Query 011104
Match_columns 493
No_of_seqs 289 out of 2674
Neff 10.4
Searched_HMMs 46136
Date Fri Mar 29 08:09:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011104.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011104hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0330 ATP-dependent RNA heli 100.0 2.1E-76 4.5E-81 527.1 26.2 372 98-490 59-431 (476)
2 KOG0331 ATP-dependent RNA heli 100.0 5.1E-74 1.1E-78 546.3 33.1 368 99-484 90-466 (519)
3 KOG0328 Predicted ATP-dependen 100.0 2.5E-72 5.4E-77 480.1 27.1 376 96-491 23-398 (400)
4 KOG0332 ATP-dependent RNA heli 100.0 2.6E-71 5.6E-76 491.6 27.8 397 83-493 74-471 (477)
5 KOG0338 ATP-dependent RNA heli 100.0 1.9E-72 4.1E-77 517.3 19.5 359 99-477 180-544 (691)
6 COG0513 SrmB Superfamily II DN 100.0 8.3E-70 1.8E-74 541.6 37.1 365 100-483 29-398 (513)
7 KOG0333 U5 snRNP-like RNA heli 100.0 1.4E-68 2.9E-73 493.7 30.9 373 89-478 234-637 (673)
8 KOG0343 RNA Helicase [RNA proc 100.0 1.7E-68 3.6E-73 495.6 25.0 369 99-489 68-445 (758)
9 KOG0342 ATP-dependent RNA heli 100.0 1.6E-67 3.5E-72 484.2 27.0 371 96-489 78-457 (543)
10 KOG0340 ATP-dependent RNA heli 100.0 2.7E-67 5.8E-72 463.3 26.4 373 99-490 6-385 (442)
11 KOG0326 ATP-dependent RNA heli 100.0 1.9E-67 4.1E-72 457.7 22.4 371 98-490 83-453 (459)
12 KOG0345 ATP-dependent RNA heli 100.0 7.2E-66 1.6E-70 470.1 29.4 372 99-490 3-388 (567)
13 KOG0348 ATP-dependent RNA heli 100.0 8.4E-66 1.8E-70 476.1 26.9 378 95-487 131-574 (708)
14 KOG0347 RNA helicase [RNA proc 100.0 2E-66 4.3E-71 481.7 21.8 369 94-480 175-584 (731)
15 PTZ00110 helicase; Provisional 100.0 1.1E-64 2.3E-69 510.0 35.5 377 91-486 121-504 (545)
16 PRK04837 ATP-dependent RNA hel 100.0 4.8E-64 1E-68 495.8 38.3 371 99-488 7-384 (423)
17 PRK11776 ATP-dependent RNA hel 100.0 4.3E-63 9.4E-68 494.3 39.2 368 99-488 3-371 (460)
18 KOG0336 ATP-dependent RNA heli 100.0 1.6E-64 3.4E-69 453.3 24.4 370 96-486 215-592 (629)
19 PRK11634 ATP-dependent RNA hel 100.0 3E-63 6.6E-68 503.2 36.7 372 99-491 5-377 (629)
20 PLN00206 DEAD-box ATP-dependen 100.0 9.4E-63 2E-67 494.9 37.6 376 91-486 112-495 (518)
21 KOG0335 ATP-dependent RNA heli 100.0 1.8E-63 3.9E-68 465.8 28.0 380 85-479 59-457 (482)
22 PRK10590 ATP-dependent RNA hel 100.0 2.5E-62 5.4E-67 486.4 37.7 368 101-489 2-375 (456)
23 KOG0339 ATP-dependent RNA heli 100.0 8E-63 1.7E-67 453.3 31.1 370 91-479 214-588 (731)
24 KOG0341 DEAD-box protein abstr 100.0 4.4E-65 9.6E-70 453.9 13.6 375 90-485 160-548 (610)
25 PRK04537 ATP-dependent RNA hel 100.0 6.3E-62 1.4E-66 491.3 37.9 369 100-487 9-385 (572)
26 PRK11192 ATP-dependent RNA hel 100.0 4.6E-61 1E-65 477.0 38.8 367 101-487 2-373 (434)
27 KOG0346 RNA helicase [RNA proc 100.0 5.6E-62 1.2E-66 440.8 24.1 363 99-479 18-423 (569)
28 KOG0327 Translation initiation 100.0 7.7E-61 1.7E-65 428.8 25.6 371 99-491 25-395 (397)
29 PTZ00424 helicase 45; Provisio 100.0 3E-59 6.6E-64 461.2 38.5 371 99-489 27-397 (401)
30 PRK01297 ATP-dependent RNA hel 100.0 2.3E-59 5E-64 468.5 38.0 368 98-483 85-459 (475)
31 KOG0334 RNA helicase [RNA proc 100.0 9.7E-59 2.1E-63 463.6 24.3 369 92-479 357-733 (997)
32 KOG0350 DEAD-box ATP-dependent 100.0 3.3E-57 7.2E-62 416.1 24.6 365 101-478 128-553 (620)
33 KOG0344 ATP-dependent RNA heli 100.0 1.3E-55 2.8E-60 415.4 25.8 374 88-478 120-507 (593)
34 KOG4284 DEAD box protein [Tran 100.0 6.2E-56 1.3E-60 418.6 22.5 356 93-467 18-381 (980)
35 TIGR03817 DECH_helic helicase/ 100.0 2.4E-54 5.1E-59 446.9 33.7 359 106-489 20-411 (742)
36 KOG0337 ATP-dependent RNA heli 100.0 2.1E-55 4.5E-60 396.3 21.0 367 99-485 20-387 (529)
37 PLN03137 ATP-dependent DNA hel 100.0 1.6E-50 3.6E-55 415.0 31.5 338 104-466 441-788 (1195)
38 TIGR00614 recQ_fam ATP-depende 100.0 4.6E-50 1E-54 399.7 29.4 325 115-466 3-334 (470)
39 PRK11057 ATP-dependent DNA hel 100.0 2.1E-48 4.4E-53 397.5 30.8 334 106-466 8-344 (607)
40 PRK02362 ski2-like helicase; P 100.0 2.4E-47 5.2E-52 399.6 31.9 357 101-482 2-412 (737)
41 PRK13767 ATP-dependent helicas 100.0 5.3E-47 1.2E-51 400.1 30.8 359 107-485 18-419 (876)
42 KOG0329 ATP-dependent RNA heli 100.0 9.6E-49 2.1E-53 330.7 13.4 335 100-488 42-378 (387)
43 TIGR01389 recQ ATP-dependent D 100.0 6.2E-47 1.3E-51 388.2 29.1 326 114-466 4-332 (591)
44 TIGR02621 cas3_GSU0051 CRISPR- 100.0 2.5E-46 5.4E-51 379.1 32.0 322 115-464 8-390 (844)
45 TIGR00580 mfd transcription-re 100.0 1.3E-45 2.8E-50 385.0 31.4 341 105-477 434-787 (926)
46 PRK00254 ski2-like helicase; P 100.0 3.3E-45 7.2E-50 382.5 30.7 347 101-465 2-388 (720)
47 PRK01172 ski2-like helicase; P 100.0 7.4E-45 1.6E-49 378.5 30.7 355 101-479 2-389 (674)
48 PRK10917 ATP-dependent DNA hel 100.0 1.6E-43 3.4E-48 365.2 32.6 338 108-476 247-603 (681)
49 PRK10689 transcription-repair 100.0 1.3E-43 2.9E-48 377.7 32.5 340 106-477 584-936 (1147)
50 PRK09401 reverse gyrase; Revie 100.0 2.4E-43 5.2E-48 376.5 32.0 294 114-429 72-410 (1176)
51 TIGR00643 recG ATP-dependent D 100.0 6.1E-43 1.3E-47 358.8 32.4 327 109-463 222-564 (630)
52 COG1201 Lhr Lhr-like helicases 100.0 7.7E-43 1.7E-47 351.8 30.6 362 107-486 8-384 (814)
53 TIGR01970 DEAH_box_HrpB ATP-de 100.0 1.1E-42 2.3E-47 359.6 32.3 325 133-486 12-353 (819)
54 PHA02653 RNA helicase NPH-II; 100.0 6.5E-43 1.4E-47 352.8 29.6 317 126-466 167-515 (675)
55 PRK11664 ATP-dependent RNA hel 100.0 2.4E-42 5.3E-47 357.9 31.8 309 133-465 15-339 (812)
56 COG0514 RecQ Superfamily II DN 100.0 9.2E-43 2E-47 339.0 24.7 338 113-476 7-348 (590)
57 PRK09751 putative ATP-dependen 100.0 1.5E-41 3.3E-46 363.5 29.6 328 145-488 1-409 (1490)
58 PRK14701 reverse gyrase; Provi 100.0 3E-40 6.6E-45 359.8 32.1 348 110-480 67-538 (1638)
59 KOG0349 Putative DEAD-box RNA 100.0 1.7E-41 3.8E-46 307.2 18.2 304 171-485 286-666 (725)
60 TIGR01054 rgy reverse gyrase. 100.0 4E-40 8.6E-45 352.5 30.9 297 111-429 67-409 (1171)
61 PRK12898 secA preprotein trans 100.0 3.3E-39 7.2E-44 320.5 28.6 326 117-467 98-588 (656)
62 PHA02558 uvsW UvsW helicase; P 100.0 2.8E-39 6E-44 323.8 25.1 309 121-462 112-449 (501)
63 TIGR01587 cas3_core CRISPR-ass 100.0 1.9E-39 4.1E-44 314.9 23.0 302 142-464 1-335 (358)
64 COG1202 Superfamily II helicas 100.0 1.6E-38 3.5E-43 297.7 26.3 371 99-489 193-583 (830)
65 PRK09200 preprotein translocas 100.0 2.7E-38 5.9E-43 320.7 27.4 328 115-467 71-543 (790)
66 COG1111 MPH1 ERCC4-like helica 100.0 4.7E-38 1E-42 292.4 25.7 326 120-466 12-482 (542)
67 TIGR00963 secA preprotein tran 100.0 1.6E-37 3.4E-42 310.0 28.0 326 116-467 50-519 (745)
68 TIGR03714 secA2 accessory Sec 100.0 1.3E-37 2.7E-42 312.8 27.4 328 118-467 66-539 (762)
69 PRK11131 ATP-dependent RNA hel 100.0 3.3E-37 7.1E-42 324.7 29.8 316 141-487 90-429 (1294)
70 COG1204 Superfamily II helicas 100.0 1.5E-36 3.3E-41 310.7 28.0 348 106-469 15-412 (766)
71 KOG0352 ATP-dependent DNA heli 100.0 2.2E-37 4.9E-42 280.1 17.3 333 110-466 6-363 (641)
72 TIGR03158 cas3_cyano CRISPR-as 100.0 1.5E-35 3.2E-40 284.1 26.3 301 127-450 1-357 (357)
73 COG1205 Distinct helicase fami 100.0 8.5E-36 1.8E-40 309.6 26.4 364 110-491 58-452 (851)
74 PRK13766 Hef nuclease; Provisi 100.0 5.3E-35 1.1E-39 310.5 30.4 326 120-466 12-480 (773)
75 TIGR01967 DEAH_box_HrpA ATP-de 100.0 4.9E-35 1.1E-39 309.5 28.0 301 141-465 83-404 (1283)
76 KOG0351 ATP-dependent DNA heli 100.0 2.5E-35 5.4E-40 303.6 22.9 336 107-466 248-593 (941)
77 KOG0353 ATP-dependent DNA heli 100.0 3.8E-35 8.3E-40 262.1 19.0 344 99-465 70-467 (695)
78 KOG0354 DEAD-box like helicase 100.0 3.4E-34 7.3E-39 282.4 27.3 326 119-465 58-529 (746)
79 KOG0952 DNA/RNA helicase MER3/ 100.0 2.6E-34 5.7E-39 286.4 22.6 336 119-465 106-491 (1230)
80 TIGR00603 rad25 DNA repair hel 100.0 2.9E-33 6.2E-38 281.5 29.5 320 123-477 255-620 (732)
81 KOG0922 DEAH-box RNA helicase 100.0 4.9E-33 1.1E-37 267.3 23.9 328 131-490 59-408 (674)
82 COG1200 RecG RecG-like helicas 100.0 4.8E-32 1E-36 263.3 26.8 332 104-466 244-592 (677)
83 PRK05580 primosome assembly pr 100.0 5E-32 1.1E-36 278.7 26.2 327 123-465 144-549 (679)
84 KOG0948 Nuclear exosomal RNA h 100.0 1.3E-32 2.8E-37 265.0 19.7 329 119-474 126-548 (1041)
85 KOG0926 DEAH-box RNA helicase 100.0 6.3E-32 1.4E-36 261.8 22.0 330 141-489 272-725 (1172)
86 PRK04914 ATP-dependent helicas 100.0 3.7E-31 7.9E-36 275.6 28.7 340 123-481 152-618 (956)
87 COG1643 HrpA HrpA-like helicas 100.0 2.7E-31 5.8E-36 270.6 26.4 303 141-464 66-386 (845)
88 KOG0923 mRNA splicing factor A 100.0 1.8E-31 3.8E-36 254.1 21.5 334 129-489 271-627 (902)
89 PRK09694 helicase Cas3; Provis 100.0 1.6E-30 3.4E-35 269.2 26.7 318 119-454 282-664 (878)
90 KOG0947 Cytoplasmic exosomal R 100.0 7.5E-31 1.6E-35 259.0 22.1 323 118-465 293-723 (1248)
91 PRK13104 secA preprotein trans 100.0 2.8E-30 6.1E-35 261.7 26.8 324 119-467 79-589 (896)
92 TIGR00595 priA primosomal prot 100.0 7.5E-31 1.6E-35 260.6 20.9 307 144-466 1-382 (505)
93 cd00268 DEADc DEAD-box helicas 100.0 2.3E-30 4.9E-35 230.8 19.6 200 102-310 1-202 (203)
94 KOG0951 RNA helicase BRR2, DEA 100.0 4.2E-30 9.2E-35 259.7 23.0 361 106-481 295-718 (1674)
95 COG1061 SSL2 DNA or RNA helica 100.0 3.1E-29 6.7E-34 246.3 25.5 293 123-451 36-375 (442)
96 PRK12904 preprotein translocas 100.0 4.7E-29 1E-33 252.7 26.9 325 117-467 76-575 (830)
97 COG1197 Mfd Transcription-repa 100.0 1.6E-28 3.4E-33 252.0 30.1 341 105-477 577-930 (1139)
98 PRK12906 secA preprotein trans 100.0 2.5E-29 5.5E-34 253.7 23.2 330 114-468 72-556 (796)
99 PRK12899 secA preprotein trans 100.0 1E-28 2.2E-33 250.0 27.1 150 102-260 64-228 (970)
100 KOG0924 mRNA splicing factor A 100.0 1.5E-29 3.2E-34 241.7 19.3 321 141-488 372-714 (1042)
101 KOG0920 ATP-dependent RNA heli 100.0 3.9E-28 8.5E-33 246.4 22.8 323 125-465 175-544 (924)
102 COG4581 Superfamily II RNA hel 100.0 4.5E-28 9.7E-33 248.6 22.3 325 118-465 115-537 (1041)
103 PRK13107 preprotein translocas 100.0 2.5E-27 5.4E-32 239.6 25.3 324 119-467 79-593 (908)
104 COG4098 comFA Superfamily II D 100.0 9.8E-26 2.1E-30 199.7 25.5 314 123-472 97-422 (441)
105 PRK11448 hsdR type I restricti 100.0 1.4E-26 3E-31 247.0 24.1 306 123-453 413-801 (1123)
106 KOG0950 DNA polymerase theta/e 99.9 2.6E-26 5.6E-31 228.6 21.1 365 106-492 206-634 (1008)
107 COG1203 CRISPR-associated heli 99.9 1.3E-25 2.9E-30 233.5 23.4 327 123-465 195-550 (733)
108 PF00270 DEAD: DEAD/DEAH box h 99.9 1.4E-26 2.9E-31 200.3 13.5 168 125-298 1-168 (169)
109 KOG0925 mRNA splicing factor A 99.9 1E-25 2.2E-30 208.0 18.0 338 98-465 23-387 (699)
110 PLN03142 Probable chromatin-re 99.9 1.3E-24 2.9E-29 227.5 26.2 321 123-466 169-600 (1033)
111 COG1110 Reverse gyrase [DNA re 99.9 6.5E-23 1.4E-27 205.6 25.1 289 116-428 76-416 (1187)
112 COG1198 PriA Primosomal protei 99.9 4.3E-23 9.3E-28 207.9 20.4 329 123-465 198-603 (730)
113 TIGR00631 uvrb excinuclease AB 99.9 5.6E-22 1.2E-26 201.9 27.8 124 333-465 425-553 (655)
114 PRK12900 secA preprotein trans 99.9 4.8E-23 1E-27 209.5 19.5 127 331-467 579-713 (1025)
115 TIGR01407 dinG_rel DnaQ family 99.9 7.4E-22 1.6E-26 210.0 28.7 363 108-480 232-830 (850)
116 KOG0387 Transcription-coupled 99.9 1E-20 2.2E-25 185.0 30.9 332 123-475 205-670 (923)
117 KOG0385 Chromatin remodeling c 99.9 7.7E-22 1.7E-26 191.9 20.2 323 123-466 167-600 (971)
118 PRK05298 excinuclease ABC subu 99.9 3.3E-21 7E-26 198.0 26.1 151 334-488 430-588 (652)
119 COG0556 UvrB Helicase subunit 99.9 4E-21 8.7E-26 180.3 19.8 169 282-462 386-554 (663)
120 TIGR00348 hsdR type I site-spe 99.9 1.2E-20 2.6E-25 194.6 24.3 304 124-452 239-634 (667)
121 PRK12326 preprotein translocas 99.9 2.6E-20 5.6E-25 184.7 24.0 325 117-467 73-549 (764)
122 COG4096 HsdR Type I site-speci 99.9 2.2E-20 4.7E-25 184.9 19.8 295 122-452 164-525 (875)
123 PRK13103 secA preprotein trans 99.8 9.6E-20 2.1E-24 185.1 22.5 325 118-468 78-594 (913)
124 PRK07246 bifunctional ATP-depe 99.8 2.5E-19 5.4E-24 188.0 26.0 349 120-481 243-800 (820)
125 KOG0949 Predicted helicase, DE 99.8 1.2E-19 2.6E-24 180.8 22.0 159 123-294 511-673 (1330)
126 KOG1123 RNA polymerase II tran 99.8 1.1E-18 2.3E-23 162.5 19.8 320 121-478 300-667 (776)
127 KOG4150 Predicted ATP-dependen 99.8 1.4E-19 3E-24 170.7 14.1 363 111-490 274-666 (1034)
128 PRK12903 secA preprotein trans 99.8 4.4E-18 9.6E-23 171.3 23.9 324 117-467 73-541 (925)
129 KOG0384 Chromodomain-helicase 99.8 1.2E-19 2.6E-24 185.0 11.7 335 122-478 369-825 (1373)
130 CHL00122 secA preprotein trans 99.8 1.2E-17 2.6E-22 169.3 23.3 284 116-417 70-491 (870)
131 smart00487 DEXDc DEAD-like hel 99.8 3.8E-18 8.2E-23 151.6 17.8 186 119-311 4-189 (201)
132 cd00079 HELICc Helicase superf 99.8 2.1E-18 4.6E-23 142.2 14.7 120 334-461 12-131 (131)
133 KOG0953 Mitochondrial RNA heli 99.8 8.9E-18 1.9E-22 158.4 18.2 294 141-485 192-492 (700)
134 PRK08074 bifunctional ATP-depe 99.8 4.4E-17 9.5E-22 174.3 25.6 144 337-480 738-909 (928)
135 KOG0390 DNA repair protein, SN 99.8 3.1E-17 6.7E-22 164.8 22.6 322 123-466 238-708 (776)
136 TIGR03117 cas_csf4 CRISPR-asso 99.8 2.7E-16 5.8E-21 157.9 27.4 126 349-476 469-627 (636)
137 KOG0389 SNF2 family DNA-depend 99.8 1.2E-17 2.6E-22 163.5 16.5 332 124-474 400-897 (941)
138 KOG1000 Chromatin remodeling p 99.8 1.7E-15 3.6E-20 141.3 28.8 329 123-479 198-618 (689)
139 PRK12902 secA preprotein trans 99.8 1.7E-16 3.6E-21 160.7 23.1 283 118-417 81-506 (939)
140 PF00271 Helicase_C: Helicase 99.7 2.5E-18 5.4E-23 127.3 6.7 78 368-453 1-78 (78)
141 KOG0392 SNF2 family DNA-depend 99.7 1E-16 2.3E-21 163.4 19.9 332 124-477 976-1466(1549)
142 PF06862 DUF1253: Protein of u 99.7 1.5E-14 3.2E-19 138.3 27.9 291 166-466 32-416 (442)
143 KOG0951 RNA helicase BRR2, DEA 99.7 1.1E-15 2.5E-20 156.3 21.3 330 123-479 1143-1508(1674)
144 COG4889 Predicted helicase [Ge 99.7 4.7E-17 1E-21 160.7 9.3 337 110-462 149-585 (1518)
145 cd00046 DEXDc DEAD-like helica 99.7 1.3E-15 2.8E-20 127.3 14.2 144 141-292 1-144 (144)
146 PRK11747 dinG ATP-dependent DN 99.7 1E-13 2.2E-18 144.0 29.7 142 335-480 519-690 (697)
147 KOG0391 SNF2 family DNA-depend 99.7 6.6E-15 1.4E-19 149.3 19.2 128 333-466 1259-1388(1958)
148 PF04851 ResIII: Type III rest 99.6 2.7E-15 5.8E-20 131.5 11.6 156 123-293 3-183 (184)
149 COG1199 DinG Rad3-related DNA 99.6 1E-13 2.2E-18 145.2 25.5 134 349-485 478-638 (654)
150 TIGR02562 cas3_yersinia CRISPR 99.6 4.5E-14 9.7E-19 145.5 19.9 315 124-454 409-881 (1110)
151 KOG1002 Nucleotide excision re 99.6 5.3E-13 1.2E-17 124.7 24.8 125 335-467 621-751 (791)
152 smart00490 HELICc helicase sup 99.6 2.6E-15 5.6E-20 112.5 7.5 81 365-453 2-82 (82)
153 KOG0386 Chromatin remodeling c 99.6 3.3E-15 7.2E-20 150.2 10.2 325 122-465 393-836 (1157)
154 PRK14873 primosome assembly pr 99.6 2E-14 4.3E-19 146.6 14.3 295 144-463 164-537 (665)
155 TIGR00604 rad3 DNA repair heli 99.6 6E-13 1.3E-17 139.5 25.5 129 335-465 506-674 (705)
156 PRK12901 secA preprotein trans 99.6 7.3E-14 1.6E-18 143.3 17.6 126 331-467 609-743 (1112)
157 KOG2340 Uncharacterized conser 99.5 7.9E-13 1.7E-17 124.6 20.7 336 122-466 215-669 (698)
158 PF02399 Herpes_ori_bp: Origin 99.5 2.1E-12 4.6E-17 130.1 22.5 296 141-464 50-387 (824)
159 KOG0388 SNF2 family DNA-depend 99.4 3.7E-12 8.1E-17 123.9 14.7 125 334-466 1028-1155(1185)
160 KOG4439 RNA polymerase II tran 99.4 1.8E-11 3.9E-16 119.4 19.0 132 335-474 730-867 (901)
161 KOG0921 Dosage compensation co 99.4 1.5E-12 3.2E-17 129.8 10.8 308 141-463 394-772 (1282)
162 KOG1015 Transcription regulato 99.4 2.2E-11 4.7E-16 122.1 16.1 123 335-465 1127-1277(1567)
163 PF07652 Flavi_DEAD: Flaviviru 99.3 3.8E-12 8.3E-17 101.4 8.5 136 141-296 5-140 (148)
164 COG0610 Type I site-specific r 99.3 1.7E-10 3.8E-15 123.3 21.2 298 140-462 273-650 (962)
165 COG0653 SecA Preprotein transl 99.3 3.7E-11 8E-16 122.0 12.9 333 119-466 77-546 (822)
166 COG0553 HepA Superfamily II DN 99.2 6.3E-10 1.4E-14 121.6 18.8 125 334-466 692-823 (866)
167 PF00176 SNF2_N: SNF2 family N 99.1 4E-10 8.7E-15 106.9 12.2 143 141-293 26-173 (299)
168 smart00488 DEXDc2 DEAD-like he 99.0 1.9E-09 4.1E-14 100.3 10.6 73 119-194 5-84 (289)
169 smart00489 DEXDc3 DEAD-like he 99.0 1.9E-09 4.1E-14 100.3 10.6 73 119-194 5-84 (289)
170 PF07517 SecA_DEAD: SecA DEAD- 98.8 1.4E-08 3.1E-13 91.7 8.8 132 118-261 73-211 (266)
171 KOG0952 DNA/RNA helicase MER3/ 98.6 1.3E-08 2.8E-13 104.2 0.8 133 123-262 927-1061(1230)
172 PF13307 Helicase_C_2: Helicas 98.5 2.8E-07 6.1E-12 78.6 5.8 110 350-463 9-148 (167)
173 TIGR00596 rad1 DNA repair prot 98.4 9.7E-07 2.1E-11 92.4 10.6 38 224-261 8-45 (814)
174 KOG1016 Predicted DNA helicase 98.4 3.8E-06 8.2E-11 83.7 13.6 107 350-464 719-848 (1387)
175 COG3587 Restriction endonuclea 98.4 1.3E-05 2.9E-10 81.2 17.3 71 399-477 482-564 (985)
176 PF13604 AAA_30: AAA domain; P 98.3 1.1E-06 2.4E-11 77.0 6.5 64 124-190 2-65 (196)
177 PRK15483 type III restriction- 98.3 2.7E-06 5.8E-11 89.3 9.3 145 141-294 60-240 (986)
178 PF09848 DUF2075: Uncharacteri 98.2 7.4E-06 1.6E-10 79.1 9.5 96 141-261 2-97 (352)
179 PF02562 PhoH: PhoH-like prote 98.1 2E-06 4.3E-11 74.8 3.9 59 122-183 3-61 (205)
180 PF13872 AAA_34: P-loop contai 98.0 5.3E-05 1.1E-09 69.0 10.6 149 141-298 63-226 (303)
181 PF13245 AAA_19: Part of AAA d 98.0 2.7E-05 5.8E-10 56.3 6.3 51 141-191 11-62 (76)
182 PRK10875 recD exonuclease V su 98.0 7.1E-05 1.5E-09 76.6 11.6 140 125-291 154-301 (615)
183 KOG1001 Helicase-like transcri 98.0 6.6E-05 1.4E-09 77.2 11.4 108 351-466 540-651 (674)
184 TIGR01447 recD exodeoxyribonuc 97.9 7.7E-05 1.7E-09 76.2 11.6 140 125-290 147-294 (586)
185 PF12340 DUF3638: Protein of u 97.9 4.9E-05 1.1E-09 66.7 8.5 155 101-261 4-186 (229)
186 KOG1802 RNA helicase nonsense 97.9 2.5E-05 5.4E-10 77.0 6.3 73 119-195 406-478 (935)
187 PRK10536 hypothetical protein; 97.8 9.6E-05 2.1E-09 66.2 8.8 61 119-182 55-115 (262)
188 TIGR01448 recD_rel helicase, p 97.8 0.00013 2.7E-09 76.9 11.1 67 119-189 320-386 (720)
189 COG1875 NYN ribonuclease and A 97.7 4.6E-05 1E-09 70.3 5.6 67 118-184 223-289 (436)
190 PF13086 AAA_11: AAA domain; P 97.7 9.4E-05 2E-09 67.2 7.8 67 124-193 2-75 (236)
191 smart00492 HELICc3 helicase su 97.7 0.00013 2.7E-09 60.0 7.6 86 378-463 25-136 (141)
192 COG3421 Uncharacterized protei 97.7 0.00039 8.5E-09 68.2 11.3 148 145-294 2-167 (812)
193 smart00491 HELICc2 helicase su 97.6 0.00017 3.7E-09 59.3 6.7 101 363-463 4-137 (142)
194 KOG1803 DNA helicase [Replicat 97.6 0.0001 2.3E-09 72.3 6.2 66 123-192 185-250 (649)
195 PRK12723 flagellar biosynthesi 97.6 0.0011 2.4E-08 64.0 12.8 130 141-303 175-309 (388)
196 KOG1132 Helicase of the DEAD s 97.5 0.00025 5.5E-09 72.6 7.9 114 351-465 562-722 (945)
197 PF00580 UvrD-helicase: UvrD/R 97.5 0.0002 4.3E-09 68.3 6.7 70 124-197 1-71 (315)
198 TIGR02768 TraA_Ti Ti-type conj 97.5 0.0014 3.1E-08 69.3 13.4 137 107-289 338-474 (744)
199 PF13401 AAA_22: AAA domain; P 97.4 0.00026 5.7E-09 57.7 5.0 18 141-158 5-22 (131)
200 PRK04296 thymidine kinase; Pro 97.3 0.00054 1.2E-08 59.8 6.6 109 141-291 3-114 (190)
201 TIGR02760 TraI_TIGR conjugativ 97.3 0.015 3.2E-07 68.1 19.7 241 123-400 429-686 (1960)
202 KOG0989 Replication factor C, 97.3 0.0013 2.8E-08 59.6 8.7 111 141-292 58-169 (346)
203 PRK13889 conjugal transfer rel 97.3 0.0018 3.9E-08 69.8 10.9 125 123-291 346-470 (988)
204 PF14617 CMS1: U3-containing 9 97.2 0.00032 6.9E-09 62.9 4.1 88 169-258 124-212 (252)
205 PRK13826 Dtr system oriT relax 97.2 0.0041 8.9E-08 67.6 12.9 140 106-291 366-505 (1102)
206 COG1419 FlhF Flagellar GTP-bin 97.2 0.0079 1.7E-07 57.4 13.2 131 141-304 204-336 (407)
207 PRK11889 flhF flagellar biosyn 97.2 0.0067 1.5E-07 58.0 12.5 130 141-304 242-375 (436)
208 PRK14722 flhF flagellar biosyn 97.2 0.0016 3.4E-08 62.4 8.2 131 141-304 138-270 (374)
209 KOG1133 Helicase of the DEAD s 97.1 0.025 5.4E-07 57.0 16.3 126 350-478 629-793 (821)
210 PRK06526 transposase; Provisio 97.1 0.0026 5.6E-08 58.0 9.0 19 141-159 99-117 (254)
211 PF05970 PIF1: PIF1-like helic 97.1 0.0022 4.7E-08 62.2 8.8 59 124-187 2-66 (364)
212 cd00009 AAA The AAA+ (ATPases 97.1 0.0071 1.5E-07 50.0 10.5 17 141-157 20-36 (151)
213 PRK05642 DNA replication initi 97.0 0.0027 5.8E-08 57.5 7.7 47 245-294 95-141 (234)
214 PRK06893 DNA replication initi 97.0 0.0032 6.9E-08 56.8 8.0 49 245-295 89-137 (229)
215 PF00448 SRP54: SRP54-type pro 97.0 0.0047 1E-07 54.0 8.8 133 141-304 2-137 (196)
216 KOG0298 DEAD box-containing he 96.9 0.0051 1.1E-07 65.8 10.1 147 141-298 375-556 (1394)
217 KOG1805 DNA replication helica 96.9 0.0014 3.1E-08 67.9 5.5 145 104-261 655-810 (1100)
218 KOG0383 Predicted helicase [Ge 96.9 0.0001 2.2E-09 75.0 -2.9 79 334-413 615-696 (696)
219 TIGR00376 DNA helicase, putati 96.9 0.0027 5.8E-08 66.0 7.3 67 123-193 157-223 (637)
220 PRK14974 cell division protein 96.8 0.015 3.2E-07 55.3 11.3 132 141-304 141-276 (336)
221 PF05127 Helicase_RecD: Helica 96.8 0.00093 2E-08 56.7 2.9 124 144-293 1-124 (177)
222 TIGR01075 uvrD DNA helicase II 96.8 0.003 6.4E-08 67.3 7.2 70 122-195 3-73 (715)
223 PRK08084 DNA replication initi 96.8 0.0053 1.2E-07 55.6 7.8 44 248-293 98-141 (235)
224 PRK14087 dnaA chromosomal repl 96.8 0.0099 2.1E-07 59.2 10.3 112 141-296 142-253 (450)
225 PRK08181 transposase; Validate 96.8 0.02 4.4E-07 52.6 11.5 17 141-157 107-123 (269)
226 PRK05580 primosome assembly pr 96.8 0.034 7.4E-07 58.6 14.7 100 326-426 166-266 (679)
227 PRK06835 DNA replication prote 96.8 0.015 3.4E-07 55.1 11.1 42 141-186 184-225 (329)
228 TIGR03420 DnaA_homol_Hda DnaA 96.7 0.018 3.8E-07 51.9 11.1 18 141-158 39-56 (226)
229 PRK05703 flhF flagellar biosyn 96.7 0.022 4.7E-07 56.3 12.3 130 141-303 222-354 (424)
230 PRK10919 ATP-dependent DNA hel 96.7 0.0054 1.2E-07 64.5 8.4 70 123-196 2-72 (672)
231 PRK11773 uvrD DNA-dependent he 96.7 0.0034 7.3E-08 66.8 6.7 69 123-195 9-78 (721)
232 PRK08727 hypothetical protein; 96.6 0.0082 1.8E-07 54.3 8.0 50 245-296 91-140 (233)
233 PRK00149 dnaA chromosomal repl 96.6 0.014 2.9E-07 58.6 10.1 107 141-294 149-255 (450)
234 KOG0733 Nuclear AAA ATPase (VC 96.6 0.0072 1.6E-07 60.0 7.7 178 97-341 505-690 (802)
235 PRK14956 DNA polymerase III su 96.6 0.018 4E-07 56.9 10.4 21 141-161 41-61 (484)
236 PRK12727 flagellar biosynthesi 96.5 0.083 1.8E-06 52.8 14.5 128 141-303 351-481 (559)
237 PF00308 Bac_DnaA: Bacterial d 96.5 0.0062 1.3E-07 54.4 6.2 50 245-296 95-144 (219)
238 PRK07764 DNA polymerase III su 96.5 0.024 5.2E-07 60.5 11.4 40 245-289 118-157 (824)
239 PRK14712 conjugal transfer nic 96.5 0.012 2.6E-07 66.2 9.5 65 123-188 835-901 (1623)
240 PRK05707 DNA polymerase III su 96.5 0.014 3E-07 55.5 8.8 38 124-161 4-43 (328)
241 PF03354 Terminase_1: Phage Te 96.5 0.032 7E-07 56.4 11.9 57 141-197 23-80 (477)
242 PRK13709 conjugal transfer nic 96.5 0.016 3.6E-07 66.1 10.6 65 123-188 967-1033(1747)
243 COG1444 Predicted P-loop ATPas 96.5 0.011 2.3E-07 61.2 8.3 148 119-293 210-357 (758)
244 smart00382 AAA ATPases associa 96.5 0.0041 8.9E-08 51.1 4.6 40 141-183 3-42 (148)
245 TIGR02881 spore_V_K stage V sp 96.4 0.021 4.6E-07 52.7 9.5 17 141-157 43-59 (261)
246 TIGR01074 rep ATP-dependent DN 96.4 0.012 2.6E-07 62.4 8.8 69 124-196 2-71 (664)
247 PRK07003 DNA polymerase III su 96.4 0.029 6.2E-07 58.2 10.9 40 246-291 118-157 (830)
248 PRK14723 flhF flagellar biosyn 96.4 0.026 5.7E-07 59.0 10.8 129 141-304 186-318 (767)
249 PRK08116 hypothetical protein; 96.4 0.064 1.4E-06 49.6 12.3 41 141-185 115-155 (268)
250 PRK14088 dnaA chromosomal repl 96.4 0.028 6.1E-07 55.9 10.6 51 247-299 194-244 (440)
251 PF13871 Helicase_C_4: Helicas 96.3 0.013 2.7E-07 53.6 7.1 80 391-478 52-142 (278)
252 PRK14873 primosome assembly pr 96.3 0.05 1.1E-06 56.7 12.4 92 334-426 172-265 (665)
253 TIGR00362 DnaA chromosomal rep 96.3 0.023 5E-07 56.2 9.6 37 141-178 137-173 (405)
254 PF05876 Terminase_GpA: Phage 96.3 0.016 3.5E-07 59.3 8.6 129 123-261 16-148 (557)
255 PRK10917 ATP-dependent DNA hel 96.3 0.035 7.5E-07 58.7 11.3 99 326-424 286-389 (681)
256 TIGR01547 phage_term_2 phage t 96.3 0.04 8.7E-07 54.4 11.2 150 141-305 2-153 (396)
257 PRK12726 flagellar biosynthesi 96.3 0.041 8.9E-07 52.6 10.5 129 141-302 207-338 (407)
258 PTZ00112 origin recognition co 96.3 0.055 1.2E-06 56.9 12.0 29 246-276 868-896 (1164)
259 PRK06921 hypothetical protein; 96.3 0.04 8.8E-07 50.7 10.3 36 141-178 118-153 (266)
260 PRK08769 DNA polymerase III su 96.2 0.06 1.3E-06 50.8 11.3 143 122-291 3-152 (319)
261 PRK12422 chromosomal replicati 96.2 0.03 6.4E-07 55.7 9.8 56 246-303 201-256 (445)
262 TIGR00595 priA primosomal prot 96.2 0.032 6.8E-07 56.6 10.1 93 333-426 8-101 (505)
263 cd01120 RecA-like_NTPases RecA 96.2 0.079 1.7E-06 44.6 11.3 38 143-183 2-39 (165)
264 COG3973 Superfamily I DNA and 96.2 0.024 5.2E-07 56.3 8.5 70 127-196 213-285 (747)
265 PRK08903 DnaA regulatory inact 96.2 0.097 2.1E-06 47.2 12.2 43 247-293 90-132 (227)
266 PHA02533 17 large terminase pr 96.1 0.07 1.5E-06 54.2 12.2 151 123-291 59-209 (534)
267 PRK12323 DNA polymerase III su 96.1 0.04 8.6E-07 56.3 10.0 40 245-289 122-161 (700)
268 COG1474 CDC6 Cdc6-related prot 96.1 0.082 1.8E-06 51.0 11.8 42 246-291 122-163 (366)
269 PRK14964 DNA polymerase III su 96.1 0.056 1.2E-06 54.0 10.9 40 245-289 114-153 (491)
270 PRK00411 cdc6 cell division co 96.1 0.05 1.1E-06 53.7 10.7 17 141-157 56-72 (394)
271 PRK06731 flhF flagellar biosyn 96.1 0.1 2.2E-06 48.0 11.8 129 141-304 76-209 (270)
272 PF01695 IstB_IS21: IstB-like 96.0 0.018 3.9E-07 49.5 6.3 42 141-186 48-89 (178)
273 PRK14721 flhF flagellar biosyn 96.0 0.061 1.3E-06 52.6 10.6 130 141-303 192-323 (420)
274 PRK14958 DNA polymerase III su 96.0 0.1 2.2E-06 52.9 12.4 39 246-289 118-156 (509)
275 PF13177 DNA_pol3_delta2: DNA 96.0 0.048 1E-06 46.1 8.6 42 246-292 101-142 (162)
276 PRK09111 DNA polymerase III su 95.9 0.058 1.3E-06 55.6 10.6 40 245-289 130-169 (598)
277 PRK14086 dnaA chromosomal repl 95.9 0.045 9.7E-07 55.8 9.6 51 245-297 375-425 (617)
278 TIGR00643 recG ATP-dependent D 95.9 0.057 1.2E-06 56.6 10.8 99 326-424 260-363 (630)
279 PRK14951 DNA polymerase III su 95.9 0.066 1.4E-06 55.1 10.7 40 245-289 122-161 (618)
280 PRK14952 DNA polymerase III su 95.9 0.1 2.3E-06 53.5 12.1 40 245-289 116-155 (584)
281 TIGR01073 pcrA ATP-dependent D 95.9 0.028 6E-07 60.1 8.4 70 123-196 4-74 (726)
282 PRK12724 flagellar biosynthesi 95.8 0.085 1.8E-06 51.3 10.6 130 141-303 224-356 (432)
283 PLN03025 replication factor C 95.8 0.15 3.2E-06 48.6 12.4 19 141-159 35-53 (319)
284 KOG1131 RNA polymerase II tran 95.8 0.027 5.8E-07 54.8 6.8 114 351-465 531-680 (755)
285 PRK00771 signal recognition pa 95.7 0.057 1.2E-06 53.3 9.2 131 141-304 96-229 (437)
286 KOG0701 dsRNA-specific nucleas 95.7 0.0068 1.5E-07 67.5 3.1 94 352-453 294-399 (1606)
287 PRK12377 putative replication 95.7 0.13 2.8E-06 46.7 10.8 43 141-187 102-144 (248)
288 TIGR02880 cbbX_cfxQ probable R 95.7 0.16 3.5E-06 47.4 11.8 17 141-157 59-75 (284)
289 PRK11054 helD DNA helicase IV; 95.7 0.02 4.4E-07 59.9 6.4 71 122-196 195-266 (684)
290 PHA03368 DNA packaging termina 95.7 0.21 4.5E-06 51.1 12.8 135 141-293 255-391 (738)
291 PRK14949 DNA polymerase III su 95.7 0.055 1.2E-06 57.4 9.1 38 246-288 118-155 (944)
292 COG1110 Reverse gyrase [DNA re 95.6 0.058 1.2E-06 57.0 9.1 85 325-409 100-190 (1187)
293 CHL00181 cbbX CbbX; Provisiona 95.6 0.15 3.3E-06 47.5 11.3 19 141-159 60-78 (287)
294 PRK14963 DNA polymerase III su 95.6 0.077 1.7E-06 53.6 9.9 38 245-287 114-151 (504)
295 TIGR02785 addA_Gpos recombinat 95.6 0.025 5.4E-07 63.8 7.0 123 124-258 2-126 (1232)
296 PRK08691 DNA polymerase III su 95.6 0.11 2.3E-06 53.9 10.7 40 245-289 117-156 (709)
297 COG1198 PriA Primosomal protei 95.6 0.073 1.6E-06 55.6 9.7 98 326-424 221-319 (730)
298 PRK14961 DNA polymerase III su 95.6 0.11 2.4E-06 50.4 10.6 40 245-289 117-156 (363)
299 COG0470 HolB ATPase involved i 95.6 0.12 2.6E-06 49.4 10.9 40 246-291 108-147 (325)
300 TIGR00580 mfd transcription-re 95.5 0.096 2.1E-06 56.9 10.8 99 326-424 476-579 (926)
301 PRK05563 DNA polymerase III su 95.5 0.14 3E-06 52.7 11.4 46 100-161 13-59 (559)
302 TIGR02760 TraI_TIGR conjugativ 95.5 0.063 1.4E-06 63.0 9.9 64 123-188 1019-1085(1960)
303 PRK10867 signal recognition pa 95.5 0.15 3.2E-06 50.3 10.9 42 141-184 101-144 (433)
304 PRK14960 DNA polymerase III su 95.5 0.069 1.5E-06 54.8 8.8 21 141-161 38-58 (702)
305 PRK08451 DNA polymerase III su 95.5 0.24 5.3E-06 50.1 12.6 40 245-289 115-154 (535)
306 PRK07952 DNA replication prote 95.4 0.19 4.1E-06 45.5 10.7 34 141-177 100-133 (244)
307 PRK14965 DNA polymerase III su 95.4 0.16 3.4E-06 52.5 11.4 40 245-289 117-156 (576)
308 KOG0991 Replication factor C, 95.4 0.037 8.1E-07 48.3 5.7 22 138-159 46-67 (333)
309 PRK13833 conjugal transfer pro 95.4 0.025 5.3E-07 53.4 5.1 59 124-184 129-187 (323)
310 PRK07994 DNA polymerase III su 95.4 0.067 1.4E-06 55.3 8.5 38 246-288 118-155 (647)
311 COG0593 DnaA ATPase involved i 95.4 0.1 2.3E-06 50.4 9.3 51 247-299 175-225 (408)
312 cd01124 KaiC KaiC is a circadi 95.4 0.054 1.2E-06 47.1 6.9 49 143-195 2-50 (187)
313 PF05621 TniB: Bacterial TniB 95.3 0.093 2E-06 48.4 8.5 50 141-190 62-115 (302)
314 PRK14962 DNA polymerase III su 95.3 0.13 2.8E-06 51.5 10.2 20 141-160 37-56 (472)
315 PRK14959 DNA polymerase III su 95.3 0.12 2.6E-06 53.0 10.0 22 141-162 39-60 (624)
316 PRK06645 DNA polymerase III su 95.3 0.2 4.3E-06 50.6 11.3 21 141-161 44-64 (507)
317 PRK05896 DNA polymerase III su 95.3 0.18 3.9E-06 51.5 11.1 21 141-161 39-59 (605)
318 PRK06871 DNA polymerase III su 95.3 0.12 2.5E-06 49.0 9.1 42 245-291 105-146 (325)
319 PF00004 AAA: ATPase family as 95.3 0.42 9.1E-06 38.5 11.6 15 143-157 1-15 (132)
320 PRK07993 DNA polymerase III su 95.2 0.083 1.8E-06 50.4 8.2 42 245-291 106-147 (334)
321 PRK14969 DNA polymerase III su 95.2 0.18 3.9E-06 51.4 11.0 40 245-289 117-156 (527)
322 PRK14948 DNA polymerase III su 95.2 0.15 3.3E-06 52.9 10.6 37 245-286 119-155 (620)
323 PRK13894 conjugal transfer ATP 95.2 0.028 6.1E-07 53.1 4.8 58 124-183 133-190 (319)
324 PRK06964 DNA polymerase III su 95.2 0.2 4.3E-06 47.8 10.5 60 226-291 112-171 (342)
325 TIGR02782 TrbB_P P-type conjug 95.2 0.041 8.8E-07 51.7 5.9 58 125-184 118-175 (299)
326 PRK07471 DNA polymerase III su 95.2 0.1 2.2E-06 50.4 8.7 132 141-291 42-180 (365)
327 TIGR03689 pup_AAA proteasome A 95.2 0.1 2.2E-06 52.5 8.9 54 99-157 178-233 (512)
328 PRK14955 DNA polymerase III su 95.2 0.27 5.9E-06 48.4 11.9 41 245-291 125-165 (397)
329 PHA02544 44 clamp loader, smal 95.2 0.2 4.4E-06 47.7 10.8 43 99-157 17-60 (316)
330 TIGR03499 FlhF flagellar biosy 95.2 0.082 1.8E-06 49.3 7.8 18 141-158 195-212 (282)
331 TIGR01425 SRP54_euk signal rec 95.2 0.22 4.7E-06 48.9 10.8 133 141-304 101-236 (429)
332 TIGR00064 ftsY signal recognit 95.1 0.37 8E-06 44.6 11.9 136 141-304 73-214 (272)
333 COG4962 CpaF Flp pilus assembl 95.1 0.048 1E-06 50.8 5.9 61 119-184 153-213 (355)
334 TIGR02928 orc1/cdc6 family rep 95.1 0.11 2.4E-06 50.6 8.9 17 141-157 41-57 (365)
335 TIGR03015 pepcterm_ATPase puta 95.1 0.078 1.7E-06 49.2 7.5 18 141-158 44-61 (269)
336 TIGR02525 plasmid_TraJ plasmid 95.1 0.049 1.1E-06 52.5 6.1 38 141-179 150-187 (372)
337 PHA03333 putative ATPase subun 95.1 0.36 7.8E-06 49.6 12.3 74 122-197 168-242 (752)
338 PRK11331 5-methylcytosine-spec 95.0 0.076 1.7E-06 52.0 7.4 32 125-158 181-212 (459)
339 PF06745 KaiC: KaiC; InterPro 95.0 0.055 1.2E-06 48.7 6.0 132 141-292 20-160 (226)
340 PRK12402 replication factor C 95.0 0.23 5.1E-06 47.7 10.8 18 142-159 38-55 (337)
341 PF13173 AAA_14: AAA domain 95.0 0.25 5.5E-06 39.9 9.3 17 141-157 3-19 (128)
342 COG3972 Superfamily I DNA and 95.0 0.063 1.4E-06 52.1 6.4 81 109-195 150-230 (660)
343 COG2804 PulE Type II secretory 95.0 0.034 7.4E-07 54.6 4.7 43 125-168 243-285 (500)
344 PRK04195 replication factor C 94.9 0.27 5.9E-06 49.8 11.5 46 99-157 10-56 (482)
345 COG2805 PilT Tfp pilus assembl 94.9 0.037 8.1E-07 50.4 4.6 51 96-168 102-152 (353)
346 COG1484 DnaC DNA replication p 94.9 0.14 3E-06 46.8 8.4 45 141-189 106-150 (254)
347 PRK09112 DNA polymerase III su 94.9 0.23 5.1E-06 47.7 10.2 40 245-289 139-178 (351)
348 TIGR00678 holB DNA polymerase 94.9 0.14 3E-06 44.6 8.1 41 245-291 94-134 (188)
349 PRK06090 DNA polymerase III su 94.9 0.16 3.6E-06 47.8 8.9 42 245-291 106-147 (319)
350 PRK09183 transposase/IS protei 94.7 0.37 7.9E-06 44.3 10.7 23 135-159 99-121 (259)
351 PRK00440 rfc replication facto 94.7 0.51 1.1E-05 44.9 12.2 17 141-157 39-55 (319)
352 COG2256 MGS1 ATPase related to 94.7 0.21 4.6E-06 47.5 8.9 19 141-159 49-67 (436)
353 PRK10416 signal recognition pa 94.6 0.45 9.8E-06 45.1 11.4 60 245-304 194-256 (318)
354 PRK14957 DNA polymerase III su 94.6 0.19 4.2E-06 51.1 9.4 40 245-289 117-156 (546)
355 KOG2028 ATPase related to the 94.6 0.73 1.6E-05 43.4 12.1 17 141-157 163-179 (554)
356 PRK10689 transcription-repair 94.6 0.25 5.3E-06 55.1 10.9 99 326-424 625-728 (1147)
357 TIGR00959 ffh signal recogniti 94.5 0.3 6.6E-06 48.1 10.2 42 141-184 100-143 (428)
358 PRK06995 flhF flagellar biosyn 94.5 0.68 1.5E-05 46.3 12.7 19 141-159 257-275 (484)
359 PRK14950 DNA polymerase III su 94.5 0.26 5.6E-06 51.2 10.3 41 245-291 118-158 (585)
360 PHA00729 NTP-binding motif con 94.5 0.34 7.5E-06 43.0 9.5 75 225-302 60-138 (226)
361 PF05729 NACHT: NACHT domain 94.5 0.23 5E-06 41.9 8.5 16 142-157 2-17 (166)
362 TIGR02524 dot_icm_DotB Dot/Icm 94.4 0.087 1.9E-06 50.7 6.0 25 141-166 135-159 (358)
363 COG1435 Tdk Thymidine kinase [ 94.2 0.12 2.6E-06 44.1 5.8 92 141-261 5-96 (201)
364 PRK13342 recombination factor 94.2 0.51 1.1E-05 46.8 11.3 18 141-158 37-54 (413)
365 PF05496 RuvB_N: Holliday junc 94.2 0.049 1.1E-06 47.9 3.6 17 141-157 51-67 (233)
366 PRK06067 flagellar accessory p 94.1 0.33 7.2E-06 43.9 9.1 51 141-195 26-76 (234)
367 PRK11823 DNA repair protein Ra 94.1 0.26 5.6E-06 49.2 8.8 51 141-195 81-131 (446)
368 PRK07940 DNA polymerase III su 94.1 0.23 4.9E-06 48.6 8.2 45 245-295 115-159 (394)
369 PF07728 AAA_5: AAA domain (dy 94.1 0.021 4.6E-07 47.0 1.0 16 142-157 1-16 (139)
370 PRK08699 DNA polymerase III su 94.1 0.49 1.1E-05 45.0 10.2 38 125-162 3-43 (325)
371 PRK13341 recombination factor 94.0 0.38 8.2E-06 50.9 10.3 17 141-157 53-69 (725)
372 TIGR02397 dnaX_nterm DNA polym 94.0 0.49 1.1E-05 45.9 10.7 38 245-287 115-152 (355)
373 PTZ00454 26S protease regulato 94.0 0.54 1.2E-05 46.1 10.6 55 98-157 140-196 (398)
374 KOG0738 AAA+-type ATPase [Post 94.0 0.62 1.3E-05 44.2 10.3 18 139-156 244-261 (491)
375 PRK14954 DNA polymerase III su 94.0 0.34 7.3E-06 50.2 9.6 40 245-289 125-164 (620)
376 PHA03372 DNA packaging termina 94.0 0.72 1.6E-05 46.7 11.4 154 110-292 178-337 (668)
377 PTZ00293 thymidine kinase; Pro 93.9 0.62 1.3E-05 40.9 9.8 38 141-181 5-42 (211)
378 KOG0730 AAA+-type ATPase [Post 93.8 0.63 1.4E-05 47.3 10.8 56 97-157 428-485 (693)
379 PRK08533 flagellar accessory p 93.8 0.75 1.6E-05 41.4 10.6 51 141-195 25-75 (230)
380 TIGR01243 CDC48 AAA family ATP 93.8 0.5 1.1E-05 50.7 10.9 54 99-157 449-504 (733)
381 COG4626 Phage terminase-like p 93.7 0.42 9.1E-06 47.7 9.3 147 124-290 62-223 (546)
382 COG2109 BtuR ATP:corrinoid ade 93.7 0.74 1.6E-05 39.1 9.4 144 143-302 31-175 (198)
383 PRK05986 cob(I)alamin adenolsy 93.7 0.31 6.7E-06 42.0 7.4 144 141-301 23-167 (191)
384 PRK14953 DNA polymerase III su 93.7 0.98 2.1E-05 45.6 12.1 31 245-280 117-147 (486)
385 PRK07133 DNA polymerase III su 93.6 0.76 1.6E-05 48.2 11.4 40 245-289 116-155 (725)
386 PRK13851 type IV secretion sys 93.5 0.12 2.6E-06 49.4 5.2 40 141-184 163-202 (344)
387 PRK14970 DNA polymerase III su 93.5 0.74 1.6E-05 44.9 10.9 44 99-158 13-57 (367)
388 COG3267 ExeA Type II secretory 93.5 0.66 1.4E-05 41.5 9.2 51 141-195 52-104 (269)
389 PRK04328 hypothetical protein; 93.4 0.29 6.3E-06 44.7 7.4 52 141-196 24-75 (249)
390 TIGR02639 ClpA ATP-dependent C 93.4 0.56 1.2E-05 50.2 10.5 27 131-157 194-220 (731)
391 cd01121 Sms Sms (bacterial rad 93.4 0.45 9.8E-06 46.1 8.9 51 141-195 83-133 (372)
392 PRK06305 DNA polymerase III su 93.3 0.99 2.1E-05 45.2 11.4 39 245-288 119-157 (451)
393 PRK06647 DNA polymerase III su 93.2 0.72 1.6E-05 47.4 10.5 41 245-291 117-157 (563)
394 cd01129 PulE-GspE PulE/GspE Th 93.2 0.18 3.9E-06 46.5 5.6 38 128-166 68-105 (264)
395 TIGR00602 rad24 checkpoint pro 93.2 1.2 2.5E-05 46.4 11.9 48 99-157 80-127 (637)
396 PHA00012 I assembly protein 93.1 0.59 1.3E-05 43.6 8.6 56 245-303 79-138 (361)
397 KOG2228 Origin recognition com 93.1 0.92 2E-05 42.3 9.8 60 232-292 122-181 (408)
398 PRK14701 reverse gyrase; Provi 93.1 0.53 1.2E-05 54.3 10.1 61 349-409 121-187 (1638)
399 PRK11034 clpA ATP-dependent Cl 93.1 0.38 8.2E-06 51.2 8.4 17 141-157 208-224 (758)
400 PRK07399 DNA polymerase III su 93.1 0.78 1.7E-05 43.4 9.8 59 225-290 103-161 (314)
401 KOG0734 AAA+-type ATPase conta 93.0 0.6 1.3E-05 46.2 8.9 66 226-293 376-448 (752)
402 PF03237 Terminase_6: Terminas 93.0 1.1 2.3E-05 43.7 11.2 42 144-186 1-42 (384)
403 cd03115 SRP The signal recogni 92.9 1 2.2E-05 38.5 9.6 17 143-159 3-19 (173)
404 PRK14971 DNA polymerase III su 92.9 0.73 1.6E-05 48.0 10.1 41 245-291 119-159 (614)
405 cd01122 GP4d_helicase GP4d_hel 92.7 0.49 1.1E-05 43.9 7.9 36 141-178 31-66 (271)
406 PRK10865 protein disaggregatio 92.6 0.55 1.2E-05 51.1 9.1 21 137-157 196-216 (857)
407 TIGR01241 FtsH_fam ATP-depende 92.6 0.87 1.9E-05 46.4 10.1 55 98-157 50-105 (495)
408 KOG0652 26S proteasome regulat 92.4 1.2 2.7E-05 39.8 9.3 105 141-293 206-319 (424)
409 KOG0732 AAA+-type ATPase conta 92.4 0.62 1.3E-05 50.3 8.8 150 99-296 261-418 (1080)
410 COG2874 FlaH Predicted ATPases 92.4 2.7 5.8E-05 36.8 11.0 149 141-309 29-187 (235)
411 TIGR01243 CDC48 AAA family ATP 92.4 1.4 3.1E-05 47.2 11.9 54 98-156 173-228 (733)
412 KOG0347 RNA helicase [RNA proc 92.4 0.37 8E-06 47.6 6.6 52 353-408 266-321 (731)
413 PRK10436 hypothetical protein; 92.3 0.16 3.5E-06 50.6 4.3 25 141-166 219-243 (462)
414 TIGR03346 chaperone_ClpB ATP-d 92.3 0.58 1.3E-05 51.0 8.9 21 137-157 191-211 (852)
415 PF01443 Viral_helicase1: Vira 92.3 0.085 1.8E-06 47.7 2.2 14 143-156 1-14 (234)
416 TIGR03877 thermo_KaiC_1 KaiC d 92.2 0.23 4.9E-06 45.1 4.9 52 141-196 22-73 (237)
417 PRK09354 recA recombinase A; P 92.2 0.36 7.8E-06 46.0 6.2 42 141-185 61-102 (349)
418 KOG1133 Helicase of the DEAD s 92.1 0.14 2.9E-06 52.0 3.4 41 123-165 15-59 (821)
419 TIGR02012 tigrfam_recA protein 92.1 0.39 8.4E-06 45.3 6.3 42 141-185 56-97 (321)
420 TIGR01054 rgy reverse gyrase. 92.1 0.79 1.7E-05 51.5 9.6 76 349-424 120-205 (1171)
421 cd00561 CobA_CobO_BtuR ATP:cor 92.0 1.8 3.8E-05 36.3 9.5 54 245-300 93-146 (159)
422 COG0513 SrmB Superfamily II DN 92.0 0.9 2E-05 46.4 9.3 68 353-424 102-180 (513)
423 PRK08058 DNA polymerase III su 91.9 0.76 1.6E-05 44.0 8.3 40 245-289 108-147 (329)
424 TIGR00767 rho transcription te 91.9 0.3 6.4E-06 47.2 5.4 26 141-167 169-194 (415)
425 PF01637 Arch_ATPase: Archaeal 91.9 0.13 2.8E-06 46.3 3.0 25 140-165 20-44 (234)
426 TIGR02538 type_IV_pilB type IV 91.8 0.24 5.3E-06 51.0 5.1 40 126-166 302-341 (564)
427 TIGR01420 pilT_fam pilus retra 91.8 0.44 9.5E-06 45.9 6.6 41 141-183 123-163 (343)
428 cd01126 TraG_VirD4 The TraG/Tr 91.8 0.12 2.7E-06 50.6 2.9 49 142-195 1-49 (384)
429 TIGR00708 cobA cob(I)alamin ad 91.8 1.4 3.1E-05 37.3 8.8 55 245-301 95-149 (173)
430 PRK13900 type IV secretion sys 91.8 0.21 4.6E-06 47.6 4.3 40 141-184 161-200 (332)
431 COG0552 FtsY Signal recognitio 91.8 3 6.6E-05 39.1 11.5 136 141-304 140-281 (340)
432 cd03221 ABCF_EF-3 ABCF_EF-3 E 91.7 1.3 2.8E-05 36.5 8.5 24 141-166 27-50 (144)
433 COG1200 RecG RecG-like helicas 91.5 1.4 3.1E-05 45.2 9.8 81 344-424 305-390 (677)
434 COG2255 RuvB Holliday junction 91.5 0.44 9.5E-06 43.3 5.6 41 230-276 90-130 (332)
435 CHL00095 clpC Clp protease ATP 91.5 0.63 1.4E-05 50.5 8.0 19 140-158 200-218 (821)
436 PF00437 T2SE: Type II/IV secr 91.4 0.24 5.2E-06 46.0 4.2 40 141-183 128-167 (270)
437 TIGR02533 type_II_gspE general 91.3 0.33 7.2E-06 48.9 5.2 40 126-166 228-267 (486)
438 COG0465 HflB ATP-dependent Zn 91.2 1 2.2E-05 46.0 8.5 144 100-297 147-301 (596)
439 COG2909 MalT ATP-dependent tra 91.1 2.5 5.4E-05 44.6 11.2 43 247-293 129-171 (894)
440 PRK08939 primosomal protein Dn 91.1 1.5 3.2E-05 41.4 9.0 17 141-157 157-173 (306)
441 COG1219 ClpX ATP-dependent pro 91.0 0.18 3.8E-06 46.5 2.7 17 141-157 98-114 (408)
442 PF03266 NTPase_1: NTPase; In 91.0 0.49 1.1E-05 40.2 5.3 23 142-165 1-23 (168)
443 PF02534 T4SS-DNA_transf: Type 91.0 0.2 4.2E-06 50.8 3.4 51 141-196 45-95 (469)
444 PRK13897 type IV secretion sys 91.0 0.23 4.9E-06 51.3 3.8 50 141-195 159-208 (606)
445 PF03969 AFG1_ATPase: AFG1-lik 90.9 3.7 8E-05 39.7 11.8 109 141-295 63-171 (362)
446 cd00983 recA RecA is a bacter 90.8 0.45 9.8E-06 44.9 5.4 42 141-185 56-97 (325)
447 PRK05917 DNA polymerase III su 90.8 2.7 5.9E-05 39.0 10.3 42 245-291 93-134 (290)
448 cd03247 ABCC_cytochrome_bd The 90.8 1.3 2.8E-05 38.0 7.9 25 141-167 29-53 (178)
449 COG1702 PhoH Phosphate starvat 90.7 0.18 3.9E-06 47.0 2.6 56 121-179 126-181 (348)
450 cd00544 CobU Adenosylcobinamid 90.6 4.3 9.4E-05 34.5 10.7 86 143-261 2-87 (169)
451 TIGR03345 VI_ClpV1 type VI sec 90.5 1.4 2.9E-05 48.0 9.3 30 128-157 192-225 (852)
452 cd01131 PilT Pilus retraction 90.4 0.31 6.8E-06 42.8 3.8 39 142-182 3-41 (198)
453 COG0630 VirB11 Type IV secreto 90.4 0.69 1.5E-05 43.8 6.2 72 101-183 111-182 (312)
454 COG1074 RecB ATP-dependent exo 90.4 0.37 8.1E-06 54.1 5.1 54 141-194 17-72 (1139)
455 TIGR02784 addA_alphas double-s 90.4 0.57 1.2E-05 53.0 6.6 55 141-195 11-65 (1141)
456 COG0210 UvrD Superfamily I DNA 90.3 0.58 1.3E-05 49.6 6.3 70 123-196 2-72 (655)
457 TIGR01650 PD_CobS cobaltochela 90.2 1.4 3E-05 41.6 8.0 17 141-157 65-81 (327)
458 TIGR03878 thermo_KaiC_2 KaiC d 90.2 0.7 1.5E-05 42.5 6.0 35 141-178 37-71 (259)
459 PRK13764 ATPase; Provisional 90.1 0.59 1.3E-05 48.0 5.9 25 141-166 258-282 (602)
460 PF12846 AAA_10: AAA-like doma 90.1 0.37 8E-06 45.4 4.3 42 141-185 2-43 (304)
461 cd01130 VirB11-like_ATPase Typ 90.0 0.55 1.2E-05 40.7 4.9 31 125-156 11-41 (186)
462 cd00267 ABC_ATPase ABC (ATP-bi 90.0 2.1 4.6E-05 35.8 8.4 43 245-291 96-138 (157)
463 PF06733 DEAD_2: DEAD_2; Inte 89.9 0.2 4.3E-06 43.0 2.0 39 223-261 119-159 (174)
464 PF10593 Z1: Z1 domain; Inter 89.8 0.68 1.5E-05 41.8 5.4 77 374-463 110-191 (239)
465 TIGR02868 CydC thiol reductant 89.8 1.6 3.4E-05 45.0 8.9 25 141-167 362-386 (529)
466 PRK13850 type IV secretion sys 89.6 0.39 8.5E-06 50.2 4.2 50 141-195 140-189 (670)
467 TIGR02858 spore_III_AA stage I 89.5 3.8 8.3E-05 37.8 10.2 23 141-165 112-134 (270)
468 KOG0739 AAA+-type ATPase [Post 89.5 11 0.00025 34.7 12.6 56 132-194 155-213 (439)
469 COG0541 Ffh Signal recognition 89.4 2.7 5.9E-05 40.8 9.3 134 141-305 101-237 (451)
470 COG1111 MPH1 ERCC4-like helica 89.4 5.9 0.00013 39.2 11.6 156 326-492 33-200 (542)
471 cd00268 DEADc DEAD-box helicas 89.2 4.3 9.3E-05 35.6 10.1 71 350-424 69-149 (203)
472 TIGR00416 sms DNA repair prote 89.2 3.3 7.3E-05 41.5 10.3 51 141-195 95-145 (454)
473 PRK05564 DNA polymerase III su 89.1 4.9 0.00011 38.2 11.1 40 245-289 91-130 (313)
474 PRK09087 hypothetical protein; 89.1 2 4.3E-05 38.6 7.9 38 249-292 89-126 (226)
475 CHL00176 ftsH cell division pr 89.1 3.1 6.6E-05 43.6 10.2 17 141-157 217-233 (638)
476 cd03228 ABCC_MRP_Like The MRP 89.0 1.3 2.8E-05 37.8 6.4 42 245-291 112-153 (171)
477 PF02572 CobA_CobO_BtuR: ATP:c 89.0 4 8.7E-05 34.6 9.1 133 143-300 6-147 (172)
478 KOG0741 AAA+-type ATPase [Post 88.9 2.7 5.8E-05 41.9 8.9 73 103-181 492-574 (744)
479 PRK05973 replicative DNA helic 88.9 0.96 2.1E-05 40.7 5.7 66 123-195 50-115 (237)
480 COG1120 FepC ABC-type cobalami 88.8 1.3 2.9E-05 40.2 6.5 26 141-168 29-54 (258)
481 COG1223 Predicted ATPase (AAA+ 88.8 3.6 7.9E-05 37.1 8.9 49 248-296 211-266 (368)
482 TIGR00635 ruvB Holliday juncti 88.8 0.41 8.8E-06 45.3 3.5 17 141-157 31-47 (305)
483 PRK07413 hypothetical protein; 88.7 5.7 0.00012 38.3 11.0 56 245-302 123-178 (382)
484 COG0464 SpoVK ATPases of the A 88.7 4.7 0.0001 41.1 11.3 48 247-294 335-388 (494)
485 KOG0736 Peroxisome assembly fa 88.7 2.4 5.2E-05 44.2 8.7 52 246-297 763-824 (953)
486 PRK10263 DNA translocase FtsK; 88.6 1.5 3.1E-05 48.8 7.7 21 141-161 1011-1031(1355)
487 KOG2227 Pre-initiation complex 88.6 1.6 3.4E-05 42.7 7.1 48 141-189 176-224 (529)
488 cd01125 repA Hexameric Replica 88.6 7.9 0.00017 35.1 11.6 55 141-196 2-65 (239)
489 PRK04841 transcriptional regul 88.6 3.6 7.8E-05 45.6 11.2 44 247-294 121-164 (903)
490 TIGR00614 recQ_fam ATP-depende 88.5 1.6 3.5E-05 44.1 7.8 75 350-424 51-133 (470)
491 PRK07414 cob(I)yrinic acid a,c 88.4 2.8 6E-05 35.7 7.7 53 245-299 113-165 (178)
492 COG1197 Mfd Transcription-repa 88.3 3.5 7.6E-05 45.2 10.2 92 333-424 626-722 (1139)
493 PRK05818 DNA polymerase III su 88.3 3.2 6.9E-05 37.8 8.5 41 246-291 87-127 (261)
494 PF04665 Pox_A32: Poxvirus A32 88.3 0.68 1.5E-05 41.6 4.2 36 141-179 14-49 (241)
495 TIGR01618 phage_P_loop phage n 88.2 0.62 1.4E-05 41.4 4.0 30 232-261 66-95 (220)
496 KOG0733 Nuclear AAA ATPase (VC 88.2 0.63 1.4E-05 46.9 4.2 61 92-157 179-240 (802)
497 PRK09401 reverse gyrase; Revie 88.1 2.7 5.9E-05 47.3 9.7 77 348-424 121-207 (1176)
498 PRK11776 ATP-dependent RNA hel 88.1 3.1 6.6E-05 42.0 9.4 70 351-424 73-153 (460)
499 TIGR01389 recQ ATP-dependent D 87.9 4.2 9.1E-05 42.5 10.6 75 350-424 53-133 (591)
500 PF13555 AAA_29: P-loop contai 87.8 0.47 1E-05 32.4 2.3 16 141-156 24-39 (62)
No 1
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.1e-76 Score=527.08 Aligned_cols=372 Identities=31% Similarity=0.486 Sum_probs=341.0
Q ss_pred CCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEE
Q 011104 98 SATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCI 177 (493)
Q Consensus 98 ~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil 177 (493)
...+|.+++++|++++++.. .|+..||++|+++||.++.| +|||+.|+||||||.+|++|+++++....+.+.++|+
T Consensus 59 ~~~sf~dLgv~~~L~~ac~~-l~~~~PT~IQ~~aiP~~L~g--~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVL 135 (476)
T KOG0330|consen 59 SFKSFADLGVHPELLEACQE-LGWKKPTKIQSEAIPVALGG--RDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVL 135 (476)
T ss_pred hhcchhhcCcCHHHHHHHHH-hCcCCCchhhhhhcchhhCC--CcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEe
Confidence 35689999999999999997 99999999999999999999 9999999999999999999999999988888999999
Q ss_pred cCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHH-cCccCCCCeeEEEEecc
Q 011104 178 CPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMS-AKKLGFSRLKILVYDEA 256 (493)
Q Consensus 178 ~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~-~~~~~~~~~~~iVlDEa 256 (493)
+||||||.|+.+.+..++...++.+.++.|+..... ....+...++|+|+|||+|++++. .+.+++..++++|+|||
T Consensus 136 tPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~--q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEA 213 (476)
T KOG0330|consen 136 TPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMML--QANQLSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEA 213 (476)
T ss_pred cCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHH--HHHHhhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchH
Confidence 999999999999999999999999999999876543 334455679999999999999999 46788999999999999
Q ss_pred hhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHH
Q 011104 257 DHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKV 336 (493)
Q Consensus 257 h~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (493)
|++++ +.|.+.+..|++.++. .+|+++|||||++.+..+....+.+|..+.+.......+.+.|.|..++......
T Consensus 214 DrlLd-~dF~~~ld~ILk~ip~---erqt~LfsATMt~kv~kL~rasl~~p~~v~~s~ky~tv~~lkQ~ylfv~~k~K~~ 289 (476)
T KOG0330|consen 214 DRLLD-MDFEEELDYILKVIPR---ERQTFLFSATMTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPGKDKDT 289 (476)
T ss_pred Hhhhh-hhhHHHHHHHHHhcCc---cceEEEEEeecchhhHHHHhhccCCCeEEeccchhcchHHhhhheEeccccccch
Confidence 99998 6999999999999986 8899999999999999999999999999999999999999999999998654333
Q ss_pred HHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCC
Q 011104 337 MVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQ 416 (493)
Q Consensus 337 ~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi 416 (493)
.++.++.+.. +..+||||++...+..++-.|+.+|+.+.++||.|++..|.-.++.|++|.+.||+|||+++||+|+
T Consensus 290 -yLV~ll~e~~--g~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVaSRGLDi 366 (476)
T KOG0330|consen 290 -YLVYLLNELA--GNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVASRGLDI 366 (476)
T ss_pred -hHHHHHHhhc--CCcEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccCCcEEEecchhcccCCC
Confidence 3333233332 4889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCccc
Q 011104 417 QQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCTC 490 (493)
Q Consensus 417 ~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~ 490 (493)
|.|++|||||.| .+..+|+||+||+||+|+.|.+|+|++. .+...+..|+..++.+.++.+++.+
T Consensus 367 p~Vd~VVNyDiP--------~~skDYIHRvGRtaRaGrsG~~ItlVtq-yDve~~qrIE~~~gkkl~~~~~~~~ 431 (476)
T KOG0330|consen 367 PHVDVVVNYDIP--------THSKDYIHRVGRTARAGRSGKAITLVTQ-YDVELVQRIEHALGKKLPEYKVDKN 431 (476)
T ss_pred CCceEEEecCCC--------CcHHHHHHHcccccccCCCcceEEEEeh-hhhHHHHHHHHHHhcCCCccCcchH
Confidence 999999999999 7888999999999999999999999997 6888899999999999998877654
No 2
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.1e-74 Score=546.33 Aligned_cols=368 Identities=33% Similarity=0.547 Sum_probs=330.0
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC------CCCCC
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP------NLKAP 172 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~------~~~~~ 172 (493)
...|..+++++++.+.++. .||..|||||.++||.++.| +|++..|.||||||++|++|++.++.. ...+|
T Consensus 90 ~~~f~~~~ls~~~~~~lk~-~g~~~PtpIQaq~wp~~l~G--rD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P 166 (519)
T KOG0331|consen 90 SAAFQELGLSEELMKALKE-QGFEKPTPIQAQGWPIALSG--RDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGP 166 (519)
T ss_pred chhhhcccccHHHHHHHHh-cCCCCCchhhhcccceeccC--CceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCC
Confidence 3489999999999999997 99999999999999999999 999999999999999999999998864 45689
Q ss_pred eEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEE
Q 011104 173 QALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILV 252 (493)
Q Consensus 173 ~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iV 252 (493)
.+|||+||||||.|+.+.+..++..+.++..|++|+..... ....+..+.+|+|+|||||.++++.+.+.++++.++|
T Consensus 167 ~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~--Q~~~l~~gvdiviaTPGRl~d~le~g~~~l~~v~ylV 244 (519)
T KOG0331|consen 167 IVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGP--QLRDLERGVDVVIATPGRLIDLLEEGSLNLSRVTYLV 244 (519)
T ss_pred eEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCccH--HHHHHhcCCcEEEeCChHHHHHHHcCCccccceeEEE
Confidence 99999999999999999999999999999999999987654 3445566899999999999999999999999999999
Q ss_pred EecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeecccc--ccccCceEEEEeCC
Q 011104 253 YDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEE--LSLESVKQYKVYCP 330 (493)
Q Consensus 253 lDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~ 330 (493)
|||||+|++ +||.+++..|+..+++. ..|++++|||||..+..++..++.+|..+.+.... .....+.|....|+
T Consensus 245 LDEADrMld-mGFe~qI~~Il~~i~~~--~rQtlm~saTwp~~v~~lA~~fl~~~~~i~ig~~~~~~a~~~i~qive~~~ 321 (519)
T KOG0331|consen 245 LDEADRMLD-MGFEPQIRKILSQIPRP--DRQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNIRQIVEVCD 321 (519)
T ss_pred eccHHhhhc-cccHHHHHHHHHhcCCC--cccEEEEeeeccHHHHHHHHHHhcCceEEEecchhhhhhhcchhhhhhhcC
Confidence 999999998 79999999999999442 45999999999999999999999999988887543 55567888888888
Q ss_pred ChHHHHHHHHHHHHHhc-ccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCc
Q 011104 331 DELAKVMVIRDRIFELG-EKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDV 409 (493)
Q Consensus 331 ~~~~~~~~l~~~l~~~~-~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~ 409 (493)
...|...+...|.... ...+++||||++++.|+.|+..|+..++++.+|||+.+|.+|..+++.|++|++.||||||+
T Consensus 322 -~~~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdV 400 (519)
T KOG0331|consen 322 -ETAKLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDV 400 (519)
T ss_pred -HHHHHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccCCcceEEEccc
Confidence 6777777777666665 45789999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCcee
Q 011104 410 LARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTE 484 (493)
Q Consensus 410 ~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~ 484 (493)
++||||+|+|++|||||+| .++++|+||+|||||+|+.|.+++|++.. +......+.+.+...-..
T Consensus 401 AaRGLDi~dV~lVInydfP--------~~vEdYVHRiGRTGRa~~~G~A~tfft~~-~~~~a~~l~~~l~e~~q~ 466 (519)
T KOG0331|consen 401 AARGLDVPDVDLVINYDFP--------NNVEDYVHRIGRTGRAGKKGTAITFFTSD-NAKLARELIKVLREAGQT 466 (519)
T ss_pred ccccCCCccccEEEeCCCC--------CCHHHHHhhcCccccCCCCceEEEEEeHH-HHHHHHHHHHHHHHccCC
Confidence 9999999999999999999 89999999999999999999999999965 455556666555444333
No 3
>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=2.5e-72 Score=480.13 Aligned_cols=376 Identities=36% Similarity=0.631 Sum_probs=349.5
Q ss_pred CCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEE
Q 011104 96 YTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQAL 175 (493)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~l 175 (493)
.....+|++++++.+++++++. +||.+|+.+|+.|||.+++| +|++++|..|+|||.+|.+.+++.+.-.....++|
T Consensus 23 ~~v~~~F~~Mgl~edlLrgiY~-yGfekPS~IQqrAi~~IlkG--rdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~l 99 (400)
T KOG0328|consen 23 VKVIPTFDDMGLKEDLLRGIYA-YGFEKPSAIQQRAIPQILKG--RDVIAQAQSGTGKTATFSISVLQSLDISVRETQAL 99 (400)
T ss_pred cccccchhhcCchHHHHHHHHH-hccCCchHHHhhhhhhhhcc--cceEEEecCCCCceEEEEeeeeeecccccceeeEE
Confidence 3456789999999999999997 99999999999999999999 99999999999999999999999998877888999
Q ss_pred EEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEec
Q 011104 176 CICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDE 255 (493)
Q Consensus 176 il~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDE 255 (493)
|+.|||+||.|+.+++..++...++.+...+|+.+.... .+.+..+.+++.+|||++++++....+....++++||||
T Consensus 100 ilsPTRELa~Qi~~vi~alg~~mnvq~hacigg~n~ged--ikkld~G~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDE 177 (400)
T KOG0328|consen 100 ILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGED--IKKLDYGQHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDE 177 (400)
T ss_pred EecChHHHHHHHHHHHHHhcccccceEEEEecCCccchh--hhhhcccceEeeCCCchHHHHHHhccccccceeEEEecc
Confidence 999999999999999999999999999999988765432 233346789999999999999999999999999999999
Q ss_pred chhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHH
Q 011104 256 ADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAK 335 (493)
Q Consensus 256 ah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 335 (493)
||.|++. ||..++..+++.+++ ..|++++|||+|.++.+....|+.+|..+.+...+.+..++.++++.+..+..|
T Consensus 178 aDemL~k-gfk~Qiydiyr~lp~---~~Qvv~~SATlp~eilemt~kfmtdpvrilvkrdeltlEgIKqf~v~ve~EewK 253 (400)
T KOG0328|consen 178 ADEMLNK-GFKEQIYDIYRYLPP---GAQVVLVSATLPHEILEMTEKFMTDPVRILVKRDELTLEGIKQFFVAVEKEEWK 253 (400)
T ss_pred HHHHHHh-hHHHHHHHHHHhCCC---CceEEEEeccCcHHHHHHHHHhcCCceeEEEecCCCchhhhhhheeeechhhhh
Confidence 9999986 999999999999987 889999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCC
Q 011104 336 VMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFD 415 (493)
Q Consensus 336 ~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gld 415 (493)
...+++ +.+.+. -..++||||++..++.|.+.|+..++.+.++||+|++++|.+++..|++|+.+|||+||+.+||+|
T Consensus 254 fdtLcd-LYd~Lt-ItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~SrvLitTDVwaRGiD 331 (400)
T KOG0328|consen 254 FDTLCD-LYDTLT-ITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDVWARGID 331 (400)
T ss_pred HhHHHH-Hhhhhe-hheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCceEEEEechhhccCC
Confidence 999988 444444 467899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCcccc
Q 011104 416 QQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCTCE 491 (493)
Q Consensus 416 i~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ 491 (493)
+|.|++|||||+| ...+.|+||+||.||.|+.|+++.|+. +++...++.|+++|...+.++|++--+
T Consensus 332 v~qVslviNYDLP--------~nre~YIHRIGRSGRFGRkGvainFVk-~~d~~~lrdieq~yst~i~emp~nvad 398 (400)
T KOG0328|consen 332 VQQVSLVINYDLP--------NNRELYIHRIGRSGRFGRKGVAINFVK-SDDLRILRDIEQYYSTQIDEMPMNVAD 398 (400)
T ss_pred cceeEEEEecCCC--------ccHHHHhhhhccccccCCcceEEEEec-HHHHHHHHHHHHHHhhhcccccchhhh
Confidence 9999999999999 677889999999999999999999997 457888999999999999999987543
No 4
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.6e-71 Score=491.61 Aligned_cols=397 Identities=46% Similarity=0.753 Sum_probs=364.1
Q ss_pred ccCccccccCCCCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHH
Q 011104 83 DSSIKTVTTGDTPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGML 162 (493)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l 162 (493)
.+.++.. ++++|+.+..+|++|++.|+++++++. ++|.+|+.+|..++|.+|..+.+++|.++..|+|||.+|.+.+|
T Consensus 74 ~~~vk~~-dpnsPlyS~ksFeeL~LkPellkgly~-M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~ML 151 (477)
T KOG0332|consen 74 ESNVKLA-DPNSPLYSAKSFEELRLKPELLKGLYA-MKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTML 151 (477)
T ss_pred hhceeec-CCCCCccccccHHhhCCCHHHHhHHHH-hccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHH
Confidence 3444444 588899999999999999999999998 99999999999999999999889999999999999999999999
Q ss_pred hccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHc-C
Q 011104 163 SRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSA-K 241 (493)
Q Consensus 163 ~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~-~ 241 (493)
.++......|++++|+|||+||.|+.+++.+.|+..++...+.+.+..... ...-..+|+|+|||.+++++.. .
T Consensus 152 srvd~~~~~PQ~iCLaPtrELA~Q~~eVv~eMGKf~~ita~yair~sk~~r-----G~~i~eqIviGTPGtv~Dlm~klk 226 (477)
T KOG0332|consen 152 SRVDPDVVVPQCICLAPTRELAPQTGEVVEEMGKFTELTASYAIRGSKAKR-----GNKLTEQIVIGTPGTVLDLMLKLK 226 (477)
T ss_pred HhcCccccCCCceeeCchHHHHHHHHHHHHHhcCceeeeEEEEecCccccc-----CCcchhheeeCCCccHHHHHHHHH
Confidence 999998899999999999999999999999999999888877776652211 1112358999999999999988 7
Q ss_pred ccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccC
Q 011104 242 KLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLES 321 (493)
Q Consensus 242 ~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 321 (493)
.+.+..++++|+||||.|++..||.+....|+..+++ +.|+++||||+...+..++..+..+++.+.+..++..+..
T Consensus 227 ~id~~kikvfVlDEAD~Mi~tqG~~D~S~rI~~~lP~---~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~eel~L~~ 303 (477)
T KOG0332|consen 227 CIDLEKIKVFVLDEADVMIDTQGFQDQSIRIMRSLPR---NQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDN 303 (477)
T ss_pred hhChhhceEEEecchhhhhhcccccccchhhhhhcCC---cceEEeeechhHHHHHHHHHHhcCCCceeeeehhhccccc
Confidence 7789999999999999999988999999999999885 8899999999999999999999999999999999999999
Q ss_pred ceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCC
Q 011104 322 VKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLT 401 (493)
Q Consensus 322 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~ 401 (493)
+.|+|+.|..+..|+..+.+ |..... -+..||||.+++.|..++..|...|..|..+||+|...+|..++++|+.|..
T Consensus 304 IkQlyv~C~~~~~K~~~l~~-lyg~~t-igqsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~ 381 (477)
T KOG0332|consen 304 IKQLYVLCACRDDKYQALVN-LYGLLT-IGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKE 381 (477)
T ss_pred hhhheeeccchhhHHHHHHH-HHhhhh-hhheEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcc
Confidence 99999999999999999988 565554 6789999999999999999999999999999999999999999999999999
Q ss_pred cEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCC
Q 011104 402 QVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIK 481 (493)
Q Consensus 402 ~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~ 481 (493)
+|||+|++++||+|++.|+.|||||+|...... ++.++|+||+|||||.|+.|.++.|+.+.+++..+..|+++++..
T Consensus 382 kVLitTnV~ARGiDv~qVs~VvNydlP~~~~~~--pD~etYlHRiGRtGRFGkkG~a~n~v~~~~s~~~mn~iq~~F~~~ 459 (477)
T KOG0332|consen 382 KVLITTNVCARGIDVAQVSVVVNYDLPVKYTGE--PDYETYLHRIGRTGRFGKKGLAINLVDDKDSMNIMNKIQKHFNMK 459 (477)
T ss_pred eEEEEechhhcccccceEEEEEecCCccccCCC--CCHHHHHHHhcccccccccceEEEeecccCcHHHHHHHHHHHhhc
Confidence 999999999999999999999999999754432 789999999999999999999999999999999999999999999
Q ss_pred ceeecCcccccC
Q 011104 482 VTEVQTCTCETL 493 (493)
Q Consensus 482 ~~~~~~~~~~~~ 493 (493)
+.++..++.+|+
T Consensus 460 i~~~~~~d~~E~ 471 (477)
T KOG0332|consen 460 IKRLDPDDLDEL 471 (477)
T ss_pred ceecCCccHHHH
Confidence 999988776653
No 5
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.9e-72 Score=517.29 Aligned_cols=359 Identities=32% Similarity=0.477 Sum_probs=318.2
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCC---CCeEE
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLK---APQAL 175 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~---~~~~l 175 (493)
..+|.+++|+.++++++.. +||..|||||..+||..+-| +|++.||.||||||.+|++|+|.++..+.. ..++|
T Consensus 180 ~~sF~~mNLSRPlLka~~~-lGy~~PTpIQ~a~IPvallg--kDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVL 256 (691)
T KOG0338|consen 180 NESFQSMNLSRPLLKACST-LGYKKPTPIQVATIPVALLG--KDICACAATGSGKTAAFALPILERLLYRPKKVAATRVL 256 (691)
T ss_pred hhhHHhcccchHHHHHHHh-cCCCCCCchhhhcccHHhhc--chhhheecccCCchhhhHHHHHHHHhcCcccCcceeEE
Confidence 4589999999999999987 99999999999999999999 999999999999999999999999976544 35899
Q ss_pred EEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC-ccCCCCeeEEEEe
Q 011104 176 CICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK-KLGFSRLKILVYD 254 (493)
Q Consensus 176 il~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~-~~~~~~~~~iVlD 254 (493)
||||||+||.|++.+.++++..+.+.+...+|+.+...+. ..+...|||+|+|||||.+|+.+. .+++.++.++|+|
T Consensus 257 VL~PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE--~~LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlD 334 (691)
T KOG0338|consen 257 VLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQE--AVLRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLD 334 (691)
T ss_pred EEeccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHHH--HHHhhCCCEEEecchhHHHHhccCCCccccceeEEEec
Confidence 9999999999999999999999999999888887665433 344557999999999999999884 6789999999999
Q ss_pred cchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChH-
Q 011104 255 EADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDEL- 333 (493)
Q Consensus 255 Eah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 333 (493)
|||+|+.+ +|.+++..|+..++. ++|+++|||||+..+..++...++.|..++++........+.|.++.+....
T Consensus 335 EADRMLee-gFademnEii~lcpk---~RQTmLFSATMteeVkdL~slSL~kPvrifvd~~~~~a~~LtQEFiRIR~~re 410 (691)
T KOG0338|consen 335 EADRMLEE-GFADEMNEIIRLCPK---NRQTMLFSATMTEEVKDLASLSLNKPVRIFVDPNKDTAPKLTQEFIRIRPKRE 410 (691)
T ss_pred hHHHHHHH-HHHHHHHHHHHhccc---cccceeehhhhHHHHHHHHHhhcCCCeEEEeCCccccchhhhHHHheeccccc
Confidence 99999985 999999999999988 7899999999999999999999999999999998888888888777554221
Q ss_pred -HHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCcccc
Q 011104 334 -AKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLAR 412 (493)
Q Consensus 334 -~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~ 412 (493)
..-..+..++.... ..++|||+.+++.|.++.-+|--+|+++.-+||.++|.+|...++.|+.+++.||||||+++|
T Consensus 411 ~dRea~l~~l~~rtf--~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsR 488 (691)
T KOG0338|consen 411 GDREAMLASLITRTF--QDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASR 488 (691)
T ss_pred cccHHHHHHHHHHhc--ccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhc
Confidence 11222222223333 378999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHH
Q 011104 413 GFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERY 477 (493)
Q Consensus 413 Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~ 477 (493)
||||++|..||||.+| .+...|+||+|||+|+|+.|.+++|+.++ +...++.|-+.
T Consensus 489 GLDI~gV~tVINy~mP--------~t~e~Y~HRVGRTARAGRaGrsVtlvgE~-dRkllK~iik~ 544 (691)
T KOG0338|consen 489 GLDIEGVQTVINYAMP--------KTIEHYLHRVGRTARAGRAGRSVTLVGES-DRKLLKEIIKS 544 (691)
T ss_pred cCCccceeEEEeccCc--------hhHHHHHHHhhhhhhcccCcceEEEeccc-cHHHHHHHHhh
Confidence 9999999999999999 89999999999999999999999999876 66666766555
No 6
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.3e-70 Score=541.59 Aligned_cols=365 Identities=37% Similarity=0.601 Sum_probs=331.6
Q ss_pred CCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC--CCCCCeEEEE
Q 011104 100 TTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP--NLKAPQALCI 177 (493)
Q Consensus 100 ~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~--~~~~~~~lil 177 (493)
..|+++++++.+++++.+ .||..|||+|.++||.++.| +|++++|+||||||++|++|+++.+.. ......+||+
T Consensus 29 ~~F~~l~l~~~ll~~l~~-~gf~~pt~IQ~~~IP~~l~g--~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil 105 (513)
T COG0513 29 PEFASLGLSPELLQALKD-LGFEEPTPIQLAAIPLILAG--RDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALIL 105 (513)
T ss_pred CCHhhcCCCHHHHHHHHH-cCCCCCCHHHHHHHHHHhCC--CCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEE
Confidence 679999999999999997 99999999999999999999 999999999999999999999999873 2222229999
Q ss_pred cCCHHHHHHHHHHHHHHhccc-CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecc
Q 011104 178 CPTRELAIQNLEVLRKMGKHT-GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEA 256 (493)
Q Consensus 178 ~Pt~~La~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEa 256 (493)
+||||||.|+++.+..++... ++.+.+++|+.+...+. ..+..+++|+|+|||||++++....+.+..+.++|+|||
T Consensus 106 ~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~--~~l~~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEA 183 (513)
T COG0513 106 APTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQI--EALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEA 183 (513)
T ss_pred CCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHH--HHHhcCCCEEEECccHHHHHHHcCCcchhhcCEEEeccH
Confidence 999999999999999999988 78889999987765544 223336999999999999999999999999999999999
Q ss_pred hhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccc--cccCceEEEEeCCChHH
Q 011104 257 DHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEEL--SLESVKQYKVYCPDELA 334 (493)
Q Consensus 257 h~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~ 334 (493)
|+|++ +||.+.+..|+..++. +.|+++||||+|..+..+...++.+|..+.+..... ....+.|+++.+.....
T Consensus 184 DrmLd-~Gf~~~i~~I~~~~p~---~~qtllfSAT~~~~i~~l~~~~l~~p~~i~v~~~~~~~~~~~i~q~~~~v~~~~~ 259 (513)
T COG0513 184 DRMLD-MGFIDDIEKILKALPP---DRQTLLFSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEEE 259 (513)
T ss_pred hhhhc-CCCHHHHHHHHHhCCc---ccEEEEEecCCCHHHHHHHHHHccCCcEEEEccccccccccCceEEEEEeCCHHH
Confidence 99998 6999999999999987 789999999999999999999999999888875555 78899999999998766
Q ss_pred HHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCC
Q 011104 335 KVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGF 414 (493)
Q Consensus 335 ~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gl 414 (493)
+...+...+.... ..++||||+++..++.++..|...|+.+..+||+|+|.+|.++++.|++|...||||||+++|||
T Consensus 260 k~~~L~~ll~~~~--~~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDvaaRGi 337 (513)
T COG0513 260 KLELLLKLLKDED--EGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGL 337 (513)
T ss_pred HHHHHHHHHhcCC--CCeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechhhccC
Confidence 7777776444333 34799999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCce
Q 011104 415 DQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVT 483 (493)
Q Consensus 415 di~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~ 483 (493)
|+|++++|||||+| .+++.|+||+|||||+|+.|.+++|+++..+..++..+++.++..++
T Consensus 338 Di~~v~~VinyD~p--------~~~e~yvHRiGRTgRaG~~G~ai~fv~~~~e~~~l~~ie~~~~~~~~ 398 (513)
T COG0513 338 DIPDVSHVINYDLP--------LDPEDYVHRIGRTGRAGRKGVAISFVTEEEEVKKLKRIEKRLERKLP 398 (513)
T ss_pred CccccceeEEccCC--------CCHHHheeccCccccCCCCCeEEEEeCcHHHHHHHHHHHHHHhcccc
Confidence 99999999999999 88999999999999999999999999986688999999999887755
No 7
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=100.00 E-value=1.4e-68 Score=493.66 Aligned_cols=373 Identities=29% Similarity=0.446 Sum_probs=334.2
Q ss_pred cccCCCCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccC--
Q 011104 89 VTTGDTPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVD-- 166 (493)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~-- 166 (493)
...|...+.+..+|++.+++.++++.+.. .||..|+|+|+++||..+.. +|+|..|.||||||++|++|++..+.
T Consensus 234 s~kg~~lpnplrnwEE~~~P~e~l~~I~~-~~y~eptpIqR~aipl~lQ~--rD~igvaETgsGktaaf~ipLl~~Issl 310 (673)
T KOG0333|consen 234 SIKGGRLPNPLRNWEESGFPLELLSVIKK-PGYKEPTPIQRQAIPLGLQN--RDPIGVAETGSGKTAAFLIPLLIWISSL 310 (673)
T ss_pred eecCCCCCccccChhhcCCCHHHHHHHHh-cCCCCCchHHHhhccchhcc--CCeeeEEeccCCccccchhhHHHHHHcC
Confidence 34577788899999999999999998886 99999999999999999998 99999999999999999999987762
Q ss_pred -------CCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHH
Q 011104 167 -------PNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMS 239 (493)
Q Consensus 167 -------~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~ 239 (493)
....+|.++|+.|||+||+|+.+...+++..+++.+..++|+.+...+ .-.++.+|+|+|+|||+|.+.|.
T Consensus 311 P~~~~~en~~~gpyaiilaptReLaqqIeeEt~kf~~~lg~r~vsvigg~s~EEq--~fqls~gceiviatPgrLid~Le 388 (673)
T KOG0333|consen 311 PPMARLENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFEEQ--GFQLSMGCEIVIATPGRLIDSLE 388 (673)
T ss_pred CCcchhhhcccCceeeeechHHHHHHHHHHHHHHhcccccceEEEEecccchhhh--hhhhhccceeeecCchHHHHHHH
Confidence 234588999999999999999999999999999999999988865543 33566789999999999999999
Q ss_pred cCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCC----------------------eeEEEEeeecChhHH
Q 011104 240 AKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGH----------------------CQVLLFSATFNETVK 297 (493)
Q Consensus 240 ~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~----------------------~q~v~~SAT~~~~~~ 297 (493)
+..+-++.+.++|+||||+|++ +||.+++..++..++..... +|++.||||+|+.+.
T Consensus 389 nr~lvl~qctyvvldeadrmiD-mgfE~dv~~iL~~mPssn~k~~tde~~~~~~~~~~~~~~k~yrqT~mftatm~p~ve 467 (673)
T KOG0333|consen 389 NRYLVLNQCTYVVLDEADRMID-MGFEPDVQKILEQMPSSNAKPDTDEKEGEERVRKNFSSSKKYRQTVMFTATMPPAVE 467 (673)
T ss_pred HHHHHhccCceEeccchhhhhc-ccccHHHHHHHHhCCccccCCCccchhhHHHHHhhcccccceeEEEEEecCCChHHH
Confidence 9999999999999999999998 79999999999998754322 799999999999999
Q ss_pred HHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcE
Q 011104 298 NFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEV 377 (493)
Q Consensus 298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~ 377 (493)
.+++.++..|.+++++....+.+.+.|....+..... ...|...+... ...++|||+|+++.|+.|++.|.+.|+++
T Consensus 468 rlar~ylr~pv~vtig~~gk~~~rveQ~v~m~~ed~k-~kkL~eil~~~--~~ppiIIFvN~kk~~d~lAk~LeK~g~~~ 544 (673)
T KOG0333|consen 468 RLARSYLRRPVVVTIGSAGKPTPRVEQKVEMVSEDEK-RKKLIEILESN--FDPPIIIFVNTKKGADALAKILEKAGYKV 544 (673)
T ss_pred HHHHHHhhCCeEEEeccCCCCccchheEEEEecchHH-HHHHHHHHHhC--CCCCEEEEEechhhHHHHHHHHhhccceE
Confidence 9999999999999999988888889888777775544 66666655444 35799999999999999999999999999
Q ss_pred EEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcce
Q 011104 378 TTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGV 457 (493)
Q Consensus 378 ~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~ 457 (493)
..|||+-++++|..+++.|++|...||||||+++||||||+|.+|||||++ .++++|.||||||||+|+.|.
T Consensus 545 ~tlHg~k~qeQRe~aL~~fr~~t~dIlVaTDvAgRGIDIpnVSlVinydma--------ksieDYtHRIGRTgRAGk~Gt 616 (673)
T KOG0333|consen 545 TTLHGGKSQEQRENALADFREGTGDILVATDVAGRGIDIPNVSLVINYDMA--------KSIEDYTHRIGRTGRAGKSGT 616 (673)
T ss_pred EEeeCCccHHHHHHHHHHHHhcCCCEEEEecccccCCCCCccceeeecchh--------hhHHHHHHHhccccccccCce
Confidence 999999999999999999999999999999999999999999999999999 899999999999999999999
Q ss_pred EEEEeeCCccHHHHHHHHHHh
Q 011104 458 VFNLLMDGDDMIIMEKIERYF 478 (493)
Q Consensus 458 ~i~l~~~~~~~~~~~~i~~~~ 478 (493)
+++|+++.+...|....+...
T Consensus 617 aiSflt~~dt~v~ydLkq~l~ 637 (673)
T KOG0333|consen 617 AISFLTPADTAVFYDLKQALR 637 (673)
T ss_pred eEEEeccchhHHHHHHHHHHH
Confidence 999999987665555444443
No 8
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=100.00 E-value=1.7e-68 Score=495.59 Aligned_cols=369 Identities=30% Similarity=0.471 Sum_probs=330.5
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC----CCCCCeE
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP----NLKAPQA 174 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~----~~~~~~~ 174 (493)
...|++++++...+++|.. .+|..+|.+|+.+||..|.| +||+..|.||||||++|++|+|+++.. ...|.-+
T Consensus 68 ~~kF~dlpls~~t~kgLke-~~fv~~teiQ~~~Ip~aL~G--~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGa 144 (758)
T KOG0343|consen 68 IKKFADLPLSQKTLKGLKE-AKFVKMTEIQRDTIPMALQG--HDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGA 144 (758)
T ss_pred hhhHHhCCCchHHHHhHhh-cCCccHHHHHHhhcchhccC--cccccccccCCCceeeehHHHHHHHHHcCCCCCCCcee
Confidence 5579999999999999997 89999999999999999999 999999999999999999999998843 2356679
Q ss_pred EEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC-ccCCCCeeEEEE
Q 011104 175 LCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK-KLGFSRLKILVY 253 (493)
Q Consensus 175 lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~-~~~~~~~~~iVl 253 (493)
|||.|||+||.|+++++.+.+.++.+..+.++|+....... ..-.+.+|+|||||||++|+... .++.+++.++||
T Consensus 145 lIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~k~E~---eRi~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvL 221 (758)
T KOG0343|consen 145 LIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVKFEL---ERISQMNILVCTPGRLLQHMDENPNFSTSNLQMLVL 221 (758)
T ss_pred EEecchHHHHHHHHHHHHHHhhccccccceeecCchhHHHH---HhhhcCCeEEechHHHHHHhhhcCCCCCCcceEEEe
Confidence 99999999999999999999999999999999987643221 12235789999999999999875 567889999999
Q ss_pred ecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeec--cccccccCceEEEEeCCC
Q 011104 254 DEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVK--KEELSLESVKQYKVYCPD 331 (493)
Q Consensus 254 DEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ 331 (493)
||||++++ |||...+..|+..++. .+|+++||||.+..+..+++..+.+|..+.+- ....++..+.|+|+.++.
T Consensus 222 DEADR~LD-MGFk~tL~~Ii~~lP~---~RQTLLFSATqt~svkdLaRLsL~dP~~vsvhe~a~~atP~~L~Q~y~~v~l 297 (758)
T KOG0343|consen 222 DEADRMLD-MGFKKTLNAIIENLPK---KRQTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAATPSNLQQSYVIVPL 297 (758)
T ss_pred ccHHHHHH-HhHHHHHHHHHHhCCh---hheeeeeecccchhHHHHHHhhcCCCcEEEEeccccccChhhhhheEEEEeh
Confidence 99999998 7999999999999988 78999999999999999999999999887765 335678889999999885
Q ss_pred hHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC--CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCc
Q 011104 332 ELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF--GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDV 409 (493)
Q Consensus 332 ~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~--~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~ 409 (493)
. .|+..|...|...+. .++|||++|++++..+++.|+++ |+.+..+||+|+|..|..++..|......||+|||+
T Consensus 298 ~-~Ki~~L~sFI~shlk--~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv 374 (758)
T KOG0343|consen 298 E-DKIDMLWSFIKSHLK--KKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDV 374 (758)
T ss_pred h-hHHHHHHHHHHhccc--cceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHhcceEEEeehh
Confidence 4 577777765555444 78999999999999999999976 899999999999999999999999999999999999
Q ss_pred cccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCcc
Q 011104 410 LARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCT 489 (493)
Q Consensus 410 ~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 489 (493)
++||||+|.|++||.+|+| .++++|+||+||++|.+..|.++++++++++..++..+++.. +++.++..++
T Consensus 375 ~aRGLDFpaVdwViQ~DCP--------edv~tYIHRvGRtAR~~~~G~sll~L~psEeE~~l~~Lq~k~-I~i~~i~i~~ 445 (758)
T KOG0343|consen 375 AARGLDFPAVDWVIQVDCP--------EDVDTYIHRVGRTARYKERGESLLMLTPSEEEAMLKKLQKKK-IPIKEIKIDP 445 (758)
T ss_pred hhccCCCcccceEEEecCc--------hhHHHHHHHhhhhhcccCCCceEEEEcchhHHHHHHHHHHcC-CCHHhhccCH
Confidence 9999999999999999999 999999999999999999999999999999889999999885 8888877654
No 9
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=100.00 E-value=1.6e-67 Score=484.21 Aligned_cols=371 Identities=29% Similarity=0.421 Sum_probs=322.6
Q ss_pred CCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC----CCCC
Q 011104 96 YTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP----NLKA 171 (493)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~----~~~~ 171 (493)
......|+...+++..++++.. +||..+|++|..+||.++.| +|+++.|.||||||++|++|+++.+.. ...+
T Consensus 78 ~~~~~~f~~~~LS~~t~kAi~~-~GF~~MT~VQ~~ti~pll~g--kDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~ 154 (543)
T KOG0342|consen 78 ITTTFRFEEGSLSPLTLKAIKE-MGFETMTPVQQKTIPPLLEG--KDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNG 154 (543)
T ss_pred hhhhhHhhccccCHHHHHHHHh-cCccchhHHHHhhcCccCCC--ccceeeeccCCCceeeehhHHHHHHHhcccCCCCC
Confidence 3446679999999999999997 99999999999999999999 999999999999999999999998743 2345
Q ss_pred CeEEEEcCCHHHHHHHHHHHHHHhccc-CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCc-cCCCCee
Q 011104 172 PQALCICPTRELAIQNLEVLRKMGKHT-GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKK-LGFSRLK 249 (493)
Q Consensus 172 ~~~lil~Pt~~La~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~-~~~~~~~ 249 (493)
..++|+||||+||.|++.+++++...+ ++.+..++|+..... ....+..+++|+|+|||||++|+++.. +.+.+++
T Consensus 155 ~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~--e~~kl~k~~niliATPGRLlDHlqNt~~f~~r~~k 232 (543)
T KOG0342|consen 155 TGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSV--EADKLVKGCNILIATPGRLLDHLQNTSGFLFRNLK 232 (543)
T ss_pred eeEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccchH--HHHHhhccccEEEeCCchHHhHhhcCCcchhhccc
Confidence 679999999999999999999999888 888888888876554 333444489999999999999999854 4567789
Q ss_pred EEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhcc-Cceeeec--cccccccCceEEE
Q 011104 250 ILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKD-YNQLFVK--KEELSLESVKQYK 326 (493)
Q Consensus 250 ~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~-~~~~~~~--~~~~~~~~~~~~~ 326 (493)
++|+||||++++ +||++.+..|++.++. .+|+++||||+++.+++++...+.. +..+.+. ....+...+.|.|
T Consensus 233 ~lvlDEADrlLd-~GF~~di~~Ii~~lpk---~rqt~LFSAT~~~kV~~l~~~~L~~d~~~v~~~d~~~~~The~l~Qgy 308 (543)
T KOG0342|consen 233 CLVLDEADRLLD-IGFEEDVEQIIKILPK---QRQTLLFSATQPSKVKDLARGALKRDPVFVNVDDGGERETHERLEQGY 308 (543)
T ss_pred eeEeecchhhhh-cccHHHHHHHHHhccc---cceeeEeeCCCcHHHHHHHHHhhcCCceEeecCCCCCcchhhcccceE
Confidence 999999999998 7999999999999986 7899999999999999999988876 4444433 3345678899999
Q ss_pred EeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEE
Q 011104 327 VYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLIS 406 (493)
Q Consensus 327 ~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~ 406 (493)
+.++.... +..+...+.+... ..++||||+|...+..+++.|+...++|..+||+++|..|..+...|.+.+..||||
T Consensus 309 vv~~~~~~-f~ll~~~LKk~~~-~~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~c 386 (543)
T KOG0342|consen 309 VVAPSDSR-FSLLYTFLKKNIK-RYKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVC 386 (543)
T ss_pred Eeccccch-HHHHHHHHHHhcC-CceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcccceEEe
Confidence 99987655 5566665555544 489999999999999999999999999999999999999999999999999999999
Q ss_pred eCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeec
Q 011104 407 TDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQ 486 (493)
Q Consensus 407 T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~ 486 (493)
||+++||+|+|+|++||+||+| .++.+|+||+|||||.|..|.+++|+.+. +..++++++ .+++++.+
T Consensus 387 TDVaARGlD~P~V~~VvQ~~~P--------~d~~~YIHRvGRTaR~gk~G~alL~l~p~-El~Flr~LK---~lpl~~~e 454 (543)
T KOG0342|consen 387 TDVAARGLDIPDVDWVVQYDPP--------SDPEQYIHRVGRTAREGKEGKALLLLAPW-ELGFLRYLK---KLPLEEFE 454 (543)
T ss_pred cchhhccCCCCCceEEEEeCCC--------CCHHHHHHHhccccccCCCceEEEEeChh-HHHHHHHHh---hCCCcccC
Confidence 9999999999999999999999 88999999999999999999999999865 677888888 45555554
Q ss_pred Ccc
Q 011104 487 TCT 489 (493)
Q Consensus 487 ~~~ 489 (493)
.+.
T Consensus 455 ~~~ 457 (543)
T KOG0342|consen 455 FPP 457 (543)
T ss_pred CCC
Confidence 443
No 10
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.7e-67 Score=463.34 Aligned_cols=373 Identities=31% Similarity=0.445 Sum_probs=329.9
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
...|+.+|+++++.+.+.. +|+..|||+|..+||.||.| +|+|.+|.||||||.+|.+|+++++.....+..++|++
T Consensus 6 ~~~F~~LGl~~Wlve~l~~-l~i~~pTpiQ~~cIpkILeG--rdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlT 82 (442)
T KOG0340|consen 6 AKPFSILGLSPWLVEQLKA-LGIKKPTPIQQACIPKILEG--RDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLT 82 (442)
T ss_pred cCchhhcCccHHHHHHHHH-hcCCCCCchHhhhhHHHhcc--cccccccccCCCcchhhhHHHHHhhccCCCcceEEEec
Confidence 5689999999999999997 99999999999999999999 99999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC----ccCCCCeeEEEEe
Q 011104 179 PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK----KLGFSRLKILVYD 254 (493)
Q Consensus 179 Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~----~~~~~~~~~iVlD 254 (493)
|||+||.|+.+.|..++...++++..++|+.+.-. ....+...++++|+|||+|.+++..+ .+.+.+++++|+|
T Consensus 83 PTrELA~QiaEQF~alGk~l~lK~~vivGG~d~i~--qa~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflVlD 160 (442)
T KOG0340|consen 83 PTRELALQIAEQFIALGKLLNLKVSVIVGGTDMIM--QAAILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLVLD 160 (442)
T ss_pred chHHHHHHHHHHHHHhcccccceEEEEEccHHHhh--hhhhcccCCCeEecCccccccccccCCccchhhhhceeeEEec
Confidence 99999999999999999999999999999876543 34455667999999999999999875 3457899999999
Q ss_pred cchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhcc--CceeeeccccccccCceEEEEeCCCh
Q 011104 255 EADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKD--YNQLFVKKEELSLESVKQYKVYCPDE 332 (493)
Q Consensus 255 Eah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~ 332 (493)
|||+++. ..|.+.+..+...++. .+|+++||||+++.+..+....... ...+........+..+.+.|+.++..
T Consensus 161 EADrvL~-~~f~d~L~~i~e~lP~---~RQtLlfSATitd~i~ql~~~~i~k~~a~~~e~~~~vstvetL~q~yI~~~~~ 236 (442)
T KOG0340|consen 161 EADRVLA-GCFPDILEGIEECLPK---PRQTLLFSATITDTIKQLFGCPITKSIAFELEVIDGVSTVETLYQGYILVSID 236 (442)
T ss_pred chhhhhc-cchhhHHhhhhccCCC---ccceEEEEeehhhHHHHhhcCCcccccceEEeccCCCCchhhhhhheeecchh
Confidence 9999998 4899998888888776 6899999999998888776655554 33444445566777888999999876
Q ss_pred HHHHHHHHHHHHHhcc-cCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccc
Q 011104 333 LAKVMVIRDRIFELGE-KMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLA 411 (493)
Q Consensus 333 ~~~~~~l~~~l~~~~~-~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~ 411 (493)
...... +..+....+ ..+.++||+++..+|+.|+..|..+++.+..+||.|+|.+|...+.+|+++..+||||||+++
T Consensus 237 vkdaYL-v~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVAs 315 (442)
T KOG0340|consen 237 VKDAYL-VHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVAS 315 (442)
T ss_pred hhHHHH-HHHHhhhhhccCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcCccEEEEechhh
Confidence 544433 333444433 578899999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCccc
Q 011104 412 RGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCTC 490 (493)
Q Consensus 412 ~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~ 490 (493)
||||||.|+.|||||.| +++.+|+||+||++|+|+.|.+++|++. .+...+..|++..|.++++++....
T Consensus 316 RGLDIP~V~LVvN~diP--------r~P~~yiHRvGRtARAGR~G~aiSivt~-rDv~l~~aiE~~igkKl~e~~~~~~ 385 (442)
T KOG0340|consen 316 RGLDIPTVELVVNHDIP--------RDPKDYIHRVGRTARAGRKGMAISIVTQ-RDVELLQAIEEEIGKKLTEYNKVQR 385 (442)
T ss_pred cCCCCCceeEEEecCCC--------CCHHHHHHhhcchhcccCCcceEEEech-hhHHHHHHHHHHHhcccccccccch
Confidence 99999999999999999 8999999999999999999999999994 5788999999999999999887643
No 11
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.9e-67 Score=457.69 Aligned_cols=371 Identities=35% Similarity=0.570 Sum_probs=339.2
Q ss_pred CCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEE
Q 011104 98 SATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCI 177 (493)
Q Consensus 98 ~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil 177 (493)
.-..|+++.+.++++..+.. .||.+|+|+|..+||.++.| +|+++.|..|+|||.+|++|+++.+.......+++|+
T Consensus 83 kG~efEd~~Lkr~LLmgIfe-~G~ekPSPiQeesIPiaLtG--rdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~il 159 (459)
T KOG0326|consen 83 KGNEFEDYCLKRELLMGIFE-KGFEKPSPIQEESIPIALTG--RDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIIL 159 (459)
T ss_pred cCccHHHhhhhHHHHHHHHH-hccCCCCCccccccceeecc--hhhhhhccCCCCCccceechhhhhcCccccceeEEEE
Confidence 34679999999999999997 99999999999999999999 9999999999999999999999999998889999999
Q ss_pred cCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecch
Q 011104 178 CPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEAD 257 (493)
Q Consensus 178 ~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah 257 (493)
+|||+||.|+.+.+.+++.++++.+....|+++... ..-+.....+++|+||||+++++.++...++++.++|+||||
T Consensus 160 VPtrelALQtSqvc~~lskh~~i~vmvttGGT~lrD--DI~Rl~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEAD 237 (459)
T KOG0326|consen 160 VPTRELALQTSQVCKELSKHLGIKVMVTTGGTSLRD--DIMRLNQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEAD 237 (459)
T ss_pred eecchhhHHHHHHHHHHhcccCeEEEEecCCccccc--ceeeecCceEEEEcCChhHHHHHhcccccchhceEEEechhh
Confidence 999999999999999999999998888888776543 334566778999999999999999998899999999999999
Q ss_pred hhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHH
Q 011104 258 HMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVM 337 (493)
Q Consensus 258 ~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 337 (493)
.+++ ..|...+..++..+++ .+|++++|||+|-.+..+..+++.+|..+... ++.++.++.|+|.++.. ..|+.
T Consensus 238 KlLs-~~F~~~~e~li~~lP~---~rQillySATFP~tVk~Fm~~~l~kPy~INLM-~eLtl~GvtQyYafV~e-~qKvh 311 (459)
T KOG0326|consen 238 KLLS-VDFQPIVEKLISFLPK---ERQILLYSATFPLTVKGFMDRHLKKPYEINLM-EELTLKGVTQYYAFVEE-RQKVH 311 (459)
T ss_pred hhhc-hhhhhHHHHHHHhCCc---cceeeEEecccchhHHHHHHHhccCcceeehh-hhhhhcchhhheeeech-hhhhh
Confidence 9998 4899999999999988 78999999999999999999999999888654 46788999999998874 46777
Q ss_pred HHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCC
Q 011104 338 VIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQ 417 (493)
Q Consensus 338 ~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~ 417 (493)
.+..++.+ ++ -...||||||...++.+++.+.++|+.|+.+|+.|.|+.|.+++..|++|.++.|||||.+.||+|++
T Consensus 312 CLntLfsk-Lq-INQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGIDiq 389 (459)
T KOG0326|consen 312 CLNTLFSK-LQ-INQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQ 389 (459)
T ss_pred hHHHHHHH-hc-ccceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccccceeeehhhhhcccccc
Confidence 76654433 33 46889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCccc
Q 011104 418 QVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCTC 490 (493)
Q Consensus 418 ~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~ 490 (493)
++++|||||+| .++++|+||+||.||.|..|.+|.|++.. +...++.|++.++.+|..+|...+
T Consensus 390 avNvVINFDfp--------k~aEtYLHRIGRsGRFGhlGlAInLitye-drf~L~~IE~eLGtEI~pip~~iD 453 (459)
T KOG0326|consen 390 AVNVVINFDFP--------KNAETYLHRIGRSGRFGHLGLAINLITYE-DRFNLYRIEQELGTEIKPIPSNID 453 (459)
T ss_pred eeeEEEecCCC--------CCHHHHHHHccCCccCCCcceEEEEEehh-hhhhHHHHHHHhccccccCCCcCC
Confidence 99999999999 89999999999999999999999999964 677889999999999999986544
No 12
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.2e-66 Score=470.13 Aligned_cols=372 Identities=30% Similarity=0.438 Sum_probs=317.4
Q ss_pred CCCcccCC--CCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC---CC--C
Q 011104 99 ATTFEDLN--LSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN---LK--A 171 (493)
Q Consensus 99 ~~~~~~~~--~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~---~~--~ 171 (493)
...|++++ ++++++.++.. +||...||+|..+||.++.+ +||++.|+||||||+||++|++..+..+ .+ .
T Consensus 3 ~~~~~~l~~~L~~~l~~~l~~-~GF~~mTpVQa~tIPlll~~--KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~ 79 (567)
T KOG0345|consen 3 PKSFSSLAPPLSPWLLEALDE-SGFEKMTPVQAATIPLLLKN--KDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQ 79 (567)
T ss_pred CcchhhcCCCccHHHHHHHHh-cCCcccCHHHHhhhHHHhcC--CceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccc
Confidence 34677775 55999999987 99999999999999999999 9999999999999999999999988321 11 1
Q ss_pred CeEEEEcCCHHHHHHHHHHHHHHhcc-cCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC--ccCCCCe
Q 011104 172 PQALCICPTRELAIQNLEVLRKMGKH-TGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK--KLGFSRL 248 (493)
Q Consensus 172 ~~~lil~Pt~~La~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~--~~~~~~~ 248 (493)
..+|||+||||||.|+.+++..|..+ .++.+.+++|+.+.. .........+++|+|||||||.+++++. .+++.++
T Consensus 80 vgalIIsPTRELa~QI~~V~~~F~~~l~~l~~~l~vGG~~v~-~Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsL 158 (567)
T KOG0345|consen 80 VGALIISPTRELARQIREVAQPFLEHLPNLNCELLVGGRSVE-EDIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSL 158 (567)
T ss_pred eeEEEecCcHHHHHHHHHHHHHHHHhhhccceEEEecCccHH-HHHHHHHHhCCcEEEeCchhHHHHHhchhhhcccccc
Confidence 36899999999999999999998877 567778888885433 2233334457899999999999999884 3456699
Q ss_pred eEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccc--cccCceEEE
Q 011104 249 KILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEEL--SLESVKQYK 326 (493)
Q Consensus 249 ~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~ 326 (493)
.++|+||||++++ +||...+..|+..+++ .+++-+||||.+..+.++....+.+|..+.+..... ++..+..+|
T Consensus 159 e~LVLDEADrLld-mgFe~~~n~ILs~LPK---QRRTGLFSATq~~~v~dL~raGLRNpv~V~V~~k~~~~tPS~L~~~Y 234 (567)
T KOG0345|consen 159 EILVLDEADRLLD-MGFEASVNTILSFLPK---QRRTGLFSATQTQEVEDLARAGLRNPVRVSVKEKSKSATPSSLALEY 234 (567)
T ss_pred ceEEecchHhHhc-ccHHHHHHHHHHhccc---ccccccccchhhHHHHHHHHhhccCceeeeecccccccCchhhccee
Confidence 9999999999998 7999999999999998 678999999999999999999999999999988776 777788888
Q ss_pred EeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC--CCcEEEecCCCCHHHHHHHHHHHHcCCCcEE
Q 011104 327 VYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF--GYEVTTIMGATIQEERDKIVKEFKDGLTQVL 404 (493)
Q Consensus 327 ~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~--~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vL 404 (493)
..|... .|...+.+.+.. ...+++|||++|+..++.....|... ...++.+||.|.+..|.++++.|......+|
T Consensus 235 ~v~~a~-eK~~~lv~~L~~--~~~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl 311 (567)
T KOG0345|consen 235 LVCEAD-EKLSQLVHLLNN--NKDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVL 311 (567)
T ss_pred eEecHH-HHHHHHHHHHhc--cccccEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHHHhccCceE
Confidence 888754 456666664444 34589999999999999999999865 6789999999999999999999999888999
Q ss_pred EEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCcee
Q 011104 405 ISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTE 484 (493)
Q Consensus 405 v~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~ 484 (493)
+|||+++||||||++++||+||+| .+++.|+||+|||||+|+.|.+++|+.+ .+..|...+.-.=..++++
T Consensus 312 ~~TDVaARGlDip~iD~VvQ~DpP--------~~~~~FvHR~GRTaR~gr~G~Aivfl~p-~E~aYveFl~i~~~v~le~ 382 (567)
T KOG0345|consen 312 FCTDVAARGLDIPGIDLVVQFDPP--------KDPSSFVHRCGRTARAGREGNAIVFLNP-REEAYVEFLRIKGKVELER 382 (567)
T ss_pred EeehhhhccCCCCCceEEEecCCC--------CChhHHHhhcchhhhccCccceEEEecc-cHHHHHHHHHhcCccchhh
Confidence 999999999999999999999999 7888899999999999999999999998 4566666665554466666
Q ss_pred ecCccc
Q 011104 485 VQTCTC 490 (493)
Q Consensus 485 ~~~~~~ 490 (493)
+..+..
T Consensus 383 ~~~e~~ 388 (567)
T KOG0345|consen 383 IDTEKA 388 (567)
T ss_pred hccccc
Confidence 665544
No 13
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=8.4e-66 Score=476.06 Aligned_cols=378 Identities=29% Similarity=0.445 Sum_probs=314.2
Q ss_pred CCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccC------CC
Q 011104 95 PYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVD------PN 168 (493)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~------~~ 168 (493)
.+..-..|..+|+++.+.+.|...+++..||.+|+++||.++.| +|++|.++||||||++|++|+++.+. .+
T Consensus 131 ~~fts~~f~~LGL~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~g--rD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~R 208 (708)
T KOG0348|consen 131 APFTSAAFASLGLHPHLVSHLNTKMKISAPTSVQKQAIPVLLEG--RDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQR 208 (708)
T ss_pred cccccccchhcCCCHHHHHHHHHHhccCccchHhhcchhhhhcC--cceEEEcCCCCcccHHHHHHHHHHHHhcCccccc
Confidence 33445689999999999999999999999999999999999999 99999999999999999999998873 35
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHc-CccCCCC
Q 011104 169 LKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSA-KKLGFSR 247 (493)
Q Consensus 169 ~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~-~~~~~~~ 247 (493)
..|+.+||++||||||.|+++.++++...+.+.+.+.+-++.. ...+..+++.+++|+|+|||||++++.+ ..+.+++
T Consensus 209 s~G~~ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGEk-kKSEKARLRKGiNILIgTPGRLvDHLknT~~i~~s~ 287 (708)
T KOG0348|consen 209 SDGPYALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGEK-KKSEKARLRKGINILIGTPGRLVDHLKNTKSIKFSR 287 (708)
T ss_pred cCCceEEEEechHHHHHHHHHHHHHHhcCceEEeeceeecccc-cccHHHHHhcCceEEEcCchHHHHHHhccchheeee
Confidence 5688999999999999999999999998877766665544332 3345667788999999999999999988 4678899
Q ss_pred eeEEEEecchhhhcccCCHHHHHHHHHHhhhc----------CCCeeEEEEeeecChhHHHHHHHHhccCceeeeccc--
Q 011104 248 LKILVYDEADHMLDEAGFRDDSLRIMKDIERS----------SGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKE-- 315 (493)
Q Consensus 248 ~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~----------~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~-- 315 (493)
+++||+||||++++ +||...+..|++.+... +...|.+++|||++..+..+....+.+|..|..+..
T Consensus 288 LRwlVlDEaDrlle-LGfekdit~Il~~v~~~~~~e~~~~~lp~q~q~mLlSATLtd~V~rLa~~sLkDpv~I~ld~s~~ 366 (708)
T KOG0348|consen 288 LRWLVLDEADRLLE-LGFEKDITQILKAVHSIQNAECKDPKLPHQLQNMLLSATLTDGVNRLADLSLKDPVYISLDKSHS 366 (708)
T ss_pred eeEEEecchhHHHh-ccchhhHHHHHHHHhhccchhcccccccHHHHhHhhhhhhHHHHHHHhhccccCceeeeccchhh
Confidence 99999999999997 89999999999888321 123688999999999999999999999988772211
Q ss_pred -----------------------cccccCceEEEEeCCChHHHHHHHHHHHHHhc--ccCCcEEEEcCChhhHHHHHHHH
Q 011104 316 -----------------------ELSLESVKQYKVYCPDELAKVMVIRDRIFELG--EKMGQTIIFVRTKNSASALHKAL 370 (493)
Q Consensus 316 -----------------------~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~--~~~~~~lVf~~s~~~~~~l~~~L 370 (493)
...+..+.|.|..+|.....+.. ...|.... ....++|||+.+.+.++.-+..|
T Consensus 367 ~~~p~~~a~~ev~~~~~~~~l~~~~iPeqL~qry~vVPpKLRLV~L-aa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf 445 (708)
T KOG0348|consen 367 QLNPKDKAVQEVDDGPAGDKLDSFAIPEQLLQRYTVVPPKLRLVAL-AALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLF 445 (708)
T ss_pred hcCcchhhhhhcCCcccccccccccCcHHhhhceEecCCchhHHHH-HHHHHHHhhhhhhceeEEEEechhHHHHHHHHH
Confidence 11233456777777766544332 22222221 23458999999999999998888
Q ss_pred HhC----------------------CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCC
Q 011104 371 KDF----------------------GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPP 428 (493)
Q Consensus 371 ~~~----------------------~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p 428 (493)
... +.+++.+||+|.|.+|..++..|......||+|||+++||||+|+|++||.||+|
T Consensus 446 ~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~VLLcTDVAaRGLDlP~V~~vVQYd~P 525 (708)
T KOG0348|consen 446 SEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDVAARGLDLPHVGLVVQYDPP 525 (708)
T ss_pred HhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccceEEEehhhhhccCCCCCcCeEEEeCCC
Confidence 642 4578999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecC
Q 011104 429 VKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQT 487 (493)
Q Consensus 429 ~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~ 487 (493)
.+..+|+||+|||+|+|..|.++.|+.+.+.. |++.++..-.. +.+.++
T Consensus 526 --------~s~adylHRvGRTARaG~kG~alLfL~P~Eae-y~~~l~~~~~~-l~q~~~ 574 (708)
T KOG0348|consen 526 --------FSTADYLHRVGRTARAGEKGEALLFLLPSEAE-YVNYLKKHHIM-LLQFDM 574 (708)
T ss_pred --------CCHHHHHHHhhhhhhccCCCceEEEecccHHH-HHHHHHhhcch-hhccch
Confidence 88999999999999999999999999998655 88888876433 544443
No 14
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2e-66 Score=481.71 Aligned_cols=369 Identities=25% Similarity=0.413 Sum_probs=301.4
Q ss_pred CCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC-----
Q 011104 94 TPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN----- 168 (493)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~----- 168 (493)
....+...|..|+++.+++++|.. +||..||+||+.+||.+..|. .|++..|.||||||++|.+|+++++.+.
T Consensus 175 ~~~~DvsAW~~l~lp~~iL~aL~~-~gFs~Pt~IQsl~lp~ai~gk-~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~ 252 (731)
T KOG0347|consen 175 SSKVDVSAWKNLFLPMEILRALSN-LGFSRPTEIQSLVLPAAIRGK-VDILGAAETGSGKTLAFGIPIVERLLESSDDSQ 252 (731)
T ss_pred ccccChHHHhcCCCCHHHHHHHHh-cCCCCCccchhhcccHhhccc-hhcccccccCCCceeeecchhhhhhhhccchHh
Confidence 344567789999999999999997 999999999999999999994 7999999999999999999999966332
Q ss_pred ------CCCCe--EEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHc
Q 011104 169 ------LKAPQ--ALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSA 240 (493)
Q Consensus 169 ------~~~~~--~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~ 240 (493)
..+++ +||++|||+||.|+...+..+...+++.+..+.|+.+... ..+.++..++|+|+||||||.++..
T Consensus 253 e~~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqK--QqRlL~~~p~IVVATPGRlweli~e 330 (731)
T KOG0347|consen 253 ELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQK--QQRLLNQRPDIVVATPGRLWELIEE 330 (731)
T ss_pred hhhhHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHH--HHHHHhcCCCEEEecchHHHHHHHh
Confidence 12344 9999999999999999999999999999999998876543 3334445799999999999999988
Q ss_pred Ccc---CCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh--cCCCeeEEEEeeecChh--------------------
Q 011104 241 KKL---GFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER--SSGHCQVLLFSATFNET-------------------- 295 (493)
Q Consensus 241 ~~~---~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~--~~~~~q~v~~SAT~~~~-------------------- 295 (493)
+.. .+.+++++||||+|+|+.. |+.+.+..+++.+.. ....+|+++||||++-.
T Consensus 331 ~n~~l~~~k~vkcLVlDEaDRmvek-ghF~Els~lL~~L~e~~~~~qrQTlVFSATlt~~~~~~~~~~~k~~~k~~~~~~ 409 (731)
T KOG0347|consen 331 DNTHLGNFKKVKCLVLDEADRMVEK-GHFEELSKLLKHLNEEQKNRQRQTLVFSATLTLVLQQPLSSSRKKKDKEDELNA 409 (731)
T ss_pred hhhhhhhhhhceEEEEccHHHHhhh-ccHHHHHHHHHHhhhhhcccccceEEEEEEeehhhcChhHHhhhccchhhhhhH
Confidence 665 5778999999999999985 788888999988863 23467999999998521
Q ss_pred -HHHHHHH--HhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh
Q 011104 296 -VKNFVTR--IVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD 372 (493)
Q Consensus 296 -~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~ 372 (493)
+..++.. +...|..+...........+....+.|+.....+..+ +.+..-+|++|||||+++.+.+|+-+|+.
T Consensus 410 kiq~Lmk~ig~~~kpkiiD~t~q~~ta~~l~Es~I~C~~~eKD~yly----Yfl~ryPGrTlVF~NsId~vKRLt~~L~~ 485 (731)
T KOG0347|consen 410 KIQHLMKKIGFRGKPKIIDLTPQSATASTLTESLIECPPLEKDLYLY----YFLTRYPGRTLVFCNSIDCVKRLTVLLNN 485 (731)
T ss_pred HHHHHHHHhCccCCCeeEecCcchhHHHHHHHHhhcCCccccceeEE----EEEeecCCceEEEechHHHHHHHHHHHhh
Confidence 1222221 2234555555555555555555566665443322221 11223468999999999999999999999
Q ss_pred CCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccC
Q 011104 373 FGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRF 452 (493)
Q Consensus 373 ~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~ 452 (493)
+++..+++|+.|.|.+|.+.+++|++....||||||+++||||||+|+|||||..| ++.+.|+||.|||+|+
T Consensus 486 L~i~p~~LHA~M~QKqRLknLEkF~~~~~~VLiaTDVAARGLDIp~V~HVIHYqVP--------rtseiYVHRSGRTARA 557 (731)
T KOG0347|consen 486 LDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIATDVAARGLDIPGVQHVIHYQVP--------RTSEIYVHRSGRTARA 557 (731)
T ss_pred cCCCCchhhHHHHHHHHHHhHHHHhcCCCeEEEeehhhhccCCCCCcceEEEeecC--------CccceeEecccccccc
Confidence 99999999999999999999999999999999999999999999999999999999 8899999999999999
Q ss_pred CCcceEEEEeeCCccHHHHHHHHHHhCC
Q 011104 453 GRKGVVFNLLMDGDDMIIMEKIERYFDI 480 (493)
Q Consensus 453 g~~g~~i~l~~~~~~~~~~~~i~~~~~~ 480 (493)
+..|..+.|+.+.+ ...++.+.+.|..
T Consensus 558 ~~~Gvsvml~~P~e-~~~~~KL~ktL~k 584 (731)
T KOG0347|consen 558 NSEGVSVMLCGPQE-VGPLKKLCKTLKK 584 (731)
T ss_pred cCCCeEEEEeChHH-hHHHHHHHHHHhh
Confidence 99999999998775 5555666665544
No 15
>PTZ00110 helicase; Provisional
Probab=100.00 E-value=1.1e-64 Score=509.97 Aligned_cols=377 Identities=29% Similarity=0.436 Sum_probs=321.2
Q ss_pred cCCCCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC---
Q 011104 91 TGDTPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP--- 167 (493)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~--- 167 (493)
.+...+.+..+|+++++++.+++.|.+ +||..|||+|.++||.++.| +|+|++||||||||++|++|++.++..
T Consensus 121 ~g~~~p~p~~~f~~~~l~~~l~~~l~~-~g~~~pt~iQ~~aip~~l~G--~dvI~~ApTGSGKTlaylLP~l~~i~~~~~ 197 (545)
T PTZ00110 121 AGENVPKPVVSFEYTSFPDYILKSLKN-AGFTEPTPIQVQGWPIALSG--RDMIGIAETGSGKTLAFLLPAIVHINAQPL 197 (545)
T ss_pred cCCCCCcccCCHhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhcC--CCEEEEeCCCChHHHHHHHHHHHHHHhccc
Confidence 456677889999999999999999997 99999999999999999999 999999999999999999999987643
Q ss_pred --CCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCC
Q 011104 168 --NLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGF 245 (493)
Q Consensus 168 --~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~ 245 (493)
...++.+|||+||++||.|+.+.+..++...++.+.+.+++...... ......+++|+|+||++|.+++......+
T Consensus 198 ~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q--~~~l~~~~~IlVaTPgrL~d~l~~~~~~l 275 (545)
T PTZ00110 198 LRYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQ--IYALRRGVEILIACPGRLIDFLESNVTNL 275 (545)
T ss_pred ccCCCCcEEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHHH--HHHHHcCCCEEEECHHHHHHHHHcCCCCh
Confidence 23467899999999999999999999998888888888877654322 12233468999999999999999888889
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhc-cCceeeecccc-ccccCce
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVK-DYNQLFVKKEE-LSLESVK 323 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~ 323 (493)
.++++|||||||+|++ ++|...+..++..+.. .+|+++||||++..+..+...++. .+..+.+.... .....+.
T Consensus 276 ~~v~~lViDEAd~mld-~gf~~~i~~il~~~~~---~~q~l~~SAT~p~~v~~l~~~l~~~~~v~i~vg~~~l~~~~~i~ 351 (545)
T PTZ00110 276 RRVTYLVLDEADRMLD-MGFEPQIRKIVSQIRP---DRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIK 351 (545)
T ss_pred hhCcEEEeehHHhhhh-cchHHHHHHHHHhCCC---CCeEEEEEeCCCHHHHHHHHHHhccCCEEEEECCCccccCCCee
Confidence 9999999999999998 6999999999887754 789999999999999998888875 46555554333 2234556
Q ss_pred EEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcE
Q 011104 324 QYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQV 403 (493)
Q Consensus 324 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~v 403 (493)
+.+..+. ...+...+...+........++||||++++.|+.++..|...++.+..+||++++.+|..+++.|++|+..|
T Consensus 352 q~~~~~~-~~~k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G~~~I 430 (545)
T PTZ00110 352 QEVFVVE-EHEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPI 430 (545)
T ss_pred EEEEEEe-chhHHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcCCCcE
Confidence 6555554 344555565655555545789999999999999999999999999999999999999999999999999999
Q ss_pred EEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCce
Q 011104 404 LISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVT 483 (493)
Q Consensus 404 Lv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~ 483 (493)
||||+++++|||+|++++|||||+| .++.+|+||+||+||+|+.|.|++|+++. +...++.+.+.+...-.
T Consensus 431 LVaTdv~~rGIDi~~v~~VI~~d~P--------~s~~~yvqRiGRtGR~G~~G~ai~~~~~~-~~~~~~~l~~~l~~~~q 501 (545)
T PTZ00110 431 MIATDVASRGLDVKDVKYVINFDFP--------NQIEDYVHRIGRTGRAGAKGASYTFLTPD-KYRLARDLVKVLREAKQ 501 (545)
T ss_pred EEEcchhhcCCCcccCCEEEEeCCC--------CCHHHHHHHhcccccCCCCceEEEEECcc-hHHHHHHHHHHHHHccC
Confidence 9999999999999999999999999 88999999999999999999999999875 56677777777766655
Q ss_pred eec
Q 011104 484 EVQ 486 (493)
Q Consensus 484 ~~~ 486 (493)
++|
T Consensus 502 ~vp 504 (545)
T PTZ00110 502 PVP 504 (545)
T ss_pred CCC
Confidence 555
No 16
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=4.8e-64 Score=495.84 Aligned_cols=371 Identities=29% Similarity=0.453 Sum_probs=319.4
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC-------CCC
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN-------LKA 171 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~-------~~~ 171 (493)
..+|+++++++.+++++.. +||..|||+|+++||.++.| +|++++||||||||++|++|+++.+... ..+
T Consensus 7 ~~~f~~~~l~~~l~~~l~~-~g~~~pt~iQ~~aip~il~g--~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~ 83 (423)
T PRK04837 7 EQKFSDFALHPQVVEALEK-KGFHNCTPIQALALPLTLAG--RDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQ 83 (423)
T ss_pred CCCHhhCCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCC--CcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCC
Confidence 4689999999999999987 99999999999999999999 9999999999999999999999877432 235
Q ss_pred CeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEE
Q 011104 172 PQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKIL 251 (493)
Q Consensus 172 ~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~i 251 (493)
+++|||+||++||.|+++.+..+....++.+...+++...... ......+++|+|+||++|.+++....+.+.++++|
T Consensus 84 ~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~~--~~~l~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~l 161 (423)
T PRK04837 84 PRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQ--LKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVV 161 (423)
T ss_pred ceEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHH--HHHhcCCCCEEEECHHHHHHHHHcCCcccccccEE
Confidence 7899999999999999999999999889888888876543321 12233468999999999999999888899999999
Q ss_pred EEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCC
Q 011104 252 VYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD 331 (493)
Q Consensus 252 VlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 331 (493)
||||||++++ .+|...+..++..++.. ...+.++||||++..+..+....+.+|..+.+.........+.+.+... .
T Consensus 162 ViDEad~l~~-~~f~~~i~~i~~~~~~~-~~~~~~l~SAT~~~~~~~~~~~~~~~p~~i~v~~~~~~~~~i~~~~~~~-~ 238 (423)
T PRK04837 162 VLDEADRMFD-LGFIKDIRWLFRRMPPA-NQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELFYP-S 238 (423)
T ss_pred EEecHHHHhh-cccHHHHHHHHHhCCCc-cceeEEEEeccCCHHHHHHHHHHCCCCEEEEEcCCCcCCCceeEEEEeC-C
Confidence 9999999998 58999998888877642 2567899999999999998888888888777665555555566655544 3
Q ss_pred hHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccc
Q 011104 332 ELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLA 411 (493)
Q Consensus 332 ~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~ 411 (493)
...+...+...+.. ....++||||+++..|+.++..|...|+.+..+||+|++.+|..+++.|++|+++|||||++++
T Consensus 239 ~~~k~~~l~~ll~~--~~~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv~~ 316 (423)
T PRK04837 239 NEEKMRLLQTLIEE--EWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAA 316 (423)
T ss_pred HHHHHHHHHHHHHh--cCCCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEechhh
Confidence 44566666554433 2357899999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCc
Q 011104 412 RGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTC 488 (493)
Q Consensus 412 ~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~ 488 (493)
||||+|++++||+||+| .+...|+||+||+||.|+.|.|++|+++. +...+..++++++..++..+.+
T Consensus 317 rGiDip~v~~VI~~d~P--------~s~~~yiqR~GR~gR~G~~G~ai~~~~~~-~~~~~~~i~~~~~~~~~~~~~~ 384 (423)
T PRK04837 317 RGLHIPAVTHVFNYDLP--------DDCEDYVHRIGRTGRAGASGHSISLACEE-YALNLPAIETYIGHSIPVSKYD 384 (423)
T ss_pred cCCCccccCEEEEeCCC--------CchhheEeccccccCCCCCeeEEEEeCHH-HHHHHHHHHHHhCCCCCCccCC
Confidence 99999999999999999 88999999999999999999999999864 5667888999999998766554
No 17
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=100.00 E-value=4.3e-63 Score=494.33 Aligned_cols=368 Identities=32% Similarity=0.488 Sum_probs=320.6
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
..+|+++++++.+++++.. +||..|||+|.++||.++.| +|++++||||||||++|++|+++++......+++||++
T Consensus 3 ~~~f~~l~l~~~l~~~l~~-~g~~~~t~iQ~~ai~~~l~g--~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~ 79 (460)
T PRK11776 3 MTAFSTLPLPPALLANLNE-LGYTEMTPIQAQSLPAILAG--KDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLC 79 (460)
T ss_pred CCChhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhcC--CCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEe
Confidence 3579999999999999987 99999999999999999999 99999999999999999999999987666677899999
Q ss_pred CCHHHHHHHHHHHHHHhccc-CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecch
Q 011104 179 PTRELAIQNLEVLRKMGKHT-GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEAD 257 (493)
Q Consensus 179 Pt~~La~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah 257 (493)
||++||.|+.+.++.++... ++.+..++|+.+.... ......+++|+|+||++|.+++....+.+.++++||+||||
T Consensus 80 PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~--~~~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad 157 (460)
T PRK11776 80 PTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQ--IDSLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEAD 157 (460)
T ss_pred CCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHH--HHHhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHH
Confidence 99999999999999987654 5777777776544322 12233568999999999999999888889999999999999
Q ss_pred hhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHH
Q 011104 258 HMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVM 337 (493)
Q Consensus 258 ~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 337 (493)
+|++ ++|...+..++..++. ..|+++||||+++.+..+...++..+..+.+.... ....+.+.++.++... +..
T Consensus 158 ~~l~-~g~~~~l~~i~~~~~~---~~q~ll~SAT~~~~~~~l~~~~~~~~~~i~~~~~~-~~~~i~~~~~~~~~~~-k~~ 231 (460)
T PRK11776 158 RMLD-MGFQDAIDAIIRQAPA---RRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTH-DLPAIEQRFYEVSPDE-RLP 231 (460)
T ss_pred HHhC-cCcHHHHHHHHHhCCc---ccEEEEEEecCcHHHHHHHHHhcCCCEEEEECcCC-CCCCeeEEEEEeCcHH-HHH
Confidence 9997 6999999999888876 78999999999999999999999988877765543 3445777777776554 666
Q ss_pred HHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCC
Q 011104 338 VIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQ 417 (493)
Q Consensus 338 ~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~ 417 (493)
.+...+... ...++||||+++..++.+++.|...++.+..+||+|++.+|..+++.|++|..+|||||+++++|+|+|
T Consensus 232 ~l~~ll~~~--~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~~rGiDi~ 309 (460)
T PRK11776 232 ALQRLLLHH--QPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIK 309 (460)
T ss_pred HHHHHHHhc--CCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEecccccccchh
Confidence 666544332 357899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCc
Q 011104 418 QVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTC 488 (493)
Q Consensus 418 ~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~ 488 (493)
++++||+|++| .+...|+||+||+||+|+.|.|++|+.+. +...++.++++++..++..+..
T Consensus 310 ~v~~VI~~d~p--------~~~~~yiqR~GRtGR~g~~G~ai~l~~~~-e~~~~~~i~~~~~~~~~~~~l~ 371 (460)
T PRK11776 310 ALEAVINYELA--------RDPEVHVHRIGRTGRAGSKGLALSLVAPE-EMQRANAIEDYLGRKLNWEPLP 371 (460)
T ss_pred cCCeEEEecCC--------CCHhHhhhhcccccCCCCcceEEEEEchh-HHHHHHHHHHHhCCCCceecCC
Confidence 99999999999 88999999999999999999999999865 6778899999999988765543
No 18
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.6e-64 Score=453.26 Aligned_cols=370 Identities=29% Similarity=0.475 Sum_probs=322.6
Q ss_pred CCCCCCccc-CCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC------C
Q 011104 96 YTSATTFED-LNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP------N 168 (493)
Q Consensus 96 ~~~~~~~~~-~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~------~ 168 (493)
+.+..+|++ +.-.++++.++.+ .||.+|||+|+++||.+|.| .|++..|.||+|||++||+|.+-++.. .
T Consensus 215 PnP~ctFddAFq~~pevmenIkK-~GFqKPtPIqSQaWPI~LQG--~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~q 291 (629)
T KOG0336|consen 215 PNPVCTFDDAFQCYPEVMENIKK-TGFQKPTPIQSQAWPILLQG--IDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQ 291 (629)
T ss_pred CCCcCcHHHHHhhhHHHHHHHHh-ccCCCCCcchhcccceeecC--cceEEEEecCCCcCHHHhccceeeeeccchhhhc
Confidence 345556765 5788999999997 99999999999999999999 999999999999999999999877743 3
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCe
Q 011104 169 LKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRL 248 (493)
Q Consensus 169 ~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~ 248 (493)
..++.+|++.|||+||.|+.-...++. ..+....|++|+...+.. ...+..+.+|+++||++|.++...+.+++.++
T Consensus 292 r~~p~~lvl~ptreLalqie~e~~kys-yng~ksvc~ygggnR~eq--ie~lkrgveiiiatPgrlndL~~~n~i~l~si 368 (629)
T KOG0336|consen 292 RNGPGVLVLTPTRELALQIEGEVKKYS-YNGLKSVCVYGGGNRNEQ--IEDLKRGVEIIIATPGRLNDLQMDNVINLASI 368 (629)
T ss_pred cCCCceEEEeccHHHHHHHHhHHhHhh-hcCcceEEEecCCCchhH--HHHHhcCceEEeeCCchHhhhhhcCeeeeeee
Confidence 467899999999999999998888775 457888899998876653 33455678999999999999999999999999
Q ss_pred eEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccc-cccCceEEEE
Q 011104 249 KILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEEL-SLESVKQYKV 327 (493)
Q Consensus 249 ~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 327 (493)
.++||||||+|++ |||.+++..|+-.+.+ ++|+++.|||||+.+..+...+++.|..++++.-.. ....+.|..
T Consensus 369 TYlVlDEADrMLD-MgFEpqIrkilldiRP---DRqtvmTSATWP~~VrrLa~sY~Kep~~v~vGsLdL~a~~sVkQ~i- 443 (629)
T KOG0336|consen 369 TYLVLDEADRMLD-MGFEPQIRKILLDIRP---DRQTVMTSATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVKSVKQNI- 443 (629)
T ss_pred EEEEecchhhhhc-ccccHHHHHHhhhcCC---cceeeeecccCchHHHHHHHHhhhCceEEEecccceeeeeeeeeeE-
Confidence 9999999999998 7999999999887766 899999999999999999999999999988876654 345666766
Q ss_pred eCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEe
Q 011104 328 YCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLIST 407 (493)
Q Consensus 328 ~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T 407 (493)
.++.+..+...+.. +........++||||..+..|+.|..-|.-.|+.+..+||+-.|.+|+..++.|++|+++|||||
T Consensus 444 ~v~~d~~k~~~~~~-f~~~ms~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaT 522 (629)
T KOG0336|consen 444 IVTTDSEKLEIVQF-FVANMSSNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVAT 522 (629)
T ss_pred EecccHHHHHHHHH-HHHhcCCCceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhcCceEEEEEe
Confidence 66777777755544 55555668999999999999999999999999999999999999999999999999999999999
Q ss_pred CccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeec
Q 011104 408 DVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQ 486 (493)
Q Consensus 408 ~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~ 486 (493)
|+++||||+|+++||+|||+| .+++.|+||+||+||+|+.|.+++|++.. ++.....+-+.|...-+++|
T Consensus 523 DlaSRGlDv~DiTHV~NyDFP--------~nIeeYVHRvGrtGRaGr~G~sis~lt~~-D~~~a~eLI~ILe~aeQevP 592 (629)
T KOG0336|consen 523 DLASRGLDVPDITHVYNYDFP--------RNIEEYVHRVGRTGRAGRTGTSISFLTRN-DWSMAEELIQILERAEQEVP 592 (629)
T ss_pred chhhcCCCchhcceeeccCCC--------ccHHHHHHHhcccccCCCCcceEEEEehh-hHHHHHHHHHHHHHhhhhCc
Confidence 999999999999999999999 89999999999999999999999999854 56666666666665555554
No 19
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=100.00 E-value=3e-63 Score=503.20 Aligned_cols=372 Identities=35% Similarity=0.552 Sum_probs=324.7
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
..+|.++++++.++++|.+ +||..|+|+|.++||.++.| +|+|++||||||||++|++|+++.+......+++||||
T Consensus 5 ~~~f~~l~L~~~ll~al~~-~G~~~ptpiQ~~ai~~ll~g--~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~ 81 (629)
T PRK11634 5 ETTFADLGLKAPILEALND-LGYEKPSPIQAECIPHLLNG--RDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLA 81 (629)
T ss_pred cCCHhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHHcC--CCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEe
Confidence 4579999999999999987 99999999999999999999 99999999999999999999999987766778999999
Q ss_pred CCHHHHHHHHHHHHHHhccc-CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecch
Q 011104 179 PTRELAIQNLEVLRKMGKHT-GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEAD 257 (493)
Q Consensus 179 Pt~~La~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah 257 (493)
||++||.|+++.+..+.... ++.+..++++..... .......+++|+|+||++|.+++....+.+.++++|||||||
T Consensus 82 PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~--q~~~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd 159 (629)
T PRK11634 82 PTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDV--QLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEAD 159 (629)
T ss_pred CcHHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHH--HHHHhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHH
Confidence 99999999999999987664 577777777654322 222234468999999999999999988899999999999999
Q ss_pred hhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHH
Q 011104 258 HMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVM 337 (493)
Q Consensus 258 ~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 337 (493)
+|+. ++|...+..++..++. ..|+++||||+|..+..+...++.++..+.+.........+.+.+..+.. ..+..
T Consensus 160 ~ml~-~gf~~di~~Il~~lp~---~~q~llfSAT~p~~i~~i~~~~l~~~~~i~i~~~~~~~~~i~q~~~~v~~-~~k~~ 234 (629)
T PRK11634 160 EMLR-MGFIEDVETIMAQIPE---GHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWG-MRKNE 234 (629)
T ss_pred HHhh-cccHHHHHHHHHhCCC---CCeEEEEEccCChhHHHHHHHHcCCCeEEEccCccccCCceEEEEEEech-hhHHH
Confidence 9997 6999999988888766 78999999999999999999999998888777666666677777666553 34555
Q ss_pred HHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCC
Q 011104 338 VIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQ 417 (493)
Q Consensus 338 ~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~ 417 (493)
.+...+.. ....++||||+++..+..++..|...++.+..+||+|++.+|..+++.|++|+.+|||||+++++|||+|
T Consensus 235 ~L~~~L~~--~~~~~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~arGIDip 312 (629)
T PRK11634 235 ALVRFLEA--EDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVE 312 (629)
T ss_pred HHHHHHHh--cCCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchHhcCCCcc
Confidence 55553332 2346899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCcccc
Q 011104 418 QVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCTCE 491 (493)
Q Consensus 418 ~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ 491 (493)
++++|||||+| .+...|+||+|||||+|+.|.+++|+.+. +..+++.|++.++..++++.....+
T Consensus 313 ~V~~VI~~d~P--------~~~e~yvqRiGRtGRaGr~G~ai~~v~~~-e~~~l~~ie~~~~~~i~~~~~p~~~ 377 (629)
T PRK11634 313 RISLVVNYDIP--------MDSESYVHRIGRTGRAGRAGRALLFVENR-ERRLLRNIERTMKLTIPEVELPNAE 377 (629)
T ss_pred cCCEEEEeCCC--------CCHHHHHHHhccccCCCCcceEEEEechH-HHHHHHHHHHHhCCCcceecCCcHH
Confidence 99999999999 88999999999999999999999999864 6678999999999999998776544
No 20
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=100.00 E-value=9.4e-63 Score=494.86 Aligned_cols=376 Identities=28% Similarity=0.459 Sum_probs=319.9
Q ss_pred cCCCCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC---
Q 011104 91 TGDTPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP--- 167 (493)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~--- 167 (493)
.|...+.+..+|+++++++.+++.|.. +||..|||+|.++||.++.| +|++++||||||||++|++|++.++..
T Consensus 112 ~g~~~p~pi~~f~~~~l~~~l~~~L~~-~g~~~ptpiQ~~aip~il~g--~dviv~ApTGSGKTlayllPil~~l~~~~~ 188 (518)
T PLN00206 112 KGEAVPPPILSFSSCGLPPKLLLNLET-AGYEFPTPIQMQAIPAALSG--RSLLVSADTGSGKTASFLVPIISRCCTIRS 188 (518)
T ss_pred cCCCCCchhcCHHhCCCCHHHHHHHHH-cCCCCCCHHHHHHHHHHhcC--CCEEEEecCCCCccHHHHHHHHHHHHhhcc
Confidence 466677889999999999999999987 99999999999999999999 999999999999999999999987632
Q ss_pred ----CCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCcc
Q 011104 168 ----NLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKL 243 (493)
Q Consensus 168 ----~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~ 243 (493)
...++++|||+||++||.|+.+.++.+....++.+.+.+++....... .....+++|+|+||++|.+++....+
T Consensus 189 ~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG~~~~~q~--~~l~~~~~IiV~TPgrL~~~l~~~~~ 266 (518)
T PLN00206 189 GHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQL--YRIQQGVELIVGTPGRLIDLLSKHDI 266 (518)
T ss_pred ccccccCCceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHH--HHhcCCCCEEEECHHHHHHHHHcCCc
Confidence 235679999999999999999999999888888887787776543221 22334689999999999999998888
Q ss_pred CCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCce
Q 011104 244 GFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVK 323 (493)
Q Consensus 244 ~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 323 (493)
.+.++++||+||||+|++ .+|...+..++..++ ..|+++||||++..+..+...+..++..+...........+.
T Consensus 267 ~l~~v~~lViDEad~ml~-~gf~~~i~~i~~~l~----~~q~l~~SATl~~~v~~l~~~~~~~~~~i~~~~~~~~~~~v~ 341 (518)
T PLN00206 267 ELDNVSVLVLDEVDCMLE-RGFRDQVMQIFQALS----QPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVK 341 (518)
T ss_pred cchheeEEEeecHHHHhh-cchHHHHHHHHHhCC----CCcEEEEEeeCCHHHHHHHHHhCCCCEEEEeCCCCCCCccee
Confidence 899999999999999998 589999888887763 569999999999999999998888888777766655556677
Q ss_pred EEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh-CCCcEEEecCCCCHHHHHHHHHHHHcCCCc
Q 011104 324 QYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD-FGYEVTTIMGATIQEERDKIVKEFKDGLTQ 402 (493)
Q Consensus 324 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~-~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~ 402 (493)
+....+... .+...+.+.+........++||||+++..++.++..|.. .++.+..+||+|++.+|..+++.|++|+.+
T Consensus 342 q~~~~~~~~-~k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ 420 (518)
T PLN00206 342 QLAIWVETK-QKKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVP 420 (518)
T ss_pred EEEEeccch-hHHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCCCCC
Confidence 777766644 344445554444434456899999999999999999975 689999999999999999999999999999
Q ss_pred EEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCc
Q 011104 403 VLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKV 482 (493)
Q Consensus 403 vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~ 482 (493)
|||||++++||||+|++++||+||+| .++.+|+||+|||||.|..|.+++|+++. +...+..+.+.+...-
T Consensus 421 ILVaTdvl~rGiDip~v~~VI~~d~P--------~s~~~yihRiGRaGR~g~~G~ai~f~~~~-~~~~~~~l~~~l~~~~ 491 (518)
T PLN00206 421 VIVATGVLGRGVDLLRVRQVIIFDMP--------NTIKEYIHQIGRASRMGEKGTAIVFVNEE-DRNLFPELVALLKSSG 491 (518)
T ss_pred EEEEecHhhccCCcccCCEEEEeCCC--------CCHHHHHHhccccccCCCCeEEEEEEchh-HHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999 88999999999999999999999999865 5556677776666544
Q ss_pred eeec
Q 011104 483 TEVQ 486 (493)
Q Consensus 483 ~~~~ 486 (493)
..+|
T Consensus 492 ~~vp 495 (518)
T PLN00206 492 AAIP 495 (518)
T ss_pred CCCC
Confidence 4444
No 21
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.8e-63 Score=465.77 Aligned_cols=380 Identities=30% Similarity=0.464 Sum_probs=327.9
Q ss_pred CccccccCCCCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhc
Q 011104 85 SIKTVTTGDTPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSR 164 (493)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~ 164 (493)
.+....+|...+.....|.+-.+...+..++.. .|+..|||+|+.+||.+..| ++++++|+||||||.+|++|++.+
T Consensus 59 ~i~v~~~G~~~p~~i~~f~~~~l~~~l~~ni~~-~~~~~ptpvQk~sip~i~~G--rdl~acAqTGsGKT~aFLiPii~~ 135 (482)
T KOG0335|consen 59 DIPVKVSGRDVPPHIPTFDEAILGEALAGNIKR-SGYTKPTPVQKYSIPIISGG--RDLMACAQTGSGKTAAFLIPIISY 135 (482)
T ss_pred ceeeeccCCccCCCcccccccchhHHHhhcccc-ccccCCCcceeeccceeecC--CceEEEccCCCcchHHHHHHHHHH
Confidence 344555677777777899988899999999886 89999999999999999999 999999999999999999999998
Q ss_pred cCCCC----------CCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH
Q 011104 165 VDPNL----------KAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI 234 (493)
Q Consensus 165 l~~~~----------~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l 234 (493)
+.... ..|++||++|||+|+.|++...+++.....+.....+++.... ........+|+|+|+|||+|
T Consensus 136 ~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~--~q~~~~~~gcdIlvaTpGrL 213 (482)
T KOG0335|consen 136 LLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLG--AQLRFIKRGCDILVATPGRL 213 (482)
T ss_pred HHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcchh--hhhhhhccCccEEEecCchh
Confidence 84332 2589999999999999999999999988888888888885433 33445556899999999999
Q ss_pred HHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh-cCCCeeEEEEeeecChhHHHHHHHHhcc-Cceeee
Q 011104 235 KKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER-SSGHCQVLLFSATFNETVKNFVTRIVKD-YNQLFV 312 (493)
Q Consensus 235 ~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~-~~~~~q~v~~SAT~~~~~~~~~~~~~~~-~~~~~~ 312 (493)
.+++..+.+.+.+++++||||||+|++.++|.+.+..|+..... .....|+++||||+|..+..++..++.. |..+.+
T Consensus 214 ~d~~e~g~i~l~~~k~~vLDEADrMlD~mgF~p~Ir~iv~~~~~~~~~~~qt~mFSAtfp~~iq~l~~~fl~~~yi~laV 293 (482)
T KOG0335|consen 214 KDLIERGKISLDNCKFLVLDEADRMLDEMGFEPQIRKIVEQLGMPPKNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAV 293 (482)
T ss_pred hhhhhcceeehhhCcEEEecchHHhhhhccccccHHHHhcccCCCCccceeEEEEeccCChhhhhhHHHHhhccceEEEE
Confidence 99999999999999999999999999989999999999987743 2346899999999999999988888886 888888
Q ss_pred ccccccccCceEEEEeCCChHHHHHHHHHHHHHhcc--cCC-----cEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCC
Q 011104 313 KKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGE--KMG-----QTIIFVRTKNSASALHKALKDFGYEVTTIMGATI 385 (493)
Q Consensus 313 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~--~~~-----~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~ 385 (493)
..-......+.|...++..... ...+.+.+..... ..+ +++|||.+++.|..++.+|...++++..+||..+
T Consensus 294 ~rvg~~~~ni~q~i~~V~~~~k-r~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~t 372 (482)
T KOG0335|consen 294 GRVGSTSENITQKILFVNEMEK-RSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRT 372 (482)
T ss_pred eeeccccccceeEeeeecchhh-HHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhcCCCCceeecchhh
Confidence 8888889999999988886543 3444443443321 233 7999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCC
Q 011104 386 QEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 386 ~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
+.+|.+.++.|+.|...+||||++++||||+|+|+|||+||+| .+..+|+||||||||.|+.|.++.|+...
T Consensus 373 q~er~~al~~Fr~g~~pvlVaT~VaaRGlDi~~V~hVInyDmP--------~d~d~YvHRIGRTGR~Gn~G~atsf~n~~ 444 (482)
T KOG0335|consen 373 QIEREQALNDFRNGKAPVLVATNVAARGLDIPNVKHVINYDMP--------ADIDDYVHRIGRTGRVGNGGRATSFFNEK 444 (482)
T ss_pred hhHHHHHHHHhhcCCcceEEEehhhhcCCCCCCCceeEEeecC--------cchhhHHHhccccccCCCCceeEEEeccc
Confidence 9999999999999999999999999999999999999999999 78999999999999999999999999843
Q ss_pred ccHHHHHHHHHHhC
Q 011104 466 DDMIIMEKIERYFD 479 (493)
Q Consensus 466 ~~~~~~~~i~~~~~ 479 (493)
+....+.+-+.+.
T Consensus 445 -~~~i~~~L~~~l~ 457 (482)
T KOG0335|consen 445 -NQNIAKALVEILT 457 (482)
T ss_pred -cchhHHHHHHHHH
Confidence 4444455555443
No 22
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=100.00 E-value=2.5e-62 Score=486.37 Aligned_cols=368 Identities=30% Similarity=0.478 Sum_probs=317.1
Q ss_pred CcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCC------CCCeE
Q 011104 101 TFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNL------KAPQA 174 (493)
Q Consensus 101 ~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~------~~~~~ 174 (493)
+|+++++++.+++.|.+ +||..|||+|.++||.++.| +|++++||||||||++|++|+++.+.... ..+++
T Consensus 2 ~f~~l~l~~~l~~~l~~-~g~~~pt~iQ~~ai~~il~g--~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~a 78 (456)
T PRK10590 2 SFDSLGLSPDILRAVAE-QGYREPTPIQQQAIPAVLEG--RDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRA 78 (456)
T ss_pred CHHHcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCC--CCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceE
Confidence 68999999999999987 99999999999999999999 99999999999999999999999875321 23579
Q ss_pred EEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEe
Q 011104 175 LCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYD 254 (493)
Q Consensus 175 lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlD 254 (493)
|||+||++||.|+.+.+..+....++.+..++++...... .......++|+|+||++|++++....+.++++++||||
T Consensus 79 Lil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~--~~~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViD 156 (456)
T PRK10590 79 LILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQ--MMKLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLD 156 (456)
T ss_pred EEEeCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHHH--HHHHcCCCcEEEEChHHHHHHHHcCCcccccceEEEee
Confidence 9999999999999999999998888888778777654332 11233468999999999999998888889999999999
Q ss_pred cchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHH
Q 011104 255 EADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELA 334 (493)
Q Consensus 255 Eah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (493)
|||++++ .+|...+..++..++. ..|+++||||++..+..+...++.++..+.+.........+.+++..+... .
T Consensus 157 Eah~ll~-~~~~~~i~~il~~l~~---~~q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~~-~ 231 (456)
T PRK10590 157 EADRMLD-MGFIHDIRRVLAKLPA---KRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVDKK-R 231 (456)
T ss_pred cHHHHhc-cccHHHHHHHHHhCCc---cCeEEEEeCCCcHHHHHHHHHHcCCCeEEEEecccccccceeEEEEEcCHH-H
Confidence 9999998 5898888888877765 679999999999999999999998888777766555566677776666543 3
Q ss_pred HHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCC
Q 011104 335 KVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGF 414 (493)
Q Consensus 335 ~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gl 414 (493)
+...+...+ .. ....++||||+++..++.+++.|...++.+..+||+|++.+|..+++.|++|+.+|||||+++++||
T Consensus 232 k~~~l~~l~-~~-~~~~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTdv~~rGi 309 (456)
T PRK10590 232 KRELLSQMI-GK-GNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGL 309 (456)
T ss_pred HHHHHHHHH-Hc-CCCCcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEccHHhcCC
Confidence 333333322 22 2357899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCcc
Q 011104 415 DQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCT 489 (493)
Q Consensus 415 di~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 489 (493)
|+|++++||||++| .++.+|+||+||+||.|..|.+++|++.. +..+++.+++.++.+++.+....
T Consensus 310 Dip~v~~VI~~~~P--------~~~~~yvqR~GRaGR~g~~G~ai~l~~~~-d~~~~~~ie~~l~~~~~~~~~~~ 375 (456)
T PRK10590 310 DIEELPHVVNYELP--------NVPEDYVHRIGRTGRAAATGEALSLVCVD-EHKLLRDIEKLLKKEIPRIAIPG 375 (456)
T ss_pred CcccCCEEEEeCCC--------CCHHHhhhhccccccCCCCeeEEEEecHH-HHHHHHHHHHHhcCCCcccccCC
Confidence 99999999999999 88999999999999999999999999864 67788999999999987665443
No 23
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=8e-63 Score=453.33 Aligned_cols=370 Identities=32% Similarity=0.505 Sum_probs=341.4
Q ss_pred cCCCCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC---
Q 011104 91 TGDTPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP--- 167 (493)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~--- 167 (493)
.+..++.+.++|+.+++...+..++.+ .-|.+|||+|.+++|..+.| +|++..|.||||||.+|+.|++-++..
T Consensus 214 ~g~s~~rpvtsfeh~gfDkqLm~airk-~Ey~kptpiq~qalptalsg--rdvigIAktgSgktaAfi~pm~~himdq~e 290 (731)
T KOG0339|consen 214 SGSSPPRPVTSFEHFGFDKQLMTAIRK-SEYEKPTPIQCQALPTALSG--RDVIGIAKTGSGKTAAFIWPMIVHIMDQPE 290 (731)
T ss_pred ccCCCCCCcchhhhcCchHHHHHHHhh-hhcccCCccccccccccccc--ccchheeeccCcchhHHHHHHHHHhcchhh
Confidence 577888999999999999999999987 89999999999999999999 999999999999999999999988843
Q ss_pred --CCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCC
Q 011104 168 --NLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGF 245 (493)
Q Consensus 168 --~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~ 245 (493)
...+|..+|+||||+||.|++.++++|+...++++.+++++.+.+.+. +.+..++.|||||||||.+++.....++
T Consensus 291 L~~g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~--k~Lk~g~EivVaTPgRlid~VkmKatn~ 368 (731)
T KOG0339|consen 291 LKPGEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQS--KELKEGAEIVVATPGRLIDMVKMKATNL 368 (731)
T ss_pred hcCCCCCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHH--HhhhcCCeEEEechHHHHHHHHhhcccc
Confidence 346889999999999999999999999999999999999999876533 3333789999999999999999999999
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEE
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQY 325 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 325 (493)
.+++++||||||+|++ +||.+++..|...+.+ ++|+++||||++..+..+++.++.+|..+....-......+.|.
T Consensus 369 ~rvS~LV~DEadrmfd-mGfe~qVrSI~~hirp---drQtllFsaTf~~kIe~lard~L~dpVrvVqg~vgean~dITQ~ 444 (731)
T KOG0339|consen 369 SRVSYLVLDEADRMFD-MGFEPQVRSIKQHIRP---DRQTLLFSATFKKKIEKLARDILSDPVRVVQGEVGEANEDITQT 444 (731)
T ss_pred eeeeEEEEechhhhhc-cccHHHHHHHHhhcCC---cceEEEeeccchHHHHHHHHHHhcCCeeEEEeehhccccchhhe
Confidence 9999999999999998 7999999999999877 88999999999999999999999999999888777778899999
Q ss_pred EEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEE
Q 011104 326 KVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLI 405 (493)
Q Consensus 326 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv 405 (493)
+..|+....|+..+...|..... .+++|||+.-+..++.++..|.-.+++|..+||+|.|.+|.+++..|+.+...|||
T Consensus 445 V~V~~s~~~Kl~wl~~~L~~f~S-~gkvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~~Vlv 523 (731)
T KOG0339|consen 445 VSVCPSEEKKLNWLLRHLVEFSS-EGKVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLV 523 (731)
T ss_pred eeeccCcHHHHHHHHHHhhhhcc-CCcEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcCCceEE
Confidence 99999999999999888777665 68999999999999999999999999999999999999999999999999999999
Q ss_pred EeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhC
Q 011104 406 STDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFD 479 (493)
Q Consensus 406 ~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~ 479 (493)
+||+++||+|||.+..|||||.- ++++.|.||+||+||+|..|++++|+++.+.. +...+-+.|.
T Consensus 524 atDvaargldI~~ikTVvnyD~a--------rdIdththrigrtgRag~kGvayTlvTeKDa~-fAG~LVnnLe 588 (731)
T KOG0339|consen 524 ATDVAARGLDIPSIKTVVNYDFA--------RDIDTHTHRIGRTGRAGEKGVAYTLVTEKDAE-FAGHLVNNLE 588 (731)
T ss_pred EeeHhhcCCCccccceeeccccc--------chhHHHHHHhhhcccccccceeeEEechhhHH-HhhHHHHHHh
Confidence 99999999999999999999999 89999999999999999999999999987644 4455544443
No 24
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=100.00 E-value=4.4e-65 Score=453.85 Aligned_cols=375 Identities=28% Similarity=0.445 Sum_probs=322.5
Q ss_pred ccCCCCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhcc----
Q 011104 90 TTGDTPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRV---- 165 (493)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l---- 165 (493)
..|+..++++.+|.++.++..+++.|++ .|+..|||+|-+.+|.+|+| +|.|..|-||||||++|.+|++-..
T Consensus 160 veGd~ipPPIksF~eMKFP~~~L~~lk~-KGI~~PTpIQvQGlPvvLsG--RDmIGIAfTGSGKTlvFvLP~imf~LeqE 236 (610)
T KOG0341|consen 160 VEGDDIPPPIKSFKEMKFPKPLLRGLKK-KGIVHPTPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVLPVIMFALEQE 236 (610)
T ss_pred eeCCCCCCchhhhhhccCCHHHHHHHHh-cCCCCCCceeecCcceEeec--CceeeEEeecCCceEEEeHHHHHHHHHHH
Confidence 3588889999999999999999999997 99999999999999999999 9999999999999999999987443
Q ss_pred ----CCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccC------ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHH
Q 011104 166 ----DPNLKAPQALCICPTRELAIQNLEVLRKMGKHTG------ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIK 235 (493)
Q Consensus 166 ----~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~ 235 (493)
-....+|..||+||+|+||.|.+..+..+...+. ++....+|+..... .....+.+.+|+|+|||||.
T Consensus 237 ~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~e--ql~~v~~GvHivVATPGRL~ 314 (610)
T KOG0341|consen 237 MMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVRE--QLDVVRRGVHIVVATPGRLM 314 (610)
T ss_pred hcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHH--HHHHHhcCeeEEEcCcchHH
Confidence 1345688999999999999999999888765432 34444555544332 33344567899999999999
Q ss_pred HHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccc
Q 011104 236 KWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKE 315 (493)
Q Consensus 236 ~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~ 315 (493)
++|....+++.-|+++++||||+|++ +||.+.+..|+..+.. .+|+++||||||..+..|++..+..|..+.++..
T Consensus 315 DmL~KK~~sLd~CRyL~lDEADRmiD-mGFEddir~iF~~FK~---QRQTLLFSATMP~KIQ~FAkSALVKPvtvNVGRA 390 (610)
T KOG0341|consen 315 DMLAKKIMSLDACRYLTLDEADRMID-MGFEDDIRTIFSFFKG---QRQTLLFSATMPKKIQNFAKSALVKPVTVNVGRA 390 (610)
T ss_pred HHHHHhhccHHHHHHhhhhhHHHHhh-ccchhhHHHHHHHHhh---hhheeeeeccccHHHHHHHHhhcccceEEecccc
Confidence 99999999999999999999999998 7999999999999987 7799999999999999999999999999988877
Q ss_pred cccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHH
Q 011104 316 ELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKE 395 (493)
Q Consensus 316 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~ 395 (493)
....-++.|..-++.. ..|+..+++ .+.....++||||..+..++.++++|--.|+.+..+||+-.|++|...++.
T Consensus 391 GAAsldViQevEyVkq-EaKiVylLe---CLQKT~PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~a 466 (610)
T KOG0341|consen 391 GAASLDVIQEVEYVKQ-EAKIVYLLE---CLQKTSPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEA 466 (610)
T ss_pred cccchhHHHHHHHHHh-hhhhhhHHH---HhccCCCceEEEeccccChHHHHHHHHHccceeEEeecCcchhHHHHHHHH
Confidence 6655555544333332 234444433 233346799999999999999999999999999999999999999999999
Q ss_pred HHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHH
Q 011104 396 FKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIE 475 (493)
Q Consensus 396 f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~ 475 (493)
|+.|+-.||||||+++.|+|+|++.||||||+| ..++.|+||+|||||.|+.|.+.+|++...+...+-+++
T Consensus 467 fr~gkKDVLVATDVASKGLDFp~iqHVINyDMP--------~eIENYVHRIGRTGRsg~~GiATTfINK~~~esvLlDLK 538 (610)
T KOG0341|consen 467 FRAGKKDVLVATDVASKGLDFPDIQHVINYDMP--------EEIENYVHRIGRTGRSGKTGIATTFINKNQEESVLLDLK 538 (610)
T ss_pred HhcCCCceEEEecchhccCCCccchhhccCCCh--------HHHHHHHHHhcccCCCCCcceeeeeecccchHHHHHHHH
Confidence 999999999999999999999999999999999 899999999999999999999999999999999998888
Q ss_pred HHhCCCceee
Q 011104 476 RYFDIKVTEV 485 (493)
Q Consensus 476 ~~~~~~~~~~ 485 (493)
.++.-.=+++
T Consensus 539 ~LL~EakQ~v 548 (610)
T KOG0341|consen 539 HLLQEAKQEV 548 (610)
T ss_pred HHHHHhhccC
Confidence 7775443333
No 25
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=6.3e-62 Score=491.32 Aligned_cols=369 Identities=29% Similarity=0.479 Sum_probs=316.6
Q ss_pred CCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC-------CCCC
Q 011104 100 TTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN-------LKAP 172 (493)
Q Consensus 100 ~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~-------~~~~ 172 (493)
.+|+++++++.++++|.+ +||..|||+|.++||.++.| +|++++||||||||++|++|+++++... ...+
T Consensus 9 ~~f~~l~l~~~l~~~L~~-~g~~~ptpiQ~~~ip~~l~G--~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~ 85 (572)
T PRK04537 9 LTFSSFDLHPALLAGLES-AGFTRCTPIQALTLPVALPG--GDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDP 85 (572)
T ss_pred CChhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCC--CCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCc
Confidence 479999999999999987 99999999999999999999 9999999999999999999999887431 1257
Q ss_pred eEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC-ccCCCCeeEE
Q 011104 173 QALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK-KLGFSRLKIL 251 (493)
Q Consensus 173 ~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~-~~~~~~~~~i 251 (493)
++|||+||++|+.|+++.+.+++...++.+..++++...... .......++|+|+||++|++++... .+.+..+++|
T Consensus 86 raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~~q--~~~l~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~~l 163 (572)
T PRK04537 86 RALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQ--RELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEIC 163 (572)
T ss_pred eEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHH--HHHHhCCCCEEEECHHHHHHHHHhccccchhheeee
Confidence 899999999999999999999999888888888887654322 1222346899999999999998765 4678899999
Q ss_pred EEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCC
Q 011104 252 VYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD 331 (493)
Q Consensus 252 VlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 331 (493)
||||||+|++ .+|...+..++..++... ..|+++||||++..+..+...++..+..+.+.........+.+.+..+.
T Consensus 164 ViDEAh~lld-~gf~~~i~~il~~lp~~~-~~q~ll~SATl~~~v~~l~~~~l~~p~~i~v~~~~~~~~~i~q~~~~~~- 240 (572)
T PRK04537 164 VLDEADRMFD-LGFIKDIRFLLRRMPERG-TRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFPA- 240 (572)
T ss_pred EecCHHHHhh-cchHHHHHHHHHhccccc-CceEEEEeCCccHHHHHHHHHHhcCCcEEEeccccccccceeEEEEecC-
Confidence 9999999997 589999988888876532 5799999999999999999888888877766655555566667666554
Q ss_pred hHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccc
Q 011104 332 ELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLA 411 (493)
Q Consensus 332 ~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~ 411 (493)
...+...+...+.. ....++||||+++..++.+++.|...++.+..+||+|++.+|..+++.|++|+.+|||||++++
T Consensus 241 ~~~k~~~L~~ll~~--~~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv~a 318 (572)
T PRK04537 241 DEEKQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAA 318 (572)
T ss_pred HHHHHHHHHHHHhc--ccCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehhhh
Confidence 34455555543332 2357899999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecC
Q 011104 412 RGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQT 487 (493)
Q Consensus 412 ~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~ 487 (493)
+|||+|++++||||++| .+...|+||+||+||.|+.|.|++|+++. +...+..|+++++.+++..+.
T Consensus 319 rGIDip~V~~VInyd~P--------~s~~~yvqRiGRaGR~G~~G~ai~~~~~~-~~~~l~~i~~~~~~~~~~~~~ 385 (572)
T PRK04537 319 RGLHIDGVKYVYNYDLP--------FDAEDYVHRIGRTARLGEEGDAISFACER-YAMSLPDIEAYIEQKIPVEPV 385 (572)
T ss_pred cCCCccCCCEEEEcCCC--------CCHHHHhhhhcccccCCCCceEEEEecHH-HHHHHHHHHHHHcCCCCcccc
Confidence 99999999999999999 78999999999999999999999999864 567789999999988865543
No 26
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=100.00 E-value=4.6e-61 Score=477.00 Aligned_cols=367 Identities=31% Similarity=0.506 Sum_probs=318.5
Q ss_pred CcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC----CCCCCeEEE
Q 011104 101 TFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP----NLKAPQALC 176 (493)
Q Consensus 101 ~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~----~~~~~~~li 176 (493)
+|+++++++.+++.|.. +||..|+++|.++||.++.| +|++++||||+|||++|++|+++.+.. ....+++||
T Consensus 2 ~f~~l~l~~~l~~~l~~-~g~~~p~~iQ~~ai~~~~~g--~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~li 78 (434)
T PRK11192 2 TFSELELDESLLEALQD-KGYTRPTAIQAEAIPPALDG--RDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILI 78 (434)
T ss_pred CHhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCC--CCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEE
Confidence 69999999999999997 99999999999999999999 999999999999999999999988742 223468999
Q ss_pred EcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecc
Q 011104 177 ICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEA 256 (493)
Q Consensus 177 l~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEa 256 (493)
++||++||.|+++.+..++...++.+..+.|+...... .......++|+|+||++|++++....+.+.++++||+|||
T Consensus 79 l~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~--~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEa 156 (434)
T PRK11192 79 LTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNH--AEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEA 156 (434)
T ss_pred ECCcHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHHH--HHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECH
Confidence 99999999999999999999888888888776644322 2223346799999999999999998888999999999999
Q ss_pred hhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecCh-hHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHH
Q 011104 257 DHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNE-TVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAK 335 (493)
Q Consensus 257 h~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 335 (493)
|++++ ++|...+..+...+.. ..|+++||||++. .+..+...++..+..+...........+.+++..++....+
T Consensus 157 h~~l~-~~~~~~~~~i~~~~~~---~~q~~~~SAT~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~~~~k 232 (434)
T PRK11192 157 DRMLD-MGFAQDIETIAAETRW---RKQTLLFSATLEGDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYYRADDLEHK 232 (434)
T ss_pred HHHhC-CCcHHHHHHHHHhCcc---ccEEEEEEeecCHHHHHHHHHHHccCCEEEEecCCcccccCceEEEEEeCCHHHH
Confidence 99997 6899988888777654 6799999999985 57777778888887777666666666788888877776667
Q ss_pred HHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCC
Q 011104 336 VMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFD 415 (493)
Q Consensus 336 ~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gld 415 (493)
...+...+.. ....++||||++++.++.++..|...++.+..+||+|++.+|..+++.|++|.++|||||+++++|||
T Consensus 233 ~~~l~~l~~~--~~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd~~~~GiD 310 (434)
T PRK11192 233 TALLCHLLKQ--PEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGID 310 (434)
T ss_pred HHHHHHHHhc--CCCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEccccccCcc
Confidence 7666654432 23578999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecC
Q 011104 416 QQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQT 487 (493)
Q Consensus 416 i~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~ 487 (493)
+|++++||||++| .+...|+||+||+||+|..|.+++|+.. .+..+++.+++++..++.....
T Consensus 311 ip~v~~VI~~d~p--------~s~~~yiqr~GR~gR~g~~g~ai~l~~~-~d~~~~~~i~~~~~~~~~~~~~ 373 (434)
T PRK11192 311 IDDVSHVINFDMP--------RSADTYLHRIGRTGRAGRKGTAISLVEA-HDHLLLGKIERYIEEPLKARVI 373 (434)
T ss_pred CCCCCEEEEECCC--------CCHHHHhhcccccccCCCCceEEEEecH-HHHHHHHHHHHHHhcccccccc
Confidence 9999999999999 8899999999999999999999999975 5677889999998887765443
No 27
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.6e-62 Score=440.78 Aligned_cols=363 Identities=27% Similarity=0.459 Sum_probs=309.8
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC------CCCCC
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP------NLKAP 172 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~------~~~~~ 172 (493)
..+|+++++.+.+++++.+ .||.+||-+|+.+||.+|.| +|+++.|.||||||.+|++|+++.+.. ...++
T Consensus 18 ~ktFe~~gLD~RllkAi~~-lG~ekpTlIQs~aIplaLEg--KDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~ 94 (569)
T KOG0346|consen 18 EKTFEEFGLDSRLLKAITK-LGWEKPTLIQSSAIPLALEG--KDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGP 94 (569)
T ss_pred hccHHHhCCCHHHHHHHHH-hCcCCcchhhhcccchhhcC--cceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccc
Confidence 4689999999999999997 99999999999999999999 999999999999999999999998842 34578
Q ss_pred eEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCc-cCCCCeeEE
Q 011104 173 QALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKK-LGFSRLKIL 251 (493)
Q Consensus 173 ~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~-~~~~~~~~i 251 (493)
.++|++||+|||.|++.++.++...++..+..+....+.........+...++|+|+||++++.++..+. ..+..++++
T Consensus 95 sa~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~L 174 (569)
T KOG0346|consen 95 SAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFL 174 (569)
T ss_pred eeEEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHhhccchhhhheeeE
Confidence 8999999999999999999998776653332222222222212223344568999999999999999887 578899999
Q ss_pred EEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeecccccc-ccCceEEEEeCC
Q 011104 252 VYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELS-LESVKQYKVYCP 330 (493)
Q Consensus 252 VlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 330 (493)
|+||||.++. .||.+.+..+...+++ ..|.++||||++.++..+...++.+|..+.....+.. ...+.|+.+.|.
T Consensus 175 VvDEADLlls-fGYeedlk~l~~~LPr---~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~el~~~dqL~Qy~v~cs 250 (569)
T KOG0346|consen 175 VVDEADLLLS-FGYEEDLKKLRSHLPR---IYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGELPNPDQLTQYQVKCS 250 (569)
T ss_pred Eechhhhhhh-cccHHHHHHHHHhCCc---hhhheeehhhhhhHHHHHHHHhccCCeEEEeccccCCCcccceEEEEEec
Confidence 9999999997 7999999999999987 7899999999999999999999999998887766544 467889999998
Q ss_pred ChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeC--
Q 011104 331 DELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTD-- 408 (493)
Q Consensus 331 ~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~-- 408 (493)
+..+...+.. +.++.--.+++|||+|+++.|.++.-+|...|++.++++|.|+...|--+++.|+.|-+.|+||||
T Consensus 251 -e~DKflllya-llKL~LI~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s 328 (569)
T KOG0346|consen 251 -EEDKFLLLYA-LLKLRLIRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDDS 328 (569)
T ss_pred -cchhHHHHHH-HHHHHHhcCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCcceeEEEEccCc
Confidence 5566666555 344444469999999999999999999999999999999999999999999999999999999999
Q ss_pred ---------------------------------ccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCc
Q 011104 409 ---------------------------------VLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRK 455 (493)
Q Consensus 409 ---------------------------------~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~ 455 (493)
-.+||||+.+|.+|+|||+| .++..|+||+|||+|++++
T Consensus 329 ~~~~~~eee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P--------~t~~sYIHRvGRTaRg~n~ 400 (569)
T KOG0346|consen 329 ADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFP--------ETVTSYIHRVGRTARGNNK 400 (569)
T ss_pred cchhhhhccccccccccCCCCccccccccCchhchhccccchheeeeeecCCC--------CchHHHHHhccccccCCCC
Confidence 24799999999999999999 8999999999999999999
Q ss_pred ceEEEEeeCCccHHHHHHHHHHhC
Q 011104 456 GVVFNLLMDGDDMIIMEKIERYFD 479 (493)
Q Consensus 456 g~~i~l~~~~~~~~~~~~i~~~~~ 479 (493)
|.+++|+.+.++. -...++..+.
T Consensus 401 GtalSfv~P~e~~-g~~~le~~~~ 423 (569)
T KOG0346|consen 401 GTALSFVSPKEEF-GKESLESILK 423 (569)
T ss_pred CceEEEecchHHh-hhhHHHHHHh
Confidence 9999999987544 2244554443
No 28
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.7e-61 Score=428.84 Aligned_cols=371 Identities=36% Similarity=0.635 Sum_probs=340.8
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
..+|++++|++.++++++. +||.+|+.+|+.||+.+..| .|+++++++|+|||.+|.+++++.+.......++|+++
T Consensus 25 vdsfddm~L~e~LLrgiy~-yGFekPSaIQqraI~p~i~G--~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalila 101 (397)
T KOG0327|consen 25 VDSFDDMNLKESLLRGIYA-YGFEKPSAIQQRAILPCIKG--HDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILA 101 (397)
T ss_pred hhhhhhcCCCHHHHhHHHh-hccCCchHHHhccccccccC--CceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhc
Confidence 3489999999999999998 99999999999999999999 99999999999999999999999998888888999999
Q ss_pred CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchh
Q 011104 179 PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADH 258 (493)
Q Consensus 179 Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~ 258 (493)
|+|+||.|+.++...++...+..+....++....... .......++|+|+|||++.+++....+....++++|+||||.
T Consensus 102 PtreLa~qi~~v~~~lg~~~~~~v~~~igg~~~~~~~-~~i~~~~~hivvGTpgrV~dml~~~~l~~~~iKmfvlDEaDE 180 (397)
T KOG0327|consen 102 PTRELAQQIQKVVRALGDHMDVSVHACIGGTNVRRED-QALLKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDEADE 180 (397)
T ss_pred chHHHHHHHHHHHHhhhcccceeeeeecCcccchhhh-hhhhccCceeecCCchhHHHhhccccccccceeEEeecchHh
Confidence 9999999999999999999888888777776554322 223334579999999999999999988888899999999999
Q ss_pred hhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHH
Q 011104 259 MLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMV 338 (493)
Q Consensus 259 l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 338 (493)
++. .||.+.+..|+..++. +.|++++|||+|.++......++.+|..+.+...+.+..+++|+++....+. |+..
T Consensus 181 mLs-~gfkdqI~~if~~lp~---~vQv~l~SAT~p~~vl~vt~~f~~~pv~i~vkk~~ltl~gikq~~i~v~k~~-k~~~ 255 (397)
T KOG0327|consen 181 MLS-RGFKDQIYDIFQELPS---DVQVVLLSATMPSDVLEVTKKFMREPVRILVKKDELTLEGIKQFYINVEKEE-KLDT 255 (397)
T ss_pred hhc-cchHHHHHHHHHHcCc---chhheeecccCcHHHHHHHHHhccCceEEEecchhhhhhheeeeeeeccccc-cccH
Confidence 998 6999999999999988 7899999999999999999999999999999999999999999999998776 7777
Q ss_pred HHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCC
Q 011104 339 IRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQ 418 (493)
Q Consensus 339 l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~ 418 (493)
+.+... .-...+||||+++.+..+...|...++.+.++|++|.+.+|..++..|+.|..+|||+|+.++||+|+..
T Consensus 256 l~dl~~----~~~q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvlIttdl~argidv~~ 331 (397)
T KOG0327|consen 256 LCDLYR----RVTQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGIDVQQ 331 (397)
T ss_pred HHHHHH----hhhcceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCCceEEeeccccccccchhh
Confidence 776433 3567899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCcccc
Q 011104 419 VNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCTCE 491 (493)
Q Consensus 419 v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ 491 (493)
+..||||++| ...++|+||+||+||.|++|.++++++.. +...++.++++|+..|+++|.+..+
T Consensus 332 ~slvinydlP--------~~~~~yihR~gr~gr~grkg~~in~v~~~-d~~~lk~ie~~y~~~i~e~p~~~~~ 395 (397)
T KOG0327|consen 332 VSLVVNYDLP--------ARKENYIHRIGRAGRFGRKGVAINFVTEE-DVRDLKDIEKFYNTPIEELPSNFAD 395 (397)
T ss_pred cceeeeeccc--------cchhhhhhhcccccccCCCceeeeeehHh-hHHHHHhHHHhcCCcceecccchhh
Confidence 9999999999 78899999999999999999999999864 6778899999999999999987654
No 29
>PTZ00424 helicase 45; Provisional
Probab=100.00 E-value=3e-59 Score=461.19 Aligned_cols=371 Identities=37% Similarity=0.601 Sum_probs=321.2
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
..+|+++++++.+++++.+ +||..|+|+|.++|+.++.| +|++++||||||||++|++|++..+.....+.++||++
T Consensus 27 ~~~~~~l~l~~~~~~~l~~-~~~~~~~~~Q~~ai~~i~~~--~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~ 103 (401)
T PTZ00424 27 VDSFDALKLNEDLLRGIYS-YGFEKPSAIQQRGIKPILDG--YDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILA 103 (401)
T ss_pred cCCHhhCCCCHHHHHHHHH-cCCCCCCHHHHHHHHHHhCC--CCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEEC
Confidence 5689999999999999987 99999999999999999999 99999999999999999999999887666678999999
Q ss_pred CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchh
Q 011104 179 PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADH 258 (493)
Q Consensus 179 Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~ 258 (493)
|+++|+.|+.+.+..++...++......++..... .......+++|+|+||++|.+++....+.+.++++||+||||+
T Consensus 104 Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~--~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~ 181 (401)
T PTZ00424 104 PTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRD--DINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADE 181 (401)
T ss_pred CCHHHHHHHHHHHHHHhhhcCceEEEEECCcCHHH--HHHHHcCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHH
Confidence 99999999999999998777666665665543221 1122233579999999999999988888899999999999999
Q ss_pred hhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHH
Q 011104 259 MLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMV 338 (493)
Q Consensus 259 l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 338 (493)
+.. .+|...+..++..+.. ..|++++|||++..+..+...++..+..+.+.........+.+++..+.....+...
T Consensus 182 ~~~-~~~~~~~~~i~~~~~~---~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 (401)
T PTZ00424 182 MLS-RGFKGQIYDVFKKLPP---DVQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWKFDT 257 (401)
T ss_pred HHh-cchHHHHHHHHhhCCC---CcEEEEEEecCCHHHHHHHHHHcCCCEEEEeCCCCcccCCceEEEEecChHHHHHHH
Confidence 987 4788777777776654 789999999999999888888888887777666666677788888877765555555
Q ss_pred HHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCC
Q 011104 339 IRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQ 418 (493)
Q Consensus 339 l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~ 418 (493)
+...+... ...++||||++++.++.+++.|...++.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|+
T Consensus 258 l~~~~~~~--~~~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~l~~GiDip~ 335 (401)
T PTZ00424 258 LCDLYETL--TITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQ 335 (401)
T ss_pred HHHHHHhc--CCCeEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcccccCCcCccc
Confidence 55433222 2468999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCcc
Q 011104 419 VNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCT 489 (493)
Q Consensus 419 v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 489 (493)
+++||+|++| .+...|+||+||+||.|+.|.|++|+++ ++..++..+++.+..++++++.+.
T Consensus 336 v~~VI~~~~p--------~s~~~y~qr~GRagR~g~~G~~i~l~~~-~~~~~~~~~e~~~~~~~~~~~~~~ 397 (401)
T PTZ00424 336 VSLVINYDLP--------ASPENYIHRIGRSGRFGRKGVAINFVTP-DDIEQLKEIERHYNTQIEEMPMEV 397 (401)
T ss_pred CCEEEEECCC--------CCHHHEeecccccccCCCCceEEEEEcH-HHHHHHHHHHHHHCCcccccCcch
Confidence 9999999999 8899999999999999999999999975 467789999999999999988764
No 30
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=2.3e-59 Score=468.50 Aligned_cols=368 Identities=27% Similarity=0.448 Sum_probs=314.1
Q ss_pred CCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCC-------C
Q 011104 98 SATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNL-------K 170 (493)
Q Consensus 98 ~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~-------~ 170 (493)
....|.++++++.++++|.+ +||..|+++|.++|+.++.| +|++++++||||||++|++|+++.+.... .
T Consensus 85 ~~~~f~~~~l~~~l~~~l~~-~g~~~~~~iQ~~ai~~~~~G--~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~ 161 (475)
T PRK01297 85 GKTRFHDFNLAPELMHAIHD-LGFPYCTPIQAQVLGYTLAG--HDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMG 161 (475)
T ss_pred CCCCHhHCCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCC--CCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccC
Confidence 35679999999999999997 99999999999999999999 99999999999999999999999875432 1
Q ss_pred CCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeE
Q 011104 171 APQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKI 250 (493)
Q Consensus 171 ~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~ 250 (493)
.+++|||+||++||.|+++.++.+....++.+...+++....... .......++|+|+||++|++++......++++++
T Consensus 162 ~~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~-~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~ 240 (475)
T PRK01297 162 EPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQL-KQLEARFCDILVATPGRLLDFNQRGEVHLDMVEV 240 (475)
T ss_pred CceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHHHH-HHHhCCCCCEEEECHHHHHHHHHcCCcccccCce
Confidence 468999999999999999999999888888888887775433211 1122345799999999999999888888999999
Q ss_pred EEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCC
Q 011104 251 LVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCP 330 (493)
Q Consensus 251 iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 330 (493)
|||||+|++++ .+|...+..++..+.... ..|++++|||++.++..+...++.++..+.+.........+.+.+..+.
T Consensus 241 lViDEah~l~~-~~~~~~l~~i~~~~~~~~-~~q~i~~SAT~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 318 (475)
T PRK01297 241 MVLDEADRMLD-MGFIPQVRQIIRQTPRKE-ERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVA 318 (475)
T ss_pred EEechHHHHHh-cccHHHHHHHHHhCCCCC-CceEEEEEeecCHHHHHHHHHhccCCEEEEeccCcCCCCcccEEEEEec
Confidence 99999999997 589888888888775432 5699999999999999999999888877766655555555566555554
Q ss_pred ChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCcc
Q 011104 331 DELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVL 410 (493)
Q Consensus 331 ~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~ 410 (493)
.. .+...+...+.. ....++||||+++..++.++..|...++.+..+||++++.+|..+++.|++|+..|||||+++
T Consensus 319 ~~-~k~~~l~~ll~~--~~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l 395 (475)
T PRK01297 319 GS-DKYKLLYNLVTQ--NPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVA 395 (475)
T ss_pred ch-hHHHHHHHHHHh--cCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEcccc
Confidence 32 344444443332 224689999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCce
Q 011104 411 ARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVT 483 (493)
Q Consensus 411 ~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~ 483 (493)
++|||+|++++||+|++| .+..+|+||+||+||.|+.|.+++|+.+. +..++..++++++.+++
T Consensus 396 ~~GIDi~~v~~VI~~~~P--------~s~~~y~Qr~GRaGR~g~~g~~i~~~~~~-d~~~~~~~~~~~~~~~~ 459 (475)
T PRK01297 396 GRGIHIDGISHVINFTLP--------EDPDDYVHRIGRTGRAGASGVSISFAGED-DAFQLPEIEELLGRKIS 459 (475)
T ss_pred ccCCcccCCCEEEEeCCC--------CCHHHHHHhhCccCCCCCCceEEEEecHH-HHHHHHHHHHHhCCCCc
Confidence 999999999999999999 88999999999999999999999999854 77889999999999874
No 31
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=9.7e-59 Score=463.59 Aligned_cols=369 Identities=32% Similarity=0.529 Sum_probs=334.2
Q ss_pred CCCCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC----
Q 011104 92 GDTPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP---- 167 (493)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~---- 167 (493)
+-..+.++.+|...|++..++..+++ +||.+|+|||.+|||+|+.| +|||.+|.||||||++|++|++.++..
T Consensus 357 g~~~pkpv~sW~q~gl~~~il~tlkk-l~y~k~~~IQ~qAiP~ImsG--rdvIgvakTgSGKT~af~LPmirhi~dQr~~ 433 (997)
T KOG0334|consen 357 GKECPKPVTSWTQCGLSSKILETLKK-LGYEKPTPIQAQAIPAIMSG--RDVIGVAKTGSGKTLAFLLPMIRHIKDQRPL 433 (997)
T ss_pred cCCCCcccchHhhCCchHHHHHHHHH-hcCCCCcchhhhhcchhccC--cceEEeeccCCccchhhhcchhhhhhcCCCh
Confidence 55677899999999999999999976 99999999999999999999 999999999999999999999977742
Q ss_pred -CCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccC--
Q 011104 168 -NLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLG-- 244 (493)
Q Consensus 168 -~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~-- 244 (493)
...+|.+||++|||+|+.|+.+++++|...+++.+.|++|+...... ...+..++.|+|||||++.+++-...-.
T Consensus 434 ~~gdGPi~li~aPtrela~QI~r~~~kf~k~l~ir~v~vygg~~~~~q--iaelkRg~eIvV~tpGRmiD~l~~n~grvt 511 (997)
T KOG0334|consen 434 EEGDGPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGISQQ--IAELKRGAEIVVCTPGRMIDILCANSGRVT 511 (997)
T ss_pred hhCCCceEEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecCCccHHHH--HHHHhcCCceEEeccchhhhhHhhcCCccc
Confidence 34589999999999999999999999999999999999998865542 2233445899999999999998765544
Q ss_pred -CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCce
Q 011104 245 -FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVK 323 (493)
Q Consensus 245 -~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 323 (493)
+.++.++|+||||+|++ ++|.+++..|+..+++ .+|+++||||+|..+..+....+..|..+.+.....-...+.
T Consensus 512 nlrR~t~lv~deaDrmfd-mgfePq~~~Ii~nlrp---drQtvlfSatfpr~m~~la~~vl~~Pveiiv~~~svV~k~V~ 587 (997)
T KOG0334|consen 512 NLRRVTYLVLDEADRMFD-MGFEPQITRILQNLRP---DRQTVLFSATFPRSMEALARKVLKKPVEIIVGGRSVVCKEVT 587 (997)
T ss_pred cccccceeeechhhhhhe-eccCcccchHHhhcch---hhhhhhhhhhhhHHHHHHHHHhhcCCeeEEEccceeEeccce
Confidence 45555999999999995 8999999998888855 889999999999999999999999999999988888888999
Q ss_pred EEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcE
Q 011104 324 QYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQV 403 (493)
Q Consensus 324 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~v 403 (493)
+.+..|+.+..|+..+..+|....+ .+++||||.+++.|..+.+.|.+.|+.|..+||+.++.+|..++++|+++.+.+
T Consensus 588 q~v~V~~~e~eKf~kL~eLl~e~~e-~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~~~~L 666 (997)
T KOG0334|consen 588 QVVRVCAIENEKFLKLLELLGERYE-DGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVVNL 666 (997)
T ss_pred EEEEEecCchHHHHHHHHHHHHHhh-cCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhccCceE
Confidence 9999999888999988887766666 899999999999999999999999999999999999999999999999999999
Q ss_pred EEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhC
Q 011104 404 LISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFD 479 (493)
Q Consensus 404 Lv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~ 479 (493)
||||++++||||++.+..||||++| ..+..|+||+|||||+|+.|.|++|+++ ++..+...|.+.+.
T Consensus 667 LvaTsvvarGLdv~~l~Lvvnyd~p--------nh~edyvhR~gRTgragrkg~AvtFi~p-~q~~~a~dl~~al~ 733 (997)
T KOG0334|consen 667 LVATSVVARGLDVKELILVVNYDFP--------NHYEDYVHRVGRTGRAGRKGAAVTFITP-DQLKYAGDLCKALE 733 (997)
T ss_pred EEehhhhhcccccccceEEEEcccc--------hhHHHHHHHhcccccCCccceeEEEeCh-HHhhhHHHHHHHHH
Confidence 9999999999999999999999999 7888999999999999999999999998 67778888888883
No 32
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3.3e-57 Score=416.11 Aligned_cols=365 Identities=26% Similarity=0.393 Sum_probs=287.6
Q ss_pred CcccCCCCHHHHHH----------HHhhCCCCCCchHHHhhhhhhcCC-------CCccEEEeccCCCchhHHhHHHHHh
Q 011104 101 TFEDLNLSPELLKG----------LYVEMKFQKPSKIQAISLPMILTP-------PYRNLIAQARNGSGKTTCFVLGMLS 163 (493)
Q Consensus 101 ~~~~~~~~~~~~~~----------l~~~~g~~~~~~~Q~~~i~~il~~-------~~~~viv~a~TGsGKT~~~~~~~l~ 163 (493)
.|+.++++..+... +.+ +++.+.+|+|..++|+++.. ..+|++|.||||||||++|.+|+++
T Consensus 128 ~~s~l~~se~k~~~d~lea~~~q~l~k-~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ 206 (620)
T KOG0350|consen 128 IFSVLGKSEMKNLEDTLEATIDQLLVK-MAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQ 206 (620)
T ss_pred eeeccchhHHHHHHHHHHHHHHHHHHH-hhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHH
Confidence 45666666554444 765 89999999999999998531 1389999999999999999999999
Q ss_pred ccCCC-CCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCccc---ccCCCCCCCcEEEeCchHHHHHHH
Q 011104 164 RVDPN-LKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVP---ISKRPPVTAQVVIGTPGTIKKWMS 239 (493)
Q Consensus 164 ~l~~~-~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~Ilv~Tp~~l~~~l~ 239 (493)
.+..+ .+.-+++||+||++|+.|++..+.++....++.+..+.|..+..... .........+|+|+|||||.+|+.
T Consensus 207 ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~ 286 (620)
T KOG0350|consen 207 LLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLN 286 (620)
T ss_pred HHccCCccceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhcc
Confidence 99765 45568999999999999999999999999999877776665443211 111111245999999999999999
Q ss_pred c-CccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhc-------------------------------CCCeeEEE
Q 011104 240 A-KKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERS-------------------------------SGHCQVLL 287 (493)
Q Consensus 240 ~-~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~-------------------------------~~~~q~v~ 287 (493)
+ ..+++++++++|+||||+|++. .|.+|+..++..+... .++.+.++
T Consensus 287 ~~k~f~Lk~LrfLVIDEADRll~q-sfQ~Wl~~v~~~~~~~k~~~~~~nii~~~~~~~pt~~~e~~t~~~~~~~~l~kL~ 365 (620)
T KOG0350|consen 287 NTKSFDLKHLRFLVIDEADRLLDQ-SFQEWLDTVMSLCKTMKRVACLDNIIRQRQAPQPTVLSELLTKLGKLYPPLWKLV 365 (620)
T ss_pred CCCCcchhhceEEEechHHHHHHH-HHHHHHHHHHHHhCCchhhcChhhhhhhcccCCchhhHHHHhhcCCcCchhHhhh
Confidence 5 6789999999999999999985 6888887776655332 12345789
Q ss_pred EeeecChhHHHHHHHHhccCceeeec----cccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhH
Q 011104 288 FSATFNETVKNFVTRIVKDYNQLFVK----KEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSA 363 (493)
Q Consensus 288 ~SAT~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~ 363 (493)
+|||++.+-..+...-+..|....+. .....+..+.+.++.+.....-+ .+...+. ..+..++|+|+++...+
T Consensus 366 ~satLsqdP~Kl~~l~l~~Prl~~v~~~~~~ryslp~~l~~~~vv~~~~~kpl-~~~~lI~--~~k~~r~lcf~~S~~sa 442 (620)
T KOG0350|consen 366 FSATLSQDPSKLKDLTLHIPRLFHVSKPLIGRYSLPSSLSHRLVVTEPKFKPL-AVYALIT--SNKLNRTLCFVNSVSSA 442 (620)
T ss_pred cchhhhcChHHHhhhhcCCCceEEeecccceeeecChhhhhceeecccccchH-hHHHHHH--HhhcceEEEEecchHHH
Confidence 99999888877777777777554443 23344455666666665433222 2222122 23367899999999999
Q ss_pred HHHHHHHH----hCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCc
Q 011104 364 SALHKALK----DFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDC 439 (493)
Q Consensus 364 ~~l~~~L~----~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~ 439 (493)
.+++..|+ ..+.++-.+.|.++.+.|.+.++.|..|.+.||||+|+++||+|+.+++.|||||+| .+.
T Consensus 443 ~Rl~~~L~v~~~~~~~~~s~~t~~l~~k~r~k~l~~f~~g~i~vLIcSD~laRGiDv~~v~~VINYd~P--------~~~ 514 (620)
T KOG0350|consen 443 NRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDALARGIDVNDVDNVINYDPP--------ASD 514 (620)
T ss_pred HHHHHHHHHHhccccchhhhhhhhhhHHHHHHHHHHHhcCCceEEEehhhhhcCCcccccceEeecCCC--------chh
Confidence 99999887 346778889999999999999999999999999999999999999999999999999 889
Q ss_pred ccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHh
Q 011104 440 EVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYF 478 (493)
Q Consensus 440 ~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~ 478 (493)
.+|+||+|||||+|+.|.|++++...+...+.+.+++..
T Consensus 515 ktyVHR~GRTARAgq~G~a~tll~~~~~r~F~klL~~~~ 553 (620)
T KOG0350|consen 515 KTYVHRAGRTARAGQDGYAITLLDKHEKRLFSKLLKKTN 553 (620)
T ss_pred hHHHHhhcccccccCCceEEEeeccccchHHHHHHHHhc
Confidence 999999999999999999999999877766666666543
No 33
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.3e-55 Score=415.37 Aligned_cols=374 Identities=30% Similarity=0.422 Sum_probs=321.1
Q ss_pred ccccCCCCCCCCCCccc----CCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHh
Q 011104 88 TVTTGDTPYTSATTFED----LNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLS 163 (493)
Q Consensus 88 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~ 163 (493)
....|...+.+..+|.+ +.+++.++.++.. .+|..|+|+|.+++|.++.+ ++++.|||||||||++|.+|++.
T Consensus 120 ~~v~G~~~~~~l~~f~~lt~~~~~~~~ll~nl~~-~~F~~Pt~iq~~aipvfl~~--r~~lAcapTGsgKtlaf~~Pil~ 196 (593)
T KOG0344|consen 120 INVDGFHLPPPLLSFSDLTYDYSMNKRLLENLQE-LGFDEPTPIQKQAIPVFLEK--RDVLACAPTGSGKTLAFNLPILQ 196 (593)
T ss_pred eeccCCCCCCccccccccchhhhhcHHHHHhHhh-CCCCCCCcccchhhhhhhcc--cceEEeccCCCcchhhhhhHHHH
Confidence 34567777788888987 5799999999987 99999999999999999999 99999999999999999999999
Q ss_pred ccCCC-----CCCCeEEEEcCCHHHHHHHHHHHHHHh--cccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHH
Q 011104 164 RVDPN-----LKAPQALCICPTRELAIQNLEVLRKMG--KHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKK 236 (493)
Q Consensus 164 ~l~~~-----~~~~~~lil~Pt~~La~q~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~ 236 (493)
++... ..+-+++|+.|+|+||.|+++.+.++. ...+.......... .............++|+|+||-++..
T Consensus 197 ~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~-~~~qk~a~~~~~k~dili~TP~ri~~ 275 (593)
T KOG0344|consen 197 HLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPA-YPSQKPAFLSDEKYDILISTPMRIVG 275 (593)
T ss_pred HHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhccccc-chhhccchhHHHHHHHHhcCHHHHHH
Confidence 98432 456789999999999999999999998 33333221111110 00111111222357899999999999
Q ss_pred HHHcCc--cCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeecc
Q 011104 237 WMSAKK--LGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKK 314 (493)
Q Consensus 237 ~l~~~~--~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~ 314 (493)
++..+. +.+..+.++|+||||+++...+|..++..|+..+.. +++.+-+||||++..+++++...+.++..+.++.
T Consensus 276 ~~~~~~~~idl~~V~~lV~dEaD~lfe~~~f~~Qla~I~sac~s--~~i~~a~FSat~~~~VEE~~~~i~~~~~~vivg~ 353 (593)
T KOG0344|consen 276 LLGLGKLNIDLSKVEWLVVDEADLLFEPEFFVEQLADIYSACQS--PDIRVALFSATISVYVEEWAELIKSDLKRVIVGL 353 (593)
T ss_pred HhcCCCccchhheeeeEeechHHhhhChhhHHHHHHHHHHHhcC--cchhhhhhhccccHHHHHHHHHhhccceeEEEec
Confidence 998876 678999999999999999854899999999988865 5788899999999999999999999999999999
Q ss_pred ccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHH-HhCCCcEEEecCCCCHHHHHHHH
Q 011104 315 EELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKAL-KDFGYEVTTIMGATIQEERDKIV 393 (493)
Q Consensus 315 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L-~~~~~~~~~l~~~~~~~~r~~~~ 393 (493)
.......+.|..++|..+..|...+.+.+..-. ..++|||+.+.+.|..|...| .-.++++..+||..++.+|..++
T Consensus 354 ~~sa~~~V~QelvF~gse~~K~lA~rq~v~~g~--~PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~ 431 (593)
T KOG0344|consen 354 RNSANETVDQELVFCGSEKGKLLALRQLVASGF--KPPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETM 431 (593)
T ss_pred chhHhhhhhhhheeeecchhHHHHHHHHHhccC--CCCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHH
Confidence 988899999999999999999999888666553 478999999999999999999 67799999999999999999999
Q ss_pred HHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHH
Q 011104 394 KEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEK 473 (493)
Q Consensus 394 ~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~ 473 (493)
++|+.|+++|||||++++||+|+.+++.|||||.| .+...|+||+||+||+|+.|.+|+||++ ++..+++.
T Consensus 432 ~~FR~g~IwvLicTdll~RGiDf~gvn~VInyD~p--------~s~~syihrIGRtgRag~~g~Aitfytd-~d~~~ir~ 502 (593)
T KOG0344|consen 432 ERFRIGKIWVLICTDLLARGIDFKGVNLVINYDFP--------QSDLSYIHRIGRTGRAGRSGKAITFYTD-QDMPRIRS 502 (593)
T ss_pred HHHhccCeeEEEehhhhhccccccCcceEEecCCC--------chhHHHHHHhhccCCCCCCcceEEEecc-ccchhhhh
Confidence 99999999999999999999999999999999999 8888999999999999999999999987 56666666
Q ss_pred HHHHh
Q 011104 474 IERYF 478 (493)
Q Consensus 474 i~~~~ 478 (493)
+.+.+
T Consensus 503 iae~~ 507 (593)
T KOG0344|consen 503 IAEVM 507 (593)
T ss_pred HHHHH
Confidence 65543
No 34
>KOG4284 consensus DEAD box protein [Transcription]
Probab=100.00 E-value=6.2e-56 Score=418.58 Aligned_cols=356 Identities=33% Similarity=0.493 Sum_probs=318.0
Q ss_pred CCCCCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCC
Q 011104 93 DTPYTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAP 172 (493)
Q Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~ 172 (493)
+..+.....|+.+.+..+++.+|+. .+|..||++|..|||.++.+ .|+||+|..|+|||++|.+.+++.+..+...+
T Consensus 18 DV~~~~~~~fe~l~l~r~vl~glrr-n~f~~ptkiQaaAIP~~~~k--mDliVQaKSGTGKTlVfsv~av~sl~~~~~~~ 94 (980)
T KOG4284|consen 18 DVQSNCTPGFEQLALWREVLLGLRR-NAFALPTKIQAAAIPAIFSK--MDLIVQAKSGTGKTLVFSVLAVESLDSRSSHI 94 (980)
T ss_pred ccccCCCCCHHHHHHHHHHHHHHHh-hcccCCCchhhhhhhhhhcc--cceEEEecCCCCceEEEEeeeehhcCcccCcc
Confidence 3334445689999999999999997 89999999999999999999 99999999999999999999999999888999
Q ss_pred eEEEEcCCHHHHHHHHHHHHHHhcc-cCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEE
Q 011104 173 QALCICPTRELAIQNLEVLRKMGKH-TGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKIL 251 (493)
Q Consensus 173 ~~lil~Pt~~La~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~i 251 (493)
+++||+|||++|.|+...+..++.. .+..+...+|++..... ....+.++|+|+||||+.+++..+.++.+.++++
T Consensus 95 q~~Iv~PTREiaVQI~~tv~~v~~sf~g~~csvfIGGT~~~~d---~~rlk~~rIvIGtPGRi~qL~el~~~n~s~vrlf 171 (980)
T KOG4284|consen 95 QKVIVTPTREIAVQIKETVRKVAPSFTGARCSVFIGGTAHKLD---LIRLKQTRIVIGTPGRIAQLVELGAMNMSHVRLF 171 (980)
T ss_pred eeEEEecchhhhhHHHHHHHHhcccccCcceEEEecCchhhhh---hhhhhhceEEecCchHHHHHHHhcCCCccceeEE
Confidence 9999999999999999999999864 56888888888755432 2223468899999999999999999999999999
Q ss_pred EEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCC
Q 011104 252 VYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD 331 (493)
Q Consensus 252 VlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 331 (493)
||||||.|.+...|.+.+..|+..++. .+|+++||||.|..+.+.+..++.+|..+........+-+++||++..+.
T Consensus 172 VLDEADkL~~t~sfq~~In~ii~slP~---~rQv~a~SATYp~nLdn~Lsk~mrdp~lVr~n~~d~~L~GikQyv~~~~s 248 (980)
T KOG4284|consen 172 VLDEADKLMDTESFQDDINIIINSLPQ---IRQVAAFSATYPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQYVVAKCS 248 (980)
T ss_pred EeccHHhhhchhhHHHHHHHHHHhcch---hheeeEEeccCchhHHHHHHHHhcccceeecccCCceeechhheeeeccC
Confidence 999999999977899999999999988 78999999999999999999999999999999999999999999887765
Q ss_pred hHH-------HHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEE
Q 011104 332 ELA-------KVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVL 404 (493)
Q Consensus 332 ~~~-------~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vL 404 (493)
... ++..|.+.+.. .. ...+||||+....|+-++.+|...|+.|.++.|.|+|.+|..+++.++.-.++||
T Consensus 249 ~nnsveemrlklq~L~~vf~~-ip-y~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rIL 326 (980)
T KOG4284|consen 249 PNNSVEEMRLKLQKLTHVFKS-IP-YVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRIL 326 (980)
T ss_pred CcchHHHHHHHHHHHHHHHhh-Cc-hHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhceEEEE
Confidence 422 33333332222 22 3678999999999999999999999999999999999999999999999999999
Q ss_pred EEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCcc
Q 011104 405 ISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDD 467 (493)
Q Consensus 405 v~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~ 467 (493)
|+||..+||||-++|++|||.|+| .+..+|.||||||||.|..|.+++|+...++
T Consensus 327 VsTDLtaRGIDa~~vNLVVNiD~p--------~d~eTY~HRIGRAgRFG~~G~aVT~~~~~~e 381 (980)
T KOG4284|consen 327 VSTDLTARGIDADNVNLVVNIDAP--------ADEETYFHRIGRAGRFGAHGAAVTLLEDERE 381 (980)
T ss_pred EecchhhccCCccccceEEecCCC--------cchHHHHHHhhhcccccccceeEEEeccchh
Confidence 999999999999999999999999 8899999999999999999999999988765
No 35
>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=2.4e-54 Score=446.86 Aligned_cols=359 Identities=19% Similarity=0.276 Sum_probs=280.7
Q ss_pred CCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH
Q 011104 106 NLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI 185 (493)
Q Consensus 106 ~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~ 185 (493)
.+++.+.+.|.+ +||..|+++|.++||.++.| +|+++++|||||||++|++|+++.+... .+.++|||+||++||.
T Consensus 20 ~l~~~l~~~L~~-~g~~~p~~~Q~~ai~~il~G--~nvvv~apTGSGKTla~~LPiL~~l~~~-~~~~aL~l~PtraLa~ 95 (742)
T TIGR03817 20 WAHPDVVAALEA-AGIHRPWQHQARAAELAHAG--RHVVVATGTASGKSLAYQLPVLSALADD-PRATALYLAPTKALAA 95 (742)
T ss_pred cCCHHHHHHHHH-cCCCcCCHHHHHHHHHHHCC--CCEEEECCCCCcHHHHHHHHHHHHHhhC-CCcEEEEEcChHHHHH
Confidence 488999999987 99999999999999999999 9999999999999999999999998653 4679999999999999
Q ss_pred HHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC----ccCCCCeeEEEEecchhhhc
Q 011104 186 QNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK----KLGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 186 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~----~~~~~~~~~iVlDEah~l~~ 261 (493)
|+.+.++.++ ..++.+....|....... .....+++|+|+||++|...+... ...++++++|||||||.+.+
T Consensus 96 q~~~~l~~l~-~~~i~v~~~~Gdt~~~~r---~~i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah~~~g 171 (742)
T TIGR03817 96 DQLRAVRELT-LRGVRPATYDGDTPTEER---RWAREHARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDECHSYRG 171 (742)
T ss_pred HHHHHHHHhc-cCCeEEEEEeCCCCHHHH---HHHhcCCCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeChhhccC
Confidence 9999999987 446666666555443221 222335899999999987533221 12378899999999999975
Q ss_pred ccCCHHHHHHHHHHhhh----cCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCC------
Q 011104 262 EAGFRDDSLRIMKDIER----SSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD------ 331 (493)
Q Consensus 262 ~~~~~~~~~~i~~~~~~----~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------ 331 (493)
.|...+..++..+.. ...++|++++|||+++... ++..++..+..+ +.... ......++....+.
T Consensus 172 --~fg~~~~~il~rL~ri~~~~g~~~q~i~~SATi~n~~~-~~~~l~g~~~~~-i~~~~-~~~~~~~~~~~~p~~~~~~~ 246 (742)
T TIGR03817 172 --VFGSHVALVLRRLRRLCARYGASPVFVLASATTADPAA-AASRLIGAPVVA-VTEDG-SPRGARTVALWEPPLTELTG 246 (742)
T ss_pred --ccHHHHHHHHHHHHHHHHhcCCCCEEEEEecCCCCHHH-HHHHHcCCCeEE-ECCCC-CCcCceEEEEecCCcccccc
Confidence 477776666665543 2346899999999998765 466666666433 22222 22222333332222
Q ss_pred ----------hHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC--------CCcEEEecCCCCHHHHHHHH
Q 011104 332 ----------ELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF--------GYEVTTIMGATIQEERDKIV 393 (493)
Q Consensus 332 ----------~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~--------~~~~~~l~~~~~~~~r~~~~ 393 (493)
...+... +......+.++||||+|++.++.++..|+.. +..+..+||++++.+|..++
T Consensus 247 ~~~~~~r~~~~~~~~~~----l~~l~~~~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie 322 (742)
T TIGR03817 247 ENGAPVRRSASAEAADL----LADLVAEGARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELE 322 (742)
T ss_pred ccccccccchHHHHHHH----HHHHHHCCCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHH
Confidence 1122222 3333334679999999999999999988763 56889999999999999999
Q ss_pred HHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCC-ccHHHHH
Q 011104 394 KEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG-DDMIIME 472 (493)
Q Consensus 394 ~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~-~~~~~~~ 472 (493)
+.|++|+.++||||+++++|||+|++++||+|+.| .+..+|+||+|||||.|+.|.++++..+. .+..++.
T Consensus 323 ~~f~~G~i~vLVaTd~lerGIDI~~vd~VI~~~~P--------~s~~~y~qRiGRaGR~G~~g~ai~v~~~~~~d~~~~~ 394 (742)
T TIGR03817 323 RALRDGELLGVATTNALELGVDISGLDAVVIAGFP--------GTRASLWQQAGRAGRRGQGALVVLVARDDPLDTYLVH 394 (742)
T ss_pred HHHHcCCceEEEECchHhccCCcccccEEEEeCCC--------CCHHHHHHhccccCCCCCCcEEEEEeCCChHHHHHHh
Confidence 99999999999999999999999999999999999 89999999999999999999999888643 4566788
Q ss_pred HHHHHhCCCceeecCcc
Q 011104 473 KIERYFDIKVTEVQTCT 489 (493)
Q Consensus 473 ~i~~~~~~~~~~~~~~~ 489 (493)
.++++++.+++...++.
T Consensus 395 ~~~~~~~~~~e~~~~~~ 411 (742)
T TIGR03817 395 HPEALFDRPVEATVFDP 411 (742)
T ss_pred CHHHHhcCCCccceeCC
Confidence 88999999888765543
No 36
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.1e-55 Score=396.27 Aligned_cols=367 Identities=28% Similarity=0.436 Sum_probs=322.0
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC-CCCCeEEEE
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN-LKAPQALCI 177 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~-~~~~~~lil 177 (493)
.-.|.+++++..+++++.+ .||..|||+|+++||.+|.| +|++..|-||||||.+|++|+++++... ..+.+++|+
T Consensus 20 ~g~fqsmgL~~~v~raI~k-kg~~~ptpiqRKTipliLe~--~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~Ralil 96 (529)
T KOG0337|consen 20 SGGFQSMGLDYKVLRAIHK-KGFNTPTPIQRKTIPLILEG--RDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALIL 96 (529)
T ss_pred CCCccccCCCHHHHHHHHH-hhcCCCCchhcccccceeec--cccceeeecCCcchhhHHHHHHHHHhhccccccceeec
Confidence 3479999999999999997 89999999999999999999 9999999999999999999999998543 456799999
Q ss_pred cCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecch
Q 011104 178 CPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEAD 257 (493)
Q Consensus 178 ~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah 257 (493)
+||++|+.|...+++.++..+++...+.+|+.+... ....+..++|||++|||+++++.-.-.+.++.+.+||+||||
T Consensus 97 sptreLa~qtlkvvkdlgrgt~lr~s~~~ggD~~ee--qf~~l~~npDii~ATpgr~~h~~vem~l~l~sveyVVfdEad 174 (529)
T KOG0337|consen 97 SPTRELALQTLKVVKDLGRGTKLRQSLLVGGDSIEE--QFILLNENPDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEAD 174 (529)
T ss_pred cCcHHHHHHHHHHHHHhccccchhhhhhcccchHHH--HHHHhccCCCEEEecCceeeeeehheeccccceeeeeehhhh
Confidence 999999999999999999999999988888775432 233444568999999999998777666889999999999999
Q ss_pred hhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHH
Q 011104 258 HMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVM 337 (493)
Q Consensus 258 ~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 337 (493)
+++. +||.+++.+++..++. ..|+++||||+|..+..+.+.-+..|..+.++.+..-.+.+...+..+... .|..
T Consensus 175 rlfe-mgfqeql~e~l~rl~~---~~QTllfSatlp~~lv~fakaGl~~p~lVRldvetkise~lk~~f~~~~~a-~K~a 249 (529)
T KOG0337|consen 175 RLFE-MGFQEQLHEILSRLPE---SRQTLLFSATLPRDLVDFAKAGLVPPVLVRLDVETKISELLKVRFFRVRKA-EKEA 249 (529)
T ss_pred HHHh-hhhHHHHHHHHHhCCC---cceEEEEeccCchhhHHHHHccCCCCceEEeehhhhcchhhhhheeeeccH-HHHH
Confidence 9997 7999999999999987 669999999999999999999999999888776665555566655556544 4444
Q ss_pred HHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCC
Q 011104 338 VIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQ 417 (493)
Q Consensus 338 ~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~ 417 (493)
.|...+..... ...++|||.+..+++.+...|...|+.+..++|.|.+..|..-+.+|..++..+||.||+++||+|+|
T Consensus 250 aLl~il~~~~~-~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~dip 328 (529)
T KOG0337|consen 250 ALLSILGGRIK-DKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIP 328 (529)
T ss_pred HHHHHHhcccc-ccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhhhccCCCc
Confidence 44443333332 56899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceee
Q 011104 418 QVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEV 485 (493)
Q Consensus 418 ~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~ 485 (493)
..+.|||||+| .+...|+||+||++|+|+.|.+|.|+.+. +..|+-++..+++..+...
T Consensus 329 lldnvinyd~p--------~~~klFvhRVgr~aragrtg~aYs~V~~~-~~~yl~DL~lflgr~~~~~ 387 (529)
T KOG0337|consen 329 LLDNVINYDFP--------PDDKLFVHRVGRVARAGRTGRAYSLVAST-DDPYLLDLQLFLGRPLIFA 387 (529)
T ss_pred cccccccccCC--------CCCceEEEEecchhhccccceEEEEEecc-cchhhhhhhhhcCCceeec
Confidence 99999999999 78888999999999999999999999865 6778889999999877543
No 37
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=100.00 E-value=1.6e-50 Score=414.95 Aligned_cols=338 Identities=17% Similarity=0.185 Sum_probs=255.3
Q ss_pred cCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 104 DLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 104 ~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
.+++...+...++..||+..++|+|.++|+.++.| +|+++.+|||+|||++|++|++.. ++.+|||+|+++|
T Consensus 441 ~fpw~~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~G--rDVLVimPTGSGKSLcYQLPAL~~------~GiTLVISPLiSL 512 (1195)
T PLN03137 441 NFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSG--YDVFVLMPTGGGKSLTYQLPALIC------PGITLVISPLVSL 512 (1195)
T ss_pred CCCchHHHHHHHHHHcCCCCCCHHHHHHHHHHHcC--CCEEEEcCCCccHHHHHHHHHHHc------CCcEEEEeCHHHH
Confidence 46788888888888899999999999999999999 999999999999999999999853 4579999999999
Q ss_pred HHHHHHHHHHHhcccCceeeEeecCCCCCccc--cc--CCCCCCCcEEEeCchHHHH---HHHc-Ccc-CCCCeeEEEEe
Q 011104 184 AIQNLEVLRKMGKHTGITSECAVPTDSTNYVP--IS--KRPPVTAQVVIGTPGTIKK---WMSA-KKL-GFSRLKILVYD 254 (493)
Q Consensus 184 a~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~--~~~~~~~~Ilv~Tp~~l~~---~l~~-~~~-~~~~~~~iVlD 254 (493)
+.++...+... ++...++.++....... .. ......++|+|+||++|.. ++.. ..+ ....+.+||||
T Consensus 513 mqDQV~~L~~~----GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~LslIVID 588 (1195)
T PLN03137 513 IQDQIMNLLQA----NIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLARFVID 588 (1195)
T ss_pred HHHHHHHHHhC----CCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcchHHHHHHHhhhhccccceeccC
Confidence 98655554443 45555555554322111 01 1112467999999999852 1211 111 13458899999
Q ss_pred cchhhhcc-cCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChH
Q 011104 255 EADHMLDE-AGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDEL 333 (493)
Q Consensus 255 Eah~l~~~-~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 (493)
|||+++.+ +.|++.+..+ ..+....+..++++||||++..+...+...+.......... ......+ ++...+...
T Consensus 589 EAHcVSqWGhDFRpdYr~L-~~Lr~~fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr~-Sf~RpNL--~y~Vv~k~k 664 (1195)
T PLN03137 589 EAHCVSQWGHDFRPDYQGL-GILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFRQ-SFNRPNL--WYSVVPKTK 664 (1195)
T ss_pred cchhhhhcccchHHHHHHH-HHHHHhCCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEeec-ccCccce--EEEEeccch
Confidence 99999975 2377777653 33333445788999999999988876666655433222221 1122222 233333332
Q ss_pred HHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccC
Q 011104 334 AKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARG 413 (493)
Q Consensus 334 ~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~G 413 (493)
.....+...+... ......||||.++..++.++..|...|+.+..|||+|++.+|..+++.|..|+++|||||+++++|
T Consensus 665 k~le~L~~~I~~~-~~~esgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdAFGMG 743 (1195)
T PLN03137 665 KCLEDIDKFIKEN-HFDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFGMG 743 (1195)
T ss_pred hHHHHHHHHHHhc-ccCCCceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEechhhcC
Confidence 2233343333222 224678999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 414 FDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 414 ldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
||+|+|++||||++| .|++.|+||+|||||.|..|.|++||...+
T Consensus 744 IDkPDVR~VIHydlP--------kSiEsYyQriGRAGRDG~~g~cILlys~~D 788 (1195)
T PLN03137 744 INKPDVRFVIHHSLP--------KSIEGYHQECGRAGRDGQRSSCVLYYSYSD 788 (1195)
T ss_pred CCccCCcEEEEcCCC--------CCHHHHHhhhcccCCCCCCceEEEEecHHH
Confidence 999999999999999 899999999999999999999999997654
No 38
>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=4.6e-50 Score=399.66 Aligned_cols=325 Identities=17% Similarity=0.231 Sum_probs=243.3
Q ss_pred HHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHH
Q 011104 115 LYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKM 194 (493)
Q Consensus 115 l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~ 194 (493)
|+..+||..|+|+|.++|+.++.| +|+++++|||||||++|++|++.. +..+|||+|+++|+.|+.+.+..+
T Consensus 3 l~~~~g~~~~r~~Q~~ai~~~l~g--~dvlv~apTGsGKTl~y~lp~l~~------~~~~lVi~P~~~L~~dq~~~l~~~ 74 (470)
T TIGR00614 3 LKTVFGLSSFRPVQLEVINAVLLG--RDCFVVMPTGGGKSLCYQLPALCS------DGITLVISPLISLMEDQVLQLKAS 74 (470)
T ss_pred hHhhcCCCCCCHHHHHHHHHHHcC--CCEEEEcCCCCcHhHHHHHHHHHc------CCcEEEEecHHHHHHHHHHHHHHc
Confidence 445589999999999999999999 899999999999999999999852 457999999999999999888765
Q ss_pred hcccCceeeEeecCCCCCcc--cccCCCCCCCcEEEeCchHHHHHHH-cCcc-CCCCeeEEEEecchhhhcc-cCCHHHH
Q 011104 195 GKHTGITSECAVPTDSTNYV--PISKRPPVTAQVVIGTPGTIKKWMS-AKKL-GFSRLKILVYDEADHMLDE-AGFRDDS 269 (493)
Q Consensus 195 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~Ilv~Tp~~l~~~l~-~~~~-~~~~~~~iVlDEah~l~~~-~~~~~~~ 269 (493)
+ +....+.+....... .........++|+++||+++..... ...+ ...++++|||||||++..+ +.|+..+
T Consensus 75 g----i~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~ 150 (470)
T TIGR00614 75 G----IPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCISQWGHDFRPDY 150 (470)
T ss_pred C----CcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccCccccccHHHH
Confidence 3 444434333322110 0111133457899999999753220 1111 4678999999999999864 2366666
Q ss_pred HHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhc--cCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhc
Q 011104 270 LRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVK--DYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELG 347 (493)
Q Consensus 270 ~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 347 (493)
..+. .+....++.+++++|||+++.+...+...+. .+..+.. ......+..... .........+...+...
T Consensus 151 ~~l~-~l~~~~~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~---s~~r~nl~~~v~--~~~~~~~~~l~~~l~~~- 223 (470)
T TIGR00614 151 KALG-SLKQKFPNVPIMALTATASPSVREDILRQLNLKNPQIFCT---SFDRPNLYYEVR--RKTPKILEDLLRFIRKE- 223 (470)
T ss_pred HHHH-HHHHHcCCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeC---CCCCCCcEEEEE--eCCccHHHHHHHHHHHh-
Confidence 5543 3333345789999999999887766555543 2322221 111122221111 11112333344433322
Q ss_pred ccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccC
Q 011104 348 EKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDP 427 (493)
Q Consensus 348 ~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~ 427 (493)
..+..+||||+++++++.++..|...|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|||+|+|++||||++
T Consensus 224 ~~~~~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~~~~GID~p~V~~VI~~~~ 303 (470)
T TIGR00614 224 FKGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSL 303 (470)
T ss_pred cCCCceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEechhhccCCcccceEEEEeCC
Confidence 23556799999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 428 PVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 428 p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
| .|+..|+||+||+||.|..|.|++|+++.+
T Consensus 304 P--------~s~~~y~Qr~GRaGR~G~~~~~~~~~~~~d 334 (470)
T TIGR00614 304 P--------KSMESYYQESGRAGRDGLPSECHLFYAPAD 334 (470)
T ss_pred C--------CCHHHHHhhhcCcCCCCCCceEEEEechhH
Confidence 9 899999999999999999999999998764
No 39
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=100.00 E-value=2.1e-48 Score=397.48 Aligned_cols=334 Identities=16% Similarity=0.245 Sum_probs=248.4
Q ss_pred CCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH
Q 011104 106 NLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI 185 (493)
Q Consensus 106 ~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~ 185 (493)
+........|+..+||..|+|+|.++|+.++.| +|+++.+|||+|||++|++|++.. ...+|||+|+++|+.
T Consensus 8 ~~~~~~~~~l~~~fG~~~~r~~Q~~ai~~il~g--~dvlv~apTGsGKTl~y~lpal~~------~g~tlVisPl~sL~~ 79 (607)
T PRK11057 8 NLESLAKQVLQETFGYQQFRPGQQEIIDAVLSG--RDCLVVMPTGGGKSLCYQIPALVL------DGLTLVVSPLISLMK 79 (607)
T ss_pred CchhHHHHHHHHHcCCCCCCHHHHHHHHHHHcC--CCEEEEcCCCchHHHHHHHHHHHc------CCCEEEEecHHHHHH
Confidence 344445556666689999999999999999999 999999999999999999999853 347999999999999
Q ss_pred HHHHHHHHHhcccCceeeEeecCCCCCcc--cccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcc-
Q 011104 186 QNLEVLRKMGKHTGITSECAVPTDSTNYV--PISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDE- 262 (493)
Q Consensus 186 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~- 262 (493)
|+...++.++ +...+..+....... ..........+++++||++|........+...++++|||||||++..+
T Consensus 80 dqv~~l~~~g----i~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~~G 155 (607)
T PRK11057 80 DQVDQLLANG----VAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWG 155 (607)
T ss_pred HHHHHHHHcC----CcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCcccccccc
Confidence 9998888753 444444333322111 111122345789999999987422222334557899999999999864
Q ss_pred cCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHH
Q 011104 263 AGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDR 342 (493)
Q Consensus 263 ~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 342 (493)
..|++.+..+ ..+....+..+++++|||+++.....+...+.......... ......+.. ..... ......+...
T Consensus 156 ~~fr~~y~~L-~~l~~~~p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~-~~~r~nl~~--~v~~~-~~~~~~l~~~ 230 (607)
T PRK11057 156 HDFRPEYAAL-GQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQIS-SFDRPNIRY--TLVEK-FKPLDQLMRY 230 (607)
T ss_pred CcccHHHHHH-HHHHHhCCCCcEEEEecCCChhHHHHHHHHhCCCCeEEEEC-CCCCCccee--eeeec-cchHHHHHHH
Confidence 3477666543 33444445789999999999887665554443222111111 111122211 11111 1222333332
Q ss_pred HHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEE
Q 011104 343 IFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLI 422 (493)
Q Consensus 343 l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~V 422 (493)
+.. ..+.++||||+++++|+.++..|...|+.+..+||+|++.+|..+++.|+.|..+|||||+++++|||+|+|++|
T Consensus 231 l~~--~~~~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~~~GIDip~V~~V 308 (607)
T PRK11057 231 VQE--QRGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFV 308 (607)
T ss_pred HHh--cCCCCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEechhhccCCCCCcCEE
Confidence 322 345789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 423 VNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 423 i~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
|||++| .|.+.|+||+||+||.|.+|.|++|+.+.+
T Consensus 309 I~~d~P--------~s~~~y~Qr~GRaGR~G~~~~~ill~~~~d 344 (607)
T PRK11057 309 VHFDIP--------RNIESYYQETGRAGRDGLPAEAMLFYDPAD 344 (607)
T ss_pred EEeCCC--------CCHHHHHHHhhhccCCCCCceEEEEeCHHH
Confidence 999999 889999999999999999999999998764
No 40
>PRK02362 ski2-like helicase; Provisional
Probab=100.00 E-value=2.4e-47 Score=399.56 Aligned_cols=357 Identities=21% Similarity=0.253 Sum_probs=264.8
Q ss_pred CcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhh-hcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcC
Q 011104 101 TFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPM-ILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICP 179 (493)
Q Consensus 101 ~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~-il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~P 179 (493)
.|+++++++.+++.+.. .||..|+|+|.++++. ++.| +|++++||||||||++|.+|++..+. .+.+++|++|
T Consensus 2 ~~~~l~lp~~~~~~l~~-~g~~~l~p~Q~~ai~~~~~~g--~nvlv~APTGSGKTlia~lail~~l~---~~~kal~i~P 75 (737)
T PRK02362 2 KIAELPLPEGVIEFYEA-EGIEELYPPQAEAVEAGLLDG--KNLLAAIPTASGKTLIAELAMLKAIA---RGGKALYIVP 75 (737)
T ss_pred ChhhcCCCHHHHHHHHh-CCCCcCCHHHHHHHHHHHhCC--CcEEEECCCcchHHHHHHHHHHHHHh---cCCcEEEEeC
Confidence 58899999999999987 8999999999999998 6677 99999999999999999999998884 4668999999
Q ss_pred CHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhh
Q 011104 180 TRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHM 259 (493)
Q Consensus 180 t~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l 259 (493)
+++||.|+++.++++.. .++.+....|+..... .....++|+|+||+++..++.+....+.++++||+||+|.+
T Consensus 76 ~raLa~q~~~~~~~~~~-~g~~v~~~tGd~~~~~-----~~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l 149 (737)
T PRK02362 76 LRALASEKFEEFERFEE-LGVRVGISTGDYDSRD-----EWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLI 149 (737)
T ss_pred hHHHHHHHHHHHHHhhc-CCCEEEEEeCCcCccc-----cccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECcccc
Confidence 99999999999998753 4677777766543322 11235799999999999988876556789999999999999
Q ss_pred hcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhcc--------Cceeeecc---ccccccCceEEEEe
Q 011104 260 LDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKD--------YNQLFVKK---EELSLESVKQYKVY 328 (493)
Q Consensus 260 ~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~--------~~~~~~~~---~~~~~~~~~~~~~~ 328 (493)
.+ .++...+..++..+....+..|++++|||+++. .. +..++.. |..+.... ....... .+..+.
T Consensus 150 ~d-~~rg~~le~il~rl~~~~~~~qii~lSATl~n~-~~-la~wl~~~~~~~~~rpv~l~~~v~~~~~~~~~~-~~~~~~ 225 (737)
T PRK02362 150 DS-ANRGPTLEVTLAKLRRLNPDLQVVALSATIGNA-DE-LADWLDAELVDSEWRPIDLREGVFYGGAIHFDD-SQREVE 225 (737)
T ss_pred CC-CcchHHHHHHHHHHHhcCCCCcEEEEcccCCCH-HH-HHHHhCCCcccCCCCCCCCeeeEecCCeecccc-ccccCC
Confidence 87 478888888888887766789999999999752 22 2222221 11110000 0000000 011111
Q ss_pred CCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC-----------------------------------
Q 011104 329 CPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF----------------------------------- 373 (493)
Q Consensus 329 ~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~----------------------------------- 373 (493)
.......... +......++++||||++++.|+.++..|...
T Consensus 226 ~~~~~~~~~~----~~~~~~~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~ 301 (737)
T PRK02362 226 VPSKDDTLNL----VLDTLEEGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKDLADC 301 (737)
T ss_pred CccchHHHHH----HHHHHHcCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHHHHHH
Confidence 1111112222 3333335789999999999999998887643
Q ss_pred -CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEE----ccCCCCCCCCCCCCcccccccccc
Q 011104 374 -GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVN----YDPPVKHGKHLEPDCEVYLHRIGR 448 (493)
Q Consensus 374 -~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~----~~~p~~~~~~~~~s~~~y~qr~GR 448 (493)
...+..+|++|++.+|..+++.|++|.++|||||+++++|+|+|.+++||+ |+.... ..+.+..+|.||+||
T Consensus 302 l~~gva~hHagl~~~eR~~ve~~Fr~G~i~VLvaT~tla~GvnlPa~~VVI~~~~~yd~~~g---~~~~s~~~y~Qm~GR 378 (737)
T PRK02362 302 VAKGAAFHHAGLSREHRELVEDAFRDRLIKVISSTPTLAAGLNLPARRVIIRDYRRYDGGAG---MQPIPVLEYHQMAGR 378 (737)
T ss_pred HHhCEEeecCCCCHHHHHHHHHHHHcCCCeEEEechhhhhhcCCCceEEEEecceeecCCCC---ceeCCHHHHHHHhhc
Confidence 136889999999999999999999999999999999999999999999997 653210 112688999999999
Q ss_pred cccCCCc--ceEEEEeeCCccHHHHHHHHHHhCCCc
Q 011104 449 AGRFGRK--GVVFNLLMDGDDMIIMEKIERYFDIKV 482 (493)
Q Consensus 449 ~~R~g~~--g~~i~l~~~~~~~~~~~~i~~~~~~~~ 482 (493)
|||.|.+ |.|+++..+.++ ..+.+++++....
T Consensus 379 AGR~g~d~~G~~ii~~~~~~~--~~~~~~~~l~~~~ 412 (737)
T PRK02362 379 AGRPGLDPYGEAVLLAKSYDE--LDELFERYIWADP 412 (737)
T ss_pred CCCCCCCCCceEEEEecCchh--HHHHHHHHHhCCC
Confidence 9999865 899988764332 2334455554333
No 41
>PRK13767 ATP-dependent helicase; Provisional
Probab=100.00 E-value=5.3e-47 Score=400.05 Aligned_cols=359 Identities=20% Similarity=0.246 Sum_probs=252.1
Q ss_pred CCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC------CCCCeEEEEcCC
Q 011104 107 LSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN------LKAPQALCICPT 180 (493)
Q Consensus 107 ~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~------~~~~~~lil~Pt 180 (493)
+++.+.+.+. .+|..|+|+|+++||.++.| +|++++||||||||++|++|+++.+... ..+.++|||+|+
T Consensus 18 l~~~v~~~~~--~~~~~~tpiQ~~Ai~~il~g--~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPt 93 (876)
T PRK13767 18 LRPYVREWFK--EKFGTFTPPQRYAIPLIHEG--KNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPL 93 (876)
T ss_pred cCHHHHHHHH--HccCCCCHHHHHHHHHHHcC--CCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCH
Confidence 5566666654 47899999999999999999 9999999999999999999999887431 245689999999
Q ss_pred HHHHHHHHHHHHH-------Hh----ccc-CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCcc--CCC
Q 011104 181 RELAIQNLEVLRK-------MG----KHT-GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKL--GFS 246 (493)
Q Consensus 181 ~~La~q~~~~~~~-------~~----~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~--~~~ 246 (493)
++|+.|+++.+.. +. ... ++.+...+|+...... .......++|+|+||++|..++....+ .+.
T Consensus 94 raLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r--~~~l~~~p~IlVtTPE~L~~ll~~~~~~~~l~ 171 (876)
T PRK13767 94 RALNNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEK--QKMLKKPPHILITTPESLAILLNSPKFREKLR 171 (876)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHH--HHHHhCCCCEEEecHHHHHHHhcChhHHHHHh
Confidence 9999999876553 22 222 4556666665543321 112234689999999999887765433 478
Q ss_pred CeeEEEEecchhhhcccCCHHHHHHHHHHhhhcC-CCeeEEEEeeecChhHHHHHHHHhcc------Cceee-ecccccc
Q 011104 247 RLKILVYDEADHMLDEAGFRDDSLRIMKDIERSS-GHCQVLLFSATFNETVKNFVTRIVKD------YNQLF-VKKEELS 318 (493)
Q Consensus 247 ~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~-~~~q~v~~SAT~~~~~~~~~~~~~~~------~~~~~-~~~~~~~ 318 (493)
++++||+||+|.+.+. .+...+...+..+.... ...|++++|||+++. .... .++.. +..+. +......
T Consensus 172 ~l~~VVIDE~H~l~~~-~RG~~l~~~L~rL~~l~~~~~q~IglSATl~~~-~~va-~~L~~~~~~~~~r~~~iv~~~~~k 248 (876)
T PRK13767 172 TVKWVIVDEIHSLAEN-KRGVHLSLSLERLEELAGGEFVRIGLSATIEPL-EEVA-KFLVGYEDDGEPRDCEIVDARFVK 248 (876)
T ss_pred cCCEEEEechhhhccC-ccHHHHHHHHHHHHHhcCCCCeEEEEecccCCH-HHHH-HHhcCccccCCCCceEEEccCCCc
Confidence 8999999999999863 45555555555555433 468999999999752 2222 22221 11111 1111100
Q ss_pred ccCceEEEEeCC-------ChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC------CCcEEEecCCCC
Q 011104 319 LESVKQYKVYCP-------DELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF------GYEVTTIMGATI 385 (493)
Q Consensus 319 ~~~~~~~~~~~~-------~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~------~~~~~~l~~~~~ 385 (493)
... ..+.++ ........+...+.......+++||||+|+..|+.++..|... +..+..+||+|+
T Consensus 249 --~~~-i~v~~p~~~l~~~~~~~~~~~l~~~L~~~i~~~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls 325 (876)
T PRK13767 249 --PFD-IKVISPVDDLIHTPAEEISEALYETLHELIKEHRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLS 325 (876)
T ss_pred --cce-EEEeccCccccccccchhHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCC
Confidence 000 011111 1111122333334444445689999999999999999999863 468999999999
Q ss_pred HHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccC-CCcceEEEEeeC
Q 011104 386 QEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRF-GRKGVVFNLLMD 464 (493)
Q Consensus 386 ~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~-g~~g~~i~l~~~ 464 (493)
+.+|..+++.|++|..+|||||+++++|||+|++++||+|+.| .++..|+||+||+||. |..+.++.+...
T Consensus 326 ~~~R~~ve~~fk~G~i~vLVaTs~Le~GIDip~Vd~VI~~~~P--------~sv~~ylQRiGRaGR~~g~~~~g~ii~~~ 397 (876)
T PRK13767 326 REVRLEVEEKLKRGELKVVVSSTSLELGIDIGYIDLVVLLGSP--------KSVSRLLQRIGRAGHRLGEVSKGRIIVVD 397 (876)
T ss_pred HHHHHHHHHHHHcCCCeEEEECChHHhcCCCCCCcEEEEeCCC--------CCHHHHHHhcccCCCCCCCCCcEEEEEcC
Confidence 9999999999999999999999999999999999999999999 8899999999999986 444455555554
Q ss_pred CccH-HHHHHHHHHhCCCceee
Q 011104 465 GDDM-IIMEKIERYFDIKVTEV 485 (493)
Q Consensus 465 ~~~~-~~~~~i~~~~~~~~~~~ 485 (493)
.++. .....++....-.++.+
T Consensus 398 ~~~l~e~~~~~~~~~~~~ie~~ 419 (876)
T PRK13767 398 RDDLVECAVLLKKAREGKIDRV 419 (876)
T ss_pred chhHHHHHHHHHHHHhCCCCCC
Confidence 4442 22223444455555543
No 42
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=9.6e-49 Score=330.73 Aligned_cols=335 Identities=30% Similarity=0.539 Sum_probs=286.7
Q ss_pred CCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcC
Q 011104 100 TTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICP 179 (493)
Q Consensus 100 ~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~P 179 (493)
+-|.++-+.|++++++.. .||..|+.+|..+||...-| .|++.+|..|-|||.+|.+..|+.+.+......+|++|.
T Consensus 42 sgfrdfllkpellraivd-cgfehpsevqhecipqailg--mdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmch 118 (387)
T KOG0329|consen 42 SGFRDFLLKPELLRAIVD-CGFEHPSEVQHECIPQAILG--MDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCH 118 (387)
T ss_pred cchhhhhcCHHHHHHHHh-ccCCCchHhhhhhhhHHhhc--chhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEec
Confidence 358899999999999998 99999999999999999999 999999999999999999999999988777778999999
Q ss_pred CHHHHHHHHHHHHHHhcccC-ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchh
Q 011104 180 TRELAIQNLEVLRKMGKHTG-ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADH 258 (493)
Q Consensus 180 t~~La~q~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~ 258 (493)
||+||-|+.....++..... +++...+|+........ .+.+.++|+|+|||+++.+.++..++++++++.|+||+|.
T Consensus 119 trelafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee--~lk~~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdk 196 (387)
T KOG0329|consen 119 TRELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEE--LLKNCPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDK 196 (387)
T ss_pred cHHHHHHHHHHHHHHHhhCCCceEEEEEcceeccccHH--HHhCCCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHH
Confidence 99999999998888877654 67777888876654332 2233689999999999999999999999999999999999
Q ss_pred hhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccc-cccccCceEEEEeCCChHHHHH
Q 011104 259 MLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKE-ELSLESVKQYKVYCPDELAKVM 337 (493)
Q Consensus 259 l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 337 (493)
|+.+...+..+.+|.+..+. ..|++.||||+++++....+.++.+|..++++.+ ..++.++.|+|+...+.. |..
T Consensus 197 mle~lDMrRDvQEifr~tp~---~KQvmmfsatlskeiRpvC~kFmQdPmEi~vDdE~KLtLHGLqQ~YvkLke~e-KNr 272 (387)
T KOG0329|consen 197 MLEQLDMRRDVQEIFRMTPH---EKQVMMFSATLSKEIRPVCHKFMQDPMEIFVDDEAKLTLHGLQQYYVKLKENE-KNR 272 (387)
T ss_pred HHHHHHHHHHHHHHhhcCcc---cceeeeeeeecchhhHHHHHhhhcCchhhhccchhhhhhhhHHHHHHhhhhhh-hhh
Confidence 99877777777777766655 7899999999999999999999999999998765 467788899988876543 333
Q ss_pred HHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCC
Q 011104 338 VIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQ 417 (493)
Q Consensus 338 ~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~ 417 (493)
.+.+ +.+.++ ...++||+.+.... + | ..+ ||||++++||+|+-
T Consensus 273 kl~d-LLd~Le-FNQVvIFvKsv~Rl---------------------~----------f---~kr-~vat~lfgrgmdie 315 (387)
T KOG0329|consen 273 KLND-LLDVLE-FNQVVIFVKSVQRL---------------------S----------F---QKR-LVATDLFGRGMDIE 315 (387)
T ss_pred hhhh-hhhhhh-hcceeEeeehhhhh---------------------h----------h---hhh-hHHhhhhccccCcc
Confidence 3333 223333 57899999987651 0 3 123 89999999999999
Q ss_pred CCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCc
Q 011104 418 QVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTC 488 (493)
Q Consensus 418 ~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~ 488 (493)
.+++|||||+| .+.++|+||+|||||.|..|.+|+|++...+...+..++..+...|.++|-.
T Consensus 316 rvNi~~NYdmp--------~~~DtYlHrv~rAgrfGtkglaitfvs~e~da~iLn~vqdRf~v~i~eLpde 378 (387)
T KOG0329|consen 316 RVNIVFNYDMP--------EDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNPVQDRFEVNIKELPDE 378 (387)
T ss_pred cceeeeccCCC--------CCchHHHHHhhhhhccccccceeehhcchhhHHHhchhhHhhhccHhhcCcc
Confidence 99999999999 8899999999999999999999999999999999999999999999888865
No 43
>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=6.2e-47 Score=388.22 Aligned_cols=326 Identities=17% Similarity=0.210 Sum_probs=247.9
Q ss_pred HHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHH
Q 011104 114 GLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRK 193 (493)
Q Consensus 114 ~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~ 193 (493)
.|.+.|||..++|+|.++|+.++.| +|+++++|||+|||++|++|++.. +..++||+|+++|+.|+...++.
T Consensus 4 ~l~~~fg~~~fr~~Q~~~i~~il~g--~dvlv~~PTG~GKTl~y~lpal~~------~g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 4 VLKRTFGYDDFRPGQEEIISHVLDG--RDVLVVMPTGGGKSLCYQVPALLL------KGLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred HHHHhcCCCCCCHHHHHHHHHHHcC--CCEEEEcCCCccHhHHHHHHHHHc------CCcEEEEcCCHHHHHHHHHHHHH
Confidence 4555699999999999999999999 999999999999999999999843 34689999999999999998887
Q ss_pred HhcccCceeeEeecCCCCCcc--cccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcc-cCCHHHHH
Q 011104 194 MGKHTGITSECAVPTDSTNYV--PISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDE-AGFRDDSL 270 (493)
Q Consensus 194 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~-~~~~~~~~ 270 (493)
++ +.+..+.+....... ..........+|+++||++|........+...++++||+||||++..+ ..|++.+.
T Consensus 76 ~g----i~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~~~g~~frp~y~ 151 (591)
T TIGR01389 76 AG----VAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQ 151 (591)
T ss_pred cC----CcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCcccccccCccHHHHH
Confidence 63 444444443322211 111123346789999999986433333445678999999999999863 34777776
Q ss_pred HHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccC
Q 011104 271 RIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKM 350 (493)
Q Consensus 271 ~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~ 350 (493)
.+...... .+..+++++|||++..+...+...+.......... ......+....... ..+...+.+.+.... +
T Consensus 152 ~l~~l~~~-~~~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~-~~~r~nl~~~v~~~---~~~~~~l~~~l~~~~--~ 224 (591)
T TIGR01389 152 RLGSLAER-FPQVPRIALTATADAETRQDIRELLRLADANEFIT-SFDRPNLRFSVVKK---NNKQKFLLDYLKKHR--G 224 (591)
T ss_pred HHHHHHHh-CCCCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEec-CCCCCCcEEEEEeC---CCHHHHHHHHHHhcC--C
Confidence 65544333 33556999999999988776666654322111111 11112222222121 223334444343322 5
Q ss_pred CcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCC
Q 011104 351 GQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVK 430 (493)
Q Consensus 351 ~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~ 430 (493)
.++||||++++.++.+++.|...|+.+..+||+|++.+|..+++.|..|...|||||+++++|||+|++++||+|++|
T Consensus 225 ~~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~~~GID~p~v~~VI~~~~p-- 302 (591)
T TIGR01389 225 QSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMP-- 302 (591)
T ss_pred CCEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEechhhccCcCCCCCEEEEcCCC--
Confidence 789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 431 HGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 431 ~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
.|.+.|.||+||+||.|..|.|++||.+.+
T Consensus 303 ------~s~~~y~Q~~GRaGR~G~~~~~il~~~~~d 332 (591)
T TIGR01389 303 ------GNLESYYQEAGRAGRDGLPAEAILLYSPAD 332 (591)
T ss_pred ------CCHHHHhhhhccccCCCCCceEEEecCHHH
Confidence 889999999999999999999998887654
No 44
>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=2.5e-46 Score=379.09 Aligned_cols=322 Identities=20% Similarity=0.210 Sum_probs=242.9
Q ss_pred HHhhCCCCCCchHHHhhhhhhcCCCCc-cEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEE-EcCCHHHHHHHHHHHH
Q 011104 115 LYVEMKFQKPSKIQAISLPMILTPPYR-NLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALC-ICPTRELAIQNLEVLR 192 (493)
Q Consensus 115 l~~~~g~~~~~~~Q~~~i~~il~~~~~-~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~li-l~Pt~~La~q~~~~~~ 192 (493)
+....||. |+|||.++||.++.| + ++++++|||||||.++.++++.. ......++.|| ++|||+|+.|+++.+.
T Consensus 8 f~~~~G~~-PtpiQ~~~i~~il~G--~~~v~~~apTGSGKTaa~aafll~~-~~~~~~~~rLv~~vPtReLa~Qi~~~~~ 83 (844)
T TIGR02621 8 YQGLHGYS-PFPWQLSLAERFVAG--QPPESCSTPTGLGKTSIIAAWLLAV-EIGAKVPRRLVYVVNRRTVVDQVTEEAE 83 (844)
T ss_pred HHHHhCCC-CCHHHHHHHHHHHcC--CCcceEecCCCCcccHHHHHhhccc-cccccccceEEEeCchHHHHHHHHHHHH
Confidence 33336898 999999999999999 6 68889999999999776666633 33334455555 6699999999999999
Q ss_pred HHhccc-----------------------CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCcc------
Q 011104 193 KMGKHT-----------------------GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKL------ 243 (493)
Q Consensus 193 ~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~------ 243 (493)
+++..+ ++.+.+++|+..... .......+++|||+|+ +++.++.+
T Consensus 84 ~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~--q~~~l~~~p~IIVgT~----D~i~sr~L~~gYg~ 157 (844)
T TIGR02621 84 KIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADND--EWMLDPHRPAVIVGTV----DMIGSRLLFSGYGC 157 (844)
T ss_pred HHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECCCChHH--HHHhcCCCCcEEEECH----HHHcCCcccccccc
Confidence 998755 367777888865543 3344556789999995 44444443
Q ss_pred ----------CCCCeeEEEEecchhhhcccCCHHHHHHHHHHhh--hcCCCeeEEEEeeecChhHHHHHHHHhccCceee
Q 011104 244 ----------GFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIE--RSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLF 311 (493)
Q Consensus 244 ----------~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~--~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~ 311 (493)
.+.++++||||||| +. ++|.+.+..|++.+. ....++|+++||||++.++..+...++..+..+.
T Consensus 158 ~~~~~pi~ag~L~~v~~LVLDEAD--Ld-~gF~~~l~~Il~~l~rp~~~rprQtLLFSAT~p~ei~~l~~~~~~~p~~i~ 234 (844)
T TIGR02621 158 GFKSRPLHAGFLGQDALIVHDEAH--LE-PAFQELLKQIMNEQQRPPDFLPLRVVELTATSRTDGPDRTTLLSAEDYKHP 234 (844)
T ss_pred ccccccchhhhhccceEEEEehhh--hc-cccHHHHHHHHHhcccCcccccceEEEEecCCCccHHHHHHHHccCCceee
Confidence 26789999999999 43 699999999998752 2122479999999999988887777776666555
Q ss_pred eccccccccCceEEEEeCCChHHHHHHHHHHHHH-hcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHH
Q 011104 312 VKKEELSLESVKQYKVYCPDELAKVMVIRDRIFE-LGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERD 390 (493)
Q Consensus 312 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~ 390 (493)
+.........+.+++ ..... .+...+...+.. ....++++||||||++.|+.+++.|...++ ..+||+|++.+|.
T Consensus 235 V~~~~l~a~ki~q~v-~v~~e-~Kl~~lv~~L~~ll~e~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~ 310 (844)
T TIGR02621 235 VLKKRLAAKKIVKLV-PPSDE-KFLSTMVKELNLLMKDSGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERD 310 (844)
T ss_pred cccccccccceEEEE-ecChH-HHHHHHHHHHHHHHhhCCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHh
Confidence 555455555556643 33322 233332222222 123467899999999999999999998877 9999999999999
Q ss_pred -----HHHHHHHc----CC-------CcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCC
Q 011104 391 -----KIVKEFKD----GL-------TQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGR 454 (493)
Q Consensus 391 -----~~~~~f~~----g~-------~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~ 454 (493)
.+++.|++ |. ..|||||+++++||||+. ++||++..| .+.|+||+||+||.|+
T Consensus 311 ~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVaerGLDId~-d~VI~d~aP----------~esyIQRiGRtgR~G~ 379 (844)
T TIGR02621 311 DLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGEVGVNISA-DHLVCDLAP----------FESMQQRFGRVNRFGE 379 (844)
T ss_pred hHHHHHHHHHHhccccccccccccccceEEeccchhhhcccCCc-ceEEECCCC----------HHHHHHHhcccCCCCC
Confidence 88999987 44 679999999999999986 899998777 5789999999999998
Q ss_pred cc-eEEEEeeC
Q 011104 455 KG-VVFNLLMD 464 (493)
Q Consensus 455 ~g-~~i~l~~~ 464 (493)
.| ..++++..
T Consensus 380 ~~~~~i~vv~~ 390 (844)
T TIGR02621 380 LQACQIAVVHL 390 (844)
T ss_pred CCCceEEEEee
Confidence 54 44666644
No 45
>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=1.3e-45 Score=385.04 Aligned_cols=341 Identities=20% Similarity=0.220 Sum_probs=257.1
Q ss_pred CCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCC----CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCC
Q 011104 105 LNLSPELLKGLYVEMKFQKPSKIQAISLPMILTP----PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPT 180 (493)
Q Consensus 105 ~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~----~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt 180 (493)
+.....+...+...++|. ||+.|.++|+.++.+ ..+|++++|+||||||.+|++|++..+. .+.+++|++||
T Consensus 434 ~~~~~~~~~~~~~~~~f~-~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~---~g~qvlvLvPT 509 (926)
T TIGR00580 434 FPPDLEWQQEFEDSFPFE-ETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVL---DGKQVAVLVPT 509 (926)
T ss_pred CCCCHHHHHHHHHhCCCC-CCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHH---hCCeEEEEeCc
Confidence 345567778887778996 999999999999874 1268999999999999999999998774 35789999999
Q ss_pred HHHHHHHHHHHHHHhcccCceeeEeecCCCCCccc--ccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchh
Q 011104 181 RELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVP--ISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADH 258 (493)
Q Consensus 181 ~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~ 258 (493)
++||.|+++.+++++...++.+..+.+..+..... ......+.++|+|+||.. + ...+.+.++++|||||+|+
T Consensus 510 ~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~l----l-~~~v~f~~L~llVIDEahr 584 (926)
T TIGR00580 510 TLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKL----L-QKDVKFKDLGLLIIDEEQR 584 (926)
T ss_pred HHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHH----h-hCCCCcccCCEEEeecccc
Confidence 99999999999998887787777666654422111 111123358999999943 2 2456789999999999998
Q ss_pred hhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHH
Q 011104 259 MLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMV 338 (493)
Q Consensus 259 l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 338 (493)
+.. .....++.+. .++|+++||||+.+...........++..+...... ...+.+++...... .
T Consensus 585 fgv------~~~~~L~~~~---~~~~vL~~SATpiprtl~~~l~g~~d~s~I~~~p~~--R~~V~t~v~~~~~~-----~ 648 (926)
T TIGR00580 585 FGV------KQKEKLKELR---TSVDVLTLSATPIPRTLHMSMSGIRDLSIIATPPED--RLPVRTFVMEYDPE-----L 648 (926)
T ss_pred cch------hHHHHHHhcC---CCCCEEEEecCCCHHHHHHHHhcCCCcEEEecCCCC--ccceEEEEEecCHH-----H
Confidence 532 2233444443 378999999998776655544444455444432221 12344444333221 1
Q ss_pred HHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC--CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCC
Q 011104 339 IRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF--GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQ 416 (493)
Q Consensus 339 l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~--~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi 416 (493)
+...+......+++++|||+++++++.+++.|+.. ++++..+||+|++.+|..+++.|++|+.+|||||+++++|+|+
T Consensus 649 i~~~i~~el~~g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~iie~GIDI 728 (926)
T TIGR00580 649 VREAIRRELLRGGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGIDI 728 (926)
T ss_pred HHHHHHHHHHcCCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhccccc
Confidence 11222233334789999999999999999999985 7899999999999999999999999999999999999999999
Q ss_pred CCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCC-----ccHHHHHHHHHH
Q 011104 417 QQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG-----DDMIIMEKIERY 477 (493)
Q Consensus 417 ~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~-----~~~~~~~~i~~~ 477 (493)
|++++||++++|. .+..+|.||+||+||.|+.|.|++|+.+. .....++.|+++
T Consensus 729 p~v~~VIi~~a~~-------~gls~l~Qr~GRvGR~g~~g~aill~~~~~~l~~~~~~RL~~~~~~ 787 (926)
T TIGR00580 729 PNANTIIIERADK-------FGLAQLYQLRGRVGRSKKKAYAYLLYPHQKALTEDAQKRLEAIQEF 787 (926)
T ss_pred ccCCEEEEecCCC-------CCHHHHHHHhcCCCCCCCCeEEEEEECCcccCCHHHHHHHHHHHHh
Confidence 9999999999984 35678999999999999999999998643 245566666665
No 46
>PRK00254 ski2-like helicase; Provisional
Probab=100.00 E-value=3.3e-45 Score=382.49 Aligned_cols=347 Identities=17% Similarity=0.167 Sum_probs=253.0
Q ss_pred CcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhh-hcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcC
Q 011104 101 TFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPM-ILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICP 179 (493)
Q Consensus 101 ~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~-il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~P 179 (493)
.|+++++++.+.+.+.+ .||..|+|+|.++++. ++.| +|+++++|||||||++|.+|++..+.. .+.++|||+|
T Consensus 2 ~~~~l~l~~~~~~~l~~-~g~~~l~~~Q~~ai~~~~~~g--~nvlv~apTGsGKT~~~~l~il~~l~~--~~~~~l~l~P 76 (720)
T PRK00254 2 KVDELRVDERIKRVLKE-RGIEELYPPQAEALKSGVLEG--KNLVLAIPTASGKTLVAEIVMVNKLLR--EGGKAVYLVP 76 (720)
T ss_pred cHHHcCCCHHHHHHHHh-CCCCCCCHHHHHHHHHHHhCC--CcEEEECCCCcHHHHHHHHHHHHHHHh--cCCeEEEEeC
Confidence 57889999999999987 9999999999999986 6777 999999999999999999999988753 3568999999
Q ss_pred CHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhh
Q 011104 180 TRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHM 259 (493)
Q Consensus 180 t~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l 259 (493)
+++|+.|+++.+..+. ..++.+....|...... .....++|+|+||+++..++......+.++++||+||+|.+
T Consensus 77 ~~aLa~q~~~~~~~~~-~~g~~v~~~~Gd~~~~~-----~~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l 150 (720)
T PRK00254 77 LKALAEEKYREFKDWE-KLGLRVAMTTGDYDSTD-----EWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLI 150 (720)
T ss_pred hHHHHHHHHHHHHHHh-hcCCEEEEEeCCCCCch-----hhhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCcc
Confidence 9999999999998864 45777777776654321 11235799999999999988776666889999999999999
Q ss_pred hcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeecccccccc--CceEEEEeCCCh-HHH-
Q 011104 260 LDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLE--SVKQYKVYCPDE-LAK- 335 (493)
Q Consensus 260 ~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~-~~~- 335 (493)
.+ .++...+..++..+.. ..|++++|||++.. ..+. .++..... .......... ...+........ ..+
T Consensus 151 ~~-~~rg~~le~il~~l~~---~~qiI~lSATl~n~-~~la-~wl~~~~~-~~~~rpv~l~~~~~~~~~~~~~~~~~~~~ 223 (720)
T PRK00254 151 GS-YDRGATLEMILTHMLG---RAQILGLSATVGNA-EELA-EWLNAELV-VSDWRPVKLRKGVFYQGFLFWEDGKIERF 223 (720)
T ss_pred CC-ccchHHHHHHHHhcCc---CCcEEEEEccCCCH-HHHH-HHhCCccc-cCCCCCCcceeeEecCCeeeccCcchhcc
Confidence 86 4677778888777654 68999999999752 3333 34432211 1100111100 001111111111 000
Q ss_pred HHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC---------------------------------CCcEEEecC
Q 011104 336 VMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF---------------------------------GYEVTTIMG 382 (493)
Q Consensus 336 ~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~---------------------------------~~~~~~l~~ 382 (493)
.......+.+....++++||||+|+..|+.++..|... ...+..+|+
T Consensus 224 ~~~~~~~~~~~i~~~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHa 303 (720)
T PRK00254 224 PNSWESLVYDAVKKGKGALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHA 303 (720)
T ss_pred hHHHHHHHHHHHHhCCCEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCC
Confidence 01112223333345789999999999998887666321 235899999
Q ss_pred CCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCC--CcceEEE
Q 011104 383 ATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFG--RKGVVFN 460 (493)
Q Consensus 383 ~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g--~~g~~i~ 460 (493)
+|++.+|..+.+.|++|.++|||||+++++|+|+|.+++||.-...+........+..+|.||+|||||.| ..|.+++
T Consensus 304 gl~~~eR~~ve~~F~~G~i~VLvaT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~~~~~~Qm~GRAGR~~~d~~G~~ii 383 (720)
T PRK00254 304 GLGRTERVLIEDAFREGLIKVITATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEIQQMMGRAGRPKYDEVGEAII 383 (720)
T ss_pred CCCHHHHHHHHHHHHCCCCeEEEeCcHHhhhcCCCceEEEECCceEcCCCCceeCCHHHHHHhhhccCCCCcCCCceEEE
Confidence 99999999999999999999999999999999999999999521111100000134678999999999965 6799998
Q ss_pred EeeCC
Q 011104 461 LLMDG 465 (493)
Q Consensus 461 l~~~~ 465 (493)
+....
T Consensus 384 ~~~~~ 388 (720)
T PRK00254 384 VATTE 388 (720)
T ss_pred EecCc
Confidence 88754
No 47
>PRK01172 ski2-like helicase; Provisional
Probab=100.00 E-value=7.4e-45 Score=378.47 Aligned_cols=355 Identities=17% Similarity=0.175 Sum_probs=258.9
Q ss_pred CcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCC
Q 011104 101 TFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPT 180 (493)
Q Consensus 101 ~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt 180 (493)
.|+++++++.+++.+.. .+|. ++++|.++++.+..| ++++++||||||||+++.++++..+.. +.++++++|+
T Consensus 2 ~~~~~~l~~~~~~~~~~-~~~~-l~~~Q~~ai~~l~~~--~nvlv~apTGSGKTl~a~lail~~l~~---~~k~v~i~P~ 74 (674)
T PRK01172 2 KISDLGYDDEFLNLFTG-NDFE-LYDHQRMAIEQLRKG--ENVIVSVPTAAGKTLIAYSAIYETFLA---GLKSIYIVPL 74 (674)
T ss_pred cHhhcCCCHHHHHHHhh-CCCC-CCHHHHHHHHHHhcC--CcEEEECCCCchHHHHHHHHHHHHHHh---CCcEEEEech
Confidence 47889999999999986 7887 999999999999988 999999999999999999999887743 4689999999
Q ss_pred HHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhh
Q 011104 181 RELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHML 260 (493)
Q Consensus 181 ~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~ 260 (493)
++||.|+++.+.++. ..+..+....|....... ....++|+|+||+++..++.+....+.++++||+||+|.+.
T Consensus 75 raLa~q~~~~~~~l~-~~g~~v~~~~G~~~~~~~-----~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~ 148 (674)
T PRK01172 75 RSLAMEKYEELSRLR-SLGMRVKISIGDYDDPPD-----FIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIG 148 (674)
T ss_pred HHHHHHHHHHHHHHh-hcCCeEEEEeCCCCCChh-----hhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhcc
Confidence 999999999998864 356676666665432211 12357999999999999888766668899999999999988
Q ss_pred cccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEE-----EeCCChHHH
Q 011104 261 DEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYK-----VYCPDELAK 335 (493)
Q Consensus 261 ~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~ 335 (493)
+ .++...+..++..+....++.|++++|||+++. .++. .++.... +... .....+.... ..+......
T Consensus 149 d-~~rg~~le~ll~~~~~~~~~~riI~lSATl~n~-~~la-~wl~~~~-~~~~---~r~vpl~~~i~~~~~~~~~~~~~~ 221 (674)
T PRK01172 149 D-EDRGPTLETVLSSARYVNPDARILALSATVSNA-NELA-QWLNASL-IKSN---FRPVPLKLGILYRKRLILDGYERS 221 (674)
T ss_pred C-CCccHHHHHHHHHHHhcCcCCcEEEEeCccCCH-HHHH-HHhCCCc-cCCC---CCCCCeEEEEEecCeeeecccccc
Confidence 6 367777777777776666688999999999753 3332 3333211 1100 0111111100 011111111
Q ss_pred HHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC-------------------------CCcEEEecCCCCHHHHH
Q 011104 336 VMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF-------------------------GYEVTTIMGATIQEERD 390 (493)
Q Consensus 336 ~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~-------------------------~~~~~~l~~~~~~~~r~ 390 (493)
...+...+......++++||||++++.++.++..|... ...+..+||+|++.+|.
T Consensus 222 ~~~~~~~i~~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~ 301 (674)
T PRK01172 222 QVDINSLIKETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRR 301 (674)
T ss_pred cccHHHHHHHHHhCCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHH
Confidence 11122223343445789999999999999999888653 12478899999999999
Q ss_pred HHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCC-CCCCCCcccccccccccccCCC--cceEEEEeeCCcc
Q 011104 391 KIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHG-KHLEPDCEVYLHRIGRAGRFGR--KGVVFNLLMDGDD 467 (493)
Q Consensus 391 ~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~-~~~~~s~~~y~qr~GR~~R~g~--~g~~i~l~~~~~~ 467 (493)
.+++.|++|.++|||||+++++|+|+|+. .||+++.+.... .+.+.+..+|.||+|||||.|. .|.+++++...++
T Consensus 302 ~ve~~f~~g~i~VLvaT~~la~Gvnipa~-~VII~~~~~~~~~~~~~~s~~~~~Qm~GRAGR~g~d~~g~~~i~~~~~~~ 380 (674)
T PRK01172 302 FIEEMFRNRYIKVIVATPTLAAGVNLPAR-LVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRPGYDQYGIGYIYAASPAS 380 (674)
T ss_pred HHHHHHHcCCCeEEEecchhhccCCCcce-EEEEcCceEeCCCCceeCCHHHHHHHhhcCCCCCCCCcceEEEEecCccc
Confidence 99999999999999999999999999985 556666654322 1223578889999999999985 5678877654433
Q ss_pred HHHHHHHHHHhC
Q 011104 468 MIIMEKIERYFD 479 (493)
Q Consensus 468 ~~~~~~i~~~~~ 479 (493)
.. .+++++.
T Consensus 381 ~~---~~~~~l~ 389 (674)
T PRK01172 381 YD---AAKKYLS 389 (674)
T ss_pred HH---HHHHHHc
Confidence 32 3455553
No 48
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=100.00 E-value=1.6e-43 Score=365.23 Aligned_cols=338 Identities=21% Similarity=0.218 Sum_probs=247.7
Q ss_pred CHHHHHHHHhhCCCCCCchHHHhhhhhhcCCC----CccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 108 SPELLKGLYVEMKFQKPSKIQAISLPMILTPP----YRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 108 ~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~----~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
...+.+.+...++|. ||++|.++++.+..+. ..+++++|+||||||++|++|++..+. .+.+++|++||++|
T Consensus 247 ~~~~~~~~~~~l~f~-lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~---~g~q~lilaPT~~L 322 (681)
T PRK10917 247 DGELLKKFLASLPFE-LTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE---AGYQAALMAPTEIL 322 (681)
T ss_pred ChHHHHHHHHhCCCC-CCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH---cCCeEEEEeccHHH
Confidence 356677777778985 9999999999998762 248999999999999999999998874 46789999999999
Q ss_pred HHHHHHHHHHHhcccCceeeEeecCCCCCcc--cccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhc
Q 011104 184 AIQNLEVLRKMGKHTGITSECAVPTDSTNYV--PISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 184 a~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~ 261 (493)
|.|+++.++++...+++.+..++|+...... .......+.++|+|+||+.+.+ .+.+.+++++|+||+|++..
T Consensus 323 A~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~-----~v~~~~l~lvVIDE~Hrfg~ 397 (681)
T PRK10917 323 AEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQD-----DVEFHNLGLVIIDEQHRFGV 397 (681)
T ss_pred HHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcc-----cchhcccceEEEechhhhhH
Confidence 9999999999998888888888887653221 1112233458999999987743 34578899999999998643
Q ss_pred ccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHH
Q 011104 262 EAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRD 341 (493)
Q Consensus 262 ~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 341 (493)
. ....+... ....++++||||+.+....+. .........+.........+........... .+.+
T Consensus 398 ~------qr~~l~~~---~~~~~iL~~SATp~prtl~~~--~~g~~~~s~i~~~p~~r~~i~~~~~~~~~~~----~~~~ 462 (681)
T PRK10917 398 E------QRLALREK---GENPHVLVMTATPIPRTLAMT--AYGDLDVSVIDELPPGRKPITTVVIPDSRRD----EVYE 462 (681)
T ss_pred H------HHHHHHhc---CCCCCEEEEeCCCCHHHHHHH--HcCCCceEEEecCCCCCCCcEEEEeCcccHH----HHHH
Confidence 1 12222222 235789999999876554332 2222222222211111223444433332222 2223
Q ss_pred HHHHhcccCCcEEEEcCChh--------hHHHHHHHHHhC--CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccc
Q 011104 342 RIFELGEKMGQTIIFVRTKN--------SASALHKALKDF--GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLA 411 (493)
Q Consensus 342 ~l~~~~~~~~~~lVf~~s~~--------~~~~l~~~L~~~--~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~ 411 (493)
.+......+.+++|||+.++ .+..+++.|... ++.+..+||+|++.+|..+++.|++|+.+|||||++++
T Consensus 463 ~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie 542 (681)
T PRK10917 463 RIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIE 542 (681)
T ss_pred HHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECccee
Confidence 34444456789999999654 456677788765 57899999999999999999999999999999999999
Q ss_pred cCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCC---ccHHHHHHHHH
Q 011104 412 RGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG---DDMIIMEKIER 476 (493)
Q Consensus 412 ~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~---~~~~~~~~i~~ 476 (493)
+|+|+|++++||++++|. .+...|.||+||+||.|..|.|++++... +....++.+++
T Consensus 543 ~GiDip~v~~VIi~~~~r-------~gls~lhQ~~GRvGR~g~~g~~ill~~~~~~~~~~~rl~~~~~ 603 (681)
T PRK10917 543 VGVDVPNATVMVIENAER-------FGLAQLHQLRGRVGRGAAQSYCVLLYKDPLSETARERLKIMRE 603 (681)
T ss_pred eCcccCCCcEEEEeCCCC-------CCHHHHHHHhhcccCCCCceEEEEEECCCCChhHHHHHHHHHH
Confidence 999999999999999984 24677899999999999999999998543 23344444443
No 49
>PRK10689 transcription-repair coupling factor; Provisional
Probab=100.00 E-value=1.3e-43 Score=377.74 Aligned_cols=340 Identities=17% Similarity=0.175 Sum_probs=255.9
Q ss_pred CCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCC----CccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCH
Q 011104 106 NLSPELLKGLYVEMKFQKPSKIQAISLPMILTPP----YRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTR 181 (493)
Q Consensus 106 ~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~----~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~ 181 (493)
..+..+.+.+...++| .||+.|.++|+.++.+. .+|++++|+||+|||.+|+.+++..+. .+.+++|++||+
T Consensus 584 ~~~~~~~~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~---~g~qvlvLvPT~ 659 (1147)
T PRK10689 584 KHDREQYQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE---NHKQVAVLVPTT 659 (1147)
T ss_pred CCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH---cCCeEEEEeCcH
Confidence 3445667777667899 59999999999998861 379999999999999999888776653 467899999999
Q ss_pred HHHHHHHHHHHHHhcccCceeeEeecCCCCCcccc--cCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhh
Q 011104 182 ELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPI--SKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHM 259 (493)
Q Consensus 182 ~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l 259 (493)
+||.|+++.+.+++...++.+.++.+..+...... .......++|+|+||+.+ . ..+.+.++++|||||+|++
T Consensus 660 eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL----~-~~v~~~~L~lLVIDEahrf 734 (1147)
T PRK10689 660 LLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLL----Q-SDVKWKDLGLLIVDEEHRF 734 (1147)
T ss_pred HHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHH----h-CCCCHhhCCEEEEechhhc
Confidence 99999999999877766777777766655432211 111234689999999643 2 3456789999999999986
Q ss_pred hcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHH
Q 011104 260 LDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVI 339 (493)
Q Consensus 260 ~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 339 (493)
. +. ....++.++ .++|+++||||+.+....+....+.++..+...... ...+.++...+.....+..
T Consensus 735 G----~~--~~e~lk~l~---~~~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p~~--r~~v~~~~~~~~~~~~k~~-- 801 (1147)
T PRK10689 735 G----VR--HKERIKAMR---ADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPAR--RLAVKTFVREYDSLVVREA-- 801 (1147)
T ss_pred c----hh--HHHHHHhcC---CCCcEEEEcCCCCHHHHHHHHhhCCCcEEEecCCCC--CCCceEEEEecCcHHHHHH--
Confidence 3 32 133344443 478999999999888777777777777666543322 2234444444332222221
Q ss_pred HHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC--CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCC
Q 011104 340 RDRIFELGEKMGQTIIFVRTKNSASALHKALKDF--GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQ 417 (493)
Q Consensus 340 ~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~--~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~ 417 (493)
+......+++++|||++++.++.+++.|.+. ++.+..+||+|++.+|.+++..|++|+.+|||||+++++|+|+|
T Consensus 802 ---il~el~r~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIierGIDIP 878 (1147)
T PRK10689 802 ---ILREILRGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIP 878 (1147)
T ss_pred ---HHHHHhcCCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchhhcccccc
Confidence 2222223688999999999999999999987 78999999999999999999999999999999999999999999
Q ss_pred CCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCC-----ccHHHHHHHHHH
Q 011104 418 QVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG-----DDMIIMEKIERY 477 (493)
Q Consensus 418 ~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~-----~~~~~~~~i~~~ 477 (493)
++++||..+... .+..+|+||+||+||.|+.|.|++++... .....++.|+++
T Consensus 879 ~v~~VIi~~ad~-------fglaq~~Qr~GRvGR~g~~g~a~ll~~~~~~~~~~~~~rl~~~~~~ 936 (1147)
T PRK10689 879 TANTIIIERADH-------FGLAQLHQLRGRVGRSHHQAYAWLLTPHPKAMTTDAQKRLEAIASL 936 (1147)
T ss_pred cCCEEEEecCCC-------CCHHHHHHHhhccCCCCCceEEEEEeCCCcccCHHHHHHHHHHHHh
Confidence 999999655442 24556999999999999999999877543 235555666655
No 50
>PRK09401 reverse gyrase; Reviewed
Probab=100.00 E-value=2.4e-43 Score=376.55 Aligned_cols=294 Identities=21% Similarity=0.259 Sum_probs=223.6
Q ss_pred HHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHH
Q 011104 114 GLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRK 193 (493)
Q Consensus 114 ~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~ 193 (493)
-+.+.+|+ .|+++|+.++|.++.| +|++++||||||||. |+++++..+. ..+.+++||+||++|+.|+++.++.
T Consensus 72 ~f~~~~G~-~pt~iQ~~~i~~il~g--~dv~i~ApTGsGKT~-f~l~~~~~l~--~~g~~alIL~PTreLa~Qi~~~l~~ 145 (1176)
T PRK09401 72 FFKKKTGS-KPWSLQRTWAKRLLLG--ESFAIIAPTGVGKTT-FGLVMSLYLA--KKGKKSYIIFPTRLLVEQVVEKLEK 145 (1176)
T ss_pred HHHHhcCC-CCcHHHHHHHHHHHCC--CcEEEEcCCCCCHHH-HHHHHHHHHH--hcCCeEEEEeccHHHHHHHHHHHHH
Confidence 34444688 7999999999999999 999999999999996 4555544443 2477999999999999999999999
Q ss_pred HhcccCceeeEeecCCCCC---cc-cccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhc--------
Q 011104 194 MGKHTGITSECAVPTDSTN---YV-PISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLD-------- 261 (493)
Q Consensus 194 ~~~~~~~~~~~~~~~~~~~---~~-~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~-------- 261 (493)
++...++.+....++.+.. .. .........++|+|+||++|.+++. .+....+++|||||||+++.
T Consensus 146 l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~--~l~~~~~~~lVvDEaD~~L~~~k~id~~ 223 (1176)
T PRK09401 146 FGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFD--ELPKKKFDFVFVDDVDAVLKSSKNIDKL 223 (1176)
T ss_pred HhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHH--hccccccCEEEEEChHHhhhcccchhhH
Confidence 9988887776666654321 11 1111123458999999999999876 45566799999999999985
Q ss_pred --ccCCH-HHHHHHHHHhhhc---------------------CCCeeEEEEeeecChh-HHHHHHHHhccCceeeecccc
Q 011104 262 --EAGFR-DDSLRIMKDIERS---------------------SGHCQVLLFSATFNET-VKNFVTRIVKDYNQLFVKKEE 316 (493)
Q Consensus 262 --~~~~~-~~~~~i~~~~~~~---------------------~~~~q~v~~SAT~~~~-~~~~~~~~~~~~~~~~~~~~~ 316 (493)
.+||. +.+..++..++.. ....|+++||||+++. +.. .++..+..+.+....
T Consensus 224 l~~lGF~~~~i~~i~~~i~~~~~~~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~~~~~~---~l~~~ll~~~v~~~~ 300 (1176)
T PRK09401 224 LYLLGFSEEDIEKAMELIRLKRKYEEIYEKIRELEEKIAELKDKKGVLVVSSATGRPRGNRV---KLFRELLGFEVGSPV 300 (1176)
T ss_pred HHhCCCCHHHHHHHHHhcccccccchhhhHHHHHHHhhhhcccCCceEEEEeCCCCccchHH---HHhhccceEEecCcc
Confidence 26885 5677777665430 1157999999999864 432 223334344455555
Q ss_pred ccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhh---HHHHHHHHHhCCCcEEEecCCCCHHHHHHHH
Q 011104 317 LSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNS---ASALHKALKDFGYEVTTIMGATIQEERDKIV 393 (493)
Q Consensus 317 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~---~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~ 393 (493)
....++.+.++.+. .+...+...+... +.++||||+++.. ++.+++.|+..|+++..+||+| .+.+
T Consensus 301 ~~~rnI~~~yi~~~---~k~~~L~~ll~~l---~~~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l 369 (1176)
T PRK09401 301 FYLRNIVDSYIVDE---DSVEKLVELVKRL---GDGGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----ERKF 369 (1176)
T ss_pred cccCCceEEEEEcc---cHHHHHHHHHHhc---CCCEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHH
Confidence 56677888888766 2333444433322 3579999999887 9999999999999999999999 2345
Q ss_pred HHHHcCCCcEEEE----eCccccCCCCCC-CCEEEEccCCC
Q 011104 394 KEFKDGLTQVLIS----TDVLARGFDQQQ-VNLIVNYDPPV 429 (493)
Q Consensus 394 ~~f~~g~~~vLv~----T~~~~~Gldi~~-v~~Vi~~~~p~ 429 (493)
++|++|+.+|||| |++++||||+|+ +++|||||.|.
T Consensus 370 ~~F~~G~~~VLVatas~tdv~aRGIDiP~~IryVI~y~vP~ 410 (1176)
T PRK09401 370 EKFEEGEVDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPK 410 (1176)
T ss_pred HHHHCCCCCEEEEecCCCCceeecCCCCcceeEEEEeCCCC
Confidence 9999999999999 699999999999 89999999997
No 51
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=100.00 E-value=6.1e-43 Score=358.80 Aligned_cols=327 Identities=22% Similarity=0.260 Sum_probs=238.8
Q ss_pred HHHHHHHHhhCCCCCCchHHHhhhhhhcCCC----CccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHH
Q 011104 109 PELLKGLYVEMKFQKPSKIQAISLPMILTPP----YRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELA 184 (493)
Q Consensus 109 ~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~----~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La 184 (493)
..++..+...++| .||+.|+++|+.++.+. ..+.+++|+||||||++|++|++..+. .+.+++|++||++||
T Consensus 222 ~~~~~~~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~---~g~qvlilaPT~~LA 297 (630)
T TIGR00643 222 EELLTKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE---AGYQVALMAPTEILA 297 (630)
T ss_pred hHHHHHHHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH---cCCcEEEECCHHHHH
Confidence 3555556566899 59999999999998762 136899999999999999999998874 467899999999999
Q ss_pred HHHHHHHHHHhcccCceeeEeecCCCCCcc--cccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcc
Q 011104 185 IQNLEVLRKMGKHTGITSECAVPTDSTNYV--PISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDE 262 (493)
Q Consensus 185 ~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~ 262 (493)
.|+++.+++++..+++.+..++|+...... .......+.++|+|+||+.+.+ .+.+.++++||+||+|++...
T Consensus 298 ~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~-----~~~~~~l~lvVIDEaH~fg~~ 372 (630)
T TIGR00643 298 EQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQE-----KVEFKRLALVIIDEQHRFGVE 372 (630)
T ss_pred HHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhc-----cccccccceEEEechhhccHH
Confidence 999999999998888988888887654321 1122234468999999988753 345788999999999986431
Q ss_pred cCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHH
Q 011104 263 AGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDR 342 (493)
Q Consensus 263 ~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 342 (493)
.+ ..+..... ....+++++||||+.+....+. ...................+.......... ..+...
T Consensus 373 --qr---~~l~~~~~-~~~~~~~l~~SATp~prtl~l~--~~~~l~~~~i~~~p~~r~~i~~~~~~~~~~----~~~~~~ 440 (630)
T TIGR00643 373 --QR---KKLREKGQ-GGFTPHVLVMSATPIPRTLALT--VYGDLDTSIIDELPPGRKPITTVLIKHDEK----DIVYEF 440 (630)
T ss_pred --HH---HHHHHhcc-cCCCCCEEEEeCCCCcHHHHHH--hcCCcceeeeccCCCCCCceEEEEeCcchH----HHHHHH
Confidence 11 12222221 1125689999999766443321 112211111111111112233333322221 233333
Q ss_pred HHHhcccCCcEEEEcCCh--------hhHHHHHHHHHhC--CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCcccc
Q 011104 343 IFELGEKMGQTIIFVRTK--------NSASALHKALKDF--GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLAR 412 (493)
Q Consensus 343 l~~~~~~~~~~lVf~~s~--------~~~~~l~~~L~~~--~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~ 412 (493)
+......+..++|||+.+ ..+..+++.|... ++.+..+||+|++.+|..+++.|++|+.+|||||+++++
T Consensus 441 i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~ 520 (630)
T TIGR00643 441 IEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEV 520 (630)
T ss_pred HHHHHHhCCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECceeec
Confidence 444445578899999976 3466777777753 778999999999999999999999999999999999999
Q ss_pred CCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEee
Q 011104 413 GFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLM 463 (493)
Q Consensus 413 Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~ 463 (493)
|+|+|++++||+++.|. .+...|.||+||+||.|+.|.|++++.
T Consensus 521 GvDiP~v~~VIi~~~~r-------~gls~lhQ~~GRvGR~g~~g~~il~~~ 564 (630)
T TIGR00643 521 GVDVPNATVMVIEDAER-------FGLSQLHQLRGRVGRGDHQSYCLLVYK 564 (630)
T ss_pred CcccCCCcEEEEeCCCc-------CCHHHHHHHhhhcccCCCCcEEEEEEC
Confidence 99999999999999984 356789999999999999999999884
No 52
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=100.00 E-value=7.7e-43 Score=351.75 Aligned_cols=362 Identities=20% Similarity=0.266 Sum_probs=273.8
Q ss_pred CCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC-----CCCCeEEEEcCCH
Q 011104 107 LSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN-----LKAPQALCICPTR 181 (493)
Q Consensus 107 ~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~-----~~~~~~lil~Pt~ 181 (493)
++|.+.+.+.. .|..|||.|.++||.+..| +|+++.||||||||+++.+|++..+... ..+..+|+|+|.|
T Consensus 8 l~~~v~~~~~~--~~~~~t~~Q~~a~~~i~~G--~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLk 83 (814)
T COG1201 8 LDPRVREWFKR--KFTSLTPPQRYAIPEIHSG--ENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLK 83 (814)
T ss_pred cCHHHHHHHHH--hcCCCCHHHHHHHHHHhCC--CceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHH
Confidence 67888888876 3999999999999999999 9999999999999999999999998655 3456899999999
Q ss_pred HHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCcc--CCCCeeEEEEecchhh
Q 011104 182 ELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKL--GFSRLKILVYDEADHM 259 (493)
Q Consensus 182 ~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~--~~~~~~~iVlDEah~l 259 (493)
+|...+.+.+..++..+|+.+..-+|.+.... ..+...+.+||+|+||+.|.-++....+ .+.+++++|+||+|.+
T Consensus 84 ALn~Di~~rL~~~~~~~G~~v~vRhGDT~~~e--r~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVDEiHel 161 (814)
T COG1201 84 ALNNDIRRRLEEPLRELGIEVAVRHGDTPQSE--KQKMLKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHAL 161 (814)
T ss_pred HHHHHHHHHHHHHHHHcCCccceecCCCChHH--hhhccCCCCcEEEeChhHHHHHhcCHHHHHHhcCCcEEEeehhhhh
Confidence 99999999999999999999877777765543 3344456789999999999888766433 5889999999999999
Q ss_pred hcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccC---ceeeeccccccccCceEEEEeCC--ChHH
Q 011104 260 LDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDY---NQLFVKKEELSLESVKQYKVYCP--DELA 334 (493)
Q Consensus 260 ~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~--~~~~ 334 (493)
... --..++.--+.++....++.|.+++|||..+.. . +..|+... ..+..... .....+.-...... ....
T Consensus 162 ~~s-KRG~~Lsl~LeRL~~l~~~~qRIGLSATV~~~~-~-varfL~g~~~~~~Iv~~~~-~k~~~i~v~~p~~~~~~~~~ 237 (814)
T COG1201 162 AES-KRGVQLALSLERLRELAGDFQRIGLSATVGPPE-E-VAKFLVGFGDPCEIVDVSA-AKKLEIKVISPVEDLIYDEE 237 (814)
T ss_pred hcc-ccchhhhhhHHHHHhhCcccEEEeehhccCCHH-H-HHHHhcCCCCceEEEEccc-CCcceEEEEecCCccccccc
Confidence 863 344455555667766666899999999987432 2 34444332 22222111 11111111111111 0011
Q ss_pred HHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCC-CcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccC
Q 011104 335 KVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFG-YEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARG 413 (493)
Q Consensus 335 ~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~-~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~G 413 (493)
........+.+..+....+|||+||+..++.++..|++.+ ..+..+||.++.+.|..+.++|++|+.+++|||..++-|
T Consensus 238 ~~~~~~~~i~~~v~~~~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLELG 317 (814)
T COG1201 238 LWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELG 317 (814)
T ss_pred hhHHHHHHHHHHHhhcCcEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCCceEEEEccchhhc
Confidence 2233444456666667789999999999999999999887 899999999999999999999999999999999999999
Q ss_pred CCCCCCCEEEEccCCCCCCCCCCCCccccccccccccc-CCCcceEEEEeeCCcc-HHHHHHHHHHhCCCceeec
Q 011104 414 FDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGR-FGRKGVVFNLLMDGDD-MIIMEKIERYFDIKVTEVQ 486 (493)
Q Consensus 414 ldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R-~g~~g~~i~l~~~~~~-~~~~~~i~~~~~~~~~~~~ 486 (493)
||+.+++.||+|+.| .++..++||+||+|+ .|...+.+.+..+.++ ....-.....+.-+++.++
T Consensus 318 IDiG~vdlVIq~~SP--------~sV~r~lQRiGRsgHr~~~~Skg~ii~~~r~dllE~~vi~~~a~~g~le~~~ 384 (814)
T COG1201 318 IDIGDIDLVIQLGSP--------KSVNRFLQRIGRAGHRLGEVSKGIIIAEDRDDLLECLVLADLALEGKLERIK 384 (814)
T ss_pred cccCCceEEEEeCCc--------HHHHHHhHhccccccccCCcccEEEEecCHHHHHHHHHHHHHHHhCCcccCC
Confidence 999999999999999 899999999999996 4555666766654322 2222334444554554443
No 53
>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=1.1e-42 Score=359.62 Aligned_cols=325 Identities=15% Similarity=0.249 Sum_probs=236.3
Q ss_pred hhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHH-HHhcccCceeeEeecCCCC
Q 011104 133 PMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLR-KMGKHTGITSECAVPTDST 211 (493)
Q Consensus 133 ~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~-~~~~~~~~~~~~~~~~~~~ 211 (493)
..+..+ ++++++|+||||||++|.++++.... .+++++|+.|||++|.|+++.+. .++...+..+.+.+....
T Consensus 12 ~~l~~~--~~vIi~a~TGSGKTT~vpl~lL~~~~---~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g~~VGy~vr~~~- 85 (819)
T TIGR01970 12 DALAAH--PQVVLEAPPGAGKSTAVPLALLDAPG---IGGKIIMLEPRRLAARSAAQRLASQLGEAVGQTVGYRVRGEN- 85 (819)
T ss_pred HHHHcC--CcEEEECCCCCCHHHHHHHHHHHhhc---cCCeEEEEeCcHHHHHHHHHHHHHHhCCCcCcEEEEEEcccc-
Confidence 334445 89999999999999999999998762 35689999999999999999875 455555666665554432
Q ss_pred CcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchh-hhcccCCHHH-HHHHHHHhhhcCCCeeEEEEe
Q 011104 212 NYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADH-MLDEAGFRDD-SLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 212 ~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~-l~~~~~~~~~-~~~i~~~~~~~~~~~q~v~~S 289 (493)
.....++|+|+|||+|++++..+ ..+.++++|||||+|+ +++ ..+.-. +..+...+ +++.|+++||
T Consensus 86 -------~~s~~t~I~v~T~G~Llr~l~~d-~~L~~v~~VIiDEaHER~L~-~Dl~L~ll~~i~~~l---r~dlqlIlmS 153 (819)
T TIGR01970 86 -------KVSRRTRLEVVTEGILTRMIQDD-PELDGVGALIFDEFHERSLD-ADLGLALALDVQSSL---REDLKILAMS 153 (819)
T ss_pred -------ccCCCCcEEEECCcHHHHHHhhC-cccccCCEEEEeccchhhhc-cchHHHHHHHHHHhc---CCCceEEEEe
Confidence 22335789999999999999875 4689999999999995 454 334322 22233333 3478999999
Q ss_pred eecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHh-cccCCcEEEEcCChhhHHHHHH
Q 011104 290 ATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFEL-GEKMGQTIIFVRTKNSASALHK 368 (493)
Q Consensus 290 AT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~~~~~~~lVf~~s~~~~~~l~~ 368 (493)
||++... +..++.++..+....... .+.++|............+...+... ....+.+|||++++.+++.++.
T Consensus 154 ATl~~~~---l~~~l~~~~vI~~~gr~~---pVe~~y~~~~~~~~~~~~v~~~l~~~l~~~~g~iLVFlpg~~eI~~l~~ 227 (819)
T TIGR01970 154 ATLDGER---LSSLLPDAPVVESEGRSF---PVEIRYLPLRGDQRLEDAVSRAVEHALASETGSILVFLPGQAEIRRVQE 227 (819)
T ss_pred CCCCHHH---HHHHcCCCcEEEecCcce---eeeeEEeecchhhhHHHHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHH
Confidence 9998764 355666555554433322 35555655543322111111112211 1235889999999999999999
Q ss_pred HHHh---CCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCC----------C
Q 011104 369 ALKD---FGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKH----------L 435 (493)
Q Consensus 369 ~L~~---~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~----------~ 435 (493)
.|.+ .++.+.++||+|++.+|.++++.|++|..+|||||+++++|||||+|++|||++.|...... .
T Consensus 228 ~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATnIAErgItIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~ 307 (819)
T TIGR01970 228 QLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLETV 307 (819)
T ss_pred HHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccCCeEEEEecchHhhcccccCceEEEEcCcccccccccccCCceeeEE
Confidence 9987 47899999999999999999999999999999999999999999999999999998643211 1
Q ss_pred CCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeec
Q 011104 436 EPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQ 486 (493)
Q Consensus 436 ~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~ 486 (493)
+.|..+|.||+||+||. ++|.||.|++..+ ...+.++...+|.+.+
T Consensus 308 ~iSkasa~QR~GRAGR~-~~G~cyrL~t~~~----~~~l~~~~~PEI~r~~ 353 (819)
T TIGR01970 308 RISQASATQRAGRAGRL-EPGVCYRLWSEEQ----HQRLPAQDEPEILQAD 353 (819)
T ss_pred EECHHHHHhhhhhcCCC-CCCEEEEeCCHHH----HHhhhcCCCcceeccC
Confidence 23556789999999999 7999999997532 2345555555554443
No 54
>PHA02653 RNA helicase NPH-II; Provisional
Probab=100.00 E-value=6.5e-43 Score=352.80 Aligned_cols=317 Identities=16% Similarity=0.164 Sum_probs=231.1
Q ss_pred hHHHhhhhhhcCCCCccEEEeccCCCchhHH---------hHHHHHhccC---CCCCCCeEEEEcCCHHHHHHHHHHHHH
Q 011104 126 KIQAISLPMILTPPYRNLIAQARNGSGKTTC---------FVLGMLSRVD---PNLKAPQALCICPTRELAIQNLEVLRK 193 (493)
Q Consensus 126 ~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~---------~~~~~l~~l~---~~~~~~~~lil~Pt~~La~q~~~~~~~ 193 (493)
.+|.++++.++.| ++++++|+||||||.+ |++|.+..+. ......+++|++|||+||.|+...+.+
T Consensus 167 ~iQ~qil~~i~~g--kdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~ 244 (675)
T PHA02653 167 DVQLKIFEAWISR--KPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLK 244 (675)
T ss_pred HHHHHHHHHHHhC--CCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHH
Confidence 5899999999999 9999999999999997 4444554432 233456899999999999999998877
Q ss_pred Hhcc---cCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHH
Q 011104 194 MGKH---TGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSL 270 (493)
Q Consensus 194 ~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~ 270 (493)
..+. .+..+...+|+.... .........+|+|+|++... ..+.++++|||||||++... .+.+.
T Consensus 245 ~vg~~~~~g~~v~v~~Gg~~~~---~~~t~~k~~~Ilv~T~~L~l-------~~L~~v~~VVIDEaHEr~~~---~DllL 311 (675)
T PHA02653 245 SLGFDEIDGSPISLKYGSIPDE---LINTNPKPYGLVFSTHKLTL-------NKLFDYGTVIIDEVHEHDQI---GDIII 311 (675)
T ss_pred HhCccccCCceEEEEECCcchH---HhhcccCCCCEEEEeCcccc-------cccccCCEEEccccccCccc---hhHHH
Confidence 6544 244455566665421 11111225689999976311 24788999999999998763 35556
Q ss_pred HHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCC---------hHHHHHHHHH
Q 011104 271 RIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD---------ELAKVMVIRD 341 (493)
Q Consensus 271 ~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~l~~ 341 (493)
.+++.+... .+|+++||||++.++..+ ..++.++..+.+.. .....+.+++..... ...+. .+..
T Consensus 312 ~llk~~~~~--~rq~ILmSATl~~dv~~l-~~~~~~p~~I~I~g--rt~~pV~~~yi~~~~~~~~~~~y~~~~k~-~~l~ 385 (675)
T PHA02653 312 AVARKHIDK--IRSLFLMTATLEDDRDRI-KEFFPNPAFVHIPG--GTLFPISEVYVKNKYNPKNKRAYIEEEKK-NIVT 385 (675)
T ss_pred HHHHHhhhh--cCEEEEEccCCcHhHHHH-HHHhcCCcEEEeCC--CcCCCeEEEEeecCcccccchhhhHHHHH-HHHH
Confidence 666544332 348999999999888765 67888887776643 233456666654321 11111 1222
Q ss_pred HHHHhc-ccCCcEEEEcCChhhHHHHHHHHHhC--CCcEEEecCCCCHHHHHHHHHHH-HcCCCcEEEEeCccccCCCCC
Q 011104 342 RIFELG-EKMGQTIIFVRTKNSASALHKALKDF--GYEVTTIMGATIQEERDKIVKEF-KDGLTQVLISTDVLARGFDQQ 417 (493)
Q Consensus 342 ~l~~~~-~~~~~~lVf~~s~~~~~~l~~~L~~~--~~~~~~l~~~~~~~~r~~~~~~f-~~g~~~vLv~T~~~~~Gldi~ 417 (493)
.+.... ...+.+|||++++.+++.+++.|... ++.+.++||+|++. .+.++.| ++|+.+|||||++++||||+|
T Consensus 386 ~L~~~~~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq~--eq~l~~ff~~gk~kILVATdIAERGIDIp 463 (675)
T PHA02653 386 ALKKYTPPKGSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPNI--DEILEKVYSSKNPSIIISTPYLESSVTIR 463 (675)
T ss_pred HHHHhhcccCCcEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCHH--HHHHHHHhccCceeEEeccChhhcccccc
Confidence 233222 23578999999999999999999987 79999999999975 4667777 689999999999999999999
Q ss_pred CCCEEEEcc---CCC-CCCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 418 QVNLIVNYD---PPV-KHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 418 ~v~~Vi~~~---~p~-~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
+|++||++| .|. ......+.|.++|.||+|||||. ++|.|+.|+++.+
T Consensus 464 ~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~-~~G~c~rLyt~~~ 515 (675)
T PHA02653 464 NATHVYDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRV-SPGTYVYFYDLDL 515 (675)
T ss_pred CeeEEEECCCccCCCcccCcccccCHHHHHHhccCcCCC-CCCeEEEEECHHH
Confidence 999999999 442 11112234888999999999999 7999999998664
No 55
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=100.00 E-value=2.4e-42 Score=357.89 Aligned_cols=309 Identities=17% Similarity=0.229 Sum_probs=227.9
Q ss_pred hhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHH-HHhcccCceeeEeecCCCC
Q 011104 133 PMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLR-KMGKHTGITSECAVPTDST 211 (493)
Q Consensus 133 ~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~-~~~~~~~~~~~~~~~~~~~ 211 (493)
..+..+ ++++++|+||||||++|.+++++.... .++++|++|||++|.|+++.+. .++...+..+.+.+++...
T Consensus 15 ~~l~~~--~~vvv~A~TGSGKTt~~pl~lL~~~~~---~~~ilvlqPrR~aA~qia~rva~~l~~~~g~~VGy~vr~~~~ 89 (812)
T PRK11664 15 TALKTA--PQVLLKAPTGAGKSTWLPLQLLQHGGI---NGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVGYRMRAESK 89 (812)
T ss_pred HHHHhC--CCEEEEcCCCCCHHHHHHHHHHHcCCc---CCeEEEECChHHHHHHHHHHHHHHhCcccCceEEEEecCccc
Confidence 334445 899999999999999999999976432 3489999999999999999875 4555566666666654422
Q ss_pred CcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCH-HHHHHHHHHhhhcCCCeeEEEEee
Q 011104 212 NYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFR-DDSLRIMKDIERSSGHCQVLLFSA 290 (493)
Q Consensus 212 ~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~-~~~~~i~~~~~~~~~~~q~v~~SA 290 (493)
....++|+|+|||+|++++..+ ..+.++++|||||+|+..-...+. ..+..+++. .+++.|+++|||
T Consensus 90 --------~~~~t~I~v~T~G~Llr~l~~d-~~L~~v~~IIlDEaHER~l~~Dl~L~ll~~i~~~---lr~~lqlilmSA 157 (812)
T PRK11664 90 --------VGPNTRLEVVTEGILTRMIQRD-PELSGVGLVILDEFHERSLQADLALALLLDVQQG---LRDDLKLLIMSA 157 (812)
T ss_pred --------cCCCCcEEEEChhHHHHHHhhC-CCcCcCcEEEEcCCCccccccchHHHHHHHHHHh---CCccceEEEEec
Confidence 2234689999999999998875 468999999999999743212221 112223222 344789999999
Q ss_pred ecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhc-ccCCcEEEEcCChhhHHHHHHH
Q 011104 291 TFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELG-EKMGQTIIFVRTKNSASALHKA 369 (493)
Q Consensus 291 T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~~~~~lVf~~s~~~~~~l~~~ 369 (493)
|++... +..++.++..+...... ..+.++|...+........+...+.... ...+.+|||++++.+++.+++.
T Consensus 158 Tl~~~~---l~~~~~~~~~I~~~gr~---~pV~~~y~~~~~~~~~~~~v~~~l~~~l~~~~g~iLVFlpg~~ei~~l~~~ 231 (812)
T PRK11664 158 TLDNDR---LQQLLPDAPVIVSEGRS---FPVERRYQPLPAHQRFDEAVARATAELLRQESGSLLLFLPGVGEIQRVQEQ 231 (812)
T ss_pred CCCHHH---HHHhcCCCCEEEecCcc---ccceEEeccCchhhhHHHHHHHHHHHHHHhCCCCEEEEcCCHHHHHHHHHH
Confidence 998653 34566555555443322 2356666555433222112111222222 2368999999999999999999
Q ss_pred HHh---CCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCC----------CC
Q 011104 370 LKD---FGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKH----------LE 436 (493)
Q Consensus 370 L~~---~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~----------~~ 436 (493)
|.. .++.+..+||+|++.+|.+++..|++|..+|||||+++++|||||+|++|||++.+.....+ .+
T Consensus 232 L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvATnIAErsLtIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~ 311 (812)
T PRK11664 232 LASRVASDVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQR 311 (812)
T ss_pred HHHhccCCceEEEeeCCCCHHHHHHHhccccCCCeEEEEecchHHhcccccCceEEEECCCcccccccccCCcceeEEEe
Confidence 987 57899999999999999999999999999999999999999999999999999888543221 12
Q ss_pred CCcccccccccccccCCCcceEEEEeeCC
Q 011104 437 PDCEVYLHRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 437 ~s~~~y~qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
.|..+|.||+||+||. .+|.||.|+++.
T Consensus 312 iSkasa~QR~GRaGR~-~~G~cyrL~t~~ 339 (812)
T PRK11664 312 ISQASMTQRAGRAGRL-EPGICLHLYSKE 339 (812)
T ss_pred echhhhhhhccccCCC-CCcEEEEecCHH
Confidence 3557899999999999 699999999853
No 56
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.2e-43 Score=338.96 Aligned_cols=338 Identities=19% Similarity=0.226 Sum_probs=258.6
Q ss_pred HHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHH
Q 011104 113 KGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLR 192 (493)
Q Consensus 113 ~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~ 192 (493)
..|...+|+..+.+-|..+|..++.| +|+++..|||+||++||.+|++-. .+.+|||+|..+|.....+.++
T Consensus 7 ~~L~~~fGy~~FR~gQ~evI~~~l~g--~d~lvvmPTGgGKSlCyQiPAll~------~G~TLVVSPLiSLM~DQV~~l~ 78 (590)
T COG0514 7 QVLKQVFGYASFRPGQQEIIDALLSG--KDTLVVMPTGGGKSLCYQIPALLL------EGLTLVVSPLISLMKDQVDQLE 78 (590)
T ss_pred HHHHHHhCccccCCCHHHHHHHHHcC--CcEEEEccCCCCcchHhhhHHHhc------CCCEEEECchHHHHHHHHHHHH
Confidence 44666689999999999999999999 999999999999999999999854 4479999999999999999888
Q ss_pred HHhcccCceeeEeecCCCCCc--ccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcc-cCCHHHH
Q 011104 193 KMGKHTGITSECAVPTDSTNY--VPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDE-AGFRDDS 269 (493)
Q Consensus 193 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~-~~~~~~~ 269 (493)
..+ +...++....+... ...........++++-+|++|..-.-.+.+.-..+.++||||||++..+ +.|++.+
T Consensus 79 ~~G----i~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y 154 (590)
T COG0514 79 AAG----IRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDY 154 (590)
T ss_pred HcC----ceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcChHHHHHHHhCCCceEEechHHHHhhcCCccCHhH
Confidence 876 33333333322211 1222233445789999999985432222333456889999999999986 2499998
Q ss_pred HHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCc-eeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcc
Q 011104 270 LRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYN-QLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGE 348 (493)
Q Consensus 270 ~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~ 348 (493)
..+-......+ +.+++++|||.++.+...+...+..-. .++.. ....+++.-..........+...+.+ ....
T Consensus 155 ~~lg~l~~~~~-~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~--sfdRpNi~~~v~~~~~~~~q~~fi~~---~~~~ 228 (590)
T COG0514 155 RRLGRLRAGLP-NPPVLALTATATPRVRDDIREQLGLQDANIFRG--SFDRPNLALKVVEKGEPSDQLAFLAT---VLPQ 228 (590)
T ss_pred HHHHHHHhhCC-CCCEEEEeCCCChHHHHHHHHHhcCCCcceEEe--cCCCchhhhhhhhcccHHHHHHHHHh---hccc
Confidence 88766555544 889999999999999887777655322 12211 12222222222222222333332221 1234
Q ss_pred cCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCC
Q 011104 349 KMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPP 428 (493)
Q Consensus 349 ~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p 428 (493)
..+..||||.|++.++.+++.|...|+.+..||++|+..+|..+.+.|.+++..|+|||.++++|||-|+|++||||++|
T Consensus 229 ~~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~lP 308 (590)
T COG0514 229 LSKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYDLP 308 (590)
T ss_pred cCCCeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCCCcEEEEeccccCccCCCCceEEEEecCC
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHH
Q 011104 429 VKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIER 476 (493)
Q Consensus 429 ~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~ 476 (493)
.|++.|.|-+|||||.|.+..|++||.+.|.......++.
T Consensus 309 --------~s~EsYyQE~GRAGRDG~~a~aill~~~~D~~~~~~~i~~ 348 (590)
T COG0514 309 --------GSIESYYQETGRAGRDGLPAEAILLYSPEDIRWQRYLIEQ 348 (590)
T ss_pred --------CCHHHHHHHHhhccCCCCcceEEEeeccccHHHHHHHHHh
Confidence 9999999999999999999999999998764443333433
No 57
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=100.00 E-value=1.5e-41 Score=363.45 Aligned_cols=328 Identities=18% Similarity=0.213 Sum_probs=228.4
Q ss_pred EeccCCCchhHHhHHHHHhccCCC----------CCCCeEEEEcCCHHHHHHHHHHHHHHh------------cccCcee
Q 011104 145 AQARNGSGKTTCFVLGMLSRVDPN----------LKAPQALCICPTRELAIQNLEVLRKMG------------KHTGITS 202 (493)
Q Consensus 145 v~a~TGsGKT~~~~~~~l~~l~~~----------~~~~~~lil~Pt~~La~q~~~~~~~~~------------~~~~~~~ 202 (493)
|+||||||||++|.+|++..+... .++.++|||+|+++|+.|+.+.++... ...++.+
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 579999999999999999888532 235789999999999999999886521 1245677
Q ss_pred eEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCc-cCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhc-C
Q 011104 203 ECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKK-LGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERS-S 280 (493)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~-~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~-~ 280 (493)
...+|+....... +.....++|+|+||++|..++.+.. ..++++++|||||+|.+.+. .+..++...+..+... .
T Consensus 81 ~vrtGDt~~~eR~--rll~~ppdILVTTPEsL~~LLtsk~r~~L~~Vr~VIVDE~H~L~g~-kRG~~Lel~LeRL~~l~~ 157 (1490)
T PRK09751 81 GIRTGDTPAQERS--KLTRNPPDILITTPESLYLMLTSRARETLRGVETVIIDEVHAVAGS-KRGAHLALSLERLDALLH 157 (1490)
T ss_pred EEEECCCCHHHHH--HHhcCCCCEEEecHHHHHHHHhhhhhhhhccCCEEEEecHHHhccc-ccccHHHHHHHHHHHhCC
Confidence 7777766544321 1223468999999999998876542 35899999999999999863 3334444444444332 2
Q ss_pred CCeeEEEEeeecChhHHHHHHHHhc--cCceeeeccccccccCceEEEEeCCChH-------------------HHHHHH
Q 011104 281 GHCQVLLFSATFNETVKNFVTRIVK--DYNQLFVKKEELSLESVKQYKVYCPDEL-------------------AKVMVI 339 (493)
Q Consensus 281 ~~~q~v~~SAT~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~l 339 (493)
.+.|+|++|||+++. ..+. .++. .+..+.. ........+. ..+...+.. .....+
T Consensus 158 ~~~QrIgLSATI~n~-eevA-~~L~g~~pv~Iv~-~~~~r~~~l~-v~vp~~d~~~~~~~~~~~~~~~~~~r~~~i~~~v 233 (1490)
T PRK09751 158 TSAQRIGLSATVRSA-SDVA-AFLGGDRPVTVVN-PPAMRHPQIR-IVVPVANMDDVSSVASGTGEDSHAGREGSIWPYI 233 (1490)
T ss_pred CCCeEEEEEeeCCCH-HHHH-HHhcCCCCEEEEC-CCCCcccceE-EEEecCchhhccccccccccccchhhhhhhhHHH
Confidence 368999999999863 4433 4443 2333332 2121111222 112211100 000111
Q ss_pred HHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCC---------------------------------CcEEEecCCCCH
Q 011104 340 RDRIFELGEKMGQTIIFVRTKNSASALHKALKDFG---------------------------------YEVTTIMGATIQ 386 (493)
Q Consensus 340 ~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~---------------------------------~~~~~l~~~~~~ 386 (493)
...+........++||||||+..|+.++..|++.. +.+..+||+|++
T Consensus 234 ~~~il~~i~~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSk 313 (1490)
T PRK09751 234 ETGILDEVLRHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSK 313 (1490)
T ss_pred HHHHHHHHhcCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCH
Confidence 11223323346789999999999999999997641 126789999999
Q ss_pred HHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 387 EERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 387 ~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
++|..+++.|++|..++||||+.+++|||++++++||+|+.| .++.+|+||+||+||. ..|.+..++.+.+
T Consensus 314 eeR~~IE~~fK~G~LrvLVATssLELGIDIg~VDlVIq~gsP--------~sVas~LQRiGRAGR~-~gg~s~gli~p~~ 384 (1490)
T PRK09751 314 EQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATP--------LSVASGLQRIGRAGHQ-VGGVSKGLFFPRT 384 (1490)
T ss_pred HHHHHHHHHHHhCCceEEEeCcHHHccCCcccCCEEEEeCCC--------CCHHHHHHHhCCCCCC-CCCccEEEEEeCc
Confidence 999999999999999999999999999999999999999999 8999999999999996 3344433344444
Q ss_pred cHHHHH---HHHHHhCCCceeecCc
Q 011104 467 DMIIME---KIERYFDIKVTEVQTC 488 (493)
Q Consensus 467 ~~~~~~---~i~~~~~~~~~~~~~~ 488 (493)
...+++ .++.++.-.++.+...
T Consensus 385 r~dlle~~~~ve~~l~g~iE~~~~p 409 (1490)
T PRK09751 385 RRDLVDSAVIVECMFAGRLENLTPP 409 (1490)
T ss_pred HHHHHhhHHHHHHHhcCCCCccCCC
Confidence 333333 4778888888876554
No 58
>PRK14701 reverse gyrase; Provisional
Probab=100.00 E-value=3e-40 Score=359.78 Aligned_cols=348 Identities=20% Similarity=0.241 Sum_probs=253.9
Q ss_pred HHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHH
Q 011104 110 ELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLE 189 (493)
Q Consensus 110 ~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~ 189 (493)
++.+.+.+.+|| .|+++|+.++|.++.| +|+++.||||||||++++++++... .++.++|||+||++|+.|+++
T Consensus 67 ~~~~~f~~~~G~-~pt~iQ~~~i~~il~G--~d~li~APTGsGKTl~~~~~al~~~---~~g~~aLVl~PTreLa~Qi~~ 140 (1638)
T PRK14701 67 EFEEFFEKITGF-EFWSIQKTWAKRILRG--KSFSIVAPTGMGKSTFGAFIALFLA---LKGKKCYIILPTTLLVKQTVE 140 (1638)
T ss_pred HHHHHHHHhhCC-CCCHHHHHHHHHHHcC--CCEEEEEcCCCCHHHHHHHHHHHHH---hcCCeEEEEECHHHHHHHHHH
Confidence 344445545899 5999999999999999 9999999999999997666655432 246689999999999999999
Q ss_pred HHHHHhcccC--ceeeEeecCCCCCccc--ccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcc---
Q 011104 190 VLRKMGKHTG--ITSECAVPTDSTNYVP--ISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDE--- 262 (493)
Q Consensus 190 ~~~~~~~~~~--~~~~~~~~~~~~~~~~--~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~--- 262 (493)
.++.++...+ +.+.+.+++.+..... ......+.++|+|+||++|.+++... . ..++++|||||||+|+.+
T Consensus 141 ~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~l-~-~~~i~~iVVDEAD~ml~~~kn 218 (1638)
T PRK14701 141 KIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFPEM-K-HLKFDFIFVDDVDAFLKASKN 218 (1638)
T ss_pred HHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHHH-h-hCCCCEEEEECceeccccccc
Confidence 9999887654 4444555554433211 11122345899999999998876542 2 267899999999999752
Q ss_pred -------cCCHHHHHH----HHHH-------------------hhhcCCCee-EEEEeeecChhHHHHHHHHhccCceee
Q 011104 263 -------AGFRDDSLR----IMKD-------------------IERSSGHCQ-VLLFSATFNETVKNFVTRIVKDYNQLF 311 (493)
Q Consensus 263 -------~~~~~~~~~----i~~~-------------------~~~~~~~~q-~v~~SAT~~~~~~~~~~~~~~~~~~~~ 311 (493)
+||.+.+.. ++.. +...+...| ++++|||+++... ...++..+..+.
T Consensus 219 id~~L~llGF~~e~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ll~~SAT~~~r~~--~~~l~~~~l~f~ 296 (1638)
T PRK14701 219 IDRSLQLLGFYEEIIEKAWKIIYLKKQGNIEDAMEKREILNKEIEKIGNKIGCLIVASATGKAKGD--RVKLYRELLGFE 296 (1638)
T ss_pred cchhhhcCCChHHHHHHHHHhhhcccccccchhhhhhhhhhhhhhhcCCCccEEEEEecCCCchhH--HHHHhhcCeEEE
Confidence 589887764 3220 001122344 6789999986311 123345555666
Q ss_pred eccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhh---HHHHHHHHHhCCCcEEEecCCCCHHH
Q 011104 312 VKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNS---ASALHKALKDFGYEVTTIMGATIQEE 388 (493)
Q Consensus 312 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~---~~~l~~~L~~~~~~~~~l~~~~~~~~ 388 (493)
+.........+.+.++...... + ..+...+... +..+||||++++. |+.+++.|...|+++..+||+
T Consensus 297 v~~~~~~lr~i~~~yi~~~~~~-k-~~L~~ll~~~---g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~----- 366 (1638)
T PRK14701 297 VGSGRSALRNIVDVYLNPEKII-K-EHVRELLKKL---GKGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK----- 366 (1638)
T ss_pred ecCCCCCCCCcEEEEEECCHHH-H-HHHHHHHHhC---CCCeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----
Confidence 6666666778888887665332 2 3444433332 3679999999875 589999999999999999995
Q ss_pred HHHHHHHHHcCCCcEEEEe----CccccCCCCCC-CCEEEEccCCCCC---C----------------------------
Q 011104 389 RDKIVKEFKDGLTQVLIST----DVLARGFDQQQ-VNLIVNYDPPVKH---G---------------------------- 432 (493)
Q Consensus 389 r~~~~~~f~~g~~~vLv~T----~~~~~Gldi~~-v~~Vi~~~~p~~~---~---------------------------- 432 (493)
|...++.|++|+..||||| ++++||||+|+ |++|||||.|... .
T Consensus 367 R~~~l~~F~~G~~~VLVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 367 NKKGFDLFEEGEIDYLIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred HHHHHHHHHcCCCCEEEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 8899999999999999999 58999999999 9999999999800 0
Q ss_pred -------------------------------------------CCCCCCcccccccccccccC--C--CcceEEEEeeCC
Q 011104 433 -------------------------------------------KHLEPDCEVYLHRIGRAGRF--G--RKGVVFNLLMDG 465 (493)
Q Consensus 433 -------------------------------------------~~~~~s~~~y~qr~GR~~R~--g--~~g~~i~l~~~~ 465 (493)
..+.+++.+|+|..|||.|. | ..|.+++|+.
T Consensus 447 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~pd~~tyiqasgrtsrl~~gg~tkgls~~~~d-- 524 (1638)
T PRK14701 447 IEGVLDVFPEDVEFLRSILKDEEVIKKVAERPFVSLKKEEGKYYIEIPDVRTYIQASGRTSRLFAGGITKGASVLIVD-- 524 (1638)
T ss_pred chhHHHhHHHHHHHHHHHhccHHHHHHhhcccceEEEEeCCeEEEEecCcccceeccchhhhccCCCcCCceEEEEec--
Confidence 01236888999999999993 3 3677887774
Q ss_pred ccHHHHHHHHHHhCC
Q 011104 466 DDMIIMEKIERYFDI 480 (493)
Q Consensus 466 ~~~~~~~~i~~~~~~ 480 (493)
+...+..+.+.+..
T Consensus 525 -~~~~~~~l~~~~~~ 538 (1638)
T PRK14701 525 -DPEIFNALIRQMRF 538 (1638)
T ss_pred -CHHHHHHHHHHHhh
Confidence 45566666666653
No 59
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=100.00 E-value=1.7e-41 Score=307.19 Aligned_cols=304 Identities=28% Similarity=0.389 Sum_probs=232.4
Q ss_pred CCeEEEEcCCHHHHHHHHHHHHHHhcccC---ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCC
Q 011104 171 APQALCICPTRELAIQNLEVLRKMGKHTG---ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSR 247 (493)
Q Consensus 171 ~~~~lil~Pt~~La~q~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~ 247 (493)
.+.++|+-|+|+|+.|.+..+.++-.++. ++...++++.... ........+.+|+|+||+||.+.+..+.+.++.
T Consensus 286 ap~avivepsrelaEqt~N~i~~Fk~h~~np~~r~lLmiggv~~r--~Q~~ql~~g~~ivvGtpgRl~~~is~g~~~lt~ 363 (725)
T KOG0349|consen 286 APEAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIGGVLKR--TQCKQLKDGTHIVVGTPGRLLQPISKGLVTLTH 363 (725)
T ss_pred CcceeEecCcHHHHHHHHhhHHHHHhhcCChhhhhhhhhhhHHhH--HHHHHhhcCceeeecCchhhhhhhhccceeeee
Confidence 45689999999999999998877765542 3333444443322 233344567899999999999999999999999
Q ss_pred eeEEEEecchhhhcccCCHHHHHHHHHHhhhcC---CCeeEEEEeeecCh-hHHHHHHHHhccCceeeeccccccccCce
Q 011104 248 LKILVYDEADHMLDEAGFRDDSLRIMKDIERSS---GHCQVLLFSATFNE-TVKNFVTRIVKDYNQLFVKKEELSLESVK 323 (493)
Q Consensus 248 ~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~---~~~q~v~~SAT~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 323 (493)
++++|+||||.++.+ ++.+.+..+...++... ...|.+++|||+.. ++.....+.+.-|.++....+..-+..+.
T Consensus 364 crFlvlDead~lL~q-gy~d~I~r~h~qip~~tsdg~rlq~~vCsatlh~feVkk~~ervmhfptwVdLkgeD~vpetvH 442 (725)
T KOG0349|consen 364 CRFLVLDEADLLLGQ-GYDDKIYRFHGQIPHMTSDGFRLQSPVCSATLHIFEVKKVGERVMHFPTWVDLKGEDLVPETVH 442 (725)
T ss_pred eEEEEecchhhhhhc-ccHHHHHHHhccchhhhcCCcccccceeeeEEeEEEeeehhhhhccCceeEecccccccchhhc
Confidence 999999999999984 88888888887776543 35799999999863 45555666777777777776666555555
Q ss_pred EEEEeCCCh-HHHHHHHHH----------------------------H-------HHHhcccCCcEEEEcCChhhHHHHH
Q 011104 324 QYKVYCPDE-LAKVMVIRD----------------------------R-------IFELGEKMGQTIIFVRTKNSASALH 367 (493)
Q Consensus 324 ~~~~~~~~~-~~~~~~l~~----------------------------~-------l~~~~~~~~~~lVf~~s~~~~~~l~ 367 (493)
+....+... ......+.+ . ..-......++||||.++..|+.|.
T Consensus 443 hvv~lv~p~~d~sw~~lr~~i~td~vh~kdn~~pg~~Spe~~s~a~kilkgEy~v~ai~~h~mdkaiifcrtk~dcDnLe 522 (725)
T KOG0349|consen 443 HVVKLVCPSVDGSWCDLRQFIETDKVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIRRHAMDKAIIFCRTKQDCDNLE 522 (725)
T ss_pred cceeecCCccCccHHHHhhhhccCCcccccccccccCCCCChhhhhHHhcCchhhhhhhhhccCceEEEEeccccchHHH
Confidence 544332211 000000000 0 0001112468999999999999999
Q ss_pred HHHHhCC---CcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccc
Q 011104 368 KALKDFG---YEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLH 444 (493)
Q Consensus 368 ~~L~~~~---~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~q 444 (493)
++|++.| +.|.++||+..+.+|...++.|+.+.+++|||||+++|||||.++-++||..+| .....|+|
T Consensus 523 r~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~dvkflictdvaargldi~g~p~~invtlp--------d~k~nyvh 594 (725)
T KOG0349|consen 523 RMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDITGLPFMINVTLP--------DDKTNYVH 594 (725)
T ss_pred HHHHHcCCccceeEEEecCCChhHHHHHHHhhhhcCeEEEEEehhhhccccccCCceEEEEecC--------cccchhhh
Confidence 9998764 689999999999999999999999999999999999999999999999999999 67788999
Q ss_pred cccccccCCCcceEEEEeeCC-------------------------------ccHHHHHHHHHHhCCCceee
Q 011104 445 RIGRAGRFGRKGVVFNLLMDG-------------------------------DDMIIMEKIERYFDIKVTEV 485 (493)
Q Consensus 445 r~GR~~R~g~~g~~i~l~~~~-------------------------------~~~~~~~~i~~~~~~~~~~~ 485 (493)
||||+||+.+.|.+|+++... .++..+..++..+++.|..+
T Consensus 595 rigrvgraermglaislvat~~ekvwyh~c~srgr~c~nt~l~e~~gc~iwyne~~llaeve~hln~ti~qv 666 (725)
T KOG0349|consen 595 RIGRVGRAERMGLAISLVATVPEKVWYHWCKSRGRSCNNTNLTEVRGCCIWYNEPNLLAEVEDHLNITIQQV 666 (725)
T ss_pred hhhccchhhhcceeEEEeeccchheeehhhhccCCcccCCccccccceEEEeCchhHHHHHHHhhcceeeee
Confidence 999999999999999887532 14667777888888777654
No 60
>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=100.00 E-value=4e-40 Score=352.49 Aligned_cols=297 Identities=21% Similarity=0.233 Sum_probs=217.2
Q ss_pred HHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHH
Q 011104 111 LLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEV 190 (493)
Q Consensus 111 ~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~ 190 (493)
+.+.+....|+ .|+++|+.++|.++.| +|++++||||||||+ |.+|+...+.. .+++++||+||++||.|+++.
T Consensus 67 f~~~f~~~~g~-~p~~iQ~~~i~~il~G--~d~vi~ApTGsGKT~-f~l~~~~~l~~--~g~~vLIL~PTreLa~Qi~~~ 140 (1171)
T TIGR01054 67 FEEFFKKAVGS-EPWSIQKMWAKRVLRG--DSFAIIAPTGVGKTT-FGLAMSLFLAK--KGKRCYIILPTTLLVIQVAEK 140 (1171)
T ss_pred HHHHHHHhcCC-CCcHHHHHHHHHHhCC--CeEEEECCCCCCHHH-HHHHHHHHHHh--cCCeEEEEeCHHHHHHHHHHH
Confidence 34444443454 6999999999999999 999999999999997 56666655432 367999999999999999999
Q ss_pred HHHHhcccCceee---EeecCCCCCccc--ccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcc---
Q 011104 191 LRKMGKHTGITSE---CAVPTDSTNYVP--ISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDE--- 262 (493)
Q Consensus 191 ~~~~~~~~~~~~~---~~~~~~~~~~~~--~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~--- 262 (493)
++.++...++... +.+|+.+..... .......+++|+|+||++|.+++..-. . +++++||||||+|++.
T Consensus 141 l~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~l~--~-~~~~iVvDEaD~~L~~~k~ 217 (1171)
T TIGR01054 141 ISSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDELG--P-KFDFIFVDDVDALLKASKN 217 (1171)
T ss_pred HHHHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHHhc--C-CCCEEEEeChHhhhhcccc
Confidence 9999887665443 234443322211 111223458999999999998876521 2 7999999999999863
Q ss_pred -------cCCHHH-HHHHHHHh-------------------hhcCCCee--EEEEeee-cChhHHHHHHHHhccCceeee
Q 011104 263 -------AGFRDD-SLRIMKDI-------------------ERSSGHCQ--VLLFSAT-FNETVKNFVTRIVKDYNQLFV 312 (493)
Q Consensus 263 -------~~~~~~-~~~i~~~~-------------------~~~~~~~q--~v~~SAT-~~~~~~~~~~~~~~~~~~~~~ 312 (493)
+||.++ +..++..+ ...+...| ++++||| +|..+.. .++..+..+.+
T Consensus 218 vd~il~llGF~~e~i~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~li~~SAT~~p~~~~~---~l~r~ll~~~v 294 (1171)
T TIGR01054 218 VDKLLKLLGFSEELIEKAWKLIRLRLKLYRALHAKKRLELLEAIPGKKRGCLIVSSATGRPRGKRA---KLFRELLGFEV 294 (1171)
T ss_pred HHHHHHHcCCCHHHHHHHHHHhhhccccchHHHHHHHHHHHHhhhhccCcEEEEEeCCCCccccHH---HHcccccceEe
Confidence 578764 44443221 11122334 6779999 5655432 23344444555
Q ss_pred ccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCCh---hhHHHHHHHHHhCCCcEEEecCCCCHHHH
Q 011104 313 KKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTK---NSASALHKALKDFGYEVTTIMGATIQEER 389 (493)
Q Consensus 313 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~---~~~~~l~~~L~~~~~~~~~l~~~~~~~~r 389 (493)
.........+.+.+...... ...+...+... +.++||||+++ +.|+.++..|...|+++..+||++++
T Consensus 295 ~~~~~~~r~I~~~~~~~~~~---~~~L~~ll~~l---~~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~~--- 365 (1171)
T TIGR01054 295 GGGSDTLRNVVDVYVEDEDL---KETLLEIVKKL---GTGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKPK--- 365 (1171)
T ss_pred cCccccccceEEEEEecccH---HHHHHHHHHHc---CCCEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCCH---
Confidence 55556667788887765542 22333433322 36799999999 99999999999999999999999973
Q ss_pred HHHHHHHHcCCCcEEEEe----CccccCCCCCC-CCEEEEccCCC
Q 011104 390 DKIVKEFKDGLTQVLIST----DVLARGFDQQQ-VNLIVNYDPPV 429 (493)
Q Consensus 390 ~~~~~~f~~g~~~vLv~T----~~~~~Gldi~~-v~~Vi~~~~p~ 429 (493)
.+++.|++|+++||||| ++++||||+|+ |++|||||+|.
T Consensus 366 -~~l~~Fr~G~~~vLVata~~tdv~aRGIDip~~V~~vI~~~~P~ 409 (1171)
T TIGR01054 366 -EDYEKFAEGEIDVLIGVASYYGTLVRGLDLPERVRYAVFLGVPK 409 (1171)
T ss_pred -HHHHHHHcCCCCEEEEeccccCcccccCCCCccccEEEEECCCC
Confidence 68999999999999994 99999999999 89999999985
No 61
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=100.00 E-value=3.3e-39 Score=320.54 Aligned_cols=326 Identities=17% Similarity=0.207 Sum_probs=242.0
Q ss_pred hhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 117 VEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 117 ~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
..+|+. |+++|..++|.++.| + |+.+.||+|||++|++|++.... .++.++|++||++||.|.++++..+..
T Consensus 98 R~lg~~-p~~VQ~~~~~~ll~G--~--Iae~~TGeGKTla~~lp~~~~al---~G~~v~VvTptreLA~qdae~~~~l~~ 169 (656)
T PRK12898 98 RVLGQR-HFDVQLMGGLALLSG--R--LAEMQTGEGKTLTATLPAGTAAL---AGLPVHVITVNDYLAERDAELMRPLYE 169 (656)
T ss_pred HHhCCC-CChHHHHHHHHHhCC--C--eeeeeCCCCcHHHHHHHHHHHhh---cCCeEEEEcCcHHHHHHHHHHHHHHHh
Confidence 335665 999999999999999 6 99999999999999999997753 467899999999999999999999999
Q ss_pred ccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-HHHHHcC-------------------------ccCCCCeeE
Q 011104 197 HTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-KKWMSAK-------------------------KLGFSRLKI 250 (493)
Q Consensus 197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~~-------------------------~~~~~~~~~ 250 (493)
.+++.+.+++++.+.. .+....+++|+|+|...| .++|..+ ......+.+
T Consensus 170 ~lGlsv~~i~gg~~~~----~r~~~y~~dIvygT~~e~~FDyLrd~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~r~~~~ 245 (656)
T PRK12898 170 ALGLTVGCVVEDQSPD----ERRAAYGADITYCTNKELVFDYLRDRLALGQRASDARLALESLHGRSSRSTQLLLRGLHF 245 (656)
T ss_pred hcCCEEEEEeCCCCHH----HHHHHcCCCEEEECCCchhhhhccccccccccccchhhhhhhhccccCchhhhcccccce
Confidence 9999999999876432 222334689999999877 3333221 112356789
Q ss_pred EEEecchhhhcc--------------c---CCHHHHHHHHHHhhhc--------------------------------C-
Q 011104 251 LVYDEADHMLDE--------------A---GFRDDSLRIMKDIERS--------------------------------S- 280 (493)
Q Consensus 251 iVlDEah~l~~~--------------~---~~~~~~~~i~~~~~~~--------------------------------~- 280 (493)
.||||+|.++-+ . .+......+...+... .
T Consensus 246 aIvDEvDSiLiDeartpliis~~~~~~~~~~~y~~~~~~~~~l~~~~~y~~d~~~~~v~lt~~g~~~~e~~~~~l~~~~~ 325 (656)
T PRK12898 246 AIVDEADSVLIDEARTPLIISAPAKEADEAEVYRQALELAAQLKEGEDYTIDAAEKRIELTEAGRARIAELAESLPPAWR 325 (656)
T ss_pred eEeecccceeeccCCCceEEECCCCCCchhHHHHHHHHHHHhcCCCCceEEECCCCeEEEcHHHHHHHHHHhCcchhhcc
Confidence 999999975311 0 0000111111111000 0
Q ss_pred --------------------------------------C---------------------------C-------------
Q 011104 281 --------------------------------------G---------------------------H------------- 282 (493)
Q Consensus 281 --------------------------------------~---------------------------~------------- 282 (493)
. .
T Consensus 326 ~~~~~~~~i~~Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~w~~GLhQaieaKE~v~i~~e~~t~a~It~q~~F 405 (656)
T PRK12898 326 GAVRREELVRQALSALHLFRRDEHYIVRDGKVVIVDEFTGRVMPDRSWEDGLHQMIEAKEGCELTDPRETLARITYQRFF 405 (656)
T ss_pred cchHHHHHHHHHHHHHHHHhcCCceEEECCeEEEEECCCCeECCCCCcChHHHHHHHHhcCCCCCcCceeeeeehHHHHH
Confidence 0 0
Q ss_pred ---eeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCC
Q 011104 283 ---CQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRT 359 (493)
Q Consensus 283 ---~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s 359 (493)
.++.+||||.+....++...+..++..+...... .....+.++.+. ...|...+.+.+......+.++||||+|
T Consensus 406 r~Y~kl~GmTGTa~~~~~El~~~y~l~vv~IPt~kp~--~r~~~~~~v~~t-~~~K~~aL~~~i~~~~~~~~pvLIft~t 482 (656)
T PRK12898 406 RRYLRLAGMTGTAREVAGELWSVYGLPVVRIPTNRPS--QRRHLPDEVFLT-AAAKWAAVAARVRELHAQGRPVLVGTRS 482 (656)
T ss_pred HhhHHHhcccCcChHHHHHHHHHHCCCeEEeCCCCCc--cceecCCEEEeC-HHHHHHHHHHHHHHHHhcCCCEEEEeCc
Confidence 1557888888877766666666665444433322 222233344443 5567778887776655556789999999
Q ss_pred hhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCC---CCC-----EEEEccCCCCC
Q 011104 360 KNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQ---QVN-----LIVNYDPPVKH 431 (493)
Q Consensus 360 ~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~---~v~-----~Vi~~~~p~~~ 431 (493)
++.++.++..|...|+++..+||.+. .|+..+..|..+...|+|||++++||+||+ +|. +||+|+.|
T Consensus 483 ~~~se~L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag~~g~VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P--- 557 (656)
T PRK12898 483 VAASERLSALLREAGLPHQVLNAKQD--AEEAAIVARAGQRGRITVATNMAGRGTDIKLEPGVAARGGLHVILTERH--- 557 (656)
T ss_pred HHHHHHHHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcCCCCcEEEEccchhcccCcCCccchhhcCCCEEEEcCCC---
Confidence 99999999999999999999999864 555666667766678999999999999999 666 99999999
Q ss_pred CCCCCCCcccccccccccccCCCcceEEEEeeCCcc
Q 011104 432 GKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDD 467 (493)
Q Consensus 432 ~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~ 467 (493)
.|...|.||+|||||.|.+|.+++|++..++
T Consensus 558 -----~s~r~y~hr~GRTGRqG~~G~s~~~is~eD~ 588 (656)
T PRK12898 558 -----DSARIDRQLAGRCGRQGDPGSYEAILSLEDD 588 (656)
T ss_pred -----CCHHHHHHhcccccCCCCCeEEEEEechhHH
Confidence 8899999999999999999999999987553
No 62
>PHA02558 uvsW UvsW helicase; Provisional
Probab=100.00 E-value=2.8e-39 Score=323.76 Aligned_cols=309 Identities=15% Similarity=0.154 Sum_probs=215.7
Q ss_pred CCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCc
Q 011104 121 FQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGI 200 (493)
Q Consensus 121 ~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~ 200 (493)
...|+++|..+++.++.+ ++.++++|||+|||+++...+...+. ....++||||||++|+.||.+.+.+++.....
T Consensus 112 ~~~~r~~Q~~av~~~l~~--~~~il~apTGsGKT~i~~~l~~~~~~--~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~ 187 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLKN--NRRLLNLPTSAGKSLIQYLLSRYYLE--NYEGKVLIIVPTTSLVTQMIDDFVDYRLFPRE 187 (501)
T ss_pred cCCCCHHHHHHHHHHHhc--CceEEEeCCCCCHHHHHHHHHHHHHh--cCCCeEEEEECcHHHHHHHHHHHHHhcccccc
Confidence 347999999999999988 88999999999999976443221121 22348999999999999999999998754333
Q ss_pred eeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcC
Q 011104 201 TSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSS 280 (493)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~ 280 (493)
.+..+.++.... ...+|+|+||+++.+.... .+.++++||+||||++... .+..++..+++
T Consensus 188 ~~~~i~~g~~~~---------~~~~I~VaT~qsl~~~~~~---~~~~~~~iIvDEaH~~~~~-----~~~~il~~~~~-- 248 (501)
T PHA02558 188 AMHKIYSGTAKD---------TDAPIVVSTWQSAVKQPKE---WFDQFGMVIVDECHLFTGK-----SLTSIITKLDN-- 248 (501)
T ss_pred ceeEEecCcccC---------CCCCEEEeeHHHHhhchhh---hccccCEEEEEchhcccch-----hHHHHHHhhhc--
Confidence 333333332211 2468999999998764422 3678999999999998752 34556665543
Q ss_pred CCeeEEEEeeecChhHHHHH--HHHhccCceeeeccccc----cccCceEEEEe----------------------CCCh
Q 011104 281 GHCQVLLFSATFNETVKNFV--TRIVKDYNQLFVKKEEL----SLESVKQYKVY----------------------CPDE 332 (493)
Q Consensus 281 ~~~q~v~~SAT~~~~~~~~~--~~~~~~~~~~~~~~~~~----~~~~~~~~~~~----------------------~~~~ 332 (493)
..++++||||++....... ...+. +....+..... .........+. ....
T Consensus 249 -~~~~lGLTATp~~~~~~~~~~~~~fG-~i~~~v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~l~~~ 326 (501)
T PHA02558 249 -CKFKFGLTGSLRDGKANILQYVGLFG-DIFKPVTTSQLMEEGQVTDLKINSIFLRYPDEDRVKLKGEDYQEEIKYITSH 326 (501)
T ss_pred -cceEEEEeccCCCccccHHHHHHhhC-CceEEecHHHHHhCCCcCCceEEEEeccCCHHHhhhhcccchHHHHHHHhcc
Confidence 5689999999865322111 11111 11111100000 00000000000 0011
Q ss_pred HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEe-Cccc
Q 011104 333 LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLIST-DVLA 411 (493)
Q Consensus 333 ~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T-~~~~ 411 (493)
..+...+...+......+.++||||.+.++++.+++.|+..+.++..+||+|++.+|..+++.|+.|...||||| ++++
T Consensus 327 ~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~~~l~ 406 (501)
T PHA02558 327 TKRNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASYGVFS 406 (501)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEcceec
Confidence 122233333333444456789999999999999999999999999999999999999999999999999999998 8999
Q ss_pred cCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEe
Q 011104 412 RGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLL 462 (493)
Q Consensus 412 ~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~ 462 (493)
+|+|+|++++||++.++ .|...|+||+||++|.+..+....++
T Consensus 407 eG~Dip~ld~vIl~~p~--------~s~~~~~QriGR~~R~~~~K~~~~i~ 449 (501)
T PHA02558 407 TGISIKNLHHVIFAHPS--------KSKIIVLQSIGRVLRKHGSKSIATVW 449 (501)
T ss_pred cccccccccEEEEecCC--------cchhhhhhhhhccccCCCCCceEEEE
Confidence 99999999999999888 77888999999999986554333333
No 63
>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=1.9e-39 Score=314.90 Aligned_cols=302 Identities=19% Similarity=0.261 Sum_probs=204.5
Q ss_pred cEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCC---------
Q 011104 142 NLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTN--------- 212 (493)
Q Consensus 142 ~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~--------- 212 (493)
++++.||||||||++|++|++..+.. ..+.+++|++|+++|+.|+++.+..+... .+...++.....
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~-~~~~~ii~v~P~~~L~~q~~~~l~~~f~~---~~~~~~~~~~~~~~~~~~~~~ 76 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKS-QKADRVIIALPTRATINAMYRRAKELFGS---NLGLLHSSSSFKRIKEMGDSE 76 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhh-CCCCeEEEEeehHHHHHHHHHHHHHHhCc---ccEEeeccHHHHHHhccCCch
Confidence 58999999999999999999987643 35668999999999999999999987432 111111111000
Q ss_pred -ccc------ccCCCCCCCcEEEeCchHHHHHHHcCc----cCC--CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhc
Q 011104 213 -YVP------ISKRPPVTAQVVIGTPGTIKKWMSAKK----LGF--SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERS 279 (493)
Q Consensus 213 -~~~------~~~~~~~~~~Ilv~Tp~~l~~~l~~~~----~~~--~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~ 279 (493)
... .........+|+|+||+++...+.... ..+ -..++||+||+|.+... ++ ..+..++..+..
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~-~~-~~l~~~l~~l~~- 153 (358)
T TIGR01587 77 EFEHLFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEY-TL-ALILAVLEVLKD- 153 (358)
T ss_pred hHHHHHHHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHH-HH-HHHHHHHHHHHH-
Confidence 000 000011246799999999988766521 111 12378999999999863 22 335666666652
Q ss_pred CCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCC-ChHHHHHHHHHHHHHhcccCCcEEEEcC
Q 011104 280 SGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCP-DELAKVMVIRDRIFELGEKMGQTIIFVR 358 (493)
Q Consensus 280 ~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~lVf~~ 358 (493)
.+.|+++||||+|+.+..++.................. ....+.+..+. ....+...+.. +......++++||||+
T Consensus 154 -~~~~~i~~SATlp~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~-l~~~~~~~~~~lVf~~ 230 (358)
T TIGR01587 154 -NDVPILLMSATLPKFLKEYAEKIGYVEFNEPLDLKEER-RFERHRFIKIESDKVGEISSLER-LLEFIKKGGKIAIIVN 230 (358)
T ss_pred -cCCCEEEEecCchHHHHHHHhcCCCcccccCCCCcccc-ccccccceeeccccccCHHHHHH-HHHHhhCCCeEEEEEC
Confidence 26799999999997776665554322111111110000 01122221221 11222333333 2233344689999999
Q ss_pred ChhhHHHHHHHHHhCCC--cEEEecCCCCHHHHHH----HHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCC
Q 011104 359 TKNSASALHKALKDFGY--EVTTIMGATIQEERDK----IVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHG 432 (493)
Q Consensus 359 s~~~~~~l~~~L~~~~~--~~~~l~~~~~~~~r~~----~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~ 432 (493)
++++|+.++..|.+.+. .+..+||++++.+|.+ +++.|++|+..|||||+++++|+|++ +++||++..|
T Consensus 231 t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~~~~~GiDi~-~~~vi~~~~~---- 305 (358)
T TIGR01587 231 TVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASLDIS-ADVMITELAP---- 305 (358)
T ss_pred CHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECcchhceeccC-CCEEEEcCCC----
Confidence 99999999999988766 5999999999999976 48899999999999999999999995 8999998776
Q ss_pred CCCCCCcccccccccccccCCCcc----eEEEEeeC
Q 011104 433 KHLEPDCEVYLHRIGRAGRFGRKG----VVFNLLMD 464 (493)
Q Consensus 433 ~~~~~s~~~y~qr~GR~~R~g~~g----~~i~l~~~ 464 (493)
.++|+||+||+||.|+.+ .++.|...
T Consensus 306 ------~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~ 335 (358)
T TIGR01587 306 ------IDSLIQRLGRLHRYGRKNGENFEVYIITIA 335 (358)
T ss_pred ------HHHHHHHhccccCCCCCCCCCCeEEEEeec
Confidence 578999999999987543 55655543
No 64
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=100.00 E-value=1.6e-38 Score=297.71 Aligned_cols=371 Identities=18% Similarity=0.195 Sum_probs=286.3
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhh-cCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEE
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMI-LTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCI 177 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~i-l~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil 177 (493)
....+++++++++.+-|+. .|+..+.|+|..++..- +.| .|.++.++|+||||++.-++-+..+.. .+.+.|++
T Consensus 193 r~~vdeLdipe~fk~~lk~-~G~~eLlPVQ~laVe~GLLeG--~nllVVSaTasGKTLIgElAGi~~~l~--~g~KmlfL 267 (830)
T COG1202 193 RVPVDELDIPEKFKRMLKR-EGIEELLPVQVLAVEAGLLEG--ENLLVVSATASGKTLIGELAGIPRLLS--GGKKMLFL 267 (830)
T ss_pred cccccccCCcHHHHHHHHh-cCcceecchhhhhhhhccccC--CceEEEeccCCCcchHHHhhCcHHHHh--CCCeEEEE
Confidence 3467889999999999987 89999999999999765 567 999999999999999987777766543 36689999
Q ss_pred cCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCccc--ccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEec
Q 011104 178 CPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVP--ISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDE 255 (493)
Q Consensus 178 ~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDE 255 (493)
+|.-+||+|-++.|+.--..+++.+..-+|........ ........+||||+|++.+-.+++.+ ..+.++..||+||
T Consensus 268 vPLVALANQKy~dF~~rYs~LglkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRtg-~~lgdiGtVVIDE 346 (830)
T COG1202 268 VPLVALANQKYEDFKERYSKLGLKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRTG-KDLGDIGTVVIDE 346 (830)
T ss_pred ehhHHhhcchHHHHHHHhhcccceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHHHcC-CcccccceEEeee
Confidence 99999999999999877788888877666655443322 22344567899999999999999887 4589999999999
Q ss_pred chhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHH
Q 011104 256 ADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAK 335 (493)
Q Consensus 256 ah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 335 (493)
+|.+.+. ...+.+..++.++....+..|++.+|||..+.. .++..+-..+... +..+..+....+++.++..|
T Consensus 347 iHtL~de-ERG~RLdGLI~RLr~l~~~AQ~i~LSATVgNp~-elA~~l~a~lV~y-----~~RPVplErHlvf~~~e~eK 419 (830)
T COG1202 347 IHTLEDE-ERGPRLDGLIGRLRYLFPGAQFIYLSATVGNPE-ELAKKLGAKLVLY-----DERPVPLERHLVFARNESEK 419 (830)
T ss_pred eeeccch-hcccchhhHHHHHHHhCCCCeEEEEEeecCChH-HHHHHhCCeeEee-----cCCCCChhHeeeeecCchHH
Confidence 9998872 334557778888888888999999999986443 3344443332211 22344556667778877778
Q ss_pred HHHHHHHHHHhc------ccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCc
Q 011104 336 VMVIRDRIFELG------EKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDV 409 (493)
Q Consensus 336 ~~~l~~~l~~~~------~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~ 409 (493)
...+..+..... .-.+.+|||++|+..|+.++..|...|+++.+||++|+..+|..+...|..+...++|+|-+
T Consensus 420 ~~ii~~L~k~E~~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAA 499 (830)
T COG1202 420 WDIIARLVKREFSTESSKGYRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAA 499 (830)
T ss_pred HHHHHHHHHHHHhhhhccCcCCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcCCcceEeehhh
Confidence 777665332211 12478999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCCEEEE---ccCCCCCCCCCCCCcccccccccccccCC--CcceEEEEeeCCccHH------HHHHHHHHh
Q 011104 410 LARGFDQQQVNLIVN---YDPPVKHGKHLEPDCEVYLHRIGRAGRFG--RKGVVFNLLMDGDDMI------IMEKIERYF 478 (493)
Q Consensus 410 ~~~Gldi~~v~~Vi~---~~~p~~~~~~~~~s~~~y~qr~GR~~R~g--~~g~~i~l~~~~~~~~------~~~~i~~~~ 478 (493)
++-|+|+|.-++|+. ++.-| -|+.+|.||.|||||-+ ..|++++++.++.... --.--.+.+
T Consensus 500 L~AGVDFPASQVIFEsLaMG~~W-------Ls~~EF~QM~GRAGRp~yHdrGkVyllvepg~~Y~~~m~~TEdevA~kLL 572 (830)
T COG1202 500 LAAGVDFPASQVIFESLAMGIEW-------LSVREFQQMLGRAGRPDYHDRGKVYLLVEPGKKYHASMEETEDEVAFKLL 572 (830)
T ss_pred hhcCCCCchHHHHHHHHHccccc-------CCHHHHHHHhcccCCCCcccCceEEEEecCChhhcccccccHHHHHHHHh
Confidence 999999997666553 34443 78999999999999976 3689998887764211 111234455
Q ss_pred CCCceeecCcc
Q 011104 479 DIKVTEVQTCT 489 (493)
Q Consensus 479 ~~~~~~~~~~~ 489 (493)
.-.++++-++-
T Consensus 573 ~s~~e~V~vey 583 (830)
T COG1202 573 ESEPEPVIVEY 583 (830)
T ss_pred cCCCCcceecc
Confidence 55555555443
No 65
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=100.00 E-value=2.7e-38 Score=320.73 Aligned_cols=328 Identities=16% Similarity=0.178 Sum_probs=235.0
Q ss_pred HHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHH
Q 011104 115 LYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKM 194 (493)
Q Consensus 115 l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~ 194 (493)
....+|+ .|+++|..+++.+..| + |+.+.||+|||++|++|++.... .+..++|++||+.||.|.++++..+
T Consensus 71 ~~R~~g~-~p~~vQl~~~~~l~~G--~--Iaem~TGeGKTL~a~lp~~l~al---~G~~v~VvTpt~~LA~qd~e~~~~l 142 (790)
T PRK09200 71 AKRVLGM-RPYDVQLIGALVLHEG--N--IAEMQTGEGKTLTATMPLYLNAL---EGKGVHLITVNDYLAKRDAEEMGQV 142 (790)
T ss_pred HHHHhCC-CCchHHHHhHHHHcCC--c--eeeecCCCcchHHHHHHHHHHHH---cCCCeEEEeCCHHHHHHHHHHHHHH
Confidence 3344677 5999999999998887 4 99999999999999999984432 4778999999999999999999999
Q ss_pred hcccCceeeEeecCCC-CCcccccCCCCCCCcEEEeCchHH-HHHHHcC------ccCCCCeeEEEEecchhhhcccC--
Q 011104 195 GKHTGITSECAVPTDS-TNYVPISKRPPVTAQVVIGTPGTI-KKWMSAK------KLGFSRLKILVYDEADHMLDEAG-- 264 (493)
Q Consensus 195 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~~------~~~~~~~~~iVlDEah~l~~~~~-- 264 (493)
...+++.+.+..++.. ..... ....++|+|+||++| .+++... ...+..+.++||||||.++-+..
T Consensus 143 ~~~lGl~v~~i~g~~~~~~~r~----~~y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiLiDea~t 218 (790)
T PRK09200 143 YEFLGLTVGLNFSDIDDASEKK----AIYEADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSILLDEAQT 218 (790)
T ss_pred HhhcCCeEEEEeCCCCcHHHHH----HhcCCCEEEECCccccchhHHhccccchhhhcccccceEEEeccccceeccCCC
Confidence 9999999999988776 22221 223589999999999 4444432 23467899999999998642100
Q ss_pred -------------CHHHHHHHHHHhhhc-----CCCe-------------------------------------------
Q 011104 265 -------------FRDDSLRIMKDIERS-----SGHC------------------------------------------- 283 (493)
Q Consensus 265 -------------~~~~~~~i~~~~~~~-----~~~~------------------------------------------- 283 (493)
+...+..++..+... ....
T Consensus 219 pliisg~~~~~~~~y~~~~~~~~~l~~~~dy~~d~~~~~~~lt~~g~~~~e~~~~i~~l~~~~~~~~~~~i~~Al~A~~~ 298 (790)
T PRK09200 219 PLIISGKPRVQSNLYHIAAKFVKTLEEDVDYEFDEEKKEVWLTDQGIEKAESYFGIDNLYSLEHQVLYRHIILALRAHVL 298 (790)
T ss_pred ceeeeCCCccccHHHHHHHHHHHhcccCCCeEEecCCCeEEecHhHHHHHHHhcCCccccChhhhHHHHHHHHHHHHHHH
Confidence 011111222222110 0000
Q ss_pred ------------------------------------------------------------------eEEEEeeecChhHH
Q 011104 284 ------------------------------------------------------------------QVLLFSATFNETVK 297 (493)
Q Consensus 284 ------------------------------------------------------------------q~v~~SAT~~~~~~ 297 (493)
++.+||+|....-.
T Consensus 299 ~~~d~dYiV~~~~v~ivD~~TGr~~~gr~~s~GlhQaieaKe~v~i~~e~~t~a~It~q~~fr~Y~kl~GmTGTa~t~~~ 378 (790)
T PRK09200 299 FKRDVDYIVYDGEIVLVDRFTGRVLPGRKLQDGLHQAIEAKEGVEITEENRTMASITIQNLFRMFPKLSGMTGTAKTEEK 378 (790)
T ss_pred hhcCCcEEEECCEEEEEECCCCcCCCCCccChHHHHHHHHhcCCCcCCCceehhhhhHHHHHHHhHHHhccCCCChHHHH
Confidence 23344444332222
Q ss_pred HHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcE
Q 011104 298 NFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEV 377 (493)
Q Consensus 298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~ 377 (493)
++.. ..+ ...+.++ ...+................+...+...+......+.++||||+|++.++.++..|.+.|+++
T Consensus 379 e~~~-~Y~-l~v~~IP-t~kp~~r~d~~~~i~~~~~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~~L~~~gi~~ 455 (790)
T PRK09200 379 EFFE-VYN-MEVVQIP-TNRPIIRIDYPDKVFVTLDEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSKLLDEAGIPH 455 (790)
T ss_pred HHHH-HhC-CcEEECC-CCCCcccccCCCeEEcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCE
Confidence 2211 111 1111111 111111111111122244567777877776655568899999999999999999999999999
Q ss_pred EEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCC---CCCC-----EEEEccCCCCCCCCCCCCccccccccccc
Q 011104 378 TTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQ---QQVN-----LIVNYDPPVKHGKHLEPDCEVYLHRIGRA 449 (493)
Q Consensus 378 ~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi---~~v~-----~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~ 449 (493)
..+||.+.+.++..+...+..| .|+|||++++||+|+ |+|. |||+|++| .+...|+||+|||
T Consensus 456 ~~L~~~~~~~e~~~i~~ag~~g--~VlIATdmAgRG~DI~l~~~V~~~GGL~VI~~d~p--------~s~r~y~qr~GRt 525 (790)
T PRK09200 456 NLLNAKNAAKEAQIIAEAGQKG--AVTVATNMAGRGTDIKLGEGVHELGGLAVIGTERM--------ESRRVDLQLRGRS 525 (790)
T ss_pred EEecCCccHHHHHHHHHcCCCC--eEEEEccchhcCcCCCcccccccccCcEEEeccCC--------CCHHHHHHhhccc
Confidence 9999999988888777777666 799999999999999 6998 99999999 8899999999999
Q ss_pred ccCCCcceEEEEeeCCcc
Q 011104 450 GRFGRKGVVFNLLMDGDD 467 (493)
Q Consensus 450 ~R~g~~g~~i~l~~~~~~ 467 (493)
||.|.+|.+++|++..++
T Consensus 526 GR~G~~G~s~~~is~eD~ 543 (790)
T PRK09200 526 GRQGDPGSSQFFISLEDD 543 (790)
T ss_pred cCCCCCeeEEEEEcchHH
Confidence 999999999999987654
No 66
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=4.7e-38 Score=292.41 Aligned_cols=326 Identities=21% Similarity=0.313 Sum_probs=231.9
Q ss_pred CCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccC
Q 011104 120 KFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTG 199 (493)
Q Consensus 120 g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~ 199 (493)
+.-++..+|.......+. ++++++.|||-|||+++++-+..++.... + ++|+++||+.|+.|.++.+.++.....
T Consensus 12 ~~ie~R~YQ~~i~a~al~---~NtLvvlPTGLGKT~IA~~V~~~~l~~~~-~-kvlfLAPTKPLV~Qh~~~~~~v~~ip~ 86 (542)
T COG1111 12 NTIEPRLYQLNIAAKALF---KNTLVVLPTGLGKTFIAAMVIANRLRWFG-G-KVLFLAPTKPLVLQHAEFCRKVTGIPE 86 (542)
T ss_pred ccccHHHHHHHHHHHHhh---cCeEEEecCCccHHHHHHHHHHHHHHhcC-C-eEEEecCCchHHHHHHHHHHHHhCCCh
Confidence 344678889888888887 58999999999999999988888876543 3 899999999999999999999876555
Q ss_pred ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhc
Q 011104 200 ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERS 279 (493)
Q Consensus 200 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~ 279 (493)
-.+..+.|.......... .....|+|+||+.+..-+..+.+++.++.+||+||||+-.....+. .+.+.....
T Consensus 87 ~~i~~ltGev~p~~R~~~---w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAYv----~Va~~y~~~ 159 (542)
T COG1111 87 DEIAALTGEVRPEEREEL---WAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAYV----FVAKEYLRS 159 (542)
T ss_pred hheeeecCCCChHHHHHH---HhhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchHH----HHHHHHHHh
Confidence 455555555443322111 1235799999999999999999999999999999999987654333 333433334
Q ss_pred CCCeeEEEEeeecChhHH------------------------------------------------HHHHHHh-------
Q 011104 280 SGHCQVLLFSATFNETVK------------------------------------------------NFVTRIV------- 304 (493)
Q Consensus 280 ~~~~q~v~~SAT~~~~~~------------------------------------------------~~~~~~~------- 304 (493)
..++.++++|||+-.+.. +.+...+
T Consensus 160 ~k~~~ilgLTASPGs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L 239 (542)
T COG1111 160 AKNPLILGLTASPGSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPL 239 (542)
T ss_pred ccCceEEEEecCCCCCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHH
Confidence 446789999999421111 1111100
Q ss_pred ccCceeeeccc----cc-cc-------------------------------------cCceEEE----------------
Q 011104 305 KDYNQLFVKKE----EL-SL-------------------------------------ESVKQYK---------------- 326 (493)
Q Consensus 305 ~~~~~~~~~~~----~~-~~-------------------------------------~~~~~~~---------------- 326 (493)
.....+..... .. .. .++..++
T Consensus 240 ~~~g~~~~~~~~~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~l~e~~~~~~sk 319 (542)
T COG1111 240 KELGVIESSSPVSKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEKLEEEATKGGSK 319 (542)
T ss_pred HHcCceeccCcccHhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHhcccchH
Confidence 00000000000 00 00 0000000
Q ss_pred ---------------------EeCCChHHHHHHHHHHHHHhc--ccCCcEEEEcCChhhHHHHHHHHHhCCCcEE-Eec-
Q 011104 327 ---------------------VYCPDELAKVMVIRDRIFELG--EKMGQTIIFVRTKNSASALHKALKDFGYEVT-TIM- 381 (493)
Q Consensus 327 ---------------------~~~~~~~~~~~~l~~~l~~~~--~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~-~l~- 381 (493)
..+...-.|+..+.+.+.+.. ....++|||++.++.|+.+..+|...+..+. .+-
T Consensus 320 ~a~~l~~d~~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiG 399 (542)
T COG1111 320 AAKSLLADPYFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIG 399 (542)
T ss_pred HHHHHhcChhhHHHHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcceeEEee
Confidence 000000012223333334433 3346899999999999999999999988774 333
Q ss_pred -------CCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCC
Q 011104 382 -------GATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGR 454 (493)
Q Consensus 382 -------~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~ 454 (493)
.||+|.++.++++.|+.|.++|||||+++++|||+|.++.||.|++- +|...++||.|||||. +
T Consensus 400 Qa~r~~~~GMsQkeQ~eiI~~Fr~Ge~nVLVaTSVgEEGLDIp~vDlVifYEpv--------pSeIR~IQR~GRTGR~-r 470 (542)
T COG1111 400 QASREGDKGMSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPV--------PSEIRSIQRKGRTGRK-R 470 (542)
T ss_pred ccccccccccCHHHHHHHHHHHhcCCceEEEEcccccccCCCCcccEEEEecCC--------cHHHHHHHhhCccccC-C
Confidence 47999999999999999999999999999999999999999999998 8999999999999998 8
Q ss_pred cceEEEEeeCCc
Q 011104 455 KGVVFNLLMDGD 466 (493)
Q Consensus 455 ~g~~i~l~~~~~ 466 (493)
.|.+++|++.+.
T Consensus 471 ~Grv~vLvt~gt 482 (542)
T COG1111 471 KGRVVVLVTEGT 482 (542)
T ss_pred CCeEEEEEecCc
Confidence 999999999883
No 67
>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=100.00 E-value=1.6e-37 Score=310.01 Aligned_cols=326 Identities=16% Similarity=0.162 Sum_probs=238.8
Q ss_pred HhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHH-hccCCCCCCCeEEEEcCCHHHHHHHHHHHHHH
Q 011104 116 YVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGML-SRVDPNLKAPQALCICPTRELAIQNLEVLRKM 194 (493)
Q Consensus 116 ~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l-~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~ 194 (493)
...+|+. |+++|..+.+.+..| + |+.++||+|||++|++|++ +.+. +..+.|++||+.||.|.++++..+
T Consensus 50 ~R~lg~~-p~~vQlig~~~l~~G--~--Iaem~TGeGKTLva~lpa~l~aL~----G~~V~VvTpt~~LA~qdae~~~~l 120 (745)
T TIGR00963 50 KRVLGMR-PFDVQLIGGIALHKG--K--IAEMKTGEGKTLTATLPAYLNALT----GKGVHVVTVNDYLAQRDAEWMGQV 120 (745)
T ss_pred HHHhCCC-ccchHHhhhhhhcCC--c--eeeecCCCccHHHHHHHHHHHHHh----CCCEEEEcCCHHHHHHHHHHHHHH
Confidence 3446765 999999999988877 4 9999999999999999994 5542 447999999999999999999999
Q ss_pred hcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-HHHHHcC------ccCCCCeeEEEEecchhhhcccCCHH
Q 011104 195 GKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-KKWMSAK------KLGFSRLKILVYDEADHMLDEAGFRD 267 (493)
Q Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~~------~~~~~~~~~iVlDEah~l~~~~~~~~ 267 (493)
...+++++.++.++....... ....++|+|+||++| .+++..+ .+.+..+.++||||+|.++-+....+
T Consensus 121 ~~~LGLsv~~i~g~~~~~~r~----~~y~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LIDeaRtp 196 (745)
T TIGR00963 121 YRFLGLSVGLILSGMSPEERR----EAYACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILIDEARTP 196 (745)
T ss_pred hccCCCeEEEEeCCCCHHHHH----HhcCCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhHHhhhhH
Confidence 999999999998876543222 222479999999999 8888765 34678899999999998764111000
Q ss_pred ---------------HHHHHHHHhhhc-----CCCe--------------------------------------------
Q 011104 268 ---------------DSLRIMKDIERS-----SGHC-------------------------------------------- 283 (493)
Q Consensus 268 ---------------~~~~i~~~~~~~-----~~~~-------------------------------------------- 283 (493)
....+.+.+... ....
T Consensus 197 Liisg~~~~~~~ly~~a~~i~r~L~~~~dy~~de~~k~v~Lt~~G~~~~e~~~~~~~ly~~~~~~~~~~i~~Al~A~~l~ 276 (745)
T TIGR00963 197 LIISGPAEKSTELYLQANRFAKALEKEVHYEVDEKNRAVLLTEKGIKKAEDLLGVDNLYDLENSPLIHYINNALKAKELF 276 (745)
T ss_pred HhhcCCCCCchHHHHHHHHHHHhhccCCCeEEecCCCceeECHHHHHHHHHHcCCccccChhhhHHHHHHHHHHHHHHHH
Confidence 001111111100 0000
Q ss_pred -----------------------------------------------------------------eEEEEeeecChhHHH
Q 011104 284 -----------------------------------------------------------------QVLLFSATFNETVKN 298 (493)
Q Consensus 284 -----------------------------------------------------------------q~v~~SAT~~~~~~~ 298 (493)
++.+||+|......+
T Consensus 277 ~~d~dYiV~d~~V~ivD~~TGR~~~gr~ws~GLhQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~te~~E 356 (745)
T TIGR00963 277 EKDVDYIVRDGEVVIVDEFTGRIMEGRRWSDGLHQAIEAKEGVEIQNENQTLATITYQNFFRLYEKLSGMTGTAKTEEEE 356 (745)
T ss_pred hcCCcEEEECCEEEEEECCCCcCCCCCccchHHHHHHHHhcCCCcCCCceeeeeeeHHHHHhhCchhhccCCCcHHHHHH
Confidence 223344443322222
Q ss_pred HHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEE
Q 011104 299 FVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVT 378 (493)
Q Consensus 299 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~ 378 (493)
+..-+ +-. .+.+ +...+..........+.+...|...+.+.+......+.++||||++++.++.++..|.+.|+++.
T Consensus 357 ~~~iY-~l~-vv~I-Ptnkp~~R~d~~d~i~~t~~~k~~ai~~~i~~~~~~grpvLV~t~si~~se~ls~~L~~~gi~~~ 433 (745)
T TIGR00963 357 FEKIY-NLE-VVVV-PTNRPVIRKDLSDLVYKTEEEKWKAVVDEIKERHAKGQPVLVGTTSVEKSELLSNLLKERGIPHN 433 (745)
T ss_pred HHHHh-CCC-EEEe-CCCCCeeeeeCCCeEEcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHcCCCeE
Confidence 21111 111 1111 11111111111122233455677788777777777889999999999999999999999999999
Q ss_pred EecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCC-------CCEEEEccCCCCCCCCCCCCccccccccccccc
Q 011104 379 TIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQ-------VNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGR 451 (493)
Q Consensus 379 ~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~-------v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R 451 (493)
.+|+. +.+|+..+..|..+...|+|||++++||+||+. ..|||+++.| .|...|.||+||+||
T Consensus 434 ~Lna~--q~~rEa~ii~~ag~~g~VtIATnmAgRGtDI~l~~V~~~GGl~VI~t~~p--------~s~ri~~q~~GRtGR 503 (745)
T TIGR00963 434 VLNAK--NHEREAEIIAQAGRKGAVTIATNMAGRGTDIKLEEVKELGGLYVIGTERH--------ESRRIDNQLRGRSGR 503 (745)
T ss_pred EeeCC--hHHHHHHHHHhcCCCceEEEEeccccCCcCCCccchhhcCCcEEEecCCC--------CcHHHHHHHhccccC
Confidence 99998 889999999999999999999999999999998 5599999999 899999999999999
Q ss_pred CCCcceEEEEeeCCcc
Q 011104 452 FGRKGVVFNLLMDGDD 467 (493)
Q Consensus 452 ~g~~g~~i~l~~~~~~ 467 (493)
.|.+|.+..|++..++
T Consensus 504 qG~~G~s~~~ls~eD~ 519 (745)
T TIGR00963 504 QGDPGSSRFFLSLEDN 519 (745)
T ss_pred CCCCcceEEEEeccHH
Confidence 9999999999987654
No 68
>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=100.00 E-value=1.3e-37 Score=312.79 Aligned_cols=328 Identities=16% Similarity=0.171 Sum_probs=226.9
Q ss_pred hCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 118 EMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 118 ~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.+|. .|+++|......+..| .++.++||+|||++|++|++.... .+..++|++|+++||.|+++++..+...
T Consensus 66 ~lgl-rpydVQlig~l~l~~G----~Iaem~TGeGKTLta~Lpa~l~aL---~g~~V~VVTpn~yLA~Rdae~m~~l~~~ 137 (762)
T TIGR03714 66 VLGM-FPYDVQVLGAIVLHQG----NIAEMKTGEGKTLTATMPLYLNAL---TGKGAMLVTTNDYLAKRDAEEMGPVYEW 137 (762)
T ss_pred hcCC-CccHHHHHHHHHhcCC----ceeEecCCcchHHHHHHHHHHHhh---cCCceEEeCCCHHHHHHHHHHHHHHHhh
Confidence 3576 5777777666655444 699999999999999999875553 3457999999999999999999999999
Q ss_pred cCceeeEeecCCCC-CcccccCCCCCCCcEEEeCchHH-HHHHHc------CccCCCCeeEEEEecchhhhcccCC----
Q 011104 198 TGITSECAVPTDST-NYVPISKRPPVTAQVVIGTPGTI-KKWMSA------KKLGFSRLKILVYDEADHMLDEAGF---- 265 (493)
Q Consensus 198 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~------~~~~~~~~~~iVlDEah~l~~~~~~---- 265 (493)
+++.+.+.+++... ...........+++|+++||++| .+++.. ....+..+.++|+||||.|+-+...
T Consensus 138 LGLsv~~~~~~s~~~~~~~~~rr~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDeartpli 217 (762)
T TIGR03714 138 LGLTVSLGVVDDPDEEYDANEKRKIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSAQTPLV 217 (762)
T ss_pred cCCcEEEEECCCCccccCHHHHHHhCCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccCcCCee
Confidence 99998877665221 11111222234689999999999 454432 2344678999999999997431110
Q ss_pred -----------HHHHHHHHHHhhhcC-----CC-----------------------------------------------
Q 011104 266 -----------RDDSLRIMKDIERSS-----GH----------------------------------------------- 282 (493)
Q Consensus 266 -----------~~~~~~i~~~~~~~~-----~~----------------------------------------------- 282 (493)
...+..++..+.... ..
T Consensus 218 isg~~~~~~~~y~~~~~~v~~l~~~~dy~~d~~~~~v~lt~~G~~~~e~~~~~~~l~~~~~~~~~~~i~~al~A~~~~~~ 297 (762)
T TIGR03714 218 ISGAPRVQSNLYHIADTFVRTLKEDVDYIFKKDKKEVWLTDKGIEKAEQYFKIDNLYSEEYFELVRHINLALRAHYLFKR 297 (762)
T ss_pred eeCCCccchHHHHHHHHHHHhcCCCCCeEEEcCCCeeeecHhHHHHHHHHcCCCccCChhhHHHHHHHHHHHHHHHHHhc
Confidence 011112222221100 00
Q ss_pred --------------------------------------------------------------eeEEEEeeecChhHHHHH
Q 011104 283 --------------------------------------------------------------CQVLLFSATFNETVKNFV 300 (493)
Q Consensus 283 --------------------------------------------------------------~q~v~~SAT~~~~~~~~~ 300 (493)
.++.+||+|......++.
T Consensus 298 d~dYiV~~~~v~ivD~~TGr~~~gr~~~~GLhQaieaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~~~~~Ef~ 377 (762)
T TIGR03714 298 NKDYVVTNGEVVLLDRITGRLLEGTKLQSGIHQAIEAKEHVELSKETRAMASITYQNLFKMFNKLSGMTGTGKVAEKEFI 377 (762)
T ss_pred CCceEEECCEEEEEECCCCcCCCCCCcchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHhhCchhcccCCCChhHHHHHH
Confidence 033444555433333332
Q ss_pred HHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEe
Q 011104 301 TRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTI 380 (493)
Q Consensus 301 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l 380 (493)
. ..+ ...+.++ ...+..........+.....|...+...+......+.++||||+|++.++.++..|.+.|+++..+
T Consensus 378 ~-iY~-l~v~~IP-t~kp~~r~d~~d~i~~~~~~K~~ai~~~i~~~~~~~~pvLIft~s~~~se~ls~~L~~~gi~~~~L 454 (762)
T TIGR03714 378 E-TYS-LSVVKIP-TNKPIIRIDYPDKIYATLPEKLMATLEDVKEYHETGQPVLLITGSVEMSEIYSELLLREGIPHNLL 454 (762)
T ss_pred H-HhC-CCEEEcC-CCCCeeeeeCCCeEEECHHHHHHHHHHHHHHHhhCCCCEEEEECcHHHHHHHHHHHHHCCCCEEEe
Confidence 2 111 1111111 111111111111223345567788887777766678899999999999999999999999999999
Q ss_pred cCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCC---------CCCEEEEccCCCCCCCCCCCCccccccccccccc
Q 011104 381 MGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQ---------QVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGR 451 (493)
Q Consensus 381 ~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~---------~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R 451 (493)
||.+.+.++..+...|+.| .|+|||++++||+||+ ++.+|++|++| .... .+||+|||||
T Consensus 455 ~a~~~~~E~~ii~~ag~~g--~VlIATdmAgRGtDI~l~~~v~~~GGL~vIit~~~p--------s~ri-d~qr~GRtGR 523 (762)
T TIGR03714 455 NAQNAAKEAQIIAEAGQKG--AVTVATSMAGRGTDIKLGKGVAELGGLAVIGTERME--------NSRV-DLQLRGRSGR 523 (762)
T ss_pred cCCChHHHHHHHHHcCCCC--eEEEEccccccccCCCCCccccccCCeEEEEecCCC--------CcHH-HHHhhhcccC
Confidence 9999998887777766666 7999999999999999 99999999999 4444 4999999999
Q ss_pred CCCcceEEEEeeCCcc
Q 011104 452 FGRKGVVFNLLMDGDD 467 (493)
Q Consensus 452 ~g~~g~~i~l~~~~~~ 467 (493)
.|.+|.++.|++..++
T Consensus 524 qG~~G~s~~~is~eD~ 539 (762)
T TIGR03714 524 QGDPGSSQFFVSLEDD 539 (762)
T ss_pred CCCceeEEEEEccchh
Confidence 9999999999987654
No 69
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=100.00 E-value=3.3e-37 Score=324.67 Aligned_cols=316 Identities=18% Similarity=0.213 Sum_probs=212.6
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCH----HHHHHHHHHHHHHhcccCceeeEeecCCCCCcccc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTR----ELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPI 216 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~----~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 216 (493)
+.++++|+||||||+. +|.+...........+++..|+| +||.++++.+.. .++..+++.+. .
T Consensus 90 ~VviI~GeTGSGKTTq--lPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~---~lG~~VGY~vr--------f 156 (1294)
T PRK11131 90 QVVIVAGETGSGKTTQ--LPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELET---ELGGCVGYKVR--------F 156 (1294)
T ss_pred CeEEEECCCCCCHHHH--HHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhh---hhcceeceeec--------C
Confidence 7899999999999994 66443322222223555666865 555555555543 12222222221 1
Q ss_pred cCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchh-hhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChh
Q 011104 217 SKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADH-MLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNET 295 (493)
Q Consensus 217 ~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~-l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~ 295 (493)
......+++|+|+|||+|++++..+.. +.++++|||||||+ +++ .+|.. .+++.+....++.|+|+||||++..
T Consensus 157 ~~~~s~~t~I~v~TpG~LL~~l~~d~~-Ls~~~~IIIDEAHERsLn-~DfLL---g~Lk~lL~~rpdlKvILmSATid~e 231 (1294)
T PRK11131 157 NDQVSDNTMVKLMTDGILLAEIQQDRL-LMQYDTIIIDEAHERSLN-IDFIL---GYLKELLPRRPDLKVIITSATIDPE 231 (1294)
T ss_pred ccccCCCCCEEEEChHHHHHHHhcCCc-cccCcEEEecCccccccc-cchHH---HHHHHhhhcCCCceEEEeeCCCCHH
Confidence 122234689999999999999987665 89999999999995 555 56643 3344444444578999999999743
Q ss_pred HHHHHHHHhccCceeeeccccccccCceEEEEeCCCh-----HHHHHHHHHHHHHh-cccCCcEEEEcCChhhHHHHHHH
Q 011104 296 VKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDE-----LAKVMVIRDRIFEL-GEKMGQTIIFVRTKNSASALHKA 369 (493)
Q Consensus 296 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~l~~~l~~~-~~~~~~~lVf~~s~~~~~~l~~~ 369 (493)
.+...+...| .+.+..... .+.++|...... ...+..+...+... ....+.+|||++++.+++.+++.
T Consensus 232 --~fs~~F~~ap-vI~V~Gr~~---pVei~y~p~~~~~~~~~~d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~lae~ 305 (1294)
T PRK11131 232 --RFSRHFNNAP-IIEVSGRTY---PVEVRYRPIVEEADDTERDQLQAIFDAVDELGREGPGDILIFMSGEREIRDTADA 305 (1294)
T ss_pred --HHHHHcCCCC-EEEEcCccc---cceEEEeecccccchhhHHHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHHHH
Confidence 4444444333 444443322 244555544321 12233333322222 23468899999999999999999
Q ss_pred HHhCCCc---EEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCC-------CCCCC---C
Q 011104 370 LKDFGYE---VTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVK-------HGKHL---E 436 (493)
Q Consensus 370 L~~~~~~---~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~-------~~~~~---~ 436 (493)
|...++. +.++||+|++.+|.++++. .|..+|||||+++++|||+|+|++||+++.... +...+ +
T Consensus 306 L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~--~g~rkIIVATNIAEtSITIpgI~yVID~Gl~k~~~Yd~~~~~~~Lp~~~ 383 (1294)
T PRK11131 306 LNKLNLRHTEILPLYARLSNSEQNRVFQS--HSGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEP 383 (1294)
T ss_pred HHhcCCCcceEeecccCCCHHHHHHHhcc--cCCeeEEEeccHHhhccccCcceEEEECCCccccccccccCcccCCeee
Confidence 9987764 7899999999999999886 578899999999999999999999999874221 11111 2
Q ss_pred CCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecC
Q 011104 437 PDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQT 487 (493)
Q Consensus 437 ~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~ 487 (493)
.|..+|.||+|||||. .+|.||.||++.+ + ..+.++...+|.+.++
T Consensus 384 iSkasa~QRaGRAGR~-~~G~c~rLyte~d---~-~~~~~~~~PEIlR~~L 429 (1294)
T PRK11131 384 ISQASANQRKGRCGRV-SEGICIRLYSEDD---F-LSRPEFTDPEILRTNL 429 (1294)
T ss_pred cCHhhHhhhccccCCC-CCcEEEEeCCHHH---H-HhhhcccCCccccCCH
Confidence 4667899999999999 6999999998532 1 2344555555555443
No 70
>COG1204 Superfamily II helicase [General function prediction only]
Probab=100.00 E-value=1.5e-36 Score=310.74 Aligned_cols=348 Identities=20% Similarity=0.193 Sum_probs=252.6
Q ss_pred CCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH
Q 011104 106 NLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI 185 (493)
Q Consensus 106 ~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~ 185 (493)
.+.+.+..-+.. .++....+.|+.++...+.+ ++|+++++|||||||+++++.+++.+... +.++++|||+++||.
T Consensus 15 ~~~~~v~~i~~~-~~~~el~~~qq~av~~~~~~-~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~k~vYivPlkALa~ 90 (766)
T COG1204 15 KLDDRVLEILKG-DGIDELFNPQQEAVEKGLLS-DENVLISAPTGSGKTLIALLAILSTLLEG--GGKVVYIVPLKALAE 90 (766)
T ss_pred cccHHHHHHhcc-CChHHhhHHHHHHhhccccC-CCcEEEEcCCCCchHHHHHHHHHHHHHhc--CCcEEEEeChHHHHH
Confidence 355666666654 78878888888888777655 49999999999999999999999988653 568999999999999
Q ss_pred HHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCC
Q 011104 186 QNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGF 265 (493)
Q Consensus 186 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~ 265 (493)
+.++.++ ....+|+++...+|...... ....+++|+|+||+++-.++++...-+..+++||+||+|.+.+. ..
T Consensus 91 Ek~~~~~-~~~~~GirV~~~TgD~~~~~-----~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~-~R 163 (766)
T COG1204 91 EKYEEFS-RLEELGIRVGISTGDYDLDD-----ERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDR-TR 163 (766)
T ss_pred HHHHHhh-hHHhcCCEEEEecCCcccch-----hhhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCc-cc
Confidence 9999999 34457888887777664332 12235799999999999988887767889999999999998874 24
Q ss_pred HHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhcc-Cceeee-ccccccccCceEEEEeCCCh-----HHHHHH
Q 011104 266 RDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKD-YNQLFV-KKEELSLESVKQYKVYCPDE-----LAKVMV 338 (493)
Q Consensus 266 ~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~-----~~~~~~ 338 (493)
.+.+..|+..+......+|++++|||+|+... +..|++. +..... ...-.......+........ ......
T Consensus 164 G~~lE~iv~r~~~~~~~~rivgLSATlpN~~e--vA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~~~~~~k~~~~~~~~~ 241 (766)
T COG1204 164 GPVLESIVARMRRLNELIRIVGLSATLPNAEE--VADWLNAKLVESDWRPVPLRRGVPYVGAFLGADGKKKTWPLLIDNL 241 (766)
T ss_pred CceehhHHHHHHhhCcceEEEEEeeecCCHHH--HHHHhCCcccccCCCCcccccCCccceEEEEecCccccccccchHH
Confidence 45677778888777667899999999985432 2333332 111111 11111111112222222211 123334
Q ss_pred HHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC-------------------------------------CCcEEEec
Q 011104 339 IRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF-------------------------------------GYEVTTIM 381 (493)
Q Consensus 339 l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~-------------------------------------~~~~~~l~ 381 (493)
..+.+......++.+||||+|+..+...++.|+.. ...+..+|
T Consensus 242 ~~~~v~~~~~~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHh 321 (766)
T COG1204 242 ALELVLESLAEGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHH 321 (766)
T ss_pred HHHHHHHHHhcCCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccc
Confidence 44556666777899999999999999999988731 12367899
Q ss_pred CCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEE----ccCCCCCCCCCCCCcccccccccccccCCC--c
Q 011104 382 GATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVN----YDPPVKHGKHLEPDCEVYLHRIGRAGRFGR--K 455 (493)
Q Consensus 382 ~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~----~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~--~ 455 (493)
++|+..+|..+.+.|+.|.++||+||..+++|+|+|.-+.||- |++ . .+ ....+.-+|+|++|||||-|- .
T Consensus 322 AGL~~~~R~~vE~~Fr~g~ikVlv~TpTLA~GVNLPA~~VIIk~~~~y~~-~-~g-~~~i~~~dv~QM~GRAGRPg~d~~ 398 (766)
T COG1204 322 AGLPREDRQLVEDAFRKGKIKVLVSTPTLAAGVNLPARTVIIKDTRRYDP-K-GG-IVDIPVLDVLQMAGRAGRPGYDDY 398 (766)
T ss_pred cCCCHHHHHHHHHHHhcCCceEEEechHHhhhcCCcceEEEEeeeEEEcC-C-CC-eEECchhhHhhccCcCCCCCcCCC
Confidence 9999999999999999999999999999999999997766663 443 1 11 334678889999999999774 4
Q ss_pred ceEEEEeeCCccHH
Q 011104 456 GVVFNLLMDGDDMI 469 (493)
Q Consensus 456 g~~i~l~~~~~~~~ 469 (493)
|.++.+.+..++..
T Consensus 399 G~~~i~~~~~~~~~ 412 (766)
T COG1204 399 GEAIILATSHDELE 412 (766)
T ss_pred CcEEEEecCccchh
Confidence 66666664444433
No 71
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=2.2e-37 Score=280.13 Aligned_cols=333 Identities=19% Similarity=0.246 Sum_probs=241.2
Q ss_pred HHHHHHHhhCCCCC-CchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHH
Q 011104 110 ELLKGLYVEMKFQK-PSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNL 188 (493)
Q Consensus 110 ~~~~~l~~~~g~~~-~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~ 188 (493)
.+...|++.||+.+ -++.|.+++..+..+. +||.|++|||+||+++|.+|.|- .+...||+.|..+|.....
T Consensus 6 ~VreaLKK~FGh~kFKs~LQE~A~~c~VK~k-~DVyVsMPTGaGKSLCyQLPaL~------~~gITIV~SPLiALIkDQi 78 (641)
T KOG0352|consen 6 KVREALKKLFGHKKFKSRLQEQAINCIVKRK-CDVYVSMPTGAGKSLCYQLPALV------HGGITIVISPLIALIKDQI 78 (641)
T ss_pred HHHHHHHHHhCchhhcChHHHHHHHHHHhcc-CcEEEeccCCCchhhhhhchHHH------hCCeEEEehHHHHHHHHHH
Confidence 45667777788875 5899999999999984 89999999999999999999984 3447899999999999888
Q ss_pred HHHHHHhcccCceeeEeecCCCCCc----ccccCCCCCCCcEEEeCchHH-----HHHHHcCccCCCCeeEEEEecchhh
Q 011104 189 EVLRKMGKHTGITSECAVPTDSTNY----VPISKRPPVTAQVVIGTPGTI-----KKWMSAKKLGFSRLKILVYDEADHM 259 (493)
Q Consensus 189 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~Ilv~Tp~~l-----~~~l~~~~~~~~~~~~iVlDEah~l 259 (493)
..+.++--. +..+....+... ............|++.||+.- ..+|+. -.+-..++++|+||||++
T Consensus 79 DHL~~LKVp----~~SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITPE~AAt~~FQ~lLn~-L~~r~~L~Y~vVDEAHCV 153 (641)
T KOG0352|consen 79 DHLKRLKVP----CESLNSKLSTVERSRIMGDLAKEKPTIKMLYITPEGAATDGFQKLLNG-LANRDVLRYIVVDEAHCV 153 (641)
T ss_pred HHHHhcCCc----hhHhcchhhHHHHHHHHHHHHhcCCceeEEEEchhhhhhhhHHHHHHH-HhhhceeeeEEechhhhH
Confidence 888776321 111111111111 111223334567999999863 233322 112344889999999999
Q ss_pred hcc-cCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHH--HhccCceeeeccccccccCc-eEEEEeCCChHHH
Q 011104 260 LDE-AGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTR--IVKDYNQLFVKKEELSLESV-KQYKVYCPDELAK 335 (493)
Q Consensus 260 ~~~-~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ 335 (493)
..+ +.|++.+..+ ..++...+....+++|||.++.+.+.+-. .+..|..++..+.....-.. .++.....+...
T Consensus 154 SQWGHDFRPDYL~L-G~LRS~~~~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFkTP~FR~NLFYD~~~K~~I~D~~~- 231 (641)
T KOG0352|consen 154 SQWGHDFRPDYLTL-GSLRSVCPGVPWVALTATANAKVQEDIAFQLKLRNPVAIFKTPTFRDNLFYDNHMKSFITDCLT- 231 (641)
T ss_pred hhhccccCcchhhh-hhHHhhCCCCceEEeecccChhHHHHHHHHHhhcCcHHhccCcchhhhhhHHHHHHHHhhhHhH-
Confidence 874 4588887764 45555566889999999999888775544 34556555432211100000 000001111111
Q ss_pred HHHHHHHHHHhcc-----------cCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEE
Q 011104 336 VMVIRDRIFELGE-----------KMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVL 404 (493)
Q Consensus 336 ~~~l~~~l~~~~~-----------~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vL 404 (493)
.|.+.-...+. ..+-.||||.|++.|++++-.|...|+.+..+|.++...+|..+.+.|.++++.|+
T Consensus 232 --~LaDF~~~~LG~~~~~~~~~K~~~GCGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI 309 (641)
T KOG0352|consen 232 --VLADFSSSNLGKHEKASQNKKTFTGCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIPVI 309 (641)
T ss_pred --hHHHHHHHhcCChhhhhcCCCCcCcceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHhcCCCCEE
Confidence 11111111111 13557999999999999999999999999999999999999999999999999999
Q ss_pred EEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 405 ISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 405 v~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
+||..+++|+|-|+|++|||++.| .++..|.|-.||+||.|....|-++|...+
T Consensus 310 ~AT~SFGMGVDKp~VRFViHW~~~--------qn~AgYYQESGRAGRDGk~SyCRLYYsR~D 363 (641)
T KOG0352|consen 310 AATVSFGMGVDKPDVRFVIHWSPS--------QNLAGYYQESGRAGRDGKRSYCRLYYSRQD 363 (641)
T ss_pred EEEeccccccCCcceeEEEecCch--------hhhHHHHHhccccccCCCccceeeeecccc
Confidence 999999999999999999999999 889999999999999999999998887543
No 72
>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=1.5e-35 Score=284.08 Aligned_cols=301 Identities=14% Similarity=0.161 Sum_probs=197.9
Q ss_pred HHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc----Ccee
Q 011104 127 IQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT----GITS 202 (493)
Q Consensus 127 ~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~----~~~~ 202 (493)
+|.++++.+..+....++++||||||||.+|++|++.. ..++++++|+++|+.|+++.++.+.... +..+
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~~------~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v 74 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLHG------ENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNL 74 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHHc------CCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceE
Confidence 48999999999843358999999999999999999842 3468999999999999999988876432 3333
Q ss_pred eEeecCCCCCccccc------------------CCCCCCCcEEEeCchHHHHHHHcCc--------cCCCCeeEEEEecc
Q 011104 203 ECAVPTDSTNYVPIS------------------KRPPVTAQVVIGTPGTIKKWMSAKK--------LGFSRLKILVYDEA 256 (493)
Q Consensus 203 ~~~~~~~~~~~~~~~------------------~~~~~~~~Ilv~Tp~~l~~~l~~~~--------~~~~~~~~iVlDEa 256 (493)
....|.......... ......+.|+++||+.|..++.... ..+.++++||+||+
T Consensus 75 ~~~~g~~~~d~~~~~~~~~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~ 154 (357)
T TIGR03158 75 LHVSKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEF 154 (357)
T ss_pred EEecCCchHHHHHhhhhhcccCccchhhhhHHHHHhcCCCCEEEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEecc
Confidence 333332111100000 0012357899999999987654311 12578999999999
Q ss_pred hhhhcccC-CHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHH--hccCceeeeccccc----------------
Q 011104 257 DHMLDEAG-FRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRI--VKDYNQLFVKKEEL---------------- 317 (493)
Q Consensus 257 h~l~~~~~-~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~--~~~~~~~~~~~~~~---------------- 317 (493)
|.+..... +.......+..+.......+++++|||+++.+...+... +..+.....+....
T Consensus 155 H~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~lSAT~~~~~~~~l~~~~~~~~~~~~v~g~~~~~~~~~~~~~~~~~~~~ 234 (357)
T TIGR03158 155 HLYDAKQLVGMLFLLAYMQLIRFFECRRKFVFLSATPDPALILRLQNAKQAGVKIAPIDGEKYQFPDNPELEADNKTQSF 234 (357)
T ss_pred cccCcccchhhhhhhHHHHHHHhhhcCCcEEEEecCCCHHHHHHHHhccccCceeeeecCcccccCCChhhhcccccccc
Confidence 99774211 111111222222211224699999999998877776654 33322111111000
Q ss_pred --cccCceEEEEeCCC-hHHHHHHHHHHHHHhc--ccCCcEEEEcCChhhHHHHHHHHHhCC--CcEEEecCCCCHHHHH
Q 011104 318 --SLESVKQYKVYCPD-ELAKVMVIRDRIFELG--EKMGQTIIFVRTKNSASALHKALKDFG--YEVTTIMGATIQEERD 390 (493)
Q Consensus 318 --~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~--~~~~~~lVf~~s~~~~~~l~~~L~~~~--~~~~~l~~~~~~~~r~ 390 (493)
....+.+.+..... ....+..+.+.+.+.. ..++++||||+++..++.++..|+..+ +.+..+||.+++.+|.
T Consensus 235 ~~~~~~i~~~~~~~~~~~~~~l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~ 314 (357)
T TIGR03158 235 RPVLPPVELELIPAPDFKEEELSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRE 314 (357)
T ss_pred ceeccceEEEEEeCCchhHHHHHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHH
Confidence 00234444433221 1111222223232222 245789999999999999999999864 5788999999999987
Q ss_pred HHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccc
Q 011104 391 KIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAG 450 (493)
Q Consensus 391 ~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~ 450 (493)
+. ++..|||||+++++|||++.+ +|| ++ | .+.+.|+||+||+|
T Consensus 315 ~~------~~~~iLVaTdv~~rGiDi~~~-~vi-~~-p--------~~~~~yiqR~GR~g 357 (357)
T TIGR03158 315 RA------MQFDILLGTSTVDVGVDFKRD-WLI-FS-A--------RDAAAFWQRLGRLG 357 (357)
T ss_pred Hh------ccCCEEEEecHHhcccCCCCc-eEE-EC-C--------CCHHHHhhhcccCC
Confidence 55 368899999999999999987 666 45 6 67899999999997
No 73
>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=8.5e-36 Score=309.63 Aligned_cols=364 Identities=22% Similarity=0.258 Sum_probs=272.0
Q ss_pred HHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHH
Q 011104 110 ELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLE 189 (493)
Q Consensus 110 ~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~ 189 (493)
.+..++.+ .|+..++++|.+|+..+.+| +|++|..+||||||.+|++|+++.+...... ++|+|-||++||+.+.+
T Consensus 58 ~l~~~l~~-~g~~~lY~HQ~~A~~~~~~G--~~vvVtTgTgSGKTe~FllPIld~~l~~~~a-~AL~lYPtnALa~DQ~~ 133 (851)
T COG1205 58 SLKSALVK-AGIERLYSHQVDALRLIREG--RNVVVTTGTGSGKTESFLLPILDHLLRDPSA-RALLLYPTNALANDQAE 133 (851)
T ss_pred HHHHHHHH-hccccccHHHHHHHHHHHCC--CCEEEECCCCCchhHHHHHHHHHHHhhCcCc-cEEEEechhhhHhhHHH
Confidence 34666766 78888999999999999999 9999999999999999999999999876555 89999999999999999
Q ss_pred HHHHHhcccC--ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCc----cCCCCeeEEEEecchhhhccc
Q 011104 190 VLRKMGKHTG--ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKK----LGFSRLKILVYDEADHMLDEA 263 (493)
Q Consensus 190 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~----~~~~~~~~iVlDEah~l~~~~ 263 (493)
.++++....+ +......|........ ......++|+++||.+|..++.... +.++++++||+||+|.+-.
T Consensus 134 rl~~~~~~~~~~v~~~~y~Gdt~~~~r~--~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYrG-- 209 (851)
T COG1205 134 RLRELISDLPGKVTFGRYTGDTPPEERR--AIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRG-- 209 (851)
T ss_pred HHHHHHHhCCCcceeeeecCCCChHHHH--HHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceeccc--
Confidence 9999988887 4444444444332221 2234568999999999988654432 3467899999999998875
Q ss_pred CCHHHHHHHHHHhh----hcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCC-----h--
Q 011104 264 GFRDDSLRIMKDIE----RSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD-----E-- 332 (493)
Q Consensus 264 ~~~~~~~~i~~~~~----~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~-- 332 (493)
.|...+.-+++++. ....+.|+|+.|||+...-.. ...+........+ ...........+....+. .
T Consensus 210 v~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~-~~~l~~~~f~~~v-~~~g~~~~~~~~~~~~p~~~~~~~~~ 287 (851)
T COG1205 210 VQGSEVALLLRRLLRRLRRYGSPLQIICTSATLANPGEF-AEELFGRDFEVPV-DEDGSPRGLRYFVRREPPIRELAESI 287 (851)
T ss_pred cchhHHHHHHHHHHHHHhccCCCceEEEEeccccChHHH-HHHhcCCcceeec-cCCCCCCCceEEEEeCCcchhhhhhc
Confidence 45565555555554 344578999999998765543 4444444333322 223334444445454441 0
Q ss_pred -HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHH----HHHHhCC----CcEEEecCCCCHHHHHHHHHHHHcCCCcE
Q 011104 333 -LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALH----KALKDFG----YEVTTIMGATIQEERDKIVKEFKDGLTQV 403 (493)
Q Consensus 333 -~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~----~~L~~~~----~~~~~l~~~~~~~~r~~~~~~f~~g~~~v 403 (493)
......+...+......+-++|+|+.++..++.+. ..+...+ ..+..++++|...+|.++...|++|+..+
T Consensus 288 r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~~ 367 (851)
T COG1205 288 RRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLG 367 (851)
T ss_pred ccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhcCCccE
Confidence 12222233333444455789999999999999997 4444445 67899999999999999999999999999
Q ss_pred EEEeCccccCCCCCCCCEEEEccCCCCCCCCCCC-CcccccccccccccCCCcceEEEEeeCCc-cHHHHHHHHHHhC--
Q 011104 404 LISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEP-DCEVYLHRIGRAGRFGRKGVVFNLLMDGD-DMIIMEKIERYFD-- 479 (493)
Q Consensus 404 Lv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~-s~~~y~qr~GR~~R~g~~g~~i~l~~~~~-~~~~~~~i~~~~~-- 479 (493)
+++|++++-|+|+-+++.||.++.| . +..++.||+||+||.++.+..+.++.... +.+|+..-+.++.
T Consensus 368 ~~st~AlelgidiG~ldavi~~g~P--------~~s~~~~~Q~~GRaGR~~~~~l~~~v~~~~~~d~yy~~~p~~~~~~~ 439 (851)
T COG1205 368 VIATNALELGIDIGSLDAVIAYGYP--------GVSVLSFRQRAGRAGRRGQESLVLVVLRSDPLDSYYLRHPEELLETG 439 (851)
T ss_pred EecchhhhhceeehhhhhHhhcCCC--------CchHHHHHHhhhhccCCCCCceEEEEeCCCccchhhhhCcHhhhhcc
Confidence 9999999999999999999999999 6 78999999999999987776665554222 5667777777777
Q ss_pred -CCceeecCcccc
Q 011104 480 -IKVTEVQTCTCE 491 (493)
Q Consensus 480 -~~~~~~~~~~~~ 491 (493)
..++...++..+
T Consensus 440 ~~~~e~~~~~~~n 452 (851)
T COG1205 440 FGPVESVRVDDNN 452 (851)
T ss_pred cCcccccccCCCC
Confidence 666666665544
No 74
>PRK13766 Hef nuclease; Provisional
Probab=100.00 E-value=5.3e-35 Score=310.55 Aligned_cols=326 Identities=22% Similarity=0.291 Sum_probs=230.6
Q ss_pred CCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccC
Q 011104 120 KFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTG 199 (493)
Q Consensus 120 g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~ 199 (493)
+.-.|.++|...+..++. +++++++|||+|||+++++++...+. ..+.++|||+||++|+.|+.+.++++....+
T Consensus 12 ~~~~~r~yQ~~~~~~~l~---~n~lv~~ptG~GKT~~a~~~i~~~l~--~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~ 86 (773)
T PRK13766 12 NTIEARLYQQLLAATALK---KNTLVVLPTGLGKTAIALLVIAERLH--KKGGKVLILAPTKPLVEQHAEFFRKFLNIPE 86 (773)
T ss_pred CcCCccHHHHHHHHHHhc---CCeEEEcCCCccHHHHHHHHHHHHHH--hCCCeEEEEeCcHHHHHHHHHHHHHHhCCCC
Confidence 344689999999988887 48999999999999999988887763 3456899999999999999999998865433
Q ss_pred ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhc
Q 011104 200 ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERS 279 (493)
Q Consensus 200 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~ 279 (493)
..+..+.|....... .....+++|+|+||+.+...+..+.+.+.++++||+||||++....++ ..++..+...
T Consensus 87 ~~v~~~~g~~~~~~r---~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~~~----~~i~~~~~~~ 159 (773)
T PRK13766 87 EKIVVFTGEVSPEKR---AELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNYAY----VYIAERYHED 159 (773)
T ss_pred ceEEEEeCCCCHHHH---HHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCccccccccH----HHHHHHHHhc
Confidence 445445554432211 111124689999999998888777888899999999999998764322 2233333333
Q ss_pred CCCeeEEEEeeecChhH---HHHHHHHhccCceee--------------------ecccc--------------------
Q 011104 280 SGHCQVLLFSATFNETV---KNFVTRIVKDYNQLF--------------------VKKEE-------------------- 316 (493)
Q Consensus 280 ~~~~q~v~~SAT~~~~~---~~~~~~~~~~~~~~~--------------------~~~~~-------------------- 316 (493)
....++++||||+.... ...+..+......+. +....
T Consensus 160 ~~~~~il~lTaTP~~~~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~l~~~~~~i~~~l~~~~~~~l~~l 239 (773)
T PRK13766 160 AKNPLVLGLTASPGSDEEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVELPEELKEIRDLLNEALKDRLKKL 239 (773)
T ss_pred CCCCEEEEEEcCCCCCHHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeCCcHHHHHHHHHHHHHHHHHHHHH
Confidence 33567999999964221 111111100000000 00000
Q ss_pred ---ccc---c-------------CceEEE---------------------------------------------------
Q 011104 317 ---LSL---E-------------SVKQYK--------------------------------------------------- 326 (493)
Q Consensus 317 ---~~~---~-------------~~~~~~--------------------------------------------------- 326 (493)
... . .+....
T Consensus 240 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~y~~~l~~~~~~~~~ 319 (773)
T PRK13766 240 KELGVIVSISPDVSKKELLGLQKKLQQEIANDDSEGYEAISILAEAMKLRHAVELLETQGVEALRRYLERLREEARSSGG 319 (773)
T ss_pred HHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHhhccccCC
Confidence 000 0 000000
Q ss_pred --------------------EeCCChHHHHHHHHHHHHHhc--ccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCC-
Q 011104 327 --------------------VYCPDELAKVMVIRDRIFELG--EKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGA- 383 (493)
Q Consensus 327 --------------------~~~~~~~~~~~~l~~~l~~~~--~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~- 383 (493)
..+.....|+..+.+.+.... ....++||||+++..|..+++.|...++.+..+||.
T Consensus 320 ~~~~~~l~~~~~~~~~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g~~ 399 (773)
T PRK13766 320 SKASKRLVEDPRFRKAVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQA 399 (773)
T ss_pred cHHHHHHHhCHHHHHHHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCCceEEEEccc
Confidence 000011123333333333322 356899999999999999999999999999999986
Q ss_pred -------CCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcc
Q 011104 384 -------TIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKG 456 (493)
Q Consensus 384 -------~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g 456 (493)
|++.+|..++++|++|...|||||+++++|+|+|++++||+|++| .+...|+||+||+||.| .|
T Consensus 400 ~~~~~~~~~~~~r~~~~~~F~~g~~~vLvaT~~~~eGldi~~~~~VI~yd~~--------~s~~r~iQR~GR~gR~~-~~ 470 (773)
T PRK13766 400 SKDGDKGMSQKEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPV--------PSEIRSIQRKGRTGRQE-EG 470 (773)
T ss_pred cccccCCCCHHHHHHHHHHHHcCCCCEEEECChhhcCCCcccCCEEEEeCCC--------CCHHHHHHHhcccCcCC-CC
Confidence 999999999999999999999999999999999999999999999 67888999999999986 58
Q ss_pred eEEEEeeCCc
Q 011104 457 VVFNLLMDGD 466 (493)
Q Consensus 457 ~~i~l~~~~~ 466 (493)
.++.++..+.
T Consensus 471 ~v~~l~~~~t 480 (773)
T PRK13766 471 RVVVLIAKGT 480 (773)
T ss_pred EEEEEEeCCC
Confidence 8888887654
No 75
>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=100.00 E-value=4.9e-35 Score=309.51 Aligned_cols=301 Identities=18% Similarity=0.212 Sum_probs=209.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHH-HhcccCceeeEeecCCCCCcccccCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRK-MGKHTGITSECAVPTDSTNYVPISKR 219 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (493)
+.++++|+||||||+. +|.+..-.......+++++.|+|..|..+++.+.. ++..+|..+++.+... ..
T Consensus 83 ~vvii~g~TGSGKTTq--lPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg~~lG~~VGY~vR~~--------~~ 152 (1283)
T TIGR01967 83 QVVIIAGETGSGKTTQ--LPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEKVGYKVRFH--------DQ 152 (1283)
T ss_pred ceEEEeCCCCCCcHHH--HHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhCCCcceEEeeEEcCC--------cc
Confidence 7899999999999995 45543322222234677778999999888876554 4444444444433322 22
Q ss_pred CCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchh-hhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHH
Q 011104 220 PPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADH-MLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKN 298 (493)
Q Consensus 220 ~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~-l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~ 298 (493)
.+..+.|+|+|+|+|++.+..+.. +..+++|||||||+ .++ .+|. ..+++.+....++.|+|+||||++. ..
T Consensus 153 ~s~~T~I~~~TdGiLLr~l~~d~~-L~~~~~IIIDEaHERsL~-~D~L---L~lLk~il~~rpdLKlIlmSATld~--~~ 225 (1283)
T TIGR01967 153 VSSNTLVKLMTDGILLAETQQDRF-LSRYDTIIIDEAHERSLN-IDFL---LGYLKQLLPRRPDLKIIITSATIDP--ER 225 (1283)
T ss_pred cCCCceeeeccccHHHHHhhhCcc-cccCcEEEEcCcchhhcc-chhH---HHHHHHHHhhCCCCeEEEEeCCcCH--HH
Confidence 334678999999999999987664 89999999999995 554 4443 3334444444557899999999974 34
Q ss_pred HHHHHhccCceeeeccccccccCceEEEEeCCC-----hHHHHHHHHHHHHHhc-ccCCcEEEEcCChhhHHHHHHHHHh
Q 011104 299 FVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD-----ELAKVMVIRDRIFELG-EKMGQTIIFVRTKNSASALHKALKD 372 (493)
Q Consensus 299 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~l~~~l~~~~-~~~~~~lVf~~s~~~~~~l~~~L~~ 372 (493)
+...| .+...+.+.....+ +..+|..... .......+...+.... ...+.+|||+++..+++.+++.|..
T Consensus 226 fa~~F-~~apvI~V~Gr~~P---Vev~Y~~~~~~~~~~~~~~~~~i~~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~ 301 (1283)
T TIGR01967 226 FSRHF-NNAPIIEVSGRTYP---VEVRYRPLVEEQEDDDLDQLEAILDAVDELFAEGPGDILIFLPGEREIRDAAEILRK 301 (1283)
T ss_pred HHHHh-cCCCEEEECCCccc---ceeEEecccccccchhhhHHHHHHHHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHh
Confidence 44444 33334444433322 3334433321 1122233333233222 2458999999999999999999987
Q ss_pred CC---CcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCC-------C---CCCCc
Q 011104 373 FG---YEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGK-------H---LEPDC 439 (493)
Q Consensus 373 ~~---~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~-------~---~~~s~ 439 (493)
.+ +.+.++||+|++.+|.+++..+ +..+|||||+++++|||||+|++||+++.+..... . .+.|.
T Consensus 302 ~~~~~~~VlpLhg~Ls~~eQ~~vf~~~--~~rkIVLATNIAEtSLTIpgV~yVIDsGl~r~~~yd~~~~~~~L~~~~ISk 379 (1283)
T TIGR01967 302 RNLRHTEILPLYARLSNKEQQRVFQPH--SGRRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQ 379 (1283)
T ss_pred cCCCCcEEEeccCCCCHHHHHHHhCCC--CCceEEEeccHHHhccccCCeeEEEeCCCccccccccccCccccCCccCCH
Confidence 64 4689999999999999997654 34799999999999999999999999997643211 1 13466
Q ss_pred ccccccccccccCCCcceEEEEeeCC
Q 011104 440 EVYLHRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 440 ~~y~qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
++|.||+||+||.| +|.||.||+..
T Consensus 380 asa~QRaGRAGR~~-~G~cyRLyte~ 404 (1283)
T TIGR01967 380 ASANQRKGRCGRVA-PGICIRLYSEE 404 (1283)
T ss_pred HHHHHHhhhhCCCC-CceEEEecCHH
Confidence 79999999999997 99999999854
No 76
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=2.5e-35 Score=303.62 Aligned_cols=336 Identities=19% Similarity=0.213 Sum_probs=252.9
Q ss_pred CCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHH
Q 011104 107 LSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQ 186 (493)
Q Consensus 107 ~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q 186 (493)
.++++...+...||.....+-|.++|..++.| +|+++.+|||.||+++|.+|++ ..++..|||.|..+|.+.
T Consensus 248 ~t~~~~~~l~~~Fg~~~FR~~Q~eaI~~~l~G--kd~fvlmpTG~GKSLCYQlPA~------l~~gitvVISPL~SLm~D 319 (941)
T KOG0351|consen 248 ETKELELLLKEVFGHKGFRPNQLEAINATLSG--KDCFVLMPTGGGKSLCYQLPAL------LLGGVTVVISPLISLMQD 319 (941)
T ss_pred cchHHHHHHHHHhccccCChhHHHHHHHHHcC--CceEEEeecCCceeeEeecccc------ccCCceEEeccHHHHHHH
Confidence 34456667766799999999999999999999 9999999999999999999988 345588999999999887
Q ss_pred HHHHHHHHhcccCceeeEeecCCCCCc--ccc--cCCCCCCCcEEEeCchHHHHHHH--cCccCCCC---eeEEEEecch
Q 011104 187 NLEVLRKMGKHTGITSECAVPTDSTNY--VPI--SKRPPVTAQVVIGTPGTIKKWMS--AKKLGFSR---LKILVYDEAD 257 (493)
Q Consensus 187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~Ilv~Tp~~l~~~l~--~~~~~~~~---~~~iVlDEah 257 (493)
+...+.. .++...++.+...... ... ........+|++.||+.+...-. .....+.. +.++|+||||
T Consensus 320 Qv~~L~~----~~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAH 395 (941)
T KOG0351|consen 320 QVTHLSK----KGIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVIDEAH 395 (941)
T ss_pred HHHhhhh----cCcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEecHHH
Confidence 7666533 2344444444443321 111 11222367899999998743211 11112333 8899999999
Q ss_pred hhhcc-cCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHH
Q 011104 258 HMLDE-AGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKV 336 (493)
Q Consensus 258 ~l~~~-~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (493)
++..+ +.|++.+..+..... ..+.+.+|++|||.+..+..-+...++-........ .....++.-. +.........
T Consensus 396 CVSqWgHdFRp~Yk~l~~l~~-~~~~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~-sfnR~NL~ye-V~~k~~~~~~ 472 (941)
T KOG0351|consen 396 CVSQWGHDFRPSYKRLGLLRI-RFPGVPFIALTATATERVREDVIRSLGLRNPELFKS-SFNRPNLKYE-VSPKTDKDAL 472 (941)
T ss_pred HhhhhcccccHHHHHHHHHHh-hCCCCCeEEeehhccHHHHHHHHHHhCCCCcceecc-cCCCCCceEE-EEeccCccch
Confidence 99874 457777776554444 444689999999999999888777766544432222 2222222222 2222212222
Q ss_pred HHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCC
Q 011104 337 MVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQ 416 (493)
Q Consensus 337 ~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi 416 (493)
..+.. ..........+||||.++.+|+.++..|...++.+..||++|+..+|..+...|..++++|++||=+++.|||.
T Consensus 473 ~~~~~-~~~~~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK 551 (941)
T KOG0351|consen 473 LDILE-ESKLRHPDQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDK 551 (941)
T ss_pred HHHHH-HhhhcCCCCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcCCCeEEEEEeeccCCCCC
Confidence 22222 33344557899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 417 QQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 417 ~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
|+|+.||||++| .|++.|.|-+|||||.|....|++|+...+
T Consensus 552 ~DVR~ViH~~lP--------ks~E~YYQE~GRAGRDG~~s~C~l~y~~~D 593 (941)
T KOG0351|consen 552 PDVRFVIHYSLP--------KSFEGYYQEAGRAGRDGLPSSCVLLYGYAD 593 (941)
T ss_pred CceeEEEECCCc--------hhHHHHHHhccccCcCCCcceeEEecchhH
Confidence 999999999999 899999999999999999999999998764
No 77
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=100.00 E-value=3.8e-35 Score=262.10 Aligned_cols=344 Identities=20% Similarity=0.218 Sum_probs=261.4
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
...-++++++.+..+-|+..|...++.|.|..+|...+.| .++++..|||.||+++|.+|+|. ....+||+|
T Consensus 70 awdkd~fpws~e~~~ilk~~f~lekfrplq~~ain~~ma~--ed~~lil~tgggkslcyqlpal~------adg~alvi~ 141 (695)
T KOG0353|consen 70 AWDKDDFPWSDEAKDILKEQFHLEKFRPLQLAAINATMAG--EDAFLILPTGGGKSLCYQLPALC------ADGFALVIC 141 (695)
T ss_pred ccccCCCCCchHHHHHHHHHhhHHhcChhHHHHhhhhhcc--CceEEEEeCCCccchhhhhhHHh------cCCceEeec
Confidence 3455688999999999988889999999999999999999 99999999999999999999995 356799999
Q ss_pred CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCC----cccccCCCCCCCcEEEeCchHHHHH---HHc--CccCCCCee
Q 011104 179 PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTN----YVPISKRPPVTAQVVIGTPGTIKKW---MSA--KKLGFSRLK 249 (493)
Q Consensus 179 Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~Ilv~Tp~~l~~~---l~~--~~~~~~~~~ 249 (493)
|..+|.....-.++.++..... +....+.. .............+++.||+.+..- +.+ ..+....+.
T Consensus 142 plislmedqil~lkqlgi~as~----lnansske~~k~v~~~i~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~ 217 (695)
T KOG0353|consen 142 PLISLMEDQILQLKQLGIDASM----LNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFK 217 (695)
T ss_pred hhHHHHHHHHHHHHHhCcchhh----ccCcccHHHHHHHHHHHcCCCceeEEEEecHHHHHHHHHHHHHHHHHhhcceeE
Confidence 9999998888888887654321 11111111 1111122333567999999987422 211 344567789
Q ss_pred EEEEecchhhhcc-cCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEe
Q 011104 250 ILVYDEADHMLDE-AGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVY 328 (493)
Q Consensus 250 ~iVlDEah~l~~~-~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 328 (493)
+|.+||+|+...+ +.|++.+. .+..+.+..++..+++++||.+..+...+..++.-...+.... .+...++.-.+..
T Consensus 218 ~iaidevhccsqwghdfr~dy~-~l~ilkrqf~~~~iigltatatn~vl~d~k~il~ie~~~tf~a-~fnr~nl~yev~q 295 (695)
T KOG0353|consen 218 LIAIDEVHCCSQWGHDFRPDYK-ALGILKRQFKGAPIIGLTATATNHVLDDAKDILCIEAAFTFRA-GFNRPNLKYEVRQ 295 (695)
T ss_pred EEeecceeehhhhCcccCcchH-HHHHHHHhCCCCceeeeehhhhcchhhHHHHHHhHHhhheeec-ccCCCCceeEeee
Confidence 9999999998864 34666554 4566666777889999999999888877777665433332222 2233333333333
Q ss_pred CCChHH-HHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEe
Q 011104 329 CPDELA-KVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLIST 407 (493)
Q Consensus 329 ~~~~~~-~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T 407 (493)
-|.... -...+...+ ...-.+...||||-+++.++.++..|+.+|+.+..+|..|.+.++.-+-+.|..|++.|+|||
T Consensus 296 kp~n~dd~~edi~k~i-~~~f~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a~eiqvivat 374 (695)
T KOG0353|consen 296 KPGNEDDCIEDIAKLI-KGDFAGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVAT 374 (695)
T ss_pred CCCChHHHHHHHHHHh-ccccCCCcceEEEeccccHHHHHHHHHhcCccccccccccCccccccccccccccceEEEEEE
Confidence 333322 223333322 222336778999999999999999999999999999999999999999999999999999999
Q ss_pred CccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccc-------------------------------------------
Q 011104 408 DVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLH------------------------------------------- 444 (493)
Q Consensus 408 ~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~q------------------------------------------- 444 (493)
-+++.|+|-|+|++|||-.+| .|++.|.|
T Consensus 375 vafgmgidkpdvrfvihhsl~--------ksienyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsek 446 (695)
T KOG0353|consen 375 VAFGMGIDKPDVRFVIHHSLP--------KSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEK 446 (695)
T ss_pred eeecccCCCCCeeEEEecccc--------hhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccceeeeeeecch
Confidence 999999999999999999999 88999998
Q ss_pred cccccccCCCcceEEEEeeCC
Q 011104 445 RIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 445 r~GR~~R~g~~g~~i~l~~~~ 465 (493)
..||+||.+.+..||++|--.
T Consensus 447 esgragrd~~~a~cilyy~~~ 467 (695)
T KOG0353|consen 447 ESGRAGRDDMKADCILYYGFA 467 (695)
T ss_pred hccccccCCCcccEEEEechH
Confidence 679999999999999888544
No 78
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=100.00 E-value=3.4e-34 Score=282.36 Aligned_cols=326 Identities=21% Similarity=0.288 Sum_probs=224.5
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
-....+..+|...+...| | +++|+++|||+|||+++..-++.++....+ .++++++|++.|+.|....+..++..
T Consensus 58 p~~~~lR~YQ~eivq~AL-g--kNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~KiVF~aP~~pLv~QQ~a~~~~~~~~- 132 (746)
T KOG0354|consen 58 PTNLELRNYQEELVQPAL-G--KNTIIALPTGSGKTFIAAVIMKNHFEWRPK-GKVVFLAPTRPLVNQQIACFSIYLIP- 132 (746)
T ss_pred cCcccccHHHHHHhHHhh-c--CCeEEEeecCCCccchHHHHHHHHHhcCCc-ceEEEeeCCchHHHHHHHHHhhccCc-
Confidence 355568899999999999 8 999999999999999999999999877655 69999999999999999777777755
Q ss_pred CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccC-CCCeeEEEEecchhhhcccCCHHHHHHHHHHhh
Q 011104 199 GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLG-FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIE 277 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~-~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~ 277 (493)
..+....++........ ......+|+|+||+.|..-|...... ++.+.++|+||||+-...+.+...+..++..-.
T Consensus 133 -~~~T~~l~~~~~~~~r~--~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn~~Y~~Vmr~~l~~k~ 209 (746)
T KOG0354|consen 133 -YSVTGQLGDTVPRSNRG--EIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKNHPYNNIMREYLDLKN 209 (746)
T ss_pred -ccceeeccCccCCCchh--hhhcccceEEeChHhhhhhcccccccccceEEEEEEcccccccccccHHHHHHHHHHhhh
Confidence 22222333322221111 12234789999999999888876543 599999999999998886665555544443322
Q ss_pred hcCCCeeEEEEeeecChhHH--------------------------------------------------HHHHHHhccC
Q 011104 278 RSSGHCQVLLFSATFNETVK--------------------------------------------------NFVTRIVKDY 307 (493)
Q Consensus 278 ~~~~~~q~v~~SAT~~~~~~--------------------------------------------------~~~~~~~~~~ 307 (493)
. ..|++++|||+..... .++..++...
T Consensus 210 ~---~~qILgLTASpG~~~~~v~~~I~~L~asldvr~~ssi~~~y~~lr~~~~i~v~~~~~~~~~~~~f~~~i~p~l~~l 286 (746)
T KOG0354|consen 210 Q---GNQILGLTASPGSKLEQVQNVIDNLCASLDVRTESSIKSNYEELREHVQIPVDLSLCERDIEDPFGMIIEPLLQQL 286 (746)
T ss_pred c---cccEEEEecCCCccHHHHHHHHHhhheecccchhhhhhhhHHHHhccCcccCcHHHhhhhhhhhHHHHHHHHHHHH
Confidence 2 3499999999532111 1111111000
Q ss_pred c-----ee------e----eccccccc--------------------------cCce---------EEEEeC--------
Q 011104 308 N-----QL------F----VKKEELSL--------------------------ESVK---------QYKVYC-------- 329 (493)
Q Consensus 308 ~-----~~------~----~~~~~~~~--------------------------~~~~---------~~~~~~-------- 329 (493)
. .+ + +....... .+++ .++..+
T Consensus 287 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~gir~~~~l~~~~~f~~e~~~~k~~~~ 366 (746)
T KOG0354|consen 287 QEEGLIEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDGIRFVDALDYLEDFYEEVALKKYLKL 366 (746)
T ss_pred HhcCccccccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhcchhhHHHHhhhhhhccccchhHHHHH
Confidence 0 00 0 00000000 0000 000000
Q ss_pred ------------------------CChHHHHHHHHHHHHHh--cccCCcEEEEcCChhhHHHHHHHHHh---CCCcEEEe
Q 011104 330 ------------------------PDELAKVMVIRDRIFEL--GEKMGQTIIFVRTKNSASALHKALKD---FGYEVTTI 380 (493)
Q Consensus 330 ------------------------~~~~~~~~~l~~~l~~~--~~~~~~~lVf~~s~~~~~~l~~~L~~---~~~~~~~l 380 (493)
+....++..+.+.+.+. .....++||||.+++.|..|..+|.. .+++...+
T Consensus 367 ~~e~~~~~~~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~~f 446 (746)
T KOG0354|consen 367 ELEARLIRNFTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHELGIKAEIF 446 (746)
T ss_pred HhcchhhHHHHHHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhccccccee
Confidence 00011222222222222 22346899999999999999999973 24454444
Q ss_pred cC--------CCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccC
Q 011104 381 MG--------ATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRF 452 (493)
Q Consensus 381 ~~--------~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~ 452 (493)
-| +|++.++..+++.|+.|..+|||||.++++||||+.++.||-||.. .++...+||.|| ||+
T Consensus 447 iGq~~s~~~~gmtqk~Q~evl~~Fr~G~~NvLVATSV~EEGLDI~ec~lVIcYd~~--------snpIrmIQrrGR-gRa 517 (746)
T KOG0354|consen 447 IGQGKSTQSTGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECNLVICYDYS--------SNPIRMVQRRGR-GRA 517 (746)
T ss_pred eeccccccccccCHHHHHHHHHHHhCCCccEEEEecchhccCCcccccEEEEecCC--------ccHHHHHHHhcc-ccc
Confidence 44 8999999999999999999999999999999999999999999999 788899999999 998
Q ss_pred CCcceEEEEeeCC
Q 011104 453 GRKGVVFNLLMDG 465 (493)
Q Consensus 453 g~~g~~i~l~~~~ 465 (493)
+.|.|+.+++..
T Consensus 518 -~ns~~vll~t~~ 529 (746)
T KOG0354|consen 518 -RNSKCVLLTTGS 529 (746)
T ss_pred -cCCeEEEEEcch
Confidence 789999999843
No 79
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=2.6e-34 Score=286.35 Aligned_cols=336 Identities=21% Similarity=0.254 Sum_probs=248.0
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC-------CCCCCeEEEEcCCHHHHHHHHHHH
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP-------NLKAPQALCICPTRELAIQNLEVL 191 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~-------~~~~~~~lil~Pt~~La~q~~~~~ 191 (493)
++|..++.+|+.++|.+.+.+ .|+|||||||||||..|++.+|..+.+ ...+.++++|+|+++||..+++.+
T Consensus 106 f~f~~fN~iQS~vFp~aY~Sn-eNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~ 184 (1230)
T KOG0952|consen 106 FSFEEFNRIQSEVFPVAYKSN-ENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKF 184 (1230)
T ss_pred ccHHHHHHHHHHhhhhhhcCC-CCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHH
Confidence 789999999999999999874 899999999999999999999988853 235678999999999999999988
Q ss_pred HHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC---ccCCCCeeEEEEecchhhhcccCCHHH
Q 011104 192 RKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK---KLGFSRLKILVYDEADHMLDEAGFRDD 268 (493)
Q Consensus 192 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~---~~~~~~~~~iVlDEah~l~~~~~~~~~ 268 (493)
.+-...+|+.+.-+.|........ -..++|+|+||+.+--.-++. ...++.+++||+||+|.+-++.| +.
T Consensus 185 ~kkl~~~gi~v~ELTGD~ql~~te-----i~~tqiiVTTPEKwDvvTRk~~~d~~l~~~V~LviIDEVHlLhd~RG--pv 257 (1230)
T KOG0952|consen 185 SKKLAPLGISVRELTGDTQLTKTE-----IADTQIIVTTPEKWDVVTRKSVGDSALFSLVRLVIIDEVHLLHDDRG--PV 257 (1230)
T ss_pred hhhcccccceEEEecCcchhhHHH-----HHhcCEEEecccceeeeeeeeccchhhhhheeeEEeeeehhhcCccc--ch
Confidence 877777788888777776443322 225899999999863322221 22367899999999999987544 55
Q ss_pred HHHHHHHhh----hcCCCeeEEEEeeecChhHHHHHHHHhcc--CceeeeccccccccCceEEEEeCCCh---HH---HH
Q 011104 269 SLRIMKDIE----RSSGHCQVLLFSATFNETVKNFVTRIVKD--YNQLFVKKEELSLESVKQYKVYCPDE---LA---KV 336 (493)
Q Consensus 269 ~~~i~~~~~----~~~~~~q~v~~SAT~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~---~~---~~ 336 (493)
+..|+.+.. .....+++|++|||+|+-. + +..|++- +..++.....+.+..+.+..+-+... .. ..
T Consensus 258 lEtiVaRtlr~vessqs~IRivgLSATlPN~e-D-vA~fL~vn~~~glfsFd~~yRPvpL~~~~iG~k~~~~~~~~~~~d 335 (1230)
T KOG0952|consen 258 LETIVARTLRLVESSQSMIRIVGLSATLPNYE-D-VARFLRVNPYAGLFSFDQRYRPVPLTQGFIGIKGKKNRQQKKNID 335 (1230)
T ss_pred HHHHHHHHHHHHHhhhhheEEEEeeccCCCHH-H-HHHHhcCCCccceeeecccccccceeeeEEeeecccchhhhhhHH
Confidence 666665554 4455789999999998543 2 3334332 45555555566666666665554433 11 11
Q ss_pred HHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC-----------------------CCcEEEecCCCCHHHHHHHH
Q 011104 337 MVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF-----------------------GYEVTTIMGATIQEERDKIV 393 (493)
Q Consensus 337 ~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~-----------------------~~~~~~l~~~~~~~~r~~~~ 393 (493)
....+.+.+....+..++|||.+++.+.+.++.|.+. .......|++|...+|..+.
T Consensus 336 ~~~~~kv~e~~~~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E 415 (1230)
T KOG0952|consen 336 EVCYDKVVEFLQEGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVE 415 (1230)
T ss_pred HHHHHHHHHHHHcCCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHH
Confidence 2233445556667899999999999999999888653 12367889999999999999
Q ss_pred HHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCC---CCCCCcccccccccccccC--CCcceEEEEeeCC
Q 011104 394 KEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGK---HLEPDCEVYLHRIGRAGRF--GRKGVVFNLLMDG 465 (493)
Q Consensus 394 ~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~---~~~~s~~~y~qr~GR~~R~--g~~g~~i~l~~~~ 465 (493)
..|..|.++||+||..+++|+++|+-. ||.-+.+..... ....++-+.+|..|||||- +..|.++.+.+.+
T Consensus 416 ~~F~~G~i~vL~cTaTLAwGVNLPA~a-ViIKGT~~ydsskg~f~dlgilDVlQifGRAGRPqFd~~G~giIiTt~d 491 (1230)
T KOG0952|consen 416 KEFKEGHIKVLCCTATLAWGVNLPAYA-VIIKGTQVYDSSKGSFVDLGILDVLQIFGRAGRPQFDSSGEGIIITTRD 491 (1230)
T ss_pred HHHhcCCceEEEecceeeeccCCcceE-EEecCCcccccccCceeeehHHHHHHHHhccCCCCCCCCceEEEEeccc
Confidence 999999999999999999999998654 444444432211 2234556679999999994 5678888555543
No 80
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.9e-33 Score=281.53 Aligned_cols=320 Identities=16% Similarity=0.126 Sum_probs=212.2
Q ss_pred CCchHHHhhhhhhcCC-CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCce
Q 011104 123 KPSKIQAISLPMILTP-PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGIT 201 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~-~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~ 201 (493)
.+.|+|.+++..++.+ ..+..++++|||+|||++.+..+ ..+ ..++|||||+..|+.||.+.+.++.......
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa-~~l-----~k~tLILvps~~Lv~QW~~ef~~~~~l~~~~ 328 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAA-CTV-----KKSCLVLCTSAVSVEQWKQQFKMWSTIDDSQ 328 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHH-HHh-----CCCEEEEeCcHHHHHHHHHHHHHhcCCCCce
Confidence 4889999999998743 12478999999999999976543 333 2469999999999999999999986543344
Q ss_pred eeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHc--------CccCCCCeeEEEEecchhhhcccCCHHHHHHHH
Q 011104 202 SECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSA--------KKLGFSRLKILVYDEADHMLDEAGFRDDSLRIM 273 (493)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~--------~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~ 273 (493)
+....++.... .....+|+|+|+..+.....+ ..+.-..+++||+||||++.. ..+..++
T Consensus 329 I~~~tg~~k~~-------~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA-----~~fr~il 396 (732)
T TIGR00603 329 ICRFTSDAKER-------FHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPA-----AMFRRVL 396 (732)
T ss_pred EEEEecCcccc-------cccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccH-----HHHHHHH
Confidence 43333332111 112367999999987532211 112234688999999998854 3344455
Q ss_pred HHhhhcCCCeeEEEEeeecChhH--HHHHHHHhccCceeeeccc----cccccCceEEEEeCCC----------------
Q 011104 274 KDIERSSGHCQVLLFSATFNETV--KNFVTRIVKDYNQLFVKKE----ELSLESVKQYKVYCPD---------------- 331 (493)
Q Consensus 274 ~~~~~~~~~~q~v~~SAT~~~~~--~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~---------------- 331 (493)
..+.. ...+++|||+...- ...+..+ -.|......-. ..-+.......+.|+-
T Consensus 397 ~~l~a----~~RLGLTATP~ReD~~~~~L~~L-iGP~vye~~~~eLi~~G~LA~~~~~ev~v~~t~~~~~~yl~~~~~~k 471 (732)
T TIGR00603 397 TIVQA----HCKLGLTATLVREDDKITDLNFL-IGPKLYEANWMELQKKGFIANVQCAEVWCPMTPEFYREYLRENSRKR 471 (732)
T ss_pred HhcCc----CcEEEEeecCcccCCchhhhhhh-cCCeeeecCHHHHHhCCccccceEEEEEecCCHHHHHHHHHhcchhh
Confidence 55532 35799999985221 1111111 22222111110 0111111211222221
Q ss_pred ------hHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcC-CCcEE
Q 011104 332 ------ELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDG-LTQVL 404 (493)
Q Consensus 332 ------~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g-~~~vL 404 (493)
...|...+..++......+.++||||.+...+..++..|. +..+||.+++.+|.++++.|+.| .+.+|
T Consensus 472 ~~l~~~np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L~-----~~~I~G~ts~~ER~~il~~Fr~~~~i~vL 546 (732)
T TIGR00603 472 MLLYVMNPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLG-----KPFIYGPTSQQERMQILQNFQHNPKVNTI 546 (732)
T ss_pred hHHhhhChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHcC-----CceEECCCCHHHHHHHHHHHHhCCCccEE
Confidence 1122333323233222357899999999999998888772 46689999999999999999875 78999
Q ss_pred EEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceE-------EEEeeCCc-cHHHHHHHHH
Q 011104 405 ISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVV-------FNLLMDGD-DMIIMEKIER 476 (493)
Q Consensus 405 v~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~-------i~l~~~~~-~~~~~~~i~~ 476 (493)
|+|+++.+|+|+|++++||+++.|. .|..+|+||+||++|.+..|.+ ++|++.+. ++.+-..-++
T Consensus 547 v~SkVgdeGIDlP~a~vvI~~s~~~-------gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~E~~~s~~Rq~ 619 (732)
T TIGR00603 547 FLSKVGDTSIDLPEANVLIQISSHY-------GSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQEMYYSTKRQR 619 (732)
T ss_pred EEecccccccCCCCCCEEEEeCCCC-------CCHHHHHHHhcccccCCCCCccccccceEEEEecCCchHHHHHHHHHH
Confidence 9999999999999999999999883 5889999999999998776665 88888776 3444333333
Q ss_pred H
Q 011104 477 Y 477 (493)
Q Consensus 477 ~ 477 (493)
+
T Consensus 620 f 620 (732)
T TIGR00603 620 F 620 (732)
T ss_pred H
Confidence 3
No 81
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=100.00 E-value=4.9e-33 Score=267.31 Aligned_cols=328 Identities=18% Similarity=0.233 Sum_probs=241.4
Q ss_pred hhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHH-HHHHhcccCceeeEeecCC
Q 011104 131 SLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEV-LRKMGKHTGITSECAVPTD 209 (493)
Q Consensus 131 ~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~-~~~~~~~~~~~~~~~~~~~ 209 (493)
.+..+-.+ +-+++.|+||||||+..--.+... .. ....++.+..|+|..|..++.. ..+.+..+|-.+++.+...
T Consensus 59 il~~ve~n--qvlIviGeTGsGKSTQipQyL~ea-G~-~~~g~I~~TQPRRVAavslA~RVAeE~~~~lG~~VGY~IRFe 134 (674)
T KOG0922|consen 59 ILYAVEDN--QVLIVIGETGSGKSTQIPQYLAEA-GF-ASSGKIACTQPRRVAAVSLAKRVAEEMGCQLGEEVGYTIRFE 134 (674)
T ss_pred HHHHHHHC--CEEEEEcCCCCCccccHhHHHHhc-cc-ccCCcEEeecCchHHHHHHHHHHHHHhCCCcCceeeeEEEec
Confidence 33444444 899999999999999632222221 11 2233488888999999999874 4566666776666655433
Q ss_pred CCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 210 STNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 210 ~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
......+.|.++|.|.|++.+..+.+ ++.+++|||||||+..- ..+.+..+++.+...+++.++++||
T Consensus 135 --------d~ts~~TrikymTDG~LLRE~l~Dp~-LskYsvIIlDEAHERsl---~TDiLlGlLKki~~~R~~LklIimS 202 (674)
T KOG0922|consen 135 --------DSTSKDTRIKYMTDGMLLREILKDPL-LSKYSVIILDEAHERSL---HTDILLGLLKKILKKRPDLKLIIMS 202 (674)
T ss_pred --------ccCCCceeEEEecchHHHHHHhcCCc-cccccEEEEechhhhhh---HHHHHHHHHHHHHhcCCCceEEEEe
Confidence 33344578999999999999998886 89999999999998654 3678889999998888899999999
Q ss_pred eecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHH---HHHHHHHHHHhcccCCcEEEEcCChhhHHHH
Q 011104 290 ATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAK---VMVIRDRIFELGEKMGQTIIFVRTKNSASAL 366 (493)
Q Consensus 290 AT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l 366 (493)
||+..+. +..|+.....+.+.....+ +..+|..-+....- +..+.+ ++. .++.+.+|||.+++++++.+
T Consensus 203 ATlda~k---fS~yF~~a~i~~i~GR~fP---Vei~y~~~p~~dYv~a~~~tv~~-Ih~-~E~~GDILvFLtGqeEIe~~ 274 (674)
T KOG0922|consen 203 ATLDAEK---FSEYFNNAPILTIPGRTFP---VEILYLKEPTADYVDAALITVIQ-IHL-TEPPGDILVFLTGQEEIEAA 274 (674)
T ss_pred eeecHHH---HHHHhcCCceEeecCCCCc---eeEEeccCCchhhHHHHHHHHHH-HHc-cCCCCCEEEEeCCHHHHHHH
Confidence 9987433 6677777666666555444 33344433322211 112222 333 36678999999999999999
Q ss_pred HHHHHhC----C----CcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCC-------
Q 011104 367 HKALKDF----G----YEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKH------- 431 (493)
Q Consensus 367 ~~~L~~~----~----~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~------- 431 (493)
++.|.+. + .-+.++||.|+.+++.++++.-..|.++|+++|+++++.+.|+++.+||+.+.-...
T Consensus 275 ~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~YVVDsG~vK~~~y~p~~g 354 (674)
T KOG0922|consen 275 CELLRERAKSLPEDCPELILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAETSLTIDGIRYVVDSGFVKQKKYNPRTG 354 (674)
T ss_pred HHHHHHHhhhccccCcceeeeecccCCHHHhhccccCCCCCcceEEEEcceeeeeEEecceEEEEcCCceEEEeeccccC
Confidence 9999865 1 135789999999999999999999999999999999999999999999986643211
Q ss_pred CC---CCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCccc
Q 011104 432 GK---HLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCTC 490 (493)
Q Consensus 432 ~~---~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~ 490 (493)
.. ..+-|..+-.||.|||||.| +|+|+.+|+.+ .+.++.+..++++..++.
T Consensus 355 ~~~L~v~~ISkasA~QRaGRAGRt~-pGkcyRLYte~-------~~~~~~~~~~PEI~R~~L 408 (674)
T KOG0922|consen 355 LDSLIVVPISKASANQRAGRAGRTG-PGKCYRLYTES-------AYDKMPLQTVPEIQRVNL 408 (674)
T ss_pred ccceeEEechHHHHhhhcccCCCCC-CceEEEeeeHH-------HHhhcccCCCCceeeech
Confidence 11 12357778899999999995 99999999854 246677777777766554
No 82
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=100.00 E-value=4.8e-32 Score=263.31 Aligned_cols=332 Identities=22% Similarity=0.227 Sum_probs=251.6
Q ss_pred cCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCC----CccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcC
Q 011104 104 DLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPP----YRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICP 179 (493)
Q Consensus 104 ~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~----~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~P 179 (493)
.++....+++.+.+.+.|. +|..|++++..|.... ..+-+++|.-|||||++++++++..+ ..|.++..++|
T Consensus 244 ~~~~~~~l~~~~~~~LPF~-LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai---~~G~Q~ALMAP 319 (677)
T COG1200 244 PLPANGELLAKFLAALPFK-LTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAI---EAGYQAALMAP 319 (677)
T ss_pred CCCccHHHHHHHHHhCCCC-ccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHH---HcCCeeEEecc
Confidence 3456677888887778888 9999999999997642 24679999999999999999999887 45778999999
Q ss_pred CHHHHHHHHHHHHHHhcccCceeeEeecCCCCCc--ccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecch
Q 011104 180 TRELAIQNLEVLRKMGKHTGITSECAVPTDSTNY--VPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEAD 257 (493)
Q Consensus 180 t~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah 257 (493)
|.-||.|.++.+.++...+++.+..+.|...... ........+..+|+|+|..-+ .+.+.+.++.++|+||-|
T Consensus 320 TEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALi-----Qd~V~F~~LgLVIiDEQH 394 (677)
T COG1200 320 TEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALI-----QDKVEFHNLGLVIIDEQH 394 (677)
T ss_pred HHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhh-----hcceeecceeEEEEeccc
Confidence 9999999999999999999999888888765443 223344556789999996543 346779999999999999
Q ss_pred hhhcccCCHHHHHHHHHHhhhcCC-CeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHH
Q 011104 258 HMLDEAGFRDDSLRIMKDIERSSG-HCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKV 336 (493)
Q Consensus 258 ~l~~~~~~~~~~~~i~~~~~~~~~-~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (493)
+.... -+..+ ..... .+.++.||||+-+... +...+.+...-.++........+....+.......
T Consensus 395 RFGV~------QR~~L---~~KG~~~Ph~LvMTATPIPRTL--Alt~fgDldvS~IdElP~GRkpI~T~~i~~~~~~~-- 461 (677)
T COG1200 395 RFGVH------QRLAL---REKGEQNPHVLVMTATPIPRTL--ALTAFGDLDVSIIDELPPGRKPITTVVIPHERRPE-- 461 (677)
T ss_pred cccHH------HHHHH---HHhCCCCCcEEEEeCCCchHHH--HHHHhccccchhhccCCCCCCceEEEEeccccHHH--
Confidence 86541 12222 22222 4679999999755543 34444444333333222222344444444433322
Q ss_pred HHHHHHHHHhcccCCcEEEEcCChhhHH--------HHHHHHHhC--CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEE
Q 011104 337 MVIRDRIFELGEKMGQTIIFVRTKNSAS--------ALHKALKDF--GYEVTTIMGATIQEERDKIVKEFKDGLTQVLIS 406 (493)
Q Consensus 337 ~~l~~~l~~~~~~~~~~lVf~~s~~~~~--------~l~~~L~~~--~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~ 406 (493)
+.+.+.....++..+.|.|+-+++.+ .+++.|+.. ++++..+||.|+.++++.+++.|++|+.+||||
T Consensus 462 --v~e~i~~ei~~GrQaY~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVa 539 (677)
T COG1200 462 --VYERIREEIAKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVA 539 (677)
T ss_pred --HHHHHHHHHHcCCEEEEEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEE
Confidence 33334555556889999999877654 455666633 567999999999999999999999999999999
Q ss_pred eCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 407 TDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 407 T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
|.+++.|+|+|+.+++|.+++-. -..++..|-.||+||++..+.|+.++.+..
T Consensus 540 TTVIEVGVdVPnATvMVIe~AER-------FGLaQLHQLRGRVGRG~~qSyC~Ll~~~~~ 592 (677)
T COG1200 540 TTVIEVGVDVPNATVMVIENAER-------FGLAQLHQLRGRVGRGDLQSYCVLLYKPPL 592 (677)
T ss_pred eeEEEecccCCCCeEEEEechhh-------hhHHHHHHhccccCCCCcceEEEEEeCCCC
Confidence 99999999999999999998875 457889999999999999999999998775
No 83
>PRK05580 primosome assembly protein PriA; Validated
Probab=100.00 E-value=5e-32 Score=278.67 Aligned_cols=327 Identities=21% Similarity=0.214 Sum_probs=217.6
Q ss_pred CCchHHHhhhhhhcCC-CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCce
Q 011104 123 KPSKIQAISLPMILTP-PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGIT 201 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~-~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~ 201 (493)
.+++.|.+++..++.+ ..+++++.|+||||||.+|+.++...+. .+.++||++|+++|+.|+++.+++.. +..
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~---~g~~vLvLvPt~~L~~Q~~~~l~~~f---g~~ 217 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLA---QGKQALVLVPEIALTPQMLARFRARF---GAP 217 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHH---cCCeEEEEeCcHHHHHHHHHHHHHHh---CCC
Confidence 5899999999999874 2378999999999999999988777664 35689999999999999999998754 345
Q ss_pred eeEeecCCCCCc--ccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhccc--CCHHHHHHHHHHhh
Q 011104 202 SECAVPTDSTNY--VPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEA--GFRDDSLRIMKDIE 277 (493)
Q Consensus 202 ~~~~~~~~~~~~--~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~--~~~~~~~~i~~~~~ 277 (493)
+..++++.+... ..+.....+.++|+|+|++.+. ..+.++++||+||+|...... +..-....+.. +.
T Consensus 218 v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~-------~p~~~l~liVvDEeh~~s~~~~~~p~y~~r~va~-~r 289 (679)
T PRK05580 218 VAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF-------LPFKNLGLIIVDEEHDSSYKQQEGPRYHARDLAV-VR 289 (679)
T ss_pred EEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc-------ccccCCCEEEEECCCccccccCcCCCCcHHHHHH-HH
Confidence 555665544322 1122223446799999998763 357889999999999765321 11111222221 12
Q ss_pred hcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChH------HHHHHHHHHHHHhcccCC
Q 011104 278 RSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDEL------AKVMVIRDRIFELGEKMG 351 (493)
Q Consensus 278 ~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~l~~~l~~~~~~~~ 351 (493)
....+.+++++|||++.+....+. .+.+..+................+...... .....+.+.+.+....+.
T Consensus 290 a~~~~~~~il~SATps~~s~~~~~--~g~~~~~~l~~r~~~~~~p~v~~id~~~~~~~~~~~~ls~~l~~~i~~~l~~g~ 367 (679)
T PRK05580 290 AKLENIPVVLGSATPSLESLANAQ--QGRYRLLRLTKRAGGARLPEVEIIDMRELLRGENGSFLSPPLLEAIKQRLERGE 367 (679)
T ss_pred hhccCCCEEEEcCCCCHHHHHHHh--ccceeEEEeccccccCCCCeEEEEechhhhhhcccCCCCHHHHHHHHHHHHcCC
Confidence 223378999999997644433222 222322222222111111111111111110 011334455666666677
Q ss_pred cEEEEcCChh------------------------------------------------------------hHHHHHHHHH
Q 011104 352 QTIIFVRTKN------------------------------------------------------------SASALHKALK 371 (493)
Q Consensus 352 ~~lVf~~s~~------------------------------------------------------------~~~~l~~~L~ 371 (493)
++|||+|.+. .++.+++.|.
T Consensus 368 qvll~~nrrGy~~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~l~~~g~G~e~~~e~l~ 447 (679)
T PRK05580 368 QVLLFLNRRGYAPFLLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGSTDLVPVGPGTERLEEELA 447 (679)
T ss_pred eEEEEEcCCCCCCceEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCCeeEEeeccHHHHHHHHH
Confidence 8999987532 3557777777
Q ss_pred hC--CCcEEEecCCCCH--HHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEcc--CCCCCCCCC--CCCccccc
Q 011104 372 DF--GYEVTTIMGATIQ--EERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYD--PPVKHGKHL--EPDCEVYL 443 (493)
Q Consensus 372 ~~--~~~~~~l~~~~~~--~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~--~p~~~~~~~--~~s~~~y~ 443 (493)
+. +.++..+|+++.+ .+++.+++.|++|+..|||+|+++++|+|+|++++|+.++ .+....+.. +.....|.
T Consensus 448 ~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~iakG~d~p~v~lV~il~aD~~l~~pdfra~Er~~~~l~ 527 (679)
T PRK05580 448 ELFPEARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQMLAKGHDFPNVTLVGVLDADLGLFSPDFRASERTFQLLT 527 (679)
T ss_pred HhCCCCcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChhhccCCCCCCcCEEEEEcCchhccCCccchHHHHHHHHH
Confidence 76 7889999999874 6789999999999999999999999999999999986554 442221110 12345689
Q ss_pred ccccccccCCCcceEEEEeeCC
Q 011104 444 HRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 444 qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
|++||+||++..|.++......
T Consensus 528 q~~GRagR~~~~g~viiqT~~p 549 (679)
T PRK05580 528 QVAGRAGRAEKPGEVLIQTYHP 549 (679)
T ss_pred HHHhhccCCCCCCEEEEEeCCC
Confidence 9999999999999999655433
No 84
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=1.3e-32 Score=264.99 Aligned_cols=329 Identities=16% Similarity=0.224 Sum_probs=246.0
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
+.|. +.|+|+.+|.++-++ ..|+|.|+|.+|||.++-.++...+.. .-++++..|-++|.+|-++.+..-++..
T Consensus 126 YPF~-LDpFQ~~aI~Cidr~--eSVLVSAHTSAGKTVVAeYAIA~sLr~---kQRVIYTSPIKALSNQKYREl~~EF~DV 199 (1041)
T KOG0948|consen 126 YPFT-LDPFQSTAIKCIDRG--ESVLVSAHTSAGKTVVAEYAIAMSLRE---KQRVIYTSPIKALSNQKYRELLEEFKDV 199 (1041)
T ss_pred CCcc-cCchHhhhhhhhcCC--ceEEEEeecCCCcchHHHHHHHHHHHh---cCeEEeeChhhhhcchhHHHHHHHhccc
Confidence 4454 889999999999999 999999999999999998888877743 4489999999999999999998887777
Q ss_pred CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh
Q 011104 199 GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER 278 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~ 278 (493)
|+.. |....+ +.+..+|+|.+.|..++.++.--+.-+.+||+||+|.|-+. ...-.|.+-+-.++.
T Consensus 200 GLMT----GDVTIn---------P~ASCLVMTTEILRsMLYRGSEvmrEVaWVIFDEIHYMRDk-ERGVVWEETIIllP~ 265 (1041)
T KOG0948|consen 200 GLMT----GDVTIN---------PDASCLVMTTEILRSMLYRGSEVMREVAWVIFDEIHYMRDK-ERGVVWEETIILLPD 265 (1041)
T ss_pred ceee----cceeeC---------CCCceeeeHHHHHHHHHhccchHhheeeeEEeeeehhcccc-ccceeeeeeEEeccc
Confidence 7633 332221 24679999999999999988777899999999999999873 222233333334444
Q ss_pred cCCCeeEEEEeeecChhHH--HHHHHHhccCceeeeccccccccCceEEEEeCC---------Ch-------HH------
Q 011104 279 SSGHCQVLLFSATFNETVK--NFVTRIVKDYNQLFVKKEELSLESVKQYKVYCP---------DE-------LA------ 334 (493)
Q Consensus 279 ~~~~~q~v~~SAT~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~-------~~------ 334 (493)
+.+.+++|||+|+..+ +++..+-.-|..+ ...++.+..+.||.+... .. ..
T Consensus 266 ---~vr~VFLSATiPNA~qFAeWI~~ihkQPcHV--VYTdyRPTPLQHyifP~ggdGlylvVDek~~FrednF~~am~~l 340 (1041)
T KOG0948|consen 266 ---NVRFVFLSATIPNARQFAEWICHIHKQPCHV--VYTDYRPTPLQHYIFPAGGDGLYLVVDEKGKFREDNFQKAMSVL 340 (1041)
T ss_pred ---cceEEEEeccCCCHHHHHHHHHHHhcCCceE--EeecCCCCcceeeeecCCCCeeEEEEecccccchHHHHHHHHHh
Confidence 7899999999997553 3333444444433 334444555555533321 10 11
Q ss_pred -----------------------------HHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCC----------
Q 011104 335 -----------------------------KVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGY---------- 375 (493)
Q Consensus 335 -----------------------------~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~---------- 375 (493)
.+..++.++.. .+..|+|||+-|+++|+.++-.|.++.+
T Consensus 341 ~~~~~~~~~~~~~~k~~kG~~~~~~~~~s~i~kiVkmi~~--~~~~PVIvFSFSkkeCE~~Alqm~kldfN~deEk~~V~ 418 (1041)
T KOG0948|consen 341 RKAGESDGKKKANKKGRKGGTGGKGPGDSDIYKIVKMIME--RNYLPVIVFSFSKKECEAYALQMSKLDFNTDEEKELVE 418 (1041)
T ss_pred hccCCCccccccccccccCCcCCCCCCcccHHHHHHHHHh--hcCCceEEEEecHhHHHHHHHhhccCcCCChhHHHHHH
Confidence 11122222221 2235899999999999999888766432
Q ss_pred -----------------------------cEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEcc
Q 011104 376 -----------------------------EVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYD 426 (493)
Q Consensus 376 -----------------------------~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~ 426 (493)
.+.++||++-+--++.+.-.|.+|-+++|+||..++.|||+|.-++|+.--
T Consensus 419 ~iF~nAi~~LseeDr~LPqie~iLPLL~RGIGIHHsGLLPIlKE~IEILFqEGLvKvLFATETFsiGLNMPAkTVvFT~~ 498 (1041)
T KOG0948|consen 419 TIFNNAIDQLSEEDRELPQIENILPLLRRGIGIHHSGLLPILKEVIEILFQEGLVKVLFATETFSIGLNMPAKTVVFTAV 498 (1041)
T ss_pred HHHHHHHHhcChhhccchHHHHHHHHHHhccccccccchHHHHHHHHHHHhccHHHHHHhhhhhhhccCCcceeEEEeec
Confidence 268899999999999999999999999999999999999999999888777
Q ss_pred CCCCCCCCCCCCcccccccccccccCCC--cceEEEEeeCCccHHHHHHH
Q 011104 427 PPVKHGKHLEPDCEVYLHRIGRAGRFGR--KGVVFNLLMDGDDMIIMEKI 474 (493)
Q Consensus 427 ~p~~~~~~~~~s~~~y~qr~GR~~R~g~--~g~~i~l~~~~~~~~~~~~i 474 (493)
.-+.+..+.+-|--+|+|+.|||||.|. .|.||+++.+.-+....+.+
T Consensus 499 rKfDG~~fRwissGEYIQMSGRAGRRG~DdrGivIlmiDekm~~~~ak~m 548 (1041)
T KOG0948|consen 499 RKFDGKKFRWISSGEYIQMSGRAGRRGIDDRGIVILMIDEKMEPQVAKDM 548 (1041)
T ss_pred cccCCcceeeecccceEEecccccccCCCCCceEEEEecCcCCHHHHHHH
Confidence 7777888888899999999999999886 57888888766555444433
No 85
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.3e-32 Score=261.83 Aligned_cols=330 Identities=16% Similarity=0.153 Sum_probs=230.6
Q ss_pred ccEEEeccCCCchhHHhHHHHHhc---cCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCccccc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSR---VDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPIS 217 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~---l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (493)
.-+||||.||||||++.--.+... -.....+.-+-|.-|+|..|..+++....-...++-.+.+.+...+.
T Consensus 272 ~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~EL~~~~~eVsYqIRfd~t------ 345 (1172)
T KOG0926|consen 272 PVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAFELGVLGSEVSYQIRFDGT------ 345 (1172)
T ss_pred CeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHHHhccCccceeEEEEeccc------
Confidence 679999999999999632222211 11122344678888999999998876554333366666665544432
Q ss_pred CCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcC----------CCeeEEE
Q 011104 218 KRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSS----------GHCQVLL 287 (493)
Q Consensus 218 ~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~----------~~~q~v~ 287 (493)
......|.++|.|.|++.+.++.+ +..++.|||||||...- ..+.+..++.++-+.+ .+.++|+
T Consensus 346 --i~e~T~IkFMTDGVLLrEi~~Dfl-L~kYSvIIlDEAHERSv---nTDILiGmLSRiV~LR~k~~ke~~~~kpLKLII 419 (1172)
T KOG0926|consen 346 --IGEDTSIKFMTDGVLLREIENDFL-LTKYSVIILDEAHERSV---NTDILIGMLSRIVPLRQKYYKEQCQIKPLKLII 419 (1172)
T ss_pred --cCCCceeEEecchHHHHHHHHhHh-hhhceeEEechhhhccc---hHHHHHHHHHHHHHHHHHHhhhhcccCceeEEE
Confidence 233468999999999999998776 89999999999998653 3455555555543321 2678999
Q ss_pred EeeecCh-hHHHHHHHHhccCceeeeccccccccCceEEEEeCCC-hHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHH
Q 011104 288 FSATFNE-TVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD-ELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASA 365 (493)
Q Consensus 288 ~SAT~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~ 365 (493)
||||+.- +.....+.|-..|..+.+....+++. .||....+. .......-...|++.+. .|.+|||+..+.++..
T Consensus 420 MSATLRVsDFtenk~LFpi~pPlikVdARQfPVs--IHF~krT~~DYi~eAfrKtc~IH~kLP-~G~ILVFvTGQqEV~q 496 (1172)
T KOG0926|consen 420 MSATLRVSDFTENKRLFPIPPPLIKVDARQFPVS--IHFNKRTPDDYIAEAFRKTCKIHKKLP-PGGILVFVTGQQEVDQ 496 (1172)
T ss_pred EeeeEEecccccCceecCCCCceeeeecccCceE--EEeccCCCchHHHHHHHHHHHHhhcCC-CCcEEEEEeChHHHHH
Confidence 9999862 22222233334455666666655433 233222222 11111111222444444 6889999999999999
Q ss_pred HHHHHHhC------------------------------------------------------------------------
Q 011104 366 LHKALKDF------------------------------------------------------------------------ 373 (493)
Q Consensus 366 l~~~L~~~------------------------------------------------------------------------ 373 (493)
|+..|++.
T Consensus 497 L~~kLRK~~p~~f~~~k~~k~~k~~~e~k~~~s~~~~~~k~~dfe~Ed~~~~~ed~d~~~~~~~~~~~raa~~~~~De~~ 576 (1172)
T KOG0926|consen 497 LCEKLRKRFPESFGGVKMKKNVKAFKELKENPSDIGDSNKTDDFEEEDMYESDEDIDQELVDSGFASLRAAFNALADENG 576 (1172)
T ss_pred HHHHHHhhCccccccchhhhhhhhccccccchhhhccCcccccchhcccccchhhhhhhhhcccchhhhhhhhccccccc
Confidence 99998761
Q ss_pred ---------------------------CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEcc
Q 011104 374 ---------------------------GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYD 426 (493)
Q Consensus 374 ---------------------------~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~ 426 (493)
.+.|++||+-++...+.++++.-..|.+-++|||+++++.|.||++.+||+.+
T Consensus 577 ~~nge~e~d~~e~~~E~~~~~~~~~~~pLyvLPLYSLLs~~~Q~RVF~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~G 656 (1172)
T KOG0926|consen 577 SVNGEPEKDESEEGQEAEQGKGKFSPGPLYVLPLYSLLSTEKQMRVFDEVPKGERLCVVATNVAETSLTIPGIKYVVDCG 656 (1172)
T ss_pred cccCCcccchhhhchhhhhccCCCCCCceEEeehhhhcCHHHhhhhccCCCCCceEEEEeccchhcccccCCeeEEEecc
Confidence 23489999999999999999999999999999999999999999999999977
Q ss_pred CCCCCCCCC----------CCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCcc
Q 011104 427 PPVKHGKHL----------EPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCT 489 (493)
Q Consensus 427 ~p~~~~~~~----------~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 489 (493)
.-....... +.|..+--||+|||||.| +|+||.||+ +..|-..++++-..+|..+|++.
T Consensus 657 r~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtg-pGHcYRLYS---SAVf~~~Fe~fS~PEIlk~Pve~ 725 (1172)
T KOG0926|consen 657 RVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTG-PGHCYRLYS---SAVFSNDFEEFSLPEILKKPVES 725 (1172)
T ss_pred chhhhccccccCceeEEEEeeeccccchhccccCCCC-CCceeehhh---hHHhhcchhhhccHHHhhCcHHH
Confidence 654433322 234444579999999997 999999997 44565678888888888887764
No 86
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=3.7e-31 Score=275.60 Aligned_cols=340 Identities=17% Similarity=0.185 Sum_probs=213.6
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCcee
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITS 202 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~ 202 (493)
.|.|+|......++......++++.++|.|||..+.+.+-..+. .....++|||||. .|..||...+.+.+. +..
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~-~g~~~rvLIVvP~-sL~~QW~~El~~kF~---l~~ 226 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLL-TGRAERVLILVPE-TLQHQWLVEMLRRFN---LRF 226 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHH-cCCCCcEEEEcCH-HHHHHHHHHHHHHhC---CCe
Confidence 48999999988776653468999999999999997665444333 3344589999997 799999988865432 222
Q ss_pred eEeecCCCCC-cccccCCCCCCCcEEEeCchHHHHHHH-cCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcC
Q 011104 203 ECAVPTDSTN-YVPISKRPPVTAQVVIGTPGTIKKWMS-AKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSS 280 (493)
Q Consensus 203 ~~~~~~~~~~-~~~~~~~~~~~~~Ilv~Tp~~l~~~l~-~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~ 280 (493)
. ++...... ............+++|+|.+.+...-. ...+.-..+++||+||||++....+-.......+..+...
T Consensus 227 ~-i~~~~~~~~~~~~~~~pf~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~- 304 (956)
T PRK04914 227 S-LFDEERYAEAQHDADNPFETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEV- 304 (956)
T ss_pred E-EEcCcchhhhcccccCccccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhc-
Confidence 1 11111100 000001122246899999987764211 1122234689999999999873211111223444444332
Q ss_pred CCeeEEEEeeecCh-------------------hHHHHH-------------H-----------------HHhccC----
Q 011104 281 GHCQVLLFSATFNE-------------------TVKNFV-------------T-----------------RIVKDY---- 307 (493)
Q Consensus 281 ~~~q~v~~SAT~~~-------------------~~~~~~-------------~-----------------~~~~~~---- 307 (493)
...++++|||+-. +...|. . .++...
T Consensus 305 -~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~~ 383 (956)
T PRK04914 305 -IPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQALLAGEKLSDDALNALGELLGEQDIEP 383 (956)
T ss_pred -cCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchhH
Confidence 2368999999521 000110 0 000000
Q ss_pred -----------------------------ceeeecc-----ccccccCceEEEEeCCCh---------------------
Q 011104 308 -----------------------------NQLFVKK-----EELSLESVKQYKVYCPDE--------------------- 332 (493)
Q Consensus 308 -----------------------------~~~~~~~-----~~~~~~~~~~~~~~~~~~--------------------- 332 (493)
..+.... ...+......+...++..
T Consensus 384 l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~~fp~R~~~~~~l~~~~~y~~~~~~~~~~~~~~~l~pe~ 463 (956)
T PRK04914 384 LLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVKGFPKRELHPIPLPLPEQYQTAIKVSLEARARDMLYPEQ 463 (956)
T ss_pred HHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhcCCCcCceeEeecCCCHHHHHHHHHhHHHHHHhhcCHHH
Confidence 0000000 000001111111111111
Q ss_pred --------------HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHH-HhCCCcEEEecCCCCHHHHHHHHHHHH
Q 011104 333 --------------LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKAL-KDFGYEVTTIMGATIQEERDKIVKEFK 397 (493)
Q Consensus 333 --------------~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L-~~~~~~~~~l~~~~~~~~r~~~~~~f~ 397 (493)
..|...+.+.+... ...++||||+++..+..+.+.| ...|+.+..+||+|++.+|.++++.|+
T Consensus 464 ~~~~~~~~~~~~~~d~Ki~~L~~~L~~~--~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~ 541 (956)
T PRK04914 464 IYQEFEDNATWWNFDPRVEWLIDFLKSH--RSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFA 541 (956)
T ss_pred HHHHHhhhhhccccCHHHHHHHHHHHhc--CCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHh
Confidence 01222333323222 2579999999999999999999 467999999999999999999999999
Q ss_pred cC--CCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHH
Q 011104 398 DG--LTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIE 475 (493)
Q Consensus 398 ~g--~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~ 475 (493)
++ ...|||||+++++|+|++.+++|||||+| .++..|.||+||++|.|+.|.+..++.. ........+.
T Consensus 542 ~~~~~~~VLIsTdvgseGlNlq~a~~VInfDlP--------~nP~~~eQRIGR~~RiGQ~~~V~i~~~~-~~~t~~e~i~ 612 (956)
T PRK04914 542 DEEDGAQVLLCSEIGSEGRNFQFASHLVLFDLP--------FNPDLLEQRIGRLDRIGQKHDIQIHVPY-LEGTAQERLF 612 (956)
T ss_pred cCCCCccEEEechhhccCCCcccccEEEEecCC--------CCHHHHHHHhcccccCCCCceEEEEEcc-CCCCHHHHHH
Confidence 74 58999999999999999999999999999 6788899999999999999876555433 3333455666
Q ss_pred HHhCCC
Q 011104 476 RYFDIK 481 (493)
Q Consensus 476 ~~~~~~ 481 (493)
+.+...
T Consensus 613 ~~~~~~ 618 (956)
T PRK04914 613 RWYHEG 618 (956)
T ss_pred HHHhhh
Confidence 666553
No 87
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.7e-31 Score=270.61 Aligned_cols=303 Identities=18% Similarity=0.225 Sum_probs=225.1
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHH-HHhcccCceeeEeecCCCCCcccccCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLR-KMGKHTGITSECAVPTDSTNYVPISKR 219 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (493)
+.++++|+||||||++.-..+++... ..+..+.++-|+|-.|..+++.+. .++...|-.+++.+-. ...
T Consensus 66 ~vvii~getGsGKTTqlP~~lle~g~--~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~iRf--------e~~ 135 (845)
T COG1643 66 QVVIIVGETGSGKTTQLPQFLLEEGL--GIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRF--------ESK 135 (845)
T ss_pred CEEEEeCCCCCChHHHHHHHHHhhhc--ccCCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEEEEe--------ecc
Confidence 89999999999999975444444332 345578888899999999887655 4555556555554433 334
Q ss_pred CCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh-cCCCeeEEEEeeecChhHHH
Q 011104 220 PPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER-SSGHCQVLLFSATFNETVKN 298 (493)
Q Consensus 220 ~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~-~~~~~q~v~~SAT~~~~~~~ 298 (493)
.+..+.|-++|.|.|++.+..+.. ++.+++||+||+|+-.-. .+.+..+++.+.. .+++.++|+||||+..+-
T Consensus 136 ~s~~Trik~mTdGiLlrei~~D~~-Ls~ys~vIiDEaHERSl~---tDilLgllk~~~~~rr~DLKiIimSATld~~r-- 209 (845)
T COG1643 136 VSPRTRIKVMTDGILLREIQNDPL-LSGYSVVIIDEAHERSLN---TDILLGLLKDLLARRRDDLKLIIMSATLDAER-- 209 (845)
T ss_pred CCCCceeEEeccHHHHHHHhhCcc-cccCCEEEEcchhhhhHH---HHHHHHHHHHHHhhcCCCceEEEEecccCHHH--
Confidence 445678999999999999998887 999999999999987653 4556667776443 344699999999987553
Q ss_pred HHHHHhccCceeeeccccccccCceEEEEeCCChHH-HHHHHHHHHH-HhcccCCcEEEEcCChhhHHHHHHHHHh----
Q 011104 299 FVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELA-KVMVIRDRIF-ELGEKMGQTIIFVRTKNSASALHKALKD---- 372 (493)
Q Consensus 299 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~l~-~~~~~~~~~lVf~~s~~~~~~l~~~L~~---- 372 (493)
+..++.+...+.+....++ +..+|........ ....+...+. ......|.+|||.+...+++.+++.|.+
T Consensus 210 -fs~~f~~apvi~i~GR~fP---Vei~Y~~~~~~d~~l~~ai~~~v~~~~~~~~GdILvFLpG~~EI~~~~~~L~~~~l~ 285 (845)
T COG1643 210 -FSAYFGNAPVIEIEGRTYP---VEIRYLPEAEADYILLDAIVAAVDIHLREGSGSILVFLPGQREIERTAEWLEKAELG 285 (845)
T ss_pred -HHHHcCCCCEEEecCCccc---eEEEecCCCCcchhHHHHHHHHHHHhccCCCCCEEEECCcHHHHHHHHHHHHhcccc
Confidence 5566666566666555444 3333322222222 2222332222 2334578999999999999999999997
Q ss_pred CCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCC----------CCCCcccc
Q 011104 373 FGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKH----------LEPDCEVY 442 (493)
Q Consensus 373 ~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~----------~~~s~~~y 442 (493)
..+.++++||.|+..++.++++.-..|..+|++||++++++|+||++++||+.+.-...... .+.|-.+.
T Consensus 286 ~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA 365 (845)
T COG1643 286 DDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASA 365 (845)
T ss_pred CCcEEeeccccCCHHHHHhhcCCCCCCcceEEEEccccccceeeCCeEEEecCCcccccccccccCceeeeEEEechhhh
Confidence 35789999999999999999998888888899999999999999999999997655433221 23466778
Q ss_pred cccccccccCCCcceEEEEeeC
Q 011104 443 LHRIGRAGRFGRKGVVFNLLMD 464 (493)
Q Consensus 443 ~qr~GR~~R~g~~g~~i~l~~~ 464 (493)
.||.||+||.+ +|.||.+|+.
T Consensus 366 ~QRaGRAGR~~-pGicyRLyse 386 (845)
T COG1643 366 DQRAGRAGRTG-PGICYRLYSE 386 (845)
T ss_pred hhhccccccCC-CceEEEecCH
Confidence 99999999995 9999999985
No 88
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.8e-31 Score=254.13 Aligned_cols=334 Identities=18% Similarity=0.217 Sum_probs=245.4
Q ss_pred HhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhcc-CCCCCCCeEEEEcCCHHHHHHHHH-HHHHHhcccCceeeEee
Q 011104 129 AISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRV-DPNLKAPQALCICPTRELAIQNLE-VLRKMGKHTGITSECAV 206 (493)
Q Consensus 129 ~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l-~~~~~~~~~lil~Pt~~La~q~~~-~~~~~~~~~~~~~~~~~ 206 (493)
...+.++-.+ +.+||.|.||||||.+ +|-.-+- .....+.++-+..|+|..|..++. +.+.++..+|-.+++.+
T Consensus 271 dell~av~e~--QVLiI~GeTGSGKTTQ--iPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~EMgvkLG~eVGYsI 346 (902)
T KOG0923|consen 271 DELLKAVKEH--QVLIIVGETGSGKTTQ--IPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEEMGVKLGHEVGYSI 346 (902)
T ss_pred HHHHHHHHhC--cEEEEEcCCCCCcccc--ccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHHhCcccccccceEE
Confidence 3444455555 8999999999999996 3332211 112234458888899999999886 45566666665555544
Q ss_pred cCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEE
Q 011104 207 PTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVL 286 (493)
Q Consensus 207 ~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v 286 (493)
... ...+..+-|-++|.|+|++.+..+. ++.++++||+||||...- ..+.+..+++.+.+.+++.+++
T Consensus 347 RFE--------dcTSekTvlKYMTDGmLlREfL~ep-dLasYSViiiDEAHERTL---~TDILfgLvKDIar~RpdLKll 414 (902)
T KOG0923|consen 347 RFE--------DCTSEKTVLKYMTDGMLLREFLSEP-DLASYSVIIVDEAHERTL---HTDILFGLVKDIARFRPDLKLL 414 (902)
T ss_pred Eec--------cccCcceeeeeecchhHHHHHhccc-cccceeEEEeehhhhhhh---hhhHHHHHHHHHHhhCCcceEE
Confidence 332 2333456799999999999887755 489999999999998654 3677889999999999999999
Q ss_pred EEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHH--hcccCCcEEEEcCChhhHH
Q 011104 287 LFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFE--LGEKMGQTIIFVRTKNSAS 364 (493)
Q Consensus 287 ~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--~~~~~~~~lVf~~s~~~~~ 364 (493)
++|||+..+- +..|+.+.....++...+ .+..+|...+........+.. +.+ ..++.+.+|||...+++++
T Consensus 415 IsSAT~DAek---FS~fFDdapIF~iPGRRy---PVdi~Yt~~PEAdYldAai~t-VlqIH~tqp~GDILVFltGQeEIE 487 (902)
T KOG0923|consen 415 ISSATMDAEK---FSAFFDDAPIFRIPGRRY---PVDIFYTKAPEADYLDAAIVT-VLQIHLTQPLGDILVFLTGQEEIE 487 (902)
T ss_pred eeccccCHHH---HHHhccCCcEEeccCccc---ceeeecccCCchhHHHHHHhh-heeeEeccCCccEEEEeccHHHHH
Confidence 9999987433 556666655555544443 345566666644333333222 332 2345689999999999999
Q ss_pred HHHHHHHhC---------CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCC-
Q 011104 365 ALHKALKDF---------GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKH- 434 (493)
Q Consensus 365 ~l~~~L~~~---------~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~- 434 (493)
...+.|... .+-++++|+.++...+.++++.-.+|-.+|++||+++++.|.|+++.+||+-++...+...
T Consensus 488 t~~e~l~~~~~~LGski~eliv~PiYaNLPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yViDpGf~K~nsynp 567 (902)
T KOG0923|consen 488 TVKENLKERCRRLGSKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVIDPGFVKQNSYNP 567 (902)
T ss_pred HHHHHHHHHHHHhccccceEEEeeccccCChHHHHhhcCCCCCCceeEEEeecchhhceeecCeEEEecCccccccCcCC
Confidence 888777543 4568999999999999999999999999999999999999999999999987766533322
Q ss_pred ---------CCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCcc
Q 011104 435 ---------LEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCT 489 (493)
Q Consensus 435 ---------~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 489 (493)
.+.|-.+..||+||+||.| +|+|+.||+ .+.|...++..--.+|++-++.+
T Consensus 568 rtGmesL~v~piSKAsA~QRaGRAGRtg-PGKCfRLYt---~~aY~~eLE~~t~PEIqRtnL~n 627 (902)
T KOG0923|consen 568 RTGMESLLVTPISKASANQRAGRAGRTG-PGKCFRLYT---AWAYEHELEEMTVPEIQRTNLGN 627 (902)
T ss_pred CcCceeEEEeeechhhhhhhccccCCCC-CCceEEeec---hhhhhhhhccCCCcceeeccchh
Confidence 1446666789999999997 999999998 45677778777767777766543
No 89
>PRK09694 helicase Cas3; Provisional
Probab=99.98 E-value=1.6e-30 Score=269.22 Aligned_cols=318 Identities=17% Similarity=0.204 Sum_probs=204.3
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
++...|+|+|+.+......+ .-+++.||||+|||.+++..+...+ ......+++|..||++.++|+++.+.++....
T Consensus 282 ~~~~~p~p~Q~~~~~~~~~p--gl~ileApTGsGKTEAAL~~A~~l~-~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~ 358 (878)
T PRK09694 282 DNGYQPRQLQTLVDALPLQP--GLTIIEAPTGSGKTEAALAYAWRLI-DQGLADSIIFALPTQATANAMLSRLEALASKL 358 (878)
T ss_pred cCCCCChHHHHHHHhhccCC--CeEEEEeCCCCCHHHHHHHHHHHHH-HhCCCCeEEEECcHHHHHHHHHHHHHHHHHHh
Confidence 33457999999875543334 6899999999999999877665433 23345689999999999999999887643321
Q ss_pred --CceeeEeecCCCCCcc--c--------------------c---cCCCCCCCcEEEeCchHHHHHHHc-CccCCCC---
Q 011104 199 --GITSECAVPTDSTNYV--P--------------------I---SKRPPVTAQVVIGTPGTIKKWMSA-KKLGFSR--- 247 (493)
Q Consensus 199 --~~~~~~~~~~~~~~~~--~--------------------~---~~~~~~~~~Ilv~Tp~~l~~~l~~-~~~~~~~--- 247 (493)
...+...++....+.. . + .....--.+|+|||...++..+-. ....+..
T Consensus 359 f~~~~v~L~Hg~a~l~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~kh~~lR~~~L 438 (878)
T PRK09694 359 FPSPNLILAHGNSRFNHLFQSLKSRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGFGL 438 (878)
T ss_pred cCCCceEeecCcchhhhhhhhhhcccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHccchHHHHHHhh
Confidence 2233334433221100 0 0 000111268999999988744332 2222222
Q ss_pred -eeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccC---------ceeeecc---
Q 011104 248 -LKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDY---------NQLFVKK--- 314 (493)
Q Consensus 248 -~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~---------~~~~~~~--- 314 (493)
-++|||||+|.+-. .....+..+++.+... ...+|+||||+|......+...+... ..+....
T Consensus 439 a~svvIiDEVHAyD~--ym~~lL~~~L~~l~~~--g~~vIllSATLP~~~r~~L~~a~~~~~~~~~~~~YPlvt~~~~~~ 514 (878)
T PRK09694 439 GRSVLIVDEVHAYDA--YMYGLLEAVLKAQAQA--GGSVILLSATLPATLKQKLLDTYGGHDPVELSSAYPLITWRGVNG 514 (878)
T ss_pred ccCeEEEechhhCCH--HHHHHHHHHHHHHHhc--CCcEEEEeCCCCHHHHHHHHHHhcccccccccccccccccccccc
Confidence 35899999998743 2233455556555443 45799999999988765544332211 0010000
Q ss_pred -cccccc------CceEE-EE-eCC-ChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCC---CcEEEec
Q 011104 315 -EELSLE------SVKQY-KV-YCP-DELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFG---YEVTTIM 381 (493)
Q Consensus 315 -~~~~~~------~~~~~-~~-~~~-~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~---~~~~~l~ 381 (493)
...... ..... .+ ... ........+.+.+......++++||||||++.|..+++.|++.+ .++..+|
T Consensus 515 ~~~~~~~~~~~~~~~~~~v~v~~~~~~~~~~~~~~l~~i~~~~~~g~~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llH 594 (878)
T PRK09694 515 AQRFDLSAHPEQLPARFTIQLEPICLADMLPDLTLLQRMIAAANAGAQVCLICNLVDDAQKLYQRLKELNNTQVDIDLFH 594 (878)
T ss_pred ceeeeccccccccCcceEEEEEeeccccccCHHHHHHHHHHHHhcCCEEEEEECCHHHHHHHHHHHHhhCCCCceEEEEe
Confidence 000000 00010 00 010 00011122333344444557899999999999999999999765 6899999
Q ss_pred CCCCHHHH----HHHHHHH-HcCC---CcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCC
Q 011104 382 GATIQEER----DKIVKEF-KDGL---TQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFG 453 (493)
Q Consensus 382 ~~~~~~~r----~~~~~~f-~~g~---~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g 453 (493)
|.+++.+| .++++.| ++|+ ..|||||+++++|||+ +++++|....| ++.|+||+||++|.+
T Consensus 595 srf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDI-d~DvlItdlaP----------idsLiQRaGR~~R~~ 663 (878)
T PRK09694 595 ARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDL-DFDWLITQLCP----------VDLLFQRLGRLHRHH 663 (878)
T ss_pred CCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeec-CCCeEEECCCC----------HHHHHHHHhccCCCC
Confidence 99999999 4678888 6666 3799999999999999 68999998888 678999999999987
Q ss_pred C
Q 011104 454 R 454 (493)
Q Consensus 454 ~ 454 (493)
+
T Consensus 664 ~ 664 (878)
T PRK09694 664 R 664 (878)
T ss_pred C
Confidence 5
No 90
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=99.97 E-value=7.5e-31 Score=258.98 Aligned_cols=323 Identities=17% Similarity=0.202 Sum_probs=234.5
Q ss_pred hCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 118 EMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 118 ~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.++|. |.++|++||-++.+| ..|+|.|+|.+|||+++-.++.-.- .++.++++.+|-++|.+|-++.++.-++.
T Consensus 293 ~~pFe-lD~FQk~Ai~~lerg--~SVFVAAHTSAGKTvVAEYAialaq---~h~TR~iYTSPIKALSNQKfRDFk~tF~D 366 (1248)
T KOG0947|consen 293 IYPFE-LDTFQKEAIYHLERG--DSVFVAAHTSAGKTVVAEYAIALAQ---KHMTRTIYTSPIKALSNQKFRDFKETFGD 366 (1248)
T ss_pred hCCCC-ccHHHHHHHHHHHcC--CeEEEEecCCCCcchHHHHHHHHHH---hhccceEecchhhhhccchHHHHHHhccc
Confidence 36666 889999999999999 9999999999999999766554322 45678999999999999999999987776
Q ss_pred cCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhh
Q 011104 198 TGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIE 277 (493)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~ 277 (493)
.++ +.|.. ...+.+.++|+|.+.|..+|.++.--++++.+||+||+|.+.+. ...-.+.+++-.++
T Consensus 367 vgL----lTGDv---------qinPeAsCLIMTTEILRsMLYrgadliRDvE~VIFDEVHYiND~-eRGvVWEEViIMlP 432 (1248)
T KOG0947|consen 367 VGL----LTGDV---------QINPEASCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYINDV-ERGVVWEEVIIMLP 432 (1248)
T ss_pred cce----eecce---------eeCCCcceEeehHHHHHHHHhcccchhhccceEEEeeeeecccc-cccccceeeeeecc
Confidence 653 33332 22335789999999999999998777899999999999999873 44556677777777
Q ss_pred hcCCCeeEEEEeeecChhHHH--HHHHHhccCceeeeccccccccCceEEEEeCCC------------------------
Q 011104 278 RSSGHCQVLLFSATFNETVKN--FVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD------------------------ 331 (493)
Q Consensus 278 ~~~~~~q~v~~SAT~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------ 331 (493)
+ .+++|++|||.|+..+. ++.+... ..+++......+..+.++...-.+
T Consensus 433 ~---HV~~IlLSATVPN~~EFA~WIGRtK~--K~IyViST~kRPVPLEh~l~t~~~l~kiidq~g~fl~~~~~~a~~~~~ 507 (1248)
T KOG0947|consen 433 R---HVNFILLSATVPNTLEFADWIGRTKQ--KTIYVISTSKRPVPLEHYLYTKKSLFKIIDQNGIFLLKGIKDAKDSLK 507 (1248)
T ss_pred c---cceEEEEeccCCChHHHHHHhhhccC--ceEEEEecCCCccceEEEEEeccceehhhcccchhhhhcchhhhhhhc
Confidence 7 89999999999976542 3333322 223333332222223322211100
Q ss_pred ----------------------------------------hHHHHHHHHHHHHHh-cccCCcEEEEcCChhhHHHHHHHH
Q 011104 332 ----------------------------------------ELAKVMVIRDRIFEL-GEKMGQTIIFVRTKNSASALHKAL 370 (493)
Q Consensus 332 ----------------------------------------~~~~~~~l~~~l~~~-~~~~~~~lVf~~s~~~~~~l~~~L 370 (493)
...+...+.+.+..+ ...--|++|||-|++.|+..+.+|
T Consensus 508 ~~ak~~~~~~~~~~~~rgs~~~ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~k~~lLP~VvFvFSkkrCde~a~~L 587 (1248)
T KOG0947|consen 508 KEAKFVDVEKSDARGGRGSQKRGGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLRKKNLLPVVVFVFSKKRCDEYADYL 587 (1248)
T ss_pred ccccccccccccccccccccccCCcCCCCCCCcccccccccccccchHHHHHHHHhhcccCceEEEEEccccHHHHHHHH
Confidence 000000111111111 112348999999999999999998
Q ss_pred HhCCC---------------------------------------cEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccc
Q 011104 371 KDFGY---------------------------------------EVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLA 411 (493)
Q Consensus 371 ~~~~~---------------------------------------~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~ 411 (493)
...++ .++.+||++-+--++-+...|..|-++||+||..++
T Consensus 588 ~~~nL~~~~EKseV~lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~VE~LFqrGlVKVLFATETFA 667 (1248)
T KOG0947|consen 588 TNLNLTDSKEKSEVHLFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEVVELLFQRGLVKVLFATETFA 667 (1248)
T ss_pred hccCcccchhHHHHHHHHHHHHHhcChhhccchHHHHHHHHHhhcchhhcccchHHHHHHHHHHHhcCceEEEeehhhhh
Confidence 75321 278899999999999999999999999999999999
Q ss_pred cCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCC--cceEEEEeeCC
Q 011104 412 RGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGR--KGVVFNLLMDG 465 (493)
Q Consensus 412 ~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~--~g~~i~l~~~~ 465 (493)
.|+|+|.-++||..-.-..+.....-.+-+|.|++|||||.|- .|.+|.+....
T Consensus 668 MGVNMPARtvVF~Sl~KhDG~efR~L~PGEytQMAGRAGRRGlD~tGTVii~~~~~ 723 (1248)
T KOG0947|consen 668 MGVNMPARTVVFSSLRKHDGNEFRELLPGEYTQMAGRAGRRGLDETGTVIIMCKDS 723 (1248)
T ss_pred hhcCCCceeEEeeehhhccCcceeecCChhHHhhhccccccccCcCceEEEEecCC
Confidence 9999998888886544444544555678899999999999885 56666555433
No 91
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.97 E-value=2.8e-30 Score=261.73 Aligned_cols=324 Identities=17% Similarity=0.162 Sum_probs=224.6
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
+|.. |+++|-..--.+..| -|+.++||+|||++|.+|++.... .+..++|++||++||.|.++++..+...+
T Consensus 79 lg~~-~ydvQliGg~~Lh~G----~Iaem~TGeGKTL~a~Lpa~~~al---~G~~V~VvTpn~yLA~qd~e~m~~l~~~l 150 (896)
T PRK13104 79 LGLR-HFDVQLIGGMVLHEG----NIAEMRTGEGKTLVATLPAYLNAI---SGRGVHIVTVNDYLAKRDSQWMKPIYEFL 150 (896)
T ss_pred cCCC-cchHHHhhhhhhccC----ccccccCCCCchHHHHHHHHHHHh---cCCCEEEEcCCHHHHHHHHHHHHHHhccc
Confidence 5655 888887665555554 689999999999999999996654 34469999999999999999999999999
Q ss_pred CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-HHHHHcC-ccCC-----CCeeEEEEecchhhhcccC-------
Q 011104 199 GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-KKWMSAK-KLGF-----SRLKILVYDEADHMLDEAG------- 264 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~~-~~~~-----~~~~~iVlDEah~l~~~~~------- 264 (493)
++.+.+++++......... ..++|+|+||++| .+++..+ .+.+ ..+.++||||||.|+-+..
T Consensus 151 GLtv~~i~gg~~~~~r~~~----y~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiLIDeArtPLIIS 226 (896)
T PRK13104 151 GLTVGVIYPDMSHKEKQEA----YKADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSILIDEARTPLIIS 226 (896)
T ss_pred CceEEEEeCCCCHHHHHHH----hCCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhhhhccCCceeee
Confidence 9999999887654332222 2589999999999 8888766 2333 5899999999998652100
Q ss_pred --------CHHHHHHHHHHhhhc-----------CCCeeEEEEee-----------------------------------
Q 011104 265 --------FRDDSLRIMKDIERS-----------SGHCQVLLFSA----------------------------------- 290 (493)
Q Consensus 265 --------~~~~~~~i~~~~~~~-----------~~~~q~v~~SA----------------------------------- 290 (493)
....+..++..+... ....+.+.+|-
T Consensus 227 g~~~~~~~~y~~~~~~v~~l~~~~~~~~~~dy~idek~~~v~Lte~G~~~~e~~~~~~~il~~~~~l~~~~~~~~~~~i~ 306 (896)
T PRK13104 227 GAAEDSSELYIKINSLIPQLKKQEEEGDEGDYTIDEKQKQAHLTDAGHLHIEELLTKAKLLDPGESLYHASNIMLMHHVN 306 (896)
T ss_pred CCCccchHHHHHHHHHHHHHHhccccCCCCCEEEEcCCCceEEchHHHHHHHHHHHhCCccCCcccccCchhhhHHHHHH
Confidence 111222233333221 00112222222
Q ss_pred --------------------------------------------------------------------------------
Q 011104 291 -------------------------------------------------------------------------------- 290 (493)
Q Consensus 291 -------------------------------------------------------------------------------- 290 (493)
T Consensus 307 ~aL~A~~lf~~d~dYiV~dg~V~iVDe~TGR~m~grr~s~GLHQaiEaKE~v~i~~e~~t~AsIT~Qn~Fr~Y~kLsGMT 386 (896)
T PRK13104 307 AALKAHAMFHRDIDYIVKDNQVVIVDEHTGRTMPGRRWSEGLHQAVEAKEGVPIQNENQTLASITFQNFFRMYNKLSGMT 386 (896)
T ss_pred HHHHHHHHhcCCCceEEECCEEEEEECCCCCcCCCCCcChHHHHHHHHHcCCCCCCCceeeeeehHHHHHHhcchhccCC
Confidence
Q ss_pred -ecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHH
Q 011104 291 -TFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKA 369 (493)
Q Consensus 291 -T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~ 369 (493)
|......++..-+-. .++. .+...+..........+.+...|...+.+.+......+.|+||||+|++.++.++..
T Consensus 387 GTa~te~~Ef~~iY~l--~Vv~-IPtnkp~~R~d~~d~v~~t~~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE~ls~~ 463 (896)
T PRK13104 387 GTADTEAYEFQQIYNL--EVVV-IPTNRSMIRKDEADLVYLTQADKFQAIIEDVRECGVRKQPVLVGTVSIEASEFLSQL 463 (896)
T ss_pred CCChhHHHHHHHHhCC--CEEE-CCCCCCcceecCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHH
Confidence 111111111100000 0000 000111111111112333456788888888888888899999999999999999999
Q ss_pred HHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCC------------------------------
Q 011104 370 LKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQV------------------------------ 419 (493)
Q Consensus 370 L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v------------------------------ 419 (493)
|.+.|+++..+|+.+.+.++..+.+.|+.|. |+|||++++||+||.--
T Consensus 464 L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G~--VtIATNmAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 541 (896)
T PRK13104 464 LKKENIKHQVLNAKFHEKEAQIIAEAGRPGA--VTIATNMAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRH 541 (896)
T ss_pred HHHcCCCeEeecCCCChHHHHHHHhCCCCCc--EEEeccCccCCcceecCCchhhhhhccccchhhHHHHHHHHHhhhhh
Confidence 9999999999999999999999999999994 99999999999998621
Q ss_pred --------CEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCcc
Q 011104 420 --------NLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDD 467 (493)
Q Consensus 420 --------~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~ 467 (493)
-|||--..+ .|-.--.|-.||+||.|.+|.+-.|++-.|+
T Consensus 542 ~~V~~~GGL~VIgTerh--------esrRID~QLrGRaGRQGDPGss~f~lSleD~ 589 (896)
T PRK13104 542 DEVIAAGGLRIIGSERH--------ESRRIDNQLRGRAGRQGDPGSSRFYLSLEDN 589 (896)
T ss_pred hHHHHcCCCEEEeeccC--------chHHHHHHhccccccCCCCCceEEEEEcCcH
Confidence 134433333 5555567999999999999999988886654
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=99.97 E-value=7.5e-31 Score=260.56 Aligned_cols=307 Identities=19% Similarity=0.208 Sum_probs=196.7
Q ss_pred EEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCc--ccccCCCC
Q 011104 144 IAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNY--VPISKRPP 221 (493)
Q Consensus 144 iv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~ 221 (493)
++.|+||||||.+|+..+...+. .+.++||++|+++|+.|+++.+++.+. ..+..+++..+... ..+.....
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~---~g~~vLvlvP~i~L~~Q~~~~l~~~f~---~~v~vlhs~~~~~er~~~~~~~~~ 74 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLA---LGKSVLVLVPEIALTPQMIQRFKYRFG---SQVAVLHSGLSDSEKLQAWRKVKN 74 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHH---cCCeEEEEeCcHHHHHHHHHHHHHHhC---CcEEEEECCCCHHHHHHHHHHHHc
Confidence 47899999999999776655442 356899999999999999999987643 33444554433221 11222234
Q ss_pred CCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhccc--CCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHH
Q 011104 222 VTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEA--GFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNF 299 (493)
Q Consensus 222 ~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~--~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~ 299 (493)
+.++|+|+|+..+. ..+.++++|||||+|...... +..-....+... .....+.+++++|||++.+....
T Consensus 75 g~~~IVVGTrsalf-------~p~~~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~-ra~~~~~~vil~SATPsles~~~ 146 (505)
T TIGR00595 75 GEILVVIGTRSALF-------LPFKNLGLIIVDEEHDSSYKQEEGPRYHARDVAVY-RAKKFNCPVVLGSATPSLESYHN 146 (505)
T ss_pred CCCCEEECChHHHc-------CcccCCCEEEEECCCccccccccCCCCcHHHHHHH-HHHhcCCCEEEEeCCCCHHHHHH
Confidence 46789999998763 357889999999999865321 111111222111 11223678999999966443222
Q ss_pred HHHHhccCceeeeccccccccCceEEEEeCCChH---HHHHHHHHHHHHhcccCCcEEEEcCChhh--------------
Q 011104 300 VTRIVKDYNQLFVKKEELSLESVKQYKVYCPDEL---AKVMVIRDRIFELGEKMGQTIIFVRTKNS-------------- 362 (493)
Q Consensus 300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~l~~~l~~~~~~~~~~lVf~~s~~~-------------- 362 (493)
+ ..+.+..+................+...... .....+.+.+.+....++++|||+|++..
T Consensus 147 ~--~~g~~~~~~l~~r~~~~~~p~v~vid~~~~~~~~~ls~~l~~~i~~~l~~g~qvLvflnrrGya~~~~C~~Cg~~~~ 224 (505)
T TIGR00595 147 A--KQKAYRLLVLTRRVSGRKPPEVKLIDMRKEPRQSFLSPELITAIEQTLAAGEQSILFLNRRGYSKNLLCRSCGYILC 224 (505)
T ss_pred H--hcCCeEEeechhhhcCCCCCeEEEEecccccccCCccHHHHHHHHHHHHcCCcEEEEEeCCcCCCeeEhhhCcCccC
Confidence 2 2222222222211111111111112221111 11234555566777778899999776543
Q ss_pred ----------------------------------------------HHHHHHHHHhC--CCcEEEecCCCCHHHH--HHH
Q 011104 363 ----------------------------------------------ASALHKALKDF--GYEVTTIMGATIQEER--DKI 392 (493)
Q Consensus 363 ----------------------------------------------~~~l~~~L~~~--~~~~~~l~~~~~~~~r--~~~ 392 (493)
.+++.+.|.+. +.++..+|+++++..+ ..+
T Consensus 225 C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~~l~~~g~Gte~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~ 304 (505)
T TIGR00595 225 CPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSEDLVYKGYGTEQVEEELAKLFPGARIARIDSDTTSRKGAHEAL 304 (505)
T ss_pred CCCCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCCeeEeecccHHHHHHHHHhhCCCCcEEEEecccccCccHHHHH
Confidence 47778888776 7799999999987665 899
Q ss_pred HHHHHcCCCcEEEEeCccccCCCCCCCCEEE--EccCCCCCCCCC--CCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 393 VKEFKDGLTQVLISTDVLARGFDQQQVNLIV--NYDPPVKHGKHL--EPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 393 ~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi--~~~~p~~~~~~~--~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
++.|++|+.+|||+|+++++|+|+|+|++|+ ++|......+.. +.....|.|++||+||++..|.++......+
T Consensus 305 l~~f~~g~~~ILVgT~~i~kG~d~~~v~lV~vl~aD~~l~~pd~ra~E~~~~ll~q~~GRagR~~~~g~viiqt~~p~ 382 (505)
T TIGR00595 305 LNQFANGKADILIGTQMIAKGHHFPNVTLVGVLDADSGLHSPDFRAAERGFQLLTQVAGRAGRAEDPGQVIIQTYNPN 382 (505)
T ss_pred HHHHhcCCCCEEEeCcccccCCCCCcccEEEEEcCcccccCcccchHHHHHHHHHHHHhccCCCCCCCEEEEEeCCCC
Confidence 9999999999999999999999999999985 455432221110 1234668999999999999999885443333
No 93
>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=99.97 E-value=2.3e-30 Score=230.81 Aligned_cols=200 Identities=41% Similarity=0.687 Sum_probs=173.0
Q ss_pred cccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC--CCCCeEEEEcC
Q 011104 102 FEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN--LKAPQALCICP 179 (493)
Q Consensus 102 ~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~--~~~~~~lil~P 179 (493)
|+++++++.+.+.+.. +|+..|+++|+++++.++.| +++++++|||+|||++|++|++..+... ..+++++|++|
T Consensus 1 ~~~~~~~~~i~~~l~~-~~~~~~~~~Q~~~~~~~~~~--~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p 77 (203)
T cd00268 1 FEELGLSPELLRGIYA-LGFEKPTPIQARAIPPLLSG--RDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAP 77 (203)
T ss_pred CCcCCCCHHHHHHHHH-cCCCCCCHHHHHHHHHHhcC--CcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcC
Confidence 6889999999999997 99999999999999999998 9999999999999999999999988765 56789999999
Q ss_pred CHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhh
Q 011104 180 TRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHM 259 (493)
Q Consensus 180 t~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l 259 (493)
+++|+.|+...++.+....++.+.+..++....... .....+++|+|+||++|.+++.+....+.+++++|+||+|.+
T Consensus 78 ~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~ 155 (203)
T cd00268 78 TRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQI--RKLKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRM 155 (203)
T ss_pred CHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHH--HHhcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHh
Confidence 999999999999999877777777777765432211 122246899999999999999888888899999999999999
Q ss_pred hcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCcee
Q 011104 260 LDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQL 310 (493)
Q Consensus 260 ~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~ 310 (493)
.+ .++...+..++..+.. .+|++++|||+++.+..++..++.++..+
T Consensus 156 ~~-~~~~~~~~~~~~~l~~---~~~~~~~SAT~~~~~~~~~~~~~~~~~~~ 202 (203)
T cd00268 156 LD-MGFEDQIREILKLLPK---DRQTLLFSATMPKEVRDLARKFLRNPVRI 202 (203)
T ss_pred hc-cChHHHHHHHHHhCCc---ccEEEEEeccCCHHHHHHHHHHCCCCEEe
Confidence 86 5788888888887765 78999999999999999998888877654
No 94
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.97 E-value=4.2e-30 Score=259.69 Aligned_cols=361 Identities=20% Similarity=0.231 Sum_probs=259.8
Q ss_pred CCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCC--------CCCeEEEE
Q 011104 106 NLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNL--------KAPQALCI 177 (493)
Q Consensus 106 ~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~--------~~~~~lil 177 (493)
.++.+-..++ +|...++++|....+..+.+. .++++|||||+|||..+++.+|+.+.... ...++.++
T Consensus 295 elP~Wnq~aF---~g~~sLNrIQS~v~daAl~~~-EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYI 370 (1674)
T KOG0951|consen 295 ELPKWNQPAF---FGKQSLNRIQSKVYDAALRGD-ENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYI 370 (1674)
T ss_pred CCcchhhhhc---ccchhhhHHHHHHHHHHhcCc-CcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEE
Confidence 3444444444 578889999999999999985 79999999999999999999999884332 24579999
Q ss_pred cCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCc--cCCCCeeEEEEec
Q 011104 178 CPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKK--LGFSRLKILVYDE 255 (493)
Q Consensus 178 ~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~--~~~~~~~~iVlDE 255 (493)
+|.++|++.|...+.+....+++.+.-..|....... .-.+++|+|+||+..--.-++.. -..+-++++|+||
T Consensus 371 APmKaLvqE~VgsfSkRla~~GI~V~ElTgD~~l~~~-----qieeTqVIV~TPEK~DiITRk~gdraY~qlvrLlIIDE 445 (1674)
T KOG0951|consen 371 APMKALVQEMVGSFSKRLAPLGITVLELTGDSQLGKE-----QIEETQVIVTTPEKWDIITRKSGDRAYEQLVRLLIIDE 445 (1674)
T ss_pred eeHHHHHHHHHHHHHhhccccCcEEEEecccccchhh-----hhhcceeEEeccchhhhhhcccCchhHHHHHHHHhhhh
Confidence 9999999999999999888899988877776543222 22357899999998643333311 1234578999999
Q ss_pred chhhhcccCCHHHHHHHHHHh----hhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCC
Q 011104 256 ADHMLDEAGFRDDSLRIMKDI----ERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD 331 (493)
Q Consensus 256 ah~l~~~~~~~~~~~~i~~~~----~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 331 (493)
.|.+-++.| +.+..|..+. ......++.+++|||+|+.. +....+..++..++.....+.+..+.|.++-+..
T Consensus 446 IHLLhDdRG--pvLESIVaRt~r~ses~~e~~RlVGLSATLPNy~-DV~~Fl~v~~~glf~fd~syRpvPL~qq~Igi~e 522 (1674)
T KOG0951|consen 446 IHLLHDDRG--PVLESIVARTFRRSESTEEGSRLVGLSATLPNYE-DVASFLRVDPEGLFYFDSSYRPVPLKQQYIGITE 522 (1674)
T ss_pred hhhcccccc--hHHHHHHHHHHHHhhhcccCceeeeecccCCchh-hhHHHhccCcccccccCcccCcCCccceEecccc
Confidence 998877554 3344443333 22334689999999999533 2222223344556666666677777777766543
Q ss_pred hH--H----HHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh---------------------------------
Q 011104 332 EL--A----KVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD--------------------------------- 372 (493)
Q Consensus 332 ~~--~----~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~--------------------------------- 372 (493)
.. . ......+++.+...+ +++|||+.+++++-+.++.++.
T Consensus 523 k~~~~~~qamNe~~yeKVm~~agk-~qVLVFVHsRkET~ktA~aIRd~~le~dtls~fmre~s~s~eilrtea~~~kn~d 601 (1674)
T KOG0951|consen 523 KKPLKRFQAMNEACYEKVLEHAGK-NQVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAKNPD 601 (1674)
T ss_pred CCchHHHHHHHHHHHHHHHHhCCC-CcEEEEEEechHHHHHHHHHHHHHhhhhHHHHHHhcccchhhhhhhhhhcccChh
Confidence 22 1 122444555555554 8999999999998888877762
Q ss_pred ----CCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEE----ccCCCCCCCCCCCCcccccc
Q 011104 373 ----FGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVN----YDPPVKHGKHLEPDCEVYLH 444 (493)
Q Consensus 373 ----~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~----~~~p~~~~~~~~~s~~~y~q 444 (493)
+.+.++++|++|+..+|..+.+.|..|.++|||+|-.+++|+|+|.-+++|- |++-.+. +.+.++.+.+|
T Consensus 602 LkdLLpygfaIHhAGl~R~dR~~~EdLf~~g~iqvlvstatlawgvnlpahtViikgtqvy~pekg~--w~elsp~dv~q 679 (1674)
T KOG0951|consen 602 LKDLLPYGFAIHHAGLNRKDRELVEDLFADGHIQVLVSTATLAWGVNLPAHTVIIKGTQVYDPEKGR--WTELSPLDVMQ 679 (1674)
T ss_pred HHHHhhccceeeccCCCcchHHHHHHHHhcCceeEEEeehhhhhhcCCCcceEEecCccccCcccCc--cccCCHHHHHH
Confidence 1456899999999999999999999999999999999999999998777774 5554333 33468889999
Q ss_pred cccccccCCC--cceEEEEeeCCccHHHHHHHHHHhCCC
Q 011104 445 RIGRAGRFGR--KGVVFNLLMDGDDMIIMEKIERYFDIK 481 (493)
Q Consensus 445 r~GR~~R~g~--~g~~i~l~~~~~~~~~~~~i~~~~~~~ 481 (493)
|.||+||.+- .|..+.+-..++-.+|+..+.+-|+++
T Consensus 680 mlgragrp~~D~~gegiiit~~se~qyyls~mn~qLpie 718 (1674)
T KOG0951|consen 680 MLGRAGRPQYDTCGEGIIITDHSELQYYLSLMNQQLPIE 718 (1674)
T ss_pred HHhhcCCCccCcCCceeeccCchHhhhhHHhhhhcCCCh
Confidence 9999999653 455664444444455566555555544
No 95
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.97 E-value=3.1e-29 Score=246.26 Aligned_cols=293 Identities=21% Similarity=0.263 Sum_probs=199.3
Q ss_pred CCchHHHhhhhhhcC----CCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 123 KPSKIQAISLPMILT----PPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~----~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
.|+++|.+++..+.. + +..++++|||+|||+.++..+-.. ...+|||||+++|+.||.+.+.......
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~--~~gvivlpTGaGKT~va~~~~~~~------~~~~Lvlv~~~~L~~Qw~~~~~~~~~~~ 107 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTE--RRGVIVLPTGAGKTVVAAEAIAEL------KRSTLVLVPTKELLDQWAEALKKFLLLN 107 (442)
T ss_pred CCcHHHHHHHHHHHhhcccC--CceEEEeCCCCCHHHHHHHHHHHh------cCCEEEEECcHHHHHHHHHHHHHhcCCc
Confidence 489999999999987 6 899999999999999876654432 1239999999999999987777665432
Q ss_pred CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh
Q 011104 199 GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER 278 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~ 278 (493)
. .+ ..+++..... .. ..|.|+|.+.+........+....+.+||+||||++... ....+...+..
T Consensus 108 ~-~~-g~~~~~~~~~-------~~-~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~-----~~~~~~~~~~~ 172 (442)
T COG1061 108 D-EI-GIYGGGEKEL-------EP-AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAP-----SYRRILELLSA 172 (442)
T ss_pred c-cc-ceecCceecc-------CC-CcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcH-----HHHHHHHhhhc
Confidence 0 11 1122221111 00 369999999987742112333447999999999998763 23444454444
Q ss_pred cCCCeeEEEEeeecChhHHHHHHHHhcc--Cceeeecccc----ccccCceEEEEeCC----------------------
Q 011104 279 SSGHCQVLLFSATFNETVKNFVTRIVKD--YNQLFVKKEE----LSLESVKQYKVYCP---------------------- 330 (493)
Q Consensus 279 ~~~~~q~v~~SAT~~~~~~~~~~~~~~~--~~~~~~~~~~----~~~~~~~~~~~~~~---------------------- 330 (493)
.. .++++|||++..-......+... +........+ ..+.......+...
T Consensus 173 ~~---~~LGLTATp~R~D~~~~~~l~~~~g~~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~ 249 (442)
T COG1061 173 AY---PRLGLTATPEREDGGRIGDLFDLIGPIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRA 249 (442)
T ss_pred cc---ceeeeccCceeecCCchhHHHHhcCCeEeecCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhh
Confidence 21 28999999762221111111111 1122111110 01111111111110
Q ss_pred ---------------ChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHH
Q 011104 331 ---------------DELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKE 395 (493)
Q Consensus 331 ---------------~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~ 395 (493)
....+...+...+.... ...+++||+.+..++..++..|...++ +..+.+..++.+|..+++.
T Consensus 250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~ 327 (442)
T COG1061 250 RGTLRAENEARRIAIASERKIAAVRGLLLKHA-RGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILER 327 (442)
T ss_pred hhhhhHHHHHHHHhhccHHHHHHHHHHHHHhc-CCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHH
Confidence 00112222222222222 467999999999999999999998888 9999999999999999999
Q ss_pred HHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCccccccccccccc
Q 011104 396 FKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGR 451 (493)
Q Consensus 396 f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R 451 (493)
|+.|...+||++.++.+|+|+|+++++|...+. .|...|+||+||.-|
T Consensus 328 fr~g~~~~lv~~~vl~EGvDiP~~~~~i~~~~t--------~S~~~~~Q~lGR~LR 375 (442)
T COG1061 328 FRTGGIKVLVTVKVLDEGVDIPDADVLIILRPT--------GSRRLFIQRLGRGLR 375 (442)
T ss_pred HHcCCCCEEEEeeeccceecCCCCcEEEEeCCC--------CcHHHHHHHhhhhcc
Confidence 999999999999999999999999999999887 889999999999999
No 96
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.97 E-value=4.7e-29 Score=252.74 Aligned_cols=325 Identities=16% Similarity=0.167 Sum_probs=229.4
Q ss_pred hhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHH-hccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 117 VEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGML-SRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 117 ~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l-~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
..+|.. |+++|-...-.+..| -|+.+.||+|||+++.+|++ +.+. +..+-|++||..||.|.++++..+.
T Consensus 76 R~lg~~-~~dvQlig~l~L~~G----~Iaem~TGeGKTLva~lpa~l~aL~----G~~V~IvTpn~yLA~rd~e~~~~l~ 146 (830)
T PRK12904 76 RVLGMR-HFDVQLIGGMVLHEG----KIAEMKTGEGKTLVATLPAYLNALT----GKGVHVVTVNDYLAKRDAEWMGPLY 146 (830)
T ss_pred HHhCCC-CCccHHHhhHHhcCC----chhhhhcCCCcHHHHHHHHHHHHHc----CCCEEEEecCHHHHHHHHHHHHHHH
Confidence 335665 899998877666555 59999999999999999995 6652 3357799999999999999999999
Q ss_pred cccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-HHHHHcCc------cCCCCeeEEEEecchhhhcccC----
Q 011104 196 KHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-KKWMSAKK------LGFSRLKILVYDEADHMLDEAG---- 264 (493)
Q Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~~~------~~~~~~~~iVlDEah~l~~~~~---- 264 (493)
..+++++.++.++......... ..++|+|+||++| .+++.... .....+.++||||||.|+-+..
T Consensus 147 ~~LGlsv~~i~~~~~~~er~~~----y~~dI~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDsiLIDeArtpL 222 (830)
T PRK12904 147 EFLGLSVGVILSGMSPEERREA----YAADITYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDSILIDEARTPL 222 (830)
T ss_pred hhcCCeEEEEcCCCCHHHHHHh----cCCCeEEECCcchhhhhhhcccccchhhhcccccceEEEechhhheeccCCCce
Confidence 9999999999887654433222 2489999999999 88887643 2367889999999998652100
Q ss_pred -----------CHHHHHHHHHHhhhcC-----CCe---------------------------------------------
Q 011104 265 -----------FRDDSLRIMKDIERSS-----GHC--------------------------------------------- 283 (493)
Q Consensus 265 -----------~~~~~~~i~~~~~~~~-----~~~--------------------------------------------- 283 (493)
....+..+...+.... ...
T Consensus 223 iiSg~~~~~~~~y~~~~~~v~~l~~~~dy~vde~~~~v~lte~G~~~~e~~~~~~~ly~~~~~~~~~~i~~AL~A~~l~~ 302 (830)
T PRK12904 223 IISGPAEDSSELYKRANKIVPTLEKEGDYTVDEKSRTVGLTEEGIEKAEKLLGIENLYDPENIALVHHLNQALRAHELFK 302 (830)
T ss_pred eeECCCCcccHHHHHHHHHHHhcCCCCCeEEEcCCCeeeECHHHHHHHHHHhCCccccChhhhHHHHHHHHHHHHHHHHh
Confidence 1111222222221100 001
Q ss_pred ----------------------------------------------------------------eEEEEeeecChhHHHH
Q 011104 284 ----------------------------------------------------------------QVLLFSATFNETVKNF 299 (493)
Q Consensus 284 ----------------------------------------------------------------q~v~~SAT~~~~~~~~ 299 (493)
++.+||+|......++
T Consensus 303 ~d~dYiV~dg~V~ivDe~TGR~~~gr~ws~GLHQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~te~~E~ 382 (830)
T PRK12904 303 RDVDYIVKDGEVVIVDEFTGRLMPGRRYSDGLHQAIEAKEGVKIQNENQTLASITFQNYFRMYEKLAGMTGTADTEAEEF 382 (830)
T ss_pred cCCcEEEECCEEEEEECCCCccCCCCccchHHHHHHHHhcCCCCCCCceeeeeeeHHHHHHhcchhcccCCCcHHHHHHH
Confidence 2334444443322222
Q ss_pred HHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEE
Q 011104 300 VTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTT 379 (493)
Q Consensus 300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~ 379 (493)
..-+-- ..+.++ ...+............+...|...+...+......+.|+||||+|++.++.++..|...|+++..
T Consensus 383 ~~iY~l--~vv~IP-tnkp~~r~d~~d~i~~t~~~K~~aI~~~I~~~~~~grpVLIft~Si~~se~Ls~~L~~~gi~~~v 459 (830)
T PRK12904 383 REIYNL--DVVVIP-TNRPMIRIDHPDLIYKTEKEKFDAVVEDIKERHKKGQPVLVGTVSIEKSELLSKLLKKAGIPHNV 459 (830)
T ss_pred HHHhCC--CEEEcC-CCCCeeeeeCCCeEEECHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCceEe
Confidence 111111 111111 11111111111223335567788888877776667889999999999999999999999999999
Q ss_pred ecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCC--------------------------------------CE
Q 011104 380 IMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQV--------------------------------------NL 421 (493)
Q Consensus 380 l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v--------------------------------------~~ 421 (493)
+|+. +.+|+..+..|+.+...|+|||++++||+||+-- =|
T Consensus 460 Lnak--q~eREa~Iia~Ag~~g~VtIATNmAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLh 537 (830)
T PRK12904 460 LNAK--NHEREAEIIAQAGRPGAVTIATNMAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAGGLH 537 (830)
T ss_pred ccCc--hHHHHHHHHHhcCCCceEEEecccccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCE
Confidence 9995 7899999999999999999999999999998643 24
Q ss_pred EEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCcc
Q 011104 422 IVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDD 467 (493)
Q Consensus 422 Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~ 467 (493)
||--..+ .|-.--.|-.||+||.|.+|.+-.|++-.|+
T Consensus 538 VigTerh--------esrRid~QlrGRagRQGdpGss~f~lSleD~ 575 (830)
T PRK12904 538 VIGTERH--------ESRRIDNQLRGRSGRQGDPGSSRFYLSLEDD 575 (830)
T ss_pred EEecccC--------chHHHHHHhhcccccCCCCCceeEEEEcCcH
Confidence 6655555 6667778999999999999999988887654
No 97
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.97 E-value=1.6e-28 Score=251.99 Aligned_cols=341 Identities=18% Similarity=0.213 Sum_probs=264.5
Q ss_pred CCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcC----CCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCC
Q 011104 105 LNLSPELLKGLYVEMKFQKPSKIQAISLPMILT----PPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPT 180 (493)
Q Consensus 105 ~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~----~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt 180 (493)
++.+.+....+...|+|. -|+=|..||..+.+ +.-.|-++||.-|-|||-+++=+++..+ ..+.++.|+|||
T Consensus 577 f~~d~~~q~~F~~~FPye-ET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV---~~GKQVAvLVPT 652 (1139)
T COG1197 577 FPPDTEWQEEFEASFPYE-ETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAV---MDGKQVAVLVPT 652 (1139)
T ss_pred CCCChHHHHHHHhcCCCc-CCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHh---cCCCeEEEEccc
Confidence 456677788888778887 68999999998864 3346899999999999999887777766 456899999999
Q ss_pred HHHHHHHHHHHHHHhcccCceeeEeecCCCCCcc--cccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchh
Q 011104 181 RELAIQNLEVLRKMGKHTGITSECAVPTDSTNYV--PISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADH 258 (493)
Q Consensus 181 ~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~ 258 (493)
--||+|.++.++.-+...++++..+....+.... .......+..||+|+|+ ++|. ..+.+.++.++|+||-|+
T Consensus 653 TlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTH----rLL~-kdv~FkdLGLlIIDEEqR 727 (1139)
T COG1197 653 TLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTH----RLLS-KDVKFKDLGLLIIDEEQR 727 (1139)
T ss_pred HHhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEech----HhhC-CCcEEecCCeEEEechhh
Confidence 9999999999999998889888777655544332 22334556789999995 3333 456799999999999998
Q ss_pred hhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHH
Q 011104 259 MLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMV 338 (493)
Q Consensus 259 l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 338 (493)
.... -.+-++.++. ++.++-||||+-+....+...-+++...+..++.. ...+..++...++..-+
T Consensus 728 FGVk------~KEkLK~Lr~---~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~--R~pV~T~V~~~d~~~ir--- 793 (1139)
T COG1197 728 FGVK------HKEKLKELRA---NVDVLTLSATPIPRTLNMSLSGIRDLSVIATPPED--RLPVKTFVSEYDDLLIR--- 793 (1139)
T ss_pred cCcc------HHHHHHHHhc---cCcEEEeeCCCCcchHHHHHhcchhhhhccCCCCC--CcceEEEEecCChHHHH---
Confidence 7652 2344555554 78899999998888777766666666655443322 23344554444443322
Q ss_pred HHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC--CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCC
Q 011104 339 IRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF--GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQ 416 (493)
Q Consensus 339 l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~--~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi 416 (493)
+.+..-..++|.+-...|.++.++.+++.|+.+ ..++.+.||.|+..+.++++..|.+|+++|||||.+++.||||
T Consensus 794 --eAI~REl~RgGQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDI 871 (1139)
T COG1197 794 --EAILRELLRGGQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDI 871 (1139)
T ss_pred --HHHHHHHhcCCEEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeeecCcCC
Confidence 223444455899999999999999999999987 5689999999999999999999999999999999999999999
Q ss_pred CCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc-----cHHHHHHHHHH
Q 011104 417 QQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD-----DMIIMEKIERY 477 (493)
Q Consensus 417 ~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~-----~~~~~~~i~~~ 477 (493)
|+++.+|.-+.-. -..+++.|-.||+||..+.+.|+.+|-+.. ....++.|+++
T Consensus 872 PnANTiIIe~AD~-------fGLsQLyQLRGRVGRS~~~AYAYfl~p~~k~lT~~A~kRL~aI~~~ 930 (1139)
T COG1197 872 PNANTIIIERADK-------FGLAQLYQLRGRVGRSNKQAYAYFLYPPQKALTEDAEKRLEAIASF 930 (1139)
T ss_pred CCCceEEEecccc-------ccHHHHHHhccccCCccceEEEEEeecCccccCHHHHHHHHHHHhh
Confidence 9999999877765 457889999999999999999998886543 34455555553
No 98
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.97 E-value=2.5e-29 Score=253.66 Aligned_cols=330 Identities=17% Similarity=0.199 Sum_probs=227.5
Q ss_pred HHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHH
Q 011104 114 GLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRK 193 (493)
Q Consensus 114 ~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~ 193 (493)
+....+|+. |+++|-.+--.+..| -|....||+|||+++.+|++... ..+..+-|++|+.-||.|-++++..
T Consensus 72 a~~R~~g~~-~~dvQlig~l~l~~G----~iaEm~TGEGKTLvA~l~a~l~a---l~G~~v~vvT~neyLA~Rd~e~~~~ 143 (796)
T PRK12906 72 GAKRVLGLR-PFDVQIIGGIVLHEG----NIAEMKTGEGKTLTATLPVYLNA---LTGKGVHVVTVNEYLSSRDATEMGE 143 (796)
T ss_pred HHHHHhCCC-CchhHHHHHHHHhcC----CcccccCCCCCcHHHHHHHHHHH---HcCCCeEEEeccHHHHHhhHHHHHH
Confidence 333445665 899998877666666 39999999999999988887555 3566799999999999999999999
Q ss_pred HhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHH-HHHHc------CccCCCCeeEEEEecchhhhcccC--
Q 011104 194 MGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIK-KWMSA------KKLGFSRLKILVYDEADHMLDEAG-- 264 (493)
Q Consensus 194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~-~~l~~------~~~~~~~~~~iVlDEah~l~~~~~-- 264 (493)
+...+|+.+.+..+....... +....++|+++|...|. ++|+. .......+.+.||||+|.++-+..
T Consensus 144 ~~~~LGl~vg~i~~~~~~~~r----~~~y~~dI~Y~t~~e~gfDyLRD~m~~~~~~~v~r~~~~aIvDEvDSiLiDeart 219 (796)
T PRK12906 144 LYRWLGLTVGLNLNSMSPDEK----RAAYNCDITYSTNSELGFDYLRDNMVVYKEQMVQRPLNYAIVDEVDSILIDEART 219 (796)
T ss_pred HHHhcCCeEEEeCCCCCHHHH----HHHhcCCCeecCCccccccchhhccccchhhhhccCcceeeeccchheeeccCCC
Confidence 999999999988765433322 22235899999987763 22322 112245678999999998542100
Q ss_pred -------------CHHHHHHHHHHhhhcC----------------CCe--------------------------------
Q 011104 265 -------------FRDDSLRIMKDIERSS----------------GHC-------------------------------- 283 (493)
Q Consensus 265 -------------~~~~~~~i~~~~~~~~----------------~~~-------------------------------- 283 (493)
+...+..++..+.... ...
T Consensus 220 PLiisg~~~~~~~~y~~~~~~v~~l~~~~~~~~~~~~~~~dy~id~~~k~v~lte~G~~~~e~~~~i~~l~~~~~~~~~~ 299 (796)
T PRK12906 220 PLIISGQAEKATDLYIRADRFVKTLIKDEAEDGDDDEDTGDYKIDEKTKTISLTEQGIRKAEKLFGLDNLYDSENTALAH 299 (796)
T ss_pred ceecCCCCCcchHHHHHHHHHHHHHHhhhhccccccCCCCceEEEcccCceeecHHHHHHHHHHcCCccccCchhhhHHH
Confidence 1111222222222110 000
Q ss_pred -----------------------------------------------------------------------------eEE
Q 011104 284 -----------------------------------------------------------------------------QVL 286 (493)
Q Consensus 284 -----------------------------------------------------------------------------q~v 286 (493)
++.
T Consensus 300 ~i~~Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~ws~GLHQaieaKe~v~i~~e~~t~a~It~qnfFr~Y~kl~ 379 (796)
T PRK12906 300 HIDQALRANYIMLKDIDYVVQDGEVLIVDEFTGRVMEGRRYSDGLHQAIEAKEGVKIQEENQTLATITYQNFFRMYKKLS 379 (796)
T ss_pred HHHHHHHHHHHHhcCCcEEEECCEEEEEeCCCCCcCCCCccChHHHHHHHHhcCCCcCCCceeeeeehHHHHHHhcchhh
Confidence 222
Q ss_pred EEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHH
Q 011104 287 LFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASAL 366 (493)
Q Consensus 287 ~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l 366 (493)
+||+|......++.. ..+- ..+.++. ..+..........+.+...|...+.+.+......+.|+||||+|+..++.+
T Consensus 380 GmTGTa~~e~~Ef~~-iY~l-~vv~IPt-nkp~~r~d~~d~i~~t~~~K~~al~~~i~~~~~~g~pvLI~t~si~~se~l 456 (796)
T PRK12906 380 GMTGTAKTEEEEFRE-IYNM-EVITIPT-NRPVIRKDSPDLLYPTLDSKFNAVVKEIKERHAKGQPVLVGTVAIESSERL 456 (796)
T ss_pred ccCCCCHHHHHHHHH-HhCC-CEEEcCC-CCCeeeeeCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHH
Confidence 333333222211111 1111 1111111 111111111112233456677788887777667789999999999999999
Q ss_pred HHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCC---CCC-----EEEEccCCCCCCCCCCCC
Q 011104 367 HKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQ---QVN-----LIVNYDPPVKHGKHLEPD 438 (493)
Q Consensus 367 ~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~---~v~-----~Vi~~~~p~~~~~~~~~s 438 (493)
+..|.+.++++..+|+++.+.++..+...++.|. |+|||++++||.||+ +|. |||+++.| .|
T Consensus 457 s~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnmAGRGtDI~l~~~V~~~GGLhVI~te~p--------es 526 (796)
T PRK12906 457 SHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNMAGRGTDIKLGPGVKELGGLAVIGTERH--------ES 526 (796)
T ss_pred HHHHHHCCCCeeEecCCcHHHHHHHHHhcCCCce--EEEEeccccCCCCCCCCcchhhhCCcEEEeeecC--------Cc
Confidence 9999999999999999998887777777777775 999999999999995 899 99999999 89
Q ss_pred cccccccccccccCCCcceEEEEeeCCccH
Q 011104 439 CEVYLHRIGRAGRFGRKGVVFNLLMDGDDM 468 (493)
Q Consensus 439 ~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~ 468 (493)
...|.|++||+||.|.+|.+..|++..|+.
T Consensus 527 ~ri~~Ql~GRtGRqG~~G~s~~~~sleD~l 556 (796)
T PRK12906 527 RRIDNQLRGRSGRQGDPGSSRFYLSLEDDL 556 (796)
T ss_pred HHHHHHHhhhhccCCCCcceEEEEeccchH
Confidence 999999999999999999999999877643
No 99
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.97 E-value=1e-28 Score=249.99 Aligned_cols=150 Identities=16% Similarity=0.181 Sum_probs=128.0
Q ss_pred cccCCCCHHHHHHHHh----hCCCCCC---chHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeE
Q 011104 102 FEDLNLSPELLKGLYV----EMKFQKP---SKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQA 174 (493)
Q Consensus 102 ~~~~~~~~~~~~~l~~----~~g~~~~---~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~ 174 (493)
.+.+.+.+++.+.+.. ..||..| +|+|.+++|.++.+ +++++.++||+|||++|++|++..+... ..+
T Consensus 64 ~eafal~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~--~gvIAeaqTGeGKTLAf~LP~l~~aL~g---~~v 138 (970)
T PRK12899 64 PEAYGVVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMH--KGFITEMQTGEGKTLTAVMPLYLNALTG---KPV 138 (970)
T ss_pred HHHhCCCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcC--CCeEEEeCCCCChHHHHHHHHHHHHhhc---CCe
Confidence 5678899999998872 3799999 99999999999999 9999999999999999999999776532 248
Q ss_pred EEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-HHHHHcCccCCC-------
Q 011104 175 LCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-KKWMSAKKLGFS------- 246 (493)
Q Consensus 175 lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~~~~~~~------- 246 (493)
+||+||++||.|.++++..+...+++++.+++++.......... .++|+|+||++| .++++.+.+.++
T Consensus 139 ~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y----~~DIVygTPgRLgfDyLrd~~~~~~~~~~vqr 214 (970)
T PRK12899 139 HLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIY----QCDVVYGTASEFGFDYLRDNSIATRKEEQVGR 214 (970)
T ss_pred EEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHc----CCCEEEECCChhHHHHhhCCCCCcCHHHhhcc
Confidence 99999999999999999999999999999999887655433221 489999999999 999988766555
Q ss_pred CeeEEEEecchhhh
Q 011104 247 RLKILVYDEADHML 260 (493)
Q Consensus 247 ~~~~iVlDEah~l~ 260 (493)
.+.++||||||.|+
T Consensus 215 ~~~~~IIDEADsmL 228 (970)
T PRK12899 215 GFYFAIIDEVDSIL 228 (970)
T ss_pred cccEEEEechhhhh
Confidence 45899999999875
No 100
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.97 E-value=1.5e-29 Score=241.67 Aligned_cols=321 Identities=17% Similarity=0.222 Sum_probs=225.8
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHH-HHHhcccCceeeEeecCCCCCcccccCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVL-RKMGKHTGITSECAVPTDSTNYVPISKR 219 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (493)
+-+++.++||||||.+..-.++ ...-...+-+.+..|+|..|..+++.+ .+++..+|-.+++.+.... -
T Consensus 372 ~vvvivgETGSGKTTQl~QyL~--edGY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGYsIRFEd--------v 441 (1042)
T KOG0924|consen 372 QVVVIVGETGSGKTTQLAQYLY--EDGYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYSIRFED--------V 441 (1042)
T ss_pred cEEEEEecCCCCchhhhHHHHH--hcccccCCeeeecCchHHHHHHHHHHHHHHhCCccccccceEEEeee--------c
Confidence 8899999999999997332222 222223345666779999999999755 4565556655555443322 2
Q ss_pred CCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHH
Q 011104 220 PPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNF 299 (493)
Q Consensus 220 ~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~ 299 (493)
....+-|-++|.|.|++..-.+.. +.++++||+||||...-. .+.+..+++.+...+.+.++|++||||...-
T Consensus 442 T~~~T~IkymTDGiLLrEsL~d~~-L~kYSviImDEAHERslN---tDilfGllk~~larRrdlKliVtSATm~a~k--- 514 (1042)
T KOG0924|consen 442 TSEDTKIKYMTDGILLRESLKDRD-LDKYSVIIMDEAHERSLN---TDILFGLLKKVLARRRDLKLIVTSATMDAQK--- 514 (1042)
T ss_pred CCCceeEEEeccchHHHHHhhhhh-hhheeEEEechhhhcccc---hHHHHHHHHHHHHhhccceEEEeeccccHHH---
Confidence 223467999999999887666554 888999999999986643 5677888888877777999999999987332
Q ss_pred HHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHH-HHhcccCCcEEEEcCChhhHHHHHHHHHhC-----
Q 011104 300 VTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRI-FELGEKMGQTIIFVRTKNSASALHKALKDF----- 373 (493)
Q Consensus 300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~----- 373 (493)
+..|+++.....+....++ +...+...+-+...-..+.+.+ .......+.+|||.+.++.++-.+..++..
T Consensus 515 f~nfFgn~p~f~IpGRTyP---V~~~~~k~p~eDYVeaavkq~v~Ihl~~~~GdilIfmtGqediE~t~~~i~~~l~ql~ 591 (1042)
T KOG0924|consen 515 FSNFFGNCPQFTIPGRTYP---VEIMYTKTPVEDYVEAAVKQAVQIHLSGPPGDILIFMTGQEDIECTCDIIKEKLEQLD 591 (1042)
T ss_pred HHHHhCCCceeeecCCccc---eEEEeccCchHHHHHHHHhhheEeeccCCCCCEEEecCCCcchhHHHHHHHHHHHhhh
Confidence 4555555444444444433 3333333333222111222211 112234588999999999888777666532
Q ss_pred -----CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCC----------CCCC
Q 011104 374 -----GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKH----------LEPD 438 (493)
Q Consensus 374 -----~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~----------~~~s 438 (493)
++.++++++.|+..-+.++++.-..|..+++|||+++++.|.+|++.+||+.+........ .+.|
T Consensus 592 ~~~~~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS 671 (1042)
T KOG0924|consen 592 SAPTTDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPIS 671 (1042)
T ss_pred cCCCCceEEEeehhhCchhhhhhhcccCCCCceeEEEeccchhhceeecceEEEEecCceeeeecccccccceeEEEech
Confidence 6789999999999999999998899999999999999999999999999997755322211 2346
Q ss_pred cccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhCCCceeecCc
Q 011104 439 CEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTC 488 (493)
Q Consensus 439 ~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~ 488 (493)
-..--||.|||||.| +|.|+.+|+.. .+..++++..+++++--
T Consensus 672 ~AnA~QRaGRAGRt~-pG~cYRlYTe~------ay~~eml~stvPEIqRT 714 (1042)
T KOG0924|consen 672 QANADQRAGRAGRTG-PGTCYRLYTED------AYKNEMLPSTVPEIQRT 714 (1042)
T ss_pred hccchhhccccCCCC-Ccceeeehhhh------HHHhhcccCCCchhhhc
Confidence 666789999999996 99999999853 34566677766666543
No 101
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=99.96 E-value=3.9e-28 Score=246.39 Aligned_cols=323 Identities=18% Similarity=0.229 Sum_probs=233.7
Q ss_pred chHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHH-HHhcccCceee
Q 011104 125 SKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLR-KMGKHTGITSE 203 (493)
Q Consensus 125 ~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~-~~~~~~~~~~~ 203 (493)
+..+...+..+.+. +.+++.|.||+|||+...-.+|..........++++..|+|--|..+++++. +.+...+..++
T Consensus 175 ~~~r~~Il~~i~~~--qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~ER~~~~g~~VG 252 (924)
T KOG0920|consen 175 YKMRDTILDAIEEN--QVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKERGESLGEEVG 252 (924)
T ss_pred HHHHHHHHHHHHhC--ceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHHhccccCCeee
Confidence 34455666666666 8999999999999998777777765444477788888899999999998655 44555555555
Q ss_pred EeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCe
Q 011104 204 CAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHC 283 (493)
Q Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~ 283 (493)
+.+...+ .......+++||.|.|++.+..+. .+..+.+||+||+|...-...| +.-+++.+...+++.
T Consensus 253 Yqvrl~~--------~~s~~t~L~fcTtGvLLr~L~~~~-~l~~vthiivDEVHER~i~~Df---lLi~lk~lL~~~p~L 320 (924)
T KOG0920|consen 253 YQVRLES--------KRSRETRLLFCTTGVLLRRLQSDP-TLSGVTHIIVDEVHERSINTDF---LLILLKDLLPRNPDL 320 (924)
T ss_pred EEEeeec--------ccCCceeEEEecHHHHHHHhccCc-ccccCceeeeeeEEEccCCccc---HHHHHHHHhhhCCCc
Confidence 5544432 222346899999999999998855 4899999999999987665434 556667777777899
Q ss_pred eEEEEeeecChhHHHHHHHHhccCceeeeccccccccC----------------ceEEE-----------EeCCChHHHH
Q 011104 284 QVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLES----------------VKQYK-----------VYCPDELAKV 336 (493)
Q Consensus 284 q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~-----------~~~~~~~~~~ 336 (493)
++|+||||+.. +.+..++.....+.+.....++.. ..++. ..+.......
T Consensus 321 kvILMSAT~da---e~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~ 397 (924)
T KOG0920|consen 321 KVILMSATLDA---ELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEIDY 397 (924)
T ss_pred eEEEeeeecch---HHHHHHhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhccccccH
Confidence 99999999873 336666666666665443332210 01110 0000111222
Q ss_pred HHHHHHHHHhc--ccCCcEEEEcCChhhHHHHHHHHHhC-------CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEe
Q 011104 337 MVIRDRIFELG--EKMGQTIIFVRTKNSASALHKALKDF-------GYEVTTIMGATIQEERDKIVKEFKDGLTQVLIST 407 (493)
Q Consensus 337 ~~l~~~l~~~~--~~~~~~lVf~~s~~~~~~l~~~L~~~-------~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T 407 (493)
..+.+.+.... ...+.+|||.++..++..+++.|... .+-+.++|+.|+..++..++.....|..+|+++|
T Consensus 398 ~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~VF~~pp~g~RKIIlaT 477 (924)
T KOG0920|consen 398 DLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAVFKRPPKGTRKIILAT 477 (924)
T ss_pred HHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHhcCCCCCCcchhhhhh
Confidence 23333222222 34689999999999999999999642 3568899999999999999999999999999999
Q ss_pred CccccCCCCCCCCEEEEccCCCCC--------CC--CCCCCcccccccccccccCCCcceEEEEeeCC
Q 011104 408 DVLARGFDQQQVNLIVNYDPPVKH--------GK--HLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 408 ~~~~~Gldi~~v~~Vi~~~~p~~~--------~~--~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
++++.+|.|++|-+||+.+.-... .. ..+-|...-.||.|||||. +.|.||.+|+..
T Consensus 478 NIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGRv-~~G~cy~L~~~~ 544 (924)
T KOG0920|consen 478 NIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGRV-RPGICYHLYTRS 544 (924)
T ss_pred hhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccCc-cCCeeEEeechh
Confidence 999999999999999985543221 11 1245666778999999999 799999999854
No 102
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.96 E-value=4.5e-28 Score=248.59 Aligned_cols=325 Identities=15% Similarity=0.175 Sum_probs=233.8
Q ss_pred hCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 118 EMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 118 ~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.++|. +.++|++++-.+.+| ..|+++||||||||++..+++...+. .+.+++++.|.++|.+|.++.+....+.
T Consensus 115 ~~~F~-LD~fQ~~a~~~Ler~--esVlV~ApTssGKTvVaeyAi~~al~---~~qrviYTsPIKALsNQKyrdl~~~fgd 188 (1041)
T COG4581 115 EYPFE-LDPFQQEAIAILERG--ESVLVCAPTSSGKTVVAEYAIALALR---DGQRVIYTSPIKALSNQKYRDLLAKFGD 188 (1041)
T ss_pred hCCCC-cCHHHHHHHHHHhCC--CcEEEEccCCCCcchHHHHHHHHHHH---cCCceEeccchhhhhhhHHHHHHHHhhh
Confidence 37887 889999999999999 99999999999999998887776664 3446999999999999999987766554
Q ss_pred cCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhh
Q 011104 198 TGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIE 277 (493)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~ 277 (493)
..-.++.+.|.... ++++.++|+|.+.|..++..+...+..+..||+||+|.|.+ ..-.-.+..++..++
T Consensus 189 v~~~vGL~TGDv~I---------N~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D-~eRG~VWEE~Ii~lP 258 (1041)
T COG4581 189 VADMVGLMTGDVSI---------NPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGD-RERGVVWEEVIILLP 258 (1041)
T ss_pred hhhhccceecceee---------CCCCceEEeeHHHHHHHhccCcccccccceEEEEeeeeccc-cccchhHHHHHHhcC
Confidence 42222334444332 33578999999999999999877899999999999999987 345556677777776
Q ss_pred hcCCCeeEEEEeeecChhHH--HHHHHHhccCceeeeccccccccCceEEEEeCC------ChHH---------HHHH--
Q 011104 278 RSSGHCQVLLFSATFNETVK--NFVTRIVKDYNQLFVKKEELSLESVKQYKVYCP------DELA---------KVMV-- 338 (493)
Q Consensus 278 ~~~~~~q~v~~SAT~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~---------~~~~-- 338 (493)
. ..++++||||+++..+ .++...-..+.. +......+..+.+++..-. ++.. ....
T Consensus 259 ~---~v~~v~LSATv~N~~EF~~Wi~~~~~~~~~--vv~t~~RpvPL~~~~~~~~~l~~lvde~~~~~~~~~~~a~~~l~ 333 (1041)
T COG4581 259 D---HVRFVFLSATVPNAEEFAEWIQRVHSQPIH--VVSTEHRPVPLEHFVYVGKGLFDLVDEKKKFNAENFPSANRSLS 333 (1041)
T ss_pred C---CCcEEEEeCCCCCHHHHHHHHHhccCCCeE--EEeecCCCCCeEEEEecCCceeeeecccccchhhcchhhhhhhh
Confidence 6 7899999999986544 233322223322 2222333333333332210 0000 0000
Q ss_pred ------------------------------------HHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC---------
Q 011104 339 ------------------------------------IRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF--------- 373 (493)
Q Consensus 339 ------------------------------------l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~--------- 373 (493)
+...+. ..+.-++|+|+-++..|+..+..+...
T Consensus 334 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~iv~~l~--~~~~lP~I~F~FSr~~Ce~~a~~~~~ldl~~~~~~e 411 (1041)
T COG4581 334 CFSEKVRETDDGDVGRYARRTKALRGSAKGPAGRPEIVNKLD--KDNLLPAIVFSFSRRGCEEAAQILSTLDLVLTEEKE 411 (1041)
T ss_pred ccchhccccCccccccccccccccCCcccccccchHHHhhhh--hhcCCceEEEEEchhhHHHHHHHhcccccccCCcHH
Confidence 011000 112358999999999999997766521
Q ss_pred -------------------CC-------------cEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCE
Q 011104 374 -------------------GY-------------EVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNL 421 (493)
Q Consensus 374 -------------------~~-------------~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~ 421 (493)
++ -+.++|++|-+..+..+...|..|-++|+++|.+++.|+|+|.-+.
T Consensus 412 ~~i~~ii~~~i~~L~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT~s~GiNmPartv 491 (1041)
T COG4581 412 RAIREIIDHAIGDLAEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLVKVVFATETFAIGINMPARTV 491 (1041)
T ss_pred HHHHHHHHHHHhhcChhhhcCcccHHHHHHHHhhhhhhhccccchHHHHHHHHHHhccceeEEeehhhhhhhcCCcccce
Confidence 12 1458899999999999999999999999999999999999998777
Q ss_pred EEEccCCCCCCCCCCCCcccccccccccccCCC--cceEEEEeeCC
Q 011104 422 IVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGR--KGVVFNLLMDG 465 (493)
Q Consensus 422 Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~--~g~~i~l~~~~ 465 (493)
|+--=.-+.+..+.+-+...|.|+.||+||.|- .|.+|++-.+.
T Consensus 492 v~~~l~K~dG~~~r~L~~gEy~QmsGRAGRRGlD~~G~vI~~~~~~ 537 (1041)
T COG4581 492 VFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLDVLGTVIVIEPPF 537 (1041)
T ss_pred eeeeeEEecCCceeecChhHHHHhhhhhccccccccceEEEecCCC
Confidence 774333345556667789999999999999885 57777664433
No 103
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.96 E-value=2.5e-27 Score=239.63 Aligned_cols=324 Identities=16% Similarity=0.137 Sum_probs=224.6
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
+|.. |+++|-..--.+..| -|+.++||.|||+++.+|++.... .+..+.||+|++.||.|.++++..+...+
T Consensus 79 lgm~-~ydVQliGgl~L~~G----~IaEm~TGEGKTL~a~lp~~l~al---~g~~VhIvT~ndyLA~RD~e~m~~l~~~l 150 (908)
T PRK13107 79 FEMR-HFDVQLLGGMVLDSN----RIAEMRTGEGKTLTATLPAYLNAL---TGKGVHVITVNDYLARRDAENNRPLFEFL 150 (908)
T ss_pred hCCC-cCchHHhcchHhcCC----ccccccCCCCchHHHHHHHHHHHh---cCCCEEEEeCCHHHHHHHHHHHHHHHHhc
Confidence 5655 888887655554444 799999999999999999986654 34459999999999999999999999999
Q ss_pred CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-HHHHHcC-ccC-----CCCeeEEEEecchhhhcccC-------
Q 011104 199 GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-KKWMSAK-KLG-----FSRLKILVYDEADHMLDEAG------- 264 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~~-~~~-----~~~~~~iVlDEah~l~~~~~------- 264 (493)
|+++.+..++.... ..+....++|+++||+.| .++|..+ .+. ...+.++||||+|.++-+..
T Consensus 151 Glsv~~i~~~~~~~----~r~~~Y~~dI~YgT~~e~gfDyLrdnm~~~~~~~vqr~~~~aIvDEvDsiLiDEArtPLIIS 226 (908)
T PRK13107 151 GLTVGINVAGLGQQ----EKKAAYNADITYGTNNEFGFDYLRDNMAFSPQERVQRPLHYALIDEVDSILIDEARTPLIIS 226 (908)
T ss_pred CCeEEEecCCCCHH----HHHhcCCCCeEEeCCCcccchhhhccCccchhhhhccccceeeecchhhhccccCCCceeec
Confidence 99999987765432 233334689999999999 7877765 222 26788999999998653211
Q ss_pred --------CHHHHHHHHHHhhhcC----------------CCeeEE----------------------------------
Q 011104 265 --------FRDDSLRIMKDIERSS----------------GHCQVL---------------------------------- 286 (493)
Q Consensus 265 --------~~~~~~~i~~~~~~~~----------------~~~q~v---------------------------------- 286 (493)
+...+..++..+.... ...+.+
T Consensus 227 g~~~~~~~~y~~~~~~v~~L~~~~~~~~~~~~~~~dy~idek~~~v~LTe~G~~~~e~~l~~~~~~~~~~~l~~~~~~~~ 306 (908)
T PRK13107 227 GAAEDSSELYIKINTLIPNLIRQDKEDTEEYVGEGDYSIDEKAKQVHFTERGQEKVENLLIERGMLAEGDSLYSAANISL 306 (908)
T ss_pred CCCccchHHHHHHHHHHHHHHhhhhccccccCCCCCEEEecCCCeeeechHHHHHHHHHHHhCCcccCcccccCchhhHH
Confidence 1111122222222100 001111
Q ss_pred --------------------------------------------------------------------------------
Q 011104 287 -------------------------------------------------------------------------------- 286 (493)
Q Consensus 287 -------------------------------------------------------------------------------- 286 (493)
T Consensus 307 ~~~i~~aL~A~~lf~~d~dYiV~dg~V~IVDe~TGRim~grrwsdGLHQaIEaKE~v~I~~e~~t~AsIT~QnfFr~Y~k 386 (908)
T PRK13107 307 LHHVNAALRAHTLFEKDVDYIVQDNEVIIVDEHTGRTMPGRRWSEGLHQAVEAKEGVHIQNENQTLASITFQNYFRQYEK 386 (908)
T ss_pred HHHHHHHHHHHHHHhcCCceEEECCEEEEEECCCCCCCCCCccchHHHHHHHHhcCCCCCCCceeeeeehHHHHHHhhhH
Confidence
Q ss_pred --EEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHH
Q 011104 287 --LFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSAS 364 (493)
Q Consensus 287 --~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~ 364 (493)
+||+|......++..-+-. .++. .+...+.......-..+.....|...+.+.+......+.++||||+|++.++
T Consensus 387 L~GMTGTa~te~~Ef~~iY~l--~Vv~-IPTnkp~~R~d~~d~iy~t~~~K~~Aii~ei~~~~~~GrpVLV~t~sv~~se 463 (908)
T PRK13107 387 LAGMTGTADTEAFEFQHIYGL--DTVV-VPTNRPMVRKDMADLVYLTADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSE 463 (908)
T ss_pred hhcccCCChHHHHHHHHHhCC--CEEE-CCCCCCccceeCCCcEEeCHHHHHHHHHHHHHHHHHcCCCEEEEeCcHHHHH
Confidence 2222221111111111100 0000 0011111111111122344567888888888888888999999999999999
Q ss_pred HHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCC-------------------------
Q 011104 365 ALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQV------------------------- 419 (493)
Q Consensus 365 ~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v------------------------- 419 (493)
.++..|...++.+..+|+.+.+.++..+.+.|+.|. |+|||++++||.||.--
T Consensus 464 ~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G~--VtIATnmAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~ 541 (908)
T PRK13107 464 LLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTGA--VTIATNMAGRGTDIVLGGNWNMEIEALENPTAEQKAKIKADW 541 (908)
T ss_pred HHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCCc--EEEecCCcCCCcceecCCchHHhhhhhcchhhHHHHHHHHHH
Confidence 999999999999999999999999999999999998 99999999999998621
Q ss_pred ------------CEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCcc
Q 011104 420 ------------NLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDD 467 (493)
Q Consensus 420 ------------~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~ 467 (493)
-|||--..+ .|-.-=.|-.||+||.|.+|.+..|++-.|+
T Consensus 542 ~~~~~~V~~~GGL~VIgTerh--------eSrRID~QLrGRaGRQGDPGss~f~lSlED~ 593 (908)
T PRK13107 542 QIRHDEVVAAGGLHILGTERH--------ESRRIDNQLRGRAGRQGDAGSSRFYLSMEDS 593 (908)
T ss_pred HhhHHHHHHcCCCEEEecccC--------chHHHHhhhhcccccCCCCCceeEEEEeCcH
Confidence 246655444 5666668999999999999999988886654
No 104
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.95 E-value=9.8e-26 Score=199.74 Aligned_cols=314 Identities=16% Similarity=0.196 Sum_probs=209.8
Q ss_pred CCchHHHhhhhhhcCC--CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCc
Q 011104 123 KPSKIQAISLPMILTP--PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGI 200 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~--~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~ 200 (493)
++++.|+.+-..++.. +..+.+++|-||+|||-. +++.++... ..|.++.|.+|+...+..++..++..+...++
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al--~~G~~vciASPRvDVclEl~~Rlk~aF~~~~I 173 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQAL--NQGGRVCIASPRVDVCLELYPRLKQAFSNCDI 173 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHH--hcCCeEEEecCcccchHHHHHHHHHhhccCCe
Confidence 5889998776655432 238999999999999987 344443332 35778999999999999999999887765444
Q ss_pred eeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcC
Q 011104 201 TSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSS 280 (493)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~ 280 (493)
.++++...... ..+++|+|...|+++.+. ++++|+||+|..--. -...+...++...+
T Consensus 174 --~~Lyg~S~~~f---------r~plvVaTtHQLlrFk~a-------FD~liIDEVDAFP~~--~d~~L~~Av~~ark-- 231 (441)
T COG4098 174 --DLLYGDSDSYF---------RAPLVVATTHQLLRFKQA-------FDLLIIDEVDAFPFS--DDQSLQYAVKKARK-- 231 (441)
T ss_pred --eeEecCCchhc---------cccEEEEehHHHHHHHhh-------ccEEEEecccccccc--CCHHHHHHHHHhhc--
Confidence 45665543322 257999999998886543 789999999975431 11222222222221
Q ss_pred CCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHH------HHHHHHHHHhcccCCcEE
Q 011104 281 GHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKV------MVIRDRIFELGEKMGQTI 354 (493)
Q Consensus 281 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~l~~~l~~~~~~~~~~l 354 (493)
..--++++|||.++.+..-+..--. ..+.+....-...-....++++..-..++ ..+...+.+....+.+++
T Consensus 232 ~~g~~IylTATp~k~l~r~~~~g~~--~~~klp~RfH~~pLpvPkf~w~~~~~k~l~r~kl~~kl~~~lekq~~~~~P~l 309 (441)
T COG4098 232 KEGATIYLTATPTKKLERKILKGNL--RILKLPARFHGKPLPVPKFVWIGNWNKKLQRNKLPLKLKRWLEKQRKTGRPVL 309 (441)
T ss_pred ccCceEEEecCChHHHHHHhhhCCe--eEeecchhhcCCCCCCCceEEeccHHHHhhhccCCHHHHHHHHHHHhcCCcEE
Confidence 2456899999998777554433222 12222222111111112223333333332 135555666667788999
Q ss_pred EEcCChhhHHHHHHHHHh-CCC-cEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCC
Q 011104 355 IFVRTKNSASALHKALKD-FGY-EVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHG 432 (493)
Q Consensus 355 Vf~~s~~~~~~l~~~L~~-~~~-~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~ 432 (493)
||+++++..+.++..|+. .+. .+..+|+.. ..|.+..+.|++|+..+||+|.+++||+.+|+|+..+. +.-
T Consensus 310 iF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~d--~~R~EkV~~fR~G~~~lLiTTTILERGVTfp~vdV~Vl-gae---- 382 (441)
T COG4098 310 IFFPEIETMEQVAAALKKKLPKETIASVHSED--QHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFVL-GAE---- 382 (441)
T ss_pred EEecchHHHHHHHHHHHhhCCccceeeeeccC--ccHHHHHHHHHcCceEEEEEeehhhcccccccceEEEe-cCC----
Confidence 999999999999999954 333 557888865 67888999999999999999999999999999999663 222
Q ss_pred CCCCCCcccccccccccccCC-C-cceEEEEeeCCccHHHHH
Q 011104 433 KHLEPDCEVYLHRIGRAGRFG-R-KGVVFNLLMDGDDMIIME 472 (493)
Q Consensus 433 ~~~~~s~~~y~qr~GR~~R~g-~-~g~~i~l~~~~~~~~~~~ 472 (493)
+..-+.+.++|.+||+||.- + .|.++ |+..+-+..+.+
T Consensus 383 -h~vfTesaLVQIaGRvGRs~~~PtGdv~-FFH~G~skaM~~ 422 (441)
T COG4098 383 -HRVFTESALVQIAGRVGRSLERPTGDVL-FFHYGKSKAMKQ 422 (441)
T ss_pred -cccccHHHHHHHhhhccCCCcCCCCcEE-EEeccchHHHHH
Confidence 11146677999999999952 3 46655 665665544433
No 105
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.95 E-value=1.4e-26 Score=246.99 Aligned_cols=306 Identities=17% Similarity=0.210 Sum_probs=193.1
Q ss_pred CCchHHHhhhhhhc----CCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 123 KPSKIQAISLPMIL----TPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 123 ~~~~~Q~~~i~~il----~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
.+.++|..+|..+. .| ++.++++++||||||.+++ .++.++.......++|||+|+.+|+.|+...+..++...
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g-~r~~Ll~maTGSGKT~tai-~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~ 490 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEG-QREILLAMATGTGKTRTAI-ALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEG 490 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhc-cCCeEEEeCCCCCHHHHHH-HHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhccccc
Confidence 48999999998775 23 3789999999999998843 344444433445689999999999999999998874322
Q ss_pred CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC-----ccCCCCeeEEEEecchhhhc--------ccCC
Q 011104 199 GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK-----KLGFSRLKILVYDEADHMLD--------EAGF 265 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~-----~~~~~~~~~iVlDEah~l~~--------~~~~ 265 (493)
.......++..... .........|+|+|.+.|...+... ...+..+++||+||||+-.. +.+|
T Consensus 491 ~~~~~~i~~i~~L~----~~~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs~~~d~~~~~~~~~~ 566 (1123)
T PRK11448 491 DQTFASIYDIKGLE----DKFPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRGYTLDKEMSEGELQF 566 (1123)
T ss_pred ccchhhhhchhhhh----hhcccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCCCccccccccchhcc
Confidence 21111111100000 0111234689999999987765321 13467889999999998531 0111
Q ss_pred ------HHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeecc----ccccc--------------cC
Q 011104 266 ------RDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKK----EELSL--------------ES 321 (493)
Q Consensus 266 ------~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~----~~~~~--------------~~ 321 (493)
...+..++..+ +...|+||||+......++ ..|..-+.-. ..... .+
T Consensus 567 ~~~~~~~~~yr~iL~yF-----dA~~IGLTATP~r~t~~~F----G~pv~~Ysl~eAI~DG~Lv~~~~p~~i~t~~~~~g 637 (1123)
T PRK11448 567 RDQLDYVSKYRRVLDYF-----DAVKIGLTATPALHTTEIF----GEPVYTYSYREAVIDGYLIDHEPPIRIETRLSQEG 637 (1123)
T ss_pred chhhhHHHHHHHHHhhc-----CccEEEEecCCccchhHHh----CCeeEEeeHHHHHhcCCcccCcCCEEEEEEecccc
Confidence 23445555543 2367999999764332222 2221110000 00000 00
Q ss_pred c--------eEE--------EEeCCChH----H----------HHHHHHHHHHHhc--ccCCcEEEEcCChhhHHHHHHH
Q 011104 322 V--------KQY--------KVYCPDEL----A----------KVMVIRDRIFELG--EKMGQTIIFVRTKNSASALHKA 369 (493)
Q Consensus 322 ~--------~~~--------~~~~~~~~----~----------~~~~l~~~l~~~~--~~~~~~lVf~~s~~~~~~l~~~ 369 (493)
+ ..+ ....++.. . ....+...+.... ...+++||||.++.+|+.+++.
T Consensus 638 i~~~~~e~~~~~~~~~~~i~~~~l~d~~~~~~~~~~~~vi~~~~~~~i~~~l~~~l~~~~~~KtiIF~~s~~HA~~i~~~ 717 (1123)
T PRK11448 638 IHFEKGEEVEVINTQTGEIDLATLEDEVDFEVEDFNRRVITESFNRVVCEELAKYLDPTGEGKTLIFAATDAHADMVVRL 717 (1123)
T ss_pred ccccccchhhhcchhhhhhhhccCcHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCcEEEEEcCHHHHHHHHHH
Confidence 0 000 00001000 0 0011112122211 1247999999999999999988
Q ss_pred HHhC------C---CcEEEecCCCCHHHHHHHHHHHHcCCC-cEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCc
Q 011104 370 LKDF------G---YEVTTIMGATIQEERDKIVKEFKDGLT-QVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDC 439 (493)
Q Consensus 370 L~~~------~---~~~~~l~~~~~~~~r~~~~~~f~~g~~-~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~ 439 (493)
|.+. + ..+..++|+++ ++..++++|+++.. .|+|+++++.+|+|+|.+.+||++.++ .|.
T Consensus 718 L~~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p~IlVsvdmL~TG~DvP~v~~vVf~rpv--------kS~ 787 (1123)
T PRK11448 718 LKEAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKNERLPNIVVTVDLLTTGIDVPSICNLVFLRRV--------RSR 787 (1123)
T ss_pred HHHHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhCCCCCeEEEEecccccCCCcccccEEEEecCC--------CCH
Confidence 7653 2 24667899875 46789999999886 689999999999999999999999999 889
Q ss_pred ccccccccccccCC
Q 011104 440 EVYLHRIGRAGRFG 453 (493)
Q Consensus 440 ~~y~qr~GR~~R~g 453 (493)
..|.||+||+.|.-
T Consensus 788 ~lf~QmIGRgtR~~ 801 (1123)
T PRK11448 788 ILYEQMLGRATRLC 801 (1123)
T ss_pred HHHHHHHhhhccCC
Confidence 99999999999963
No 106
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=99.95 E-value=2.6e-26 Score=228.61 Aligned_cols=365 Identities=19% Similarity=0.199 Sum_probs=247.4
Q ss_pred CCCHHHHHHHHhhCCCCCCchHHHhhh--hhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 106 NLSPELLKGLYVEMKFQKPSKIQAISL--PMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 106 ~~~~~~~~~l~~~~g~~~~~~~Q~~~i--~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
.+++.+........|....+.||..++ |.++.+ +++|..+||+.|||+++.+-++..+.... ..++.+.|-...
T Consensus 206 ~~~~k~~~~~~~~kgi~~~fewq~ecls~~~~~e~--~nliys~Pts~gktlvaeilml~~~l~~r--r~~llilp~vsi 281 (1008)
T KOG0950|consen 206 RLPTKVSHLYAKDKGILKLFEWQAECLSLPRLLER--KNLIYSLPTSAGKTLVAEILMLREVLCRR--RNVLLILPYVSI 281 (1008)
T ss_pred cCchHHHHHHHHhhhHHHHHHHHHHHhcchhhhcc--cceEEeCCCccchHHHHHHHHHHHHHHHh--hceeEecceeeh
Confidence 345555555555579999999999877 667766 99999999999999999998888765433 357888898888
Q ss_pred HHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHc--CccCCCCeeEEEEecchhhhc
Q 011104 184 AIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSA--KKLGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 184 a~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~--~~~~~~~~~~iVlDEah~l~~ 261 (493)
+..-...+..+...+|+.+.+..|...... ......+.|||-++-..++.. ..-.+..+++||+||.|.+.+
T Consensus 282 v~Ek~~~l~~~~~~~G~~ve~y~g~~~p~~------~~k~~sv~i~tiEkanslin~lie~g~~~~~g~vvVdElhmi~d 355 (1008)
T KOG0950|consen 282 VQEKISALSPFSIDLGFPVEEYAGRFPPEK------RRKRESVAIATIEKANSLINSLIEQGRLDFLGMVVVDELHMIGD 355 (1008)
T ss_pred hHHHHhhhhhhccccCCcchhhcccCCCCC------cccceeeeeeehHhhHhHHHHHHhcCCccccCcEEEeeeeeeec
Confidence 888888888999999998887775443221 122357999999886554433 122466789999999999987
Q ss_pred ccCCHHHHHHHHHHhhhc--CCCeeEEEEeeecCh--hHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHH-
Q 011104 262 EAGFRDDSLRIMKDIERS--SGHCQVLLFSATFNE--TVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKV- 336 (493)
Q Consensus 262 ~~~~~~~~~~i~~~~~~~--~~~~q~v~~SAT~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 336 (493)
. +....+..++..+.-. ....|+|+||||+++ .+..++..+...-..-.+...+....+-. ++.-.....+
T Consensus 356 ~-~rg~~lE~~l~k~~y~~~~~~~~iIGMSATi~N~~lL~~~L~A~~y~t~fRPv~L~E~ik~G~~---i~~~~r~~~lr 431 (1008)
T KOG0950|consen 356 K-GRGAILELLLAKILYENLETSVQIIGMSATIPNNSLLQDWLDAFVYTTRFRPVPLKEYIKPGSL---IYESSRNKVLR 431 (1008)
T ss_pred c-ccchHHHHHHHHHHHhccccceeEeeeecccCChHHHHHHhhhhheecccCcccchhccCCCcc---cccchhhHHHH
Confidence 3 6666666666655322 223679999999984 33333333221111111111111100000 0000000000
Q ss_pred ---------------HHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC----------------------------
Q 011104 337 ---------------MVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF---------------------------- 373 (493)
Q Consensus 337 ---------------~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~---------------------------- 373 (493)
+.+.....+....+.++||||+++..|+.++..+...
T Consensus 432 ~ia~l~~~~~g~~dpD~~v~L~tet~~e~~~~lvfc~sk~~ce~~a~~~~~~vpk~~~~e~~~~~~~~~s~s~~lr~~~~ 511 (1008)
T KOG0950|consen 432 EIANLYSSNLGDEDPDHLVGLCTETAPEGSSVLVFCPSKKNCENVASLIAKKVPKHIKSEKRLGLWELLSISNLLRRIPG 511 (1008)
T ss_pred HhhhhhhhhcccCCCcceeeehhhhhhcCCeEEEEcCcccchHHHHHHHHHHhhHhhhhhhhhhHHHHHHHHhHhhcCCc
Confidence 1112222233333567999999999999987655321
Q ss_pred ----------CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCccccc
Q 011104 374 ----------GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYL 443 (493)
Q Consensus 374 ----------~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~ 443 (493)
...+..+|++++.++|..+...|++|...|++||+.++.|+++|..+++|- .|.-+... .+--+|.
T Consensus 512 ~ld~Vl~~ti~~GvAyHhaGLT~eER~~iE~afr~g~i~vl~aTSTlaaGVNLPArRVIir--aP~~g~~~--l~~~~Yk 587 (1008)
T KOG0950|consen 512 ILDPVLAKTIPYGVAYHHAGLTSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVIIR--APYVGREF--LTRLEYK 587 (1008)
T ss_pred ccchHHheeccccceecccccccchHHHHHHHHHhcCeEEEEecchhhccCcCCcceeEEe--CCccccch--hhhhhHH
Confidence 334788999999999999999999999999999999999999999888884 33322221 4567899
Q ss_pred ccccccccCCC--cceEEEEeeCCccHHHHHHHHHHhCCCceeecCccccc
Q 011104 444 HRIGRAGRFGR--KGVVFNLLMDGDDMIIMEKIERYFDIKVTEVQTCTCET 492 (493)
Q Consensus 444 qr~GR~~R~g~--~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~ 492 (493)
||+|||||+|- .|.+|+++...+... +.+.+..+++.+..+..+|
T Consensus 588 QM~GRAGR~gidT~GdsiLI~k~~e~~~----~~~lv~~~~~~~~S~l~~e 634 (1008)
T KOG0950|consen 588 QMVGRAGRTGIDTLGDSILIIKSSEKKR----VRELVNSPLKPLNSCLSNE 634 (1008)
T ss_pred hhhhhhhhcccccCcceEEEeeccchhH----HHHHHhccccccccccccc
Confidence 99999999874 689999998775433 2366777777777666443
No 107
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.94 E-value=1.3e-25 Score=233.55 Aligned_cols=327 Identities=17% Similarity=0.226 Sum_probs=222.2
Q ss_pred CCchHHHhhhhhhcCCC-Cc-cEEEeccCCCchhHHhHHHHHhccCC-CCCCCeEEEEcCCHHHHHHHHHHHHHHhcccC
Q 011104 123 KPSKIQAISLPMILTPP-YR-NLIAQARNGSGKTTCFVLGMLSRVDP-NLKAPQALCICPTRELAIQNLEVLRKMGKHTG 199 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~-~~-~viv~a~TGsGKT~~~~~~~l~~l~~-~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~ 199 (493)
.+.+.|..++..++... .. .+++.||||+|||.+.+.+++..+.. .....+++++.|++.+..++++.++.++...+
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 34889999998887653 24 78999999999999999999887765 44677999999999999999999998776554
Q ss_pred ceeeEeecCCCCCcccc------------cCCCCCCCcEEEeCchHHHHHHHcC-ccC-C--CCeeEEEEecchhhhccc
Q 011104 200 ITSECAVPTDSTNYVPI------------SKRPPVTAQVVIGTPGTIKKWMSAK-KLG-F--SRLKILVYDEADHMLDEA 263 (493)
Q Consensus 200 ~~~~~~~~~~~~~~~~~------------~~~~~~~~~Ilv~Tp~~l~~~l~~~-~~~-~--~~~~~iVlDEah~l~~~~ 263 (493)
+.....++......... .........+.++||-.+....... ... + -..+.+|+||+|.+-...
T Consensus 275 ~~~~~~h~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h~~~~~~ 354 (733)
T COG1203 275 VIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYADET 354 (733)
T ss_pred cccccccccccchhhhccccccceeEEecccccceeccccccCHhHhhhhhccccchHHHHHHHhhchhhccHHhhcccc
Confidence 43321122111111000 0011112345555555444321111 111 1 124689999999988742
Q ss_pred CCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccc---cCceE-EEEeCCChHHHHHHH
Q 011104 264 GFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSL---ESVKQ-YKVYCPDELAKVMVI 339 (493)
Q Consensus 264 ~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~l 339 (493)
....+..++..+... +..+|+||||+|+.+...+.........+......... ..+.+ .......... ...
T Consensus 355 -~~~~l~~~i~~l~~~--g~~ill~SATlP~~~~~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~--~~~ 429 (733)
T COG1203 355 -MLAALLALLEALAEA--GVPVLLMSATLPPFLKEKLKKALGKGREVVENAKFCPKEDEPGLKRKERVDVEDGPQ--EEL 429 (733)
T ss_pred -hHHHHHHHHHHHHhC--CCCEEEEecCCCHHHHHHHHHHHhcccceeccccccccccccccccccchhhhhhhh--Hhh
Confidence 444555555555543 56899999999999999888887766555443221100 00111 0011111100 122
Q ss_pred HHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHH----HcCCCcEEEEeCccccCCC
Q 011104 340 RDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEF----KDGLTQVLISTDVLARGFD 415 (493)
Q Consensus 340 ~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f----~~g~~~vLv~T~~~~~Gld 415 (493)
...+......+++++|.|||+..|..++..|+..+.+++.+||.+...+|.+.++.+ +.+...|+|||++++.|+|
T Consensus 430 ~~~~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagvD 509 (733)
T COG1203 430 IELISEEVKEGKKVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGVD 509 (733)
T ss_pred hhcchhhhccCCcEEEEEecHHHHHHHHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeEEEEEec
Confidence 233444556689999999999999999999999888899999999999999887754 4577889999999999999
Q ss_pred CCCCCEEEEccCCCCCCCCCCCCcccccccccccccCC--CcceEEEEeeCC
Q 011104 416 QQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFG--RKGVVFNLLMDG 465 (493)
Q Consensus 416 i~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g--~~g~~i~l~~~~ 465 (493)
+ +++++|-=-.| +++.+||+||++|.| ..|.++.+....
T Consensus 510 i-dfd~mITe~aP----------idSLIQR~GRv~R~g~~~~~~~~v~~~~~ 550 (733)
T COG1203 510 I-DFDVLITELAP----------IDSLIQRAGRVNRHGKKENGKIYVYNDEE 550 (733)
T ss_pred c-ccCeeeecCCC----------HHHHHHHHHHHhhcccccCCceeEeeccc
Confidence 9 59999865555 788999999999998 567777655443
No 108
>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=99.94 E-value=1.4e-26 Score=200.32 Aligned_cols=168 Identities=31% Similarity=0.446 Sum_probs=137.9
Q ss_pred chHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeE
Q 011104 125 SKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSEC 204 (493)
Q Consensus 125 ~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~ 204 (493)
||+|.++++.++.| +++++.||||+|||++|++++++.+... +..+++|++|+++|+.|+.+.+..++...+..+..
T Consensus 1 t~~Q~~~~~~i~~~--~~~li~aptGsGKT~~~~~~~l~~~~~~-~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~ 77 (169)
T PF00270_consen 1 TPLQQEAIEAIISG--KNVLISAPTGSGKTLAYILPALNRLQEG-KDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVL 77 (169)
T ss_dssp -HHHHHHHHHHHTT--SEEEEECSTTSSHHHHHHHHHHHHHHTT-SSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEE
T ss_pred CHHHHHHHHHHHcC--CCEEEECCCCCccHHHHHHHHHhhhccC-CCceEEEEeeccccccccccccccccccccccccc
Confidence 68999999999988 8999999999999999999999988766 55699999999999999999999998877777777
Q ss_pred eecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCee
Q 011104 205 AVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQ 284 (493)
Q Consensus 205 ~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q 284 (493)
.+++...... .......+++|+|+||++|.+++......+.++++||+||+|.+... .+...+..++..+.... +.|
T Consensus 78 ~~~~~~~~~~-~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~~-~~~~~~~~i~~~~~~~~-~~~ 154 (169)
T PF00270_consen 78 LHGGQSISED-QREVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSDE-TFRAMLKSILRRLKRFK-NIQ 154 (169)
T ss_dssp ESTTSCHHHH-HHHHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHHT-THHHHHHHHHHHSHTTT-TSE
T ss_pred cccccccccc-ccccccccccccccCcchhhccccccccccccceeeccCcccccccc-cHHHHHHHHHHHhcCCC-CCc
Confidence 7665542211 11111345899999999999999986667788999999999999985 77888888888875543 578
Q ss_pred EEEEeeecChhHHH
Q 011104 285 VLLFSATFNETVKN 298 (493)
Q Consensus 285 ~v~~SAT~~~~~~~ 298 (493)
++++|||+++.+++
T Consensus 155 ~i~~SAT~~~~~~~ 168 (169)
T PF00270_consen 155 IILLSATLPSNVEK 168 (169)
T ss_dssp EEEEESSSTHHHHH
T ss_pred EEEEeeCCChhHhh
Confidence 99999999966554
No 109
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.94 E-value=1e-25 Score=208.00 Aligned_cols=338 Identities=17% Similarity=0.220 Sum_probs=233.8
Q ss_pred CCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEE
Q 011104 98 SATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCI 177 (493)
Q Consensus 98 ~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil 177 (493)
..+.|...+.++...+-|++ ...-|---|+..+-.++.. ++.+++.|.||||||...--+.+....... ..+.+.
T Consensus 23 ~~Npf~~~p~s~rY~~ilk~--R~~LPvw~~k~~F~~~l~~-nQ~~v~vGetgsGKttQiPq~~~~~~~~~~--~~v~CT 97 (699)
T KOG0925|consen 23 AINPFNGKPYSQRYYDILKK--RRELPVWEQKEEFLKLLLN-NQIIVLVGETGSGKTTQIPQFVLEYELSHL--TGVACT 97 (699)
T ss_pred hcCCCCCCcCcHHHHHHHHH--HhcCchHHhHHHHHHHHhc-CceEEEEecCCCCccccCcHHHHHHHHhhc--cceeec
Confidence 36789999999998888875 3444555666666666554 389999999999999975444444433222 457777
Q ss_pred cCCHHHHHHHHHHHH-HHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecc
Q 011104 178 CPTRELAIQNLEVLR-KMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEA 256 (493)
Q Consensus 178 ~Pt~~La~q~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEa 256 (493)
.|+|..|.+++.... ++.-.+|-.+++.+. +.......+-+-+||.|+|++...++.+ +..+++||+|||
T Consensus 98 Qprrvaamsva~RVadEMDv~lG~EVGysIr--------fEdC~~~~T~Lky~tDgmLlrEams~p~-l~~y~viiLDea 168 (699)
T KOG0925|consen 98 QPRRVAAMSVAQRVADEMDVTLGEEVGYSIR--------FEDCTSPNTLLKYCTDGMLLREAMSDPL-LGRYGVIILDEA 168 (699)
T ss_pred CchHHHHHHHHHHHHHHhccccchhcccccc--------ccccCChhHHHHHhcchHHHHHHhhCcc-cccccEEEechh
Confidence 899999999887554 333333333333222 2223333445778999999998888776 889999999999
Q ss_pred hhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHH
Q 011104 257 DHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKV 336 (493)
Q Consensus 257 h~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (493)
|...-. .+.+..+++.+...+++.++|+||||+... .+..++.++..+.+.. . ..+..+|...+.. ..+
T Consensus 169 hERtlA---TDiLmGllk~v~~~rpdLk~vvmSatl~a~---Kfq~yf~n~Pll~vpg-~---~PvEi~Yt~e~er-Dyl 237 (699)
T KOG0925|consen 169 HERTLA---TDILMGLLKEVVRNRPDLKLVVMSATLDAE---KFQRYFGNAPLLAVPG-T---HPVEIFYTPEPER-DYL 237 (699)
T ss_pred hhhhHH---HHHHHHHHHHHHhhCCCceEEEeecccchH---HHHHHhCCCCeeecCC-C---CceEEEecCCCCh-hHH
Confidence 986542 567788888888888899999999997533 3566777776666654 1 1223333333322 222
Q ss_pred HHHHHHHH--HhcccCCcEEEEcCChhhHHHHHHHHHhC---------CCcEEEecCCCCHHHHHHHHHHHHc---C--C
Q 011104 337 MVIRDRIF--ELGEKMGQTIIFVRTKNSASALHKALKDF---------GYEVTTIMGATIQEERDKIVKEFKD---G--L 400 (493)
Q Consensus 337 ~~l~~~l~--~~~~~~~~~lVf~~s~~~~~~l~~~L~~~---------~~~~~~l~~~~~~~~r~~~~~~f~~---g--~ 400 (493)
...+..+. ...+..|.+|||..+.++++..|+.+... .+.|.++| +.++.++++.-.. | .
T Consensus 238 EaairtV~qih~~ee~GDilvFLtgeeeIe~aC~~i~re~~~L~~~~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~ 313 (699)
T KOG0925|consen 238 EAAIRTVLQIHMCEEPGDILVFLTGEEEIEDACRKISREVDNLGPQVGPLKVVPLY----PAQQQRIFEPAPEKRNGAYG 313 (699)
T ss_pred HHHHHHHHHHHhccCCCCEEEEecCHHHHHHHHHHHHHHHHhhccccCCceEEecC----chhhccccCCCCcccCCCcc
Confidence 22222222 23344789999999999999999988742 45788998 4445555443321 2 3
Q ss_pred CcEEEEeCccccCCCCCCCCEEEEccCCCCCCCC----------CCCCcccccccccccccCCCcceEEEEeeCC
Q 011104 401 TQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKH----------LEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 401 ~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~----------~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
.+|+|+|++++..+.++++.+||+-++......+ .+.|..+..||.||+||. ++|+|++||++.
T Consensus 314 RkvVvstniaetsltidgiv~VIDpGf~kqkVYNPRIRvesllv~PISkasA~qR~gragrt-~pGkcfrLYte~ 387 (699)
T KOG0925|consen 314 RKVVVSTNIAETSLTIDGIVFVIDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRT-RPGKCFRLYTEE 387 (699)
T ss_pred ceEEEEecchheeeeeccEEEEecCchhhhcccCcceeeeeeeeccchHhHHHHHhhhccCC-CCCceEEeecHH
Confidence 5799999999999999999999986655433221 245777789999999998 799999999854
No 110
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.94 E-value=1.3e-24 Score=227.54 Aligned_cols=321 Identities=18% Similarity=0.159 Sum_probs=209.4
Q ss_pred CCchHHHhhhhhhc----CCCCccEEEeccCCCchhHHhHHHHHhccC-CCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 123 KPSKIQAISLPMIL----TPPYRNLIAQARNGSGKTTCFVLGMLSRVD-PNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 123 ~~~~~Q~~~i~~il----~~~~~~viv~a~TGsGKT~~~~~~~l~~l~-~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.+.++|..++.+++ .| .+.|++..+|.|||+..+. ++..+. .......+|||||. .+..||.+.+.+|...
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g--~gGILADEMGLGKTlQaIa-lL~~L~~~~~~~gp~LIVvP~-SlL~nW~~Ei~kw~p~ 244 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENG--INGILADEMGLGKTLQTIS-LLGYLHEYRGITGPHMVVAPK-STLGNWMNEIRRFCPV 244 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcC--CCEEEEeCCCccHHHHHHH-HHHHHHHhcCCCCCEEEEeCh-HHHHHHHHHHHHHCCC
Confidence 57899999998875 34 7899999999999998543 333332 22234468999996 5668899999998754
Q ss_pred cCceeeEeecCCCCCccc-ccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHh
Q 011104 198 TGITSECAVPTDSTNYVP-ISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDI 276 (493)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~ 276 (493)
+.+...+|........ .........+|+|+|++.+..... .+.-..+++||+||||++.+. .......+..+
T Consensus 245 --l~v~~~~G~~~eR~~~~~~~~~~~~~dVvITSYe~l~~e~~--~L~k~~W~~VIvDEAHrIKN~---~Sklskalr~L 317 (1033)
T PLN03142 245 --LRAVKFHGNPEERAHQREELLVAGKFDVCVTSFEMAIKEKT--ALKRFSWRYIIIDEAHRIKNE---NSLLSKTMRLF 317 (1033)
T ss_pred --CceEEEeCCHHHHHHHHHHHhcccCCCcceecHHHHHHHHH--HhccCCCCEEEEcCccccCCH---HHHHHHHHHHh
Confidence 3333344432211110 011123457899999998865432 222335789999999998763 23344445554
Q ss_pred hhcCCCeeEEEEeeecCh-hHHHHHHHH-hccCcee----------------------------------ee-ccc-ccc
Q 011104 277 ERSSGHCQVLLFSATFNE-TVKNFVTRI-VKDYNQL----------------------------------FV-KKE-ELS 318 (493)
Q Consensus 277 ~~~~~~~q~v~~SAT~~~-~~~~~~~~~-~~~~~~~----------------------------------~~-~~~-~~~ 318 (493)
.. ...+++|||+-. .+.++...+ +-.|..+ .- ... ...
T Consensus 318 ~a----~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~~e~i~~L~~~L~pf~LRR~KsdV~~~ 393 (1033)
T PLN03142 318 ST----NYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQQEVVQQLHKVLRPFLLRRLKSDVEKG 393 (1033)
T ss_pred hc----CcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccchHHHHHHHHHHhhHHHhhhhHHHHhhh
Confidence 32 346899999521 111111100 0000000 00 000 000
Q ss_pred ccCceEEEEeCC--------------------------------------------------------------ChHHHH
Q 011104 319 LESVKQYKVYCP--------------------------------------------------------------DELAKV 336 (493)
Q Consensus 319 ~~~~~~~~~~~~--------------------------------------------------------------~~~~~~ 336 (493)
++......+.+. ....|+
T Consensus 394 LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~~g~~~~~LlnilmqLRk~cnHP~L~~~~ep~~~~~~~e~lie~SgKl 473 (1033)
T PLN03142 394 LPPKKETILKVGMSQMQKQYYKALLQKDLDVVNAGGERKRLLNIAMQLRKCCNHPYLFQGAEPGPPYTTGEHLVENSGKM 473 (1033)
T ss_pred CCCceeEEEeeCCCHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhCCHHhhhcccccCcccchhHHhhhhhHH
Confidence 001111111111 011233
Q ss_pred HHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcC---CCcEEEEeCccccC
Q 011104 337 MVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDG---LTQVLISTDVLARG 413 (493)
Q Consensus 337 ~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g---~~~vLv~T~~~~~G 413 (493)
..+..++......+.++|||++.......|.++|...++.++.+||+++..+|..+++.|+.. ...+|++|.+++.|
T Consensus 474 ~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlG 553 (1033)
T PLN03142 474 VLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLG 553 (1033)
T ss_pred HHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEeccccccC
Confidence 334444444555678999999999999999999999999999999999999999999999753 34578999999999
Q ss_pred CCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcce--EEEEeeCCc
Q 011104 414 FDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGV--VFNLLMDGD 466 (493)
Q Consensus 414 ldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~--~i~l~~~~~ 466 (493)
||+..+++||+||++ +++....|++||+.|.|+... ++.|++.+.
T Consensus 554 INLt~Ad~VIiyD~d--------WNP~~d~QAidRaHRIGQkk~V~VyRLIt~gT 600 (1033)
T PLN03142 554 INLATADIVILYDSD--------WNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYT 600 (1033)
T ss_pred CchhhCCEEEEeCCC--------CChHHHHHHHHHhhhcCCCceEEEEEEEeCCc
Confidence 999999999999999 456779999999999998764 566777654
No 111
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.92 E-value=6.5e-23 Score=205.62 Aligned_cols=289 Identities=21% Similarity=0.299 Sum_probs=197.8
Q ss_pred HhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 116 YVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 116 ~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
.+..|| .|...|+--...++.| ++.-+.||||.|||.--++..+... .++.++++|+||..|+.|+++.+.+++
T Consensus 76 ~k~~G~-~~ws~QR~WakR~~rg--~SFaiiAPTGvGKTTfg~~~sl~~a---~kgkr~yii~PT~~Lv~Q~~~kl~~~~ 149 (1187)
T COG1110 76 KKATGF-RPWSAQRVWAKRLVRG--KSFAIIAPTGVGKTTFGLLMSLYLA---KKGKRVYIIVPTTTLVRQVYERLKKFA 149 (1187)
T ss_pred HHhhCC-CchHHHHHHHHHHHcC--CceEEEcCCCCchhHHHHHHHHHHH---hcCCeEEEEecCHHHHHHHHHHHHHHH
Confidence 333466 6999999999999999 9999999999999975443333221 355789999999999999999999998
Q ss_pred cccC-ceeeEeecCC-CCC--cccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcc---------
Q 011104 196 KHTG-ITSECAVPTD-STN--YVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDE--------- 262 (493)
Q Consensus 196 ~~~~-~~~~~~~~~~-~~~--~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~--------- 262 (493)
...+ ..+...+.+. ... .....+..+++.+|+|+|.+.|...... +.--++++|++|.+|.++..
T Consensus 150 e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~--L~~~kFdfifVDDVDA~LkaskNvDriL~ 227 (1187)
T COG1110 150 EDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFEE--LSKLKFDFIFVDDVDAILKASKNVDRLLR 227 (1187)
T ss_pred hhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHHH--hcccCCCEEEEccHHHHHhccccHHHHHH
Confidence 7655 3333222221 111 2223344556789999998877665543 11236889999999976542
Q ss_pred -cCCHHHHH----H---HHHHhh---------------------hcCCCeeEEEEeeecChhH--HHHHHHHhccCceee
Q 011104 263 -AGFRDDSL----R---IMKDIE---------------------RSSGHCQVLLFSATFNETV--KNFVTRIVKDYNQLF 311 (493)
Q Consensus 263 -~~~~~~~~----~---i~~~~~---------------------~~~~~~q~v~~SAT~~~~~--~~~~~~~~~~~~~~~ 311 (493)
.||.+... . +-..+. .....-++++.|||..+.- ..+++.+++- .
T Consensus 228 LlGf~eE~i~~a~~~~~lr~~~~~~~~~~~~~e~~~~~e~~~~~~r~k~g~LvvsSATg~~rg~R~~LfReLlgF----e 303 (1187)
T COG1110 228 LLGFSEEVIESAYELIKLRRKLYGEKRAERVREELREVEREREKKRRKLGILVVSSATGKPRGSRLKLFRELLGF----E 303 (1187)
T ss_pred HcCCCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhccCCceEEEeeccCCCCCchHHHHHHHhCC----c
Confidence 34433211 0 101110 1112458999999986433 2334444332 2
Q ss_pred eccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCC---hhhHHHHHHHHHhCCCcEEEecCCCCHHH
Q 011104 312 VKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRT---KNSASALHKALKDFGYEVTTIMGATIQEE 388 (493)
Q Consensus 312 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s---~~~~~~l~~~L~~~~~~~~~l~~~~~~~~ 388 (493)
++.....+.++...|+.. ....+...++. .+ +...|||++. ++.++.++++|+..|+++..+|+.
T Consensus 304 vG~~~~~LRNIvD~y~~~-~~~e~~~elvk---~l---G~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~~~a~----- 371 (1187)
T COG1110 304 VGSGGEGLRNIVDIYVES-ESLEKVVELVK---KL---GDGGLIFVPIDYGREKAEELAEYLRSHGINAELIHAE----- 371 (1187)
T ss_pred cCccchhhhheeeeeccC-ccHHHHHHHHH---Hh---CCCeEEEEEcHHhHHHHHHHHHHHHhcCceEEEeecc-----
Confidence 233344455566655555 33333333332 22 4578999999 999999999999999999999994
Q ss_pred HHHHHHHHHcCCCcEEEEe----CccccCCCCCC-CCEEEEccCC
Q 011104 389 RDKIVKEFKDGLTQVLIST----DVLARGFDQQQ-VNLIVNYDPP 428 (493)
Q Consensus 389 r~~~~~~f~~g~~~vLv~T----~~~~~Gldi~~-v~~Vi~~~~p 428 (493)
....++.|..|++.+||.. .++-||||+|. ++++|+|+.|
T Consensus 372 ~~~~le~F~~GeidvLVGvAsyYG~lVRGlDLP~rirYaIF~GvP 416 (1187)
T COG1110 372 KEEALEDFEEGEVDVLVGVASYYGVLVRGLDLPHRIRYAVFYGVP 416 (1187)
T ss_pred chhhhhhhccCceeEEEEecccccceeecCCchhheeEEEEecCC
Confidence 3778999999999999875 67889999998 8999999999
No 112
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.91 E-value=4.3e-23 Score=207.87 Aligned_cols=329 Identities=21% Similarity=0.265 Sum_probs=219.5
Q ss_pred CCchHHHhhhhhhcCC--CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCc
Q 011104 123 KPSKIQAISLPMILTP--PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGI 200 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~--~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~ 200 (493)
.+++-|..++..+... .....++.|.||||||-+|+-.+-..+. .|.++||++|-..|..|+...++..++ ..+
T Consensus 198 ~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~---~GkqvLvLVPEI~Ltpq~~~rf~~rFg-~~v 273 (730)
T COG1198 198 ALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLA---QGKQVLVLVPEIALTPQLLARFKARFG-AKV 273 (730)
T ss_pred ccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHH---cCCEEEEEeccccchHHHHHHHHHHhC-CCh
Confidence 4677888888888654 2478999999999999999887777663 467899999999999999999987765 334
Q ss_pred eeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhc--ccCCHHHHHHHHHHhhh
Q 011104 201 TSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLD--EAGFRDDSLRIMKDIER 278 (493)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~--~~~~~~~~~~i~~~~~~ 278 (493)
.+.+.-...+.....+.+...+...|+|||=..+ ...+.++.+|||||-|.-.- ..+.+-+.+.+.-...
T Consensus 274 ~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAl-------F~Pf~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra- 345 (730)
T COG1198 274 AVLHSGLSPGERYRVWRRARRGEARVVIGTRSAL-------FLPFKNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRA- 345 (730)
T ss_pred hhhcccCChHHHHHHHHHHhcCCceEEEEechhh-------cCchhhccEEEEeccccccccCCcCCCcCHHHHHHHHH-
Confidence 3333333333344455556667899999994332 44689999999999997432 1122222333222221
Q ss_pred cCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHH-----HHHHHHHHHhcccCCcE
Q 011104 279 SSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKV-----MVIRDRIFELGEKMGQT 353 (493)
Q Consensus 279 ~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~l~~~l~~~~~~~~~~ 353 (493)
...++++|+-|||+ .++.+.......+..+................+....+.... ..+.+.+.+..+.+..+
T Consensus 346 ~~~~~pvvLgSATP--SLES~~~~~~g~y~~~~L~~R~~~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~~i~~~l~~geQ~ 423 (730)
T COG1198 346 KKENAPVVLGSATP--SLESYANAESGKYKLLRLTNRAGRARLPRVEIIDMRKEPLETGRSLSPALLEAIRKTLERGEQV 423 (730)
T ss_pred HHhCCCEEEecCCC--CHHHHHhhhcCceEEEEccccccccCCCcceEEeccccccccCccCCHHHHHHHHHHHhcCCeE
Confidence 22268999999995 455544444444555555444432222223333333222222 45666677788888999
Q ss_pred EEEcCChhhHHHH------------------------------------------------------------HHHHHhC
Q 011104 354 IIFVRTKNSASAL------------------------------------------------------------HKALKDF 373 (493)
Q Consensus 354 lVf~~s~~~~~~l------------------------------------------------------------~~~L~~~ 373 (493)
|+|.|.+..+-.+ .+.|...
T Consensus 424 llflnRRGys~~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~~G~GterieeeL~~~ 503 (730)
T COG1198 424 LLFLNRRGYAPLLLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELKRL 503 (730)
T ss_pred EEEEccCCccceeecccCCCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCCeeEEecccHHHHHHHHHHH
Confidence 9999987754333 3333333
Q ss_pred --CCcEEEecCCCCH--HHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCC--CCCCCCC--CCCccccccc
Q 011104 374 --GYEVTTIMGATIQ--EERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPP--VKHGKHL--EPDCEVYLHR 445 (493)
Q Consensus 374 --~~~~~~l~~~~~~--~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p--~~~~~~~--~~s~~~y~qr 445 (493)
+.++..+.++.+. ..-...+..|.+|+.+|||.|++++.|.|+|+++.|...+.- ....++. ++....+.|-
T Consensus 504 FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~Qv 583 (730)
T COG1198 504 FPGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQV 583 (730)
T ss_pred CCCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHH
Confidence 4567777777654 345688999999999999999999999999999996654433 2222221 2345556899
Q ss_pred ccccccCCCcceEEEEeeCC
Q 011104 446 IGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 446 ~GR~~R~g~~g~~i~l~~~~ 465 (493)
+||+||++.+|.++.-....
T Consensus 584 aGRAgR~~~~G~VvIQT~~P 603 (730)
T COG1198 584 AGRAGRAGKPGEVVIQTYNP 603 (730)
T ss_pred HhhhccCCCCCeEEEEeCCC
Confidence 99999999999887544433
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=99.91 E-value=5.6e-22 Score=201.88 Aligned_cols=124 Identities=23% Similarity=0.269 Sum_probs=112.6
Q ss_pred HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCcccc
Q 011104 333 LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLAR 412 (493)
Q Consensus 333 ~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~ 412 (493)
..++..+...+......+.++||||+++..++.+++.|...|+.+..+||++++.+|..++..|+.|.+.|||||+.+++
T Consensus 425 ~~qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t~~L~r 504 (655)
T TIGR00631 425 DGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLRE 504 (655)
T ss_pred cchHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcCCceEEEEcChhcC
Confidence 34555666667777777889999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCEEEEcc-----CCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCC
Q 011104 413 GFDQQQVNLIVNYD-----PPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 413 Gldi~~v~~Vi~~~-----~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
|+|+|++++||+++ .| .+..+|+||+||+||. ..|.+++|+...
T Consensus 505 GfDiP~v~lVvi~DadifG~p--------~~~~~~iqriGRagR~-~~G~vi~~~~~~ 553 (655)
T TIGR00631 505 GLDLPEVSLVAILDADKEGFL--------RSERSLIQTIGRAARN-VNGKVIMYADKI 553 (655)
T ss_pred CeeeCCCcEEEEeCcccccCC--------CCHHHHHHHhcCCCCC-CCCEEEEEEcCC
Confidence 99999999999988 56 7889999999999998 689999888754
No 114
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.91 E-value=4.8e-23 Score=209.55 Aligned_cols=127 Identities=20% Similarity=0.184 Sum_probs=112.9
Q ss_pred ChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCcc
Q 011104 331 DELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVL 410 (493)
Q Consensus 331 ~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~ 410 (493)
+...|...+.+.+......+.++||||+|++.++.++..|...++++..+|+ .+.+|+..+..|..+...|+|||+++
T Consensus 579 t~~eK~~Ali~~I~~~~~~grpVLIft~Sve~sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g~VtIATNMA 656 (1025)
T PRK12900 579 TRREKYNAIVLKVEELQKKGQPVLVGTASVEVSETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKGAVTIATNMA 656 (1025)
T ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEeCcHHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCCeEEEeccCc
Confidence 4456888888877777677899999999999999999999999999999997 68899999999999999999999999
Q ss_pred ccCCCCC---CCCE-----EEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCcc
Q 011104 411 ARGFDQQ---QVNL-----IVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDD 467 (493)
Q Consensus 411 ~~Gldi~---~v~~-----Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~ 467 (493)
+||+||+ +|.. ||++..| .|...|.||+|||||.|.+|.++.|++..++
T Consensus 657 GRGtDIkl~~~V~~vGGL~VIgterh--------es~Rid~Ql~GRtGRqGdpGsS~ffvSleD~ 713 (1025)
T PRK12900 657 GRGTDIKLGEGVRELGGLFILGSERH--------ESRRIDRQLRGRAGRQGDPGESVFYVSLEDE 713 (1025)
T ss_pred CCCCCcCCccchhhhCCceeeCCCCC--------chHHHHHHHhhhhhcCCCCcceEEEechhHH
Confidence 9999999 4543 4777777 7888899999999999999999999987654
No 115
>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=99.90 E-value=7.4e-22 Score=210.02 Aligned_cols=363 Identities=18% Similarity=0.163 Sum_probs=216.2
Q ss_pred CHHHHHHHHhhCCCCCCchHHHhhhh----hhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 108 SPELLKGLYVEMKFQKPSKIQAISLP----MILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 108 ~~~~~~~l~~~~g~~~~~~~Q~~~i~----~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
++...+.+.. .||. ++|.|.+.+. .+..| +++++.||||+|||++|++|++.... .+.+++|.+||++|
T Consensus 232 ~~~~~~~~~~-~~~~-~r~~Q~~~~~~i~~~~~~~--~~~~~eA~TG~GKT~ayLlp~~~~~~---~~~~vvi~t~t~~L 304 (850)
T TIGR01407 232 SSLFSKNIDR-LGLE-YRPEQLKLAELVLDQLTHS--EKSLIEAPTGTGKTLGYLLPALYYAI---TEKPVVISTNTKVL 304 (850)
T ss_pred cHHHHHhhhh-cCCc-cCHHHHHHHHHHHHHhccC--CcEEEECCCCCchhHHHHHHHHHHhc---CCCeEEEEeCcHHH
Confidence 3456666655 7887 7899998665 44455 89999999999999999999987765 34589999999999
Q ss_pred HHHHHH-HHHHHhcccC--ceeeEeecCCC------------------------------------CCcccc--------
Q 011104 184 AIQNLE-VLRKMGKHTG--ITSECAVPTDS------------------------------------TNYVPI-------- 216 (493)
Q Consensus 184 a~q~~~-~~~~~~~~~~--~~~~~~~~~~~------------------------------------~~~~~~-------- 216 (493)
..|+.. .+..+...++ +.+..+.|... ......
T Consensus 305 q~Ql~~~~~~~l~~~~~~~~~~~~~kG~~~ylcl~k~~~~l~~~~~~~~~~~~~~~~~~wl~~T~tGD~~el~~~~~~~~ 384 (850)
T TIGR01407 305 QSQLLEKDIPLLNEILNFKINAALIKGKSNYLSLGKFSQILKDNTDNYEFNIFKMQVLVWLTETETGDLDELNLKGGNKM 384 (850)
T ss_pred HHHHHHHHHHHHHHHcCCCceEEEEEcchhhccHHHHHHHHhcCCCcHHHHHHHHHHHHHhccCCccCHhhccCCCcchh
Confidence 999865 4444433322 22221111100 000000
Q ss_pred -------------------------cCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhccc------CC
Q 011104 217 -------------------------SKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEA------GF 265 (493)
Q Consensus 217 -------------------------~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~------~~ 265 (493)
.+.....++|+|+.+.-|...+......+....++|+||||++.+.. .+
T Consensus 385 ~~~~i~~~~~l~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~~~ilp~~~~lIiDEAH~L~d~a~~~~~~~l 464 (850)
T TIGR01407 385 FFAQVRHDGNLSKKDLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDNPELFPSFRDLIIDEAHHLPDIAENQLQEEL 464 (850)
T ss_pred hHHHhhcCCCCCCCCCCccccHHHHHHHHHhcCCEEEecHHHHHHHhhcccccCCCCCEEEEECcchHHHHHHHHhccee
Confidence 00011256899999998877765443335667899999999864200 00
Q ss_pred -----HHH----------------------------------------------------------------HHHHHHHh
Q 011104 266 -----RDD----------------------------------------------------------------SLRIMKDI 276 (493)
Q Consensus 266 -----~~~----------------------------------------------------------------~~~i~~~~ 276 (493)
... +...+..+
T Consensus 465 s~~~~~~~l~~l~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~~~~~~ 544 (850)
T TIGR01407 465 DYADIKYQIDLIGKGENEQLLKRIQQLEKQEILEKLFDFETKDILKDLQAILDKLNKLLQIFSELSHKTVDQLRKFDLAL 544 (850)
T ss_pred CHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence 000 00000000
Q ss_pred ---------------------hhc------------------------CCCeeEEEEeeecChh-HHHHHHHHhccCcee
Q 011104 277 ---------------------ERS------------------------SGHCQVLLFSATFNET-VKNFVTRIVKDYNQL 310 (493)
Q Consensus 277 ---------------------~~~------------------------~~~~q~v~~SAT~~~~-~~~~~~~~~~~~~~~ 310 (493)
... .....+|++|||++.. -..++...++-....
T Consensus 545 ~~~~~~l~~~~~~~~~~wi~~~~~~~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~SATL~~~~~~~~~~~~lGl~~~~ 624 (850)
T TIGR01407 545 KDDFKNIEQSLKEGHTSWISIENLQQKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESFPQLLGLTDVH 624 (850)
T ss_pred HHHHHHHHHHhccCCeEEEEecCCCCCceEEEEeeeCcHHHHHHHHHhccCCeEEEEecccccCCChHHHHHhcCCCccc
Confidence 000 0123678999999732 123333333322111
Q ss_pred eeccccccccCceEEEEeCC---------ChHHHHHHHHHHHHHhcc-cCCcEEEEcCChhhHHHHHHHHHh----CCCc
Q 011104 311 FVKKEELSLESVKQYKVYCP---------DELAKVMVIRDRIFELGE-KMGQTIIFVRTKNSASALHKALKD----FGYE 376 (493)
Q Consensus 311 ~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~l~~~l~~~~~-~~~~~lVf~~s~~~~~~l~~~L~~----~~~~ 376 (493)
.......+.....+..+.++ ........+...+..... ..+++|||++|....+.++..|.. .++.
T Consensus 625 ~~~~~~spf~~~~~~~l~v~~d~~~~~~~~~~~~~~~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~~~~~~ 704 (850)
T TIGR01407 625 FNTIEPTPLNYAENQRVLIPTDAPAIQNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELPEFEGYE 704 (850)
T ss_pred cceecCCCCCHHHcCEEEecCCCCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhccccCce
Confidence 11000111111112222211 112222333343444322 357899999999999999999975 2334
Q ss_pred EEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCC--EEEEccCCCCCCCC--------------------
Q 011104 377 VTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVN--LIVNYDPPVKHGKH-------------------- 434 (493)
Q Consensus 377 ~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~--~Vi~~~~p~~~~~~-------------------- 434 (493)
+.. .+.. ..|..+++.|++++..||++|+.+++|+|+|+.. +||...+|....+.
T Consensus 705 ~l~--q~~~-~~r~~ll~~F~~~~~~iLlgt~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~ 781 (850)
T TIGR01407 705 VLA--QGIN-GSRAKIKKRFNNGEKAILLGTSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYD 781 (850)
T ss_pred EEe--cCCC-ccHHHHHHHHHhCCCeEEEEcceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHH
Confidence 333 3333 5788999999999999999999999999999966 57888888643221
Q ss_pred --CCCCcccccccccccccCCCcceEEEEeeCC-ccHHHHHHHHHHhCC
Q 011104 435 --LEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG-DDMIIMEKIERYFDI 480 (493)
Q Consensus 435 --~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~-~~~~~~~~i~~~~~~ 480 (493)
++..+..+.|.+||.-|...+..++.++..+ ....|-+.+-+.++.
T Consensus 782 ~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ilD~R~~~~~Yg~~~~~sLp~ 830 (850)
T TIGR01407 782 YVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLPE 830 (850)
T ss_pred hhHHHHHHHHHHhhccccccCCceEEEEEEccccccchHHHHHHHhCCC
Confidence 0112344579999999987666566566443 145666777777765
No 116
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=99.90 E-value=1e-20 Score=184.98 Aligned_cols=332 Identities=17% Similarity=0.203 Sum_probs=219.5
Q ss_pred CCchHHHhhhhhhcCC--CCccEEEeccCCCchhHHhHHHHHhccCCC-CCCCeEEEEcCCHHHHHHHHHHHHHHhcccC
Q 011104 123 KPSKIQAISLPMILTP--PYRNLIAQARNGSGKTTCFVLGMLSRVDPN-LKAPQALCICPTRELAIQNLEVLRKMGKHTG 199 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~--~~~~viv~a~TGsGKT~~~~~~~l~~l~~~-~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~ 199 (493)
.+.++|+..+.++..= ++..-|+...+|-|||.+. +..|..+.+. .-...+|||||. .+..||...+..|.....
T Consensus 205 ~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQi-isFLaaL~~S~k~~~paLIVCP~-Tii~qW~~E~~~w~p~~r 282 (923)
T KOG0387|consen 205 KLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQI-ISFLAALHHSGKLTKPALIVCPA-TIIHQWMKEFQTWWPPFR 282 (923)
T ss_pred HhhHHHHHHHHHHHHHHhccCCCeecccccCccchhH-HHHHHHHhhcccccCceEEEccH-HHHHHHHHHHHHhCcceE
Confidence 4568999999888531 2256889999999999883 3444444433 333579999996 477899999999987644
Q ss_pred ceeeEeecCCCCCc-----------ccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHH
Q 011104 200 ITSECAVPTDSTNY-----------VPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDD 268 (493)
Q Consensus 200 ~~~~~~~~~~~~~~-----------~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~ 268 (493)
+..+++..+... ...........+|+|+|+..+.- ..+.+.-..++++|+||.|++-+. ...
T Consensus 283 --v~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~--~~d~l~~~~W~y~ILDEGH~IrNp---ns~ 355 (923)
T KOG0387|consen 283 --VFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRI--QGDDLLGILWDYVILDEGHRIRNP---NSK 355 (923)
T ss_pred --EEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhcc--cCcccccccccEEEecCcccccCC---ccH
Confidence 444444443211 00111223356799999887642 333444456889999999998763 233
Q ss_pred HHHHHHHhhhcCCCeeEEEEeeecC-hhHHHHHH----------------------------------------------
Q 011104 269 SLRIMKDIERSSGHCQVLLFSATFN-ETVKNFVT---------------------------------------------- 301 (493)
Q Consensus 269 ~~~i~~~~~~~~~~~q~v~~SAT~~-~~~~~~~~---------------------------------------------- 301 (493)
+...++.++ ..+.+++|+|+- +.+.+++.
T Consensus 356 islackki~----T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~ 431 (923)
T KOG0387|consen 356 ISLACKKIR----TVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVA 431 (923)
T ss_pred HHHHHHhcc----ccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhhhhhheeccccCCCCHHHHHHHHHHHHH
Confidence 333344443 356788888831 11111110
Q ss_pred -------------------------------------------HHhccCceeee-ccccccccCceEE------------
Q 011104 302 -------------------------------------------RIVKDYNQLFV-KKEELSLESVKQY------------ 325 (493)
Q Consensus 302 -------------------------------------------~~~~~~~~~~~-~~~~~~~~~~~~~------------ 325 (493)
.|+.......+ ......+.++...
T Consensus 432 Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v~~i~ng~~~~l~Gi~iLrkICnHPdll~~ 511 (923)
T KOG0387|consen 432 LRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEVNKILNGKRNCLSGIDILRKICNHPDLLDR 511 (923)
T ss_pred HHHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHHHHHHcCCccceechHHHHhhcCCcccccC
Confidence 00000000000 0000000000000
Q ss_pred ----------EEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHH-hCCCcEEEecCCCCHHHHHHHHH
Q 011104 326 ----------KVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALK-DFGYEVTTIMGATIQEERDKIVK 394 (493)
Q Consensus 326 ----------~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~-~~~~~~~~l~~~~~~~~r~~~~~ 394 (493)
+.-.+....|+..+..++......+.++|+|.+++.....+..+|. ..++.++.+.|..+...|..+++
T Consensus 512 ~~~~~~~~~D~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd 591 (923)
T KOG0387|consen 512 RDEDEKQGPDYEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVD 591 (923)
T ss_pred cccccccCCCcCCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHH
Confidence 0011123457777777777777778899999999999999999998 68999999999999999999999
Q ss_pred HHHcCCC--cEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcc--eEEEEeeCCc--cH
Q 011104 395 EFKDGLT--QVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKG--VVFNLLMDGD--DM 468 (493)
Q Consensus 395 ~f~~g~~--~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g--~~i~l~~~~~--~~ 468 (493)
+|+++.. -+|++|.+.+-|+|+.+++-||.||+-| ++++-.|..-|+.|.|+.. .+|.|++.+. +.
T Consensus 592 ~Fne~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdW--------NPStD~QAreRawRiGQkkdV~VYRL~t~gTIEEk 663 (923)
T KOG0387|consen 592 RFNEDESIFVFLLTTRVGGLGLNLTGANRVIIFDPDW--------NPSTDNQARERAWRIGQKKDVVVYRLMTAGTIEEK 663 (923)
T ss_pred hhcCCCceEEEEEEecccccccccccCceEEEECCCC--------CCccchHHHHHHHhhcCccceEEEEEecCCcHHHH
Confidence 9998764 3588999999999999999999999995 4566899999999999765 4667888764 45
Q ss_pred HHHHHHH
Q 011104 469 IIMEKIE 475 (493)
Q Consensus 469 ~~~~~i~ 475 (493)
.|.+.|.
T Consensus 664 iY~rQI~ 670 (923)
T KOG0387|consen 664 IYHRQIF 670 (923)
T ss_pred HHHHHHH
Confidence 5555543
No 117
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=99.89 E-value=7.7e-22 Score=191.85 Aligned_cols=323 Identities=19% Similarity=0.217 Sum_probs=218.0
Q ss_pred CCchHHHhhhhhhcC--CCCccEEEeccCCCchhHHhHHHHHhccCC-CCCCCeEEEEcCCHHHHHHHHHHHHHHhcccC
Q 011104 123 KPSKIQAISLPMILT--PPYRNLIAQARNGSGKTTCFVLGMLSRVDP-NLKAPQALCICPTRELAIQNLEVLRKMGKHTG 199 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~--~~~~~viv~a~TGsGKT~~~~~~~l~~l~~-~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~ 199 (493)
.+.++|-+.+.++.. .++-+.|+....|-|||++ .+.++.++.. ....+..||+||-..| ..|+..+++|...
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQ-tIs~l~yl~~~~~~~GPfLVi~P~StL-~NW~~Ef~rf~P~-- 242 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQ-TISLLGYLKGRKGIPGPFLVIAPKSTL-DNWMNEFKRFTPS-- 242 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHH-HHHHHHHHHHhcCCCCCeEEEeeHhhH-HHHHHHHHHhCCC--
Confidence 477889888887742 1227899999999999998 4555555543 2324467999998877 6678889999765
Q ss_pred ceeeEeecCCCCCccccc-CCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh
Q 011104 200 ITSECAVPTDSTNYVPIS-KRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER 278 (493)
Q Consensus 200 ~~~~~~~~~~~~~~~~~~-~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~ 278 (493)
+.+.+.+|....+..... .......+|+|+|++..+.- ...+.--.++++||||||++.+. ...+..+++.+..
T Consensus 243 l~~~~~~Gdk~eR~~~~r~~~~~~~fdV~iTsYEi~i~d--k~~lk~~~W~ylvIDEaHRiKN~---~s~L~~~lr~f~~ 317 (971)
T KOG0385|consen 243 LNVVVYHGDKEERAALRRDIMLPGRFDVCITSYEIAIKD--KSFLKKFNWRYLVIDEAHRIKNE---KSKLSKILREFKT 317 (971)
T ss_pred cceEEEeCCHHHHHHHHHHhhccCCCceEeehHHHHHhh--HHHHhcCCceEEEechhhhhcch---hhHHHHHHHHhcc
Confidence 555566666543322211 12333689999999987653 23333445789999999999874 2345556666543
Q ss_pred cCCCeeEEEEeeecCh-hHHHHH----------------------------------------HHHh------------c
Q 011104 279 SSGHCQVLLFSATFNE-TVKNFV----------------------------------------TRIV------------K 305 (493)
Q Consensus 279 ~~~~~q~v~~SAT~~~-~~~~~~----------------------------------------~~~~------------~ 305 (493)
.-.+++|+|+-. .+.+++ +.|+ .
T Consensus 318 ----~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v~~Lh~vL~pFlLRR~K~dVe~sLp 393 (971)
T KOG0385|consen 318 ----DNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELVSRLHKVLRPFLLRRIKSDVEKSLP 393 (971)
T ss_pred ----cceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccccCHHHHHHHHhhhhHHHHHHHHHhHhhcCC
Confidence 246888888310 000000 0000 0
Q ss_pred cC--ceeeeccc---------------------c----ccc--------cCceEEEEe--------------CCChHHHH
Q 011104 306 DY--NQLFVKKE---------------------E----LSL--------ESVKQYKVY--------------CPDELAKV 336 (493)
Q Consensus 306 ~~--~~~~~~~~---------------------~----~~~--------~~~~~~~~~--------------~~~~~~~~ 336 (493)
.. ..++++.. . ..+ ....|.|.+ .-....|+
T Consensus 394 pKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~~~k~kL~NI~mQLRKccnHPYLF~g~ePg~pyttdehLv~nSGKm 473 (971)
T KOG0385|consen 394 PKKELIIYVGMSSMQKKWYKAILMKDLDALNGEGKGEKTKLQNIMMQLRKCCNHPYLFDGAEPGPPYTTDEHLVTNSGKM 473 (971)
T ss_pred CcceeeEeccchHHHHHHHHHHHHhcchhhcccccchhhHHHHHHHHHHHhcCCccccCCCCCCCCCCcchHHHhcCcce
Confidence 00 00000000 0 000 000011110 00123566
Q ss_pred HHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCC---CcEEEEeCccccC
Q 011104 337 MVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGL---TQVLISTDVLARG 413 (493)
Q Consensus 337 ~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~---~~vLv~T~~~~~G 413 (493)
..|-.+|..+...+.++|||.+.-...+.|..++.-+++..+.+.|.++-++|...++.|+... .-+|++|.+.+.|
T Consensus 474 ~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLG 553 (971)
T KOG0385|consen 474 LVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLG 553 (971)
T ss_pred ehHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccc
Confidence 6666777778888999999999999999999999999999999999999999999999998654 3468999999999
Q ss_pred CCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcc--eEEEEeeCCc
Q 011104 414 FDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKG--VVFNLLMDGD 466 (493)
Q Consensus 414 ldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g--~~i~l~~~~~ 466 (493)
||+..++.||.||..|+ +..-+|..-||.|.|+.. .++.|++...
T Consensus 554 INL~aADtVIlyDSDWN--------PQ~DLQAmDRaHRIGQ~K~V~V~RLitent 600 (971)
T KOG0385|consen 554 INLTAADTVILYDSDWN--------PQVDLQAMDRAHRIGQKKPVVVYRLITENT 600 (971)
T ss_pred cccccccEEEEecCCCC--------chhhhHHHHHHHhhCCcCceEEEEEeccch
Confidence 99999999999999954 555889999999998765 5777887654
No 118
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.89 E-value=3.3e-21 Score=198.02 Aligned_cols=151 Identities=21% Similarity=0.218 Sum_probs=129.8
Q ss_pred HHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccC
Q 011104 334 AKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARG 413 (493)
Q Consensus 334 ~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~G 413 (493)
.+...+...+......+.++||||+++..++.++..|...|+.+..+||++++.+|..++..|+.|...|||||+++++|
T Consensus 430 ~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t~~L~rG 509 (652)
T PRK05298 430 GQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREG 509 (652)
T ss_pred ccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCCceEEEEeCHHhCC
Confidence 34556666676666668899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCC--------ccHHHHHHHHHHhCCCceee
Q 011104 414 FDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG--------DDMIIMEKIERYFDIKVTEV 485 (493)
Q Consensus 414 ldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~--------~~~~~~~~i~~~~~~~~~~~ 485 (493)
+|+|++++||+++.+..+- +.+..+|+||+||+||. ..|.|++|+... ++...++.|+..++.++..+
T Consensus 510 fdlp~v~lVii~d~eifG~---~~~~~~yiqr~GR~gR~-~~G~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ 585 (652)
T PRK05298 510 LDIPEVSLVAILDADKEGF---LRSERSLIQTIGRAARN-VNGKVILYADKITDSMQKAIDETERRREIQIAYNEEHGIT 585 (652)
T ss_pred ccccCCcEEEEeCCccccc---CCCHHHHHHHhccccCC-CCCEEEEEecCCCHHHHHHHHHHHHHHHHHHHhhhccCCC
Confidence 9999999999988643221 16788999999999996 789999998743 46677888899888888776
Q ss_pred cCc
Q 011104 486 QTC 488 (493)
Q Consensus 486 ~~~ 488 (493)
|-.
T Consensus 586 ~~~ 588 (652)
T PRK05298 586 PKT 588 (652)
T ss_pred Chh
Confidence 644
No 119
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.88 E-value=4e-21 Score=180.31 Aligned_cols=169 Identities=21% Similarity=0.207 Sum_probs=131.8
Q ss_pred CeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChh
Q 011104 282 HCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKN 361 (493)
Q Consensus 282 ~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~ 361 (493)
..|+|++|||+.+.-..... +......+.+... -...+.+.+....+..+...+......+.++||-+-|++
T Consensus 386 ~~q~i~VSATPg~~E~e~s~---~~vveQiIRPTGL-----lDP~ievRp~~~QvdDL~~EI~~r~~~~eRvLVTtLTKk 457 (663)
T COG0556 386 IPQTIYVSATPGDYELEQSG---GNVVEQIIRPTGL-----LDPEIEVRPTKGQVDDLLSEIRKRVAKNERVLVTTLTKK 457 (663)
T ss_pred cCCEEEEECCCChHHHHhcc---CceeEEeecCCCC-----CCCceeeecCCCcHHHHHHHHHHHHhcCCeEEEEeehHH
Confidence 35999999997643322111 1111112222111 111122223344566666777887777899999999999
Q ss_pred hHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCccc
Q 011104 362 SASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEV 441 (493)
Q Consensus 362 ~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~ 441 (493)
.|+.|.++|.+.|+++..+|++...-+|..++...+.|.+.|||.-+.+-.|||+|.|..|..+|....+-. +|-.+
T Consensus 458 mAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGINLLREGLDiPEVsLVAIlDADKeGFL---Rse~S 534 (663)
T COG0556 458 MAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEGFL---RSERS 534 (663)
T ss_pred HHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCCccEEEeehhhhccCCCcceeEEEEeecCccccc---cccch
Confidence 999999999999999999999999999999999999999999999999999999999999999998866655 78899
Q ss_pred ccccccccccCCCcceEEEEe
Q 011104 442 YLHRIGRAGRFGRKGVVFNLL 462 (493)
Q Consensus 442 y~qr~GR~~R~g~~g~~i~l~ 462 (493)
++|-+|||+|. ..|.+|.+.
T Consensus 535 LIQtIGRAARN-~~GkvIlYA 554 (663)
T COG0556 535 LIQTIGRAARN-VNGKVILYA 554 (663)
T ss_pred HHHHHHHHhhc-cCCeEEEEc
Confidence 99999999997 689999554
No 120
>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=99.87 E-value=1.2e-20 Score=194.58 Aligned_cols=304 Identities=16% Similarity=0.176 Sum_probs=175.5
Q ss_pred CchHHHhhhhhhcCC--------CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 124 PSKIQAISLPMILTP--------PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 124 ~~~~Q~~~i~~il~~--------~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
|.+.|..++..+... ..+..+++++||||||++.+..+...+ .....+++|||+|+.+|..|+.+.+..++
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~-~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKAL-ELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHH-hhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 677898888776321 136799999999999998655443333 34566799999999999999999999886
Q ss_pred cccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC--ccCCCC-eeEEEEecchhhhcccCCHHHHHHH
Q 011104 196 KHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK--KLGFSR-LKILVYDEADHMLDEAGFRDDSLRI 272 (493)
Q Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~--~~~~~~-~~~iVlDEah~l~~~~~~~~~~~~i 272 (493)
.... ....+... ...........|+|+|.+.|...+... ...... --+||+||||+... . .+...
T Consensus 318 ~~~~------~~~~s~~~-L~~~l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~----~-~~~~~ 385 (667)
T TIGR00348 318 KDCA------ERIESIAE-LKRLLEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQY----G-ELAKN 385 (667)
T ss_pred CCCC------cccCCHHH-HHHHHhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccc----h-HHHHH
Confidence 4211 00111000 000011123679999999998644321 111111 13899999998543 2 22333
Q ss_pred HHHhhhcCCCeeEEEEeeecChh----HHHHHHHHhccCceeeeccccccccCceEE-EEe------CCCh---------
Q 011104 273 MKDIERSSGHCQVLLFSATFNET----VKNFVTRIVKDYNQLFVKKEELSLESVKQY-KVY------CPDE--------- 332 (493)
Q Consensus 273 ~~~~~~~~~~~q~v~~SAT~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~------~~~~--------- 332 (493)
+.. ..++...++||||+-.. ...........+...+..........+..+ |.. ....
T Consensus 386 l~~---~~p~a~~lGfTaTP~~~~d~~t~~~f~~~fg~~i~~Y~~~~AI~dG~~~~i~Y~~~~~~~~~~~~~l~~~~~~~ 462 (667)
T TIGR00348 386 LKK---ALKNASFFGFTGTPIFKKDRDTSLTFAYVFGRYLHRYFITDAIRDGLTVKIDYEDRLPEDHLDRKKLDAFFDEI 462 (667)
T ss_pred HHh---hCCCCcEEEEeCCCcccccccccccccCCCCCeEEEeeHHHHhhcCCeeeEEEEecchhhccChHHHHHHHHHH
Confidence 322 22356899999997421 111111001111111110000000000000 000 0000
Q ss_pred ----------H-----------------------HHHHHHHHHHHHhc-ccCCcEEEEcCChhhHHHHHHHHHhC-----
Q 011104 333 ----------L-----------------------AKVMVIRDRIFELG-EKMGQTIIFVRTKNSASALHKALKDF----- 373 (493)
Q Consensus 333 ----------~-----------------------~~~~~l~~~l~~~~-~~~~~~lVf~~s~~~~~~l~~~L~~~----- 373 (493)
. .....+.+.+.... ...++++|||.++.+|..+++.|.+.
T Consensus 463 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ia~~i~~h~~~~~~~~~~kamvv~~sr~~a~~~~~~l~~~~~~~~ 542 (667)
T TIGR00348 463 FELLPERIREITKESLKEKLQKTKKILFNEDRLESIAKDIAEHYAKFKELFKFKAMVVAISRYACVEEKNALDEELNEKF 542 (667)
T ss_pred HHhhhccccHHHHHHHHHHHHHHHhhhcChHHHHHHHHHHHHHHHHhhhcccCceeEEEecHHHHHHHHHHHHhhccccc
Confidence 0 00000111111111 12489999999999999999998664
Q ss_pred CCcEEEecCCCCHH---------------------HHHHHHHHHHc-CCCcEEEEeCccccCCCCCCCCEEEEccCCCCC
Q 011104 374 GYEVTTIMGATIQE---------------------ERDKIVKEFKD-GLTQVLISTDVLARGFDQQQVNLIVNYDPPVKH 431 (493)
Q Consensus 374 ~~~~~~l~~~~~~~---------------------~r~~~~~~f~~-g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~ 431 (493)
+..+..+++..... ....++++|+. +..+|||+++++.+|+|.|.+.+++. +.|.
T Consensus 543 ~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~~~ilIVvdmllTGFDaP~l~tLyl-dKpl-- 619 (667)
T TIGR00348 543 EASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEENPKLLIVVDMLLTGFDAPILNTLYL-DKPL-- 619 (667)
T ss_pred CCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCCceEEEEEcccccccCCCccceEEE-eccc--
Confidence 24455666654322 12468888975 67899999999999999999999995 4553
Q ss_pred CCCCCCCcccccccccccccC
Q 011104 432 GKHLEPDCEVYLHRIGRAGRF 452 (493)
Q Consensus 432 ~~~~~~s~~~y~qr~GR~~R~ 452 (493)
.+ ..++|.+||+.|.
T Consensus 620 -----k~-h~LlQai~R~nR~ 634 (667)
T TIGR00348 620 -----KY-HGLLQAIARTNRI 634 (667)
T ss_pred -----cc-cHHHHHHHHhccc
Confidence 32 3489999999993
No 121
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.87 E-value=2.6e-20 Score=184.70 Aligned_cols=325 Identities=16% Similarity=0.162 Sum_probs=215.5
Q ss_pred hhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 117 VEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 117 ~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
..+|+. |+++|-.+.-.++.| -|+...||+|||+++.+|++... ..+..+-|++|+.-||.|-++++..+..
T Consensus 73 R~lg~r-~ydvQlig~l~Ll~G----~VaEM~TGEGKTLvA~l~a~l~A---L~G~~VhvvT~NdyLA~RDae~m~~ly~ 144 (764)
T PRK12326 73 RTLGLR-PFDVQLLGALRLLAG----DVIEMATGEGKTLAGAIAAAGYA---LQGRRVHVITVNDYLARRDAEWMGPLYE 144 (764)
T ss_pred HHcCCC-cchHHHHHHHHHhCC----CcccccCCCCHHHHHHHHHHHHH---HcCCCeEEEcCCHHHHHHHHHHHHHHHH
Confidence 335665 999999999888887 47799999999999988887554 3566799999999999999999999999
Q ss_pred ccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-----HHHHHc--CccCCCCeeEEEEecchhhhcccC-----
Q 011104 197 HTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-----KKWMSA--KKLGFSRLKILVYDEADHMLDEAG----- 264 (493)
Q Consensus 197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-----~~~l~~--~~~~~~~~~~iVlDEah~l~~~~~----- 264 (493)
.+|+++.++.+...... ++....++|+++|..-| .+.+.. .......+.+.||||+|.++-+..
T Consensus 145 ~LGLsvg~i~~~~~~~e----rr~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~R~~~faIVDEvDSiLIDeArtPLi 220 (764)
T PRK12326 145 ALGLTVGWITEESTPEE----RRAAYACDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEADSVLVDEALVPLV 220 (764)
T ss_pred hcCCEEEEECCCCCHHH----HHHHHcCCCEEcCCcccccccchhhhccChHhhcCCccceeeecchhhheeccccCcee
Confidence 99999998876543322 22223589999998765 222211 122345688999999997542100
Q ss_pred ---------CHHHHHHHHHHhhhcC-----CCe-----------------------------------------------
Q 011104 265 ---------FRDDSLRIMKDIERSS-----GHC----------------------------------------------- 283 (493)
Q Consensus 265 ---------~~~~~~~i~~~~~~~~-----~~~----------------------------------------------- 283 (493)
....+..+...+.... ...
T Consensus 221 ISg~~~~~~~y~~~~~~v~~L~~~~dy~ide~~k~v~LTe~G~~~~e~~l~~~~ly~~~~~~~~~~~i~~AL~A~~l~~~ 300 (764)
T PRK12326 221 LAGSTPGEAPRGEIAELVRRLREGKDYEIDDDGRNVHLTDKGARKVEKALGGIDLYSEEHVGTTLTQVNVALHAHALLQR 300 (764)
T ss_pred eeCCCcchhHHHHHHHHHHhcCcCCcEEEEcCCCeeEecHHHHHHHHHHcCCccccCcchhHHHHHHHHHHHHHHHHHhc
Confidence 1111122222221100 000
Q ss_pred ---------------------------------------------------------------eEEEEeeecChhHHHHH
Q 011104 284 ---------------------------------------------------------------QVLLFSATFNETVKNFV 300 (493)
Q Consensus 284 ---------------------------------------------------------------q~v~~SAT~~~~~~~~~ 300 (493)
++.+||+|......++.
T Consensus 301 d~dYiV~dgeV~iVDe~TGRvm~grrwsdGLHQaIEaKE~v~i~~e~~t~AsIT~QnfFr~Y~kLsGMTGTa~t~~~Ef~ 380 (764)
T PRK12326 301 DVHYIVRDGKVHLINASRGRIAQLQRWPDGLQAAVEAKEGLETTETGEVLDTITVQALIGRYPTVCGMTGTAVAAGEQLR 380 (764)
T ss_pred CCcEEEECCEEEEEECCCCCcCCCCccChHHHHHHHHHcCCCCCCCceeeehhhHHHHHHhcchheeecCCChhHHHHHH
Confidence 23344444433332222
Q ss_pred HHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEe
Q 011104 301 TRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTI 380 (493)
Q Consensus 301 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l 380 (493)
.-+ +-. .+.+ +...+................|...+.+.+......+.|+||.+.|++..+.++..|.+.|++...|
T Consensus 381 ~iY-~l~-Vv~I-Ptnkp~~R~d~~d~iy~t~~~k~~Aii~ei~~~~~~GrPVLVgt~sI~~SE~ls~~L~~~gI~h~vL 457 (764)
T PRK12326 381 QFY-DLG-VSVI-PPNKPNIREDEADRVYATAAEKNDAIVEHIAEVHETGQPVLVGTHDVAESEELAERLRAAGVPAVVL 457 (764)
T ss_pred HHh-CCc-EEEC-CCCCCceeecCCCceEeCHHHHHHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHhCCCcceee
Confidence 211 111 1111 1111111111111233345678888888888888889999999999999999999999999999999
Q ss_pred cCCCCHHHHHHHHHHHHcCC-CcEEEEeCccccCCCCCC---------------CCEEEEccCCCCCCCCCCCCcccccc
Q 011104 381 MGATIQEERDKIVKEFKDGL-TQVLISTDVLARGFDQQQ---------------VNLIVNYDPPVKHGKHLEPDCEVYLH 444 (493)
Q Consensus 381 ~~~~~~~~r~~~~~~f~~g~-~~vLv~T~~~~~Gldi~~---------------v~~Vi~~~~p~~~~~~~~~s~~~y~q 444 (493)
++.-...+ ..++. ..|. -.|.|||++++||-||.- =-|||-...+ .|-.--.|
T Consensus 458 NAk~~~~E-A~IIa--~AG~~gaVTIATNMAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerh--------eSrRID~Q 526 (764)
T PRK12326 458 NAKNDAEE-ARIIA--EAGKYGAVTVSTQMAGRGTDIRLGGSDEADRDRVAELGGLHVIGTGRH--------RSERLDNQ 526 (764)
T ss_pred ccCchHhH-HHHHH--hcCCCCcEEEEecCCCCccCeecCCCcccchHHHHHcCCcEEEeccCC--------chHHHHHH
Confidence 98744332 22332 3443 358999999999999862 2357766666 67777789
Q ss_pred cccccccCCCcceEEEEeeCCcc
Q 011104 445 RIGRAGRFGRKGVVFNLLMDGDD 467 (493)
Q Consensus 445 r~GR~~R~g~~g~~i~l~~~~~~ 467 (493)
-.||+||.|.+|.+..|++-.|+
T Consensus 527 LrGRaGRQGDpGss~f~lSleDd 549 (764)
T PRK12326 527 LRGRAGRQGDPGSSVFFVSLEDD 549 (764)
T ss_pred HhcccccCCCCCceeEEEEcchh
Confidence 99999999999999988876554
No 122
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.86 E-value=2.2e-20 Score=184.89 Aligned_cols=295 Identities=17% Similarity=0.244 Sum_probs=191.9
Q ss_pred CCCchHHHhhhhhh----cCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 122 QKPSKIQAISLPMI----LTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 122 ~~~~~~Q~~~i~~i----l~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
..|..+|..||..+ -.|. +.+++++.||+|||..+ +.++.+|.......++|+|+-+++|..|.+..+..+...
T Consensus 164 i~~RyyQ~~AI~rv~Eaf~~g~-~raLlvMATGTGKTrTA-iaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~ 241 (875)
T COG4096 164 IGPRYYQIIAIRRVIEAFSKGQ-NRALLVMATGTGKTRTA-IAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPF 241 (875)
T ss_pred ccchHHHHHHHHHHHHHHhcCC-ceEEEEEecCCCcceeH-HHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCC
Confidence 35788999888665 3454 56999999999999985 556666665566779999999999999999888887654
Q ss_pred cCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC-----ccCCCCeeEEEEecchhhhcccCCHHHHHHH
Q 011104 198 TGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK-----KLGFSRLKILVYDEADHMLDEAGFRDDSLRI 272 (493)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~-----~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i 272 (493)
... +..+.+. .....++|.|+|..++...+... .+....+++||+||||+-. ......|
T Consensus 242 ~~~-~n~i~~~----------~~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRgi-----~~~~~~I 305 (875)
T COG4096 242 GTK-MNKIEDK----------KGDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRGI-----YSEWSSI 305 (875)
T ss_pred ccc-eeeeecc----------cCCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhhH-----HhhhHHH
Confidence 221 1111111 11124789999999998877554 2344569999999999743 3445577
Q ss_pred HHHhhhcCCCeeEEEEeeecChhHHHHHHHHh-cc------------------Cceeeecc----ccccccCc-------
Q 011104 273 MKDIERSSGHCQVLLFSATFNETVKNFVTRIV-KD------------------YNQLFVKK----EELSLESV------- 322 (493)
Q Consensus 273 ~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~-~~------------------~~~~~~~~----~~~~~~~~------- 322 (493)
+..+.. -++++|||+.......--.++ .. |..+.+.. ....+...
T Consensus 306 ~dYFdA-----~~~gLTATP~~~~d~~T~~~F~g~Pt~~YsleeAV~DGfLvpy~vi~i~~~~~~~G~~~~~~serek~~ 380 (875)
T COG4096 306 LDYFDA-----ATQGLTATPKETIDRSTYGFFNGEPTYAYSLEEAVEDGFLVPYKVIRIDTDFDLDGWKPDAGSEREKLQ 380 (875)
T ss_pred HHHHHH-----HHHhhccCcccccccccccccCCCcceeecHHHHhhccccCCCCceEEeeeccccCcCcCccchhhhhh
Confidence 777765 245559997653322222222 22 22222111 00000000
Q ss_pred ------e-EE--------EEeCCChHHHHHHHHHHHHHhccc------CCcEEEEcCChhhHHHHHHHHHhC-----CCc
Q 011104 323 ------K-QY--------KVYCPDELAKVMVIRDRIFELGEK------MGQTIIFVRTKNSASALHKALKDF-----GYE 376 (493)
Q Consensus 323 ------~-~~--------~~~~~~~~~~~~~l~~~l~~~~~~------~~~~lVf~~s~~~~~~l~~~L~~~-----~~~ 376 (493)
. +. ...++.... .+...+...+.. .+++||||.+..+|+.+...|.+. +--
T Consensus 381 g~~i~~dd~~~~~~d~dr~~v~~~~~~---~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~ 457 (875)
T COG4096 381 GEAIDEDDQNFEARDFDRTLVIPFRTE---TVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYNGRY 457 (875)
T ss_pred ccccCcccccccccccchhccccchHH---HHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCccccCce
Confidence 0 00 001111111 122223333322 579999999999999999999865 345
Q ss_pred EEEecCCCCHHHHHHHHHHHHc--CCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccC
Q 011104 377 VTTIMGATIQEERDKIVKEFKD--GLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRF 452 (493)
Q Consensus 377 ~~~l~~~~~~~~r~~~~~~f~~--g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~ 452 (493)
+..+.|+-.+. ...+..|.. .-..|.|+.+++.+|+|+|.|..++.+..- .|..-|-||+||+-|.
T Consensus 458 a~~IT~d~~~~--q~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF~r~V--------rSktkF~QMvGRGTRl 525 (875)
T COG4096 458 AMKITGDAEQA--QALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFDRKV--------RSKTKFKQMVGRGTRL 525 (875)
T ss_pred EEEEeccchhh--HHHHHHHHhcCCCCceEEehhhhhcCCCchheeeeeehhhh--------hhHHHHHHHhcCcccc
Confidence 77777775433 344555654 335688999999999999999999987766 7889999999999994
No 123
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.85 E-value=9.6e-20 Score=185.12 Aligned_cols=325 Identities=18% Similarity=0.168 Sum_probs=209.8
Q ss_pred hCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 118 EMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 118 ~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.+|. .|+++|-..--.+..| -|..+.||+|||+++.+|++... ..+..+-|++|+.-||.|-++++..+...
T Consensus 78 ~lGm-~~ydVQliGg~~Lh~G----~iaEM~TGEGKTLvA~l~a~l~a---l~G~~VhvvT~ndyLA~RD~e~m~~l~~~ 149 (913)
T PRK13103 78 VMGM-RHFDVQLIGGMTLHEG----KIAEMRTGEGKTLVGTLAVYLNA---LSGKGVHVVTVNDYLARRDANWMRPLYEF 149 (913)
T ss_pred HhCC-CcchhHHHhhhHhccC----ccccccCCCCChHHHHHHHHHHH---HcCCCEEEEeCCHHHHHHHHHHHHHHhcc
Confidence 3564 4889998665555444 78999999999999999887544 35668999999999999999999999999
Q ss_pred cCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-HHHHHcC------ccCCCCeeEEEEecchhhhcccC------
Q 011104 198 TGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-KKWMSAK------KLGFSRLKILVYDEADHMLDEAG------ 264 (493)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~~------~~~~~~~~~iVlDEah~l~~~~~------ 264 (493)
+|+.+.++.+......... ...++|+++|..-| .+.|+.+ ......+.++||||+|.++-+..
T Consensus 150 lGl~v~~i~~~~~~~err~----~Y~~dI~YGT~~e~gFDYLrD~~~~~~~~~vqr~l~~aIVDEvDsiLIDEArtPLII 225 (913)
T PRK13103 150 LGLSVGIVTPFQPPEEKRA----AYAADITYGTNNEFGFDYLRDNMAFSLDDKFQRELNFAVIDEVDSILIDEARTPLII 225 (913)
T ss_pred cCCEEEEECCCCCHHHHHH----HhcCCEEEEcccccccchhhccceechhhhcccccceeEechhhheeccccCCceee
Confidence 9999998876554332222 22389999999876 2323221 11247889999999998642100
Q ss_pred ---------CHHHHHHHHHHhhhc----------------CCCe------------------------------------
Q 011104 265 ---------FRDDSLRIMKDIERS----------------SGHC------------------------------------ 283 (493)
Q Consensus 265 ---------~~~~~~~i~~~~~~~----------------~~~~------------------------------------ 283 (493)
....+..++..+... ....
T Consensus 226 Sg~~~~~~~~y~~~~~~v~~L~~~~~~~~~~~~~~~~y~idek~~~v~LTe~G~~~~e~~~~~~~i~~~~~~ly~~~~~~ 305 (913)
T PRK13103 226 SGQAEDSSKLYIEINRLIPRLKQHIEEVEGQVTQEGHFTIDEKTRQVELNEAGHQFIEEMLTQAGLLAEGESLYSAHNLG 305 (913)
T ss_pred cCCCccchHHHHHHHHHHHHHHhhhhccccccCCCCCeEEEcCCCeeeechHHHHHHHHHhhhCCCcccchhccChhhhH
Confidence 011122222222110 0000
Q ss_pred --------------------------------------------------------------------------------
Q 011104 284 -------------------------------------------------------------------------------- 283 (493)
Q Consensus 284 -------------------------------------------------------------------------------- 283 (493)
T Consensus 306 ~~~~i~~AL~A~~lf~~d~dYiV~dg~V~IVDe~TGR~m~grrwsdGLHQaIEaKE~v~I~~e~~t~AsIT~QnfFr~Y~ 385 (913)
T PRK13103 306 LLTHVYAGLRAHKLFHRNVEYIVQDGQVLLIDEHTGRTMPGRRLSEGLHQAIEAKENLNIQAESQTLASTTFQNYFRLYN 385 (913)
T ss_pred HHHHHHHHHHHHHHHhcCCcEEEECCEEEEEECCCCCcCCCCccchHHHHHHHHHcCCCcCCCceeEEeehHHHHHHhcc
Confidence
Q ss_pred eEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhH
Q 011104 284 QVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSA 363 (493)
Q Consensus 284 q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~ 363 (493)
++.+||+|......++..-+-.. ++.+ +...+..........+.+...|...+.+.+......+.|+||-+.|++..
T Consensus 386 kLsGMTGTa~te~~Ef~~iY~l~--Vv~I-PTnkP~~R~D~~d~vy~t~~eK~~Ai~~ei~~~~~~GrPVLVGT~SVe~S 462 (913)
T PRK13103 386 KLSGMTGTADTEAFEFRQIYGLD--VVVI-PPNKPLARKDFNDLVYLTAEEKYAAIITDIKECMALGRPVLVGTATIETS 462 (913)
T ss_pred hhccCCCCCHHHHHHHHHHhCCC--EEEC-CCCCCcccccCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCCHHHH
Confidence 12222222222221111111100 1111 11111111111112334556788888888888888899999999999999
Q ss_pred HHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCC-CcEEEEeCccccCCCCC-------------------------
Q 011104 364 SALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGL-TQVLISTDVLARGFDQQ------------------------- 417 (493)
Q Consensus 364 ~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~-~~vLv~T~~~~~Gldi~------------------------- 417 (493)
+.++..|...+++...|+......+-. ++. ..|. -.|.|||++++||-||.
T Consensus 463 E~ls~~L~~~gi~h~VLNAk~~~~EA~-IIa--~AG~~GaVTIATNMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~ 539 (913)
T PRK13103 463 EHMSNLLKKEGIEHKVLNAKYHEKEAE-IIA--QAGRPGALTIATNMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKA 539 (913)
T ss_pred HHHHHHHHHcCCcHHHhccccchhHHH-HHH--cCCCCCcEEEeccCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHHH
Confidence 999999999999988888864433222 222 3553 35899999999999984
Q ss_pred ------------CCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCccH
Q 011104 418 ------------QVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDM 468 (493)
Q Consensus 418 ------------~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~ 468 (493)
+==|||--..+ .|-.--.|-.||+||.|.+|.+-.|++-.|+.
T Consensus 540 ~~~~~~e~V~e~GGLhVIgTerh--------eSrRID~QLrGRaGRQGDPGsS~f~lSlED~L 594 (913)
T PRK13103 540 DWQKRHQQVIEAGGLHVIASERH--------ESRRIDNQLRGRAGRQGDPGSSRFYLSLEDSL 594 (913)
T ss_pred HHHhHHHHHHHcCCCEEEeeccC--------chHHHHHHhccccccCCCCCceEEEEEcCcHH
Confidence 22246655555 56666789999999999999999888876543
No 124
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.85 E-value=2.5e-19 Score=187.96 Aligned_cols=349 Identities=19% Similarity=0.181 Sum_probs=208.4
Q ss_pred CCCCCchHHHhhhhhh---cCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHH-HHHHHHh
Q 011104 120 KFQKPSKIQAISLPMI---LTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNL-EVLRKMG 195 (493)
Q Consensus 120 g~~~~~~~Q~~~i~~i---l~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~-~~~~~~~ 195 (493)
||. +++-|.+....+ +.+ +..+++.|+||+|||++|++|++... .+.+++|++||++|+.|+. +.+..+.
T Consensus 243 ~~e-~R~~Q~~ma~~V~~~l~~-~~~~~~eA~tGtGKT~ayllp~l~~~----~~~~vvI~t~T~~Lq~Ql~~~~i~~l~ 316 (820)
T PRK07246 243 GLE-ERPKQESFAKLVGEDFHD-GPASFIEAQTGIGKTYGYLLPLLAQS----DQRQIIVSVPTKILQDQIMAEEVKAIQ 316 (820)
T ss_pred CCc-cCHHHHHHHHHHHHHHhC-CCcEEEECCCCCcHHHHHHHHHHHhc----CCCcEEEEeCcHHHHHHHHHHHHHHHH
Confidence 554 788898844433 333 27899999999999999999998754 3568999999999999994 5666666
Q ss_pred cccCceeeEeecCCCC------------------------------------Ccc---------cccC----------C-
Q 011104 196 KHTGITSECAVPTDST------------------------------------NYV---------PISK----------R- 219 (493)
Q Consensus 196 ~~~~~~~~~~~~~~~~------------------------------------~~~---------~~~~----------~- 219 (493)
..+++.+..+.|+... ... ..+. .
T Consensus 317 ~~~~~~~~~~kg~~~ylcl~k~~~~l~~~~~~~~~~~~~~~il~Wl~~T~tGD~~El~~~~~~~~~w~~i~~~~~~~~~c 396 (820)
T PRK07246 317 EVFHIDCHSLKGPQNYLKLDAFYDSLQQNDDNRLVNRYKMQLLVWLTETETGDLDEIKQKQRYAAYFDQLKHDGNLSQSS 396 (820)
T ss_pred HhcCCcEEEEECCcccccHHHHHHHhhccCcchHHHHHHHHHHHHHhcCCCCCHhhccCCccccHHHHHhhccCCCCCCC
Confidence 5555544333322100 000 0000 0
Q ss_pred -------------CCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhccc----CC-------HHHH------
Q 011104 220 -------------PPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEA----GF-------RDDS------ 269 (493)
Q Consensus 220 -------------~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~----~~-------~~~~------ 269 (493)
....++|+|+.+.-|...+..+.. +...+++||||||++.+.. +. ...+
T Consensus 397 p~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~~~-~p~~~~lIiDEAH~l~~~~~~~~~~~~~~~~~~~~l~~~~~~ 475 (820)
T PRK07246 397 LFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDDKD-FARNKVLVFDEAQKLMLQLEQLSRHQLNITSFLQTIQKALSG 475 (820)
T ss_pred CcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhccC-CCCCCEEEEECcchhHHHHHHHhcceecHHHHHHHHHHHHHH
Confidence 011468999999988877655443 6779999999999875310 00 0000
Q ss_pred -------------------------------------HH---HHHHhh--------------h-------c---------
Q 011104 270 -------------------------------------LR---IMKDIE--------------R-------S--------- 279 (493)
Q Consensus 270 -------------------------------------~~---i~~~~~--------------~-------~--------- 279 (493)
.. .+..+. . .
T Consensus 476 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~W~e~~~~~~~~~~~ 555 (820)
T PRK07246 476 PLPLLQKRLLESISFELLQLSEQFYQGKERQLIHDSLSRLHQYFSELEVAGFQELQAFFATAEGDYWLESEKQSEKRVTY 555 (820)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEecCCCCcceeE
Confidence 00 000000 0 0
Q ss_pred ---------------CCCeeEEEEeeecC--hhHHHHHHHHhccCceeeeccccccccCceEEEEe--CCC-----hHHH
Q 011104 280 ---------------SGHCQVLLFSATFN--ETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVY--CPD-----ELAK 335 (493)
Q Consensus 280 ---------------~~~~q~v~~SAT~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~-----~~~~ 335 (493)
.....+|++|||++ +... + ...++-........ ..........++. .+. ....
T Consensus 556 l~~~pl~v~~~~~~~~~~~~~i~tSATL~v~~~f~-~-~~~lGl~~~~~~~~-~~~~~~~~~~~i~~~~p~~~~~~~~~~ 632 (820)
T PRK07246 556 LNSASKAFTHFSQLLPETCKTYFVSATLQISPRVS-L-ADLLGFEEYLFHKI-EKDKKQDQLVVVDQDMPLVTETSDEVY 632 (820)
T ss_pred EEeeeCcHHHHHHHHhcCCeEEEEecccccCCCCc-H-HHHcCCCccceecC-CCChHHccEEEeCCCCCCCCCCChHHH
Confidence 00136789999996 3322 2 32222111111000 0111111111111 121 1223
Q ss_pred HHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCC
Q 011104 336 VMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFD 415 (493)
Q Consensus 336 ~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gld 415 (493)
...+.+.+......++++||+++|.+..+.++..|....+.+..-..+. .+.+++++|+++...||++|+.+.+|+|
T Consensus 633 ~~~~~~~i~~~~~~~g~~LVLFtS~~~l~~v~~~l~~~~~~~l~Qg~~~---~~~~l~~~F~~~~~~vLlG~~sFwEGVD 709 (820)
T PRK07246 633 AEEIAKRLEELKQLQQPILVLFNSKKHLLAVSDLLDQWQVSHLAQEKNG---TAYNIKKRFDRGEQQILLGLGSFWEGVD 709 (820)
T ss_pred HHHHHHHHHHHHhcCCCEEEEECcHHHHHHHHHHHhhcCCcEEEeCCCc---cHHHHHHHHHcCCCeEEEecchhhCCCC
Confidence 3344444444444578999999999999999999976655553322233 2566899999998899999999999999
Q ss_pred CCC--CCEEEEccCCCCCCCC----------------------CCCCcccccccccccccCCCcceEEEEeeCC-ccHHH
Q 011104 416 QQQ--VNLIVNYDPPVKHGKH----------------------LEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG-DDMII 470 (493)
Q Consensus 416 i~~--v~~Vi~~~~p~~~~~~----------------------~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~-~~~~~ 470 (493)
+|+ ...||...+|....+. ++..+..+.|.+||.-|...+-.++.++..+ ....|
T Consensus 710 ~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv~ilD~R~~~k~Y 789 (820)
T PRK07246 710 FVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSY 789 (820)
T ss_pred CCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcEEEEEECCcccccHH
Confidence 974 5667778888643211 0112333479999999987654455566443 24567
Q ss_pred HHHHHHHhCCC
Q 011104 471 MEKIERYFDIK 481 (493)
Q Consensus 471 ~~~i~~~~~~~ 481 (493)
-+.+-+.++..
T Consensus 790 g~~~l~sLP~~ 800 (820)
T PRK07246 790 GKQILASLAEE 800 (820)
T ss_pred HHHHHHhCCCC
Confidence 78888888863
No 125
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=99.85 E-value=1.2e-19 Score=180.75 Aligned_cols=159 Identities=17% Similarity=0.160 Sum_probs=109.3
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCc-e
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGI-T 201 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~-~ 201 (493)
.|..||+..+..+-++ ..+++.|||.+|||.+.-. ++...........++++.|+++|..|+...+........+ .
T Consensus 511 ~Pd~WQ~elLDsvDr~--eSavIVAPTSaGKTfisfY-~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~r 587 (1330)
T KOG0949|consen 511 CPDEWQRELLDSVDRN--ESAVIVAPTSAGKTFISFY-AIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFLR 587 (1330)
T ss_pred CCcHHHHHHhhhhhcc--cceEEEeeccCCceeccHH-HHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCcccc
Confidence 4889999999999888 8999999999999998433 3444444456678999999999999999877655422221 1
Q ss_pred eeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC---ccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh
Q 011104 202 SECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK---KLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER 278 (493)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~---~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~ 278 (493)
.....|.... .-....-.|+|+|+-|+.+..+|... .-....+++||+||+|.+... .-.-.+..++..+
T Consensus 588 g~sl~g~ltq----EYsinp~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~-ed~l~~Eqll~li-- 660 (1330)
T KOG0949|consen 588 GVSLLGDLTQ----EYSINPWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNE-EDGLLWEQLLLLI-- 660 (1330)
T ss_pred chhhHhhhhH----HhcCCchhceEEEEchHHHHHHhcCchhhhhhhhcceEEEechhhhcccc-ccchHHHHHHHhc--
Confidence 1112221111 11122336899999999998888763 234678999999999998762 1112233333333
Q ss_pred cCCCeeEEEEeeecCh
Q 011104 279 SSGHCQVLLFSATFNE 294 (493)
Q Consensus 279 ~~~~~q~v~~SAT~~~ 294 (493)
++.++++|||+.+
T Consensus 661 ---~CP~L~LSATigN 673 (1330)
T KOG0949|consen 661 ---PCPFLVLSATIGN 673 (1330)
T ss_pred ---CCCeeEEecccCC
Confidence 5689999999753
No 126
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.82 E-value=1.1e-18 Score=162.46 Aligned_cols=320 Identities=17% Similarity=0.173 Sum_probs=199.0
Q ss_pred CCCCchHHHhhhhhhcCC-CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccC
Q 011104 121 FQKPSKIQAISLPMILTP-PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTG 199 (493)
Q Consensus 121 ~~~~~~~Q~~~i~~il~~-~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~ 199 (493)
-..+.|+|.+++..+..+ ..+.-++..|+|+|||++- +.+.+.+ ..++||+|.+-..+.||...+..|.....
T Consensus 300 st~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVG-vTAa~ti-----kK~clvLcts~VSVeQWkqQfk~wsti~d 373 (776)
T KOG1123|consen 300 STQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVG-VTAACTI-----KKSCLVLCTSAVSVEQWKQQFKQWSTIQD 373 (776)
T ss_pred ccccCchHHHHHHHHhCCCcccCceEEEecCCCCceee-eeeeeee-----cccEEEEecCccCHHHHHHHHHhhcccCc
Confidence 346889999999988743 3578999999999999873 2222232 33689999999999999999998865433
Q ss_pred ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHc--------CccCCCCeeEEEEecchhhhcccCCHHHHHH
Q 011104 200 ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSA--------KKLGFSRLKILVYDEADHMLDEAGFRDDSLR 271 (493)
Q Consensus 200 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~--------~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~ 271 (493)
-.+....... ......++.|+|+|+.++..--.+ +.+.-.-+.++++||+|.+-..| |+.
T Consensus 374 ~~i~rFTsd~-------Ke~~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvvPA~M-FRR---- 441 (776)
T KOG1123|consen 374 DQICRFTSDA-------KERFPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVVPAKM-FRR---- 441 (776)
T ss_pred cceEEeeccc-------cccCCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhccchHHH-HHH----
Confidence 3222222111 123345688999999766321111 11223457899999999887643 433
Q ss_pred HHHHhhhcCCCeeEEEEeeecChhHHHHH-HHHhccCcee-----eeccccccccCceE---------------------
Q 011104 272 IMKDIERSSGHCQVLLFSATFNETVKNFV-TRIVKDYNQL-----FVKKEELSLESVKQ--------------------- 324 (493)
Q Consensus 272 i~~~~~~~~~~~q~v~~SAT~~~~~~~~~-~~~~~~~~~~-----~~~~~~~~~~~~~~--------------------- 324 (493)
++..+... -.+++|||+-.+-.... ..|+..|... .... ......+..
T Consensus 442 Vlsiv~aH----cKLGLTATLvREDdKI~DLNFLIGPKlYEAnWmdL~~-kGhIA~VqCaEVWCpMt~eFy~eYL~~~t~ 516 (776)
T KOG1123|consen 442 VLSIVQAH----CKLGLTATLVREDDKITDLNFLIGPKLYEANWMDLQK-KGHIAKVQCAEVWCPMTPEFYREYLRENTR 516 (776)
T ss_pred HHHHHHHH----hhccceeEEeeccccccccceeecchhhhccHHHHHh-CCceeEEeeeeeecCCCHHHHHHHHhhhhh
Confidence 33333321 14899999732111100 0111111100 0000 000111122
Q ss_pred ----EEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHc-C
Q 011104 325 ----YKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKD-G 399 (493)
Q Consensus 325 ----~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~-g 399 (493)
.++..|.....+..|++ .+ ...+.++|||..+.-.....+-.|.+ -.++|..++.+|.++++.|+- .
T Consensus 517 kr~lLyvMNP~KFraCqfLI~-~H--E~RgDKiIVFsDnvfALk~YAikl~K-----pfIYG~Tsq~ERm~ILqnFq~n~ 588 (776)
T KOG1123|consen 517 KRMLLYVMNPNKFRACQFLIK-FH--ERRGDKIIVFSDNVFALKEYAIKLGK-----PFIYGPTSQNERMKILQNFQTNP 588 (776)
T ss_pred hhheeeecCcchhHHHHHHHH-HH--HhcCCeEEEEeccHHHHHHHHHHcCC-----ceEECCCchhHHHHHHHhcccCC
Confidence 23333444444444443 22 33578999999987766666655543 467899999999999999985 4
Q ss_pred CCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCC------cceEEEEeeCCc-cHHHHH
Q 011104 400 LTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGR------KGVVFNLLMDGD-DMIIME 472 (493)
Q Consensus 400 ~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~------~g~~i~l~~~~~-~~~~~~ 472 (493)
.++-++.+.+....+|+|..+++|....-. .|-.+-.||.||.-|+.+ ....++|++.+. ++.|-.
T Consensus 589 ~vNTIFlSKVgDtSiDLPEAnvLIQISSH~-------GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTqEM~YSt 661 (776)
T KOG1123|consen 589 KVNTIFLSKVGDTSIDLPEANVLIQISSHG-------GSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQEMYYST 661 (776)
T ss_pred ccceEEEeeccCccccCCcccEEEEEcccc-------cchHHHHHHHHHHHHHhhcCccccceeeeeeeecchHHHHhhh
Confidence 577889999999999999999999876542 455667899999988732 234566776554 455555
Q ss_pred HHHHHh
Q 011104 473 KIERYF 478 (493)
Q Consensus 473 ~i~~~~ 478 (493)
.-+++|
T Consensus 662 KRQ~FL 667 (776)
T KOG1123|consen 662 KRQQFL 667 (776)
T ss_pred hhhhhh
Confidence 455544
No 127
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.82 E-value=1.4e-19 Score=170.67 Aligned_cols=363 Identities=15% Similarity=0.089 Sum_probs=245.3
Q ss_pred HHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHH
Q 011104 111 LLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEV 190 (493)
Q Consensus 111 ~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~ 190 (493)
+.+.+...+--.....+|..++..+-.| +++++.-.|.+||.++|.+.....+.. ......+++.|+.+++....+.
T Consensus 274 ~~~~~~~~~~~E~~~~~~~~~~~~~~~G--~~~~~~~~~~~GK~~~~~~~s~~~~~~-~~~s~~~~~~~~~~~~~~~~~~ 350 (1034)
T KOG4150|consen 274 SIRSLLNKNTGESGIAISLELLKFASEG--RADGGNEARQAGKGTCPTSGSRKFQTL-CHATNSLLPSEMVEHLRNGSKG 350 (1034)
T ss_pred HHHHHHhcccccchhhhhHHHHhhhhhc--ccccccchhhcCCccCcccchhhhhhc-CcccceecchhHHHHhhccCCc
Confidence 4444444345556778999999999888 999999999999999988776654432 2334578889999988664432
Q ss_pred HHHHhcccC---ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccC----CCCeeEEEEecchhhhccc
Q 011104 191 LRKMGKHTG---ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLG----FSRLKILVYDEADHMLDEA 263 (493)
Q Consensus 191 ~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~----~~~~~~iVlDEah~l~~~~ 263 (493)
+.-...... -.+.-.+.+.+.. ......+.+.+++++.|.......-.+... +-...++++||+|....
T Consensus 351 ~~V~~~~I~~~K~A~V~~~D~~sE~--~~~A~~R~~~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~~Y~~-- 426 (1034)
T KOG4150|consen 351 QVVHVEVIKARKSAYVEMSDKLSET--TKSALKRIGLNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLF-- 426 (1034)
T ss_pred eEEEEEehhhhhcceeecccCCCch--hHHHHHhcCcceeecCHHHHHHHHhhhccccccHHHHHHHhcccceeeeec--
Confidence 111110000 0011111111111 111223346789999998876554433332 23456899999998764
Q ss_pred CCHHHHHHHHHHhhh------cCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEeCCCh-----
Q 011104 264 GFRDDSLRIMKDIER------SSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDE----- 332 (493)
Q Consensus 264 ~~~~~~~~i~~~~~~------~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----- 332 (493)
.|.......++.+.. ...+.|++-.|||+...+... .-+-+...+........+.+-.+++++.|..
T Consensus 427 ~~~~~~~~~~R~L~~L~~~F~~~~~~~~~~~~~~~K~~~~~~--~~~~~~~E~~Li~~DGSPs~~K~~V~WNP~~~P~~~ 504 (1034)
T KOG4150|consen 427 PTKALAQDQLRALSDLIKGFEASINMGVYDGDTPYKDRTRLR--SELANLSELELVTIDGSPSSEKLFVLWNPSAPPTSK 504 (1034)
T ss_pred chhhHHHHHHHHHHHHHHHHHhhcCcceEeCCCCcCCHHHHH--HHhcCCcceEEEEecCCCCccceEEEeCCCCCCcch
Confidence 344333333333221 133689999999998777643 3333445555555566666777777776632
Q ss_pred ---HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC----CC----cEEEecCCCCHHHHHHHHHHHHcCCC
Q 011104 333 ---LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF----GY----EVTTIMGATIQEERDKIVKEFKDGLT 401 (493)
Q Consensus 333 ---~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~----~~----~~~~l~~~~~~~~r~~~~~~f~~g~~ 401 (493)
..++......+.+....+-++|-||.+++.|+.+....++- +- .+..+.|+....+|.++....-.|+.
T Consensus 505 ~~~~~~i~E~s~~~~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L 584 (1034)
T KOG4150|consen 505 SEKSSKVVEVSHLFAEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKL 584 (1034)
T ss_pred hhhhhHHHHHHHHHHHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCCee
Confidence 23333344445555566789999999999998886654432 21 46788999999999999999999999
Q ss_pred cEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc-cHHHHHHHHHHhCC
Q 011104 402 QVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD-DMIIMEKIERYFDI 480 (493)
Q Consensus 402 ~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~-~~~~~~~i~~~~~~ 480 (493)
.-+|+|++++-||||.+++.|++.++| .|+..+.|..||+||.+++..++.+..... +..|+..-...++.
T Consensus 585 ~giIaTNALELGIDIG~LDAVl~~GFP--------~S~aNl~QQ~GRAGRRNk~SLavyva~~~PVDQ~Y~~HP~~l~~~ 656 (1034)
T KOG4150|consen 585 CGIIATNALELGIDIGHLDAVLHLGFP--------GSIANLWQQAGRAGRRNKPSLAVYVAFLGPVDQYYMSHPDKLFGS 656 (1034)
T ss_pred eEEEecchhhhccccccceeEEEccCc--------hhHHHHHHHhccccccCCCceEEEEEeccchhhHhhcCcHHHhCC
Confidence 999999999999999999999999999 889999999999999988887766554433 67777777777777
Q ss_pred CceeecCccc
Q 011104 481 KVTEVQTCTC 490 (493)
Q Consensus 481 ~~~~~~~~~~ 490 (493)
+-.++.++..
T Consensus 657 pN~EL~LD~~ 666 (1034)
T KOG4150|consen 657 PNEELHLDSQ 666 (1034)
T ss_pred CcceeEEecc
Confidence 7776665543
No 128
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=99.81 E-value=4.4e-18 Score=171.31 Aligned_cols=324 Identities=15% Similarity=0.162 Sum_probs=209.0
Q ss_pred hhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHH-hccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 117 VEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGML-SRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 117 ~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l-~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
..+|.. |+++|-..--.+..| -|....||-|||+++.+|+. +.+ .|..+-|++...-||..=++++..+.
T Consensus 73 R~lG~r-~ydVQliGglvLh~G----~IAEMkTGEGKTLvAtLpayLnAL----~GkgVhVVTvNdYLA~RDae~mg~vy 143 (925)
T PRK12903 73 RVLGKR-PYDVQIIGGIILDLG----SVAEMKTGEGKTITSIAPVYLNAL----TGKGVIVSTVNEYLAERDAEEMGKVF 143 (925)
T ss_pred HHhCCC-cCchHHHHHHHHhcC----CeeeecCCCCccHHHHHHHHHHHh----cCCceEEEecchhhhhhhHHHHHHHH
Confidence 335664 899998777666555 58999999999999998885 343 45568888999999999999999999
Q ss_pred cccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-HHHHHcC------ccCCCCeeEEEEecchhhhcccC----
Q 011104 196 KHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-KKWMSAK------KLGFSRLKILVYDEADHMLDEAG---- 264 (493)
Q Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-~~~l~~~------~~~~~~~~~iVlDEah~l~~~~~---- 264 (493)
..+|+++.+......... ++....++|.++|..-| .++|+.. ......+.+.||||+|.++-+..
T Consensus 144 ~fLGLsvG~i~~~~~~~~----rr~aY~~DItYgTn~E~gFDYLRDnm~~~~~~~vqR~~~faIVDEVDSILIDEArTPL 219 (925)
T PRK12903 144 NFLGLSVGINKANMDPNL----KREAYACDITYSVHSELGFDYLRDNMVSSKEEKVQRGLNFCLIDEVDSILIDEAKTPL 219 (925)
T ss_pred HHhCCceeeeCCCCChHH----HHHhccCCCeeecCcccchhhhhhcccccHHHhcCcccceeeeccchheeecccCCcc
Confidence 999999988776443322 22233589999998775 2333321 12246788999999998542111
Q ss_pred -----------CHHHHHHHHHHhhhc----CCCe----------------------------------------------
Q 011104 265 -----------FRDDSLRIMKDIERS----SGHC---------------------------------------------- 283 (493)
Q Consensus 265 -----------~~~~~~~i~~~~~~~----~~~~---------------------------------------------- 283 (493)
+...+..++..+... ....
T Consensus 220 IISg~~~~~~~~Y~~~~~~v~~L~~~dy~iDek~k~v~LTe~G~~~~E~~l~i~nLy~~~n~~l~h~i~~AL~A~~lf~r 299 (925)
T PRK12903 220 IISGGQSNDSNLYLAADQFVRTLKEDDYKIDEETKAISLTEKGIKKANKFFKLKNLYDIENSELVHRIQNALRAHKVMKE 299 (925)
T ss_pred cccCCCccchHHHHHHHHHHHhccccceEEecccceEEECHhHHHHHHHHcCCCcccChhhHHHHHHHHHHHHHHHHHhc
Confidence 011111222222110 0001
Q ss_pred ---------------------------------------------------------------eEEEEeeecChhHHHHH
Q 011104 284 ---------------------------------------------------------------QVLLFSATFNETVKNFV 300 (493)
Q Consensus 284 ---------------------------------------------------------------q~v~~SAT~~~~~~~~~ 300 (493)
++.+||+|......++.
T Consensus 300 d~dYiV~dg~V~IVDefTGR~m~gRrwsdGLHQaIEAKEgv~I~~e~~TlAsIT~QnfFr~Y~kLsGMTGTA~te~~Ef~ 379 (925)
T PRK12903 300 DVEYIVRDGKIELVDQFTGRIMEGRSYSEGLQQAIQAKEMVEIEPETKTLATITYQNFFRLFKKLSGMTGTAKTEEQEFI 379 (925)
T ss_pred CCceEEECCEEEEEECCCCCCCCCCccchHHHHHHHHHcCCCCCCCceeeeeehHHHHHHhcchhhccCCCCHHHHHHHH
Confidence 22233333222222221
Q ss_pred HHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEe
Q 011104 301 TRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTI 380 (493)
Q Consensus 301 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l 380 (493)
.-+-. ..+.++ ...+..........+.....|...+++.+......+.|+||.|.|++.++.++..|.+.|+....+
T Consensus 380 ~iY~l--~Vv~IP-TnkP~~R~D~~d~iy~t~~~K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vL 456 (925)
T PRK12903 380 DIYNM--RVNVVP-TNKPVIRKDEPDSIFGTKHAKWKAVVKEVKRVHKKGQPILIGTAQVEDSETLHELLLEANIPHTVL 456 (925)
T ss_pred HHhCC--CEEECC-CCCCeeeeeCCCcEEEcHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCceee
Confidence 11110 111111 111111111111122345677778888788877789999999999999999999999999999999
Q ss_pred cCCCCHHHHHHHHHHHHcCC-CcEEEEeCccccCCCCCCCC--------EEEEccCCCCCCCCCCCCccccccccccccc
Q 011104 381 MGATIQEERDKIVKEFKDGL-TQVLISTDVLARGFDQQQVN--------LIVNYDPPVKHGKHLEPDCEVYLHRIGRAGR 451 (493)
Q Consensus 381 ~~~~~~~~r~~~~~~f~~g~-~~vLv~T~~~~~Gldi~~v~--------~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R 451 (493)
++... +++..+-. ..|. -.|.|||++++||-||.--. |||....| .|-.--.|-.||+||
T Consensus 457 NAk~~--e~EA~IIa-~AG~~GaVTIATNMAGRGTDI~Lg~~V~~~GGLhVIgTerh--------eSrRIDnQLrGRaGR 525 (925)
T PRK12903 457 NAKQN--AREAEIIA-KAGQKGAITIATNMAGRGTDIKLSKEVLELGGLYVLGTDKA--------ESRRIDNQLRGRSGR 525 (925)
T ss_pred cccch--hhHHHHHH-hCCCCCeEEEecccccCCcCccCchhHHHcCCcEEEecccC--------chHHHHHHHhccccc
Confidence 98643 34333322 4554 46899999999999996433 78877777 666667899999999
Q ss_pred CCCcceEEEEeeCCcc
Q 011104 452 FGRKGVVFNLLMDGDD 467 (493)
Q Consensus 452 ~g~~g~~i~l~~~~~~ 467 (493)
.|.+|.+-.|++-.|+
T Consensus 526 QGDpGss~f~lSLeD~ 541 (925)
T PRK12903 526 QGDVGESRFFISLDDQ 541 (925)
T ss_pred CCCCCcceEEEecchH
Confidence 9999999988876654
No 129
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=99.81 E-value=1.2e-19 Score=185.02 Aligned_cols=335 Identities=16% Similarity=0.159 Sum_probs=211.4
Q ss_pred CCCchHHHhhhhhhcCC--CCccEEEeccCCCchhHHhHHHHHhccCCCC-CCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 122 QKPSKIQAISLPMILTP--PYRNLIAQARNGSGKTTCFVLGMLSRVDPNL-KAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 122 ~~~~~~Q~~~i~~il~~--~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~-~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
..+..+|-..+.+++.. .++++|++...|-|||+.. +..|..+.... -.+-.|||+|...+ ..|.+.+..|.
T Consensus 369 ~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqt-i~fl~~l~~~~~~~gpflvvvplst~-~~W~~ef~~w~--- 443 (1373)
T KOG0384|consen 369 NELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQT-ITFLSYLFHSLQIHGPFLVVVPLSTI-TAWEREFETWT--- 443 (1373)
T ss_pred chhhhhhcccchhHHHHHHhcccceehhhcCCCcchHH-HHHHHHHHHhhhccCCeEEEeehhhh-HHHHHHHHHHh---
Confidence 35677888888777532 1289999999999999873 33343332211 23347889998665 44566666665
Q ss_pred CceeeEeecCCCCCccccc----C---CCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHH
Q 011104 199 GITSECAVPTDSTNYVPIS----K---RPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLR 271 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~----~---~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~ 271 (493)
.+++.+.+|....+..... . ...-..+++++|++.++. ....+.--.+.++++||||+|.+. ...+..
T Consensus 444 ~mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~Lk--Dk~~L~~i~w~~~~vDeahrLkN~---~~~l~~ 518 (1373)
T KOG0384|consen 444 DMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLK--DKAELSKIPWRYLLVDEAHRLKND---ESKLYE 518 (1373)
T ss_pred hhceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhc--cHhhhccCCcceeeecHHhhcCch---HHHHHH
Confidence 4555566665443321110 0 111257899999998754 222233345679999999999863 233444
Q ss_pred HHHHhhhcCCCeeEEEEeeecC-hhHHHHHHHH-hccC------------------------------------------
Q 011104 272 IMKDIERSSGHCQVLLFSATFN-ETVKNFVTRI-VKDY------------------------------------------ 307 (493)
Q Consensus 272 i~~~~~~~~~~~q~v~~SAT~~-~~~~~~~~~~-~~~~------------------------------------------ 307 (493)
.+..+.. -..+++|+|+- +.+.+++..+ +-.|
T Consensus 519 ~l~~f~~----~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~~~~~e~~~~~L~~~L~P~~lRr~kkdvek 594 (1373)
T KOG0384|consen 519 SLNQFKM----NHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEFDEETEEQVRKLQQILKPFLLRRLKKDVEK 594 (1373)
T ss_pred HHHHhcc----cceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhhcchhHHHHHHHHHHhhHHHHHHHHhhhcc
Confidence 4544443 24578888842 1222211100 0000
Q ss_pred ------------------------------ceeeecccccccc--C--------ceEEEEeCCChH--------------
Q 011104 308 ------------------------------NQLFVKKEELSLE--S--------VKQYKVYCPDEL-------------- 333 (493)
Q Consensus 308 ------------------------------~~~~~~~~~~~~~--~--------~~~~~~~~~~~~-------------- 333 (493)
..+.-+.....+. + -.|-|..-+.+.
T Consensus 595 slp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG~~g~~~~lLNimmELkKccNHpyLi~gaee~~~~~~~~~~~d~~ 674 (1373)
T KOG0384|consen 595 SLPPKEETILRVELSDLQKQYYKAILTKNFSALTKGAKGSTPSLLNIMMELKKCCNHPYLIKGAEEKILGDFRDKMRDEA 674 (1373)
T ss_pred CCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhccCCCCCchHHHHHHHHHHhcCCccccCcHHHHHHHhhhhcchHHH
Confidence 0000000000000 0 011111111110
Q ss_pred --------HHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHc---CCCc
Q 011104 334 --------AKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKD---GLTQ 402 (493)
Q Consensus 334 --------~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~---g~~~ 402 (493)
.|+..|-.+|..+...++++|||.+.....+.|+++|..++++...|.|....+.|...++.|+. ..+.
T Consensus 675 L~~lI~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFv 754 (1373)
T KOG0384|consen 675 LQALIQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFV 754 (1373)
T ss_pred HHHHHHhcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceE
Confidence 11112233455556667899999999999999999999999999999999999999999999974 4567
Q ss_pred EEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcc--eEEEEeeCCc-cHHHHHHHHHHh
Q 011104 403 VLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKG--VVFNLLMDGD-DMIIMEKIERYF 478 (493)
Q Consensus 403 vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g--~~i~l~~~~~-~~~~~~~i~~~~ 478 (493)
+|+||.+.+-|||+..++.||+||.-|+ +..-+|...||.|.|+.. .+|.|++.+. +..++..-.+.+
T Consensus 755 FLLSTRAGGLGINLatADTVIIFDSDWN--------PQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeEilERAk~Km 825 (1373)
T KOG0384|consen 755 FLLSTRAGGLGINLATADTVIIFDSDWN--------PQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEEILERAKLKM 825 (1373)
T ss_pred EEEecccCcccccccccceEEEeCCCCC--------cchHHHHHHHHHhhcccceEEEEEEecCCchHHHHHHHHHHHh
Confidence 8999999999999999999999999965 555899999999999876 5788998764 344444444443
No 130
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=99.79 E-value=1.2e-17 Score=169.30 Aligned_cols=284 Identities=16% Similarity=0.160 Sum_probs=179.4
Q ss_pred HhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHH-hccCCCCCCCeEEEEcCCHHHHHHHHHHHHHH
Q 011104 116 YVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGML-SRVDPNLKAPQALCICPTRELAIQNLEVLRKM 194 (493)
Q Consensus 116 ~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l-~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~ 194 (493)
...+|+. |+++|-.+.-.+. +.-|+.+.||.|||+++.+|+. +.+ .+..+-||+++..||.+-++++..+
T Consensus 70 ~R~lG~r-~ydvQlig~l~L~----~G~IaEm~TGEGKTL~a~l~ayl~aL----~G~~VhVvT~NdyLA~RD~e~m~pv 140 (870)
T CHL00122 70 FRTLGLR-HFDVQLIGGLVLN----DGKIAEMKTGEGKTLVATLPAYLNAL----TGKGVHIVTVNDYLAKRDQEWMGQI 140 (870)
T ss_pred HHHhCCC-CCchHhhhhHhhc----CCccccccCCCCchHHHHHHHHHHHh----cCCceEEEeCCHHHHHHHHHHHHHH
Confidence 3346766 8899987655444 4589999999999999999884 443 4667999999999999999999999
Q ss_pred hcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-----HHHHHc--CccCCCCeeEEEEecchhhhcccC---
Q 011104 195 GKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-----KKWMSA--KKLGFSRLKILVYDEADHMLDEAG--- 264 (493)
Q Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-----~~~l~~--~~~~~~~~~~iVlDEah~l~~~~~--- 264 (493)
...+|+++.+..++..... ++....++|.++|..-| .+.+.. .......+.+.||||+|.++-+..
T Consensus 141 y~~LGLsvg~i~~~~~~~e----rr~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~r~~~faIVDEvDSiLIDeArTP 216 (870)
T CHL00122 141 YRFLGLTVGLIQEGMSSEE----RKKNYLKDITYVTNSELGFDYLRDNMALSLSDVVQRPFNYCIIDEVDSILIDEARTP 216 (870)
T ss_pred HHHcCCceeeeCCCCChHH----HHHhcCCCCEecCCccccccchhhccCcChHHhhccccceeeeecchhheeccCCCc
Confidence 9999999998766544322 22333589999998654 333221 112346688999999997542100
Q ss_pred ------------CHHHHHHHHHHhhhcC-----CC---------------------------------------------
Q 011104 265 ------------FRDDSLRIMKDIERSS-----GH--------------------------------------------- 282 (493)
Q Consensus 265 ------------~~~~~~~i~~~~~~~~-----~~--------------------------------------------- 282 (493)
....+..+.+.+.... ..
T Consensus 217 LiISg~~~~~~~~y~~~~~~v~~L~~~~dy~vdek~k~v~LTe~G~~~~e~~l~i~~ly~~~~~~~~~i~~AL~A~~lf~ 296 (870)
T CHL00122 217 LIISGQSKTNIDKYIVADELAKYLEKNVHYEVDEKNKNVILTEQGILFIEKILKIEDLYSANDPWIPYILNALKAKELFF 296 (870)
T ss_pred eeccCCCccchHHHHHHHHHHHhcCcCCCeEEEcCCCceEecHHHHHHHHHHcCCccccccccHHHHHHHHHHHHHHHHh
Confidence 0001111111111100 00
Q ss_pred ---------------------------------------------------------------eeEEEEeeecChhHHHH
Q 011104 283 ---------------------------------------------------------------CQVLLFSATFNETVKNF 299 (493)
Q Consensus 283 ---------------------------------------------------------------~q~v~~SAT~~~~~~~~ 299 (493)
.++.+||+|......++
T Consensus 297 ~d~dYiV~dgeV~iVDe~TGR~m~grrws~GLHQaiEaKEgv~It~e~~tlAsIT~QnfFr~Y~kL~GMTGTa~te~~Ef 376 (870)
T CHL00122 297 KNVHYIVRNNEIIIVDEFTGRIMPGRRWSDGLHQAIEAKENLPIRQETETLASITYQNFFLLYPKLSGMTGTAKTEELEF 376 (870)
T ss_pred cCCcEEEECCEEEEEECCCCcCCCCCccchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHHhCchhcccCCCCHHHHHHH
Confidence 03344444443322222
Q ss_pred HHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEE
Q 011104 300 VTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTT 379 (493)
Q Consensus 300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~ 379 (493)
..-+ +- ..+.+ +...+............+...|...+.+.+......+.|+||-|.|++..+.++..|.+.|++...
T Consensus 377 ~~iY-~l-~vv~I-Ptnkp~~R~d~~d~v~~t~~~K~~AI~~ei~~~~~~grPVLIgT~SIe~SE~ls~~L~~~gi~h~v 453 (870)
T CHL00122 377 EKIY-NL-EVVCI-PTHRPMLRKDLPDLIYKDELSKWRAIADECLQMHQTGRPILIGTTTIEKSELLSQLLKEYRLPHQL 453 (870)
T ss_pred HHHh-CC-CEEEC-CCCCCccceeCCCeEEeCHHHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHHHHHHHHHHcCCccce
Confidence 1111 11 11111 111111111122223345567778888888888888999999999999999999999999999999
Q ss_pred ecCCCCHHHH-HHHHHHHHcCC-CcEEEEeCccccCCCCC
Q 011104 380 IMGATIQEER-DKIVKEFKDGL-TQVLISTDVLARGFDQQ 417 (493)
Q Consensus 380 l~~~~~~~~r-~~~~~~f~~g~-~~vLv~T~~~~~Gldi~ 417 (493)
+++.-....+ ..++. ..|. -.|.|||++++||-||.
T Consensus 454 LNAk~~~~~~EA~IIA--~AG~~G~VTIATNMAGRGTDI~ 491 (870)
T CHL00122 454 LNAKPENVRRESEIVA--QAGRKGSITIATNMAGRGTDII 491 (870)
T ss_pred eeCCCccchhHHHHHH--hcCCCCcEEEeccccCCCcCee
Confidence 9987422222 23333 2444 35899999999999974
No 131
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.79 E-value=3.8e-18 Score=151.65 Aligned_cols=186 Identities=28% Similarity=0.402 Sum_probs=140.3
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
+++..++++|.++++.++.+. +.+++.++||+|||.+++.+++..+.... ..+++|++|++.++.|+...+..+....
T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~-~~~~i~~~~GsGKT~~~~~~~~~~~~~~~-~~~~l~~~p~~~~~~~~~~~~~~~~~~~ 81 (201)
T smart00487 4 FGFEPLRPYQKEAIEALLSGL-RDVILAAPTGSGKTLAALLPALEALKRGK-GKRVLVLVPTRELAEQWAEELKKLGPSL 81 (201)
T ss_pred cCCCCCCHHHHHHHHHHHcCC-CcEEEECCCCCchhHHHHHHHHHHhcccC-CCcEEEEeCCHHHHHHHHHHHHHHhccC
Confidence 577889999999999998753 68999999999999998888888775532 4579999999999999999998887654
Q ss_pred CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh
Q 011104 199 GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER 278 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~ 278 (493)
........++..... ..........+++++|++.+.+.+.........++++|+||+|.+... .+...+..++..+..
T Consensus 82 ~~~~~~~~~~~~~~~-~~~~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~~-~~~~~~~~~~~~~~~ 159 (201)
T smart00487 82 GLKVVGLYGGDSKRE-QLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDG-GFGDQLEKLLKLLPK 159 (201)
T ss_pred CeEEEEEeCCcchHH-HHHHHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhcC-CcHHHHHHHHHhCCc
Confidence 423333333322111 111111122389999999999999887666788999999999999863 566777777766633
Q ss_pred cCCCeeEEEEeeecChhHHHHHHHHhccCceee
Q 011104 279 SSGHCQVLLFSATFNETVKNFVTRIVKDYNQLF 311 (493)
Q Consensus 279 ~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~ 311 (493)
..+++++|||+++........+......+.
T Consensus 160 ---~~~~v~~saT~~~~~~~~~~~~~~~~~~~~ 189 (201)
T smart00487 160 ---NVQLLLLSATPPEEIENLLELFLNDPVFID 189 (201)
T ss_pred ---cceEEEEecCCchhHHHHHHHhcCCCEEEe
Confidence 678999999999888888888777554443
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=99.79 E-value=2.1e-18 Score=142.18 Aligned_cols=120 Identities=38% Similarity=0.628 Sum_probs=108.7
Q ss_pred HHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccC
Q 011104 334 AKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARG 413 (493)
Q Consensus 334 ~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~G 413 (493)
.+...+.+.+.......+++||||++...++.+++.|...+..+..+||+++..+|..+++.|+++...||++|.++++|
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~~~~~G 91 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDVIARG 91 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcChhhcC
Confidence 56666666666655467899999999999999999999989999999999999999999999999999999999999999
Q ss_pred CCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEE
Q 011104 414 FDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNL 461 (493)
Q Consensus 414 ldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l 461 (493)
+|+|++++||++++| .+...|.|++||++|.|+.|.++.+
T Consensus 92 ~d~~~~~~vi~~~~~--------~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 92 IDLPNVSVVINYDLP--------WSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred cChhhCCEEEEeCCC--------CCHHHheecccccccCCCCceEEeC
Confidence 999999999999999 6788899999999999998887753
No 133
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=99.78 E-value=8.9e-18 Score=158.43 Aligned_cols=294 Identities=20% Similarity=0.228 Sum_probs=188.2
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
+-++-+|||.||||.- +|+++.... ..++.-|.|-||..++..++..+..+++ +.|...... ...
T Consensus 192 kIi~H~GPTNSGKTy~----ALqrl~~ak---sGvycGPLrLLA~EV~~r~na~gipCdL----~TGeE~~~~----~~~ 256 (700)
T KOG0953|consen 192 KIIMHVGPTNSGKTYR----ALQRLKSAK---SGVYCGPLRLLAHEVYDRLNALGIPCDL----LTGEERRFV----LDN 256 (700)
T ss_pred eEEEEeCCCCCchhHH----HHHHHhhhc---cceecchHHHHHHHHHHHhhhcCCCccc----cccceeeec----CCC
Confidence 5677789999999986 456664433 4588889999999999999988765553 333322111 111
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHH
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFV 300 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~ 300 (493)
...++.+-||-++. .+ -..+++.|+||++.|.+..-=+.+...++..... .+.+. + .+.+..++
T Consensus 257 ~~~a~hvScTVEM~-------sv-~~~yeVAViDEIQmm~Dp~RGwAWTrALLGl~Ad---EiHLC---G--epsvldlV 320 (700)
T KOG0953|consen 257 GNPAQHVSCTVEMV-------SV-NTPYEVAVIDEIQMMRDPSRGWAWTRALLGLAAD---EIHLC---G--EPSVLDLV 320 (700)
T ss_pred CCcccceEEEEEEe-------ec-CCceEEEEehhHHhhcCcccchHHHHHHHhhhhh---hhhcc---C--CchHHHHH
Confidence 22466777785543 11 3458899999999988732223444455443332 11111 1 14555666
Q ss_pred HHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCc-EEE
Q 011104 301 TRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYE-VTT 379 (493)
Q Consensus 301 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~-~~~ 379 (493)
+.++.....-.......... +-. -...+...+.. . +.|.++| |-|++.+..+...+.+.+.. ++.
T Consensus 321 ~~i~k~TGd~vev~~YeRl~---------pL~--v~~~~~~sl~n-l-k~GDCvV-~FSkk~I~~~k~kIE~~g~~k~aV 386 (700)
T KOG0953|consen 321 RKILKMTGDDVEVREYERLS---------PLV--VEETALGSLSN-L-KPGDCVV-AFSKKDIFTVKKKIEKAGNHKCAV 386 (700)
T ss_pred HHHHhhcCCeeEEEeecccC---------cce--ehhhhhhhhcc-C-CCCCeEE-EeehhhHHHHHHHHHHhcCcceEE
Confidence 66654322111111111110 100 00111111111 1 2355555 66788899999999888775 999
Q ss_pred ecCCCCHHHHHHHHHHHHc--CCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCC-CCCCcccccccccccccCCC--
Q 011104 380 IMGATIQEERDKIVKEFKD--GLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKH-LEPDCEVYLHRIGRAGRFGR-- 454 (493)
Q Consensus 380 l~~~~~~~~r~~~~~~f~~--g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~-~~~s~~~y~qr~GR~~R~g~-- 454 (493)
++|++++..|..--..|+. ++++||||||++++|||+ +++.||.|++-...+.. .+-+..+..|.+|||||.|.
T Consensus 387 IYGsLPPeTr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL-~IrRiiF~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~ 465 (700)
T KOG0953|consen 387 IYGSLPPETRLAQAALFNDPSNECDVLVASDAIGMGLNL-NIRRIIFYSLIKYSGRETEDITVSQIKQIAGRAGRFGSKY 465 (700)
T ss_pred EecCCCCchhHHHHHHhCCCCCccceEEeeccccccccc-ceeEEEEeecccCCcccceeccHHHHHHHhhcccccccCC
Confidence 9999999999999999987 899999999999999999 89999988877544432 24567778999999999864
Q ss_pred -cceEEEEeeCCccHHHHHHHHHHhCCCceee
Q 011104 455 -KGVVFNLLMDGDDMIIMEKIERYFDIKVTEV 485 (493)
Q Consensus 455 -~g~~i~l~~~~~~~~~~~~i~~~~~~~~~~~ 485 (493)
.|.+.+|..+ + +..+.+.+..+++.+
T Consensus 466 ~~G~vTtl~~e--D---L~~L~~~l~~p~epi 492 (700)
T KOG0953|consen 466 PQGEVTTLHSE--D---LKLLKRILKRPVEPI 492 (700)
T ss_pred cCceEEEeeHh--h---HHHHHHHHhCCchHH
Confidence 5777777753 3 455666666655544
No 134
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.78 E-value=4.4e-17 Score=174.32 Aligned_cols=144 Identities=13% Similarity=0.101 Sum_probs=101.1
Q ss_pred HHHHHHHHHhc-ccCCcEEEEcCChhhHHHHHHHHHhCCC--cEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccC
Q 011104 337 MVIRDRIFELG-EKMGQTIIFVRTKNSASALHKALKDFGY--EVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARG 413 (493)
Q Consensus 337 ~~l~~~l~~~~-~~~~~~lVf~~s~~~~~~l~~~L~~~~~--~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~G 413 (493)
..+.+.+.... ...+++|||++|.+..+.++..|..... ....+.-++....|..+++.|+.+...||++|..+.+|
T Consensus 738 ~~la~~i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~~iLlG~~sFwEG 817 (928)
T PRK08074 738 EEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDKAILLGTSSFWEG 817 (928)
T ss_pred HHHHHHHHHHHHhCCCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCCeEEEecCcccCc
Confidence 34444444443 2467999999999999999999975432 12233334444567889999999988999999999999
Q ss_pred CCCCC--CCEEEEccCCCCCCCC----------------------CCCCcccccccccccccCCCcceEEEEeeCC-ccH
Q 011104 414 FDQQQ--VNLIVNYDPPVKHGKH----------------------LEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG-DDM 468 (493)
Q Consensus 414 ldi~~--v~~Vi~~~~p~~~~~~----------------------~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~-~~~ 468 (493)
+|+|+ +++||...+|....+. ++..+..+.|.+||.-|...+-.++.++..+ ...
T Consensus 818 VD~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v~ilD~R~~~k 897 (928)
T PRK08074 818 IDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTVFVLDRRLTTT 897 (928)
T ss_pred cccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEEEEecCccccc
Confidence 99998 4789999988743221 1122334479999999987665556565443 256
Q ss_pred HHHHHHHHHhCC
Q 011104 469 IIMEKIERYFDI 480 (493)
Q Consensus 469 ~~~~~i~~~~~~ 480 (493)
.|-+.|-+.++.
T Consensus 898 ~Yg~~~l~sLP~ 909 (928)
T PRK08074 898 SYGKYFLESLPT 909 (928)
T ss_pred hHHHHHHHhCCC
Confidence 677777777764
No 135
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=99.78 E-value=3.1e-17 Score=164.78 Aligned_cols=322 Identities=18% Similarity=0.223 Sum_probs=192.6
Q ss_pred CCchHHHhhhhhhcC---CC-----CccEEEeccCCCchhHHhHHHHHhccCCCCCC-----CeEEEEcCCHHHHHHHHH
Q 011104 123 KPSKIQAISLPMILT---PP-----YRNLIAQARNGSGKTTCFVLGMLSRVDPNLKA-----PQALCICPTRELAIQNLE 189 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~---~~-----~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~-----~~~lil~Pt~~La~q~~~ 189 (493)
.+.|+|++.+.-+.. |. ...+|++..+|+|||+..+. .+..+....+. .+.|||+|. .|...|.+
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~Is-flwtlLrq~P~~~~~~~k~lVV~P~-sLv~nWkk 315 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCIS-FIWTLLRQFPQAKPLINKPLVVAPS-SLVNNWKK 315 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHH-HHHHHHHhCcCccccccccEEEccH-HHHHHHHH
Confidence 466899999876642 21 14588899999999998544 44443333344 678999995 68899999
Q ss_pred HHHHHhcccCceeeEeecCCCCCcc-----cccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccC
Q 011104 190 VLRKMGKHTGITSECAVPTDSTNYV-----PISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAG 264 (493)
Q Consensus 190 ~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~ 264 (493)
.+.+|.....+....+.+.....+. ...........|++.+++.+.+.+.. +....++++|+||.|++-+..
T Consensus 316 EF~KWl~~~~i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~~~--il~~~~glLVcDEGHrlkN~~- 392 (776)
T KOG0390|consen 316 EFGKWLGNHRINPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASDYCRK--ILLIRPGLLVCDEGHRLKNSD- 392 (776)
T ss_pred HHHHhccccccceeeeecccchhhhhhHHHHHhhhhheeEEEEeccHHHHHHHHHH--HhcCCCCeEEECCCCCccchh-
Confidence 9999987545555445554432000 00111122346888888888765543 346778999999999987642
Q ss_pred CHHHHHHHHHHhhhcCCCeeEEEEeeecC-hh------------------------------------------------
Q 011104 265 FRDDSLRIMKDIERSSGHCQVLLFSATFN-ET------------------------------------------------ 295 (493)
Q Consensus 265 ~~~~~~~i~~~~~~~~~~~q~v~~SAT~~-~~------------------------------------------------ 295 (493)
..+...+..+. ..+.|++|+|+= ++
T Consensus 393 --s~~~kaL~~l~----t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~sf~k~~~~~i~~~~~~~~s~e~~~~~~r 466 (776)
T KOG0390|consen 393 --SLTLKALSSLK----TPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISSFKKKFEIPILRGRDADASEEDREREER 466 (776)
T ss_pred --hHHHHHHHhcC----CCceEEeeCCcccccHHHHHHHHhhcChhhccchHHHHHHhhcccccccCCCcchhhhhhHHH
Confidence 22333333333 346789999941 00
Q ss_pred ---HHHHHHHHhccCceeeeccccccccCceEEEEeCC------------------------------------------
Q 011104 296 ---VKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCP------------------------------------------ 330 (493)
Q Consensus 296 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------------ 330 (493)
+..+...++..... ..-...++....+.+.|.
T Consensus 467 l~eL~~~t~~fi~rrt~---~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~~~~~~~~~~l~~~~~L~k~cnhP~L~ 543 (776)
T KOG0390|consen 467 LQELRELTNKFILRRTG---DILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSMKMRTLKGYALELITKLKKLCNHPSLL 543 (776)
T ss_pred HHHHHHHHHhheeeccc---chhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHHHhhhhhcchhhHHHHHHHHhcCHHhh
Confidence 11111111111000 000000000001100000
Q ss_pred -------------------------------ChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHH-HHHHHHhCCCcEE
Q 011104 331 -------------------------------DELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASA-LHKALKDFGYEVT 378 (493)
Q Consensus 331 -------------------------------~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~-l~~~L~~~~~~~~ 378 (493)
....++..+..++....+...--.|++........ +...++-.|+.++
T Consensus 544 ~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~~~g~~~~ 623 (776)
T KOG0390|consen 544 LLCEKTEKEKAFKNPALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCRWRGYEVL 623 (776)
T ss_pred cccccccccccccChHhhhcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHHHHHhhcCceEE
Confidence 01223333333332222212122333333333333 3344445699999
Q ss_pred EecCCCCHHHHHHHHHHHHcCCC--c-EEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCc
Q 011104 379 TIMGATIQEERDKIVKEFKDGLT--Q-VLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRK 455 (493)
Q Consensus 379 ~l~~~~~~~~r~~~~~~f~~g~~--~-vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~ 455 (493)
.+||.|+..+|+.+++.|+.... . +|.+|-+.+.||++-+.+.||.||+.| +++.-.|+++|+-|.|++
T Consensus 624 rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dW--------NPa~d~QAmaR~~RdGQK 695 (776)
T KOG0390|consen 624 RLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDW--------NPAVDQQAMARAWRDGQK 695 (776)
T ss_pred EEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCCCC--------CchhHHHHHHHhccCCCc
Confidence 99999999999999999986543 3 567788999999999999999999995 556689999999999987
Q ss_pred ceE--EEEeeCCc
Q 011104 456 GVV--FNLLMDGD 466 (493)
Q Consensus 456 g~~--i~l~~~~~ 466 (493)
..| |.|++.+.
T Consensus 696 k~v~iYrLlatGt 708 (776)
T KOG0390|consen 696 KPVYIYRLLATGT 708 (776)
T ss_pred ceEEEEEeecCCC
Confidence 754 56666553
No 136
>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=99.77 E-value=2.7e-16 Score=157.95 Aligned_cols=126 Identities=16% Similarity=0.136 Sum_probs=89.0
Q ss_pred cCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHc----CCCcEEEEeCccccCCCC--------
Q 011104 349 KMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKD----GLTQVLISTDVLARGFDQ-------- 416 (493)
Q Consensus 349 ~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~----g~~~vLv~T~~~~~Gldi-------- 416 (493)
..|++||.+.|...++.++..|...--..+.+.|..+ .+..+++.|+. |...||++|+.+.+|+|+
T Consensus 469 ~~G~~lvLfTS~~~~~~~~~~l~~~l~~~~l~qg~~~--~~~~l~~~f~~~~~~~~~~vL~gt~sfweGvDv~~~~~~p~ 546 (636)
T TIGR03117 469 AQGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKN--RLASAEQQFLALYANGIQPVLIAAGGAWTGIDLTHKPVSPD 546 (636)
T ss_pred cCCCEEEEechHHHHHHHHHHHHhhcCCCEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEEeCCccccccccCCccCCCC
Confidence 4689999999999999999999654223344455442 35668888887 478999999999999999
Q ss_pred CC--CCEEEEccCCCCCCCCC-----------------CCCcccccccccccccCCCc--ceEEEEeeCCccHHHHHHHH
Q 011104 417 QQ--VNLIVNYDPPVKHGKHL-----------------EPDCEVYLHRIGRAGRFGRK--GVVFNLLMDGDDMIIMEKIE 475 (493)
Q Consensus 417 ~~--v~~Vi~~~~p~~~~~~~-----------------~~s~~~y~qr~GR~~R~g~~--g~~i~l~~~~~~~~~~~~i~ 475 (493)
|+ +++||+..+|....+.+ +...-.+.|-+||.-|...+ -.++.++.+.-...|.+.+.
T Consensus 547 ~G~~Ls~ViI~kLPF~~~dp~a~~~~~~~~g~~~f~~~p~a~i~lkQg~GRLIR~~~D~~~G~i~ilD~R~~~~yg~~~~ 626 (636)
T TIGR03117 547 KDNLLTDLIITCAPFGLNRSLSMLKRIRKTSVRPWEIINESLMMLRQGLGRLVRHPDMPQNRRIHMLDGRIHWPYMESWQ 626 (636)
T ss_pred CCCcccEEEEEeCCCCcCChHHHHHHHHhcCCChHhhhHHHHHHHHHhcCceeecCCCcCceEEEEEeCCCCchhHHHHH
Confidence 33 88999988886543211 11123347999999998766 45565666554455555554
Q ss_pred H
Q 011104 476 R 476 (493)
Q Consensus 476 ~ 476 (493)
.
T Consensus 627 ~ 627 (636)
T TIGR03117 627 E 627 (636)
T ss_pred H
Confidence 4
No 137
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=99.76 E-value=1.2e-17 Score=163.53 Aligned_cols=332 Identities=17% Similarity=0.171 Sum_probs=211.8
Q ss_pred CchHHHhhhhhhc--CCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCce
Q 011104 124 PSKIQAISLPMIL--TPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGIT 201 (493)
Q Consensus 124 ~~~~Q~~~i~~il--~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~ 201 (493)
+-++|.-.+.++. ....-+.|+..+.|-|||.+ .++.+..|......+.=|||||...| ..|.+.+.+|+.. +.
T Consensus 400 LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQ-vIaFlayLkq~g~~gpHLVVvPsSTl-eNWlrEf~kwCPs--l~ 475 (941)
T KOG0389|consen 400 LKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQ-VIAFLAYLKQIGNPGPHLVVVPSSTL-ENWLREFAKWCPS--LK 475 (941)
T ss_pred ccchhhhhHHHHHHHHHccccceehhhccCcchhH-HHHHHHHHHHcCCCCCcEEEecchhH-HHHHHHHHHhCCc--eE
Confidence 5678888887763 22225789999999999987 45566666544445556999999877 5677888888765 56
Q ss_pred eeEeecCCCCCccc--ccCCCCCCCcEEEeCchHHHHHHH-cCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh
Q 011104 202 SECAVPTDSTNYVP--ISKRPPVTAQVVIGTPGTIKKWMS-AKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER 278 (493)
Q Consensus 202 ~~~~~~~~~~~~~~--~~~~~~~~~~Ilv~Tp~~l~~~l~-~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~ 278 (493)
+.+.+|....+... .......+.+|+++|+.....--. +..+.-.++.++|+||+|.+.+..+ ..+..+++.-
T Consensus 476 Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~S--eRy~~LM~I~-- 551 (941)
T KOG0389|consen 476 VEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTS--ERYKHLMSIN-- 551 (941)
T ss_pred EEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhhhccch--HHHHHhcccc--
Confidence 66677765333211 112222378999999875531111 1122345678999999998876421 2233333322
Q ss_pred cCCCeeEEEEeeecC-hhHHHH---------------------------------------------HHHHhcc------
Q 011104 279 SSGHCQVLLFSATFN-ETVKNF---------------------------------------------VTRIVKD------ 306 (493)
Q Consensus 279 ~~~~~q~v~~SAT~~-~~~~~~---------------------------------------------~~~~~~~------ 306 (493)
..+.+++|+|+- .++.++ ++.++..
T Consensus 552 ---An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~~d~d~e~~~l~qerIsrAK~im~PFILRR~ 628 (941)
T KOG0389|consen 552 ---ANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKTSDGDIENALLSQERISRAKTIMKPFILRRL 628 (941)
T ss_pred ---ccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCCccchhhHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 235678888820 000000 0000000
Q ss_pred --------Cce---eee----------------------c--cccccccC----------------ceEEE---------
Q 011104 307 --------YNQ---LFV----------------------K--KEELSLES----------------VKQYK--------- 326 (493)
Q Consensus 307 --------~~~---~~~----------------------~--~~~~~~~~----------------~~~~~--------- 326 (493)
|.. |.. . .......+ .+++|
T Consensus 629 K~qVL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~ns~~~~~~vlmqlRK~AnHPLL~R~~Y~de~L~~ma 708 (941)
T KOG0389|consen 629 KSQVLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVSKNSELKSGNVLMQLRKAANHPLLFRSIYTDEKLRKMA 708 (941)
T ss_pred HHHHHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhccccccccccccchHHHHHHHHhcChhHHHHhccHHHHHHHH
Confidence 000 000 0 00000000 00000
Q ss_pred -----------------------------------------EeCC----ChHHHHHHHHHHHHHhcccCCcEEEEcCChh
Q 011104 327 -----------------------------------------VYCP----DELAKVMVIRDRIFELGEKMGQTIIFVRTKN 361 (493)
Q Consensus 327 -----------------------------------------~~~~----~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~ 361 (493)
+... -...|+..|..+|......+.++|||.+--.
T Consensus 709 k~il~e~ay~~~n~qyIfEDm~~msDfelHqLc~~f~~~~~f~L~d~~~mdSgK~r~L~~LLp~~k~~G~RVLiFSQFTq 788 (941)
T KOG0389|consen 709 KRILNEPAYKKANEQYIFEDMEVMSDFELHQLCCQFRHLSKFQLKDDLWMDSGKCRKLKELLPKIKKKGDRVLIFSQFTQ 788 (941)
T ss_pred HHHhCchhhhhcCHHHHHHHHHhhhHHHHHHHHHhcCCCcccccCCchhhhhhhHhHHHHHHHHHhhcCCEEEEeeHHHH
Confidence 0000 0224566666777777777899999999999
Q ss_pred hHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCC--CcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCc
Q 011104 362 SASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGL--TQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDC 439 (493)
Q Consensus 362 ~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~--~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~ 439 (493)
..+.|.-.|..+++....+.|...-..|+.++..|...+ .-+|++|.+.+-|||+..+++||.+|... ++
T Consensus 789 mLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG~GINLt~An~VIihD~dF--------NP 860 (941)
T KOG0389|consen 789 MLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGGFGINLTCANTVIIHDIDF--------NP 860 (941)
T ss_pred HHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeeccCcceecccccceEEEeecCC--------CC
Confidence 999999999999999999999999999999999998765 34689999999999999999999999984 44
Q ss_pred ccccccccccccCCCcc--eEEEEeeCCccHHHHHHH
Q 011104 440 EVYLHRIGRAGRFGRKG--VVFNLLMDGDDMIIMEKI 474 (493)
Q Consensus 440 ~~y~qr~GR~~R~g~~g--~~i~l~~~~~~~~~~~~i 474 (493)
-.-.|.--|+.|.|+.. .++.|++.+.-...+..+
T Consensus 861 ~dD~QAEDRcHRvGQtkpVtV~rLItk~TIEE~I~~l 897 (941)
T KOG0389|consen 861 YDDKQAEDRCHRVGQTKPVTVYRLITKSTIEEGILRL 897 (941)
T ss_pred cccchhHHHHHhhCCcceeEEEEEEecCcHHHHHHHH
Confidence 44678888888887654 688899987644444443
No 138
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=99.76 E-value=1.7e-15 Score=141.27 Aligned_cols=329 Identities=15% Similarity=0.174 Sum_probs=210.0
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCcee
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITS 202 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~ 202 (493)
.+.|+|+..+...++.. ..+++....|-|||+.++.-+..+. ...-.|||||.. +--.|.+.+.+|...... +
T Consensus 198 ~LlPFQreGv~faL~Rg-GR~llADeMGLGKTiQAlaIA~yyr----aEwplliVcPAs-vrftWa~al~r~lps~~p-i 270 (689)
T KOG1000|consen 198 RLLPFQREGVIFALERG-GRILLADEMGLGKTIQALAIARYYR----AEWPLLIVCPAS-VRFTWAKALNRFLPSIHP-I 270 (689)
T ss_pred hhCchhhhhHHHHHhcC-CeEEEecccccchHHHHHHHHHHHh----hcCcEEEEecHH-HhHHHHHHHHHhcccccc-e
Confidence 34589999888777642 6899999999999999655443332 233579999975 567888888888765443 2
Q ss_pred eEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCC
Q 011104 203 ECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGH 282 (493)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~ 282 (493)
..+.+.. .. .-.......|.|.+++.+..+-. .+.-..+++||+||.|.+.+ +-......++..+.. -
T Consensus 271 ~vv~~~~-D~----~~~~~t~~~v~ivSye~ls~l~~--~l~~~~~~vvI~DEsH~Lk~--sktkr~Ka~~dllk~---a 338 (689)
T KOG1000|consen 271 FVVDKSS-DP----LPDVCTSNTVAIVSYEQLSLLHD--ILKKEKYRVVIFDESHMLKD--SKTKRTKAATDLLKV---A 338 (689)
T ss_pred EEEeccc-CC----ccccccCCeEEEEEHHHHHHHHH--HHhcccceEEEEechhhhhc--cchhhhhhhhhHHHH---h
Confidence 2222221 11 01111234689999988765432 33344588999999999876 233334444444443 3
Q ss_pred eeEEEEeeecC-------------------hhHHHHHHHHhccCc-eeeeccc---------------------------
Q 011104 283 CQVLLFSATFN-------------------ETVKNFVTRIVKDYN-QLFVKKE--------------------------- 315 (493)
Q Consensus 283 ~q~v~~SAT~~-------------------~~~~~~~~~~~~~~~-~~~~~~~--------------------------- 315 (493)
.+++++|+|+. ++..++..+++..-. .+..+..
T Consensus 339 khvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL~ 418 (689)
T KOG1000|consen 339 KHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYKGCTNLEELAALLFKRLMIRRLKADVLK 418 (689)
T ss_pred hheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46899999952 222333333332110 1111100
Q ss_pred cccccCceEEEEeCCCh------------------------------------HHHHHHHHHHHHH----hcccCCcEEE
Q 011104 316 ELSLESVKQYKVYCPDE------------------------------------LAKVMVIRDRIFE----LGEKMGQTII 355 (493)
Q Consensus 316 ~~~~~~~~~~~~~~~~~------------------------------------~~~~~~l~~~l~~----~~~~~~~~lV 355 (493)
..++. -++..+.+... ..|+..+.+.|.. ....+.+.+|
T Consensus 419 qLPpK-rr~Vv~~~~gr~da~~~~lv~~a~~~t~~~~~e~~~~~l~l~y~~tgiaK~~av~eyi~~~~~l~d~~~~KflV 497 (689)
T KOG1000|consen 419 QLPPK-RREVVYVSGGRIDARMDDLVKAAADYTKVNSMERKHESLLLFYSLTGIAKAAAVCEYILENYFLPDAPPRKFLV 497 (689)
T ss_pred hCCcc-ceEEEEEcCCccchHHHHHHHHhhhcchhhhhhhhhHHHHHHHHHhcccccHHHHHHHHhCcccccCCCceEEE
Confidence 01111 12222222210 1122333344444 2234568999
Q ss_pred EcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCC-CcE-EEEeCccccCCCCCCCCEEEEccCCCCCCC
Q 011104 356 FVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGL-TQV-LISTDVLARGFDQQQVNLIVNYDPPVKHGK 433 (493)
Q Consensus 356 f~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~-~~v-Lv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~ 433 (493)
|+......+.+-..+++.++....+.|..+...|....+.|+..+ +.| +++-.+++.||++...+.|++..++|++
T Consensus 498 FaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnP-- 575 (689)
T KOG1000|consen 498 FAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNP-- 575 (689)
T ss_pred EehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeecccceeeeccceEEEEEecCCC--
Confidence 999999999999999999999999999999999999999998654 444 5566889999999999999999999654
Q ss_pred CCCCCcccccccccccccCCCcceEE--EEeeCCc-cHHHHHHHHHHhC
Q 011104 434 HLEPDCEVYLHRIGRAGRFGRKGVVF--NLLMDGD-DMIIMEKIERYFD 479 (493)
Q Consensus 434 ~~~~s~~~y~qr~GR~~R~g~~g~~i--~l~~~~~-~~~~~~~i~~~~~ 479 (493)
.-++|.--|+.|.|+...+. .|+..+. +.+....+++.++
T Consensus 576 ------gvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~~KL~ 618 (689)
T KOG1000|consen 576 ------GVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPMLQQKLD 618 (689)
T ss_pred ------ceEEechhhhhhccccceeeEEEEEecCchHHHHHHHHHHHHH
Confidence 44899999999988765433 3343333 5556666666554
No 139
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=99.75 E-value=1.7e-16 Score=160.69 Aligned_cols=283 Identities=15% Similarity=0.163 Sum_probs=180.3
Q ss_pred hCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 118 EMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 118 ~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.+|.. |+++|-..--.+..| -|+.+.||-|||+++.+|+.-.. ..+..+-||+++.-||..=++++..+...
T Consensus 81 ~lG~r-~ydVQliGgl~Lh~G----~IAEM~TGEGKTL~atlpaylnA---L~GkgVhVVTvNdYLA~RDae~m~~vy~~ 152 (939)
T PRK12902 81 VLGMR-HFDVQLIGGMVLHEG----QIAEMKTGEGKTLVATLPSYLNA---LTGKGVHVVTVNDYLARRDAEWMGQVHRF 152 (939)
T ss_pred HhCCC-cchhHHHhhhhhcCC----ceeeecCCCChhHHHHHHHHHHh---hcCCCeEEEeCCHHHHHhHHHHHHHHHHH
Confidence 35665 888988766555554 79999999999999998886433 35667999999999999999999999999
Q ss_pred cCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-----HHHHHc--CccCCCCeeEEEEecchhhhcccC------
Q 011104 198 TGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-----KKWMSA--KKLGFSRLKILVYDEADHMLDEAG------ 264 (493)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-----~~~l~~--~~~~~~~~~~iVlDEah~l~~~~~------ 264 (493)
+|+++.+........ .++....+||+++|+..| .+.+.. .......+.+.||||+|.++-+..
T Consensus 153 LGLtvg~i~~~~~~~----err~aY~~DItYgTn~e~gFDYLRDnm~~~~~~~vqR~~~faIVDEvDSILIDEArTPLII 228 (939)
T PRK12902 153 LGLSVGLIQQDMSPE----ERKKNYACDITYATNSELGFDYLRDNMATDISEVVQRPFNYCVIDEVDSILIDEARTPLII 228 (939)
T ss_pred hCCeEEEECCCCChH----HHHHhcCCCeEEecCCcccccchhhhhcccccccccCccceEEEecccceeeccCCCcccc
Confidence 999999876544322 233344689999999877 444432 223457788999999998642111
Q ss_pred ---------CHHHHHHHHHHhhh------c-----CCCe-----------------------------------------
Q 011104 265 ---------FRDDSLRIMKDIER------S-----SGHC----------------------------------------- 283 (493)
Q Consensus 265 ---------~~~~~~~i~~~~~~------~-----~~~~----------------------------------------- 283 (493)
.......+...+.. . ....
T Consensus 229 Sg~~~~~~~~y~~~~~~~~~L~~~~~~~~~~dy~idek~~~v~LTe~G~~~~e~~~~i~nLy~~~~~~~~~i~~AL~A~~ 308 (939)
T PRK12902 229 SGQVERPQEKYQKAAEVAAALQRKDGIDPEGDYEVDEKQRNVLLTDEGFAKAEQLLGVSDLFDPQDPWAHYIFNALKAKE 308 (939)
T ss_pred cCCCccchHHHHHHHHHHHHhhhhcccCCCCCeEEecCCCeeeEcHHHHHHHHHHhCchhhcCcccHHHHHHHHHHHHHH
Confidence 11112222222222 0 0011
Q ss_pred -------------------------------------------------------------------eEEEEeeecChhH
Q 011104 284 -------------------------------------------------------------------QVLLFSATFNETV 296 (493)
Q Consensus 284 -------------------------------------------------------------------q~v~~SAT~~~~~ 296 (493)
++.+||+|.....
T Consensus 309 lf~~d~dYiV~dg~V~IVDe~TGR~m~grrws~GLHQaIEaKE~v~it~e~~tlAsIT~QnfFr~Y~kLsGMTGTa~te~ 388 (939)
T PRK12902 309 LFIKDVNYIVRNGEVVIVDEFTGRVMPGRRWSDGLHQAIEAKEGVEIQPETQTLASITYQNFFLLYPKLAGMTGTAKTEE 388 (939)
T ss_pred HHhcCCeEEEECCEEEEEECCCCCCCCCCccchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHhhCchhcccCCCCHHHH
Confidence 2222333322222
Q ss_pred HHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCc
Q 011104 297 KNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYE 376 (493)
Q Consensus 297 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~ 376 (493)
.++..-+-. ..+. .+...+..........+.....|...+.+.+......+.|+||-+.|++..+.++..|.+.|+.
T Consensus 389 ~Ef~~iY~l--~Vv~-IPTnkP~~R~d~~d~vy~t~~~K~~Ai~~ei~~~~~~GrPVLIgT~SVe~SE~ls~~L~~~gi~ 465 (939)
T PRK12902 389 VEFEKTYKL--EVTV-IPTNRPRRRQDWPDQVYKTEIAKWRAVANETAEMHKQGRPVLVGTTSVEKSELLSALLQEQGIP 465 (939)
T ss_pred HHHHHHhCC--cEEE-cCCCCCeeeecCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEeeCCHHHHHHHHHHHHHcCCc
Confidence 111111110 0011 1111111111111223345567888888888888888999999999999999999999999999
Q ss_pred EEEecCCCCHHHHH-HHHHHHHcCCC-cEEEEeCccccCCCCC
Q 011104 377 VTTIMGATIQEERD-KIVKEFKDGLT-QVLISTDVLARGFDQQ 417 (493)
Q Consensus 377 ~~~l~~~~~~~~r~-~~~~~f~~g~~-~vLv~T~~~~~Gldi~ 417 (493)
...++..-....++ .++. ..|.. .|.|||++++||-||.
T Consensus 466 h~vLNAk~~~~~~EA~IIa--~AG~~GaVTIATNMAGRGTDIk 506 (939)
T PRK12902 466 HNLLNAKPENVEREAEIVA--QAGRKGAVTIATNMAGRGTDII 506 (939)
T ss_pred hheeeCCCcchHhHHHHHH--hcCCCCcEEEeccCCCCCcCEe
Confidence 99999873322333 3333 24543 5899999999998874
No 140
>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=99.75 E-value=2.5e-18 Score=127.26 Aligned_cols=78 Identities=45% Similarity=0.744 Sum_probs=75.0
Q ss_pred HHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCccccccccc
Q 011104 368 KALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIG 447 (493)
Q Consensus 368 ~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~G 447 (493)
++|+..++.+..+||++++.+|..+++.|+++...|||||+++++|+|+|.+++||++++| .++..|.|++|
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gid~~~~~~vi~~~~~--------~~~~~~~Q~~G 72 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDILGEGIDLPDASHVIFYDPP--------WSPEEYIQRIG 72 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCGGTTSSTSTTESEEEESSSE--------SSHHHHHHHHT
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeeccccccccccccccccccccC--------CCHHHHHHHhh
Confidence 4688899999999999999999999999999999999999999999999999999999999 78999999999
Q ss_pred ccccCC
Q 011104 448 RAGRFG 453 (493)
Q Consensus 448 R~~R~g 453 (493)
|++|.|
T Consensus 73 R~~R~g 78 (78)
T PF00271_consen 73 RAGRIG 78 (78)
T ss_dssp TSSTTT
T ss_pred cCCCCC
Confidence 999986
No 141
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=99.74 E-value=1e-16 Score=163.41 Aligned_cols=332 Identities=19% Similarity=0.202 Sum_probs=206.9
Q ss_pred CchHHHhhhhhh--cCCCCccEEEeccCCCchhHHhHHHHHhccCCC------CCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 124 PSKIQAISLPMI--LTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN------LKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 124 ~~~~Q~~~i~~i--l~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~------~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
++.+|...+.++ |+.-+-+-|+|...|-|||++.+--+......+ ....-.|||||. .|+--|...+.+|+
T Consensus 976 LRkYQqEGVnWLaFLnky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPs-TLtGHW~~E~~kf~ 1054 (1549)
T KOG0392|consen 976 LRKYQQEGVNWLAFLNKYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPS-TLTGHWKSEVKKFF 1054 (1549)
T ss_pred HHHHHHhccHHHHHHHHhcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCc-hhhhHHHHHHHHhc
Confidence 356788888776 333225789999999999999654333222221 122337999996 58888999999998
Q ss_pred cccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHH
Q 011104 196 KHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKD 275 (493)
Q Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~ 275 (493)
..+. +....|....+ ...+..-...+|+|+.++.+..-+. .+.-..+.++|+||.|.+.+. ...+...++.
T Consensus 1055 pfL~--v~~yvg~p~~r--~~lR~q~~~~~iiVtSYDv~RnD~d--~l~~~~wNYcVLDEGHVikN~---ktkl~kavkq 1125 (1549)
T KOG0392|consen 1055 PFLK--VLQYVGPPAER--RELRDQYKNANIIVTSYDVVRNDVD--YLIKIDWNYCVLDEGHVIKNS---KTKLTKAVKQ 1125 (1549)
T ss_pred chhh--hhhhcCChHHH--HHHHhhccccceEEeeHHHHHHHHH--HHHhcccceEEecCcceecch---HHHHHHHHHH
Confidence 7743 33333332221 2222333457999999988753222 111234668999999988763 3445555555
Q ss_pred hhhcCCCeeEEEEeeec---------------------------------------------------------------
Q 011104 276 IERSSGHCQVLLFSATF--------------------------------------------------------------- 292 (493)
Q Consensus 276 ~~~~~~~~q~v~~SAT~--------------------------------------------------------------- 292 (493)
+... ..+++|+|+
T Consensus 1126 L~a~----hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEKqFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVLP 1201 (1549)
T KOG0392|consen 1126 LRAN----HRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKQFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVLP 1201 (1549)
T ss_pred Hhhc----ceEEeeCCCcccCHHHHHHHHHHhcccccCcHHHHHHHhcchhhhhcCcccchhHHHhhHHHHHHHHHHHHH
Confidence 5542 468899993
Q ss_pred --------------Ch------------hHHHHHHHHhccCc---eeeeccccccccC---------------ceEEE-E
Q 011104 293 --------------NE------------TVKNFVTRIVKDYN---QLFVKKEELSLES---------------VKQYK-V 327 (493)
Q Consensus 293 --------------~~------------~~~~~~~~~~~~~~---~~~~~~~~~~~~~---------------~~~~~-~ 327 (493)
|+ --.++.+.+..... ............. -.|.. +
T Consensus 1202 F~LRRlKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLv 1281 (1549)
T KOG0392|consen 1202 FLLRRLKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQALQYLRKLCNHPALV 1281 (1549)
T ss_pred HHHHHHHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHHhccccccccccchhccCcchHHHHHHHHHHHHhcCCccee
Confidence 00 00111111111100 0000000000000 00000 0
Q ss_pred eCC----------------------ChHHHHHHHHHHHHHhcc--------------cCCcEEEEcCChhhHHHHHHHHH
Q 011104 328 YCP----------------------DELAKVMVIRDRIFELGE--------------KMGQTIIFVRTKNSASALHKALK 371 (493)
Q Consensus 328 ~~~----------------------~~~~~~~~l~~~l~~~~~--------------~~~~~lVf~~s~~~~~~l~~~L~ 371 (493)
..+ ....|+..+.+.+.+..- ..+++||||+-+..++.+.+-|-
T Consensus 1282 lt~~hp~la~i~~~l~~~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL~ 1361 (1549)
T KOG0392|consen 1282 LTPVHPDLAAIVSHLAHFNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDLF 1361 (1549)
T ss_pred eCCCcchHHHHHHHHHHhhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHHh
Confidence 000 011344455555544321 23689999999999999988775
Q ss_pred hC---CCcEEEecCCCCHHHHHHHHHHHHcC-CCcEE-EEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccc
Q 011104 372 DF---GYEVTTIMGATIQEERDKIVKEFKDG-LTQVL-ISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRI 446 (493)
Q Consensus 372 ~~---~~~~~~l~~~~~~~~r~~~~~~f~~g-~~~vL-v~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~ 446 (493)
+. .+....+.|..++.+|.++.++|+++ .+.|| ++|-+.+-|+|+.+++.||+++-.|++.+ -+|.+
T Consensus 1362 k~~mpsVtymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMr--------DLQAM 1433 (1549)
T KOG0392|consen 1362 KKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMR--------DLQAM 1433 (1549)
T ss_pred hhhcCceeEEEecCCCCcHHHHHHHHHhcCCCceeEEEEeeeccccccccCCCceEEEEecCCCchh--------hHHHH
Confidence 44 33455999999999999999999999 56665 67799999999999999999999877655 48999
Q ss_pred cccccCCCcce--EEEEeeCCccHHHHHHHHHH
Q 011104 447 GRAGRFGRKGV--VFNLLMDGDDMIIMEKIERY 477 (493)
Q Consensus 447 GR~~R~g~~g~--~i~l~~~~~~~~~~~~i~~~ 477 (493)
-||.|-|++-+ ++.|++.+.=...++-+++|
T Consensus 1434 DRAHRIGQKrvVNVyRlItrGTLEEKVMgLQkF 1466 (1549)
T KOG0392|consen 1434 DRAHRIGQKRVVNVYRLITRGTLEEKVMGLQKF 1466 (1549)
T ss_pred HHHHhhcCceeeeeeeehhcccHHHHHhhHHHH
Confidence 99999998764 67888887755555555554
No 142
>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=99.71 E-value=1.5e-14 Score=138.29 Aligned_cols=291 Identities=18% Similarity=0.250 Sum_probs=202.4
Q ss_pred CCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc-Cc------eeeEe--------------------------ecCCCCC
Q 011104 166 DPNLKAPQALCICPTRELAIQNLEVLRKMGKHT-GI------TSECA--------------------------VPTDSTN 212 (493)
Q Consensus 166 ~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~-~~------~~~~~--------------------------~~~~~~~ 212 (493)
++....|++|||+|+|..|..+.+.+..+.... .+ ...+. .|.....
T Consensus 32 DQGftRPkVLIL~P~R~~A~~~V~~Li~l~~~~~~~~nk~RF~~efg~~~~~~~~~~~~~~~~~kP~D~~~~F~GN~DD~ 111 (442)
T PF06862_consen 32 DQGFTRPKVLILLPFRNSALRIVETLISLLPPGKQVENKKRFEEEFGLPEDEDDDEEPPEFKKSKPEDFKALFSGNNDDC 111 (442)
T ss_pred ccCCCCceEEEEcccHHHHHHHHHHHHHHcCccchHHHHHHHHHHcCCCccccchhhhccccCCCchhHHHhcCCCccce
Confidence 344567899999999999999999888776541 10 00000 0000000
Q ss_pred c---------ccccCCCCCCCcEEEeCchHHHHHHHc------CccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhh
Q 011104 213 Y---------VPISKRPPVTAQVVIGTPGTIKKWMSA------KKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIE 277 (493)
Q Consensus 213 ~---------~~~~~~~~~~~~Ilv~Tp~~l~~~l~~------~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~ 277 (493)
. ...........|||||+|-.|...+.. +.-.++++.++|+|.||.++- .-++++..+++.+.
T Consensus 112 FrlGik~trk~ikLys~Fy~SDIIiASPLGLr~~i~~~~~~~~d~DFLSSIEv~iiD~ad~l~M--QNW~Hv~~v~~~lN 189 (442)
T PF06862_consen 112 FRLGIKFTRKSIKLYSDFYSSDIIIASPLGLRMIIGEEGEKKRDYDFLSSIEVLIIDQADVLLM--QNWEHVLHVFEHLN 189 (442)
T ss_pred EEEeEEEecCeeeeecccccCCEEEEChHHHHHHhccccccccccchhheeeeEeechhhHHHH--hhHHHHHHHHHHhc
Confidence 0 000011223679999999999888874 334588999999999999884 56888888888886
Q ss_pred hcCC---------------------CeeEEEEeeecChhHHHHHHHHhccCcee-eecc--c-----cccccCceEEEEe
Q 011104 278 RSSG---------------------HCQVLLFSATFNETVKNFVTRIVKDYNQL-FVKK--E-----ELSLESVKQYKVY 328 (493)
Q Consensus 278 ~~~~---------------------~~q~v~~SAT~~~~~~~~~~~~~~~~~~~-~~~~--~-----~~~~~~~~~~~~~ 328 (493)
..+. -+|+|++|+..++++..++...+.++... .... . ..-...+.|.+..
T Consensus 190 ~~P~~~~~~DfsRVR~w~Ldg~a~~~RQtii~S~~~~pe~~slf~~~~~N~~G~v~~~~~~~~~g~i~~v~~~v~Q~F~r 269 (442)
T PF06862_consen 190 LQPKKSHDTDFSRVRPWYLDGQAKYYRQTIIFSSFQTPEINSLFNRHCQNYAGKVRLKPPYEASGVISQVVVQVRQVFQR 269 (442)
T ss_pred cCCCCCCCCCHHHHHHHHHcCcchheeEeEEecCCCCHHHHHHHHhhCcCccceEEEeeccccceeeeccccCCceEEEE
Confidence 5442 16999999999999999998876665322 2211 1 1122345565554
Q ss_pred CC--C----hHHHHHHHHHHHH-Hh--cccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcC
Q 011104 329 CP--D----ELAKVMVIRDRIF-EL--GEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDG 399 (493)
Q Consensus 329 ~~--~----~~~~~~~l~~~l~-~~--~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g 399 (493)
.+ + ...........+. .. ....+++|||++|.-+-.++..+|++.++....+|-..++.+-.++-..|..|
T Consensus 270 ~~~~s~~~~~d~Rf~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G 349 (442)
T PF06862_consen 270 FDCSSPADDPDARFKYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHG 349 (442)
T ss_pred ecCCCcchhhhHHHHHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcC
Confidence 33 2 1223333333222 22 23568999999999999999999999999999999999999999999999999
Q ss_pred CCcEEEEeCccc--cCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCC------CcceEEEEeeCCc
Q 011104 400 LTQVLISTDVLA--RGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFG------RKGVVFNLLMDGD 466 (493)
Q Consensus 400 ~~~vLv~T~~~~--~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g------~~g~~i~l~~~~~ 466 (493)
+..||+.|.-+. +-..+.++++||.|++| ..+.-|...++-.+... ....|.++|+.-+
T Consensus 350 ~~~iLL~TER~HFfrRy~irGi~~viFY~~P--------~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk~D 416 (442)
T PF06862_consen 350 RKPILLYTERFHFFRRYRIRGIRHVIFYGPP--------ENPQFYSELLNMLDESSGGEVDAADATVTVLYSKYD 416 (442)
T ss_pred CceEEEEEhHHhhhhhceecCCcEEEEECCC--------CChhHHHHHHhhhcccccccccccCceEEEEecHhH
Confidence 999999997654 77889999999999999 55555655554433322 3578899998654
No 143
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.71 E-value=1.1e-15 Score=156.29 Aligned_cols=330 Identities=17% Similarity=0.182 Sum_probs=212.3
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHH-HHHHhcccCce
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEV-LRKMGKHTGIT 201 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~-~~~~~~~~~~~ 201 (493)
..+|+|.++++.+.+. +.++++.+|+|||||.++-++++. .....+++++.|..+.+.-+++. -+++....|..
T Consensus 1143 ~~n~iqtqVf~~~y~~-nd~v~vga~~gsgkt~~ae~a~l~----~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G~~ 1217 (1674)
T KOG0951|consen 1143 DFNPIQTQVFTSLYNT-NDNVLVGAPNGSGKTACAELALLR----PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLGLR 1217 (1674)
T ss_pred ccCCceEEEEeeeecc-cceEEEecCCCCchhHHHHHHhcC----CccceEEEEecchHHHHHHHHHHHHHhhccccCce
Confidence 3489999999999876 389999999999999998887775 34556899999999999888864 45666666766
Q ss_pred eeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCH----HHHHHHHHHhh
Q 011104 202 SECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFR----DDSLRIMKDIE 277 (493)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~----~~~~~i~~~~~ 277 (493)
+.-+.|..+.+. ......+|+|+||+++-.+ + ....+++.|.||.|.+.+..|-. -.++.|...+.
T Consensus 1218 ~~~l~ge~s~~l-----kl~~~~~vii~tpe~~d~l-q----~iQ~v~l~i~d~lh~igg~~g~v~evi~S~r~ia~q~~ 1287 (1674)
T KOG0951|consen 1218 IVKLTGETSLDL-----KLLQKGQVIISTPEQWDLL-Q----SIQQVDLFIVDELHLIGGVYGAVYEVICSMRYIASQLE 1287 (1674)
T ss_pred EEecCCccccch-----HHhhhcceEEechhHHHHH-h----hhhhcceEeeehhhhhcccCCceEEEEeeHHHHHHHHH
Confidence 665555554433 2233468999999997654 3 46778999999999876432210 11445555555
Q ss_pred hcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccC--ceEEEEeCCChHH----HHHHHHHHHHHhcccCC
Q 011104 278 RSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLES--VKQYKVYCPDELA----KVMVIRDRIFELGEKMG 351 (493)
Q Consensus 278 ~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~----~~~~l~~~l~~~~~~~~ 351 (493)
+ +++++.+|..+.+.- +++ ......++.......+.. +....+....... ........+......++
T Consensus 1288 k---~ir~v~ls~~lana~-d~i---g~s~~~v~Nf~p~~R~~Pl~i~i~~~~~~~~~~~~~am~~~~~~ai~~~a~~~k 1360 (1674)
T KOG0951|consen 1288 K---KIRVVALSSSLANAR-DLI---GASSSGVFNFSPSVRPVPLEIHIQSVDISHFESRMLAMTKPTYTAIVRHAGNRK 1360 (1674)
T ss_pred h---heeEEEeehhhccch-hhc---cccccceeecCcccCCCceeEEEEEeccchhHHHHHHhhhhHHHHHHHHhcCCC
Confidence 5 678899988865322 111 111111211111111111 1111122221111 12222333455555688
Q ss_pred cEEEEcCChhhHHHHHHHHHhC----------------------CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCc
Q 011104 352 QTIIFVRTKNSASALHKALKDF----------------------GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDV 409 (493)
Q Consensus 352 ~~lVf~~s~~~~~~l~~~L~~~----------------------~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~ 409 (493)
+.+||+++++.|..++.-|-.. .++..+=|-+++..+..-+-..|..|.+.|+|...-
T Consensus 1361 ~~~vf~p~rk~~~~~a~~~~~~s~~~~~~~l~~~~e~~~~~l~e~l~~gvg~e~~s~~d~~iv~~l~e~g~i~v~v~s~~ 1440 (1674)
T KOG0951|consen 1361 PAIVFLPTRKHARLVAVDLVTFSHADEPDYLLSELEECDETLRESLKHGVGHEGLSSNDQEIVQQLFEAGAIQVCVMSRD 1440 (1674)
T ss_pred CeEEEeccchhhhhhhhccchhhccCcHHHHHHHHhcchHhhhhcccccccccccCcchHHHHHHHHhcCcEEEEEEEcc
Confidence 9999999999998886543221 222333388999999999999999999999988866
Q ss_pred cccCCCCCCCCEEEEccCCCCCCC---CCCCCcccccccccccccCCCcceEEEEeeCCccHHHHHHHHHHhC
Q 011104 410 LARGFDQQQVNLIVNYDPPVKHGK---HLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDDMIIMEKIERYFD 479 (493)
Q Consensus 410 ~~~Gldi~~v~~Vi~~~~p~~~~~---~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~~~~i~~~~~ 479 (493)
..|+-.. .+.||-.+.-...+. +..-+.....|+.|+|.| .|.|+.+....+..+|-+++.+-|+
T Consensus 1441 -~~~~~~~-~~lVvvmgt~~ydg~e~~~~~y~i~~ll~m~G~a~~---~~k~vi~~~~~~k~yykkfl~e~lP 1508 (1674)
T KOG0951|consen 1441 -CYGTKLK-AHLVVVMGTQYYDGKEHSYEDYPIAELLQMVGLASG---AGKCVIMCHTPKKEYYKKFLYEPLP 1508 (1674)
T ss_pred -ccccccc-ceEEEEecceeecccccccccCchhHHHHHhhhhcC---CccEEEEecCchHHHHHHhccCcCc
Confidence 7777663 344554443322221 223456778999999998 6799988877766665555544443
No 144
>COG4889 Predicted helicase [General function prediction only]
Probab=99.69 E-value=4.7e-17 Score=160.71 Aligned_cols=337 Identities=17% Similarity=0.239 Sum_probs=193.1
Q ss_pred HHHHHHHhhCCCCCCchHHHhhhhhhcCCC--CccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHH
Q 011104 110 ELLKGLYVEMKFQKPSKIQAISLPMILTPP--YRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQN 187 (493)
Q Consensus 110 ~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~--~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~ 187 (493)
++..++.- ..-.+|.|+|+.||...+.|= +..-=+.+.+|+|||+..+ -+.+.+. ..++|+++|+..|..|.
T Consensus 149 e~~~nl~l-~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsL-kisEala----~~~iL~LvPSIsLLsQT 222 (1518)
T COG4889 149 ELQDNLPL-KKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSL-KISEALA----AARILFLVPSISLLSQT 222 (1518)
T ss_pred cccccccc-CCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHH-HHHHHHh----hhheEeecchHHHHHHH
Confidence 44444433 456689999999999998761 1223344568999999854 3444443 26899999999999997
Q ss_pred HHHHHHHhcccCceeeEeecCCCCCcc-----------------------cccCCCCCCCcEEEeCchHHHHHHHcCccC
Q 011104 188 LEVLRKMGKHTGITSECAVPTDSTNYV-----------------------PISKRPPVTAQVVIGTPGTIKKWMSAKKLG 244 (493)
Q Consensus 188 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~ 244 (493)
.+.+..-.. +.+....+......... ........+--|+++|++.+...-......
T Consensus 223 lrew~~~~~-l~~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G 301 (1518)
T COG4889 223 LREWTAQKE-LDFRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIKEAQEAG 301 (1518)
T ss_pred HHHHhhccC-ccceeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHHHHHHHHcC
Confidence 765443211 12222222211111000 001112234469999999998877666667
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhh--hcCCCeeEEEEeeecC---hhHHH---------------------
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIE--RSSGHCQVLLFSATFN---ETVKN--------------------- 298 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~--~~~~~~q~v~~SAT~~---~~~~~--------------------- 298 (493)
+.-+++||.||||+-...+--.+.-. -+..+. .+-...+.+.||||+. ...+.
T Consensus 302 ~~~fDliicDEAHRTtGa~~a~dd~s-aFt~vHs~~niKa~kRlYmTATPkiy~eS~K~kAkd~s~~l~SMDDe~~fGee 380 (1518)
T COG4889 302 LDEFDLIICDEAHRTTGATLAGDDKS-AFTRVHSDQNIKAAKRLYMTATPKIYSESSKAKAKDHSAELSSMDDELTFGEE 380 (1518)
T ss_pred CCCccEEEecchhccccceecccCcc-cceeecCcchhHHHHhhhcccCchhhchhhhhhhhhccceeeccchhhhhchh
Confidence 88899999999998654210000000 000000 0001235688899853 11111
Q ss_pred ---------HHHHHhccCceeeeccccccccCceEEEEeCCC------hHHHHHHHHHHHHHhcc-------------cC
Q 011104 299 ---------FVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD------ELAKVMVIRDRIFELGE-------------KM 350 (493)
Q Consensus 299 ---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~l~~~l~~~~~-------------~~ 350 (493)
..+.++.++.++.............+....-+. ...++.-...-+.+... ..
T Consensus 381 f~rl~FgeAv~rdlLTDYKVmvlaVd~~~i~~~~~~~~~~~~~~L~~dd~~kIvG~wnGlakr~g~~n~~~~~~~d~ap~ 460 (1518)
T COG4889 381 FHRLGFGEAVERDLLTDYKVMVLAVDKEVIAGVLQSVLSGPSKGLALDDVSKIVGCWNGLAKRNGEDNDLKNIKADTAPM 460 (1518)
T ss_pred hhcccHHHHHHhhhhccceEEEEEechhhhhhhhhhhccCcccccchhhhhhhhhhhhhhhhhccccccccCCcCCchHH
Confidence 112233344433332222211111111111111 01111111111222111 01
Q ss_pred CcEEEEcCChhhHHHHHHHHHh-------------CC--CcEEEecCCCCHHHHHHHHHH---HHcCCCcEEEEeCcccc
Q 011104 351 GQTIIFVRTKNSASALHKALKD-------------FG--YEVTTIMGATIQEERDKIVKE---FKDGLTQVLISTDVLAR 412 (493)
Q Consensus 351 ~~~lVf~~s~~~~~~l~~~L~~-------------~~--~~~~~l~~~~~~~~r~~~~~~---f~~g~~~vLv~T~~~~~ 412 (493)
.+.|-||.+++....+++.+.. .+ +.+.-+.|.|+-.+|...+.. |.+..++||--..++++
T Consensus 461 ~RAIaF~k~I~tSK~i~~sFe~Vve~Y~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNaRcLSE 540 (1518)
T COG4889 461 QRAIAFAKDIKTSKQIAESFETVVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNECKILSNARCLSE 540 (1518)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEeecccccccHHHHHHHHhccCCCCcchheeeccchhhhc
Confidence 3679999999988888766532 13 345567789998888655543 45678889988899999
Q ss_pred CCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccC--C-CcceEEEEe
Q 011104 413 GFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRF--G-RKGVVFNLL 462 (493)
Q Consensus 413 Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~--g-~~g~~i~l~ 462 (493)
|+|+|.++-||+|++. .|+.+.+|.+||+.|- | +-|..|+=+
T Consensus 541 GVDVPaLDsViFf~pr--------~smVDIVQaVGRVMRKa~gK~yGYIILPI 585 (1518)
T COG4889 541 GVDVPALDSVIFFDPR--------SSMVDIVQAVGRVMRKAKGKKYGYIILPI 585 (1518)
T ss_pred CCCccccceEEEecCc--------hhHHHHHHHHHHHHHhCcCCccceEEEEe
Confidence 9999999999999988 8899999999999994 2 235555433
No 145
>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=99.67 E-value=1.3e-15 Score=127.26 Aligned_cols=144 Identities=35% Similarity=0.457 Sum_probs=101.8
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
+++++.++||+|||..++..+...... ....+++|++|++.++.|+.+.+..+... ...+....+........ ...
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~-~~~~~~lv~~p~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~--~~~ 76 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDS-LKGGQVLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQQE--KLL 76 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhc-ccCCCEEEEcCcHHHHHHHHHHHHHHhhC-CcEEEEEecCcchhHHH--HHh
Confidence 368999999999999988887776654 34568999999999999999988887764 45554444443222111 112
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeec
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATF 292 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~ 292 (493)
....+|+++|++.+...+.........++++|+||+|.+... .+.... ...........+++++|||+
T Consensus 77 ~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~-~~~~~~---~~~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 77 SGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQ-GFGLLG---LKILLKLPKDRQVLLLSATP 144 (144)
T ss_pred cCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhc-chHHHH---HHHHhhCCccceEEEEeccC
Confidence 346799999999998888766555667889999999998873 222221 11112223367899999995
No 146
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.66 E-value=1e-13 Score=144.01 Aligned_cols=142 Identities=13% Similarity=0.165 Sum_probs=96.3
Q ss_pred HHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC-CCcEEEecCCCCHHHHHHHHHHHH----cCCCcEEEEeCc
Q 011104 335 KVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF-GYEVTTIMGATIQEERDKIVKEFK----DGLTQVLISTDV 409 (493)
Q Consensus 335 ~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~-~~~~~~l~~~~~~~~r~~~~~~f~----~g~~~vLv~T~~ 409 (493)
....+.+.+.......+.+|||++|....+.++..|... +..+. .+|. ..+..+++.|+ .+...||++|..
T Consensus 519 ~~~~~~~~i~~l~~~~gg~LVlFtSy~~l~~v~~~l~~~~~~~ll-~Q~~---~~~~~ll~~f~~~~~~~~~~VL~g~~s 594 (697)
T PRK11747 519 HTAEMAEFLPELLEKHKGSLVLFASRRQMQKVADLLPRDLRLMLL-VQGD---QPRQRLLEKHKKRVDEGEGSVLFGLQS 594 (697)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHhcCCcEE-EeCC---chHHHHHHHHHHHhccCCCeEEEEecc
Confidence 344455545554445667999999999999999998743 34433 3454 24677787776 467789999999
Q ss_pred cccCCCCCC--CCEEEEccCCCCCCCC----------------------CCCCcccccccccccccCCCcceEEEEeeCC
Q 011104 410 LARGFDQQQ--VNLIVNYDPPVKHGKH----------------------LEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 410 ~~~Gldi~~--v~~Vi~~~~p~~~~~~----------------------~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
+.+|||+|+ +++||...+|....+. ++..+..+.|.+||.-|...+-.++.++.++
T Consensus 595 f~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~~~F~~~~lP~A~~kl~Qg~GRlIRs~~D~G~i~ilD~R 674 (697)
T PRK11747 595 FAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPFMEISVPDASFKLIQAVGRLIRSEQDRGRVTILDRR 674 (697)
T ss_pred ccccccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHhccccccCCceEEEEEEccc
Confidence 999999998 7889999988653321 0112223479999999986655555555443
Q ss_pred c-cHHHHHHHHHHhCC
Q 011104 466 D-DMIIMEKIERYFDI 480 (493)
Q Consensus 466 ~-~~~~~~~i~~~~~~ 480 (493)
- ...|-+.+-+.++.
T Consensus 675 ~~~~~Yg~~~l~sLP~ 690 (697)
T PRK11747 675 LLTKRYGKRLLDALPP 690 (697)
T ss_pred ccchhHHHHHHHhCCC
Confidence 1 45566667666653
No 147
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=99.65 E-value=6.6e-15 Score=149.27 Aligned_cols=128 Identities=20% Similarity=0.299 Sum_probs=105.1
Q ss_pred HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCC--CcEEEEeCcc
Q 011104 333 LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGL--TQVLISTDVL 410 (493)
Q Consensus 333 ~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~--~~vLv~T~~~ 410 (493)
..|+..|.-+|.++...+.++|||++.....+.|..+|+-+|+..+.|.|...-++|+..+++|+... ++++++|...
T Consensus 1259 cGKLQtLAiLLqQLk~eghRvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSg 1338 (1958)
T KOG0391|consen 1259 CGKLQTLAILLQQLKSEGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSG 1338 (1958)
T ss_pred cchHHHHHHHHHHHHhcCceEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCC
Confidence 34555555556666677899999999999999999999999999999999999999999999999875 3568899999
Q ss_pred ccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCc
Q 011104 411 ARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD 466 (493)
Q Consensus 411 ~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~ 466 (493)
+.|||+.+.+.||+||..|++.. .....+..|||||| ++=+.|.|+++..
T Consensus 1339 gvGiNLtgADTVvFYDsDwNPtM--DaQAQDrChRIGqt----RDVHIYRLISe~T 1388 (1958)
T KOG0391|consen 1339 GVGINLTGADTVVFYDSDWNPTM--DAQAQDRCHRIGQT----RDVHIYRLISERT 1388 (1958)
T ss_pred ccccccccCceEEEecCCCCchh--hhHHHHHHHhhcCc----cceEEEEeeccch
Confidence 99999999999999999976532 13344556666666 5668889998654
No 148
>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=99.62 E-value=2.7e-15 Score=131.47 Aligned_cols=156 Identities=19% Similarity=0.199 Sum_probs=100.8
Q ss_pred CCchHHHhhhhhhcCC-----CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 123 KPSKIQAISLPMILTP-----PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~-----~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.++++|.+++..+... .++.+++.+|||||||.+++..+..... +++|+||+..|+.|+...+..+...
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~------~~l~~~p~~~l~~Q~~~~~~~~~~~ 76 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR------KVLIVAPNISLLEQWYDEFDDFGSE 76 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC------EEEEEESSHHHHHHHHHHHHHHSTT
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc------ceeEecCHHHHHHHHHHHHHHhhhh
Confidence 3789999999999841 1289999999999999997765554443 8999999999999999999766543
Q ss_pred cCceeeEeec---------CCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCc-----------cCCCCeeEEEEecch
Q 011104 198 TGITSECAVP---------TDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKK-----------LGFSRLKILVYDEAD 257 (493)
Q Consensus 198 ~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~-----------~~~~~~~~iVlDEah 257 (493)
.......... .................+++++|...|........ .....+++||+||||
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH 156 (184)
T PF04851_consen 77 KYNFFEKSIKPAYDSKEFISIQDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAH 156 (184)
T ss_dssp SEEEEE--GGGCCE-SEEETTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGG
T ss_pred hhhhcccccccccccccccccccccccccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhh
Confidence 2211111110 00000001111122356899999999987765421 234567899999999
Q ss_pred hhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC
Q 011104 258 HMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN 293 (493)
Q Consensus 258 ~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~ 293 (493)
++.... .+..++. .....+++||||+.
T Consensus 157 ~~~~~~----~~~~i~~-----~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 157 HYPSDS----SYREIIE-----FKAAFILGLTATPF 183 (184)
T ss_dssp CTHHHH----HHHHHHH-----SSCCEEEEEESS-S
T ss_pred hcCCHH----HHHHHHc-----CCCCeEEEEEeCcc
Confidence 877631 1444444 33567999999974
No 149
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.62 E-value=1e-13 Score=145.24 Aligned_cols=134 Identities=16% Similarity=0.145 Sum_probs=95.1
Q ss_pred cCCcEEEEcCChhhHHHHHHHHHhCCCc-EEEecCCCCHHHHHHHHHHHHcCCC-cEEEEeCccccCCCCCC--CCEEEE
Q 011104 349 KMGQTIIFVRTKNSASALHKALKDFGYE-VTTIMGATIQEERDKIVKEFKDGLT-QVLISTDVLARGFDQQQ--VNLIVN 424 (493)
Q Consensus 349 ~~~~~lVf~~s~~~~~~l~~~L~~~~~~-~~~l~~~~~~~~r~~~~~~f~~g~~-~vLv~T~~~~~Gldi~~--v~~Vi~ 424 (493)
.++++|||++|...+..+.+.|...... ....+|..+ +...++.|..+.- .++|+|..+++|+|+|+ .+.||.
T Consensus 478 ~~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~---~~~~l~~f~~~~~~~~lv~~gsf~EGVD~~g~~l~~vvI 554 (654)
T COG1199 478 SPGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDE---REELLEKFKASGEGLILVGGGSFWEGVDFPGDALRLVVI 554 (654)
T ss_pred cCCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCCc---HHHHHHHHHHhcCCeEEEeeccccCcccCCCCCeeEEEE
Confidence 3469999999999999999999876653 444455443 4478888876655 89999999999999998 577999
Q ss_pred ccCCCCCCCC----------------------CCCCcccccccccccccCCCcceEEEEeeCCc-cHHHHHHHHHHhCCC
Q 011104 425 YDPPVKHGKH----------------------LEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGD-DMIIMEKIERYFDIK 481 (493)
Q Consensus 425 ~~~p~~~~~~----------------------~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~-~~~~~~~i~~~~~~~ 481 (493)
.+.|.-..+. ++..+....|.+||+-|.-.+..++.++..+- ...|-+.+-+.++..
T Consensus 555 ~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~ivllD~R~~~~~y~~~l~~~l~~~ 634 (654)
T COG1199 555 VGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLLDKRYATKRYGKLLLDSLPPF 634 (654)
T ss_pred EecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEEEecccchhhhHHHHHHHhCCCC
Confidence 9999754321 12233344799999999766655665665433 233666666666655
Q ss_pred ceee
Q 011104 482 VTEV 485 (493)
Q Consensus 482 ~~~~ 485 (493)
+...
T Consensus 635 ~~~~ 638 (654)
T COG1199 635 PKSK 638 (654)
T ss_pred cccc
Confidence 5443
No 150
>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=99.61 E-value=4.5e-14 Score=145.52 Aligned_cols=315 Identities=13% Similarity=0.071 Sum_probs=180.4
Q ss_pred CchHHHhhhhhhcC----C--CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 124 PSKIQAISLPMILT----P--PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 124 ~~~~Q~~~i~~il~----~--~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.+.+|-+|+..+.. . .+-=++-.|.||+|||++ -.-|++.+.....+.+..|..-.|.|..|.-..+++-...
T Consensus 409 rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~a-NARImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~L 487 (1110)
T TIGR02562 409 RFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLA-NARAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRLNL 487 (1110)
T ss_pred CcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHH-HHHHHHHhCCCCCCceEEEEccccceeccchHHHHHhcCC
Confidence 46689998887753 1 113467789999999998 4556667777677778877778888888777776654322
Q ss_pred cCceeeEeecC----------------------CCCCc----------ccccC-----------------CCCCCCcEEE
Q 011104 198 TGITSECAVPT----------------------DSTNY----------VPISK-----------------RPPVTAQVVI 228 (493)
Q Consensus 198 ~~~~~~~~~~~----------------------~~~~~----------~~~~~-----------------~~~~~~~Ilv 228 (493)
-.-...+++|+ .+... ..... ...-...|+|
T Consensus 488 ~~ddLAVlIGs~Av~~L~e~~~~~~~~~~~~GSeS~e~l~~e~~~~~~~~~~g~l~~~~l~~~l~~~~k~~rll~apv~V 567 (1110)
T TIGR02562 488 SDDDLAVLIGGTAVQTLFDLSKEKIEQVDEDGSESAPIFLAEGQDCNLPDWDGPLDTIELLGRLSLDDKEKTLLAAPVLV 567 (1110)
T ss_pred CccceEEEECHHHHHHHHHHHhhhccccccCCCccchhhhcccCcCCeeeccCCccchhhhhhhccChhhhhhhcCCeEE
Confidence 11111111111 00000 00000 0011357999
Q ss_pred eCchHHHHHHHc---CccCCC----CeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHH
Q 011104 229 GTPGTIKKWMSA---KKLGFS----RLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVT 301 (493)
Q Consensus 229 ~Tp~~l~~~l~~---~~~~~~----~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~ 301 (493)
||++.++..... +...+. .-+.|||||+|.+...+ ...+..++..+... ...+++||||+|+.+...+.
T Consensus 568 ~TIDQlL~a~~~~r~~~~~l~ll~La~svlVlDEVHaYD~~~--~~~L~rlL~w~~~l--G~~VlLmSATLP~~l~~~L~ 643 (1110)
T TIGR02562 568 CTIDHLIPATESHRGGHHIAPMLRLMSSDLILDEPDDYEPED--LPALLRLVQLAGLL--GSRVLLSSATLPPALVKTLF 643 (1110)
T ss_pred ecHHHHHHHhhhcccchhHHHHHHhcCCCEEEECCccCCHHH--HHHHHHHHHHHHHc--CCCEEEEeCCCCHHHHHHHH
Confidence 999999876632 111111 13579999999765421 22344444433332 56899999999987755443
Q ss_pred HHh-----------ccCce------eeecccccc----------------------------ccCceEEEEeCCCh----
Q 011104 302 RIV-----------KDYNQ------LFVKKEELS----------------------------LESVKQYKVYCPDE---- 332 (493)
Q Consensus 302 ~~~-----------~~~~~------~~~~~~~~~----------------------------~~~~~~~~~~~~~~---- 332 (493)
..+ ..+.. ..++..... +..-.-..+.++..
T Consensus 644 ~Ay~~G~~~~q~~~g~~~~~~~i~CaW~DE~~~~~~~~~~~~~F~~~H~~Fv~~R~~~L~~~p~~R~a~i~~~~~~~~~~ 723 (1110)
T TIGR02562 644 RAYEAGRQMYQALYGQPKKPLNICCAWVDEPQVWQADCNQKSEFIQRHQDFLRDRAVQLAKKPVRRLAELLSLSSLPREN 723 (1110)
T ss_pred HHHHHHHHHHHHhcCCCCCCcceeEEeecccCchhhhhcCHHHHHHHHHHHHHHHHHHHhcCcccceEEEeecCCcccch
Confidence 321 11100 011110000 00001112222221
Q ss_pred HHHHHHHHHH-------HHHhc----c-cCCc---EEEEcCChhhHHHHHHHHHhC------CCcEEEecCCCCHHHHHH
Q 011104 333 LAKVMVIRDR-------IFELG----E-KMGQ---TIIFVRTKNSASALHKALKDF------GYEVTTIMGATIQEERDK 391 (493)
Q Consensus 333 ~~~~~~l~~~-------l~~~~----~-~~~~---~lVf~~s~~~~~~l~~~L~~~------~~~~~~l~~~~~~~~r~~ 391 (493)
......+.+. ++... . .+++ .||-+++++.+..++..|-.. .+.+++||+..+...|..
T Consensus 724 ~~~~~~~a~~i~~~~~~LH~~h~~~~~~sgk~VSfGliR~anI~p~V~~A~~L~~~~~~~~~~i~~~~yHSr~~l~~Rs~ 803 (1110)
T TIGR02562 724 ESTYLALAQSLLEGALRLHQAHAQTDPKSEKKVSVGLIRVANIDPLIRLAQFLYALLAEEKYQIHLCCYHAQDPLLLRSY 803 (1110)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCccCCCCCeEEEEEEEEEcCchHHHHHHHHHHhhccccCCceeEEEecccChHHHHHH
Confidence 1111111111 11111 1 1122 388888888888888888654 346889999998777776
Q ss_pred HHHHH----------------------Hc----CCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCccccccc
Q 011104 392 IVKEF----------------------KD----GLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHR 445 (493)
Q Consensus 392 ~~~~f----------------------~~----g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr 445 (493)
+.+.. .+ +...|+|+|++++.|+|+ +.+++|--- .++...+||
T Consensus 804 ~E~~Ld~~L~R~~~~~~~~~~~i~~~l~~~~~~~~~~i~v~Tqv~E~g~D~-dfd~~~~~~----------~~~~sliQ~ 872 (1110)
T TIGR02562 804 IERRLDQLLTRHKPEQLFQDDEIIDLMQNSPALNHLFIVLATPVEEVGRDH-DYDWAIADP----------SSMRSIIQL 872 (1110)
T ss_pred HHHHHHHHhcccChhhhhchHHHHHHHhcccccCCCeEEEEeeeEEEEecc-cCCeeeecc----------CcHHHHHHH
Confidence 65442 12 466899999999999999 688877432 458889999
Q ss_pred ccccccCCC
Q 011104 446 IGRAGRFGR 454 (493)
Q Consensus 446 ~GR~~R~g~ 454 (493)
+||+.|.|.
T Consensus 873 aGR~~R~~~ 881 (1110)
T TIGR02562 873 AGRVNRHRL 881 (1110)
T ss_pred hhccccccc
Confidence 999999764
No 151
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=99.60 E-value=5.3e-13 Score=124.72 Aligned_cols=125 Identities=19% Similarity=0.321 Sum_probs=92.2
Q ss_pred HHHHHHHHHHHhcc--cCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCC-CcE-EEEeCcc
Q 011104 335 KVMVIRDRIFELGE--KMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGL-TQV-LISTDVL 410 (493)
Q Consensus 335 ~~~~l~~~l~~~~~--~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~-~~v-Lv~T~~~ 410 (493)
|+..+.+.+..+.+ ...+.|||.+--...+.+.-.|.+.|+.|.-+.|+|++..|...++.|++.. +.| |++-.+.
T Consensus 621 KIEAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vfLvSLkAG 700 (791)
T KOG1002|consen 621 KIEALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLVSLKAG 700 (791)
T ss_pred HHHHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEEEEEeccC
Confidence 44445444444333 2347799999888888888889999999999999999999999999999774 344 5666888
Q ss_pred ccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCC--CcceEEEEeeCCcc
Q 011104 411 ARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFG--RKGVVFNLLMDGDD 467 (493)
Q Consensus 411 ~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g--~~g~~i~l~~~~~~ 467 (493)
+.-||+....+|+.+|+=|++. ---|...|..|.| ++=.++.|+.+..-
T Consensus 701 GVALNLteASqVFmmDPWWNpa--------Ve~Qa~DRiHRIGQ~rPvkvvrf~iEnsi 751 (791)
T KOG1002|consen 701 GVALNLTEASQVFMMDPWWNPA--------VEWQAQDRIHRIGQYRPVKVVRFCIENSI 751 (791)
T ss_pred ceEeeechhceeEeecccccHH--------HHhhhhhhHHhhcCccceeEEEeehhccH
Confidence 8999999999999999765442 2334444444444 45678888876653
No 152
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.60 E-value=2.6e-15 Score=112.48 Aligned_cols=81 Identities=43% Similarity=0.748 Sum_probs=76.4
Q ss_pred HHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccc
Q 011104 365 ALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLH 444 (493)
Q Consensus 365 ~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~q 444 (493)
.++..|...++.+..+||+++..+|..+++.|+.+...|||+|+++++|+|+|.+++||.+++| .+...|.|
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi~~~~~~~vi~~~~~--------~~~~~~~Q 73 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLP--------WSPASYIQ 73 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECChhhCCcChhcCCEEEEeCCC--------CCHHHHHH
Confidence 4677888889999999999999999999999999999999999999999999999999999999 77889999
Q ss_pred cccccccCC
Q 011104 445 RIGRAGRFG 453 (493)
Q Consensus 445 r~GR~~R~g 453 (493)
++||++|.|
T Consensus 74 ~~gR~~R~g 82 (82)
T smart00490 74 RIGRAGRAG 82 (82)
T ss_pred hhcccccCC
Confidence 999999975
No 153
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=99.60 E-value=3.3e-15 Score=150.18 Aligned_cols=325 Identities=18% Similarity=0.125 Sum_probs=198.3
Q ss_pred CCCchHHHhhhhhhcC--CCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccC
Q 011104 122 QKPSKIQAISLPMILT--PPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTG 199 (493)
Q Consensus 122 ~~~~~~Q~~~i~~il~--~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~ 199 (493)
..+.++|...+.++.. +++-+-|++.++|-|||.+.+--+...+......+-.||+||+-.|... ...+.+|...
T Consensus 393 G~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~NW-~~Ef~kWaPS-- 469 (1157)
T KOG0386|consen 393 GELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLVNW-SSEFPKWAPS-- 469 (1157)
T ss_pred CCCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHHHHHHHHHcccCCCeEEeccccccCCc-hhhccccccc--
Confidence 3677899988888743 3346889999999999998544333333333334457899999988654 5555566543
Q ss_pred ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhc
Q 011104 200 ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERS 279 (493)
Q Consensus 200 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~ 279 (493)
+......|....+............+|+++|++.+.. ....+.--++.++||||.|+|.+.. ..+...+. ..
T Consensus 470 v~~i~YkGtp~~R~~l~~qir~gKFnVLlTtyEyiik--dk~lLsKI~W~yMIIDEGHRmKNa~---~KLt~~L~---t~ 541 (1157)
T KOG0386|consen 470 VQKIQYKGTPQQRSGLTKQQRHGKFNVLLTTYEYIIK--DKALLSKISWKYMIIDEGHRMKNAI---CKLTDTLN---TH 541 (1157)
T ss_pred eeeeeeeCCHHHHhhHHHHHhcccceeeeeeHHHhcC--CHHHHhccCCcceeecccccccchh---hHHHHHhh---cc
Confidence 2222223322222222222233678999999887643 1111222345689999999987631 11111111 11
Q ss_pred CCCeeEEEEeeec-------------------------------------------------------------------
Q 011104 280 SGHCQVLLFSATF------------------------------------------------------------------- 292 (493)
Q Consensus 280 ~~~~q~v~~SAT~------------------------------------------------------------------- 292 (493)
......+++|+|+
T Consensus 542 y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PFantGek~eLteEEtlLIIrRLHkVLRPFlLRRl 621 (1157)
T KOG0386|consen 542 YRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPFANTGEKVELTEEETLLIIRRLHKVLRPFLLRRL 621 (1157)
T ss_pred ccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhhhhcCCcccccchHHHHHHHHHHHhhhHHHHHhh
Confidence 1122334555551
Q ss_pred --------ChhHHHHHHHH-----------hccCceeeecc--c---cccc-----------------cCceEEEE-eCC
Q 011104 293 --------NETVKNFVTRI-----------VKDYNQLFVKK--E---ELSL-----------------ESVKQYKV-YCP 330 (493)
Q Consensus 293 --------~~~~~~~~~~~-----------~~~~~~~~~~~--~---~~~~-----------------~~~~~~~~-~~~ 330 (493)
|..+...++.- +.+...+.++. . ...+ ..+...+. ...
T Consensus 622 KkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~~~~~~~ 701 (1157)
T KOG0386|consen 622 KKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDTAKGKKGYKPLFNTIMQLRKLCNHPYLFANVENSYTLHYD 701 (1157)
T ss_pred hHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCchhccccchhhhhHhHHHHHhcCCchhhhhhccccccccC
Confidence 11111111100 00000111000 0 0000 00000000 000
Q ss_pred -----ChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCC---c
Q 011104 331 -----DELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLT---Q 402 (493)
Q Consensus 331 -----~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~---~ 402 (493)
-...|...+-..+.++...++++|.||....-...+..+|.-.++....+.|.....+|...++.|+.... .
T Consensus 702 ~~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~ 781 (1157)
T KOG0386|consen 702 IKDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFI 781 (1157)
T ss_pred hhHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceee
Confidence 11234455555566666678999999999999999999999999999999999999999999999986543 4
Q ss_pred EEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCC
Q 011104 403 VLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 403 vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
+|++|.+.+.|+|+.-++.||.||..| ++....|+--|+.|.|+...+-++....
T Consensus 782 FllstragglglNlQtadtviifdsdw--------np~~d~qaqdrahrigq~~evRv~rl~t 836 (1157)
T KOG0386|consen 782 FLLSTRAGGLGLNLQTADTVIIFDSDW--------NPHQDLQAQDRAHRIGQKKEVRVLRLIT 836 (1157)
T ss_pred eeeeecccccccchhhcceEEEecCCC--------CchhHHHHHHHHHHhhchhheeeeeeeh
Confidence 688999999999999999999999994 5666999999999999877665555433
No 154
>PRK14873 primosome assembly protein PriA; Provisional
Probab=99.58 E-value=2e-14 Score=146.57 Aligned_cols=295 Identities=12% Similarity=0.033 Sum_probs=164.6
Q ss_pred EEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCC--CCcccccCCCC
Q 011104 144 IAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDS--TNYVPISKRPP 221 (493)
Q Consensus 144 iv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~ 221 (493)
+..+-+|||||.+|+-.+-..+. .+.++||++|...|+.|+.+.++..+....+ ..++...+ .....+.....
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l~---~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v--~~lhS~l~~~~R~~~w~~~~~ 238 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATLR---AGRGALVVVPDQRDVDRLEAALRALLGAGDV--AVLSAGLGPADRYRRWLAVLR 238 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHHH---cCCeEEEEecchhhHHHHHHHHHHHcCCCcE--EEECCCCCHHHHHHHHHHHhC
Confidence 34444699999999887765553 4668999999999999999999987652222 22333322 22333444556
Q ss_pred CCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcc--cCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHH
Q 011104 222 VTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDE--AGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNF 299 (493)
Q Consensus 222 ~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~--~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~ 299 (493)
+...|+|+|-..+ ...+.++.+||+||-|.-.-. .+..-+...+...... ..+..+|+.|||.+-+...
T Consensus 239 G~~~IViGtRSAv-------FaP~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~-~~~~~lvLgSaTPSles~~- 309 (665)
T PRK14873 239 GQARVVVGTRSAV-------FAPVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAH-QHGCALLIGGHARTAEAQA- 309 (665)
T ss_pred CCCcEEEEcceeE-------EeccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHH-HcCCcEEEECCCCCHHHHH-
Confidence 6789999994332 446889999999999964431 1222223333322222 2267899999996644332
Q ss_pred HHHHhccCceeeecccc--ccccCceEEEEeC------CCh--HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHH
Q 011104 300 VTRIVKDYNQLFVKKEE--LSLESVKQYKVYC------PDE--LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKA 369 (493)
Q Consensus 300 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~------~~~--~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~ 369 (493)
....+.+..+...... .....+...-... +.. ......+.+.+.+....+ ++|||+|.+..+..+...
T Consensus 310 -~~~~g~~~~~~~~~~~~~~~~P~v~~vd~~~~~~~~~~~~~g~~ls~~l~~~i~~~L~~g-qvll~lnRrGyap~l~C~ 387 (665)
T PRK14873 310 -LVESGWAHDLVAPRPVVRARAPRVRALGDSGLALERDPAARAARLPSLAFRAARDALEHG-PVLVQVPRRGYVPSLACA 387 (665)
T ss_pred -HHhcCcceeeccccccccCCCCeEEEEeCchhhhccccccccCccCHHHHHHHHHHHhcC-cEEEEecCCCCCCeeEhh
Confidence 2222222222111111 1111111110000 000 001123455566667766 999999988766554221
Q ss_pred -----------------------------------------------------------HHhC--CCcEEEecCCCCHHH
Q 011104 370 -----------------------------------------------------------LKDF--GYEVTTIMGATIQEE 388 (493)
Q Consensus 370 -----------------------------------------------------------L~~~--~~~~~~l~~~~~~~~ 388 (493)
|.+. +.++.. .+
T Consensus 388 ~Cg~~~~C~~C~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~~l~~~g~Gter~eeeL~~~FP~~~V~r-------~d 460 (665)
T PRK14873 388 RCRTPARCRHCTGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGSDRLRAVVVGARRTAEELGRAFPGVPVVT-------SG 460 (665)
T ss_pred hCcCeeECCCCCCceeEecCCCeeECCCCcCCCcCccCCCCcCCcceeeeccHHHHHHHHHHHCCCCCEEE-------EC
Confidence 1110 111111 12
Q ss_pred HHHHHHHHHcCCCcEEEEeCccccCCCCCCCCEEEEccCCC--CCCCCC--CCCcccccccccccccCCCcceEEEEee
Q 011104 389 RDKIVKEFKDGLTQVLISTDVLARGFDQQQVNLIVNYDPPV--KHGKHL--EPDCEVYLHRIGRAGRFGRKGVVFNLLM 463 (493)
Q Consensus 389 r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~--~~~~~~--~~s~~~y~qr~GR~~R~g~~g~~i~l~~ 463 (493)
+..+++.|. ++..|||+|..++.-+. ++++.|+..|.-. ...++. +.....+.|.+||+||.+..|.++....
T Consensus 461 ~d~~l~~~~-~~~~IlVGTqgaepm~~-g~~~lV~ildaD~~L~~pDfRA~Er~~qll~qvagragr~~~~G~V~iq~~ 537 (665)
T PRK14873 461 GDQVVDTVD-AGPALVVATPGAEPRVE-GGYGAALLLDAWALLGRQDLRAAEDTLRRWMAAAALVRPRADGGQVVVVAE 537 (665)
T ss_pred hHHHHHhhc-cCCCEEEECCCCccccc-CCceEEEEEcchhhhcCCCcChHHHHHHHHHHHHHhhcCCCCCCEEEEEeC
Confidence 345778886 58999999993222222 3677776655431 111110 1234445789999999988999887653
No 155
>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=99.58 E-value=6e-13 Score=139.51 Aligned_cols=129 Identities=16% Similarity=0.196 Sum_probs=88.7
Q ss_pred HHHHHHHHHHHhcc-cCCcEEEEcCChhhHHHHHHHHHhCC--------CcEEEecCCCCHHHHHHHHHHHHc----CCC
Q 011104 335 KVMVIRDRIFELGE-KMGQTIIFVRTKNSASALHKALKDFG--------YEVTTIMGATIQEERDKIVKEFKD----GLT 401 (493)
Q Consensus 335 ~~~~l~~~l~~~~~-~~~~~lVf~~s~~~~~~l~~~L~~~~--------~~~~~l~~~~~~~~r~~~~~~f~~----g~~ 401 (493)
....+.+.+..... .++.+|||++|....+.+...+...+ ..++.=..++ .++..+++.|+. |.-
T Consensus 506 ~~~~l~~~i~~~~~~~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~~--~~~~~~l~~f~~~~~~~~g 583 (705)
T TIGR00604 506 LVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDA--QETSDALERYKQAVSEGRG 583 (705)
T ss_pred HHHHHHHHHHHHhhcCCCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCCc--chHHHHHHHHHHHHhcCCc
Confidence 33444554544443 46889999999999999999887543 2333322222 578889999964 455
Q ss_pred cEEEEe--CccccCCCCCC--CCEEEEccCCCC-CCCCC--------------CC--------CcccccccccccccCCC
Q 011104 402 QVLIST--DVLARGFDQQQ--VNLIVNYDPPVK-HGKHL--------------EP--------DCEVYLHRIGRAGRFGR 454 (493)
Q Consensus 402 ~vLv~T--~~~~~Gldi~~--v~~Vi~~~~p~~-~~~~~--------------~~--------s~~~y~qr~GR~~R~g~ 454 (493)
.||+|+ ..+++|||+++ .+.||..++|.. ..+.. .. .+....|.+||+-|...
T Consensus 584 avL~av~gGk~sEGIDf~~~~~r~ViivGlPf~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~a~~~v~QaiGR~IR~~~ 663 (705)
T TIGR00604 584 AVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQYPIRENQDFYEFDAMRAVNQAIGRVIRHKD 663 (705)
T ss_pred eEEEEecCCcccCccccCCCCCcEEEEEccCCCCCCCHHHHHHHHHHHhhcCCCccHHHHHHHHHHHHHHHhCccccCcC
Confidence 799999 88999999998 788999999973 21100 00 01223799999999977
Q ss_pred cceEEEEeeCC
Q 011104 455 KGVVFNLLMDG 465 (493)
Q Consensus 455 ~g~~i~l~~~~ 465 (493)
+-.++.|+..+
T Consensus 664 D~G~iillD~R 674 (705)
T TIGR00604 664 DYGSIVLLDKR 674 (705)
T ss_pred ceEEEEEEehh
Confidence 76677677544
No 156
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=99.57 E-value=7.3e-14 Score=143.28 Aligned_cols=126 Identities=21% Similarity=0.195 Sum_probs=101.4
Q ss_pred ChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCC-CcEEEEeCc
Q 011104 331 DELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGL-TQVLISTDV 409 (493)
Q Consensus 331 ~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~-~~vLv~T~~ 409 (493)
....|...+++.+......+.|+||-+.|++..+.|+..|...|++...|+......+-.-+- ..|. -.|-|||++
T Consensus 609 t~~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK~h~~EAeIVA---~AG~~GaVTIATNM 685 (1112)
T PRK12901 609 TKREKYNAVIEEITELSEAGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAKLHQKEAEIVA---EAGQPGTVTIATNM 685 (1112)
T ss_pred CHHHHHHHHHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhccchhhHHHHHH---hcCCCCcEEEeccC
Confidence 456788888888888888899999999999999999999999999988888875433333222 2343 358999999
Q ss_pred cccCCCCC--------CCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeCCcc
Q 011104 410 LARGFDQQ--------QVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMDGDD 467 (493)
Q Consensus 410 ~~~Gldi~--------~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~~~~ 467 (493)
++||-||. +=-|||--..+ .|..--.|-.||+||.|.+|.+..|++-.|+
T Consensus 686 AGRGTDIkLg~~V~e~GGL~VIgTerh--------eSrRID~QLrGRaGRQGDPGsS~f~lSLEDd 743 (1112)
T PRK12901 686 AGRGTDIKLSPEVKAAGGLAIIGTERH--------ESRRVDRQLRGRAGRQGDPGSSQFYVSLEDN 743 (1112)
T ss_pred cCCCcCcccchhhHHcCCCEEEEccCC--------CcHHHHHHHhcccccCCCCCcceEEEEcccH
Confidence 99999997 33457766666 6777789999999999999999988886654
No 157
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.55 E-value=7.9e-13 Score=124.63 Aligned_cols=336 Identities=16% Similarity=0.164 Sum_probs=221.0
Q ss_pred CCCchHHHhhhhhhcCCCCccEEEeccC-CCch--hHHhHHHHHhccC----------------------------CCCC
Q 011104 122 QKPSKIQAISLPMILTPPYRNLIAQARN-GSGK--TTCFVLGMLSRVD----------------------------PNLK 170 (493)
Q Consensus 122 ~~~~~~Q~~~i~~il~~~~~~viv~a~T-GsGK--T~~~~~~~l~~l~----------------------------~~~~ 170 (493)
..+|+.|.+.+..+.+- +|++..--| +.|+ +-.|++.+++++. ....
T Consensus 215 ~pltalQ~~L~~~m~~Y--rDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~t 292 (698)
T KOG2340|consen 215 EPLTALQKELFKIMFNY--RDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGFT 292 (698)
T ss_pred CcchHHHHHHHHHHHhh--hhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCCC
Confidence 46799999998888777 888754333 2344 5668888888761 1223
Q ss_pred CCeEEEEcCCHHHHHHHHHHHHHHhcccCc---ee---eEeecCCCCCcc----------c-------------------
Q 011104 171 APQALCICPTRELAIQNLEVLRKMGKHTGI---TS---ECAVPTDSTNYV----------P------------------- 215 (493)
Q Consensus 171 ~~~~lil~Pt~~La~q~~~~~~~~~~~~~~---~~---~~~~~~~~~~~~----------~------------------- 215 (493)
.|++|||||+|+-|-.+...+..+.....- .+ .-..+..+.... .
T Consensus 293 RpkVLivvpfRe~A~riVn~lis~l~G~~q~k~~V~Nk~RF~~eys~~te~~~~~~~kP~D~~~lf~GNtDD~FriGl~f 372 (698)
T KOG2340|consen 293 RPKVLIVVPFRESAYRIVNLLISLLSGDDQGKSEVWNKKRFEGEYSGPTELPPPRAKKPEDFEELFSGNTDDAFRIGLAF 372 (698)
T ss_pred CceEEEEecchHHHHHHHHHHHHHhcCccccchhhhhhhhhchhcCCCcccCCCCCCCchhHHHHhcCCCcchhhhhHHH
Confidence 578999999999999988888777322211 00 000111010000 0
Q ss_pred -----ccCCCCCCCcEEEeCchHHHHHHHcC------ccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCC--
Q 011104 216 -----ISKRPPVTAQVVIGTPGTIKKWMSAK------KLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGH-- 282 (493)
Q Consensus 216 -----~~~~~~~~~~Ilv~Tp~~l~~~l~~~------~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~-- 282 (493)
.........||+||+|-.|..++.+. .-.++++.++|+|-||-++. .-+..+..|+.++...+..
T Consensus 373 tkKtikLys~fy~SDIlVaSPLGLRmil~n~gdkkrd~dfLSSIEl~iIDQa~~~l~--QNwEhl~~ifdHLn~~P~k~h 450 (698)
T KOG2340|consen 373 TKKTIKLYSKFYKSDILVASPLGLRMILGNTGDKKRDFDFLSSIELLIIDQADIMLM--QNWEHLLHIFDHLNLQPSKQH 450 (698)
T ss_pred HHHHHHHHhhhcccCeEEecchhhhhhhcCCCcccccchhhhhhhhhhhhhHHHHHH--hhHHHHHHHHHHhhcCccccc
Confidence 00011125789999999998888631 22478889999999999985 4577888888887654432
Q ss_pred -------------------eeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEE---------EeCCC---
Q 011104 283 -------------------CQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYK---------VYCPD--- 331 (493)
Q Consensus 283 -------------------~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~--- 331 (493)
+|+++||+--.+....++...+.+....+....-..-..+.+.. +.+.+
T Consensus 451 ~~DfSRVR~wyL~~qsr~~rQtl~Fs~y~~~~~nS~fn~~c~N~~Gkv~~~~~~~~gsi~~v~~~l~Qvf~ri~~~si~~ 530 (698)
T KOG2340|consen 451 DVDFSRVRMWYLDGQSRYFRQTLLFSRYSHPLFNSLFNQYCQNMAGKVKARNLQSGGSISNVGIPLCQVFQRIEVKSIIE 530 (698)
T ss_pred CCChhheehheeccHHHHHHHHHHHHhhccHHHHHHHHHhhhhhcceeeeccccCCCchhhccchhhhhhhheeccCccc
Confidence 48899999888888777777776653332222111111111111 11111
Q ss_pred -hHHHHHHHHHHHHHhcc--cCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeC
Q 011104 332 -ELAKVMVIRDRIFELGE--KMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTD 408 (493)
Q Consensus 332 -~~~~~~~l~~~l~~~~~--~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~ 408 (493)
...........|.-... ....+|||.++.-.-.++..+|++..+....+|.-.++..-.++-+.|-.|...||+.|.
T Consensus 531 ~~D~RFkyFv~~ImPq~~k~t~s~~LiyIPSYfDFVRvRNy~K~e~i~F~~i~EYssk~~vsRAR~lF~qgr~~vlLyTE 610 (698)
T KOG2340|consen 531 TPDARFKYFVDKIMPQLIKRTESGILIYIPSYFDFVRVRNYMKKEEISFVMINEYSSKSKVSRARELFFQGRKSVLLYTE 610 (698)
T ss_pred CchHHHHHHHHhhchhhcccccCceEEEecchhhHHHHHHHhhhhhcchHHHhhhhhHhhhhHHHHHHHhcCceEEEEeh
Confidence 11222222222222211 135679999999999999999999999988998888888888888999999999999997
Q ss_pred ccc--cCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCC----cceEEEEeeCCc
Q 011104 409 VLA--RGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGR----KGVVFNLLMDGD 466 (493)
Q Consensus 409 ~~~--~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~----~g~~i~l~~~~~ 466 (493)
-+. +-.++.+|..||.|.+|..+.. ..+++.+.+|+.-.|+ .-.|.++|+.-+
T Consensus 611 R~hffrR~~ikGVk~vVfYqpP~~P~F-----YsEiinm~~k~~~~gn~d~d~~t~~ilytKyD 669 (698)
T KOG2340|consen 611 RAHFFRRYHIKGVKNVVFYQPPNNPHF-----YSEIINMSDKTTSQGNTDLDIFTVRILYTKYD 669 (698)
T ss_pred hhhhhhhheecceeeEEEecCCCCcHH-----HHHHHhhhhhhhccCCccccceEEEEEeechh
Confidence 654 7889999999999999955433 3445777888665442 346778887554
No 158
>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=99.52 E-value=2.1e-12 Score=130.05 Aligned_cols=296 Identities=16% Similarity=0.196 Sum_probs=184.2
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
.-.++.+|+|||||.+.+-++-..+. .+..++|+|..++.|+.++...++..+-. ++. .+....... . .
T Consensus 50 ~V~vVRSpMGTGKTtaLi~wLk~~l~--~~~~~VLvVShRrSL~~sL~~rf~~~~l~-gFv---~Y~d~~~~~--i---~ 118 (824)
T PF02399_consen 50 GVLVVRSPMGTGKTTALIRWLKDALK--NPDKSVLVVSHRRSLTKSLAERFKKAGLS-GFV---NYLDSDDYI--I---D 118 (824)
T ss_pred CeEEEECCCCCCcHHHHHHHHHHhcc--CCCCeEEEEEhHHHHHHHHHHHHhhcCCC-cce---eeecccccc--c---c
Confidence 56899999999999986555544433 34568999999999999999988765421 221 111111110 0 0
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCH------HHHHHHHHHhhhcCCCeeEEEEeeecCh
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFR------DDSLRIMKDIERSSGHCQVLLFSATFNE 294 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~------~~~~~i~~~~~~~~~~~q~v~~SAT~~~ 294 (493)
....+-++++.+.|.++.. -.+.++++|||||+...+.. -|. ..+..++..+-.. ...+|++-||+..
T Consensus 119 ~~~~~rLivqIdSL~R~~~---~~l~~yDvVIIDEv~svL~q-L~S~Tm~~~~~v~~~L~~lI~~--ak~VI~~DA~ln~ 192 (824)
T PF02399_consen 119 GRPYDRLIVQIDSLHRLDG---SLLDRYDVVIIDEVMSVLNQ-LFSPTMRQREEVDNLLKELIRN--AKTVIVMDADLND 192 (824)
T ss_pred ccccCeEEEEehhhhhccc---ccccccCEEEEehHHHHHHH-HhHHHHhhHHHHHHHHHHHHHh--CCeEEEecCCCCH
Confidence 0124677778777766432 23677999999999987763 222 2233333333322 4579999999999
Q ss_pred hHHHHHHHHhccCceeeeccccccccCceEEEEeCCC----------------------------------hHHHHHHHH
Q 011104 295 TVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPD----------------------------------ELAKVMVIR 340 (493)
Q Consensus 295 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------~~~~~~~l~ 340 (493)
...+++..+......-.+.............-+.++. .........
T Consensus 193 ~tvdFl~~~Rp~~~i~vI~n~y~~~~fs~R~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tF~ 272 (824)
T PF02399_consen 193 QTVDFLASCRPDENIHVIVNTYASPGFSNRRCTFLRSLGTDTLAAALNPEDENADTSPTPKHSPDPTATAAISNDETTFF 272 (824)
T ss_pred HHHHHHHHhCCCCcEEEEEeeeecCCcccceEEEecccCcHHHHHHhCCcccccccCCCcCCCCccccccccccchhhHH
Confidence 9999988875443322222211111100000000000 000011222
Q ss_pred HHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCCC
Q 011104 341 DRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLARGFDQQQVN 420 (493)
Q Consensus 341 ~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v~ 420 (493)
..+......+.++-||++|...++.++++.+..+.++..++|.-+..+. +. =++++|++-|.++..|+++....
T Consensus 273 ~~L~~~L~~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~dv----~~--W~~~~VviYT~~itvG~Sf~~~H 346 (824)
T PF02399_consen 273 SELLARLNAGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLEDV----ES--WKKYDVVIYTPVITVGLSFEEKH 346 (824)
T ss_pred HHHHHHHhCCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCcccc----cc--ccceeEEEEeceEEEEeccchhh
Confidence 3345555668889999999999999999999999999999997766522 22 24578999999999999997543
Q ss_pred --EEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEEeeC
Q 011104 421 --LIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNLLMD 464 (493)
Q Consensus 421 --~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~~ 464 (493)
-|+-|=.|...+ +++.+..|++||+-.-. ....++.+..
T Consensus 347 F~~~f~yvk~~~~g----pd~~s~~Q~lgRvR~l~-~~ei~v~~d~ 387 (824)
T PF02399_consen 347 FDSMFAYVKPMSYG----PDMVSVYQMLGRVRSLL-DNEIYVYIDA 387 (824)
T ss_pred ceEEEEEecCCCCC----CcHHHHHHHHHHHHhhc-cCeEEEEEec
Confidence 366564443222 45667899999997654 4455545543
No 159
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=99.41 E-value=3.7e-12 Score=123.91 Aligned_cols=125 Identities=18% Similarity=0.327 Sum_probs=106.2
Q ss_pred HHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCc-EEEEeCcccc
Q 011104 334 AKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQ-VLISTDVLAR 412 (493)
Q Consensus 334 ~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~-vLv~T~~~~~ 412 (493)
.|+..+-.++..+...++++|+|++.-+.+..+.++|...++..+.+.|.....+|..++.+|....+- +|++|.+.+-
T Consensus 1028 gKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAGGL 1107 (1185)
T KOG0388|consen 1028 GKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAGGL 1107 (1185)
T ss_pred cceeeHHHHHHHhhcCCceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccCCceEEEEEecccCcc
Confidence 455555566677777789999999999999999999999999999999999999999999999986654 4789999999
Q ss_pred CCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcc--eEEEEeeCCc
Q 011104 413 GFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKG--VVFNLLMDGD 466 (493)
Q Consensus 413 Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g--~~i~l~~~~~ 466 (493)
||++...+.||+|+..|+ +..-.|...|+.|-|+.. .++.|++.+.
T Consensus 1108 GINLTAADTViFYdSDWN--------PT~D~QAMDRAHRLGQTrdvtvyrl~~rgT 1155 (1185)
T KOG0388|consen 1108 GINLTAADTVIFYDSDWN--------PTADQQAMDRAHRLGQTRDVTVYRLITRGT 1155 (1185)
T ss_pred cccccccceEEEecCCCC--------cchhhHHHHHHHhccCccceeeeeeccccc
Confidence 999999999999999954 455678888999887654 5777887654
No 160
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=99.41 E-value=1.8e-11 Score=119.37 Aligned_cols=132 Identities=19% Similarity=0.259 Sum_probs=96.3
Q ss_pred HHHHHHHHHHHh-cccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHc--CCCcE-EEEeCcc
Q 011104 335 KVMVIRDRIFEL-GEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKD--GLTQV-LISTDVL 410 (493)
Q Consensus 335 ~~~~l~~~l~~~-~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~--g~~~v-Lv~T~~~ 410 (493)
|+...+..+... .....+++|..+=-....-+...|.+.|.....+||.....+|..+++.|+. |...| |+.-.+.
T Consensus 730 Ki~~~l~~le~i~~~skeK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAG 809 (901)
T KOG4439|consen 730 KIAMVLEILETILTSSKEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAG 809 (901)
T ss_pred HHHHHHHHHHHHhhcccceeeehhHHHHHHHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccC
Confidence 444444444443 3344566666665555677788899999999999999999999999999973 43445 5556788
Q ss_pred ccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcce--EEEEeeCCccHHHHHHH
Q 011104 411 ARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGV--VFNLLMDGDDMIIMEKI 474 (493)
Q Consensus 411 ~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~--~i~l~~~~~~~~~~~~i 474 (493)
+.|||+-+.+|+|..|+-|+ +.-=.|..-|..|.|+... .+.|+..+.....+..+
T Consensus 810 GVGLNL~GaNHlilvDlHWN--------PaLEqQAcDRIYR~GQkK~V~IhR~~~~gTvEqrV~~L 867 (901)
T KOG4439|consen 810 GVGLNLIGANHLILVDLHWN--------PALEQQACDRIYRMGQKKDVFIHRLMCKGTVEQRVKSL 867 (901)
T ss_pred cceeeecccceEEEEecccC--------HHHHHHHHHHHHHhcccCceEEEEEEecCcHHHHHHHH
Confidence 89999999999999999965 4456788999999987664 44677766544443333
No 161
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=99.39 E-value=1.5e-12 Score=129.76 Aligned_cols=308 Identities=20% Similarity=0.289 Sum_probs=195.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCC--eEEEEcCCHHHHHHHHHHHH-HHhcccCceeeEeecCCCCCccccc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAP--QALCICPTRELAIQNLEVLR-KMGKHTGITSECAVPTDSTNYVPIS 217 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~--~~lil~Pt~~La~q~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (493)
+-+++.+.||+|||..+.-.+|..+.+...+. .+.+--|++..+..+++.+. +-+...+-.+.+.....+
T Consensus 394 ~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva~er~e~~g~tvgy~vRf~S------- 466 (1282)
T KOG0921|consen 394 RVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVANERGEEVGETCGYNVRFDS------- 466 (1282)
T ss_pred ceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHHHhhHHhhcccccccccccc-------
Confidence 78999999999999999888998886655432 35555599999888887544 333333322222111111
Q ss_pred CCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHH
Q 011104 218 KRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVK 297 (493)
Q Consensus 218 ~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~ 297 (493)
......--|+++|-+-+++++.+. +..+.++++||.|..... .+.+..+++.+........+++||||+..+..
T Consensus 467 a~prpyg~i~fctvgvllr~~e~g---lrg~sh~i~deiherdv~---~dfll~~lr~m~~ty~dl~v~lmsatIdTd~f 540 (1282)
T KOG0921|consen 467 ATPRPYGSIMFCTVGVLLRMMENG---LRGISHVIIDEIHERDVD---TDFVLIVLREMISTYRDLRVVLMSATIDTDLF 540 (1282)
T ss_pred cccccccceeeeccchhhhhhhhc---ccccccccchhhhhhccc---hHHHHHHHHhhhccchhhhhhhhhcccchhhh
Confidence 111223469999999999988774 445779999999987654 23455556666555556777888888654431
Q ss_pred --------------------HHHHHHhccCceeeecccccccc--------------CceEEEEeCCChH----------
Q 011104 298 --------------------NFVTRIVKDYNQLFVKKEELSLE--------------SVKQYKVYCPDEL---------- 333 (493)
Q Consensus 298 --------------------~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~---------- 333 (493)
.++...+..+. ..+........ .-+..-..|++..
T Consensus 541 ~~~f~~~p~~~~~grt~pvq~F~led~~~~~-~~vp~~~~~~k~k~~~~~~~~~~ddK~~n~n~~~dd~~~~~~~~am~~ 619 (1282)
T KOG0921|consen 541 TNFFSSIPDVTVHGRTFPVQSFFLEDIIQMT-QFVPSEPSQKKRKKDDDEEDEEVDDKGRNMNILCDPSYNESTRTAMSR 619 (1282)
T ss_pred hhhhccccceeeccccccHHHHHHHHhhhhh-hccCCCcCccchhhcccccCchhhhcccccccccChhhcchhhhhhhc
Confidence 11111111100 00000000000 0000111111110
Q ss_pred ----HHHHHHHHHHHH-h--cccCCcEEEEcCChhhHHHHHHHHHhC-------CCcEEEecCCCCHHHHHHHHHHHHcC
Q 011104 334 ----AKVMVIRDRIFE-L--GEKMGQTIIFVRTKNSASALHKALKDF-------GYEVTTIMGATIQEERDKIVKEFKDG 399 (493)
Q Consensus 334 ----~~~~~l~~~l~~-~--~~~~~~~lVf~~s~~~~~~l~~~L~~~-------~~~~~~l~~~~~~~~r~~~~~~f~~g 399 (493)
.....+.+.+.. . ..-.+-++||.+.-..+..|+.+|... .+.++.+|+.....++.++++....|
T Consensus 620 ~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L~~~ll~~~~fg~~~~y~ilp~Hsq~~~~eqrkvf~~~p~g 699 (1282)
T KOG0921|consen 620 LSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTLCNRLLEHQEFGQANKYEILPLHSQLTSQEQRKVFEPVPEG 699 (1282)
T ss_pred chhhcchhHHHHHHHhhhcccCCccceeeecCchHHhhhhhhhhhhhhhhccchhcccccchhhcccHhhhhccCccccc
Confidence 000111121111 1 122467899999999999999988654 46789999999999999999999999
Q ss_pred CCcEEEEeCccccCCCCCCCCEEEEccCCCCCC-------C---CCCCCcccccccccccccCCCcceEEEEee
Q 011104 400 LTQVLISTDVLARGFDQQQVNLIVNYDPPVKHG-------K---HLEPDCEVYLHRIGRAGRFGRKGVVFNLLM 463 (493)
Q Consensus 400 ~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~-------~---~~~~s~~~y~qr~GR~~R~g~~g~~i~l~~ 463 (493)
..++++.|.++...+.+.++.+||+.+.-.... . +.+.|....+||.||+||. ++|.|..+.+
T Consensus 700 v~kii~stniaetsiTidd~v~vid~cka~~~~~~s~nn~~~~Atvw~sktn~eqr~gr~grv-R~G~~f~lcs 772 (1282)
T KOG0921|consen 700 VTKIILSTNIAETSITIDDVVYVIDSCKAKEKLFTSHNNMTHYATVWASKTNLEQRKGRAGRV-RPGFCFHLCS 772 (1282)
T ss_pred ccccccccceeeEeeeecceeEEEeeeeeeeeeeccccceeeeeeecccccchHhhcccCcee-cccccccccH
Confidence 999999999999999999988888744322110 0 2345667779999999998 7899987775
No 162
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=99.35 E-value=2.2e-11 Score=122.10 Aligned_cols=123 Identities=21% Similarity=0.292 Sum_probs=99.3
Q ss_pred HHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh----------------------CCCcEEEecCCCCHHHHHHH
Q 011104 335 KVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD----------------------FGYEVTTIMGATIQEERDKI 392 (493)
Q Consensus 335 ~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~----------------------~~~~~~~l~~~~~~~~r~~~ 392 (493)
|+..|++.|.....-+.+.|||.+|......+..+|.. .|...+.|.|......|..+
T Consensus 1127 KmiLLleIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~ 1206 (1567)
T KOG1015|consen 1127 KMILLLEILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKW 1206 (1567)
T ss_pred ceehHHHHHHHHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHHH
Confidence 44456665666666678999999999999998888864 26678999999999999999
Q ss_pred HHHHHcCC----CcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcce--EEEEeeCC
Q 011104 393 VKEFKDGL----TQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGV--VFNLLMDG 465 (493)
Q Consensus 393 ~~~f~~g~----~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~--~i~l~~~~ 465 (493)
...|+.-. ...||+|.+.+-|+|+-.++.||+||..|++ .--.|.|=|+.|.|+..- +|.|+.-+
T Consensus 1207 ~~~FNdp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNP--------SyDtQSIFRvyRfGQtKPvyiYRfiAqG 1277 (1567)
T KOG1015|consen 1207 AEEFNDPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNP--------SYDTQSIFRVYRFGQTKPVYIYRFIAQG 1277 (1567)
T ss_pred HHHhcCcccceeEEEEEeeccCccccceeecceEEEEecccCC--------ccchHHHHHHHhhcCcCceeehhhhhcc
Confidence 99998642 3479999999999999999999999999664 446899999999997664 44555544
No 163
>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=99.35 E-value=3.8e-12 Score=101.39 Aligned_cols=136 Identities=14% Similarity=0.200 Sum_probs=82.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
+-.++-.++|+|||.-.+.-++.... ..+.++|||.|||.++..+.+.++... +.+...... ...
T Consensus 5 ~~~~~d~hpGaGKTr~vlp~~~~~~i--~~~~rvLvL~PTRvva~em~~aL~~~~----~~~~t~~~~---------~~~ 69 (148)
T PF07652_consen 5 ELTVLDLHPGAGKTRRVLPEIVREAI--KRRLRVLVLAPTRVVAEEMYEALKGLP----VRFHTNARM---------RTH 69 (148)
T ss_dssp EEEEEE--TTSSTTTTHHHHHHHHHH--HTT--EEEEESSHHHHHHHHHHTTTSS----EEEESTTSS------------
T ss_pred ceeEEecCCCCCCcccccHHHHHHHH--HccCeEEEecccHHHHHHHHHHHhcCC----cccCceeee---------ccc
Confidence 66788999999999975554443221 245689999999999999888776442 222111100 011
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhH
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETV 296 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~ 296 (493)
..+.-|-|+|++.+.+.+.+ .....++++||+||+|..... .-.....+..+... ....+|+||||+|...
T Consensus 70 ~g~~~i~vMc~at~~~~~~~-p~~~~~yd~II~DEcH~~Dp~---sIA~rg~l~~~~~~-g~~~~i~mTATPPG~~ 140 (148)
T PF07652_consen 70 FGSSIIDVMCHATYGHFLLN-PCRLKNYDVIIMDECHFTDPT---SIAARGYLRELAES-GEAKVIFMTATPPGSE 140 (148)
T ss_dssp -SSSSEEEEEHHHHHHHHHT-SSCTTS-SEEEECTTT--SHH---HHHHHHHHHHHHHT-TS-EEEEEESS-TT--
T ss_pred cCCCcccccccHHHHHHhcC-cccccCccEEEEeccccCCHH---HHhhheeHHHhhhc-cCeeEEEEeCCCCCCC
Confidence 23456999999999888776 556789999999999975431 11223334444332 2468999999988654
No 164
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.31 E-value=1.7e-10 Score=123.26 Aligned_cols=298 Identities=18% Similarity=0.223 Sum_probs=163.5
Q ss_pred CccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCC
Q 011104 140 YRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKR 219 (493)
Q Consensus 140 ~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (493)
.+.-+|+.-||||||+.... +...+......+.++||+-++.|-.|+...+..++....... ...+.. .....
T Consensus 273 ~~~G~IWHtqGSGKTlTm~~-~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~~~----~~~s~~--~Lk~~ 345 (962)
T COG0610 273 GKGGYIWHTQGSGKTLTMFK-LARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFNDP----KAESTS--ELKEL 345 (962)
T ss_pred CCceEEEeecCCchHHHHHH-HHHHHHhccCCCeEEEEechHHHHHHHHHHHHHHHHhhhhcc----cccCHH--HHHHH
Confidence 36799999999999998443 333344447788999999999999999999999876543311 111111 11111
Q ss_pred CC-CCCcEEEeCchHHHHHHHcCc--cCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhH
Q 011104 220 PP-VTAQVVIGTPGTIKKWMSAKK--LGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETV 296 (493)
Q Consensus 220 ~~-~~~~Ilv~Tp~~l~~~l~~~~--~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~ 296 (493)
+. ....|+|+|-+.|...+.... ..-.+--+||+||||+-- +......+-..+ ++...++||+|+--.-
T Consensus 346 l~~~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRSQ----~G~~~~~~~~~~----~~a~~~gFTGTPi~~~ 417 (962)
T COG0610 346 LEDGKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRSQ----YGELAKLLKKAL----KKAIFIGFTGTPIFKE 417 (962)
T ss_pred HhcCCCcEEEEEecccchhhhcccccccCCCcEEEEEechhhcc----ccHHHHHHHHHh----ccceEEEeeCCccccc
Confidence 11 134799999999988776641 112223379999999732 222222222222 2468999999964211
Q ss_pred HH-HHHHHhccCceeeeccccccccCc-eEEEEeC---C-------Ch--------------------------------
Q 011104 297 KN-FVTRIVKDYNQLFVKKEELSLESV-KQYKVYC---P-------DE-------------------------------- 332 (493)
Q Consensus 297 ~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~---~-------~~-------------------------------- 332 (493)
.. -....++.+...+.......-..+ ..+|... . ..
T Consensus 418 d~~tt~~~fg~ylh~Y~i~daI~Dg~vl~i~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~ 497 (962)
T COG0610 418 DKDTTKDVFGDYLHTYTITDAIRDGAVLPVYYENRVELELIEESIKEEAEELDERIEEITEDILEKIKKKTKNLEFLAML 497 (962)
T ss_pred cccchhhhhcceeEEEecchhhccCceeeEEEeecccccccccchhhhhhhhHHHHhhhHHHHHHHHHHHHhhhhHHhcc
Confidence 11 113333333333332221111111 1111100 0 00
Q ss_pred ----HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCC---------c-------EEEe-------cCCCC
Q 011104 333 ----LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGY---------E-------VTTI-------MGATI 385 (493)
Q Consensus 333 ----~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~---------~-------~~~l-------~~~~~ 385 (493)
......+.+.+........++++.+.++.-+..+++....... . .... |.. .
T Consensus 498 ~~r~~~~a~~i~~~f~~~~~~~~kam~V~~sr~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~-~ 576 (962)
T COG0610 498 AVRLIRAAKDIYDHFKKEEVFDLKAMVVASSRKVAVELYEAEIAARLDWHSKESLEGAIKDYNTEFETDFDKKQSHAK-L 576 (962)
T ss_pred hHHHHHHHHHHHHHHHhhcccCceEEEEEechHHHHHhHHHHhhhhhhhhhhhhhhhHHHHHHhhcccchhhhhhhHH-H
Confidence 0000111122222222346777777777755555444322100 0 0000 111 1
Q ss_pred HHHHHHHHHHH--HcCCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccC--C--CcceEE
Q 011104 386 QEERDKIVKEF--KDGLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRF--G--RKGVVF 459 (493)
Q Consensus 386 ~~~r~~~~~~f--~~g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~--g--~~g~~i 459 (493)
...+.....+| +....++||.++++-+|.|.|.+..+. +|.|.... ..+|.+-|+.|. + ..|.++
T Consensus 577 ~~~~~~~~~r~~~~~d~~kilIV~dmlLTGFDaP~L~TmY-vDK~Lk~H--------~L~QAisRtNR~~~~~K~~G~IV 647 (962)
T COG0610 577 KDEKKDLIKRFKLKDDPLDLLIVVDMLLTGFDAPCLNTLY-VDKPLKYH--------NLIQAISRTNRVFPGKKKFGLIV 647 (962)
T ss_pred HHHHhhhhhhhcCcCCCCCEEEEEccccccCCccccceEE-eccccccc--------hHHHHHHHhccCCCCCCCCcEEE
Confidence 23334444443 456789999999999999999888877 67775443 389999999995 3 234455
Q ss_pred EEe
Q 011104 460 NLL 462 (493)
Q Consensus 460 ~l~ 462 (493)
.|.
T Consensus 648 Df~ 650 (962)
T COG0610 648 DFR 650 (962)
T ss_pred ECc
Confidence 444
No 165
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=99.27 E-value=3.7e-11 Score=122.02 Aligned_cols=333 Identities=17% Similarity=0.180 Sum_probs=195.1
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
+|+. |..+|...--.+. ..-+..+.||-|||+++.+|+.-.. ..+..+.+++...-||.--.+++..+...+
T Consensus 77 lg~~-~~dVQliG~i~lh----~g~iaEM~TGEGKTL~atlp~ylna---L~gkgVhvVTvNdYLA~RDae~m~~l~~~L 148 (822)
T COG0653 77 LGMR-HFDVQLLGGIVLH----LGDIAEMRTGEGKTLVATLPAYLNA---LAGKGVHVVTVNDYLARRDAEWMGPLYEFL 148 (822)
T ss_pred cCCC-hhhHHHhhhhhhc----CCceeeeecCCchHHHHHHHHHHHh---cCCCCcEEeeehHHhhhhCHHHHHHHHHHc
Confidence 4554 6667765544433 4478899999999999988875222 345568888999999999999999999999
Q ss_pred CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHH-HHHH------cCccCCCCeeEEEEecchhhhcc--------c
Q 011104 199 GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIK-KWMS------AKKLGFSRLKILVYDEADHMLDE--------A 263 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~-~~l~------~~~~~~~~~~~iVlDEah~l~~~--------~ 263 (493)
++++.+...+...... +....|||.++|-..|- +.++ ........+.+.|+||+|.++-+ .
T Consensus 149 GlsvG~~~~~m~~~ek----~~aY~~DItY~TnnElGFDYLRDNm~~~~ee~vqr~~~faIvDEvDSILIDEARtPLiIS 224 (822)
T COG0653 149 GLSVGVILAGMSPEEK----RAAYACDITYGTNNELGFDYLRDNMVTSQEEKVQRGLNFAIVDEVDSILIDEARTPLIIS 224 (822)
T ss_pred CCceeeccCCCChHHH----HHHHhcCceeccccccCcchhhhhhhccHHHhhhccCCeEEEcchhheeeeccccceeee
Confidence 9999888777644332 33335899999987651 1111 11122446788999999975421 1
Q ss_pred C---C----HHHHHHHHHHhhhcC-----CCeeEEEEeee----------------------------------------
Q 011104 264 G---F----RDDSLRIMKDIERSS-----GHCQVLLFSAT---------------------------------------- 291 (493)
Q Consensus 264 ~---~----~~~~~~i~~~~~~~~-----~~~q~v~~SAT---------------------------------------- 291 (493)
| . ...+..+...+.... ...+.+.++-.
T Consensus 225 G~~~~~~~~Y~~~~~~v~~l~~~~d~~iDek~k~v~lte~G~~kae~~f~~~~Ly~~en~~~~h~~~~alrA~~l~~~D~ 304 (822)
T COG0653 225 GPAEDSSELYKKVDDLVRLLSEDEDFTIDEKSKNVSLTESGLEKAEELLGIENLYDLENVNLVHHLNQALRAHILFFRDV 304 (822)
T ss_pred cccccCchHHHHHHHHHHHhccccceeecchhcccccchhhHHHHHHHhCcccccchhhHHHHhhHHHHHHHHHHhhcCC
Confidence 1 1 112222222221110 00111222111
Q ss_pred ----------------------------c--------------------ChhHHHHHHHHhc-----------------c
Q 011104 292 ----------------------------F--------------------NETVKNFVTRIVK-----------------D 306 (493)
Q Consensus 292 ----------------------------~--------------------~~~~~~~~~~~~~-----------------~ 306 (493)
+ +-...++++.+-+ -
T Consensus 305 dYIVrd~ev~IvD~ftGR~m~gRr~s~GLhQAiEAKEgv~i~~e~~tlatITfQn~fR~y~kl~gmTGTa~te~~EF~~i 384 (822)
T COG0653 305 DYIVRDGEVVIVDEFTGRMMEGRRWSDGLHQAIEAKEGVEIQEENQTLATITFQNLFRLYPKLAGMTGTADTEEEEFDVI 384 (822)
T ss_pred eeEEecCeEEEEecccCCcccCcCCCchhHHHHHHhcCCcccccceeehhhhHHHHHhhhhhhcCCCCcchhhhhhhhhc
Confidence 0 0001111110000 0
Q ss_pred C-ceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCC
Q 011104 307 Y-NQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATI 385 (493)
Q Consensus 307 ~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~ 385 (493)
| ..+...+...+.......-........|...++..+......+.|+||-+.+++..+.+.+.|.+.|++...+...-.
T Consensus 385 Y~l~vv~iPTnrp~~R~D~~D~vy~t~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h 464 (822)
T COG0653 385 YGLDVVVIPTNRPIIRLDEPDLVYKTEEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNH 464 (822)
T ss_pred cCCceeeccCCCcccCCCCccccccchHHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHhcCCCceeeccccH
Confidence 0 000000011111112222223335667888888889999999999999999999999999999999999988888765
Q ss_pred HHHHHHHHHHHHcCCC-cEEEEeCccccCCCCCCCCE---EEEccCCCCCCCCCCCCcccccccccccccCCCcceEEEE
Q 011104 386 QEERDKIVKEFKDGLT-QVLISTDVLARGFDQQQVNL---IVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFNL 461 (493)
Q Consensus 386 ~~~r~~~~~~f~~g~~-~vLv~T~~~~~Gldi~~v~~---Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~l 461 (493)
. ++.-+-. ..|.. -|-|||++++||-||.--.. |.-.+.-.-.+.....|-.--.|-.||+||.|-+|.+..|
T Consensus 465 ~--~EA~Iia-~AG~~gaVTiATNMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQGDpG~S~F~ 541 (822)
T COG0653 465 A--REAEIIA-QAGQPGAVTIATNMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQGDPGSSRFY 541 (822)
T ss_pred H--HHHHHHh-hcCCCCccccccccccCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccccCCCcchhhhh
Confidence 3 3333322 23433 47899999999999864332 2111111000000112222235888999999999998866
Q ss_pred eeCCc
Q 011104 462 LMDGD 466 (493)
Q Consensus 462 ~~~~~ 466 (493)
++-.+
T Consensus 542 lSleD 546 (822)
T COG0653 542 LSLED 546 (822)
T ss_pred hhhHH
Confidence 66443
No 166
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=99.20 E-value=6.3e-10 Score=121.60 Aligned_cols=125 Identities=23% Similarity=0.359 Sum_probs=104.5
Q ss_pred HHHHHHHHHH-HHhcccCC--cEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcC--CCcEEEEeC
Q 011104 334 AKVMVIRDRI-FELGEKMG--QTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDG--LTQVLISTD 408 (493)
Q Consensus 334 ~~~~~l~~~l-~~~~~~~~--~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g--~~~vLv~T~ 408 (493)
.+...+.+.+ ......+. ++|||++.......+...|...++....++|.++...|...++.|.++ ...+++++.
T Consensus 692 ~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~k 771 (866)
T COG0553 692 GKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLK 771 (866)
T ss_pred hHHHHHHHHHHHHHHhhcccccEEEEeCcHHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcCCCCceEEEEec
Confidence 4455555555 34555566 899999999999999999999999999999999999999999999986 455678889
Q ss_pred ccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcc--eEEEEeeCCc
Q 011104 409 VLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKG--VVFNLLMDGD 466 (493)
Q Consensus 409 ~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g--~~i~l~~~~~ 466 (493)
+.+.|+|+...++||+||+.| ++....|...|+.|.|+.. .++.+++.+.
T Consensus 772 agg~glnLt~a~~vi~~d~~w--------np~~~~Qa~dRa~RigQ~~~v~v~r~i~~~t 823 (866)
T COG0553 772 AGGLGLNLTGADTVILFDPWW--------NPAVELQAIDRAHRIGQKRPVKVYRLITRGT 823 (866)
T ss_pred ccccceeecccceEEEecccc--------ChHHHHHHHHHHHHhcCcceeEEEEeecCCc
Confidence 999999999999999999994 5666999999999988766 4666776655
No 167
>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=99.14 E-value=4e-10 Score=106.86 Aligned_cols=143 Identities=18% Similarity=0.120 Sum_probs=80.2
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCC--CCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPN--LKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~--~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
+.++++..+|+|||+..+..+....... .....+|||||. .+..||...+.++.......+....+.. .......
T Consensus 26 ~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~~~~~v~~~~~~~--~~~~~~~ 102 (299)
T PF00176_consen 26 RGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDPDSLRVIIYDGDS--ERRRLSK 102 (299)
T ss_dssp -EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT-TS-EEEESSSC--HHHHTTS
T ss_pred CCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcccccccccccccccccc--ccccccc
Confidence 7899999999999998655443222111 112259999999 7889999999999854344443333332 0111122
Q ss_pred CCCCCCcEEEeCchHHHHHHH---cCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC
Q 011104 219 RPPVTAQVVIGTPGTIKKWMS---AKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN 293 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l~~~l~---~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~ 293 (493)
......+++|+|++.+..... ...+...++++||+||+|.+.+. .......+..+. ....+++|||+-
T Consensus 103 ~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~---~s~~~~~l~~l~----~~~~~lLSgTP~ 173 (299)
T PF00176_consen 103 NQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNK---DSKRYKALRKLR----ARYRWLLSGTPI 173 (299)
T ss_dssp SSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTT---TSHHHHHHHCCC----ECEEEEE-SS-S
T ss_pred cccccceeeeccccccccccccccccccccccceeEEEecccccccc---cccccccccccc----cceEEeeccccc
Confidence 233457899999999981100 01111234899999999998542 222333333333 456799999964
No 168
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=99.01 E-value=1.9e-09 Score=100.30 Aligned_cols=73 Identities=21% Similarity=0.227 Sum_probs=57.2
Q ss_pred CCCCCCchHHHhhh----hhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCC---CCeEEEEcCCHHHHHHHHHHH
Q 011104 119 MKFQKPSKIQAISL----PMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLK---APQALCICPTRELAIQNLEVL 191 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i----~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~---~~~~lil~Pt~~La~q~~~~~ 191 (493)
|.|. |+|.|.+.+ ..+..| .++++.||||+|||++|++|++..+..... +.+++|.++|..+..|....+
T Consensus 5 FPy~-~r~~Q~~~m~~v~~~~~~~--~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00488 5 FPYE-PYPIQYEFMEELKRVLDRG--KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred CCCC-CCHHHHHHHHHHHHHHHcC--CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHH
Confidence 5565 699999844 444556 899999999999999999999876543222 348999999999999987777
Q ss_pred HHH
Q 011104 192 RKM 194 (493)
Q Consensus 192 ~~~ 194 (493)
+++
T Consensus 82 ~~~ 84 (289)
T smart00488 82 RKL 84 (289)
T ss_pred Hhc
Confidence 665
No 169
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=99.01 E-value=1.9e-09 Score=100.30 Aligned_cols=73 Identities=21% Similarity=0.227 Sum_probs=57.2
Q ss_pred CCCCCCchHHHhhh----hhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCC---CCeEEEEcCCHHHHHHHHHHH
Q 011104 119 MKFQKPSKIQAISL----PMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLK---APQALCICPTRELAIQNLEVL 191 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i----~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~---~~~~lil~Pt~~La~q~~~~~ 191 (493)
|.|. |+|.|.+.+ ..+..| .++++.||||+|||++|++|++..+..... +.+++|.++|..+..|....+
T Consensus 5 FPy~-~r~~Q~~~m~~v~~~~~~~--~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00489 5 FPYE-PYPIQYEFMEELKRVLDRG--KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred CCCC-CCHHHHHHHHHHHHHHHcC--CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHH
Confidence 5565 699999844 444556 899999999999999999999876543222 348999999999999987777
Q ss_pred HHH
Q 011104 192 RKM 194 (493)
Q Consensus 192 ~~~ 194 (493)
+++
T Consensus 82 ~~~ 84 (289)
T smart00489 82 RKL 84 (289)
T ss_pred Hhc
Confidence 665
No 170
>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=98.83 E-value=1.4e-08 Score=91.73 Aligned_cols=132 Identities=18% Similarity=0.232 Sum_probs=94.0
Q ss_pred hCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 118 EMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 118 ~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.+|+. |++.|-.++-.+..| -|+...||-|||++..+|+.-.. ..|..+=|++.+..||..=++++..+...
T Consensus 73 ~~g~~-p~~vQll~~l~L~~G----~laEm~TGEGKTli~~l~a~~~A---L~G~~V~vvT~NdyLA~RD~~~~~~~y~~ 144 (266)
T PF07517_consen 73 TLGLR-PYDVQLLGALALHKG----RLAEMKTGEGKTLIAALPAALNA---LQGKGVHVVTSNDYLAKRDAEEMRPFYEF 144 (266)
T ss_dssp HTS-----HHHHHHHHHHHTT----SEEEESTTSHHHHHHHHHHHHHH---TTSS-EEEEESSHHHHHHHHHHHHHHHHH
T ss_pred HcCCc-ccHHHHhhhhhcccc----eeEEecCCCCcHHHHHHHHHHHH---HhcCCcEEEeccHHHhhccHHHHHHHHHH
Confidence 35555 999999999877666 49999999999999877765443 25667899999999999999999999999
Q ss_pred cCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHH-HHHHcC----c--cCCCCeeEEEEecchhhhc
Q 011104 198 TGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIK-KWMSAK----K--LGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~-~~l~~~----~--~~~~~~~~iVlDEah~l~~ 261 (493)
+|+.+.+............ ...++|+++|...|. +.|+.. . .....+.++||||+|.++-
T Consensus 145 LGlsv~~~~~~~~~~~r~~----~Y~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs~Li 211 (266)
T PF07517_consen 145 LGLSVGIITSDMSSEERRE----AYAADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDSILI 211 (266)
T ss_dssp TT--EEEEETTTEHHHHHH----HHHSSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHHHTT
T ss_pred hhhccccCccccCHHHHHH----HHhCcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccceEEE
Confidence 9999998887664321111 123689999998874 334321 1 1246789999999998764
No 171
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=98.58 E-value=1.3e-08 Score=104.18 Aligned_cols=133 Identities=18% Similarity=0.207 Sum_probs=96.2
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCcee
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITS 202 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~ 202 (493)
...|+|.+.+..+..- ..++++-+|||+|||++|.+.++..+... ++.++.+++|.++|...-...+.+.....|+++
T Consensus 927 ~fn~~q~~if~~~y~t-d~~~~~g~ptgsgkt~~ae~a~~~~~~~~-p~~kvvyIap~kalvker~~Dw~~r~~~~g~k~ 1004 (1230)
T KOG0952|consen 927 YFNPIQTQIFHCLYHT-DLNFLLGAPTGSGKTVVAELAIFRALSYY-PGSKVVYIAPDKALVKERSDDWSKRDELPGIKV 1004 (1230)
T ss_pred ccCCccceEEEEEeec-chhhhhcCCccCcchhHHHHHHHHHhccC-CCccEEEEcCCchhhcccccchhhhcccCCcee
Confidence 4567888888777654 37899999999999999999888766543 457999999999998877766655544335555
Q ss_pred eEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHc--CccCCCCeeEEEEecchhhhcc
Q 011104 203 ECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSA--KKLGFSRLKILVYDEADHMLDE 262 (493)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~--~~~~~~~~~~iVlDEah~l~~~ 262 (493)
.-..+...... .....++++|+||++.-.+.++ ..-.+.+++.+|+||.|.+...
T Consensus 1005 ie~tgd~~pd~-----~~v~~~~~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~ 1061 (1230)
T KOG0952|consen 1005 IELTGDVTPDV-----KAVREADIVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGED 1061 (1230)
T ss_pred EeccCccCCCh-----hheecCceEEcccccccCccccccchhhhccccceeecccccccCC
Confidence 44443332221 1122578999999998776663 2234788999999999988764
No 172
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=98.46 E-value=2.8e-07 Score=78.59 Aligned_cols=110 Identities=22% Similarity=0.269 Sum_probs=73.4
Q ss_pred CCcEEEEcCChhhHHHHHHHHHhCC----CcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeC--ccccCCCCCC--CCE
Q 011104 350 MGQTIIFVRTKNSASALHKALKDFG----YEVTTIMGATIQEERDKIVKEFKDGLTQVLISTD--VLARGFDQQQ--VNL 421 (493)
Q Consensus 350 ~~~~lVf~~s~~~~~~l~~~L~~~~----~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~--~~~~Gldi~~--v~~ 421 (493)
++++|||++|....+.+...+.... +.++.- ....+..+++.|+.+.-.||+++. .+++|+|+|+ ++.
T Consensus 9 ~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q----~~~~~~~~l~~~~~~~~~il~~v~~g~~~EGiD~~~~~~r~ 84 (167)
T PF13307_consen 9 PGGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQ----GSKSRDELLEEFKRGEGAILLAVAGGSFSEGIDFPGDLLRA 84 (167)
T ss_dssp SSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEES----TCCHHHHHHHHHCCSSSEEEEEETTSCCGSSS--ECESEEE
T ss_pred CCCEEEEeCCHHHHHHHHHHHHhhcccccceeeec----CcchHHHHHHHHHhccCeEEEEEecccEEEeecCCCchhhe
Confidence 5899999999999999999998653 333332 246788999999999999999998 9999999997 778
Q ss_pred EEEccCCCCCCCC-C---------------------CCCcccccccccccccCCCcceEEEEee
Q 011104 422 IVNYDPPVKHGKH-L---------------------EPDCEVYLHRIGRAGRFGRKGVVFNLLM 463 (493)
Q Consensus 422 Vi~~~~p~~~~~~-~---------------------~~s~~~y~qr~GR~~R~g~~g~~i~l~~ 463 (493)
||..++|...... . +..+....|.+||+-|...+-.++.++.
T Consensus 85 vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~llD 148 (167)
T PF13307_consen 85 VIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVIILLD 148 (167)
T ss_dssp EEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEEEEEES
T ss_pred eeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEEEEEEc
Confidence 9999999643321 0 0011122688999999876655555554
No 173
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.45 E-value=9.7e-07 Score=92.39 Aligned_cols=38 Identities=8% Similarity=-0.003 Sum_probs=33.7
Q ss_pred CcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhc
Q 011104 224 AQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 224 ~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~ 261 (493)
..|+++||..|..=+-.+.+++..+..||+||||++..
T Consensus 8 ggi~~~T~rIl~~DlL~~ri~~~~itgiiv~~Ahr~~~ 45 (814)
T TIGR00596 8 GGIFSITSRILVVDLLTGIIPPELITGILVLRADRIIE 45 (814)
T ss_pred CCEEEEechhhHhHHhcCCCCHHHccEEEEeecccccc
Confidence 57999999999776777788999999999999999865
No 174
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=98.44 E-value=3.8e-06 Score=83.72 Aligned_cols=107 Identities=21% Similarity=0.284 Sum_probs=85.8
Q ss_pred CCcEEEEcCChhhHHHHHHHHHhC------------------CCcEEEecCCCCHHHHHHHHHHHHcCC---CcEEEEeC
Q 011104 350 MGQTIIFVRTKNSASALHKALKDF------------------GYEVTTIMGATIQEERDKIVKEFKDGL---TQVLISTD 408 (493)
Q Consensus 350 ~~~~lVf~~s~~~~~~l~~~L~~~------------------~~~~~~l~~~~~~~~r~~~~~~f~~g~---~~vLv~T~ 408 (493)
+.++|||.++......+.+.|... +...+.+.|..+..+|++.++.|+... +-+|++|.
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 458999999999998888888764 233567889999999999999998542 35788999
Q ss_pred ccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEE--EEeeC
Q 011104 409 VLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVF--NLLMD 464 (493)
Q Consensus 409 ~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i--~l~~~ 464 (493)
...-|+++-...-+|.|+..|+ +..-.|.+-|+-|.|+...|+ .|+.+
T Consensus 799 ag~lGinLIsanr~~ifda~wn--------pchdaqavcRvyrYGQ~KpcfvYRlVmD 848 (1387)
T KOG1016|consen 799 AGSLGINLISANRCIIFDACWN--------PCHDAQAVCRVYRYGQQKPCFVYRLVMD 848 (1387)
T ss_pred cccccceeeccceEEEEEeecC--------ccccchhhhhhhhhcCcCceeEEeehhh
Confidence 9999999988888888999964 444688889999998876655 45543
No 175
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=98.42 E-value=1.3e-05 Score=81.18 Aligned_cols=71 Identities=17% Similarity=0.259 Sum_probs=52.6
Q ss_pred CCCcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccC--CCcceEEE----------EeeCCc
Q 011104 399 GLTQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRF--GRKGVVFN----------LLMDGD 466 (493)
Q Consensus 399 g~~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~--g~~g~~i~----------l~~~~~ 466 (493)
...+.+++-.++-+|+|=|+|=.+.-.... .|..+=+|.+||.-|- +..|.-++ ++.+..
T Consensus 482 ~plRFIFS~waLrEGWDNPNVFtIckL~~S--------~SeiSK~QeVGRGLRLaVNe~G~RV~~~~~~~n~L~vlv~~s 553 (985)
T COG3587 482 EPLRFIFSKWALREGWDNPNVFTICKLRSS--------GSEISKLQEVGRGLRLAVNENGERVTKDFDFPNELTVLVNES 553 (985)
T ss_pred CcceeeeehhHHhhcCCCCCeeEEEEecCC--------CcchHHHHHhccceeeeeccccceecccccccceEEEEeccc
Confidence 347899999999999999999998888766 6778889999999993 45565443 445555
Q ss_pred cHHHHHHHHHH
Q 011104 467 DMIIMEKIERY 477 (493)
Q Consensus 467 ~~~~~~~i~~~ 477 (493)
+..+.+.+++-
T Consensus 554 ek~Fv~~LqkE 564 (985)
T COG3587 554 EKDFVKALQKE 564 (985)
T ss_pred HHHHHHHHHHH
Confidence 55555554443
No 176
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.32 E-value=1.1e-06 Score=77.03 Aligned_cols=64 Identities=23% Similarity=0.265 Sum_probs=46.0
Q ss_pred CchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHH
Q 011104 124 PSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEV 190 (493)
Q Consensus 124 ~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~ 190 (493)
+++-|+.++..++.+..+-+++.|+.|+|||.+ +-.+...+.. .+.++++++||...+..+.+.
T Consensus 2 L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~-l~~~~~~~~~--~g~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 2 LNEEQREAVRAILTSGDRVSVLQGPAGTGKTTL-LKALAEALEA--AGKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHH-HHHHHHHHHH--TT--EEEEESSHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHH-HHHHHHHHHh--CCCeEEEECCcHHHHHHHHHh
Confidence 678899999999866335688899999999986 3334444433 357899999999888775554
No 177
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.29 E-value=2.7e-06 Score=89.33 Aligned_cols=145 Identities=15% Similarity=0.182 Sum_probs=81.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHH-----HHhcc--cCceeeEeecCCCC--
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLR-----KMGKH--TGITSECAVPTDST-- 211 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~-----~~~~~--~~~~~~~~~~~~~~-- 211 (493)
.++.+.++||+|||.+|+-.++.... .....++||+||+.+....+...+. ..+.. -+..+....-....
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~-~~~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~~ 138 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQ-KYGLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDKK 138 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHH-HcCCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCccc
Confidence 58999999999999998877765533 2344689999999988877776554 11111 11112211111110
Q ss_pred ---------CcccccC---CCCCCCcEEEeCchHHHHHHH-cC---------c-cCCCCe----eEEEEecchhhhcccC
Q 011104 212 ---------NYVPISK---RPPVTAQVVIGTPGTIKKWMS-AK---------K-LGFSRL----KILVYDEADHMLDEAG 264 (493)
Q Consensus 212 ---------~~~~~~~---~~~~~~~Ilv~Tp~~l~~~l~-~~---------~-~~~~~~----~~iVlDEah~l~~~~~ 264 (493)
....... ......+|+|+|-+.|..-.. +. . ..+..+ -+||+||.|++...
T Consensus 139 k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh~~~~~-- 216 (986)
T PRK15483 139 KSGRKNFPAQLSNFVKASRQNSNTIHVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPHRFPRD-- 216 (986)
T ss_pred ccccccChHHHHHHHhccccCCCceEEEEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCCCCCcc--
Confidence 0000000 112247899999998854211 00 0 111111 27999999998642
Q ss_pred CHHHHHHHHHHhhhcCCCeeEEEEeeecCh
Q 011104 265 FRDDSLRIMKDIERSSGHCQVLLFSATFNE 294 (493)
Q Consensus 265 ~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~ 294 (493)
...+..| ..+.+ . -++.+|||.+.
T Consensus 217 -~k~~~~i-~~lnp---l-~~lrysAT~~~ 240 (986)
T PRK15483 217 -NKFYQAI-EALKP---Q-MIIRFGATFPD 240 (986)
T ss_pred -hHHHHHH-HhcCc---c-cEEEEeeecCC
Confidence 1223333 33332 1 25779999976
No 178
>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=98.19 E-value=7.4e-06 Score=79.11 Aligned_cols=96 Identities=16% Similarity=0.209 Sum_probs=63.8
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
+-++|.|.+|||||+.++- ++..+.....+..++++|+...|...+.+.+......
T Consensus 2 ~v~~I~G~aGTGKTvla~~-l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~----------------------- 57 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALN-LAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNP----------------------- 57 (352)
T ss_pred eEEEEEecCCcCHHHHHHH-HHHHhhccccCCceEEEEecchHHHHHHHHHhhhccc-----------------------
Confidence 4689999999999998543 4444433345668999999999988877766554300
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhc
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~ 261 (493)
......+..+..+...+.........+++||+||||++..
T Consensus 58 -~~~~~~~~~~~~~i~~~~~~~~~~~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 58 -KLKKSDFRKPTSFINNYSESDKEKNKYDVIIVDEAQRLRT 97 (352)
T ss_pred -chhhhhhhhhHHHHhhcccccccCCcCCEEEEehhHhhhh
Confidence 0012344455555443332233467799999999999987
No 179
>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=98.14 E-value=2e-06 Score=74.77 Aligned_cols=59 Identities=20% Similarity=0.214 Sum_probs=41.8
Q ss_pred CCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 122 QKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 122 ~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
...++-|+.++..++.. .-+++.||.|+|||+.++..+++.+.. ....+++|+-|..+.
T Consensus 3 ~p~~~~Q~~~~~al~~~--~~v~~~G~AGTGKT~LA~a~Al~~v~~-g~~~kiii~Rp~v~~ 61 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNN--DLVIVNGPAGTGKTFLALAAALELVKE-GEYDKIIITRPPVEA 61 (205)
T ss_dssp ---SHHHHHHHHHHHH---SEEEEE--TTSSTTHHHHHHHHHHHHT-TS-SEEEEEE-S--T
T ss_pred cCCCHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHHHHh-CCCcEEEEEecCCCC
Confidence 34678899999999966 899999999999999998888887765 455578888887653
No 180
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.01 E-value=5.3e-05 Score=69.02 Aligned_cols=149 Identities=14% Similarity=0.099 Sum_probs=90.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
.-.++-..||.||--...--|+..+... ..+.+++..+..|.....+.++.++.. .+.+..+..... ....
T Consensus 63 ~Gf~lGDGtGvGKGR~iAgiI~~n~l~G--r~r~vwvS~s~dL~~Da~RDl~DIG~~-~i~v~~l~~~~~------~~~~ 133 (303)
T PF13872_consen 63 AGFFLGDGTGVGKGRQIAGIILENWLRG--RKRAVWVSVSNDLKYDAERDLRDIGAD-NIPVHPLNKFKY------GDII 133 (303)
T ss_pred cEEEeccCCCcCccchhHHHHHHHHHcC--CCceEEEECChhhhhHHHHHHHHhCCC-cccceechhhcc------CcCC
Confidence 5688888999999887555556555432 236899999999999999999988765 222222211100 0111
Q ss_pred CCCCcEEEeCchHHHHHHHcC---ccCC---------CCeeEEEEecchhhhcccCC---HHHHHHHHHHhhhcCCCeeE
Q 011104 221 PVTAQVVIGTPGTIKKWMSAK---KLGF---------SRLKILVYDEADHMLDEAGF---RDDSLRIMKDIERSSGHCQV 285 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~---~~~~---------~~~~~iVlDEah~l~~~~~~---~~~~~~i~~~~~~~~~~~q~ 285 (493)
.....|+++|+..|...-... ...+ ..=.+||+||+|...+..+- ....-.....+.+..++.++
T Consensus 134 ~~~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARv 213 (303)
T PF13872_consen 134 RLKEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARV 213 (303)
T ss_pred CCCCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCcE
Confidence 224579999999887654321 1011 12248999999998763210 01112222333344446689
Q ss_pred EEEeeecChhHHH
Q 011104 286 LLFSATFNETVKN 298 (493)
Q Consensus 286 v~~SAT~~~~~~~ 298 (493)
+.+|||--.+..+
T Consensus 214 vY~SATgasep~N 226 (303)
T PF13872_consen 214 VYASATGASEPRN 226 (303)
T ss_pred EEecccccCCCce
Confidence 9999997655543
No 181
>PF13245 AAA_19: Part of AAA domain
Probab=97.96 E-value=2.7e-05 Score=56.26 Aligned_cols=51 Identities=25% Similarity=0.283 Sum_probs=37.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccC-CCCCCCeEEEEcCCHHHHHHHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVD-PNLKAPQALCICPTRELAIQNLEVL 191 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~-~~~~~~~~lil~Pt~~La~q~~~~~ 191 (493)
.-+++.|++|||||...+-.+...+. ....+.++++++|++..+..+.+.+
T Consensus 11 ~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 11 PLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 45666999999999764444444432 1222668999999999999988877
No 182
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=97.95 E-value=7.1e-05 Score=76.65 Aligned_cols=140 Identities=20% Similarity=0.165 Sum_probs=83.4
Q ss_pred chHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC--CCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCcee
Q 011104 125 SKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP--NLKAPQALCICPTRELAIQNLEVLRKMGKHTGITS 202 (493)
Q Consensus 125 ~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~--~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~ 202 (493)
.++|+.|+-..+.+ +-+++.|++|+|||.+. ..++..+.. .....++++++||...|..+.+.+......++..
T Consensus 154 ~d~Qk~Av~~a~~~--~~~vItGgpGTGKTt~v-~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~- 229 (615)
T PRK10875 154 VDWQKVAAAVALTR--RISVISGGPGTGKTTTV-AKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLT- 229 (615)
T ss_pred CHHHHHHHHHHhcC--CeEEEEeCCCCCHHHHH-HHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccc-
Confidence 58999999999987 89999999999999873 222222211 1233578889999999888888766543332210
Q ss_pred eEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcC------ccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHh
Q 011104 203 ECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAK------KLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDI 276 (493)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~------~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~ 276 (493)
. . ... ....-..|-.+|+...... ..+.-.+++|||||+-++.. ..+..++..+
T Consensus 230 -----~---~---~~~----~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~-----~lm~~ll~al 289 (615)
T PRK10875 230 -----D---E---QKK----RIPEEASTLHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEASMVDL-----PMMARLIDAL 289 (615)
T ss_pred -----h---h---hhh----cCCCchHHHHHHhCcCCCccchhhccccCCCCCeEEEChHhcccH-----HHHHHHHHhc
Confidence 0 0 000 0011223444443221111 11223468999999986542 4466677766
Q ss_pred hhcCCCeeEEEEeee
Q 011104 277 ERSSGHCQVLLFSAT 291 (493)
Q Consensus 277 ~~~~~~~q~v~~SAT 291 (493)
+. ..++|++.=.
T Consensus 290 ~~---~~rlIlvGD~ 301 (615)
T PRK10875 290 PP---HARVIFLGDR 301 (615)
T ss_pred cc---CCEEEEecch
Confidence 55 6677777543
No 183
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=97.95 E-value=6.6e-05 Score=77.17 Aligned_cols=108 Identities=19% Similarity=0.178 Sum_probs=89.2
Q ss_pred CcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCC-cE-EEEeCccccCCCCCCCCEEEEccCC
Q 011104 351 GQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLT-QV-LISTDVLARGFDQQQVNLIVNYDPP 428 (493)
Q Consensus 351 ~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~-~v-Lv~T~~~~~Gldi~~v~~Vi~~~~p 428 (493)
.+++||++-..-+..++..|...++....+.|.|+...|.+.+..|..+.. .| +++..+...|+++..+.+|+..|+=
T Consensus 540 ~kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~~~~~~~vll~Slkag~~glnlt~a~~v~~~d~~ 619 (674)
T KOG1001|consen 540 PKIVIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPCDPLVTALLMSLKAGKVGLNLTAASHVLLMDPW 619 (674)
T ss_pred CceeeehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhcccccCccHHHHHHHHHHhhhhhchhhhhHHHhhchh
Confidence 489999999999999999999899999999999999999999999985543 33 5677889999999999999988876
Q ss_pred CCCCCCCCCCcccccccccccccCCCcce--EEEEeeCCc
Q 011104 429 VKHGKHLEPDCEVYLHRIGRAGRFGRKGV--VFNLLMDGD 466 (493)
Q Consensus 429 ~~~~~~~~~s~~~y~qr~GR~~R~g~~g~--~i~l~~~~~ 466 (493)
.++..--|.+-|+.|-|+.-. +..|+..+.
T Consensus 620 --------wnp~~eeQaidR~hrigq~k~v~v~r~~i~dt 651 (674)
T KOG1001|consen 620 --------WNPAVEEQAIDRAHRIGQTKPVKVSRFIIKDT 651 (674)
T ss_pred --------cChHHHHHHHHHHHHhcccceeeeeeehhhhc
Confidence 566778889999998887553 334444443
No 184
>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=97.94 E-value=7.7e-05 Score=76.22 Aligned_cols=140 Identities=19% Similarity=0.191 Sum_probs=82.5
Q ss_pred chHHHhhhhhhcCCCCccEEEeccCCCchhHHh--HHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCcee
Q 011104 125 SKIQAISLPMILTPPYRNLIAQARNGSGKTTCF--VLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITS 202 (493)
Q Consensus 125 ~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~--~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~ 202 (493)
.++|+.++..++.+ +-+++.|++|+|||... ++..+..........++++++||-..|..+.+.+......+...
T Consensus 147 ~~~Qk~A~~~al~~--~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~- 223 (586)
T TIGR01447 147 QNWQKVAVALALKS--NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAAA- 223 (586)
T ss_pred cHHHHHHHHHHhhC--CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcccccc-
Confidence 37999999999998 89999999999999863 22222222221123579999999988888777665543322210
Q ss_pred eEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHc------CccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHh
Q 011104 203 ECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSA------KKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDI 276 (493)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~------~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~ 276 (493)
. . ... ...+-..|-.+|+..... ..-+...+++||||||-++.. ..+..++..+
T Consensus 224 ------~--~---~~~----~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIiDEaSMvd~-----~l~~~ll~al 283 (586)
T TIGR01447 224 ------E--A---LIA----ALPSEAVTIHRLLGIKPDTKRFRHHERNPLPLDVLVVDEASMVDL-----PLMAKLLKAL 283 (586)
T ss_pred ------h--h---hhh----ccccccchhhhhhcccCCcchhhhcccCCCcccEEEEcccccCCH-----HHHHHHHHhc
Confidence 0 0 000 001223344444322110 011233578999999976543 3456666666
Q ss_pred hhcCCCeeEEEEee
Q 011104 277 ERSSGHCQVLLFSA 290 (493)
Q Consensus 277 ~~~~~~~q~v~~SA 290 (493)
+. ..++|++.=
T Consensus 284 ~~---~~rlIlvGD 294 (586)
T TIGR01447 284 PP---NTKLILLGD 294 (586)
T ss_pred CC---CCEEEEECC
Confidence 54 567776653
No 185
>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=97.92 E-value=4.9e-05 Score=66.69 Aligned_cols=155 Identities=20% Similarity=0.214 Sum_probs=95.2
Q ss_pred CcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCC-CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcC
Q 011104 101 TFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTP-PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICP 179 (493)
Q Consensus 101 ~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~-~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~P 179 (493)
+|+....+..++=.+. .++. ..+.|......+.+. .+.+.+.+.-+|.|||.+ ++|++..+..... .-+.+++|
T Consensus 4 ~w~p~~~P~wLl~E~e--~~il-iR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsV-I~Pmla~~LAdg~-~LvrviVp 78 (229)
T PF12340_consen 4 NWDPMEYPDWLLFEIE--SNIL-IRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSV-IVPMLALALADGS-RLVRVIVP 78 (229)
T ss_pred CCCchhChHHHHHHHH--cCce-eeHHHHHHHHHHhCCCCCCCeEeeecccCCccch-HHHHHHHHHcCCC-cEEEEEcC
Confidence 5667777777777775 3554 778999888888763 137899999999999998 6778777654332 35666667
Q ss_pred CHHHHHHHHHHHHH-HhcccCceeeEeecCCCCCccc-----c---cCCCCCCCcEEEeCchHHHHHHHc-------Ccc
Q 011104 180 TRELAIQNLEVLRK-MGKHTGITSECAVPTDSTNYVP-----I---SKRPPVTAQVVIGTPGTIKKWMSA-------KKL 243 (493)
Q Consensus 180 t~~La~q~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-----~---~~~~~~~~~Ilv~Tp~~l~~~l~~-------~~~ 243 (493)
++|..|....++. +++-.+-.+..+--........ . .........|+++||+.++.+.-. +..
T Consensus 79 -k~Ll~q~~~~L~~~lg~l~~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf~L~~le~l~~~~~ 157 (229)
T PF12340_consen 79 -KALLEQMRQMLRSRLGGLLNRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSFKLKGLERLQDGKP 157 (229)
T ss_pred -HHHHHHHHHHHHHHHHHHhCCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHHHHHHHHHHHhcCH
Confidence 5688999888765 4444443333222111111100 0 001112456999999987654311 110
Q ss_pred -----------CCCCeeEEEEecchhhhc
Q 011104 244 -----------GFSRLKILVYDEADHMLD 261 (493)
Q Consensus 244 -----------~~~~~~~iVlDEah~l~~ 261 (493)
-+.....-|+||+|..+.
T Consensus 158 ~~~~~l~~~q~~l~~~~rdilDEsDe~L~ 186 (229)
T PF12340_consen 158 EEARELLKIQKWLDEHSRDILDESDEILS 186 (229)
T ss_pred HHHHHHHHHHHHHHhcCCeEeECchhccC
Confidence 122344578999998765
No 186
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=97.87 E-value=2.5e-05 Score=76.99 Aligned_cols=73 Identities=21% Similarity=0.208 Sum_probs=60.0
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
.|+.+++.-|..|+.++|.. .-.+++||+|+|||+...- |+.++... ....+||++|+...+.|+++.+.+-+
T Consensus 406 ~~lpkLN~SQ~~AV~~VL~r--plsLIQGPPGTGKTvtsa~-IVyhl~~~-~~~~VLvcApSNiAVDqLaeKIh~tg 478 (935)
T KOG1802|consen 406 PNLPKLNASQSNAVKHVLQR--PLSLIQGPPGTGKTVTSAT-IVYHLARQ-HAGPVLVCAPSNIAVDQLAEKIHKTG 478 (935)
T ss_pred CCchhhchHHHHHHHHHHcC--CceeeecCCCCCceehhHH-HHHHHHHh-cCCceEEEcccchhHHHHHHHHHhcC
Confidence 68888999999999999998 7899999999999988544 33333332 55689999999999999999888764
No 187
>PRK10536 hypothetical protein; Provisional
Probab=97.83 E-value=9.6e-05 Score=66.19 Aligned_cols=61 Identities=16% Similarity=0.117 Sum_probs=45.1
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHH
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRE 182 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~ 182 (493)
.++...+..|...+..+..+ ..+++.|++|+|||+.+...+++.+... .-.+++|.-|+.+
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~-~~~kIiI~RP~v~ 115 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHK-DVDRIIVTRPVLQ 115 (262)
T ss_pred ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcC-CeeEEEEeCCCCC
Confidence 46666788899999988887 7999999999999998777777655332 2345555556643
No 188
>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=97.82 E-value=0.00013 Score=76.92 Aligned_cols=67 Identities=19% Similarity=0.101 Sum_probs=48.2
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHH
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLE 189 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~ 189 (493)
.++ .+++-|+.++..+..+ +-+++.|++|+|||.+. -.++..+........+++++||-..|..+.+
T Consensus 320 ~~~-~l~~~Q~~Ai~~~~~~--~~~iitGgpGTGKTt~l-~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e 386 (720)
T TIGR01448 320 LRK-GLSEEQKQALDTAIQH--KVVILTGGPGTGKTTIT-RAIIELAEELGGLLPVGLAAPTGRAAKRLGE 386 (720)
T ss_pred cCC-CCCHHHHHHHHHHHhC--CeEEEECCCCCCHHHHH-HHHHHHHHHcCCCceEEEEeCchHHHHHHHH
Confidence 454 4899999999999887 89999999999999863 2333333222112468888999887765443
No 189
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.75 E-value=4.6e-05 Score=70.29 Aligned_cols=67 Identities=16% Similarity=0.177 Sum_probs=54.7
Q ss_pred hCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHH
Q 011104 118 EMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELA 184 (493)
Q Consensus 118 ~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La 184 (493)
.+|+...+-.|+-|+..++...-.=|.+.|+.|||||+.++.+.+.....+....+++|.=|+-.+.
T Consensus 223 vwGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG 289 (436)
T COG1875 223 VWGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVG 289 (436)
T ss_pred hhccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcc
Confidence 4788888889999999999865456889999999999999988888876666667788877876543
No 190
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.74 E-value=9.4e-05 Score=67.18 Aligned_cols=67 Identities=21% Similarity=0.332 Sum_probs=50.4
Q ss_pred CchHHHhhhhhhcCCCCcc-EEEeccCCCchhHHhHHHHHhcc------CCCCCCCeEEEEcCCHHHHHHHHHHHHH
Q 011104 124 PSKIQAISLPMILTPPYRN-LIAQARNGSGKTTCFVLGMLSRV------DPNLKAPQALCICPTRELAIQNLEVLRK 193 (493)
Q Consensus 124 ~~~~Q~~~i~~il~~~~~~-viv~a~TGsGKT~~~~~~~l~~l------~~~~~~~~~lil~Pt~~La~q~~~~~~~ 193 (493)
+++-|..++..++.. .. .+|+||+|+|||.... .++..+ .....+.++|+++|+...+.++.+.+.+
T Consensus 2 ln~~Q~~Ai~~~~~~--~~~~~i~GpPGTGKT~~l~-~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 2 LNESQREAIQSALSS--NGITLIQGPPGTGKTTTLA-SIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp --HHHHHHHHHHCTS--SE-EEEE-STTSSHHHHHH-HHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHcC--CCCEEEECCCCCChHHHHH-HHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 578899999999987 66 9999999999996533 333333 1245677899999999999999988777
No 191
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=97.74 E-value=0.00013 Score=59.97 Aligned_cols=86 Identities=13% Similarity=0.137 Sum_probs=59.5
Q ss_pred EEecCCCCHHHHHHHHHHHHcCCC-cEEEEeCccccCCCCCC--CCEEEEccCCCCCCCC-------------C------
Q 011104 378 TTIMGATIQEERDKIVKEFKDGLT-QVLISTDVLARGFDQQQ--VNLIVNYDPPVKHGKH-------------L------ 435 (493)
Q Consensus 378 ~~l~~~~~~~~r~~~~~~f~~g~~-~vLv~T~~~~~Gldi~~--v~~Vi~~~~p~~~~~~-------------~------ 435 (493)
.++.-+....+...+++.|+...- .||+++..+++|+|+|+ ++.||..++|...... .
T Consensus 25 ~i~~e~~~~~~~~~~l~~f~~~~~~~iL~~~~~~~EGiD~~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~ 104 (141)
T smart00492 25 LLLVQGEDGKETGKLLEKYVEACENAILLATARFSEGVDFPGDYLRAVIIDGLPFPYPDSPILKARLELLRDKGQIRPFD 104 (141)
T ss_pred eEEEeCCChhHHHHHHHHHHHcCCCEEEEEccceecceecCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhCCCCchh
Confidence 344444555567889999987643 79999988999999998 5679999988643221 0
Q ss_pred ----CCCcccccccccccccCCCcceEEEEee
Q 011104 436 ----EPDCEVYLHRIGRAGRFGRKGVVFNLLM 463 (493)
Q Consensus 436 ----~~s~~~y~qr~GR~~R~g~~g~~i~l~~ 463 (493)
+.......|.+||+-|...+-.++.++.
T Consensus 105 ~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~l~D 136 (141)
T smart00492 105 FVSLPDAMRTLAQCVGRLIRGANDYGVVVIAD 136 (141)
T ss_pred HHHHHHHHHHHHHHhCccccCcCceEEEEEEe
Confidence 0112333689999999876655555553
No 192
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.70 E-value=0.00039 Score=68.16 Aligned_cols=148 Identities=14% Similarity=0.097 Sum_probs=71.7
Q ss_pred EeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHH-HHHHHhcccCceeeEeecCCCCCccc--ccCCCC
Q 011104 145 AQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLE-VLRKMGKHTGITSECAVPTDSTNYVP--ISKRPP 221 (493)
Q Consensus 145 v~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~ 221 (493)
..+.||||||++..-.||...... ....|+.|..-....-... ....+....-..-...+++....... .-..-.
T Consensus 2 f~matgsgkt~~ma~lil~~y~kg--yr~flffvnq~nilekt~~nftd~~s~kylf~e~i~~~d~~i~ikkvn~fsehn 79 (812)
T COG3421 2 FEMATGSGKTLVMAGLILECYKKG--YRNFLFFVNQANILEKTKLNFTDSVSSKYLFSENININDENIEIKKVNNFSEHN 79 (812)
T ss_pred cccccCCChhhHHHHHHHHHHHhc--hhhEEEEecchhHHHHHHhhcccchhhhHhhhhhhhcCCceeeeeeecccCccC
Confidence 457899999998666666655332 2235666654333222221 11111110000000111111111100 001123
Q ss_pred CCCcEEEeCchHHHHHHHc---CccC---CCCee-EEEEecchhhhcc--------cCCHHHHHHHHHHhhhcCCCeeEE
Q 011104 222 VTAQVVIGTPGTIKKWMSA---KKLG---FSRLK-ILVYDEADHMLDE--------AGFRDDSLRIMKDIERSSGHCQVL 286 (493)
Q Consensus 222 ~~~~Ilv~Tp~~l~~~l~~---~~~~---~~~~~-~iVlDEah~l~~~--------~~~~~~~~~i~~~~~~~~~~~q~v 286 (493)
.+..|+++|.+.|...+.+ ..+. +.+.. +.+-||||++... ..-...+...+....+..++--++
T Consensus 80 d~iei~fttiq~l~~d~~~~ken~itledl~~~klvfl~deahhln~~tkkk~~de~~~~~~we~~v~la~~~nkd~~~l 159 (812)
T COG3421 80 DAIEIYFTTIQGLFSDFTRAKENAITLEDLKDQKLVFLADEAHHLNTETKKKLNDEASEKRNWESVVKLALEQNKDNLLL 159 (812)
T ss_pred CceEEEEeehHHHHHHHHhhccccccHhhHhhCceEEEechhhhhhhhhhhhcccHHHHHhhHHHHHHHHHhcCCCceee
Confidence 4568999999998766644 2222 33333 4567999998641 111122333333333334455678
Q ss_pred EEeeecCh
Q 011104 287 LFSATFNE 294 (493)
Q Consensus 287 ~~SAT~~~ 294 (493)
.+|||.++
T Consensus 160 ef~at~~k 167 (812)
T COG3421 160 EFSATIPK 167 (812)
T ss_pred hhhhcCCc
Confidence 89999984
No 193
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=97.62 E-value=0.00017 Score=59.32 Aligned_cols=101 Identities=15% Similarity=0.196 Sum_probs=63.4
Q ss_pred HHHHHHHHHhCCC---cEEEecCCCCHHHHHHHHHHHHcCCC---cEEEEeCc--cccCCCCCC--CCEEEEccCCCCCC
Q 011104 363 ASALHKALKDFGY---EVTTIMGATIQEERDKIVKEFKDGLT---QVLISTDV--LARGFDQQQ--VNLIVNYDPPVKHG 432 (493)
Q Consensus 363 ~~~l~~~L~~~~~---~~~~l~~~~~~~~r~~~~~~f~~g~~---~vLv~T~~--~~~Gldi~~--v~~Vi~~~~p~~~~ 432 (493)
.+.++..+...+. ....+.-+....+...+++.|++... .||+++.- +++|+|+|+ ++.||..+.|....
T Consensus 4 m~~v~~~~~~~~~~~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPfp~~ 83 (142)
T smart00491 4 LEQVVEYWKENGILEINKPVFIEGKDSGETEELLEKYSAACEARGALLLAVARGKVSEGIDFPDDLGRAVIIVGIPFPNP 83 (142)
T ss_pred HHHHHHHHHhcCccccCceEEEECCCCchHHHHHHHHHHhcCCCCEEEEEEeCCeeecceecCCCccEEEEEEecCCCCC
Confidence 3455555554432 12222222333345788888987544 68988876 999999998 67899999996543
Q ss_pred CC-C----------------------CCCcccccccccccccCCCcceEEEEee
Q 011104 433 KH-L----------------------EPDCEVYLHRIGRAGRFGRKGVVFNLLM 463 (493)
Q Consensus 433 ~~-~----------------------~~s~~~y~qr~GR~~R~g~~g~~i~l~~ 463 (493)
.. . +.......|.+||+-|...+-.++.|+.
T Consensus 84 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~Qa~GR~iR~~~D~g~i~l~D 137 (142)
T smart00491 84 DSPILRARLEYLDEKGGIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLD 137 (142)
T ss_pred CCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHhCccccCccceEEEEEEe
Confidence 21 0 0112233699999999876655665654
No 194
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.61 E-value=0.0001 Score=72.31 Aligned_cols=66 Identities=20% Similarity=0.215 Sum_probs=51.9
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHH
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLR 192 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~ 192 (493)
.+.+-|+.|+...++.. .-.+++||+|+|||.....-+.+.+. .+.++||..||.+.+..+.+.+.
T Consensus 185 ~ln~SQk~Av~~~~~~k-~l~~I~GPPGTGKT~TlvEiI~qlvk---~~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 185 NLNSSQKAAVSFAINNK-DLLIIHGPPGTGKTRTLVEIISQLVK---QKKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred cccHHHHHHHHHHhccC-CceEeeCCCCCCceeeHHHHHHHHHH---cCCeEEEEcCchHHHHHHHHHhc
Confidence 46788999999888763 56789999999999986555555553 34689999999999998888543
No 195
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.58 E-value=0.0011 Score=63.97 Aligned_cols=130 Identities=17% Similarity=0.122 Sum_probs=71.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhcc-CCCCCCCeEEEEc--CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCccccc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRV-DPNLKAPQALCIC--PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPIS 217 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l-~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (493)
+.+++.||||+|||.+..--+.... .....+.++.++. +.|.-+..+ ++.++..+++.+
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQ---L~~~a~~lgvpv--------------- 236 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQ---IQTYGDIMGIPV--------------- 236 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHH---HHHHhhcCCcce---------------
Confidence 6899999999999987543222211 1112344555554 444444332 455554444321
Q ss_pred CCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCC-eeEEEEeeecCh-h
Q 011104 218 KRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGH-CQVLLFSATFNE-T 295 (493)
Q Consensus 218 ~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~-~q~v~~SAT~~~-~ 295 (493)
..+.++..+...+.. +.++++|++|++.+.... ...+.++...+....++ -.++.+|||... +
T Consensus 237 --------~~~~~~~~l~~~L~~----~~~~DlVLIDTaGr~~~~---~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~ 301 (388)
T PRK12723 237 --------KAIESFKDLKEEITQ----SKDFDLVLVDTIGKSPKD---FMKLAEMKELLNACGRDAEFHLAVSSTTKTSD 301 (388)
T ss_pred --------EeeCcHHHHHHHHHH----hCCCCEEEEcCCCCCccC---HHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHH
Confidence 222345556555543 467899999999986532 12233444443332223 467899999763 3
Q ss_pred HHHHHHHH
Q 011104 296 VKNFVTRI 303 (493)
Q Consensus 296 ~~~~~~~~ 303 (493)
+...+..+
T Consensus 302 ~~~~~~~~ 309 (388)
T PRK12723 302 VKEIFHQF 309 (388)
T ss_pred HHHHHHHh
Confidence 44444444
No 196
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=97.54 E-value=0.00025 Score=72.56 Aligned_cols=114 Identities=11% Similarity=0.049 Sum_probs=69.8
Q ss_pred CcEEEEcCChhhHHHHHHHHHhC-------CCcEEEecCCCCHHHHHHHHHHHHcC--------CCcEEEEeCccccCCC
Q 011104 351 GQTIIFVRTKNSASALHKALKDF-------GYEVTTIMGATIQEERDKIVKEFKDG--------LTQVLISTDVLARGFD 415 (493)
Q Consensus 351 ~~~lVf~~s~~~~~~l~~~L~~~-------~~~~~~l~~~~~~~~r~~~~~~f~~g--------~~~vLv~T~~~~~Gld 415 (493)
..+|||+++....+.+..+.... +.+- .+..=-+...-..++..|-++ ..-..||-...++|+|
T Consensus 562 ~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~vk~-l~vEPr~k~~f~e~m~~y~~~i~~pes~ga~~~aVcRGKVSEGlD 640 (945)
T KOG1132|consen 562 YGLLIFFPSYPVMDKLITFWQNRGLWERMEKVKK-LVVEPRSKSEFTEVMSRYYNAIADPESSGAVFFAVCRGKVSEGLD 640 (945)
T ss_pred cceEEeccchHHHHHHHHHHHcchHHHHhhcccC-ceeccCCccchHHHHHHHHHHhhCccccceEEEEEecccccCCCC
Confidence 45899999998888775554432 1111 111212444555666666432 2234577788999999
Q ss_pred CCC--CCEEEEccCCCCCCCC---------------------------CCCCc---ccccccccccccCCCcceEEEEee
Q 011104 416 QQQ--VNLIVNYDPPVKHGKH---------------------------LEPDC---EVYLHRIGRAGRFGRKGVVFNLLM 463 (493)
Q Consensus 416 i~~--v~~Vi~~~~p~~~~~~---------------------------~~~s~---~~y~qr~GR~~R~g~~g~~i~l~~ 463 (493)
+.+ .+.||..+.|.-+... .+.+. ....|.+||+.|.-++-.++.|+.
T Consensus 641 FsD~~~RaVI~tGlPyP~~~D~~V~lK~~y~D~~~~~~g~~s~~lsg~eWY~~qA~RAvNQAiGRviRHR~D~Gav~l~D 720 (945)
T KOG1132|consen 641 FSDDNGRAVIITGLPYPPVMDPRVKLKKQYLDENSSLKGAKSQLLSGQEWYSQQAYRAVNQAIGRVIRHRNDYGAVILCD 720 (945)
T ss_pred ccccCCceeEEecCCCCCCCCHHHHHHHHhhhhhccccccccccccchHHHHhhHHHHHHHHHHHHHhhhcccceeeEee
Confidence 987 6679999988644221 01111 122689999999866666665765
Q ss_pred CC
Q 011104 464 DG 465 (493)
Q Consensus 464 ~~ 465 (493)
.+
T Consensus 721 ~R 722 (945)
T KOG1132|consen 721 DR 722 (945)
T ss_pred ch
Confidence 43
No 197
>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=97.51 E-value=0.0002 Score=68.35 Aligned_cols=70 Identities=20% Similarity=0.163 Sum_probs=53.4
Q ss_pred CchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC-CCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 124 PSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN-LKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 124 ~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~-~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
+++-|.+++.. .. ..++|.|..|||||.+.+.-++..+... ....++|++++|+..|..+...+......
T Consensus 1 l~~eQ~~~i~~-~~---~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~ 71 (315)
T PF00580_consen 1 LTDEQRRIIRS-TE---GPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEE 71 (315)
T ss_dssp S-HHHHHHHHS--S---SEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-CC---CCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCc
Confidence 46789999887 44 6899999999999998766555555433 45668999999999999999988886543
No 198
>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=97.50 E-value=0.0014 Score=69.33 Aligned_cols=137 Identities=18% Similarity=0.199 Sum_probs=79.6
Q ss_pred CCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHH
Q 011104 107 LSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQ 186 (493)
Q Consensus 107 ~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q 186 (493)
+++..+..... .++ .+++-|+.++..++.+. +-+++.|++|+|||... -.+...+.. .+.++++++||--.|..
T Consensus 338 ~~~~~~~~~l~-~~~-~Ls~~Q~~Av~~i~~s~-~~~il~G~aGTGKTtll-~~i~~~~~~--~g~~V~~~ApTg~Aa~~ 411 (744)
T TIGR02768 338 VSPPIVDAAID-QHY-RLSEEQYEAVRHVTGSG-DIAVVVGRAGTGKSTML-KAAREAWEA--AGYRVIGAALSGKAAEG 411 (744)
T ss_pred CCHHHHHHHHh-ccC-CCCHHHHHHHHHHhcCC-CEEEEEecCCCCHHHHH-HHHHHHHHh--CCCeEEEEeCcHHHHHH
Confidence 44444443332 233 47899999999998752 67899999999999863 233333322 35679999999876655
Q ss_pred HHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCH
Q 011104 187 NLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFR 266 (493)
Q Consensus 187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~ 266 (493)
+.+. .++.. .|-.+++.........+...++|||||+-.+..
T Consensus 412 L~~~-------~g~~a--------------------------~Ti~~~~~~~~~~~~~~~~~~llIvDEasMv~~----- 453 (744)
T TIGR02768 412 LQAE-------SGIES--------------------------RTLASLEYAWANGRDLLSDKDVLVIDEAGMVGS----- 453 (744)
T ss_pred HHhc-------cCCce--------------------------eeHHHHHhhhccCcccCCCCcEEEEECcccCCH-----
Confidence 4321 11110 122222111122223356788999999986653
Q ss_pred HHHHHHHHHhhhcCCCeeEEEEe
Q 011104 267 DDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 267 ~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
..+..++...... ..++|++.
T Consensus 454 ~~~~~Ll~~~~~~--~~kliLVG 474 (744)
T TIGR02768 454 RQMARVLKEAEEA--GAKVVLVG 474 (744)
T ss_pred HHHHHHHHHHHhc--CCEEEEEC
Confidence 2344555544322 45666655
No 199
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.39 E-value=0.00026 Score=57.71 Aligned_cols=18 Identities=44% Similarity=0.528 Sum_probs=13.3
Q ss_pred ccEEEeccCCCchhHHhH
Q 011104 141 RNLIAQARNGSGKTTCFV 158 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~ 158 (493)
+.+++.|++|+|||....
T Consensus 5 ~~~~i~G~~G~GKT~~~~ 22 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIK 22 (131)
T ss_dssp --EEEEE-TTSSHHHHHH
T ss_pred cccEEEcCCCCCHHHHHH
Confidence 689999999999998743
No 200
>PRK04296 thymidine kinase; Provisional
Probab=97.33 E-value=0.00054 Score=59.81 Aligned_cols=109 Identities=12% Similarity=0.162 Sum_probs=58.8
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCC---HHHHHHHHHHHHHHhcccCceeeEeecCCCCCccccc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPT---RELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPIS 217 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt---~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (493)
.-.++.|++|+|||+..+-.+. ++.. .+.+++++.|. +.... .+...+++..
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~-~~~~--~g~~v~i~k~~~d~~~~~~-------~i~~~lg~~~--------------- 57 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAY-NYEE--RGMKVLVFKPAIDDRYGEG-------KVVSRIGLSR--------------- 57 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHH-HHHH--cCCeEEEEeccccccccCC-------cEecCCCCcc---------------
Confidence 5678999999999987544333 3322 35577877663 21110 1111111100
Q ss_pred CCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 218 KRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 218 ~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
..+.+..+..+++.+.. .-.++++|||||+|.+.. +++..+++.+... -..+++++-
T Consensus 58 ------~~~~~~~~~~~~~~~~~---~~~~~dvviIDEaq~l~~-----~~v~~l~~~l~~~---g~~vi~tgl 114 (190)
T PRK04296 58 ------EAIPVSSDTDIFELIEE---EGEKIDCVLIDEAQFLDK-----EQVVQLAEVLDDL---GIPVICYGL 114 (190)
T ss_pred ------cceEeCChHHHHHHHHh---hCCCCCEEEEEccccCCH-----HHHHHHHHHHHHc---CCeEEEEec
Confidence 01233455566665544 245688999999976432 3355666665542 245555554
No 201
>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=97.33 E-value=0.015 Score=68.05 Aligned_cols=241 Identities=15% Similarity=0.149 Sum_probs=130.3
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCcee
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITS 202 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~ 202 (493)
.+++-|+.++..++.+..+-.++.|+.|+|||.+ +-.++..+. ..+.++++++||-..+..+.+..........
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~-l~~l~~~~~--~~G~~V~~lAPTgrAA~~L~e~~g~~A~Ti~--- 502 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEI-AQLLLHLAS--EQGYEIQIITAGSLSAQELRQKIPRLASTFI--- 502 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHH-HHHHHHHHH--hcCCeEEEEeCCHHHHHHHHHHhcchhhhHH---
Confidence 4788999999999886557899999999999986 333333332 2466899999999877666654221110000
Q ss_pred eEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCC
Q 011104 203 ECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGH 282 (493)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~ 282 (493)
... .... ...-..|...|+ .....+...++||||||-++.. ..+..++...... +
T Consensus 503 -~~l-----------~~l~--~~~~~~tv~~fl----~~~~~l~~~~vlIVDEAsMl~~-----~~~~~Ll~~a~~~--g 557 (1960)
T TIGR02760 503 -TWV-----------KNLF--NDDQDHTVQGLL----DKSSPFSNKDIFVVDEANKLSN-----NELLKLIDKAEQH--N 557 (1960)
T ss_pred -HHH-----------Hhhc--ccccchhHHHhh----cccCCCCCCCEEEEECCCCCCH-----HHHHHHHHHHhhc--C
Confidence 000 0000 001112222232 1223356678999999986543 3456666655432 5
Q ss_pred eeEEEEeee--cC----hhHHHHHHHHhccCceeeeccccccccCceEEEEeCCChHHHHHHHHHHHHHhcccCCcEEEE
Q 011104 283 CQVLLFSAT--FN----ETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVYCPDELAKVMVIRDRIFELGEKMGQTIIF 356 (493)
Q Consensus 283 ~q~v~~SAT--~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf 356 (493)
.++|++.=+ ++ ..+...+... ................+ .+...+.......+...+..+......++|+
T Consensus 558 arvVlvGD~~QL~sV~aG~~f~~L~~~--gv~t~~l~~i~rq~~~v---~i~~~~~~~r~~~ia~~y~~L~~~r~~tliv 632 (1960)
T TIGR02760 558 SKLILLNDSAQRQGMSAGSAIDLLKEG--GVTTYAWVDTKQQKASV---EISEAVDKLRVDYIASAWLDLTPDRQNSQVL 632 (1960)
T ss_pred CEEEEEcChhhcCccccchHHHHHHHC--CCcEEEeecccccCcce---eeeccCchHHHHHHHHHHHhcccccCceEEE
Confidence 678877654 22 2232222221 11111111111111111 1222333344445555566655556679999
Q ss_pred cCChhhHHHHHHHHHh----C------CCcEEEecC-CCCHHHHHHHHHHHHcCC
Q 011104 357 VRTKNSASALHKALKD----F------GYEVTTIMG-ATIQEERDKIVKEFKDGL 400 (493)
Q Consensus 357 ~~s~~~~~~l~~~L~~----~------~~~~~~l~~-~~~~~~r~~~~~~f~~g~ 400 (493)
..+..+...|....+. . ++....|.. .|++.++... ..|+.|.
T Consensus 633 ~~t~~dr~~Ln~~iR~~L~~~G~L~~~~~~~~~L~p~~lt~~e~r~~-~~Yr~Gd 686 (1960)
T TIGR02760 633 ATTHREQQDLTQIIRNALKQEGQLSRQEVTVPTLKPVNLTGIQRRNA-AHYKQGM 686 (1960)
T ss_pred cCCcHHHHHHHHHHHHHHHHcCCcCCCceEEEEeccCCCCHHHHhhH-hhcCCCC
Confidence 9998888888776653 2 223334433 5666666633 6677664
No 202
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=97.31 E-value=0.0013 Score=59.56 Aligned_cols=111 Identities=18% Similarity=0.181 Sum_probs=58.7
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
.+.+..||+|+|||.++++..-+...+.....+++=++-+.+-..++.+
T Consensus 58 p~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr------------------------------- 106 (346)
T KOG0989|consen 58 PHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVR------------------------------- 106 (346)
T ss_pred ceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchh-------------------------------
Confidence 6899999999999998776655444433333333333333222222111
Q ss_pred CCCCcEEEeCchHHHHHH-HcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeec
Q 011104 221 PVTAQVVIGTPGTIKKWM-SAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATF 292 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l-~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~ 292 (493)
.-+-.+..+.... .........++.|||||||.|..+ -+..+.+.+.. ......+++.+.-+
T Consensus 107 -----~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsd--aq~aLrr~mE~---~s~~trFiLIcnyl 169 (346)
T KOG0989|consen 107 -----EKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSD--AQAALRRTMED---FSRTTRFILICNYL 169 (346)
T ss_pred -----hhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHH--HHHHHHHHHhc---cccceEEEEEcCCh
Confidence 0011122222212 122334566899999999998763 23334444443 33355666665553
No 203
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=97.27 E-value=0.0018 Score=69.77 Aligned_cols=125 Identities=15% Similarity=0.059 Sum_probs=76.3
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCcee
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITS 202 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~ 202 (493)
.+++-|+.++..++.+. .-+++.|..|+|||++ +-.+...+. ..+.+++.++||-..|..+.+ ..++.
T Consensus 346 ~Ls~eQr~Av~~il~s~-~v~vv~G~AGTGKTT~-l~~~~~~~e--~~G~~V~~~ApTGkAA~~L~e-------~tGi~- 413 (988)
T PRK13889 346 VLSGEQADALAHVTDGR-DLGVVVGYAGTGKSAM-LGVAREAWE--AAGYEVRGAALSGIAAENLEG-------GSGIA- 413 (988)
T ss_pred CCCHHHHHHHHHHhcCC-CeEEEEeCCCCCHHHH-HHHHHHHHH--HcCCeEEEecCcHHHHHHHhh-------ccCcc-
Confidence 48999999999999862 4578999999999986 333333332 236689999999876654432 11111
Q ss_pred eEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCC
Q 011104 203 ECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGH 282 (493)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~ 282 (493)
-.|-.+|+.-...+...+...++|||||+-.+.. ..+..+++..... .
T Consensus 414 -------------------------a~TI~sll~~~~~~~~~l~~~~vlIVDEASMv~~-----~~m~~LL~~a~~~--g 461 (988)
T PRK13889 414 -------------------------SRTIASLEHGWGQGRDLLTSRDVLVIDEAGMVGT-----RQLERVLSHAADA--G 461 (988)
T ss_pred -------------------------hhhHHHHHhhhcccccccccCcEEEEECcccCCH-----HHHHHHHHhhhhC--C
Confidence 1132333221122233356678999999986543 3455566544332 4
Q ss_pred eeEEEEeee
Q 011104 283 CQVLLFSAT 291 (493)
Q Consensus 283 ~q~v~~SAT 291 (493)
.++|++.=+
T Consensus 462 arvVLVGD~ 470 (988)
T PRK13889 462 AKVVLVGDP 470 (988)
T ss_pred CEEEEECCH
Confidence 566666544
No 204
>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit
Probab=97.24 E-value=0.00032 Score=62.94 Aligned_cols=88 Identities=18% Similarity=0.237 Sum_probs=59.1
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHHHhc-ccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCC
Q 011104 169 LKAPQALCICPTRELAIQNLEVLRKMGK-HTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSR 247 (493)
Q Consensus 169 ~~~~~~lil~Pt~~La~q~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~ 247 (493)
...|.+||||..-.-|..+.+.++.+.. ...+ .-+..-.-.-............+|.||||+||..++..+.+.+.+
T Consensus 124 ~gsP~~lvvs~SalRa~dl~R~l~~~~~k~~~v--~KLFaKH~Kl~eqv~~L~~~~~~i~vGTP~Rl~kLle~~~L~l~~ 201 (252)
T PF14617_consen 124 KGSPHVLVVSSSALRAADLIRALRSFKGKDCKV--AKLFAKHIKLEEQVKLLKKTRVHIAVGTPGRLSKLLENGALSLSN 201 (252)
T ss_pred CCCCEEEEEcchHHHHHHHHHHHHhhccCCchH--HHHHHhhccHHHHHHHHHhCCceEEEeChHHHHHHHHcCCCCccc
Confidence 4567899999998888888888887742 1111 001111000000111112235789999999999999999999999
Q ss_pred eeEEEEecchh
Q 011104 248 LKILVYDEADH 258 (493)
Q Consensus 248 ~~~iVlDEah~ 258 (493)
+.+||||--|.
T Consensus 202 l~~ivlD~s~~ 212 (252)
T PF14617_consen 202 LKRIVLDWSYL 212 (252)
T ss_pred CeEEEEcCCcc
Confidence 99999998764
No 205
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=97.22 E-value=0.0041 Score=67.56 Aligned_cols=140 Identities=16% Similarity=0.163 Sum_probs=83.5
Q ss_pred CCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH
Q 011104 106 NLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI 185 (493)
Q Consensus 106 ~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~ 185 (493)
++++..+..... .+ ..+++-|+.++..+..+ .+-+++.|..|+|||.+. -++...+. ..+.+++.++||-..|.
T Consensus 366 ~v~~~~l~a~~~-~~-~~Ls~eQ~~Av~~i~~~-~r~~~v~G~AGTGKTt~l-~~~~~~~e--~~G~~V~g~ApTgkAA~ 439 (1102)
T PRK13826 366 GVREAVLAATFA-RH-ARLSDEQKTAIEHVAGP-ARIAAVVGRAGAGKTTMM-KAAREAWE--AAGYRVVGGALAGKAAE 439 (1102)
T ss_pred CCCHHHHHHHHh-cC-CCCCHHHHHHHHHHhcc-CCeEEEEeCCCCCHHHHH-HHHHHHHH--HcCCeEEEEcCcHHHHH
Confidence 455555555443 23 34899999999988654 378999999999999863 33333332 24568899999977665
Q ss_pred HHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCC
Q 011104 186 QNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGF 265 (493)
Q Consensus 186 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~ 265 (493)
.+.+. .++.. .|-.+++.....+...+...++|||||+.++..
T Consensus 440 ~L~e~-------~Gi~a--------------------------~TIas~ll~~~~~~~~l~~~~vlVIDEAsMv~~---- 482 (1102)
T PRK13826 440 GLEKE-------AGIQS--------------------------RTLSSWELRWNQGRDQLDNKTVFVLDEAGMVAS---- 482 (1102)
T ss_pred HHHHh-------hCCCe--------------------------eeHHHHHhhhccCccCCCCCcEEEEECcccCCH----
Confidence 54321 12211 122222111111222356677999999986543
Q ss_pred HHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 266 RDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 266 ~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
..+..+++.+... ..++|++.=+
T Consensus 483 -~~m~~Ll~~~~~~--garvVLVGD~ 505 (1102)
T PRK13826 483 -RQMALFVEAVTRA--GAKLVLVGDP 505 (1102)
T ss_pred -HHHHHHHHHHHhc--CCEEEEECCH
Confidence 4455666666432 4567776544
No 206
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=97.21 E-value=0.0079 Score=57.36 Aligned_cols=131 Identities=21% Similarity=0.222 Sum_probs=74.2
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCC-HHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPT-RELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKR 219 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt-~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (493)
+.+.+.||||.|||+...=.+........+...+||..-| |.=| .+.++.++..+++
T Consensus 204 ~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA---~EQLk~Ya~im~v------------------- 261 (407)
T COG1419 204 RVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGA---VEQLKTYADIMGV------------------- 261 (407)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhH---HHHHHHHHHHhCC-------------------
Confidence 8999999999999987332222222122233345555544 3333 3455556554443
Q ss_pred CCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC-hhHHH
Q 011104 220 PPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN-ETVKN 298 (493)
Q Consensus 220 ~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~-~~~~~ 298 (493)
+=.++-+|.-|...+.. +.++++|.||=+-+-..+ ...+.++-..+....+---.+.+|||.. .++..
T Consensus 262 ----p~~vv~~~~el~~ai~~----l~~~d~ILVDTaGrs~~D---~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlke 330 (407)
T COG1419 262 ----PLEVVYSPKELAEAIEA----LRDCDVILVDTAGRSQYD---KEKIEELKELIDVSHSIEVYLVLSATTKYEDLKE 330 (407)
T ss_pred ----ceEEecCHHHHHHHHHH----hhcCCEEEEeCCCCCccC---HHHHHHHHHHHhccccceEEEEEecCcchHHHHH
Confidence 22666788777776654 777899999999753221 1222233333333223445688999976 44555
Q ss_pred HHHHHh
Q 011104 299 FVTRIV 304 (493)
Q Consensus 299 ~~~~~~ 304 (493)
.+..|.
T Consensus 331 i~~~f~ 336 (407)
T COG1419 331 IIKQFS 336 (407)
T ss_pred HHHHhc
Confidence 555543
No 207
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.19 E-value=0.0067 Score=57.98 Aligned_cols=130 Identities=15% Similarity=0.156 Sum_probs=71.6
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHH-HHHHHHHHHHHHhcccCceeeEeecCCCCCccccc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRE-LAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPIS 217 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~-La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (493)
+.+.+.|+||+|||.....-+.. +. ..+.++.++. |-|. .+.|+. .++...++
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~-L~--~~GkkVglI~aDt~RiaAvEQLk----~yae~lgi----------------- 297 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQ-FH--GKKKTVGFITTDHSRIGTVQQLQ----DYVKTIGF----------------- 297 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHH-HH--HcCCcEEEEecCCcchHHHHHHH----HHhhhcCC-----------------
Confidence 67899999999999875443332 22 2234455444 3342 333333 33322221
Q ss_pred CCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC-hhH
Q 011104 218 KRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN-ETV 296 (493)
Q Consensus 218 ~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~-~~~ 296 (493)
+-+.+.+|..+.+.+..-.- ..++++|++|-+-+.... ...+..+...+....+..-++.+|||.. .++
T Consensus 298 ------pv~v~~d~~~L~~aL~~lk~-~~~~DvVLIDTaGRs~kd---~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~ 367 (436)
T PRK11889 298 ------EVIAVRDEAAMTRALTYFKE-EARVDYILIDTAGKNYRA---SETVEEMIETMGQVEPDYICLTLSASMKSKDM 367 (436)
T ss_pred ------cEEecCCHHHHHHHHHHHHh-ccCCCEEEEeCccccCcC---HHHHHHHHHHHhhcCCCeEEEEECCccChHHH
Confidence 11334578887766643211 125789999999875532 2334444444443333445677999865 455
Q ss_pred HHHHHHHh
Q 011104 297 KNFVTRIV 304 (493)
Q Consensus 297 ~~~~~~~~ 304 (493)
...+..|-
T Consensus 368 ~~i~~~F~ 375 (436)
T PRK11889 368 IEIITNFK 375 (436)
T ss_pred HHHHHHhc
Confidence 55555553
No 208
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.16 E-value=0.0016 Score=62.42 Aligned_cols=131 Identities=17% Similarity=0.150 Sum_probs=68.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
..+++.||||+|||+...--+...... ....++.+++ +...-.--.+.++.|+...++.
T Consensus 138 ~ii~lvGptGvGKTTtiakLA~~~~~~-~G~~~V~lit-~D~~R~ga~EqL~~~a~~~gv~------------------- 196 (374)
T PRK14722 138 GVFALMGPTGVGKTTTTAKLAARCVMR-FGASKVALLT-TDSYRIGGHEQLRIFGKILGVP------------------- 196 (374)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHh-cCCCeEEEEe-cccccccHHHHHHHHHHHcCCc-------------------
Confidence 789999999999999754333222211 1112444443 2222112234445555443331
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcC-CCeeEEEEeeecChhH-HH
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSS-GHCQVLLFSATFNETV-KN 298 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~-~~~q~v~~SAT~~~~~-~~ 298 (493)
-..+.+++.+...+.. +.+.++|+||.+-+.-. ...+...+..+.... +...++++|||..... ..
T Consensus 197 ----~~~~~~~~~l~~~l~~----l~~~DlVLIDTaG~~~~----d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~e 264 (374)
T PRK14722 197 ----VHAVKDGGDLQLALAE----LRNKHMVLIDTIGMSQR----DRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNE 264 (374)
T ss_pred ----eEecCCcccHHHHHHH----hcCCCEEEEcCCCCCcc----cHHHHHHHHHHhccCCCCeEEEEecCccChHHHHH
Confidence 1334455555554442 55678999999975322 233334444443222 2345788899986544 33
Q ss_pred HHHHHh
Q 011104 299 FVTRIV 304 (493)
Q Consensus 299 ~~~~~~ 304 (493)
.+..|.
T Consensus 265 vi~~f~ 270 (374)
T PRK14722 265 VVQAYR 270 (374)
T ss_pred HHHHHH
Confidence 444443
No 209
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=97.15 E-value=0.025 Score=56.98 Aligned_cols=126 Identities=15% Similarity=0.184 Sum_probs=84.7
Q ss_pred CCcEEEEcCChhhHHHHHHHHHhCCCc-------EEEecCCCCHHHHHHHHHHHH----cCCCcEEEEe--CccccCCCC
Q 011104 350 MGQTIIFVRTKNSASALHKALKDFGYE-------VTTIMGATIQEERDKIVKEFK----DGLTQVLIST--DVLARGFDQ 416 (493)
Q Consensus 350 ~~~~lVf~~s~~~~~~l~~~L~~~~~~-------~~~l~~~~~~~~r~~~~~~f~----~g~~~vLv~T--~~~~~Gldi 416 (493)
++.+++|++|.+....+.+.+...|+- -..+-..-+ -..+++.|. .|.-.+|+|. .-+++|||+
T Consensus 629 PgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~---~~dvl~~Ya~a~~~g~GaiLlaVVGGKlSEGINF 705 (821)
T KOG1133|consen 629 PGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT---VEDVLEGYAEAAERGRGAILLAVVGGKLSEGINF 705 (821)
T ss_pred CCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc---HHHHHHHHHHHhhcCCCeEEEEEecccccccccc
Confidence 488999999999999999888765542 222222222 456666664 4555677775 779999999
Q ss_pred CC--CCEEEEccCCCCCCCC---------C----CC---Cc--------ccccccccccccCCCcceEEEEeeCCccHHH
Q 011104 417 QQ--VNLIVNYDPPVKHGKH---------L----EP---DC--------EVYLHRIGRAGRFGRKGVVFNLLMDGDDMII 470 (493)
Q Consensus 417 ~~--v~~Vi~~~~p~~~~~~---------~----~~---s~--------~~y~qr~GR~~R~g~~g~~i~l~~~~~~~~~ 470 (493)
.+ .+.||..++|..+... + +. +- ....|-+|||-|.-++-.+|.|+........
T Consensus 706 ~D~LgRaVvvVGlPyPN~~s~EL~er~k~l~~k~~~~gagke~yEnlCMkAVNQsIGRAIRH~~DYA~i~LlD~RY~~p~ 785 (821)
T KOG1133|consen 706 SDDLGRAVVVVGLPYPNIQSVELQERMKHLDGKLPTPGAGKELYENLCMKAVNQSIGRAIRHRKDYASIYLLDKRYARPL 785 (821)
T ss_pred ccccccEEEEeecCCCCCCCHHHHHHHHHhhhccCCCCchHHHHHHHHHHHHHHHHHHHHhhhccceeEEEehhhhcCch
Confidence 88 7889999999764321 1 11 11 1225999999999888899988866554333
Q ss_pred HHHHHHHh
Q 011104 471 MEKIERYF 478 (493)
Q Consensus 471 ~~~i~~~~ 478 (493)
.+.+-+++
T Consensus 786 ~RKLp~WI 793 (821)
T KOG1133|consen 786 SRKLPKWI 793 (821)
T ss_pred hhhccHHH
Confidence 34444444
No 210
>PRK06526 transposase; Provisional
Probab=97.13 E-value=0.0026 Score=58.04 Aligned_cols=19 Identities=26% Similarity=0.333 Sum_probs=16.5
Q ss_pred ccEEEeccCCCchhHHhHH
Q 011104 141 RNLIAQARNGSGKTTCFVL 159 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~ 159 (493)
.++++.||+|+|||..+..
T Consensus 99 ~nlll~Gp~GtGKThLa~a 117 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIG 117 (254)
T ss_pred ceEEEEeCCCCchHHHHHH
Confidence 8999999999999986443
No 211
>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=97.11 E-value=0.0022 Score=62.24 Aligned_cols=59 Identities=15% Similarity=0.200 Sum_probs=41.9
Q ss_pred CchHHHhhhhhh------cCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHH
Q 011104 124 PSKIQAISLPMI------LTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQN 187 (493)
Q Consensus 124 ~~~~Q~~~i~~i------l~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~ 187 (493)
+++-|+.++..+ ..+ ..+++.|+-|+|||..+- .+...+.. .+..+++++||-..|..+
T Consensus 2 Ln~eQ~~~~~~v~~~~~~~~~--~~~fv~G~~GtGKs~l~~-~i~~~~~~--~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 2 LNEEQRRVFDTVIEAIENEEG--LNFFVTGPAGTGKSFLIK-AIIDYLRS--RGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCHHHHHHHHHHHHHHHccCC--cEEEEEcCCCCChhHHHH-HHHHHhcc--ccceEEEecchHHHHHhc
Confidence 456788887777 455 899999999999998632 23333322 456789999998777654
No 212
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.06 E-value=0.0071 Score=50.01 Aligned_cols=17 Identities=41% Similarity=0.554 Sum_probs=15.2
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
+.+++.|++|+|||...
T Consensus 20 ~~v~i~G~~G~GKT~l~ 36 (151)
T cd00009 20 KNLLLYGPPGTGKTTLA 36 (151)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 78999999999999753
No 213
>PRK05642 DNA replication initiation factor; Validated
Probab=96.99 E-value=0.0027 Score=57.46 Aligned_cols=47 Identities=15% Similarity=0.356 Sum_probs=29.4
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecCh
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNE 294 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~ 294 (493)
+.+++++|+|++|.+.........+..++..+... -..++++++.++
T Consensus 95 ~~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~---g~~ilits~~~p 141 (234)
T PRK05642 95 LEQYELVCLDDLDVIAGKADWEEALFHLFNRLRDS---GRRLLLAASKSP 141 (234)
T ss_pred hhhCCEEEEechhhhcCChHHHHHHHHHHHHHHhc---CCEEEEeCCCCH
Confidence 34567899999998764323345566777666542 245677777543
No 214
>PRK06893 DNA replication initiation factor; Validated
Probab=96.97 E-value=0.0032 Score=56.83 Aligned_cols=49 Identities=12% Similarity=0.266 Sum_probs=30.7
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChh
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNET 295 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~ 295 (493)
+.++++|+|||+|.+.....+...+..++..+... ..+++++|++.++.
T Consensus 89 ~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~--~~~illits~~~p~ 137 (229)
T PRK06893 89 LEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQ--GKTLLLISADCSPH 137 (229)
T ss_pred cccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHc--CCcEEEEeCCCChH
Confidence 34678999999998864323334555666655432 33567788876543
No 215
>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=96.97 E-value=0.0047 Score=54.00 Aligned_cols=133 Identities=16% Similarity=0.182 Sum_probs=67.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
+-+++.||||+|||....=-+ .++... +.++.+++ ..|.=| .++++.++..+++.+......
T Consensus 2 ~vi~lvGptGvGKTTt~aKLA-a~~~~~--~~~v~lis~D~~R~ga---~eQL~~~a~~l~vp~~~~~~~---------- 65 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLA-ARLKLK--GKKVALISADTYRIGA---VEQLKTYAEILGVPFYVARTE---------- 65 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHH-HHHHHT--T--EEEEEESTSSTHH---HHHHHHHHHHHTEEEEESSTT----------
T ss_pred EEEEEECCCCCchHhHHHHHH-HHHhhc--cccceeecCCCCCccH---HHHHHHHHHHhccccchhhcc----------
Confidence 468899999999998743222 222222 44555555 334333 334444444444432111000
Q ss_pred CCCCCCcEEEeCchHHH-HHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHH
Q 011104 219 RPPVTAQVVIGTPGTIK-KWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVK 297 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l~-~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~ 297 (493)
..|..+. +.+.. ...+++++|++|-+-+..........+..++..+ .+..-.+.+|||......
T Consensus 66 ----------~~~~~~~~~~l~~--~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~---~~~~~~LVlsa~~~~~~~ 130 (196)
T PF00448_consen 66 ----------SDPAEIAREALEK--FRKKGYDLVLIDTAGRSPRDEELLEELKKLLEAL---NPDEVHLVLSATMGQEDL 130 (196)
T ss_dssp ----------SCHHHHHHHHHHH--HHHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHH---SSSEEEEEEEGGGGGHHH
T ss_pred ----------hhhHHHHHHHHHH--HhhcCCCEEEEecCCcchhhHHHHHHHHHHhhhc---CCccceEEEecccChHHH
Confidence 0233322 23332 1234578999999976543212223444444444 335678999999886655
Q ss_pred HHHHHHh
Q 011104 298 NFVTRIV 304 (493)
Q Consensus 298 ~~~~~~~ 304 (493)
..+..+.
T Consensus 131 ~~~~~~~ 137 (196)
T PF00448_consen 131 EQALAFY 137 (196)
T ss_dssp HHHHHHH
T ss_pred HHHHHHh
Confidence 5444443
No 216
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=96.94 E-value=0.0051 Score=65.78 Aligned_cols=147 Identities=13% Similarity=0.125 Sum_probs=92.6
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCC---------------CCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEe
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDP---------------NLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECA 205 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~---------------~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~ 205 (493)
.+++..-..|+|||..-+...+..+.. ....+.+|||||.- +..||...+.+-.... +.+...
T Consensus 375 ~~~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~a-Il~QW~~EI~kH~~~~-lKv~~Y 452 (1394)
T KOG0298|consen 375 KRVQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPNA-ILMQWFEEIHKHISSL-LKVLLY 452 (1394)
T ss_pred cceeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcHH-HHHHHHHHHHHhcccc-ceEEEE
Confidence 678999999999999866655543311 11234689999975 5689999888876654 566656
Q ss_pred ecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCc--------------cCCC------CeeEEEEecchhhhcccCC
Q 011104 206 VPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKK--------------LGFS------RLKILVYDEADHMLDEAGF 265 (493)
Q Consensus 206 ~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~--------------~~~~------~~~~iVlDEah~l~~~~~~ 265 (493)
.|......... ...-.+|||++|+..|..-+.... ...+ .+=-|+||||..+-. -
T Consensus 453 ~Girk~~~~~~--~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~qsr~~~~~SPL~~v~wWRIclDEaQMves---s 527 (1394)
T KOG0298|consen 453 FGIRKTFWLSP--FELLQYDIVLTTYDILRNELYHTEDFGSDRQLRHQSRYMRPNSPLLMVNWWRICLDEAQMVES---S 527 (1394)
T ss_pred echhhhcccCc--hhhhccCEEEeehHHHHhHhhcccccCChhhhhcccCCCCCCCchHHHHHHHHhhhHHHhhcc---h
Confidence 65544433222 223368999999999976664321 1111 112389999997654 2
Q ss_pred HHHHHHHHHHhhhcCCCeeEEEEeeecChhHHH
Q 011104 266 RDDSLRIMKDIERSSGHCQVLLFSATFNETVKN 298 (493)
Q Consensus 266 ~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~ 298 (493)
.....+++..+.. ...-++|+|+-..+.+
T Consensus 528 sS~~a~M~~rL~~----in~W~VTGTPiq~Idd 556 (1394)
T KOG0298|consen 528 SSAAAEMVRRLHA----INRWCVTGTPIQKIDD 556 (1394)
T ss_pred HHHHHHHHHHhhh----hceeeecCCchhhhhh
Confidence 3444555555543 3567899996544433
No 217
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=96.89 E-value=0.0014 Score=67.91 Aligned_cols=145 Identities=19% Similarity=0.084 Sum_probs=84.2
Q ss_pred cCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 104 DLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 104 ~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
...+.|.+.+... ..++.-|++|+-.++.-. .-.+|.|=+|+|||...... +..+. ..+.++|+.+-|...
T Consensus 655 ~~~~~p~~~~~~~-----~~LN~dQr~A~~k~L~ae-dy~LI~GMPGTGKTTtI~~L-IkiL~--~~gkkVLLtsyThsA 725 (1100)
T KOG1805|consen 655 SKVLIPKIKKIIL-----LRLNNDQRQALLKALAAE-DYALILGMPGTGKTTTISLL-IKILV--ALGKKVLLTSYTHSA 725 (1100)
T ss_pred ccccCchhhHHHH-----hhcCHHHHHHHHHHHhcc-chheeecCCCCCchhhHHHH-HHHHH--HcCCeEEEEehhhHH
Confidence 3455666665322 257788999999998762 45788999999999864332 22221 135689999999988
Q ss_pred HHHHHHHHHHHhccc---Cc--------eeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEE
Q 011104 184 AIQNLEVLRKMGKHT---GI--------TSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILV 252 (493)
Q Consensus 184 a~q~~~~~~~~~~~~---~~--------~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iV 252 (493)
+..+.-.++.++... |. .-.+.....+.............+.|+.+|=-.+.+.+ +....|+++|
T Consensus 726 VDNILiKL~~~~i~~lRLG~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~pl----f~~R~FD~cI 801 (1100)
T KOG1805|consen 726 VDNILIKLKGFGIYILRLGSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGINHPL----FVNRQFDYCI 801 (1100)
T ss_pred HHHHHHHHhccCcceeecCCccccchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCCchh----hhccccCEEE
Confidence 888777776654321 00 00000000000100111122235678888743332222 2345689999
Q ss_pred Eecchhhhc
Q 011104 253 YDEADHMLD 261 (493)
Q Consensus 253 lDEah~l~~ 261 (493)
+|||-.+..
T Consensus 802 iDEASQI~l 810 (1100)
T KOG1805|consen 802 IDEASQILL 810 (1100)
T ss_pred Ecccccccc
Confidence 999998764
No 218
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=96.86 E-value=0.0001 Score=74.97 Aligned_cols=79 Identities=20% Similarity=0.227 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHc---CCCcEEEEeCcc
Q 011104 334 AKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKD---GLTQVLISTDVL 410 (493)
Q Consensus 334 ~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~---g~~~vLv~T~~~ 410 (493)
.+...|..++..+...+.+++||.+-....+.+..++...+ ....+.|......|+..+.+|+. .....|++|.+.
T Consensus 615 ~k~~~l~~~~~~l~~~ghrvl~~~q~~~~ldlled~~~~~~-~~~r~dG~~~~~~rq~ai~~~n~~~~~~~cfllstra~ 693 (696)
T KOG0383|consen 615 GKLTLLLKMLKKLKSSGHRVLIFSQMIHMLDLLEDYLTYEG-KYERIDGPITGPERQAAIDRFNAPGSNQFCFLLSTRAG 693 (696)
T ss_pred HHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhHHHHhccC-cceeccCCccchhhhhhccccCCCCccceEEEeecccc
Confidence 34555666677777788999999999999999999999888 89999999999999999999983 356789999887
Q ss_pred ccC
Q 011104 411 ARG 413 (493)
Q Consensus 411 ~~G 413 (493)
+.|
T Consensus 694 g~g 696 (696)
T KOG0383|consen 694 GLG 696 (696)
T ss_pred cCC
Confidence 655
No 219
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=96.85 E-value=0.0027 Score=66.04 Aligned_cols=67 Identities=19% Similarity=0.207 Sum_probs=52.4
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHH
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRK 193 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~ 193 (493)
.+++.|..++..++... ..+++.||+|+|||....-.+.+.+. .+.++|+++||...+.++.+.+..
T Consensus 157 ~ln~~Q~~Av~~~l~~~-~~~lI~GpPGTGKT~t~~~ii~~~~~---~g~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 157 NLNESQKEAVSFALSSK-DLFLIHGPPGTGKTRTLVELIRQLVK---RGLRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCHHHHHHHHHHhcCC-CeEEEEcCCCCCHHHHHHHHHHHHHH---cCCCEEEEcCcHHHHHHHHHHHHh
Confidence 46889999999988652 57889999999999874443333332 345899999999999999988776
No 220
>PRK14974 cell division protein FtsY; Provisional
Probab=96.81 E-value=0.015 Score=55.26 Aligned_cols=132 Identities=13% Similarity=0.097 Sum_probs=69.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCC---HHHHHHHHHHHHHHhcccCceeeEeecCCCCCccccc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPT---RELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPIS 217 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt---~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (493)
.-+++.|++|+|||....-.+ ..+.. .+.+++++... .....|+......+ ++.+.. ...
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA-~~l~~--~g~~V~li~~Dt~R~~a~eqL~~~a~~l----gv~v~~--~~~-------- 203 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLA-YYLKK--NGFSVVIAAGDTFRAGAIEQLEEHAERL----GVKVIK--HKY-------- 203 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHH-HHHHH--cCCeEEEecCCcCcHHHHHHHHHHHHHc----CCceec--ccC--------
Confidence 578999999999998633322 22221 34456555532 33444544444433 322110 000
Q ss_pred CCCCCCCcEEEeCchH-HHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhH
Q 011104 218 KRPPVTAQVVIGTPGT-IKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETV 296 (493)
Q Consensus 218 ~~~~~~~~Ilv~Tp~~-l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~ 296 (493)
+ ..|.. +.+.+... ....+++|++|.+.++-....+...+..+...+. +...++.++||...+.
T Consensus 204 -----g-----~dp~~v~~~ai~~~--~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~---pd~~iLVl~a~~g~d~ 268 (336)
T PRK14974 204 -----G-----ADPAAVAYDAIEHA--KARGIDVVLIDTAGRMHTDANLMDELKKIVRVTK---PDLVIFVGDALAGNDA 268 (336)
T ss_pred -----C-----CCHHHHHHHHHHHH--HhCCCCEEEEECCCccCCcHHHHHHHHHHHHhhC---CceEEEeeccccchhH
Confidence 0 01221 12222211 1235679999999987543333444444444333 3667889999887666
Q ss_pred HHHHHHHh
Q 011104 297 KNFVTRIV 304 (493)
Q Consensus 297 ~~~~~~~~ 304 (493)
...+..|.
T Consensus 269 ~~~a~~f~ 276 (336)
T PRK14974 269 VEQAREFN 276 (336)
T ss_pred HHHHHHHH
Confidence 65555554
No 221
>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=96.81 E-value=0.00093 Score=56.66 Aligned_cols=124 Identities=20% Similarity=0.188 Sum_probs=53.0
Q ss_pred EEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCC
Q 011104 144 IAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVT 223 (493)
Q Consensus 144 iv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (493)
++.|+-|-|||.+..+.+...+.. ...+++|.+|+.+-+..+++.+..-...++....... ............
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~--~~~~I~vtAP~~~~~~~lf~~~~~~l~~~~~~~~~~~-----~~~~~~~~~~~~ 73 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQK--GKIRILVTAPSPENVQTLFEFAEKGLKALGYKEEKKK-----RIGQIIKLRFNK 73 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-------EEEE-SS--S-HHHHHCC-------------------------------C
T ss_pred CccCCCCCCHHHHHHHHHHHHHHh--cCceEEEecCCHHHHHHHHHHHHhhcccccccccccc-----cccccccccccc
Confidence 578899999998755544333322 2257999999999988888876655444433220000 000000011113
Q ss_pred CcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC
Q 011104 224 AQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN 293 (493)
Q Consensus 224 ~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~ 293 (493)
..|-+..|+.+... -...+++|||||=.+-- +. +..+.. ....++||.|..
T Consensus 74 ~~i~f~~Pd~l~~~-------~~~~DlliVDEAAaIp~-----p~----L~~ll~---~~~~vv~stTi~ 124 (177)
T PF05127_consen 74 QRIEFVAPDELLAE-------KPQADLLIVDEAAAIPL-----PL----LKQLLR---RFPRVVFSTTIH 124 (177)
T ss_dssp CC--B--HHHHCCT-----------SCEEECTGGGS-H-----HH----HHHHHC---CSSEEEEEEEBS
T ss_pred ceEEEECCHHHHhC-------cCCCCEEEEechhcCCH-----HH----HHHHHh---hCCEEEEEeecc
Confidence 45777777665431 12347899999975532 22 333332 234688898875
No 222
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=96.78 E-value=0.003 Score=67.29 Aligned_cols=70 Identities=19% Similarity=0.157 Sum_probs=54.2
Q ss_pred CCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC-CCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 122 QKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP-NLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 122 ~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~-~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
..+++-|+.++... . ..++|.|..|||||.+...-+...+.. .....++|+|+.|+..|..+.+.+.++.
T Consensus 3 ~~Ln~~Q~~av~~~--~--g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~ 73 (715)
T TIGR01075 3 DGLNDKQREAVAAP--P--GNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALL 73 (715)
T ss_pred cccCHHHHHHHcCC--C--CCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHh
Confidence 35889999998653 2 479999999999999865555444432 3355689999999999999999888875
No 223
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.77 E-value=0.0053 Score=55.58 Aligned_cols=44 Identities=14% Similarity=0.231 Sum_probs=25.9
Q ss_pred eeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC
Q 011104 248 LKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN 293 (493)
Q Consensus 248 ~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~ 293 (493)
+++|+|||+|.+.........+..++..+.... ..+ +++|++.+
T Consensus 98 ~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g-~~~-li~ts~~~ 141 (235)
T PRK08084 98 LSLVCIDNIECIAGDELWEMAIFDLYNRILESG-RTR-LLITGDRP 141 (235)
T ss_pred CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcC-CCe-EEEeCCCC
Confidence 468999999988653233445556666554421 224 55566544
No 224
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=96.76 E-value=0.0099 Score=59.22 Aligned_cols=112 Identities=15% Similarity=0.239 Sum_probs=61.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
+.+++.|++|+|||-. +..+...+.....+.+++++.+ .++...+...+....
T Consensus 142 npl~i~G~~G~GKTHL-l~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~~l~~~~------------------------- 194 (450)
T PRK14087 142 NPLFIYGESGMGKTHL-LKAAKNYIESNFSDLKVSYMSG-DEFARKAVDILQKTH------------------------- 194 (450)
T ss_pred CceEEECCCCCcHHHH-HHHHHHHHHHhCCCCeEEEEEH-HHHHHHHHHHHHHhh-------------------------
Confidence 4699999999999964 3344444433334556666554 445544443332100
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhH
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETV 296 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~ 296 (493)
+.+..+.. .+.++++|||||+|.+.......+.+..++..+... ..|+|+.|-..|...
T Consensus 195 -----------~~~~~~~~----~~~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~--~k~iIltsd~~P~~l 253 (450)
T PRK14087 195 -----------KEIEQFKN----EICQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIEN--DKQLFFSSDKSPELL 253 (450)
T ss_pred -----------hHHHHHHH----HhccCCEEEEeccccccCCHHHHHHHHHHHHHHHHc--CCcEEEECCCCHHHH
Confidence 11111111 134678999999998764222345566666666553 235555444444343
No 225
>PRK08181 transposase; Validated
Probab=96.76 E-value=0.02 Score=52.62 Aligned_cols=17 Identities=29% Similarity=0.376 Sum_probs=15.3
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
+++++.||+|+|||-.+
T Consensus 107 ~nlll~Gp~GtGKTHLa 123 (269)
T PRK08181 107 ANLLLFGPPGGGKSHLA 123 (269)
T ss_pred ceEEEEecCCCcHHHHH
Confidence 88999999999999653
No 226
>PRK05580 primosome assembly protein PriA; Validated
Probab=96.76 E-value=0.034 Score=58.59 Aligned_cols=100 Identities=17% Similarity=0.155 Sum_probs=77.8
Q ss_pred EEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh-CCCcEEEecCCCCHHHHHHHHHHHHcCCCcEE
Q 011104 326 KVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD-FGYEVTTIMGATIQEERDKIVKEFKDGLTQVL 404 (493)
Q Consensus 326 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~-~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vL 404 (493)
....+....|.......+......+.++||.+++++.+..+.+.|++ .+..+..+||+++..+|...+.....|...|+
T Consensus 166 Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~IV 245 (679)
T PRK05580 166 LLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAKVV 245 (679)
T ss_pred EEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCCEE
Confidence 33444445565555554555555577899999999999999999976 47899999999999999999999999999999
Q ss_pred EEeCccccCCCCCCCCEEEEcc
Q 011104 405 ISTDVLARGFDQQQVNLIVNYD 426 (493)
Q Consensus 405 v~T~~~~~Gldi~~v~~Vi~~~ 426 (493)
|+|..+.. +.+.++.+||.-+
T Consensus 246 VgTrsal~-~p~~~l~liVvDE 266 (679)
T PRK05580 246 IGARSALF-LPFKNLGLIIVDE 266 (679)
T ss_pred EeccHHhc-ccccCCCEEEEEC
Confidence 99975432 5677888887644
No 227
>PRK06835 DNA replication protein DnaC; Validated
Probab=96.76 E-value=0.015 Score=55.07 Aligned_cols=42 Identities=19% Similarity=0.179 Sum_probs=24.8
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQ 186 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q 186 (493)
.++++.|+||+|||.... .+...+.. .+..++++ +...|..+
T Consensus 184 ~~Lll~G~~GtGKThLa~-aIa~~l~~--~g~~V~y~-t~~~l~~~ 225 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSN-CIAKELLD--RGKSVIYR-TADELIEI 225 (329)
T ss_pred CcEEEECCCCCcHHHHHH-HHHHHHHH--CCCeEEEE-EHHHHHHH
Confidence 789999999999997533 33333322 23345544 33444433
No 228
>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=96.74 E-value=0.018 Score=51.92 Aligned_cols=18 Identities=33% Similarity=0.401 Sum_probs=15.8
Q ss_pred ccEEEeccCCCchhHHhH
Q 011104 141 RNLIAQARNGSGKTTCFV 158 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~ 158 (493)
..+++.|++|+|||....
T Consensus 39 ~~lll~G~~G~GKT~la~ 56 (226)
T TIGR03420 39 RFLYLWGESGSGKSHLLQ 56 (226)
T ss_pred CeEEEECCCCCCHHHHHH
Confidence 789999999999998643
No 229
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.74 E-value=0.022 Score=56.27 Aligned_cols=130 Identities=18% Similarity=0.155 Sum_probs=66.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
+.+++.||||+|||....--+.... ....+.++.++. |.|.-+. +.+..++...++.
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~-~~~~g~~V~li~~D~~r~~a~---eqL~~~a~~~~vp----------------- 280 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYA-LLYGKKKVALITLDTYRIGAV---EQLKTYAKIMGIP----------------- 280 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCeEEEEECCccHHHHH---HHHHHHHHHhCCc-----------------
Confidence 6889999999999986443222221 011233455544 3343222 3344444332221
Q ss_pred CCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecCh-hHH
Q 011104 219 RPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNE-TVK 297 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~-~~~ 297 (493)
-..+.++..+...+.. +.++++|+||.+-+..........+..++.. ...+....+++|||... .+.
T Consensus 281 ------~~~~~~~~~l~~~l~~----~~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~--~~~~~~~~LVl~a~~~~~~l~ 348 (424)
T PRK05703 281 ------VEVVYDPKELAKALEQ----LRDCDVILIDTAGRSQRDKRLIEELKALIEF--SGEPIDVYLVLSATTKYEDLK 348 (424)
T ss_pred ------eEccCCHHhHHHHHHH----hCCCCEEEEeCCCCCCCCHHHHHHHHHHHhc--cCCCCeEEEEEECCCCHHHHH
Confidence 1223456666665553 3468999999996543221112233333331 11223457889998764 444
Q ss_pred HHHHHH
Q 011104 298 NFVTRI 303 (493)
Q Consensus 298 ~~~~~~ 303 (493)
..+..|
T Consensus 349 ~~~~~f 354 (424)
T PRK05703 349 DIYKHF 354 (424)
T ss_pred HHHHHh
Confidence 444444
No 230
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=96.71 E-value=0.0054 Score=64.52 Aligned_cols=70 Identities=17% Similarity=0.115 Sum_probs=53.7
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC-CCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP-NLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~-~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
.+++-|+.++... . ..++|.|..|||||.+...-+...+.. .....++|+|+.|+..|..+.+.+..+..
T Consensus 2 ~Ln~~Q~~av~~~-~---g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 2 RLNPGQQQAVEFV-T---GPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred CCCHHHHHHHhCC-C---CCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 3778999988753 2 468899999999999865555554532 34456899999999999999998887643
No 231
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=96.68 E-value=0.0034 Score=66.81 Aligned_cols=69 Identities=17% Similarity=0.142 Sum_probs=53.4
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccC-CCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVD-PNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~-~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
.+++-|++++... . ..++|.|..|||||.+...-+...+. ......++|+|+-|+..|..+.+.+.++.
T Consensus 9 ~Ln~~Q~~av~~~-~---g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~ 78 (721)
T PRK11773 9 SLNDKQREAVAAP-L---GNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLL 78 (721)
T ss_pred hcCHHHHHHHhCC-C---CCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHh
Confidence 4889999998753 2 47999999999999986554444443 23455689999999999999999888865
No 232
>PRK08727 hypothetical protein; Validated
Probab=96.64 E-value=0.0082 Score=54.30 Aligned_cols=50 Identities=4% Similarity=0.062 Sum_probs=26.6
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhH
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETV 296 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~ 296 (493)
+.++++|||||+|.+.........+..++..+... ..++++.|-..|...
T Consensus 91 l~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~--~~~vI~ts~~~p~~l 140 (233)
T PRK08727 91 LEGRSLVALDGLESIAGQREDEVALFDFHNRARAA--GITLLYTARQMPDGL 140 (233)
T ss_pred HhcCCEEEEeCcccccCChHHHHHHHHHHHHHHHc--CCeEEEECCCChhhh
Confidence 34567899999998764322233444555554331 234444444444433
No 233
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=96.60 E-value=0.014 Score=58.64 Aligned_cols=107 Identities=11% Similarity=0.208 Sum_probs=55.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
+.+++.|++|+|||... -.+...+.....+.+++++. ...+...+...++.
T Consensus 149 ~~l~l~G~~G~GKThL~-~ai~~~~~~~~~~~~v~yi~-~~~~~~~~~~~~~~--------------------------- 199 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLL-HAIGNYILEKNPNAKVVYVT-SEKFTNDFVNALRN--------------------------- 199 (450)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHHHhCCCCeEEEEE-HHHHHHHHHHHHHc---------------------------
Confidence 56999999999999753 33333333322344566553 34444333222210
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecCh
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNE 294 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~ 294 (493)
.+...+... +.++++|+|||+|.+.........+..++..+... ..+ ++++++.++
T Consensus 200 --------~~~~~~~~~-------~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~--~~~-iiits~~~p 255 (450)
T PRK00149 200 --------NTMEEFKEK-------YRSVDVLLIDDIQFLAGKERTQEEFFHTFNALHEA--GKQ-IVLTSDRPP 255 (450)
T ss_pred --------CcHHHHHHH-------HhcCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHC--CCc-EEEECCCCH
Confidence 011222221 33577999999998765222233455555555442 234 455555443
No 234
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=96.60 E-value=0.0072 Score=59.97 Aligned_cols=178 Identities=14% Similarity=0.187 Sum_probs=96.0
Q ss_pred CCCCCcccCCCCHHHHHHHHhh--CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeE
Q 011104 97 TSATTFEDLNLSPELLKGLYVE--MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQA 174 (493)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~l~~~--~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~ 174 (493)
-+..+|++.|--.++...|... ..+++|.-+++..+.. - ..++++||+|+|||+.+-..+ .+ .+-.
T Consensus 505 VPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~-P----sGvLL~GPPGCGKTLlAKAVA-----NE-ag~N- 572 (802)
T KOG0733|consen 505 VPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDA-P----SGVLLCGPPGCGKTLLAKAVA-----NE-AGAN- 572 (802)
T ss_pred cCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCC-C----CceEEeCCCCccHHHHHHHHh-----hh-ccCc-
Confidence 3567899999877777777542 2555666566555543 2 459999999999998531111 00 0100
Q ss_pred EEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEe
Q 011104 175 LCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYD 254 (493)
Q Consensus 175 lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlD 254 (493)
.|-+---+|. +..|+-.++-.+-+-... ..+..++|.+|
T Consensus 573 FisVKGPELl----------------------------------------NkYVGESErAVR~vFqRA-R~saPCVIFFD 611 (802)
T KOG0733|consen 573 FISVKGPELL----------------------------------------NKYVGESERAVRQVFQRA-RASAPCVIFFD 611 (802)
T ss_pred eEeecCHHHH----------------------------------------HHHhhhHHHHHHHHHHHh-hcCCCeEEEec
Confidence 1111111221 122333333322222111 13456789999
Q ss_pred cchhhhcccC------CHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHHhccCceeeeccccccccCceEEEEe
Q 011104 255 EADHMLDEAG------FRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRIVKDYNQLFVKKEELSLESVKQYKVY 328 (493)
Q Consensus 255 Eah~l~~~~~------~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 328 (493)
|+|.|....+ -...+..++..+.-......+.++-||-.+++.+ ..+-.|..+ -...|+-
T Consensus 612 EiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiID---pAiLRPGRl-----------Dk~LyV~ 677 (802)
T KOG0733|consen 612 EIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIID---PAILRPGRL-----------DKLLYVG 677 (802)
T ss_pred chhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccc---hhhcCCCcc-----------Cceeeec
Confidence 9998864222 1234555666665555567899999997766632 222222211 1234566
Q ss_pred CCChHHHHHHHHH
Q 011104 329 CPDELAKVMVIRD 341 (493)
Q Consensus 329 ~~~~~~~~~~l~~ 341 (493)
.|+.......|..
T Consensus 678 lPn~~eR~~ILK~ 690 (802)
T KOG0733|consen 678 LPNAEERVAILKT 690 (802)
T ss_pred CCCHHHHHHHHHH
Confidence 6666666665544
No 235
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.57 E-value=0.018 Score=56.86 Aligned_cols=21 Identities=29% Similarity=0.192 Sum_probs=16.7
Q ss_pred ccEEEeccCCCchhHHhHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGM 161 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~ 161 (493)
..++++||.|+|||.++.+.+
T Consensus 41 ha~Lf~GP~GtGKTTlAriLA 61 (484)
T PRK14956 41 HAYIFFGPRGVGKTTIARILA 61 (484)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 347999999999999865543
No 236
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.52 E-value=0.083 Score=52.80 Aligned_cols=128 Identities=14% Similarity=0.165 Sum_probs=62.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
+.+.+.|+||+|||.....-+.. +.....+.++.++. +.+..+. +.++.++..+++.+
T Consensus 351 ~vIaLVGPtGvGKTTtaakLAa~-la~~~~gkkVaLIdtDtyRigA~---EQLk~ya~iLgv~v---------------- 410 (559)
T PRK12727 351 GVIALVGPTGAGKTTTIAKLAQR-FAAQHAPRDVALVTTDTQRVGGR---EQLHSYGRQLGIAV---------------- 410 (559)
T ss_pred CEEEEECCCCCCHHHHHHHHHHH-HHHhcCCCceEEEecccccccHH---HHHHHhhcccCcee----------------
Confidence 78999999999999875332222 11111123444443 2343332 23334433322211
Q ss_pred CCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC-hhHH
Q 011104 219 RPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN-ETVK 297 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~-~~~~ 297 (493)
..+.+++.+...+.. +.++++|+||.+-..-.+ ......+..+........+++++++.. .++.
T Consensus 411 -------~~a~d~~~L~~aL~~----l~~~DLVLIDTaG~s~~D----~~l~eeL~~L~aa~~~a~lLVLpAtss~~Dl~ 475 (559)
T PRK12727 411 -------HEADSAESLLDLLER----LRDYKLVLIDTAGMGQRD----RALAAQLNWLRAARQVTSLLVLPANAHFSDLD 475 (559)
T ss_pred -------EecCcHHHHHHHHHH----hccCCEEEecCCCcchhh----HHHHHHHHHHHHhhcCCcEEEEECCCChhHHH
Confidence 111244556665553 456889999999754321 111111122221112345788888865 3444
Q ss_pred HHHHHH
Q 011104 298 NFVTRI 303 (493)
Q Consensus 298 ~~~~~~ 303 (493)
..+..+
T Consensus 476 eii~~f 481 (559)
T PRK12727 476 EVVRRF 481 (559)
T ss_pred HHHHHH
Confidence 444443
No 237
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=96.50 E-value=0.0062 Score=54.43 Aligned_cols=50 Identities=12% Similarity=0.240 Sum_probs=33.3
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhH
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETV 296 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~ 296 (493)
+..+++++||.+|.+.........+..++..+... +.++|+.|...|..+
T Consensus 95 ~~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~--~k~li~ts~~~P~~l 144 (219)
T PF00308_consen 95 LRSADLLIIDDIQFLAGKQRTQEELFHLFNRLIES--GKQLILTSDRPPSEL 144 (219)
T ss_dssp HCTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHT--TSEEEEEESS-TTTT
T ss_pred hhcCCEEEEecchhhcCchHHHHHHHHHHHHHHhh--CCeEEEEeCCCCccc
Confidence 45688999999999876433445666777776653 446666666666544
No 238
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=96.49 E-value=0.024 Score=60.48 Aligned_cols=40 Identities=25% Similarity=0.348 Sum_probs=26.9
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
...++++||||+|+|... ....+++.+......+.+|+.+
T Consensus 118 ~~~~KV~IIDEad~lt~~-----a~NaLLK~LEEpP~~~~fIl~t 157 (824)
T PRK07764 118 ESRYKIFIIDEAHMVTPQ-----GFNALLKIVEEPPEHLKFIFAT 157 (824)
T ss_pred cCCceEEEEechhhcCHH-----HHHHHHHHHhCCCCCeEEEEEe
Confidence 357899999999998752 3445666666555455555544
No 239
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=96.49 E-value=0.012 Score=66.21 Aligned_cols=65 Identities=26% Similarity=0.297 Sum_probs=47.6
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHh--HHHHHhccCCCCCCCeEEEEcCCHHHHHHHH
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCF--VLGMLSRVDPNLKAPQALCICPTRELAIQNL 188 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~--~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~ 188 (493)
.+++-|+.++..++.+..+-+++.|..|+|||... ++.++..+. ...+..++.++||-..+..+.
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~-e~~g~~V~glAPTgkAa~~L~ 901 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLP-ESERPRVVGLGPTHRAVGEMR 901 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHh-hccCceEEEEechHHHHHHHH
Confidence 58999999999999765578999999999999873 222222221 224567888999987776653
No 240
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=96.48 E-value=0.014 Score=55.49 Aligned_cols=38 Identities=11% Similarity=-0.093 Sum_probs=28.2
Q ss_pred CchHHHhhhhhhcCCC--CccEEEeccCCCchhHHhHHHH
Q 011104 124 PSKIQAISLPMILTPP--YRNLIAQARNGSGKTTCFVLGM 161 (493)
Q Consensus 124 ~~~~Q~~~i~~il~~~--~~~viv~a~TGsGKT~~~~~~~ 161 (493)
.+|||...|..++... .+-.+++||.|.|||..+...+
T Consensus 4 ~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A 43 (328)
T PRK05707 4 IYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLA 43 (328)
T ss_pred CCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHH
Confidence 4688888888877542 2468899999999998754433
No 241
>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=96.48 E-value=0.032 Score=56.36 Aligned_cols=57 Identities=19% Similarity=0.171 Sum_probs=44.1
Q ss_pred ccEEEeccCCCchhHHhHHHHHhcc-CCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRV-DPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l-~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
+.+++.-+=|.|||......++..+ .....+..++++++++..|..++..+..+...
T Consensus 23 ~~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i~~ 80 (477)
T PF03354_consen 23 REVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMIEA 80 (477)
T ss_pred EEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHHHh
Confidence 4688888999999987555444443 34456778999999999999999988887654
No 242
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=96.47 E-value=0.016 Score=66.06 Aligned_cols=65 Identities=28% Similarity=0.324 Sum_probs=47.5
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccC--CCCCCCeEEEEcCCHHHHHHHH
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVD--PNLKAPQALCICPTRELAIQNL 188 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~--~~~~~~~~lil~Pt~~La~q~~ 188 (493)
.+++.|+.++..++.+..+-+++.|..|+|||... -.++..+. ....+..++.++||--.+..+.
T Consensus 967 ~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l-~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~ 1033 (1747)
T PRK13709 967 GLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQF-RAVMSAVNTLPESERPRVVGLGPTHRAVGEMR 1033 (1747)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHH-HHHHHHHHHhhcccCceEEEECCcHHHHHHHH
Confidence 58999999999999864478999999999999873 22333221 1223557888999987776543
No 243
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=96.46 E-value=0.011 Score=61.22 Aligned_cols=148 Identities=18% Similarity=0.181 Sum_probs=88.9
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT 198 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~ 198 (493)
+....+..-|.+.+..++.+..+-+++.|.-|=|||.+..+.+....... ...+++|.+|+.+-++.+++.+.+-...+
T Consensus 210 l~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~~~~~~~-~~~~iiVTAP~~~nv~~Lf~fa~~~l~~l 288 (758)
T COG1444 210 LCLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALAAAARLA-GSVRIIVTAPTPANVQTLFEFAGKGLEFL 288 (758)
T ss_pred hhcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHHHHHHhc-CCceEEEeCCCHHHHHHHHHHHHHhHHHh
Confidence 44445555566677777777556899999999999998776663322221 15689999999999999888777666555
Q ss_pred CceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhh
Q 011104 199 GITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIER 278 (493)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~ 278 (493)
|..-.......+. ..........|=+-.|.... .. -+++|+|||=.+-- +-+..++.
T Consensus 289 g~~~~v~~d~~g~----~~~~~~~~~~i~y~~P~~a~---------~~-~DllvVDEAAaIpl-----plL~~l~~---- 345 (758)
T COG1444 289 GYKRKVAPDALGE----IREVSGDGFRIEYVPPDDAQ---------EE-ADLLVVDEAAAIPL-----PLLHKLLR---- 345 (758)
T ss_pred CCccccccccccc----eeeecCCceeEEeeCcchhc---------cc-CCEEEEehhhcCCh-----HHHHHHHh----
Confidence 5432111111000 00011112235556664332 11 56899999975432 22333333
Q ss_pred cCCCeeEEEEeeecC
Q 011104 279 SSGHCQVLLFSATFN 293 (493)
Q Consensus 279 ~~~~~q~v~~SAT~~ 293 (493)
..+.++||.|+.
T Consensus 346 ---~~~rv~~sTTIh 357 (758)
T COG1444 346 ---RFPRVLFSTTIH 357 (758)
T ss_pred ---hcCceEEEeeec
Confidence 235799999975
No 244
>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=96.45 E-value=0.0041 Score=51.07 Aligned_cols=40 Identities=23% Similarity=0.191 Sum_probs=25.1
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
+.+++.||+|+|||..... +...+.... ..++++.+....
T Consensus 3 ~~~~l~G~~G~GKTtl~~~-l~~~~~~~~--~~~~~~~~~~~~ 42 (148)
T smart00382 3 EVILIVGPPGSGKTTLARA-LARELGPPG--GGVIYIDGEDIL 42 (148)
T ss_pred CEEEEECCCCCcHHHHHHH-HHhccCCCC--CCEEEECCEEcc
Confidence 7899999999999987433 333322211 246666665543
No 245
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=96.42 E-value=0.021 Score=52.67 Aligned_cols=17 Identities=35% Similarity=0.501 Sum_probs=15.3
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
.++++.||+|+|||..+
T Consensus 43 ~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVA 59 (261)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 57999999999999875
No 246
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.42 E-value=0.012 Score=62.38 Aligned_cols=69 Identities=19% Similarity=0.107 Sum_probs=53.1
Q ss_pred CchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC-CCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 124 PSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP-NLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 124 ~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~-~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
+++-|++++... . .+++|.|..|||||.+.+--+...+.. .....++|+|+.|+..|.++.+.+.+..+
T Consensus 2 Ln~~Q~~av~~~--~--~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~ 71 (664)
T TIGR01074 2 LNPQQQEAVEYV--T--GPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLG 71 (664)
T ss_pred CCHHHHHHHhCC--C--CCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhC
Confidence 678899887642 3 579999999999999866555555533 33556899999999999999988877643
No 247
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.40 E-value=0.029 Score=58.23 Aligned_cols=40 Identities=20% Similarity=0.426 Sum_probs=24.4
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
..++++||||+|.|... ....+++.+........+ +|++|
T Consensus 118 gr~KVIIIDEah~LT~~-----A~NALLKtLEEPP~~v~F-ILaTt 157 (830)
T PRK07003 118 ARFKVYMIDEVHMLTNH-----AFNAMLKTLEEPPPHVKF-ILATT 157 (830)
T ss_pred CCceEEEEeChhhCCHH-----HHHHHHHHHHhcCCCeEE-EEEEC
Confidence 46789999999988752 234455555544334444 44444
No 248
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.40 E-value=0.026 Score=58.96 Aligned_cols=129 Identities=18% Similarity=0.144 Sum_probs=69.1
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc-CC-HHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC-PT-RELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~-Pt-~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
+-+.+.||||+|||+....-+.. +.......++.++. -+ |.-+ .+.++.++...++.
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~-~~~~~G~kkV~lit~Dt~RigA---~eQL~~~a~~~gvp----------------- 244 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAAR-CVAREGADQLALLTTDSFRIGA---LEQLRIYGRILGVP----------------- 244 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhh-HHHHcCCCeEEEecCcccchHH---HHHHHHHHHhCCCC-----------------
Confidence 67899999999999864332221 11111122454444 22 2112 33444444433321
Q ss_pred CCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhh-hcCCCeeEEEEeeecCh-hH
Q 011104 219 RPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIE-RSSGHCQVLLFSATFNE-TV 296 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~-~~~~~~q~v~~SAT~~~-~~ 296 (493)
-.++.+|..+...+.. +.++++|+||=+-+.-.. ..+...+..+. ...+...++.+|||... .+
T Consensus 245 ------v~~~~~~~~l~~al~~----~~~~D~VLIDTAGRs~~d----~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l 310 (767)
T PRK14723 245 ------VHAVKDAADLRFALAA----LGDKHLVLIDTVGMSQRD----RNVSEQIAMLCGVGRPVRRLLLLNAASHGDTL 310 (767)
T ss_pred ------ccccCCHHHHHHHHHH----hcCCCEEEEeCCCCCccC----HHHHHHHHHHhccCCCCeEEEEECCCCcHHHH
Confidence 1234478777776653 456789999999865432 22333333322 23345567888999753 34
Q ss_pred HHHHHHHh
Q 011104 297 KNFVTRIV 304 (493)
Q Consensus 297 ~~~~~~~~ 304 (493)
.+.+..|.
T Consensus 311 ~~i~~~f~ 318 (767)
T PRK14723 311 NEVVHAYR 318 (767)
T ss_pred HHHHHHHh
Confidence 44555553
No 249
>PRK08116 hypothetical protein; Validated
Probab=96.38 E-value=0.064 Score=49.55 Aligned_cols=41 Identities=15% Similarity=0.120 Sum_probs=24.6
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI 185 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~ 185 (493)
..+++.|++|+|||..+. .+.+.+... +..++++ +..++..
T Consensus 115 ~gl~l~G~~GtGKThLa~-aia~~l~~~--~~~v~~~-~~~~ll~ 155 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAA-CIANELIEK--GVPVIFV-NFPQLLN 155 (268)
T ss_pred ceEEEECCCCCCHHHHHH-HHHHHHHHc--CCeEEEE-EHHHHHH
Confidence 459999999999998643 344444332 3344444 3344443
No 250
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=96.38 E-value=0.028 Score=55.93 Aligned_cols=51 Identities=14% Similarity=0.419 Sum_probs=29.3
Q ss_pred CeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHH
Q 011104 247 RLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNF 299 (493)
Q Consensus 247 ~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~ 299 (493)
.+++|++||+|.+.+..+....+..++..+... ..++++.|-..|..+..+
T Consensus 194 ~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~--~k~iIitsd~~p~~l~~l 244 (440)
T PRK14088 194 KVDVLLIDDVQFLIGKTGVQTELFHTFNELHDS--GKQIVICSDREPQKLSEF 244 (440)
T ss_pred cCCEEEEechhhhcCcHHHHHHHHHHHHHHHHc--CCeEEEECCCCHHHHHHH
Confidence 477999999998865322334455566555442 235544444444444443
No 251
>PF13871 Helicase_C_4: Helicase_C-like
Probab=96.33 E-value=0.013 Score=53.55 Aligned_cols=80 Identities=16% Similarity=0.264 Sum_probs=58.7
Q ss_pred HHHHHHHcCCCcEEEEeCccccCCCCCC--------CCEEEEccCCCCCCCCCCCCcccccccccccccCCCc-ceEEEE
Q 011104 391 KIVKEFKDGLTQVLISTDVLARGFDQQQ--------VNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRK-GVVFNL 461 (493)
Q Consensus 391 ~~~~~f~~g~~~vLv~T~~~~~Gldi~~--------v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~-g~~i~l 461 (493)
...+.|.+|+..|+|.+++++.|+.+.. -++-|...+| +|+...+|..||+.|.|+. .-.|.+
T Consensus 52 ~e~~~F~~g~k~v~iis~AgstGiSlHAd~~~~nqr~Rv~i~le~p--------wsad~aiQ~~GR~hRsnQ~~~P~y~~ 123 (278)
T PF13871_consen 52 AEKQAFMDGEKDVAIISDAGSTGISLHADRRVKNQRRRVHITLELP--------WSADKAIQQFGRTHRSNQVSAPEYRF 123 (278)
T ss_pred HHHHHHhCCCceEEEEecccccccchhccccCCCCCceEEEEeeCC--------CCHHHHHHHhccccccccccCCEEEE
Confidence 5667899999999999999999998863 3446667888 6889999999999999874 444555
Q ss_pred eeCCc--cHHHHHHHHHHh
Q 011104 462 LMDGD--DMIIMEKIERYF 478 (493)
Q Consensus 462 ~~~~~--~~~~~~~i~~~~ 478 (493)
+..+- +..+...+.+.|
T Consensus 124 l~t~~~gE~Rfas~va~rL 142 (278)
T PF13871_consen 124 LVTDLPGERRFASTVARRL 142 (278)
T ss_pred eecCCHHHHHHHHHHHHHH
Confidence 54332 444445454443
No 252
>PRK14873 primosome assembly protein PriA; Provisional
Probab=96.32 E-value=0.05 Score=56.70 Aligned_cols=92 Identities=13% Similarity=0.131 Sum_probs=77.6
Q ss_pred HHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC-C-CcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccc
Q 011104 334 AKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF-G-YEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLA 411 (493)
Q Consensus 334 ~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~-~-~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~ 411 (493)
.|...+...+......++.+||.++.+..+..+...|+.. + ..+..+|++++..+|.+.+....+|+.+|+|.|..+.
T Consensus 172 GKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAv 251 (665)
T PRK14873 172 DWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAV 251 (665)
T ss_pred cHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeE
Confidence 5677777777777777889999999999999999999865 4 6799999999999999999999999999999998744
Q ss_pred cCCCCCCCCEEEEcc
Q 011104 412 RGFDQQQVNLIVNYD 426 (493)
Q Consensus 412 ~Gldi~~v~~Vi~~~ 426 (493)
- .-+++...||..+
T Consensus 252 F-aP~~~LgLIIvdE 265 (665)
T PRK14873 252 F-APVEDLGLVAIWD 265 (665)
T ss_pred E-eccCCCCEEEEEc
Confidence 3 5567777877654
No 253
>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=96.30 E-value=0.023 Score=56.21 Aligned_cols=37 Identities=16% Similarity=0.174 Sum_probs=23.7
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
..+++.|++|+|||... ..+...+.....+..++++.
T Consensus 137 n~l~l~G~~G~GKThL~-~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLL-HAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred CeEEEECCCCCcHHHHH-HHHHHHHHHhCCCCcEEEEE
Confidence 46899999999999863 33444443333345566664
No 254
>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=96.29 E-value=0.016 Score=59.27 Aligned_cols=129 Identities=19% Similarity=0.204 Sum_probs=76.1
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHH-HHHHHhcccCce
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLE-VLRKMGKHTGIT 201 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~-~~~~~~~~~~~~ 201 (493)
..+|+|...+..+-...-+.|.+..++-+|||.+.+..+...+... ...+|++.||..+|..+.+ .+..+.......
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--PGPMLYVQPTDDAAKDFSKERLDPMIRASPVL 93 (557)
T ss_pred CCChhHHHHHHhcCCcCccEEEEEEcchhhHhHHHHhhceEEEEeC--CCCEEEEEEcHHHHHHHHHHHHHHHHHhCHHH
Confidence 4578888777776554346899999999999997555554444432 3468999999999999884 566554433321
Q ss_pred eeEeec---CCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhc
Q 011104 202 SECAVP---TDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 202 ~~~~~~---~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~ 261 (493)
...+.. ....+. ...+... +..+.++.-+. ...+.-..++++++||+|.+-.
T Consensus 94 ~~~~~~~~~~~~~~t-~~~k~f~-gg~l~~~ga~S------~~~l~s~~~r~~~~DEvD~~p~ 148 (557)
T PF05876_consen 94 RRKLSPSKSRDSGNT-ILYKRFP-GGFLYLVGANS------PSNLRSRPARYLLLDEVDRYPD 148 (557)
T ss_pred HHHhCchhhcccCCc-hhheecC-CCEEEEEeCCC------CcccccCCcCEEEEechhhccc
Confidence 111111 011111 1112222 33444443211 1233345688999999999853
No 255
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=96.28 E-value=0.035 Score=58.71 Aligned_cols=99 Identities=18% Similarity=0.210 Sum_probs=76.5
Q ss_pred EEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh----CCCcEEEecCCCCHHHHHHHHHHHHcCCC
Q 011104 326 KVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD----FGYEVTTIMGATIQEERDKIVKEFKDGLT 401 (493)
Q Consensus 326 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~----~~~~~~~l~~~~~~~~r~~~~~~f~~g~~ 401 (493)
....+....|.....-.+......+.+++|.++++.-|...++.+++ .++.+..+||+++..+|..++....+|..
T Consensus 286 Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~ 365 (681)
T PRK10917 286 LLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEA 365 (681)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCC
Confidence 44445555555443333333444577899999999999988877664 47899999999999999999999999999
Q ss_pred cEEEEeCc-cccCCCCCCCCEEEE
Q 011104 402 QVLISTDV-LARGFDQQQVNLIVN 424 (493)
Q Consensus 402 ~vLv~T~~-~~~Gldi~~v~~Vi~ 424 (493)
.|+|+|.. +...+.+.++.+||.
T Consensus 366 ~IvVgT~~ll~~~v~~~~l~lvVI 389 (681)
T PRK10917 366 DIVIGTHALIQDDVEFHNLGLVII 389 (681)
T ss_pred CEEEchHHHhcccchhcccceEEE
Confidence 99999964 555677888888884
No 256
>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=96.28 E-value=0.04 Score=54.36 Aligned_cols=150 Identities=15% Similarity=0.213 Sum_probs=84.2
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHH-HHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRE-LAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKR 219 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~-La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (493)
+-.++.|..|||||.+..+-++..+.....+.+++++-|+.. |...++..+......+++....-...... . ...
T Consensus 2 ~~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i~~~g~~~~~~~~~~~~-~---i~~ 77 (396)
T TIGR01547 2 EEIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLLSIEGINYEFKKSKSSM-E---IKI 77 (396)
T ss_pred ceEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHHHHcCChhheeecCCcc-E---EEe
Confidence 457889999999999887777666554324568888888876 77777777776655555421111111100 0 001
Q ss_pred CCCCCcEEEeCc-hHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHH
Q 011104 220 PPVTAQVVIGTP-GTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKN 298 (493)
Q Consensus 220 ~~~~~~Ilv~Tp-~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~ 298 (493)
...+..|++..- +.... +. ....+.++.+|||..+.. +.+..++..+.... ....+++|.|++....-
T Consensus 78 ~~~g~~i~f~g~~d~~~~-ik----~~~~~~~~~idEa~~~~~-----~~~~~l~~rlr~~~-~~~~i~~t~NP~~~~~w 146 (396)
T TIGR01547 78 LNTGKKFIFKGLNDKPNK-LK----SGAGIAIIWFEEASQLTF-----EDIKELIPRLRETG-GKKFIIFSSNPESPLHW 146 (396)
T ss_pred cCCCeEEEeecccCChhH-hh----CcceeeeehhhhhhhcCH-----HHHHHHHHHhhccC-CccEEEEEcCcCCCccH
Confidence 111334655443 22111 11 233468999999998743 24455555553212 22258889997654444
Q ss_pred HHHHHhc
Q 011104 299 FVTRIVK 305 (493)
Q Consensus 299 ~~~~~~~ 305 (493)
+...+..
T Consensus 147 ~~~~f~~ 153 (396)
T TIGR01547 147 VKKRFIE 153 (396)
T ss_pred HHHHHHh
Confidence 4444443
No 257
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.28 E-value=0.041 Score=52.57 Aligned_cols=129 Identities=14% Similarity=0.133 Sum_probs=65.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
+.+++.||+|+|||....--+.. +.. .+.++.+++ |-|.-| .++++.++...++.
T Consensus 207 ~ii~lvGptGvGKTTt~akLA~~-l~~--~g~~V~lItaDtyR~gA---veQLk~yae~lgvp----------------- 263 (407)
T PRK12726 207 RIISLIGQTGVGKTTTLVKLGWQ-LLK--QNRTVGFITTDTFRSGA---VEQFQGYADKLDVE----------------- 263 (407)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH-HHH--cCCeEEEEeCCccCccH---HHHHHHHhhcCCCC-----------------
Confidence 78899999999999864433322 211 234555544 334322 22333343332221
Q ss_pred CCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecCh-hHH
Q 011104 219 RPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNE-TVK 297 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~-~~~ 297 (493)
-....+|..+.+.+..-. ...++++|++|=+-+.-.. ...+..+-.......+..-++.+|||... ++.
T Consensus 264 ------v~~~~dp~dL~~al~~l~-~~~~~D~VLIDTAGr~~~d---~~~l~EL~~l~~~~~p~~~~LVLsag~~~~d~~ 333 (407)
T PRK12726 264 ------LIVATSPAELEEAVQYMT-YVNCVDHILIDTVGRNYLA---EESVSEISAYTDVVHPDLTCFTFSSGMKSADVM 333 (407)
T ss_pred ------EEecCCHHHHHHHHHHHH-hcCCCCEEEEECCCCCccC---HHHHHHHHHHhhccCCceEEEECCCcccHHHHH
Confidence 122346777766554311 1245789999999764321 22333332222222223445677886553 444
Q ss_pred HHHHH
Q 011104 298 NFVTR 302 (493)
Q Consensus 298 ~~~~~ 302 (493)
..+..
T Consensus 334 ~i~~~ 338 (407)
T PRK12726 334 TILPK 338 (407)
T ss_pred HHHHh
Confidence 44333
No 258
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=96.27 E-value=0.055 Score=56.93 Aligned_cols=29 Identities=17% Similarity=0.265 Sum_probs=19.4
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHh
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDI 276 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~ 276 (493)
..+.+|||||+|.+... ..+.+..++...
T Consensus 868 r~v~IIILDEID~L~kK--~QDVLYnLFR~~ 896 (1164)
T PTZ00112 868 RNVSILIIDEIDYLITK--TQKVLFTLFDWP 896 (1164)
T ss_pred ccceEEEeehHhhhCcc--HHHHHHHHHHHh
Confidence 34678999999999862 234455555543
No 259
>PRK06921 hypothetical protein; Provisional
Probab=96.27 E-value=0.04 Score=50.75 Aligned_cols=36 Identities=19% Similarity=0.217 Sum_probs=23.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
..+++.|++|+|||... ..+...+... .+..++++.
T Consensus 118 ~~l~l~G~~G~GKThLa-~aia~~l~~~-~g~~v~y~~ 153 (266)
T PRK06921 118 NSIALLGQPGSGKTHLL-TAAANELMRK-KGVPVLYFP 153 (266)
T ss_pred CeEEEECCCCCcHHHHH-HHHHHHHhhh-cCceEEEEE
Confidence 78999999999999753 3334433321 144555554
No 260
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=96.22 E-value=0.06 Score=50.80 Aligned_cols=143 Identities=15% Similarity=0.130 Sum_probs=71.2
Q ss_pred CCCchHHHhhhhhhcC----CC-CccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 122 QKPSKIQAISLPMILT----PP-YRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 122 ~~~~~~Q~~~i~~il~----~~-~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
..++|||..++..+.. |. ..-.++.||.|.||+..+...+-..++....... -|+. ++.+..
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~---~c~~----------c~~~~~ 69 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAA---AQRT----------RQLIAA 69 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCC---cchH----------HHHHhc
Confidence 3577888888877652 31 2358999999999998754433333332211110 1111 111111
Q ss_pred ccCceeeEe--ecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHH
Q 011104 197 HTGITSECA--VPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMK 274 (493)
Q Consensus 197 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~ 274 (493)
.....+..+ .... ... .....|.|-.--.+.+.+..... ....+++|||+||.|.. .....+++
T Consensus 70 g~HPD~~~i~~~p~~-~~~-------k~~~~I~idqIR~l~~~~~~~p~-~g~~kV~iI~~ae~m~~-----~AaNaLLK 135 (319)
T PRK08769 70 GTHPDLQLVSFIPNR-TGD-------KLRTEIVIEQVREISQKLALTPQ-YGIAQVVIVDPADAINR-----AACNALLK 135 (319)
T ss_pred CCCCCEEEEecCCCc-ccc-------cccccccHHHHHHHHHHHhhCcc-cCCcEEEEeccHhhhCH-----HHHHHHHH
Confidence 111111111 1100 000 00112333332233333333222 35689999999999875 33566777
Q ss_pred HhhhcCCCeeEEEEeee
Q 011104 275 DIERSSGHCQVLLFSAT 291 (493)
Q Consensus 275 ~~~~~~~~~q~v~~SAT 291 (493)
.+...+++..+++.|..
T Consensus 136 tLEEPp~~~~fiL~~~~ 152 (319)
T PRK08769 136 TLEEPSPGRYLWLISAQ 152 (319)
T ss_pred HhhCCCCCCeEEEEECC
Confidence 77765556666666544
No 261
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=96.22 E-value=0.03 Score=55.69 Aligned_cols=56 Identities=7% Similarity=0.203 Sum_probs=31.9
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHH
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRI 303 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~ 303 (493)
.+++++++||+|.+.........+..++..+... ..++++.|-+.|..+..+..++
T Consensus 201 ~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~--~k~IIlts~~~p~~l~~l~~rL 256 (445)
T PRK12422 201 RNVDALFIEDIEVFSGKGATQEEFFHTFNSLHTE--GKLIVISSTCAPQDLKAMEERL 256 (445)
T ss_pred ccCCEEEEcchhhhcCChhhHHHHHHHHHHHHHC--CCcEEEecCCCHHHHhhhHHHH
Confidence 4678999999998865323344555565555432 3455554444455554443333
No 262
>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=96.21 E-value=0.032 Score=56.57 Aligned_cols=93 Identities=17% Similarity=0.179 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh-CCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccc
Q 011104 333 LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD-FGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLA 411 (493)
Q Consensus 333 ~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~-~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~ 411 (493)
..|.......+......++++||.++++..+..+++.|++ .+..+..+||+++..+|.+.+....+|+..|+|+|..+-
T Consensus 8 sGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsal 87 (505)
T TIGR00595 8 SGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRSAL 87 (505)
T ss_pred CCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChHHH
Confidence 3454444444555555577899999999999999999975 478899999999999999999999999999999997543
Q ss_pred cCCCCCCCCEEEEcc
Q 011104 412 RGFDQQQVNLIVNYD 426 (493)
Q Consensus 412 ~Gldi~~v~~Vi~~~ 426 (493)
. +.+.++.+||.-+
T Consensus 88 f-~p~~~l~lIIVDE 101 (505)
T TIGR00595 88 F-LPFKNLGLIIVDE 101 (505)
T ss_pred c-CcccCCCEEEEEC
Confidence 2 4577788877543
No 263
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.21 E-value=0.079 Score=44.62 Aligned_cols=38 Identities=24% Similarity=0.262 Sum_probs=23.8
Q ss_pred EEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 143 LIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 143 viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
+++.|++|+|||......+..... .+..++++.....+
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 688999999999865443332221 35567776654433
No 264
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=96.16 E-value=0.024 Score=56.33 Aligned_cols=70 Identities=27% Similarity=0.272 Sum_probs=47.6
Q ss_pred HHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhcc---CCCCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 127 IQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRV---DPNLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 127 ~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l---~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
+|++--..+-...+.-++|+|..|||||.+++--+...+ .....+..+||+.|.+.+..-+..++=.+|.
T Consensus 213 IQkEQneIIR~ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis~VLPeLGe 285 (747)
T COG3973 213 IQKEQNEIIRFEKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYISRVLPELGE 285 (747)
T ss_pred hhHhHHHHHhccCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHHHhchhhcc
Confidence 344443444333347899999999999998765433222 3333445599999999998888887777664
No 265
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=96.16 E-value=0.097 Score=47.17 Aligned_cols=43 Identities=9% Similarity=0.169 Sum_probs=25.5
Q ss_pred CeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC
Q 011104 247 RLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN 293 (493)
Q Consensus 247 ~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~ 293 (493)
..++|||||+|.+... -...+..++...... ...+++++++.+
T Consensus 90 ~~~~liiDdi~~l~~~--~~~~L~~~~~~~~~~--~~~~vl~~~~~~ 132 (227)
T PRK08903 90 EAELYAVDDVERLDDA--QQIALFNLFNRVRAH--GQGALLVAGPAA 132 (227)
T ss_pred cCCEEEEeChhhcCch--HHHHHHHHHHHHHHc--CCcEEEEeCCCC
Confidence 4668999999987542 234455555544432 223467777754
No 266
>PHA02533 17 large terminase protein; Provisional
Probab=96.15 E-value=0.07 Score=54.21 Aligned_cols=151 Identities=15% Similarity=0.042 Sum_probs=83.2
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCcee
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITS 202 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~ 202 (493)
.+.|+|...+..+..+ +-.++..+=..|||.+....++..... ..+..+++++|++..|..+++.++.+....+...
T Consensus 59 ~L~p~Q~~i~~~~~~~--R~~ii~~aRq~GKStl~a~~al~~a~~-~~~~~v~i~A~~~~QA~~vF~~ik~~ie~~P~l~ 135 (534)
T PHA02533 59 QMRDYQKDMLKIMHKN--RFNACNLSRQLGKTTVVAIFLLHYVCF-NKDKNVGILAHKASMAAEVLDRTKQAIELLPDFL 135 (534)
T ss_pred CCcHHHHHHHHHHhcC--eEEEEEEcCcCChHHHHHHHHHHHHHh-CCCCEEEEEeCCHHHHHHHHHHHHHHHHhCHHHh
Confidence 3788999988876555 566777788889999866544433322 2355899999999999998888876544322100
Q ss_pred eEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCC
Q 011104 203 ECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGH 282 (493)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~ 282 (493)
....... .. .......+..|.+.|-. .+...-.++.++|+||+|.+.+ +...+..+...+... ..
T Consensus 136 ~~~i~~~--~~--~~I~l~NGS~I~~lss~-------~~t~rG~~~~~liiDE~a~~~~---~~e~~~ai~p~lasg-~~ 200 (534)
T PHA02533 136 QPGIVEW--NK--GSIELENGSKIGAYASS-------PDAVRGNSFAMIYIDECAFIPN---FIDFWLAIQPVISSG-RS 200 (534)
T ss_pred hcceeec--Cc--cEEEeCCCCEEEEEeCC-------CCccCCCCCceEEEeccccCCC---HHHHHHHHHHHHHcC-CC
Confidence 0000000 00 00111234555554422 1122233467899999997643 233334444444331 12
Q ss_pred eeEEEEeee
Q 011104 283 CQVLLFSAT 291 (493)
Q Consensus 283 ~q~v~~SAT 291 (493)
.+++++|..
T Consensus 201 ~r~iiiSTp 209 (534)
T PHA02533 201 SKIIITSTP 209 (534)
T ss_pred ceEEEEECC
Confidence 345555544
No 267
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.11 E-value=0.04 Score=56.35 Aligned_cols=40 Identities=20% Similarity=0.383 Sum_probs=26.9
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
...++++||||+|+|... ....+++.+...+.++.+|+.|
T Consensus 122 ~gr~KViIIDEah~Ls~~-----AaNALLKTLEEPP~~v~FILaT 161 (700)
T PRK12323 122 AGRFKVYMIDEVHMLTNH-----AFNAMLKTLEEPPEHVKFILAT 161 (700)
T ss_pred cCCceEEEEEChHhcCHH-----HHHHHHHhhccCCCCceEEEEe
Confidence 456889999999998752 3455666666655455555554
No 268
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=96.10 E-value=0.082 Score=51.05 Aligned_cols=42 Identities=17% Similarity=0.409 Sum_probs=26.1
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
...-+||+||+|.|....+ +.+..++...... ..++.++.-+
T Consensus 122 ~~~~IvvLDEid~L~~~~~--~~LY~L~r~~~~~--~~~v~vi~i~ 163 (366)
T COG1474 122 GKTVIVILDEVDALVDKDG--EVLYSLLRAPGEN--KVKVSIIAVS 163 (366)
T ss_pred CCeEEEEEcchhhhccccc--hHHHHHHhhcccc--ceeEEEEEEe
Confidence 3455899999999998543 5566666555443 3444444444
No 269
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.09 E-value=0.056 Score=54.02 Aligned_cols=40 Identities=20% Similarity=0.385 Sum_probs=26.4
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++||||+|.+.. .....+++.+...++...+++.+
T Consensus 114 ~~~~KVvIIDEah~Ls~-----~A~NaLLK~LEePp~~v~fIlat 153 (491)
T PRK14964 114 SSKFKVYIIDEVHMLSN-----SAFNALLKTLEEPAPHVKFILAT 153 (491)
T ss_pred cCCceEEEEeChHhCCH-----HHHHHHHHHHhCCCCCeEEEEEe
Confidence 46789999999998865 23455666666554444444443
No 270
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=96.07 E-value=0.05 Score=53.71 Aligned_cols=17 Identities=35% Similarity=0.489 Sum_probs=15.3
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
.++++.|++|+|||...
T Consensus 56 ~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTV 72 (394)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 67999999999999873
No 271
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.07 E-value=0.1 Score=47.99 Aligned_cols=129 Identities=16% Similarity=0.171 Sum_probs=69.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCH-HHHHHHHHHHHHHhcccCceeeEeecCCCCCccccc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTR-ELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPIS 217 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~-~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (493)
..+.+.|++|+|||..+..-+... . ..+.++.++. +.| ....|+.. ++...++
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~l-~--~~~~~v~~i~~D~~ri~~~~ql~~----~~~~~~~----------------- 131 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQF-H--GKKKTVGFITTDHSRIGTVQQLQD----YVKTIGF----------------- 131 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHH-H--HcCCeEEEEecCCCCHHHHHHHHH----HhhhcCc-----------------
Confidence 789999999999999755433222 1 1233454444 222 34444433 3222221
Q ss_pred CCCCCCCcEEE-eCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC-hh
Q 011104 218 KRPPVTAQVVI-GTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN-ET 295 (493)
Q Consensus 218 ~~~~~~~~Ilv-~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~-~~ 295 (493)
.+.. .+|..+...+..-. ....+++|++|-+-+.... ...+.++.+.+....+..-++.+|||.. .+
T Consensus 132 -------~~~~~~~~~~l~~~l~~l~-~~~~~D~ViIDt~Gr~~~~---~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d 200 (270)
T PRK06731 132 -------EVIAVRDEAAMTRALTYFK-EEARVDYILIDTAGKNYRA---SETVEEMIETMGQVEPDYICLTLSASMKSKD 200 (270)
T ss_pred -------eEEecCCHHHHHHHHHHHH-hcCCCCEEEEECCCCCcCC---HHHHHHHHHHHhhhCCCeEEEEEcCccCHHH
Confidence 2222 45666655543211 1245889999999775432 2334444443333333445778999975 46
Q ss_pred HHHHHHHHh
Q 011104 296 VKNFVTRIV 304 (493)
Q Consensus 296 ~~~~~~~~~ 304 (493)
....+..|.
T Consensus 201 ~~~~~~~f~ 209 (270)
T PRK06731 201 MIEIITNFK 209 (270)
T ss_pred HHHHHHHhC
Confidence 666666553
No 272
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=96.02 E-value=0.018 Score=49.54 Aligned_cols=42 Identities=29% Similarity=0.256 Sum_probs=24.2
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQ 186 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q 186 (493)
+++++.|++|+|||..+..-+-..+ . .+..++++ +..+|...
T Consensus 48 ~~l~l~G~~G~GKThLa~ai~~~~~-~--~g~~v~f~-~~~~L~~~ 89 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVAIANEAI-R--KGYSVLFI-TASDLLDE 89 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHH-H--TT--EEEE-EHHHHHHH
T ss_pred eEEEEEhhHhHHHHHHHHHHHHHhc-c--CCcceeEe-ecCceecc
Confidence 8999999999999987544332332 2 34445554 33444433
No 273
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.02 E-value=0.061 Score=52.63 Aligned_cols=130 Identities=15% Similarity=0.109 Sum_probs=64.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
..+.+.|+||+|||+....-+-..+.........++.+.+.-. -..+.+..++...++.+
T Consensus 192 ~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~ri--galEQL~~~a~ilGvp~------------------ 251 (420)
T PRK14721 192 GVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRI--GGHEQLRIYGKLLGVSV------------------ 251 (420)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcch--hHHHHHHHHHHHcCCce------------------
Confidence 7899999999999987543222121111112234455544222 22333444444333321
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhc-CCCeeEEEEeeecChh-HHH
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERS-SGHCQVLLFSATFNET-VKN 298 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~-~~~~q~v~~SAT~~~~-~~~ 298 (493)
..+.++..+...+.. +.+.+.+++|.+-+.- ....+..-+..+... .+...++++|||.... +.+
T Consensus 252 -----~~v~~~~dl~~al~~----l~~~d~VLIDTaGrsq----rd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~ 318 (420)
T PRK14721 252 -----RSIKDIADLQLMLHE----LRGKHMVLIDTVGMSQ----RDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDE 318 (420)
T ss_pred -----ecCCCHHHHHHHHHH----hcCCCEEEecCCCCCc----chHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHH
Confidence 223344444443332 5677889999874321 112233333333322 2234678899997644 444
Q ss_pred HHHHH
Q 011104 299 FVTRI 303 (493)
Q Consensus 299 ~~~~~ 303 (493)
.+..|
T Consensus 319 ~~~~f 323 (420)
T PRK14721 319 VISAY 323 (420)
T ss_pred HHHHh
Confidence 44433
No 274
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.98 E-value=0.1 Score=52.89 Aligned_cols=39 Identities=21% Similarity=0.409 Sum_probs=25.8
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
.+++++||||+|.|... ....+++.+...++.+.+|+.+
T Consensus 118 ~~~kV~iIDE~~~ls~~-----a~naLLk~LEepp~~~~fIlat 156 (509)
T PRK14958 118 GRFKVYLIDEVHMLSGH-----SFNALLKTLEEPPSHVKFILAT 156 (509)
T ss_pred CCcEEEEEEChHhcCHH-----HHHHHHHHHhccCCCeEEEEEE
Confidence 46899999999988752 2445566665554455555544
No 275
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=95.97 E-value=0.048 Score=46.14 Aligned_cols=42 Identities=19% Similarity=0.431 Sum_probs=28.8
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeec
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATF 292 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~ 292 (493)
...+++|+|+||.|.. +....+++.+...+.++.++++|...
T Consensus 101 ~~~KviiI~~ad~l~~-----~a~NaLLK~LEepp~~~~fiL~t~~~ 142 (162)
T PF13177_consen 101 GKYKVIIIDEADKLTE-----EAQNALLKTLEEPPENTYFILITNNP 142 (162)
T ss_dssp SSSEEEEEETGGGS-H-----HHHHHHHHHHHSTTTTEEEEEEES-G
T ss_pred CCceEEEeehHhhhhH-----HHHHHHHHHhcCCCCCEEEEEEECCh
Confidence 5689999999999875 33556677776666566666666553
No 276
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=95.94 E-value=0.058 Score=55.58 Aligned_cols=40 Identities=18% Similarity=0.329 Sum_probs=27.5
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
+...+++||||+|.|.. .....+++.+...++.+.+|+.+
T Consensus 130 ~a~~KVvIIDEad~Ls~-----~a~naLLKtLEePp~~~~fIl~t 169 (598)
T PRK09111 130 SARYKVYIIDEVHMLST-----AAFNALLKTLEEPPPHVKFIFAT 169 (598)
T ss_pred cCCcEEEEEEChHhCCH-----HHHHHHHHHHHhCCCCeEEEEEe
Confidence 56789999999998865 23456666666655555666544
No 277
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=95.94 E-value=0.045 Score=55.84 Aligned_cols=51 Identities=14% Similarity=0.311 Sum_probs=31.6
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHH
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVK 297 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~ 297 (493)
+.++++||||++|.+.........+..++..+... +.++|+.|-..+..+.
T Consensus 375 y~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~--gk~IIITSd~~P~eL~ 425 (617)
T PRK14086 375 YREMDILLVDDIQFLEDKESTQEEFFHTFNTLHNA--NKQIVLSSDRPPKQLV 425 (617)
T ss_pred hhcCCEEEEehhccccCCHHHHHHHHHHHHHHHhc--CCCEEEecCCChHhhh
Confidence 45578999999998865333345566677666543 3466655544444443
No 278
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=95.94 E-value=0.057 Score=56.59 Aligned_cols=99 Identities=15% Similarity=0.222 Sum_probs=76.0
Q ss_pred EEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh----CCCcEEEecCCCCHHHHHHHHHHHHcCCC
Q 011104 326 KVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD----FGYEVTTIMGATIQEERDKIVKEFKDGLT 401 (493)
Q Consensus 326 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~----~~~~~~~l~~~~~~~~r~~~~~~f~~g~~ 401 (493)
.+..+....|.......+......+.+++|.++++.-|...++.+++ .|+++..++|+++..+|...++...+|+.
T Consensus 260 Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~ 339 (630)
T TIGR00643 260 LLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQI 339 (630)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCC
Confidence 44445555555443332334444577999999999999988877764 47999999999999999999999999999
Q ss_pred cEEEEeCc-cccCCCCCCCCEEEE
Q 011104 402 QVLISTDV-LARGFDQQQVNLIVN 424 (493)
Q Consensus 402 ~vLv~T~~-~~~Gldi~~v~~Vi~ 424 (493)
.|+|+|.. +...+.+.++.+||.
T Consensus 340 ~IiVgT~~ll~~~~~~~~l~lvVI 363 (630)
T TIGR00643 340 HLVVGTHALIQEKVEFKRLALVII 363 (630)
T ss_pred CEEEecHHHHhccccccccceEEE
Confidence 99999965 445677888888774
No 279
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.89 E-value=0.066 Score=55.14 Aligned_cols=40 Identities=18% Similarity=0.304 Sum_probs=25.6
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
...++++||||+|+|... ....+++.+...+..+.+|+.+
T Consensus 122 ~g~~KV~IIDEvh~Ls~~-----a~NaLLKtLEEPP~~~~fIL~T 161 (618)
T PRK14951 122 QGRFKVFMIDEVHMLTNT-----AFNAMLKTLEEPPEYLKFVLAT 161 (618)
T ss_pred cCCceEEEEEChhhCCHH-----HHHHHHHhcccCCCCeEEEEEE
Confidence 356899999999998753 2445566665544444554443
No 280
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.89 E-value=0.1 Score=53.47 Aligned_cols=40 Identities=23% Similarity=0.315 Sum_probs=27.0
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++||||+|.|... ....+++.+...+....+|+.+
T Consensus 116 ~~~~KVvIIDEah~Lt~~-----A~NALLK~LEEpp~~~~fIL~t 155 (584)
T PRK14952 116 QSRYRIFIVDEAHMVTTA-----GFNALLKIVEEPPEHLIFIFAT 155 (584)
T ss_pred cCCceEEEEECCCcCCHH-----HHHHHHHHHhcCCCCeEEEEEe
Confidence 467899999999998752 3455666666554455555544
No 281
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=95.89 E-value=0.028 Score=60.13 Aligned_cols=70 Identities=21% Similarity=0.149 Sum_probs=54.3
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC-CCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP-NLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~-~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
.+++-|+.++... . ..++|.|..|||||.+...-+...+.. .....++|+++-|+..|..+.+.+.++..
T Consensus 4 ~Ln~~Q~~av~~~-~---g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~ 74 (726)
T TIGR01073 4 HLNPEQREAVKTT-E---GPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG 74 (726)
T ss_pred ccCHHHHHHHhCC-C---CCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhc
Confidence 5889999998753 3 479999999999999866555544432 23456899999999999999988887754
No 282
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.85 E-value=0.085 Score=51.28 Aligned_cols=130 Identities=13% Similarity=0.067 Sum_probs=64.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
.-+++.||+|+|||+...--+..... ..+.++.++. +-|..+.. .++.++...++..
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~--~~G~~V~Lit~Dt~R~aA~e---QLk~yAe~lgvp~---------------- 282 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFL--HMGKSVSLYTTDNYRIAAIE---QLKRYADTMGMPF---------------- 282 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHH--hcCCeEEEecccchhhhHHH---HHHHHHHhcCCCe----------------
Confidence 45889999999999975443332211 1233454444 44554433 3444433322211
Q ss_pred CCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecCh-hHH
Q 011104 219 RPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNE-TVK 297 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~-~~~ 297 (493)
+.+..+..+...+. -..+++|++|=+-+..........+..++.......+...++.+|||... .+.
T Consensus 283 -------~~~~~~~~l~~~l~-----~~~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~ 350 (432)
T PRK12724 283 -------YPVKDIKKFKETLA-----RDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTL 350 (432)
T ss_pred -------eehHHHHHHHHHHH-----hCCCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHH
Confidence 11112333444333 24578899998765432211122233333332221223467889999876 444
Q ss_pred HHHHHH
Q 011104 298 NFVTRI 303 (493)
Q Consensus 298 ~~~~~~ 303 (493)
..+..|
T Consensus 351 ~~~~~f 356 (432)
T PRK12724 351 TVLKAY 356 (432)
T ss_pred HHHHHh
Confidence 444444
No 283
>PLN03025 replication factor C subunit; Provisional
Probab=95.84 E-value=0.15 Score=48.62 Aligned_cols=19 Identities=42% Similarity=0.583 Sum_probs=15.7
Q ss_pred ccEEEeccCCCchhHHhHH
Q 011104 141 RNLIAQARNGSGKTTCFVL 159 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~ 159 (493)
.+++++||+|+|||..+..
T Consensus 35 ~~lll~Gp~G~GKTtla~~ 53 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILA 53 (319)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 5699999999999986433
No 284
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=95.76 E-value=0.027 Score=54.80 Aligned_cols=114 Identities=14% Similarity=0.177 Sum_probs=64.5
Q ss_pred CcEEEEcCChhhHHHHHHHHHhCCC--cE----EEecCCCCHHHHHHHHHHHH----cCCCcEE--EEeCccccCCCCCC
Q 011104 351 GQTIIFVRTKNSASALHKALKDFGY--EV----TTIMGATIQEERDKIVKEFK----DGLTQVL--ISTDVLARGFDQQQ 418 (493)
Q Consensus 351 ~~~lVf~~s~~~~~~l~~~L~~~~~--~~----~~l~~~~~~~~r~~~~~~f~----~g~~~vL--v~T~~~~~Gldi~~ 418 (493)
+.+++|+.+.-..+.+.......|+ .+ +.+-+.-...+..-.++.++ +|.-.|| |+-.-.++|+|+.+
T Consensus 531 dG~v~ff~sylYmesiv~~w~~~gil~ei~k~KL~fIetpD~~ETs~al~ny~~aC~~gRGavl~sVargkVsEgidF~h 610 (755)
T KOG1131|consen 531 DGIVCFFPSYLYMESIVSRWYEQGILDEIMKYKLLFIETPDFRETSLALANYRYACDNGRGAVLLSVARGKVSEGIDFDH 610 (755)
T ss_pred CceEEEEehHHHHHHHHHHHHHHhHHHHHhhCceEEEeCCchhhhHHHHHHHHHHhcCCCCceEEEEecCccccCccccc
Confidence 3467777777766666665554443 11 22333333333444555553 4555566 45577899999988
Q ss_pred CC--EEEEccCCCCCCCC----------------CCCC------cccccccccccccCCCcceEEEEeeCC
Q 011104 419 VN--LIVNYDPPVKHGKH----------------LEPD------CEVYLHRIGRAGRFGRKGVVFNLLMDG 465 (493)
Q Consensus 419 v~--~Vi~~~~p~~~~~~----------------~~~s------~~~y~qr~GR~~R~g~~g~~i~l~~~~ 465 (493)
-. .||.++.|..-... .+.+ +..-.|-.||+-|. +.-..+.++.+.
T Consensus 611 hyGR~ViM~gIP~qytesriLkarle~Lrd~~~irE~dflTFDAmRhaAQC~GrvLr~-K~dYg~mI~aDk 680 (755)
T KOG1131|consen 611 HYGREVIMEGIPYQYTESRILKARLEYLRDQFQIRENDFLTFDAMRHAAQCLGRVLRG-KTDYGLMIFADK 680 (755)
T ss_pred ccCceEEEEeccchhhHHHHHHHHHHHHHHHhcccccceechHhHHHHHHHHHHHHhc-cccceeeEeeeh
Confidence 65 79999999532100 0011 11114778999986 455556566543
No 285
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=95.74 E-value=0.057 Score=53.30 Aligned_cols=131 Identities=17% Similarity=0.204 Sum_probs=62.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc-C-CHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC-P-TRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~-P-t~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
..++++|++|+|||....--+. ++.. .+.+++++. . .|.-+ .+.++.++...++.+ ++....
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~-~L~~--~g~kV~lV~~D~~R~aa---~eQL~~la~~~gvp~---~~~~~~------- 159 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLAR-YFKK--KGLKVGLVAADTYRPAA---YDQLKQLAEKIGVPF---YGDPDN------- 159 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHH-HHHH--cCCeEEEecCCCCCHHH---HHHHHHHHHHcCCcE---EecCCc-------
Confidence 6789999999999987543332 2322 234555554 2 23322 233334443333221 000000
Q ss_pred CCCCCCcEEEeCchH-HHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHH
Q 011104 219 RPPVTAQVVIGTPGT-IKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVK 297 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~-l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~ 297 (493)
..|.. +.+.+.. +...++||+|.+-++.......+.+..+..... +..-++.++||...+..
T Consensus 160 ----------~d~~~i~~~al~~----~~~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~---pdevlLVvda~~gq~av 222 (437)
T PRK00771 160 ----------KDAVEIAKEGLEK----FKKADVIIVDTAGRHALEEDLIEEMKEIKEAVK---PDEVLLVIDATIGQQAK 222 (437)
T ss_pred ----------cCHHHHHHHHHHH----hhcCCEEEEECCCcccchHHHHHHHHHHHHHhc---ccceeEEEeccccHHHH
Confidence 01211 2233332 122478999999654322112222333333332 25567788888776655
Q ss_pred HHHHHHh
Q 011104 298 NFVTRIV 304 (493)
Q Consensus 298 ~~~~~~~ 304 (493)
..+..+.
T Consensus 223 ~~a~~F~ 229 (437)
T PRK00771 223 NQAKAFH 229 (437)
T ss_pred HHHHHHH
Confidence 5555543
No 286
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=95.74 E-value=0.0068 Score=67.46 Aligned_cols=94 Identities=28% Similarity=0.426 Sum_probs=76.3
Q ss_pred cEEEEcCChhhHHHHHHHHHhCC-CcEEEecCCCC-----------HHHHHHHHHHHHcCCCcEEEEeCccccCCCCCCC
Q 011104 352 QTIIFVRTKNSASALHKALKDFG-YEVTTIMGATI-----------QEERDKIVKEFKDGLTQVLISTDVLARGFDQQQV 419 (493)
Q Consensus 352 ~~lVf~~s~~~~~~l~~~L~~~~-~~~~~l~~~~~-----------~~~r~~~~~~f~~g~~~vLv~T~~~~~Gldi~~v 419 (493)
-.++|+.....+..+++.++... ..+..+.|.+. ...+..++..|......+|++|.++..|+|++.+
T Consensus 294 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~k~~~~~~~~~~~~vl~~~~~~~ln~L~~~~~~~e~~d~~~~ 373 (1606)
T KOG0701|consen 294 SGIIFVDQRYTAYVLLELLREIFSNDPLFVTGASGANLWKSFKNELELRQAEVLRRFHFHELNLLIATSVLEEGVDVPKC 373 (1606)
T ss_pred hheeecccchHHHHHHHHHHHhhccCcceeeccccCccchhhHHHHHhhhHHHHHHHhhhhhhHHHHHHHHHhhcchhhh
Confidence 35899999999999988887642 23333444332 3446788999999999999999999999999999
Q ss_pred CEEEEccCCCCCCCCCCCCcccccccccccccCC
Q 011104 420 NLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFG 453 (493)
Q Consensus 420 ~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g 453 (493)
..|+.++.| .....|+|+.||+-+..
T Consensus 374 ~~~~~~~~~--------~~~~~~vq~~~r~~~~~ 399 (1606)
T KOG0701|consen 374 NLVVLFDAP--------TYYRSYVQKKGRARAAD 399 (1606)
T ss_pred hhheeccCc--------chHHHHHHhhcccccch
Confidence 999999999 77888999999997653
No 287
>PRK12377 putative replication protein; Provisional
Probab=95.72 E-value=0.13 Score=46.73 Aligned_cols=43 Identities=14% Similarity=0.233 Sum_probs=25.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQN 187 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~ 187 (493)
..+++.|++|+|||-.+ ..+...+.. .+..+++ ++..+|..++
T Consensus 102 ~~l~l~G~~GtGKThLa-~AIa~~l~~--~g~~v~~-i~~~~l~~~l 144 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLA-AAIGNRLLA--KGRSVIV-VTVPDVMSRL 144 (248)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHHH--cCCCeEE-EEHHHHHHHH
Confidence 67999999999999753 333333332 2333433 3444555543
No 288
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=95.71 E-value=0.16 Score=47.38 Aligned_cols=17 Identities=29% Similarity=0.358 Sum_probs=15.4
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
.++++.||+|+|||.++
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 68999999999999875
No 289
>PRK11054 helD DNA helicase IV; Provisional
Probab=95.71 E-value=0.02 Score=59.94 Aligned_cols=71 Identities=23% Similarity=0.107 Sum_probs=52.2
Q ss_pred CCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC-CCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 122 QKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP-NLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 122 ~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~-~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
..+++-|+.++-.- . .+++|.|..|||||.+...-+...+.. ...+.++|+++.|+..|..+.+.+....+
T Consensus 195 ~~L~~~Q~~av~~~--~--~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg 266 (684)
T PRK11054 195 SPLNPSQARAVVNG--E--DSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG 266 (684)
T ss_pred CCCCHHHHHHHhCC--C--CCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC
Confidence 45899999888532 2 468999999999999855444333322 23456899999999999999988876543
No 290
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=95.67 E-value=0.21 Score=51.08 Aligned_cols=135 Identities=15% Similarity=0.191 Sum_probs=81.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhccc-C-ceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHT-G-ITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~ 218 (493)
+-.++..|--.|||.... +++..+.....+.++++++|.+..+..+++.+......- . ..+....| . ......
T Consensus 255 k~tVflVPRR~GKTwivv-~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~vkG-e---~I~i~f 329 (738)
T PHA03368 255 RATVFLVPRRHGKTWFLV-PLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHVKG-E---TISFSF 329 (738)
T ss_pred cceEEEecccCCchhhHH-HHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeeecC-c---EEEEEe
Confidence 678888889999999744 666555544568899999999999999999887754321 1 11111111 1 000000
Q ss_pred CCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC
Q 011104 219 RPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN 293 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~ 293 (493)
.......|.+++- -..+...-..++++|+|||+.+.. +.+..++-.+... +.+++++|.|-+
T Consensus 330 ~nG~kstI~FaSa------rntNsiRGqtfDLLIVDEAqFIk~-----~al~~ilp~l~~~--n~k~I~ISS~Ns 391 (738)
T PHA03368 330 PDGSRSTIVFASS------HNTNGIRGQDFNLLFVDEANFIRP-----DAVQTIMGFLNQT--NCKIIFVSSTNT 391 (738)
T ss_pred cCCCccEEEEEec------cCCCCccCCcccEEEEechhhCCH-----HHHHHHHHHHhcc--CccEEEEecCCC
Confidence 0001124555531 112334455789999999998875 3344555444332 678999998844
No 291
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.66 E-value=0.055 Score=57.35 Aligned_cols=38 Identities=24% Similarity=0.404 Sum_probs=25.0
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEE
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLF 288 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~ 288 (493)
..++++||||+|+|.. .....+++.+...+..+.+|+.
T Consensus 118 gk~KViIIDEAh~LT~-----eAqNALLKtLEEPP~~vrFILa 155 (944)
T PRK14949 118 GRFKVYLIDEVHMLSR-----SSFNALLKTLEEPPEHVKFLLA 155 (944)
T ss_pred CCcEEEEEechHhcCH-----HHHHHHHHHHhccCCCeEEEEE
Confidence 4688999999999864 3345556666554445555554
No 292
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=95.65 E-value=0.058 Score=57.03 Aligned_cols=85 Identities=20% Similarity=0.264 Sum_probs=63.6
Q ss_pred EEEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhCC-----CcEEE-ecCCCCHHHHHHHHHHHHc
Q 011104 325 YKVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDFG-----YEVTT-IMGATIQEERDKIVKEFKD 398 (493)
Q Consensus 325 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~~-----~~~~~-l~~~~~~~~r~~~~~~f~~ 398 (493)
+.+..|....|.....-+-.....+++++++.++|..-+.+.++.|.... ..+.. +||.|+..++..++++|.+
T Consensus 100 FaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~ 179 (1187)
T COG1110 100 FAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIES 179 (1187)
T ss_pred eEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhc
Confidence 34455555555444333233334456899999999999999999887652 44443 9999999999999999999
Q ss_pred CCCcEEEEeCc
Q 011104 399 GLTQVLISTDV 409 (493)
Q Consensus 399 g~~~vLv~T~~ 409 (493)
|..+|||+|..
T Consensus 180 gdfdIlitTs~ 190 (1187)
T COG1110 180 GDFDILITTSQ 190 (1187)
T ss_pred CCccEEEEeHH
Confidence 99999999965
No 293
>CHL00181 cbbX CbbX; Provisional
Probab=95.64 E-value=0.15 Score=47.54 Aligned_cols=19 Identities=26% Similarity=0.307 Sum_probs=16.2
Q ss_pred ccEEEeccCCCchhHHhHH
Q 011104 141 RNLIAQARNGSGKTTCFVL 159 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~ 159 (493)
.++++.||+|+|||..+-.
T Consensus 60 ~~ill~G~pGtGKT~lAr~ 78 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALK 78 (287)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 6799999999999987544
No 294
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.63 E-value=0.077 Score=53.61 Aligned_cols=38 Identities=24% Similarity=0.320 Sum_probs=23.9
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEE
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLL 287 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~ 287 (493)
+...++|||||+|.+.. ..+..+++.+........+|+
T Consensus 114 ~~~~kVVIIDEad~ls~-----~a~naLLk~LEep~~~t~~Il 151 (504)
T PRK14963 114 RGGRKVYILDEAHMMSK-----SAFNALLKTLEEPPEHVIFIL 151 (504)
T ss_pred cCCCeEEEEECccccCH-----HHHHHHHHHHHhCCCCEEEEE
Confidence 46788999999997753 335556666655433333333
No 295
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=95.61 E-value=0.025 Score=63.83 Aligned_cols=123 Identities=14% Similarity=0.122 Sum_probs=75.9
Q ss_pred CchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceee
Q 011104 124 PSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSE 203 (493)
Q Consensus 124 ~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~ 203 (493)
.|+-|.++|.. .| ++++|.|..|||||.+..--++..+.......++|+|+=|+..|..+.+.+.+.....-..
T Consensus 2 ~t~~Q~~ai~~--~~--~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~~~~~-- 75 (1232)
T TIGR02785 2 WTDEQWQAIYT--RG--QNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQKALQQ-- 75 (1232)
T ss_pred CCHHHHHHHhC--CC--CCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHHHHhc--
Confidence 57889999973 45 8999999999999998766666666544334579999999999999888777654321000
Q ss_pred EeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCC--eeEEEEecchh
Q 011104 204 CAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSR--LKILVYDEADH 258 (493)
Q Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~--~~~iVlDEah~ 258 (493)
...... .......-...-|+|-..+...+-+.....-+ ..+=|.||...
T Consensus 76 ---~p~~~~---L~~q~~~~~~~~i~Tihsf~~~~~~~~~~~l~ldP~F~i~de~e~ 126 (1232)
T TIGR02785 76 ---EPNSKH---LRRQLALLNTANISTLHSFCLKVIRKHYYLLDLDPSFRILTDTEQ 126 (1232)
T ss_pred ---CchhHH---HHHHHhhccCCeEeeHHHHHHHHHHHhhhhcCCCCCceeCCHHHH
Confidence 000000 01111112356788888876554433221111 23445887775
No 296
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=95.59 E-value=0.11 Score=53.87 Aligned_cols=40 Identities=18% Similarity=0.342 Sum_probs=25.4
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
+...+++||||+|.|.. .....+++.+...+..+.+|+.+
T Consensus 117 ~gk~KVIIIDEad~Ls~-----~A~NALLKtLEEPp~~v~fILaT 156 (709)
T PRK08691 117 AGKYKVYIIDEVHMLSK-----SAFNAMLKTLEEPPEHVKFILAT 156 (709)
T ss_pred hCCcEEEEEECccccCH-----HHHHHHHHHHHhCCCCcEEEEEe
Confidence 45678999999998764 22345566665544455555544
No 297
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=95.59 E-value=0.073 Score=55.56 Aligned_cols=98 Identities=18% Similarity=0.189 Sum_probs=81.9
Q ss_pred EEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh-CCCcEEEecCCCCHHHHHHHHHHHHcCCCcEE
Q 011104 326 KVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD-FGYEVTTIMGATIQEERDKIVKEFKDGLTQVL 404 (493)
Q Consensus 326 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~-~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vL 404 (493)
...-.....|...+.+.+......++.+||.++-+.....+...|.. .|.++..+||++++.+|...+.+...|+.+|+
T Consensus 221 Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~vV 300 (730)
T COG1198 221 LLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEARVV 300 (730)
T ss_pred eEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCceEE
Confidence 34444556777888888888888889999999999999999988875 48999999999999999999999999999999
Q ss_pred EEeCccccCCCCCCCCEEEE
Q 011104 405 ISTDVLARGFDQQQVNLIVN 424 (493)
Q Consensus 405 v~T~~~~~Gldi~~v~~Vi~ 424 (493)
|.|..+- =.-+++...||.
T Consensus 301 IGtRSAl-F~Pf~~LGLIIv 319 (730)
T COG1198 301 IGTRSAL-FLPFKNLGLIIV 319 (730)
T ss_pred EEechhh-cCchhhccEEEE
Confidence 9997643 245667777774
No 298
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.58 E-value=0.11 Score=50.40 Aligned_cols=40 Identities=23% Similarity=0.362 Sum_probs=25.3
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++||||+|.+... ....+++.+...++...+++.+
T Consensus 117 ~~~~kviIIDEa~~l~~~-----a~naLLk~lEe~~~~~~fIl~t 156 (363)
T PRK14961 117 KSRFKVYLIDEVHMLSRH-----SFNALLKTLEEPPQHIKFILAT 156 (363)
T ss_pred cCCceEEEEEChhhcCHH-----HHHHHHHHHhcCCCCeEEEEEc
Confidence 356789999999988642 2344566665544455555543
No 299
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=95.58 E-value=0.12 Score=49.37 Aligned_cols=40 Identities=20% Similarity=0.449 Sum_probs=25.4
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
...++|||||||.|.. +....+++.+...+.+..+ ++++.
T Consensus 108 ~~~kviiidead~mt~-----~A~nallk~lEep~~~~~~-il~~n 147 (325)
T COG0470 108 GGYKVVIIDEADKLTE-----DAANALLKTLEEPPKNTRF-ILITN 147 (325)
T ss_pred CCceEEEeCcHHHHhH-----HHHHHHHHHhccCCCCeEE-EEEcC
Confidence 6789999999999875 3344455555544444444 44444
No 300
>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=95.54 E-value=0.096 Score=56.86 Aligned_cols=99 Identities=20% Similarity=0.253 Sum_probs=76.5
Q ss_pred EEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHh----CCCcEEEecCCCCHHHHHHHHHHHHcCCC
Q 011104 326 KVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKD----FGYEVTTIMGATIQEERDKIVKEFKDGLT 401 (493)
Q Consensus 326 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~----~~~~~~~l~~~~~~~~r~~~~~~f~~g~~ 401 (493)
.+..+....|.......+......+.+++|.++|..-|.+.++.|++ .++.+..++|..+..++..+++.+..|+.
T Consensus 476 Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~ 555 (926)
T TIGR00580 476 LVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKI 555 (926)
T ss_pred EEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCc
Confidence 44555555555544333333334467899999999999999887765 36788999999999999999999999999
Q ss_pred cEEEEeC-ccccCCCCCCCCEEEE
Q 011104 402 QVLISTD-VLARGFDQQQVNLIVN 424 (493)
Q Consensus 402 ~vLv~T~-~~~~Gldi~~v~~Vi~ 424 (493)
.|+|+|. .+...+.+.++.+||.
T Consensus 556 dIVIGTp~ll~~~v~f~~L~llVI 579 (926)
T TIGR00580 556 DILIGTHKLLQKDVKFKDLGLLII 579 (926)
T ss_pred eEEEchHHHhhCCCCcccCCEEEe
Confidence 9999995 4556788888888775
No 301
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=95.53 E-value=0.14 Score=52.72 Aligned_cols=46 Identities=22% Similarity=0.211 Sum_probs=29.0
Q ss_pred CCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCC-CccEEEeccCCCchhHHhHHHH
Q 011104 100 TTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPP-YRNLIAQARNGSGKTTCFVLGM 161 (493)
Q Consensus 100 ~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~-~~~viv~a~TGsGKT~~~~~~~ 161 (493)
.+|+++--.+.+.+.|.... ..+. .+-.+++||.|+|||.++-+.+
T Consensus 13 ~~f~~viGq~~v~~~L~~~i----------------~~~~~~hayLf~Gp~GtGKTt~Ak~lA 59 (559)
T PRK05563 13 QTFEDVVGQEHITKTLKNAI----------------KQGKISHAYLFSGPRGTGKTSAAKIFA 59 (559)
T ss_pred CcHHhccCcHHHHHHHHHHH----------------HcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 45666655666666665411 1111 1567889999999998865544
No 302
>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=95.51 E-value=0.063 Score=63.02 Aligned_cols=64 Identities=22% Similarity=0.237 Sum_probs=47.0
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhH---HHHHhccCCCCCCCeEEEEcCCHHHHHHHH
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFV---LGMLSRVDPNLKAPQALCICPTRELAIQNL 188 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~---~~~l~~l~~~~~~~~~lil~Pt~~La~q~~ 188 (493)
.+++.|+.++..++.+..+-+++.|..|+|||.... -++...+. ..+..++.++||-..+..+.
T Consensus 1019 ~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~--~~g~~v~glApT~~Aa~~L~ 1085 (1960)
T TIGR02760 1019 RLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFE--SEQLQVIGLAPTHEAVGELK 1085 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHH--hcCCeEEEEeChHHHHHHHH
Confidence 589999999999987755678899999999998741 22333222 23567888999987766543
No 303
>PRK10867 signal recognition particle protein; Provisional
Probab=95.48 E-value=0.15 Score=50.34 Aligned_cols=42 Identities=21% Similarity=0.130 Sum_probs=25.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELA 184 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La 184 (493)
.-++++|++|+|||+...--+.. +.. ..+.+++++. +.|..+
T Consensus 101 ~vI~~vG~~GsGKTTtaakLA~~-l~~-~~G~kV~lV~~D~~R~aa 144 (433)
T PRK10867 101 TVIMMVGLQGAGKTTTAGKLAKY-LKK-KKKKKVLLVAADVYRPAA 144 (433)
T ss_pred EEEEEECCCCCcHHHHHHHHHHH-HHH-hcCCcEEEEEccccchHH
Confidence 57899999999999875433322 221 1244565555 455544
No 304
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.47 E-value=0.069 Score=54.77 Aligned_cols=21 Identities=24% Similarity=0.226 Sum_probs=16.9
Q ss_pred ccEEEeccCCCchhHHhHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGM 161 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~ 161 (493)
+-++++||.|+|||.++.+.+
T Consensus 38 HAyLF~GPpGvGKTTlAriLA 58 (702)
T PRK14960 38 HAYLFTGTRGVGKTTIARILA 58 (702)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 467999999999998765543
No 305
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=95.46 E-value=0.24 Score=50.11 Aligned_cols=40 Identities=20% Similarity=0.407 Sum_probs=26.8
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++||||||.|.. +....+++.+...++.+.+++.+
T Consensus 115 ~~~~KVvIIDEad~Lt~-----~A~NALLK~LEEpp~~t~FIL~t 154 (535)
T PRK08451 115 MARFKIFIIDEVHMLTK-----EAFNALLKTLEEPPSYVKFILAT 154 (535)
T ss_pred cCCeEEEEEECcccCCH-----HHHHHHHHHHhhcCCceEEEEEE
Confidence 46789999999998865 23445566665554456655544
No 306
>PRK07952 DNA replication protein DnaC; Validated
Probab=95.41 E-value=0.19 Score=45.55 Aligned_cols=34 Identities=18% Similarity=0.286 Sum_probs=21.8
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEE
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCI 177 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil 177 (493)
..+++.|++|+|||..+. .+...+.. .+..++++
T Consensus 100 ~~~~l~G~~GtGKThLa~-aia~~l~~--~g~~v~~i 133 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAA-AICNELLL--RGKSVLII 133 (244)
T ss_pred ceEEEECCCCCCHHHHHH-HHHHHHHh--cCCeEEEE
Confidence 479999999999997643 33333332 24455555
No 307
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.41 E-value=0.16 Score=52.52 Aligned_cols=40 Identities=23% Similarity=0.369 Sum_probs=25.6
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
...++++||||+|.|... ....+++.+...++...+|+.+
T Consensus 117 ~~~~KVvIIdev~~Lt~~-----a~naLLk~LEepp~~~~fIl~t 156 (576)
T PRK14965 117 RSRYKIFIIDEVHMLSTN-----AFNALLKTLEEPPPHVKFIFAT 156 (576)
T ss_pred cCCceEEEEEChhhCCHH-----HHHHHHHHHHcCCCCeEEEEEe
Confidence 467899999999988752 2445566665544444444443
No 308
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=95.41 E-value=0.037 Score=48.30 Aligned_cols=22 Identities=36% Similarity=0.465 Sum_probs=17.8
Q ss_pred CCCccEEEeccCCCchhHHhHH
Q 011104 138 PPYRNLIAQARNGSGKTTCFVL 159 (493)
Q Consensus 138 ~~~~~viv~a~TGsGKT~~~~~ 159 (493)
|+-.++++.||+|.|||.+...
T Consensus 46 gnmP~liisGpPG~GKTTsi~~ 67 (333)
T KOG0991|consen 46 GNMPNLIISGPPGTGKTTSILC 67 (333)
T ss_pred CCCCceEeeCCCCCchhhHHHH
Confidence 4446899999999999997543
No 309
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.40 E-value=0.025 Score=53.38 Aligned_cols=59 Identities=19% Similarity=0.247 Sum_probs=39.8
Q ss_pred CchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHH
Q 011104 124 PSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELA 184 (493)
Q Consensus 124 ~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La 184 (493)
.++.|...+..++... .+++++|+||||||.. +-.++..+.......+++++=.+.||.
T Consensus 129 ~~~~~~~~L~~~v~~~-~nilI~G~tGSGKTTl-l~aL~~~i~~~~~~~rivtiEd~~El~ 187 (323)
T PRK13833 129 MTEAQASVIRSAIDSR-LNIVISGGTGSGKTTL-ANAVIAEIVASAPEDRLVILEDTAEIQ 187 (323)
T ss_pred CCHHHHHHHHHHHHcC-CeEEEECCCCCCHHHH-HHHHHHHHhcCCCCceEEEecCCcccc
Confidence 4566777766666552 7999999999999986 344555553323345777777777763
No 310
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=95.37 E-value=0.067 Score=55.31 Aligned_cols=38 Identities=24% Similarity=0.403 Sum_probs=24.7
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEE
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLF 288 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~ 288 (493)
..++++||||+|+|... ....+++.+...++...+|+.
T Consensus 118 g~~KV~IIDEah~Ls~~-----a~NALLKtLEEPp~~v~FIL~ 155 (647)
T PRK07994 118 GRFKVYLIDEVHMLSRH-----SFNALLKTLEEPPEHVKFLLA 155 (647)
T ss_pred CCCEEEEEechHhCCHH-----HHHHHHHHHHcCCCCeEEEEe
Confidence 56889999999988752 345566666554444444443
No 311
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=95.36 E-value=0.1 Score=50.45 Aligned_cols=51 Identities=12% Similarity=0.256 Sum_probs=37.7
Q ss_pred CeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHH
Q 011104 247 RLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNF 299 (493)
Q Consensus 247 ~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~ 299 (493)
+++++++|.++.+.........+..++..+.... .|+++.|...|..+..+
T Consensus 175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~--kqIvltsdr~P~~l~~~ 225 (408)
T COG0593 175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENG--KQIVLTSDRPPKELNGL 225 (408)
T ss_pred ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcC--CEEEEEcCCCchhhccc
Confidence 7889999999998775455667777788777643 37888777777666543
No 312
>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=95.35 E-value=0.054 Score=47.05 Aligned_cols=49 Identities=18% Similarity=0.242 Sum_probs=32.7
Q ss_pred EEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 143 LIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 143 viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
+++.|++|+|||...+--+...+ ..+..+++++. .+...++.+.+..++
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~---~~g~~v~~~s~-e~~~~~~~~~~~~~g 50 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGL---ARGEPGLYVTL-EESPEELIENAESLG 50 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH---HCCCcEEEEEC-CCCHHHHHHHHHHcC
Confidence 68999999999987554444433 24556787764 345666666666654
No 313
>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=95.34 E-value=0.093 Score=48.41 Aligned_cols=50 Identities=14% Similarity=0.058 Sum_probs=27.7
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccC---CC-CCCCeEEEEcCCHHHHHHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVD---PN-LKAPQALCICPTRELAIQNLEV 190 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~---~~-~~~~~~lil~Pt~~La~q~~~~ 190 (493)
.++++.|+||-|||.+.--..-.+-. .. ..-|.+.|-+|...-..-.+..
T Consensus 62 p~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~ 115 (302)
T PF05621_consen 62 PNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSA 115 (302)
T ss_pred CceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHH
Confidence 68999999999999853221111111 11 1123455556766555554543
No 314
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.31 E-value=0.13 Score=51.52 Aligned_cols=20 Identities=30% Similarity=0.313 Sum_probs=16.1
Q ss_pred ccEEEeccCCCchhHHhHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLG 160 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~ 160 (493)
+.+++.||+|+|||..+.+.
T Consensus 37 ~~~Lf~GPpGtGKTTlA~~l 56 (472)
T PRK14962 37 HAYIFAGPRGTGKTTVARIL 56 (472)
T ss_pred eEEEEECCCCCCHHHHHHHH
Confidence 34799999999999876543
No 315
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.28 E-value=0.12 Score=52.99 Aligned_cols=22 Identities=23% Similarity=0.152 Sum_probs=17.7
Q ss_pred ccEEEeccCCCchhHHhHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGML 162 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l 162 (493)
..+|+.||.|+|||.++.+.+-
T Consensus 39 ha~Lf~GPpG~GKTtiArilAk 60 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFAK 60 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 4688999999999998665443
No 316
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=95.28 E-value=0.2 Score=50.60 Aligned_cols=21 Identities=24% Similarity=0.211 Sum_probs=17.3
Q ss_pred ccEEEeccCCCchhHHhHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGM 161 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~ 161 (493)
+.++++||.|+|||..+-+.+
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilA 64 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIA 64 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHH
Confidence 579999999999999865543
No 317
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=95.27 E-value=0.18 Score=51.51 Aligned_cols=21 Identities=24% Similarity=0.200 Sum_probs=17.1
Q ss_pred ccEEEeccCCCchhHHhHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGM 161 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~ 161 (493)
+..+++||.|+|||..+...+
T Consensus 39 hA~Lf~GP~GvGKTTlA~~lA 59 (605)
T PRK05896 39 HAYIFSGPRGIGKTSIAKIFA 59 (605)
T ss_pred ceEEEECCCCCCHHHHHHHHH
Confidence 568999999999999765543
No 318
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=95.26 E-value=0.12 Score=48.99 Aligned_cols=42 Identities=14% Similarity=0.202 Sum_probs=29.1
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
....+++|+|+||.|.. .....+++.+...++...+++.|..
T Consensus 105 ~g~~KV~iI~~a~~m~~-----~AaNaLLKtLEEPp~~~~fiL~t~~ 146 (325)
T PRK06871 105 QGGNKVVYIQGAERLTE-----AAANALLKTLEEPRPNTYFLLQADL 146 (325)
T ss_pred cCCceEEEEechhhhCH-----HHHHHHHHHhcCCCCCeEEEEEECC
Confidence 45689999999999875 3356677777775555555554443
No 319
>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=95.25 E-value=0.42 Score=38.48 Aligned_cols=15 Identities=33% Similarity=0.521 Sum_probs=13.1
Q ss_pred EEEeccCCCchhHHh
Q 011104 143 LIAQARNGSGKTTCF 157 (493)
Q Consensus 143 viv~a~TGsGKT~~~ 157 (493)
+++.||+|+|||...
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 689999999999864
No 320
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=95.23 E-value=0.083 Score=50.41 Aligned_cols=42 Identities=14% Similarity=0.222 Sum_probs=29.6
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
....+++|||+||.|.. .....+++.+...++..-+++.|.-
T Consensus 106 ~g~~kV~iI~~ae~m~~-----~AaNaLLKtLEEPp~~t~fiL~t~~ 147 (334)
T PRK07993 106 LGGAKVVWLPDAALLTD-----AAANALLKTLEEPPENTWFFLACRE 147 (334)
T ss_pred cCCceEEEEcchHhhCH-----HHHHHHHHHhcCCCCCeEEEEEECC
Confidence 46789999999999876 3456777777775555555555543
No 321
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.21 E-value=0.18 Score=51.41 Aligned_cols=40 Identities=20% Similarity=0.365 Sum_probs=27.2
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++||||+|.|... ....+++.+...+....+|+.|
T Consensus 117 ~~~~kVvIIDEad~ls~~-----a~naLLK~LEepp~~~~fIL~t 156 (527)
T PRK14969 117 RGRFKVYIIDEVHMLSKS-----AFNAMLKTLEEPPEHVKFILAT 156 (527)
T ss_pred cCCceEEEEcCcccCCHH-----HHHHHHHHHhCCCCCEEEEEEe
Confidence 456889999999988752 2445666666655566666554
No 322
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.19 E-value=0.15 Score=52.89 Aligned_cols=37 Identities=19% Similarity=0.262 Sum_probs=23.7
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEE
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVL 286 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v 286 (493)
....+++||||+|.|.. .....+++.+...+....+|
T Consensus 119 ~~~~KViIIDEad~Lt~-----~a~naLLK~LEePp~~tvfI 155 (620)
T PRK14948 119 QARWKVYVIDECHMLST-----AAFNALLKTLEEPPPRVVFV 155 (620)
T ss_pred cCCceEEEEECccccCH-----HHHHHHHHHHhcCCcCeEEE
Confidence 45678999999998864 23455666666543333333
No 323
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.18 E-value=0.028 Score=53.11 Aligned_cols=58 Identities=22% Similarity=0.241 Sum_probs=38.2
Q ss_pred CchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 124 PSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 124 ~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
+++.|...+..+..+ +.+++++|+||||||.. +-.++..+.......+++++-.+.|+
T Consensus 133 ~~~~~~~~L~~~v~~-~~~ilI~G~tGSGKTTl-l~aL~~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 133 MTAAQREAIIAAVRA-HRNILVIGGTGSGKTTL-VNAIINEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred CCHHHHHHHHHHHHc-CCeEEEECCCCCCHHHH-HHHHHHhhhhcCCCceEEEEcCCCcc
Confidence 346677777665554 28999999999999965 44444443222334567777777766
No 324
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=95.18 E-value=0.2 Score=47.79 Aligned_cols=60 Identities=15% Similarity=0.161 Sum_probs=34.8
Q ss_pred EEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 226 VVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 226 Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
|-|-.-..|.+.+..... ....+++|||+||.|.. .....+++.+...+++.-+++.|..
T Consensus 112 I~idqiR~l~~~~~~~~~-~~~~kV~iI~~ae~m~~-----~AaNaLLKtLEEPp~~t~fiL~t~~ 171 (342)
T PRK06964 112 IKIEQVRALLDFCGVGTH-RGGARVVVLYPAEALNV-----AAANALLKTLEEPPPGTVFLLVSAR 171 (342)
T ss_pred cCHHHHHHHHHHhccCCc-cCCceEEEEechhhcCH-----HHHHHHHHHhcCCCcCcEEEEEECC
Confidence 444333334443333322 45689999999999875 3356677777665444444444433
No 325
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=95.18 E-value=0.041 Score=51.67 Aligned_cols=58 Identities=28% Similarity=0.312 Sum_probs=38.0
Q ss_pred chHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHH
Q 011104 125 SKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELA 184 (493)
Q Consensus 125 ~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La 184 (493)
++-|...+..++.+ +.+++++|+||||||.. +-.++..+.......+++++=.+.|+.
T Consensus 118 ~~~~~~~L~~~v~~-~~~ilI~G~tGSGKTTl-l~al~~~i~~~~~~~ri~tiEd~~El~ 175 (299)
T TIGR02782 118 TAAQRDVLREAVLA-RKNILVVGGTGSGKTTL-ANALLAEIAKNDPTDRVVIIEDTRELQ 175 (299)
T ss_pred CHHHHHHHHHHHHc-CCeEEEECCCCCCHHHH-HHHHHHHhhccCCCceEEEECCchhhc
Confidence 34455555555544 27999999999999986 344555554333345777777777763
No 326
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=95.18 E-value=0.1 Score=50.45 Aligned_cols=132 Identities=14% Similarity=0.138 Sum_probs=62.8
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCC-------CeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKA-------PQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNY 213 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~-------~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~ 213 (493)
.-.++.||.|+||+..+...+-..+.....+ +..+.+|+.-..+.+ +..........+.......
T Consensus 42 HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~~-------i~~~~HPDl~~i~~~~~~~- 113 (365)
T PRK07471 42 HAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVARR-------IAAGAHGGLLTLERSWNEK- 113 (365)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHHH-------HHccCCCCeEEEecccccc-
Confidence 4689999999999987544333333322111 123334444333322 2112122222222111000
Q ss_pred ccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 214 VPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 214 ~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
.......|.|-..-.+.+.+.... .....+++||||+|.|.. .....+++.+...+....++++|..
T Consensus 114 -----~~~~~~~I~VdqiR~l~~~~~~~~-~~~~~kVviIDead~m~~-----~aanaLLK~LEepp~~~~~IL~t~~ 180 (365)
T PRK07471 114 -----GKRLRTVITVDEVRELISFFGLTA-AEGGWRVVIVDTADEMNA-----NAANALLKVLEEPPARSLFLLVSHA 180 (365)
T ss_pred -----cccccccccHHHHHHHHHHhCcCc-ccCCCEEEEEechHhcCH-----HHHHHHHHHHhcCCCCeEEEEEECC
Confidence 000013354444333333333222 245688999999998764 3455666666654444545554443
No 327
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=95.17 E-value=0.1 Score=52.51 Aligned_cols=54 Identities=19% Similarity=0.301 Sum_probs=31.0
Q ss_pred CCCcccCCCCHHHHHHHHhh--CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHh
Q 011104 99 ATTFEDLNLSPELLKGLYVE--MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~--~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~ 157 (493)
..+|++++=.+..++.+... +.+..|..+....++. . +.+++.||+|+|||+..
T Consensus 178 ~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~---p--~GILLyGPPGTGKT~LA 233 (512)
T TIGR03689 178 DVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKP---P--KGVLLYGPPGCGKTLIA 233 (512)
T ss_pred CCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCC---C--cceEEECCCCCcHHHHH
Confidence 45677776333333333321 2334444444433332 2 67999999999999863
No 328
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.17 E-value=0.27 Score=48.41 Aligned_cols=41 Identities=20% Similarity=0.335 Sum_probs=25.6
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
+...+++||||+|.+.. .....+++.+...++... +++.++
T Consensus 125 ~~~~kvvIIdea~~l~~-----~~~~~LLk~LEep~~~t~-~Il~t~ 165 (397)
T PRK14955 125 KGRYRVYIIDEVHMLSI-----AAFNAFLKTLEEPPPHAI-FIFATT 165 (397)
T ss_pred cCCeEEEEEeChhhCCH-----HHHHHHHHHHhcCCCCeE-EEEEeC
Confidence 56789999999999865 234455666655433333 344444
No 329
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=95.16 E-value=0.2 Score=47.66 Aligned_cols=43 Identities=19% Similarity=0.171 Sum_probs=27.2
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCC-ccEEEeccCCCchhHHh
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPY-RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~-~~viv~a~TGsGKT~~~ 157 (493)
..+|+++-.++.+.+.+.... -.|.. .-+++.||+|+|||...
T Consensus 17 P~~~~~~~~~~~~~~~l~~~~----------------~~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 17 PSTIDECILPAADKETFKSIV----------------KKGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred CCcHHHhcCcHHHHHHHHHHH----------------hcCCCCeEEEeeCcCCCCHHHHH
Confidence 356777777777777665411 12211 34555899999999863
No 330
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.16 E-value=0.082 Score=49.28 Aligned_cols=18 Identities=28% Similarity=0.339 Sum_probs=15.6
Q ss_pred ccEEEeccCCCchhHHhH
Q 011104 141 RNLIAQARNGSGKTTCFV 158 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~ 158 (493)
+.+++.||||+|||....
T Consensus 195 ~vi~~vGptGvGKTTt~~ 212 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLA 212 (282)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 689999999999998743
No 331
>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=95.15 E-value=0.22 Score=48.92 Aligned_cols=133 Identities=14% Similarity=0.142 Sum_probs=62.6
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
.-+.++|++|+|||+...--+. .+. ..+.++++++ |.|.-|.++ ++.++...++.+......
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~-~l~--~~G~kV~lV~~D~~R~aA~eQ---Lk~~a~~~~vp~~~~~~~---------- 164 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAY-YYQ--RKGFKPCLVCADTFRAGAFDQ---LKQNATKARIPFYGSYTE---------- 164 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHH-HHH--HCCCCEEEEcCcccchhHHHH---HHHHhhccCCeEEeecCC----------
Confidence 5688999999999976433222 222 2344666665 445544433 333443333322111100
Q ss_pred CCCCCCcEEEeCchHHH-HHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHH
Q 011104 219 RPPVTAQVVIGTPGTIK-KWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVK 297 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l~-~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~ 297 (493)
..|-.+. +.+.. ..-..+++|++|=+-++-.. ...+.++........+..-++.++||...+..
T Consensus 165 ----------~dp~~i~~~~l~~--~~~~~~DvViIDTaGr~~~d---~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~ 229 (429)
T TIGR01425 165 ----------SDPVKIASEGVEK--FKKENFDIIIVDTSGRHKQE---DSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAE 229 (429)
T ss_pred ----------CCHHHHHHHHHHH--HHhCCCCEEEEECCCCCcch---HHHHHHHHHHhhhcCCcEEEEEeccccChhHH
Confidence 0121111 11111 01134678888888654322 12222222222222234567778888765555
Q ss_pred HHHHHHh
Q 011104 298 NFVTRIV 304 (493)
Q Consensus 298 ~~~~~~~ 304 (493)
..+..|.
T Consensus 230 ~~a~~F~ 236 (429)
T TIGR01425 230 AQAKAFK 236 (429)
T ss_pred HHHHHHH
Confidence 5555553
No 332
>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=95.13 E-value=0.37 Score=44.60 Aligned_cols=136 Identities=16% Similarity=0.215 Sum_probs=67.1
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
+-+++.|++|+|||....-.+.. +. ..+.+++++. +.|.-+.+ .+..|....++.+. .....
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~-l~--~~g~~V~li~~D~~r~~a~~---ql~~~~~~~~i~~~--~~~~~-------- 136 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANK-LK--KQGKSVLLAAGDTFRAAAIE---QLEEWAKRLGVDVI--KQKEG-------- 136 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHH-HH--hcCCEEEEEeCCCCCHHHHH---HHHHHHHhCCeEEE--eCCCC--------
Confidence 67888899999999864443322 22 2345666665 33443322 23333332232211 11100
Q ss_pred CCCCCCcEEEeCchHH-HHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhh---hcCCCeeEEEEeeecCh
Q 011104 219 RPPVTAQVVIGTPGTI-KKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIE---RSSGHCQVLLFSATFNE 294 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l-~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~---~~~~~~q~v~~SAT~~~ 294 (493)
..|..+ .+.+.. ....++++|++|=+-++..+......+..+..... ...+.--++.++||...
T Consensus 137 ----------~dp~~~~~~~l~~--~~~~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~ 204 (272)
T TIGR00064 137 ----------ADPAAVAFDAIQK--AKARNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQ 204 (272)
T ss_pred ----------CCHHHHHHHHHHH--HHHCCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCH
Confidence 012221 122211 11356789999999876432222233444444333 12235678899999765
Q ss_pred hHHHHHHHHh
Q 011104 295 TVKNFVTRIV 304 (493)
Q Consensus 295 ~~~~~~~~~~ 304 (493)
+....+..+.
T Consensus 205 ~~~~~~~~f~ 214 (272)
T TIGR00064 205 NALEQAKVFN 214 (272)
T ss_pred HHHHHHHHHH
Confidence 5444444444
No 333
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=95.11 E-value=0.048 Score=50.85 Aligned_cols=61 Identities=25% Similarity=0.245 Sum_probs=44.5
Q ss_pred CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHH
Q 011104 119 MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELA 184 (493)
Q Consensus 119 ~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La 184 (493)
..|...++-|...+..+..+. .+++++|.||||||+. +-.++..+.. ..+++.+--|.||.
T Consensus 153 i~~gt~~~~~a~~L~~av~~r-~NILisGGTGSGKTTl-LNal~~~i~~---~eRvItiEDtaELq 213 (355)
T COG4962 153 IIFGTMIRRAAKFLRRAVGIR-CNILISGGTGSGKTTL-LNALSGFIDS---DERVITIEDTAELQ 213 (355)
T ss_pred HHcCCcCHHHHHHHHHHHhhc-eeEEEeCCCCCCHHHH-HHHHHhcCCC---cccEEEEeehhhhc
Confidence 356678888998888888772 5999999999999985 3333333332 23788888888874
No 334
>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=95.08 E-value=0.11 Score=50.62 Aligned_cols=17 Identities=29% Similarity=0.518 Sum_probs=15.3
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
.++++.||+|+|||...
T Consensus 41 ~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVT 57 (365)
T ss_pred CcEEEECCCCCCHHHHH
Confidence 68999999999999874
No 335
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=95.08 E-value=0.078 Score=49.17 Aligned_cols=18 Identities=28% Similarity=0.361 Sum_probs=15.3
Q ss_pred ccEEEeccCCCchhHHhH
Q 011104 141 RNLIAQARNGSGKTTCFV 158 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~ 158 (493)
..+++.|++|+|||+...
T Consensus 44 ~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 44 GFILITGEVGAGKTTLIR 61 (269)
T ss_pred CEEEEEcCCCCCHHHHHH
Confidence 468999999999998743
No 336
>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=95.06 E-value=0.049 Score=52.53 Aligned_cols=38 Identities=13% Similarity=0.109 Sum_probs=24.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICP 179 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~P 179 (493)
..++++||||||||.. +..++..+.......+++.+=-
T Consensus 150 GlilI~G~TGSGKTT~-l~al~~~i~~~~~~~~IvtiEd 187 (372)
T TIGR02525 150 GLGLICGETGSGKSTL-AASIYQHCGETYPDRKIVTYED 187 (372)
T ss_pred CEEEEECCCCCCHHHH-HHHHHHHHHhcCCCceEEEEec
Confidence 4789999999999986 4455555543223335555433
No 337
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.05 E-value=0.36 Score=49.63 Aligned_cols=74 Identities=11% Similarity=0.079 Sum_probs=49.2
Q ss_pred CCCchHHHhhhhhhcCC-CCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcc
Q 011104 122 QKPSKIQAISLPMILTP-PYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKH 197 (493)
Q Consensus 122 ~~~~~~Q~~~i~~il~~-~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~ 197 (493)
.-|+|.=.+-|..++.. ..+-.++.+|-|.|||.+..+.+...+.. .+.+++|++|...-+.++++.+......
T Consensus 168 ~~~~~~~~~~id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f--~Gi~IlvTAH~~~ts~evF~rv~~~le~ 242 (752)
T PHA03333 168 EAPSPRTLREIDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISF--LEIDIVVQAQRKTMCLTLYNRVETVVHA 242 (752)
T ss_pred CCCChhhHHHHHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHh--cCCeEEEECCChhhHHHHHHHHHHHHHH
Confidence 33455444444444322 12667888999999999865444433321 3578999999999999999887777653
No 338
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=95.05 E-value=0.076 Score=52.01 Aligned_cols=32 Identities=25% Similarity=0.234 Sum_probs=23.6
Q ss_pred chHHHhhhhhhcCCCCccEEEeccCCCchhHHhH
Q 011104 125 SKIQAISLPMILTPPYRNLIAQARNGSGKTTCFV 158 (493)
Q Consensus 125 ~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~ 158 (493)
-......+..+..+ +++++.|++|+|||..+.
T Consensus 181 e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~ 212 (459)
T PRK11331 181 ETTIETILKRLTIK--KNIILQGPPGVGKTFVAR 212 (459)
T ss_pred HHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHH
Confidence 33444455555666 899999999999998753
No 339
>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=94.98 E-value=0.055 Score=48.74 Aligned_cols=132 Identities=12% Similarity=0.090 Sum_probs=65.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCC-CCeEEEEcCCHHHHHHHHHHHHHHhcccCc-----eeeEeecCCCCCcc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLK-APQALCICPTRELAIQNLEVLRKMGKHTGI-----TSECAVPTDSTNYV 214 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~-~~~~lil~Pt~~La~q~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~ 214 (493)
..+++.|++|+|||+..+-.+.+.+. . +.++++++- .+-..++.+.+..++....- ... .........
T Consensus 20 s~~li~G~~GsGKT~l~~q~l~~~~~---~~ge~vlyvs~-ee~~~~l~~~~~s~g~d~~~~~~~g~l~-~~d~~~~~~- 93 (226)
T PF06745_consen 20 SVVLISGPPGSGKTTLALQFLYNGLK---NFGEKVLYVSF-EEPPEELIENMKSFGWDLEEYEDSGKLK-IIDAFPERI- 93 (226)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHH---HHT--EEEEES-SS-HHHHHHHHHTTTS-HHHHHHTTSEE-EEESSGGGS-
T ss_pred cEEEEEeCCCCCcHHHHHHHHHHhhh---hcCCcEEEEEe-cCCHHHHHHHHHHcCCcHHHHhhcCCEE-EEecccccc-
Confidence 78999999999999875554544442 2 446777773 33346666666655432110 000 110000000
Q ss_pred cccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhc---ccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 215 PISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLD---EAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 215 ~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~---~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
. .. -..+..+...+... +.-...+.+|+|-...+.. ...++..+..+...+... -.+.++++.
T Consensus 94 --~------~~--~~~~~~l~~~i~~~-i~~~~~~~vVIDsls~l~~~~~~~~~r~~l~~l~~~l~~~---~~t~llt~~ 159 (226)
T PF06745_consen 94 --G------WS--PNDLEELLSKIREA-IEELKPDRVVIDSLSALLLYDDPEELRRFLRALIKFLKSR---GVTTLLTSE 159 (226)
T ss_dssp --T-------T--SCCHHHHHHHHHHH-HHHHTSSEEEEETHHHHTTSSSGGGHHHHHHHHHHHHHHT---TEEEEEEEE
T ss_pred --c------cc--ccCHHHHHHHHHHH-HHhcCCCEEEEECHHHHhhcCCHHHHHHHHHHHHHHHHHC---CCEEEEEEc
Confidence 0 00 12334444433321 1111237999999998822 222344555666666553 245666666
Q ss_pred c
Q 011104 292 F 292 (493)
Q Consensus 292 ~ 292 (493)
.
T Consensus 160 ~ 160 (226)
T PF06745_consen 160 M 160 (226)
T ss_dssp E
T ss_pred c
Confidence 3
No 340
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=94.98 E-value=0.23 Score=47.72 Aligned_cols=18 Identities=39% Similarity=0.530 Sum_probs=15.4
Q ss_pred cEEEeccCCCchhHHhHH
Q 011104 142 NLIAQARNGSGKTTCFVL 159 (493)
Q Consensus 142 ~viv~a~TGsGKT~~~~~ 159 (493)
.+++.||+|+|||..+..
T Consensus 38 ~lll~Gp~GtGKT~la~~ 55 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRA 55 (337)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 799999999999987433
No 341
>PF13173 AAA_14: AAA domain
Probab=94.97 E-value=0.25 Score=39.85 Aligned_cols=17 Identities=35% Similarity=0.516 Sum_probs=15.2
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
+-+++.|+.|+|||...
T Consensus 3 ~~~~l~G~R~vGKTtll 19 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLL 19 (128)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 78999999999999863
No 342
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=94.96 E-value=0.063 Score=52.12 Aligned_cols=81 Identities=15% Similarity=0.021 Sum_probs=56.1
Q ss_pred HHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHH
Q 011104 109 PELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNL 188 (493)
Q Consensus 109 ~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~ 188 (493)
..+++.+.+ .+-.+..-|+++.-..-.| .- .+.|-.|||||...++- ...+....+..+++|.+-|+.|+.++.
T Consensus 150 ~a~l~~ies--kIanfD~~Q~kaa~~~~~G--~q-rIrGLAGSGKT~~La~K-aa~lh~knPd~~I~~Tfftk~L~s~~r 223 (660)
T COG3972 150 NALLDTIES--KIANFDTDQTKAAFQSGFG--KQ-RIRGLAGSGKTELLAHK-AAELHSKNPDSRIAFTFFTKILASTMR 223 (660)
T ss_pred HHHHHHHHH--HHhcccchhheeeeecCCc--hh-hhhcccCCCchhHHHHH-HHHHhcCCCCceEEEEeehHHHHHHHH
Confidence 345555543 3334456687776555556 33 67888999999874432 344555566779999999999999998
Q ss_pred HHHHHHh
Q 011104 189 EVLRKMG 195 (493)
Q Consensus 189 ~~~~~~~ 195 (493)
..+.++.
T Consensus 224 ~lv~~F~ 230 (660)
T COG3972 224 TLVPEFF 230 (660)
T ss_pred HHHHHHH
Confidence 8877764
No 343
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.96 E-value=0.034 Score=54.59 Aligned_cols=43 Identities=30% Similarity=0.402 Sum_probs=33.6
Q ss_pred chHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC
Q 011104 125 SKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN 168 (493)
Q Consensus 125 ~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~ 168 (493)
++.|...+..++..++-=+++.||||||||.. +..+++.+...
T Consensus 243 ~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~~ 285 (500)
T COG2804 243 SPFQLARLLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNTP 285 (500)
T ss_pred CHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcCC
Confidence 46777777777777656799999999999987 67777776543
No 344
>PRK04195 replication factor C large subunit; Provisional
Probab=94.95 E-value=0.27 Score=49.82 Aligned_cols=46 Identities=20% Similarity=0.164 Sum_probs=28.9
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCC-CccEEEeccCCCchhHHh
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPP-YRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~-~~~viv~a~TGsGKT~~~ 157 (493)
..+|+++-.++.....+.. + +..+..|. .+.+++.||+|+|||..+
T Consensus 10 P~~l~dlvg~~~~~~~l~~-~------------l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 10 PKTLSDVVGNEKAKEQLRE-W------------IESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred CCCHHHhcCCHHHHHHHHH-H------------HHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 3456777667766666654 1 11111221 278999999999999864
No 345
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.94 E-value=0.037 Score=50.38 Aligned_cols=51 Identities=22% Similarity=0.315 Sum_probs=36.7
Q ss_pred CCCCCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCC
Q 011104 96 YTSATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPN 168 (493)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~ 168 (493)
+..+.+|+.+++++-+.+-+.. -+ -=++|.||||||||.. +..++.++...
T Consensus 102 p~~i~~~e~LglP~i~~~~~~~------------------~~---GLILVTGpTGSGKSTT-lAamId~iN~~ 152 (353)
T COG2805 102 PSKIPTLEELGLPPIVRELAES------------------PR---GLILVTGPTGSGKSTT-LAAMIDYINKH 152 (353)
T ss_pred CccCCCHHHcCCCHHHHHHHhC------------------CC---ceEEEeCCCCCcHHHH-HHHHHHHHhcc
Confidence 4567789999988777763322 11 3699999999999987 56677777543
No 346
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=94.89 E-value=0.14 Score=46.83 Aligned_cols=45 Identities=18% Similarity=0.160 Sum_probs=27.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLE 189 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~ 189 (493)
.++++.|++|+|||..+. ++...+. ..+..++ ++++-+++.++..
T Consensus 106 ~nl~l~G~~G~GKThLa~-Ai~~~l~--~~g~sv~-f~~~~el~~~Lk~ 150 (254)
T COG1484 106 ENLVLLGPPGVGKTHLAI-AIGNELL--KAGISVL-FITAPDLLSKLKA 150 (254)
T ss_pred CcEEEECCCCCcHHHHHH-HHHHHHH--HcCCeEE-EEEHHHHHHHHHH
Confidence 899999999999998643 3333333 2233333 3455556555444
No 347
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=94.89 E-value=0.23 Score=47.70 Aligned_cols=40 Identities=25% Similarity=0.386 Sum_probs=26.0
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++||||||.|.. .....+++.+...+....++++|
T Consensus 139 ~g~~rVviIDeAd~l~~-----~aanaLLk~LEEpp~~~~fiLit 178 (351)
T PRK09112 139 DGNWRIVIIDPADDMNR-----NAANAILKTLEEPPARALFILIS 178 (351)
T ss_pred cCCceEEEEEchhhcCH-----HHHHHHHHHHhcCCCCceEEEEE
Confidence 35688999999999875 23445666665544445555554
No 348
>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=94.87 E-value=0.14 Score=44.57 Aligned_cols=41 Identities=12% Similarity=0.302 Sum_probs=25.3
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
....++|||||+|.+... ....+++.+...++..- ++|.++
T Consensus 94 ~~~~kviiide~~~l~~~-----~~~~Ll~~le~~~~~~~-~il~~~ 134 (188)
T TIGR00678 94 ESGRRVVIIEDAERMNEA-----AANALLKTLEEPPPNTL-FILITP 134 (188)
T ss_pred cCCeEEEEEechhhhCHH-----HHHHHHHHhcCCCCCeE-EEEEEC
Confidence 467889999999998752 24455666655333333 444433
No 349
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=94.86 E-value=0.16 Score=47.85 Aligned_cols=42 Identities=24% Similarity=0.472 Sum_probs=29.4
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
....+++|||+||.|.. .....+++.+...+++.-+++.|..
T Consensus 106 ~~~~kV~iI~~ae~m~~-----~AaNaLLKtLEEPp~~t~fiL~t~~ 147 (319)
T PRK06090 106 LNGYRLFVIEPADAMNE-----SASNALLKTLEEPAPNCLFLLVTHN 147 (319)
T ss_pred cCCceEEEecchhhhCH-----HHHHHHHHHhcCCCCCeEEEEEECC
Confidence 45689999999999875 3456677777775555555555544
No 350
>PRK09183 transposase/IS protein; Provisional
Probab=94.72 E-value=0.37 Score=44.32 Aligned_cols=23 Identities=26% Similarity=0.343 Sum_probs=18.1
Q ss_pred hcCCCCccEEEeccCCCchhHHhHH
Q 011104 135 ILTPPYRNLIAQARNGSGKTTCFVL 159 (493)
Q Consensus 135 il~~~~~~viv~a~TGsGKT~~~~~ 159 (493)
+-.| .++++.||+|+|||.....
T Consensus 99 i~~~--~~v~l~Gp~GtGKThLa~a 121 (259)
T PRK09183 99 IERN--ENIVLLGPSGVGKTHLAIA 121 (259)
T ss_pred hhcC--CeEEEEeCCCCCHHHHHHH
Confidence 3445 8999999999999976443
No 351
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=94.66 E-value=0.51 Score=44.92 Aligned_cols=17 Identities=35% Similarity=0.479 Sum_probs=14.8
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
..+++.|++|+|||...
T Consensus 39 ~~~ll~G~~G~GKt~~~ 55 (319)
T PRK00440 39 PHLLFAGPPGTGKTTAA 55 (319)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 45899999999999864
No 352
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=94.66 E-value=0.21 Score=47.54 Aligned_cols=19 Identities=37% Similarity=0.426 Sum_probs=16.2
Q ss_pred ccEEEeccCCCchhHHhHH
Q 011104 141 RNLIAQARNGSGKTTCFVL 159 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~ 159 (493)
.+.|+.||+|+|||..+-+
T Consensus 49 ~SmIl~GPPG~GKTTlA~l 67 (436)
T COG2256 49 HSMILWGPPGTGKTTLARL 67 (436)
T ss_pred ceeEEECCCCCCHHHHHHH
Confidence 5899999999999986544
No 353
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.65 E-value=0.45 Score=45.07 Aligned_cols=60 Identities=15% Similarity=0.252 Sum_probs=35.2
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhh---hcCCCeeEEEEeeecChhHHHHHHHHh
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIE---RSSGHCQVLLFSATFNETVKNFVTRIV 304 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~---~~~~~~q~v~~SAT~~~~~~~~~~~~~ 304 (493)
..++++||+|=+-++-......+.+..+...+. ...+.-.++.++||...+....+..+.
T Consensus 194 ~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~f~ 256 (318)
T PRK10416 194 ARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKAFH 256 (318)
T ss_pred hCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHHHH
Confidence 356889999999876543223344444444332 233455689999997654444444443
No 354
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.65 E-value=0.19 Score=51.05 Aligned_cols=40 Identities=18% Similarity=0.296 Sum_probs=25.4
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++||||+|+|... ....+++.+...+....+|+.+
T Consensus 117 ~g~~kViIIDEa~~ls~~-----a~naLLK~LEepp~~v~fIL~T 156 (546)
T PRK14957 117 QGRYKVYLIDEVHMLSKQ-----SFNALLKTLEEPPEYVKFILAT 156 (546)
T ss_pred cCCcEEEEEechhhccHH-----HHHHHHHHHhcCCCCceEEEEE
Confidence 456789999999998752 3345556665544444555444
No 355
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=94.64 E-value=0.73 Score=43.38 Aligned_cols=17 Identities=35% Similarity=0.407 Sum_probs=15.0
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
..+|++||+|+|||..+
T Consensus 163 pSmIlWGppG~GKTtlA 179 (554)
T KOG2028|consen 163 PSMILWGPPGTGKTTLA 179 (554)
T ss_pred CceEEecCCCCchHHHH
Confidence 57999999999999854
No 356
>PRK10689 transcription-repair coupling factor; Provisional
Probab=94.63 E-value=0.25 Score=55.13 Aligned_cols=99 Identities=19% Similarity=0.199 Sum_probs=73.6
Q ss_pred EEeCCChHHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHHhC----CCcEEEecCCCCHHHHHHHHHHHHcCCC
Q 011104 326 KVYCPDELAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALKDF----GYEVTTIMGATIQEERDKIVKEFKDGLT 401 (493)
Q Consensus 326 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~~~----~~~~~~l~~~~~~~~r~~~~~~f~~g~~ 401 (493)
.+..+....|.......+......+.+++|.+++...|..++..|.+. ++.+..+++..+..++..+++....|..
T Consensus 625 Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~ 704 (1147)
T PRK10689 625 LVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKI 704 (1147)
T ss_pred EEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCC
Confidence 444455555554333222223345678999999999999998887653 5688899999999999999999999999
Q ss_pred cEEEEeC-ccccCCCCCCCCEEEE
Q 011104 402 QVLISTD-VLARGFDQQQVNLIVN 424 (493)
Q Consensus 402 ~vLv~T~-~~~~Gldi~~v~~Vi~ 424 (493)
.|+|+|. .+...+.+.++.++|.
T Consensus 705 dIVVgTp~lL~~~v~~~~L~lLVI 728 (1147)
T PRK10689 705 DILIGTHKLLQSDVKWKDLGLLIV 728 (1147)
T ss_pred CEEEECHHHHhCCCCHhhCCEEEE
Confidence 9999995 4555667778888774
No 357
>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=94.55 E-value=0.3 Score=48.11 Aligned_cols=42 Identities=21% Similarity=0.159 Sum_probs=24.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELA 184 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La 184 (493)
..++++|++|+|||+...--+.. +.. ..+.+++++. +.|..+
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~-l~~-~~g~kV~lV~~D~~R~~a 143 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYY-LKK-KQGKKVLLVACDLYRPAA 143 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHH-HHH-hCCCeEEEEeccccchHH
Confidence 57899999999999875443332 211 1234555554 444443
No 358
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.54 E-value=0.68 Score=46.28 Aligned_cols=19 Identities=26% Similarity=0.205 Sum_probs=16.2
Q ss_pred ccEEEeccCCCchhHHhHH
Q 011104 141 RNLIAQARNGSGKTTCFVL 159 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~ 159 (493)
+.+.+.||||+|||+....
T Consensus 257 ~Vi~LvGpnGvGKTTTiaK 275 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAK 275 (484)
T ss_pred cEEEEECCCCccHHHHHHH
Confidence 6799999999999997443
No 359
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.53 E-value=0.26 Score=51.16 Aligned_cols=41 Identities=20% Similarity=0.433 Sum_probs=25.1
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
+...++|||||+|.|.. .....+++.+....... ++++.+|
T Consensus 118 ~~~~kVvIIDEa~~L~~-----~a~naLLk~LEepp~~t-v~Il~t~ 158 (585)
T PRK14950 118 LARYKVYIIDEVHMLST-----AAFNALLKTLEEPPPHA-IFILATT 158 (585)
T ss_pred cCCeEEEEEeChHhCCH-----HHHHHHHHHHhcCCCCe-EEEEEeC
Confidence 46789999999998765 23445566665543333 3334343
No 360
>PHA00729 NTP-binding motif containing protein
Probab=94.52 E-value=0.34 Score=42.97 Aligned_cols=75 Identities=11% Similarity=0.129 Sum_probs=36.7
Q ss_pred cEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCH----HHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHH
Q 011104 225 QVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFR----DDSLRIMKDIERSSGHCQVLLFSATFNETVKNFV 300 (493)
Q Consensus 225 ~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~----~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~ 300 (493)
..++.+...|...+....-....++++|+||+-.-.....+. .....+...+.. .++++.+...-+.++...+
T Consensus 60 ~~~fid~~~Ll~~L~~a~~~~~~~dlLIIDd~G~~~~~~~wh~~~~~~yf~L~~aLrS---R~~l~il~~ls~edL~~~L 136 (226)
T PHA00729 60 NSYFFELPDALEKIQDAIDNDYRIPLIIFDDAGIWLSKYVWYEDYMKTFYKIYALIRT---RVSAVIFTTPSPEDLAFYL 136 (226)
T ss_pred cEEEEEHHHHHHHHHHHHhcCCCCCEEEEeCCchhhcccchhhhccchHHHHHHHHHh---hCcEEEEecCCHHHHHHHH
Confidence 355566666666554321122345789999943222211111 112223333332 3466777776566665554
Q ss_pred HH
Q 011104 301 TR 302 (493)
Q Consensus 301 ~~ 302 (493)
+.
T Consensus 137 r~ 138 (226)
T PHA00729 137 RE 138 (226)
T ss_pred Hh
Confidence 44
No 361
>PF05729 NACHT: NACHT domain
Probab=94.50 E-value=0.23 Score=41.89 Aligned_cols=16 Identities=38% Similarity=0.470 Sum_probs=14.0
Q ss_pred cEEEeccCCCchhHHh
Q 011104 142 NLIAQARNGSGKTTCF 157 (493)
Q Consensus 142 ~viv~a~TGsGKT~~~ 157 (493)
-+++.|++|+|||...
T Consensus 2 ~l~I~G~~G~GKStll 17 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLL 17 (166)
T ss_pred EEEEECCCCCChHHHH
Confidence 4789999999999864
No 362
>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=94.41 E-value=0.087 Score=50.75 Aligned_cols=25 Identities=20% Similarity=0.372 Sum_probs=19.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVD 166 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~ 166 (493)
.-++++||||||||.. +-.++..+.
T Consensus 135 glilI~GpTGSGKTTt-L~aLl~~i~ 159 (358)
T TIGR02524 135 GIVFITGATGSGKSTL-LAAIIRELA 159 (358)
T ss_pred CEEEEECCCCCCHHHH-HHHHHHHHh
Confidence 6899999999999986 344555443
No 363
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=94.25 E-value=0.12 Score=44.15 Aligned_cols=92 Identities=17% Similarity=0.105 Sum_probs=52.6
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
+=.++.||++||||.-.+-.+-.. ...+.++++..|...- +++. + .+..-.|
T Consensus 5 ~l~~i~gpM~SGKT~eLl~r~~~~---~~~g~~v~vfkp~iD~---------R~~~--~-~V~Sr~G------------- 56 (201)
T COG1435 5 WLEFIYGPMFSGKTEELLRRARRY---KEAGMKVLVFKPAIDT---------RYGV--G-KVSSRIG------------- 56 (201)
T ss_pred EEEEEEccCcCcchHHHHHHHHHH---HHcCCeEEEEeccccc---------cccc--c-eeeeccC-------------
Confidence 557899999999998633322222 2345577888775321 0110 0 0000111
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhc
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~ 261 (493)
.....++|-.+..+.+.+........ +++|.+|||+-+..
T Consensus 57 ~~~~A~~i~~~~~i~~~i~~~~~~~~-~~~v~IDEaQF~~~ 96 (201)
T COG1435 57 LSSEAVVIPSDTDIFDEIAALHEKPP-VDCVLIDEAQFFDE 96 (201)
T ss_pred CcccceecCChHHHHHHHHhcccCCC-cCEEEEehhHhCCH
Confidence 11235777777788887776443222 88999999986543
No 364
>PRK13342 recombination factor protein RarA; Reviewed
Probab=94.24 E-value=0.51 Score=46.82 Aligned_cols=18 Identities=33% Similarity=0.361 Sum_probs=15.3
Q ss_pred ccEEEeccCCCchhHHhH
Q 011104 141 RNLIAQARNGSGKTTCFV 158 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~ 158 (493)
..+++.||+|+|||..+.
T Consensus 37 ~~ilL~GppGtGKTtLA~ 54 (413)
T PRK13342 37 SSMILWGPPGTGKTTLAR 54 (413)
T ss_pred ceEEEECCCCCCHHHHHH
Confidence 479999999999998643
No 365
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=94.23 E-value=0.049 Score=47.90 Aligned_cols=17 Identities=29% Similarity=0.329 Sum_probs=14.4
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
.++++.||+|.|||..+
T Consensus 51 ~h~lf~GPPG~GKTTLA 67 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLA 67 (233)
T ss_dssp -EEEEESSTTSSHHHHH
T ss_pred ceEEEECCCccchhHHH
Confidence 47999999999999854
No 366
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.12 E-value=0.33 Score=43.90 Aligned_cols=51 Identities=10% Similarity=0.172 Sum_probs=33.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
.-+++.|++|+|||......+...+. .+.+++++.-.. -..++.+.+..++
T Consensus 26 ~~~~i~G~~GsGKt~l~~~~~~~~~~---~g~~~~y~~~e~-~~~~~~~~~~~~g 76 (234)
T PRK06067 26 SLILIEGDHGTGKSVLSQQFVYGALK---QGKKVYVITTEN-TSKSYLKQMESVK 76 (234)
T ss_pred cEEEEECCCCCChHHHHHHHHHHHHh---CCCEEEEEEcCC-CHHHHHHHHHHCC
Confidence 78999999999999875554444332 355677776433 3355556565554
No 367
>PRK11823 DNA repair protein RadA; Provisional
Probab=94.08 E-value=0.26 Score=49.21 Aligned_cols=51 Identities=18% Similarity=0.148 Sum_probs=33.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
.-+++.|++|+|||+..+..+.... ..+.+++++.- .+-..|+...+.+++
T Consensus 81 s~~lI~G~pG~GKTtL~lq~a~~~a---~~g~~vlYvs~-Ees~~qi~~ra~rlg 131 (446)
T PRK11823 81 SVVLIGGDPGIGKSTLLLQVAARLA---AAGGKVLYVSG-EESASQIKLRAERLG 131 (446)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEc-cccHHHHHHHHHHcC
Confidence 7899999999999986544333322 23557888874 444567666666554
No 368
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=94.08 E-value=0.23 Score=48.57 Aligned_cols=45 Identities=24% Similarity=0.408 Sum_probs=27.4
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChh
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNET 295 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~ 295 (493)
....+++||||+|+|... ....+++.+...+++ -++++++|-+..
T Consensus 115 ~~~~kViiIDead~m~~~-----aanaLLk~LEep~~~-~~fIL~a~~~~~ 159 (394)
T PRK07940 115 TGRWRIVVIEDADRLTER-----AANALLKAVEEPPPR-TVWLLCAPSPED 159 (394)
T ss_pred cCCcEEEEEechhhcCHH-----HHHHHHHHhhcCCCC-CeEEEEECChHH
Confidence 456789999999998752 234455555543333 445555554433
No 369
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=94.06 E-value=0.021 Score=46.95 Aligned_cols=16 Identities=31% Similarity=0.393 Sum_probs=14.0
Q ss_pred cEEEeccCCCchhHHh
Q 011104 142 NLIAQARNGSGKTTCF 157 (493)
Q Consensus 142 ~viv~a~TGsGKT~~~ 157 (493)
++++.|++|+|||..+
T Consensus 1 ~vlL~G~~G~GKt~l~ 16 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLA 16 (139)
T ss_dssp EEEEEESSSSSHHHHH
T ss_pred CEEEECCCCCCHHHHH
Confidence 4899999999999863
No 370
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=94.05 E-value=0.49 Score=45.04 Aligned_cols=38 Identities=13% Similarity=0.016 Sum_probs=25.5
Q ss_pred chHHHhhhhhhcCCC---CccEEEeccCCCchhHHhHHHHH
Q 011104 125 SKIQAISLPMILTPP---YRNLIAQARNGSGKTTCFVLGML 162 (493)
Q Consensus 125 ~~~Q~~~i~~il~~~---~~~viv~a~TGsGKT~~~~~~~l 162 (493)
+|||...|..+.... ....++.||.|.|||..+...+-
T Consensus 3 yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~ 43 (325)
T PRK08699 3 YPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQ 43 (325)
T ss_pred CCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHH
Confidence 466666666654221 24689999999999987555433
No 371
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=94.05 E-value=0.38 Score=50.91 Aligned_cols=17 Identities=41% Similarity=0.399 Sum_probs=15.0
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
.++++.||+|+|||..+
T Consensus 53 ~slLL~GPpGtGKTTLA 69 (725)
T PRK13341 53 GSLILYGPPGVGKTTLA 69 (725)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 47999999999999864
No 372
>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=94.04 E-value=0.49 Score=45.87 Aligned_cols=38 Identities=18% Similarity=0.339 Sum_probs=23.2
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEE
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLL 287 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~ 287 (493)
+...++|||||+|.+.. .....+++.+...++...+|+
T Consensus 115 ~~~~~vviidea~~l~~-----~~~~~Ll~~le~~~~~~~lIl 152 (355)
T TIGR02397 115 SGKYKVYIIDEVHMLSK-----SAFNALLKTLEEPPEHVVFIL 152 (355)
T ss_pred cCCceEEEEeChhhcCH-----HHHHHHHHHHhCCccceeEEE
Confidence 45678999999998754 234455666644333333333
No 373
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=93.99 E-value=0.54 Score=46.10 Aligned_cols=55 Identities=18% Similarity=0.278 Sum_probs=33.5
Q ss_pred CCCCcccCCCCHHHHHHHHhh--CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHh
Q 011104 98 SATTFEDLNLSPELLKGLYVE--MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 98 ~~~~~~~~~~~~~~~~~l~~~--~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~ 157 (493)
+..+|.+++-.....+.+... +.+..|.-++...++ .+ +.+++.||+|+|||+.+
T Consensus 140 p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~---~p--kgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 140 PDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGID---PP--RGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCC---CC--ceEEEECCCCCCHHHHH
Confidence 445677776555555555431 234444444433332 23 78999999999999864
No 374
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=93.97 E-value=0.62 Score=44.25 Aligned_cols=18 Identities=28% Similarity=0.621 Sum_probs=15.8
Q ss_pred CCccEEEeccCCCchhHH
Q 011104 139 PYRNLIAQARNGSGKTTC 156 (493)
Q Consensus 139 ~~~~viv~a~TGsGKT~~ 156 (493)
+.+.++..||+|+|||+.
T Consensus 244 PWkgvLm~GPPGTGKTlL 261 (491)
T KOG0738|consen 244 PWKGVLMVGPPGTGKTLL 261 (491)
T ss_pred ccceeeeeCCCCCcHHHH
Confidence 357899999999999985
No 375
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.97 E-value=0.34 Score=50.20 Aligned_cols=40 Identities=15% Similarity=0.278 Sum_probs=26.3
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
+...+++||||+|.|... ....+++.+...++..-+|+++
T Consensus 125 ~~~~KVvIIdEad~Lt~~-----a~naLLK~LEePp~~tv~IL~t 164 (620)
T PRK14954 125 KGRYRVYIIDEVHMLSTA-----AFNAFLKTLEEPPPHAIFIFAT 164 (620)
T ss_pred cCCCEEEEEeChhhcCHH-----HHHHHHHHHhCCCCCeEEEEEe
Confidence 567899999999998652 3455666666644444444444
No 376
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=93.96 E-value=0.72 Score=46.66 Aligned_cols=154 Identities=14% Similarity=0.141 Sum_probs=91.2
Q ss_pred HHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHH
Q 011104 110 ELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLE 189 (493)
Q Consensus 110 ~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~ 189 (493)
.+...++..++....+. .++..... +-.+.--|--.|||.. ++|++..+.....+.++.+++.-|..+.-+++
T Consensus 178 r~~~~lk~~Fdi~~~s~---~~l~~FKQ---kaTVFLVPRRHGKTWf-~VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~ 250 (668)
T PHA03372 178 RVLEYLLHVFDIEFLSE---SSLNIFKQ---KATVFLVPRRHGKTWF-IIPIISFLLKNIIGISIGYVAHQKHVSQFVLK 250 (668)
T ss_pred HHHHHHHHHcCCcccCH---HHHHHhhc---cceEEEecccCCceeh-HHHHHHHHHHhhcCceEEEEeeHHHHHHHHHH
Confidence 33444444455554332 23443333 5666777888999995 88898888888889999999999988888776
Q ss_pred HHHH-HhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH-----HHHHHcCccCCCCeeEEEEecchhhhccc
Q 011104 190 VLRK-MGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI-----KKWMSAKKLGFSRLKILVYDEADHMLDEA 263 (493)
Q Consensus 190 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l-----~~~l~~~~~~~~~~~~iVlDEah~l~~~~ 263 (493)
++.. +..+.+-... ... .+.-|.+.-|+.= ......+.+.-.++.++++||||-+..
T Consensus 251 EI~~~lrrwF~~~~v--i~~-------------k~~tI~~s~pg~Kst~~fasc~n~NsiRGQ~fnll~VDEA~FI~~-- 313 (668)
T PHA03372 251 EVEFRCRRMFPRKHT--IEN-------------KDNVISIDHRGAKSTALFASCYNTNSIRGQNFHLLLVDEAHFIKK-- 313 (668)
T ss_pred HHHHHHhhhcCccce--eee-------------cCcEEEEecCCCcceeeehhhccCccccCCCCCEEEEehhhccCH--
Confidence 5432 2222221100 000 0112333333321 111223445567889999999997654
Q ss_pred CCHHHHHHHHHHhhhcCCCeeEEEEeeec
Q 011104 264 GFRDDSLRIMKDIERSSGHCQVLLFSATF 292 (493)
Q Consensus 264 ~~~~~~~~i~~~~~~~~~~~q~v~~SAT~ 292 (493)
+.+..|+..+... +++++..|.|-
T Consensus 314 ---~a~~tilgfm~q~--~~KiIfISS~N 337 (668)
T PHA03372 314 ---DAFNTILGFLAQN--TTKIIFISSTN 337 (668)
T ss_pred ---HHHHHhhhhhccc--CceEEEEeCCC
Confidence 3456666666443 67788888773
No 377
>PTZ00293 thymidine kinase; Provisional
Probab=93.92 E-value=0.62 Score=40.88 Aligned_cols=38 Identities=18% Similarity=0.097 Sum_probs=25.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTR 181 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~ 181 (493)
+=.++.||++||||.-.+-. +.+.. ..+.+++++-|..
T Consensus 5 ~i~vi~GpMfSGKTteLLr~-i~~y~--~ag~kv~~~kp~~ 42 (211)
T PTZ00293 5 TISVIIGPMFSGKTTELMRL-VKRFT--YSEKKCVVIKYSK 42 (211)
T ss_pred EEEEEECCCCChHHHHHHHH-HHHHH--HcCCceEEEEecc
Confidence 66788999999999764333 32222 2345678888854
No 378
>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=93.84 E-value=0.63 Score=47.28 Aligned_cols=56 Identities=18% Similarity=0.279 Sum_probs=37.8
Q ss_pred CCCCCcccCCCCHHHHHHHHhh--CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHh
Q 011104 97 TSATTFEDLNLSPELLKGLYVE--MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~l~~~--~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~ 157 (493)
.+..+|++.|=-.++.+.|+.. +..+.|-.+.+..+.. -+.|++.||+|+|||+.+
T Consensus 428 ~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~p-----pkGVLlyGPPGC~KT~lA 485 (693)
T KOG0730|consen 428 MPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISP-----PKGVLLYGPPGCGKTLLA 485 (693)
T ss_pred CCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCC-----CceEEEECCCCcchHHHH
Confidence 4567899998556666666531 3555555555554321 267999999999999864
No 379
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=93.82 E-value=0.75 Score=41.44 Aligned_cols=51 Identities=6% Similarity=0.081 Sum_probs=32.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
.-+++.|++|+|||+..+-.+...+. ++.++++++. .+-..+..+.+..++
T Consensus 25 ~~~~i~G~~G~GKTtl~~~~~~~~~~---~g~~~~yi~~-e~~~~~~~~~~~~~g 75 (230)
T PRK08533 25 SLILIEGDESTGKSILSQRLAYGFLQ---NGYSVSYVST-QLTTTEFIKQMMSLG 75 (230)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHh---CCCcEEEEeC-CCCHHHHHHHHHHhC
Confidence 78999999999999874333333222 3456788874 333455555555544
No 380
>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=93.78 E-value=0.5 Score=50.68 Aligned_cols=54 Identities=17% Similarity=0.322 Sum_probs=32.2
Q ss_pred CCCcccCCCCHHHHHHHHhhC--CCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHh
Q 011104 99 ATTFEDLNLSPELLKGLYVEM--KFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~--g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~ 157 (493)
...|.+++-...+.+.|.... .+..|.-++...+. .. +.+++.||+|+|||+.+
T Consensus 449 ~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~---~~--~giLL~GppGtGKT~la 504 (733)
T TIGR01243 449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIR---PP--KGVLLFGPPGTGKTLLA 504 (733)
T ss_pred ccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCC---CC--ceEEEECCCCCCHHHHH
Confidence 457888877677766665421 23333322222111 12 56999999999999864
No 381
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=93.75 E-value=0.42 Score=47.69 Aligned_cols=147 Identities=13% Similarity=0.050 Sum_probs=82.5
Q ss_pred CchHHHhhhhhhcC------C--CCccEEEeccCCCchhHHhH-HHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHH
Q 011104 124 PSKIQAISLPMILT------P--PYRNLIAQARNGSGKTTCFV-LGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKM 194 (493)
Q Consensus 124 ~~~~Q~~~i~~il~------~--~~~~viv~a~TGsGKT~~~~-~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~ 194 (493)
+-|+|+-.+-.++. | .-+-.++..|-+-|||.... +.....+.....+..+.|++|+.+-+.+.+..++..
T Consensus 62 l~PwQkFiia~l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~~qa~~~F~~ar~m 141 (546)
T COG4626 62 LEPWQKFIVAALFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSVEQAANSFNPARDM 141 (546)
T ss_pred cchHHHHHHHHHhceeecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEeccHHHHHHhhHHHHHH
Confidence 56788877777651 1 01357888899999997644 333333333466778999999999999988887766
Q ss_pred hcccC-ceeeEeecCCCCCcccccCCCCCCCcEEEeCchHH---HHHHHc--CccCCCCeeEEEEecchhhhcccCCHHH
Q 011104 195 GKHTG-ITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTI---KKWMSA--KKLGFSRLKILVYDEADHMLDEAGFRDD 268 (493)
Q Consensus 195 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l---~~~l~~--~~~~~~~~~~iVlDEah~l~~~~~~~~~ 268 (493)
..... +.. ......+....+.... ...+.. +..+-.+..+.|+||.|..... ...
T Consensus 142 v~~~~~l~~----------------~~~~q~~s~~i~~~~~~s~ik~~aa~~~~~Dg~~~~~~I~DEih~f~~~---~~~ 202 (546)
T COG4626 142 VKRDDDLRD----------------LCNVQTHSRTITHRKTDSTIKAVAADPNTVDGLNSVGAIIDELHLFGKQ---EDM 202 (546)
T ss_pred HHhCcchhh----------------hhccccceeEEEecccceeeeeeccCCCcccCCCcceEEEehhhhhcCH---HHH
Confidence 54322 100 0000111222222211 122222 2334456789999999976542 133
Q ss_pred HHHHHHHhhhcCCCeeEEEEee
Q 011104 269 SLRIMKDIERSSGHCQVLLFSA 290 (493)
Q Consensus 269 ~~~i~~~~~~~~~~~q~v~~SA 290 (493)
+..+..-+. .+++.+++..|-
T Consensus 203 ~~~~~~g~~-ar~~~l~~~ITT 223 (546)
T COG4626 203 YSEAKGGLG-ARPEGLVVYITT 223 (546)
T ss_pred HHHHHhhhc-cCcCceEEEEec
Confidence 444433333 334556666554
No 382
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=93.72 E-value=0.74 Score=39.14 Aligned_cols=144 Identities=14% Similarity=0.110 Sum_probs=70.4
Q ss_pred EEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHH-HHHHHHhcccCceeeEeecCCCCCcccccCCCC
Q 011104 143 LIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNL-EVLRKMGKHTGITSECAVPTDSTNYVPISKRPP 221 (493)
Q Consensus 143 viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 221 (493)
++|.-..|-|||++++--++..+ ..+.+++|+.=-+--...-. ..+..+ +..+....-+....+ ....
T Consensus 31 i~V~TG~GKGKTTAAlG~alRa~---GhG~rv~vvQFiKg~~~~GE~~~~~~~----~~~v~~~~~~~g~tw----~~~~ 99 (198)
T COG2109 31 IIVFTGNGKGKTTAALGLALRAL---GHGLRVGVVQFIKGGWKYGEEAALEKF----GLGVEFHGMGEGFTW----ETQD 99 (198)
T ss_pred EEEEecCCCChhHHHHHHHHHHh---cCCCEEEEEEEeecCcchhHHHHHHhh----ccceeEEecCCceeC----CCcC
Confidence 66666678899999887777776 34557777753322111111 122232 111111111111111 0000
Q ss_pred CCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHH
Q 011104 222 VTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVT 301 (493)
Q Consensus 222 ~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~ 301 (493)
...++ ......+..... .+.-..+++|||||.--.+. .++.+ +..++..+...+....+|+..-..|+.+.+.+.
T Consensus 100 ~~~d~--~aa~~~w~~a~~-~l~~~~ydlviLDEl~~al~-~g~l~-~eeV~~~l~~kP~~~~vIiTGr~ap~~lie~AD 174 (198)
T COG2109 100 READI--AAAKAGWEHAKE-ALADGKYDLVILDELNYALR-YGLLP-LEEVVALLKARPEHTHVIITGRGAPPELIELAD 174 (198)
T ss_pred cHHHH--HHHHHHHHHHHH-HHhCCCCCEEEEehhhHHHH-cCCCC-HHHHHHHHhcCCCCcEEEEECCCCCHHHHHHHH
Confidence 01123 222222222221 12234689999999998776 45433 455666666544444444444456777766554
Q ss_pred H
Q 011104 302 R 302 (493)
Q Consensus 302 ~ 302 (493)
.
T Consensus 175 l 175 (198)
T COG2109 175 L 175 (198)
T ss_pred H
Confidence 3
No 383
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=93.68 E-value=0.31 Score=41.97 Aligned_cols=144 Identities=16% Similarity=0.129 Sum_probs=71.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH-HHHHHHHHHhcccCceeeEeecCCCCCcccccCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI-QNLEVLRKMGKHTGITSECAVPTDSTNYVPISKR 219 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~-q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (493)
..+++..++|.|||.+++--++..+. .+.+++|+.=.+--.. --...+.++. ++.. ...+.+.....
T Consensus 23 g~v~v~~g~GkGKtt~a~g~a~ra~g---~G~~V~ivQFlKg~~~~GE~~~l~~l~---~v~~--~~~g~~~~~~~---- 90 (191)
T PRK05986 23 GLLIVHTGNGKGKSTAAFGMALRAVG---HGKKVGVVQFIKGAWSTGERNLLEFGG---GVEF--HVMGTGFTWET---- 90 (191)
T ss_pred CeEEEECCCCCChHHHHHHHHHHHHH---CCCeEEEEEEecCCCccCHHHHHhcCC---CcEE--EECCCCCcccC----
Confidence 58999999999999998776666653 4557777753332100 0011222211 2221 11111111000
Q ss_pred CCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHH
Q 011104 220 PPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNF 299 (493)
Q Consensus 220 ~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~ 299 (493)
...+--.......+.... ..+.-..+++|||||+-..+. .++-+ ...++..+...+...-+|+..-..|+.+.+.
T Consensus 91 --~~~~e~~~~~~~~~~~a~-~~l~~~~ydlvVLDEi~~Al~-~gli~-~eevi~~L~~rp~~~evVlTGR~~p~~Lie~ 165 (191)
T PRK05986 91 --QDRERDIAAAREGWEEAK-RMLADESYDLVVLDELTYALK-YGYLD-VEEVLEALNARPGMQHVVITGRGAPRELIEA 165 (191)
T ss_pred --CCcHHHHHHHHHHHHHHH-HHHhCCCCCEEEEehhhHHHH-CCCcc-HHHHHHHHHcCCCCCEEEEECCCCCHHHHHh
Confidence 000000011111222221 122345689999999998776 46543 3345555555444555555555566666655
Q ss_pred HH
Q 011104 300 VT 301 (493)
Q Consensus 300 ~~ 301 (493)
+.
T Consensus 166 AD 167 (191)
T PRK05986 166 AD 167 (191)
T ss_pred Cc
Confidence 43
No 384
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.68 E-value=0.98 Score=45.61 Aligned_cols=31 Identities=23% Similarity=0.363 Sum_probs=20.7
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcC
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSS 280 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~ 280 (493)
....+++||||+|.+... ....+++.+...+
T Consensus 117 ~~~~KVvIIDEad~Lt~~-----a~naLLk~LEepp 147 (486)
T PRK14953 117 KGKYKVYIIDEAHMLTKE-----AFNALLKTLEEPP 147 (486)
T ss_pred cCCeeEEEEEChhhcCHH-----HHHHHHHHHhcCC
Confidence 467889999999987642 2344555555433
No 385
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=93.63 E-value=0.76 Score=48.22 Aligned_cols=40 Identities=23% Similarity=0.334 Sum_probs=25.5
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++||||||.|.. .....+++.+...++...+|+.+
T Consensus 116 ~g~~KV~IIDEa~~LT~-----~A~NALLKtLEEPP~~tifILaT 155 (725)
T PRK07133 116 QSKYKIYIIDEVHMLSK-----SAFNALLKTLEEPPKHVIFILAT 155 (725)
T ss_pred cCCCEEEEEEChhhCCH-----HHHHHHHHHhhcCCCceEEEEEc
Confidence 46788999999998764 23455666666544344444433
No 386
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=93.54 E-value=0.12 Score=49.36 Aligned_cols=40 Identities=28% Similarity=0.319 Sum_probs=28.8
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELA 184 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La 184 (493)
.+++++|+||||||.. +-.++..+. ...+++.+-.+.||.
T Consensus 163 ~nilI~G~tGSGKTTl-l~aLl~~i~---~~~rivtiEd~~El~ 202 (344)
T PRK13851 163 LTMLLCGPTGSGKTTM-SKTLISAIP---PQERLITIEDTLELV 202 (344)
T ss_pred CeEEEECCCCccHHHH-HHHHHcccC---CCCCEEEECCCcccc
Confidence 8999999999999985 344555553 234677777777763
No 387
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.53 E-value=0.74 Score=44.89 Aligned_cols=44 Identities=27% Similarity=0.374 Sum_probs=27.7
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCC-CccEEEeccCCCchhHHhH
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPP-YRNLIAQARNGSGKTTCFV 158 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~-~~~viv~a~TGsGKT~~~~ 158 (493)
..+|+++--++.+.+.+... ++ .|. .+.++++||+|+|||....
T Consensus 13 P~~~~~iig~~~~~~~l~~~--------i~--------~~~~~~~~L~~G~~G~GKt~~a~ 57 (367)
T PRK14970 13 PQTFDDVVGQSHITNTLLNA--------IE--------NNHLAQALLFCGPRGVGKTTCAR 57 (367)
T ss_pred CCcHHhcCCcHHHHHHHHHH--------HH--------cCCCCeEEEEECCCCCCHHHHHH
Confidence 34667776666666655541 11 121 1479999999999997643
No 388
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=93.51 E-value=0.66 Score=41.54 Aligned_cols=51 Identities=22% Similarity=0.223 Sum_probs=29.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHHHHHHHHHHHHh
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELAIQNLEVLRKMG 195 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~ 195 (493)
.-+.++|+-|||||+..- .+++.+.. +..++|+. ||-..+.-...++..+.
T Consensus 52 g~~~vtGevGsGKTv~~R-al~~s~~~---d~~~~v~i~~~~~s~~~~~~ai~~~l~ 104 (269)
T COG3267 52 GILAVTGEVGSGKTVLRR-ALLASLNE---DQVAVVVIDKPTLSDATLLEAIVADLE 104 (269)
T ss_pred ceEEEEecCCCchhHHHH-HHHHhcCC---CceEEEEecCcchhHHHHHHHHHHHhc
Confidence 478999999999999865 44444432 22233333 55444433334444443
No 389
>PRK04328 hypothetical protein; Provisional
Probab=93.44 E-value=0.29 Score=44.73 Aligned_cols=52 Identities=13% Similarity=0.195 Sum_probs=34.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
..+++.|++|+|||...+-.+.+.+. .+..++++. +.+-..++.+.+..++.
T Consensus 24 s~ili~G~pGsGKT~l~~~fl~~~~~---~ge~~lyis-~ee~~~~i~~~~~~~g~ 75 (249)
T PRK04328 24 NVVLLSGGPGTGKSIFSQQFLWNGLQ---MGEPGVYVA-LEEHPVQVRRNMRQFGW 75 (249)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHh---cCCcEEEEE-eeCCHHHHHHHHHHcCC
Confidence 78999999999999865554554442 344567766 44455566666666653
No 390
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=93.42 E-value=0.56 Score=50.25 Aligned_cols=27 Identities=19% Similarity=0.251 Sum_probs=19.2
Q ss_pred hhhhhcCCCCccEEEeccCCCchhHHh
Q 011104 131 SLPMILTPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 131 ~i~~il~~~~~~viv~a~TGsGKT~~~ 157 (493)
.+..+.++...++++.||+|+|||...
T Consensus 194 ~~~~L~~~~~~n~lL~G~pG~GKT~l~ 220 (731)
T TIGR02639 194 TIQVLCRRKKNNPLLVGEPGVGKTAIA 220 (731)
T ss_pred HHHHHhcCCCCceEEECCCCCCHHHHH
Confidence 333333333469999999999999864
No 391
>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=93.40 E-value=0.45 Score=46.12 Aligned_cols=51 Identities=16% Similarity=0.148 Sum_probs=32.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
.-+++.|++|+|||...+..+... .. .+.+++++.-. +-..|+...+.+++
T Consensus 83 slvLI~G~pG~GKStLllq~a~~~-a~--~g~~VlYvs~E-Es~~qi~~Ra~rlg 133 (372)
T cd01121 83 SVILIGGDPGIGKSTLLLQVAARL-AK--RGGKVLYVSGE-ESPEQIKLRADRLG 133 (372)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHH-Hh--cCCeEEEEECC-cCHHHHHHHHHHcC
Confidence 789999999999998654433322 21 23578887654 34456655555543
No 392
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=93.31 E-value=0.99 Score=45.18 Aligned_cols=39 Identities=28% Similarity=0.400 Sum_probs=24.6
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEE
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLF 288 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~ 288 (493)
....++|||||+|.+... ....+++.+...++...+|+.
T Consensus 119 ~~~~kvvIIdead~lt~~-----~~n~LLk~lEep~~~~~~Il~ 157 (451)
T PRK06305 119 KSRYKIYIIDEVHMLTKE-----AFNSLLKTLEEPPQHVKFFLA 157 (451)
T ss_pred cCCCEEEEEecHHhhCHH-----HHHHHHHHhhcCCCCceEEEE
Confidence 356789999999988652 244556666554444444443
No 393
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=93.22 E-value=0.72 Score=47.42 Aligned_cols=41 Identities=22% Similarity=0.354 Sum_probs=25.3
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
....+++||||+|.|... ....+++.+...++..- ++|.+|
T Consensus 117 ~~~~KVvIIDEa~~Ls~~-----a~naLLK~LEepp~~~v-fI~~tt 157 (563)
T PRK06647 117 SSRYRVYIIDEVHMLSNS-----AFNALLKTIEEPPPYIV-FIFATT 157 (563)
T ss_pred cCCCEEEEEEChhhcCHH-----HHHHHHHhhccCCCCEE-EEEecC
Confidence 567899999999988652 34455666655333333 334334
No 394
>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=93.22 E-value=0.18 Score=46.48 Aligned_cols=38 Identities=26% Similarity=0.382 Sum_probs=23.7
Q ss_pred HHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccC
Q 011104 128 QAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVD 166 (493)
Q Consensus 128 Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~ 166 (493)
|...+..++......+++.|+||||||.. +..++..+.
T Consensus 68 ~~~~l~~~~~~~~GlilisG~tGSGKTT~-l~all~~i~ 105 (264)
T cd01129 68 NLEIFRKLLEKPHGIILVTGPTGSGKTTT-LYSALSELN 105 (264)
T ss_pred HHHHHHHHHhcCCCEEEEECCCCCcHHHH-HHHHHhhhC
Confidence 44444434432225799999999999986 344555553
No 395
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.16 E-value=1.2 Score=46.40 Aligned_cols=48 Identities=21% Similarity=0.260 Sum_probs=31.0
Q ss_pred CCCcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHh
Q 011104 99 ATTFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~ 157 (493)
..+++++-.++..++.+..- ++...++ ...+ +-+++.||+|+|||..+
T Consensus 80 P~~ldel~~~~~ki~~l~~~--------l~~~~~~-~~~~--~illL~GP~GsGKTTl~ 127 (637)
T TIGR00602 80 PETQHELAVHKKKIEEVETW--------LKAQVLE-NAPK--RILLITGPSGCGKSTTI 127 (637)
T ss_pred CCCHHHhcCcHHHHHHHHHH--------HHhcccc-cCCC--cEEEEECCCCCCHHHHH
Confidence 45788888888887776541 1111111 1122 56999999999999864
No 396
>PHA00012 I assembly protein
Probab=93.13 E-value=0.59 Score=43.57 Aligned_cols=56 Identities=9% Similarity=0.176 Sum_probs=32.3
Q ss_pred CCCeeEEEEecchhhhcccCCH----HHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHHH
Q 011104 245 FSRLKILVYDEADHMLDEAGFR----DDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTRI 303 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~----~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~~ 303 (493)
...-.++|+||||..+...++. ..+...+...... ..-++++|-.+. .+...++..
T Consensus 79 ep~gsLlVlDEaq~~fp~R~~~sk~p~~vie~l~~hRh~--G~DvilITQ~ps-~VDs~IR~l 138 (361)
T PHA00012 79 ESKNGLLVLDECGTWFNSRSWNDKERQPVIDWFLHARKL--GWDIIFIIQDIS-IMDKQAREA 138 (361)
T ss_pred CCCCcEEEEECcccccCCCCcCcCCcHHHHHHHHHhccC--CceEEEEcCCHH-HHhHHHHHh
Confidence 3566799999999988744443 2344433333332 456777776643 444444433
No 397
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=93.12 E-value=0.92 Score=42.34 Aligned_cols=60 Identities=8% Similarity=0.029 Sum_probs=32.6
Q ss_pred hHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeec
Q 011104 232 GTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATF 292 (493)
Q Consensus 232 ~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~ 292 (493)
..|+..+..+.-.-+.--++|+||+|.... +...-.++.++......+.++-++++|.-+
T Consensus 122 ~~lL~~L~~~~~~t~~~ViFIldEfDlf~~-h~rQtllYnlfDisqs~r~Piciig~Ttrl 181 (408)
T KOG2228|consen 122 SKLLEALKKGDETTSGKVIFILDEFDLFAP-HSRQTLLYNLFDISQSARAPICIIGVTTRL 181 (408)
T ss_pred HHHHHHHhcCCCCCCceEEEEeehhhcccc-chhhHHHHHHHHHHhhcCCCeEEEEeeccc
Confidence 455666666544333334788999997654 333334445555554444455555555543
No 398
>PRK14701 reverse gyrase; Provisional
Probab=93.08 E-value=0.53 Score=54.32 Aligned_cols=61 Identities=13% Similarity=0.223 Sum_probs=54.0
Q ss_pred cCCcEEEEcCChhhHHHHHHHHHhC------CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCc
Q 011104 349 KMGQTIIFVRTKNSASALHKALKDF------GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDV 409 (493)
Q Consensus 349 ~~~~~lVf~~s~~~~~~l~~~L~~~------~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~ 409 (493)
.+.++||.+++++-+.+++..|+.. ++.+..+||+++..++..+++.+.+|...|||+|.-
T Consensus 121 ~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPg 187 (1638)
T PRK14701 121 KGKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQ 187 (1638)
T ss_pred cCCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCc
Confidence 3568999999999999999988763 567889999999999999999999999999999964
No 399
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=93.07 E-value=0.38 Score=51.17 Aligned_cols=17 Identities=29% Similarity=0.370 Sum_probs=15.4
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
.++++.||+|+|||..+
T Consensus 208 ~n~LLvGppGvGKT~la 224 (758)
T PRK11034 208 NNPLLVGESGVGKTAIA 224 (758)
T ss_pred CCeEEECCCCCCHHHHH
Confidence 78999999999999864
No 400
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=93.07 E-value=0.78 Score=43.44 Aligned_cols=59 Identities=20% Similarity=0.371 Sum_probs=36.0
Q ss_pred cEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEee
Q 011104 225 QVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSA 290 (493)
Q Consensus 225 ~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SA 290 (493)
.|-|-....+.+.+..... ....+++|||+||.|.. .....+++.+...+ +..++++|.
T Consensus 103 ~I~id~ir~i~~~l~~~p~-~~~~kVvII~~ae~m~~-----~aaNaLLK~LEEPp-~~~fILi~~ 161 (314)
T PRK07399 103 QIRLEQIREIKRFLSRPPL-EAPRKVVVIEDAETMNE-----AAANALLKTLEEPG-NGTLILIAP 161 (314)
T ss_pred cCcHHHHHHHHHHHccCcc-cCCceEEEEEchhhcCH-----HHHHHHHHHHhCCC-CCeEEEEEC
Confidence 3444444455555555444 46789999999998865 23456666666544 444444443
No 401
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=93.03 E-value=0.6 Score=46.20 Aligned_cols=66 Identities=14% Similarity=0.194 Sum_probs=38.3
Q ss_pred EEEeCc-hHHHHHHHcCccCCCCeeEEEEecchhhhcccCC------HHHHHHHHHHhhhcCCCeeEEEEeeecC
Q 011104 226 VVIGTP-GTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGF------RDDSLRIMKDIERSSGHCQVLLFSATFN 293 (493)
Q Consensus 226 Ilv~Tp-~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~------~~~~~~i~~~~~~~~~~~q~v~~SAT~~ 293 (493)
++|+-- .|+.++..... -...+.|.|||.|.+.....- ...+..++..+.-...+--+|++.||--
T Consensus 376 m~VGvGArRVRdLF~aAk--~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIvigATNf 448 (752)
T KOG0734|consen 376 MFVGVGARRVRDLFAAAK--ARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGATNF 448 (752)
T ss_pred hhhcccHHHHHHHHHHHH--hcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEEEeccCC
Confidence 444443 23444444322 234678999999987653222 2234455555555555667999999943
No 402
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=92.98 E-value=1.1 Score=43.74 Aligned_cols=42 Identities=21% Similarity=0.174 Sum_probs=24.0
Q ss_pred EEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHH
Q 011104 144 IAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQ 186 (493)
Q Consensus 144 iv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q 186 (493)
++.++.|+|||......++..+........++++ |+...+..
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~-~~~~~~~~ 42 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIA-STYRQARD 42 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEE-ESSHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEe-cCHHHHHH
Confidence 4678899999999777666665443333455555 55544444
No 403
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=92.93 E-value=1 Score=38.53 Aligned_cols=17 Identities=29% Similarity=0.345 Sum_probs=14.0
Q ss_pred EEEeccCCCchhHHhHH
Q 011104 143 LIAQARNGSGKTTCFVL 159 (493)
Q Consensus 143 viv~a~TGsGKT~~~~~ 159 (493)
+++.|++|+|||....-
T Consensus 3 ~~~~G~~G~GKTt~~~~ 19 (173)
T cd03115 3 ILLVGLQGVGKTTTAAK 19 (173)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 67889999999987443
No 404
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.93 E-value=0.73 Score=47.98 Aligned_cols=41 Identities=17% Similarity=0.312 Sum_probs=26.2
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
+...+++||||+|.|.. .....+++.+...+.... ++|.+|
T Consensus 119 ~~~~KVvIIdea~~Ls~-----~a~naLLK~LEepp~~ti-fIL~tt 159 (614)
T PRK14971 119 IGKYKIYIIDEVHMLSQ-----AAFNAFLKTLEEPPSYAI-FILATT 159 (614)
T ss_pred cCCcEEEEEECcccCCH-----HHHHHHHHHHhCCCCCeE-EEEEeC
Confidence 56789999999999865 234455666655433333 444444
No 405
>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=92.70 E-value=0.49 Score=43.87 Aligned_cols=36 Identities=25% Similarity=0.208 Sum_probs=24.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
.-+++.|++|+|||...+..+.+.... .+..++++.
T Consensus 31 ~~~~i~g~~G~GKT~l~~~~~~~~~~~--~g~~vl~iS 66 (271)
T cd01122 31 ELIILTAGTGVGKTTFLREYALDLITQ--HGVRVGTIS 66 (271)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHHh--cCceEEEEE
Confidence 789999999999998654434333221 255677776
No 406
>PRK10865 protein disaggregation chaperone; Provisional
Probab=92.62 E-value=0.55 Score=51.07 Aligned_cols=21 Identities=24% Similarity=0.259 Sum_probs=17.1
Q ss_pred CCCCccEEEeccCCCchhHHh
Q 011104 137 TPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 137 ~~~~~~viv~a~TGsGKT~~~ 157 (493)
+....++++.||+|+|||...
T Consensus 196 r~~~~n~lL~G~pGvGKT~l~ 216 (857)
T PRK10865 196 RRTKNNPVLIGEPGVGKTAIV 216 (857)
T ss_pred cCCcCceEEECCCCCCHHHHH
Confidence 333469999999999999864
No 407
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=92.61 E-value=0.87 Score=46.37 Aligned_cols=55 Identities=24% Similarity=0.349 Sum_probs=31.8
Q ss_pred CCCCcccCCCCHHHHHHHHhhCC-CCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHh
Q 011104 98 SATTFEDLNLSPELLKGLYVEMK-FQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 98 ~~~~~~~~~~~~~~~~~l~~~~g-~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~ 157 (493)
+..+|+++.-.+.....+..... +..|..++....+ .. +.+++.||+|+|||+..
T Consensus 50 ~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~---~~--~giLL~GppGtGKT~la 105 (495)
T TIGR01241 50 PKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAK---IP--KGVLLVGPPGTGKTLLA 105 (495)
T ss_pred CCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCC---CC--CcEEEECCCCCCHHHHH
Confidence 45678888666665554443111 2233333332211 12 67999999999999863
No 408
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=92.45 E-value=1.2 Score=39.77 Aligned_cols=105 Identities=23% Similarity=0.228 Sum_probs=58.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
+.++..||+|+|||+.+ |+-|.|....+-++.+..-
T Consensus 206 KGvLmYGPPGTGKTlmA-----------------------RAcAaqT~aTFLKLAgPQL--------------------- 241 (424)
T KOG0652|consen 206 KGVLMYGPPGTGKTLMA-----------------------RACAAQTNATFLKLAGPQL--------------------- 241 (424)
T ss_pred CceEeeCCCCCcHHHHH-----------------------HHHHHhccchHHHhcchHH---------------------
Confidence 67999999999999854 3334444444444432100
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcc------cCCH---HHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDE------AGFR---DDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~------~~~~---~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
.+.+|+.-.+|.+-.-.- -.-.....|.+||.|.+... .|-+ ..+.+++..+....++-++=..-||
T Consensus 242 ---VQMfIGdGAkLVRDAFaL-AKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAAT 317 (424)
T KOG0652|consen 242 ---VQMFIGDGAKLVRDAFAL-AKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAAT 317 (424)
T ss_pred ---HhhhhcchHHHHHHHHHH-hhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeec
Confidence 234444444443311100 01234567999999987542 2222 2445556666655666666677777
Q ss_pred cC
Q 011104 292 FN 293 (493)
Q Consensus 292 ~~ 293 (493)
-.
T Consensus 318 NR 319 (424)
T KOG0652|consen 318 NR 319 (424)
T ss_pred cc
Confidence 43
No 409
>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]
Probab=92.43 E-value=0.62 Score=50.33 Aligned_cols=150 Identities=15% Similarity=0.163 Sum_probs=77.8
Q ss_pred CCCcccCCCCHHHHHHHHhh--CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEE
Q 011104 99 ATTFEDLNLSPELLKGLYVE--MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALC 176 (493)
Q Consensus 99 ~~~~~~~~~~~~~~~~l~~~--~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~li 176 (493)
...|+++|-...++..|+.- +-+..|.-+|...|. - -+-++.+||.|+|||+.+
T Consensus 261 ~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~it----p-PrgvL~~GppGTGkTl~a------------------- 316 (1080)
T KOG0732|consen 261 SVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNIT----P-PRGVLFHGPPGTGKTLMA------------------- 316 (1080)
T ss_pred ccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccC----C-CcceeecCCCCCchhHHH-------------------
Confidence 34688888777776666541 123334333333332 1 167999999999999863
Q ss_pred EcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecc
Q 011104 177 ICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEA 256 (493)
Q Consensus 177 l~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEa 256 (493)
|+||......-++..-... .+ ...-.--|+..++=++++-...- -.....|.+||+
T Consensus 317 ----raLa~~~s~~~~kisffmr--------kg-----------aD~lskwvgEaERqlrllFeeA~-k~qPSIIffdeI 372 (1080)
T KOG0732|consen 317 ----RALAAACSRGNRKISFFMR--------KG-----------ADCLSKWVGEAERQLRLLFEEAQ-KTQPSIIFFDEI 372 (1080)
T ss_pred ----Hhhhhhhcccccccchhhh--------cC-----------chhhccccCcHHHHHHHHHHHHh-ccCceEEecccc
Confidence 1222221111111100000 00 00012345667766665544322 344678999999
Q ss_pred hhhhccc------CCHHHHHHHHHHhhhcCCCeeEEEEeeecChhH
Q 011104 257 DHMLDEA------GFRDDSLRIMKDIERSSGHCQVLLFSATFNETV 296 (493)
Q Consensus 257 h~l~~~~------~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~ 296 (493)
|-+--.. -....+..++..+......-|+++.+||..++.
T Consensus 373 dGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnRpda 418 (1080)
T KOG0732|consen 373 DGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNRPDA 418 (1080)
T ss_pred ccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcccCCccc
Confidence 9443210 111223344555555555779999999965443
No 410
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.42 E-value=2.7 Score=36.75 Aligned_cols=149 Identities=11% Similarity=0.061 Sum_probs=79.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc---CCHHHHHHHHHH----HHHHhcccCceeeEeecCCCCCc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC---PTRELAIQNLEV----LRKMGKHTGITSECAVPTDSTNY 213 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~---Pt~~La~q~~~~----~~~~~~~~~~~~~~~~~~~~~~~ 213 (493)
.=+++.|+.|+|||...+-.+.-.+ ..+.++.+++ |+++...|.... ...+... .+.+.-.... ...
T Consensus 29 sL~lIEGd~~tGKSvLsqr~~YG~L---~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~~l~G-~l~~~~~~~~-~~~- 102 (235)
T COG2874 29 SLILIEGDNGTGKSVLSQRFAYGFL---MNGYRVTYVSTELTVREFIKQMESLSYDVSDFLLSG-RLLFFPVNLE-PVN- 102 (235)
T ss_pred eEEEEECCCCccHHHHHHHHHHHHH---hCCceEEEEEechhHHHHHHHHHhcCCCchHHHhcc-eeEEEEeccc-ccc-
Confidence 6799999999999986443333333 2344566665 667776664431 1111100 0000000000 000
Q ss_pred ccccCCCCCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeec-
Q 011104 214 VPISKRPPVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATF- 292 (493)
Q Consensus 214 ~~~~~~~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~- 292 (493)
.---.-..+++.+.+ .....+-+++|+|-...+... .-...+..++..++.....-+++++|+..
T Consensus 103 ------------~~~~~~~~~L~~l~~-~~k~~~~dViIIDSls~~~~~-~~~~~vl~fm~~~r~l~d~gKvIilTvhp~ 168 (235)
T COG2874 103 ------------WGRRSARKLLDLLLE-FIKRWEKDVIIIDSLSAFATY-DSEDAVLNFMTFLRKLSDLGKVIILTVHPS 168 (235)
T ss_pred ------------cChHHHHHHHHHHHh-hHHhhcCCEEEEecccHHhhc-ccHHHHHHHHHHHHHHHhCCCEEEEEeChh
Confidence 000012233443333 222566779999999877652 33456777777777766677899999874
Q ss_pred --ChhHHHHHHHHhccCce
Q 011104 293 --NETVKNFVTRIVKDYNQ 309 (493)
Q Consensus 293 --~~~~~~~~~~~~~~~~~ 309 (493)
+.++...++..+.-+..
T Consensus 169 ~l~e~~~~rirs~~d~~l~ 187 (235)
T COG2874 169 ALDEDVLTRIRSACDVYLR 187 (235)
T ss_pred hcCHHHHHHHHHhhheeEE
Confidence 45555555555444433
No 411
>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=92.37 E-value=1.4 Score=47.25 Aligned_cols=54 Identities=19% Similarity=0.341 Sum_probs=32.6
Q ss_pred CCCCcccCCCCHHHHHHHHhh--CCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHH
Q 011104 98 SATTFEDLNLSPELLKGLYVE--MKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTC 156 (493)
Q Consensus 98 ~~~~~~~~~~~~~~~~~l~~~--~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~ 156 (493)
+..+|++++-....++.+... +.+..|.-++...+ ..+ +.+++.||+|+|||+.
T Consensus 173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi---~~~--~giLL~GppGtGKT~l 228 (733)
T TIGR01243 173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGI---EPP--KGVLLYGPPGTGKTLL 228 (733)
T ss_pred CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCC---CCC--ceEEEECCCCCChHHH
Confidence 345788887666666555431 12333333333222 123 7899999999999975
No 412
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=92.36 E-value=0.37 Score=47.61 Aligned_cols=52 Identities=15% Similarity=0.377 Sum_probs=47.0
Q ss_pred EEEEcCChhhHHHHHHHHHhC----CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeC
Q 011104 353 TIIFVRTKNSASALHKALKDF----GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTD 408 (493)
Q Consensus 353 ~lVf~~s~~~~~~l~~~L~~~----~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~ 408 (493)
.|||++|++.|..++..|... ++.+..+.|+|+...++++++. ...|+|||+
T Consensus 266 ~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~----~p~IVVATP 321 (731)
T KOG0347|consen 266 ALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQ----RPDIVVATP 321 (731)
T ss_pred eEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhc----CCCEEEecc
Confidence 899999999999999998753 8999999999999999999976 557999996
No 413
>PRK10436 hypothetical protein; Provisional
Probab=92.33 E-value=0.16 Score=50.56 Aligned_cols=25 Identities=24% Similarity=0.426 Sum_probs=19.6
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVD 166 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~ 166 (493)
.-++++||||||||.. +..++..+.
T Consensus 219 GliLvtGpTGSGKTTt-L~a~l~~~~ 243 (462)
T PRK10436 219 GLILVTGPTGSGKTVT-LYSALQTLN 243 (462)
T ss_pred CeEEEECCCCCChHHH-HHHHHHhhC
Confidence 5799999999999986 355666653
No 414
>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=92.33 E-value=0.58 Score=51.00 Aligned_cols=21 Identities=24% Similarity=0.259 Sum_probs=17.1
Q ss_pred CCCCccEEEeccCCCchhHHh
Q 011104 137 TPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 137 ~~~~~~viv~a~TGsGKT~~~ 157 (493)
++...+.++.||+|+|||...
T Consensus 191 r~~~~n~lL~G~pGvGKT~l~ 211 (852)
T TIGR03346 191 RRTKNNPVLIGEPGVGKTAIV 211 (852)
T ss_pred cCCCCceEEEcCCCCCHHHHH
Confidence 333478999999999999864
No 415
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=92.28 E-value=0.085 Score=47.73 Aligned_cols=14 Identities=36% Similarity=0.617 Sum_probs=12.5
Q ss_pred EEEeccCCCchhHH
Q 011104 143 LIAQARNGSGKTTC 156 (493)
Q Consensus 143 viv~a~TGsGKT~~ 156 (493)
++|.|+.|||||..
T Consensus 1 ~vv~G~pGsGKSt~ 14 (234)
T PF01443_consen 1 IVVHGVPGSGKSTL 14 (234)
T ss_pred CEEEcCCCCCHHHH
Confidence 47899999999985
No 416
>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=92.24 E-value=0.23 Score=45.07 Aligned_cols=52 Identities=12% Similarity=0.167 Sum_probs=36.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
..+++.|++|+|||...+-.+...+. .+.++++++ +.+-..|+.+.+..++.
T Consensus 22 s~~lI~G~pGsGKT~la~~~l~~~~~---~ge~~lyvs-~ee~~~~i~~~~~~~g~ 73 (237)
T TIGR03877 22 NVVLLSGGPGTGKSIFSQQFLWNGLQ---MGEPGIYVA-LEEHPVQVRRNMAQFGW 73 (237)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHH---cCCcEEEEE-eeCCHHHHHHHHHHhCC
Confidence 78999999999999876554554442 355778877 44556677776666553
No 417
>PRK09354 recA recombinase A; Provisional
Probab=92.20 E-value=0.36 Score=45.99 Aligned_cols=42 Identities=21% Similarity=0.097 Sum_probs=30.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI 185 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~ 185 (493)
+-+.+.||+|||||...+..+.+.. ..+..++++..-..+-.
T Consensus 61 ~IteI~G~~GsGKTtLal~~~~~~~---~~G~~~~yId~E~s~~~ 102 (349)
T PRK09354 61 RIVEIYGPESSGKTTLALHAIAEAQ---KAGGTAAFIDAEHALDP 102 (349)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEECCccchHH
Confidence 7899999999999998665555443 23567788876555543
No 418
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=92.07 E-value=0.14 Score=51.96 Aligned_cols=41 Identities=20% Similarity=0.286 Sum_probs=33.4
Q ss_pred CCchHHHhhhhhhc----CCCCccEEEeccCCCchhHHhHHHHHhcc
Q 011104 123 KPSKIQAISLPMIL----TPPYRNLIAQARNGSGKTTCFVLGMLSRV 165 (493)
Q Consensus 123 ~~~~~Q~~~i~~il----~~~~~~viv~a~TGsGKT~~~~~~~l~~l 165 (493)
+|+.||...+..+. .| +--|..+|||+|||+..+-.++..+
T Consensus 15 ~PYdIQ~~lM~elyrvLe~G--kIgIfESPTGTGKSLSLiCaaltWL 59 (821)
T KOG1133|consen 15 TPYDIQEDLMRELYRVLEEG--KIGIFESPTGTGKSLSLICAALTWL 59 (821)
T ss_pred CchhHHHHHHHHHHHHHhcC--CeeeeeCCCCCCchHHHHHHHHHHH
Confidence 48889987776553 46 8899999999999999887777666
No 419
>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=92.07 E-value=0.39 Score=45.31 Aligned_cols=42 Identities=21% Similarity=0.125 Sum_probs=28.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI 185 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~ 185 (493)
+-+.+.||+|||||...+..+.+... .+..++++-.-..+..
T Consensus 56 ~iteI~G~~GsGKTtLaL~~~~~~~~---~g~~v~yId~E~~~~~ 97 (321)
T TIGR02012 56 RIIEIYGPESSGKTTLALHAIAEAQK---AGGTAAFIDAEHALDP 97 (321)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHH---cCCcEEEEcccchhHH
Confidence 78999999999999876554444332 3556777765444433
No 420
>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=92.05 E-value=0.79 Score=51.45 Aligned_cols=76 Identities=14% Similarity=0.276 Sum_probs=57.2
Q ss_pred cCCcEEEEcCChhhHHHHHHHHHhC----CCcE---EEecCCCCHHHHHHHHHHHHcCCCcEEEEeCcc-ccCCC-CC-C
Q 011104 349 KMGQTIIFVRTKNSASALHKALKDF----GYEV---TTIMGATIQEERDKIVKEFKDGLTQVLISTDVL-ARGFD-QQ-Q 418 (493)
Q Consensus 349 ~~~~~lVf~~s~~~~~~l~~~L~~~----~~~~---~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~-~~Gld-i~-~ 418 (493)
.+.++||.+++++.+.+++..+... ++.+ ..+||+++..++...++.+.+|...|||+|... ...++ +. .
T Consensus 120 ~g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~l~~~ 199 (1171)
T TIGR01054 120 KGKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDELGPK 199 (1171)
T ss_pred cCCeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHHhcCC
Confidence 3678999999999999998887754 4443 468999999999999999999999999999632 11111 11 5
Q ss_pred CCEEEE
Q 011104 419 VNLIVN 424 (493)
Q Consensus 419 v~~Vi~ 424 (493)
++++|.
T Consensus 200 ~~~iVv 205 (1171)
T TIGR01054 200 FDFIFV 205 (1171)
T ss_pred CCEEEE
Confidence 667664
No 421
>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=92.01 E-value=1.8 Score=36.27 Aligned_cols=54 Identities=11% Similarity=0.184 Sum_probs=34.8
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHH
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFV 300 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~ 300 (493)
...+++|||||+-..+. .++.+ ...++..+...+...-+|+.+-.+|+.+.+.+
T Consensus 93 ~~~~dLlVLDEi~~a~~-~gli~-~~~v~~ll~~rp~~~evIlTGr~~p~~l~e~A 146 (159)
T cd00561 93 SGEYDLVILDEINYALG-YGLLD-VEEVVDLLKAKPEDLELVLTGRNAPKELIEAA 146 (159)
T ss_pred cCCCCEEEEechHhHhh-CCCCC-HHHHHHHHHcCCCCCEEEEECCCCCHHHHHhC
Confidence 46789999999988765 34432 33445555554446667777777777776543
No 422
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=91.99 E-value=0.9 Score=46.38 Aligned_cols=68 Identities=22% Similarity=0.453 Sum_probs=55.7
Q ss_pred EEEEcCChhhHHHHHHHHHhC-----CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeC-----ccccC-CCCCCCCE
Q 011104 353 TIIFVRTKNSASALHKALKDF-----GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTD-----VLARG-FDQQQVNL 421 (493)
Q Consensus 353 ~lVf~~s~~~~~~l~~~L~~~-----~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~-----~~~~G-ldi~~v~~ 421 (493)
+||+++|++.|..+++.+... ++.+..++|+++...+...++ .| ..|||+|+ .+.++ +++..+.+
T Consensus 102 aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~~l~---~~-~~ivVaTPGRllD~i~~~~l~l~~v~~ 177 (513)
T COG0513 102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALK---RG-VDIVVATPGRLLDLIKRGKLDLSGVET 177 (513)
T ss_pred eEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHHHHHh---cC-CCEEEECccHHHHHHHcCCcchhhcCE
Confidence 999999999999998887643 577899999998877775554 46 89999995 45566 88989999
Q ss_pred EEE
Q 011104 422 IVN 424 (493)
Q Consensus 422 Vi~ 424 (493)
+|.
T Consensus 178 lVl 180 (513)
T COG0513 178 LVL 180 (513)
T ss_pred EEe
Confidence 885
No 423
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=91.94 E-value=0.76 Score=43.97 Aligned_cols=40 Identities=25% Similarity=0.379 Sum_probs=27.3
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++||||+|.|... ....+++.+...++...+++.|
T Consensus 108 ~~~~kvviI~~a~~~~~~-----a~NaLLK~LEEPp~~~~~Il~t 147 (329)
T PRK08058 108 ESNKKVYIIEHADKMTAS-----AANSLLKFLEEPSGGTTAILLT 147 (329)
T ss_pred ccCceEEEeehHhhhCHH-----HHHHHHHHhcCCCCCceEEEEe
Confidence 457899999999988752 3456777777655455555533
No 424
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=91.92 E-value=0.3 Score=47.23 Aligned_cols=26 Identities=15% Similarity=0.153 Sum_probs=19.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDP 167 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~ 167 (493)
+.+++.|++|+|||.... .+...+..
T Consensus 169 q~~~IvG~~g~GKTtL~~-~i~~~I~~ 194 (415)
T TIGR00767 169 QRGLIVAPPKAGKTVLLQ-KIAQAITR 194 (415)
T ss_pred CEEEEECCCCCChhHHHH-HHHHhhcc
Confidence 899999999999998633 34444443
No 425
>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=91.92 E-value=0.13 Score=46.30 Aligned_cols=25 Identities=20% Similarity=0.413 Sum_probs=18.4
Q ss_pred CccEEEeccCCCchhHHhHHHHHhcc
Q 011104 140 YRNLIAQARNGSGKTTCFVLGMLSRV 165 (493)
Q Consensus 140 ~~~viv~a~TGsGKT~~~~~~~l~~l 165 (493)
.+.+++.||.|+|||.. +--++..+
T Consensus 20 ~~~~~l~G~rg~GKTsL-l~~~~~~~ 44 (234)
T PF01637_consen 20 SQHILLYGPRGSGKTSL-LKEFINEL 44 (234)
T ss_dssp SSEEEEEESTTSSHHHH-HHHHHHHC
T ss_pred CcEEEEEcCCcCCHHHH-HHHHHHHh
Confidence 37899999999999985 33344443
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=91.83 E-value=0.24 Score=51.03 Aligned_cols=40 Identities=20% Similarity=0.243 Sum_probs=25.8
Q ss_pred hHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccC
Q 011104 126 KIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVD 166 (493)
Q Consensus 126 ~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~ 166 (493)
+-|...+..++...+.-++++||||||||.. +..++..+.
T Consensus 302 ~~~~~~l~~~~~~~~Glilv~G~tGSGKTTt-l~a~l~~~~ 341 (564)
T TIGR02538 302 PDQKALFLEAIHKPQGMVLVTGPTGSGKTVS-LYTALNILN 341 (564)
T ss_pred HHHHHHHHHHHHhcCCeEEEECCCCCCHHHH-HHHHHHhhC
Confidence 3444444444443225789999999999987 455666653
No 427
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=91.83 E-value=0.44 Score=45.88 Aligned_cols=41 Identities=24% Similarity=0.360 Sum_probs=26.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
..++++||||||||+.. ..++..+... ...+++.+--..++
T Consensus 123 g~ili~G~tGSGKTT~l-~al~~~i~~~-~~~~i~tiEdp~E~ 163 (343)
T TIGR01420 123 GLILVTGPTGSGKSTTL-ASMIDYINKN-AAGHIITIEDPIEY 163 (343)
T ss_pred cEEEEECCCCCCHHHHH-HHHHHhhCcC-CCCEEEEEcCChhh
Confidence 68999999999999863 4445444322 23456655544443
No 428
>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=91.82 E-value=0.12 Score=50.63 Aligned_cols=49 Identities=24% Similarity=0.235 Sum_probs=37.4
Q ss_pred cEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 142 NLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 142 ~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
++++.|+||||||.++++|-+-.. ...++|+=|--++........+..+
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~~-----~~s~vv~D~Kge~~~~t~~~r~~~G 49 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLTW-----PGSVVVLDPKGENFELTSEHRRALG 49 (384)
T ss_pred CeeEecCCCCCCccEEEccchhcC-----CCCEEEEccchhHHHHHHHHHHHcC
Confidence 478999999999999988876432 2467888899899877666655543
No 429
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=91.81 E-value=1.4 Score=37.34 Aligned_cols=55 Identities=16% Similarity=0.334 Sum_probs=34.7
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHH
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVT 301 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~ 301 (493)
-..+++|||||+-..+. .++-+ ...++..+...++..-+|+..-..|+.+.+.+.
T Consensus 95 ~~~~DlvVLDEi~~A~~-~gli~-~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~AD 149 (173)
T TIGR00708 95 DPELDLVLLDELTYALK-YGYLD-VEEVVEALQERPGHQHVIITGRGCPQDLLELAD 149 (173)
T ss_pred cCCCCEEEehhhHHHHH-CCCcC-HHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCc
Confidence 45789999999987776 35533 234455555544455666666666776665443
No 430
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=91.79 E-value=0.21 Score=47.59 Aligned_cols=40 Identities=23% Similarity=0.375 Sum_probs=27.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELA 184 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La 184 (493)
.+++++|+||||||.. +-.++..+.. ..+++.+=-+.|+.
T Consensus 161 ~nili~G~tgSGKTTl-l~aL~~~ip~---~~ri~tiEd~~El~ 200 (332)
T PRK13900 161 KNIIISGGTSTGKTTF-TNAALREIPA---IERLITVEDAREIV 200 (332)
T ss_pred CcEEEECCCCCCHHHH-HHHHHhhCCC---CCeEEEecCCCccc
Confidence 8999999999999985 4455555532 34566655555553
No 431
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=91.78 E-value=3 Score=39.07 Aligned_cols=136 Identities=19% Similarity=0.264 Sum_probs=76.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc-CC-HHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC-PT-RELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~-Pt-~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
..+++.|-.|+|||+... =|++... ..+.++++.+ -| |+-|.. .++.|+..+++.+.... .+.
T Consensus 140 ~Vil~vGVNG~GKTTTIa--KLA~~l~-~~g~~VllaA~DTFRAaAiE---QL~~w~er~gv~vI~~~--~G~------- 204 (340)
T COG0552 140 FVILFVGVNGVGKTTTIA--KLAKYLK-QQGKSVLLAAGDTFRAAAIE---QLEVWGERLGVPVISGK--EGA------- 204 (340)
T ss_pred EEEEEEecCCCchHhHHH--HHHHHHH-HCCCeEEEEecchHHHHHHH---HHHHHHHHhCCeEEccC--CCC-------
Confidence 568999999999998632 2333222 2344555554 33 444433 33444444444332211 110
Q ss_pred CCCCCCcEEEeCchHH-HHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCC---CeeEEEEeeecCh
Q 011104 219 RPPVTAQVVIGTPGTI-KKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSG---HCQVLLFSATFNE 294 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l-~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~---~~q~v~~SAT~~~ 294 (493)
.|..+ .+-++.. .-.++++|++|=|-||-...+..+.+..|.+.+.+..+ ..-++.+-||.-.
T Consensus 205 -----------DpAaVafDAi~~A--kar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGq 271 (340)
T COG0552 205 -----------DPAAVAFDAIQAA--KARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQ 271 (340)
T ss_pred -----------CcHHHHHHHHHHH--HHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccCh
Confidence 22222 2223322 24668899999999998766677777777776655432 2244555899877
Q ss_pred hHHHHHHHHh
Q 011104 295 TVKNFVTRIV 304 (493)
Q Consensus 295 ~~~~~~~~~~ 304 (493)
+...-++.|-
T Consensus 272 nal~QAk~F~ 281 (340)
T COG0552 272 NALSQAKIFN 281 (340)
T ss_pred hHHHHHHHHH
Confidence 7666566553
No 432
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=91.71 E-value=1.3 Score=36.52 Aligned_cols=24 Identities=29% Similarity=0.380 Sum_probs=18.2
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVD 166 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~ 166 (493)
..+.+.|+.|+|||.. +-++..+.
T Consensus 27 e~~~i~G~nGsGKStL--l~~l~G~~ 50 (144)
T cd03221 27 DRIGLVGRNGAGKSTL--LKLIAGEL 50 (144)
T ss_pred CEEEEECCCCCCHHHH--HHHHcCCC
Confidence 7899999999999984 44444443
No 433
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=91.50 E-value=1.4 Score=45.16 Aligned_cols=81 Identities=19% Similarity=0.295 Sum_probs=67.2
Q ss_pred HHhcccCCcEEEEcCChhhHHH----HHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCc-cccCCCCCC
Q 011104 344 FELGEKMGQTIIFVRTKNSASA----LHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDV-LARGFDQQQ 418 (493)
Q Consensus 344 ~~~~~~~~~~lVf~~s~~~~~~----l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~-~~~Gldi~~ 418 (493)
......+..+..-++|.=-|+. +.++|...|+.+..+.|.+....|..+++...+|...++|.|-+ +...+++.+
T Consensus 305 l~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V~F~~ 384 (677)
T COG1200 305 LAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKVEFHN 384 (677)
T ss_pred HHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhcceeecc
Confidence 3344457788999999665554 45566667999999999999999999999999999999999965 678999999
Q ss_pred CCEEEE
Q 011104 419 VNLIVN 424 (493)
Q Consensus 419 v~~Vi~ 424 (493)
..+||.
T Consensus 385 LgLVIi 390 (677)
T COG1200 385 LGLVII 390 (677)
T ss_pred eeEEEE
Confidence 999885
No 434
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=91.49 E-value=0.44 Score=43.32 Aligned_cols=41 Identities=17% Similarity=0.330 Sum_probs=26.3
Q ss_pred CchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHh
Q 011104 230 TPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDI 276 (493)
Q Consensus 230 Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~ 276 (493)
-|+-|..++.+ +..-+++.+||.|++.. .-.+.++-.+..+
T Consensus 90 K~gDlaaiLt~----Le~~DVLFIDEIHrl~~--~vEE~LYpaMEDf 130 (332)
T COG2255 90 KPGDLAAILTN----LEEGDVLFIDEIHRLSP--AVEEVLYPAMEDF 130 (332)
T ss_pred ChhhHHHHHhc----CCcCCeEEEehhhhcCh--hHHHHhhhhhhhe
Confidence 46666666654 55567899999999875 3344444444433
No 435
>CHL00095 clpC Clp protease ATP binding subunit
Probab=91.47 E-value=0.63 Score=50.51 Aligned_cols=19 Identities=32% Similarity=0.244 Sum_probs=16.3
Q ss_pred CccEEEeccCCCchhHHhH
Q 011104 140 YRNLIAQARNGSGKTTCFV 158 (493)
Q Consensus 140 ~~~viv~a~TGsGKT~~~~ 158 (493)
.+++++.||+|+|||...-
T Consensus 200 ~~n~lL~G~pGvGKTal~~ 218 (821)
T CHL00095 200 KNNPILIGEPGVGKTAIAE 218 (821)
T ss_pred cCCeEEECCCCCCHHHHHH
Confidence 3689999999999998753
No 436
>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=91.40 E-value=0.24 Score=45.97 Aligned_cols=40 Identities=30% Similarity=0.468 Sum_probs=28.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTREL 183 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L 183 (493)
.+++++|+||||||... -.++..+... ..+++++-.+.|+
T Consensus 128 ~~ili~G~tGSGKTT~l-~all~~i~~~--~~~iv~iEd~~E~ 167 (270)
T PF00437_consen 128 GNILISGPTGSGKTTLL-NALLEEIPPE--DERIVTIEDPPEL 167 (270)
T ss_dssp EEEEEEESTTSSHHHHH-HHHHHHCHTT--TSEEEEEESSS-S
T ss_pred eEEEEECCCccccchHH-HHHhhhcccc--ccceEEeccccce
Confidence 89999999999999873 4455555433 3567777666654
No 437
>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=91.26 E-value=0.33 Score=48.92 Aligned_cols=40 Identities=25% Similarity=0.361 Sum_probs=25.6
Q ss_pred hHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccC
Q 011104 126 KIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVD 166 (493)
Q Consensus 126 ~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~ 166 (493)
+-|...+..++...+.-++++||||||||.. +..++..+.
T Consensus 228 ~~~~~~l~~~~~~~~GlilitGptGSGKTTt-L~a~L~~l~ 267 (486)
T TIGR02533 228 PELLSRFERLIRRPHGIILVTGPTGSGKTTT-LYAALSRLN 267 (486)
T ss_pred HHHHHHHHHHHhcCCCEEEEEcCCCCCHHHH-HHHHHhccC
Confidence 3344444444443224589999999999986 444666664
No 438
>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]
Probab=91.22 E-value=1 Score=45.97 Aligned_cols=144 Identities=19% Similarity=0.207 Sum_probs=77.6
Q ss_pred CCcccCCCCHHHHHHHHhhC-CCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 100 TTFEDLNLSPELLKGLYVEM-KFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 100 ~~~~~~~~~~~~~~~l~~~~-g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
..|.+..=..+....+..-. -.+.|+.+|.... .+- +-+++.+|+|+|||+.+-.-+-
T Consensus 147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGa-kiP----kGvlLvGpPGTGKTLLAkAvAg---------------- 205 (596)
T COG0465 147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGA-KIP----KGVLLVGPPGTGKTLLAKAVAG---------------- 205 (596)
T ss_pred cChhhhcCcHHHHHHHHHHHHHHhCchhhHhccc-ccc----cceeEecCCCCCcHHHHHHHhc----------------
Confidence 45665533333333333212 2346888888665 444 4599999999999985322111
Q ss_pred CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCCCCcEEEeCchHHH-HHHHcCccCCCCeeEEEEecch
Q 011104 179 PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPVTAQVVIGTPGTIK-KWMSAKKLGFSRLKILVYDEAD 257 (493)
Q Consensus 179 Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~Tp~~l~-~~l~~~~~~~~~~~~iVlDEah 257 (493)
..++......|.. =..+.|+-+.+-. ++..+..- ..-+.|++||.|
T Consensus 206 ------------------EA~VPFf~iSGS~-------------FVemfVGvGAsRVRdLF~qAkk--~aP~IIFIDEiD 252 (596)
T COG0465 206 ------------------EAGVPFFSISGSD-------------FVEMFVGVGASRVRDLFEQAKK--NAPCIIFIDEID 252 (596)
T ss_pred ------------------ccCCCceeccchh-------------hhhhhcCCCcHHHHHHHHHhhc--cCCCeEEEehhh
Confidence 1111111111111 0245555555443 33332221 123689999999
Q ss_pred hhhcccCCH---------HHHHHHHHHhhhcCCCeeEEEEeeecChhHH
Q 011104 258 HMLDEAGFR---------DDSLRIMKDIERSSGHCQVLLFSATFNETVK 297 (493)
Q Consensus 258 ~l~~~~~~~---------~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~ 297 (493)
.+....|+. ..+..++..+.....+.-++++-||-.+++.
T Consensus 253 AvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaaTNRpdVl 301 (596)
T COG0465 253 AVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVL 301 (596)
T ss_pred hcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEecCCCcccc
Confidence 887644322 3445555555555555678999999766654
No 439
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=91.08 E-value=2.5 Score=44.57 Aligned_cols=43 Identities=14% Similarity=0.140 Sum_probs=30.5
Q ss_pred CeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC
Q 011104 247 RLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN 293 (493)
Q Consensus 247 ~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~ 293 (493)
+.-++|+|+.|.+.+. .....+..+++..+. +...++.|-+-|
T Consensus 129 ~pl~LVlDDyHli~~~-~l~~~l~fLl~~~P~---~l~lvv~SR~rP 171 (894)
T COG2909 129 GPLYLVLDDYHLISDP-ALHEALRFLLKHAPE---NLTLVVTSRSRP 171 (894)
T ss_pred CceEEEeccccccCcc-cHHHHHHHHHHhCCC---CeEEEEEeccCC
Confidence 3458999999999873 344455566666655 788888887754
No 440
>PRK08939 primosomal protein DnaI; Reviewed
Probab=91.06 E-value=1.5 Score=41.42 Aligned_cols=17 Identities=24% Similarity=0.317 Sum_probs=15.2
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
+.+++.|++|+|||...
T Consensus 157 ~gl~L~G~~G~GKThLa 173 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLL 173 (306)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 68999999999999863
No 441
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=91.03 E-value=0.18 Score=46.47 Aligned_cols=17 Identities=35% Similarity=0.436 Sum_probs=15.3
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
.|+++.||||||||+.+
T Consensus 98 SNILLiGPTGsGKTlLA 114 (408)
T COG1219 98 SNILLIGPTGSGKTLLA 114 (408)
T ss_pred ccEEEECCCCCcHHHHH
Confidence 68999999999999854
No 442
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=91.01 E-value=0.49 Score=40.21 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=16.2
Q ss_pred cEEEeccCCCchhHHhHHHHHhcc
Q 011104 142 NLIAQARNGSGKTTCFVLGMLSRV 165 (493)
Q Consensus 142 ~viv~a~TGsGKT~~~~~~~l~~l 165 (493)
++++.|+.|+|||+.. .-+++.+
T Consensus 1 ~i~iTG~pG~GKTTll-~k~i~~l 23 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLL-KKVIEEL 23 (168)
T ss_dssp EEEEES-TTSSHHHHH-HHHHHHH
T ss_pred CEEEECcCCCCHHHHH-HHHHHHh
Confidence 4799999999999873 4444444
No 443
>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=91.01 E-value=0.2 Score=50.79 Aligned_cols=51 Identities=27% Similarity=0.329 Sum_probs=39.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
.++++.|+||||||..+.+|.+-.. ...++|+=|--+|........++.+.
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll~~-----~~s~iV~D~KgEl~~~t~~~r~~~G~ 95 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLLNY-----PGSMIVTDPKGELYEKTAGYRKKRGY 95 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHHhc-----cCCEEEEECCCcHHHHHHHHHHHCCC
Confidence 4699999999999999999987432 22577778998998877776666553
No 444
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=90.97 E-value=0.23 Score=51.27 Aligned_cols=50 Identities=22% Similarity=0.075 Sum_probs=40.7
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
+++++.||||||||..+.+|-+-.. +..++|+=|--|+........++.+
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL~~-----~~S~VV~DpKGEl~~~Ta~~R~~~G 208 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLLFW-----EDSVVVHDIKLENYELTSGWREKQG 208 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHHhC-----CCCEEEEeCcHHHHHHHHHHHHHCC
Confidence 6899999999999999999988653 2357888899999888777766653
No 445
>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=90.93 E-value=3.7 Score=39.72 Aligned_cols=109 Identities=13% Similarity=0.081 Sum_probs=57.3
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRP 220 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (493)
+.+.+.|+.|.|||+..-+ ..+.+.. ..+.+ ++-.+....++..+..+...
T Consensus 63 ~GlYl~G~vG~GKT~Lmd~-f~~~lp~-~~k~R----~HFh~Fm~~vh~~l~~~~~~----------------------- 113 (362)
T PF03969_consen 63 KGLYLWGPVGRGKTMLMDL-FYDSLPI-KRKRR----VHFHEFMLDVHSRLHQLRGQ----------------------- 113 (362)
T ss_pred ceEEEECCCCCchhHHHHH-HHHhCCc-ccccc----ccccHHHHHHHHHHHHHhCC-----------------------
Confidence 7899999999999985222 2333322 11111 23345666666666665410
Q ss_pred CCCCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChh
Q 011104 221 PVTAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNET 295 (493)
Q Consensus 221 ~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~ 295 (493)
.+- -..+.+.+ .....+|++||.|.-.- +-.-.+..++..+-.. +.-+|+.|-+.|.+
T Consensus 114 ---~~~----l~~va~~l------~~~~~lLcfDEF~V~Di--aDAmil~rLf~~l~~~--gvvlVaTSN~~P~~ 171 (362)
T PF03969_consen 114 ---DDP----LPQVADEL------AKESRLLCFDEFQVTDI--ADAMILKRLFEALFKR--GVVLVATSNRPPED 171 (362)
T ss_pred ---Ccc----HHHHHHHH------HhcCCEEEEeeeeccch--hHHHHHHHHHHHHHHC--CCEEEecCCCChHH
Confidence 000 01111212 34456899999995321 2222344555555442 55677777777644
No 446
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=90.84 E-value=0.45 Score=44.93 Aligned_cols=42 Identities=19% Similarity=0.073 Sum_probs=29.7
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI 185 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~ 185 (493)
+-+.+.||+|||||...+..+.+.. ..+..++++.+-..+-.
T Consensus 56 ~iteI~Gp~GsGKTtLal~~~~~~~---~~g~~~vyId~E~~~~~ 97 (325)
T cd00983 56 RIIEIYGPESSGKTTLALHAIAEAQ---KLGGTVAFIDAEHALDP 97 (325)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHH---HcCCCEEEECccccHHH
Confidence 7899999999999987655444433 23567888876555543
No 447
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=90.83 E-value=2.7 Score=39.05 Aligned_cols=42 Identities=33% Similarity=0.339 Sum_probs=29.5
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
-...+++|+|+||.|.. .....+++.+...+++.-++++|..
T Consensus 93 e~~~kv~ii~~ad~mt~-----~AaNaLLK~LEEPp~~~~fiL~~~~ 134 (290)
T PRK05917 93 ESPYKIYIIHEADRMTL-----DAISAFLKVLEDPPQHGVIILTSAK 134 (290)
T ss_pred CCCceEEEEechhhcCH-----HHHHHHHHHhhcCCCCeEEEEEeCC
Confidence 46789999999999875 3355667777665556666666555
No 448
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=90.79 E-value=1.3 Score=38.04 Aligned_cols=25 Identities=32% Similarity=0.406 Sum_probs=19.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDP 167 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~ 167 (493)
..+.+.|+.|+|||+. +-++..+..
T Consensus 29 e~~~i~G~nGsGKStL--l~~l~G~~~ 53 (178)
T cd03247 29 EKIALLGRSGSGKSTL--LQLLTGDLK 53 (178)
T ss_pred CEEEEECCCCCCHHHH--HHHHhccCC
Confidence 8899999999999984 444555543
No 449
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=90.74 E-value=0.18 Score=47.03 Aligned_cols=56 Identities=14% Similarity=0.111 Sum_probs=40.4
Q ss_pred CCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcC
Q 011104 121 FQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICP 179 (493)
Q Consensus 121 ~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~P 179 (493)
+.-.++.|..=+..+... .-++..||-|+|||+.+...+...+... .-.++|..=|
T Consensus 126 I~~kt~~Q~~y~eai~~~--di~fGiGpAGTGKTyLava~av~al~~~-~v~rIiLtRP 181 (348)
T COG1702 126 IIPKTPGQNMYPEAIEEH--DIVFGIGPAGTGKTYLAVAKAVDALGAG-QVRRIILTRP 181 (348)
T ss_pred eEecChhHHHHHHHHHhc--CeeeeecccccCChhhhHHhHhhhhhhc-ccceeeecCc
Confidence 455688899888888886 7789999999999998776666665432 2224444446
No 450
>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=90.62 E-value=4.3 Score=34.49 Aligned_cols=86 Identities=12% Similarity=0.055 Sum_probs=49.7
Q ss_pred EEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCCC
Q 011104 143 LIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPPV 222 (493)
Q Consensus 143 viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 222 (493)
+++.|++|||||..+.-.+.. .+.+++++.-.+.+-..+.+.+.+.-..-+
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~------~~~~~~y~at~~~~d~em~~rI~~H~~~R~----------------------- 52 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE------LGGPVTYIATAEAFDDEMAERIARHRKRRP----------------------- 52 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh------cCCCeEEEEccCcCCHHHHHHHHHHHHhCC-----------------------
Confidence 588999999999875544332 344678887666665555555544211100
Q ss_pred CCcEEEeCchHHHHHHHcCccCCCCeeEEEEecchhhhc
Q 011104 223 TAQVVIGTPGTIKKWMSAKKLGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 223 ~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~iVlDEah~l~~ 261 (493)
..=..+-+|..|...+.... ..+.|+||=...+..
T Consensus 53 ~~w~t~E~~~~l~~~l~~~~----~~~~VLIDclt~~~~ 87 (169)
T cd00544 53 AHWRTIETPRDLVSALKELD----PGDVVLIDCLTLWVT 87 (169)
T ss_pred CCceEeecHHHHHHHHHhcC----CCCEEEEEcHhHHHH
Confidence 01133445666666664321 344788887766544
No 451
>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=90.53 E-value=1.4 Score=48.00 Aligned_cols=30 Identities=20% Similarity=0.267 Sum_probs=21.1
Q ss_pred HHhhhhhhc----CCCCccEEEeccCCCchhHHh
Q 011104 128 QAISLPMIL----TPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 128 Q~~~i~~il----~~~~~~viv~a~TGsGKT~~~ 157 (493)
|...|..++ ++...++++.||+|+|||...
T Consensus 192 r~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~ 225 (852)
T TIGR03345 192 RDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVV 225 (852)
T ss_pred CHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHH
Confidence 444444443 444479999999999999864
No 452
>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=90.44 E-value=0.31 Score=42.75 Aligned_cols=39 Identities=28% Similarity=0.409 Sum_probs=23.7
Q ss_pred cEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHH
Q 011104 142 NLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRE 182 (493)
Q Consensus 142 ~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~ 182 (493)
-++++||||||||+.. ..++..+... .+.+++.+.-..+
T Consensus 3 lilI~GptGSGKTTll-~~ll~~~~~~-~~~~i~t~e~~~E 41 (198)
T cd01131 3 LVLVTGPTGSGKSTTL-AAMIDYINKN-KTHHILTIEDPIE 41 (198)
T ss_pred EEEEECCCCCCHHHHH-HHHHHHhhhc-CCcEEEEEcCCcc
Confidence 4799999999999873 3344444322 2335555544333
No 453
>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=90.42 E-value=0.69 Score=43.75 Aligned_cols=72 Identities=29% Similarity=0.317 Sum_probs=43.1
Q ss_pred CcccCCCCHHHHHHHHhhCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCC
Q 011104 101 TFEDLNLSPELLKGLYVEMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPT 180 (493)
Q Consensus 101 ~~~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt 180 (493)
.+...++++.-+.. .| .+++.|..-+..++.. .++++++|+||||||.. +.+++..+.. ..+++.+=-|
T Consensus 111 k~~~~~~t~~~l~~----~g--t~~~~~~ayL~~~ie~-~~siii~G~t~sGKTt~-lnall~~Ip~---~~rivtIEdt 179 (312)
T COG0630 111 KFSDEPITPEDLIE----YG--TISPEQAAYLWLAIEA-RKSIIICGGTASGKTTL-LNALLDFIPP---EERIVTIEDT 179 (312)
T ss_pred cCCCCCCCHHHHhh----cC--CCCHHHHHHHHHHHHc-CCcEEEECCCCCCHHHH-HHHHHHhCCc---hhcEEEEecc
Confidence 44555555554433 22 3556665544444443 28999999999999986 5666655532 3355665555
Q ss_pred HHH
Q 011104 181 REL 183 (493)
Q Consensus 181 ~~L 183 (493)
.++
T Consensus 180 ~E~ 182 (312)
T COG0630 180 PEL 182 (312)
T ss_pred ccc
Confidence 554
No 454
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=90.40 E-value=0.37 Score=54.09 Aligned_cols=54 Identities=22% Similarity=0.289 Sum_probs=43.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCC--CCCCeEEEEcCCHHHHHHHHHHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPN--LKAPQALCICPTRELAIQNLEVLRKM 194 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~--~~~~~~lil~Pt~~La~q~~~~~~~~ 194 (493)
.+++|.|..|||||.+...-++..+... ..-..+|||+.|+..+..+...+..-
T Consensus 17 ~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~~ 72 (1139)
T COG1074 17 QSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRDR 72 (1139)
T ss_pred CcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHHHHH
Confidence 7999999999999998776677666653 45568999999999999988766543
No 455
>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=90.36 E-value=0.57 Score=53.00 Aligned_cols=55 Identities=18% Similarity=0.199 Sum_probs=44.0
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
++++|.|+.|||||....--++..+........+++|+.|+.-|..+.+.+....
T Consensus 11 ~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L 65 (1141)
T TIGR02784 11 TSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRL 65 (1141)
T ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHH
Confidence 7899999999999998666666666554555689999999999999887666544
No 456
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=90.32 E-value=0.58 Score=49.65 Aligned_cols=70 Identities=24% Similarity=0.158 Sum_probs=54.5
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCC-CCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDP-NLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~-~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
.+++-|++++... . ..++|.|..|||||.+..--+...+.. ......+|.++=|+..|.++.+.+.++..
T Consensus 2 ~Ln~~Q~~av~~~-~---gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~ 72 (655)
T COG0210 2 KLNPEQREAVLHP-D---GPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLG 72 (655)
T ss_pred CCCHHHHHHHhcC-C---CCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhC
Confidence 4788999998876 2 468889999999999866655555544 23445699999999999999988888765
No 457
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=90.24 E-value=1.4 Score=41.60 Aligned_cols=17 Identities=35% Similarity=0.659 Sum_probs=15.5
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
+++++.|++|+|||...
T Consensus 65 ~~ilL~G~pGtGKTtla 81 (327)
T TIGR01650 65 RRVMVQGYHGTGKSTHI 81 (327)
T ss_pred CcEEEEeCCCChHHHHH
Confidence 88999999999999863
No 458
>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=90.19 E-value=0.7 Score=42.49 Aligned_cols=35 Identities=9% Similarity=0.107 Sum_probs=25.7
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC 178 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~ 178 (493)
.-+++.|++|+|||...+-.+.+.+. .+.++++++
T Consensus 37 s~~lI~G~pGtGKT~l~~qf~~~~a~---~Ge~vlyis 71 (259)
T TIGR03878 37 SVINITGVSDTGKSLMVEQFAVTQAS---RGNPVLFVT 71 (259)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHh---CCCcEEEEE
Confidence 78999999999999876554444332 355778877
No 459
>PRK13764 ATPase; Provisional
Probab=90.10 E-value=0.59 Score=48.02 Aligned_cols=25 Identities=16% Similarity=0.286 Sum_probs=18.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVD 166 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~ 166 (493)
.+++++|+||||||.. +..++..+.
T Consensus 258 ~~ILIsG~TGSGKTTl-l~AL~~~i~ 282 (602)
T PRK13764 258 EGILIAGAPGAGKSTF-AQALAEFYA 282 (602)
T ss_pred CEEEEECCCCCCHHHH-HHHHHHHHh
Confidence 6899999999999985 344554543
No 460
>PF12846 AAA_10: AAA-like domain
Probab=90.08 E-value=0.37 Score=45.39 Aligned_cols=42 Identities=19% Similarity=0.301 Sum_probs=29.2
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAI 185 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~ 185 (493)
+++++.|+||||||......+.+.+. .+..++|+=|..+...
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~---~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIR---RGPRVVIFDPKGDYSP 43 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHH---cCCCEEEEcCCchHHH
Confidence 68999999999999886644433332 3456777767655543
No 461
>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=90.04 E-value=0.55 Score=40.75 Aligned_cols=31 Identities=35% Similarity=0.448 Sum_probs=22.5
Q ss_pred chHHHhhhhhhcCCCCccEEEeccCCCchhHH
Q 011104 125 SKIQAISLPMILTPPYRNLIAQARNGSGKTTC 156 (493)
Q Consensus 125 ~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~ 156 (493)
++-|...+...+.. +..+++.|+||||||..
T Consensus 11 ~~~~~~~l~~~v~~-g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 11 SPLQAAYLWLAVEA-RKNILISGGTGSGKTTL 41 (186)
T ss_pred CHHHHHHHHHHHhC-CCEEEEECCCCCCHHHH
Confidence 34555555555543 28999999999999985
No 462
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=89.97 E-value=2.1 Score=35.82 Aligned_cols=43 Identities=16% Similarity=0.363 Sum_probs=26.4
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
.....++++||...-++. .....+..++..+... . ++++++..
T Consensus 96 ~~~~~i~ilDEp~~~lD~-~~~~~l~~~l~~~~~~--~-~tii~~sh 138 (157)
T cd00267 96 LLNPDLLLLDEPTSGLDP-ASRERLLELLRELAEE--G-RTVIIVTH 138 (157)
T ss_pred hcCCCEEEEeCCCcCCCH-HHHHHHHHHHHHHHHC--C-CEEEEEeC
Confidence 345789999999977663 3455566666655442 2 35555554
No 463
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=89.89 E-value=0.2 Score=42.98 Aligned_cols=39 Identities=26% Similarity=0.219 Sum_probs=26.6
Q ss_pred CCcEEEeCchHHHHHHHcCccC--CCCeeEEEEecchhhhc
Q 011104 223 TAQVVIGTPGTIKKWMSAKKLG--FSRLKILVYDEADHMLD 261 (493)
Q Consensus 223 ~~~Ilv~Tp~~l~~~l~~~~~~--~~~~~~iVlDEah~l~~ 261 (493)
.++|+|+++.-|++-.....+. ...-.+|||||||.+.+
T Consensus 119 ~adivi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 119 NADIVICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNLED 159 (174)
T ss_dssp G-SEEEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGCGG
T ss_pred cCCEEEeCHHHHhhHHHHhhhccccccCcEEEEecccchHH
Confidence 4799999998886544332221 23446899999999875
No 464
>PF10593 Z1: Z1 domain; InterPro: IPR018310 This entry represents the Z1 domain of unknown function that is found in a group of putative endonucleases. This domain is found associated with a helicase domain of superfamily type II [].
Probab=89.82 E-value=0.68 Score=41.83 Aligned_cols=77 Identities=14% Similarity=0.247 Sum_probs=55.6
Q ss_pred CCcEEEecCCCCHHHHHHHHHHHHcCC----CcEEEEeCccccCCCCCCCCEEEEccCCCCCCCCCCCCccccccccccc
Q 011104 374 GYEVTTIMGATIQEERDKIVKEFKDGL----TQVLISTDVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRA 449 (493)
Q Consensus 374 ~~~~~~l~~~~~~~~r~~~~~~f~~g~----~~vLv~T~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~ 449 (493)
++.+..++|+.+... -.|..+. ..|+|.=+.++||+.+++.........+ ...+++.||.---
T Consensus 110 ~~~v~~vNS~~~~~~-----ldy~~~~~~~~~~I~VGGn~LsRGlTleGL~vsYf~R~s--------~~~DTL~QmgRwF 176 (239)
T PF10593_consen 110 GIEVVVVNSGSSDDS-----LDYDDGENLGLNVIAVGGNKLSRGLTLEGLTVSYFLRNS--------KQYDTLMQMGRWF 176 (239)
T ss_pred CceEEEEeCCCcccc-----ccccccccCCceEEEECCccccCceeECCcEEEEecCCC--------chHHHHHHHhhcc
Confidence 678888887655433 3344443 6788999999999999999999988777 5677788875444
Q ss_pred c-cCCCcceEEEEee
Q 011104 450 G-RFGRKGVVFNLLM 463 (493)
Q Consensus 450 ~-R~g~~g~~i~l~~ 463 (493)
| |.|-.+.|-.+++
T Consensus 177 GYR~gY~dl~Ri~~~ 191 (239)
T PF10593_consen 177 GYRPGYEDLCRIYMP 191 (239)
T ss_pred cCCcccccceEEecC
Confidence 4 6665667775554
No 465
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=89.79 E-value=1.6 Score=45.03 Aligned_cols=25 Identities=28% Similarity=0.345 Sum_probs=19.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDP 167 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~ 167 (493)
+-+.+.|++|||||+. +-++..+..
T Consensus 362 ~~vaIvG~SGsGKSTL--l~lL~g~~~ 386 (529)
T TIGR02868 362 ERVAILGPSGSGKSTL--LMLLTGLLD 386 (529)
T ss_pred CEEEEECCCCCCHHHH--HHHHhcCCC
Confidence 8999999999999984 445555544
No 466
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=89.57 E-value=0.39 Score=50.19 Aligned_cols=50 Identities=16% Similarity=0.122 Sum_probs=38.9
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
+++++.||||||||..+++|-+-.. ...++|+=|--|+........++.+
T Consensus 140 ~hvlviApTgSGKgvg~VIPnLL~~-----~gS~VV~DpKGE~~~~Ta~~R~~~G 189 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVVIPTLLTF-----KGSVIALDVKGELFELTSRARKASG 189 (670)
T ss_pred ceEEEEecCCCCceeeehHhHHhcC-----CCCEEEEeCCchHHHHHHHHHHhCC
Confidence 6899999999999999999987653 2357777788888777666555543
No 467
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=89.52 E-value=3.8 Score=37.80 Aligned_cols=23 Identities=35% Similarity=0.364 Sum_probs=17.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhcc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRV 165 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l 165 (493)
+++++.|++|+|||+. +-++..+
T Consensus 112 ~~~~i~g~~g~GKttl--~~~l~~~ 134 (270)
T TIGR02858 112 LNTLIISPPQCGKTTL--LRDLARI 134 (270)
T ss_pred eEEEEEcCCCCCHHHH--HHHHhCc
Confidence 5899999999999984 3344443
No 468
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=89.48 E-value=11 Score=34.73 Aligned_cols=56 Identities=16% Similarity=0.304 Sum_probs=34.0
Q ss_pred hhhhcCCC---CccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHH
Q 011104 132 LPMILTPP---YRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKM 194 (493)
Q Consensus 132 i~~il~~~---~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~ 194 (493)
+|.+..|. .+-+++-||+|+||+..+ -++.. ......+-+.+..|+.-|+-.-.++
T Consensus 155 FPqlFtGkR~PwrgiLLyGPPGTGKSYLA--KAVAT-----EAnSTFFSvSSSDLvSKWmGESEkL 213 (439)
T KOG0739|consen 155 FPQLFTGKRKPWRGILLYGPPGTGKSYLA--KAVAT-----EANSTFFSVSSSDLVSKWMGESEKL 213 (439)
T ss_pred chhhhcCCCCcceeEEEeCCCCCcHHHHH--HHHHh-----hcCCceEEeehHHHHHHHhccHHHH
Confidence 46666663 357999999999999643 22221 1114566666667766655444443
No 469
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=89.44 E-value=2.7 Score=40.85 Aligned_cols=134 Identities=19% Similarity=0.223 Sum_probs=73.2
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEc--CCHHHHHHHHHHHHHHhcccCceeeEeecCCCCCcccccC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCIC--PTRELAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISK 218 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~--Pt~~La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (493)
..++.+|=-|||||+...= |+.+... .+.++++++ ..|.-| ++.++.++...++.+... +...
T Consensus 101 ~vImmvGLQGsGKTTt~~K--LA~~lkk-~~~kvllVaaD~~RpAA---~eQL~~La~q~~v~~f~~--~~~~------- 165 (451)
T COG0541 101 TVILMVGLQGSGKTTTAGK--LAKYLKK-KGKKVLLVAADTYRPAA---IEQLKQLAEQVGVPFFGS--GTEK------- 165 (451)
T ss_pred eEEEEEeccCCChHhHHHH--HHHHHHH-cCCceEEEecccCChHH---HHHHHHHHHHcCCceecC--CCCC-------
Confidence 4688899999999997533 2222222 455666666 345554 345555665555543211 1100
Q ss_pred CCCCCCcEEEeCchHH-HHHHHcCccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHH
Q 011104 219 RPPVTAQVVIGTPGTI-KKWMSAKKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVK 297 (493)
Q Consensus 219 ~~~~~~~Ilv~Tp~~l-~~~l~~~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~ 297 (493)
.|-.+ ..-+.. .....+++||+|-|-++--+...-+.+..|-..+.+ +--++.+-|+.-.+..
T Consensus 166 -----------~Pv~Iak~al~~--ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P---~E~llVvDam~GQdA~ 229 (451)
T COG0541 166 -----------DPVEIAKAALEK--AKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVINP---DETLLVVDAMIGQDAV 229 (451)
T ss_pred -----------CHHHHHHHHHHH--HHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcCC---CeEEEEEecccchHHH
Confidence 12111 111211 123457899999998865433333444454444443 5567777888777776
Q ss_pred HHHHHHhc
Q 011104 298 NFVTRIVK 305 (493)
Q Consensus 298 ~~~~~~~~ 305 (493)
+.+..|-.
T Consensus 230 ~~A~aF~e 237 (451)
T COG0541 230 NTAKAFNE 237 (451)
T ss_pred HHHHHHhh
Confidence 66666543
No 470
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=89.40 E-value=5.9 Score=39.20 Aligned_cols=156 Identities=19% Similarity=0.239 Sum_probs=103.9
Q ss_pred EEeCCChHHHHHHHHHHHHH-hcccCCcEEEEcCChhhHHHHHHHHHhC-CC---cEEEecCCCCHHHHHHHHHHHHcCC
Q 011104 326 KVYCPDELAKVMVIRDRIFE-LGEKMGQTIIFVRTKNSASALHKALKDF-GY---EVTTIMGATIQEERDKIVKEFKDGL 400 (493)
Q Consensus 326 ~~~~~~~~~~~~~l~~~l~~-~~~~~~~~lVf~~s~~~~~~l~~~L~~~-~~---~~~~l~~~~~~~~r~~~~~~f~~g~ 400 (493)
.+..|....|...-.-.+.. +...++++|+..+|+-.+.+-+..+.+- ++ .+..+.|..++++|...+. .
T Consensus 33 LvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~~w~---~-- 107 (542)
T COG1111 33 LVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWA---K-- 107 (542)
T ss_pred EEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeeecCCCChHHHHHHHh---h--
Confidence 44556655554432222232 2233457999999999888887777643 44 6889999999999988764 2
Q ss_pred CcEEEEe------CccccCCCCCCCCEEEEccCCCCCCCCCCCCcccccccccccccCCCcceEEE-EeeCCccHHHHHH
Q 011104 401 TQVLIST------DVLARGFDQQQVNLIVNYDPPVKHGKHLEPDCEVYLHRIGRAGRFGRKGVVFN-LLMDGDDMIIMEK 473 (493)
Q Consensus 401 ~~vLv~T------~~~~~Gldi~~v~~Vi~~~~p~~~~~~~~~s~~~y~qr~GR~~R~g~~g~~i~-l~~~~~~~~~~~~ 473 (493)
.+|+|+| |+.+--+|+.++.++|+-.+-..- .--.|+.-+-..-|..+.-..+- --+|+.+...++.
T Consensus 108 ~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAv------GnyAYv~Va~~y~~~~k~~~ilgLTASPGs~~ekI~e 181 (542)
T COG1111 108 KKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAV------GNYAYVFVAKEYLRSAKNPLILGLTASPGSDLEKIQE 181 (542)
T ss_pred CCEEEeccHHHHhHHhcCccChHHceEEEechhhhcc------CcchHHHHHHHHHHhccCceEEEEecCCCCCHHHHHH
Confidence 4699999 456667899999999954333211 11235555555555544433333 3456668888999
Q ss_pred HHHHhCCCceeecCccccc
Q 011104 474 IERYFDIKVTEVQTCTCET 492 (493)
Q Consensus 474 i~~~~~~~~~~~~~~~~~~ 492 (493)
+.+.|+++--++..+.+.|
T Consensus 182 V~~nLgIe~vevrTE~d~D 200 (542)
T COG1111 182 VVENLGIEKVEVRTEEDPD 200 (542)
T ss_pred HHHhCCcceEEEecCCCcc
Confidence 9999999888887777665
No 471
>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=89.19 E-value=4.3 Score=35.56 Aligned_cols=71 Identities=20% Similarity=0.276 Sum_probs=52.0
Q ss_pred CCcEEEEcCChhhHHHHHHHHHhC----CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCc-----c-ccCCCCCCC
Q 011104 350 MGQTIIFVRTKNSASALHKALKDF----GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDV-----L-ARGFDQQQV 419 (493)
Q Consensus 350 ~~~~lVf~~s~~~~~~l~~~L~~~----~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~-----~-~~Gldi~~v 419 (493)
+.++||.+++...+...+..+... ++.+..++|+.+.......+. +...|+|+|.. + ..-.+++++
T Consensus 69 ~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~iiv~T~~~l~~~l~~~~~~~~~l 144 (203)
T cd00268 69 GPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLK----RGPHIVVATPGRLLDLLERGKLDLSKV 144 (203)
T ss_pred CceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhc----CCCCEEEEChHHHHHHHHcCCCChhhC
Confidence 568999999999999887766544 778899999988766544432 56789999942 2 223567778
Q ss_pred CEEEE
Q 011104 420 NLIVN 424 (493)
Q Consensus 420 ~~Vi~ 424 (493)
+++|.
T Consensus 145 ~~lIv 149 (203)
T cd00268 145 KYLVL 149 (203)
T ss_pred CEEEE
Confidence 88774
No 472
>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=89.18 E-value=3.3 Score=41.45 Aligned_cols=51 Identities=16% Similarity=0.135 Sum_probs=33.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
.-+++.|++|+|||...+..+.. +.. .+.+++++..- +-..|+...+.+++
T Consensus 95 svilI~G~pGsGKTTL~lq~a~~-~a~--~g~kvlYvs~E-Es~~qi~~ra~rlg 145 (454)
T TIGR00416 95 SLILIGGDPGIGKSTLLLQVACQ-LAK--NQMKVLYVSGE-ESLQQIKMRAIRLG 145 (454)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHH-HHh--cCCcEEEEECc-CCHHHHHHHHHHcC
Confidence 78999999999999875543332 222 23468888754 44566666555553
No 473
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=89.12 E-value=4.9 Score=38.17 Aligned_cols=40 Identities=15% Similarity=0.282 Sum_probs=27.1
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEe
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFS 289 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~S 289 (493)
....+++|+|++|.|.. .....+++.+...++...+++.+
T Consensus 91 ~~~~kv~iI~~ad~m~~-----~a~naLLK~LEepp~~t~~il~~ 130 (313)
T PRK05564 91 EGDKKVIIIYNSEKMTE-----QAQNAFLKTIEEPPKGVFIILLC 130 (313)
T ss_pred cCCceEEEEechhhcCH-----HHHHHHHHHhcCCCCCeEEEEEe
Confidence 46789999999998865 23556777777655455444444
No 474
>PRK09087 hypothetical protein; Validated
Probab=89.10 E-value=2 Score=38.57 Aligned_cols=38 Identities=8% Similarity=0.143 Sum_probs=23.8
Q ss_pred eEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeec
Q 011104 249 KILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATF 292 (493)
Q Consensus 249 ~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~ 292 (493)
++|++|++|.+. .-...+..++..+... ..+ ++++++.
T Consensus 89 ~~l~iDDi~~~~---~~~~~lf~l~n~~~~~--g~~-ilits~~ 126 (226)
T PRK09087 89 GPVLIEDIDAGG---FDETGLFHLINSVRQA--GTS-LLMTSRL 126 (226)
T ss_pred CeEEEECCCCCC---CCHHHHHHHHHHHHhC--CCe-EEEECCC
Confidence 379999999763 2345677777777653 234 5555553
No 475
>CHL00176 ftsH cell division protein; Validated
Probab=89.10 E-value=3.1 Score=43.58 Aligned_cols=17 Identities=24% Similarity=0.374 Sum_probs=15.1
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
+.+++.||+|+|||+.+
T Consensus 217 ~gVLL~GPpGTGKT~LA 233 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLA 233 (638)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 57999999999999864
No 476
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=88.99 E-value=1.3 Score=37.76 Aligned_cols=42 Identities=21% Similarity=0.306 Sum_probs=26.8
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
..+.+++++||--.-++. .....+..++..+.. . .+++++..
T Consensus 112 ~~~p~llllDEP~~gLD~-~~~~~l~~~l~~~~~---~-~tii~~sh 153 (171)
T cd03228 112 LRDPPILILDEATSALDP-ETEALILEALRALAK---G-KTVIVIAH 153 (171)
T ss_pred hcCCCEEEEECCCcCCCH-HHHHHHHHHHHHhcC---C-CEEEEEec
Confidence 456789999999877663 445566666665532 3 45555544
No 477
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=88.97 E-value=4 Score=34.65 Aligned_cols=133 Identities=14% Similarity=0.153 Sum_probs=58.2
Q ss_pred EEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHH-HHHHHHHHHHHHhcccCceeeEeecCCCCCcccccCCCC
Q 011104 143 LIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRE-LAIQNLEVLRKMGKHTGITSECAVPTDSTNYVPISKRPP 221 (493)
Q Consensus 143 viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~-La~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 221 (493)
+.+--..|=|||.+++--++..+ ..+.+++|+.=.+. -..-=...+.++. ++.. ...+.
T Consensus 6 i~vytG~GKGKTTAAlGlalRA~---G~G~rV~ivQFlKg~~~~GE~~~l~~l~---~~~~--~~~g~------------ 65 (172)
T PF02572_consen 6 IQVYTGDGKGKTTAALGLALRAA---GHGMRVLIVQFLKGGRYSGELKALKKLP---NVEI--ERFGK------------ 65 (172)
T ss_dssp EEEEESSSS-HHHHHHHHHHHHH---CTT--EEEEESS--SS--HHHHHHGGGT-----EE--EE--T------------
T ss_pred EEEEeCCCCCchHHHHHHHHHHH---hCCCEEEEEEEecCCCCcCHHHHHHhCC---eEEE--EEcCC------------
Confidence 44555588899999877777665 45668888875554 1111111222221 1211 11111
Q ss_pred CCCcEEEe-Cch-----HHHHHHHc--CccCCCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecC
Q 011104 222 VTAQVVIG-TPG-----TIKKWMSA--KKLGFSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFN 293 (493)
Q Consensus 222 ~~~~Ilv~-Tp~-----~l~~~l~~--~~~~~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~ 293 (493)
..+.. .+. .....+.. ..+.-..+++|||||+-..+. .++-+ ...++..+...+...-+|+..-.+|
T Consensus 66 ---~f~~~~~~~~~~~~~~~~~~~~a~~~i~~~~~dlvILDEi~~a~~-~gll~-~~~v~~~l~~rp~~~evVlTGR~~~ 140 (172)
T PF02572_consen 66 ---GFVWRMNEEEEDRAAAREGLEEAKEAISSGEYDLVILDEINYAVD-YGLLS-EEEVLDLLENRPESLEVVLTGRNAP 140 (172)
T ss_dssp ---T----GGGHHHHHHHHHHHHHHHHHHTT-TT-SEEEEETHHHHHH-TTSS--HHHHHHHHHTS-TT-EEEEE-SS--
T ss_pred ---cccccCCCcHHHHHHHHHHHHHHHHHHhCCCCCEEEEcchHHHhH-CCCcc-HHHHHHHHHcCCCCeEEEEECCCCC
Confidence 11111 111 11111111 123346799999999998776 46643 3445555555444556666666666
Q ss_pred hhHHHHH
Q 011104 294 ETVKNFV 300 (493)
Q Consensus 294 ~~~~~~~ 300 (493)
+.+...+
T Consensus 141 ~~l~e~A 147 (172)
T PF02572_consen 141 EELIEAA 147 (172)
T ss_dssp HHHHHH-
T ss_pred HHHHHhC
Confidence 6665543
No 478
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=88.94 E-value=2.7 Score=41.85 Aligned_cols=73 Identities=19% Similarity=0.158 Sum_probs=40.3
Q ss_pred ccCCCCHHHHHHHHhhCCCCCCchHHHhhhhh-------hcC---CCCccEEEeccCCCchhHHhHHHHHhccCCCCCCC
Q 011104 103 EDLNLSPELLKGLYVEMKFQKPSKIQAISLPM-------ILT---PPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAP 172 (493)
Q Consensus 103 ~~~~~~~~~~~~l~~~~g~~~~~~~Q~~~i~~-------il~---~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~ 172 (493)
..+|++.+-+..+.. .|+-...+.-...+.. +-. ..-..+++.||.|||||..+.-.++ ....|
T Consensus 492 PAFG~see~l~~~~~-~Gmi~~g~~v~~il~~G~llv~qvk~s~~s~lvSvLl~Gp~~sGKTaLAA~iA~-----~S~FP 565 (744)
T KOG0741|consen 492 PAFGISEEDLERFVM-NGMINWGPPVTRILDDGKLLVQQVKNSERSPLVSVLLEGPPGSGKTALAAKIAL-----SSDFP 565 (744)
T ss_pred cccCCCHHHHHHHHh-CCceeecccHHHHHhhHHHHHHHhhccccCcceEEEEecCCCCChHHHHHHHHh-----hcCCC
Confidence 356888888887765 4543332222222211 111 1125799999999999975332222 23456
Q ss_pred eEEEEcCCH
Q 011104 173 QALCICPTR 181 (493)
Q Consensus 173 ~~lil~Pt~ 181 (493)
.+=|+.|..
T Consensus 566 FvKiiSpe~ 574 (744)
T KOG0741|consen 566 FVKIISPED 574 (744)
T ss_pred eEEEeChHH
Confidence 666676653
No 479
>PRK05973 replicative DNA helicase; Provisional
Probab=88.89 E-value=0.96 Score=40.70 Aligned_cols=66 Identities=14% Similarity=0.112 Sum_probs=39.8
Q ss_pred CCchHHHhhhhhhcCCCCccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCCHHHHHHHHHHHHHHh
Q 011104 123 KPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPTRELAIQNLEVLRKMG 195 (493)
Q Consensus 123 ~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~La~q~~~~~~~~~ 195 (493)
.++|... ...-+..| .-++|.|++|+|||...+-.+.+... .+.+++|++-- +-..|+.+.+..++
T Consensus 50 ~~~p~~~-l~GGl~~G--sl~LIaG~PG~GKT~lalqfa~~~a~---~Ge~vlyfSlE-es~~~i~~R~~s~g 115 (237)
T PRK05973 50 ATTPAEE-LFSQLKPG--DLVLLGARPGHGKTLLGLELAVEAMK---SGRTGVFFTLE-YTEQDVRDRLRALG 115 (237)
T ss_pred CCCCHHH-hcCCCCCC--CEEEEEeCCCCCHHHHHHHHHHHHHh---cCCeEEEEEEe-CCHHHHHHHHHHcC
Confidence 3445333 22333445 78999999999999876655554432 35567777633 22466666666553
No 480
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=88.83 E-value=1.3 Score=40.18 Aligned_cols=26 Identities=31% Similarity=0.253 Sum_probs=21.1
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPN 168 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~ 168 (493)
.-+.+.||.|||||+ ++-.+..+...
T Consensus 29 ~i~~iiGpNG~GKST--LLk~l~g~l~p 54 (258)
T COG1120 29 EITGILGPNGSGKST--LLKCLAGLLKP 54 (258)
T ss_pred cEEEEECCCCCCHHH--HHHHHhccCCC
Confidence 889999999999998 66667776543
No 481
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=88.79 E-value=3.6 Score=37.05 Aligned_cols=49 Identities=14% Similarity=0.188 Sum_probs=30.3
Q ss_pred eeEEEEecchhhhcccCCH-------HHHHHHHHHhhhcCCCeeEEEEeeecChhH
Q 011104 248 LKILVYDEADHMLDEAGFR-------DDSLRIMKDIERSSGHCQVLLFSATFNETV 296 (493)
Q Consensus 248 ~~~iVlDEah~l~~~~~~~-------~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~ 296 (493)
.+.+.+||.|.+.-+..|. +.+..++..+.....+--++...||-.+++
T Consensus 211 PcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~ 266 (368)
T COG1223 211 PCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPEL 266 (368)
T ss_pred CeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCChhh
Confidence 5678899999775433332 344555555555444556788888865544
No 482
>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=88.79 E-value=0.41 Score=45.33 Aligned_cols=17 Identities=35% Similarity=0.374 Sum_probs=14.8
Q ss_pred ccEEEeccCCCchhHHh
Q 011104 141 RNLIAQARNGSGKTTCF 157 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~ 157 (493)
..+++.||+|+|||...
T Consensus 31 ~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLA 47 (305)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 57999999999999753
No 483
>PRK07413 hypothetical protein; Validated
Probab=88.74 E-value=5.7 Score=38.31 Aligned_cols=56 Identities=11% Similarity=0.224 Sum_probs=37.3
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHHHHH
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNFVTR 302 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~~~~ 302 (493)
-..+++|||||+-..+. .++.+ ...++..+...++..-+|+..-..|+.+.+.+..
T Consensus 123 sg~ydlvILDEi~~Al~-~gll~-~eevl~~L~~rP~~~evVLTGR~ap~~Lie~ADl 178 (382)
T PRK07413 123 SGLYSVVVLDELNPVLD-LGLLP-VDEVVNTLKSRPEGLEIIITGRAAPQSLLDIADL 178 (382)
T ss_pred CCCCCEEEEehhHHHHH-CCCcc-HHHHHHHHHhCCCCCEEEEeCCCCCHHHHHhCCe
Confidence 45689999999998776 46543 3445566655555666666666677777665443
No 484
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=88.68 E-value=4.7 Score=41.10 Aligned_cols=48 Identities=21% Similarity=0.243 Sum_probs=29.4
Q ss_pred CeeEEEEecchhhhcccCC------HHHHHHHHHHhhhcCCCeeEEEEeeecCh
Q 011104 247 RLKILVYDEADHMLDEAGF------RDDSLRIMKDIERSSGHCQVLLFSATFNE 294 (493)
Q Consensus 247 ~~~~iVlDEah~l~~~~~~------~~~~~~i~~~~~~~~~~~q~v~~SAT~~~ 294 (493)
..++|.+||+|.+....+. ...+..++..+........++++-||-.+
T Consensus 335 ~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p 388 (494)
T COG0464 335 APSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRP 388 (494)
T ss_pred CCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCc
Confidence 3568999999998874443 24455555555433334456677777443
No 485
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=88.66 E-value=2.4 Score=44.15 Aligned_cols=52 Identities=15% Similarity=0.248 Sum_probs=31.5
Q ss_pred CCeeEEEEecchhhhcccCC----HH----HHHHHHHHhhhcC--CCeeEEEEeeecChhHH
Q 011104 246 SRLKILVYDEADHMLDEAGF----RD----DSLRIMKDIERSS--GHCQVLLFSATFNETVK 297 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~----~~----~~~~i~~~~~~~~--~~~q~v~~SAT~~~~~~ 297 (493)
...++|.+||.|.+--..|- .. .+..++..+.... +...++.+.||-.+++.
T Consensus 763 A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDLL 824 (953)
T KOG0736|consen 763 AAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDLL 824 (953)
T ss_pred cCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEEecCCCcccc
Confidence 45678999999987543221 12 2333444444333 34568899999777663
No 486
>PRK10263 DNA translocase FtsK; Provisional
Probab=88.60 E-value=1.5 Score=48.75 Aligned_cols=21 Identities=24% Similarity=0.344 Sum_probs=16.8
Q ss_pred ccEEEeccCCCchhHHhHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGM 161 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~ 161 (493)
.+++|.|.||||||.+.-.-+
T Consensus 1011 PHLLIAGaTGSGKSv~LntLI 1031 (1355)
T PRK10263 1011 PHLLVAGTTGSGKSVGVNAMI 1031 (1355)
T ss_pred CcEEEecCCCCCHHHHHHHHH
Confidence 589999999999999843333
No 487
>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=88.58 E-value=1.6 Score=42.68 Aligned_cols=48 Identities=23% Similarity=0.271 Sum_probs=30.8
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcCC-HHHHHHHHH
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICPT-RELAIQNLE 189 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt-~~La~q~~~ 189 (493)
..+-|+|.+|+|||.+ +.-++..+......+.++++--+ ...+..++.
T Consensus 176 gSlYVsG~PGtgkt~~-l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~ 224 (529)
T KOG2227|consen 176 GSLYVSGQPGTGKTAL-LSRVLDSLSKSSKSPVTVYINCTSLTEASAIFK 224 (529)
T ss_pred cceEeeCCCCcchHHH-HHHHHHhhhhhcccceeEEEeeccccchHHHHH
Confidence 6899999999999986 33355555555555554544433 355555554
No 488
>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=88.56 E-value=7.9 Score=35.05 Aligned_cols=55 Identities=11% Similarity=0.060 Sum_probs=31.5
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccC---------CCCCCCeEEEEcCCHHHHHHHHHHHHHHhc
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVD---------PNLKAPQALCICPTRELAIQNLEVLRKMGK 196 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~---------~~~~~~~~lil~Pt~~La~q~~~~~~~~~~ 196 (493)
.-.++.|+.|+|||...+-.+++... ....+.+++|++-- .-..++.+.+..++.
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~E-d~~~~i~~Rl~~i~~ 65 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAE-DPREEIHRRLEAILQ 65 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECC-CCHHHHHHHHHHHHh
Confidence 34689999999999876655543221 11235578888722 112234444444444
No 489
>PRK04841 transcriptional regulator MalT; Provisional
Probab=88.55 E-value=3.6 Score=45.58 Aligned_cols=44 Identities=9% Similarity=0.157 Sum_probs=27.4
Q ss_pred CeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecCh
Q 011104 247 RLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNE 294 (493)
Q Consensus 247 ~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~ 294 (493)
.--+||||++|.+.+. ...+.+..++... ++...+|+.|-+.++
T Consensus 121 ~~~~lvlDD~h~~~~~-~~~~~l~~l~~~~---~~~~~lv~~sR~~~~ 164 (903)
T PRK04841 121 QPLYLVIDDYHLITNP-EIHEAMRFFLRHQ---PENLTLVVLSRNLPP 164 (903)
T ss_pred CCEEEEEeCcCcCCCh-HHHHHHHHHHHhC---CCCeEEEEEeCCCCC
Confidence 3458999999988542 2333444444444 336788888877543
No 490
>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=88.52 E-value=1.6 Score=44.09 Aligned_cols=75 Identities=19% Similarity=0.270 Sum_probs=62.5
Q ss_pred CCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCc-cccC------C-CCCCCCE
Q 011104 350 MGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDV-LARG------F-DQQQVNL 421 (493)
Q Consensus 350 ~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~-~~~G------l-di~~v~~ 421 (493)
.+.+||.+++++.+......|...|+.+..++++.+..++..++.....|...|+++|.- +... + ....+.+
T Consensus 51 ~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~ 130 (470)
T TIGR00614 51 DGITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRLLQTLEERKGITL 130 (470)
T ss_pred CCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHcCchhHHHHHHhcCCcCE
Confidence 567999999999999999999999999999999999999999999999999999999853 2222 2 4456777
Q ss_pred EEE
Q 011104 422 IVN 424 (493)
Q Consensus 422 Vi~ 424 (493)
||.
T Consensus 131 iVi 133 (470)
T TIGR00614 131 IAV 133 (470)
T ss_pred EEE
Confidence 664
No 491
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=88.36 E-value=2.8 Score=35.72 Aligned_cols=53 Identities=19% Similarity=0.344 Sum_probs=34.7
Q ss_pred CCCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeeecChhHHHH
Q 011104 245 FSRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSATFNETVKNF 299 (493)
Q Consensus 245 ~~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT~~~~~~~~ 299 (493)
-..+++|||||+-..+. .|+-+ ...++..+...+...-+|+..-..|+.+.+.
T Consensus 113 ~~~~dlvVLDEi~~Al~-~gli~-~eeVl~~L~~rp~~~evILTGR~~p~~Lie~ 165 (178)
T PRK07414 113 EGRYSLVVLDELSLAIQ-FGLIP-ETEVLEFLEKRPSHVDVILTGPEMPESLLAI 165 (178)
T ss_pred CCCCCEEEEehhHHHHH-CCCcc-HHHHHHHHHhCCCCCEEEEECCCCCHHHHHh
Confidence 35689999999998776 46543 3445555555554556666666667766554
No 492
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=88.33 E-value=3.5 Score=45.17 Aligned_cols=92 Identities=18% Similarity=0.267 Sum_probs=74.3
Q ss_pred HHHHHHHHHHHHHhcccCCcEEEEcCChhhHHHHHHHHH----hCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEe-
Q 011104 333 LAKVMVIRDRIFELGEKMGQTIIFVRTKNSASALHKALK----DFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLIST- 407 (493)
Q Consensus 333 ~~~~~~l~~~l~~~~~~~~~~lVf~~s~~~~~~l~~~L~----~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T- 407 (493)
..|..............++.+.|.++|-=-|++-++.|+ ..++++..+..-.+.+++..+++..++|+++|+|.|
T Consensus 626 FGKTEVAmRAAFkAV~~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTH 705 (1139)
T COG1197 626 FGKTEVAMRAAFKAVMDGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTH 705 (1139)
T ss_pred CcHHHHHHHHHHHHhcCCCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEech
Confidence 445544444445555557889999999777776666555 458899999999999999999999999999999999
Q ss_pred CccccCCCCCCCCEEEE
Q 011104 408 DVLARGFDQQQVNLIVN 424 (493)
Q Consensus 408 ~~~~~Gldi~~v~~Vi~ 424 (493)
..++.++-+.++..||.
T Consensus 706 rLL~kdv~FkdLGLlII 722 (1139)
T COG1197 706 RLLSKDVKFKDLGLLII 722 (1139)
T ss_pred HhhCCCcEEecCCeEEE
Confidence 77899999999999885
No 493
>PRK05818 DNA polymerase III subunit delta'; Validated
Probab=88.27 E-value=3.2 Score=37.77 Aligned_cols=41 Identities=12% Similarity=0.149 Sum_probs=28.9
Q ss_pred CCeeEEEEecchhhhcccCCHHHHHHHHHHhhhcCCCeeEEEEeee
Q 011104 246 SRLKILVYDEADHMLDEAGFRDDSLRIMKDIERSSGHCQVLLFSAT 291 (493)
Q Consensus 246 ~~~~~iVlDEah~l~~~~~~~~~~~~i~~~~~~~~~~~q~v~~SAT 291 (493)
...+++|+|+||+|.. .....+++.+...+++.-+++.|..
T Consensus 87 ~~~KV~II~~ae~m~~-----~AaNaLLK~LEEPp~~t~fiLit~~ 127 (261)
T PRK05818 87 NGKKIYIIYGIEKLNK-----QSANSLLKLIEEPPKNTYGIFTTRN 127 (261)
T ss_pred CCCEEEEeccHhhhCH-----HHHHHHHHhhcCCCCCeEEEEEECC
Confidence 4589999999999875 3466778888775555555555543
No 494
>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=88.26 E-value=0.68 Score=41.61 Aligned_cols=36 Identities=25% Similarity=0.422 Sum_probs=24.4
Q ss_pred ccEEEeccCCCchhHHhHHHHHhccCCCCCCCeEEEEcC
Q 011104 141 RNLIAQARNGSGKTTCFVLGMLSRVDPNLKAPQALCICP 179 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~P 179 (493)
-.+++.|++|||||.. +.-++..+.... ..+++++|
T Consensus 14 fr~viIG~sGSGKT~l-i~~lL~~~~~~f--~~I~l~t~ 49 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTTL-IKSLLYYLRHKF--DHIFLITP 49 (241)
T ss_pred ceEEEECCCCCCHHHH-HHHHHHhhcccC--CEEEEEec
Confidence 3789999999999985 444555443322 45666667
No 495
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=88.24 E-value=0.62 Score=41.37 Aligned_cols=30 Identities=7% Similarity=0.201 Sum_probs=20.2
Q ss_pred hHHHHHHHcCccCCCCeeEEEEecchhhhc
Q 011104 232 GTIKKWMSAKKLGFSRLKILVYDEADHMLD 261 (493)
Q Consensus 232 ~~l~~~l~~~~~~~~~~~~iVlDEah~l~~ 261 (493)
+.+.+.+..-......++.||||.+..+..
T Consensus 66 ~~~~d~l~~~~~~~~~ydtVVIDsI~~l~~ 95 (220)
T TIGR01618 66 QAMVEFYVMQNIQAVKYDNIVIDNISALQN 95 (220)
T ss_pred HHHHHHHHHHHhccccCCEEEEecHHHHHH
Confidence 455555543333467799999999998643
No 496
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=88.18 E-value=0.63 Score=46.89 Aligned_cols=61 Identities=20% Similarity=0.257 Sum_probs=39.7
Q ss_pred CCCCCCCCCCcccCCCCHHHHHHHHh-hCCCCCCchHHHhhhhhhcCCCCccEEEeccCCCchhHHh
Q 011104 92 GDTPYTSATTFEDLNLSPELLKGLYV-EMKFQKPSKIQAISLPMILTPPYRNLIAQARNGSGKTTCF 157 (493)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~l~~-~~g~~~~~~~Q~~~i~~il~~~~~~viv~a~TGsGKT~~~ 157 (493)
+...+.+..+|+++|=-...+..|.. ..-+..|..++...+.. .+.++++||+|+|||..+
T Consensus 179 ~~~~~~snv~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~P-----prGvLlHGPPGCGKT~lA 240 (802)
T KOG0733|consen 179 GLEFPESNVSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRP-----PRGVLLHGPPGCGKTSLA 240 (802)
T ss_pred ccCCCCCCcchhhccChHHHHHHHHHHHHHhcCchhHhhcCCCC-----CCceeeeCCCCccHHHHH
Confidence 34444556689999755554444433 12366777777655432 277999999999999864
No 497
>PRK09401 reverse gyrase; Reviewed
Probab=88.13 E-value=2.7 Score=47.29 Aligned_cols=77 Identities=17% Similarity=0.343 Sum_probs=56.2
Q ss_pred ccCCcEEEEcCChhhHHHHHHHHHhC----CCcEEE--ecCCCCHHHHHHHHHHHHcCCCcEEEEeCc-cc---cCCCCC
Q 011104 348 EKMGQTIIFVRTKNSASALHKALKDF----GYEVTT--IMGATIQEERDKIVKEFKDGLTQVLISTDV-LA---RGFDQQ 417 (493)
Q Consensus 348 ~~~~~~lVf~~s~~~~~~l~~~L~~~----~~~~~~--l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~-~~---~Gldi~ 417 (493)
..+.++||.++|+.-+.++++.++.. ++.+.. .|++++..++....+.+..|...|+|+|.- +. ..+...
T Consensus 121 ~~g~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~~l~~~ 200 (1176)
T PRK09401 121 KKGKKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFDELPKK 200 (1176)
T ss_pred hcCCeEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHHhcccc
Confidence 34678999999999999999988765 344443 455666778888888999999999999942 11 134444
Q ss_pred CCCEEEE
Q 011104 418 QVNLIVN 424 (493)
Q Consensus 418 ~v~~Vi~ 424 (493)
.++++|.
T Consensus 201 ~~~~lVv 207 (1176)
T PRK09401 201 KFDFVFV 207 (1176)
T ss_pred ccCEEEE
Confidence 5777664
No 498
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=88.10 E-value=3.1 Score=42.03 Aligned_cols=70 Identities=17% Similarity=0.258 Sum_probs=53.7
Q ss_pred CcEEEEcCChhhHHHHHHHHHhC-----CCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeC-----ccc-cCCCCCCC
Q 011104 351 GQTIIFVRTKNSASALHKALKDF-----GYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTD-----VLA-RGFDQQQV 419 (493)
Q Consensus 351 ~~~lVf~~s~~~~~~l~~~L~~~-----~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~-----~~~-~Gldi~~v 419 (493)
..+||.+++++-+..+++.++.. ++.+..++|+.+...+...+. +...|+|+|. .+. ..+++.++
T Consensus 73 ~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~----~~~~IvV~Tp~rl~~~l~~~~~~l~~l 148 (460)
T PRK11776 73 VQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLE----HGAHIIVGTPGRILDHLRKGTLDLDAL 148 (460)
T ss_pred ceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHhc----CCCCEEEEChHHHHHHHHcCCccHHHC
Confidence 46899999999999998877643 678999999998766654443 5578999993 222 45778889
Q ss_pred CEEEE
Q 011104 420 NLIVN 424 (493)
Q Consensus 420 ~~Vi~ 424 (493)
++||.
T Consensus 149 ~~lVi 153 (460)
T PRK11776 149 NTLVL 153 (460)
T ss_pred CEEEE
Confidence 99885
No 499
>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=87.91 E-value=4.2 Score=42.55 Aligned_cols=75 Identities=13% Similarity=0.155 Sum_probs=61.5
Q ss_pred CCcEEEEcCChhhHHHHHHHHHhCCCcEEEecCCCCHHHHHHHHHHHHcCCCcEEEEeCccc------cCCCCCCCCEEE
Q 011104 350 MGQTIIFVRTKNSASALHKALKDFGYEVTTIMGATIQEERDKIVKEFKDGLTQVLISTDVLA------RGFDQQQVNLIV 423 (493)
Q Consensus 350 ~~~~lVf~~s~~~~~~l~~~L~~~~~~~~~l~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~------~Gldi~~v~~Vi 423 (493)
.+.++|.++++.-+......|+..|+.+..+||+++..++..++.....|...+|++|.-.- .-+...++.+||
T Consensus 53 ~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iV 132 (591)
T TIGR01389 53 KGLTVVISPLISLMKDQVDQLRAAGVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIALVA 132 (591)
T ss_pred CCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEE
Confidence 56799999999999999999999999999999999999999999999999999999884321 123334566666
Q ss_pred E
Q 011104 424 N 424 (493)
Q Consensus 424 ~ 424 (493)
.
T Consensus 133 i 133 (591)
T TIGR01389 133 V 133 (591)
T ss_pred E
Confidence 3
No 500
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=87.85 E-value=0.47 Score=32.42 Aligned_cols=16 Identities=38% Similarity=0.474 Sum_probs=14.6
Q ss_pred ccEEEeccCCCchhHH
Q 011104 141 RNLIAQARNGSGKTTC 156 (493)
Q Consensus 141 ~~viv~a~TGsGKT~~ 156 (493)
...++.+++|||||..
T Consensus 24 ~~tli~G~nGsGKSTl 39 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTL 39 (62)
T ss_pred cEEEEECCCCCCHHHH
Confidence 5799999999999985
Done!