Aligned_cols=55 Identities=15% Similarity=0.112 Sum_probs=33.5
Q ss_pred HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 267 SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
+..|.-+++.+++|+|||....--+..... ..+.+++|++- -.-..+..+++...
T Consensus 27 ~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~-~~g~~vl~iS~-E~~~~~~~~r~~~~ 81 (271)
T cd01122 27 LRKGELIILTAGTGVGKTTFLREYALDLIT-QHGVRVGTISL-EEPVVRTARRLLGQ 81 (271)
T ss_pred EcCCcEEEEEcCCCCCHHHHHHHHHHHHHH-hcCceEEEEEc-ccCHHHHHHHHHHH
Confidence 456788999999999999754443443332 23567888763 22234444454443
No 212
>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=94.69 E-value=0.62 Score=45.93 Aligned_cols=38 Identities=18% Similarity=0.163 Sum_probs=25.1
Q ss_pred EEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKAL 312 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraL 312 (961)
+++.+++|+|||.....-+..... .+..++|+..-..+
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~e~~~ 39 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIAT--KGGKVVYVDIEEEI 39 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHh--cCCEEEEEECCcch
Confidence 689999999999865444333322 35677777765443
No 213
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=94.67 E-value=0.18 Score=62.81 Aligned_cols=84 Identities=15% Similarity=0.232 Sum_probs=70.9
Q ss_pred HHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccc-ccccccc
Q 002135 521 MVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNA-LELGIDV 599 (961)
Q Consensus 521 l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~a-Le~GIDI 599 (961)
....|.++++.++|+.-|+..++.+++.+.. .+..+..+||+.+..+|+++.+.+.+|+..|+|+|.+ +...+.+
T Consensus 306 ~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~----~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~v~~ 381 (681)
T PRK10917 306 AIEAGYQAALMAPTEILAEQHYENLKKLLEP----LGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDDVEF 381 (681)
T ss_pred HHHcCCeEEEEeccHHHHHHHHHHHHHHHhh----cCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcccchh
Confidence 3457889999999999999999888876543 3457899999999999999999999999999999985 4556778
Q ss_pred CCccEEEEe
Q 002135 600 GHIDVTLHL 608 (961)
Q Consensus 600 p~vd~VI~~ 608 (961)
.++++||.-
T Consensus 382 ~~l~lvVID 390 (681)
T PRK10917 382 HNLGLVIID 390 (681)
T ss_pred cccceEEEe
Confidence 899988844
No 214
>PRK11054 helD DNA helicase IV; Provisional
Probab=94.60 E-value=0.12 Score=64.06 Aligned_cols=75 Identities=15% Similarity=0.094 Sum_probs=55.6
Q ss_pred HHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 247 ALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 247 ~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
.+....-..|++-|.+|+.. ...+++|.|+.|||||.+..--+...+... .+.++|+++.|+..|+...+++...
T Consensus 188 ~f~~~e~~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~ 264 (684)
T PRK11054 188 FFSQVESSPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRER 264 (684)
T ss_pred HHHhccCCCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHh
Confidence 33333445799999999863 346789999999999988655544444332 2458999999999999988888764
No 215
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=94.46 E-value=0.083 Score=62.19 Aligned_cols=66 Identities=14% Similarity=0.194 Sum_probs=55.2
Q ss_pred CCCcHHHHHHHHHHhCCC-cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHH
Q 002135 254 SKLYSHQAESIMASLAGK-NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALL 321 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~G~-~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~ 321 (961)
+.+.+-|.+|+....+.+ -.++.+|+|+|||.+...-+.+.+.+ +.++|+..||.+-...+.+++.
T Consensus 184 ~~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~--~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 184 KNLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVKQ--KKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred ccccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHHc--CCeEEEEcCchHHHHHHHHHhc
Confidence 357888999999988875 57899999999999877766666665 6899999999998888888765
No 216
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=94.38 E-value=0.084 Score=65.73 Aligned_cols=83 Identities=13% Similarity=0.058 Sum_probs=61.7
Q ss_pred CCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEcccHHHHHHHHHHHHHhHhhC-CCCc
Q 002135 255 KLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMFPTKALAQDQLRALLAMTKAF-DASI 331 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~PtraLa~qq~~~l~~l~~~~-~~~i 331 (961)
.|++-|.+|+.. ...+++|.|+.|||||.+-.--+...+... +..++|+|+.|+..|.+..+++.+..... ...+
T Consensus 1 ~Ln~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~~~~~v 78 (664)
T TIGR01074 1 KLNPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEARGL 78 (664)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCccccCCe
Confidence 378889999875 456899999999999998776666666432 34679999999999999999998765422 2235
Q ss_pred cEEEEcCC
Q 002135 332 DIGVYDGD 339 (961)
Q Consensus 332 ~v~~~~Gd 339 (961)
.+.++++-
T Consensus 79 ~v~TfHs~ 86 (664)
T TIGR01074 79 TISTFHTL 86 (664)
T ss_pred EEEeHHHH
Confidence 56666554
No 217
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=94.33 E-value=0.083 Score=66.44 Aligned_cols=84 Identities=13% Similarity=0.145 Sum_probs=62.7
Q ss_pred CCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCc
Q 002135 254 SKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMFPTKALAQDQLRALLAMTKAFDASI 331 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i 331 (961)
..|++-|.+|+.. ...+++|.|+.|||||.+..--+...+.+. +..++|+++-|+..|....+++.+++......+
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~~~~~ 80 (726)
T TIGR01073 3 AHLNPEQREAVKT--TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVAEDI 80 (726)
T ss_pred cccCHHHHHHHhC--CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhccccCCc
Confidence 4689999999975 356899999999999988766666655432 235799999999999999999987754322235
Q ss_pred cEEEEcCC
Q 002135 332 DIGVYDGD 339 (961)
Q Consensus 332 ~v~~~~Gd 339 (961)
.++++|+-
T Consensus 81 ~i~TFHs~ 88 (726)
T TIGR01073 81 WISTFHSM 88 (726)
T ss_pred EEEcHHHH
Confidence 56655543
No 218
>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=94.30 E-value=0.11 Score=62.85 Aligned_cols=138 Identities=21% Similarity=0.188 Sum_probs=85.9
Q ss_pred CCcHHHHHHHHHHhCC--CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHH-HHHHHhHhhCCCCc
Q 002135 255 KLYSHQAESIMASLAG--KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQL-RALLAMTKAFDASI 331 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G--~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~-~~l~~l~~~~~~~i 331 (961)
..+|+|.+.++++... +.|+++.++-+|||.+.+..+...+..+ ...+|++.||..+|++.. .++..+.+.... +
T Consensus 16 ~~~Py~~eimd~~~~~~v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~-P~~~l~v~Pt~~~a~~~~~~rl~Pmi~~sp~-l 93 (557)
T PF05876_consen 16 DRTPYLREIMDALSDPSVREVVVMKSAQVGKTELLLNWIGYSIDQD-PGPMLYVQPTDDAAKDFSKERLDPMIRASPV-L 93 (557)
T ss_pred CCChhHHHHHHhcCCcCccEEEEEEcchhhHhHHHHhhceEEEEeC-CCCEEEEEEcHHHHHHHHHHHHHHHHHhCHH-H
Confidence 6789999999987754 5899999999999996554444444444 467899999999999877 556665543321 1
Q ss_pred cEEEE-----cCCCcHHHHHHHhcCCcEEEeC---hhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEE
Q 002135 332 DIGVY-----DGDTTQKDRMWLRDNARLLITN---PDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVV 403 (961)
Q Consensus 332 ~v~~~-----~Gd~~~~~r~~l~~~~~IlItT---Pe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VV 403 (961)
+-.+. .++..... .... +..+.++. |..| ++. .+++++
T Consensus 94 ~~~~~~~~~~~~~~t~~~-k~f~-gg~l~~~ga~S~~~l---------------~s~-----------------~~r~~~ 139 (557)
T PF05876_consen 94 RRKLSPSKSRDSGNTILY-KRFP-GGFLYLVGANSPSNL---------------RSR-----------------PARYLL 139 (557)
T ss_pred HHHhCchhhcccCCchhh-eecC-CCEEEEEeCCCCccc---------------ccC-----------------CcCEEE
Confidence 10000 11111111 1111 33333332 3222 121 239999
Q ss_pred Eecchhhhc---ccchHHHHHHHHHHHH
Q 002135 404 IDEAHAYKG---AFGCHTALILRRLCRL 428 (961)
Q Consensus 404 IDEaH~~~~---~fg~~~~~ilrrL~~~ 428 (961)
+||++.+-. +-|..+.....|....
T Consensus 140 ~DEvD~~p~~~~~eGdp~~la~~R~~tf 167 (557)
T PF05876_consen 140 LDEVDRYPDDVGGEGDPVELAEKRTKTF 167 (557)
T ss_pred EechhhccccCccCCCHHHHHHHHHhhh
Confidence 999999943 4688888887777643
No 219
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=94.25 E-value=0.11 Score=63.98 Aligned_cols=89 Identities=18% Similarity=0.277 Sum_probs=59.4
Q ss_pred cccccccC-CccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCc-EEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEE
Q 002135 229 RKAVLVEI-PDALLDNTKSALKSTGISKLYSHQAESIMASLAGKN-VVVATMTSSGKSLCYNLPVLEALSHDLSSSALYM 306 (961)
Q Consensus 229 ~~~~f~~l-~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~-vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl 306 (961)
+++.|.+. ...+.|.+.+. -...|..-|.+|+..++..+| .+|.+-+|+|||......+- ++-..+.++|..
T Consensus 646 ~pP~f~~~~~~~~~p~~~~~----~~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIk--iL~~~gkkVLLt 719 (1100)
T KOG1805|consen 646 KPPKFVDALSKVLIPKIKKI----ILLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIK--ILVALGKKVLLT 719 (1100)
T ss_pred CCchhhcccccccCchhhHH----HHhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHH--HHHHcCCeEEEE
Confidence 34445442 22355554442 234688899999999887664 78889999999976433222 222347889999
Q ss_pred cccHHHHHHHHHHHHHh
Q 002135 307 FPTKALAQDQLRALLAM 323 (961)
Q Consensus 307 ~PtraLa~qq~~~l~~l 323 (961)
+-|..-+..+.-+|+..
T Consensus 720 syThsAVDNILiKL~~~ 736 (1100)
T KOG1805|consen 720 SYTHSAVDNILIKLKGF 736 (1100)
T ss_pred ehhhHHHHHHHHHHhcc
Confidence 99988777777777664
No 220
>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=94.14 E-value=0.31 Score=58.43 Aligned_cols=92 Identities=9% Similarity=0.080 Sum_probs=72.6
Q ss_pred cHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEe
Q 002135 510 PISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAA 589 (961)
Q Consensus 510 ~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVA 589 (961)
+......++......|.++|+.++++..+..+++.+++.+ +..+..+||+++..+|.++..+..+|+.+|+|+
T Consensus 10 KT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f-------~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVG 82 (505)
T TIGR00595 10 KTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRF-------GSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIG 82 (505)
T ss_pred HHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHh-------CCcEEEEECCCCHHHHHHHHHHHHcCCCCEEEC
Confidence 3333445566667788899999999999999988887643 236889999999999999999999999999999
Q ss_pred ccccccccccCCccEEEEeC
Q 002135 590 TNALELGIDVGHIDVTLHLG 609 (961)
Q Consensus 590 T~aLe~GIDIp~vd~VI~~~ 609 (961)
|...- =..+.++++||.-+
T Consensus 83 Trsal-f~p~~~l~lIIVDE 101 (505)
T TIGR00595 83 TRSAL-FLPFKNLGLIIVDE 101 (505)
T ss_pred ChHHH-cCcccCCCEEEEEC
Confidence 98533 24577888888544
No 221
>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=94.06 E-value=1.2 Score=46.48 Aligned_cols=50 Identities=12% Similarity=0.067 Sum_probs=30.7
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHHHHh
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRALLAM 323 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l~~l 323 (961)
-+++++|||+|||.+..=-+.....+ +.++.+++ ..|.=|.+|.+.+.+.
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~ 54 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEI 54 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHH
Confidence 36789999999998754333333333 44443333 5677788777776554
No 222
>PRK08181 transposase; Validated
Probab=93.96 E-value=0.83 Score=50.12 Aligned_cols=46 Identities=22% Similarity=0.151 Sum_probs=28.5
Q ss_pred HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHH
Q 002135 267 SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQD 315 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~q 315 (961)
+-.++++++++|+|+|||.....-+.+.+. .+..++|+. ..+|..+
T Consensus 103 ~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~--~g~~v~f~~-~~~L~~~ 148 (269)
T PRK08181 103 LAKGANLLLFGPPGGGKSHLAAAIGLALIE--NGWRVLFTR-TTDLVQK 148 (269)
T ss_pred HhcCceEEEEecCCCcHHHHHHHHHHHHHH--cCCceeeee-HHHHHHH
Confidence 347789999999999999654433333332 255566554 3444443
No 223
>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=93.96 E-value=0.34 Score=53.39 Aligned_cols=43 Identities=23% Similarity=0.194 Sum_probs=30.7
Q ss_pred eeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 399 IRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 399 i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
++++||||+|.+..+....-..++..|+.++..+ +..+|+. .|
T Consensus 146 vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL---~ipiV~v-Gt 188 (302)
T PF05621_consen 146 VRMLIIDEFHNLLAGSYRKQREFLNALKFLGNEL---QIPIVGV-GT 188 (302)
T ss_pred CcEEEeechHHHhcccHHHHHHHHHHHHHHhhcc---CCCeEEe-cc
Confidence 4999999999987656666677778888776442 4556653 45
No 224
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=93.93 E-value=0.42 Score=56.58 Aligned_cols=43 Identities=9% Similarity=0.098 Sum_probs=27.4
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
..+++.+|+|+|||.....-+-+.....++.+++|+.. ..+..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~-~~~~~ 191 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS-EKFTN 191 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH-HHHHH
Confidence 45899999999999865443333333334667777743 34443
No 225
>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=93.87 E-value=0.77 Score=48.82 Aligned_cols=36 Identities=8% Similarity=0.112 Sum_probs=23.1
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHh-cCCCCeEEEEcc
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALS-HDLSSSALYMFP 308 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~-~~~~~~aLvl~P 308 (961)
.+++.+|+|+|||-- +-.+...+. ..++.+++|+..
T Consensus 36 ~l~l~G~~G~GKTHL-L~Ai~~~~~~~~~~~~v~y~~~ 72 (219)
T PF00308_consen 36 PLFLYGPSGLGKTHL-LQAIANEAQKQHPGKRVVYLSA 72 (219)
T ss_dssp EEEEEESTTSSHHHH-HHHHHHHHHHHCTTS-EEEEEH
T ss_pred ceEEECCCCCCHHHH-HHHHHHHHHhccccccceeecH
Confidence 489999999999983 233333333 345667777653
No 226
>PRK14873 primosome assembly protein PriA; Provisional
Probab=93.84 E-value=0.45 Score=58.73 Aligned_cols=94 Identities=15% Similarity=0.128 Sum_probs=78.1
Q ss_pred CcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEE
Q 002135 509 SPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVA 588 (961)
Q Consensus 509 ~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLV 588 (961)
.+......++...+..|+++||.++....+..+.+.|++.+. ...+..+|+++++.+|.+...+..+|+.+|+|
T Consensus 172 GKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~------~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IVi 245 (665)
T PRK14873 172 DWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLG------AGDVAVLSAGLGPADRYRRWLAVLRGQARVVV 245 (665)
T ss_pred cHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcC------CCcEEEECCCCCHHHHHHHHHHHhCCCCcEEE
Confidence 555666778888888999999999999999999988877542 14688999999999999999999999999999
Q ss_pred eccccccccccCCccEEEEeC
Q 002135 589 ATNALELGIDVGHIDVTLHLG 609 (961)
Q Consensus 589 AT~aLe~GIDIp~vd~VI~~~ 609 (961)
.|-.+ .=.=++++.+||..+
T Consensus 246 GtRSA-vFaP~~~LgLIIvdE 265 (665)
T PRK14873 246 GTRSA-VFAPVEDLGLVAIWD 265 (665)
T ss_pred Eccee-EEeccCCCCEEEEEc
Confidence 99863 345567788888654
No 227
>PRK05580 primosome assembly protein PriA; Validated
Probab=93.84 E-value=0.41 Score=59.62 Aligned_cols=88 Identities=14% Similarity=0.104 Sum_probs=70.8
Q ss_pred HHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecccc
Q 002135 514 VSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNAL 593 (961)
Q Consensus 514 ~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aL 593 (961)
...++......|.++||.++++..+..+.+.+++.+ +..+..+||+++..+|.++..++.+|+.+|+|+|...
T Consensus 179 ~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~f-------g~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsa 251 (679)
T PRK05580 179 YLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARF-------GAPVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSA 251 (679)
T ss_pred HHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHh-------CCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHH
Confidence 334455556678899999999999999988887643 2468899999999999999999999999999999843
Q ss_pred ccccccCCccEEEEeC
Q 002135 594 ELGIDVGHIDVTLHLG 609 (961)
Q Consensus 594 e~GIDIp~vd~VI~~~ 609 (961)
- -+.+.++.+||.-+
T Consensus 252 l-~~p~~~l~liVvDE 266 (679)
T PRK05580 252 L-FLPFKNLGLIIVDE 266 (679)
T ss_pred h-cccccCCCEEEEEC
Confidence 2 25677888888554
No 228
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=93.71 E-value=0.37 Score=62.14 Aligned_cols=59 Identities=14% Similarity=0.048 Sum_probs=44.2
Q ss_pred CCcHHHHHHHHHHhC-CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHH
Q 002135 255 KLYSHQAESIMASLA-GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQD 315 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~-G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~q 315 (961)
.|++-|.+|+..+.. ++-++++++-|+|||.+.- ++.+ +.+..+.+++.++||-.-|..
T Consensus 381 ~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~-~~~~-~~e~~G~~V~g~ApTgkAA~~ 440 (1102)
T PRK13826 381 RLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMK-AARE-AWEAAGYRVVGGALAGKAAEG 440 (1102)
T ss_pred CCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHH-HHHH-HHHHcCCeEEEEcCcHHHHHH
Confidence 699999999998864 4568899999999997532 3333 333457789999999765543
No 229
>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=93.59 E-value=0.36 Score=56.14 Aligned_cols=57 Identities=12% Similarity=0.190 Sum_probs=45.7
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcC-CCCeEEEEcccHH-HHHHHHHHHHHhHhhCC
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHD-LSSSALYMFPTKA-LAQDQLRALLAMTKAFD 328 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~-~~~~aLvl~Ptra-La~qq~~~l~~l~~~~~ 328 (961)
-.++.++.|||||.+..+-++..+... ++.+++++-|+.. |..-.+..+......++
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i~~~g 61 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLLSIEG 61 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHHHHcC
Confidence 367889999999999988888777775 6788999999876 66667777777666554
No 230
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=93.58 E-value=0.15 Score=48.34 Aligned_cols=43 Identities=19% Similarity=0.254 Sum_probs=26.7
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
+..+++.+|+|+|||.....-+.. +. .....++++.+......
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~-~~-~~~~~~~~~~~~~~~~~ 44 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARE-LG-PPGGGVIYIDGEDILEE 44 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhc-cC-CCCCCEEEECCEEcccc
Confidence 578999999999999865432222 21 11235777777654433
No 231
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=93.57 E-value=0.38 Score=59.44 Aligned_cols=85 Identities=14% Similarity=0.230 Sum_probs=70.3
Q ss_pred HHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecccc-ccccc
Q 002135 520 EMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNAL-ELGID 598 (961)
Q Consensus 520 ~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aL-e~GID 598 (961)
....+|.++++-++|+.-|+..++.+++.+.. .+.++..++|+++..+|+.+.+.+.+|+..++|+|..+ ...++
T Consensus 279 ~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~----~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~~~~ 354 (630)
T TIGR00643 279 AAIEAGYQVALMAPTEILAEQHYNSLRNLLAP----LGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEKVE 354 (630)
T ss_pred HHHHcCCcEEEECCHHHHHHHHHHHHHHHhcc----cCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhcccc
Confidence 34457889999999999999999888775543 34578999999999999999999999999999999954 44577
Q ss_pred cCCccEEEEe
Q 002135 599 VGHIDVTLHL 608 (961)
Q Consensus 599 Ip~vd~VI~~ 608 (961)
+.++.+||.-
T Consensus 355 ~~~l~lvVID 364 (630)
T TIGR00643 355 FKRLALVIID 364 (630)
T ss_pred ccccceEEEe
Confidence 7888888843
No 232
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=93.52 E-value=0.49 Score=46.73 Aligned_cols=68 Identities=18% Similarity=0.156 Sum_probs=47.8
Q ss_pred HHHHHHHHHHhCCCc---eEEEeccc--cccccccCC--ccEEEEeCCCCC----H------------------------
Q 002135 570 EDRRRIERDFFGGKL---CGVAATNA--LELGIDVGH--IDVTLHLGFPGS----I------------------------ 614 (961)
Q Consensus 570 ~eR~~ie~~f~~G~~---~vLVAT~a--Le~GIDIp~--vd~VI~~~~P~s----~------------------------ 614 (961)
.+..++++.|++..- .+|+++.. +.+|||+++ ++.||..++|.. .
T Consensus 31 ~~~~~~l~~f~~~~~~~g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~ 110 (142)
T smart00491 31 GETEELLEKYSAACEARGALLLAVARGKVSEGIDFPDDLGRAVIIVGIPFPNPDSPILRARLEYLDEKGGIRPFDEVYLF 110 (142)
T ss_pred chHHHHHHHHHHhcCCCCEEEEEEeCCeeecceecCCCccEEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCcHHHHHHH
Confidence 344677777876433 58888876 999999987 678998887741 1
Q ss_pred ---hhHHHHhccCCCCCCCceEEEEe
Q 002135 615 ---ASLWQQAGRSGRRERPSLAVYVA 637 (961)
Q Consensus 615 ---~sy~QR~GRAGR~g~~g~~i~l~ 637 (961)
....|-+||+=|...+--+++++
T Consensus 111 ~a~~~~~Qa~GR~iR~~~D~g~i~l~ 136 (142)
T smart00491 111 DAMRALAQAIGRAIRHKNDYGVVVLL 136 (142)
T ss_pred HHHHHHHHHhCccccCccceEEEEEE
Confidence 23568899999986554444444
No 233
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=93.18 E-value=0.34 Score=64.35 Aligned_cols=69 Identities=17% Similarity=0.228 Sum_probs=56.6
Q ss_pred CCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCC-CeEEEEcccHHHHHHHHHHHHHhHh
Q 002135 255 KLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLS-SSALYMFPTKALAQDQLRALLAMTK 325 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~-~~aLvl~PtraLa~qq~~~l~~l~~ 325 (961)
++++-|.+||. ..|++++|+|+-|||||.+..--++..+..+.. .++|+|+=|++.|.....++.+...
T Consensus 1 ~~t~~Q~~ai~--~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~ 70 (1232)
T TIGR02785 1 QWTDEQWQAIY--TRGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQ 70 (1232)
T ss_pred CCCHHHHHHHh--CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHH
Confidence 36889999998 468899999999999999887777776654322 4699999999999999988877554
No 234
>PRK06526 transposase; Provisional
Probab=93.07 E-value=0.83 Score=49.71 Aligned_cols=38 Identities=18% Similarity=0.097 Sum_probs=25.7
Q ss_pred HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEE
Q 002135 267 SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYM 306 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl 306 (961)
+..++|+++++|+|+|||....--+.+... .+.+++++
T Consensus 95 i~~~~nlll~Gp~GtGKThLa~al~~~a~~--~g~~v~f~ 132 (254)
T PRK06526 95 VTGKENVVFLGPPGTGKTHLAIGLGIRACQ--AGHRVLFA 132 (254)
T ss_pred hhcCceEEEEeCCCCchHHHHHHHHHHHHH--CCCchhhh
Confidence 446789999999999999766543333332 24556554
No 235
>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=93.02 E-value=0.66 Score=54.13 Aligned_cols=36 Identities=8% Similarity=0.153 Sum_probs=24.1
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHh-cCCCCeEEEEc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALS-HDLSSSALYMF 307 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~-~~~~~~aLvl~ 307 (961)
..+++.+|+|+|||..... +...+. ..++.+++|+.
T Consensus 137 n~l~l~G~~G~GKThL~~a-i~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHA-IGNEILENNPNAKVVYVS 173 (405)
T ss_pred CeEEEECCCCCcHHHHHHH-HHHHHHHhCCCCcEEEEE
Confidence 3578999999999976533 333333 33456777775
No 236
>PF13871 Helicase_C_4: Helicase_C-like
Probab=92.97 E-value=0.35 Score=52.91 Aligned_cols=76 Identities=22% Similarity=0.243 Sum_probs=57.4
Q ss_pred HHHHHhCCCceEEEeccccccccccCC--------ccEEEEeCCCCCHhhHHHHhccCCCCCCCce--EEEEeeCCcchh
Q 002135 575 IERDFFGGKLCGVAATNALELGIDVGH--------IDVTLHLGFPGSIASLWQQAGRSGRRERPSL--AVYVAFEGPLDQ 644 (961)
Q Consensus 575 ie~~f~~G~~~vLVAT~aLe~GIDIp~--------vd~VI~~~~P~s~~sy~QR~GRAGR~g~~g~--~i~l~~~~~~d~ 644 (961)
.-++|.+|+.+|+|-+.+.+.||.+.. -++-|...+|+|....+|+.||+-|.|+... -.+++..-+.+.
T Consensus 53 e~~~F~~g~k~v~iis~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~~~gE~ 132 (278)
T PF13871_consen 53 EKQAFMDGEKDVAIISDAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTDLPGER 132 (278)
T ss_pred HHHHHhCCCceEEEEecccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecCCHHHH
Confidence 456899999999999999999998753 3466788999999999999999999987432 233444445555
Q ss_pred HHHhch
Q 002135 645 YFMKYP 650 (961)
Q Consensus 645 ~~~~~~ 650 (961)
.+....
T Consensus 133 Rfas~v 138 (278)
T PF13871_consen 133 RFASTV 138 (278)
T ss_pred HHHHHH
Confidence 444433
No 237
>PRK07952 DNA replication protein DnaC; Validated
Probab=92.95 E-value=1.5 Score=47.32 Aligned_cols=34 Identities=15% Similarity=0.168 Sum_probs=22.9
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEE
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYM 306 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl 306 (961)
..+++.+++|+|||..+.- +...+.. .+..++|+
T Consensus 100 ~~~~l~G~~GtGKThLa~a-ia~~l~~-~g~~v~~i 133 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAAA-ICNELLL-RGKSVLII 133 (244)
T ss_pred ceEEEECCCCCCHHHHHHH-HHHHHHh-cCCeEEEE
Confidence 4799999999999976543 3333433 35566666
No 238
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=92.78 E-value=0.3 Score=54.92 Aligned_cols=62 Identities=24% Similarity=0.318 Sum_probs=42.5
Q ss_pred HHhCCCCCCcHHHHHHHHH-HhCCCcEEEEecCCchhHHHHHHHHHHHHh-cCCCCeEEEEcccHHH
Q 002135 248 LKSTGISKLYSHQAESIMA-SLAGKNVVVATMTSSGKSLCYNLPVLEALS-HDLSSSALYMFPTKAL 312 (961)
Q Consensus 248 L~~~g~~~l~~~Q~~ai~~-il~G~~vIv~apTGSGKTla~~Lpil~~l~-~~~~~~aLvl~PtraL 312 (961)
|...|. +.+.|.+.+.. +..+++++++++||||||.. +-.++..+. ..+..+++.|-.+.+|
T Consensus 127 l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTl-l~aL~~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 127 YVERGI--MTAAQREAIIAAVRAHRNILVIGGTGSGKTTL-VNAIINEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred HHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH-HHHHHHhhhhcCCCceEEEEcCCCcc
Confidence 334455 66788888876 45678999999999999953 344444432 2345677777777766
No 239
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=92.73 E-value=0.49 Score=53.64 Aligned_cols=39 Identities=21% Similarity=0.442 Sum_probs=25.8
Q ss_pred eEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCCChH
Q 002135 400 RFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSANPR 450 (961)
Q Consensus 400 ~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~n~~ 450 (961)
-++.|||+|++.. .+-..+|-.+. +-.+++.-||-.||-
T Consensus 106 tiLflDEIHRfnK---~QQD~lLp~vE---------~G~iilIGATTENPs 144 (436)
T COG2256 106 TILFLDEIHRFNK---AQQDALLPHVE---------NGTIILIGATTENPS 144 (436)
T ss_pred eEEEEehhhhcCh---hhhhhhhhhhc---------CCeEEEEeccCCCCC
Confidence 6789999999864 23333333332 346788889988873
No 240
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=92.66 E-value=1 Score=47.91 Aligned_cols=20 Identities=20% Similarity=0.139 Sum_probs=16.2
Q ss_pred CCCcEEEEecCCchhHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~ 288 (961)
.+..+++.+++|+|||....
T Consensus 41 ~~~~~~l~G~~G~GKT~La~ 60 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHLLQ 60 (227)
T ss_pred CCCeEEEECCCCCCHHHHHH
Confidence 34679999999999996543
No 241
>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=92.64 E-value=0.42 Score=53.31 Aligned_cols=63 Identities=25% Similarity=0.342 Sum_probs=42.1
Q ss_pred HHhCCCCCCcHHHHHHHHHH-hCCCcEEEEecCCchhHHHHHHHHHHHHhc-CCCCeEEEEcccHHHH
Q 002135 248 LKSTGISKLYSHQAESIMAS-LAGKNVVVATMTSSGKSLCYNLPVLEALSH-DLSSSALYMFPTKALA 313 (961)
Q Consensus 248 L~~~g~~~l~~~Q~~ai~~i-l~G~~vIv~apTGSGKTla~~Lpil~~l~~-~~~~~aLvl~PtraLa 313 (961)
|.+.|. +.+-|.+.+..+ ..+++++++++||||||... -.++..+.. .+..+++.+--+.||.
T Consensus 111 l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll-~al~~~i~~~~~~~ri~tiEd~~El~ 175 (299)
T TIGR02782 111 YVEAGI--MTAAQRDVLREAVLARKNILVVGGTGSGKTTLA-NALLAEIAKNDPTDRVVIIEDTRELQ 175 (299)
T ss_pred HHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHhhccCCCceEEEECCchhhc
Confidence 333454 566677777654 45679999999999999753 334455543 2456788888777763
No 242
>PRK08084 DNA replication initiation factor; Provisional
Probab=92.56 E-value=0.89 Score=48.86 Aligned_cols=36 Identities=14% Similarity=0.134 Sum_probs=22.8
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF 307 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~ 307 (961)
+.++++.+|+|+|||.....-+- .+.. .+.+++|+.
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~-~~~~-~~~~v~y~~ 80 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACA-ELSQ-RGRAVGYVP 80 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH-HHHh-CCCeEEEEE
Confidence 36899999999999975443222 2222 245666654
No 243
>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=92.41 E-value=0.64 Score=59.52 Aligned_cols=83 Identities=13% Similarity=0.158 Sum_probs=68.9
Q ss_pred HHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc-ccccccccC
Q 002135 522 VQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN-ALELGIDVG 600 (961)
Q Consensus 522 ~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~-aLe~GIDIp 600 (961)
...|.+++|.++|+..|++.++.+++.+.. ...++..++|+.+..+++++.+.+++|+.+|||+|. .+...+.+.
T Consensus 497 l~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~----~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll~~~v~f~ 572 (926)
T TIGR00580 497 VLDGKQVAVLVPTTLLAQQHFETFKERFAN----FPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLLQKDVKFK 572 (926)
T ss_pred HHhCCeEEEEeCcHHHHHHHHHHHHHHhcc----CCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHhhCCCCcc
Confidence 356789999999999999999888775543 344688899999999999999999999999999998 444567788
Q ss_pred CccEEEEe
Q 002135 601 HIDVTLHL 608 (961)
Q Consensus 601 ~vd~VI~~ 608 (961)
++.++|.-
T Consensus 573 ~L~llVID 580 (926)
T TIGR00580 573 DLGLLIID 580 (926)
T ss_pred cCCEEEee
Confidence 89888843
No 244
>PRK08727 hypothetical protein; Validated
Probab=92.39 E-value=1 Score=48.40 Aligned_cols=35 Identities=14% Similarity=0.090 Sum_probs=22.2
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF 307 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~ 307 (961)
..+++.+|+|+|||.....-+ ..+.+ .+.+++|+.
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~-~~~~~-~~~~~~y~~ 76 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALC-AAAEQ-AGRSSAYLP 76 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHH-HHHHH-cCCcEEEEe
Confidence 349999999999996544222 22222 255677664
No 245
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.26 E-value=1.4 Score=51.58 Aligned_cols=51 Identities=16% Similarity=0.036 Sum_probs=28.1
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRA 319 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~ 319 (961)
.|+.+++++|||+|||.+..--+........+.++.++. |.+.-+.+|...
T Consensus 220 ~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~ 272 (424)
T PRK05703 220 QGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKT 272 (424)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHH
Confidence 367889999999999976543333222112234444443 344434444433
No 246
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=92.26 E-value=0.65 Score=52.50 Aligned_cols=42 Identities=12% Similarity=0.035 Sum_probs=31.9
Q ss_pred CCcHHHHHHHHHHhCCC----cEEEEecCCchhHHHHHHHHHHHHh
Q 002135 255 KLYSHQAESIMASLAGK----NVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~----~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
.+||+|...+..+.... -.++++|.|.|||..+..-+-..+.
T Consensus 3 ~~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC 48 (328)
T PRK05707 3 EIYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLC 48 (328)
T ss_pred cCCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcC
Confidence 46899999999877542 4889999999999877655544443
No 247
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=92.14 E-value=0.41 Score=59.66 Aligned_cols=70 Identities=13% Similarity=0.208 Sum_probs=57.5
Q ss_pred HHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecccc
Q 002135 522 VQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNAL 593 (961)
Q Consensus 522 ~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aL 593 (961)
..+|+++++.++|.--+.+.++.+........ .....+. |||.++..++++++++|.+|+.+|||+|+.+
T Consensus 122 a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~-~~~~~~~-yh~~l~~~ekee~le~i~~gdfdIlitTs~F 191 (1187)
T COG1110 122 AKKGKRVYIIVPTTTLVRQVYERLKKFAEDAG-SLDVLVV-YHSALPTKEKEEALERIESGDFDILITTSQF 191 (1187)
T ss_pred HhcCCeEEEEecCHHHHHHHHHHHHHHHhhcC-Ccceeee-eccccchHHHHHHHHHHhcCCccEEEEeHHH
Confidence 34678999999999999999998877554443 2333344 9999999999999999999999999999854
No 248
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=92.13 E-value=0.99 Score=53.35 Aligned_cols=47 Identities=11% Similarity=0.078 Sum_probs=29.2
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhc-CCCCeEEEEcccHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSH-DLSSSALYMFPTKALAQDQLRA 319 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~-~~~~~aLvl~PtraLa~qq~~~ 319 (961)
..+++.+++|+|||... -.+...+.. .++.+++|+.+ ..+..+....
T Consensus 142 npl~i~G~~G~GKTHLl-~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~~ 189 (450)
T PRK14087 142 NPLFIYGESGMGKTHLL-KAAKNYIESNFSDLKVSYMSG-DEFARKAVDI 189 (450)
T ss_pred CceEEECCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH-HHHHHHHHHH
Confidence 35889999999999543 233344432 45677887765 4455444333
No 249
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=92.12 E-value=1 Score=55.56 Aligned_cols=81 Identities=16% Similarity=0.074 Sum_probs=53.4
Q ss_pred HHhCCCCCCcHHHHHHHHHHhCCC--cEEEEecCCchhHHHHHHHHHHHHhcCC-CCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 248 LKSTGISKLYSHQAESIMASLAGK--NVVVATMTSSGKSLCYNLPVLEALSHDL-SSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 248 L~~~g~~~l~~~Q~~ai~~il~G~--~vIv~apTGSGKTla~~Lpil~~l~~~~-~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
+.....+.....|.+.+..++.++ -++++|.-|-|||.+.-+.+. .+.+.. ..++++.+|+++=++..++-+.+-+
T Consensus 207 l~~l~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~-~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~~l 285 (758)
T COG1444 207 LYELCLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALA-AAARLAGSVRIIVTAPTPANVQTLFEFAGKGL 285 (758)
T ss_pred HhhhhcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHH-HHHHhcCCceEEEeCCCHHHHHHHHHHHHHhH
Confidence 433333344444444555555543 688999999999998877663 222222 4589999999998888777776666
Q ss_pred hhCCC
Q 002135 325 KAFDA 329 (961)
Q Consensus 325 ~~~~~ 329 (961)
..++.
T Consensus 286 ~~lg~ 290 (758)
T COG1444 286 EFLGY 290 (758)
T ss_pred HHhCC
Confidence 65553
No 250
>PRK08006 replicative DNA helicase; Provisional
Probab=92.03 E-value=2 Score=51.11 Aligned_cols=44 Identities=18% Similarity=0.146 Sum_probs=33.5
Q ss_pred eeEEEEecchhhhc-----ccchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 399 IRFVVIDEAHAYKG-----AFGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 399 i~~VVIDEaH~~~~-----~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
+++||||=.|.+.. .+...+..+.+.|+.++..+ +..+|++|-.
T Consensus 337 ~~lvvIDYLqli~~~~~~~~r~~ei~~isr~LK~lAkel---~ipVi~LsQL 385 (471)
T PRK08006 337 LSLIMIDYLQLMRVPSLSDNRTLEIAEISRSLKALAKEL---QVPVVALSQL 385 (471)
T ss_pred CCEEEEccHHHccCCCCCCCcHHHHHHHHHHHHHHHHHh---CCeEEEEEec
Confidence 39999999999853 13446889999999988753 6678887744
No 251
>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=92.00 E-value=1.6 Score=44.55 Aligned_cols=48 Identities=10% Similarity=0.169 Sum_probs=32.1
Q ss_pred EEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 273 VVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
++|.+|+|+|||...+--+...+.. +.+++|++. .+-..+..+.+..+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~--g~~v~~~s~-e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLAR--GEPGLYVTL-EESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHC--CCcEEEEEC-CCCHHHHHHHHHHc
Confidence 6899999999998766555555533 567888764 34455555555443
No 252
>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=91.95 E-value=0.33 Score=52.17 Aligned_cols=39 Identities=15% Similarity=0.147 Sum_probs=27.4
Q ss_pred hCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc
Q 002135 268 LAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF 307 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~ 307 (961)
..|.-++|+|++|+|||...+--+.+... +.+.+++|++
T Consensus 11 ~~G~l~lI~G~~G~GKT~~~~~~~~~~~~-~~g~~vly~s 49 (242)
T cd00984 11 QPGDLIIIAARPSMGKTAFALNIAENIAK-KQGKPVLFFS 49 (242)
T ss_pred CCCeEEEEEeCCCCCHHHHHHHHHHHHHH-hCCCceEEEe
Confidence 35677999999999999755444444443 3366788887
No 253
>PRK06904 replicative DNA helicase; Validated
Probab=91.94 E-value=1.9 Score=51.27 Aligned_cols=147 Identities=18% Similarity=0.184 Sum_probs=76.9
Q ss_pred hCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcC-CCcHHHHH
Q 002135 268 LAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDG-DTTQKDRM 346 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~G-d~~~~~r~ 346 (961)
..|.=+|+.|.||.|||.-. +-+...+....+..++|++ +-.=..|...++........ .. .+..| .....+..
T Consensus 219 ~~G~LiiIaarPg~GKTafa-lnia~~~a~~~g~~Vl~fS-lEMs~~ql~~Rlla~~s~v~--~~-~i~~g~~l~~~e~~ 293 (472)
T PRK06904 219 QPSDLIIVAARPSMGKTTFA-MNLCENAAMASEKPVLVFS-LEMPAEQIMMRMLASLSRVD--QT-KIRTGQNLDQQDWA 293 (472)
T ss_pred CCCcEEEEEeCCCCChHHHH-HHHHHHHHHhcCCeEEEEe-ccCCHHHHHHHHHHhhCCCC--HH-HhccCCCCCHHHHH
Confidence 34566888999999999744 4343333322355666654 33334455555544322211 11 11234 33333322
Q ss_pred H-------HhcCCcEEEe-----ChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc--
Q 002135 347 W-------LRDNARLLIT-----NPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG-- 412 (961)
Q Consensus 347 ~-------l~~~~~IlIt-----TPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~-- 412 (961)
. +.+.+.+.|. |++.+...+ ++.... ..++++||||=.+.+..
T Consensus 294 ~~~~a~~~l~~~~~l~I~d~~~~t~~~i~~~~-------r~~~~~----------------~~~~~lvvIDYLqli~~~~ 350 (472)
T PRK06904 294 KISSTVGMFKQKPNLYIDDSSGLTPTELRSRA-------RRVYRE----------------NGGLSLIMVDYLQLMRAPG 350 (472)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCCHHHHHHHH-------HHHHHh----------------CCCCCEEEEecHHhcCCCC
Confidence 2 2233445553 333332111 111110 01238999999998853
Q ss_pred ---ccchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 413 ---AFGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 413 ---~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
.+...+..+.+.|+.++..+ +..+|++|--
T Consensus 351 ~~~~r~~ei~~isr~LK~lAkel---~ipVi~lsQL 383 (472)
T PRK06904 351 FEDNRTLEIAEISRSLKALAKEL---KVPVVALSQL 383 (472)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHh---CCeEEEEEec
Confidence 13446788999999988753 5677887743
No 254
>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=91.93 E-value=1.8 Score=46.53 Aligned_cols=52 Identities=13% Similarity=0.186 Sum_probs=36.7
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
.|..++|.+++|+|||.-.+-.+.+.+.+ +.+++|++ +-+-..+..+++.++
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~--ge~~lyvs-~ee~~~~i~~~~~~~ 71 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGIYVA-LEEHPVQVRRNMAQF 71 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEE-eeCCHHHHHHHHHHh
Confidence 35689999999999998766666666533 67788887 445555566655544
No 255
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=91.93 E-value=0.5 Score=53.14 Aligned_cols=61 Identities=20% Similarity=0.196 Sum_probs=41.3
Q ss_pred hCCCCCCcHHHHHHHHHH-hCCCcEEEEecCCchhHHHHHHHHHHHHhc-CCCCeEEEEcccHHHH
Q 002135 250 STGISKLYSHQAESIMAS-LAGKNVVVATMTSSGKSLCYNLPVLEALSH-DLSSSALYMFPTKALA 313 (961)
Q Consensus 250 ~~g~~~l~~~Q~~ai~~i-l~G~~vIv~apTGSGKTla~~Lpil~~l~~-~~~~~aLvl~PtraLa 313 (961)
..|. +.+.|.+.+..+ ..++|++|+++||||||... -.++..+.. .+..+++.+=.+.||.
T Consensus 125 ~~g~--~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll-~aL~~~i~~~~~~~rivtiEd~~El~ 187 (323)
T PRK13833 125 TSKI--MTEAQASVIRSAIDSRLNIVISGGTGSGKTTLA-NAVIAEIVASAPEDRLVILEDTAEIQ 187 (323)
T ss_pred HcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHHhcCCCCceEEEecCCcccc
Confidence 4454 677888887764 45679999999999999743 334444432 2345777777777763
No 256
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=91.86 E-value=3 Score=47.81 Aligned_cols=122 Identities=16% Similarity=0.148 Sum_probs=64.9
Q ss_pred CCCcEEEEecCCchhHHHHH-HHHHHHHhcCCCCeEEEEcc-cHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYN-LPVLEALSHDLSSSALYMFP-TKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRM 346 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~-Lpil~~l~~~~~~~aLvl~P-traLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~ 346 (961)
.++.+.+++|||.|||.+-. |++.-.+.......+|+-.- -|-=|..|.+. ++.-++.
T Consensus 202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~---Ya~im~v----------------- 261 (407)
T COG1419 202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKT---YADIMGV----------------- 261 (407)
T ss_pred cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHH---HHHHhCC-----------------
Confidence 37889999999999997643 33332222322333444443 33344444333 3332332
Q ss_pred HHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHH
Q 002135 347 WLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLC 426 (961)
Q Consensus 347 ~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~ 426 (961)
+-.++-+|.-|...+ ..+.+. ++|.||=+=+ +..=...+..++
T Consensus 262 -----p~~vv~~~~el~~ai--------~~l~~~-------------------d~ILVDTaGr-----s~~D~~~i~el~ 304 (407)
T COG1419 262 -----PLEVVYSPKELAEAI--------EALRDC-------------------DVILVDTAGR-----SQYDKEKIEELK 304 (407)
T ss_pred -----ceEEecCHHHHHHHH--------HHhhcC-------------------CEEEEeCCCC-----CccCHHHHHHHH
Confidence 334556676665443 334454 8888886643 111123345555
Q ss_pred HHhhcccCCCCcEEEeccCCCC
Q 002135 427 RLCSHVYGSDPSFVFSTATSAN 448 (961)
Q Consensus 427 ~~~~~~~~~~~q~I~lSATl~n 448 (961)
...... .+.-.++.+|||...
T Consensus 305 ~~~~~~-~~i~~~Lvlsat~K~ 325 (407)
T COG1419 305 ELIDVS-HSIEVYLVLSATTKY 325 (407)
T ss_pred HHHhcc-ccceEEEEEecCcch
Confidence 555432 233467888999753
No 257
>PRK06921 hypothetical protein; Provisional
Probab=91.85 E-value=2.6 Score=46.20 Aligned_cols=39 Identities=15% Similarity=0.175 Sum_probs=25.8
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
.+.++++.++||+|||.... .+...+.+..+..++|+..
T Consensus 116 ~~~~l~l~G~~G~GKThLa~-aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLT-AAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CCCeEEEECCCCCcHHHHHH-HHHHHHhhhcCceEEEEEH
Confidence 36789999999999996543 3344444322566777653
No 258
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.81 E-value=3.6 Score=47.37 Aligned_cols=47 Identities=11% Similarity=0.094 Sum_probs=27.8
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRA 319 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~ 319 (961)
+.+.+++|||+|||.....-+... .. .+.++.++. |-|.-+.+|...
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L-~~-~GkkVglI~aDt~RiaAvEQLk~ 290 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQF-HG-KKKTVGFITTDHSRIGTVQQLQD 290 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHH-HH-cCCcEEEEecCCcchHHHHHHHH
Confidence 578899999999998765544433 22 244444443 445444444433
No 259
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=91.54 E-value=0.66 Score=59.03 Aligned_cols=158 Identities=17% Similarity=0.111 Sum_probs=93.4
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcC----------------CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCcc
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHD----------------LSSSALYMFPTKALAQDQLRALLAMTKAFDASID 332 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~----------------~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~ 332 (961)
.|++++.+-..|+|||.+-+.-.+..+-.. ..+.+|||+|. ++..|++.++.+-... .+.
T Consensus 373 ~g~~~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~-aIl~QW~~EI~kH~~~---~lK 448 (1394)
T KOG0298|consen 373 HGKRVQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPN-AILMQWFEEIHKHISS---LLK 448 (1394)
T ss_pred CCcceeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcH-HHHHHHHHHHHHhccc---cce
Confidence 357889999999999998765555332110 13568999997 6777899988876543 368
Q ss_pred EEEEcCCCcHHH-HHHHhcCCcEEEeChhHHHHhhcCC-CchhHHHhhhhhhhhhhcchhhhhhhhcce--eEEEEecch
Q 002135 333 IGVYDGDTTQKD-RMWLRDNARLLITNPDMLHMSILPY-HGQFSRILSNLRLIAFSLVTTEVYLIFLFI--RFVVIDEAH 408 (961)
Q Consensus 333 v~~~~Gd~~~~~-r~~l~~~~~IlItTPe~L~~~lL~~-~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i--~~VVIDEaH 408 (961)
+..|-|-..... .......++||+||.+.|...+... +.+-.+.+++= ...+.. .-++-.+ ==|++|||+
T Consensus 449 v~~Y~Girk~~~~~~~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~q-sr~~~~-----~SPL~~v~wWRIclDEaQ 522 (1394)
T KOG0298|consen 449 VLLYFGIRKTFWLSPFELLQYDIVLTTYDILRNELYHTEDFGSDRQLRHQ-SRYMRP-----NSPLLMVNWWRICLDEAQ 522 (1394)
T ss_pred EEEEechhhhcccCchhhhccCEEEeehHHHHhHhhcccccCChhhhhcc-cCCCCC-----CCchHHHHHHHHhhhHHH
Confidence 888988532210 0123346899999999987665322 11222222221 000000 0000011 126999999
Q ss_pred hhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 409 AYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 409 ~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
.+-. -.+..+.++.+|.++ ..=+.|.|+
T Consensus 523 Mves-ssS~~a~M~~rL~~i---------n~W~VTGTP 550 (1394)
T KOG0298|consen 523 MVES-SSSAAAEMVRRLHAI---------NRWCVTGTP 550 (1394)
T ss_pred hhcc-hHHHHHHHHHHhhhh---------ceeeecCCc
Confidence 9865 445666666666544 345668884
No 260
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=91.49 E-value=0.28 Score=54.66 Aligned_cols=62 Identities=18% Similarity=0.214 Sum_probs=45.3
Q ss_pred CCCCCcHHHHHHHHHHhCCC-cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHH
Q 002135 252 GISKLYSHQAESIMASLAGK-NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQ 316 (961)
Q Consensus 252 g~~~l~~~Q~~ai~~il~G~-~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq 316 (961)
.+..+.+.|+..+..+..++ |+++++.||||||.. +-++.... .+..+++.+--|.+|--++
T Consensus 154 ~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTl--LNal~~~i-~~~eRvItiEDtaELql~~ 216 (355)
T COG4962 154 IFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTL--LNALSGFI-DSDERVITIEDTAELQLAH 216 (355)
T ss_pred HcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHH--HHHHHhcC-CCcccEEEEeehhhhccCC
Confidence 45679999999999888776 999999999999973 33333222 2344888888887775543
No 261
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=91.45 E-value=1.6 Score=51.42 Aligned_cols=38 Identities=8% Similarity=0.043 Sum_probs=25.5
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
..+++.+|+|+|||.....-+-+.....++.+++|+..
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 36999999999999765433333333345667888764
No 262
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=91.32 E-value=1.5 Score=49.22 Aligned_cols=44 Identities=16% Similarity=0.163 Sum_probs=32.4
Q ss_pred CCCcHHHHHHHHHHh----CCC---cEEEEecCCchhHHHHHHHHHHHHhc
Q 002135 254 SKLYSHQAESIMASL----AGK---NVVVATMTSSGKSLCYNLPVLEALSH 297 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il----~G~---~vIv~apTGSGKTla~~Lpil~~l~~ 297 (961)
..+||+|..++..+. +|+ -.++.+|.|+||+..+..-+-..+..
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~ 53 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLAS 53 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCC
Confidence 468999999998765 443 48899999999998765544444443
No 263
>PRK05973 replicative DNA helicase; Provisional
Probab=91.17 E-value=2.9 Score=44.97 Aligned_cols=54 Identities=20% Similarity=0.197 Sum_probs=35.9
Q ss_pred HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 267 SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
+..|.-++|.|++|+|||.-.+--+.+.+.+ +.+++|++-- +=..|..+++..+
T Consensus 61 l~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~--Ge~vlyfSlE-es~~~i~~R~~s~ 114 (237)
T PRK05973 61 LKPGDLVLLGARPGHGKTLLGLELAVEAMKS--GRTGVFFTLE-YTEQDVRDRLRAL 114 (237)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEEe-CCHHHHHHHHHHc
Confidence 3456779999999999998776666665543 5677777532 2245555565554
No 264
>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=91.15 E-value=3.3 Score=44.07 Aligned_cols=38 Identities=18% Similarity=0.205 Sum_probs=27.0
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
.|..+++.+++|+|||....--+.+.+. .+..++|+.-
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~--~g~~~~~is~ 56 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYKGLR--DGDPVIYVTT 56 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHHh--cCCeEEEEEc
Confidence 4678999999999998766544444443 3567777764
No 265
>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=91.03 E-value=1.1 Score=52.47 Aligned_cols=45 Identities=18% Similarity=0.164 Sum_probs=32.5
Q ss_pred eeEEEEecchhhhc----ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 399 IRFVVIDEAHAYKG----AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 399 i~~VVIDEaH~~~~----~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
+++||||=.|.+.. .....+..+.+.|+.++..+ +..+|++|-.-
T Consensus 306 ~~lvvIDyLql~~~~~~~~~~~~~~~i~~~Lk~lAke~---~i~Vi~lsQln 354 (421)
T TIGR03600 306 LDLIVVDYIQLMAPTRGRDRNEELGGISRGLKALAKEL---DVPVVLLAQLN 354 (421)
T ss_pred CCEEEEecccccCCCCCCCHHHHHHHHHHHHHHHHHHh---CCcEEEecccC
Confidence 48999999988864 13345677888888887653 56778777653
No 266
>PLN03025 replication factor C subunit; Provisional
Probab=90.89 E-value=2.5 Score=47.64 Aligned_cols=21 Identities=14% Similarity=0.200 Sum_probs=16.9
Q ss_pred CcEEEEecCCchhHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPV 291 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpi 291 (961)
.++++.+|+|+|||..+..-+
T Consensus 35 ~~lll~Gp~G~GKTtla~~la 55 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILALA 55 (319)
T ss_pred ceEEEECCCCCCHHHHHHHHH
Confidence 479999999999997665433
No 267
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=90.80 E-value=1.2 Score=53.98 Aligned_cols=42 Identities=7% Similarity=0.092 Sum_probs=25.5
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhc-CCCCeEEEEcccHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSH-DLSSSALYMFPTKALAQD 315 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~-~~~~~aLvl~PtraLa~q 315 (961)
.+++.+++|+|||....- +.+.+.+ .++.+++|+.- .+++++
T Consensus 316 pL~LyG~sGsGKTHLL~A-Ia~~a~~~~~g~~V~Yita-eef~~e 358 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHA-IGHYARRLYPGTRVRYVSS-EEFTNE 358 (617)
T ss_pred cEEEECCCCCCHHHHHHH-HHHHHHHhCCCCeEEEeeH-HHHHHH
Confidence 389999999999975432 2333332 34667777653 444443
No 268
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=90.80 E-value=0.63 Score=57.51 Aligned_cols=91 Identities=15% Similarity=0.186 Sum_probs=75.6
Q ss_pred CCcHHHHHHHHHHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEE
Q 002135 508 SSPISEVSYLFAEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGV 587 (961)
Q Consensus 508 ~~~~~~~~~ll~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vL 587 (961)
+.+.+....++...+..|+++|+-++.......+...++..++ .++..+|+++++.+|.....+.++|+.+|+
T Consensus 228 SGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg-------~~v~vlHS~Ls~~er~~~W~~~~~G~~~vV 300 (730)
T COG1198 228 SGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFG-------AKVAVLHSGLSPGERYRVWRRARRGEARVV 300 (730)
T ss_pred CcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhC-------CChhhhcccCChHHHHHHHHHHhcCCceEE
Confidence 3455666778888889999999999999999998888887653 478899999999999999999999999999
Q ss_pred EeccccccccccCCccEEE
Q 002135 588 AATNALELGIDVGHIDVTL 606 (961)
Q Consensus 588 VAT~aLe~GIDIp~vd~VI 606 (961)
|.|-.+ .-.=++++.++|
T Consensus 301 IGtRSA-lF~Pf~~LGLII 318 (730)
T COG1198 301 IGTRSA-LFLPFKNLGLII 318 (730)
T ss_pred EEechh-hcCchhhccEEE
Confidence 999742 334456777777
No 269
>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=90.79 E-value=1.5 Score=46.34 Aligned_cols=21 Identities=19% Similarity=0.132 Sum_probs=17.2
Q ss_pred CCCcEEEEecCCchhHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~L 289 (961)
.+.++++.+|+|+|||.....
T Consensus 37 ~~~~lll~G~~G~GKT~la~~ 57 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQA 57 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHH
Confidence 456899999999999976543
No 270
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.61 E-value=1.4 Score=52.41 Aligned_cols=23 Identities=17% Similarity=0.408 Sum_probs=18.5
Q ss_pred CcEEEEecCCchhHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~ 293 (961)
+..++++|.|+|||.++.+-+..
T Consensus 36 ha~Lf~Gp~G~GKTT~ArilAk~ 58 (491)
T PRK14964 36 QSILLVGASGVGKTTCARIISLC 58 (491)
T ss_pred ceEEEECCCCccHHHHHHHHHHH
Confidence 46999999999999987665543
No 271
>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=90.61 E-value=1.9 Score=47.10 Aligned_cols=20 Identities=10% Similarity=0.182 Sum_probs=16.7
Q ss_pred CcEEEEecCCchhHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLP 290 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lp 290 (961)
.++++.+|+|+|||..+-.-
T Consensus 43 ~~vll~GppGtGKTtlA~~i 62 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARIL 62 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHH
Confidence 57999999999999876543
No 272
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=90.39 E-value=0.18 Score=66.34 Aligned_cols=95 Identities=24% Similarity=0.264 Sum_probs=76.3
Q ss_pred cEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCH-----------HHHHHHHHHHhCCCceEEEecccccc
Q 002135 527 RCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVA-----------EDRRRIERDFFGGKLCGVAATNALEL 595 (961)
Q Consensus 527 k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~-----------~eR~~ie~~f~~G~~~vLVAT~aLe~ 595 (961)
..|+||+.+..+..+++.+++..... +..+-|.+.+ -.+.+++..|..-.+.+|++|++++.
T Consensus 294 ~~i~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~g~~~~~~~k~~~~~~~~~~~~vl~~~~~~~ln~L~~~~~~~e 366 (1606)
T KOG0701|consen 294 SGIIFVDQRYTAYVLLELLREIFSND-------PLFVTGASGANLWKSFKNELELRQAEVLRRFHFHELNLLIATSVLEE 366 (1606)
T ss_pred hheeecccchHHHHHHHHHHHhhccC-------cceeeccccCccchhhHHHHHhhhHHHHHHHhhhhhhHHHHHHHHHh
Confidence 56999999999998888877654321 1223333321 23566888999999999999999999
Q ss_pred ccccCCccEEEEeCCCCCHhhHHHHhccCCCCC
Q 002135 596 GIDVGHIDVTLHLGFPGSIASLWQQAGRSGRRE 628 (961)
Q Consensus 596 GIDIp~vd~VI~~~~P~s~~sy~QR~GRAGR~g 628 (961)
|+|++.++.|+.++.|....+|+|..||+-+..
T Consensus 367 ~~d~~~~~~~~~~~~~~~~~~~vq~~~r~~~~~ 399 (1606)
T KOG0701|consen 367 GVDVPKCNLVVLFDAPTYYRSYVQKKGRARAAD 399 (1606)
T ss_pred hcchhhhhhheeccCcchHHHHHHhhcccccch
Confidence 999999999999999999999999999997763
No 273
>PRK10689 transcription-repair coupling factor; Provisional
Probab=90.33 E-value=1.5 Score=57.57 Aligned_cols=82 Identities=12% Similarity=0.098 Sum_probs=67.3
Q ss_pred HHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc-ccccccccC
Q 002135 522 VQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN-ALELGIDVG 600 (961)
Q Consensus 522 ~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~-aLe~GIDIp 600 (961)
...|.+++|.++|+..|.++++.+++.+.. ....+..++|+.+..++..+.+.+++|..+|||+|. .+...+.+.
T Consensus 646 ~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~----~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL~~~v~~~ 721 (1147)
T PRK10689 646 VENHKQVAVLVPTTLLAQQHYDNFRDRFAN----WPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSDVKWK 721 (1147)
T ss_pred HHcCCeEEEEeCcHHHHHHHHHHHHHhhcc----CCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHHhCCCCHh
Confidence 456889999999999999999888765433 234677899999999999999999999999999997 445557778
Q ss_pred CccEEEE
Q 002135 601 HIDVTLH 607 (961)
Q Consensus 601 ~vd~VI~ 607 (961)
+++++|.
T Consensus 722 ~L~lLVI 728 (1147)
T PRK10689 722 DLGLLIV 728 (1147)
T ss_pred hCCEEEE
Confidence 8888874
No 274
>PRK06893 DNA replication initiation factor; Validated
Probab=90.32 E-value=1.2 Score=47.66 Aligned_cols=35 Identities=23% Similarity=0.113 Sum_probs=21.4
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF 307 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~ 307 (961)
..+++.+|+|+|||.....-+-+...+ +..++|+.
T Consensus 40 ~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~ 74 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIP 74 (229)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEee
Confidence 457999999999997544333332222 34555554
No 275
>PRK12377 putative replication protein; Provisional
Probab=90.16 E-value=3.2 Score=45.03 Aligned_cols=44 Identities=14% Similarity=0.051 Sum_probs=26.6
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQ 316 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq 316 (961)
..++++.+|+|+|||..+... ...+.. .+..++|+ +..+|..+.
T Consensus 101 ~~~l~l~G~~GtGKThLa~AI-a~~l~~-~g~~v~~i-~~~~l~~~l 144 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAI-GNRLLA-KGRSVIVV-TVPDVMSRL 144 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHH-HHHHHH-cCCCeEEE-EHHHHHHHH
Confidence 368999999999999754333 333333 24455544 444555543
No 276
>PRK05642 DNA replication initiation factor; Validated
Probab=90.02 E-value=2 Score=46.20 Aligned_cols=35 Identities=11% Similarity=0.114 Sum_probs=22.0
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF 307 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~ 307 (961)
..+++++|+|+|||--.. .+...+.. .+.+++|+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~-a~~~~~~~-~~~~v~y~~ 80 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQ-AACLRFEQ-RGEPAVYLP 80 (234)
T ss_pred CeEEEECCCCCCHHHHHH-HHHHHHHh-CCCcEEEee
Confidence 468899999999996532 22333332 245666655
No 277
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=89.89 E-value=0.61 Score=53.86 Aligned_cols=79 Identities=22% Similarity=0.203 Sum_probs=61.0
Q ss_pred HHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 244 TKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 244 l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
+++.+++ .+..+-..|.+|.-..-.|+- .|.+=.|||||....+-+-+.-.++|..++++.+-||.|+++......++
T Consensus 152 ~l~~ies-kIanfD~~Q~kaa~~~~~G~q-rIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F 229 (660)
T COG3972 152 LLDTIES-KIANFDTDQTKAAFQSGFGKQ-RIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEF 229 (660)
T ss_pred HHHHHHH-HHhcccchhheeeeecCCchh-hhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHH
Confidence 3344443 345677788887666666666 67888999999987777777667788999999999999999988887777
Q ss_pred H
Q 002135 324 T 324 (961)
Q Consensus 324 ~ 324 (961)
+
T Consensus 230 ~ 230 (660)
T COG3972 230 F 230 (660)
T ss_pred H
Confidence 6
No 278
>PRK11823 DNA repair protein RadA; Provisional
Probab=89.87 E-value=2.3 Score=50.27 Aligned_cols=50 Identities=16% Similarity=0.045 Sum_probs=31.0
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALL 321 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~ 321 (961)
.|.-+++.+++|+|||...+.-+.... + .+.+++|+.-- +-..|...+..
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a-~-~g~~vlYvs~E-es~~qi~~ra~ 128 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQVAARLA-A-AGGKVLYVSGE-ESASQIKLRAE 128 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHH-h-cCCeEEEEEcc-ccHHHHHHHHH
Confidence 356789999999999975544443332 2 25688998743 33344444433
No 279
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=89.86 E-value=0.35 Score=58.29 Aligned_cols=172 Identities=17% Similarity=0.161 Sum_probs=94.5
Q ss_pred CCcHHHHHHHHHHh--------CCC--cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 255 KLYSHQAESIMASL--------AGK--NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 255 ~l~~~Q~~ai~~il--------~G~--~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
.+...|.+|+-.+. +|. ..+|-...|-||--+..--|++..+++ .+++|+++=+..|--|-.+.|...+
T Consensus 264 ~lSALQLEav~YAcQ~He~llPsG~RaGfLiGDGAGVGKGRTvAgiIfeNyLkG-RKrAlW~SVSsDLKfDAERDL~Dig 342 (1300)
T KOG1513|consen 264 HLSALQLEAVTYACQAHEVLLPSGQRAGFLIGDGAGVGKGRTVAGIIFENYLKG-RKRALWFSVSSDLKFDAERDLRDIG 342 (1300)
T ss_pred chhHHHHHHHHHHHhhhhhcCCCCccceeeeccCcccCCCceeEEEEehhhhcc-cceeEEEEeccccccchhhchhhcC
Confidence 47777888886554 232 467777777777544434456665553 5789999999999999888888764
Q ss_pred hhCCCCccEEEEcCCCcHHHHHHHhc--CCcEEEeChhHHHHhhcCCCchhHHHhhhh-hhhhhhcchhhhhhhhcceeE
Q 002135 325 KAFDASIDIGVYDGDTTQKDRMWLRD--NARLLITNPDMLHMSILPYHGQFSRILSNL-RLIAFSLVTTEVYLIFLFIRF 401 (961)
Q Consensus 325 ~~~~~~i~v~~~~Gd~~~~~r~~l~~--~~~IlItTPe~L~~~lL~~~~~~~~~L~~l-~~~~~~~~~~~~~~~~~~i~~ 401 (961)
.. +|.|..+.--....-...... .-.++++|.-.|.-.-.....+.+..|+.+ +|. ....+ .+
T Consensus 343 A~---~I~V~alnK~KYakIss~en~n~krGViFaTYtaLIGEs~~~~~kyrtR~rQllqW~---Ge~fe--------Gv 408 (1300)
T KOG1513|consen 343 AT---GIAVHALNKFKYAKISSKENTNTKRGVIFATYTALIGESQGKGGKYRTRFRQLLQWC---GEDFE--------GV 408 (1300)
T ss_pred CC---CccceehhhcccccccccccCCccceeEEEeeHhhhhhccccCchHHHHHHHHHHHh---hhccc--------ee
Confidence 31 243433222111000000011 135999998877432222233444444443 121 11111 78
Q ss_pred EEEecchhhhc------ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 402 VVIDEAHAYKG------AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 402 VVIDEaH~~~~------~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
||+||||.-.. .-........-.|++.. ++.+++..|||=
T Consensus 409 IvfDECHkAKNL~p~~~~k~TKtG~tVLdLQk~L-----P~ARVVYASATG 454 (1300)
T KOG1513|consen 409 IVFDECHKAKNLVPTAGAKSTKTGKTVLDLQKKL-----PNARVVYASATG 454 (1300)
T ss_pred EEehhhhhhcccccccCCCcCcccHhHHHHHHhC-----CCceEEEeeccC
Confidence 99999998543 10111112222333332 356889999995
No 280
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=89.45 E-value=3 Score=50.66 Aligned_cols=81 Identities=9% Similarity=0.093 Sum_probs=57.2
Q ss_pred HHHHHHHHh-CCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHh-cCCCCeEEEEcccHHHHHHHHHH
Q 002135 242 DNTKSALKS-TGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALS-HDLSSSALYMFPTKALAQDQLRA 319 (961)
Q Consensus 242 ~~l~~~L~~-~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~-~~~~~~aLvl~PtraLa~qq~~~ 319 (961)
+.+-+.|+. +++..+.. ++-...+.+-.++..|==.|||.... +++..+. .-++.+++|.+|.+.-++..+++
T Consensus 229 ~r~~~~lk~~Fdi~~~s~----~~~~~fkqk~tVflVPRR~GKTwivv-~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~e 303 (738)
T PHA03368 229 ERVERFLRTVFNTPLFSD----AAVRHFRQRATVFLVPRRHGKTWFLV-PLIALALATFRGIKIGYTAHIRKATEPVFEE 303 (738)
T ss_pred HHHHHHHHHHcCCccccH----HHHHHhhccceEEEecccCCchhhHH-HHHHHHHHhCCCCEEEEEcCcHHHHHHHHHH
Confidence 344444542 55543332 23334566889999999999998765 6665444 33689999999999999999999
Q ss_pred HHHhHhhC
Q 002135 320 LLAMTKAF 327 (961)
Q Consensus 320 l~~l~~~~ 327 (961)
+...++..
T Consensus 304 I~~~le~~ 311 (738)
T PHA03368 304 IGARLRQW 311 (738)
T ss_pred HHHHHhhh
Confidence 98877654
No 281
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=89.37 E-value=1.1 Score=51.26 Aligned_cols=90 Identities=19% Similarity=0.136 Sum_probs=47.1
Q ss_pred hCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHHHHhHhhCCCCccEEEE-cCCCcHHH
Q 002135 268 LAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRALLAMTKAFDASIDIGVY-DGDTTQKD 344 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l~~l~~~~~~~i~v~~~-~Gd~~~~~ 344 (961)
..|..+++++|||+|||....--+..........++.++. +.+.=+.+|.+.+ ++.++. .+... .+......
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~---a~~~gv--~~~~~~~~~~l~~~ 209 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIF---GKILGV--PVHAVKDGGDLQLA 209 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHH---HHHcCC--ceEecCCcccHHHH
Confidence 3577899999999999987654443333332223444443 1233355554444 444443 33322 22232332
Q ss_pred HHHHhcCCcEEEeChhHH
Q 002135 345 RMWLRDNARLLITNPDML 362 (961)
Q Consensus 345 r~~l~~~~~IlItTPe~L 362 (961)
...+.+..-|+|=|+++.
T Consensus 210 l~~l~~~DlVLIDTaG~~ 227 (374)
T PRK14722 210 LAELRNKHMVLIDTIGMS 227 (374)
T ss_pred HHHhcCCCEEEEcCCCCC
Confidence 233344445777788864
No 282
>PRK08116 hypothetical protein; Validated
Probab=89.35 E-value=3.8 Score=44.99 Aligned_cols=41 Identities=10% Similarity=0.139 Sum_probs=26.4
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
..+++.+++|+|||..+. .+...+.+. +..++|+. ..+|..
T Consensus 115 ~gl~l~G~~GtGKThLa~-aia~~l~~~-~~~v~~~~-~~~ll~ 155 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAA-CIANELIEK-GVPVIFVN-FPQLLN 155 (268)
T ss_pred ceEEEECCCCCCHHHHHH-HHHHHHHHc-CCeEEEEE-HHHHHH
Confidence 359999999999997654 344555443 45565554 444444
No 283
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=89.33 E-value=0.45 Score=56.92 Aligned_cols=43 Identities=26% Similarity=0.257 Sum_probs=37.5
Q ss_pred CCcHHHHHHHHHHh----CCCcEEEEecCCchhHHHHHHHHHHHHhc
Q 002135 255 KLYSHQAESIMASL----AGKNVVVATMTSSGKSLCYNLPVLEALSH 297 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G~~vIv~apTGSGKTla~~Lpil~~l~~ 297 (961)
+||++|.+-+..+. +|+-.|...|||+||||..+-.++..|..
T Consensus 15 ~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~ 61 (821)
T KOG1133|consen 15 TPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRD 61 (821)
T ss_pred CchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHH
Confidence 69999998887754 78999999999999999998888888764
No 284
>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=89.32 E-value=4.2 Score=38.51 Aligned_cols=15 Identities=13% Similarity=0.239 Sum_probs=13.0
Q ss_pred EEEEecCCchhHHHH
Q 002135 273 VVVATMTSSGKSLCY 287 (961)
Q Consensus 273 vIv~apTGSGKTla~ 287 (961)
+++.+|.|+|||...
T Consensus 1 ill~G~~G~GKT~l~ 15 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLA 15 (132)
T ss_dssp EEEESSTTSSHHHHH
T ss_pred CEEECcCCCCeeHHH
Confidence 589999999999754
No 285
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=89.24 E-value=4.4 Score=50.80 Aligned_cols=18 Identities=17% Similarity=0.318 Sum_probs=14.5
Q ss_pred cE-EEEecCCchhHHHHHH
Q 002135 272 NV-VVATMTSSGKSLCYNL 289 (961)
Q Consensus 272 ~v-Iv~apTGSGKTla~~L 289 (961)
++ .|.++||+|||++.-.
T Consensus 782 nvLYIyG~PGTGKTATVK~ 800 (1164)
T PTZ00112 782 QILYISGMPGTGKTATVYS 800 (1164)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 44 5999999999988643
No 286
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=89.18 E-value=3.5 Score=47.75 Aligned_cols=35 Identities=23% Similarity=0.316 Sum_probs=22.4
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcC-CCCeEEEE
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHD-LSSSALYM 306 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~-~~~~aLvl 306 (961)
.++++.+|+|+|||..... ++..+... ++...+++
T Consensus 56 ~~~lI~G~~GtGKT~l~~~-v~~~l~~~~~~~~~v~i 91 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKK-VFEELEEIAVKVVYVYI 91 (394)
T ss_pred CeEEEECCCCCCHHHHHHH-HHHHHHHhcCCcEEEEE
Confidence 5799999999999986433 33333322 23445555
No 287
>PRK14974 cell division protein FtsY; Provisional
Probab=89.04 E-value=6.2 Score=44.76 Aligned_cols=47 Identities=19% Similarity=0.087 Sum_probs=27.6
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc--cHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP--TKALAQDQLRA 319 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P--traLa~qq~~~ 319 (961)
.-+++++++|+|||.+..--+ ..+.. .+.+++++.. .|+-+.+|.+.
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA-~~l~~-~g~~V~li~~Dt~R~~a~eqL~~ 189 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLA-YYLKK-NGFSVVIAAGDTFRAGAIEQLEE 189 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHH-HHHHH-cCCeEEEecCCcCcHHHHHHHHH
Confidence 457899999999998644333 22332 3456655553 34555555443
No 288
>PRK05595 replicative DNA helicase; Provisional
Probab=88.95 E-value=1.7 Score=51.28 Aligned_cols=46 Identities=17% Similarity=0.197 Sum_probs=34.0
Q ss_pred eeEEEEecchhhhcc-----cchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC
Q 002135 399 IRFVVIDEAHAYKGA-----FGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA 447 (961)
Q Consensus 399 i~~VVIDEaH~~~~~-----fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~ 447 (961)
+++||||=.|.+.+. +...+..+.+.|+.++..+ +..+|++|-.-.
T Consensus 312 ~~~vvIDylql~~~~~~~~~r~~~v~~is~~LK~lAke~---~i~vi~lsQLnR 362 (444)
T PRK05595 312 IDMILIDYLQLMSGGKGSESRQQEVSEISRSIKALAKEM---ECPVIALSQLSR 362 (444)
T ss_pred CCEEEEeHHHhccCCCCCccHHHHHHHHHHHHHHHHHHh---CCeEEEeeccCc
Confidence 499999999998642 2245778889999888653 667788776543
No 289
>PRK08840 replicative DNA helicase; Provisional
Probab=88.66 E-value=2.6 Score=50.06 Aligned_cols=44 Identities=18% Similarity=0.166 Sum_probs=32.6
Q ss_pred eeEEEEecchhhhc-c----cchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 399 IRFVVIDEAHAYKG-A----FGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 399 i~~VVIDEaH~~~~-~----fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
+++||||=.|.+.. + +...+..+.+.|+.++..+ +..+|++|--
T Consensus 330 ~~lvvIDYLql~~~~~~~~~r~~ei~~isr~LK~lAkel---~ipVi~LsQL 378 (464)
T PRK08840 330 LSMIMVDYLQLMRVPALSDNRTLEIAEISRSLKALAKEL---NVPVVALSQL 378 (464)
T ss_pred CCEEEEccHHhcCCCCCCCchHHHHHHHHHHHHHHHHHh---CCeEEEEEec
Confidence 49999999999852 1 2345788899999988753 5677877643
No 290
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=88.55 E-value=2.1 Score=52.29 Aligned_cols=23 Identities=9% Similarity=0.122 Sum_probs=18.6
Q ss_pred cEEEEecCCchhHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~ 294 (961)
.+|+++|.|+|||..+.+-+-..
T Consensus 48 a~L~~Gp~GvGKTt~Ar~lAk~L 70 (598)
T PRK09111 48 AFMLTGVRGVGKTTTARILARAL 70 (598)
T ss_pred eEEEECCCCCCHHHHHHHHHHhh
Confidence 59999999999998876655443
No 291
>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=88.45 E-value=4.1 Score=46.89 Aligned_cols=39 Identities=18% Similarity=0.202 Sum_probs=26.3
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEccc
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPT 309 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Pt 309 (961)
.|.-+++.+++|+|||...+.-+.. +.. .+.+++|+.--
T Consensus 81 ~GslvLI~G~pG~GKStLllq~a~~-~a~-~g~~VlYvs~E 119 (372)
T cd01121 81 PGSVILIGGDPGIGKSTLLLQVAAR-LAK-RGGKVLYVSGE 119 (372)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHH-HHh-cCCeEEEEECC
Confidence 3567899999999999765443333 322 24688888753
No 292
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=88.39 E-value=5.2 Score=49.96 Aligned_cols=23 Identities=17% Similarity=0.122 Sum_probs=17.7
Q ss_pred CCCcEEEEecCCchhHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPV 291 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpi 291 (961)
.|+-+.+++|||+|||.+...-+
T Consensus 184 ~g~Vi~lVGpnGvGKTTTiaKLA 206 (767)
T PRK14723 184 QGGVLALVGPTGVGKTTTTAKLA 206 (767)
T ss_pred CCeEEEEECCCCCcHHHHHHHHH
Confidence 35678899999999988765433
No 293
>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=88.26 E-value=0.26 Score=50.42 Aligned_cols=50 Identities=16% Similarity=0.077 Sum_probs=25.4
Q ss_pred EEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 274 VVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 274 Iv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
|++|+-|-|||.+.-+.+-..+.. ...++++.+|+.+=++..++.+...+
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~-~~~~I~vtAP~~~~~~~lf~~~~~~l 50 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQK-GKIRILVTAPSPENVQTLFEFAEKGL 50 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS------EEEE-SS--S-HHHHHCC----
T ss_pred CccCCCCCCHHHHHHHHHHHHHHh-cCceEEEecCCHHHHHHHHHHHHhhc
Confidence 588999999998765544433332 23579999999987776655554433
No 294
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=88.22 E-value=2.7 Score=50.06 Aligned_cols=84 Identities=19% Similarity=0.094 Sum_probs=53.5
Q ss_pred cHHHHHHHHhCCCCCCcH----HHHHHHHHHh--CCCcEEEEecCCchhHHHHHHHHHHHHhcCC----CCeEEEEcccH
Q 002135 241 LDNTKSALKSTGISKLYS----HQAESIMASL--AGKNVVVATMTSSGKSLCYNLPVLEALSHDL----SSSALYMFPTK 310 (961)
Q Consensus 241 ~~~l~~~L~~~g~~~l~~----~Q~~ai~~il--~G~~vIv~apTGSGKTla~~Lpil~~l~~~~----~~~aLvl~Ptr 310 (961)
.+-++..|++.--.+++. +|.+==+.+. .++-+||++..|||||.+++--+.-.+.... +..+|++.|.+
T Consensus 191 dEvL~~~Lek~ss~~mrdIV~TIQkEQneIIR~ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~ 270 (747)
T COG3973 191 DEVLQRVLEKNSSAKMRDIVETIQKEQNEIIRFEKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNR 270 (747)
T ss_pred HHHHHHHHHhccchhHHHHHHHhhHhHHHHHhccCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcH
Confidence 344556776544444443 3444333344 3566999999999999987654444444322 23499999999
Q ss_pred HHHHHHHHHHHHhH
Q 002135 311 ALAQDQLRALLAMT 324 (961)
Q Consensus 311 aLa~qq~~~l~~l~ 324 (961)
-++.-+.+.|-+++
T Consensus 271 vFleYis~VLPeLG 284 (747)
T COG3973 271 VFLEYISRVLPELG 284 (747)
T ss_pred HHHHHHHHhchhhc
Confidence 88887766666553
No 295
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=88.13 E-value=2.4 Score=48.22 Aligned_cols=41 Identities=17% Similarity=0.102 Sum_probs=30.2
Q ss_pred CcHHHHHHHHHHhC--C---CcEEEEecCCchhHHHHHHHHHHHHh
Q 002135 256 LYSHQAESIMASLA--G---KNVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 256 l~~~Q~~ai~~il~--G---~~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
+||+|...+..+.. | +-.++.+|.|.||+..+..-+-..+.
T Consensus 2 ~yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC 47 (342)
T PRK06964 2 LYPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDFAQHLAQGLLC 47 (342)
T ss_pred CCcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 47888888887653 3 35889999999999877655544444
No 296
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.04 E-value=2.7 Score=51.23 Aligned_cols=23 Identities=9% Similarity=0.046 Sum_probs=17.8
Q ss_pred cEEEEecCCchhHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~ 294 (961)
-.|+++|.|.|||....+-+-..
T Consensus 40 A~LFtGP~GvGKTTLAriLAkaL 62 (700)
T PRK12323 40 AYLFTGTRGVGKTTLSRILAKSL 62 (700)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 46999999999998876654443
No 297
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=87.93 E-value=3.4 Score=48.76 Aligned_cols=36 Identities=19% Similarity=0.248 Sum_probs=24.1
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
..+++.+|+|+|||.... .+...+.. .+.+++|+..
T Consensus 142 npl~L~G~~G~GKTHLl~-Ai~~~l~~-~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQ-AAVHALRE-SGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHH-HHHHHHHH-cCCCEEEeeH
Confidence 358999999999997544 33333433 3567777763
No 298
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=87.85 E-value=0.59 Score=55.07 Aligned_cols=113 Identities=18% Similarity=0.179 Sum_probs=58.0
Q ss_pred EecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHh----------hCCCCccEEEEcCCCcHHHH
Q 002135 276 ATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTK----------AFDASIDIGVYDGDTTQKDR 345 (961)
Q Consensus 276 ~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~----------~~~~~i~v~~~~Gd~~~~~r 345 (961)
-+.||||||++..--|++...++ -...|+.+............+..-.+ ..+..+.+--+..-.+
T Consensus 3 ~matgsgkt~~ma~lil~~y~kg-yr~flffvnq~nilekt~~nftd~~s~kylf~e~i~~~d~~i~ikkvn~fse---- 77 (812)
T COG3421 3 EMATGSGKTLVMAGLILECYKKG-YRNFLFFVNQANILEKTKLNFTDSVSSKYLFSENININDENIEIKKVNNFSE---- 77 (812)
T ss_pred ccccCCChhhHHHHHHHHHHHhc-hhhEEEEecchhHHHHHHhhcccchhhhHhhhhhhhcCCceeeeeeecccCc----
Confidence 47899999998877777766543 33466666554444433333221110 0011111111111110
Q ss_pred HHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeE-EEEecchhhhc
Q 002135 346 MWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRF-VVIDEAHAYKG 412 (961)
Q Consensus 346 ~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~-VVIDEaH~~~~ 412 (961)
-.++..|.+||.+.|+..+.... ....-+.++ .+.++ .+-||+|++..
T Consensus 78 --hnd~iei~fttiq~l~~d~~~~k-en~itledl----------------~~~klvfl~deahhln~ 126 (812)
T COG3421 78 --HNDAIEIYFTTIQGLFSDFTRAK-ENAITLEDL----------------KDQKLVFLADEAHHLNT 126 (812)
T ss_pred --cCCceEEEEeehHHHHHHHHhhc-cccccHhhH----------------hhCceEEEechhhhhhh
Confidence 12345799999999987654322 222223333 11144 46699999864
No 299
>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=87.81 E-value=3.2 Score=49.60 Aligned_cols=70 Identities=17% Similarity=0.086 Sum_probs=52.5
Q ss_pred HHHHHHHHHHh-----CC----CcEEEEecCCchhHHHHHHHHHHHHh-c-CCCCeEEEEcccHHHHHHHHHHHHHhHhh
Q 002135 258 SHQAESIMASL-----AG----KNVVVATMTSSGKSLCYNLPVLEALS-H-DLSSSALYMFPTKALAQDQLRALLAMTKA 326 (961)
Q Consensus 258 ~~Q~~ai~~il-----~G----~~vIv~apTGSGKTla~~Lpil~~l~-~-~~~~~aLvl~PtraLa~qq~~~l~~l~~~ 326 (961)
|+|.-.+..++ .| +.+++.-|=+-|||.....-++-.+. . ..+..+++.++++.-|...++.+.++...
T Consensus 1 PwQ~fi~~~i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i~~ 80 (477)
T PF03354_consen 1 PWQKFILRSIFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMIEA 80 (477)
T ss_pred CcHHHHHHHHhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHHHh
Confidence 57887777766 22 35889999999999866554444443 2 34678999999999999999999888765
Q ss_pred C
Q 002135 327 F 327 (961)
Q Consensus 327 ~ 327 (961)
.
T Consensus 81 ~ 81 (477)
T PF03354_consen 81 S 81 (477)
T ss_pred C
Confidence 3
No 300
>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=87.67 E-value=2.9 Score=46.33 Aligned_cols=20 Identities=10% Similarity=0.013 Sum_probs=16.8
Q ss_pred CCcEEEEecCCchhHHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~L 289 (961)
+.++++.+|+|+|||.++..
T Consensus 58 ~~~vll~G~pGTGKT~lA~~ 77 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVALR 77 (284)
T ss_pred CceEEEEcCCCCCHHHHHHH
Confidence 45899999999999987643
No 301
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=87.45 E-value=3.3 Score=47.86 Aligned_cols=38 Identities=16% Similarity=0.155 Sum_probs=26.5
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
.-+++.+|+|+|||--.....-..+...+..+++|+..
T Consensus 114 nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~s 151 (408)
T COG0593 114 NPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTS 151 (408)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccH
Confidence 46899999999999865544444445555667777653
No 302
>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=87.33 E-value=9.5 Score=41.41 Aligned_cols=34 Identities=6% Similarity=0.007 Sum_probs=23.5
Q ss_pred CcHHHHHHHHHHh----CCC-cEEEEecCCchhHHHHHH
Q 002135 256 LYSHQAESIMASL----AGK-NVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 256 l~~~Q~~ai~~il----~G~-~vIv~apTGSGKTla~~L 289 (961)
+.+.+.+++..+. .+. .+++++|+|+|||.....
T Consensus 24 ~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~ 62 (269)
T TIGR03015 24 PSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRN 62 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHH
Confidence 4555666666543 333 688999999999986543
No 303
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=87.26 E-value=1.6 Score=45.02 Aligned_cols=32 Identities=28% Similarity=0.285 Sum_probs=26.5
Q ss_pred CcHHHHHHHHHH-hCCCcEEEEecCCchhHHHH
Q 002135 256 LYSHQAESIMAS-LAGKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 256 l~~~Q~~ai~~i-l~G~~vIv~apTGSGKTla~ 287 (961)
+.+-|.+.+... ..|.++++++|||||||...
T Consensus 10 ~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 10 FSPLQAAYLWLAVEARKNILISGGTGSGKTTLL 42 (186)
T ss_pred CCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHH
Confidence 677788888774 46889999999999999754
No 304
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=87.24 E-value=1.2 Score=52.32 Aligned_cols=41 Identities=22% Similarity=0.305 Sum_probs=30.5
Q ss_pred CcHHHHHHHHHHhCCCc--EEEEecCCchhHHHHHHHHHHHHhc
Q 002135 256 LYSHQAESIMASLAGKN--VVVATMTSSGKSLCYNLPVLEALSH 297 (961)
Q Consensus 256 l~~~Q~~ai~~il~G~~--vIv~apTGSGKTla~~Lpil~~l~~ 297 (961)
+.+.|.+.+..+++..+ +++++|||||||.+. ..++..+..
T Consensus 242 ~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTL-Y~~L~~ln~ 284 (500)
T COG2804 242 MSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTL-YAALSELNT 284 (500)
T ss_pred CCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHH-HHHHHHhcC
Confidence 37888888888877654 789999999999763 445555543
No 305
>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=87.19 E-value=2.2 Score=46.45 Aligned_cols=147 Identities=18% Similarity=0.145 Sum_probs=77.6
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHH-
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMW- 347 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~- 347 (961)
.|.=+++.|.||.|||...+--+.+.... .+..++|++.= .=..+...++-....... .. .+..|.....+...
T Consensus 18 ~g~L~vi~a~pg~GKT~~~l~ia~~~a~~-~~~~vly~SlE-m~~~~l~~R~la~~s~v~--~~-~i~~g~l~~~e~~~~ 92 (259)
T PF03796_consen 18 PGELTVIAARPGVGKTAFALQIALNAALN-GGYPVLYFSLE-MSEEELAARLLARLSGVP--YN-KIRSGDLSDEEFERL 92 (259)
T ss_dssp TT-EEEEEESTTSSHHHHHHHHHHHHHHT-TSSEEEEEESS-S-HHHHHHHHHHHHHTST--HH-HHHCCGCHHHHHHHH
T ss_pred cCcEEEEEecccCCchHHHHHHHHHHHHh-cCCeEEEEcCC-CCHHHHHHHHHHHhhcch--hh-hhhccccCHHHHHHH
Confidence 34568899999999997665555555443 35788888752 112233333333322221 10 01124333333222
Q ss_pred ------HhcCCcEEEeChh----HHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-----
Q 002135 348 ------LRDNARLLITNPD----MLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG----- 412 (961)
Q Consensus 348 ------l~~~~~IlItTPe----~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~----- 412 (961)
+.+..-.+..+|. .+...+ ..+. ....++++||||=+|.+..
T Consensus 93 ~~~~~~l~~~~l~i~~~~~~~~~~i~~~i-----------~~~~------------~~~~~~~~v~IDyl~ll~~~~~~~ 149 (259)
T PF03796_consen 93 QAAAEKLSDLPLYIEDTPSLTIDDIESKI-----------RRLK------------REGKKVDVVFIDYLQLLKSEDSSD 149 (259)
T ss_dssp HHHHHHHHTSEEEEEESSS-BHHHHHHHH-----------HHHH------------HHSTTEEEEEEEEGGGSBTSCSSS
T ss_pred HHHHHHHhhCcEEEECCCCCCHHHHHHHH-----------HHHH------------hhccCCCEEEechHHHhcCCCCCC
Confidence 2222323334433 222211 1110 0002349999999999865
Q ss_pred ccchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 413 AFGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 413 ~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
.....+..+.++|+.++... +..+|++|..-
T Consensus 150 ~~~~~~~~i~~~Lk~lA~~~---~i~vi~~sQln 180 (259)
T PF03796_consen 150 NRRQEIGEISRELKALAKEL---NIPVIALSQLN 180 (259)
T ss_dssp CCHHHHHHHHHHHHHHHHHH---TSEEEEEEEBS
T ss_pred CHHHHHHHHHHHHHHHHHHc---CCeEEEccccC
Confidence 24466788899999888764 56777776653
No 306
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=87.14 E-value=2.3 Score=47.11 Aligned_cols=21 Identities=19% Similarity=0.219 Sum_probs=17.0
Q ss_pred CCCcEEEEecCCchhHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~L 289 (961)
.++.+++++|||+|||....-
T Consensus 193 ~~~vi~~vGptGvGKTTt~~k 213 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAK 213 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHH
Confidence 466888999999999976543
No 307
>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=86.94 E-value=4.5 Score=46.24 Aligned_cols=18 Identities=28% Similarity=0.357 Sum_probs=15.6
Q ss_pred CcEEEEecCCchhHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~ 288 (961)
.+++|.+|+|+|||.+..
T Consensus 41 ~~i~I~G~~GtGKT~l~~ 58 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVTK 58 (365)
T ss_pred CcEEEECCCCCCHHHHHH
Confidence 589999999999997653
No 308
>PRK08506 replicative DNA helicase; Provisional
Probab=86.91 E-value=3.4 Score=49.27 Aligned_cols=144 Identities=17% Similarity=0.214 Sum_probs=75.6
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHH-
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMW- 347 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~- 347 (961)
.|.-+++.|.||.|||.-.+--+.+.. . .+..++|++. -.=..|...++........ .. .+..|+....+...
T Consensus 191 ~G~LivIaarpg~GKT~fal~ia~~~~-~-~g~~V~~fSl-EMs~~ql~~Rlla~~s~v~--~~-~i~~~~l~~~e~~~~ 264 (472)
T PRK08506 191 KGDLIIIAARPSMGKTTLCLNMALKAL-N-QDKGVAFFSL-EMPAEQLMLRMLSAKTSIP--LQ-NLRTGDLDDDEWERL 264 (472)
T ss_pred CCceEEEEcCCCCChHHHHHHHHHHHH-h-cCCcEEEEeC-cCCHHHHHHHHHHHhcCCC--HH-HHhcCCCCHHHHHHH
Confidence 566788999999999976554444443 2 2556666643 2334445555543322211 11 11234444433322
Q ss_pred ------HhcCCcEEEe-Chh----HHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcc---
Q 002135 348 ------LRDNARLLIT-NPD----MLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA--- 413 (961)
Q Consensus 348 ------l~~~~~IlIt-TPe----~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~--- 413 (961)
+.+ ..+.|- +|+ .+...+ ++.... ..++++||||=.+.+...
T Consensus 265 ~~a~~~l~~-~~l~I~d~~~~ti~~I~~~~-------r~l~~~----------------~~~~~lvvIDyLql~~~~~~~ 320 (472)
T PRK08506 265 SDACDELSK-KKLFVYDSGYVNIHQVRAQL-------RKLKSQ----------------HPEIGLAVIDYLQLMSGSGNF 320 (472)
T ss_pred HHHHHHHHc-CCeEEECCCCCCHHHHHHHH-------HHHHHh----------------CCCCCEEEEcChhhccCCCCC
Confidence 222 334442 322 222111 111000 012389999999988631
Q ss_pred --cchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 414 --FGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 414 --fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
....+..+.+.|+.++..+ +..+|++|-.
T Consensus 321 ~~r~~ev~~isr~LK~lAkel---~ipVi~lsQL 351 (472)
T PRK08506 321 KDRHLQISEISRGLKLLAREL---DIPIIALSQL 351 (472)
T ss_pred CCHHHHHHHHHHHHHHHHHHh---CCcEEEEeec
Confidence 2345778888898888653 5677777654
No 309
>PRK06321 replicative DNA helicase; Provisional
Probab=86.81 E-value=8 Score=46.05 Aligned_cols=45 Identities=22% Similarity=0.286 Sum_probs=32.8
Q ss_pred eeEEEEecchhhhcc--------cchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 399 IRFVVIDEAHAYKGA--------FGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 399 i~~VVIDEaH~~~~~--------fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
+++||||=.+.+.+. +...+..+.+.|+.++..+ +..+|++|-.-
T Consensus 337 ~~lvvIDyLql~~~~~~~~~~~~r~~ei~~Isr~LK~lAkel---~vpVi~lsQLn 389 (472)
T PRK06321 337 IQFLIIDYLQLLSGSGNLRNSESRQTEISEISRMLKNLAREL---NIPILCLSQLS 389 (472)
T ss_pred CCEEEEcchHHcCCCCccCCcchHHHHHHHHHHHHHHHHHHh---CCcEEEEeecC
Confidence 489999999998531 2345778889999888653 66778777653
No 310
>PRK10263 DNA translocase FtsK; Provisional
Probab=86.75 E-value=2.9 Score=54.38 Aligned_cols=43 Identities=19% Similarity=0.237 Sum_probs=29.7
Q ss_pred eEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 400 RFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 400 ~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
-+|||||++.+....+..++.++.+|.+..+. ..+.+|+.|-.
T Consensus 1142 IVVIIDE~AdLm~~~~kevE~lI~rLAqkGRA---aGIHLILATQR 1184 (1355)
T PRK10263 1142 IVVLVDEFADLMMTVGKKVEELIARLAQKARA---AGIHLVLATQR 1184 (1355)
T ss_pred EEEEEcChHHHHhhhhHHHHHHHHHHHHHhhh---cCeEEEEEecC
Confidence 47999999988765677777777777766543 24566665444
No 311
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=86.74 E-value=9.4 Score=44.90 Aligned_cols=48 Identities=17% Similarity=0.167 Sum_probs=28.9
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRAL 320 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l 320 (961)
..+++++++|+|||.+..--+. .+.+ .+.+++++. +.|.-+.+|.+.+
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~-~L~~-~g~kV~lV~~D~~R~aa~eQL~~l 145 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLAR-YFKK-KGLKVGLVAADTYRPAAYDQLKQL 145 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHH-HHHH-cCCeEEEecCCCCCHHHHHHHHHH
Confidence 5688999999999987654333 3333 244555554 3355455555444
No 312
>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=86.72 E-value=3 Score=55.03 Aligned_cols=85 Identities=16% Similarity=0.247 Sum_probs=61.6
Q ss_pred HHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccc-cccccc-c
Q 002135 522 VQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNA-LELGID-V 599 (961)
Q Consensus 522 ~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~a-Le~GID-I 599 (961)
...+.+++|.++|+..|.++++.++......... ...+..+||+++..+|....+.+.+|..+|||+|+. +...++ +
T Consensus 118 ~~~g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~-~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~l 196 (1171)
T TIGR01054 118 AKKGKRCYIILPTTLLVIQVAEKISSLAEKAGVG-TVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDEL 196 (1171)
T ss_pred HhcCCeEEEEeCHHHHHHHHHHHHHHHHHhcCCc-eeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHHh
Confidence 3457899999999999999998887755432111 112557999999999999999999999999999983 222222 1
Q ss_pred C-CccEEEE
Q 002135 600 G-HIDVTLH 607 (961)
Q Consensus 600 p-~vd~VI~ 607 (961)
. .++++|.
T Consensus 197 ~~~~~~iVv 205 (1171)
T TIGR01054 197 GPKFDFIFV 205 (1171)
T ss_pred cCCCCEEEE
Confidence 2 5666663
No 313
>PRK05748 replicative DNA helicase; Provisional
Probab=86.71 E-value=3 Score=49.44 Aligned_cols=148 Identities=17% Similarity=0.150 Sum_probs=75.6
Q ss_pred hCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHH
Q 002135 268 LAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMW 347 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~ 347 (961)
..|.-++|.|+||+|||.-.+--+. ......+..++|++ .-.=..|...++........ .. .+..|.....+...
T Consensus 201 ~~G~livIaarpg~GKT~~al~ia~-~~a~~~g~~v~~fS-lEms~~~l~~R~l~~~~~v~--~~-~i~~~~l~~~e~~~ 275 (448)
T PRK05748 201 QPNDLIIVAARPSVGKTAFALNIAQ-NVATKTDKNVAIFS-LEMGAESLVMRMLCAEGNID--AQ-RLRTGQLTDDDWPK 275 (448)
T ss_pred CCCceEEEEeCCCCCchHHHHHHHH-HHHHhCCCeEEEEe-CCCCHHHHHHHHHHHhcCCC--HH-HhhcCCCCHHHHHH
Confidence 3456789999999999965543333 33322345666654 33334445555533222111 10 12234444333221
Q ss_pred H------hcCCcEEEe-Chh----HHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcc---
Q 002135 348 L------RDNARLLIT-NPD----MLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA--- 413 (961)
Q Consensus 348 l------~~~~~IlIt-TPe----~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~--- 413 (961)
+ ..+..+.|. +|+ .+... +..+. .. ..++++||||=.|.+...
T Consensus 276 ~~~a~~~l~~~~~~i~d~~~~ti~~i~~~-----------~r~~~--------~~----~~~~~~vvIDyL~li~~~~~~ 332 (448)
T PRK05748 276 LTIAMGSLSDAPIYIDDTPGIKVTEIRAR-----------CRRLA--------QE----HGGLGLILIDYLQLIQGSGRS 332 (448)
T ss_pred HHHHHHHHhcCCEEEECCCCCCHHHHHHH-----------HHHHH--------Hh----cCCCCEEEEccchhcCCCCCC
Confidence 1 122344443 332 22211 11110 00 002389999999998531
Q ss_pred ---cchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 414 ---FGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 414 ---fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
+...+..+.+.|+.++..+ +..+|++|-.-
T Consensus 333 ~~~r~~~i~~i~~~LK~lAke~---~i~vi~lsQln 365 (448)
T PRK05748 333 GENRQQEVSEISRSLKALAKEL---KVPVIALSQLS 365 (448)
T ss_pred CcCHHHHHHHHHHHHHHHHHHh---CCeEEEecccC
Confidence 2235678888998888653 56777777654
No 314
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=86.71 E-value=9.6 Score=39.08 Aligned_cols=55 Identities=18% Similarity=0.141 Sum_probs=33.5
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhc--------CCCCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSH--------DLSSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~--------~~~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
.|.-+++.+++|+|||...+--+...+.. ..+.++||+..=-. ..+..+++..+.
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~ 93 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALL 93 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHh
Confidence 56779999999999997655444444431 13567888876444 445667776654
No 315
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.66 E-value=5 Score=47.75 Aligned_cols=20 Identities=15% Similarity=0.187 Sum_probs=16.3
Q ss_pred cEEEEecCCchhHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPV 291 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpi 291 (961)
.+|+++|.|+|||..+.+-+
T Consensus 38 ~~Lf~GPpGtGKTTlA~~lA 57 (472)
T PRK14962 38 AYIFAGPRGTGKTTVARILA 57 (472)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 37999999999998776543
No 316
>PRK07004 replicative DNA helicase; Provisional
Probab=86.54 E-value=2.2 Score=50.58 Aligned_cols=44 Identities=18% Similarity=0.256 Sum_probs=32.9
Q ss_pred eeEEEEecchhhhcc-----cchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 399 IRFVVIDEAHAYKGA-----FGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 399 i~~VVIDEaH~~~~~-----fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
+++||||=.+.+.+. +...+..+.+.|+.++..+ +..+|++|--
T Consensus 325 ~~lviIDYLql~~~~~~~~~r~~ei~~Isr~LK~lAkel---~ipVi~lsQL 373 (460)
T PRK07004 325 LGLIIIDYLQLMSGSSQGENRATEISEISRSLKSLAKEL---DVPVIALSQL 373 (460)
T ss_pred CCEEEEChhhhccCCCCCCcHHHHHHHHHHHHHHHHHHh---CCeEEEEecc
Confidence 389999999998631 3345788999999988753 5677877654
No 317
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=86.48 E-value=6.6 Score=48.80 Aligned_cols=22 Identities=9% Similarity=0.040 Sum_probs=16.8
Q ss_pred cEEEEecCCchhHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~ 293 (961)
-+|+++|.|+|||.+..+-+-.
T Consensus 40 AyLFtGPpGvGKTTlAriLAKa 61 (830)
T PRK07003 40 AYLFTGTRGVGKTTLSRIFAKA 61 (830)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3689999999999876654433
No 318
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.43 E-value=3.9 Score=49.16 Aligned_cols=22 Identities=9% Similarity=0.024 Sum_probs=17.4
Q ss_pred cEEEEecCCchhHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~ 293 (961)
-.++++|.|+|||.++.+-+-.
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk~ 61 (509)
T PRK14958 40 AYLFTGTRGVGKTTISRILAKC 61 (509)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 3699999999999887664443
No 319
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.38 E-value=3.6 Score=49.31 Aligned_cols=20 Identities=15% Similarity=0.160 Sum_probs=16.1
Q ss_pred EEEEecCCchhHHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVL 292 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil 292 (961)
+++++|.|+|||.++..-+-
T Consensus 39 ~Lf~GppGtGKTTlA~~lA~ 58 (504)
T PRK14963 39 YLFSGPRGVGKTTTARLIAM 58 (504)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 59999999999988755433
No 320
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=86.32 E-value=3.4 Score=46.63 Aligned_cols=41 Identities=10% Similarity=0.052 Sum_probs=29.3
Q ss_pred CcHHHHHHHHHHh----CCC---cEEEEecCCchhHHHHHHHHHHHHh
Q 002135 256 LYSHQAESIMASL----AGK---NVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 256 l~~~Q~~ai~~il----~G~---~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
+||+|..++..+. +|+ -.++.+|.|.||+..+..-+-..+.
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC 50 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMC 50 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcC
Confidence 5788887777654 443 5779999999999877655544444
No 321
>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=86.14 E-value=2.3 Score=48.86 Aligned_cols=67 Identities=13% Similarity=0.081 Sum_probs=38.1
Q ss_pred eEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC-
Q 002135 220 MVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD- 298 (961)
Q Consensus 220 iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~- 298 (961)
...++.+|...+.+.++ ++++.+.+.+ + ..+..++|++|||||||... -.++..+...
T Consensus 119 ~i~iR~~~~~~~~l~~l--gl~~~~~~~l---------------~---~~~GlilI~G~TGSGKTT~l-~al~~~i~~~~ 177 (372)
T TIGR02525 119 SLTLRVIPSDIPDLKQM--GIEPDLFNSL---------------L---PAAGLGLICGETGSGKSTLA-ASIYQHCGETY 177 (372)
T ss_pred eEEEEeCCCcCCCHHHc--CCCHHHHHHH---------------H---hcCCEEEEECCCCCCHHHHH-HHHHHHHHhcC
Confidence 34456666665555555 4555432222 1 23457999999999999753 3455555433
Q ss_pred CCCeEEEEc
Q 002135 299 LSSSALYMF 307 (961)
Q Consensus 299 ~~~~aLvl~ 307 (961)
+..+++.+=
T Consensus 178 ~~~~IvtiE 186 (372)
T TIGR02525 178 PDRKIVTYE 186 (372)
T ss_pred CCceEEEEe
Confidence 234555543
No 322
>PF13173 AAA_14: AAA domain
Probab=86.04 E-value=3.5 Score=39.57 Aligned_cols=19 Identities=16% Similarity=0.211 Sum_probs=15.7
Q ss_pred CCCcEEEEecCCchhHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~ 287 (961)
+++-+++.+|.|+|||...
T Consensus 1 n~~~~~l~G~R~vGKTtll 19 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLL 19 (128)
T ss_pred CCCeEEEECCCCCCHHHHH
Confidence 3567899999999999753
No 323
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.95 E-value=4.3 Score=48.01 Aligned_cols=22 Identities=9% Similarity=0.019 Sum_probs=17.4
Q ss_pred cEEEEecCCchhHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~ 293 (961)
..++++|.|+|||.++.+-+-.
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~ 63 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKR 63 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHh
Confidence 3799999999999887655443
No 324
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=85.92 E-value=12 Score=40.06 Aligned_cols=51 Identities=14% Similarity=0.165 Sum_probs=33.1
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
.|.-+++.+++|+|||.-...-+...+.+ +.+++|+.=-.. ..+..+.+.+
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~~-~~~~~~~~~~ 74 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALKQ--GKKVYVITTENT-SKSYLKQMES 74 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHhC--CCEEEEEEcCCC-HHHHHHHHHH
Confidence 35678999999999998766555555543 667888775332 2344444444
No 325
>PRK09165 replicative DNA helicase; Provisional
Probab=85.89 E-value=3 Score=50.05 Aligned_cols=44 Identities=14% Similarity=0.168 Sum_probs=31.8
Q ss_pred eeEEEEecchhhhcc-------cchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 399 IRFVVIDEAHAYKGA-------FGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 399 i~~VVIDEaH~~~~~-------fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
+++||||=.|.+... +...+..+.+.|+.++..+ +..+|++|-.
T Consensus 342 ~~lvvIDyLqli~~~~~~~~~~r~~ev~~is~~LK~lAkel---~ipVi~lsQL 392 (497)
T PRK09165 342 LDLLVVDYLQLIRGSSKRSSDNRVQEISEITQGLKALAKEL---NIPVIALSQL 392 (497)
T ss_pred CCEEEEcchHhccCCCCCCCCchHHHHHHHHHHHHHHHHHh---CCeEEEeecc
Confidence 499999999988632 1235788889999887653 5677776654
No 326
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=85.87 E-value=1.1 Score=51.03 Aligned_cols=44 Identities=16% Similarity=0.166 Sum_probs=30.2
Q ss_pred HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHH
Q 002135 267 SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALA 313 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa 313 (961)
+..+++++|++|||||||... -.++..+. +..+++.+-.+.||.
T Consensus 159 v~~~~nilI~G~tGSGKTTll-~aLl~~i~--~~~rivtiEd~~El~ 202 (344)
T PRK13851 159 VVGRLTMLLCGPTGSGKTTMS-KTLISAIP--PQERLITIEDTLELV 202 (344)
T ss_pred HHcCCeEEEECCCCccHHHHH-HHHHcccC--CCCCEEEECCCcccc
Confidence 457889999999999999743 23333332 245677777777664
No 327
>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=85.83 E-value=1.9 Score=44.34 Aligned_cols=46 Identities=20% Similarity=0.236 Sum_probs=27.4
Q ss_pred HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHH
Q 002135 267 SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQD 315 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~q 315 (961)
+-+++++++.+|+|+|||..+..-+-+.+. .+..++|+ +..+|...
T Consensus 44 ~~~~~~l~l~G~~G~GKThLa~ai~~~~~~--~g~~v~f~-~~~~L~~~ 89 (178)
T PF01695_consen 44 IENGENLILYGPPGTGKTHLAVAIANEAIR--KGYSVLFI-TASDLLDE 89 (178)
T ss_dssp -SC--EEEEEESTTSSHHHHHHHHHHHHHH--TT--EEEE-EHHHHHHH
T ss_pred cccCeEEEEEhhHhHHHHHHHHHHHHHhcc--CCcceeEe-ecCceecc
Confidence 446789999999999999876544444443 35566665 44455543
No 328
>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=85.79 E-value=4 Score=48.11 Aligned_cols=45 Identities=20% Similarity=0.227 Sum_probs=31.5
Q ss_pred eeEEEEecchhhhcc-----cchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 399 IRFVVIDEAHAYKGA-----FGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 399 i~~VVIDEaH~~~~~-----fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
+++||||=.+.+... ....+..+.+.|+.++..+ +..+|++|-.-
T Consensus 306 ~~~vvID~l~~i~~~~~~~~r~~~i~~i~~~Lk~lA~e~---~i~vi~lsqln 355 (434)
T TIGR00665 306 LGLIVIDYLQLMSGSGRSENRQQEVSEISRSLKALAKEL---NVPVIALSQLS 355 (434)
T ss_pred CCEEEEcchHhcCCCCCCCCHHHHHHHHHHHHHHHHHHh---CCeEEEEeccC
Confidence 499999999988532 2244677888888887653 56777766543
No 329
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=85.75 E-value=4.9 Score=48.75 Aligned_cols=86 Identities=16% Similarity=0.218 Sum_probs=72.9
Q ss_pred HHHHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecccc-cccc
Q 002135 519 AEMVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNAL-ELGI 597 (961)
Q Consensus 519 ~~l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~aL-e~GI 597 (961)
-..+..|.++...++|---|+.-+..+++.+.. ++.+|....|.+...+|+++.+...+|+++++|.|-+| ...+
T Consensus 305 l~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~----~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V 380 (677)
T COG1200 305 LAAIEAGYQAALMAPTEILAEQHYESLRKWLEP----LGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKV 380 (677)
T ss_pred HHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhh----cCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhcce
Confidence 345678999999999988888888877776654 34569999999999999999999999999999999965 5689
Q ss_pred ccCCccEEEEe
Q 002135 598 DVGHIDVTLHL 608 (961)
Q Consensus 598 DIp~vd~VI~~ 608 (961)
+..++.+||.-
T Consensus 381 ~F~~LgLVIiD 391 (677)
T COG1200 381 EFHNLGLVIID 391 (677)
T ss_pred eecceeEEEEe
Confidence 99999988843
No 330
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=85.70 E-value=3.5 Score=52.26 Aligned_cols=24 Identities=8% Similarity=0.005 Sum_probs=19.0
Q ss_pred cEEEEecCCchhHHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEAL 295 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l 295 (961)
-.|+++|.|+|||.++.+-+-..+
T Consensus 39 a~Lf~Gp~G~GKTt~A~~lAr~L~ 62 (824)
T PRK07764 39 AYLFSGPRGCGKTSSARILARSLN 62 (824)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhC
Confidence 378999999999998877655443
No 331
>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=85.70 E-value=17 Score=39.73 Aligned_cols=37 Identities=19% Similarity=0.253 Sum_probs=27.5
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF 307 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~ 307 (961)
.|.-++|++++|+|||.-.+-.+.+.+.+ +.+++|++
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~--Ge~vlyis 71 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQASR--GNPVLFVT 71 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEE
Confidence 45679999999999998666555554443 66788887
No 332
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=85.64 E-value=3.8 Score=47.06 Aligned_cols=25 Identities=28% Similarity=0.497 Sum_probs=18.2
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHh
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
.|+++.++||+|||.+... +++.+.
T Consensus 43 ~n~~iyG~~GTGKT~~~~~-v~~~l~ 67 (366)
T COG1474 43 SNIIIYGPTGTGKTATVKF-VMEELE 67 (366)
T ss_pred ccEEEECCCCCCHhHHHHH-HHHHHH
Confidence 3799999999999987543 334443
No 333
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=85.58 E-value=1.7 Score=53.57 Aligned_cols=122 Identities=24% Similarity=0.248 Sum_probs=75.5
Q ss_pred HHHHHHHHHHhC-----CCcEEEEecCCchhHHHHHHHHH-HHHhcC------CCCeEEEEcccHHHHHHHHHHHHHhHh
Q 002135 258 SHQAESIMASLA-----GKNVVVATMTSSGKSLCYNLPVL-EALSHD------LSSSALYMFPTKALAQDQLRALLAMTK 325 (961)
Q Consensus 258 ~~Q~~ai~~il~-----G~~vIv~apTGSGKTla~~Lpil-~~l~~~------~~~~aLvl~PtraLa~qq~~~l~~l~~ 325 (961)
.+|...+-..-. -+-.|+.-.-|-|||..-+.-++ +..... .....|+++|+ ++..|+..++.+...
T Consensus 135 ~~~~~~~~~~~~~~~~~~~ggIladd~glgkt~~ti~l~l~~~~~~~~~~~~~~~kttLivcp~-s~~~qW~~elek~~~ 213 (674)
T KOG1001|consen 135 LKQKYRWSLLKSREQQSLRGGILADDMGLGKTVKTIALILKQKLKSKEEDRQKEFKTTLIVCPT-SLLTQWKTELEKVTE 213 (674)
T ss_pred HHHHHHHHhhcccccCccccceEeeccccchHHHHHHHHHhcccCCcchhhccccCceeEecch-HHHHHHHHHHhccCC
Confidence 555555443321 13588999999999987654443 222222 34568888887 566777777744333
Q ss_pred hCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEe
Q 002135 326 AFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVID 405 (961)
Q Consensus 326 ~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVID 405 (961)
...+.+.+|+| ...+ .......++++||++++... .+..+.| -.||+|
T Consensus 214 --~~~l~v~v~~g--r~kd-~~el~~~dVVltTy~il~~~----------~l~~i~w-----------------~Riild 261 (674)
T KOG1001|consen 214 --EDKLSIYVYHG--RTKD-KSELNSYDVVLTTYDILKNS----------PLVKIKW-----------------LRIVLD 261 (674)
T ss_pred --ccceEEEEecc--cccc-cchhcCCceEEeeHHHhhcc----------cccceeE-----------------EEEEec
Confidence 23478899999 1111 12234577999999988521 0111211 679999
Q ss_pred cchhhhc
Q 002135 406 EAHAYKG 412 (961)
Q Consensus 406 EaH~~~~ 412 (961)
|+|.+..
T Consensus 262 ea~~ikn 268 (674)
T KOG1001|consen 262 EAHTIKN 268 (674)
T ss_pred cccccCC
Confidence 9999876
No 334
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=85.41 E-value=4.5 Score=45.76 Aligned_cols=41 Identities=15% Similarity=0.156 Sum_probs=30.6
Q ss_pred CcHHHHHHHHHHhC--CC---cEEEEecCCchhHHHHHHHHHHHHh
Q 002135 256 LYSHQAESIMASLA--GK---NVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 256 l~~~Q~~ai~~il~--G~---~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
+||+|..++..+.. |+ ..++.+|.|.|||..+..-+-..+.
T Consensus 2 ~yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC 47 (325)
T PRK08699 2 IYPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQALLC 47 (325)
T ss_pred CCCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHHHHcC
Confidence 47889988888763 33 5889999999999877665544443
No 335
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=85.39 E-value=7.7 Score=45.30 Aligned_cols=51 Identities=20% Similarity=0.133 Sum_probs=28.6
Q ss_pred hCCCcEEEEecCCchhHHHHHHHHHHHHhc-CCCCeEEEEccc-HHHHHHHHH
Q 002135 268 LAGKNVVVATMTSSGKSLCYNLPVLEALSH-DLSSSALYMFPT-KALAQDQLR 318 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~Lpil~~l~~-~~~~~aLvl~Pt-raLa~qq~~ 318 (961)
..|+.+.+++|||+|||.....-+-..+.. .+....++...+ |.=+.+|..
T Consensus 189 ~~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~ 241 (420)
T PRK14721 189 EQGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLR 241 (420)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHH
Confidence 357789999999999998764333222222 222334444444 333444433
No 336
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.33 E-value=3.4 Score=50.65 Aligned_cols=23 Identities=9% Similarity=0.135 Sum_probs=18.2
Q ss_pred cEEEEecCCchhHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~ 294 (961)
..|+++|.|+|||.++.+-+-..
T Consensus 40 a~Lf~Gp~GvGKttlA~~lAk~L 62 (620)
T PRK14954 40 GYIFSGLRGVGKTTAARVFAKAV 62 (620)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 48899999999999876654443
No 337
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=85.22 E-value=10 Score=45.33 Aligned_cols=21 Identities=19% Similarity=0.235 Sum_probs=17.1
Q ss_pred CCCcEEEEecCCchhHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~L 289 (961)
.|+.+.+++|||+|||....-
T Consensus 349 ~G~vIaLVGPtGvGKTTtaak 369 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAK 369 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHH
Confidence 467888999999999976543
No 338
>PRK04328 hypothetical protein; Provisional
Probab=85.20 E-value=11 Score=40.90 Aligned_cols=52 Identities=13% Similarity=0.173 Sum_probs=33.6
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
.|..+++.+++|+|||.-.+-.+.+.+.+ +.+++|++ +-+-..+..+.++++
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~--ge~~lyis-~ee~~~~i~~~~~~~ 73 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGVYVA-LEEHPVQVRRNMRQF 73 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEE-eeCCHHHHHHHHHHc
Confidence 45679999999999987665556665543 56777776 333344444444443
No 339
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=85.14 E-value=6.5 Score=48.41 Aligned_cols=21 Identities=14% Similarity=0.086 Sum_probs=16.9
Q ss_pred EEEEecCCchhHHHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~ 293 (961)
.|+++|.|+|||.++.+-+-.
T Consensus 41 yLf~Gp~GvGKTTlAr~lAk~ 61 (647)
T PRK07994 41 YLFSGTRGVGKTTIARLLAKG 61 (647)
T ss_pred EEEECCCCCCHHHHHHHHHHh
Confidence 589999999999887665443
No 340
>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=85.13 E-value=5.7 Score=40.03 Aligned_cols=24 Identities=17% Similarity=0.014 Sum_probs=17.6
Q ss_pred cEEEEecCCchhHHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEAL 295 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l 295 (961)
..++.+|.|+||+..+..-+-..+
T Consensus 21 a~L~~G~~g~gk~~~a~~~a~~ll 44 (162)
T PF13177_consen 21 ALLFHGPSGSGKKTLALAFARALL 44 (162)
T ss_dssp EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred eEEEECCCCCCHHHHHHHHHHHHc
Confidence 479999999999877655444433
No 341
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=85.03 E-value=14 Score=45.44 Aligned_cols=66 Identities=11% Similarity=0.141 Sum_probs=49.6
Q ss_pred HHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 262 ESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 262 ~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
..+-...+.+-.++.+|=|.|||.+..+.+...+.. .+.+++|.+|...-+++.+++++..+..++
T Consensus 179 d~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f-~Gi~IlvTAH~~~ts~evF~rv~~~le~lg 244 (752)
T PHA03333 179 DRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISF-LEIDIVVQAQRKTMCLTLYNRVETVVHAYQ 244 (752)
T ss_pred HHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHh-cCCeEEEECCChhhHHHHHHHHHHHHHHhc
Confidence 333334566778999999999998876555543332 367899999999999999999988877543
No 342
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=84.76 E-value=4.9 Score=50.34 Aligned_cols=19 Identities=11% Similarity=0.172 Sum_probs=16.0
Q ss_pred CcEEEEecCCchhHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~L 289 (961)
.++++.+|+|+|||..+..
T Consensus 53 ~slLL~GPpGtGKTTLA~a 71 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARI 71 (725)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 4899999999999986543
No 343
>PRK08760 replicative DNA helicase; Provisional
Probab=84.75 E-value=4.5 Score=48.25 Aligned_cols=145 Identities=13% Similarity=0.104 Sum_probs=75.6
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWL 348 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l 348 (961)
.|.=++|.|.||+|||.-.+--+.....+ .+..++|++. -.=..|...++........ .. .+..|.....+...+
T Consensus 228 ~G~LivIaarPg~GKTafal~iA~~~a~~-~g~~V~~fSl-EMs~~ql~~Rl~a~~s~i~--~~-~i~~g~l~~~e~~~~ 302 (476)
T PRK08760 228 PTDLIILAARPAMGKTTFALNIAEYAAIK-SKKGVAVFSM-EMSASQLAMRLISSNGRIN--AQ-RLRTGALEDEDWARV 302 (476)
T ss_pred CCceEEEEeCCCCChhHHHHHHHHHHHHh-cCCceEEEec-cCCHHHHHHHHHHhhCCCc--HH-HHhcCCCCHHHHHHH
Confidence 45668889999999997554444333222 2445666543 2223455555544332221 11 022344443332211
Q ss_pred ------hcCCcEEEe-Ch----hHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhc-----
Q 002135 349 ------RDNARLLIT-NP----DMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKG----- 412 (961)
Q Consensus 349 ------~~~~~IlIt-TP----e~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~----- 412 (961)
.....+.|. +| +.+... ...+. .-.++++||||=.+.+..
T Consensus 303 ~~a~~~l~~~~l~I~d~~~~t~~~I~~~-----------~r~l~-------------~~~~~~lVvIDyLql~~~~~~~~ 358 (476)
T PRK08760 303 TGAIKMLKETKIFIDDTPGVSPEVLRSK-----------CRRLK-------------REHDLGLIVIDYLQLMSVPGNSE 358 (476)
T ss_pred HHHHHHHhcCCEEEeCCCCCCHHHHHHH-----------HHHHH-------------HhcCCCEEEEecHHhcCCCCCCc
Confidence 122344443 22 222211 11110 001249999999998852
Q ss_pred ccchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 413 AFGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 413 ~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
.+...+..+.+.|+.++..+ +..+|++|-.
T Consensus 359 ~r~~ei~~Isr~LK~lAkel---~ipVi~lsQL 388 (476)
T PRK08760 359 NRATEISEISRSLKGLAKEL---NVPVIALSQL 388 (476)
T ss_pred ccHHHHHHHHHHHHHHHHHh---CCEEEEeecc
Confidence 13456788999999988753 5677777644
No 344
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=84.71 E-value=1.1 Score=47.14 Aligned_cols=21 Identities=14% Similarity=0.216 Sum_probs=17.5
Q ss_pred CcEEEEecCCchhHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPV 291 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpi 291 (961)
.|+|+++|+|.|||.+...-+
T Consensus 49 P~liisGpPG~GKTTsi~~LA 69 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSILCLA 69 (333)
T ss_pred CceEeeCCCCCchhhHHHHHH
Confidence 489999999999999865443
No 345
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=84.70 E-value=0.63 Score=51.14 Aligned_cols=21 Identities=33% Similarity=0.441 Sum_probs=17.8
Q ss_pred hCCCcEEEEecCCchhHHHHH
Q 002135 268 LAGKNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~ 288 (961)
+...|+++.+|||||||+.++
T Consensus 95 L~KSNILLiGPTGsGKTlLAq 115 (408)
T COG1219 95 LSKSNILLIGPTGSGKTLLAQ 115 (408)
T ss_pred eeeccEEEECCCCCcHHHHHH
Confidence 455799999999999998664
No 346
>PRK13342 recombination factor protein RarA; Reviewed
Probab=84.67 E-value=4.8 Score=47.10 Aligned_cols=19 Identities=11% Similarity=0.209 Sum_probs=15.8
Q ss_pred CcEEEEecCCchhHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~L 289 (961)
.++++.+|+|+|||..+..
T Consensus 37 ~~ilL~GppGtGKTtLA~~ 55 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARI 55 (413)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3799999999999976543
No 347
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=84.66 E-value=4.7 Score=49.70 Aligned_cols=22 Identities=9% Similarity=0.093 Sum_probs=17.6
Q ss_pred cEEEEecCCchhHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~ 293 (961)
.+|+++|.|+|||..+.+-+-.
T Consensus 40 a~Lf~GP~GvGKTTlAriLAk~ 61 (709)
T PRK08691 40 AYLLTGTRGVGKTTIARILAKS 61 (709)
T ss_pred EEEEECCCCCcHHHHHHHHHHH
Confidence 5899999999999887654443
No 348
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.45 E-value=3.7 Score=50.25 Aligned_cols=22 Identities=9% Similarity=0.019 Sum_probs=17.4
Q ss_pred cEEEEecCCchhHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~ 293 (961)
.+|+++|.|+|||.++.+-+-.
T Consensus 39 AyLF~GPpGvGKTTlAriLAK~ 60 (702)
T PRK14960 39 AYLFTGTRGVGKTTIARILAKC 60 (702)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4699999999999887654443
No 349
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.32 E-value=4.1 Score=47.40 Aligned_cols=23 Identities=9% Similarity=0.135 Sum_probs=18.0
Q ss_pred cEEEEecCCchhHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~ 294 (961)
..|+++|.|+|||.++..-+-..
T Consensus 40 a~lf~Gp~G~GKtt~A~~~a~~l 62 (397)
T PRK14955 40 GYIFSGLRGVGKTTAARVFAKAV 62 (397)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 48899999999998876654433
No 350
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=83.89 E-value=2.6 Score=48.33 Aligned_cols=56 Identities=23% Similarity=0.247 Sum_probs=34.0
Q ss_pred ceEEeeecCCcccccccCCccccHHHHHHHHhCCCCCCcHHHHHHHHHHh-CCCcEEEEecCCchhHHHHHHHHHHHHh
Q 002135 219 QMVHVEDISARKAVLVEIPDALLDNTKSALKSTGISKLYSHQAESIMASL-AGKNVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 219 ~iv~~~~~p~~~~~f~~l~~~L~~~l~~~L~~~g~~~l~~~Q~~ai~~il-~G~~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
...-++.+|....++.++ ++++.+ .+.+. .+..++|++|||||||... -.++..+.
T Consensus 103 ~~~vlR~l~~~~~~l~~l--~~~~~~-------------------~~~~~~~~glilI~GpTGSGKTTtL-~aLl~~i~ 159 (358)
T TIGR02524 103 IQITIRAIPAEPPKLSKL--DLPAAI-------------------IDAIAPQEGIVFITGATGSGKSTLL-AAIIRELA 159 (358)
T ss_pred eEEEEEecCCCCCCHHHc--CCCHHH-------------------HHHHhccCCEEEEECCCCCCHHHHH-HHHHHHHh
Confidence 345667777766666555 343322 11222 5678999999999999754 33444443
No 351
>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=83.85 E-value=2.2 Score=46.69 Aligned_cols=50 Identities=20% Similarity=0.172 Sum_probs=32.0
Q ss_pred CcHHHHHHHHHHhC--CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc
Q 002135 256 LYSHQAESIMASLA--GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF 307 (961)
Q Consensus 256 l~~~Q~~ai~~il~--G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~ 307 (961)
+.+.|.+.+..++. +..++++++||||||... -.++..+.. +..+++.+-
T Consensus 64 ~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i~~-~~~~iitiE 115 (264)
T cd01129 64 LKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTL-YSALSELNT-PEKNIITVE 115 (264)
T ss_pred CCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhhCC-CCCeEEEEC
Confidence 46667777776554 346899999999999754 334444432 334555554
No 352
>PRK05636 replicative DNA helicase; Provisional
Probab=83.69 E-value=4.6 Score=48.41 Aligned_cols=44 Identities=14% Similarity=0.199 Sum_probs=32.7
Q ss_pred eeEEEEecchhhhcc-----cchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 399 IRFVVIDEAHAYKGA-----FGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 399 i~~VVIDEaH~~~~~-----fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
+++||||=.|.+... ....+..+.+.|+.++..+ +..+|++|--
T Consensus 376 ~~lvvIDYLql~~~~~~~~~r~~ei~~isr~LK~lAkel---~ipVi~lsQL 424 (505)
T PRK05636 376 LKLIVVDYLQLMSSGKRVESRQQEVSEFSRQLKLLAKEL---DVPLIAISQL 424 (505)
T ss_pred CCEEEEcchHhcCCCCCCCcHHHHHHHHHHHHHHHHHHh---CCeEEEEeec
Confidence 499999999998632 2246778899999988753 5677777643
No 353
>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP. AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding
Probab=83.59 E-value=14 Score=42.37 Aligned_cols=49 Identities=14% Similarity=0.129 Sum_probs=29.8
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
.+.+.+.++.|.|||...-+. ++.+-...+.++ ...+-+.+..+++.++
T Consensus 62 ~~GlYl~G~vG~GKT~Lmd~f-~~~lp~~~k~R~----HFh~Fm~~vh~~l~~~ 110 (362)
T PF03969_consen 62 PKGLYLWGPVGRGKTMLMDLF-YDSLPIKRKRRV----HFHEFMLDVHSRLHQL 110 (362)
T ss_pred CceEEEECCCCCchhHHHHHH-HHhCCccccccc----cccHHHHHHHHHHHHH
Confidence 467999999999999843322 222221112221 3457777777777765
No 354
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.57 E-value=5.7 Score=45.62 Aligned_cols=19 Identities=16% Similarity=0.149 Sum_probs=15.7
Q ss_pred EEEEecCCchhHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPV 291 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpi 291 (961)
+++.+|.|+|||..+..-+
T Consensus 41 ~L~~Gp~G~GKTtla~~la 59 (363)
T PRK14961 41 WLLSGTRGVGKTTIARLLA 59 (363)
T ss_pred EEEecCCCCCHHHHHHHHH
Confidence 6899999999998765543
No 355
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=83.46 E-value=0.87 Score=54.19 Aligned_cols=48 Identities=23% Similarity=0.213 Sum_probs=37.8
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
.|+++.||||||||..+.+|.+-. . ...+++.-|--+|.......+++
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll~---~-~~s~iV~D~KgEl~~~t~~~r~~ 92 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLLN---Y-PGSMIVTDPKGELYEKTAGYRKK 92 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHHh---c-cCCEEEEECCCcHHHHHHHHHHH
Confidence 589999999999999999997632 2 23788888998988876655554
No 356
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=83.34 E-value=5.4 Score=44.87 Aligned_cols=43 Identities=14% Similarity=0.067 Sum_probs=30.9
Q ss_pred CCcHHHHHHHHHHh----CCC---cEEEEecCCchhHHHHHHHHHHHHhc
Q 002135 255 KLYSHQAESIMASL----AGK---NVVVATMTSSGKSLCYNLPVLEALSH 297 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G~---~vIv~apTGSGKTla~~Lpil~~l~~ 297 (961)
.+||+|...+..+. +|+ -.++++|.|.||+..+..-+-..+..
T Consensus 3 ~~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~ 52 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQ 52 (319)
T ss_pred cCcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 57888888887754 343 58999999999997765555444443
No 357
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.22 E-value=7.2 Score=47.56 Aligned_cols=21 Identities=10% Similarity=0.077 Sum_probs=17.1
Q ss_pred EEEEecCCchhHHHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~ 293 (961)
.|+++|.|+|||.++.+-+-.
T Consensus 38 ~Lf~Gp~G~GKTt~A~~lAk~ 58 (584)
T PRK14952 38 YLFSGPRGCGKTSSARILARS 58 (584)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999987665543
No 358
>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=83.16 E-value=22 Score=41.66 Aligned_cols=49 Identities=16% Similarity=0.096 Sum_probs=29.6
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRALLA 322 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l~~ 322 (961)
-+.+++++|+|||.+..--+. .+. ..+.+++++. |.|.-|.+|.+.+..
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~-~l~-~~G~kV~lV~~D~~R~aA~eQLk~~a~ 152 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAY-YYQ-RKGFKPCLVCADTFRAGAFDQLKQNAT 152 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHH-HHH-HCCCCEEEEcCcccchhHHHHHHHHhh
Confidence 477899999999865442222 222 2355655554 457777776655443
No 359
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.13 E-value=4.9 Score=50.79 Aligned_cols=20 Identities=15% Similarity=0.051 Sum_probs=16.3
Q ss_pred EEEEecCCchhHHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVL 292 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil 292 (961)
.|+++|.|+|||.++.+-+-
T Consensus 41 yLFtGPpGtGKTTLARiLAk 60 (944)
T PRK14949 41 YLFTGTRGVGKTSLARLFAK 60 (944)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58999999999988765443
No 360
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=83.10 E-value=6.4 Score=43.94 Aligned_cols=28 Identities=14% Similarity=0.007 Sum_probs=21.1
Q ss_pred CCc-EEEEecCCchhHHHHHHHHHHHHhc
Q 002135 270 GKN-VVVATMTSSGKSLCYNLPVLEALSH 297 (961)
Q Consensus 270 G~~-vIv~apTGSGKTla~~Lpil~~l~~ 297 (961)
..+ +++.+|.|+|||.++...+-..+..
T Consensus 23 ~~halL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 23 LPHALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred CCceeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 456 9999999999999876655554443
No 361
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=83.05 E-value=0.68 Score=49.56 Aligned_cols=43 Identities=28% Similarity=0.414 Sum_probs=30.9
Q ss_pred eeecCCcccccccCCccccHHHHHH-HHhCCCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHH
Q 002135 223 VEDISARKAVLVEIPDALLDNTKSA-LKSTGISKLYSHQAESIMASLAGKNVVVATMTSSGKSLC 286 (961)
Q Consensus 223 ~~~~p~~~~~f~~l~~~L~~~l~~~-L~~~g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla 286 (961)
++.+..+.++|+++ .||+.+.+. +.++|. +|++++||||||.+
T Consensus 100 lRrI~~~IPt~eeL--~LPevlk~la~~kRGL-------------------viiVGaTGSGKSTt 143 (375)
T COG5008 100 LRRIETKIPTFEEL--KLPEVLKDLALAKRGL-------------------VIIVGATGSGKSTT 143 (375)
T ss_pred hhhhhccCCcHHhc--CCcHHHHHhhcccCce-------------------EEEECCCCCCchhh
Confidence 45667777889888 577765442 233443 89999999999975
No 362
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=82.91 E-value=1.4 Score=49.99 Aligned_cols=43 Identities=16% Similarity=0.278 Sum_probs=27.9
Q ss_pred HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHH
Q 002135 267 SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKAL 312 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraL 312 (961)
+..+++++|+++||||||.. +-.++..+-. ..+++.+=-+.||
T Consensus 157 v~~~~nili~G~tgSGKTTl-l~aL~~~ip~--~~ri~tiEd~~El 199 (332)
T PRK13900 157 VISKKNIIISGGTSTGKTTF-TNAALREIPA--IERLITVEDAREI 199 (332)
T ss_pred HHcCCcEEEECCCCCCHHHH-HHHHHhhCCC--CCeEEEecCCCcc
Confidence 45678999999999999964 2334444432 3566665444444
No 363
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=82.51 E-value=3.1 Score=45.75 Aligned_cols=25 Identities=8% Similarity=-0.150 Sum_probs=20.0
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~ 294 (961)
..+.+..+|.|+|||-++.+.+-+.
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L 81 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARAL 81 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHh
Confidence 3589999999999999877655443
No 364
>PRK14701 reverse gyrase; Provisional
Probab=82.27 E-value=6.6 Score=53.42 Aligned_cols=67 Identities=12% Similarity=0.201 Sum_probs=56.5
Q ss_pred CCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccc
Q 002135 524 HGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNA 592 (961)
Q Consensus 524 ~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~a 592 (961)
.|.+++|.++|+..+.++...++....... ....+..+||+++..++.++++.+++|+.+|||+|+-
T Consensus 121 ~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~--~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPg 187 (1638)
T PRK14701 121 KGKKCYIILPTTLLVKQTVEKIESFCEKAN--LDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQ 187 (1638)
T ss_pred cCCeEEEEECHHHHHHHHHHHHHHHHhhcC--CceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCc
Confidence 577999999999999999988877544321 3346788999999999999999999999999999984
No 365
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=82.27 E-value=4.6 Score=45.86 Aligned_cols=42 Identities=12% Similarity=0.148 Sum_probs=30.4
Q ss_pred CCcHHHHHHHHHHh----CCC---cEEEEecCCchhHHHHHHHHHHHHh
Q 002135 255 KLYSHQAESIMASL----AGK---NVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 255 ~l~~~Q~~ai~~il----~G~---~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
.+||+|..++..+. +|+ -.++.+|.|+||+..+.--+-..+.
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC 50 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMC 50 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcC
Confidence 46888888888764 343 5789999999999876654444443
No 366
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=82.26 E-value=2.6 Score=52.41 Aligned_cols=85 Identities=16% Similarity=0.180 Sum_probs=61.6
Q ss_pred CCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcC--CCCeEEEEcccHHHHHHHHHHHHHhHhh-CCCCc
Q 002135 255 KLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHD--LSSSALYMFPTKALAQDQLRALLAMTKA-FDASI 331 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~--~~~~aLvl~PtraLa~qq~~~l~~l~~~-~~~~i 331 (961)
.|++-|.+|+... ...++|.|+.|||||.+-.--+...+... ....+|.++=|+..|..+..++.++... ....+
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~~~~ 79 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLPAAEGL 79 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCcccccCc
Confidence 5789999998775 67899999999999988766555555542 1235888888888899999999888752 11125
Q ss_pred cEEEEcCCCc
Q 002135 332 DIGVYDGDTT 341 (961)
Q Consensus 332 ~v~~~~Gd~~ 341 (961)
.++++|+-..
T Consensus 80 ~v~TfHs~~~ 89 (655)
T COG0210 80 TVGTFHSFAL 89 (655)
T ss_pred EEeeHHHHHH
Confidence 5666665443
No 367
>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=82.12 E-value=11 Score=42.38 Aligned_cols=44 Identities=23% Similarity=0.221 Sum_probs=30.3
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
.|+-+.|.+|+|||||...+-.+.+... .+.+++||..-..+..
T Consensus 54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~--~g~~v~yId~E~~~~~ 97 (321)
T TIGR02012 54 RGRIIEIYGPESSGKTTLALHAIAEAQK--AGGTAAFIDAEHALDP 97 (321)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEEcccchhHH
Confidence 4567889999999999765544444433 3677888866554444
No 368
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=82.08 E-value=0.81 Score=52.99 Aligned_cols=47 Identities=23% Similarity=0.207 Sum_probs=36.4
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
|++++||||||||.++.+|.+-. -...++++-|--++........++
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~----~~~s~vv~D~Kge~~~~t~~~r~~ 47 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLT----WPGSVVVLDPKGENFELTSEHRRA 47 (384)
T ss_pred CeeEecCCCCCCccEEEccchhc----CCCCEEEEccchhHHHHHHHHHHH
Confidence 58999999999999998887653 246788889998888765544443
No 369
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=82.08 E-value=9.8 Score=43.76 Aligned_cols=26 Identities=12% Similarity=-0.060 Sum_probs=19.4
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhc
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSH 297 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~ 297 (961)
-.++.+|.|+||+..+..-+-..+.+
T Consensus 43 A~Lf~Gp~G~GK~~lA~~~A~~Llc~ 68 (365)
T PRK07471 43 AWLIGGPQGIGKATLAYRMARFLLAT 68 (365)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHhCC
Confidence 48999999999998766555444443
No 370
>PF12846 AAA_10: AAA-like domain
Probab=82.06 E-value=1.9 Score=47.34 Aligned_cols=43 Identities=19% Similarity=0.247 Sum_probs=29.7
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
+.|++|+++||||||.... .++..+.. .+..++++=|..+...
T Consensus 1 n~h~~i~G~tGsGKT~~~~-~l~~~~~~-~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK-NLLEQLIR-RGPRVVIFDPKGDYSP 43 (304)
T ss_pred CCeEEEECCCCCcHHHHHH-HHHHHHHH-cCCCEEEEcCCchHHH
Confidence 3689999999999998776 44444433 2567777777654444
No 371
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=82.00 E-value=16 Score=40.71 Aligned_cols=150 Identities=19% Similarity=0.176 Sum_probs=83.7
Q ss_pred cHHHHHHHHHH-hCCCcEEEEecCCchhHHHHHHHHHHHHh-----c---CCCCeEEEEcccHHHH-HHHHHHHHHhHhh
Q 002135 257 YSHQAESIMAS-LAGKNVVVATMTSSGKSLCYNLPVLEALS-----H---DLSSSALYMFPTKALA-QDQLRALLAMTKA 326 (961)
Q Consensus 257 ~~~Q~~ai~~i-l~G~~vIv~apTGSGKTla~~Lpil~~l~-----~---~~~~~aLvl~PtraLa-~qq~~~l~~l~~~ 326 (961)
++.|-+.|+.. ..|..+++.++.|.|||+..+.-.+.... . ...+++|||.- +|- .+..++++..+..
T Consensus 75 rs~~P~lId~~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvsl--El~re~~L~Rl~~v~a~ 152 (402)
T COG3598 75 RSNSPQLIDEFFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSL--ELYREDILERLEPVRAR 152 (402)
T ss_pred cccChhhhhHHhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEe--ccChHHHHHHHHHHHHH
Confidence 45566777664 46677888899999999876544443221 1 11356777752 222 3466777777665
Q ss_pred CCCCccEEEEcCCCcHHHHH-HH--hcCCc--EEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeE
Q 002135 327 FDASIDIGVYDGDTTQKDRM-WL--RDNAR--LLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRF 401 (961)
Q Consensus 327 ~~~~i~v~~~~Gd~~~~~r~-~l--~~~~~--IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~ 401 (961)
++. ++.+-+. .+ ..++. -=+..| .|+ .++...+... ..++
T Consensus 153 mgL----------sPadvrn~dltd~~Gaa~~~d~l~p-kl~-------rRfek~~~Q~-----------------rp~~ 197 (402)
T COG3598 153 MGL----------SPADVRNMDLTDVSGAADESDVLSP-KLY-------RRFEKILEQK-----------------RPDF 197 (402)
T ss_pred cCC----------ChHhhhheeccccccCCCccccccH-HHH-------HHHHHHHHHh-----------------CCCe
Confidence 542 1111110 00 00100 011123 332 1222333333 2389
Q ss_pred EEEecchhhhc-c--cchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 402 VVIDEAHAYKG-A--FGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 402 VVIDEaH~~~~-~--fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
||||=.=.... . ...++...++.++++|.. ....+|.++-|.
T Consensus 198 vViDp~v~f~~G~s~s~vqv~~fi~~~rkla~~---l~caIiy~hHts 242 (402)
T COG3598 198 VVIDPFVAFYEGKSISDVQVKEFIKKTRKLARN---LECAIIYIHHTS 242 (402)
T ss_pred EEEcchhhhcCCccchhHHHHHHHHHHHHHHHh---cCCeEEEEeccc
Confidence 99998665543 1 457888888999998865 356788888875
No 372
>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=81.90 E-value=12 Score=39.73 Aligned_cols=51 Identities=18% Similarity=0.180 Sum_probs=32.7
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
.|..+++.+++|+|||...+--+...+.+ +.+++|++--. -..+..+++.+
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~~--g~~~~y~s~e~-~~~~l~~~~~~ 65 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLKN--GEKAMYISLEE-REERILGYAKS 65 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CHHHHHHHHHH
Confidence 35678999999999987554445554443 66788876543 34445455444
No 373
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=81.82 E-value=9.7 Score=43.53 Aligned_cols=21 Identities=10% Similarity=-0.091 Sum_probs=16.3
Q ss_pred cEEEEecCCchhHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVL 292 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil 292 (961)
-.++++|.|+|||..+..-+-
T Consensus 47 a~L~~G~~G~GKttlA~~lA~ 67 (351)
T PRK09112 47 ALLFEGPEGIGKATLAFHLAN 67 (351)
T ss_pred eEeeECCCCCCHHHHHHHHHH
Confidence 489999999999976654333
No 374
>PRK04195 replication factor C large subunit; Provisional
Probab=81.78 E-value=9 Score=45.83 Aligned_cols=19 Identities=16% Similarity=0.137 Sum_probs=16.1
Q ss_pred CCcEEEEecCCchhHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~ 288 (961)
.+.+++.+|+|+|||....
T Consensus 39 ~~~lLL~GppG~GKTtla~ 57 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAH 57 (482)
T ss_pred CCeEEEECCCCCCHHHHHH
Confidence 4689999999999997654
No 375
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=81.77 E-value=8.2 Score=46.31 Aligned_cols=24 Identities=8% Similarity=0.134 Sum_probs=18.9
Q ss_pred CcEEEEecCCchhHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~ 294 (961)
+..++++|.|+|||.++.+-+-..
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~L 67 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAV 67 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 369999999999998876655443
No 376
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=81.61 E-value=40 Score=37.90 Aligned_cols=50 Identities=18% Similarity=0.140 Sum_probs=34.1
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHHHHh
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRALLAM 323 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l~~l 323 (961)
-+++++-.|+|||.+-- =+.+.....+.++++.+ -.||=|.+|.+.|-+.
T Consensus 141 Vil~vGVNG~GKTTTIa--KLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er 192 (340)
T COG0552 141 VILFVGVNGVGKTTTIA--KLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGER 192 (340)
T ss_pred EEEEEecCCCchHhHHH--HHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHH
Confidence 46788999999998632 23333334466776665 4789999888777553
No 377
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.47 E-value=9.7 Score=46.06 Aligned_cols=20 Identities=15% Similarity=0.059 Sum_probs=16.5
Q ss_pred EEEEecCCchhHHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVL 292 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil 292 (961)
.|+++|.|+|||..+.+-+-
T Consensus 41 ~Lf~Gp~GvGKTTlAr~lAk 60 (546)
T PRK14957 41 YLFTGTRGVGKTTLGRLLAK 60 (546)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 78999999999988766543
No 378
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=81.23 E-value=3 Score=45.37 Aligned_cols=49 Identities=20% Similarity=0.112 Sum_probs=33.1
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRAL 320 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l 320 (961)
+++++++.+|+|+|||..+.--+.+. .. .+.+++ ++++.+|+++....+
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l-~~-~g~sv~-f~~~~el~~~Lk~~~ 152 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNEL-LK-AGISVL-FITAPDLLSKLKAAF 152 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHH-HH-cCCeEE-EEEHHHHHHHHHHHH
Confidence 78899999999999998654444443 32 345555 556777777654443
No 379
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.09 E-value=8.1 Score=47.39 Aligned_cols=23 Identities=9% Similarity=0.029 Sum_probs=18.0
Q ss_pred EEEEecCCchhHHHHHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVLEAL 295 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~~l 295 (961)
.++++|.|+|||.++.+-+-...
T Consensus 41 ~Lf~Gp~GvGKTtlAr~lAk~Ln 63 (618)
T PRK14951 41 YLFTGTRGVGKTTVSRILAKSLN 63 (618)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 59999999999998876554433
No 380
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=80.99 E-value=7.6 Score=45.11 Aligned_cols=22 Identities=14% Similarity=0.081 Sum_probs=17.0
Q ss_pred CcEEEEecCCchhHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVL 292 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil 292 (961)
+.+++.+|.|+|||..+..-+-
T Consensus 37 ha~Lf~Gp~G~GKt~lA~~lA~ 58 (394)
T PRK07940 37 HAWLFTGPPGSGRSVAARAFAA 58 (394)
T ss_pred eEEEEECCCCCcHHHHHHHHHH
Confidence 4589999999999987654433
No 381
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=80.63 E-value=17 Score=45.89 Aligned_cols=21 Identities=14% Similarity=0.047 Sum_probs=17.1
Q ss_pred CCcEEEEecCCchhHHHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLP 290 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lp 290 (961)
..|+|+.+|+|+|||.....-
T Consensus 203 ~~n~lL~G~pG~GKT~l~~~l 223 (731)
T TIGR02639 203 KNNPLLVGEPGVGKTAIAEGL 223 (731)
T ss_pred CCceEEECCCCCCHHHHHHHH
Confidence 358999999999999875443
No 382
>PF05729 NACHT: NACHT domain
Probab=80.26 E-value=13 Score=36.55 Aligned_cols=43 Identities=14% Similarity=0.257 Sum_probs=24.3
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCC-CC---eEEEEcccHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDL-SS---SALYMFPTKALAQD 315 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~-~~---~aLvl~PtraLa~q 315 (961)
-++|.++.|+|||....- +...+.... .. ...+..+.+.....
T Consensus 2 ~l~I~G~~G~GKStll~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 48 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRK-LAQQLAEEEPPPSKFPYPFFFSLRDISDS 48 (166)
T ss_pred EEEEECCCCCChHHHHHH-HHHHHHhcCcccccceEEEEEeehhhhhc
Confidence 378999999999986543 333333221 11 34445555555443
No 383
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=80.21 E-value=5.9 Score=44.50 Aligned_cols=47 Identities=17% Similarity=0.080 Sum_probs=27.6
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRA 319 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~ 319 (961)
..+|+.+|.|+|||..+-+-+-. .+.+.-+.+=++-|++=.+|....
T Consensus 163 pSmIlWGppG~GKTtlArlia~t--sk~~SyrfvelSAt~a~t~dvR~i 209 (554)
T KOG2028|consen 163 PSMILWGPPGTGKTTLARLIAST--SKKHSYRFVELSATNAKTNDVRDI 209 (554)
T ss_pred CceEEecCCCCchHHHHHHHHhh--cCCCceEEEEEeccccchHHHHHH
Confidence 37999999999999765443322 122233455555555555544333
No 384
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=80.17 E-value=8.9 Score=49.40 Aligned_cols=83 Identities=16% Similarity=0.149 Sum_probs=70.0
Q ss_pred HHHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc-cccccccc
Q 002135 521 MVQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN-ALELGIDV 599 (961)
Q Consensus 521 l~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~-aLe~GIDI 599 (961)
.+..|+++.|.++|-=-|++-++.+++.+.. ..-+|..+.-=.+..+...+++.+++|+++|||.|- .|.-+|-.
T Consensus 639 AV~~GKQVAvLVPTTlLA~QHy~tFkeRF~~----fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kdv~F 714 (1139)
T COG1197 639 AVMDGKQVAVLVPTTLLAQQHYETFKERFAG----FPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKDVKF 714 (1139)
T ss_pred HhcCCCeEEEEcccHHhHHHHHHHHHHHhcC----CCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechHhhCCCcEE
Confidence 3457899999999999999988888876643 444667777677899999999999999999999998 77888999
Q ss_pred CCccEEEE
Q 002135 600 GHIDVTLH 607 (961)
Q Consensus 600 p~vd~VI~ 607 (961)
.++.++|.
T Consensus 715 kdLGLlII 722 (1139)
T COG1197 715 KDLGLLII 722 (1139)
T ss_pred ecCCeEEE
Confidence 99999884
No 385
>CHL00095 clpC Clp protease ATP binding subunit
Probab=80.05 E-value=17 Score=46.49 Aligned_cols=38 Identities=13% Similarity=0.336 Sum_probs=24.8
Q ss_pred eeeEEEEEEeChhhHHhhh-ccCChhhHHHHHHHHHHhh
Q 002135 873 YESQAVWIQVPQSVKAVVE-QNFSFRSGLHAASHALLHV 910 (961)
Q Consensus 873 ~~t~~~w~~~~~~~~~~~~-~~~~~~~~~ha~~ha~~~~ 910 (961)
+..+|+=+++.+.+...+. .+.+..-|...+..++-..
T Consensus 739 l~~~~i~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~~ 777 (821)
T CHL00095 739 LNEQGIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMRL 777 (821)
T ss_pred HHHCCcEEEECHHHHHHHHHhcCCCCCChhhHHHHHHHH
Confidence 3456788899999888776 5555554556555555443
No 386
>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=80.02 E-value=7.1 Score=41.40 Aligned_cols=52 Identities=15% Similarity=0.187 Sum_probs=32.8
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
.|..++|.+++|||||.-.+--+.+.+.+. +.+++|++- .+-.++..+.+.+
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~-ge~vlyvs~-ee~~~~l~~~~~s 69 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNF-GEKVLYVSF-EEPPEELIENMKS 69 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHH-T--EEEEES-SS-HHHHHHHHHT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhc-CCcEEEEEe-cCCHHHHHHHHHH
Confidence 356899999999999987666666666541 456777773 3333444445444
No 387
>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=79.91 E-value=1.8 Score=47.40 Aligned_cols=51 Identities=20% Similarity=0.225 Sum_probs=31.8
Q ss_pred HHHHHHH-HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHH
Q 002135 260 QAESIMA-SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKAL 312 (961)
Q Consensus 260 Q~~ai~~-il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraL 312 (961)
..+.+.. +..+.+++++++||||||... -.++..+... ..+++.+-.+.|+
T Consensus 116 ~~~~l~~~v~~~~~ili~G~tGSGKTT~l-~all~~i~~~-~~~iv~iEd~~E~ 167 (270)
T PF00437_consen 116 IAEFLRSAVRGRGNILISGPTGSGKTTLL-NALLEEIPPE-DERIVTIEDPPEL 167 (270)
T ss_dssp HHHHHHHCHHTTEEEEEEESTTSSHHHHH-HHHHHHCHTT-TSEEEEEESSS-S
T ss_pred HHHHHhhccccceEEEEECCCccccchHH-HHHhhhcccc-ccceEEeccccce
Confidence 3344443 345789999999999999754 4445554433 3566666655443
No 388
>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=79.77 E-value=19 Score=38.00 Aligned_cols=41 Identities=20% Similarity=0.148 Sum_probs=27.5
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcC----CCCeEEEEcccH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHD----LSSSALYMFPTK 310 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~----~~~~aLvl~Ptr 310 (961)
|+-+.+.+++|+|||...+.-+...+... .+..++|+..-.
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 56788999999999986655444443321 126788887643
No 389
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=79.75 E-value=50 Score=37.28 Aligned_cols=50 Identities=16% Similarity=0.122 Sum_probs=29.6
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRAL 320 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l 320 (961)
.++-+.+++|+|+|||....--+.. +. ..+.+++++. +.++-+.+|...+
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~-l~-~~g~~V~Li~~D~~r~~a~eql~~~ 164 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHK-YK-AQGKKVLLAAGDTFRAAAIEQLQVW 164 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHH-HH-hcCCeEEEEecCccchhhHHHHHHH
Confidence 3567889999999999764332221 22 2355666554 3455555555544
No 390
>PRK09354 recA recombinase A; Provisional
Probab=79.73 E-value=19 Score=41.07 Aligned_cols=44 Identities=25% Similarity=0.224 Sum_probs=32.2
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
.|+-+.|.+|+|||||...+..+.+... .+..++||..-.++-.
T Consensus 59 ~G~IteI~G~~GsGKTtLal~~~~~~~~--~G~~~~yId~E~s~~~ 102 (349)
T PRK09354 59 RGRIVEIYGPESSGKTTLALHAIAEAQK--AGGTAAFIDAEHALDP 102 (349)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEECCccchHH
Confidence 4567889999999999876655555443 3678899887666554
No 391
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=79.64 E-value=9 Score=46.22 Aligned_cols=74 Identities=15% Similarity=0.177 Sum_probs=56.5
Q ss_pred EEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc-----ccccc-cccCC
Q 002135 528 CIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN-----ALELG-IDVGH 601 (961)
Q Consensus 528 ~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~-----aLe~G-IDIp~ 601 (961)
+||.++||+.|.++++.+........ ...+..+.||.+...+.. .++.| .+|||||+ .+++| +|+..
T Consensus 102 aLil~PTRELA~Qi~~~~~~~~~~~~---~~~~~~i~GG~~~~~q~~---~l~~~-~~ivVaTPGRllD~i~~~~l~l~~ 174 (513)
T COG0513 102 ALILAPTRELAVQIAEELRKLGKNLG---GLRVAVVYGGVSIRKQIE---ALKRG-VDIVVATPGRLLDLIKRGKLDLSG 174 (513)
T ss_pred eEEECCCHHHHHHHHHHHHHHHhhcC---CccEEEEECCCCHHHHHH---HHhcC-CCEEEECccHHHHHHHcCCcchhh
Confidence 89999999999999888876443321 345889999988777664 44446 99999998 46666 88888
Q ss_pred ccEEEEe
Q 002135 602 IDVTLHL 608 (961)
Q Consensus 602 vd~VI~~ 608 (961)
+.++|.-
T Consensus 175 v~~lVlD 181 (513)
T COG0513 175 VETLVLD 181 (513)
T ss_pred cCEEEec
Confidence 9888843
No 392
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=79.59 E-value=13 Score=39.64 Aligned_cols=40 Identities=18% Similarity=0.117 Sum_probs=26.7
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcC----CCCeEEEEcc
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHD----LSSSALYMFP 308 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~----~~~~aLvl~P 308 (961)
.|.-+.+++++|||||...+.-+....... .+..++|+.-
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~ 61 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDT 61 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeC
Confidence 356789999999999976655444433221 1367888874
No 393
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.53 E-value=8.6 Score=47.18 Aligned_cols=20 Identities=10% Similarity=0.072 Sum_probs=16.4
Q ss_pred cEEEEecCCchhHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPV 291 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpi 291 (961)
..|+++|.|+|||.++..-+
T Consensus 40 a~Lf~Gp~G~GKTtlA~~lA 59 (585)
T PRK14950 40 AYLFTGPRGVGKTSTARILA 59 (585)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 46899999999998876544
No 394
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=79.17 E-value=11 Score=47.46 Aligned_cols=20 Identities=15% Similarity=0.111 Sum_probs=16.8
Q ss_pred CCcEEEEecCCchhHHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~L 289 (961)
..|+++.+|+|+|||..+..
T Consensus 207 ~~n~LLvGppGvGKT~lae~ 226 (758)
T PRK11034 207 KNNPLLVGESGVGKTAIAEG 226 (758)
T ss_pred CCCeEEECCCCCCHHHHHHH
Confidence 46899999999999987543
No 395
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.88 E-value=12 Score=45.73 Aligned_cols=24 Identities=8% Similarity=0.021 Sum_probs=18.7
Q ss_pred CcEEEEecCCchhHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~ 294 (961)
+.+|+.+|.|+|||.++.+-+-..
T Consensus 39 ha~Lf~GPpG~GKTtiArilAk~L 62 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFAKAL 62 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhc
Confidence 358899999999999887655443
No 396
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=78.80 E-value=17 Score=38.55 Aligned_cols=37 Identities=19% Similarity=0.179 Sum_probs=26.5
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
|.-+.+.+++|+|||...+-.+.+.+.. +.+++|+.-
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~--~~~v~yi~~ 59 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKN--GKKVIYIDT 59 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEEC
Confidence 5678999999999997765555554433 567777753
No 397
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=78.57 E-value=9.2 Score=42.79 Aligned_cols=16 Identities=19% Similarity=0.389 Sum_probs=12.7
Q ss_pred cEEE-EecCCchhHHHH
Q 002135 272 NVVV-ATMTSSGKSLCY 287 (961)
Q Consensus 272 ~vIv-~apTGSGKTla~ 287 (961)
++++ .+|+|+|||...
T Consensus 44 ~~lll~G~~G~GKT~la 60 (316)
T PHA02544 44 NMLLHSPSPGTGKTTVA 60 (316)
T ss_pred eEEEeeCcCCCCHHHHH
Confidence 4555 899999999754
No 398
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=78.50 E-value=12 Score=45.59 Aligned_cols=24 Identities=8% Similarity=0.021 Sum_probs=18.4
Q ss_pred CcEEEEecCCchhHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~ 294 (961)
+..++++|.|+|||..+..-+-..
T Consensus 39 hA~Lf~GP~GvGKTTlA~~lAk~L 62 (605)
T PRK05896 39 HAYIFSGPRGIGKTSIAKIFAKAI 62 (605)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 358899999999998876654433
No 399
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=78.46 E-value=2.7 Score=43.84 Aligned_cols=35 Identities=23% Similarity=0.284 Sum_probs=22.1
Q ss_pred EEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 273 VVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
+++++|||||||... -.++..+....+.+++.+--
T Consensus 4 ilI~GptGSGKTTll-~~ll~~~~~~~~~~i~t~e~ 38 (198)
T cd01131 4 VLVTGPTGSGKSTTL-AAMIDYINKNKTHHILTIED 38 (198)
T ss_pred EEEECCCCCCHHHHH-HHHHHHhhhcCCcEEEEEcC
Confidence 789999999999864 33444444333445555443
No 400
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.38 E-value=9.4 Score=46.18 Aligned_cols=22 Identities=9% Similarity=0.061 Sum_probs=17.2
Q ss_pred cEEEEecCCchhHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~ 293 (961)
-.|+++|.|+|||.++.+-+-.
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk~ 61 (527)
T PRK14969 40 AYLFTGTRGVGKTTLARILAKS 61 (527)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3689999999999887664433
No 401
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=78.31 E-value=6.5 Score=46.70 Aligned_cols=90 Identities=17% Similarity=0.126 Sum_probs=46.6
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMW 347 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~ 347 (961)
|+-+.+++|||+|||.+...-+-....+....++.++. +-|.=+.+|.+.+.+ ..+..+. ....+.........
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~Ae---ilGVpv~-~~~~~~Dl~~aL~~ 331 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGK---ILGVPVH-AVKDAADLRLALSE 331 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHH---HhCCCee-ccCCchhHHHHHHh
Confidence 55688999999999987654333322222223443332 334445555555433 3332221 11222222223334
Q ss_pred HhcCCcEEEeChhHHH
Q 002135 348 LRDNARLLITNPDMLH 363 (961)
Q Consensus 348 l~~~~~IlItTPe~L~ 363 (961)
+.+.-.++|-|+++.+
T Consensus 332 L~d~d~VLIDTaGr~~ 347 (484)
T PRK06995 332 LRNKHIVLIDTIGMSQ 347 (484)
T ss_pred ccCCCeEEeCCCCcCh
Confidence 4444578888999765
No 402
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=78.30 E-value=6 Score=53.24 Aligned_cols=62 Identities=19% Similarity=0.194 Sum_probs=47.2
Q ss_pred CCcHHHHHHHHHHhCC--CcEEEEecCCchhHHHH--HHHHHHHHhcCCCCeEEEEcccHHHHHHH
Q 002135 255 KLYSHQAESIMASLAG--KNVVVATMTSSGKSLCY--NLPVLEALSHDLSSSALYMFPTKALAQDQ 316 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G--~~vIv~apTGSGKTla~--~Lpil~~l~~~~~~~aLvl~PtraLa~qq 316 (961)
.|++-|.+|+..++.+ +-++|++..|+|||.+. ++-++..+.+..+..++.++||-.-+...
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L 900 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEM 900 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHH
Confidence 6999999999999965 67999999999999764 33444444444567788899997666543
No 403
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=78.22 E-value=1.6 Score=53.38 Aligned_cols=49 Identities=14% Similarity=-0.002 Sum_probs=40.4
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
.++++.||||||||..+.+|-+-.. +..++++-|--++........++.
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL~~----~~S~VV~DpKGEl~~~Ta~~R~~~ 207 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLLFW----EDSVVVHDIKLENYELTSGWREKQ 207 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHHhC----CCCEEEEeCcHHHHHHHHHHHHHC
Confidence 5899999999999999999988642 456889999999998777665553
No 404
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=78.16 E-value=4.8 Score=45.76 Aligned_cols=60 Identities=18% Similarity=0.178 Sum_probs=39.2
Q ss_pred HHhCCCCCCcHHHHHHHHHHh-CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHH
Q 002135 248 LKSTGISKLYSHQAESIMASL-AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKAL 312 (961)
Q Consensus 248 L~~~g~~~l~~~Q~~ai~~il-~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraL 312 (961)
|.+.|+ +.+.+.+.+..+. .+.+++++++||||||... -.++..+. +..+.+++--+.||
T Consensus 157 l~~~g~--~~~~~~~~L~~~v~~~~~ili~G~tGsGKTTll-~al~~~i~--~~~riv~iEd~~El 217 (340)
T TIGR03819 157 LVASGT--FPPGVARLLRAIVAARLAFLISGGTGSGKTTLL-SALLALVA--PDERIVLVEDAAEL 217 (340)
T ss_pred HHHcCC--CCHHHHHHHHHHHhCCCeEEEECCCCCCHHHHH-HHHHccCC--CCCcEEEECCccee
Confidence 344555 5677777777655 5679999999999999743 22223222 34566777766666
No 405
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=78.11 E-value=4.3 Score=45.58 Aligned_cols=54 Identities=20% Similarity=0.188 Sum_probs=34.9
Q ss_pred CCcHHHHHHHH-HHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHH
Q 002135 255 KLYSHQAESIM-ASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKA 311 (961)
Q Consensus 255 ~l~~~Q~~ai~-~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptra 311 (961)
.+.+.|..-+- ++..+++++++++||||||.. +.+++..+- +..+.+.+=-|.+
T Consensus 127 t~~~~~~ayL~~~ie~~~siii~G~t~sGKTt~-lnall~~Ip--~~~rivtIEdt~E 181 (312)
T COG0630 127 TISPEQAAYLWLAIEARKSIIICGGTASGKTTL-LNALLDFIP--PEERIVTIEDTPE 181 (312)
T ss_pred CCCHHHHHHHHHHHHcCCcEEEECCCCCCHHHH-HHHHHHhCC--chhcEEEEecccc
Confidence 47777766554 456789999999999999964 344444332 2345555554443
No 406
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=78.05 E-value=45 Score=36.64 Aligned_cols=24 Identities=13% Similarity=0.077 Sum_probs=19.2
Q ss_pred CCCcEEEEecCCchhHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVL 292 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil 292 (961)
.+..+.+++++|+|||..+..-+.
T Consensus 74 ~~~~i~~~G~~g~GKTtl~~~l~~ 97 (270)
T PRK06731 74 EVQTIALIGPTGVGKTTTLAKMAW 97 (270)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHH
Confidence 557899999999999987665443
No 407
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=77.98 E-value=26 Score=39.01 Aligned_cols=18 Identities=17% Similarity=0.185 Sum_probs=15.3
Q ss_pred cEEEEecCCchhHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~L 289 (961)
++++.+|+|+|||.+...
T Consensus 40 ~~ll~G~~G~GKt~~~~~ 57 (319)
T PRK00440 40 HLLFAGPPGTGKTTAALA 57 (319)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 699999999999976543
No 408
>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=77.92 E-value=10 Score=39.75 Aligned_cols=39 Identities=13% Similarity=0.173 Sum_probs=22.7
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTK 310 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptr 310 (961)
++.++|.+|-|+|||.. +--++..+ +..+..++|+.+..
T Consensus 20 ~~~~~l~G~rg~GKTsL-l~~~~~~~-~~~~~~~~y~~~~~ 58 (234)
T PF01637_consen 20 SQHILLYGPRGSGKTSL-LKEFINEL-KEKGYKVVYIDFLE 58 (234)
T ss_dssp SSEEEEEESTTSSHHHH-HHHHHHHC-T--EECCCHHCCTT
T ss_pred CcEEEEEcCCcCCHHHH-HHHHHHHh-hhcCCcEEEEeccc
Confidence 46899999999999973 22333333 22223455555533
No 409
>PRK10436 hypothetical protein; Provisional
Probab=77.69 E-value=3.7 Score=48.62 Aligned_cols=40 Identities=23% Similarity=0.301 Sum_probs=28.5
Q ss_pred CcHHHHHHHHHHhC--CCcEEEEecCCchhHHHHHHHHHHHHh
Q 002135 256 LYSHQAESIMASLA--GKNVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 256 l~~~Q~~ai~~il~--G~~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
+.+.|.+.+..+.. +.-+++++|||||||... ..++..+.
T Consensus 202 ~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL-~a~l~~~~ 243 (462)
T PRK10436 202 MTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTL-YSALQTLN 243 (462)
T ss_pred cCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHH-HHHHHhhC
Confidence 46677777777653 346899999999999864 34555554
No 410
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=77.55 E-value=84 Score=38.89 Aligned_cols=95 Identities=19% Similarity=0.229 Sum_probs=57.0
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWL 348 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l 348 (961)
.|.-+++++|.|.|||- |++.+++.+.+- + +++ ..+|..... .+
T Consensus 349 kGpILcLVGPPGVGKTS--------------------------LgkSIA~al~Rk---f---vR~-sLGGvrDEA---EI 392 (782)
T COG0466 349 KGPILCLVGPPGVGKTS--------------------------LGKSIAKALGRK---F---VRI-SLGGVRDEA---EI 392 (782)
T ss_pred CCcEEEEECCCCCCchh--------------------------HHHHHHHHhCCC---E---EEE-ecCccccHH---Hh
Confidence 45668899999999994 333333333221 1 222 234544433 35
Q ss_pred hcCCcEEEe-ChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcc-cchHHHHHHHHH
Q 002135 349 RDNARLLIT-NPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGA-FGCHTALILRRL 425 (961)
Q Consensus 349 ~~~~~IlIt-TPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~-fg~~~~~ilrrL 425 (961)
+..-+-.|+ =|+++.+.+- ..=... -++++||+|.|..+ +|.....+|.-|
T Consensus 393 RGHRRTYIGamPGrIiQ~mk-------ka~~~N-------------------Pv~LLDEIDKm~ss~rGDPaSALLEVL 445 (782)
T COG0466 393 RGHRRTYIGAMPGKIIQGMK-------KAGVKN-------------------PVFLLDEIDKMGSSFRGDPASALLEVL 445 (782)
T ss_pred ccccccccccCChHHHHHHH-------HhCCcC-------------------CeEEeechhhccCCCCCChHHHHHhhc
Confidence 555554554 5888876541 111111 68999999999886 687777777766
No 411
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=77.07 E-value=3.4 Score=47.08 Aligned_cols=42 Identities=14% Similarity=0.188 Sum_probs=27.3
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKA 311 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptra 311 (961)
.+..+++++|||||||.... .++..+....+.+++.+--..+
T Consensus 121 ~~g~ili~G~tGSGKTT~l~-al~~~i~~~~~~~i~tiEdp~E 162 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLA-SMIDYINKNAAGHIITIEDPIE 162 (343)
T ss_pred cCcEEEEECCCCCCHHHHHH-HHHHhhCcCCCCEEEEEcCChh
Confidence 45789999999999997643 3444454333456666554444
No 412
>PRK10867 signal recognition particle protein; Provisional
Probab=77.03 E-value=9.9 Score=44.67 Aligned_cols=86 Identities=14% Similarity=0.154 Sum_probs=45.6
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHHHHhHhhCCCCccEEEE-cCCCcHHHH-H-
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRALLAMTKAFDASIDIGVY-DGDTTQKDR-M- 346 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l~~l~~~~~~~i~v~~~-~Gd~~~~~r-~- 346 (961)
-+++++++|||||.+..--+.. +....+.+++++. +.|.-+.+|.+.+.. ..+ +.+... .+..+..-. .
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~-l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~---~~g--v~v~~~~~~~dp~~i~~~a 175 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKY-LKKKKKKKVLLVAADVYRPAAIEQLKTLGE---QIG--VPVFPSGDGQDPVDIAKAA 175 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHH-HHHhcCCcEEEEEccccchHHHHHHHHHHh---hcC--CeEEecCCCCCHHHHHHHH
Confidence 5778999999999866543433 2222244555443 567777766655433 333 332222 122222211 1
Q ss_pred --HH-hcCCc-EEEeChhHHH
Q 002135 347 --WL-RDNAR-LLITNPDMLH 363 (961)
Q Consensus 347 --~l-~~~~~-IlItTPe~L~ 363 (961)
.. ..+.+ |+|=||++++
T Consensus 176 ~~~a~~~~~DvVIIDTaGrl~ 196 (433)
T PRK10867 176 LEEAKENGYDVVIVDTAGRLH 196 (433)
T ss_pred HHHHHhcCCCEEEEeCCCCcc
Confidence 11 23354 7777999875
No 413
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=76.76 E-value=7.5 Score=45.82 Aligned_cols=63 Identities=14% Similarity=0.157 Sum_probs=50.3
Q ss_pred HHHCCCc--EEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc
Q 002135 521 MVQHGLR--CIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN 591 (961)
Q Consensus 521 l~~~g~k--~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~ 591 (961)
...++.+ .|||++||+.|..+...+.... +.-+..++.+-|||+...++++++. .-.|+|||+
T Consensus 257 ~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~----~~t~i~v~si~GGLavqKQqRlL~~----~p~IVVATP 321 (731)
T KOG0347|consen 257 TSAKYVKPIALVVTPTRELAHQVKQHLKAIA----EKTQIRVASITGGLAVQKQQRLLNQ----RPDIVVATP 321 (731)
T ss_pred HHhccCcceeEEecChHHHHHHHHHHHHHhc----cccCeEEEEeechhHHHHHHHHHhc----CCCEEEecc
Confidence 3345566 8999999999999888776543 3345679999999999998888876 668999998
No 414
>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=76.62 E-value=28 Score=41.69 Aligned_cols=60 Identities=13% Similarity=0.110 Sum_probs=40.9
Q ss_pred HHHHHHHhC-----CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 261 AESIMASLA-----GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 261 ~~ai~~il~-----G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
...++.++. |.-+++.+|+|+|||...+..+...+.+ +.+++|++ .-+=..|..+++..+
T Consensus 249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~--ge~~~y~s-~eEs~~~i~~~~~~l 313 (484)
T TIGR02655 249 VVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACAN--KERAILFA-YEESRAQLLRNAYSW 313 (484)
T ss_pred hHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEE-eeCCHHHHHHHHHHc
Confidence 355666664 4579999999999998766666555443 56788877 445555666665553
No 415
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.48 E-value=16 Score=44.79 Aligned_cols=21 Identities=10% Similarity=0.082 Sum_probs=16.6
Q ss_pred cEEEEecCCchhHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVL 292 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil 292 (961)
..|+++|.|+|||.++.+-+-
T Consensus 40 ayLf~Gp~G~GKtt~A~~lak 60 (576)
T PRK14965 40 AFLFTGARGVGKTSTARILAK 60 (576)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 368999999999988765443
No 416
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=76.41 E-value=79 Score=38.80 Aligned_cols=121 Identities=15% Similarity=0.191 Sum_probs=68.5
Q ss_pred HHHHHHHHHHHHHC-CCcEEEEecChHHHHHHHHHHHH--HHHhhCCcccccEEEEcCCCCHHHHHHHHHHHh----CCC
Q 002135 511 ISEVSYLFAEMVQH-GLRCIAFCRSRKLCELVLSYTRE--ILEETAPHLVDSICVYRAGYVAEDRRRIERDFF----GGK 583 (961)
Q Consensus 511 ~~~~~~ll~~l~~~-g~k~IVF~~sr~~ae~l~~~L~~--~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~----~G~ 583 (961)
..++...+..+... ...+++|.+|-..-..+.+...+ .+.... +.+-.++-..-+ -..+++.+. .|.
T Consensus 614 l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~---~kK~vF~E~k~~---~~dvl~~Ya~a~~~g~ 687 (821)
T KOG1133|consen 614 IKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILARIV---GKKKVFYEPKDT---VEDVLEGYAEAAERGR 687 (821)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHHHhh---ccchhhccCccc---HHHHHHHHHHHhhcCC
Confidence 34455555555442 24699999998776666555432 111111 111122222222 233444443 444
Q ss_pred ceEEE--eccccccccccCC--ccEEEEeCCCCC----H----------------------------hhHHHHhccCCCC
Q 002135 584 LCGVA--ATNALELGIDVGH--IDVTLHLGFPGS----I----------------------------ASLWQQAGRSGRR 627 (961)
Q Consensus 584 ~~vLV--AT~aLe~GIDIp~--vd~VI~~~~P~s----~----------------------------~sy~QR~GRAGR~ 627 (961)
-.+|. -=.-+++|||+.| .++||..|+|.. + -..-|-+|||=|.
T Consensus 688 GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~~s~EL~er~k~l~~k~~~~gagke~yEnlCMkAVNQsIGRAIRH 767 (821)
T KOG1133|consen 688 GAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNIQSVELQERMKHLDGKLPTPGAGKELYENLCMKAVNQSIGRAIRH 767 (821)
T ss_pred CeEEEEEeccccccccccccccccEEEEeecCCCCCCCHHHHHHHHHhhhccCCCCchHHHHHHHHHHHHHHHHHHHHhh
Confidence 44444 4457899999977 689999998763 1 1235889999998
Q ss_pred CCCceEEEEe
Q 002135 628 ERPSLAVYVA 637 (961)
Q Consensus 628 g~~g~~i~l~ 637 (961)
-++-.+|++.
T Consensus 768 ~~DYA~i~Ll 777 (821)
T KOG1133|consen 768 RKDYASIYLL 777 (821)
T ss_pred hccceeEEEe
Confidence 6655555554
No 417
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=76.37 E-value=13 Score=43.63 Aligned_cols=74 Identities=15% Similarity=0.120 Sum_probs=50.6
Q ss_pred CCCCCCcHHHHHHHHHH----hCCCcEEEEecCCchhHHHHHHHHHHHHhcCC--CCeEEEEcccHHHHHHHHHHHHHhH
Q 002135 251 TGISKLYSHQAESIMAS----LAGKNVVVATMTSSGKSLCYNLPVLEALSHDL--SSSALYMFPTKALAQDQLRALLAMT 324 (961)
Q Consensus 251 ~g~~~l~~~Q~~ai~~i----l~G~~vIv~apTGSGKTla~~Lpil~~l~~~~--~~~aLvl~PtraLa~qq~~~l~~l~ 324 (961)
+.|...||-|.+=+..+ -.+.+.++.+|+|+|||.+.+--++......| ..+.+|.+-|..=......+++.+.
T Consensus 12 FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~~l~ 91 (755)
T KOG1131|consen 12 FPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELKRLM 91 (755)
T ss_pred cCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHHHHH
Confidence 45677889888766543 35678999999999999886655555544444 4567787777655555555555543
No 418
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=76.04 E-value=13 Score=46.30 Aligned_cols=22 Identities=9% Similarity=0.058 Sum_probs=17.2
Q ss_pred cEEEEecCCchhHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~ 293 (961)
-.++++|.|+|||.++.+-+-.
T Consensus 42 AYLF~GP~GtGKTt~AriLAk~ 63 (725)
T PRK07133 42 AYLFSGPRGTGKTSVAKIFANA 63 (725)
T ss_pred EEEEECCCCCcHHHHHHHHHHH
Confidence 3689999999999887655433
No 419
>PRK06835 DNA replication protein DnaC; Validated
Probab=75.94 E-value=5.8 Score=44.90 Aligned_cols=57 Identities=16% Similarity=0.193 Sum_probs=33.9
Q ss_pred CCcHHHHHHHHHHh--------CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 255 KLYSHQAESIMASL--------AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 255 ~l~~~Q~~ai~~il--------~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
.++..+..++..+. .++++++.++||+|||....- +...+.. .+..++|+. ..+|..
T Consensus 160 ~~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~a-Ia~~l~~-~g~~V~y~t-~~~l~~ 224 (329)
T PRK06835 160 SPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNC-IAKELLD-RGKSVIYRT-ADELIE 224 (329)
T ss_pred CHHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHH-HHHHHHH-CCCeEEEEE-HHHHHH
Confidence 34455555554322 458999999999999975443 3333333 356676654 344443
No 420
>PRK07773 replicative DNA helicase; Validated
Probab=75.85 E-value=18 Score=46.64 Aligned_cols=45 Identities=18% Similarity=0.170 Sum_probs=31.9
Q ss_pred eeEEEEecchhhhcc-----cchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 399 IRFVVIDEAHAYKGA-----FGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 399 i~~VVIDEaH~~~~~-----fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
+++||||=.+.+... +...+..+.+.|+.++..+ +..+|++|-.-
T Consensus 328 ~~lvvIDyLql~~~~~~~~~r~~ei~~isr~LK~lAkel---~vpvi~lsQLn 377 (886)
T PRK07773 328 LGLIVVDYLQLMTSGKKYENRQQEVSEISRHLKLLAKEL---EVPVVALSQLS 377 (886)
T ss_pred CCEEEEcchhhcCCCCCCCCHHHHHHHHHHHHHHHHHHH---CCcEEEecccC
Confidence 499999999988632 2346788888998887653 55666666543
No 421
>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=75.72 E-value=17 Score=43.20 Aligned_cols=50 Identities=16% Similarity=0.146 Sum_probs=31.2
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALL 321 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~ 321 (961)
.|.-+++.+++|+|||...+.-+.. +..+ +.+++|+..- +-..|...+..
T Consensus 93 ~GsvilI~G~pGsGKTTL~lq~a~~-~a~~-g~kvlYvs~E-Es~~qi~~ra~ 142 (454)
T TIGR00416 93 PGSLILIGGDPGIGKSTLLLQVACQ-LAKN-QMKVLYVSGE-ESLQQIKMRAI 142 (454)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHH-HHhc-CCcEEEEECc-CCHHHHHHHHH
Confidence 3567899999999999765544333 3332 4578888753 33344444433
No 422
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=75.65 E-value=14 Score=42.81 Aligned_cols=28 Identities=14% Similarity=0.303 Sum_probs=20.7
Q ss_pred hCCCcEEEEecCCchhHHHHHHHHHHHHh
Q 002135 268 LAGKNVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
-.|+.++|++|+|+|||..... +...+.
T Consensus 166 g~Gq~~~IvG~~g~GKTtL~~~-i~~~I~ 193 (415)
T TIGR00767 166 GKGQRGLIVAPPKAGKTVLLQK-IAQAIT 193 (415)
T ss_pred CCCCEEEEECCCCCChhHHHHH-HHHhhc
Confidence 3688999999999999975443 444443
No 423
>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=75.60 E-value=18 Score=41.09 Aligned_cols=18 Identities=11% Similarity=0.165 Sum_probs=14.8
Q ss_pred cEEEEecCCchhHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~L 289 (961)
..++.+|.|+|||.....
T Consensus 38 ~~Ll~G~~G~GKt~~a~~ 55 (355)
T TIGR02397 38 AYLFSGPRGTGKTSIARI 55 (355)
T ss_pred EEEEECCCCCCHHHHHHH
Confidence 578999999999976543
No 424
>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=75.55 E-value=25 Score=36.06 Aligned_cols=22 Identities=18% Similarity=0.019 Sum_probs=16.7
Q ss_pred CcEEEEecCCchhHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVL 292 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil 292 (961)
+..++.+|.|+|||.....-+-
T Consensus 15 ~~~L~~G~~G~gkt~~a~~~~~ 36 (188)
T TIGR00678 15 HAYLFAGPEGVGKELLALALAK 36 (188)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 3588999999999976654433
No 425
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=75.50 E-value=9.6 Score=46.46 Aligned_cols=23 Identities=9% Similarity=0.085 Sum_probs=17.9
Q ss_pred CcEEEEecCCchhHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~ 293 (961)
+-.++++|.|+|||.++-+-+-.
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAka 61 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKA 61 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 34788999999999887665543
No 426
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=74.61 E-value=4.8 Score=49.09 Aligned_cols=45 Identities=22% Similarity=0.325 Sum_probs=31.0
Q ss_pred HHhCCCCCCcHHHHHHHHHHhCC--CcEEEEecCCchhHHHHHHHHHHHHh
Q 002135 248 LKSTGISKLYSHQAESIMASLAG--KNVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 248 L~~~g~~~l~~~Q~~ai~~il~G--~~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
|..+|+ .+.|.+.+..++.. ..+++++|||||||.+. ..++..+.
T Consensus 295 l~~lg~---~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~ 341 (564)
T TIGR02538 295 IDKLGF---EPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSL-YTALNILN 341 (564)
T ss_pred HHHcCC---CHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhC
Confidence 445564 67778888776543 46889999999999764 34555553
No 427
>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=74.58 E-value=36 Score=37.17 Aligned_cols=42 Identities=26% Similarity=0.271 Sum_probs=29.9
Q ss_pred HHHHHHhCCCCCCcHHHHHHHHHH-----hCCCcEEEEecCCchhHHH
Q 002135 244 TKSALKSTGISKLYSHQAESIMAS-----LAGKNVVVATMTSSGKSLC 286 (961)
Q Consensus 244 l~~~L~~~g~~~l~~~Q~~ai~~i-----l~G~~vIv~apTGSGKTla 286 (961)
.+..|+ -|+..-.|+=-..|+.| .+...+++.+|||.|||..
T Consensus 178 tl~~lk-sgiatrnp~fnrmieqierva~rsr~p~ll~gptgagksfl 224 (531)
T COG4650 178 TLDFLK-SGIATRNPHFNRMIEQIERVAIRSRAPILLNGPTGAGKSFL 224 (531)
T ss_pred HHHHHH-hcccccChHHHHHHHHHHHHHhhccCCeEeecCCCcchhHH
Confidence 333443 48877777777676654 3456799999999999963
No 428
>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=74.52 E-value=2.9 Score=45.74 Aligned_cols=28 Identities=14% Similarity=0.058 Sum_probs=22.7
Q ss_pred HHHHHHhCCCcEEEEecCCchhHHHHHH
Q 002135 262 ESIMASLAGKNVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 262 ~ai~~il~G~~vIv~apTGSGKTla~~L 289 (961)
+++..+..|+++++.+|+|+|||..+..
T Consensus 13 ~~l~~l~~g~~vLL~G~~GtGKT~lA~~ 40 (262)
T TIGR02640 13 RALRYLKSGYPVHLRGPAGTGKTTLAMH 40 (262)
T ss_pred HHHHHHhcCCeEEEEcCCCCCHHHHHHH
Confidence 4455566899999999999999987653
No 429
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=74.48 E-value=8 Score=44.43 Aligned_cols=86 Identities=10% Similarity=0.077 Sum_probs=46.0
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRM 346 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~ 346 (961)
.++.+++++|||+|||....--+.....+ +.++.++. |.|.=|.+|. +.+...++. .+. ....+..-..
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~--g~~V~lItaDtyR~gAveQL---k~yae~lgv--pv~--~~~dp~dL~~ 275 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQ--NRTVGFITTDTFRSGAVEQF---QGYADKLDV--ELI--VATSPAELEE 275 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCCccCccHHHHH---HHHhhcCCC--CEE--ecCCHHHHHH
Confidence 46788999999999997655444333222 34444443 4455444443 444443332 222 2333333222
Q ss_pred H---Hh--cCC-cEEEeChhHHH
Q 002135 347 W---LR--DNA-RLLITNPDMLH 363 (961)
Q Consensus 347 ~---l~--~~~-~IlItTPe~L~ 363 (961)
. +. ++. .|+|=||++.+
T Consensus 276 al~~l~~~~~~D~VLIDTAGr~~ 298 (407)
T PRK12726 276 AVQYMTYVNCVDHILIDTVGRNY 298 (407)
T ss_pred HHHHHHhcCCCCEEEEECCCCCc
Confidence 2 22 233 47788999864
No 430
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=74.46 E-value=5.4 Score=47.65 Aligned_cols=45 Identities=20% Similarity=0.242 Sum_probs=30.6
Q ss_pred HHhCCCCCCcHHHHHHHHHHhCCC--cEEEEecCCchhHHHHHHHHHHHHh
Q 002135 248 LKSTGISKLYSHQAESIMASLAGK--NVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 248 L~~~g~~~l~~~Q~~ai~~il~G~--~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
|..+| +.+.|.+.+..+.... -+++++|||||||.... .++..+.
T Consensus 221 l~~Lg---~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~-a~L~~l~ 267 (486)
T TIGR02533 221 LETLG---MSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLY-AALSRLN 267 (486)
T ss_pred HHHcC---CCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH-HHHhccC
Confidence 34455 4677888888766543 37899999999997642 2445443
No 431
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=74.46 E-value=7.5 Score=43.24 Aligned_cols=18 Identities=11% Similarity=0.137 Sum_probs=15.0
Q ss_pred CcEEEEecCCchhHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~ 288 (961)
.++++.+|.|+|||....
T Consensus 31 ~~~ll~Gp~G~GKT~la~ 48 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAH 48 (305)
T ss_pred CeEEEECCCCCCHHHHHH
Confidence 469999999999996543
No 432
>PHA02542 41 41 helicase; Provisional
Probab=74.30 E-value=43 Score=39.98 Aligned_cols=44 Identities=14% Similarity=0.008 Sum_probs=32.2
Q ss_pred eeEEEEecchhhhc--------ccchHHHHHHHHHHHHhhcccCCCCcEEEeccC
Q 002135 399 IRFVVIDEAHAYKG--------AFGCHTALILRRLCRLCSHVYGSDPSFVFSTAT 445 (961)
Q Consensus 399 i~~VVIDEaH~~~~--------~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSAT 445 (961)
+++||||=.+.+.. .+...+..+.+.|+.++..+ +..+|++|-.
T Consensus 302 ~dlVvIDYLqL~~~~~~~~~~~nr~~ei~~Isr~LK~lAkel---~vpVi~lsQL 353 (473)
T PHA02542 302 PDVIIVDYLGICASSRLRVSSENSYTYVKAIAEELRGLAVEH---DVVVWTAAQT 353 (473)
T ss_pred CCEEEEechhhccCCcccCCCCChHHHHHHHHHHHHHHHHHh---CCeEEEEEee
Confidence 38999999998852 13345778889999988764 5677777655
No 433
>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit
Probab=74.20 E-value=4.4 Score=43.85 Aligned_cols=85 Identities=19% Similarity=0.179 Sum_probs=52.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCC--CcHHHHHHHhc-CCcEEEeChhHHHHhhcCCCchhHH
Q 002135 299 LSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGD--TTQKDRMWLRD-NARLLITNPDMLHMSILPYHGQFSR 375 (961)
Q Consensus 299 ~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd--~~~~~r~~l~~-~~~IlItTPe~L~~~lL~~~~~~~~ 375 (961)
..+.+|||+..--=|-|..+.++.+-.. ...|+-+-+- .-.++...+.. ..+|.|+||++|..++- ...-
T Consensus 125 gsP~~lvvs~SalRa~dl~R~l~~~~~k---~~~v~KLFaKH~Kl~eqv~~L~~~~~~i~vGTP~Rl~kLle----~~~L 197 (252)
T PF14617_consen 125 GSPHVLVVSSSALRAADLIRALRSFKGK---DCKVAKLFAKHIKLEEQVKLLKKTRVHIAVGTPGRLSKLLE----NGAL 197 (252)
T ss_pred CCCEEEEEcchHHHHHHHHHHHHhhccC---CchHHHHHHhhccHHHHHHHHHhCCceEEEeChHHHHHHHH----cCCC
Confidence 3577899998877788888888876311 1112111121 12344455554 48999999999987651 1112
Q ss_pred HhhhhhhhhhhcchhhhhhhhcceeEEEEecchh
Q 002135 376 ILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHA 409 (961)
Q Consensus 376 ~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~ 409 (961)
.++++ .+||||--|.
T Consensus 198 ~l~~l-------------------~~ivlD~s~~ 212 (252)
T PF14617_consen 198 SLSNL-------------------KRIVLDWSYL 212 (252)
T ss_pred CcccC-------------------eEEEEcCCcc
Confidence 34444 9999997664
No 434
>PRK09183 transposase/IS protein; Provisional
Probab=74.16 E-value=4 Score=44.60 Aligned_cols=45 Identities=16% Similarity=0.056 Sum_probs=28.8
Q ss_pred HhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 267 SLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
+..|.++++.+|+|+|||.....-+..... .+..++|+. ..+|..
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~~--~G~~v~~~~-~~~l~~ 143 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAIALGYEAVR--AGIKVRFTT-AADLLL 143 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEe-HHHHHH
Confidence 456889999999999999765443333322 355666654 334443
No 435
>TIGR03754 conj_TOL_TraD conjugative coupling factor TraD, TOL family. Members of this protein are assigned by homology to the TraD family of conjugative coupling factor. This particular clade serves as a marker for an extended gene region that occurs occasionally on plasmids, including the toluene catabolism TOL plasmid. More commonly, the gene region is chromosomal, flanked by various markers of conjugative transfer and insertion.
Probab=74.10 E-value=8.3 Score=47.27 Aligned_cols=55 Identities=18% Similarity=0.196 Sum_probs=37.7
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCC
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFD 328 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~ 328 (961)
..|++|.++||+|||....+-+.+.+.. +..++++=|-... +...++...+...+
T Consensus 180 ~gHtlV~GtTGsGKT~l~~~li~q~i~~--g~~vi~fDpkgD~--el~~~~~~~~~~~G 234 (643)
T TIGR03754 180 VGHTLVLGTTRVGKTRLAELLITQDIRR--GDVVIVFDPKGDA--DLLKRMYAEAKRAG 234 (643)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCCCCH--HHHHHHHHHHHHhC
Confidence 4689999999999999877766666553 5678888887643 33444444444444
No 436
>PRK09401 reverse gyrase; Reviewed
Probab=73.95 E-value=18 Score=48.05 Aligned_cols=83 Identities=14% Similarity=0.171 Sum_probs=59.6
Q ss_pred HHCCCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEecc-cccc---cc
Q 002135 522 VQHGLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATN-ALEL---GI 597 (961)
Q Consensus 522 ~~~g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~-aLe~---GI 597 (961)
..++.+++|.++|+.-+.++++.++....... ....+..+|++++..++++..+.+.+|..+|+|+|+ -+.. .+
T Consensus 120 ~~~g~~alIL~PTreLa~Qi~~~l~~l~~~~~--~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~~l 197 (1176)
T PRK09401 120 AKKGKKSYIIFPTRLLVEQVVEKLEKFGEKVG--CGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFDEL 197 (1176)
T ss_pred HhcCCeEEEEeccHHHHHHHHHHHHHHhhhcC--ceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHHhc
Confidence 34578999999999999999998877544321 222345567777788899999999999999999996 1111 34
Q ss_pred ccCCccEEE
Q 002135 598 DVGHIDVTL 606 (961)
Q Consensus 598 DIp~vd~VI 606 (961)
....++++|
T Consensus 198 ~~~~~~~lV 206 (1176)
T PRK09401 198 PKKKFDFVF 206 (1176)
T ss_pred cccccCEEE
Confidence 444466666
No 437
>COG1485 Predicted ATPase [General function prediction only]
Probab=73.82 E-value=44 Score=37.86 Aligned_cols=108 Identities=15% Similarity=0.172 Sum_probs=63.7
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhhCCCCccEEEEcCCCcHHHHHHHhc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKAFDASIDIGVYDGDTTQKDRMWLRD 350 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~~~~i~v~~~~Gd~~~~~r~~l~~ 350 (961)
+.+-+.++-|.|||.- +-.+-..... ..-.-.+..+-+.+..+++..+. |.+
T Consensus 66 ~GlYl~GgVGrGKT~L--MD~Fy~~lp~---~~k~R~HFh~FM~~vH~~l~~l~-------------g~~---------- 117 (367)
T COG1485 66 RGLYLWGGVGRGKTML--MDLFYESLPG---ERKRRLHFHRFMARVHQRLHTLQ-------------GQT---------- 117 (367)
T ss_pred ceEEEECCCCccHHHH--HHHHHhhCCc---cccccccHHHHHHHHHHHHHHHc-------------CCC----------
Confidence 6799999999999963 2222221111 11234566778888888887752 222
Q ss_pred CCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEecchhhhcccchHHHHHHHHHHHHhh
Q 002135 351 NARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVIDEAHAYKGAFGCHTALILRRLCRLCS 430 (961)
Q Consensus 351 ~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~ 430 (961)
+ |-. .--..+..+. +++++||.|.- ..-=+.||.||-...
T Consensus 118 --d-----pl~---------~iA~~~~~~~-------------------~vLCfDEF~Vt----DI~DAMiL~rL~~~L- 157 (367)
T COG1485 118 --D-----PLP---------PIADELAAET-------------------RVLCFDEFEVT----DIADAMILGRLLEAL- 157 (367)
T ss_pred --C-----ccH---------HHHHHHHhcC-------------------CEEEeeeeeec----ChHHHHHHHHHHHHH-
Confidence 0 100 0112345555 99999999963 122245666664432
Q ss_pred cccCCCCcEEEeccCCCC
Q 002135 431 HVYGSDPSFVFSTATSAN 448 (961)
Q Consensus 431 ~~~~~~~q~I~lSATl~n 448 (961)
....+.++..|-|.++
T Consensus 158 --f~~GV~lvaTSN~~P~ 173 (367)
T COG1485 158 --FARGVVLVATSNTAPD 173 (367)
T ss_pred --HHCCcEEEEeCCCChH
Confidence 3457888998998764
No 438
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=73.64 E-value=5.4 Score=52.76 Aligned_cols=58 Identities=24% Similarity=0.233 Sum_probs=47.7
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcC---CCCeEEEEcccHHHHHHHHHHHHHhHhh
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHD---LSSSALYMFPTKALAQDQLRALLAMTKA 326 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~---~~~~aLvl~PtraLa~qq~~~l~~l~~~ 326 (961)
.+.+++|.|..|||||.+-..-++..+... .-...|+++.|++-+.....++.+-...
T Consensus 15 ~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~~L~~ 75 (1139)
T COG1074 15 PGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRDRLKE 75 (1139)
T ss_pred CCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHHHHHHHH
Confidence 567999999999999999888888888764 2347999999999999988888665443
No 439
>PHA00012 I assembly protein
Probab=73.62 E-value=8.8 Score=42.92 Aligned_cols=55 Identities=9% Similarity=0.117 Sum_probs=34.0
Q ss_pred eEEEEecchhhhcc--cchHHHH-HHHHHHHHhhcccCCCCcEEEeccCCCChHHHHHHHcc
Q 002135 400 RFVVIDEAHAYKGA--FGCHTAL-ILRRLCRLCSHVYGSDPSFVFSTATSANPREHCMELAN 458 (961)
Q Consensus 400 ~~VVIDEaH~~~~~--fg~~~~~-ilrrL~~~~~~~~~~~~q~I~lSATl~n~~e~~~~L~~ 458 (961)
.++|+||||..... ++..... ++..+... + ....-++++|-.+.+-...++.+.+
T Consensus 83 sLlVlDEaq~~fp~R~~~sk~p~~vie~l~~h-R---h~G~DvilITQ~ps~VDs~IR~ll~ 140 (361)
T PHA00012 83 GLLVLDECGTWFNSRSWNDKERQPVIDWFLHA-R---KLGWDIIFIIQDISIMDKQAREALA 140 (361)
T ss_pred cEEEEECcccccCCCCcCcCCcHHHHHHHHHh-c---cCCceEEEEcCCHHHHhHHHHHhhh
Confidence 89999999998763 4432222 23323222 1 2245788888877766677766655
No 440
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=73.60 E-value=2.9 Score=51.70 Aligned_cols=48 Identities=23% Similarity=0.202 Sum_probs=38.0
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
.++++.||||||||..+.+|-+-.. ...++++=|--++........++
T Consensus 140 ~hvlviApTgSGKgvg~VIPnLL~~----~gS~VV~DpKGE~~~~Ta~~R~~ 187 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVVIPTLLTF----KGSVIALDVKGELFELTSRARKA 187 (670)
T ss_pred ceEEEEecCCCCceeeehHhHHhcC----CCCEEEEeCCchHHHHHHHHHHh
Confidence 5899999999999999999986532 35788899998888866554444
No 441
>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=73.57 E-value=3 Score=45.91 Aligned_cols=40 Identities=30% Similarity=0.329 Sum_probs=27.3
Q ss_pred EEEEecCCchhHHHHHHHHHHHHhc-----CCCCeEEEEcccHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVLEALSH-----DLSSSALYMFPTKALAQDQL 317 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~~l~~-----~~~~~aLvl~PtraLa~qq~ 317 (961)
.+|.+|||||||- ++..|.. -....+++|+|++-..--+.
T Consensus 90 ~~VYGPTG~GKSq-----LlRNLis~~lI~P~PETVfFItP~~~mIpp~E 134 (369)
T PF02456_consen 90 GVVYGPTGSGKSQ-----LLRNLISCQLIQPPPETVFFITPQKDMIPPQE 134 (369)
T ss_pred EEEECCCCCCHHH-----HHHHhhhcCcccCCCCceEEECCCCCCCCHHH
Confidence 6788999999995 2333322 23468999999987655443
No 442
>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=73.47 E-value=13 Score=41.03 Aligned_cols=51 Identities=18% Similarity=0.143 Sum_probs=31.6
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRALLA 322 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l~~ 322 (961)
.+-+++++|+|+|||.+..--+.. +.+ .+.+++++. +.|.-+++|.+.+.+
T Consensus 72 ~~vi~l~G~~G~GKTTt~akLA~~-l~~-~g~~V~li~~D~~r~~a~~ql~~~~~ 124 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIAKLANK-LKK-QGKSVLLAAGDTFRAAAIEQLEEWAK 124 (272)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHH-HHh-cCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence 356778899999999865444433 222 355666665 456666666555443
No 443
>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=73.40 E-value=24 Score=38.29 Aligned_cols=20 Identities=15% Similarity=0.193 Sum_probs=17.4
Q ss_pred HhCCCcEEEEecCCchhHHH
Q 002135 267 SLAGKNVVVATMTSSGKSLC 286 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla 286 (961)
+-.|+.+++.+|.|+|||..
T Consensus 13 i~~Gqr~~I~G~~G~GKTTL 32 (249)
T cd01128 13 IGKGQRGLIVAPPKAGKTTL 32 (249)
T ss_pred cCCCCEEEEECCCCCCHHHH
Confidence 34789999999999999963
No 444
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.38 E-value=13 Score=45.82 Aligned_cols=24 Identities=8% Similarity=0.052 Sum_probs=18.5
Q ss_pred CcEEEEecCCchhHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~ 294 (961)
+.+|+.+|.|+|||..+..-+-..
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~lAk~L 62 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARILAKSL 62 (620)
T ss_pred ceEEEECCCCCChHHHHHHHHHHh
Confidence 467999999999998876544433
No 445
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=72.98 E-value=31 Score=37.58 Aligned_cols=51 Identities=22% Similarity=0.275 Sum_probs=31.3
Q ss_pred HHHHHHhCC-----CcEEEEecCCchhHHHH-HHHHHHHHhc---CCCCeEEEEcccHHH
Q 002135 262 ESIMASLAG-----KNVVVATMTSSGKSLCY-NLPVLEALSH---DLSSSALYMFPTKAL 312 (961)
Q Consensus 262 ~ai~~il~G-----~~vIv~apTGSGKTla~-~Lpil~~l~~---~~~~~aLvl~PtraL 312 (961)
..++.++.| .-+=++++.|||||-.. ++.+-..+.. ..+.+++||.-....
T Consensus 25 ~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f 84 (256)
T PF08423_consen 25 KSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTF 84 (256)
T ss_dssp HHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS
T ss_pred HHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCC
Confidence 366666655 33458999999999544 3433333322 246789999754433
No 446
>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=72.51 E-value=34 Score=44.00 Aligned_cols=18 Identities=17% Similarity=0.281 Sum_probs=15.6
Q ss_pred CcEEEEecCCchhHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~ 288 (961)
.|+|+.+|.|+|||...-
T Consensus 209 ~n~lLvG~pGvGKTal~~ 226 (852)
T TIGR03345 209 NNPILTGEAGVGKTAVVE 226 (852)
T ss_pred CceeEECCCCCCHHHHHH
Confidence 489999999999998653
No 447
>PRK13764 ATPase; Provisional
Probab=71.89 E-value=6.4 Score=47.98 Aligned_cols=42 Identities=17% Similarity=0.211 Sum_probs=25.7
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKAL 312 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraL 312 (961)
.++++++++|||||||... -.++..+.. .+..++.+--.+++
T Consensus 256 ~~~~ILIsG~TGSGKTTll-~AL~~~i~~-~~riV~TiEDp~El 297 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTFA-QALAEFYAD-MGKIVKTMESPRDL 297 (602)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHHhh-CCCEEEEECCCccc
Confidence 4678999999999999743 334444442 23334344434444
No 448
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=71.59 E-value=6.6 Score=48.45 Aligned_cols=52 Identities=13% Similarity=0.116 Sum_probs=35.0
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHH--HHHHHHHHHHHh
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKA--LAQDQLRALLAM 323 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptra--La~qq~~~l~~l 323 (961)
..|++|.++||||||..+.+-+.+.+.. +..++++=|--. |.......++..
T Consensus 176 ~~H~lv~G~TGsGKT~l~~~l~~q~i~~--g~~viv~DpKgD~~l~~~~~~~~~~~ 229 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLAELLITQDIRR--GDVVIVIDPKGDADLKRRMRAEAKRA 229 (634)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCCCchHHHHHHHHHHHHh
Confidence 4789999999999998775544454443 457788888654 555444444443
No 449
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=71.56 E-value=3.1 Score=34.88 Aligned_cols=18 Identities=28% Similarity=0.346 Sum_probs=15.4
Q ss_pred CCCcEEEEecCCchhHHH
Q 002135 269 AGKNVVVATMTSSGKSLC 286 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla 286 (961)
.|..+++++++|||||..
T Consensus 22 ~g~~tli~G~nGsGKSTl 39 (62)
T PF13555_consen 22 RGDVTLITGPNGSGKSTL 39 (62)
T ss_pred CCcEEEEECCCCCCHHHH
Confidence 356799999999999974
No 450
>PHA00350 putative assembly protein
Probab=71.30 E-value=10 Score=43.92 Aligned_cols=25 Identities=20% Similarity=0.123 Sum_probs=18.4
Q ss_pred EEEEecCCchhHHHHHH-HHHHHHhc
Q 002135 273 VVVATMTSSGKSLCYNL-PVLEALSH 297 (961)
Q Consensus 273 vIv~apTGSGKTla~~L-pil~~l~~ 297 (961)
.++.+..|||||+...- -++..+.+
T Consensus 4 ~l~tG~pGSGKT~~aV~~~i~palk~ 29 (399)
T PHA00350 4 YAIVGRPGSYKSYEAVVYHIIPALKD 29 (399)
T ss_pred EEEecCCCCchhHHHHHHHHHHHHHC
Confidence 47889999999998765 35555543
No 451
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=71.15 E-value=5.1 Score=43.09 Aligned_cols=40 Identities=23% Similarity=0.281 Sum_probs=25.8
Q ss_pred HhCCC-cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 267 SLAGK-NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 267 il~G~-~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
++... +++|+|++|||||. +++-++..+... -..+.+++|
T Consensus 9 l~~~~fr~viIG~sGSGKT~-li~~lL~~~~~~-f~~I~l~t~ 49 (241)
T PF04665_consen 9 LLKDPFRMVIIGKSGSGKTT-LIKSLLYYLRHK-FDHIFLITP 49 (241)
T ss_pred hcCCCceEEEECCCCCCHHH-HHHHHHHhhccc-CCEEEEEec
Confidence 34443 79999999999995 455555554432 245555666
No 452
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=71.07 E-value=5.6 Score=42.24 Aligned_cols=44 Identities=23% Similarity=0.317 Sum_probs=31.7
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
++++.|.|.||||||...-. +++.+.+..+..++++=|.-+=+.
T Consensus 23 ~~H~~I~G~TGsGKS~~~~~-ll~~l~~~~~~~~ii~D~~GEY~~ 66 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTVKV-LLEELLKKKGAKVIIFDPHGEYAS 66 (229)
T ss_pred cceEEEECCCCCCHHHHHHH-HHHHHHhcCCCCEEEEcCCCcchh
Confidence 48999999999999976544 445555345678888888755443
No 453
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=70.91 E-value=4.4 Score=45.47 Aligned_cols=26 Identities=27% Similarity=0.321 Sum_probs=19.8
Q ss_pred HHHHH-HhCCCcEEEEecCCchhHHHH
Q 002135 262 ESIMA-SLAGKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 262 ~ai~~-il~G~~vIv~apTGSGKTla~ 287 (961)
+.+.. +..|.++++++|||||||...
T Consensus 135 ~~l~~~v~~~~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 135 EFLRLAIASRKNIIISGGTGSGKTTFL 161 (308)
T ss_pred HHHHHHhhCCCEEEEECCCCCCHHHHH
Confidence 33443 447889999999999999753
No 454
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=70.50 E-value=20 Score=37.13 Aligned_cols=38 Identities=16% Similarity=-0.037 Sum_probs=25.3
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEccc
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPT 309 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Pt 309 (961)
|+=.++++|..||||...+.-+-.... .+.++++..|-
T Consensus 4 g~l~~i~gpM~SGKT~eLl~r~~~~~~--~g~~v~vfkp~ 41 (201)
T COG1435 4 GWLEFIYGPMFSGKTEELLRRARRYKE--AGMKVLVFKPA 41 (201)
T ss_pred EEEEEEEccCcCcchHHHHHHHHHHHH--cCCeEEEEecc
Confidence 344688999999999864443333222 36778887774
No 455
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=70.27 E-value=13 Score=50.86 Aligned_cols=61 Identities=18% Similarity=0.208 Sum_probs=45.1
Q ss_pred CCcHHHHHHHHHHhCC--CcEEEEecCCchhHHHHH--HHHHHHHhcCCCCeEEEEcccHHHHHH
Q 002135 255 KLYSHQAESIMASLAG--KNVVVATMTSSGKSLCYN--LPVLEALSHDLSSSALYMFPTKALAQD 315 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~G--~~vIv~apTGSGKTla~~--Lpil~~l~~~~~~~aLvl~PtraLa~q 315 (961)
.|++-|.+|+..++.+ +-++|++..|+|||...- +-++..+....+.+++.++||-.-+..
T Consensus 967 ~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~ 1031 (1747)
T PRK13709 967 GLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGE 1031 (1747)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHH
Confidence 6899999999999975 568999999999997642 223333333345678889999866653
No 456
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=70.20 E-value=51 Score=33.52 Aligned_cols=47 Identities=15% Similarity=0.144 Sum_probs=29.6
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
..++|.+++|||||..+..-+.. .+...+|+...+..-.+..+++..
T Consensus 2 ~~ili~G~~~sGKS~~a~~l~~~-----~~~~~~~iat~~~~~~e~~~ri~~ 48 (170)
T PRK05800 2 MLILVTGGARSGKSRFAERLAAQ-----SGLQVLYIATAQPFDDEMAARIAH 48 (170)
T ss_pred CEEEEECCCCccHHHHHHHHHHH-----cCCCcEeCcCCCCChHHHHHHHHH
Confidence 35899999999999765433322 133567777666554455555543
No 457
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=70.18 E-value=11 Score=46.03 Aligned_cols=109 Identities=16% Similarity=0.130 Sum_probs=65.5
Q ss_pred CCcHHHHHHHHHHh--------CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHhHhh
Q 002135 255 KLYSHQAESIMASL--------AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAMTKA 326 (961)
Q Consensus 255 ~l~~~Q~~ai~~il--------~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l~~~ 326 (961)
.+-.+-.+.++.+. +|+-++.++|+|-|||-+. +.+++.+.+-
T Consensus 415 gm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~--------------------------kSIA~ALnRk--- 465 (906)
T KOG2004|consen 415 GMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIA--------------------------KSIARALNRK--- 465 (906)
T ss_pred chHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHH--------------------------HHHHHHhCCc---
Confidence 45566666666543 5677899999999999542 2222232211
Q ss_pred CCCCccEEEEcCCCcHHHHHHHhcCCcEEEe-ChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEEe
Q 002135 327 FDASIDIGVYDGDTTQKDRMWLRDNARLLIT-NPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVID 405 (961)
Q Consensus 327 ~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlIt-TPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVID 405 (961)
.--...+|.+...+ ++...+-.|+ -|+++.+.|-.. =.+. -++.||
T Consensus 466 ----FfRfSvGG~tDvAe---IkGHRRTYVGAMPGkiIq~LK~v-------~t~N-------------------PliLiD 512 (906)
T KOG2004|consen 466 ----FFRFSVGGMTDVAE---IKGHRRTYVGAMPGKIIQCLKKV-------KTEN-------------------PLILID 512 (906)
T ss_pred ----eEEEeccccccHHh---hcccceeeeccCChHHHHHHHhh-------CCCC-------------------ceEEee
Confidence 11122356665544 5555555554 588887654111 1111 789999
Q ss_pred cchhhhcc-cchHHHHHHHHH
Q 002135 406 EAHAYKGA-FGCHTALILRRL 425 (961)
Q Consensus 406 EaH~~~~~-fg~~~~~ilrrL 425 (961)
|+|.+..+ .|..-+.+|..|
T Consensus 513 EvDKlG~g~qGDPasALLElL 533 (906)
T KOG2004|consen 513 EVDKLGSGHQGDPASALLELL 533 (906)
T ss_pred hhhhhCCCCCCChHHHHHHhc
Confidence 99999764 788777777766
No 458
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=70.16 E-value=3.4 Score=48.29 Aligned_cols=45 Identities=13% Similarity=0.182 Sum_probs=32.4
Q ss_pred hCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 268 LAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
...+++++.++||||||.. +..++..+.. .+.+++++=|.-++..
T Consensus 40 ~~~~h~~i~g~tGsGKt~~-i~~l~~~~~~-~~~~~vi~D~kg~~~~ 84 (410)
T cd01127 40 AEEAHTMIIGTTGTGKTTQ-IRELLASIRA-RGDRAIIYDPNGGFVS 84 (410)
T ss_pred hhhccEEEEcCCCCCHHHH-HHHHHHHHHh-cCCCEEEEeCCcchhH
Confidence 3457999999999999975 3344444443 2568888889877654
No 459
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=69.83 E-value=3.1 Score=47.67 Aligned_cols=20 Identities=35% Similarity=0.376 Sum_probs=16.9
Q ss_pred CCCcEEEEecCCchhHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~ 288 (961)
...|+|+.+|||||||+.++
T Consensus 225 eKSNvLllGPtGsGKTllaq 244 (564)
T KOG0745|consen 225 EKSNVLLLGPTGSGKTLLAQ 244 (564)
T ss_pred ecccEEEECCCCCchhHHHH
Confidence 44689999999999998654
No 460
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=69.64 E-value=7.1 Score=42.49 Aligned_cols=52 Identities=17% Similarity=0.250 Sum_probs=35.6
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
.|+.++|.+++|||||.-.+-.+.+.+.. +.+++|++ +.+...+..+.+.++
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~--ge~vlyvs-~~e~~~~l~~~~~~~ 73 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGARE--GEPVLYVS-TEESPEELLENARSF 73 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhc--CCcEEEEE-ecCCHHHHHHHHHHc
Confidence 56789999999999997665555555544 66777776 445555555555543
No 461
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=69.18 E-value=33 Score=44.22 Aligned_cols=18 Identities=22% Similarity=0.231 Sum_probs=15.8
Q ss_pred CcEEEEecCCchhHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~ 288 (961)
.|.++.+|+|+|||....
T Consensus 195 ~n~lL~G~pGvGKT~l~~ 212 (852)
T TIGR03346 195 NNPVLIGEPGVGKTAIVE 212 (852)
T ss_pred CceEEEcCCCCCHHHHHH
Confidence 589999999999998664
No 462
>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=69.07 E-value=12 Score=52.27 Aligned_cols=63 Identities=14% Similarity=0.144 Sum_probs=45.3
Q ss_pred CCCcHHHHHHHHHHhCC--CcEEEEecCCchhHHHHH--HHHHHHHhcCCCCeEEEEcccHHHHHHH
Q 002135 254 SKLYSHQAESIMASLAG--KNVVVATMTSSGKSLCYN--LPVLEALSHDLSSSALYMFPTKALAQDQ 316 (961)
Q Consensus 254 ~~l~~~Q~~ai~~il~G--~~vIv~apTGSGKTla~~--Lpil~~l~~~~~~~aLvl~PtraLa~qq 316 (961)
..|++.|.+|+..++.+ +-++|+++.|+|||.... +-.+..+.+..+.+++.++||-.-+...
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L 1084 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGEL 1084 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHH
Confidence 36999999999998865 457889999999997651 1222222333467889999997665543
No 463
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.97 E-value=24 Score=42.21 Aligned_cols=21 Identities=14% Similarity=0.102 Sum_probs=16.4
Q ss_pred EEEEecCCchhHHHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~ 293 (961)
.++++|.|+|||.++.+-+-.
T Consensus 41 yLf~Gp~G~GKTtlAr~lAk~ 61 (486)
T PRK14953 41 YIFAGPRGTGKTTIARILAKV 61 (486)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999887665433
No 464
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=68.50 E-value=4 Score=50.48 Aligned_cols=49 Identities=20% Similarity=0.043 Sum_probs=38.8
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
..++++.||||||||..+.+|-+-.. ...++|+-|--|+........++
T Consensus 144 ~~hvLviApTrSGKgvg~VIPnLL~~----~~S~VV~D~KGEl~~~Ta~~R~~ 192 (663)
T PRK13876 144 PEHVLCFAPTRSGKGVGLVVPTLLTW----PGSAIVHDIKGENWQLTAGFRAR 192 (663)
T ss_pred CceEEEEecCCCCcceeEehhhHHhC----CCCEEEEeCcchHHHHHHHHHHh
Confidence 36999999999999999999986542 45788899999998866554333
No 465
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=68.32 E-value=6.8 Score=45.45 Aligned_cols=45 Identities=16% Similarity=0.263 Sum_probs=30.7
Q ss_pred hCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 268 LAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
...+++++.+.||||||. ++-.++..+... +.+++|.=|.-+...
T Consensus 13 ~e~~~~li~G~~GsGKT~-~i~~ll~~~~~~-g~~~iI~D~kg~~~~ 57 (386)
T PF10412_consen 13 SENRHILIIGATGSGKTQ-AIRHLLDQIRAR-GDRAIIYDPKGEFTE 57 (386)
T ss_dssp GGGG-EEEEE-TTSSHHH-HHHHHHHHHHHT-T-EEEEEEETTHHHH
T ss_pred hhhCcEEEECCCCCCHHH-HHHHHHHHHHHc-CCEEEEEECCchHHH
Confidence 345799999999999997 456677666553 567888778766544
No 466
>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=67.87 E-value=24 Score=41.52 Aligned_cols=86 Identities=13% Similarity=0.175 Sum_probs=46.0
Q ss_pred cEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEc--ccHHHHHHHHHHHHHhHhhCCCCccEEEE-cCCCcHHH-H--
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMF--PTKALAQDQLRALLAMTKAFDASIDIGVY-DGDTTQKD-R-- 345 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~--PtraLa~qq~~~l~~l~~~~~~~i~v~~~-~Gd~~~~~-r-- 345 (961)
-+++++++|||||.+..--+.....+ .+.+++++. +.|.-+.+|.+.+.. ..+ +.+... .+..+..- +
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~-~g~kV~lV~~D~~R~~a~~QL~~~a~---~~g--vp~~~~~~~~~P~~i~~~a 174 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKK-QGKKVLLVACDLYRPAAIEQLKVLGQ---QVG--VPVFALGKGQSPVEIARRA 174 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHh-CCCeEEEEeccccchHHHHHHHHHHH---hcC--CceEecCCCCCHHHHHHHH
Confidence 57899999999998765444332212 244555444 456666666655533 333 222222 22333221 1
Q ss_pred -HHH-hcCCc-EEEeChhHHH
Q 002135 346 -MWL-RDNAR-LLITNPDMLH 363 (961)
Q Consensus 346 -~~l-~~~~~-IlItTPe~L~ 363 (961)
... ..+.+ |+|=||++++
T Consensus 175 l~~~~~~~~DvVIIDTaGr~~ 195 (428)
T TIGR00959 175 LEYAKENGFDVVIVDTAGRLQ 195 (428)
T ss_pred HHHHHhcCCCEEEEeCCCccc
Confidence 112 33454 7778999864
No 467
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=67.63 E-value=4.9 Score=42.15 Aligned_cols=20 Identities=15% Similarity=0.355 Sum_probs=14.7
Q ss_pred hCCCcEEEEecCCchhHHHH
Q 002135 268 LAGKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~ 287 (961)
..++++++.+|.|+|||..+
T Consensus 20 aG~h~lLl~GppGtGKTmlA 39 (206)
T PF01078_consen 20 AGGHHLLLIGPPGTGKTMLA 39 (206)
T ss_dssp HCC--EEEES-CCCTHHHHH
T ss_pred cCCCCeEEECCCCCCHHHHH
Confidence 46789999999999999865
No 468
>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=67.54 E-value=33 Score=35.35 Aligned_cols=74 Identities=19% Similarity=0.240 Sum_probs=50.2
Q ss_pred CCcEEEEecChHHHHHHHHHHHHHHHhhCCcccccEEEEcCCCCHHHHHHHHHHHhCCCceEEEeccc-----cccc-cc
Q 002135 525 GLRCIAFCRSRKLCELVLSYTREILEETAPHLVDSICVYRAGYVAEDRRRIERDFFGGKLCGVAATNA-----LELG-ID 598 (961)
Q Consensus 525 g~k~IVF~~sr~~ae~l~~~L~~~l~~~~~~l~~~v~~~hggls~~eR~~ie~~f~~G~~~vLVAT~a-----Le~G-ID 598 (961)
+.++||.|+++..+...+..++..... ....+..++|+.+..++....+ +...++|+|+- +..+ .+
T Consensus 69 ~~~viii~p~~~L~~q~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~----~~~~iiv~T~~~l~~~l~~~~~~ 140 (203)
T cd00268 69 GPQALILAPTRELALQIAEVARKLGKH----TNLKVVVIYGGTSIDKQIRKLK----RGPHIVVATPGRLLDLLERGKLD 140 (203)
T ss_pred CceEEEEcCCHHHHHHHHHHHHHHhcc----CCceEEEEECCCCHHHHHHHhc----CCCCEEEEChHHHHHHHHcCCCC
Confidence 568999999999999888777664322 2346778899988766543332 66789999962 2222 44
Q ss_pred cCCccEEE
Q 002135 599 VGHIDVTL 606 (961)
Q Consensus 599 Ip~vd~VI 606 (961)
+.+++++|
T Consensus 141 ~~~l~~lI 148 (203)
T cd00268 141 LSKVKYLV 148 (203)
T ss_pred hhhCCEEE
Confidence 55666665
No 469
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=67.49 E-value=4.7 Score=49.77 Aligned_cols=49 Identities=10% Similarity=-0.018 Sum_probs=37.7
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
..++++.||||||||..+.+|-+- +. +..++++-|-.|+..-.....++
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL---~~-~gS~VV~DpKgEl~~~Ta~~R~~ 272 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTAL---KW-GGPLVVLDPSTEVAPMVSEHRRD 272 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhh---cC-CCCEEEEeCcHHHHHHHHHHHHH
Confidence 368999999999999999999753 22 45688888999988765554433
No 470
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=67.47 E-value=8.2 Score=45.45 Aligned_cols=17 Identities=24% Similarity=0.366 Sum_probs=15.0
Q ss_pred CcEEEEecCCchhHHHH
Q 002135 271 KNVVVATMTSSGKSLCY 287 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~ 287 (961)
+.+++-+|.|+||||.+
T Consensus 257 KGiLLyGPPGTGKTLiA 273 (744)
T KOG0741|consen 257 KGILLYGPPGTGKTLIA 273 (744)
T ss_pred eeEEEECCCCCChhHHH
Confidence 57999999999999864
No 471
>PRK04296 thymidine kinase; Provisional
Probab=67.14 E-value=7.6 Score=40.21 Aligned_cols=37 Identities=19% Similarity=0.093 Sum_probs=24.6
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
|.-.++++|+|+|||...+--+.. +.. .+.+++++-|
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~-~~~-~g~~v~i~k~ 38 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYN-YEE-RGMKVLVFKP 38 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHH-HHH-cCCeEEEEec
Confidence 345688999999999765444433 332 2667887766
No 472
>TIGR02767 TraG-Ti Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems.
Probab=67.02 E-value=5.4 Score=48.98 Aligned_cols=48 Identities=8% Similarity=0.025 Sum_probs=37.2
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
.++++.||||||||..+.+|-+- .. +..++++-|--|+..-....-++
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnLL---~~-~gS~VV~DpKgE~~~~Ta~~R~~ 259 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTAL---KY-GGPLVCLDPSTEVAPMVCEHRRQ 259 (623)
T ss_pred ceEEEEeCCCCCccceeehhhhh---cC-CCCEEEEEChHHHHHHHHHHHHH
Confidence 68999999999999999999643 22 45788899999887765544333
No 473
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=66.82 E-value=8.3 Score=48.52 Aligned_cols=72 Identities=13% Similarity=0.128 Sum_probs=55.3
Q ss_pred CCCCCcHHHHHHHHHHhCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHHh
Q 002135 252 GISKLYSHQAESIMASLAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLAM 323 (961)
Q Consensus 252 g~~~l~~~Q~~ai~~il~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~l 323 (961)
+.-.+++-|.+||..-.....+.+.+|+|+|||-...--+.....+-+..++++++....-.+|.++.+.+.
T Consensus 735 n~v~ft~~qveai~sg~qpgltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqaln~lfeKi~~~ 806 (1320)
T KOG1806|consen 735 NQVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMAL 806 (1320)
T ss_pred chhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccchhHHHHHHHhc
Confidence 344678999999988888889999999999999776443333333456789999999988888777776553
No 474
>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=66.66 E-value=19 Score=45.43 Aligned_cols=18 Identities=28% Similarity=0.312 Sum_probs=15.3
Q ss_pred CCcEEEEecCCchhHHHH
Q 002135 270 GKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~ 287 (961)
.+.+++.+|+|+|||+.+
T Consensus 487 ~~giLL~GppGtGKT~la 504 (733)
T TIGR01243 487 PKGVLLFGPPGTGKTLLA 504 (733)
T ss_pred CceEEEECCCCCCHHHHH
Confidence 356999999999999864
No 475
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=66.54 E-value=8.4 Score=40.18 Aligned_cols=38 Identities=24% Similarity=0.288 Sum_probs=21.7
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhc-CCCCeEEEEcc
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSH-DLSSSALYMFP 308 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~-~~~~~aLvl~P 308 (961)
.|++|.++||||||.+...-+...+.. .+...-++++-
T Consensus 39 ~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD 77 (205)
T PF01580_consen 39 PHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIID 77 (205)
T ss_dssp -SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-
T ss_pred ceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEc
Confidence 489999999999998766544444442 23334455443
No 476
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=66.41 E-value=3.9 Score=50.56 Aligned_cols=43 Identities=21% Similarity=0.142 Sum_probs=35.3
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQL 317 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~ 317 (961)
.++++.||||||||..+.+|.+-. .+..++++-|--++.....
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL~----~~~S~VV~D~KGE~~~~Ta 218 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLLS----WGHSSVITDLKGELWALTA 218 (636)
T ss_pred ceEEEEecCCCCCceEEEccchhh----CCCCEEEEeCcHHHHHHHH
Confidence 689999999999999999998753 2457888999988876544
No 477
>COG1674 FtsK DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]
Probab=66.18 E-value=20 Score=46.14 Aligned_cols=45 Identities=13% Similarity=0.169 Sum_probs=31.2
Q ss_pred eeEEEEecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEeccCCC
Q 002135 399 IRFVVIDEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFSTATSA 447 (961)
Q Consensus 399 i~~VVIDEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl~ 447 (961)
.-++||||+.-+....+..+...+.+|.+.... ....+|+ ++.-+
T Consensus 640 ~iviiiDe~adlm~~~~k~ve~~i~rLa~~ara---~GIHlil-atqRp 684 (858)
T COG1674 640 YIVIIIDEYADLMMVAGKELEELIARLAQKGRA---AGIHLIL-ATQRP 684 (858)
T ss_pred eEEEEEcchHHHhhhhhHHHHHHHHHHHHhhhh---cceEEEE-ecCCC
Confidence 368999999998876777788888888776543 2456555 44333
No 478
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=66.13 E-value=56 Score=41.30 Aligned_cols=44 Identities=23% Similarity=0.208 Sum_probs=31.4
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQ 314 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~ 314 (961)
.|.-+.+.+++|||||...+..+..... .+.+++|+..--.+..
T Consensus 59 ~GsiteI~G~~GsGKTtLal~~~~~a~~--~G~~v~yId~E~t~~~ 102 (790)
T PRK09519 59 RGRVIEIYGPESSGKTTVALHAVANAQA--AGGVAAFIDAEHALDP 102 (790)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEECCccchhH
Confidence 3567889999999999876554554433 3677888887665653
No 479
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=66.06 E-value=3.8 Score=45.10 Aligned_cols=21 Identities=19% Similarity=0.286 Sum_probs=17.9
Q ss_pred HhCCCcEEEEecCCchhHHHH
Q 002135 267 SLAGKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 267 il~G~~vIv~apTGSGKTla~ 287 (961)
+.+++++++++|||+|||...
T Consensus 30 ~~~~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 30 LSNGRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp HHCTEEEEEESSTTSSHHHHH
T ss_pred HHcCCcEEEECCCCCchhHHH
Confidence 347889999999999999854
No 480
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=65.91 E-value=42 Score=37.77 Aligned_cols=23 Identities=13% Similarity=0.017 Sum_probs=17.4
Q ss_pred CcEEEEecCCchhHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~ 293 (961)
+..++.+|.|+||+..+..-+-.
T Consensus 27 ha~Lf~G~~G~Gk~~~A~~~a~~ 49 (314)
T PRK07399 27 PAYLFAGPEGVGRKLAALCFIEG 49 (314)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 47899999999999766544433
No 481
>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=65.91 E-value=34 Score=43.26 Aligned_cols=19 Identities=26% Similarity=0.303 Sum_probs=16.3
Q ss_pred CCCcEEEEecCCchhHHHH
Q 002135 269 AGKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~ 287 (961)
.++.+++.+|+|+|||...
T Consensus 211 ~~~giLL~GppGtGKT~la 229 (733)
T TIGR01243 211 PPKGVLLYGPPGTGKTLLA 229 (733)
T ss_pred CCceEEEECCCCCChHHHH
Confidence 4578999999999999754
No 482
>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=65.68 E-value=65 Score=32.48 Aligned_cols=36 Identities=25% Similarity=0.083 Sum_probs=26.9
Q ss_pred EEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccH
Q 002135 273 VVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTK 310 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Ptr 310 (961)
+.|-+++|.|||.+++--++..+.. +.+++++-=.|
T Consensus 5 i~vy~g~G~Gkt~~a~g~~~ra~~~--g~~v~~vQFlK 40 (159)
T cd00561 5 IQVYTGNGKGKTTAALGLALRALGH--GYRVGVVQFLK 40 (159)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEEEeC
Confidence 5677899999999988777776654 66787754444
No 483
>PRK10865 protein disaggregation chaperone; Provisional
Probab=65.63 E-value=40 Score=43.37 Aligned_cols=111 Identities=17% Similarity=0.098 Sum_probs=0.0
Q ss_pred HHHHHHHhCCC--cEEEEecCCchhHHHHHHHHHHHHhcCC-----CCeEEEE------cccH---HHHHHHHHHHHHhH
Q 002135 261 AESIMASLAGK--NVVVATMTSSGKSLCYNLPVLEALSHDL-----SSSALYM------FPTK---ALAQDQLRALLAMT 324 (961)
Q Consensus 261 ~~ai~~il~G~--~vIv~apTGSGKTla~~Lpil~~l~~~~-----~~~aLvl------~Ptr---aLa~qq~~~l~~l~ 324 (961)
.+.+..+.... |+|+.+|+|+|||.....-+.......- +.+++.+ .+++ ++-......+..+.
T Consensus 188 ~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~g~~e~~lk~~~~~~~ 267 (857)
T PRK10865 188 RRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLA 267 (857)
T ss_pred HHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchhhhhHHHHHHHHHHHH
Q ss_pred hhCCCCccEEEEcCCCcHHHHHHHhcCCcEEEeChhHHHHhhcCCCchhHHHhhhhhhhhhhcchhhhhhhhcceeEEEE
Q 002135 325 KAFDASIDIGVYDGDTTQKDRMWLRDNARLLITNPDMLHMSILPYHGQFSRILSNLRLIAFSLVTTEVYLIFLFIRFVVI 404 (961)
Q Consensus 325 ~~~~~~i~v~~~~Gd~~~~~r~~l~~~~~IlItTPe~L~~~lL~~~~~~~~~L~~l~~~~~~~~~~~~~~~~~~i~~VVI 404 (961)
...+. .+++|
T Consensus 268 ~~~~~----------------------------------------------------------------------~ILfI 277 (857)
T PRK10865 268 KQEGN----------------------------------------------------------------------VILFI 277 (857)
T ss_pred HcCCC----------------------------------------------------------------------eEEEE
Q ss_pred ecchhhhcccchHHHHHHHHHHHHhhcccCCCCcEEEec
Q 002135 405 DEAHAYKGAFGCHTALILRRLCRLCSHVYGSDPSFVFST 443 (961)
Q Consensus 405 DEaH~~~~~fg~~~~~ilrrL~~~~~~~~~~~~q~I~lS 443 (961)
||+|.+.+.-+..-. +..-.-+...+.....++|+.|
T Consensus 278 DEih~l~~~~~~~~~--~d~~~~lkp~l~~g~l~~IgaT 314 (857)
T PRK10865 278 DELHTMVGAGKADGA--MDAGNMLKPALARGELHCVGAT 314 (857)
T ss_pred ecHHHhccCCCCccc--hhHHHHhcchhhcCCCeEEEcC
No 484
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=65.58 E-value=14 Score=49.21 Aligned_cols=56 Identities=21% Similarity=0.171 Sum_probs=45.3
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhcC-CCCeEEEEcccHHHHHHHHHHHHHhHh
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEALSHD-LSSSALYMFPTKALAQDQLRALLAMTK 325 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~l~~~-~~~~aLvl~PtraLa~qq~~~l~~l~~ 325 (961)
.++++|.|+-|||||.+-.--++..+..+ ....+++|+-|+.-|..+..++...+.
T Consensus 10 ~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L~ 66 (1141)
T TIGR02784 10 KTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRLG 66 (1141)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHHH
Confidence 46899999999999988777676666542 346799999999999999888876654
No 485
>PLN02165 adenylate isopentenyltransferase
Probab=65.18 E-value=2.8 Score=47.21 Aligned_cols=30 Identities=27% Similarity=0.181 Sum_probs=20.3
Q ss_pred HHHHHHHHHhCCCcEEEEecCCchhHHHHH
Q 002135 259 HQAESIMASLAGKNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 259 ~Q~~ai~~il~G~~vIv~apTGSGKTla~~ 288 (961)
+|+++...=..|+.++|++|||||||..+.
T Consensus 32 ~~~~~~~~~~~g~iivIiGPTGSGKStLA~ 61 (334)
T PLN02165 32 MTSVAMEQNCKDKVVVIMGATGSGKSRLSV 61 (334)
T ss_pred ccccccccCCCCCEEEEECCCCCcHHHHHH
Confidence 344443322356679999999999997653
No 486
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=65.01 E-value=11 Score=40.31 Aligned_cols=39 Identities=23% Similarity=0.194 Sum_probs=27.7
Q ss_pred hCCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcc
Q 002135 268 LAGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFP 308 (961)
Q Consensus 268 l~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~P 308 (961)
..|.-+++.+++|+|||...+-.+...+. ++.+++|++.
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~~--~g~~~~yi~~ 60 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQRLAYGFLQ--NGYSVSYVST 60 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHh--CCCcEEEEeC
Confidence 45778999999999999875444444332 3567888874
No 487
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=64.77 E-value=36 Score=40.34 Aligned_cols=24 Identities=8% Similarity=0.109 Sum_probs=18.2
Q ss_pred CcEEEEecCCchhHHHHHHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~ 294 (961)
+..++.+|.|+|||.++..-+-..
T Consensus 40 ha~Lf~Gp~G~GKtt~A~~lAk~l 63 (451)
T PRK06305 40 HAYLFSGIRGTGKTTLARIFAKAL 63 (451)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHh
Confidence 347899999999998876554433
No 488
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=64.72 E-value=29 Score=41.93 Aligned_cols=21 Identities=14% Similarity=0.165 Sum_probs=16.3
Q ss_pred EEEEecCCchhHHHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVLE 293 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~ 293 (961)
.++++|.|+|||.++..-+-.
T Consensus 39 yLf~Gp~G~GKTt~Ar~LAk~ 59 (535)
T PRK08451 39 YLFSGLRGSGKTSSARIFARA 59 (535)
T ss_pred EEEECCCCCcHHHHHHHHHHH
Confidence 489999999999877554433
No 489
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=64.71 E-value=48 Score=41.17 Aligned_cols=18 Identities=17% Similarity=0.263 Sum_probs=15.2
Q ss_pred CCcEEEEecCCchhHHHH
Q 002135 270 GKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~ 287 (961)
...+++-+|.|+||||.+
T Consensus 705 RSGILLYGPPGTGKTLlA 722 (953)
T KOG0736|consen 705 RSGILLYGPPGTGKTLLA 722 (953)
T ss_pred cceeEEECCCCCchHHHH
Confidence 446999999999999854
No 490
>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=64.59 E-value=7.7 Score=40.50 Aligned_cols=39 Identities=15% Similarity=0.175 Sum_probs=28.1
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEccc
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPT 309 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~Pt 309 (961)
.|.-+.+.+|+|||||...+..+.+.... +.+++|+.-.
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e 49 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTE 49 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECC
Confidence 34678899999999998776555554432 5678888764
No 491
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=64.15 E-value=9 Score=38.96 Aligned_cols=45 Identities=20% Similarity=0.245 Sum_probs=31.3
Q ss_pred EEEEecCCchhHHHHHHHHHHHHhcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 273 VVVATMTSSGKSLCYNLPVLEALSHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 273 vIv~apTGSGKTla~~Lpil~~l~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
++|.+++|||||.-+.--+.. .+.+++|+.-.+++-.+..+++.+
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCHHHHHHHHH
Confidence 578999999999765433322 356889998777776665555544
No 492
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=63.95 E-value=20 Score=44.15 Aligned_cols=19 Identities=16% Similarity=0.331 Sum_probs=15.4
Q ss_pred CcEEEEecCCchhHHHHHH
Q 002135 271 KNVVVATMTSSGKSLCYNL 289 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~L 289 (961)
+-+++.+|+|+|||..+.+
T Consensus 111 ~illL~GP~GsGKTTl~~~ 129 (637)
T TIGR00602 111 RILLITGPSGCGKSTTIKI 129 (637)
T ss_pred cEEEEECCCCCCHHHHHHH
Confidence 3489999999999986543
No 493
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=63.91 E-value=99 Score=37.16 Aligned_cols=72 Identities=18% Similarity=0.175 Sum_probs=51.1
Q ss_pred CCcHHHHHHHHHHhC------C----CcEEEEecCCchhHHHHH-HHHHHHH-hcCCCCeEEEEcccHHHHHHHHHHHHH
Q 002135 255 KLYSHQAESIMASLA------G----KNVVVATMTSSGKSLCYN-LPVLEAL-SHDLSSSALYMFPTKALAQDQLRALLA 322 (961)
Q Consensus 255 ~l~~~Q~~ai~~il~------G----~~vIv~apTGSGKTla~~-Lpil~~l-~~~~~~~aLvl~PtraLa~qq~~~l~~ 322 (961)
.+-|+|.-++-++.. | +-.+|..|-+-|||.... +.....+ ....+....+++|+.+-+.+.+..++.
T Consensus 61 ~l~PwQkFiia~l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~~qa~~~F~~ar~ 140 (546)
T COG4626 61 SLEPWQKFIVAALFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSVEQAANSFNPARD 140 (546)
T ss_pred ccchHHHHHHHHHhceeecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEeccHHHHHHhhHHHHH
Confidence 578899999988872 2 248899999999986443 2222222 234467789999999988888887777
Q ss_pred hHhh
Q 002135 323 MTKA 326 (961)
Q Consensus 323 l~~~ 326 (961)
....
T Consensus 141 mv~~ 144 (546)
T COG4626 141 MVKR 144 (546)
T ss_pred HHHh
Confidence 6553
No 494
>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=63.61 E-value=84 Score=33.61 Aligned_cols=56 Identities=14% Similarity=0.094 Sum_probs=32.8
Q ss_pred CcEEEEecCCchhHHHHHHHHHHHHh----------cCCCCeEEEEcccHHHHHHHHHHHHHhHhhC
Q 002135 271 KNVVVATMTSSGKSLCYNLPVLEALS----------HDLSSSALYMFPTKALAQDQLRALLAMTKAF 327 (961)
Q Consensus 271 ~~vIv~apTGSGKTla~~Lpil~~l~----------~~~~~~aLvl~PtraLa~qq~~~l~~l~~~~ 327 (961)
.-.++.+|.|+|||...+--++.... ...+.++||+.-= .=..++.+++..+...+
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~E-d~~~~i~~Rl~~i~~~~ 67 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAE-DPREEIHRRLEAILQHL 67 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECC-CCHHHHHHHHHHHHhhc
Confidence 34689999999999776555543221 1135678888721 11224455666665543
No 495
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=63.61 E-value=28 Score=40.30 Aligned_cols=27 Identities=11% Similarity=0.331 Sum_probs=20.0
Q ss_pred CCCcEEEEecCCchhHHHHHHHHHHHHh
Q 002135 269 AGKNVVVATMTSSGKSLCYNLPVLEALS 296 (961)
Q Consensus 269 ~G~~vIv~apTGSGKTla~~Lpil~~l~ 296 (961)
.|+..+|.+|.|+|||....- +...+.
T Consensus 168 kGQR~lIvgppGvGKTTLaK~-Ian~I~ 194 (416)
T PRK09376 168 KGQRGLIVAPPKAGKTVLLQN-IANSIT 194 (416)
T ss_pred cCceEEEeCCCCCChhHHHHH-HHHHHH
Confidence 688999999999999964433 444443
No 496
>CHL00176 ftsH cell division protein; Validated
Probab=63.37 E-value=31 Score=42.76 Aligned_cols=19 Identities=26% Similarity=0.352 Sum_probs=16.1
Q ss_pred CCcEEEEecCCchhHHHHH
Q 002135 270 GKNVVVATMTSSGKSLCYN 288 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~ 288 (961)
.+++++.+|+|+|||+.+-
T Consensus 216 p~gVLL~GPpGTGKT~LAr 234 (638)
T CHL00176 216 PKGVLLVGPPGTGKTLLAK 234 (638)
T ss_pred CceEEEECCCCCCHHHHHH
Confidence 3579999999999998653
No 497
>PHA02244 ATPase-like protein
Probab=63.15 E-value=8 Score=44.22 Aligned_cols=23 Identities=22% Similarity=0.040 Sum_probs=19.1
Q ss_pred HHHhCCCcEEEEecCCchhHHHH
Q 002135 265 MASLAGKNVVVATMTSSGKSLCY 287 (961)
Q Consensus 265 ~~il~G~~vIv~apTGSGKTla~ 287 (961)
..+..+.++++.+|||+|||..+
T Consensus 114 r~l~~~~PVLL~GppGtGKTtLA 136 (383)
T PHA02244 114 KIVNANIPVFLKGGAGSGKNHIA 136 (383)
T ss_pred HHHhcCCCEEEECCCCCCHHHHH
Confidence 34557889999999999999754
No 498
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=62.95 E-value=57 Score=37.22 Aligned_cols=40 Identities=13% Similarity=-0.016 Sum_probs=25.9
Q ss_pred CCcEEEEecCCchhHHHHHHHHHHH-Hhc---CCCCeEEEEccc
Q 002135 270 GKNVVVATMTSSGKSLCYNLPVLEA-LSH---DLSSSALYMFPT 309 (961)
Q Consensus 270 G~~vIv~apTGSGKTla~~Lpil~~-l~~---~~~~~aLvl~Pt 309 (961)
|.-+.|+++.|||||...+.-++.. +.. ..+.+++||..-
T Consensus 126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE 169 (344)
T PLN03187 126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTE 169 (344)
T ss_pred CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcC
Confidence 4567899999999996544333332 211 224689999863
No 499
>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]
Probab=62.89 E-value=24 Score=38.50 Aligned_cols=41 Identities=15% Similarity=0.220 Sum_probs=29.5
Q ss_pred eEEEEecchhhhcc-cchHHHHHHHHHHHHhhcccCCCCcEEEeccCC
Q 002135 400 RFVVIDEAHAYKGA-FGCHTALILRRLCRLCSHVYGSDPSFVFSTATS 446 (961)
Q Consensus 400 ~~VVIDEaH~~~~~-fg~~~~~ilrrL~~~~~~~~~~~~q~I~lSATl 446 (961)
+++|.||.-...+. -..++-.++..+++.. ...+++.|==+
T Consensus 129 ~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~------~lt~lFIsHDL 170 (268)
T COG4608 129 KLIVADEPVSALDVSVQAQILNLLKDLQEEL------GLTYLFISHDL 170 (268)
T ss_pred cEEEecCchhhcchhHHHHHHHHHHHHHHHh------CCeEEEEEEEH
Confidence 99999999988773 5677777777777653 34566665443
No 500
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.61 E-value=37 Score=41.86 Aligned_cols=23 Identities=13% Similarity=0.182 Sum_probs=17.6
Q ss_pred cEEEEecCCchhHHHHHHHHHHH
Q 002135 272 NVVVATMTSSGKSLCYNLPVLEA 294 (961)
Q Consensus 272 ~vIv~apTGSGKTla~~Lpil~~ 294 (961)
-.|+++|.|+|||.++.+-+-..
T Consensus 41 ayLf~Gp~G~GKtt~A~~lAk~l 63 (614)
T PRK14971 41 AYLFCGPRGVGKTTCARIFAKTI 63 (614)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 37899999999999766544443
Done!