Query 011428
Match_columns 486
No_of_seqs 498 out of 2855
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 01:15:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011428.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011428hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0346 RNA helicase [RNA proc 100.0 2E-109 5E-114 816.5 30.7 439 1-458 114-558 (569)
2 KOG0330 ATP-dependent RNA heli 100.0 7.5E-56 1.6E-60 432.1 25.6 294 7-350 152-445 (476)
3 KOG0338 ATP-dependent RNA heli 100.0 7.2E-54 1.6E-58 429.4 27.4 351 2-420 274-627 (691)
4 COG0513 SrmB Superfamily II DN 100.0 3.2E-52 6.8E-57 444.4 30.3 267 12-319 128-396 (513)
5 KOG0331 ATP-dependent RNA heli 100.0 1.6E-52 3.4E-57 432.7 26.2 269 11-319 192-463 (519)
6 KOG0333 U5 snRNP-like RNA heli 100.0 4.4E-51 9.5E-56 410.8 25.0 268 7-317 345-637 (673)
7 KOG0342 ATP-dependent RNA heli 100.0 2.9E-50 6.2E-55 403.5 29.2 329 12-393 183-515 (543)
8 KOG0328 Predicted ATP-dependen 100.0 1.8E-50 4E-55 379.5 23.6 276 3-321 114-390 (400)
9 KOG0340 ATP-dependent RNA heli 100.0 9.1E-50 2E-54 385.5 23.1 280 7-331 98-381 (442)
10 KOG0326 ATP-dependent RNA heli 100.0 1.1E-48 2.3E-53 373.0 19.5 276 2-321 171-446 (459)
11 KOG0343 RNA Helicase [RNA proc 100.0 4.6E-47 9.9E-52 383.5 28.3 268 6-314 163-433 (758)
12 PRK11634 ATP-dependent RNA hel 100.0 7.6E-45 1.7E-49 394.9 36.7 272 6-320 97-368 (629)
13 PRK04837 ATP-dependent RNA hel 100.0 2.1E-45 4.6E-50 385.5 31.2 267 9-318 108-376 (423)
14 KOG0336 ATP-dependent RNA heli 100.0 6.6E-46 1.4E-50 363.6 22.5 274 5-321 316-589 (629)
15 PRK11776 ATP-dependent RNA hel 100.0 5.8E-45 1.3E-49 386.1 30.8 264 11-318 100-363 (460)
16 KOG0345 ATP-dependent RNA heli 100.0 2E-45 4.3E-50 366.4 24.3 261 11-310 107-370 (567)
17 PTZ00110 helicase; Provisional 100.0 1.6E-44 3.4E-49 388.5 31.3 268 11-319 230-499 (545)
18 PRK10590 ATP-dependent RNA hel 100.0 1.8E-44 3.9E-49 381.5 30.8 267 9-318 100-366 (456)
19 KOG0347 RNA helicase [RNA proc 100.0 3.4E-46 7.3E-51 377.2 16.7 293 9-348 288-608 (731)
20 PLN00206 DEAD-box ATP-dependen 100.0 9.1E-44 2E-48 381.1 30.5 270 7-319 219-490 (518)
21 PRK04537 ATP-dependent RNA hel 100.0 8.6E-44 1.9E-48 384.2 30.1 268 9-318 109-378 (572)
22 PRK11192 ATP-dependent RNA hel 100.0 3.8E-43 8.2E-48 369.7 32.4 266 9-317 98-365 (434)
23 KOG0335 ATP-dependent RNA heli 100.0 3.8E-44 8.2E-49 364.8 21.9 270 11-322 179-462 (482)
24 KOG0341 DEAD-box protein abstr 100.0 1.7E-44 3.7E-49 351.6 12.4 262 11-316 279-541 (610)
25 KOG0339 ATP-dependent RNA heli 100.0 7.3E-43 1.6E-47 349.9 24.0 269 9-319 321-590 (731)
26 KOG0348 ATP-dependent RNA heli 100.0 6.7E-43 1.5E-47 352.4 21.1 270 13-318 241-568 (708)
27 PRK01297 ATP-dependent RNA hel 100.0 1.9E-41 4.1E-46 360.5 31.9 267 10-319 188-457 (475)
28 KOG0327 Translation initiation 100.0 2.9E-42 6.2E-47 337.8 22.5 269 8-321 118-387 (397)
29 PTZ00424 helicase 45; Provisio 100.0 5.5E-40 1.2E-44 342.0 31.2 267 9-318 121-388 (401)
30 KOG0332 ATP-dependent RNA heli 100.0 5.5E-41 1.2E-45 326.3 20.3 272 5-321 181-461 (477)
31 KOG0350 DEAD-box ATP-dependent 100.0 1.1E-40 2.3E-45 334.5 22.0 276 3-317 235-553 (620)
32 KOG4284 DEAD box protein [Tran 100.0 7.2E-40 1.6E-44 335.9 20.9 260 3-306 113-381 (980)
33 KOG0337 ATP-dependent RNA heli 100.0 3E-40 6.6E-45 325.4 14.8 274 5-320 111-384 (529)
34 KOG0334 RNA helicase [RNA proc 100.0 6E-39 1.3E-43 347.1 23.2 273 4-316 459-732 (997)
35 PLN03137 ATP-dependent DNA hel 100.0 3.5E-36 7.7E-41 333.0 28.8 255 12-310 524-793 (1195)
36 TIGR00614 recQ_fam ATP-depende 100.0 3.8E-35 8.3E-40 311.4 27.5 256 11-312 74-341 (470)
37 TIGR03817 DECH_helic helicase/ 100.0 2.8E-35 6.1E-40 325.9 26.0 263 11-318 107-402 (742)
38 KOG0344 ATP-dependent RNA heli 100.0 2E-36 4.4E-41 310.3 14.5 250 28-318 256-509 (593)
39 PRK11057 ATP-dependent DNA hel 100.0 1.5E-33 3.3E-38 307.3 27.9 251 12-311 89-350 (607)
40 TIGR02621 cas3_GSU0051 CRISPR- 100.0 7.1E-33 1.5E-37 302.8 26.5 242 12-303 113-390 (844)
41 TIGR01389 recQ ATP-dependent D 100.0 8.9E-33 1.9E-37 301.3 26.7 252 11-311 76-338 (591)
42 KOG0329 ATP-dependent RNA heli 100.0 7.7E-35 1.7E-39 270.7 8.4 224 3-306 133-357 (387)
43 PRK09751 putative ATP-dependen 100.0 5.4E-32 1.2E-36 310.8 29.5 252 10-306 75-385 (1490)
44 COG0514 RecQ Superfamily II DN 100.0 2.3E-32 4.9E-37 287.9 22.1 263 2-312 65-345 (590)
45 PRK13767 ATP-dependent helicas 100.0 1.8E-30 3.8E-35 292.9 28.7 250 12-303 124-397 (876)
46 TIGR00580 mfd transcription-re 100.0 5.1E-30 1.1E-34 287.3 28.1 242 5-304 522-770 (926)
47 PHA02653 RNA helicase NPH-II; 100.0 8E-30 1.7E-34 277.0 25.3 242 12-311 253-521 (675)
48 TIGR01970 DEAH_box_HrpB ATP-de 100.0 1.9E-29 4.2E-34 279.8 25.9 224 31-306 87-338 (819)
49 PRK10689 transcription-repair 100.0 2.7E-29 5.8E-34 286.9 26.7 236 11-303 676-918 (1147)
50 KOG0349 Putative DEAD-box RNA 100.0 1.3E-30 2.9E-35 257.6 13.6 254 11-306 316-617 (725)
51 PRK11664 ATP-dependent RNA hel 100.0 1.2E-28 2.6E-33 274.0 23.5 240 9-306 74-341 (812)
52 PRK02362 ski2-like helicase; P 100.0 1.2E-28 2.5E-33 275.0 22.1 248 11-305 93-398 (737)
53 PRK00254 ski2-like helicase; P 100.0 4.6E-28 1E-32 269.6 24.0 241 11-305 94-389 (720)
54 PRK10917 ATP-dependent DNA hel 100.0 2.7E-27 5.8E-32 261.1 27.8 241 4-302 331-587 (681)
55 KOG0351 ATP-dependent DNA heli 100.0 4E-28 8.6E-33 269.0 21.0 256 11-310 327-598 (941)
56 PRK09401 reverse gyrase; Revie 100.0 3.2E-27 7E-32 270.5 28.7 224 11-290 150-430 (1176)
57 TIGR01587 cas3_core CRISPR-ass 100.0 4.6E-28 1E-32 248.7 17.2 226 34-302 94-334 (358)
58 TIGR00643 recG ATP-dependent D 100.0 8.1E-27 1.8E-31 255.5 27.5 241 4-301 305-563 (630)
59 PRK11131 ATP-dependent RNA hel 99.9 8.7E-27 1.9E-31 264.0 22.3 222 32-306 161-413 (1294)
60 PRK09200 preprotein translocas 99.9 1E-25 2.2E-30 246.6 28.9 130 142-306 405-543 (790)
61 PRK14701 reverse gyrase; Provi 99.9 1.7E-26 3.6E-31 269.9 23.4 248 11-309 151-461 (1638)
62 KOG0352 ATP-dependent DNA heli 99.9 2.6E-27 5.6E-32 234.2 11.0 268 2-310 69-368 (641)
63 PRK01172 ski2-like helicase; P 99.9 5.3E-26 1.2E-30 251.7 22.3 251 11-316 91-388 (674)
64 PRK12898 secA preprotein trans 99.9 4.9E-25 1.1E-29 236.6 27.8 170 95-306 410-588 (656)
65 COG1201 Lhr Lhr-like helicases 99.9 2.4E-25 5.1E-30 242.7 24.5 247 10-304 99-362 (814)
66 TIGR01054 rgy reverse gyrase. 99.9 2.8E-25 6E-30 254.9 26.2 205 16-276 156-409 (1171)
67 COG1111 MPH1 ERCC4-like helica 99.9 7.8E-25 1.7E-29 222.2 24.8 263 4-306 75-483 (542)
68 TIGR03714 secA2 accessory Sec 99.9 3.3E-24 7.2E-29 232.8 30.4 129 142-306 401-539 (762)
69 TIGR00963 secA preprotein tran 99.9 2.5E-24 5.4E-29 232.4 27.4 129 143-306 383-519 (745)
70 TIGR01967 DEAH_box_HrpA ATP-de 99.9 6.8E-25 1.5E-29 249.5 20.5 246 5-306 129-406 (1283)
71 PHA02558 uvsW UvsW helicase; P 99.9 1.4E-24 2.9E-29 232.2 20.6 224 34-301 201-449 (501)
72 PRK13766 Hef nuclease; Provisi 99.9 1.4E-23 3.1E-28 236.1 27.0 123 149-305 347-480 (773)
73 TIGR03158 cas3_cyano CRISPR-as 99.9 1.2E-23 2.7E-28 215.6 24.0 214 32-289 111-357 (357)
74 PRK04914 ATP-dependent helicas 99.9 5.2E-22 1.1E-26 222.3 28.7 137 149-319 479-618 (956)
75 COG1202 Superfamily II helicas 99.9 7.4E-23 1.6E-27 209.2 19.4 246 11-306 288-555 (830)
76 COG1204 Superfamily II helicas 99.9 1.5E-21 3.2E-26 215.3 19.2 248 10-302 101-406 (766)
77 KOG0354 DEAD-box like helicase 99.9 1.3E-20 2.9E-25 201.4 20.5 265 14-316 134-541 (746)
78 COG1205 Distinct helicase fami 99.9 1.6E-20 3.4E-25 209.7 21.9 259 3-302 135-420 (851)
79 PRK05580 primosome assembly pr 99.9 7E-20 1.5E-24 201.8 26.3 246 9-306 212-551 (679)
80 TIGR00595 priA primosomal prot 99.9 6.6E-20 1.4E-24 195.4 24.6 243 11-305 49-383 (505)
81 KOG0353 ATP-dependent DNA heli 99.9 4.2E-21 9E-26 187.8 13.5 258 10-306 156-469 (695)
82 TIGR00603 rad25 DNA repair hel 99.9 2.8E-20 6E-25 202.2 20.1 229 34-306 343-609 (732)
83 PRK12904 preprotein translocas 99.8 3.8E-18 8.2E-23 186.9 29.3 130 142-306 407-575 (830)
84 PRK13104 secA preprotein trans 99.8 1.1E-17 2.3E-22 183.7 29.4 130 142-306 421-589 (896)
85 PRK05298 excinuclease ABC subu 99.8 2.4E-18 5.2E-23 188.9 24.2 122 149-304 430-557 (652)
86 TIGR00631 uvrb excinuclease AB 99.8 1E-18 2.2E-23 190.9 19.6 134 148-315 425-564 (655)
87 KOG0947 Cytoplasmic exosomal R 99.8 1.4E-18 3E-23 186.4 19.4 259 3-316 357-734 (1248)
88 KOG0952 DNA/RNA helicase MER3/ 99.8 1.6E-18 3.4E-23 187.9 20.0 253 11-308 191-495 (1230)
89 PRK09694 helicase Cas3; Provis 99.8 1.4E-18 3.1E-23 193.6 19.3 218 35-293 411-664 (878)
90 COG1200 RecG RecG-like helicas 99.8 8.8E-18 1.9E-22 177.6 24.1 246 2-305 330-592 (677)
91 PRK12906 secA preprotein trans 99.8 1.1E-17 2.5E-22 182.5 21.6 170 95-306 377-555 (796)
92 cd00079 HELICc Helicase superf 99.8 1.2E-17 2.5E-22 145.5 14.4 129 138-300 2-131 (131)
93 COG1197 Mfd Transcription-repa 99.8 6.7E-17 1.5E-21 179.5 23.8 238 11-305 670-914 (1139)
94 PRK12900 secA preprotein trans 99.7 1.2E-16 2.5E-21 175.8 22.3 170 95-306 535-713 (1025)
95 COG1061 SSL2 DNA or RNA helica 99.7 1.2E-16 2.6E-21 168.2 18.7 216 36-296 124-382 (442)
96 COG4098 comFA Superfamily II D 99.7 8.7E-16 1.9E-20 149.5 22.7 238 12-309 170-421 (441)
97 KOG0948 Nuclear exosomal RNA h 99.7 1.9E-17 4E-22 174.0 10.9 226 34-304 211-539 (1041)
98 PRK13107 preprotein translocas 99.7 1.5E-15 3.2E-20 166.6 25.1 129 143-306 427-593 (908)
99 PF00271 Helicase_C: Helicase 99.7 3E-17 6.5E-22 130.8 8.3 78 182-292 1-78 (78)
100 KOG0951 RNA helicase BRR2, DEA 99.7 2.9E-16 6.2E-21 172.5 17.0 251 10-306 390-704 (1674)
101 KOG0950 DNA polymerase theta/e 99.7 6.2E-16 1.4E-20 167.2 13.0 257 11-310 296-617 (1008)
102 PLN03142 Probable chromatin-re 99.6 7.4E-15 1.6E-19 165.8 21.0 123 149-304 471-599 (1033)
103 COG1643 HrpA HrpA-like helicas 99.6 1.1E-14 2.4E-19 160.7 18.2 224 33-306 138-389 (845)
104 COG4581 Superfamily II RNA hel 99.6 7.3E-14 1.6E-18 155.4 24.1 237 16-306 194-539 (1041)
105 PRK11448 hsdR type I restricti 99.6 5.2E-14 1.1E-18 161.5 20.7 95 164-293 698-802 (1123)
106 COG1203 CRISPR-associated heli 99.6 1.5E-14 3.3E-19 161.0 15.5 206 63-306 339-552 (733)
107 COG0556 UvrB Helicase subunit 99.6 1.5E-13 3.3E-18 140.8 20.7 132 150-315 431-568 (663)
108 PRK12899 secA preprotein trans 99.6 1.2E-12 2.6E-17 144.2 29.1 128 143-306 546-683 (970)
109 KOG0922 DEAH-box RNA helicase 99.6 5.8E-14 1.3E-18 147.6 16.7 222 34-306 140-392 (674)
110 smart00490 HELICc helicase sup 99.5 3.1E-14 6.8E-19 113.2 8.4 81 179-292 2-82 (82)
111 KOG0923 mRNA splicing factor A 99.5 2E-13 4.4E-18 142.5 15.6 220 34-304 355-606 (902)
112 KOG0920 ATP-dependent RNA heli 99.5 2.3E-13 4.9E-18 150.1 12.6 230 34-306 264-546 (924)
113 KOG4150 Predicted ATP-dependen 99.4 5.1E-12 1.1E-16 129.9 17.6 249 16-304 366-640 (1034)
114 cd00268 DEADc DEAD-box helicas 99.4 1.7E-12 3.7E-17 122.4 12.1 107 11-121 96-202 (203)
115 PF06862 DUF1253: Protein of u 99.4 5E-11 1.1E-15 123.4 22.1 247 34-311 131-422 (442)
116 PRK12903 secA preprotein trans 99.4 7.8E-11 1.7E-15 128.8 24.2 128 143-306 404-541 (925)
117 COG1110 Reverse gyrase [DNA re 99.4 3.6E-11 7.7E-16 131.5 20.2 209 11-275 155-416 (1187)
118 COG1198 PriA Primosomal protei 99.3 8.7E-11 1.9E-15 128.4 21.1 251 4-306 262-605 (730)
119 PRK12326 preprotein translocas 99.3 1.9E-09 4.2E-14 116.5 28.2 129 142-306 404-549 (764)
120 PRK13103 secA preprotein trans 99.3 6.8E-10 1.5E-14 122.6 24.9 129 142-306 426-593 (913)
121 KOG0924 mRNA splicing factor A 99.3 4.7E-11 1E-15 125.2 14.4 218 36-304 447-697 (1042)
122 PF00270 DEAD: DEAD/DEAH box h 99.3 1.6E-11 3.4E-16 111.8 9.4 96 11-110 71-169 (169)
123 KOG0385 Chromatin remodeling c 99.3 3.7E-10 8E-15 120.3 19.5 124 149-305 471-600 (971)
124 KOG0953 Mitochondrial RNA heli 99.2 1.3E-10 2.9E-15 119.8 12.8 256 12-346 239-512 (700)
125 KOG0926 DEAH-box RNA helicase 99.1 3.1E-10 6.8E-15 121.0 12.3 223 33-304 348-704 (1172)
126 CHL00122 secA preprotein trans 99.1 4.2E-08 9.1E-13 108.2 25.7 82 142-225 401-485 (870)
127 TIGR00348 hsdR type I site-spe 99.1 8.4E-09 1.8E-13 114.2 20.2 106 164-303 514-650 (667)
128 PRK12902 secA preprotein trans 99.0 1.7E-07 3.8E-12 103.4 29.1 81 143-225 417-500 (939)
129 KOG1123 RNA polymerase II tran 99.0 3.3E-09 7.1E-14 108.4 14.2 231 33-306 389-655 (776)
130 COG4096 HsdR Type I site-speci 99.0 2E-09 4.3E-14 116.4 12.9 217 34-291 256-525 (875)
131 KOG0949 Predicted helicase, DE 99.0 5.1E-09 1.1E-13 114.1 15.6 82 191-305 965-1049(1330)
132 KOG0925 mRNA splicing factor A 99.0 2.4E-08 5.3E-13 101.9 17.1 214 40-304 133-387 (699)
133 TIGR02562 cas3_yersinia CRISPR 98.9 1.9E-08 4.1E-13 112.3 16.3 91 167-293 759-881 (1110)
134 KOG0384 Chromodomain-helicase 98.9 8.3E-09 1.8E-13 114.9 11.5 109 164-305 699-812 (1373)
135 KOG0387 Transcription-coupled 98.9 1.7E-07 3.7E-12 100.8 19.8 125 148-305 529-659 (923)
136 PRK12901 secA preprotein trans 98.8 4E-07 8.8E-12 101.6 21.3 169 95-306 565-743 (1112)
137 KOG0389 SNF2 family DNA-depend 98.7 2.9E-07 6.3E-12 98.9 13.7 124 150-306 762-890 (941)
138 smart00487 DEXDc DEAD-like hel 98.7 3.5E-07 7.6E-12 84.2 12.7 105 16-124 86-191 (201)
139 KOG2340 Uncharacterized conser 98.6 2.4E-07 5.2E-12 95.6 10.7 247 33-311 384-675 (698)
140 PRK14873 primosome assembly pr 98.6 4.3E-06 9.2E-11 92.1 21.0 86 13-110 215-310 (665)
141 KOG0390 DNA repair protein, SN 98.6 2.5E-06 5.5E-11 93.5 18.6 123 148-304 577-707 (776)
142 KOG0392 SNF2 family DNA-depend 98.5 4E-06 8.6E-11 93.9 16.7 101 165-297 1341-1445(1549)
143 TIGR01407 dinG_rel DnaQ family 98.5 2.6E-06 5.7E-11 97.2 15.9 105 163-303 673-813 (850)
144 KOG0951 RNA helicase BRR2, DEA 98.4 9.5E-06 2.1E-10 91.2 17.5 241 11-308 1214-1498(1674)
145 KOG1000 Chromatin remodeling p 98.3 2.7E-05 5.8E-10 80.3 17.6 101 164-296 492-593 (689)
146 cd00046 DEXDc DEAD-like helica 98.3 4.2E-06 9.1E-11 72.3 9.4 88 12-103 57-144 (144)
147 COG4889 Predicted helicase [Ge 98.2 1.6E-06 3.4E-11 94.1 4.9 101 166-299 462-583 (1518)
148 TIGR00596 rad1 DNA repair prot 98.1 6.5E-05 1.4E-09 84.4 17.0 66 34-103 7-72 (814)
149 PRK08074 bifunctional ATP-depe 98.0 0.00017 3.7E-09 83.1 16.5 80 163-275 751-834 (928)
150 KOG0391 SNF2 family DNA-depend 97.9 5.1E-05 1.1E-09 84.8 11.0 124 143-305 1257-1388(1958)
151 PRK07246 bifunctional ATP-depe 97.9 0.00014 3.1E-09 82.5 14.6 77 163-275 646-724 (820)
152 KOG0386 Chromatin remodeling c 97.8 0.00075 1.6E-08 75.1 17.5 122 148-302 709-834 (1157)
153 PRK11747 dinG ATP-dependent DN 97.8 0.00057 1.2E-08 76.4 16.6 76 163-275 533-615 (697)
154 COG1199 DinG Rad3-related DNA 97.7 0.0003 6.5E-09 78.3 13.2 103 164-302 479-615 (654)
155 PF13307 Helicase_C_2: Helicas 97.7 0.00011 2.4E-09 67.3 7.6 79 163-276 8-92 (167)
156 COG0553 HepA Superfamily II DN 97.7 0.00027 5.8E-09 80.9 12.5 124 149-304 692-822 (866)
157 TIGR00604 rad3 DNA repair heli 97.7 0.0012 2.5E-08 74.2 16.7 81 163-276 521-615 (705)
158 PF02399 Herpes_ori_bp: Origin 97.7 0.0011 2.3E-08 73.3 15.5 219 35-304 122-388 (824)
159 TIGR03117 cas_csf4 CRISPR-asso 97.3 0.011 2.5E-07 64.8 17.9 86 153-275 461-560 (636)
160 COG0653 SecA Preprotein transl 97.2 0.0023 4.9E-08 71.1 11.7 128 143-306 407-547 (822)
161 KOG0921 Dosage compensation co 97.2 0.0011 2.4E-08 72.9 8.7 64 162-225 641-711 (1282)
162 KOG1015 Transcription regulato 96.9 0.0049 1.1E-07 68.4 9.8 118 149-299 1126-1270(1567)
163 PF04851 ResIII: Type III rest 96.6 0.001 2.3E-08 60.6 2.1 68 32-104 109-183 (184)
164 KOG0388 SNF2 family DNA-depend 96.5 0.012 2.7E-07 63.5 9.1 122 149-303 1028-1153(1185)
165 PF14617 CMS1: U3-containing 9 96.3 0.0029 6.4E-08 61.5 3.1 57 13-73 154-212 (252)
166 PRK10917 ATP-dependent DNA hel 95.9 0.034 7.4E-07 62.3 9.9 72 153-224 299-374 (681)
167 PF07652 Flavi_DEAD: Flaviviru 95.9 0.01 2.2E-07 52.6 4.4 67 34-107 72-140 (148)
168 TIGR00643 recG ATP-dependent D 95.6 0.045 9.7E-07 60.8 8.9 71 154-224 274-348 (630)
169 smart00492 HELICc3 helicase su 95.5 0.094 2E-06 46.6 9.0 46 198-276 31-79 (141)
170 KOG4439 RNA polymerase II tran 95.4 0.11 2.3E-06 56.6 10.6 103 164-298 746-850 (901)
171 smart00491 HELICc2 helicase su 95.3 0.087 1.9E-06 46.8 8.1 44 202-276 32-80 (142)
172 PRK05580 primosome assembly pr 95.3 0.12 2.6E-06 57.9 11.0 78 147-224 172-251 (679)
173 PF00176 SNF2_N: SNF2 family N 95.3 0.037 8E-07 54.7 6.4 96 3-103 77-172 (299)
174 COG0610 Type I site-specific r 95.2 0.9 2E-05 52.9 18.2 78 20-103 335-413 (962)
175 KOG0952 DNA/RNA helicase MER3/ 95.1 0.0068 1.5E-07 68.1 0.4 156 12-177 1001-1166(1230)
176 KOG1002 Nucleotide excision re 94.9 0.12 2.6E-06 54.0 8.9 109 165-305 639-750 (791)
177 TIGR00595 priA primosomal prot 94.8 0.14 3E-06 55.3 9.5 61 164-224 25-86 (505)
178 TIGR00580 mfd transcription-re 94.7 0.12 2.6E-06 59.6 9.3 68 156-223 492-563 (926)
179 COG1110 Reverse gyrase [DNA re 94.5 0.15 3.3E-06 57.7 9.0 74 149-223 111-190 (1187)
180 PF13871 Helicase_C_4: Helicas 94.2 0.16 3.5E-06 50.1 7.6 81 205-318 52-144 (278)
181 PRK14873 primosome assembly pr 94.2 0.35 7.7E-06 53.8 11.1 78 147-224 170-250 (665)
182 KOG1133 Helicase of the DEAD s 94.1 1.4 3.1E-05 48.2 14.9 80 163-276 628-720 (821)
183 COG1198 PriA Primosomal protei 93.9 0.16 3.5E-06 56.6 7.8 80 145-224 225-306 (730)
184 COG1200 RecG RecG-like helicas 92.9 0.6 1.3E-05 51.1 9.8 90 150-271 297-390 (677)
185 PRK10689 transcription-repair 92.4 0.52 1.1E-05 55.7 9.3 61 163-223 648-712 (1147)
186 PF07517 SecA_DEAD: SecA DEAD- 92.3 0.22 4.7E-06 49.1 5.2 63 11-75 145-210 (266)
187 PF13872 AAA_34: P-loop contai 90.9 0.21 4.6E-06 49.7 3.4 73 34-108 136-225 (303)
188 TIGR00614 recQ_fam ATP-depende 90.6 1 2.3E-05 48.1 8.8 60 164-223 51-110 (470)
189 PRK14701 reverse gyrase; Provi 90.5 1 2.2E-05 55.1 9.3 61 164-224 122-188 (1638)
190 KOG1016 Predicted DNA helicase 90.5 1.8 3.9E-05 48.0 10.1 141 165-343 720-889 (1387)
191 KOG0701 dsRNA-specific nucleas 90.2 0.2 4.4E-06 59.8 3.0 94 166-292 294-399 (1606)
192 TIGR01389 recQ ATP-dependent D 88.6 1.9 4.1E-05 47.6 9.1 61 164-224 53-113 (591)
193 TIGR03117 cas_csf4 CRISPR-asso 88.1 0.45 9.8E-06 52.5 3.7 41 32-76 180-220 (636)
194 TIGR01054 rgy reverse gyrase. 87.9 1.9 4.2E-05 51.2 8.9 60 164-223 121-187 (1171)
195 KOG0391 SNF2 family DNA-depend 87.1 1 2.3E-05 51.9 5.7 99 2-112 683-785 (1958)
196 KOG0339 ATP-dependent RNA heli 86.4 5.1 0.00011 42.6 9.9 55 165-223 296-355 (731)
197 cd00268 DEADc DEAD-box helicas 85.9 4.4 9.6E-05 37.5 8.7 56 164-223 69-128 (203)
198 PRK11776 ATP-dependent RNA hel 84.7 3.4 7.3E-05 44.0 8.2 55 165-223 73-132 (460)
199 COG1197 Mfd Transcription-repa 84.6 4.8 0.0001 47.0 9.5 72 153-224 632-707 (1139)
200 smart00489 DEXDc3 DEAD-like he 84.4 1.1 2.5E-05 44.6 4.1 43 31-76 208-250 (289)
201 smart00488 DEXDc2 DEAD-like he 84.4 1.1 2.5E-05 44.6 4.1 43 31-76 208-250 (289)
202 PF06733 DEAD_2: DEAD_2; Inte 83.1 0.56 1.2E-05 42.9 1.2 46 29-76 114-159 (174)
203 PLN03137 ATP-dependent DNA hel 83.0 5 0.00011 47.1 8.9 61 164-224 500-562 (1195)
204 PRK12906 secA preprotein trans 82.9 1.4 3.1E-05 49.7 4.4 63 11-75 148-213 (796)
205 PRK11057 ATP-dependent DNA hel 82.6 5.5 0.00012 44.1 8.9 60 164-223 65-124 (607)
206 COG0514 RecQ Superfamily II DN 82.1 4.4 9.5E-05 44.3 7.6 61 164-224 57-117 (590)
207 PRK11634 ATP-dependent RNA hel 81.2 5.9 0.00013 44.1 8.5 56 164-223 74-134 (629)
208 PF09848 DUF2075: Uncharacteri 80.9 4.1 8.9E-05 41.8 6.8 74 12-89 31-117 (352)
209 KOG1513 Nuclear helicase MOP-3 80.4 2.2 4.8E-05 47.4 4.6 45 258-302 868-921 (1300)
210 TIGR01407 dinG_rel DnaQ family 80.3 1.6 3.5E-05 50.4 3.9 44 29-76 411-454 (850)
211 PRK11192 ATP-dependent RNA hel 79.3 8.6 0.00019 40.5 8.7 56 164-223 73-132 (434)
212 cd01524 RHOD_Pyr_redox Member 78.8 8.6 0.00019 30.6 6.7 37 164-200 51-87 (90)
213 TIGR00708 cobA cob(I)alamin ad 78.6 2.2 4.8E-05 39.2 3.4 55 60-114 95-151 (173)
214 COG0513 SrmB Superfamily II DN 78.0 5.1 0.00011 43.4 6.6 53 167-223 102-159 (513)
215 cd00561 CobA_CobO_BtuR ATP:cor 77.3 3.3 7.2E-05 37.5 4.2 55 60-114 93-149 (159)
216 KOG0347 RNA helicase [RNA proc 77.3 4.8 0.0001 43.2 5.8 54 166-223 265-322 (731)
217 COG2109 BtuR ATP:corrinoid ade 76.7 4 8.6E-05 37.9 4.5 54 61-114 121-176 (198)
218 PRK05986 cob(I)alamin adenolsy 76.6 11 0.00025 35.1 7.6 55 60-114 113-169 (191)
219 PRK10590 ATP-dependent RNA hel 76.6 9.1 0.0002 40.7 8.0 54 166-223 77-134 (456)
220 PRK09401 reverse gyrase; Revie 75.5 10 0.00022 45.3 8.6 59 164-222 123-187 (1176)
221 PRK08074 bifunctional ATP-depe 75.4 3.1 6.6E-05 48.5 4.3 42 31-76 428-469 (928)
222 PF00270 DEAD: DEAD/DEAH box h 74.8 26 0.00057 30.9 9.5 56 164-223 44-104 (169)
223 KOG0331 ATP-dependent RNA heli 74.0 17 0.00037 39.1 9.0 95 165-290 166-272 (519)
224 PRK11747 dinG ATP-dependent DN 73.8 3.9 8.4E-05 46.1 4.5 42 32-76 217-260 (697)
225 PHA02544 44 clamp loader, smal 72.8 21 0.00045 35.7 9.2 40 61-100 99-138 (316)
226 PRK07414 cob(I)yrinic acid a,c 72.7 3.7 8E-05 37.9 3.3 54 60-113 113-168 (178)
227 PRK07246 bifunctional ATP-depe 71.9 4.2 9E-05 46.7 4.2 40 32-76 411-450 (820)
228 KOG3089 Predicted DEAD-box-con 70.4 4.3 9.3E-05 38.4 3.1 33 33-69 195-227 (271)
229 smart00490 HELICc helicase sup 70.4 18 0.00039 27.3 6.5 59 2-71 2-64 (82)
230 KOG4439 RNA polymerase II tran 69.9 3.5 7.6E-05 45.4 2.8 65 12-77 410-478 (901)
231 PF13086 AAA_11: AAA domain; P 69.7 2.4 5.2E-05 39.7 1.5 40 30-75 166-205 (236)
232 PF10593 Z1: Z1 domain; Inter 69.7 13 0.00029 36.0 6.6 85 188-310 110-199 (239)
233 PRK04537 ATP-dependent RNA hel 69.2 18 0.00039 39.8 8.3 55 165-223 85-143 (572)
234 cd00046 DEXDc DEAD-like helica 68.7 31 0.00067 28.6 8.2 57 163-223 29-88 (144)
235 PRK05642 DNA replication initi 68.0 7.4 0.00016 37.5 4.4 69 33-105 72-141 (234)
236 PRK06646 DNA polymerase III su 66.3 35 0.00077 30.7 8.1 71 144-223 8-79 (154)
237 PRK06893 DNA replication initi 66.1 6.9 0.00015 37.5 3.8 47 60-106 89-137 (229)
238 KOG0388 SNF2 family DNA-depend 65.8 9.1 0.0002 42.4 4.9 100 2-113 635-744 (1185)
239 PF13401 AAA_22: AAA domain; P 65.1 8.7 0.00019 32.6 3.9 34 64-100 89-123 (131)
240 PRK02362 ski2-like helicase; P 64.6 14 0.00031 41.8 6.6 63 154-223 57-122 (737)
241 PF02463 SMC_N: RecF/RecN/SMC 64.5 5 0.00011 37.9 2.5 41 61-101 157-197 (220)
242 TIGR00604 rad3 DNA repair heli 64.4 4.1 8.9E-05 46.0 2.2 42 32-76 193-234 (705)
243 smart00450 RHOD Rhodanese Homo 63.3 10 0.00022 29.9 3.9 37 164-200 56-93 (100)
244 PRK14974 cell division protein 63.0 18 0.0004 36.9 6.3 55 61-115 221-276 (336)
245 PRK07413 hypothetical protein; 62.5 35 0.00075 35.5 8.2 55 60-114 123-179 (382)
246 PRK05728 DNA polymerase III su 62.3 58 0.0013 28.8 8.7 66 146-220 10-76 (142)
247 KOG0338 ATP-dependent RNA heli 61.6 23 0.00049 37.9 6.7 55 165-223 253-311 (691)
248 KOG1132 Helicase of the DEAD s 60.2 1.5E+02 0.0033 34.0 13.0 81 164-276 561-656 (945)
249 PRK04837 ATP-dependent RNA hel 59.9 23 0.00049 37.2 6.7 55 165-223 84-142 (423)
250 PRK12898 secA preprotein trans 59.8 80 0.0017 35.3 11.0 71 147-223 127-201 (656)
251 PRK08727 hypothetical protein; 59.1 12 0.00026 36.0 4.1 71 33-107 68-140 (233)
252 KOG1001 Helicase-like transcri 58.9 2.2 4.8E-05 47.5 -1.2 100 165-296 540-640 (674)
253 PF05621 TniB: Bacterial TniB 58.9 8.8 0.00019 38.4 3.1 35 61-95 144-180 (302)
254 PRK12900 secA preprotein trans 58.6 8.6 0.00019 44.4 3.3 63 11-75 206-271 (1025)
255 PRK01297 ATP-dependent RNA hel 58.5 44 0.00095 35.7 8.7 56 165-223 163-222 (475)
256 PF02572 CobA_CobO_BtuR: ATP:c 58.5 7.9 0.00017 35.5 2.5 55 60-114 94-150 (172)
257 KOG0389 SNF2 family DNA-depend 58.4 36 0.00079 38.3 7.8 70 152-224 436-509 (941)
258 PF00271 Helicase_C: Helicase 58.2 14 0.00031 28.2 3.7 51 11-71 6-60 (78)
259 PRK13104 secA preprotein trans 57.8 45 0.00097 38.5 8.7 68 151-224 110-181 (896)
260 cd01529 4RHOD_Repeats Member o 57.6 18 0.0004 29.0 4.4 36 164-199 56-92 (96)
261 COG1199 DinG Rad3-related DNA 57.2 8.3 0.00018 43.0 3.0 43 33-77 193-235 (654)
262 PRK13766 Hef nuclease; Provisi 56.9 38 0.00083 38.6 8.3 56 163-223 57-116 (773)
263 KOG0330 ATP-dependent RNA heli 56.8 40 0.00086 35.0 7.3 66 154-224 120-189 (476)
264 TIGR00963 secA preprotein tran 56.5 42 0.00091 38.0 8.2 67 151-223 84-154 (745)
265 COG4098 comFA Superfamily II D 56.3 1.1E+02 0.0023 31.5 10.1 136 96-293 91-233 (441)
266 COG0556 UvrB Helicase subunit 56.0 38 0.00083 36.6 7.3 95 1-109 460-563 (663)
267 PRK12422 chromosomal replicati 55.2 27 0.00059 37.1 6.3 78 33-110 168-252 (445)
268 PF05872 DUF853: Bacterial pro 55.0 19 0.00041 38.1 4.9 44 59-102 251-299 (502)
269 KOG0989 Replication factor C, 54.6 11 0.00023 37.8 2.9 44 60-104 127-170 (346)
270 PRK06526 transposase; Provisio 53.3 25 0.00054 34.4 5.3 75 32-106 124-204 (254)
271 PRK13103 secA preprotein trans 52.6 58 0.0012 37.6 8.5 66 152-223 111-180 (913)
272 TIGR03817 DECH_helic helicase/ 52.3 51 0.0011 37.5 8.3 55 164-223 81-138 (742)
273 PRK04195 replication factor C 52.2 50 0.0011 35.5 7.8 39 62-100 98-137 (482)
274 PRK07413 hypothetical protein; 52.1 16 0.00035 37.8 3.9 54 61-114 304-360 (382)
275 cd01523 RHOD_Lact_B Member of 52.0 19 0.00041 29.2 3.6 38 163-200 60-97 (100)
276 PTZ00110 helicase; Provisional 51.1 37 0.0008 37.1 6.7 55 165-223 204-262 (545)
277 PRK07764 DNA polymerase III su 51.0 16 0.00034 42.0 3.9 40 60-100 118-157 (824)
278 cd01520 RHOD_YbbB Member of th 49.7 19 0.00042 30.8 3.5 37 164-200 86-123 (128)
279 cd01534 4RHOD_Repeat_3 Member 48.1 23 0.00051 28.4 3.6 36 164-199 56-91 (95)
280 PF13173 AAA_14: AAA domain 48.0 22 0.00047 30.5 3.5 37 62-101 61-97 (128)
281 PLN00206 DEAD-box ATP-dependen 47.9 39 0.00084 36.7 6.2 56 3-68 383-442 (518)
282 COG2909 MalT ATP-dependent tra 47.7 22 0.00048 40.4 4.2 44 62-105 129-172 (894)
283 PRK12899 secA preprotein trans 47.7 78 0.0017 36.8 8.6 67 151-223 122-192 (970)
284 KOG0340 ATP-dependent RNA heli 46.7 35 0.00075 35.0 5.0 56 2-67 268-327 (442)
285 PRK09200 preprotein translocas 46.4 74 0.0016 36.4 8.2 68 150-223 105-177 (790)
286 PRK12323 DNA polymerase III su 46.4 16 0.00035 40.7 2.9 40 60-100 122-161 (700)
287 PRK07003 DNA polymerase III su 46.3 15 0.00032 41.6 2.6 39 61-100 118-156 (830)
288 PRK08181 transposase; Validate 46.2 49 0.0011 32.7 6.1 76 31-106 131-212 (269)
289 cd01521 RHOD_PspE2 Member of t 46.0 28 0.0006 28.9 3.8 37 164-200 64-102 (110)
290 PF04364 DNA_pol3_chi: DNA pol 45.7 69 0.0015 28.0 6.4 64 151-223 15-79 (137)
291 PRK12901 secA preprotein trans 45.3 17 0.00037 42.2 3.0 63 11-75 237-303 (1112)
292 COG1204 Superfamily II helicas 44.9 47 0.001 37.9 6.5 65 152-223 63-131 (766)
293 smart00115 CASc Caspase, inter 44.5 1E+02 0.0022 29.8 8.0 58 163-221 7-79 (241)
294 KOG0329 ATP-dependent RNA heli 44.5 35 0.00076 33.3 4.5 54 166-223 112-170 (387)
295 PRK00254 ski2-like helicase; P 44.4 61 0.0013 36.7 7.3 53 164-223 68-123 (720)
296 PF12761 End3: Actin cytoskele 44.1 64 0.0014 30.2 6.0 41 175-220 3-43 (195)
297 PRK07940 DNA polymerase III su 44.0 48 0.001 34.6 6.0 71 33-107 83-160 (394)
298 PRK09751 putative ATP-dependen 43.6 79 0.0017 38.8 8.3 56 164-223 37-108 (1490)
299 cd01518 RHOD_YceA Member of th 43.5 29 0.00062 28.2 3.5 37 163-199 60-97 (101)
300 PF05707 Zot: Zonular occluden 43.5 18 0.00039 33.6 2.4 41 62-103 79-126 (193)
301 cd01449 TST_Repeat_2 Thiosulfa 43.2 28 0.00061 29.0 3.4 36 164-199 78-114 (118)
302 PRK08084 DNA replication initi 43.0 19 0.00042 34.6 2.7 44 61-105 96-142 (235)
303 cd01447 Polysulfide_ST Polysul 42.9 23 0.00049 28.6 2.7 36 164-199 61-97 (103)
304 PF11019 DUF2608: Protein of u 42.8 2.2E+02 0.0047 27.8 10.0 60 137-196 150-210 (252)
305 cd01525 RHOD_Kc Member of the 42.8 31 0.00067 28.0 3.6 36 164-199 65-101 (105)
306 PF13177 DNA_pol3_delta2: DNA 42.6 35 0.00076 30.7 4.2 70 33-105 66-144 (162)
307 smart00487 DEXDc DEAD-like hel 42.5 1.4E+02 0.003 26.3 8.3 55 164-222 54-113 (201)
308 TIGR00678 holB DNA polymerase 42.5 42 0.00092 30.7 4.8 39 59-98 93-131 (188)
309 KOG0740 AAA+-type ATPase [Post 42.4 54 0.0012 34.5 5.9 80 61-161 244-336 (428)
310 cd01533 4RHOD_Repeat_2 Member 42.4 31 0.00067 28.5 3.5 37 164-200 66-104 (109)
311 PRK04296 thymidine kinase; Pro 42.3 28 0.0006 32.3 3.5 38 61-102 77-114 (190)
312 PRK06620 hypothetical protein; 42.0 88 0.0019 29.6 7.0 42 61-106 84-126 (214)
313 PLN03025 replication factor C 42.0 26 0.00056 35.3 3.5 40 61-102 98-137 (319)
314 cd01532 4RHOD_Repeat_1 Member 41.7 44 0.00096 26.6 4.3 36 164-199 50-88 (92)
315 PF13604 AAA_30: AAA domain; P 41.5 44 0.00095 31.1 4.7 39 60-102 91-130 (196)
316 cd00032 CASc Caspase, interleu 41.4 1.9E+02 0.0042 27.7 9.4 58 163-221 8-80 (243)
317 cd01444 GlpE_ST GlpE sulfurtra 41.3 55 0.0012 25.9 4.8 37 163-199 55-92 (96)
318 PHA03368 DNA packaging termina 41.3 19 0.00041 40.0 2.5 43 60-106 350-393 (738)
319 smart00493 TOPRIM topoisomeras 41.1 85 0.0018 23.7 5.6 56 167-224 2-57 (76)
320 KOG1002 Nucleotide excision re 40.8 60 0.0013 34.8 5.9 96 12-112 257-364 (791)
321 COG1111 MPH1 ERCC4-like helica 40.7 90 0.0019 33.5 7.2 57 163-224 57-117 (542)
322 PRK09111 DNA polymerase III su 40.1 58 0.0013 36.1 6.1 41 59-100 129-169 (598)
323 COG2519 GCD14 tRNA(1-methylade 40.1 1.7E+02 0.0037 28.6 8.5 113 69-189 93-213 (256)
324 cd01519 RHOD_HSP67B2 Member of 40.0 37 0.0008 27.6 3.6 36 164-199 66-102 (106)
325 cd03027 GRX_DEP Glutaredoxin ( 39.9 1.6E+02 0.0035 22.1 7.1 57 166-222 2-59 (73)
326 cd01526 RHOD_ThiF Member of th 39.9 31 0.00067 29.2 3.2 37 164-200 72-110 (122)
327 cd03418 GRX_GRXb_1_3_like Glut 39.9 1.5E+02 0.0033 22.1 6.9 53 167-219 2-56 (75)
328 PRK14958 DNA polymerase III su 39.7 21 0.00045 38.7 2.5 39 61-100 118-156 (509)
329 PRK12904 preprotein translocas 39.6 1.1E+02 0.0024 35.1 8.3 57 161-223 119-179 (830)
330 KOG1001 Helicase-like transcri 39.5 37 0.0008 38.1 4.5 85 12-111 216-301 (674)
331 PF01751 Toprim: Toprim domain 38.6 35 0.00076 27.9 3.2 58 167-224 1-70 (100)
332 PRK09087 hypothetical protein; 38.2 91 0.002 29.8 6.5 41 64-106 89-130 (226)
333 TIGR03420 DnaA_homol_Hda DnaA 38.0 28 0.00062 32.6 2.9 42 61-103 89-132 (226)
334 PRK04841 transcriptional regul 37.9 32 0.00068 39.8 3.8 43 63-105 122-164 (903)
335 PF00004 AAA: ATPase family as 37.7 39 0.00084 28.3 3.5 16 63-78 59-74 (132)
336 PRK07399 DNA polymerase III su 37.3 68 0.0015 32.4 5.7 41 59-101 121-161 (314)
337 cd01528 RHOD_2 Member of the R 37.3 47 0.001 26.8 3.8 37 164-200 58-95 (101)
338 cd01527 RHOD_YgaP Member of th 37.2 43 0.00093 26.9 3.5 36 164-199 54-90 (99)
339 TIGR01448 recD_rel helicase, p 36.6 41 0.00089 38.2 4.3 37 62-102 416-452 (720)
340 COG3587 Restriction endonuclea 36.3 55 0.0012 37.3 5.0 37 255-291 491-527 (985)
341 KOG0351 ATP-dependent DNA heli 36.3 68 0.0015 37.5 6.0 60 165-224 305-366 (941)
342 cd01445 TST_Repeats Thiosulfat 36.2 65 0.0014 28.2 4.7 37 164-200 95-135 (138)
343 PRK11889 flhF flagellar biosyn 36.2 2.6E+02 0.0057 29.5 9.7 98 12-114 269-374 (436)
344 PRK14961 DNA polymerase III su 35.3 95 0.0021 31.9 6.5 40 60-100 117-156 (363)
345 PRK08903 DnaA regulatory inact 34.8 95 0.0021 29.2 6.0 64 33-105 69-133 (227)
346 TIGR00365 monothiol glutaredox 34.8 2.5E+02 0.0054 22.8 7.8 57 163-219 10-72 (97)
347 PRK08116 hypothetical protein; 34.8 68 0.0015 31.6 5.1 74 33-107 141-225 (268)
348 smart00851 MGS MGS-like domain 34.7 51 0.0011 26.3 3.5 42 181-223 23-64 (90)
349 PRK12723 flagellar biosynthesi 34.7 2.1E+02 0.0046 29.8 8.9 95 12-114 206-309 (388)
350 PRK06835 DNA replication prote 34.7 94 0.002 31.7 6.2 78 30-107 207-293 (329)
351 PRK10536 hypothetical protein; 34.5 51 0.0011 32.4 4.1 33 64-100 178-210 (262)
352 COG1205 Distinct helicase fami 34.4 1.3E+02 0.0028 35.0 7.9 56 164-223 115-176 (851)
353 COG1435 Tdk Thymidine kinase [ 34.4 86 0.0019 29.5 5.3 73 12-90 32-109 (201)
354 PRK14087 dnaA chromosomal repl 34.4 38 0.00083 36.1 3.5 74 34-107 171-253 (450)
355 PRK07471 DNA polymerase III su 34.3 72 0.0016 33.0 5.4 41 60-101 139-179 (365)
356 PHA00350 putative assembly pro 34.2 46 0.00099 34.8 3.9 40 64-103 83-145 (399)
357 COG3973 Superfamily I DNA and 33.9 2.9E+02 0.0062 30.7 9.7 23 164-186 655-677 (747)
358 KOG2170 ATPase of the AAA+ sup 33.7 47 0.001 33.4 3.6 54 62-116 178-238 (344)
359 PF12846 AAA_10: AAA-like doma 33.7 58 0.0013 31.6 4.5 41 61-102 219-260 (304)
360 PF02562 PhoH: PhoH-like prote 33.4 47 0.001 31.4 3.6 35 64-102 121-155 (205)
361 PTZ00424 helicase 45; Provisio 33.3 1.6E+02 0.0034 30.3 7.9 56 164-223 96-155 (401)
362 PRK09112 DNA polymerase III su 33.2 53 0.0011 33.8 4.2 40 60-100 139-178 (351)
363 cd01535 4RHOD_Repeat_4 Member 33.2 1E+02 0.0022 27.2 5.5 37 164-200 49-86 (145)
364 TIGR02621 cas3_GSU0051 CRISPR- 33.1 85 0.0018 36.2 6.1 54 165-222 62-143 (844)
365 PRK08769 DNA polymerase III su 33.0 93 0.002 31.6 5.8 41 60-101 111-151 (319)
366 PRK13767 ATP-dependent helicas 32.8 84 0.0018 36.6 6.1 55 165-223 85-155 (876)
367 PRK11784 tRNA 2-selenouridine 32.7 2.6E+02 0.0056 28.7 9.1 49 163-212 87-136 (345)
368 PF09413 DUF2007: Domain of un 32.3 82 0.0018 23.5 4.1 34 166-199 1-34 (67)
369 PRK08058 DNA polymerase III su 32.1 68 0.0015 32.5 4.8 64 34-100 77-147 (329)
370 KOG0350 DEAD-box ATP-dependent 31.9 74 0.0016 34.2 4.9 59 165-223 216-279 (620)
371 PLN02160 thiosulfate sulfurtra 31.9 1.7E+02 0.0038 25.3 6.7 36 164-199 81-117 (136)
372 KOG0334 RNA helicase [RNA proc 31.8 1.1E+02 0.0024 35.6 6.6 54 166-223 440-497 (997)
373 KOG0384 Chromodomain-helicase 31.7 1E+02 0.0022 36.6 6.4 74 151-224 407-485 (1373)
374 TIGR01447 recD exodeoxyribonuc 31.7 57 0.0012 36.0 4.3 37 62-102 259-295 (586)
375 TIGR02881 spore_V_K stage V sp 31.7 74 0.0016 30.9 4.8 45 64-108 107-156 (261)
376 PF02142 MGS: MGS-like domain 31.6 48 0.001 26.9 2.9 43 181-223 23-69 (95)
377 cd00158 RHOD Rhodanese Homolog 31.4 80 0.0017 24.2 4.2 37 163-199 49-86 (89)
378 KOG0333 U5 snRNP-like RNA heli 31.4 71 0.0015 34.5 4.7 47 11-67 540-590 (673)
379 TIGR00362 DnaA chromosomal rep 31.3 37 0.0008 35.5 2.7 74 34-107 166-246 (405)
380 COG0653 SecA Preprotein transl 31.3 43 0.00093 38.2 3.3 63 11-75 148-213 (822)
381 PRK05707 DNA polymerase III su 31.2 77 0.0017 32.2 4.9 66 33-102 70-144 (328)
382 KOG1513 Nuclear helicase MOP-3 31.2 49 0.0011 37.5 3.6 39 64-103 407-454 (1300)
383 COG2842 Uncharacterized ATPase 31.1 33 0.00071 34.2 2.1 38 60-101 163-200 (297)
384 PF15586 Imm47: Immunity prote 30.8 43 0.00093 28.6 2.5 36 33-73 43-78 (116)
385 KOG1132 Helicase of the DEAD s 30.7 40 0.00087 38.4 2.9 45 29-76 217-261 (945)
386 PRK14964 DNA polymerase III su 30.6 58 0.0013 35.1 4.1 63 34-99 84-152 (491)
387 cd01448 TST_Repeat_1 Thiosulfa 30.3 67 0.0014 26.9 3.7 37 164-200 79-117 (122)
388 PRK07994 DNA polymerase III su 30.2 35 0.00075 38.1 2.4 38 61-99 118-155 (647)
389 cd00009 AAA The AAA+ (ATPases 30.1 53 0.0012 27.4 3.2 30 60-90 82-111 (151)
390 PF00308 Bac_DnaA: Bacterial d 30.1 31 0.00068 32.8 1.8 75 33-107 63-144 (219)
391 PRK08451 DNA polymerase III su 30.1 46 0.00099 36.3 3.2 41 59-100 114-154 (535)
392 PF13304 AAA_21: AAA domain; P 29.9 44 0.00096 30.9 2.8 37 64-100 259-296 (303)
393 TIGR00631 uvrb excinuclease AB 29.8 2.8E+02 0.006 31.2 9.4 80 142-223 34-140 (655)
394 PRK14952 DNA polymerase III su 29.8 44 0.00096 36.8 3.1 43 60-104 116-158 (584)
395 PF00581 Rhodanese: Rhodanese- 29.8 94 0.002 25.0 4.5 37 164-200 67-109 (113)
396 TIGR00696 wecB_tagA_cpsF bacte 29.6 4.4E+02 0.0095 24.1 9.2 70 152-221 35-107 (177)
397 cd03028 GRX_PICOT_like Glutare 29.5 2.4E+02 0.0052 22.3 6.7 57 164-220 7-69 (90)
398 PRK00149 dnaA chromosomal repl 29.3 36 0.00079 36.1 2.3 75 34-108 178-259 (450)
399 PRK06731 flhF flagellar biosyn 29.2 4.5E+02 0.0097 25.9 9.8 98 12-114 103-208 (270)
400 PRK14951 DNA polymerase III su 29.1 36 0.00078 37.8 2.3 44 60-105 122-165 (618)
401 PRK07276 DNA polymerase III su 28.9 83 0.0018 31.4 4.6 66 33-101 70-142 (290)
402 PF02602 HEM4: Uroporphyrinoge 28.7 1E+02 0.0022 28.9 5.1 70 152-223 105-177 (231)
403 KOG0298 DEAD box-containing he 28.3 1E+02 0.0023 36.7 5.7 99 158-294 1215-1314(1394)
404 COG1196 Smc Chromosome segrega 28.3 89 0.0019 37.6 5.5 70 31-100 1046-1126(1163)
405 PRK14722 flhF flagellar biosyn 28.1 4E+02 0.0087 27.7 9.6 74 33-114 194-269 (374)
406 PRK14956 DNA polymerase III su 28.0 37 0.00081 36.4 2.1 19 61-79 120-138 (484)
407 PRK15483 type III restriction- 28.0 67 0.0015 37.5 4.2 37 65-105 204-240 (986)
408 PRK07952 DNA replication prote 27.7 99 0.0021 30.0 4.8 76 32-107 125-209 (244)
409 KOG0953 Mitochondrial RNA heli 27.7 2.4E+02 0.0052 30.9 7.8 157 12-186 381-550 (700)
410 PRK00440 rfc replication facto 27.7 60 0.0013 32.2 3.5 39 61-100 101-139 (319)
411 PRK14960 DNA polymerase III su 27.4 62 0.0014 36.2 3.7 40 61-102 117-156 (702)
412 PRK14969 DNA polymerase III su 27.3 49 0.0011 36.0 2.9 40 60-100 117-156 (527)
413 TIGR03714 secA2 accessory Sec 27.2 2.2E+02 0.0048 32.5 8.0 57 161-223 108-173 (762)
414 COG4152 ABC-type uncharacteriz 27.2 3.9E+02 0.0085 26.3 8.5 78 109-202 140-236 (300)
415 cd03031 GRX_GRX_like Glutaredo 27.2 2.5E+02 0.0053 25.0 6.9 46 166-211 1-53 (147)
416 PF11496 HDA2-3: Class II hist 27.2 4.9E+02 0.011 26.0 9.8 56 147-202 94-155 (297)
417 KOG0352 ATP-dependent DNA heli 27.0 1.8E+02 0.0039 30.8 6.6 82 141-223 39-122 (641)
418 PF07319 DnaI_N: Primosomal pr 27.0 40 0.00087 27.5 1.7 29 358-386 17-45 (94)
419 PRK06964 DNA polymerase III su 26.7 1.1E+02 0.0025 31.2 5.3 40 60-100 130-169 (342)
420 PRK10875 recD exonuclease V su 26.5 70 0.0015 35.5 3.9 37 62-102 265-301 (615)
421 PRK12402 replication factor C 26.5 60 0.0013 32.5 3.2 39 61-100 124-162 (337)
422 PRK04132 replication factor C 26.4 57 0.0012 37.6 3.3 37 62-99 630-666 (846)
423 KOG0335 ATP-dependent RNA heli 26.2 1.2E+02 0.0025 32.5 5.3 55 165-223 153-211 (482)
424 cd01522 RHOD_1 Member of the R 26.1 1.5E+02 0.0033 24.7 5.2 37 163-199 63-100 (117)
425 TIGR00162 conserved hypothetic 26.1 4.1E+02 0.009 24.6 8.5 34 271-306 91-124 (188)
426 KOG0385 Chromatin remodeling c 26.0 3.1E+02 0.0068 31.3 8.5 60 161-223 214-276 (971)
427 PRK08691 DNA polymerase III su 25.9 80 0.0017 35.5 4.2 40 60-100 117-156 (709)
428 cd01120 RecA-like_NTPases RecA 25.7 60 0.0013 28.0 2.8 46 60-105 83-138 (165)
429 KOG0991 Replication factor C, 25.6 53 0.0012 31.9 2.4 46 61-107 112-157 (333)
430 TIGR01970 DEAH_box_HrpB ATP-de 25.6 1.1E+02 0.0024 35.2 5.4 46 12-67 236-285 (819)
431 PRK14086 dnaA chromosomal repl 25.6 55 0.0012 36.2 2.9 75 34-108 344-425 (617)
432 PRK01172 ski2-like helicase; P 25.3 1.8E+02 0.004 32.5 7.1 61 156-223 57-120 (674)
433 PRK00162 glpE thiosulfate sulf 25.3 1.5E+02 0.0033 24.2 5.0 37 164-200 58-95 (108)
434 PRK10869 recombination and rep 25.0 71 0.0015 35.0 3.7 40 62-101 452-491 (553)
435 COG1875 NYN ribonuclease and A 24.9 80 0.0017 32.7 3.6 33 64-100 353-385 (436)
436 PRK11664 ATP-dependent RNA hel 24.9 1.3E+02 0.0027 34.8 5.7 46 12-67 239-288 (812)
437 PRK05298 excinuclease ABC subu 24.6 3.8E+02 0.0083 30.0 9.4 79 143-223 38-143 (652)
438 PRK14088 dnaA chromosomal repl 24.5 94 0.002 33.0 4.4 77 34-110 160-244 (440)
439 TIGR02397 dnaX_nterm DNA polym 24.5 1.1E+02 0.0023 31.0 4.7 18 59-76 114-131 (355)
440 PHA02558 uvsW UvsW helicase; P 24.4 97 0.0021 33.4 4.5 49 12-69 368-420 (501)
441 COG4555 NatA ABC-type Na+ tran 24.3 1.1E+02 0.0023 29.3 4.1 56 59-114 148-203 (245)
442 PRK14949 DNA polymerase III su 24.2 54 0.0012 38.0 2.5 43 61-105 118-160 (944)
443 KOG0741 AAA+-type ATPase [Post 23.9 1.5E+02 0.0033 32.3 5.5 65 12-78 537-614 (744)
444 PRK06871 DNA polymerase III su 23.9 1.3E+02 0.0027 30.7 4.9 65 33-100 72-144 (325)
445 PRK13341 recombination factor 23.9 1.4E+02 0.003 34.0 5.7 41 62-107 109-149 (725)
446 PRK14957 DNA polymerase III su 23.7 66 0.0014 35.2 3.0 40 60-100 117-156 (546)
447 PRK12377 putative replication 23.6 1.1E+02 0.0023 29.9 4.2 71 31-101 126-204 (248)
448 PRK05703 flhF flagellar biosyn 23.5 6.3E+02 0.014 26.6 10.3 95 12-114 251-354 (424)
449 PRK13342 recombination factor 23.5 1.3E+02 0.0029 31.5 5.2 38 62-104 92-129 (413)
450 cd00079 HELICc Helicase superf 23.3 2.3E+02 0.005 23.2 5.9 50 12-71 52-105 (131)
451 KOG0341 DEAD-box protein abstr 23.0 1.3E+02 0.0027 31.4 4.6 55 165-223 247-311 (610)
452 KOG0342 ATP-dependent RNA heli 22.9 2.1E+02 0.0046 30.7 6.3 55 165-223 155-214 (543)
453 PHA00012 I assembly protein 22.9 1.2E+02 0.0026 31.0 4.5 42 61-102 80-127 (361)
454 cd01979 Pchlide_reductase_N Pc 22.9 5.8E+02 0.012 26.5 9.8 81 31-114 24-113 (396)
455 COG2812 DnaX DNA polymerase II 22.9 42 0.00092 36.3 1.4 29 58-86 115-143 (515)
456 cd01422 MGS Methylglyoxal synt 22.9 1.2E+02 0.0025 25.7 3.8 42 181-223 37-79 (115)
457 PRK14965 DNA polymerase III su 22.9 68 0.0015 35.4 3.0 41 59-100 116-156 (576)
458 PF03354 Terminase_1: Phage Te 22.8 72 0.0016 34.2 3.1 39 61-100 122-160 (477)
459 PRK11034 clpA ATP-dependent Cl 22.8 83 0.0018 35.9 3.7 44 64-107 280-327 (758)
460 PRK00411 cdc6 cell division co 22.7 81 0.0017 32.5 3.4 27 63-89 139-165 (394)
461 PF03808 Glyco_tran_WecB: Glyc 22.4 5.8E+02 0.013 23.0 9.1 70 153-222 36-109 (172)
462 PRK00771 signal recognition pa 22.2 3.2E+02 0.0069 29.1 7.7 52 63-114 176-228 (437)
463 smart00382 AAA ATPases associa 22.2 1.1E+02 0.0024 25.0 3.6 20 63-82 79-98 (148)
464 PF01637 Arch_ATPase: Archaeal 22.0 87 0.0019 28.9 3.2 40 64-103 120-165 (234)
465 CHL00181 cbbX CbbX; Provisiona 21.8 1.5E+02 0.0033 29.4 5.0 46 64-109 124-175 (287)
466 COG0553 HepA Superfamily II DN 21.8 1.2E+02 0.0026 34.7 4.9 96 13-114 416-522 (866)
467 PF00448 SRP54: SRP54-type pro 21.7 1.8E+02 0.004 27.0 5.3 100 2-108 20-130 (196)
468 PF12340 DUF3638: Protein of u 21.7 34 0.00073 33.0 0.3 45 33-77 129-187 (229)
469 COG0497 RecN ATPase involved i 21.6 1.1E+02 0.0024 33.5 4.1 40 62-101 453-492 (557)
470 COG2247 LytB Putative cell wal 21.4 3E+02 0.0066 27.9 6.8 67 153-221 67-139 (337)
471 KOG0344 ATP-dependent RNA heli 21.3 1.9E+02 0.0042 31.6 5.8 59 3-71 403-465 (593)
472 KOG0964 Structural maintenance 21.2 59 0.0013 37.5 2.0 52 63-116 1120-1171(1200)
473 PRK09189 uroporphyrinogen-III 20.9 2.3E+02 0.005 26.9 6.0 72 151-223 104-179 (240)
474 COG3845 ABC-type uncharacteriz 20.8 2E+02 0.0043 30.9 5.7 32 258-304 431-462 (501)
475 PF00072 Response_reg: Respons 20.8 2.8E+02 0.0061 21.9 5.8 56 39-106 29-84 (112)
476 COG2927 HolC DNA polymerase II 20.7 6.1E+02 0.013 22.6 9.8 62 153-223 17-79 (144)
477 TIGR02981 phageshock_pspE phag 20.7 1.6E+02 0.0034 24.2 4.1 35 164-198 58-92 (101)
478 PRK10287 thiosulfate:cyanide s 20.6 1.6E+02 0.0034 24.4 4.1 35 164-198 60-94 (104)
479 PRK14188 bifunctional 5,10-met 20.6 6.2E+02 0.014 25.3 9.0 49 151-199 142-193 (296)
480 PTZ00240 60S ribosomal protein 20.6 6.2E+02 0.013 25.7 9.0 30 161-192 88-117 (323)
481 COG1201 Lhr Lhr-like helicases 20.3 1.3E+02 0.0028 34.6 4.5 48 173-224 86-133 (814)
482 PF09010 AsiA: Anti-Sigma Fact 20.3 35 0.00076 27.6 0.1 38 179-216 32-80 (91)
483 TIGR00634 recN DNA repair prot 20.2 99 0.0022 33.9 3.6 40 62-101 462-501 (563)
484 PRK07993 DNA polymerase III su 20.1 1.6E+02 0.0034 30.1 4.8 68 33-104 72-148 (334)
485 PF14617 CMS1: U3-containing 9 20.1 3.2E+02 0.007 26.7 6.7 56 165-223 127-186 (252)
No 1
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.1e-109 Score=816.52 Aligned_cols=439 Identities=49% Similarity=0.786 Sum_probs=385.3
Q ss_pred ChHHHHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcH
Q 011428 1 MALIELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYE 80 (486)
Q Consensus 1 ~~l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~ 80 (486)
++|++||++ +++++++++++++.++..+|.+.|||||+||++++.|+..+.+ ..++.|++||+||||+++++||+
T Consensus 114 ekL~~~c~k--~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~~~~~---~~~~~l~~LVvDEADLllsfGYe 188 (569)
T KOG0346|consen 114 EKLVEYCSK--DLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLAAGVL---EYLDSLSFLVVDEADLLLSFGYE 188 (569)
T ss_pred HHHHHHHHH--hhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHhhccc---hhhhheeeEEechhhhhhhcccH
Confidence 479999999 9999999999999999999999999999999999999998853 67899999999999999999999
Q ss_pred HHHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHh
Q 011428 81 DDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKL 160 (486)
Q Consensus 81 ~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~ 160 (486)
+++..|.+++|+.+|++|||||+++++..|++++|+||+++++.+. +...+++++||++.|++++|++++|++|++
T Consensus 189 edlk~l~~~LPr~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~----el~~~dqL~Qy~v~cse~DKflllyallKL 264 (569)
T KOG0346|consen 189 EDLKKLRSHLPRIYQCFLMSATLSDDVQALKKLFLHNPVILKLTEG----ELPNPDQLTQYQVKCSEEDKFLLLYALLKL 264 (569)
T ss_pred HHHHHHHHhCCchhhheeehhhhhhHHHHHHHHhccCCeEEEeccc----cCCCcccceEEEEEeccchhHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999872 223567999999999999999999999999
Q ss_pred hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCC-CCCCcc
Q 011428 161 ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSD-EGGHVD 239 (486)
Q Consensus 161 ~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~-~~~~~~ 239 (486)
.+++|++||||||+++||+|.+||++|||++|+|||+||.++|+||+++||.|.|+|+||||..+..+..+++ .++..+
T Consensus 265 ~LI~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s~~~~~~eee~kgk~~e 344 (569)
T KOG0346|consen 265 RLIRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDDSADGDKLEEEVKGKSDE 344 (569)
T ss_pred HHhcCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCcceeEEEEccCccchhhhhccccccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999976422111111 111111
Q ss_pred cc-cccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcc
Q 011428 240 SR-KSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGD 318 (486)
Q Consensus 240 ~~-~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~ 318 (486)
.. +..++.+.++|.|||++|||||.+|++|||||+|.++.+||||+|||||+|++|++++||+|.+......+++.+..
T Consensus 345 ~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg~n~GtalSfv~P~e~~g~~~le~~~~d 424 (569)
T KOG0346|consen 345 KNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARGNNKGTALSFVSPKEEFGKESLESILKD 424 (569)
T ss_pred cCCCCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhccccccCCCCCceEEEecchHHhhhhHHHHHHhh
Confidence 11 11223344899999999999999999999999999999999999999999999999999999999888888888876
Q ss_pred ccccc-cCCCCCcccccHHHHHHHHhhHHHHHHHHhHHHHHHHHHHHHHHHHhchHHHHHhhccCccchhhhcccccCCC
Q 011428 319 DENED-SNIIAPFPLLAQNAVESLRYRAEDVAKSVTKIAVRESRAQDLRNEILNSEKLKAHFEVNPKDLDLLKHDKDLSK 397 (486)
Q Consensus 319 ~~~~~-~~~~~~~~~~~~~~ve~~~~r~~d~~~~vt~~~~~ear~~e~~~e~l~s~~lk~~f~~n~~dl~~l~~d~~l~~ 397 (486)
...+. ...++||+ |+++++|+||||++|+|+++|++||+++|++||++|+++||+||+||++||+||++|+||+++++
T Consensus 425 ~~~~~~~qilqPY~-f~~eevesfryR~eD~~ravTkvAvreaR~kEikqEll~SeKLK~~FeeNprdl~lLrhDkpl~~ 503 (569)
T KOG0346|consen 425 ENRQEGRQILQPYQ-FRMEEVESFRYRAEDALRAVTKVAVREARLKEIKQELLNSEKLKAFFEENPRDLQLLRHDKPLRL 503 (569)
T ss_pred HHhhcCcccccccc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhcChHHHHHhhcCCcccc
Confidence 54333 23599999 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccCCCccccchhhHHHHHhHhHHH---hhcCCCCCCCCCCCCCCCCCCCCCcccccCc
Q 011428 398 KPPASHLRDVPDYLLDAKTQEACKMVKLAR---AAMGNKNSSRRQGPRRKFRKSDPLKSFSAEP 458 (486)
Q Consensus 398 ~~~~~~l~~vp~yl~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~ 458 (486)
..+++||+|||+||+|+++++.++.+.-.+ +|+++. ++++..|||++|..++
T Consensus 504 ~~~qphL~dvpeYlvp~alr~~~~~~k~r~~g~~~~r~n---------~~rk~~kp~r~f~~kg 558 (569)
T KOG0346|consen 504 AIVQPHLKDVPEYLVPEALRGVVKSVKTRAPGFSPFRNN---------KRRKVQKPLRKFQPKG 558 (569)
T ss_pred cccchhhccCchhhCCHHHhhcccccccccCCCccchhh---------hhhhccCchhhcCCCC
Confidence 999999999999999999999755422100 111111 3346778888887644
No 2
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.5e-56 Score=432.08 Aligned_cols=294 Identities=31% Similarity=0.498 Sum_probs=272.2
Q ss_pred hhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHH
Q 011428 7 CKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKAL 86 (486)
Q Consensus 7 ~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i 86 (486)
++.-+|++|..+.||++...|...|...|||||||||+|++|+.+. ..+.+.+|++||+||||.++++.|.+.+..|
T Consensus 152 Lg~~iglr~~~lvGG~~m~~q~~~L~kkPhilVaTPGrL~dhl~~T---kgf~le~lk~LVlDEADrlLd~dF~~~ld~I 228 (476)
T KOG0330|consen 152 LGSGIGLRVAVLVGGMDMMLQANQLSKKPHILVATPGRLWDHLENT---KGFSLEQLKFLVLDEADRLLDMDFEEELDYI 228 (476)
T ss_pred hccccCeEEEEEecCchHHHHHHHhhcCCCEEEeCcHHHHHHHHhc---cCccHHHhHHHhhchHHhhhhhhhHHHHHHH
Confidence 3455789999999999999999999999999999999999999953 3478999999999999999999999999999
Q ss_pred HHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCe
Q 011428 87 SAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKK 166 (486)
Q Consensus 87 ~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k 166 (486)
+..+|...|++|||||||..+.+|....+.+|+.+.... ...+.+.+.|+|+.++..+|..+|..+++.. ..+.
T Consensus 229 Lk~ip~erqt~LfsATMt~kv~kL~rasl~~p~~v~~s~-----ky~tv~~lkQ~ylfv~~k~K~~yLV~ll~e~-~g~s 302 (476)
T KOG0330|consen 229 LKVIPRERQTFLFSATMTKKVRKLQRASLDNPVKVAVSS-----KYQTVDHLKQTYLFVPGKDKDTYLVYLLNEL-AGNS 302 (476)
T ss_pred HHhcCccceEEEEEeecchhhHHHHhhccCCCeEEeccc-----hhcchHHhhhheEeccccccchhHHHHHHhh-cCCc
Confidence 999999999999999999999999999999999998877 5667789999999999999999999999854 4689
Q ss_pred EEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKH 246 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~ 246 (486)
+|||||+...+.+++.+|...|+.+..|||+|+++.|.-.++.|++|..+||+|||++
T Consensus 303 ~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVa---------------------- 360 (476)
T KOG0330|consen 303 VIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVA---------------------- 360 (476)
T ss_pred EEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccCCcEEEecchh----------------------
Confidence 9999999999999999999999999999999999999999999999999999999995
Q ss_pred CCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccccccccCC
Q 011428 247 PKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDDENEDSNI 326 (486)
Q Consensus 247 ~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~~~~~~~~ 326 (486)
|||+|+|.|++|||||+|.+..+||||+|||||+|++|.+|+||+..|.+.+..+|..++..
T Consensus 361 -----------SRGLDip~Vd~VVNyDiP~~skDYIHRvGRtaRaGrsG~~ItlVtqyDve~~qrIE~~~gkk------- 422 (476)
T KOG0330|consen 361 -----------SRGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAGRSGKAITLVTQYDVELVQRIEHALGKK------- 422 (476)
T ss_pred -----------cccCCCCCceEEEecCCCCcHHHHHHHcccccccCCCcceEEEEehhhhHHHHHHHHHHhcC-------
Confidence 79999999999999999999999999999999999999999999999999999999888654
Q ss_pred CCCcccccHHHHHHHHhhHHHHHH
Q 011428 327 IAPFPLLAQNAVESLRYRAEDVAK 350 (486)
Q Consensus 327 ~~~~~~~~~~~ve~~~~r~~d~~~ 350 (486)
+..|+ .+.+++-.+..|+.+|.+
T Consensus 423 l~~~~-~~~~~~~~l~erv~eA~~ 445 (476)
T KOG0330|consen 423 LPEYK-VDKNEVMSLNERVAEAQK 445 (476)
T ss_pred CCccC-cchHHHHHHHHHHHHHHH
Confidence 55566 677788888888876544
No 3
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.2e-54 Score=429.40 Aligned_cols=351 Identities=29% Similarity=0.473 Sum_probs=294.3
Q ss_pred hHHHHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHH
Q 011428 2 ALIELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYED 81 (486)
Q Consensus 2 ~l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~ 81 (486)
+|++|| +|.|+...||.+...|...|..+|||||+|||||.+||.+. ..+.++++.+||+||||+||+.||.+
T Consensus 274 qlaqFt----~I~~~L~vGGL~lk~QE~~LRs~PDIVIATPGRlIDHlrNs---~sf~ldsiEVLvlDEADRMLeegFad 346 (691)
T KOG0338|consen 274 QLAQFT----DITVGLAVGGLDLKAQEAVLRSRPDIVIATPGRLIDHLRNS---PSFNLDSIEVLVLDEADRMLEEGFAD 346 (691)
T ss_pred HHHhhc----cceeeeeecCccHHHHHHHHhhCCCEEEecchhHHHHhccC---CCccccceeEEEechHHHHHHHHHHH
Confidence 345555 79999999999999999999999999999999999999976 35889999999999999999999999
Q ss_pred HHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc---hhhhHHHHHHHH
Q 011428 82 DLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS---ERDKLLYILTLL 158 (486)
Q Consensus 82 ~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~---~~~k~~~l~~ll 158 (486)
+|..|+..+|+++|++||||||++.|..|..+.|.+|+-|.+++ .......|+|.|+.+. +.++..++..++
T Consensus 347 emnEii~lcpk~RQTmLFSATMteeVkdL~slSL~kPvrifvd~-----~~~~a~~LtQEFiRIR~~re~dRea~l~~l~ 421 (691)
T KOG0338|consen 347 EMNEIIRLCPKNRQTMLFSATMTEEVKDLASLSLNKPVRIFVDP-----NKDTAPKLTQEFIRIRPKREGDREAMLASLI 421 (691)
T ss_pred HHHHHHHhccccccceeehhhhHHHHHHHHHhhcCCCeEEEeCC-----ccccchhhhHHHheeccccccccHHHHHHHH
Confidence 99999999999999999999999999999999999999999987 6667789999998775 456777777777
Q ss_pred HhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCc
Q 011428 159 KLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHV 238 (486)
Q Consensus 159 k~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~ 238 (486)
.... ...+||||.|...|.++.-.|--.|+++.-|||.|++.+|...++.|+.++++||||||++
T Consensus 422 ~rtf-~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvA-------------- 486 (691)
T KOG0338|consen 422 TRTF-QDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVA-------------- 486 (691)
T ss_pred HHhc-ccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechh--------------
Confidence 6544 7899999999999999999999999999999999999999999999999999999999995
Q ss_pred ccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcc
Q 011428 239 DSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGD 318 (486)
Q Consensus 239 ~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~ 318 (486)
|||+||++|..||||++|.+.+.|+||+|||+|+|+.|.+++||...|.+.++.+-+-...
T Consensus 487 -------------------sRGLDI~gV~tVINy~mP~t~e~Y~HRVGRTARAGRaGrsVtlvgE~dRkllK~iik~~~~ 547 (691)
T KOG0338|consen 487 -------------------SRGLDIEGVQTVINYAMPKTIEHYLHRVGRTARAGRAGRSVTLVGESDRKLLKEIIKSSTK 547 (691)
T ss_pred -------------------hccCCccceeEEEeccCchhHHHHHHHhhhhhhcccCcceEEEeccccHHHHHHHHhhhhh
Confidence 7999999999999999999999999999999999999999999999998777766543211
Q ss_pred ccccccCCCCCcccccHHHHHHHHhhHHHHHHHHhHHHHHHHHHHHHHHHHhchHHHHHhhccCccchhhhcccccCCCC
Q 011428 319 DENEDSNIIAPFPLLAQNAVESLRYRAEDVAKSVTKIAVRESRAQDLRNEILNSEKLKAHFEVNPKDLDLLKHDKDLSKK 398 (486)
Q Consensus 319 ~~~~~~~~~~~~~~~~~~~ve~~~~r~~d~~~~vt~~~~~ear~~e~~~e~l~s~~lk~~f~~n~~dl~~l~~d~~l~~~ 398 (486)
. ...++.-. +++..|+.|+.++++.-..+..+...|..-+|+..--..- .+.-+.|.|..++...
T Consensus 548 a----~~klk~R~-i~~~~Iek~~~~ieemE~~iq~vl~eE~~ekel~~ae~ql----------~k~en~Le~g~ei~ar 612 (691)
T KOG0338|consen 548 A----GSKLKNRN-IPPEVIEKFRKKIEEMEDTIQAVLDEEREEKELSKAEAQL----------EKGENMLEHGDEIYAR 612 (691)
T ss_pred c----ccchhhcC-CCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHH----------HHHHHHHhhccccccC
Confidence 1 11133333 6688999999999988877777666666655554321111 1233467777777655
Q ss_pred CccccccCCCccccchhhHHHH
Q 011428 399 PPASHLRDVPDYLLDAKTQEAC 420 (486)
Q Consensus 399 ~~~~~l~~vp~yl~~~~~~~~~ 420 (486)
+...| ++.+..+...
T Consensus 613 prRtW-------Fqte~~kk~~ 627 (691)
T KOG0338|consen 613 PRRTW-------FQTEKDKKAS 627 (691)
T ss_pred ccchh-------hhhhHHHHHH
Confidence 55455 4555555443
No 4
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.2e-52 Score=444.40 Aligned_cols=267 Identities=34% Similarity=0.519 Sum_probs=249.1
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCC
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIP 91 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp 91 (486)
+++++.++||++...|...|..+|||||||||||++|+..+. +.++.+.+||+||||.|+++||.+++..|+..+|
T Consensus 128 ~~~~~~i~GG~~~~~q~~~l~~~~~ivVaTPGRllD~i~~~~----l~l~~v~~lVlDEADrmLd~Gf~~~i~~I~~~~p 203 (513)
T COG0513 128 GLRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGK----LDLSGVETLVLDEADRMLDMGFIDDIEKILKALP 203 (513)
T ss_pred CccEEEEECCCCHHHHHHHHhcCCCEEEECccHHHHHHHcCC----cchhhcCEEEeccHhhhhcCCCHHHHHHHHHhCC
Confidence 689999999999999999999899999999999999999875 8899999999999999999999999999999999
Q ss_pred CCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhh-hHHHHHHHHHhhccCCeEEEE
Q 011428 92 RGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERD-KLLYILTLLKLELVQKKALIF 170 (486)
Q Consensus 92 ~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~-k~~~l~~llk~~~~~~k~IIF 170 (486)
...|+++||||+|+.+..+...++.+|..+.+.... .......+.|+|+.+...+ |+.+|+.++.... ..++|||
T Consensus 204 ~~~qtllfSAT~~~~i~~l~~~~l~~p~~i~v~~~~---~~~~~~~i~q~~~~v~~~~~k~~~L~~ll~~~~-~~~~IVF 279 (513)
T COG0513 204 PDRQTLLFSATMPDDIRELARRYLNDPVEIEVSVEK---LERTLKKIKQFYLEVESEEEKLELLLKLLKDED-EGRVIVF 279 (513)
T ss_pred cccEEEEEecCCCHHHHHHHHHHccCCcEEEEcccc---ccccccCceEEEEEeCCHHHHHHHHHHHHhcCC-CCeEEEE
Confidence 999999999999999999999999999988876410 2236789999999999876 9999999998655 5589999
Q ss_pred ecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCc
Q 011428 171 TNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAK 250 (486)
Q Consensus 171 vns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (486)
|+|+..|..|+..|...|++++.|||+|++++|.++++.|++|.++||||||++
T Consensus 280 ~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDva-------------------------- 333 (513)
T COG0513 280 VRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVA-------------------------- 333 (513)
T ss_pred eCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechh--------------------------
Confidence 999999999999999999999999999999999999999999999999999994
Q ss_pred ccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcc-hhhHHHHHHHHhccc
Q 011428 251 LDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPD-EMKIFEEIKSFVGDD 319 (486)
Q Consensus 251 ~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~-e~~~~~~~~~~l~~~ 319 (486)
+||||+++|++|||||+|.++++|+||+|||||+|+.|.+++|+++. |...+..+++.+...
T Consensus 334 -------aRGiDi~~v~~VinyD~p~~~e~yvHRiGRTgRaG~~G~ai~fv~~~~e~~~l~~ie~~~~~~ 396 (513)
T COG0513 334 -------ARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRKGVAISFVTEEEEVKKLKRIEKRLERK 396 (513)
T ss_pred -------hccCCccccceeEEccCCCCHHHheeccCccccCCCCCeEEEEeCcHHHHHHHHHHHHHHhcc
Confidence 79999999999999999999999999999999999999999999986 888888898887554
No 5
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.6e-52 Score=432.66 Aligned_cols=269 Identities=30% Similarity=0.439 Sum_probs=250.1
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI 90 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l 90 (486)
+.++++.++||.+...|...|..+.||+|||||||.++++.+. ..++++.|||+||||+|+++||+++++.|+..+
T Consensus 192 ~~~~~~cvyGG~~~~~Q~~~l~~gvdiviaTPGRl~d~le~g~----~~l~~v~ylVLDEADrMldmGFe~qI~~Il~~i 267 (519)
T KOG0331|consen 192 LRLRSTCVYGGAPKGPQLRDLERGVDVVIATPGRLIDLLEEGS----LNLSRVTYLVLDEADRMLDMGFEPQIRKILSQI 267 (519)
T ss_pred CCccEEEEeCCCCccHHHHHHhcCCcEEEeCChHHHHHHHcCC----ccccceeEEEeccHHhhhccccHHHHHHHHHhc
Confidence 5688999999999999999999999999999999999999987 889999999999999999999999999999999
Q ss_pred -CCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhc--cCCeE
Q 011428 91 -PRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLEL--VQKKA 167 (486)
Q Consensus 91 -p~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~--~~~k~ 167 (486)
++..|++++|||+|.++..|+..|+.+|..+.+.... ......++.|....|++..|...|..+|.... ..+|+
T Consensus 268 ~~~~rQtlm~saTwp~~v~~lA~~fl~~~~~i~ig~~~---~~~a~~~i~qive~~~~~~K~~~l~~lL~~~~~~~~~Kv 344 (519)
T KOG0331|consen 268 PRPDRQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKK---ELKANHNIRQIVEVCDETAKLRKLGKLLEDISSDSEGKV 344 (519)
T ss_pred CCCcccEEEEeeeccHHHHHHHHHHhcCceEEEecchh---hhhhhcchhhhhhhcCHHHHHHHHHHHHHHHhccCCCcE
Confidence 4556899999999999999999999999999876521 23455689999999999999999999987764 56799
Q ss_pred EEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCC
Q 011428 168 LIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHP 247 (486)
Q Consensus 168 IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (486)
||||+|+..|.+|...|...++++..|||+.++.+|..+++.|++|.+.||||||++
T Consensus 345 IIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVA----------------------- 401 (519)
T KOG0331|consen 345 IIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVA----------------------- 401 (519)
T ss_pred EEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccCCcceEEEcccc-----------------------
Confidence 999999999999999999999999999999999999999999999999999999995
Q ss_pred CCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccc
Q 011428 248 KAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDD 319 (486)
Q Consensus 248 ~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~ 319 (486)
+||||+|+|++|||||+|.++++|+||+|||||+|+.|+|++|++..+......+.+++...
T Consensus 402 ----------aRGLDi~dV~lVInydfP~~vEdYVHRiGRTGRa~~~G~A~tfft~~~~~~a~~l~~~l~e~ 463 (519)
T KOG0331|consen 402 ----------ARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGTAITFFTSDNAKLARELIKVLREA 463 (519)
T ss_pred ----------cccCCCccccEEEeCCCCCCHHHHHhhcCccccCCCCceEEEEEeHHHHHHHHHHHHHHHHc
Confidence 79999999999999999999999999999999999999999999999998888888887554
No 6
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=100.00 E-value=4.4e-51 Score=410.85 Aligned_cols=268 Identities=30% Similarity=0.446 Sum_probs=248.7
Q ss_pred hhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHH
Q 011428 7 CKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKAL 86 (486)
Q Consensus 7 ~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i 86 (486)
.+..++++++.+.||.+..+|.-.|..+++|||||||+|.+.|.+.. +.++++.+||+||||.|+++||++++..+
T Consensus 345 f~~~lg~r~vsvigg~s~EEq~fqls~gceiviatPgrLid~Lenr~----lvl~qctyvvldeadrmiDmgfE~dv~~i 420 (673)
T KOG0333|consen 345 FGKPLGIRTVSVIGGLSFEEQGFQLSMGCEIVIATPGRLIDSLENRY----LVLNQCTYVVLDEADRMIDMGFEPDVQKI 420 (673)
T ss_pred hcccccceEEEEecccchhhhhhhhhccceeeecCchHHHHHHHHHH----HHhccCceEeccchhhhhcccccHHHHHH
Confidence 34456899999999999999998999999999999999999999876 77899999999999999999999999999
Q ss_pred HHHCCC-------------------------CccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEE
Q 011428 87 SAVIPR-------------------------GCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQF 141 (486)
Q Consensus 87 ~~~lp~-------------------------~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~ 141 (486)
+.++|. -.|+++||||||+.++.|++.||.+|+++.+.. .....+.+.|.
T Consensus 421 L~~mPssn~k~~tde~~~~~~~~~~~~~~k~yrqT~mftatm~p~verlar~ylr~pv~vtig~-----~gk~~~rveQ~ 495 (673)
T KOG0333|consen 421 LEQMPSSNAKPDTDEKEGEERVRKNFSSSKKYRQTVMFTATMPPAVERLARSYLRRPVVVTIGS-----AGKPTPRVEQK 495 (673)
T ss_pred HHhCCccccCCCccchhhHHHHHhhcccccceeEEEEEecCCChHHHHHHHHHhhCCeEEEecc-----CCCCccchheE
Confidence 999983 179999999999999999999999999999876 44556689999
Q ss_pred EEEcchhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEc
Q 011428 142 WISCSERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIAT 221 (486)
Q Consensus 142 ~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaT 221 (486)
++.+.+++|+..|..+|+.+. ..++|||||++..|..|+..|+..|++++.|||+-++++|..+++.|+.|..+|||||
T Consensus 496 v~m~~ed~k~kkL~eil~~~~-~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlVaT 574 (673)
T KOG0333|consen 496 VEMVSEDEKRKKLIEILESNF-DPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADFREGTGDILVAT 574 (673)
T ss_pred EEEecchHHHHHHHHHHHhCC-CCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHHHHHHHHHHhcCCCEEEEe
Confidence 999999999999999998774 7899999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEe
Q 011428 222 DDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLV 301 (486)
Q Consensus 222 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv 301 (486)
|++ +||||+|||++|||||++.++++|+||||||||+|+.|+|++|+
T Consensus 575 DvA---------------------------------gRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~GtaiSfl 621 (673)
T KOG0333|consen 575 DVA---------------------------------GRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGTAISFL 621 (673)
T ss_pred ccc---------------------------------ccCCCCCccceeeecchhhhHHHHHHHhccccccccCceeEEEe
Confidence 995 59999999999999999999999999999999999999999999
Q ss_pred CcchhhHHHHHHHHhc
Q 011428 302 SPDEMKIFEEIKSFVG 317 (486)
Q Consensus 302 ~~~e~~~~~~~~~~l~ 317 (486)
++.+...+-.+...+.
T Consensus 622 t~~dt~v~ydLkq~l~ 637 (673)
T KOG0333|consen 622 TPADTAVFYDLKQALR 637 (673)
T ss_pred ccchhHHHHHHHHHHH
Confidence 9999776666655553
No 7
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=100.00 E-value=2.9e-50 Score=403.45 Aligned_cols=329 Identities=25% Similarity=0.368 Sum_probs=275.1
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCC
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIP 91 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp 91 (486)
.+.+..+.||.........+..+++|+|||||||++||++.. .....+++++|+||||++++.||++++..|+..+|
T Consensus 183 ~~~v~~viGG~~~~~e~~kl~k~~niliATPGRLlDHlqNt~---~f~~r~~k~lvlDEADrlLd~GF~~di~~Ii~~lp 259 (543)
T KOG0342|consen 183 SITVGIVIGGNNFSVEADKLVKGCNILIATPGRLLDHLQNTS---GFLFRNLKCLVLDEADRLLDIGFEEDVEQIIKILP 259 (543)
T ss_pred CcceEEEeCCccchHHHHHhhccccEEEeCCchHHhHhhcCC---cchhhccceeEeecchhhhhcccHHHHHHHHHhcc
Confidence 789999999999887777788899999999999999999764 35667889999999999999999999999999999
Q ss_pred CCccEEEEeeecChhHHHHHHHhccC-CcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEEE
Q 011428 92 RGCQCLLMSATSSSDVDKLKKLILHN-PYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKALIF 170 (486)
Q Consensus 92 ~~~q~il~SATl~~~v~~l~~~~l~~-p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIF 170 (486)
+..|++|||||+|+.|+.++...+.. |+.+.+.+.+ ...+...+.|.|+.++...++.+++.+|+.+....++|||
T Consensus 260 k~rqt~LFSAT~~~kV~~l~~~~L~~d~~~v~~~d~~---~~~The~l~Qgyvv~~~~~~f~ll~~~LKk~~~~~KiiVF 336 (543)
T KOG0342|consen 260 KQRQTLLFSATQPSKVKDLARGALKRDPVFVNVDDGG---ERETHERLEQGYVVAPSDSRFSLLYTFLKKNIKRYKIIVF 336 (543)
T ss_pred ccceeeEeeCCCcHHHHHHHHHhhcCCceEeecCCCC---CcchhhcccceEEeccccchHHHHHHHHHHhcCCceEEEE
Confidence 99999999999999999999988865 8888876532 4456778999999999999999999999988766999999
Q ss_pred ecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCc
Q 011428 171 TNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAK 250 (486)
Q Consensus 171 vns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (486)
|+|...+..++..|....++|..+||.++++.|..+..+|.+.+..||+|||++
T Consensus 337 ~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVa-------------------------- 390 (543)
T KOG0342|consen 337 FSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVA-------------------------- 390 (543)
T ss_pred echhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcccceEEecchh--------------------------
Confidence 999999999999999999999999999999999999999999999999999995
Q ss_pred ccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccccccccCCCCCc
Q 011428 251 LDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDDENEDSNIIAPF 330 (486)
Q Consensus 251 ~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~~~~~~~~~~~~ 330 (486)
+||+|||+|++||+||+|.++++||||+|||||.|..|.+++|+.|+|..++..++++ .+.++
T Consensus 391 -------ARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRTaR~gk~G~alL~l~p~El~Flr~LK~l----------pl~~~ 453 (543)
T KOG0342|consen 391 -------ARGLDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKEGKALLLLAPWELGFLRYLKKL----------PLEEF 453 (543)
T ss_pred -------hccCCCCCceEEEEeCCCCCHHHHHHHhccccccCCCceEEEEeChhHHHHHHHHhhC----------CCccc
Confidence 7999999999999999999999999999999999999999999999999999888732 13334
Q ss_pred ccccHHHHHHHHhhHHHHHHHHhHHHHHHHHHHHH---HHHHhchHHHHHhhccCccchhhhcccc
Q 011428 331 PLLAQNAVESLRYRAEDVAKSVTKIAVRESRAQDL---RNEILNSEKLKAHFEVNPKDLDLLKHDK 393 (486)
Q Consensus 331 ~~~~~~~ve~~~~r~~d~~~~vt~~~~~ear~~e~---~~e~l~s~~lk~~f~~n~~dl~~l~~d~ 393 (486)
+ |....++....-.++.... ....+++- ++. .--.++|..|+.-|..|..||+.+.+..
T Consensus 454 e-~~~~~~~~v~~~~~~li~~--~y~~~~aa-k~ay~syl~~y~s~slk~~~~~~~l~La~~~~s~ 515 (543)
T KOG0342|consen 454 E-FPPLKPEDVQSQLEKLISK--NYSLKEAA-KEAYKSYLGAYNSHSLKDIFNVNLLELAAVAKSF 515 (543)
T ss_pred C-CCCCCHHHHHHHHHHHHHH--HhhHHHHH-HHHHHhhhhhccchhhhcccccchhhHHHHHHHc
Confidence 3 3333333332222222111 11112221 111 2234778999999999888887665543
No 8
>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=1.8e-50 Score=379.55 Aligned_cols=276 Identities=25% Similarity=0.429 Sum_probs=257.0
Q ss_pred HHHHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHH
Q 011428 3 LIELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDD 82 (486)
Q Consensus 3 l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~ 82 (486)
.+.-+++++++.|....||.+..+....+.-+.++|.+|||+++++++.+. +....+++||+||||.|++.||.++
T Consensus 114 vi~alg~~mnvq~hacigg~n~gedikkld~G~hvVsGtPGrv~dmikr~~----L~tr~vkmlVLDEaDemL~kgfk~Q 189 (400)
T KOG0328|consen 114 VILALGDYMNVQCHACIGGKNLGEDIKKLDYGQHVVSGTPGRVLDMIKRRS----LRTRAVKMLVLDEADEMLNKGFKEQ 189 (400)
T ss_pred HHHHhcccccceEEEEecCCccchhhhhhcccceEeeCCCchHHHHHHhcc----ccccceeEEEeccHHHHHHhhHHHH
Confidence 344567788999999999999888778888899999999999999999987 6678899999999999999999999
Q ss_pred HHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhh-hHHHHHHHHHhh
Q 011428 83 LKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERD-KLLYILTLLKLE 161 (486)
Q Consensus 83 l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~-k~~~l~~llk~~ 161 (486)
+..|.+++|++.|++++|||+|.++.+....|+.+|+-+-+.. ++.+.+++.|||+.++.++ |+..|..+...
T Consensus 190 iydiyr~lp~~~Qvv~~SATlp~eilemt~kfmtdpvrilvkr-----deltlEgIKqf~v~ve~EewKfdtLcdLYd~- 263 (400)
T KOG0328|consen 190 IYDIYRYLPPGAQVVLVSATLPHEILEMTEKFMTDPVRILVKR-----DELTLEGIKQFFVAVEKEEWKFDTLCDLYDT- 263 (400)
T ss_pred HHHHHHhCCCCceEEEEeccCcHHHHHHHHHhcCCceeEEEec-----CCCchhhhhhheeeechhhhhHhHHHHHhhh-
Confidence 9999999999999999999999999999999999999998877 7788889999999999666 99999988764
Q ss_pred ccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccc
Q 011428 162 LVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSR 241 (486)
Q Consensus 162 ~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~ 241 (486)
+.-.+++|||||+..+.+|...+++..+.+..+||+|++++|..++.+|++|..+|||+||+
T Consensus 264 LtItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~SrvLitTDV------------------ 325 (400)
T KOG0328|consen 264 LTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDV------------------ 325 (400)
T ss_pred hehheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCceEEEEech------------------
Confidence 44678999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccccc
Q 011428 242 KSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDDEN 321 (486)
Q Consensus 242 ~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~~~ 321 (486)
.+||||+|.|++|||||+|.+.+.|+|||||.||.|+.|.||.||...|...+..+++++....+
T Consensus 326 ---------------waRGiDv~qVslviNYDLP~nre~YIHRIGRSGRFGRkGvainFVk~~d~~~lrdieq~yst~i~ 390 (400)
T KOG0328|consen 326 ---------------WARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKSDDLRILRDIEQYYSTQID 390 (400)
T ss_pred ---------------hhccCCcceeEEEEecCCCccHHHHhhhhccccccCCcceEEEEecHHHHHHHHHHHHHHhhhcc
Confidence 68999999999999999999999999999999999999999999999999999999999876533
No 9
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=9.1e-50 Score=385.45 Aligned_cols=280 Identities=28% Similarity=0.426 Sum_probs=252.6
Q ss_pred hhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHH
Q 011428 7 CKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKAL 86 (486)
Q Consensus 7 ~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i 86 (486)
.++.+++++..++||++.-.|...|.++|||||+||||+.+++.++.-.-...+++++++|+||||.|++.+|.+++..+
T Consensus 98 lGk~l~lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflVlDEADrvL~~~f~d~L~~i 177 (442)
T KOG0340|consen 98 LGKLLNLKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLVLDEADRVLAGCFPDILEGI 177 (442)
T ss_pred hcccccceEEEEEccHHHhhhhhhcccCCCeEecCccccccccccCCccchhhhhceeeEEecchhhhhccchhhHHhhh
Confidence 45668999999999999999999999999999999999999998764333456799999999999999999999999999
Q ss_pred HHHCCCCccEEEEeeecChhHHHHHHHhccCC--cEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhcc-
Q 011428 87 SAVIPRGCQCLLMSATSSSDVDKLKKLILHNP--YILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELV- 163 (486)
Q Consensus 87 ~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p--~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~- 163 (486)
.+.+|..+|+++||||+++.+..+...-...+ ..+...+ ...+.+.+.|.|+.|+...|-.+++.+|.....
T Consensus 178 ~e~lP~~RQtLlfSATitd~i~ql~~~~i~k~~a~~~e~~~-----~vstvetL~q~yI~~~~~vkdaYLv~~Lr~~~~~ 252 (442)
T KOG0340|consen 178 EECLPKPRQTLLFSATITDTIKQLFGCPITKSIAFELEVID-----GVSTVETLYQGYILVSIDVKDAYLVHLLRDFENK 252 (442)
T ss_pred hccCCCccceEEEEeehhhHHHHhhcCCcccccceEEeccC-----CCCchhhhhhheeecchhhhHHHHHHHHhhhhhc
Confidence 99999999999999999999888777666653 3333322 556778999999999999999999999976544
Q ss_pred -CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccc
Q 011428 164 -QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRK 242 (486)
Q Consensus 164 -~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~ 242 (486)
.+.++||||+...|+.|+..|+..++++..|||.||+.+|...+..|+++..+||||||++
T Consensus 253 ~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVA------------------ 314 (442)
T KOG0340|consen 253 ENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVA------------------ 314 (442)
T ss_pred cCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcCccEEEEechh------------------
Confidence 6789999999999999999999999999999999999999999999999999999999995
Q ss_pred ccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcccccc
Q 011428 243 SKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDDENE 322 (486)
Q Consensus 243 ~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~~~~ 322 (486)
|||+|+|.|..|||||+|.++.+||||+|||+|+|+.|.+|+||++.|.+.+..+|+.++..
T Consensus 315 ---------------sRGLDIP~V~LVvN~diPr~P~~yiHRvGRtARAGR~G~aiSivt~rDv~l~~aiE~~igkK--- 376 (442)
T KOG0340|consen 315 ---------------SRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRKGMAISIVTQRDVELLQAIEEEIGKK--- 376 (442)
T ss_pred ---------------hcCCCCCceeEEEecCCCCCHHHHHHhhcchhcccCCcceEEEechhhHHHHHHHHHHHhcc---
Confidence 79999999999999999999999999999999999999999999999999999998877654
Q ss_pred ccCCCCCcc
Q 011428 323 DSNIIAPFP 331 (486)
Q Consensus 323 ~~~~~~~~~ 331 (486)
+.||+
T Consensus 377 ----l~e~~ 381 (442)
T KOG0340|consen 377 ----LTEYN 381 (442)
T ss_pred ----ccccc
Confidence 56666
No 10
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.1e-48 Score=373.00 Aligned_cols=276 Identities=30% Similarity=0.434 Sum_probs=256.7
Q ss_pred hHHHHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHH
Q 011428 2 ALIELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYED 81 (486)
Q Consensus 2 ~l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~ 81 (486)
+.+.-+++.++++|...+||++.....-.|.+..|++|+||||+++++..+. ..++...++|+||||.+++..|.+
T Consensus 171 qvc~~lskh~~i~vmvttGGT~lrDDI~Rl~~~VH~~vgTPGRIlDL~~KgV----a~ls~c~~lV~DEADKlLs~~F~~ 246 (459)
T KOG0326|consen 171 QVCKELSKHLGIKVMVTTGGTSLRDDIMRLNQTVHLVVGTPGRILDLAKKGV----ADLSDCVILVMDEADKLLSVDFQP 246 (459)
T ss_pred HHHHHHhcccCeEEEEecCCcccccceeeecCceEEEEcCChhHHHHHhccc----ccchhceEEEechhhhhhchhhhh
Confidence 3445567788999999999999988877888999999999999999999886 788999999999999999999999
Q ss_pred HHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhh
Q 011428 82 DLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLE 161 (486)
Q Consensus 82 ~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~ 161 (486)
.+..++..+|+..|++++|||+|-.|..+...++++|..+.+-+ +.+..+++|||..+.+..|...|-.++..
T Consensus 247 ~~e~li~~lP~~rQillySATFP~tVk~Fm~~~l~kPy~INLM~------eLtl~GvtQyYafV~e~qKvhCLntLfsk- 319 (459)
T KOG0326|consen 247 IVEKLISFLPKERQILLYSATFPLTVKGFMDRHLKKPYEINLME------ELTLKGVTQYYAFVEERQKVHCLNTLFSK- 319 (459)
T ss_pred HHHHHHHhCCccceeeEEecccchhHHHHHHHhccCcceeehhh------hhhhcchhhheeeechhhhhhhHHHHHHH-
Confidence 99999999999999999999999999999999999999998865 67788999999999999999999888753
Q ss_pred ccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccc
Q 011428 162 LVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSR 241 (486)
Q Consensus 162 ~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~ 241 (486)
+.-.++|||||+..+++.|+..+.+.|+.|..+|+.|-++.|..++..|++|.++.|||||.
T Consensus 320 LqINQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL------------------ 381 (459)
T KOG0326|consen 320 LQINQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDL------------------ 381 (459)
T ss_pred hcccceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccccceeeehhh------------------
Confidence 44578999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccccc
Q 011428 242 KSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDDEN 321 (486)
Q Consensus 242 ~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~~~ 321 (486)
+.||||++.|++|||||+|.++++|+|||||.||.|.-|.||++++-+|...+..+|..++..++
T Consensus 382 ---------------~TRGIDiqavNvVINFDfpk~aEtYLHRIGRsGRFGhlGlAInLityedrf~L~~IE~eLGtEI~ 446 (459)
T KOG0326|consen 382 ---------------FTRGIDIQAVNVVINFDFPKNAETYLHRIGRSGRFGHLGLAINLITYEDRFNLYRIEQELGTEIK 446 (459)
T ss_pred ---------------hhcccccceeeEEEecCCCCCHHHHHHHccCCccCCCcceEEEEEehhhhhhHHHHHHHhccccc
Confidence 68999999999999999999999999999999999999999999999999888888888776533
No 11
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=100.00 E-value=4.6e-47 Score=383.48 Aligned_cols=268 Identities=26% Similarity=0.427 Sum_probs=244.3
Q ss_pred HhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHH
Q 011428 6 LCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKA 85 (486)
Q Consensus 6 ~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~ 85 (486)
-.+++.++++..+.||.........+. +.+|+|||||||++|+.... .+..+++.+||+||||.|+++||...+..
T Consensus 163 kvgk~h~fSaGLiiGG~~~k~E~eRi~-~mNILVCTPGRLLQHmde~~---~f~t~~lQmLvLDEADR~LDMGFk~tL~~ 238 (758)
T KOG0343|consen 163 KVGKHHDFSAGLIIGGKDVKFELERIS-QMNILVCTPGRLLQHMDENP---NFSTSNLQMLVLDEADRMLDMGFKKTLNA 238 (758)
T ss_pred HHhhccccccceeecCchhHHHHHhhh-cCCeEEechHHHHHHhhhcC---CCCCCcceEEEeccHHHHHHHhHHHHHHH
Confidence 345667899999999998877766554 89999999999999999764 46779999999999999999999999999
Q ss_pred HHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCC
Q 011428 86 LSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQK 165 (486)
Q Consensus 86 i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~ 165 (486)
|++.+|+..|++|||||-+..+..|+++.+.+|.++.+.+.. ...++.++.|+|+.|+..+|+.+|+.+++.++ ..
T Consensus 239 Ii~~lP~~RQTLLFSATqt~svkdLaRLsL~dP~~vsvhe~a---~~atP~~L~Q~y~~v~l~~Ki~~L~sFI~shl-k~ 314 (758)
T KOG0343|consen 239 IIENLPKKRQTLLFSATQTKSVKDLARLSLKDPVYVSVHENA---VAATPSNLQQSYVIVPLEDKIDMLWSFIKSHL-KK 314 (758)
T ss_pred HHHhCChhheeeeeecccchhHHHHHHhhcCCCcEEEEeccc---cccChhhhhheEEEEehhhHHHHHHHHHHhcc-cc
Confidence 999999999999999999999999999999999999886411 35678899999999999999999999999877 78
Q ss_pred eEEEEecCHHHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccc
Q 011428 166 KALIFTNTIDMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKS 243 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~ 243 (486)
++|||+.|...+..+++.+.++ |++...|||.|.+..|..+...|.....-||+|||+
T Consensus 315 K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv-------------------- 374 (758)
T KOG0343|consen 315 KSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDV-------------------- 374 (758)
T ss_pred ceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHhcceEEEeehh--------------------
Confidence 9999999999999999999876 888999999999999999999999999999999999
Q ss_pred cCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh-hHHHHHHH
Q 011428 244 KKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM-KIFEEIKS 314 (486)
Q Consensus 244 ~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~-~~~~~~~~ 314 (486)
++||+|||.|+|||++|+|.++++||||+|||+|.+..|.++++++|.|. .++..+++
T Consensus 375 -------------~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRtAR~~~~G~sll~L~psEeE~~l~~Lq~ 433 (758)
T KOG0343|consen 375 -------------AARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLMLTPSEEEAMLKKLQK 433 (758)
T ss_pred -------------hhccCCCcccceEEEecCchhHHHHHHHhhhhhcccCCCceEEEEcchhHHHHHHHHHH
Confidence 47999999999999999999999999999999999999999999999984 44455544
No 12
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=100.00 E-value=7.6e-45 Score=394.93 Aligned_cols=272 Identities=30% Similarity=0.437 Sum_probs=248.3
Q ss_pred HhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHH
Q 011428 6 LCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKA 85 (486)
Q Consensus 6 ~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~ 85 (486)
|.....+++++.++|+.+...|...+..+++|||+||++|++++..+. +.++++++|||||||+|+++||.+++..
T Consensus 97 ~~~~~~~i~v~~~~gG~~~~~q~~~l~~~~~IVVgTPgrl~d~l~r~~----l~l~~l~~lVlDEAd~ml~~gf~~di~~ 172 (629)
T PRK11634 97 FSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGT----LDLSKLSGLVLDEADEMLRMGFIEDVET 172 (629)
T ss_pred HHhhcCCceEEEEECCcCHHHHHHHhcCCCCEEEECHHHHHHHHHcCC----cchhhceEEEeccHHHHhhcccHHHHHH
Confidence 333334799999999999999999999999999999999999999865 6789999999999999999999999999
Q ss_pred HHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCC
Q 011428 86 LSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQK 165 (486)
Q Consensus 86 i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~ 165 (486)
|+..+|...|+++||||+|+.+..+...++.+|..+.+.. .......+.|.|+.+...+|...|..++.... ..
T Consensus 173 Il~~lp~~~q~llfSAT~p~~i~~i~~~~l~~~~~i~i~~-----~~~~~~~i~q~~~~v~~~~k~~~L~~~L~~~~-~~ 246 (629)
T PRK11634 173 IMAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQS-----SVTTRPDISQSYWTVWGMRKNEALVRFLEAED-FD 246 (629)
T ss_pred HHHhCCCCCeEEEEEccCChhHHHHHHHHcCCCeEEEccC-----ccccCCceEEEEEEechhhHHHHHHHHHHhcC-CC
Confidence 9999999999999999999999999999999999887765 34455678899998888899999988887543 57
Q ss_pred eEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccC
Q 011428 166 KALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKK 245 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~ 245 (486)
++||||+|+..|..|+..|...|+.+..+||+|++.+|..+++.|+.|.++||||||++
T Consensus 247 ~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~--------------------- 305 (629)
T PRK11634 247 AAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVA--------------------- 305 (629)
T ss_pred CEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchH---------------------
Confidence 89999999999999999999999999999999999999999999999999999999994
Q ss_pred CCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcccc
Q 011428 246 HPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDDE 320 (486)
Q Consensus 246 ~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~~ 320 (486)
+||||+|+|++|||||+|.++++|+||+|||||+|+.|.|++|+.+.|...+..+++.+....
T Consensus 306 ------------arGIDip~V~~VI~~d~P~~~e~yvqRiGRtGRaGr~G~ai~~v~~~e~~~l~~ie~~~~~~i 368 (629)
T PRK11634 306 ------------ARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFVENRERRLLRNIERTMKLTI 368 (629)
T ss_pred ------------hcCCCcccCCEEEEeCCCCCHHHHHHHhccccCCCCcceEEEEechHHHHHHHHHHHHhCCCc
Confidence 699999999999999999999999999999999999999999999999988888888776543
No 13
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=2.1e-45 Score=385.47 Aligned_cols=267 Identities=29% Similarity=0.411 Sum_probs=242.5
Q ss_pred cCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH
Q 011428 9 GQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA 88 (486)
Q Consensus 9 ~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~ 88 (486)
...++++..++||.+...+...+..+|||||+||++|++++..+. ..++++++|||||||+++++||..++..++.
T Consensus 108 ~~~~~~v~~~~gg~~~~~~~~~l~~~~~IlV~TP~~l~~~l~~~~----~~l~~v~~lViDEad~l~~~~f~~~i~~i~~ 183 (423)
T PRK04837 108 QATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNH----INLGAIQVVVLDEADRMFDLGFIKDIRWLFR 183 (423)
T ss_pred ccCCceEEEEECCCCHHHHHHHhcCCCCEEEECHHHHHHHHHcCC----cccccccEEEEecHHHHhhcccHHHHHHHHH
Confidence 345799999999999998988899999999999999999998765 7789999999999999999999999999999
Q ss_pred HCCC--CccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCe
Q 011428 89 VIPR--GCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKK 166 (486)
Q Consensus 89 ~lp~--~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k 166 (486)
.+|. ..|+++||||++..+..+....+.+|..+.+.. .......+.+.++.+...+|...+..++.... ..+
T Consensus 184 ~~~~~~~~~~~l~SAT~~~~~~~~~~~~~~~p~~i~v~~-----~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~-~~~ 257 (423)
T PRK04837 184 RMPPANQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEP-----EQKTGHRIKEELFYPSNEEKMRLLQTLIEEEW-PDR 257 (423)
T ss_pred hCCCccceeEEEEeccCCHHHHHHHHHHCCCCEEEEEcC-----CCcCCCceeEEEEeCCHHHHHHHHHHHHHhcC-CCe
Confidence 9984 567899999999999999999999999887765 33445578888888888899999988887543 679
Q ss_pred EEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKH 246 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~ 246 (486)
+||||+++..|+.++..|.+.|+.+..+||+|++.+|..++++|+.|.++||||||+
T Consensus 258 ~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv----------------------- 314 (423)
T PRK04837 258 AIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDV----------------------- 314 (423)
T ss_pred EEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEech-----------------------
Confidence 999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcc
Q 011428 247 PKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGD 318 (486)
Q Consensus 247 ~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~ 318 (486)
++||||+|+|++|||||+|.+.++|+||+|||||+|+.|.|++|+++.+...+..+++++..
T Consensus 315 ----------~~rGiDip~v~~VI~~d~P~s~~~yiqR~GR~gR~G~~G~ai~~~~~~~~~~~~~i~~~~~~ 376 (423)
T PRK04837 315 ----------AARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLACEEYALNLPAIETYIGH 376 (423)
T ss_pred ----------hhcCCCccccCEEEEeCCCCchhheEeccccccCCCCCeeEEEEeCHHHHHHHHHHHHHhCC
Confidence 46999999999999999999999999999999999999999999999998888888776643
No 14
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.6e-46 Score=363.58 Aligned_cols=274 Identities=31% Similarity=0.406 Sum_probs=252.1
Q ss_pred HHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHH
Q 011428 5 ELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLK 84 (486)
Q Consensus 5 ~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~ 84 (486)
.|.-+ +.+.+.++|+.+..+|...|..+.+|+|+||++|.++...+. +.+.++.|||+||||.||++||+..+.
T Consensus 316 kysyn--g~ksvc~ygggnR~eqie~lkrgveiiiatPgrlndL~~~n~----i~l~siTYlVlDEADrMLDMgFEpqIr 389 (629)
T KOG0336|consen 316 KYSYN--GLKSVCVYGGGNRNEQIEDLKRGVEIIIATPGRLNDLQMDNV----INLASITYLVLDEADRMLDMGFEPQIR 389 (629)
T ss_pred Hhhhc--CcceEEEecCCCchhHHHHHhcCceEEeeCCchHhhhhhcCe----eeeeeeEEEEecchhhhhcccccHHHH
Confidence 44445 788999999999999999999999999999999999998876 889999999999999999999999999
Q ss_pred HHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccC
Q 011428 85 ALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQ 164 (486)
Q Consensus 85 ~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~ 164 (486)
.|+--+.+..|+++.|||+|+.|..|+..|+.+|.++.+... +......+.|.++...+.+|+.++..++......
T Consensus 390 killdiRPDRqtvmTSATWP~~VrrLa~sY~Kep~~v~vGsL----dL~a~~sVkQ~i~v~~d~~k~~~~~~f~~~ms~n 465 (629)
T KOG0336|consen 390 KILLDIRPDRQTVMTSATWPEGVRRLAQSYLKEPMIVYVGSL----DLVAVKSVKQNIIVTTDSEKLEIVQFFVANMSSN 465 (629)
T ss_pred HHhhhcCCcceeeeecccCchHHHHHHHHhhhCceEEEeccc----ceeeeeeeeeeEEecccHHHHHHHHHHHHhcCCC
Confidence 999888889999999999999999999999999999877552 2334457889998889999999998888877778
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccccc
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSK 244 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~ 244 (486)
.|+||||..+-.|..|..-|.-.||.+-.|||+-.+.+|...++.|++|.++||||||.+
T Consensus 466 dKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDla-------------------- 525 (629)
T KOG0336|consen 466 DKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVATDLA-------------------- 525 (629)
T ss_pred ceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhcCceEEEEEechh--------------------
Confidence 899999999999999999999999999999999999999999999999999999999994
Q ss_pred CCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccccc
Q 011428 245 KHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDDEN 321 (486)
Q Consensus 245 ~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~~~ 321 (486)
|||+|+++|++|+|||+|.+.+.|+||+|||||+|+.|++++|++.+|...++++.++|.+.+.
T Consensus 526 -------------SRGlDv~DiTHV~NyDFP~nIeeYVHRvGrtGRaGr~G~sis~lt~~D~~~a~eLI~ILe~aeQ 589 (629)
T KOG0336|consen 526 -------------SRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTGTSISFLTRNDWSMAEELIQILERAEQ 589 (629)
T ss_pred -------------hcCCCchhcceeeccCCCccHHHHHHHhcccccCCCCcceEEEEehhhHHHHHHHHHHHHHhhh
Confidence 7999999999999999999999999999999999999999999999999999888888866544
No 15
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=100.00 E-value=5.8e-45 Score=386.07 Aligned_cols=264 Identities=30% Similarity=0.450 Sum_probs=244.0
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI 90 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l 90 (486)
.++++..++||.+...|...+..+++|||+||++|.+++..+. ..++++++|||||||+|+++||..++..++..+
T Consensus 100 ~~~~v~~~~Gg~~~~~~~~~l~~~~~IvV~Tp~rl~~~l~~~~----~~l~~l~~lViDEad~~l~~g~~~~l~~i~~~~ 175 (460)
T PRK11776 100 PNIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRKGT----LDLDALNTLVLDEADRMLDMGFQDAIDAIIRQA 175 (460)
T ss_pred CCcEEEEEECCCChHHHHHHhcCCCCEEEEChHHHHHHHHcCC----ccHHHCCEEEEECHHHHhCcCcHHHHHHHHHhC
Confidence 3689999999999999999999999999999999999998765 678999999999999999999999999999999
Q ss_pred CCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEEE
Q 011428 91 PRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKALIF 170 (486)
Q Consensus 91 p~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIF 170 (486)
|...|+++||||+|+.+..+...++.+|..+.+.. ......+.++++.+...+|...+..++... ..+++|||
T Consensus 176 ~~~~q~ll~SAT~~~~~~~l~~~~~~~~~~i~~~~------~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~~lVF 248 (460)
T PRK11776 176 PARRQTLLFSATYPEGIAAISQRFQRDPVEVKVES------THDLPAIEQRFYEVSPDERLPALQRLLLHH-QPESCVVF 248 (460)
T ss_pred CcccEEEEEEecCcHHHHHHHHHhcCCCEEEEECc------CCCCCCeeEEEEEeCcHHHHHHHHHHHHhc-CCCceEEE
Confidence 99999999999999999999999999999888755 223456889999999888999999988754 36789999
Q ss_pred ecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCc
Q 011428 171 TNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAK 250 (486)
Q Consensus 171 vns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (486)
||++..|..++..|...|+.+..+||+|++.+|..+++.|++|.++||||||++
T Consensus 249 ~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~-------------------------- 302 (460)
T PRK11776 249 CNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVA-------------------------- 302 (460)
T ss_pred ECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEeccc--------------------------
Confidence 999999999999999999999999999999999999999999999999999994
Q ss_pred ccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcc
Q 011428 251 LDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGD 318 (486)
Q Consensus 251 ~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~ 318 (486)
+||||+|+|++|||||+|.++.+|+||+|||||+|..|.|++|+.+.|...+..+++.+..
T Consensus 303 -------~rGiDi~~v~~VI~~d~p~~~~~yiqR~GRtGR~g~~G~ai~l~~~~e~~~~~~i~~~~~~ 363 (460)
T PRK11776 303 -------ARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLGR 363 (460)
T ss_pred -------ccccchhcCCeEEEecCCCCHhHhhhhcccccCCCCcceEEEEEchhHHHHHHHHHHHhCC
Confidence 6999999999999999999999999999999999999999999999998888888877654
No 16
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2e-45 Score=366.39 Aligned_cols=261 Identities=27% Similarity=0.438 Sum_probs=234.5
Q ss_pred CCeeEEEEeCCCCHHHHHHHH-cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHH
Q 011428 11 VQLKVVQLTSSMPASDLRAAL-AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAV 89 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l-~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~ 89 (486)
..+++..++||.+...-...+ .++|.|+|||||||.++++... ..+.+.+|.+||+||||.++++||+..++.|++.
T Consensus 107 ~~l~~~l~vGG~~v~~Di~~fkee~~nIlVgTPGRL~di~~~~~--~~l~~rsLe~LVLDEADrLldmgFe~~~n~ILs~ 184 (567)
T KOG0345|consen 107 PNLNCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQREA--EKLSFRSLEILVLDEADRLLDMGFEASVNTILSF 184 (567)
T ss_pred hccceEEEecCccHHHHHHHHHHhCCcEEEeCchhHHHHHhchh--hhccccccceEEecchHhHhcccHHHHHHHHHHh
Confidence 468999999998776555444 5789999999999999999754 2244569999999999999999999999999999
Q ss_pred CCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEE
Q 011428 90 IPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKALI 169 (486)
Q Consensus 90 lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~II 169 (486)
||+.+.+=|||||.+++++.|....++||+.+.+.... ...+++.+..+|+.|+..+|+..++.+|... ..+|+||
T Consensus 185 LPKQRRTGLFSATq~~~v~dL~raGLRNpv~V~V~~k~---~~~tPS~L~~~Y~v~~a~eK~~~lv~~L~~~-~~kK~iV 260 (567)
T KOG0345|consen 185 LPKQRRTGLFSATQTQEVEDLARAGLRNPVRVSVKEKS---KSATPSSLALEYLVCEADEKLSQLVHLLNNN-KDKKCIV 260 (567)
T ss_pred cccccccccccchhhHHHHHHHHhhccCceeeeecccc---cccCchhhcceeeEecHHHHHHHHHHHHhcc-ccccEEE
Confidence 99999999999999999999999999999999887622 2237788999999999999999999999863 4789999
Q ss_pred EecCHHHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCC
Q 011428 170 FTNTIDMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHP 247 (486)
Q Consensus 170 Fvns~~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (486)
|.+|...+......|... ++.++.+||.|.+..|..+++.|....-.+|+|||++
T Consensus 261 FF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVa----------------------- 317 (567)
T KOG0345|consen 261 FFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVA----------------------- 317 (567)
T ss_pred EecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHHHhccCceEEeehhh-----------------------
Confidence 999999999999998876 6778999999999999999999999888999999994
Q ss_pred CCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHH
Q 011428 248 KAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFE 310 (486)
Q Consensus 248 ~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~ 310 (486)
+||||||+|++||+||+|.++++|+||+|||||+|+.|.||+|+.|.|..+.+
T Consensus 318 ----------ARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~Aivfl~p~E~aYve 370 (567)
T KOG0345|consen 318 ----------ARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNAIVFLNPREEAYVE 370 (567)
T ss_pred ----------hccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccceEEEecccHHHHHH
Confidence 79999999999999999999999999999999999999999999998875544
No 17
>PTZ00110 helicase; Provisional
Probab=100.00 E-value=1.6e-44 Score=388.48 Aligned_cols=268 Identities=30% Similarity=0.416 Sum_probs=242.4
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI 90 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l 90 (486)
.+++++.++|+.+...|...|..+++|||+||++|++++..+. ..+.++++|||||||+|+++||...+..|+..+
T Consensus 230 ~~i~~~~~~gg~~~~~q~~~l~~~~~IlVaTPgrL~d~l~~~~----~~l~~v~~lViDEAd~mld~gf~~~i~~il~~~ 305 (545)
T PTZ00110 230 SKIRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESNV----TNLRRVTYLVLDEADRMLDMGFEPQIRKIVSQI 305 (545)
T ss_pred cCccEEEEeCCCCHHHHHHHHHcCCCEEEECHHHHHHHHHcCC----CChhhCcEEEeehHHhhhhcchHHHHHHHHHhC
Confidence 5789999999999999998899999999999999999998765 678999999999999999999999999999999
Q ss_pred CCCccEEEEeeecChhHHHHHHHhcc-CCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhc-cCCeEE
Q 011428 91 PRGCQCLLMSATSSSDVDKLKKLILH-NPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLEL-VQKKAL 168 (486)
Q Consensus 91 p~~~q~il~SATl~~~v~~l~~~~l~-~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~-~~~k~I 168 (486)
++..|+++||||+|.++..+...++. +|+.+.+... ......++.|.+..+.+.+|...|..++.... ..+++|
T Consensus 306 ~~~~q~l~~SAT~p~~v~~l~~~l~~~~~v~i~vg~~----~l~~~~~i~q~~~~~~~~~k~~~L~~ll~~~~~~~~k~L 381 (545)
T PTZ00110 306 RPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSL----DLTACHNIKQEVFVVEEHEKRGKLKMLLQRIMRDGDKIL 381 (545)
T ss_pred CCCCeEEEEEeCCCHHHHHHHHHHhccCCEEEEECCC----ccccCCCeeEEEEEEechhHHHHHHHHHHHhcccCCeEE
Confidence 99999999999999999999888875 5777766441 12234578888888888889888888887644 467999
Q ss_pred EEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCC
Q 011428 169 IFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPK 248 (486)
Q Consensus 169 IFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (486)
|||++++.|..|+..|...|+.+..+||++++.+|..++++|++|..+||||||++
T Consensus 382 IF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G~~~ILVaTdv~------------------------ 437 (545)
T PTZ00110 382 IFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVA------------------------ 437 (545)
T ss_pred EEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcCCCcEEEEcchh------------------------
Confidence 99999999999999999999999999999999999999999999999999999994
Q ss_pred CcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccc
Q 011428 249 AKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDD 319 (486)
Q Consensus 249 ~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~ 319 (486)
+||||+|+|++|||||+|.++++|+||+|||||+|+.|.|++|+++.+...+..+.+++...
T Consensus 438 ---------~rGIDi~~v~~VI~~d~P~s~~~yvqRiGRtGR~G~~G~ai~~~~~~~~~~~~~l~~~l~~~ 499 (545)
T PTZ00110 438 ---------SRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTPDKYRLARDLVKVLREA 499 (545)
T ss_pred ---------hcCCCcccCCEEEEeCCCCCHHHHHHHhcccccCCCCceEEEEECcchHHHHHHHHHHHHHc
Confidence 69999999999999999999999999999999999999999999999988888888877654
No 18
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=100.00 E-value=1.8e-44 Score=381.51 Aligned_cols=267 Identities=32% Similarity=0.474 Sum_probs=244.0
Q ss_pred cCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH
Q 011428 9 GQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA 88 (486)
Q Consensus 9 ~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~ 88 (486)
..+++++..++|+.+...|...+.+.+||||+||++|++++..+. ..++++++|||||||+|++++|..++..++.
T Consensus 100 ~~~~~~~~~~~gg~~~~~~~~~l~~~~~IiV~TP~rL~~~~~~~~----~~l~~v~~lViDEah~ll~~~~~~~i~~il~ 175 (456)
T PRK10590 100 KYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDLEHQNA----VKLDQVEILVLDEADRMLDMGFIHDIRRVLA 175 (456)
T ss_pred ccCCCEEEEEECCcCHHHHHHHHcCCCcEEEEChHHHHHHHHcCC----cccccceEEEeecHHHHhccccHHHHHHHHH
Confidence 446789999999999999988899999999999999999998764 6789999999999999999999999999999
Q ss_pred HCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEE
Q 011428 89 VIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKAL 168 (486)
Q Consensus 89 ~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~I 168 (486)
.+|...|+++||||+++++..+...++.+|..+.+.. .......+.+++..++...+..++..++... ...++|
T Consensus 176 ~l~~~~q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~-----~~~~~~~i~~~~~~~~~~~k~~~l~~l~~~~-~~~~~l 249 (456)
T PRK10590 176 KLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVAR-----RNTASEQVTQHVHFVDKKRKRELLSQMIGKG-NWQQVL 249 (456)
T ss_pred hCCccCeEEEEeCCCcHHHHHHHHHHcCCCeEEEEec-----ccccccceeEEEEEcCHHHHHHHHHHHHHcC-CCCcEE
Confidence 9999999999999999999999999999998887755 3444567888998888888888888877643 357899
Q ss_pred EEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCC
Q 011428 169 IFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPK 248 (486)
Q Consensus 169 IFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (486)
||||++..|..++..|...++.+..+||+|++.+|..+++.|++|.++||||||+
T Consensus 250 VF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTdv------------------------- 304 (456)
T PRK10590 250 VFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDI------------------------- 304 (456)
T ss_pred EEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEccH-------------------------
Confidence 9999999999999999999999999999999999999999999999999999998
Q ss_pred CcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcc
Q 011428 249 AKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGD 318 (486)
Q Consensus 249 ~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~ 318 (486)
++||||+|+|++|||||+|.++.+|+||+|||||+|..|.+++|+++.|...+..+++.+..
T Consensus 305 --------~~rGiDip~v~~VI~~~~P~~~~~yvqR~GRaGR~g~~G~ai~l~~~~d~~~~~~ie~~l~~ 366 (456)
T PRK10590 305 --------AARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEALSLVCVDEHKLLRDIEKLLKK 366 (456)
T ss_pred --------HhcCCCcccCCEEEEeCCCCCHHHhhhhccccccCCCCeeEEEEecHHHHHHHHHHHHHhcC
Confidence 46999999999999999999999999999999999999999999999999888888887654
No 19
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3.4e-46 Score=377.18 Aligned_cols=293 Identities=31% Similarity=0.448 Sum_probs=254.0
Q ss_pred cCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH
Q 011428 9 GQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA 88 (486)
Q Consensus 9 ~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~ 88 (486)
...+|++..++||.+...|.++|...||||||||||||.++..+.. ..-.+..+++||+||||+|++.||.+++..|+.
T Consensus 288 ~~t~i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlweli~e~n~-~l~~~k~vkcLVlDEaDRmvekghF~Els~lL~ 366 (731)
T KOG0347|consen 288 EKTQIRVASITGGLAVQKQQRLLNQRPDIVVATPGRLWELIEEDNT-HLGNFKKVKCLVLDEADRMVEKGHFEELSKLLK 366 (731)
T ss_pred cccCeEEEEeechhHHHHHHHHHhcCCCEEEecchHHHHHHHhhhh-hhhhhhhceEEEEccHHHHhhhccHHHHHHHHH
Confidence 3578999999999999999999999999999999999999987652 234578899999999999999999999999999
Q ss_pred HCC-----CCccEEEEeeecChhH---------------------HHHHHH-h-ccCCcEEEcCCcCCcccccccCcceE
Q 011428 89 VIP-----RGCQCLLMSATSSSDV---------------------DKLKKL-I-LHNPYILTLPEVGDVKDEVIPKNVQQ 140 (486)
Q Consensus 89 ~lp-----~~~q~il~SATl~~~v---------------------~~l~~~-~-l~~p~~i~l~~~~~~~~~~~~~~l~q 140 (486)
.|. ...|++.||||++-.. +.|.+. . ..+|.+|.+.. ...+...+..
T Consensus 367 ~L~e~~~~~qrQTlVFSATlt~~~~~~~~~~~k~~~k~~~~~~kiq~Lmk~ig~~~kpkiiD~t~-----q~~ta~~l~E 441 (731)
T KOG0347|consen 367 HLNEEQKNRQRQTLVFSATLTLVLQQPLSSSRKKKDKEDELNAKIQHLMKKIGFRGKPKIIDLTP-----QSATASTLTE 441 (731)
T ss_pred HhhhhhcccccceEEEEEEeehhhcChhHHhhhccchhhhhhHHHHHHHHHhCccCCCeeEecCc-----chhHHHHHHH
Confidence 886 3679999999986432 122222 2 34678888877 6667778888
Q ss_pred EEEEcchhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEE
Q 011428 141 FWISCSERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIA 220 (486)
Q Consensus 141 ~~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIa 220 (486)
..+.|+..+|-.+||.+|..+ +|++|||||+++.+.+|+-+|...+|....||+.|.+.+|...+++|....-.||||
T Consensus 442 s~I~C~~~eKD~ylyYfl~ry--PGrTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~~VLia 519 (731)
T KOG0347|consen 442 SLIECPPLEKDLYLYYFLTRY--PGRTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIA 519 (731)
T ss_pred HhhcCCccccceeEEEEEeec--CCceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHhcCCCeEEEe
Confidence 899999999999999988754 799999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEE
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSL 300 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~f 300 (486)
||++ +||+|||+|.+||||-+|.+.+-|+||.|||+|++..|.++.|
T Consensus 520 TDVA---------------------------------ARGLDIp~V~HVIHYqVPrtseiYVHRSGRTARA~~~Gvsvml 566 (731)
T KOG0347|consen 520 TDVA---------------------------------ARGLDIPGVQHVIHYQVPRTSEIYVHRSGRTARANSEGVSVML 566 (731)
T ss_pred ehhh---------------------------------hccCCCCCcceEEEeecCCccceeEecccccccccCCCeEEEE
Confidence 9995 6999999999999999999999999999999999999999999
Q ss_pred eCcchhhHHHHHHHHhccccccccCCCCCcccccHHHHHHHHhhHHHH
Q 011428 301 VSPDEMKIFEEIKSFVGDDENEDSNIIAPFPLLAQNAVESLRYRAEDV 348 (486)
Q Consensus 301 v~~~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ve~~~~r~~d~ 348 (486)
+.|.+...+..+.+-|.+.+. ..+ || +.+.-+..++.|+.-|
T Consensus 567 ~~P~e~~~~~KL~ktL~k~~d---lpi--fP-v~~~~m~~lkeRvrLA 608 (731)
T KOG0347|consen 567 CGPQEVGPLKKLCKTLKKKED---LPI--FP-VETDIMDALKERVRLA 608 (731)
T ss_pred eChHHhHHHHHHHHHHhhccC---CCc--ee-ccHHHHHHHHHHHHHH
Confidence 999999888888777766544 223 55 5567777777777543
No 20
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=100.00 E-value=9.1e-44 Score=381.14 Aligned_cols=270 Identities=23% Similarity=0.363 Sum_probs=241.8
Q ss_pred hhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHH
Q 011428 7 CKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKAL 86 (486)
Q Consensus 7 ~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i 86 (486)
....++++++.++||.+...|...+..+++|||+||++|.+++..+. ..++++.+|||||||+|+++||...+..+
T Consensus 219 l~~~~~~~~~~~~gG~~~~~q~~~l~~~~~IiV~TPgrL~~~l~~~~----~~l~~v~~lViDEad~ml~~gf~~~i~~i 294 (518)
T PLN00206 219 LGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSKHD----IELDNVSVLVLDEVDCMLERGFRDQVMQI 294 (518)
T ss_pred HhCCCCceEEEEECCcchHHHHHHhcCCCCEEEECHHHHHHHHHcCC----ccchheeEEEeecHHHHhhcchHHHHHHH
Confidence 33445788999999999888888888999999999999999998764 77899999999999999999999999999
Q ss_pred HHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhc-cCC
Q 011428 87 SAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLEL-VQK 165 (486)
Q Consensus 87 ~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~-~~~ 165 (486)
+..++ ..|+++||||++++++.+...++.++..+.+.. .......+.|.++.+...++...+..++.... ..+
T Consensus 295 ~~~l~-~~q~l~~SATl~~~v~~l~~~~~~~~~~i~~~~-----~~~~~~~v~q~~~~~~~~~k~~~l~~~l~~~~~~~~ 368 (518)
T PLN00206 295 FQALS-QPQVLLFSATVSPEVEKFASSLAKDIILISIGN-----PNRPNKAVKQLAIWVETKQKKQKLFDILKSKQHFKP 368 (518)
T ss_pred HHhCC-CCcEEEEEeeCCHHHHHHHHHhCCCCEEEEeCC-----CCCCCcceeEEEEeccchhHHHHHHHHHHhhcccCC
Confidence 99997 689999999999999999999999999888755 33344568888899988888888888886432 246
Q ss_pred eEEEEecCHHHHHHHHHHHHH-cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccccc
Q 011428 166 KALIFTNTIDMAFRLKLFLEK-FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSK 244 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~-~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~ 244 (486)
++|||||++..|..|+..|.. .|+.+..+||+|++.+|..+++.|+.|.++||||||+
T Consensus 369 ~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ILVaTdv--------------------- 427 (518)
T PLN00206 369 PAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGV--------------------- 427 (518)
T ss_pred CEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCCCCCEEEEecH---------------------
Confidence 899999999999999999975 6999999999999999999999999999999999999
Q ss_pred CCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccc
Q 011428 245 KHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDD 319 (486)
Q Consensus 245 ~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~ 319 (486)
++||||+|+|++|||||+|.+..+|+||+|||||+|..|.+++|+++.+...+..+.+++...
T Consensus 428 ------------l~rGiDip~v~~VI~~d~P~s~~~yihRiGRaGR~g~~G~ai~f~~~~~~~~~~~l~~~l~~~ 490 (518)
T PLN00206 428 ------------LGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFVNEEDRNLFPELVALLKSS 490 (518)
T ss_pred ------------hhccCCcccCCEEEEeCCCCCHHHHHHhccccccCCCCeEEEEEEchhHHHHHHHHHHHHHHc
Confidence 479999999999999999999999999999999999999999999999988888888877654
No 21
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=8.6e-44 Score=384.23 Aligned_cols=268 Identities=28% Similarity=0.432 Sum_probs=242.2
Q ss_pred cCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH
Q 011428 9 GQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA 88 (486)
Q Consensus 9 ~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~ 88 (486)
..+++++..++|+.+...|...+.+++||||+||++|++++.... ...+..+++|||||||+|+++||..++..|+.
T Consensus 109 ~~~~i~v~~l~Gg~~~~~q~~~l~~~~dIiV~TP~rL~~~l~~~~---~~~l~~v~~lViDEAh~lld~gf~~~i~~il~ 185 (572)
T PRK04537 109 ADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQHK---VVSLHACEICVLDEADRMFDLGFIKDIRFLLR 185 (572)
T ss_pred ccCCceEEEEECCCCHHHHHHHHhCCCCEEEECHHHHHHHHHhcc---ccchhheeeeEecCHHHHhhcchHHHHHHHHH
Confidence 346899999999999999999999999999999999999998642 25678899999999999999999999999999
Q ss_pred HCCC--CccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCe
Q 011428 89 VIPR--GCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKK 166 (486)
Q Consensus 89 ~lp~--~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k 166 (486)
.+|. ..|+++||||++..+..+...++.+|..+.+.. .......+.|+++.+...+|...+..++... ...+
T Consensus 186 ~lp~~~~~q~ll~SATl~~~v~~l~~~~l~~p~~i~v~~-----~~~~~~~i~q~~~~~~~~~k~~~L~~ll~~~-~~~k 259 (572)
T PRK04537 186 RMPERGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVET-----ETITAARVRQRIYFPADEEKQTLLLGLLSRS-EGAR 259 (572)
T ss_pred hcccccCceEEEEeCCccHHHHHHHHHHhcCCcEEEecc-----ccccccceeEEEEecCHHHHHHHHHHHHhcc-cCCc
Confidence 9997 789999999999999999999999987776544 3345567889998888888998888888643 3678
Q ss_pred EEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKH 246 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~ 246 (486)
+||||||+..|+.|+..|...|+.++.+||+|++.+|..+++.|++|.++||||||++
T Consensus 260 ~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv~---------------------- 317 (572)
T PRK04537 260 TMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVA---------------------- 317 (572)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehhh----------------------
Confidence 9999999999999999999999999999999999999999999999999999999994
Q ss_pred CCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcc
Q 011428 247 PKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGD 318 (486)
Q Consensus 247 ~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~ 318 (486)
+||||+++|++|||||+|.+.++|+||+|||||.|..|.|++|+++.+...+..+++++..
T Consensus 318 -----------arGIDip~V~~VInyd~P~s~~~yvqRiGRaGR~G~~G~ai~~~~~~~~~~l~~i~~~~~~ 378 (572)
T PRK04537 318 -----------ARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFACERYAMSLPDIEAYIEQ 378 (572)
T ss_pred -----------hcCCCccCCCEEEEcCCCCCHHHHhhhhcccccCCCCceEEEEecHHHHHHHHHHHHHHcC
Confidence 6999999999999999999999999999999999999999999999998888888877654
No 22
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=100.00 E-value=3.8e-43 Score=369.65 Aligned_cols=266 Identities=29% Similarity=0.473 Sum_probs=239.5
Q ss_pred cCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH
Q 011428 9 GQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA 88 (486)
Q Consensus 9 ~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~ 88 (486)
..+++++..++|+.+...+...+.++++|||+||++|++++..+. ..+.++++|||||||+|+++||..++..+..
T Consensus 98 ~~~~~~v~~~~gg~~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~~~----~~~~~v~~lViDEah~~l~~~~~~~~~~i~~ 173 (434)
T PRK11192 98 KHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEEN----FDCRAVETLILDEADRMLDMGFAQDIETIAA 173 (434)
T ss_pred ccCCcEEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCC----cCcccCCEEEEECHHHHhCCCcHHHHHHHHH
Confidence 446899999999999999999999999999999999999998765 6688999999999999999999999999999
Q ss_pred HCCCCccEEEEeeecCh-hHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc-hhhhHHHHHHHHHhhccCCe
Q 011428 89 VIPRGCQCLLMSATSSS-DVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS-ERDKLLYILTLLKLELVQKK 166 (486)
Q Consensus 89 ~lp~~~q~il~SATl~~-~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~-~~~k~~~l~~llk~~~~~~k 166 (486)
.++...|+++||||++. .+..+...++.+|..+.... .......+.|++..++ ...+..++..++.. ...++
T Consensus 174 ~~~~~~q~~~~SAT~~~~~~~~~~~~~~~~~~~i~~~~-----~~~~~~~i~~~~~~~~~~~~k~~~l~~l~~~-~~~~~ 247 (434)
T PRK11192 174 ETRWRKQTLLFSATLEGDAVQDFAERLLNDPVEVEAEP-----SRRERKKIHQWYYRADDLEHKTALLCHLLKQ-PEVTR 247 (434)
T ss_pred hCccccEEEEEEeecCHHHHHHHHHHHccCCEEEEecC-----CcccccCceEEEEEeCCHHHHHHHHHHHHhc-CCCCe
Confidence 99999999999999985 57888888999999887655 3344567888888776 46788888888764 23679
Q ss_pred EEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKH 246 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~ 246 (486)
+||||++++.|..++..|...|+.+..+||+|++.+|..+++.|+.|.++||||||++
T Consensus 248 ~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd~~---------------------- 305 (434)
T PRK11192 248 SIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVA---------------------- 305 (434)
T ss_pred EEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEcccc----------------------
Confidence 9999999999999999999999999999999999999999999999999999999994
Q ss_pred CCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhc
Q 011428 247 PKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVG 317 (486)
Q Consensus 247 ~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~ 317 (486)
+||||+|+|++|||||+|.+...|+||+|||||+|..|.+++|+...|...+..+++++.
T Consensus 306 -----------~~GiDip~v~~VI~~d~p~s~~~yiqr~GR~gR~g~~g~ai~l~~~~d~~~~~~i~~~~~ 365 (434)
T PRK11192 306 -----------ARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISLVEAHDHLLLGKIERYIE 365 (434)
T ss_pred -----------ccCccCCCCCEEEEECCCCCHHHHhhcccccccCCCCceEEEEecHHHHHHHHHHHHHHh
Confidence 689999999999999999999999999999999999999999999998888877776653
No 23
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3.8e-44 Score=364.77 Aligned_cols=270 Identities=29% Similarity=0.410 Sum_probs=247.4
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC-CCcHHHHHHHHHH
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS-YGYEDDLKALSAV 89 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~-~g~~~~l~~i~~~ 89 (486)
.+++++.++|+.+...|...+..++||+|+|||+|.+++..+. +.++++++|||||||.|++ +||.++++.|+..
T Consensus 179 s~~~~~~~ygg~~~~~q~~~~~~gcdIlvaTpGrL~d~~e~g~----i~l~~~k~~vLDEADrMlD~mgF~p~Ir~iv~~ 254 (482)
T KOG0335|consen 179 SGMKSVVVYGGTDLGAQLRFIKRGCDILVATPGRLKDLIERGK----ISLDNCKFLVLDEADRMLDEMGFEPQIRKIVEQ 254 (482)
T ss_pred ccceeeeeeCCcchhhhhhhhccCccEEEecCchhhhhhhcce----eehhhCcEEEecchHHhhhhccccccHHHHhcc
Confidence 3688999999999999999999999999999999999999987 8899999999999999999 9999999999998
Q ss_pred CCC----CccEEEEeeecChhHHHHHHHhccC-CcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhc--
Q 011428 90 IPR----GCQCLLMSATSSSDVDKLKKLILHN-PYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLEL-- 162 (486)
Q Consensus 90 lp~----~~q~il~SATl~~~v~~l~~~~l~~-p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~-- 162 (486)
+.. ..|++|||||.|.++..++..++.+ .+.+.+.. ......++.|.++.+.+.+|...|+.+|....
T Consensus 255 ~~~~~~~~~qt~mFSAtfp~~iq~l~~~fl~~~yi~laV~r-----vg~~~~ni~q~i~~V~~~~kr~~Lldll~~~~~~ 329 (482)
T KOG0335|consen 255 LGMPPKNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAVGR-----VGSTSENITQKILFVNEMEKRSKLLDLLNKDDGP 329 (482)
T ss_pred cCCCCccceeEEEEeccCChhhhhhHHHHhhccceEEEEee-----eccccccceeEeeeecchhhHHHHHHHhhcccCC
Confidence 753 7899999999999999999999886 67777665 45567799999999999999999999987443
Q ss_pred -cCC-----eEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCC
Q 011428 163 -VQK-----KALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGG 236 (486)
Q Consensus 163 -~~~-----k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~ 236 (486)
..+ +++|||.++..|..|..+|.+.++++..+||+-.+.+|...+..|+.|.+.+||||++
T Consensus 330 ~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~g~~pvlVaT~V------------- 396 (482)
T KOG0335|consen 330 PSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRNGKAPVLVATNV------------- 396 (482)
T ss_pred cccCCcccceEEEEeeccchhhHHHHHHhcCCCCceeecchhhhhHHHHHHHHhhcCCcceEEEehh-------------
Confidence 344 8999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHh
Q 011428 237 HVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFV 316 (486)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l 316 (486)
++||+|+|+|.+|||||+|.+..+|+||||||||+|+.|.+++|+........+.+-+++
T Consensus 397 --------------------aaRGlDi~~V~hVInyDmP~d~d~YvHRIGRTGR~Gn~G~atsf~n~~~~~i~~~L~~~l 456 (482)
T KOG0335|consen 397 --------------------AARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGNGGRATSFFNEKNQNIAKALVEIL 456 (482)
T ss_pred --------------------hhcCCCCCCCceeEEeecCcchhhHHHhccccccCCCCceeEEEeccccchhHHHHHHHH
Confidence 479999999999999999999999999999999999999999999987777888888887
Q ss_pred cccccc
Q 011428 317 GDDENE 322 (486)
Q Consensus 317 ~~~~~~ 322 (486)
......
T Consensus 457 ~ea~q~ 462 (482)
T KOG0335|consen 457 TEANQE 462 (482)
T ss_pred HHhccc
Confidence 665543
No 24
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=100.00 E-value=1.7e-44 Score=351.58 Aligned_cols=262 Identities=27% Similarity=0.454 Sum_probs=236.2
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI 90 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l 90 (486)
+.+++....||++..+|...++.+.||||+|||||.++|.... ..++-++||++||||+|+++||+++++.|+.++
T Consensus 279 P~lRs~LciGG~~v~eql~~v~~GvHivVATPGRL~DmL~KK~----~sLd~CRyL~lDEADRmiDmGFEddir~iF~~F 354 (610)
T KOG0341|consen 279 PELRSLLCIGGVPVREQLDVVRRGVHIVVATPGRLMDMLAKKI----MSLDACRYLTLDEADRMIDMGFEDDIRTIFSFF 354 (610)
T ss_pred hhhhhhhhhcCccHHHHHHHHhcCeeEEEcCcchHHHHHHHhh----ccHHHHHHhhhhhHHHHhhccchhhHHHHHHHH
Confidence 4588888999999999999999999999999999999999865 788999999999999999999999999999999
Q ss_pred CCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEEE
Q 011428 91 PRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKALIF 170 (486)
Q Consensus 91 p~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIF 170 (486)
...+|++|||||||..++.+++..+-.|+++.+.. .....-++.|.+-++..+.|..+|+..|... ..++|||
T Consensus 355 K~QRQTLLFSATMP~KIQ~FAkSALVKPvtvNVGR-----AGAAsldViQevEyVkqEaKiVylLeCLQKT--~PpVLIF 427 (610)
T KOG0341|consen 355 KGQRQTLLFSATMPKKIQNFAKSALVKPVTVNVGR-----AGAASLDVIQEVEYVKQEAKIVYLLECLQKT--SPPVLIF 427 (610)
T ss_pred hhhhheeeeeccccHHHHHHHHhhcccceEEeccc-----ccccchhHHHHHHHHHhhhhhhhHHHHhccC--CCceEEE
Confidence 99999999999999999999999999999999876 4444556667667777888888888777543 5789999
Q ss_pred ecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCc
Q 011428 171 TNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAK 250 (486)
Q Consensus 171 vns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (486)
|.....+..++.+|--.|+.+..+||+-.+++|...++.|+.|.-+||||||++
T Consensus 428 aEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~gkKDVLVATDVA-------------------------- 481 (610)
T KOG0341|consen 428 AEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVA-------------------------- 481 (610)
T ss_pred eccccChHHHHHHHHHccceeEEeecCcchhHHHHHHHHHhcCCCceEEEecch--------------------------
Confidence 999999999999999999999999999999999999999999999999999995
Q ss_pred ccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh-hHHHHHHHHh
Q 011428 251 LDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM-KIFEEIKSFV 316 (486)
Q Consensus 251 ~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~-~~~~~~~~~l 316 (486)
|.|+|||++.+|||||+|...+.|+||||||||.|+.|.|.+|+..... ..+-.++..+
T Consensus 482 -------SKGLDFp~iqHVINyDMP~eIENYVHRIGRTGRsg~~GiATTfINK~~~esvLlDLK~LL 541 (610)
T KOG0341|consen 482 -------SKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTGIATTFINKNQEESVLLDLKHLL 541 (610)
T ss_pred -------hccCCCccchhhccCCChHHHHHHHHHhcccCCCCCcceeeeeecccchHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999999999997654 3333343333
No 25
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.3e-43 Score=349.90 Aligned_cols=269 Identities=27% Similarity=0.377 Sum_probs=246.1
Q ss_pred cCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH
Q 011428 9 GQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA 88 (486)
Q Consensus 9 ~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~ 88 (486)
+-.+|+++.++||.+..+|...|..+|.|||||||||++++.-+. ..+.++.+|||||||.|++.||+..++.|..
T Consensus 321 K~ygl~~v~~ygGgsk~eQ~k~Lk~g~EivVaTPgRlid~VkmKa----tn~~rvS~LV~DEadrmfdmGfe~qVrSI~~ 396 (731)
T KOG0339|consen 321 KAYGLRVVAVYGGGSKWEQSKELKEGAEIVVATPGRLIDMVKMKA----TNLSRVSYLVLDEADRMFDMGFEPQVRSIKQ 396 (731)
T ss_pred hhccceEEEeecCCcHHHHHHhhhcCCeEEEechHHHHHHHHhhc----ccceeeeEEEEechhhhhccccHHHHHHHHh
Confidence 347899999999999999999999999999999999999998765 8899999999999999999999999999999
Q ss_pred HCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc-hhhhHHHHHHHHHhhccCCeE
Q 011428 89 VIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS-ERDKLLYILTLLKLELVQKKA 167 (486)
Q Consensus 89 ~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~-~~~k~~~l~~llk~~~~~~k~ 167 (486)
++.+..|+++||||++..|+.|++.+|.+|+.+...+ -......|+|.+..|. +..|+..|..-|-.....|++
T Consensus 397 hirpdrQtllFsaTf~~kIe~lard~L~dpVrvVqg~-----vgean~dITQ~V~V~~s~~~Kl~wl~~~L~~f~S~gkv 471 (731)
T KOG0339|consen 397 HIRPDRQTLLFSATFKKKIEKLARDILSDPVRVVQGE-----VGEANEDITQTVSVCPSEEKKLNWLLRHLVEFSSEGKV 471 (731)
T ss_pred hcCCcceEEEeeccchHHHHHHHHHHhcCCeeEEEee-----hhccccchhheeeeccCcHHHHHHHHHHhhhhccCCcE
Confidence 9999999999999999999999999999999887655 2334457888877776 667888888777766778999
Q ss_pred EEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCC
Q 011428 168 LIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHP 247 (486)
Q Consensus 168 IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (486)
||||.-...++.+...|...|+++..+||+|.+.+|.+++.+|+++...||||||++
T Consensus 472 lifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatDva----------------------- 528 (731)
T KOG0339|consen 472 LIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVA----------------------- 528 (731)
T ss_pred EEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcCCceEEEeeHh-----------------------
Confidence 999999999999999999999999999999999999999999999999999999995
Q ss_pred CCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccc
Q 011428 248 KAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDD 319 (486)
Q Consensus 248 ~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~ 319 (486)
+||+|++++..|||||+-.+++.|+||+|||||+|..|+++++|++.|..+.-.+-+.|...
T Consensus 529 ----------argldI~~ikTVvnyD~ardIdththrigrtgRag~kGvayTlvTeKDa~fAG~LVnnLe~a 590 (731)
T KOG0339|consen 529 ----------ARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEKGVAYTLVTEKDAEFAGHLVNNLEGA 590 (731)
T ss_pred ----------hcCCCccccceeecccccchhHHHHHHhhhcccccccceeeEEechhhHHHhhHHHHHHhhc
Confidence 69999999999999999999999999999999999999999999999987777666666444
No 26
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.7e-43 Score=352.38 Aligned_cols=270 Identities=26% Similarity=0.388 Sum_probs=233.3
Q ss_pred eeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC--
Q 011428 13 LKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI-- 90 (486)
Q Consensus 13 i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l-- 90 (486)
|--..+.||..-....+.|+.+++|+|+|||||++||.+. ..+.+++|+|||+||||.|++.||+.++..|+..+
T Consensus 241 IVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLvDHLknT---~~i~~s~LRwlVlDEaDrlleLGfekdit~Il~~v~~ 317 (708)
T KOG0348|consen 241 IVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKNT---KSIKFSRLRWLVLDEADRLLELGFEKDITQILKAVHS 317 (708)
T ss_pred EeeceeecccccccHHHHHhcCceEEEcCchHHHHHHhcc---chheeeeeeEEEecchhHHHhccchhhHHHHHHHHhh
Confidence 4456677888888888999999999999999999999975 35778999999999999999999999999999876
Q ss_pred -----------CCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCC--------------------cccccccCcce
Q 011428 91 -----------PRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGD--------------------VKDEVIPKNVQ 139 (486)
Q Consensus 91 -----------p~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~--------------------~~~~~~~~~l~ 139 (486)
|...|.+|+||||++.|..|....|++|+.|.++...+ ......++++.
T Consensus 318 ~~~~e~~~~~lp~q~q~mLlSATLtd~V~rLa~~sLkDpv~I~ld~s~~~~~p~~~a~~ev~~~~~~~~l~~~~iPeqL~ 397 (708)
T KOG0348|consen 318 IQNAECKDPKLPHQLQNMLLSATLTDGVNRLADLSLKDPVYISLDKSHSQLNPKDKAVQEVDDGPAGDKLDSFAIPEQLL 397 (708)
T ss_pred ccchhcccccccHHHHhHhhhhhhHHHHHHHhhccccCceeeeccchhhhcCcchhhhhhcCCcccccccccccCcHHhh
Confidence 22478999999999999999999999999998543111 01134667899
Q ss_pred EEEEEcchhhhHHHHHHHHHhhc---cCCeEEEEecCHHHHHHHHHHHHHc----------------------CCceeec
Q 011428 140 QFWISCSERDKLLYILTLLKLEL---VQKKALIFTNTIDMAFRLKLFLEKF----------------------GIKSAIL 194 (486)
Q Consensus 140 q~~i~~~~~~k~~~l~~llk~~~---~~~k~IIFvns~~~~~~l~~~L~~~----------------------gi~~~~l 194 (486)
|.|..++..-++..|.++|.... ...++|||+.+.+.++.-+..|.+. +.+..-|
T Consensus 398 qry~vVPpKLRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rL 477 (708)
T KOG0348|consen 398 QRYTVVPPKLRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRL 477 (708)
T ss_pred hceEecCCchhHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEe
Confidence 99999999989888888876533 2458999999999999888877654 3456779
Q ss_pred CCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCC
Q 011428 195 NAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEM 274 (486)
Q Consensus 195 hs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~ 274 (486)
||+|.+++|..+++.|....-.||.|||++ +||+|+|+|.+||+||+
T Consensus 478 HGsm~QeeRts~f~~Fs~~~~~VLLcTDVA---------------------------------aRGLDlP~V~~vVQYd~ 524 (708)
T KOG0348|consen 478 HGSMEQEERTSVFQEFSHSRRAVLLCTDVA---------------------------------ARGLDLPHVGLVVQYDP 524 (708)
T ss_pred cCchhHHHHHHHHHhhccccceEEEehhhh---------------------------------hccCCCCCcCeEEEeCC
Confidence 999999999999999999888899999995 79999999999999999
Q ss_pred CCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcc
Q 011428 275 PQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGD 318 (486)
Q Consensus 275 P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~ 318 (486)
|.++.+|+||||||+|+|..|.+++|+.|.|.+++..++.....
T Consensus 525 P~s~adylHRvGRTARaG~kG~alLfL~P~Eaey~~~l~~~~~~ 568 (708)
T KOG0348|consen 525 PFSTADYLHRVGRTARAGEKGEALLFLLPSEAEYVNYLKKHHIM 568 (708)
T ss_pred CCCHHHHHHHhhhhhhccCCCceEEEecccHHHHHHHHHhhcch
Confidence 99999999999999999999999999999999888887766544
No 27
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=1.9e-41 Score=360.49 Aligned_cols=267 Identities=33% Similarity=0.492 Sum_probs=239.9
Q ss_pred CCCeeEEEEeCCCCHHHHHHHHc-CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH
Q 011428 10 QVQLKVVQLTSSMPASDLRAALA-GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA 88 (486)
Q Consensus 10 ~~~i~v~~l~g~~~~~~q~~~l~-~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~ 88 (486)
.+++++..++||.+...+...+. ..++|||+||++|++++..+. ..++++++|||||||.+++++|...+..++.
T Consensus 188 ~~~~~v~~~~gg~~~~~~~~~~~~~~~~Iiv~TP~~Ll~~~~~~~----~~l~~l~~lViDEah~l~~~~~~~~l~~i~~ 263 (475)
T PRK01297 188 YTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGE----VHLDMVEVMVLDEADRMLDMGFIPQVRQIIR 263 (475)
T ss_pred cCCCEEEEEEccCChHHHHHHHhCCCCCEEEECHHHHHHHHHcCC----cccccCceEEechHHHHHhcccHHHHHHHHH
Confidence 35789999999998887776664 579999999999999988754 7789999999999999999999999999999
Q ss_pred HCCC--CccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCe
Q 011428 89 VIPR--GCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKK 166 (486)
Q Consensus 89 ~lp~--~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k 166 (486)
.++. ..|++++|||++.++..+...++.+|..+.+.. .......+.+++..+...++..++..++... ...+
T Consensus 264 ~~~~~~~~q~i~~SAT~~~~~~~~~~~~~~~~~~v~~~~-----~~~~~~~~~~~~~~~~~~~k~~~l~~ll~~~-~~~~ 337 (475)
T PRK01297 264 QTPRKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEP-----ENVASDTVEQHVYAVAGSDKYKLLYNLVTQN-PWER 337 (475)
T ss_pred hCCCCCCceEEEEEeecCHHHHHHHHHhccCCEEEEecc-----CcCCCCcccEEEEEecchhHHHHHHHHHHhc-CCCe
Confidence 9875 579999999999999999999999999887755 3444456778888888888998888888753 3569
Q ss_pred EEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKH 246 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~ 246 (486)
+||||++++.|+.++..|...|+.++.+||+|++.+|..+++.|+.|.+++|||||.+
T Consensus 338 ~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l---------------------- 395 (475)
T PRK01297 338 VMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVA---------------------- 395 (475)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEcccc----------------------
Confidence 9999999999999999999999999999999999999999999999999999999995
Q ss_pred CCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccc
Q 011428 247 PKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDD 319 (486)
Q Consensus 247 ~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~ 319 (486)
+||||+++|++|||||+|.|..+|+||+||+||.|..|.+++|++..|...+..++++++..
T Consensus 396 -----------~~GIDi~~v~~VI~~~~P~s~~~y~Qr~GRaGR~g~~g~~i~~~~~~d~~~~~~~~~~~~~~ 457 (475)
T PRK01297 396 -----------GRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFAGEDDAFQLPEIEELLGRK 457 (475)
T ss_pred -----------ccCCcccCCCEEEEeCCCCCHHHHHHhhCccCCCCCCceEEEEecHHHHHHHHHHHHHhCCC
Confidence 58999999999999999999999999999999999999999999999888888888887654
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=2.9e-42 Score=337.82 Aligned_cols=269 Identities=29% Similarity=0.494 Sum_probs=248.8
Q ss_pred hcCCCeeEEEEeCCCCHHHHHH-HHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHH
Q 011428 8 KGQVQLKVVQLTSSMPASDLRA-ALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKAL 86 (486)
Q Consensus 8 ~~~~~i~v~~l~g~~~~~~q~~-~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i 86 (486)
+...+.+|..+.||.....+.. ++...|+|||+|||++.+++..+. +....++++|+||||.+++.||.+.+..|
T Consensus 118 g~~~~~~v~~~igg~~~~~~~~~i~~~~~hivvGTpgrV~dml~~~~----l~~~~iKmfvlDEaDEmLs~gfkdqI~~i 193 (397)
T KOG0327|consen 118 GDHMDVSVHACIGGTNVRREDQALLKDKPHIVVGTPGRVFDMLNRGS----LSTDGIKMFVLDEADEMLSRGFKDQIYDI 193 (397)
T ss_pred hcccceeeeeecCcccchhhhhhhhccCceeecCCchhHHHhhcccc----ccccceeEEeecchHhhhccchHHHHHHH
Confidence 4456789999999888775554 445679999999999999999875 67788999999999999999999999999
Q ss_pred HHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCe
Q 011428 87 SAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKK 166 (486)
Q Consensus 87 ~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k 166 (486)
.+++|++.|++++|||+|.++..+.+.++++|+.+.+.. ++.+...+.|+|+.+..++|+..|+.+.. .-..
T Consensus 194 f~~lp~~vQv~l~SAT~p~~vl~vt~~f~~~pv~i~vkk-----~~ltl~gikq~~i~v~k~~k~~~l~dl~~---~~~q 265 (397)
T KOG0327|consen 194 FQELPSDVQVVLLSATMPSDVLEVTKKFMREPVRILVKK-----DELTLEGIKQFYINVEKEEKLDTLCDLYR---RVTQ 265 (397)
T ss_pred HHHcCcchhheeecccCcHHHHHHHHHhccCceEEEecc-----hhhhhhheeeeeeeccccccccHHHHHHH---hhhc
Confidence 999999999999999999999999999999999998877 66778899999999999999999999988 3678
Q ss_pred EEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKH 246 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~ 246 (486)
.+||||++..++.+...|..+++.+..+|++|.+.+|..++.+|+.|..++||.||.
T Consensus 266 ~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvlIttdl----------------------- 322 (397)
T KOG0327|consen 266 AVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDL----------------------- 322 (397)
T ss_pred ceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCCceEEeeccc-----------------------
Confidence 999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhccccc
Q 011428 247 PKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDDEN 321 (486)
Q Consensus 247 ~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~~~ 321 (486)
+|||+|+.+++.|||||+|...++|+||+||+||.|++|.+++|+...+...+..+++++.....
T Consensus 323 ----------~argidv~~~slvinydlP~~~~~yihR~gr~gr~grkg~~in~v~~~d~~~lk~ie~~y~~~i~ 387 (397)
T KOG0327|consen 323 ----------LARGIDVQQVSLVVNYDLPARKENYIHRIGRAGRFGRKGVAINFVTEEDVRDLKDIEKFYNTPIE 387 (397)
T ss_pred ----------cccccchhhcceeeeeccccchhhhhhhcccccccCCCceeeeeehHhhHHHHHhHHHhcCCcce
Confidence 58999999999999999999999999999999999999999999999999999999988865533
No 29
>PTZ00424 helicase 45; Provisional
Probab=100.00 E-value=5.5e-40 Score=342.01 Aligned_cols=267 Identities=26% Similarity=0.439 Sum_probs=236.3
Q ss_pred cCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH
Q 011428 9 GQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA 88 (486)
Q Consensus 9 ~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~ 88 (486)
..+++.+..++|+.....+...+..+++|+|+||+++.+++..+. ..++++++|||||||++++++|...+..++.
T Consensus 121 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~----~~l~~i~lvViDEah~~~~~~~~~~~~~i~~ 196 (401)
T PTZ00424 121 DYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRH----LRVDDLKLFILDEADEMLSRGFKGQIYDVFK 196 (401)
T ss_pred hhcCceEEEEECCcCHHHHHHHHcCCCCEEEECcHHHHHHHHhCC----cccccccEEEEecHHHHHhcchHHHHHHHHh
Confidence 345678888899988888888888899999999999999998765 6789999999999999999999999999999
Q ss_pred HCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcch-hhhHHHHHHHHHhhccCCeE
Q 011428 89 VIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSE-RDKLLYILTLLKLELVQKKA 167 (486)
Q Consensus 89 ~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~-~~k~~~l~~llk~~~~~~k~ 167 (486)
.++...|++++|||+|.++..+...++.+|..+.+.. ......++.++++.+.. ..+...+..++.. ....++
T Consensus 197 ~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~ 270 (401)
T PTZ00424 197 KLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKK-----DELTLEGIRQFYVAVEKEEWKFDTLCDLYET-LTITQA 270 (401)
T ss_pred hCCCCcEEEEEEecCCHHHHHHHHHHcCCCEEEEeCC-----CCcccCCceEEEEecChHHHHHHHHHHHHHh-cCCCeE
Confidence 9999999999999999999999999999988776544 33445678888888764 3455666666543 335789
Q ss_pred EEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCC
Q 011428 168 LIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHP 247 (486)
Q Consensus 168 IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (486)
||||+++..|..++..|...++.+..+||+|++.+|..+++.|++|.++|||||+.
T Consensus 271 ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~------------------------ 326 (401)
T PTZ00424 271 IIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDL------------------------ 326 (401)
T ss_pred EEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEccc------------------------
Confidence 99999999999999999999999999999999999999999999999999999998
Q ss_pred CCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcc
Q 011428 248 KAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGD 318 (486)
Q Consensus 248 ~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~ 318 (486)
+++|||+|+|++||+||+|.|..+|+||+||+||.|+.|.|++|+++.+...+..+++.+..
T Consensus 327 ---------l~~GiDip~v~~VI~~~~p~s~~~y~qr~GRagR~g~~G~~i~l~~~~~~~~~~~~e~~~~~ 388 (401)
T PTZ00424 327 ---------LARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEIERHYNT 388 (401)
T ss_pred ---------ccCCcCcccCCEEEEECCCCCHHHEeecccccccCCCCceEEEEEcHHHHHHHHHHHHHHCC
Confidence 46899999999999999999999999999999999999999999999999888888877754
No 30
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.5e-41 Score=326.28 Aligned_cols=272 Identities=28% Similarity=0.435 Sum_probs=231.3
Q ss_pred HHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC-CCcHHHH
Q 011428 5 ELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS-YGYEDDL 83 (486)
Q Consensus 5 ~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~-~g~~~~l 83 (486)
.-+++..++.+....-+..... ...| ..+|||+|||.+.+++..- ....++.++++|+||||.|++ .||.++-
T Consensus 181 ~eMGKf~~ita~yair~sk~~r-G~~i--~eqIviGTPGtv~Dlm~kl---k~id~~kikvfVlDEAD~Mi~tqG~~D~S 254 (477)
T KOG0332|consen 181 EEMGKFTELTASYAIRGSKAKR-GNKL--TEQIVIGTPGTVLDLMLKL---KCIDLEKIKVFVLDEADVMIDTQGFQDQS 254 (477)
T ss_pred HHhcCceeeeEEEEecCccccc-CCcc--hhheeeCCCccHHHHHHHH---HhhChhhceEEEecchhhhhhcccccccc
Confidence 3355545566555544431110 0011 3579999999999988762 237789999999999999986 6899999
Q ss_pred HHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc-hhhhHHHHHHHHHhhc
Q 011428 84 KALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS-ERDKLLYILTLLKLEL 162 (486)
Q Consensus 84 ~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~-~~~k~~~l~~llk~~~ 162 (486)
..|...+|+++|.++||||..+.+..++..++.+|..+.+.. ++....++.|+|+.|. +.+|+..|..+..+ +
T Consensus 255 ~rI~~~lP~~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~-----eel~L~~IkQlyv~C~~~~~K~~~l~~lyg~-~ 328 (477)
T KOG0332|consen 255 IRIMRSLPRNQQLLLFSATFVEKVAAFALKIVPNANVIILKR-----EELALDNIKQLYVLCACRDDKYQALVNLYGL-L 328 (477)
T ss_pred hhhhhhcCCcceEEeeechhHHHHHHHHHHhcCCCceeeeeh-----hhccccchhhheeeccchhhHHHHHHHHHhh-h
Confidence 999999999999999999999999999999999999998877 6778889999999998 67899999886654 3
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccc
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRK 242 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~ 242 (486)
.-|.+||||.|++.+.+|+..|.+.|+.+.+|||+|...+|..++++|+.|..+|||+|++
T Consensus 329 tigqsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV------------------- 389 (477)
T KOG0332|consen 329 TIGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNV------------------- 389 (477)
T ss_pred hhhheEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcceEEEEech-------------------
Confidence 3689999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCcccccccccccCccCCccEEEEeCCCC------ChhhHHHhhhhcccCCCCceEEEEeCcchh-hHHHHHHHH
Q 011428 243 SKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQ------NAAGYVHRIGRTGRAYNTGASVSLVSPDEM-KIFEEIKSF 315 (486)
Q Consensus 243 ~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~------s~~~yihRiGRtgR~g~~G~ai~fv~~~e~-~~~~~~~~~ 315 (486)
++||||++.|+.|||||+|. +.+.|+||||||||.|+.|.++.|+...+. ..++.++++
T Consensus 390 --------------~ARGiDv~qVs~VvNydlP~~~~~~pD~etYlHRiGRtGRFGkkG~a~n~v~~~~s~~~mn~iq~~ 455 (477)
T KOG0332|consen 390 --------------CARGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKKGLAINLVDDKDSMNIMNKIQKH 455 (477)
T ss_pred --------------hhcccccceEEEEEecCCccccCCCCCHHHHHHHhcccccccccceEEEeecccCcHHHHHHHHHH
Confidence 57999999999999999996 689999999999999999999999986654 566677777
Q ss_pred hccccc
Q 011428 316 VGDDEN 321 (486)
Q Consensus 316 l~~~~~ 321 (486)
+.....
T Consensus 456 F~~~i~ 461 (477)
T KOG0332|consen 456 FNMKIK 461 (477)
T ss_pred Hhhcce
Confidence 755433
No 31
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.1e-40 Score=334.46 Aligned_cols=276 Identities=30% Similarity=0.452 Sum_probs=233.3
Q ss_pred HHHHhhcCCCeeEEEEeCCCCHHHHHHHHc-CCC----cEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC
Q 011428 3 LIELCKGQVQLKVVQLTSSMPASDLRAALA-GPP----DIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY 77 (486)
Q Consensus 3 l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~-~~~----dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~ 77 (486)
+..||.. .++.|+.++|..+.......|. ..| ||||+|||||++||.+. ..+.+++|++|||||||+|++.
T Consensus 235 f~~~~~~-tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~~---k~f~Lk~LrfLVIDEADRll~q 310 (620)
T KOG0350|consen 235 FKRLNSG-TGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNNT---KSFDLKHLRFLVIDEADRLLDQ 310 (620)
T ss_pred HHHhccC-CceEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhccCC---CCcchhhceEEEechHHHHHHH
Confidence 4556654 6899999999888876665554 456 99999999999999963 4689999999999999999998
Q ss_pred CcHHHHHHHHHHCC----------------------------------CCccEEEEeeecChhHHHHHHHhccCCcEEEc
Q 011428 78 GYEDDLKALSAVIP----------------------------------RGCQCLLMSATSSSDVDKLKKLILHNPYILTL 123 (486)
Q Consensus 78 g~~~~l~~i~~~lp----------------------------------~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l 123 (486)
.|++++..+..++. +..+.+++|||++.+-..+..+-++.|....+
T Consensus 311 sfQ~Wl~~v~~~~~~~k~~~~~~nii~~~~~~~pt~~~e~~t~~~~~~~~l~kL~~satLsqdP~Kl~~l~l~~Prl~~v 390 (620)
T KOG0350|consen 311 SFQEWLDTVMSLCKTMKRVACLDNIIRQRQAPQPTVLSELLTKLGKLYPPLWKLVFSATLSQDPSKLKDLTLHIPRLFHV 390 (620)
T ss_pred HHHHHHHHHHHHhCCchhhcChhhhhhhcccCCchhhHHHHhhcCCcCchhHhhhcchhhhcChHHHhhhhcCCCceEEe
Confidence 88887777665432 12357899999999999999999999966554
Q ss_pred CCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHH-H---cCCceeecCCCCC
Q 011428 124 PEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLE-K---FGIKSAILNAELP 199 (486)
Q Consensus 124 ~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~-~---~gi~~~~lhs~l~ 199 (486)
... .......+..+.++++.++...|...+|+++.... -.++|+|+|+.+.+.+|+..|. . ..+++..+.|.+.
T Consensus 391 ~~~-~~~ryslp~~l~~~~vv~~~~~kpl~~~~lI~~~k-~~r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~t~~l~ 468 (620)
T KOG0350|consen 391 SKP-LIGRYSLPSSLSHRLVVTEPKFKPLAVYALITSNK-LNRTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTGQLN 468 (620)
T ss_pred ecc-cceeeecChhhhhceeecccccchHhHHHHHHHhh-cceEEEEecchHHHHHHHHHHHHHhccccchhhhhhhhhh
Confidence 320 01134567789999999999999999999998654 5789999999999999999887 3 3566677999999
Q ss_pred HHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChh
Q 011428 200 QNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAA 279 (486)
Q Consensus 200 ~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~ 279 (486)
...|...++.|+.|.+++|||||. |+||||+.+|++|||||+|.+..
T Consensus 469 ~k~r~k~l~~f~~g~i~vLIcSD~---------------------------------laRGiDv~~v~~VINYd~P~~~k 515 (620)
T KOG0350|consen 469 GKRRYKMLEKFAKGDINVLICSDA---------------------------------LARGIDVNDVDNVINYDPPASDK 515 (620)
T ss_pred HHHHHHHHHHHhcCCceEEEehhh---------------------------------hhcCCcccccceEeecCCCchhh
Confidence 999999999999999999999999 78999999999999999999999
Q ss_pred hHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhc
Q 011428 280 GYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVG 317 (486)
Q Consensus 280 ~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~ 317 (486)
+|+||+|||||+|+.|.|+++++..+...+..+.+...
T Consensus 516 tyVHR~GRTARAgq~G~a~tll~~~~~r~F~klL~~~~ 553 (620)
T KOG0350|consen 516 TYVHRAGRTARAGQDGYAITLLDKHEKRLFSKLLKKTN 553 (620)
T ss_pred HHHHhhcccccccCCceEEEeeccccchHHHHHHHHhc
Confidence 99999999999999999999999999987776655443
No 32
>KOG4284 consensus DEAD box protein [Transcription]
Probab=100.00 E-value=7.2e-40 Score=335.89 Aligned_cols=260 Identities=26% Similarity=0.401 Sum_probs=235.6
Q ss_pred HHHHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC-CcHH
Q 011428 3 LIELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY-GYED 81 (486)
Q Consensus 3 l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~-g~~~ 81 (486)
+.+.|....|.+|.++.||++.......|. .++|+||||||+.+++..+. ++.+.++++|+||||.|++. .|++
T Consensus 113 v~~v~~sf~g~~csvfIGGT~~~~d~~rlk-~~rIvIGtPGRi~qL~el~~----~n~s~vrlfVLDEADkL~~t~sfq~ 187 (980)
T KOG4284|consen 113 VRKVAPSFTGARCSVFIGGTAHKLDLIRLK-QTRIVIGTPGRIAQLVELGA----MNMSHVRLFVLDEADKLMDTESFQD 187 (980)
T ss_pred HHHhcccccCcceEEEecCchhhhhhhhhh-hceEEecCchHHHHHHHhcC----CCccceeEEEeccHHhhhchhhHHH
Confidence 567788777999999999998876665554 77899999999999999887 88899999999999999994 5999
Q ss_pred HHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcch--------hhhHHH
Q 011428 82 DLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSE--------RDKLLY 153 (486)
Q Consensus 82 ~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~--------~~k~~~ 153 (486)
++..|+..+|...|++.+|||.|..++.+...+|++|..+.+.. .....-+|.|||+.... ..|+..
T Consensus 188 ~In~ii~slP~~rQv~a~SATYp~nLdn~Lsk~mrdp~lVr~n~-----~d~~L~GikQyv~~~~s~nnsveemrlklq~ 262 (980)
T KOG4284|consen 188 DINIIINSLPQIRQVAAFSATYPRNLDNLLSKFMRDPALVRFNA-----DDVQLFGIKQYVVAKCSPNNSVEEMRLKLQK 262 (980)
T ss_pred HHHHHHHhcchhheeeEEeccCchhHHHHHHHHhcccceeeccc-----CCceeechhheeeeccCCcchHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999877 56666789999886542 346777
Q ss_pred HHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCC
Q 011428 154 ILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSD 233 (486)
Q Consensus 154 l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~ 233 (486)
|-.+++. ++-.++||||+...+|+-++..|..-|+.|.++.|.|.+++|.+++++++.-.++|||+||.
T Consensus 263 L~~vf~~-ipy~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDL---------- 331 (980)
T KOG4284|consen 263 LTHVFKS-IPYVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDL---------- 331 (980)
T ss_pred HHHHHhh-CchHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhceEEEEEecch----------
Confidence 7777763 44678999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 234 EGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
++||||-++|++|||.|+|.+.++|.|||||+||.|..|.+++|+.....
T Consensus 332 -----------------------taRGIDa~~vNLVVNiD~p~d~eTY~HRIGRAgRFG~~G~aVT~~~~~~e 381 (980)
T KOG4284|consen 332 -----------------------TARGIDADNVNLVVNIDAPADEETYFHRIGRAGRFGAHGAAVTLLEDERE 381 (980)
T ss_pred -----------------------hhccCCccccceEEecCCCcchHHHHHHhhhcccccccceeEEEeccchh
Confidence 58999999999999999999999999999999999999999999987654
No 33
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3e-40 Score=325.36 Aligned_cols=274 Identities=26% Similarity=0.364 Sum_probs=253.6
Q ss_pred HHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHH
Q 011428 5 ELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLK 84 (486)
Q Consensus 5 ~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~ 84 (486)
+-.++.++++++.++||-+..+|...|.++||||+|||++++.+.-... +.++.+.|||+||||.|+.+||.+.+.
T Consensus 111 kdlgrgt~lr~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~vem~----l~l~sveyVVfdEadrlfemgfqeql~ 186 (529)
T KOG0337|consen 111 KDLGRGTKLRQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLGVEMT----LTLSSVEYVVFDEADRLFEMGFQEQLH 186 (529)
T ss_pred HHhccccchhhhhhcccchHHHHHHHhccCCCEEEecCceeeeeehhee----ccccceeeeeehhhhHHHhhhhHHHHH
Confidence 3455667899999999999999999999999999999999988766543 678999999999999999999999999
Q ss_pred HHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccC
Q 011428 85 ALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQ 164 (486)
Q Consensus 85 ~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~ 164 (486)
.++..+|.+.|+++||||+|.++..+.+..+.+|+.+.++- +....+.++..+..+...+|..+|..++......
T Consensus 187 e~l~rl~~~~QTllfSatlp~~lv~fakaGl~~p~lVRldv-----etkise~lk~~f~~~~~a~K~aaLl~il~~~~~~ 261 (529)
T KOG0337|consen 187 EILSRLPESRQTLLFSATLPRDLVDFAKAGLVPPVLVRLDV-----ETKISELLKVRFFRVRKAEKEAALLSILGGRIKD 261 (529)
T ss_pred HHHHhCCCcceEEEEeccCchhhHHHHHccCCCCceEEeeh-----hhhcchhhhhheeeeccHHHHHHHHHHHhccccc
Confidence 99999999999999999999999999999999999999876 5556678888999999999999999998766555
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccccc
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSK 244 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~ 244 (486)
.+++|||.|...++.+...|..+|+.+..+.|.|.+.-|..-+..|+.+...++|.||++
T Consensus 262 ~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdva-------------------- 321 (529)
T KOG0337|consen 262 KQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVA-------------------- 321 (529)
T ss_pred cceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhh--------------------
Confidence 689999999999999999999999999999999999999999999999999999999995
Q ss_pred CCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcccc
Q 011428 245 KHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGDDE 320 (486)
Q Consensus 245 ~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~~~ 320 (486)
+||+|+|-.+.|||||+|.+..-|+||+||++|+|+.|.+++||.+.+..++-.+..++++..
T Consensus 322 -------------aRG~diplldnvinyd~p~~~klFvhRVgr~aragrtg~aYs~V~~~~~~yl~DL~lflgr~~ 384 (529)
T KOG0337|consen 322 -------------ARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRTGRAYSLVASTDDPYLLDLQLFLGRPL 384 (529)
T ss_pred -------------hccCCCccccccccccCCCCCceEEEEecchhhccccceEEEEEecccchhhhhhhhhcCCce
Confidence 699999999999999999999999999999999999999999999999999999998887643
No 34
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6e-39 Score=347.10 Aligned_cols=273 Identities=30% Similarity=0.453 Sum_probs=249.6
Q ss_pred HHHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHH
Q 011428 4 IELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDL 83 (486)
Q Consensus 4 ~~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l 83 (486)
..||.. ++|+++.++|+.....|...|..+.+|+|+|||++++.+-.+.. ....+.++.+||+||||.|++.||.+.+
T Consensus 459 ~kf~k~-l~ir~v~vygg~~~~~qiaelkRg~eIvV~tpGRmiD~l~~n~g-rvtnlrR~t~lv~deaDrmfdmgfePq~ 536 (997)
T KOG0334|consen 459 RKFLKL-LGIRVVCVYGGSGISQQIAELKRGAEIVVCTPGRMIDILCANSG-RVTNLRRVTYLVLDEADRMFDMGFEPQI 536 (997)
T ss_pred HHHHhh-cCceEEEecCCccHHHHHHHHhcCCceEEeccchhhhhHhhcCC-ccccccccceeeechhhhhheeccCccc
Confidence 344444 89999999999999999999999999999999999998765431 2344566679999999999999999999
Q ss_pred HHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc-hhhhHHHHHHHHHhhc
Q 011428 84 KALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS-ERDKLLYILTLLKLEL 162 (486)
Q Consensus 84 ~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~-~~~k~~~l~~llk~~~ 162 (486)
..|+..+++..|++++|||+|..++.++...++.|+.+.+.. .......+.|.+..|. +.+|+..|..+|....
T Consensus 537 ~~Ii~nlrpdrQtvlfSatfpr~m~~la~~vl~~Pveiiv~~-----~svV~k~V~q~v~V~~~e~eKf~kL~eLl~e~~ 611 (997)
T KOG0334|consen 537 TRILQNLRPDRQTVLFSATFPRSMEALARKVLKKPVEIIVGG-----RSVVCKEVTQVVRVCAIENEKFLKLLELLGERY 611 (997)
T ss_pred chHHhhcchhhhhhhhhhhhhHHHHHHHHHhhcCCeeEEEcc-----ceeEeccceEEEEEecCchHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999877765 4556678999999998 9999999999999988
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccc
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRK 242 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~ 242 (486)
..+++||||.+.+.|..+..-|...|+.|+.|||+.|+.+|..+++.|++|.+.+||||++
T Consensus 612 e~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~~~~LLvaTsv------------------- 672 (997)
T KOG0334|consen 612 EDGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVVNLLVATSV------------------- 672 (997)
T ss_pred hcCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhccCceEEEehhh-------------------
Confidence 8999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHh
Q 011428 243 SKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFV 316 (486)
Q Consensus 243 ~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l 316 (486)
++||+|++++..|||||+|...++|+||+|||||+|+.|.|++|++|.+....-.|-+.+
T Consensus 673 --------------varGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg~AvtFi~p~q~~~a~dl~~al 732 (997)
T KOG0334|consen 673 --------------VARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKGAAVTFITPDQLKYAGDLCKAL 732 (997)
T ss_pred --------------hhcccccccceEEEEcccchhHHHHHHHhcccccCCccceeEEEeChHHhhhHHHHHHHH
Confidence 589999999999999999999999999999999999999999999998887777777776
No 35
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=100.00 E-value=3.5e-36 Score=333.03 Aligned_cols=255 Identities=19% Similarity=0.245 Sum_probs=196.9
Q ss_pred CeeEEEEeCCCCHHHHHHHHc------CCCcEEEECcchHHH--HHHcCCCCCCcCCCCcceEEecccccccCCC--cHH
Q 011428 12 QLKVVQLTSSMPASDLRAALA------GPPDIVIATPGCMPK--CLSTGVLQSKSFSDSLKILVLDEADLLLSYG--YED 81 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~------~~~dIvV~TP~rl~~--~l~~~~~~~~~~l~~l~~lViDEad~ll~~g--~~~ 81 (486)
+|.+..++|+.+...|...+. +.++|||+||++|.. .+.... ........+.+|||||||++++|| |++
T Consensus 524 GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~d~ll~~L-~~L~~~~~LslIVIDEAHcVSqWGhDFRp 602 (1195)
T PLN03137 524 NIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHL-ENLNSRGLLARFVIDEAHCVSQWGHDFRP 602 (1195)
T ss_pred CCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcchHHHHHH-HhhhhccccceeccCcchhhhhcccchHH
Confidence 899999999999888776553 579999999999852 222110 011223558999999999999998 777
Q ss_pred HHHHH---HHHCCCCccEEEEeeecChhHHHHHHH--hccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHH
Q 011428 82 DLKAL---SAVIPRGCQCLLMSATSSSDVDKLKKL--ILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILT 156 (486)
Q Consensus 82 ~l~~i---~~~lp~~~q~il~SATl~~~v~~l~~~--~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~ 156 (486)
++..+ ...+| ..|++++|||++..+...... .+.++.++.. .....++...++ .........+..
T Consensus 603 dYr~L~~Lr~~fp-~vPilALTATAT~~V~eDI~~~L~l~~~~vfr~--------Sf~RpNL~y~Vv-~k~kk~le~L~~ 672 (1195)
T PLN03137 603 DYQGLGILKQKFP-NIPVLALTATATASVKEDVVQALGLVNCVVFRQ--------SFNRPNLWYSVV-PKTKKCLEDIDK 672 (1195)
T ss_pred HHHHHHHHHHhCC-CCCeEEEEecCCHHHHHHHHHHcCCCCcEEeec--------ccCccceEEEEe-ccchhHHHHHHH
Confidence 77664 34454 789999999999988653332 3445544432 122234432222 222222345556
Q ss_pred HHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCC
Q 011428 157 LLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGG 236 (486)
Q Consensus 157 llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~ 236 (486)
++........+||||+++..|+.++..|...|+.+..|||+|++++|..+++.|..|.++|||||+.
T Consensus 673 ~I~~~~~~esgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdA------------- 739 (1195)
T PLN03137 673 FIKENHFDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVA------------- 739 (1195)
T ss_pred HHHhcccCCCceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEech-------------
Confidence 6655444678999999999999999999999999999999999999999999999999999999987
Q ss_pred CcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHH
Q 011428 237 HVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFE 310 (486)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~ 310 (486)
+++|||+|+|++|||||+|.|+++|+||+|||||+|..|.|++|+++.|...+.
T Consensus 740 --------------------FGMGIDkPDVR~VIHydlPkSiEsYyQriGRAGRDG~~g~cILlys~~D~~~~~ 793 (1195)
T PLN03137 740 --------------------FGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSDYIRVK 793 (1195)
T ss_pred --------------------hhcCCCccCCcEEEEcCCCCCHHHHHhhhcccCCCCCCceEEEEecHHHHHHHH
Confidence 346999999999999999999999999999999999999999999987764433
No 36
>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=3.8e-35 Score=311.43 Aligned_cols=256 Identities=20% Similarity=0.282 Sum_probs=197.2
Q ss_pred CCeeEEEEeCCCCHHHHHHH----HcCCCcEEEECcchHHHHHHcCCCCCCc-CCCCcceEEecccccccCCC--cHHHH
Q 011428 11 VQLKVVQLTSSMPASDLRAA----LAGPPDIVIATPGCMPKCLSTGVLQSKS-FSDSLKILVLDEADLLLSYG--YEDDL 83 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~----l~~~~dIvV~TP~rl~~~l~~~~~~~~~-~l~~l~~lViDEad~ll~~g--~~~~l 83 (486)
.++.+..+.|+.+...+... ..+.++||++||+++......- ... ...++++|||||||++++|| |..++
T Consensus 74 ~gi~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~~~~~~~---~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~ 150 (470)
T TIGR00614 74 SGIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRLL---QTLEERKGITLIAVDEAHCISQWGHDFRPDY 150 (470)
T ss_pred cCCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHcCchhHH---HHHHhcCCcCEEEEeCCcccCccccccHHHH
Confidence 37889999988887655433 2456999999999975422100 002 45789999999999999998 66666
Q ss_pred HHH---HHHCCCCccEEEEeeecChhHHHHHH--HhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHH
Q 011428 84 KAL---SAVIPRGCQCLLMSATSSSDVDKLKK--LILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLL 158 (486)
Q Consensus 84 ~~i---~~~lp~~~q~il~SATl~~~v~~l~~--~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~ll 158 (486)
..+ ...+| +.|++++|||+++.+..... +.+.+|.++.... ...++.. .+..........+..++
T Consensus 151 ~~l~~l~~~~~-~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~s~--------~r~nl~~-~v~~~~~~~~~~l~~~l 220 (470)
T TIGR00614 151 KALGSLKQKFP-NVPIMALTATASPSVREDILRQLNLKNPQIFCTSF--------DRPNLYY-EVRRKTPKILEDLLRFI 220 (470)
T ss_pred HHHHHHHHHcC-CCceEEEecCCCHHHHHHHHHHcCCCCCcEEeCCC--------CCCCcEE-EEEeCCccHHHHHHHHH
Confidence 554 44555 78999999999998754332 3355676654321 1223322 22222223455566666
Q ss_pred HhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCc
Q 011428 159 KLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHV 238 (486)
Q Consensus 159 k~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~ 238 (486)
........+||||+|++.|+.++..|...|+.+..+||+|++.+|..+++.|..|.++|||||+.
T Consensus 221 ~~~~~~~~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~--------------- 285 (470)
T TIGR00614 221 RKEFKGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVA--------------- 285 (470)
T ss_pred HHhcCCCceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEech---------------
Confidence 54444556699999999999999999999999999999999999999999999999999999998
Q ss_pred ccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHH
Q 011428 239 DSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEI 312 (486)
Q Consensus 239 ~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~ 312 (486)
+++|||+|+|++|||||+|.|+++|+||+|||||.|..|.|++|+++.|...+..+
T Consensus 286 ------------------~~~GID~p~V~~VI~~~~P~s~~~y~Qr~GRaGR~G~~~~~~~~~~~~d~~~~~~~ 341 (470)
T TIGR00614 286 ------------------FGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFYAPADINRLRRL 341 (470)
T ss_pred ------------------hhccCCcccceEEEEeCCCCCHHHHHhhhcCcCCCCCCceEEEEechhHHHHHHHH
Confidence 46899999999999999999999999999999999999999999999987655544
No 37
>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=2.8e-35 Score=325.87 Aligned_cols=263 Identities=14% Similarity=0.152 Sum_probs=197.8
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH--
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA-- 88 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~-- 88 (486)
.++++..+.|+++.. ++..+..+|+|||+||++|...+..........+++|++|||||||.+.+ .|...+..++.
T Consensus 107 ~~i~v~~~~Gdt~~~-~r~~i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah~~~g-~fg~~~~~il~rL 184 (742)
T TIGR03817 107 RGVRPATYDGDTPTE-ERRWAREHARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDECHSYRG-VFGSHVALVLRRL 184 (742)
T ss_pred CCeEEEEEeCCCCHH-HHHHHhcCCCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeChhhccC-ccHHHHHHHHHHH
Confidence 378999999998864 55667788999999999887543321111123478999999999999976 35555444433
Q ss_pred -----HCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc----------------h
Q 011428 89 -----VIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS----------------E 147 (486)
Q Consensus 89 -----~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~----------------~ 147 (486)
..+...|++++|||+++..+ +...++..|..+ +.. +..........++... .
T Consensus 185 ~ri~~~~g~~~q~i~~SATi~n~~~-~~~~l~g~~~~~-i~~-----~~~~~~~~~~~~~~p~~~~~~~~~~~~~r~~~~ 257 (742)
T TIGR03817 185 RRLCARYGASPVFVLASATTADPAA-AASRLIGAPVVA-VTE-----DGSPRGARTVALWEPPLTELTGENGAPVRRSAS 257 (742)
T ss_pred HHHHHhcCCCCEEEEEecCCCCHHH-HHHHHcCCCeEE-ECC-----CCCCcCceEEEEecCCccccccccccccccchH
Confidence 44667899999999998865 455666677554 222 1111111222221111 1
Q ss_pred hhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHc--------CCceeecCCCCCHHHHHHHHHHHhcCCCcEEE
Q 011428 148 RDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKF--------GIKSAILNAELPQNSRLHILEEFNAGLFDYLI 219 (486)
Q Consensus 148 ~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~--------gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLI 219 (486)
.++..++..++.. ..++||||||+..|+.++..|... +.++..+||++++++|..+++.|++|.+++||
T Consensus 258 ~~~~~~l~~l~~~---~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~G~i~vLV 334 (742)
T TIGR03817 258 AEAADLLADLVAE---GARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRDGELLGVA 334 (742)
T ss_pred HHHHHHHHHHHHC---CCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHcCCceEEE
Confidence 2455566666653 579999999999999999998764 67888999999999999999999999999999
Q ss_pred EcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEE
Q 011428 220 ATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVS 299 (486)
Q Consensus 220 aTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~ 299 (486)
|||.+ +||||+++|++|||||+|.+..+|+||+|||||+|+.|.+++
T Consensus 335 aTd~l---------------------------------erGIDI~~vd~VI~~~~P~s~~~y~qRiGRaGR~G~~g~ai~ 381 (742)
T TIGR03817 335 TTNAL---------------------------------ELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQGALVVL 381 (742)
T ss_pred ECchH---------------------------------hccCCcccccEEEEeCCCCCHHHHHHhccccCCCCCCcEEEE
Confidence 99994 689999999999999999999999999999999999999999
Q ss_pred EeC--cchhhHHHHHHHHhcc
Q 011428 300 LVS--PDEMKIFEEIKSFVGD 318 (486)
Q Consensus 300 fv~--~~e~~~~~~~~~~l~~ 318 (486)
|+. +.|...+...++++..
T Consensus 382 v~~~~~~d~~~~~~~~~~~~~ 402 (742)
T TIGR03817 382 VARDDPLDTYLVHHPEALFDR 402 (742)
T ss_pred EeCCChHHHHHHhCHHHHhcC
Confidence 987 4455556666666554
No 38
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2e-36 Score=310.28 Aligned_cols=250 Identities=30% Similarity=0.381 Sum_probs=222.5
Q ss_pred HHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC-CcHHHHHHHHHHCC-CCccEEEEeeecCh
Q 011428 28 RAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY-GYEDDLKALSAVIP-RGCQCLLMSATSSS 105 (486)
Q Consensus 28 ~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~-g~~~~l~~i~~~lp-~~~q~il~SATl~~ 105 (486)
.......+||+|+||.++..++..+. ..+.++.+.++|+||||++++. +|..++..|+..+. +...+-+||||++.
T Consensus 256 a~~~~~k~dili~TP~ri~~~~~~~~--~~idl~~V~~lV~dEaD~lfe~~~f~~Qla~I~sac~s~~i~~a~FSat~~~ 333 (593)
T KOG0344|consen 256 AFLSDEKYDILISTPMRIVGLLGLGK--LNIDLSKVEWLVVDEADLLFEPEFFVEQLADIYSACQSPDIRVALFSATISV 333 (593)
T ss_pred chhHHHHHHHHhcCHHHHHHHhcCCC--ccchhheeeeEeechHHhhhChhhHHHHHHHHHHHhcCcchhhhhhhccccH
Confidence 34445678999999999999998765 3378899999999999999998 89999999988775 46677789999999
Q ss_pred hHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc-hhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHH
Q 011428 106 DVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS-ERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFL 184 (486)
Q Consensus 106 ~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~-~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L 184 (486)
.+++++...+.++..+.+.. .......+.|..+.|. +..|+..+..++...+ ..++|||+.+.++|..|...|
T Consensus 334 ~VEE~~~~i~~~~~~vivg~-----~~sa~~~V~QelvF~gse~~K~lA~rq~v~~g~-~PP~lIfVQs~eRak~L~~~L 407 (593)
T KOG0344|consen 334 YVEEWAELIKSDLKRVIVGL-----RNSANETVDQELVFCGSEKGKLLALRQLVASGF-KPPVLIFVQSKERAKQLFEEL 407 (593)
T ss_pred HHHHHHHHhhccceeEEEec-----chhHhhhhhhhheeeecchhHHHHHHHHHhccC-CCCeEEEEecHHHHHHHHHHh
Confidence 99999999999998887765 3334557888877776 6779999999998765 789999999999999999999
Q ss_pred -HHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCcc
Q 011428 185 -EKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDF 263 (486)
Q Consensus 185 -~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~ 263 (486)
---+|.+.++||+.++.+|..+++.|+.|++++|||||+ ++|||||
T Consensus 408 ~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTdl---------------------------------l~RGiDf 454 (593)
T KOG0344|consen 408 EIYDNINVDVIHGERSQKQRDETMERFRIGKIWVLICTDL---------------------------------LARGIDF 454 (593)
T ss_pred hhccCcceeeEecccchhHHHHHHHHHhccCeeEEEehhh---------------------------------hhccccc
Confidence 566899999999999999999999999999999999999 6799999
Q ss_pred CCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHhcc
Q 011428 264 KNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFVGD 318 (486)
Q Consensus 264 ~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l~~ 318 (486)
.+|++|||||+|.+..+|+||||||||+|+.|.|++|++..+.+.+..+.+++..
T Consensus 455 ~gvn~VInyD~p~s~~syihrIGRtgRag~~g~Aitfytd~d~~~ir~iae~~~~ 509 (593)
T KOG0344|consen 455 KGVNLVINYDFPQSDLSYIHRIGRTGRAGRSGKAITFYTDQDMPRIRSIAEVMEQ 509 (593)
T ss_pred cCcceEEecCCCchhHHHHHHhhccCCCCCCcceEEEeccccchhhhhHHHHHHH
Confidence 9999999999999999999999999999999999999999999888888777654
No 39
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=100.00 E-value=1.5e-33 Score=307.27 Aligned_cols=251 Identities=20% Similarity=0.272 Sum_probs=193.7
Q ss_pred CeeEEEEeCCCCHHHHHHH----HcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC--cHHHHHH
Q 011428 12 QLKVVQLTSSMPASDLRAA----LAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG--YEDDLKA 85 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~----l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g--~~~~l~~ 85 (486)
++.+..+.++.+...+... ..+.++|+++||+++........ +...++++|||||||++++|| |.+++..
T Consensus 89 gi~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe~l~~~~~~~~----l~~~~l~~iVIDEaH~i~~~G~~fr~~y~~ 164 (607)
T PRK11057 89 GVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEH----LAHWNPALLAVDEAHCISQWGHDFRPEYAA 164 (607)
T ss_pred CCcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEEChHHhcChHHHHH----HhhCCCCEEEEeCccccccccCcccHHHHH
Confidence 7888888888776655432 23578999999999874221111 334579999999999999998 5655544
Q ss_pred ---HHHHCCCCccEEEEeeecChhHHH-H-HHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHh
Q 011428 86 ---LSAVIPRGCQCLLMSATSSSDVDK-L-KKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKL 160 (486)
Q Consensus 86 ---i~~~lp~~~q~il~SATl~~~v~~-l-~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~ 160 (486)
+...+| +.|++++|||+++.+.. + ..+.+.+|.+.... ....++. |..+........+..++..
T Consensus 165 L~~l~~~~p-~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~~--------~~r~nl~--~~v~~~~~~~~~l~~~l~~ 233 (607)
T PRK11057 165 LGQLRQRFP-TLPFMALTATADDTTRQDIVRLLGLNDPLIQISS--------FDRPNIR--YTLVEKFKPLDQLMRYVQE 233 (607)
T ss_pred HHHHHHhCC-CCcEEEEecCCChhHHHHHHHHhCCCCeEEEECC--------CCCCcce--eeeeeccchHHHHHHHHHh
Confidence 445555 78999999999988744 2 23335566554321 1122332 2223333444555555543
Q ss_pred hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccc
Q 011428 161 ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDS 240 (486)
Q Consensus 161 ~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~ 240 (486)
. ..+++||||+|++.|+.++..|...|+.+..+||+|++.+|..+++.|..|.++|||||+..
T Consensus 234 ~-~~~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~---------------- 296 (607)
T PRK11057 234 Q-RGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAF---------------- 296 (607)
T ss_pred c-CCCCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEechh----------------
Confidence 3 36789999999999999999999999999999999999999999999999999999999984
Q ss_pred ccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHH
Q 011428 241 RKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEE 311 (486)
Q Consensus 241 ~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~ 311 (486)
++|||+|+|++|||||+|.|.++|+||+|||||.|..|.|++|+++.|...+..
T Consensus 297 -----------------~~GIDip~V~~VI~~d~P~s~~~y~Qr~GRaGR~G~~~~~ill~~~~d~~~~~~ 350 (607)
T PRK11057 297 -----------------GMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRR 350 (607)
T ss_pred -----------------hccCCCCCcCEEEEeCCCCCHHHHHHHhhhccCCCCCceEEEEeCHHHHHHHHH
Confidence 579999999999999999999999999999999999999999999988755443
No 40
>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=7.1e-33 Score=302.76 Aligned_cols=242 Identities=19% Similarity=0.263 Sum_probs=193.8
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCC------------CCcCCCCcceEEecccccccCCCc
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQ------------SKSFSDSLKILVLDEADLLLSYGY 79 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~------------~~~~l~~l~~lViDEad~ll~~g~ 79 (486)
.+++..++||.+...|+..+..+|+||||| .+++.++.+. ..-.++++++||||||| ++.||
T Consensus 113 ~l~v~~l~GG~~~~~q~~~l~~~p~IIVgT----~D~i~sr~L~~gYg~~~~~~pi~ag~L~~v~~LVLDEAD--Ld~gF 186 (844)
T TIGR02621 113 PLAISTLRGQFADNDEWMLDPHRPAVIVGT----VDMIGSRLLFSGYGCGFKSRPLHAGFLGQDALIVHDEAH--LEPAF 186 (844)
T ss_pred CeEEEEEECCCChHHHHHhcCCCCcEEEEC----HHHHcCCccccccccccccccchhhhhccceEEEEehhh--hcccc
Confidence 599999999999999999999999999999 4777766531 00137889999999999 67899
Q ss_pred HHHHHHHHHHC--CCC---ccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHH
Q 011428 80 EDDLKALSAVI--PRG---CQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYI 154 (486)
Q Consensus 80 ~~~l~~i~~~l--p~~---~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l 154 (486)
.+++..|+..+ |+. .|+++||||++.++..+...++.+|..+.+.. ......++.++ +.+....|...+
T Consensus 187 ~~~l~~Il~~l~rp~~~rprQtLLFSAT~p~ei~~l~~~~~~~p~~i~V~~-----~~l~a~ki~q~-v~v~~e~Kl~~l 260 (844)
T TIGR02621 187 QELLKQIMNEQQRPPDFLPLRVVELTATSRTDGPDRTTLLSAEDYKHPVLK-----KRLAAKKIVKL-VPPSDEKFLSTM 260 (844)
T ss_pred HHHHHHHHHhcccCcccccceEEEEecCCCccHHHHHHHHccCCceeeccc-----ccccccceEEE-EecChHHHHHHH
Confidence 99999999975 443 69999999999999888888888887665543 33444566665 444555555443
Q ss_pred HHHHHh--hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHH-----HHHHHHhc----CC-------Cc
Q 011428 155 LTLLKL--ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRL-----HILEEFNA----GL-------FD 216 (486)
Q Consensus 155 ~~llk~--~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~-----~i~~~F~~----g~-------~~ 216 (486)
...+.. ....+++||||||++.|..++..|...++ ..|||+|++.+|. .++++|.. |. ..
T Consensus 261 v~~L~~ll~e~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ 338 (844)
T TIGR02621 261 VKELNLLMKDSGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTV 338 (844)
T ss_pred HHHHHHHHhhCCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccce
Confidence 333211 12357899999999999999999999887 8899999999999 88999987 54 68
Q ss_pred EEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCC-c
Q 011428 217 YLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNT-G 295 (486)
Q Consensus 217 iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~-G 295 (486)
||||||++ .|||||+. ++||+++.| .++|+||+||+||.|+. |
T Consensus 339 ILVATdVa---------------------------------erGLDId~-d~VI~d~aP--~esyIQRiGRtgR~G~~~~ 382 (844)
T TIGR02621 339 YLVCTSAG---------------------------------EVGVNISA-DHLVCDLAP--FESMQQRFGRVNRFGELQA 382 (844)
T ss_pred EEeccchh---------------------------------hhcccCCc-ceEEECCCC--HHHHHHHhcccCCCCCCCC
Confidence 99999995 58999986 899998877 69999999999999985 4
Q ss_pred eEEEEeCc
Q 011428 296 ASVSLVSP 303 (486)
Q Consensus 296 ~ai~fv~~ 303 (486)
.+++++.+
T Consensus 383 ~~i~vv~~ 390 (844)
T TIGR02621 383 CQIAVVHL 390 (844)
T ss_pred ceEEEEee
Confidence 55777755
No 41
>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=8.9e-33 Score=301.29 Aligned_cols=252 Identities=20% Similarity=0.315 Sum_probs=198.6
Q ss_pred CCeeEEEEeCCCCHHHHHH----HHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC--cHHHHH
Q 011428 11 VQLKVVQLTSSMPASDLRA----ALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG--YEDDLK 84 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~----~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g--~~~~l~ 84 (486)
.++.+..+.++.+...+.. +..+.++|+++||+++........ ....++++|||||||++.+|| |+.++.
T Consensus 76 ~gi~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~~~~~~~~----l~~~~l~~iViDEaH~i~~~g~~frp~y~ 151 (591)
T TIGR01389 76 AGVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNM----LQRIPIALVAVDEAHCVSQWGHDFRPEYQ 151 (591)
T ss_pred cCCcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhHhcChHHHHH----HhcCCCCEEEEeCCcccccccCccHHHHH
Confidence 3788999999988776543 334689999999999865333222 445689999999999999998 666665
Q ss_pred HH---HHHCCCCccEEEEeeecChhHHHHHHHhc--cCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHH
Q 011428 85 AL---SAVIPRGCQCLLMSATSSSDVDKLKKLIL--HNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLK 159 (486)
Q Consensus 85 ~i---~~~lp~~~q~il~SATl~~~v~~l~~~~l--~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk 159 (486)
.+ ...+| ..+++++|||++..+.......+ .+|..+.. .....++. +......++...+..++.
T Consensus 152 ~l~~l~~~~~-~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~--------~~~r~nl~--~~v~~~~~~~~~l~~~l~ 220 (591)
T TIGR01389 152 RLGSLAERFP-QVPRIALTATADAETRQDIRELLRLADANEFIT--------SFDRPNLR--FSVVKKNNKQKFLLDYLK 220 (591)
T ss_pred HHHHHHHhCC-CCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEec--------CCCCCCcE--EEEEeCCCHHHHHHHHHH
Confidence 55 44555 45699999999998865444333 34544421 11222332 222334556667777776
Q ss_pred hhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcc
Q 011428 160 LELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVD 239 (486)
Q Consensus 160 ~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~ 239 (486)
... ..++||||+|+..|+.++..|...|+++..+||+|+..+|..+++.|..|.++|||||+..
T Consensus 221 ~~~-~~~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~--------------- 284 (591)
T TIGR01389 221 KHR-GQSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAF--------------- 284 (591)
T ss_pred hcC-CCCEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEechh---------------
Confidence 543 6789999999999999999999999999999999999999999999999999999999883
Q ss_pred cccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHH
Q 011428 240 SRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEE 311 (486)
Q Consensus 240 ~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~ 311 (486)
.+|||+|+|++||+||+|.|.++|+||+||+||.|..|.|++|+++.+...++.
T Consensus 285 ------------------~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRaGR~G~~~~~il~~~~~d~~~~~~ 338 (591)
T TIGR01389 285 ------------------GMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILLYSPADIALLKR 338 (591)
T ss_pred ------------------hccCcCCCCCEEEEcCCCCCHHHHhhhhccccCCCCCceEEEecCHHHHHHHHH
Confidence 469999999999999999999999999999999999999999999888754443
No 42
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.7e-35 Score=270.72 Aligned_cols=224 Identities=25% Similarity=0.405 Sum_probs=197.2
Q ss_pred HHHHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC-CcHH
Q 011428 3 LIELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY-GYED 81 (486)
Q Consensus 3 l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~-g~~~ 81 (486)
++.|+. ++++.+++||.+.......|.+-|+|||+||||++.+.+++. +.+++++++|+||||.|+++ ..+.
T Consensus 133 fskymP---~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGrilALvr~k~----l~lk~vkhFvlDEcdkmle~lDMrR 205 (387)
T KOG0329|consen 133 FSKYMP---SVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRILALVRNRS----LNLKNVKHFVLDECDKMLEQLDMRR 205 (387)
T ss_pred HHhhCC---CceEEEEEcceeccccHHHHhCCCeEEEcCcHHHHHHHHhcc----CchhhcceeehhhHHHHHHHHHHHH
Confidence 445555 699999999999998889999999999999999999999876 88999999999999999874 5789
Q ss_pred HHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhh
Q 011428 82 DLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLE 161 (486)
Q Consensus 82 ~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~ 161 (486)
+++.|.+..|...|+++||||++.++...+..++.+|..+.+++. ...+.-+++|||+...+.+|...++.+|..
T Consensus 206 DvQEifr~tp~~KQvmmfsatlskeiRpvC~kFmQdPmEi~vDdE----~KLtLHGLqQ~YvkLke~eKNrkl~dLLd~- 280 (387)
T KOG0329|consen 206 DVQEIFRMTPHEKQVMMFSATLSKEIRPVCHKFMQDPMEIFVDDE----AKLTLHGLQQYYVKLKENEKNRKLNDLLDV- 280 (387)
T ss_pred HHHHHhhcCcccceeeeeeeecchhhHHHHHhhhcCchhhhccch----hhhhhhhHHHHHHhhhhhhhhhhhhhhhhh-
Confidence 999999999999999999999999999999999999999887651 234566899999999999999999988864
Q ss_pred ccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccc
Q 011428 162 LVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSR 241 (486)
Q Consensus 162 ~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~ 241 (486)
+.-.+++||+.++.+.. | .-+ +||||.
T Consensus 281 LeFNQVvIFvKsv~Rl~-------------------------------f---~kr-~vat~l------------------ 307 (387)
T KOG0329|consen 281 LEFNQVVIFVKSVQRLS-------------------------------F---QKR-LVATDL------------------ 307 (387)
T ss_pred hhhcceeEeeehhhhhh-------------------------------h---hhh-hHHhhh------------------
Confidence 45789999999988610 2 113 789998
Q ss_pred cccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 242 KSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 242 ~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
+.||+|+..|+.|+|||+|.++.+|+||+|||||.|..|.+|+|++..+.
T Consensus 308 ---------------fgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtkglaitfvs~e~d 357 (387)
T KOG0329|consen 308 ---------------FGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND 357 (387)
T ss_pred ---------------hccccCcccceeeeccCCCCCchHHHHHhhhhhccccccceeehhcchhh
Confidence 46999999999999999999999999999999999999999999997643
No 43
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=100.00 E-value=5.4e-32 Score=310.83 Aligned_cols=252 Identities=23% Similarity=0.344 Sum_probs=188.2
Q ss_pred CCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC--C--cHHHHHH
Q 011428 10 QVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY--G--YEDDLKA 85 (486)
Q Consensus 10 ~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~--g--~~~~l~~ 85 (486)
.++++|..++|+++...+...+.+.|||||+||++|..+|.+.. ...++++++|||||+|.|++. | +...+..
T Consensus 75 ~~~i~V~vrtGDt~~~eR~rll~~ppdILVTTPEsL~~LLtsk~---r~~L~~Vr~VIVDE~H~L~g~kRG~~Lel~LeR 151 (1490)
T PRK09751 75 EVNLRVGIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSRA---RETLRGVETVIIDEVHAVAGSKRGAHLALSLER 151 (1490)
T ss_pred cCceEEEEEECCCCHHHHHHHhcCCCCEEEecHHHHHHHHhhhh---hhhhccCCEEEEecHHHhcccccccHHHHHHHH
Confidence 35799999999999999888888899999999999998887532 246899999999999999864 4 4567788
Q ss_pred HHHHCCCCccEEEEeeecChhHHHHHHHhc-cCCcEEEcCCcCCcccccccCcceEEEEEcchhh---------------
Q 011428 86 LSAVIPRGCQCLLMSATSSSDVDKLKKLIL-HNPYILTLPEVGDVKDEVIPKNVQQFWISCSERD--------------- 149 (486)
Q Consensus 86 i~~~lp~~~q~il~SATl~~~v~~l~~~~l-~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~--------------- 149 (486)
|...++...|+|++|||+++ .+.+...+. .+|+.+.... ......+. .++.+....
T Consensus 152 L~~l~~~~~QrIgLSATI~n-~eevA~~L~g~~pv~Iv~~~------~~r~~~l~-v~vp~~d~~~~~~~~~~~~~~~~~ 223 (1490)
T PRK09751 152 LDALLHTSAQRIGLSATVRS-ASDVAAFLGGDRPVTVVNPP------AMRHPQIR-IVVPVANMDDVSSVASGTGEDSHA 223 (1490)
T ss_pred HHHhCCCCCeEEEEEeeCCC-HHHHHHHhcCCCCEEEECCC------CCcccceE-EEEecCchhhccccccccccccch
Confidence 88888888999999999987 455555443 2355543211 11111222 122221110
Q ss_pred -----hHHHH-HHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcC---------------------------------Cc
Q 011428 150 -----KLLYI-LTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFG---------------------------------IK 190 (486)
Q Consensus 150 -----k~~~l-~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~g---------------------------------i~ 190 (486)
....+ ..++.......++||||||+..|+.++..|.+.. ..
T Consensus 224 ~r~~~i~~~v~~~il~~i~~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 303 (1490)
T PRK09751 224 GREGSIWPYIETGILDEVLRHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFI 303 (1490)
T ss_pred hhhhhhhHHHHHHHHHHHhcCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhcccccccee
Confidence 00111 1233322336789999999999999999997642 12
Q ss_pred eeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEE
Q 011428 191 SAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVI 270 (486)
Q Consensus 191 ~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI 270 (486)
+.++||+|++++|..+++.|++|.+++||||+.. .+|||+++|++||
T Consensus 304 a~~HHGsLSkeeR~~IE~~fK~G~LrvLVATssL---------------------------------ELGIDIg~VDlVI 350 (1490)
T PRK09751 304 ARSHHGSVSKEQRAITEQALKSGELRCVVATSSL---------------------------------ELGIDMGAVDLVI 350 (1490)
T ss_pred eeeccccCCHHHHHHHHHHHHhCCceEEEeCcHH---------------------------------HccCCcccCCEEE
Confidence 5689999999999999999999999999999984 5899999999999
Q ss_pred EeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 271 NFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 271 ~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
||+.|.|+.+|+||+||+||. ..|.+..++.+.+.
T Consensus 351 q~gsP~sVas~LQRiGRAGR~-~gg~s~gli~p~~r 385 (1490)
T PRK09751 351 QVATPLSVASGLQRIGRAGHQ-VGGVSKGLFFPRTR 385 (1490)
T ss_pred EeCCCCCHHHHHHHhCCCCCC-CCCccEEEEEeCcH
Confidence 999999999999999999996 33444444444443
No 44
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.3e-32 Score=287.86 Aligned_cols=263 Identities=22% Similarity=0.355 Sum_probs=204.4
Q ss_pred hHHHHhhcC------CCeeEEEEeCCCCHHHHHHH----HcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccc
Q 011428 2 ALIELCKGQ------VQLKVVQLTSSMPASDLRAA----LAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEA 71 (486)
Q Consensus 2 ~l~~~~~~~------~~i~v~~l~g~~~~~~q~~~----l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEa 71 (486)
.|+++|.+| .||.+..+.+..+..++... ..+..++|+-+|++|..--.... +..-.+.++|||||
T Consensus 65 PLiSLM~DQV~~l~~~Gi~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl~~~~f~~~----L~~~~i~l~vIDEA 140 (590)
T COG0514 65 PLISLMKDQVDQLEAAGIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLEL----LKRLPISLVAIDEA 140 (590)
T ss_pred chHHHHHHHHHHHHHcCceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcChHHHHH----HHhCCCceEEechH
Confidence 356666654 36899999988777665543 34569999999999854221111 33456899999999
Q ss_pred ccccCCC--cHHHHHHHHH---HCCCCccEEEEeeecChhHHH--HHHHhccCCcEEEcCCcCCcccccccCcceEEEEE
Q 011428 72 DLLLSYG--YEDDLKALSA---VIPRGCQCLLMSATSSSDVDK--LKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWIS 144 (486)
Q Consensus 72 d~ll~~g--~~~~l~~i~~---~lp~~~q~il~SATl~~~v~~--l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~ 144 (486)
|++..|| |++++..+.. .+| +.+++.+|||.++.+.. ...+.+.+|.++.. ....++|...+..
T Consensus 141 HCiSqWGhdFRP~Y~~lg~l~~~~~-~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~--------sfdRpNi~~~v~~ 211 (590)
T COG0514 141 HCISQWGHDFRPDYRRLGRLRAGLP-NPPVLALTATATPRVRDDIREQLGLQDANIFRG--------SFDRPNLALKVVE 211 (590)
T ss_pred HHHhhcCCccCHhHHHHHHHHhhCC-CCCEEEEeCCCChHHHHHHHHHhcCCCcceEEe--------cCCCchhhhhhhh
Confidence 9999999 8888777644 556 88999999999998844 34445556655543 2233454433333
Q ss_pred cc-hhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 145 CS-ERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 145 ~~-~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.. ..++...+.. ......+..||||.|+..++.++.+|.+.|+++..||++|+.++|..+.++|..++++|+|||
T Consensus 212 ~~~~~~q~~fi~~--~~~~~~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT-- 287 (590)
T COG0514 212 KGEPSDQLAFLAT--VLPQLSKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVAT-- 287 (590)
T ss_pred cccHHHHHHHHHh--hccccCCCeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCCCcEEEEe--
Confidence 22 3334442222 123335678999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCc
Q 011428 224 TQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSP 303 (486)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~ 303 (486)
.+||| |||-|||.+|||||+|.|+++|.|.+||+||+|....|++|+++
T Consensus 288 -----------------------------~AFGM--GIdKpdVRfViH~~lP~s~EsYyQE~GRAGRDG~~a~aill~~~ 336 (590)
T COG0514 288 -----------------------------NAFGM--GIDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAILLYSP 336 (590)
T ss_pred -----------------------------ccccC--ccCCCCceEEEEecCCCCHHHHHHHHhhccCCCCcceEEEeecc
Confidence 68999 99999999999999999999999999999999999999999999
Q ss_pred chhhHHHHH
Q 011428 304 DEMKIFEEI 312 (486)
Q Consensus 304 ~e~~~~~~~ 312 (486)
.|....+.+
T Consensus 337 ~D~~~~~~~ 345 (590)
T COG0514 337 EDIRWQRYL 345 (590)
T ss_pred ccHHHHHHH
Confidence 997555444
No 45
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.97 E-value=1.8e-30 Score=292.91 Aligned_cols=250 Identities=20% Similarity=0.256 Sum_probs=180.6
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHH----HHHHHH
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYED----DLKALS 87 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~----~l~~i~ 87 (486)
++++..++|+++...+...+...|+|||+||++|..++.+..+ ...+.++++|||||||.+++..+.. .+..+.
T Consensus 124 ~i~v~v~~Gdt~~~~r~~~l~~~p~IlVtTPE~L~~ll~~~~~--~~~l~~l~~VVIDE~H~l~~~~RG~~l~~~L~rL~ 201 (876)
T PRK13767 124 EIRVAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSPKF--REKLRTVKWVIVDEIHSLAENKRGVHLSLSLERLE 201 (876)
T ss_pred CeeEEEEcCCCCHHHHHHHHhCCCCEEEecHHHHHHHhcChhH--HHHHhcCCEEEEechhhhccCccHHHHHHHHHHHH
Confidence 7899999999999988888889999999999999888865431 1257899999999999999765443 445555
Q ss_pred HHCCCCccEEEEeeecChhHHHHHHHhcc-------CCcEEEcCCcCCcccccccCcceE-----EEEEcchhhhHHHHH
Q 011428 88 AVIPRGCQCLLMSATSSSDVDKLKKLILH-------NPYILTLPEVGDVKDEVIPKNVQQ-----FWISCSERDKLLYIL 155 (486)
Q Consensus 88 ~~lp~~~q~il~SATl~~~v~~l~~~~l~-------~p~~i~l~~~~~~~~~~~~~~l~q-----~~i~~~~~~k~~~l~ 155 (486)
...+...|++++|||+++ .+.+...... .+..+. .. .......+.. ....+........++
T Consensus 202 ~l~~~~~q~IglSATl~~-~~~va~~L~~~~~~~~~r~~~iv-~~-----~~~k~~~i~v~~p~~~l~~~~~~~~~~~l~ 274 (876)
T PRK13767 202 ELAGGEFVRIGLSATIEP-LEEVAKFLVGYEDDGEPRDCEIV-DA-----RFVKPFDIKVISPVDDLIHTPAEEISEALY 274 (876)
T ss_pred HhcCCCCeEEEEecccCC-HHHHHHHhcCccccCCCCceEEE-cc-----CCCccceEEEeccCccccccccchhHHHHH
Confidence 555568999999999986 3334433321 122221 10 0000000000 001111112222233
Q ss_pred HHHHhh-ccCCeEEEEecCHHHHHHHHHHHHHc------CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccc
Q 011428 156 TLLKLE-LVQKKALIFTNTIDMAFRLKLFLEKF------GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKE 228 (486)
Q Consensus 156 ~llk~~-~~~~k~IIFvns~~~~~~l~~~L~~~------gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~ 228 (486)
..+... ...+++||||||+..|+.++..|... +..+.++||+|++++|..+++.|++|.+++||||+..
T Consensus 275 ~~L~~~i~~~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i~vLVaTs~L---- 350 (876)
T PRK13767 275 ETLHELIKEHRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSSTSL---- 350 (876)
T ss_pred HHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHHHHHHHcCCCeEEEECChH----
Confidence 333221 12578999999999999999999763 4678999999999999999999999999999999984
Q ss_pred cccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccC-CCCceEEEEeCc
Q 011428 229 KDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRA-YNTGASVSLVSP 303 (486)
Q Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~-g~~G~ai~fv~~ 303 (486)
++|||+|+|++||+||.|.++.+|+||+|||||. |..+.+++++..
T Consensus 351 -----------------------------e~GIDip~Vd~VI~~~~P~sv~~ylQRiGRaGR~~g~~~~g~ii~~~ 397 (876)
T PRK13767 351 -----------------------------ELGIDIGYIDLVVLLGSPKSVSRLLQRIGRAGHRLGEVSKGRIIVVD 397 (876)
T ss_pred -----------------------------HhcCCCCCCcEEEEeCCCCCHHHHHHhcccCCCCCCCCCcEEEEEcC
Confidence 5899999999999999999999999999999986 444555555543
No 46
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.97 E-value=5.1e-30 Score=287.25 Aligned_cols=242 Identities=21% Similarity=0.223 Sum_probs=187.2
Q ss_pred HHhhcCCCeeEEEEeCCCCHHHHHHHH---c-CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcH
Q 011428 5 ELCKGQVQLKVVQLTSSMPASDLRAAL---A-GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYE 80 (486)
Q Consensus 5 ~~~~~~~~i~v~~l~g~~~~~~q~~~l---~-~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~ 80 (486)
.+++. .++++..++|+.+..++...+ . +.+|||||||. ++.. . ..+.+|++|||||+|++ |
T Consensus 522 ~~~~~-~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~----ll~~-~----v~f~~L~llVIDEahrf---g-- 586 (926)
T TIGR00580 522 ERFAN-FPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHK----LLQK-D----VKFKDLGLLIIDEEQRF---G-- 586 (926)
T ss_pred HHhcc-CCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHH----HhhC-C----CCcccCCEEEeeccccc---c--
Confidence 34443 478999999988876655433 3 46999999993 2332 2 66789999999999983 3
Q ss_pred HHHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHh
Q 011428 81 DDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKL 160 (486)
Q Consensus 81 ~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~ 160 (486)
......+..++.+.|+++||||+++....+....+.++.++...+ . ....+.+++.......-.. .++..
T Consensus 587 v~~~~~L~~~~~~~~vL~~SATpiprtl~~~l~g~~d~s~I~~~p-----~--~R~~V~t~v~~~~~~~i~~---~i~~e 656 (926)
T TIGR00580 587 VKQKEKLKELRTSVDVLTLSATPIPRTLHMSMSGIRDLSIIATPP-----E--DRLPVRTFVMEYDPELVRE---AIRRE 656 (926)
T ss_pred hhHHHHHHhcCCCCCEEEEecCCCHHHHHHHHhcCCCcEEEecCC-----C--CccceEEEEEecCHHHHHH---HHHHH
Confidence 234555667778899999999988877666666677887776543 1 1224566655433221111 22222
Q ss_pred hccCCeEEEEecCHHHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCc
Q 011428 161 ELVQKKALIFTNTIDMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHV 238 (486)
Q Consensus 161 ~~~~~k~IIFvns~~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~ 238 (486)
-...++++||||+++.++.++..|.+. ++++.++||+|++.+|..++++|..|.++|||||++.
T Consensus 657 l~~g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~ii-------------- 722 (926)
T TIGR00580 657 LLRGGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTII-------------- 722 (926)
T ss_pred HHcCCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChh--------------
Confidence 223679999999999999999999985 7899999999999999999999999999999999994
Q ss_pred ccccccCCCCCcccccccccccCccCCccEEEEeCCCC-ChhhHHHhhhhcccCCCCceEEEEeCcc
Q 011428 239 DSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQ-NAAGYVHRIGRTGRAYNTGASVSLVSPD 304 (486)
Q Consensus 239 ~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~-s~~~yihRiGRtgR~g~~G~ai~fv~~~ 304 (486)
++|||+|+|++||+++.|. +..+|.||+||+||+|+.|.|++|+.+.
T Consensus 723 -------------------e~GIDIp~v~~VIi~~a~~~gls~l~Qr~GRvGR~g~~g~aill~~~~ 770 (926)
T TIGR00580 723 -------------------ETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSKKKAYAYLLYPHQ 770 (926)
T ss_pred -------------------hcccccccCCEEEEecCCCCCHHHHHHHhcCCCCCCCCeEEEEEECCc
Confidence 5899999999999999976 5789999999999999999999998654
No 47
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.97 E-value=8e-30 Score=276.97 Aligned_cols=242 Identities=20% Similarity=0.244 Sum_probs=184.9
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC-
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI- 90 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l- 90 (486)
++.+...+|+.+. .+........+|||+||+. . ...++++++|||||||.+...+ +.+..++..+
T Consensus 253 g~~v~v~~Gg~~~-~~~~t~~k~~~Ilv~T~~L-------~----l~~L~~v~~VVIDEaHEr~~~~--DllL~llk~~~ 318 (675)
T PHA02653 253 GSPISLKYGSIPD-ELINTNPKPYGLVFSTHKL-------T----LNKLFDYGTVIIDEVHEHDQIG--DIIIAVARKHI 318 (675)
T ss_pred CceEEEEECCcch-HHhhcccCCCCEEEEeCcc-------c----ccccccCCEEEccccccCccch--hHHHHHHHHhh
Confidence 5667888999874 3333233478999999752 1 1357889999999999998776 4455555444
Q ss_pred CCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc----------hhhhHHHHHHHHHh
Q 011428 91 PRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS----------ERDKLLYILTLLKL 160 (486)
Q Consensus 91 p~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~----------~~~k~~~l~~llk~ 160 (486)
+...|+++||||++++++.+ ..++.+|..+.++. .....++++|+... +.++...+..+...
T Consensus 319 ~~~rq~ILmSATl~~dv~~l-~~~~~~p~~I~I~g-------rt~~pV~~~yi~~~~~~~~~~~y~~~~k~~~l~~L~~~ 390 (675)
T PHA02653 319 DKIRSLFLMTATLEDDRDRI-KEFFPNPAFVHIPG-------GTLFPISEVYVKNKYNPKNKRAYIEEEKKNIVTALKKY 390 (675)
T ss_pred hhcCEEEEEccCCcHhHHHH-HHHhcCCcEEEeCC-------CcCCCeEEEEeecCcccccchhhhHHHHHHHHHHHHHh
Confidence 34469999999999998887 46888998887743 12346777776443 22333333333332
Q ss_pred h-ccCCeEEEEecCHHHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHH-hcCCCcEEEEcCCCCccccccCCCCC
Q 011428 161 E-LVQKKALIFTNTIDMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEF-NAGLFDYLIATDDTQTKEKDQSDEGG 236 (486)
Q Consensus 161 ~-~~~~k~IIFvns~~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F-~~g~~~iLIaTd~~~~~~~~~~~~~~ 236 (486)
. ...+.+||||+++..|..++..|++. ++.+..|||+|++. .+.++.| +.|..+||||||++
T Consensus 391 ~~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq~--eq~l~~ff~~gk~kILVATdIA------------ 456 (675)
T PHA02653 391 TPPKGSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPNI--DEILEKVYSSKNPSIIISTPYL------------ 456 (675)
T ss_pred hcccCCcEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCHH--HHHHHHHhccCceeEEeccChh------------
Confidence 2 23468999999999999999999987 79999999999985 4677787 68999999999996
Q ss_pred CcccccccCCCCCcccccccccccCccCCccEEEEeC---CCC---------ChhhHHHhhhhcccCCCCceEEEEeCcc
Q 011428 237 HVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFE---MPQ---------NAAGYVHRIGRTGRAYNTGASVSLVSPD 304 (486)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d---~P~---------s~~~yihRiGRtgR~g~~G~ai~fv~~~ 304 (486)
+||||+|+|++||++| .|. |.++|+||+|||||. ++|.|+.|+++.
T Consensus 457 ---------------------ERGIDIp~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~-~~G~c~rLyt~~ 514 (675)
T PHA02653 457 ---------------------ESSVTIRNATHVYDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRV-SPGTYVYFYDLD 514 (675)
T ss_pred ---------------------hccccccCeeEEEECCCccCCCcccCcccccCHHHHHHhccCcCCC-CCCeEEEEECHH
Confidence 4899999999999999 665 888999999999999 789999999988
Q ss_pred hhhHHHH
Q 011428 305 EMKIFEE 311 (486)
Q Consensus 305 e~~~~~~ 311 (486)
+...+.+
T Consensus 515 ~~~pI~r 521 (675)
T PHA02653 515 LLKPIKR 521 (675)
T ss_pred HhHHHHH
Confidence 7643333
No 48
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.97 E-value=1.9e-29 Score=279.84 Aligned_cols=224 Identities=17% Similarity=0.193 Sum_probs=180.4
Q ss_pred HcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccccc-ccCCCcH-HHHHHHHHHCCCCccEEEEeeecChhHH
Q 011428 31 LAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADL-LLSYGYE-DDLKALSAVIPRGCQCLLMSATSSSDVD 108 (486)
Q Consensus 31 l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~-ll~~g~~-~~l~~i~~~lp~~~q~il~SATl~~~v~ 108 (486)
+...++|+|+|||+|++++... ..++++++|||||||. +++.++. ..+..+...+++..|+++||||++.+.
T Consensus 87 ~s~~t~I~v~T~G~Llr~l~~d-----~~L~~v~~VIiDEaHER~L~~Dl~L~ll~~i~~~lr~dlqlIlmSATl~~~~- 160 (819)
T TIGR01970 87 VSRRTRLEVVTEGILTRMIQDD-----PELDGVGALIFDEFHERSLDADLGLALALDVQSSLREDLKILAMSATLDGER- 160 (819)
T ss_pred cCCCCcEEEECCcHHHHHHhhC-----cccccCCEEEEeccchhhhccchHHHHHHHHHHhcCCCceEEEEeCCCCHHH-
Confidence 3457899999999999999853 5689999999999995 6765543 334566677888999999999999764
Q ss_pred HHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHH-----HHHHHHHhhccCCeEEEEecCHHHHHHHHHH
Q 011428 109 KLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLL-----YILTLLKLELVQKKALIFTNTIDMAFRLKLF 183 (486)
Q Consensus 109 ~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~-----~l~~llk~~~~~~k~IIFvns~~~~~~l~~~ 183 (486)
+ ..++.++.++.... . .-.+.++|..+...+++. .+..++.. ..+.+||||++...+..++..
T Consensus 161 -l-~~~l~~~~vI~~~g-----r---~~pVe~~y~~~~~~~~~~~~v~~~l~~~l~~--~~g~iLVFlpg~~eI~~l~~~ 228 (819)
T TIGR01970 161 -L-SSLLPDAPVVESEG-----R---SFPVEIRYLPLRGDQRLEDAVSRAVEHALAS--ETGSILVFLPGQAEIRRVQEQ 228 (819)
T ss_pred -H-HHHcCCCcEEEecC-----c---ceeeeeEEeecchhhhHHHHHHHHHHHHHHh--cCCcEEEEECCHHHHHHHHHH
Confidence 3 45666666665533 1 124677888776555432 23333332 368999999999999999999
Q ss_pred HHH---cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCccccccccccc
Q 011428 184 LEK---FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRG 260 (486)
Q Consensus 184 L~~---~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrG 260 (486)
|.+ .++.++.|||+|++++|..+++.|..|..+||||||+++ +|
T Consensus 229 L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATnIAE---------------------------------rg 275 (819)
T TIGR01970 229 LAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAE---------------------------------TS 275 (819)
T ss_pred HHhhcCCCcEEEEecCCCCHHHHHHHHhhcccCCeEEEEecchHh---------------------------------hc
Confidence 987 478899999999999999999999999999999999964 89
Q ss_pred CccCCccEEEEeCCCCC------------------hhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 261 IDFKNVHTVINFEMPQN------------------AAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 261 ID~~~V~~VI~~d~P~s------------------~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
||||+|++|||+++|.. -.+|+||+|||||. .+|.|+.|++..+.
T Consensus 276 ItIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~-~~G~cyrL~t~~~~ 338 (819)
T TIGR01970 276 LTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRL-EPGVCYRLWSEEQH 338 (819)
T ss_pred ccccCceEEEEcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCC-CCCEEEEeCCHHHH
Confidence 99999999999999853 34699999999999 79999999998765
No 49
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.97 E-value=2.7e-29 Score=286.94 Aligned_cols=236 Identities=19% Similarity=0.193 Sum_probs=184.2
Q ss_pred CCeeEEEEeCCCCHHHHHHHHc----CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHH
Q 011428 11 VQLKVVQLTSSMPASDLRAALA----GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKAL 86 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~----~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i 86 (486)
.++++..++|+.+...+...+. +.+|||||||+. +.. . ..+.++++|||||+|++ |+.. ...
T Consensus 676 ~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~l----L~~-~----v~~~~L~lLVIDEahrf---G~~~--~e~ 741 (1147)
T PRK10689 676 WPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKL----LQS-D----VKWKDLGLLIVDEEHRF---GVRH--KER 741 (1147)
T ss_pred CCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHH----HhC-C----CCHhhCCEEEEechhhc---chhH--HHH
Confidence 3688888999988887776553 579999999963 332 2 55788999999999996 4432 345
Q ss_pred HHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCe
Q 011428 87 SAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKK 166 (486)
Q Consensus 87 ~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k 166 (486)
+..++.+.|+++||||+++....+....+.+|.++.... . ....+.+++....... ....++..-...++
T Consensus 742 lk~l~~~~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p-----~--~r~~v~~~~~~~~~~~---~k~~il~el~r~gq 811 (1147)
T PRK10689 742 IKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPP-----A--RRLAVKTFVREYDSLV---VREAILREILRGGQ 811 (1147)
T ss_pred HHhcCCCCcEEEEcCCCCHHHHHHHHhhCCCcEEEecCC-----C--CCCCceEEEEecCcHH---HHHHHHHHHhcCCe
Confidence 577888999999999998888888888888998887544 1 1224555555443221 11222222223679
Q ss_pred EEEEecCHHHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccccc
Q 011428 167 ALIFTNTIDMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSK 244 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~ 244 (486)
++||||++..++.++..|... ++++.++||+|++.+|..++.+|.+|.++||||||+.
T Consensus 812 v~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIi-------------------- 871 (1147)
T PRK10689 812 VYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTII-------------------- 871 (1147)
T ss_pred EEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchh--------------------
Confidence 999999999999999999987 7899999999999999999999999999999999994
Q ss_pred CCCCCcccccccccccCccCCccEEEEeCCC-CChhhHHHhhhhcccCCCCceEEEEeCc
Q 011428 245 KHPKAKLDSEFGVVRGIDFKNVHTVINFEMP-QNAAGYVHRIGRTGRAYNTGASVSLVSP 303 (486)
Q Consensus 245 ~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P-~s~~~yihRiGRtgR~g~~G~ai~fv~~ 303 (486)
+||||+|+|++||..+.. .+...|+||+||+||.|+.|.|++++.+
T Consensus 872 -------------erGIDIP~v~~VIi~~ad~fglaq~~Qr~GRvGR~g~~g~a~ll~~~ 918 (1147)
T PRK10689 872 -------------ETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQAYAWLLTPH 918 (1147)
T ss_pred -------------hcccccccCCEEEEecCCCCCHHHHHHHhhccCCCCCceEEEEEeCC
Confidence 689999999999943332 2345799999999999999999988754
No 50
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=99.97 E-value=1.3e-30 Score=257.59 Aligned_cols=254 Identities=28% Similarity=0.419 Sum_probs=209.8
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI 90 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l 90 (486)
+.++...+.||+-...|...|.++.||||+||+|+.+.+..|. ..+..+++||+||||.+++.||.+.+..+-..+
T Consensus 316 p~~r~lLmiggv~~r~Q~~ql~~g~~ivvGtpgRl~~~is~g~----~~lt~crFlvlDead~lL~qgy~d~I~r~h~qi 391 (725)
T KOG0349|consen 316 PEVRSLLMIGGVLKRTQCKQLKDGTHIVVGTPGRLLQPISKGL----VTLTHCRFLVLDEADLLLGQGYDDKIYRFHGQI 391 (725)
T ss_pred hhhhhhhhhhhHHhHHHHHHhhcCceeeecCchhhhhhhhccc----eeeeeeEEEEecchhhhhhcccHHHHHHHhccc
Confidence 4567778889999999999999999999999999999999886 778999999999999999999999999998888
Q ss_pred CC------CccEEEEeeecCh-hHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcch----------------
Q 011428 91 PR------GCQCLLMSATSSS-DVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSE---------------- 147 (486)
Q Consensus 91 p~------~~q~il~SATl~~-~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~---------------- 147 (486)
|. ..|.+++|||+.. ++..+...+|+-|..+++.. +...++.+.+....+..
T Consensus 392 p~~tsdg~rlq~~vCsatlh~feVkk~~ervmhfptwVdLkg-----eD~vpetvHhvv~lv~p~~d~sw~~lr~~i~td 466 (725)
T KOG0349|consen 392 PHMTSDGFRLQSPVCSATLHIFEVKKVGERVMHFPTWVDLKG-----EDLVPETVHHVVKLVCPSVDGSWCDLRQFIETD 466 (725)
T ss_pred hhhhcCCcccccceeeeEEeEEEeeehhhhhccCceeEeccc-----ccccchhhccceeecCCccCccHHHHhhhhccC
Confidence 74 5799999999864 56777888899999998876 33333333333322110
Q ss_pred --------------hhhHHHHHHHHHh--------hccCCeEEEEecCHHHHHHHHHHHHHcC---CceeecCCCCCHHH
Q 011428 148 --------------RDKLLYILTLLKL--------ELVQKKALIFTNTIDMAFRLKLFLEKFG---IKSAILNAELPQNS 202 (486)
Q Consensus 148 --------------~~k~~~l~~llk~--------~~~~~k~IIFvns~~~~~~l~~~L~~~g---i~~~~lhs~l~~~~ 202 (486)
.+-..-...+|+- .....++||||.|...|..|..++.+.| +.|.++|++..+.+
T Consensus 467 ~vh~kdn~~pg~~Spe~~s~a~kilkgEy~v~ai~~h~mdkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~E 546 (725)
T KOG0349|consen 467 KVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIRRHAMDKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDE 546 (725)
T ss_pred CcccccccccccCCCCChhhhhHHhcCchhhhhhhhhccCceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhH
Confidence 0011111122211 1124589999999999999999999876 47888999999999
Q ss_pred HHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHH
Q 011428 203 RLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYV 282 (486)
Q Consensus 203 R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yi 282 (486)
|...++.|.++..++|||||++ +||||+..+.++||..+|.+...|+
T Consensus 547 rk~nle~Fkk~dvkflictdva---------------------------------argldi~g~p~~invtlpd~k~nyv 593 (725)
T KOG0349|consen 547 RKANLESFKKFDVKFLICTDVA---------------------------------ARGLDITGLPFMINVTLPDDKTNYV 593 (725)
T ss_pred HHHHHHhhhhcCeEEEEEehhh---------------------------------hccccccCCceEEEEecCcccchhh
Confidence 9999999999999999999995 6999999999999999999999999
Q ss_pred HhhhhcccCCCCceEEEEeCcchh
Q 011428 283 HRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 283 hRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
|||||.||+.+-|.||++|.....
T Consensus 594 hrigrvgraermglaislvat~~e 617 (725)
T KOG0349|consen 594 HRIGRVGRAERMGLAISLVATVPE 617 (725)
T ss_pred hhhhccchhhhcceeEEEeeccch
Confidence 999999999999999999875543
No 51
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.96 E-value=1.2e-28 Score=273.97 Aligned_cols=240 Identities=16% Similarity=0.188 Sum_probs=185.8
Q ss_pred cCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccccc-ccCCCc-HHHHHHH
Q 011428 9 GQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADL-LLSYGY-EDDLKAL 86 (486)
Q Consensus 9 ~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~-ll~~g~-~~~l~~i 86 (486)
..++..|...+++.+. .....+|+|+|||+|++++... ..++++++|||||||. .++..+ ...+..+
T Consensus 74 ~~~g~~VGy~vr~~~~------~~~~t~I~v~T~G~Llr~l~~d-----~~L~~v~~IIlDEaHER~l~~Dl~L~ll~~i 142 (812)
T PRK11664 74 EKPGETVGYRMRAESK------VGPNTRLEVVTEGILTRMIQRD-----PELSGVGLVILDEFHERSLQADLALALLLDV 142 (812)
T ss_pred cccCceEEEEecCccc------cCCCCcEEEEChhHHHHHHhhC-----CCcCcCcEEEEcCCCccccccchHHHHHHHH
Confidence 3345556555554322 2345689999999999998853 5689999999999997 344332 2344566
Q ss_pred HHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHH-----HHHHHHHhh
Q 011428 87 SAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLL-----YILTLLKLE 161 (486)
Q Consensus 87 ~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~-----~l~~llk~~ 161 (486)
+..+++..|+++||||++.+. + ..++.++.++.... . .-.+.++|+.+...+++. .+..++..
T Consensus 143 ~~~lr~~lqlilmSATl~~~~--l-~~~~~~~~~I~~~g-----r---~~pV~~~y~~~~~~~~~~~~v~~~l~~~l~~- 210 (812)
T PRK11664 143 QQGLRDDLKLLIMSATLDNDR--L-QQLLPDAPVIVSEG-----R---SFPVERRYQPLPAHQRFDEAVARATAELLRQ- 210 (812)
T ss_pred HHhCCccceEEEEecCCCHHH--H-HHhcCCCCEEEecC-----c---cccceEEeccCchhhhHHHHHHHHHHHHHHh-
Confidence 777888999999999998753 3 45666666665433 1 124778888777655553 23333332
Q ss_pred ccCCeEEEEecCHHHHHHHHHHHHH---cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCc
Q 011428 162 LVQKKALIFTNTIDMAFRLKLFLEK---FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHV 238 (486)
Q Consensus 162 ~~~~k~IIFvns~~~~~~l~~~L~~---~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~ 238 (486)
..+.+|||||+...+..++..|.. .++.++.+||+|++.+|..+++.|..|..+||||||+++
T Consensus 211 -~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvATnIAE------------- 276 (812)
T PRK11664 211 -ESGSLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAE------------- 276 (812)
T ss_pred -CCCCEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCCCeEEEEecchHH-------------
Confidence 368999999999999999999987 578899999999999999999999999999999999964
Q ss_pred ccccccCCCCCcccccccccccCccCCccEEEEeCCCCC------------------hhhHHHhhhhcccCCCCceEEEE
Q 011428 239 DSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQN------------------AAGYVHRIGRTGRAYNTGASVSL 300 (486)
Q Consensus 239 ~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s------------------~~~yihRiGRtgR~g~~G~ai~f 300 (486)
+|||+++|++|||+++|.. -.+|+||+|||||. .+|.|+.+
T Consensus 277 --------------------rsLtIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~-~~G~cyrL 335 (812)
T PRK11664 277 --------------------TSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL-EPGICLHL 335 (812)
T ss_pred --------------------hcccccCceEEEECCCcccccccccCCcceeEEEeechhhhhhhccccCCC-CCcEEEEe
Confidence 8999999999999887643 35899999999999 69999999
Q ss_pred eCcchh
Q 011428 301 VSPDEM 306 (486)
Q Consensus 301 v~~~e~ 306 (486)
++..+.
T Consensus 336 ~t~~~~ 341 (812)
T PRK11664 336 YSKEQA 341 (812)
T ss_pred cCHHHH
Confidence 998765
No 52
>PRK02362 ski2-like helicase; Provisional
Probab=99.96 E-value=1.2e-28 Score=274.98 Aligned_cols=248 Identities=21% Similarity=0.244 Sum_probs=179.3
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHH-
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAV- 89 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~- 89 (486)
.++++..++|+.+...+ . ...+||+|+||+++..+++++. ..++++++|||||||++.+.++...++.++..
T Consensus 93 ~g~~v~~~tGd~~~~~~--~-l~~~~IiV~Tpek~~~llr~~~----~~l~~v~lvViDE~H~l~d~~rg~~le~il~rl 165 (737)
T PRK02362 93 LGVRVGISTGDYDSRDE--W-LGDNDIIVATSEKVDSLLRNGA----PWLDDITCVVVDEVHLIDSANRGPTLEVTLAKL 165 (737)
T ss_pred CCCEEEEEeCCcCcccc--c-cCCCCEEEECHHHHHHHHhcCh----hhhhhcCEEEEECccccCCCcchHHHHHHHHHH
Confidence 37899999998765432 2 2478999999999999888653 55789999999999999988877777766554
Q ss_pred --CCCCccEEEEeeecChhHHHHHHHhccC-------CcEEEcCCcCCcccccccCcceEEEEEcch-hhhHHHHHHHHH
Q 011428 90 --IPRGCQCLLMSATSSSDVDKLKKLILHN-------PYILTLPEVGDVKDEVIPKNVQQFWISCSE-RDKLLYILTLLK 159 (486)
Q Consensus 90 --lp~~~q~il~SATl~~~v~~l~~~~l~~-------p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~-~~k~~~l~~llk 159 (486)
++...|++++|||+++ ...+..+.-.. |+.+...-... ....... .+..+.+.. ......+...+.
T Consensus 166 ~~~~~~~qii~lSATl~n-~~~la~wl~~~~~~~~~rpv~l~~~v~~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 241 (737)
T PRK02362 166 RRLNPDLQVVALSATIGN-ADELADWLDAELVDSEWRPIDLREGVFYG--GAIHFDD-SQREVEVPSKDDTLNLVLDTLE 241 (737)
T ss_pred HhcCCCCcEEEEcccCCC-HHHHHHHhCCCcccCCCCCCCCeeeEecC--Ceecccc-ccccCCCccchHHHHHHHHHHH
Confidence 3568999999999986 34444433211 21111000000 0000000 111111111 223333333332
Q ss_pred hhccCCeEEEEecCHHHHHHHHHHHHHcC------------------------------------CceeecCCCCCHHHH
Q 011428 160 LELVQKKALIFTNTIDMAFRLKLFLEKFG------------------------------------IKSAILNAELPQNSR 203 (486)
Q Consensus 160 ~~~~~~k~IIFvns~~~~~~l~~~L~~~g------------------------------------i~~~~lhs~l~~~~R 203 (486)
..+++||||+|+..|..++..|.... ..+.++||+|++.+|
T Consensus 242 ---~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~l~~gva~hHagl~~~eR 318 (737)
T PRK02362 242 ---EGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKDLADCVAKGAAFHHAGLSREHR 318 (737)
T ss_pred ---cCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhCEEeecCCCCHHHH
Confidence 46899999999999999988886431 367889999999999
Q ss_pred HHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEE----eC-----C
Q 011428 204 LHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN----FE-----M 274 (486)
Q Consensus 204 ~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~----~d-----~ 274 (486)
..+++.|++|.++|||||+. +++|||+|.+.+||+ || .
T Consensus 319 ~~ve~~Fr~G~i~VLvaT~t---------------------------------la~GvnlPa~~VVI~~~~~yd~~~g~~ 365 (737)
T PRK02362 319 ELVEDAFRDRLIKVISSTPT---------------------------------LAAGLNLPARRVIIRDYRRYDGGAGMQ 365 (737)
T ss_pred HHHHHHHHcCCCeEEEechh---------------------------------hhhhcCCCceEEEEecceeecCCCCce
Confidence 99999999999999999998 578999999999998 77 6
Q ss_pred CCChhhHHHhhhhcccCCCC--ceEEEEeCcch
Q 011428 275 PQNAAGYVHRIGRTGRAYNT--GASVSLVSPDE 305 (486)
Q Consensus 275 P~s~~~yihRiGRtgR~g~~--G~ai~fv~~~e 305 (486)
|.+..+|+||+|||||.|.. |.+++++...+
T Consensus 366 ~~s~~~y~Qm~GRAGR~g~d~~G~~ii~~~~~~ 398 (737)
T PRK02362 366 PIPVLEYHQMAGRAGRPGLDPYGEAVLLAKSYD 398 (737)
T ss_pred eCCHHHHHHHhhcCCCCCCCCCceEEEEecCch
Confidence 89999999999999999865 88999887653
No 53
>PRK00254 ski2-like helicase; Provisional
Probab=99.96 E-value=4.6e-28 Score=269.57 Aligned_cols=241 Identities=25% Similarity=0.338 Sum_probs=180.8
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI 90 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l 90 (486)
+++++..++|+.+...+ ++ ..+||+|+||+++..++..+. ..++++++|||||+|.+.+.++...+..++..+
T Consensus 94 ~g~~v~~~~Gd~~~~~~--~~-~~~~IiV~Tpe~~~~ll~~~~----~~l~~l~lvViDE~H~l~~~~rg~~le~il~~l 166 (720)
T PRK00254 94 LGLRVAMTTGDYDSTDE--WL-GKYDIIIATAEKFDSLLRHGS----SWIKDVKLVVADEIHLIGSYDRGATLEMILTHM 166 (720)
T ss_pred cCCEEEEEeCCCCCchh--hh-ccCCEEEEcHHHHHHHHhCCc----hhhhcCCEEEEcCcCccCCccchHHHHHHHHhc
Confidence 48999999998875433 22 579999999999988887654 567899999999999999988899999999999
Q ss_pred CCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcce-----EEEEEcch-------hhhHHHHHHHH
Q 011428 91 PRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQ-----QFWISCSE-------RDKLLYILTLL 158 (486)
Q Consensus 91 p~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~-----q~~i~~~~-------~~k~~~l~~ll 158 (486)
+...|++++|||+++ ...+..++ ..+.+. . ...+..+. +.++.... ......++.++
T Consensus 167 ~~~~qiI~lSATl~n-~~~la~wl-~~~~~~-~--------~~rpv~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 235 (720)
T PRK00254 167 LGRAQILGLSATVGN-AEELAEWL-NAELVV-S--------DWRPVKLRKGVFYQGFLFWEDGKIERFPNSWESLVYDAV 235 (720)
T ss_pred CcCCcEEEEEccCCC-HHHHHHHh-CCcccc-C--------CCCCCcceeeEecCCeeeccCcchhcchHHHHHHHHHHH
Confidence 989999999999986 35555543 222111 0 00111111 11111111 11123344444
Q ss_pred HhhccCCeEEEEecCHHHHHHHHHHHHH---------------------------------cCCceeecCCCCCHHHHHH
Q 011428 159 KLELVQKKALIFTNTIDMAFRLKLFLEK---------------------------------FGIKSAILNAELPQNSRLH 205 (486)
Q Consensus 159 k~~~~~~k~IIFvns~~~~~~l~~~L~~---------------------------------~gi~~~~lhs~l~~~~R~~ 205 (486)
+ ..+++||||||+..|..++..|.. ....+.++||+|++.+|..
T Consensus 236 ~---~~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHagl~~~eR~~ 312 (720)
T PRK00254 236 K---KGKGALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHAGLGRTERVL 312 (720)
T ss_pred H---hCCCEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCCCCCHHHHHH
Confidence 3 257899999999999887766632 1235889999999999999
Q ss_pred HHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEE-------eCCCC-C
Q 011428 206 ILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN-------FEMPQ-N 277 (486)
Q Consensus 206 i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~-------~d~P~-s 277 (486)
+++.|+.|.++|||||+. +++|||+|.+++||. ++.|. +
T Consensus 313 ve~~F~~G~i~VLvaT~t---------------------------------La~Gvnipa~~vVI~~~~~~~~~~~~~~~ 359 (720)
T PRK00254 313 IEDAFREGLIKVITATPT---------------------------------LSAGINLPAFRVIIRDTKRYSNFGWEDIP 359 (720)
T ss_pred HHHHHHCCCCeEEEeCcH---------------------------------HhhhcCCCceEEEECCceEcCCCCceeCC
Confidence 999999999999999998 468999999999994 66654 5
Q ss_pred hhhHHHhhhhcccCC--CCceEEEEeCcch
Q 011428 278 AAGYVHRIGRTGRAY--NTGASVSLVSPDE 305 (486)
Q Consensus 278 ~~~yihRiGRtgR~g--~~G~ai~fv~~~e 305 (486)
..+|+||+|||||.| ..|.+++|+...+
T Consensus 360 ~~~~~Qm~GRAGR~~~d~~G~~ii~~~~~~ 389 (720)
T PRK00254 360 VLEIQQMMGRAGRPKYDEVGEAIIVATTEE 389 (720)
T ss_pred HHHHHHhhhccCCCCcCCCceEEEEecCcc
Confidence 679999999999975 6799999987654
No 54
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.96 E-value=2.7e-27 Score=261.08 Aligned_cols=241 Identities=21% Similarity=0.232 Sum_probs=172.3
Q ss_pred HHHhhcCCCeeEEEEeCCCCHHHHHH---HHc-CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCc
Q 011428 4 IELCKGQVQLKVVQLTSSMPASDLRA---ALA-GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGY 79 (486)
Q Consensus 4 ~~~~~~~~~i~v~~l~g~~~~~~q~~---~l~-~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~ 79 (486)
..++.. +++++..++|+.+...... .+. +.++||||||+.+.+ ...+.++++|||||+|.+ |
T Consensus 331 ~~l~~~-~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~---------~v~~~~l~lvVIDE~Hrf---g- 396 (681)
T PRK10917 331 KKLLEP-LGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQD---------DVEFHNLGLVIIDEQHRF---G- 396 (681)
T ss_pred HHHHhh-cCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcc---------cchhcccceEEEechhhh---h-
Confidence 344433 5799999999998754433 333 469999999987632 145788999999999985 2
Q ss_pred HHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHH
Q 011428 80 EDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLK 159 (486)
Q Consensus 80 ~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk 159 (486)
......+...+...|+++||||+.+....+......++..+. + .......+.++++..... ..++..+.
T Consensus 397 -~~qr~~l~~~~~~~~iL~~SATp~prtl~~~~~g~~~~s~i~--~-----~p~~r~~i~~~~~~~~~~---~~~~~~i~ 465 (681)
T PRK10917 397 -VEQRLALREKGENPHVLVMTATPIPRTLAMTAYGDLDVSVID--E-----LPPGRKPITTVVIPDSRR---DEVYERIR 465 (681)
T ss_pred -HHHHHHHHhcCCCCCEEEEeCCCCHHHHHHHHcCCCceEEEe--c-----CCCCCCCcEEEEeCcccH---HHHHHHHH
Confidence 122333444455789999999987765444332222332322 1 111122455555543332 22333333
Q ss_pred hhc-cCCeEEEEecCHH--------HHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccc
Q 011428 160 LEL-VQKKALIFTNTID--------MAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKE 228 (486)
Q Consensus 160 ~~~-~~~k~IIFvns~~--------~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~ 228 (486)
... ...+++|||+.++ .+..++..|... ++++..+||+|++.+|..++++|.+|.++|||||++.
T Consensus 466 ~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vi---- 541 (681)
T PRK10917 466 EEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVI---- 541 (681)
T ss_pred HHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcce----
Confidence 222 3568999999654 455667777655 5789999999999999999999999999999999994
Q ss_pred cccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCC-ChhhHHHhhhhcccCCCCceEEEEeC
Q 011428 229 KDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQ-NAAGYVHRIGRTGRAYNTGASVSLVS 302 (486)
Q Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~-s~~~yihRiGRtgR~g~~G~ai~fv~ 302 (486)
++|||+|++++||++|.|. ....|.||+||+||+|..|.|++++.
T Consensus 542 -----------------------------e~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~ill~~ 587 (681)
T PRK10917 542 -----------------------------EVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQSYCVLLYK 587 (681)
T ss_pred -----------------------------eeCcccCCCcEEEEeCCCCCCHHHHHHHhhcccCCCCceEEEEEEC
Confidence 5899999999999999997 46778889999999999999999995
No 55
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.96 E-value=4e-28 Score=269.04 Aligned_cols=256 Identities=25% Similarity=0.345 Sum_probs=208.4
Q ss_pred CCeeEEEEeCCCCHHHHHHHH---c-C--CCcEEEECcchHHHHHHcCCCCCCcCCCC---cceEEecccccccCCC--c
Q 011428 11 VQLKVVQLTSSMPASDLRAAL---A-G--PPDIVIATPGCMPKCLSTGVLQSKSFSDS---LKILVLDEADLLLSYG--Y 79 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l---~-~--~~dIvV~TP~rl~~~l~~~~~~~~~~l~~---l~~lViDEad~ll~~g--~ 79 (486)
.+|.+..|.++.....+...+ . + ..+|+..||+++...-.-.. ....+.. +.++||||||++..|| |
T Consensus 327 ~~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~~~~~l~~--~~~~L~~~~~lal~vIDEAHCVSqWgHdF 404 (941)
T KOG0351|consen 327 KGIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTPEKVVASEGLLE--SLADLYARGLLALFVIDEAHCVSQWGHDF 404 (941)
T ss_pred cCcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCHHHhhcccchhh--HHHhccCCCeeEEEEecHHHHhhhhcccc
Confidence 379999999999886554333 2 3 58999999998754221110 1123333 8999999999999999 7
Q ss_pred HHHHHHHHH---HCCCCccEEEEeeecChhHH--HHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHH
Q 011428 80 EDDLKALSA---VIPRGCQCLLMSATSSSDVD--KLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYI 154 (486)
Q Consensus 80 ~~~l~~i~~---~lp~~~q~il~SATl~~~v~--~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l 154 (486)
++++..+.. ..| ...+|.+|||.+..+. -+..+-+.+|.++. ......++...+..-...+....+
T Consensus 405 Rp~Yk~l~~l~~~~~-~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~--------~sfnR~NL~yeV~~k~~~~~~~~~ 475 (941)
T KOG0351|consen 405 RPSYKRLGLLRIRFP-GVPFIALTATATERVREDVIRSLGLRNPELFK--------SSFNRPNLKYEVSPKTDKDALLDI 475 (941)
T ss_pred cHHHHHHHHHHhhCC-CCCeEEeehhccHHHHHHHHHHhCCCCcceec--------ccCCCCCceEEEEeccCccchHHH
Confidence 788777644 344 4899999999998884 35666788888665 334556776555554445666666
Q ss_pred HHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCC
Q 011428 155 LTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDE 234 (486)
Q Consensus 155 ~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~ 234 (486)
...++.......+||||.++..|+.+...|...|+.+..||++|+.++|..+...|..++++|+|||
T Consensus 476 ~~~~~~~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivAT------------- 542 (941)
T KOG0351|consen 476 LEESKLRHPDQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDKIRVIVAT------------- 542 (941)
T ss_pred HHHhhhcCCCCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcCCCeEEEEE-------------
Confidence 6677777778899999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHH
Q 011428 235 GGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFE 310 (486)
Q Consensus 235 ~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~ 310 (486)
.+||| |||.|||+.||+|.+|.|.+.|.|-+||+||.|....|++|+...+...+.
T Consensus 543 ------------------VAFGM--GIdK~DVR~ViH~~lPks~E~YYQE~GRAGRDG~~s~C~l~y~~~D~~~l~ 598 (941)
T KOG0351|consen 543 ------------------VAFGM--GIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSSCVLLYGYADISELR 598 (941)
T ss_pred ------------------eeccC--CCCCCceeEEEECCCchhHHHHHHhccccCcCCCcceeEEecchhHHHHHH
Confidence 78999 999999999999999999999999999999999999999999999774443
No 56
>PRK09401 reverse gyrase; Reviewed
Probab=99.96 E-value=3.2e-27 Score=270.46 Aligned_cols=224 Identities=20% Similarity=0.266 Sum_probs=177.1
Q ss_pred CCeeEEEEeCCCCH-----HHHHHHHc-CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC--------
Q 011428 11 VQLKVVQLTSSMPA-----SDLRAALA-GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS-------- 76 (486)
Q Consensus 11 ~~i~v~~l~g~~~~-----~~q~~~l~-~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~-------- 76 (486)
.++.+..++|+.+. ..+...+. +.+||+|+||++|.+++.. +....+++|||||||.|++
T Consensus 150 ~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~~------l~~~~~~~lVvDEaD~~L~~~k~id~~ 223 (1176)
T PRK09401 150 VGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFDE------LPKKKFDFVFVDDVDAVLKSSKNIDKL 223 (1176)
T ss_pred cCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHHh------ccccccCEEEEEChHHhhhcccchhhH
Confidence 46777777766532 22333444 5699999999999998872 4556799999999999996
Q ss_pred ---CCcH-HHHHHHHHHCCC------------------------CccEEEEeeecChh-HHHHHHHhccCCcEEEcCCcC
Q 011428 77 ---YGYE-DDLKALSAVIPR------------------------GCQCLLMSATSSSD-VDKLKKLILHNPYILTLPEVG 127 (486)
Q Consensus 77 ---~g~~-~~l~~i~~~lp~------------------------~~q~il~SATl~~~-v~~l~~~~l~~p~~i~l~~~~ 127 (486)
.||. +++..++..+|. ..|++++|||+++. +.. .+++++..+.+..
T Consensus 224 l~~lGF~~~~i~~i~~~i~~~~~~~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~~~~~~---~l~~~ll~~~v~~-- 298 (1176)
T PRK09401 224 LYLLGFSEEDIEKAMELIRLKRKYEEIYEKIRELEEKIAELKDKKGVLVVSSATGRPRGNRV---KLFRELLGFEVGS-- 298 (1176)
T ss_pred HHhCCCCHHHHHHHHHhcccccccchhhhHHHHHHHhhhhcccCCceEEEEeCCCCccchHH---HHhhccceEEecC--
Confidence 6784 788888888875 68999999999875 322 3345555555543
Q ss_pred CcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEEEecCHHH---HHHHHHHHHHcCCceeecCCCCCHHHHH
Q 011428 128 DVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKALIFTNTIDM---AFRLKLFLEKFGIKSAILNAELPQNSRL 204 (486)
Q Consensus 128 ~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~~~---~~~l~~~L~~~gi~~~~lhs~l~~~~R~ 204 (486)
......++.|.|+.++ ++...+..+++.. ...+||||++... |+.++.+|+..|+++..+||+| .
T Consensus 299 ---~~~~~rnI~~~yi~~~--~k~~~L~~ll~~l--~~~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~ 366 (1176)
T PRK09401 299 ---PVFYLRNIVDSYIVDE--DSVEKLVELVKRL--GDGGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----E 366 (1176)
T ss_pred ---cccccCCceEEEEEcc--cHHHHHHHHHHhc--CCCEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----H
Confidence 3345568999998876 6777777777532 4679999999777 9999999999999999999999 2
Q ss_pred HHHHHHhcCCCcEEEEc----CCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCC-ccEEEEeCCCC---
Q 011428 205 HILEEFNAGLFDYLIAT----DDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN-VHTVINFEMPQ--- 276 (486)
Q Consensus 205 ~i~~~F~~g~~~iLIaT----d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~-V~~VI~~d~P~--- 276 (486)
..+++|.+|+++||||| |+ ++||||+|+ |++|||||+|.
T Consensus 367 ~~l~~F~~G~~~VLVatas~tdv---------------------------------~aRGIDiP~~IryVI~y~vP~~~~ 413 (1176)
T PRK09401 367 RKFEKFEEGEVDVLVGVASYYGV---------------------------------LVRGIDLPERIRYAIFYGVPKFKF 413 (1176)
T ss_pred HHHHHHHCCCCCEEEEecCCCCc---------------------------------eeecCCCCcceeEEEEeCCCCEEE
Confidence 24599999999999995 66 579999999 89999999998
Q ss_pred ---ChhhHHHhhhhccc
Q 011428 277 ---NAAGYVHRIGRTGR 290 (486)
Q Consensus 277 ---s~~~yihRiGRtgR 290 (486)
..+.|.||+||+..
T Consensus 414 ~~~~~~~~~~~~~r~~~ 430 (1176)
T PRK09401 414 SLEEELAPPFLLLRLLS 430 (1176)
T ss_pred eccccccCHHHHHHHHh
Confidence 67899999999974
No 57
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.95 E-value=4.6e-28 Score=248.74 Aligned_cols=226 Identities=18% Similarity=0.151 Sum_probs=160.1
Q ss_pred CCcEEEECcchHHHHHHcCCCCCCcCC--CCcceEEecccccccCCCcHHHHHHHHHHCC-CCccEEEEeeecChhHHHH
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQSKSFS--DSLKILVLDEADLLLSYGYEDDLKALSAVIP-RGCQCLLMSATSSSDVDKL 110 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~~~~l--~~l~~lViDEad~ll~~g~~~~l~~i~~~lp-~~~q~il~SATl~~~v~~l 110 (486)
.++|+|+||++++..+..+.......+ -..++|||||||.++++++.. +..++..++ .+.|+++||||+|+.+..+
T Consensus 94 ~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~-l~~~l~~l~~~~~~~i~~SATlp~~l~~~ 172 (358)
T TIGR01587 94 LDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLAL-ILAVLEVLKDNDVPILLMSATLPKFLKEY 172 (358)
T ss_pred hCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHH-HHHHHHHHHHcCCCEEEEecCchHHHHHH
Confidence 478999999999887765210000111 123799999999999876544 566655554 4789999999999777666
Q ss_pred HHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc--hhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcC
Q 011428 111 KKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS--ERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFG 188 (486)
Q Consensus 111 ~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~--~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~g 188 (486)
...+...+....... ........+.+..+. ...+...+..++......+++|||||+++.|+.++..|.+.+
T Consensus 173 ~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~lVf~~t~~~~~~~~~~L~~~~ 246 (358)
T TIGR01587 173 AEKIGYVEFNEPLDL------KEERRFERHRFIKIESDKVGEISSLERLLEFIKKGGKIAIIVNTVDRAQEFYQQLKENA 246 (358)
T ss_pred HhcCCCcccccCCCC------ccccccccccceeeccccccCHHHHHHHHHHhhCCCeEEEEECCHHHHHHHHHHHHhhc
Confidence 555433221111100 000001123332222 234566666666554457899999999999999999998877
Q ss_pred C--ceeecCCCCCHHHHHH----HHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCc
Q 011428 189 I--KSAILNAELPQNSRLH----ILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGID 262 (486)
Q Consensus 189 i--~~~~lhs~l~~~~R~~----i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID 262 (486)
. .+..+||+|++.+|.. +++.|.+|...||||||++ ++|||
T Consensus 247 ~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~~~---------------------------------~~GiD 293 (358)
T TIGR01587 247 PEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVI---------------------------------EASLD 293 (358)
T ss_pred CCCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECcch---------------------------------hceec
Confidence 6 4899999999999976 4899999999999999984 58999
Q ss_pred cCCccEEEEeCCCCChhhHHHhhhhcccCCCCc----eEEEEeC
Q 011428 263 FKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTG----ASVSLVS 302 (486)
Q Consensus 263 ~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G----~ai~fv~ 302 (486)
++ ++.||+++.| +++|+||+||+||.|+.+ ..++|..
T Consensus 294 i~-~~~vi~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~ 334 (358)
T TIGR01587 294 IS-ADVMITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIITI 334 (358)
T ss_pred cC-CCEEEEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEee
Confidence 95 8899999877 789999999999988643 4555543
No 58
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.95 E-value=8.1e-27 Score=255.53 Aligned_cols=241 Identities=20% Similarity=0.227 Sum_probs=169.8
Q ss_pred HHHhhcCCCeeEEEEeCCCCHHHHH---HHH-cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCc
Q 011428 4 IELCKGQVQLKVVQLTSSMPASDLR---AAL-AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGY 79 (486)
Q Consensus 4 ~~~~~~~~~i~v~~l~g~~~~~~q~---~~l-~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~ 79 (486)
..+++. +++++..++|+++..... ..+ .+.++||||||+.+.+ . ..+.++++|||||+|.+ |+
T Consensus 305 ~~l~~~-~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~----~-----~~~~~l~lvVIDEaH~f---g~ 371 (630)
T TIGR00643 305 RNLLAP-LGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQE----K-----VEFKRLALVIIDEQHRF---GV 371 (630)
T ss_pred HHHhcc-cCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhc----c-----ccccccceEEEechhhc---cH
Confidence 344442 479999999999876533 333 3569999999987642 1 45688999999999984 32
Q ss_pred HHHHHHHHHHCC--CCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHH
Q 011428 80 EDDLKALSAVIP--RGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTL 157 (486)
Q Consensus 80 ~~~l~~i~~~lp--~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~l 157 (486)
.....+....+ ...|+++||||+.+....+.....-+...+. . .......+..+++... .+ ..++..
T Consensus 372 -~qr~~l~~~~~~~~~~~~l~~SATp~prtl~l~~~~~l~~~~i~--~-----~p~~r~~i~~~~~~~~--~~-~~~~~~ 440 (630)
T TIGR00643 372 -EQRKKLREKGQGGFTPHVLVMSATPIPRTLALTVYGDLDTSIID--E-----LPPGRKPITTVLIKHD--EK-DIVYEF 440 (630)
T ss_pred -HHHHHHHHhcccCCCCCEEEEeCCCCcHHHHHHhcCCcceeeec--c-----CCCCCCceEEEEeCcc--hH-HHHHHH
Confidence 12223333333 2689999999987654333221111111111 1 0111223444444332 22 334444
Q ss_pred HHhhc-cCCeEEEEecCH--------HHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCc
Q 011428 158 LKLEL-VQKKALIFTNTI--------DMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQT 226 (486)
Q Consensus 158 lk~~~-~~~k~IIFvns~--------~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~ 226 (486)
+.... ...+++|||+.+ ..+..++..|... ++.+..+||+|++.+|..++++|++|.++|||||++.
T Consensus 441 i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vi-- 518 (630)
T TIGR00643 441 IEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVI-- 518 (630)
T ss_pred HHHHHHhCCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcee--
Confidence 44333 356899999976 4566777777653 6789999999999999999999999999999999984
Q ss_pred cccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCC-ChhhHHHhhhhcccCCCCceEEEEe
Q 011428 227 KEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQ-NAAGYVHRIGRTGRAYNTGASVSLV 301 (486)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~-s~~~yihRiGRtgR~g~~G~ai~fv 301 (486)
.+|||+|++++||++|.|. +...|.||+||+||+|..|.|++++
T Consensus 519 -------------------------------e~GvDiP~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~il~~ 563 (630)
T TIGR00643 519 -------------------------------EVGVDVPNATVMVIEDAERFGLSQLHQLRGRVGRGDHQSYCLLVY 563 (630)
T ss_pred -------------------------------ecCcccCCCcEEEEeCCCcCCHHHHHHHhhhcccCCCCcEEEEEE
Confidence 5899999999999999997 5778888999999999999999998
No 59
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.95 E-value=8.7e-27 Score=263.97 Aligned_cols=222 Identities=19% Similarity=0.237 Sum_probs=170.1
Q ss_pred cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccc-cccCCCcHH-HHHHHHHHCCCCccEEEEeeecChhHHH
Q 011428 32 AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEAD-LLLSYGYED-DLKALSAVIPRGCQCLLMSATSSSDVDK 109 (486)
Q Consensus 32 ~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad-~ll~~g~~~-~l~~i~~~lp~~~q~il~SATl~~~v~~ 109 (486)
...++|+|+|||+|++++..+ ..++++++||||||| .+++.+|.. .+..++... +..|+|+||||++. +.
T Consensus 161 s~~t~I~v~TpG~LL~~l~~d-----~~Ls~~~~IIIDEAHERsLn~DfLLg~Lk~lL~~r-pdlKvILmSATid~--e~ 232 (1294)
T PRK11131 161 SDNTMVKLMTDGILLAEIQQD-----RLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRR-PDLKVIITSATIDP--ER 232 (1294)
T ss_pred CCCCCEEEEChHHHHHHHhcC-----CccccCcEEEecCccccccccchHHHHHHHhhhcC-CCceEEEeeCCCCH--HH
Confidence 457999999999999999864 458999999999999 478887764 344444333 36899999999975 46
Q ss_pred HHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchh------hhHHHHHHHHHh--hccCCeEEEEecCHHHHHHHH
Q 011428 110 LKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSER------DKLLYILTLLKL--ELVQKKALIFTNTIDMAFRLK 181 (486)
Q Consensus 110 l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~------~k~~~l~~llk~--~~~~~k~IIFvns~~~~~~l~ 181 (486)
+...|...| ++.+.. .. -.+.++|..+... +.+..+...+.. ....+.+||||++...+..++
T Consensus 233 fs~~F~~ap-vI~V~G-----r~---~pVei~y~p~~~~~~~~~~d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~la 303 (1294)
T PRK11131 233 FSRHFNNAP-IIEVSG-----RT---YPVEVRYRPIVEEADDTERDQLQAIFDAVDELGREGPGDILIFMSGEREIRDTA 303 (1294)
T ss_pred HHHHcCCCC-EEEEcC-----cc---ccceEEEeecccccchhhHHHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHH
Confidence 777666555 455533 11 1356677665432 222223222211 223688999999999999999
Q ss_pred HHHHHcCCc---eeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCccccccccc
Q 011428 182 LFLEKFGIK---SAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVV 258 (486)
Q Consensus 182 ~~L~~~gi~---~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvs 258 (486)
..|...+++ +..|||+|++++|..+++. .|..+||||||+++
T Consensus 304 e~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~--~g~rkIIVATNIAE--------------------------------- 348 (1294)
T PRK11131 304 DALNKLNLRHTEILPLYARLSNSEQNRVFQS--HSGRRIVLATNVAE--------------------------------- 348 (1294)
T ss_pred HHHHhcCCCcceEeecccCCCHHHHHHHhcc--cCCeeEEEeccHHh---------------------------------
Confidence 999988765 6789999999999999886 47789999999964
Q ss_pred ccCccCCccEEEEeC---------------CC---CChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 259 RGIDFKNVHTVINFE---------------MP---QNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 259 rGID~~~V~~VI~~d---------------~P---~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
+|||+|+|++|||++ +| .|..+|.||+|||||. .+|.|+.+++..+.
T Consensus 349 tSITIpgI~yVID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~-~~G~c~rLyte~d~ 413 (1294)
T PRK11131 349 TSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV-SEGICIRLYSEDDF 413 (1294)
T ss_pred hccccCcceEEEECCCccccccccccCcccCCeeecCHhhHhhhccccCCC-CCcEEEEeCCHHHH
Confidence 899999999999986 34 4568999999999999 68999999998764
No 60
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.95 E-value=1e-25 Score=246.57 Aligned_cols=130 Identities=25% Similarity=0.278 Sum_probs=117.0
Q ss_pred EEEcchhhhHHHHHHHHHhh-ccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEE
Q 011428 142 WISCSERDKLLYILTLLKLE-LVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIA 220 (486)
Q Consensus 142 ~i~~~~~~k~~~l~~llk~~-~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIa 220 (486)
.+.++..+|+..+...+... ....++||||+|+..+..|+..|.+.|+++.+|||.+++.++..+...+..| .|+||
T Consensus 405 ~i~~~~~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~g--~VlIA 482 (790)
T PRK09200 405 KVFVTLDEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQKG--AVTVA 482 (790)
T ss_pred eEEcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCCC--eEEEE
Confidence 45567788999888887542 4467899999999999999999999999999999999999988888887776 79999
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCcc---CCcc-----EEEEeCCCCChhhHHHhhhhcccCC
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDF---KNVH-----TVINFEMPQNAAGYVHRIGRTGRAY 292 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~---~~V~-----~VI~~d~P~s~~~yihRiGRtgR~g 292 (486)
||++ +||+|| ++|. +|||||+|.|...|+||+|||||.|
T Consensus 483 TdmA---------------------------------gRG~DI~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~GRtGR~G 529 (790)
T PRK09200 483 TNMA---------------------------------GRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQG 529 (790)
T ss_pred ccch---------------------------------hcCcCCCcccccccccCcEEEeccCCCCHHHHHHhhccccCCC
Confidence 9995 699999 6999 9999999999999999999999999
Q ss_pred CCceEEEEeCcchh
Q 011428 293 NTGASVSLVSPDEM 306 (486)
Q Consensus 293 ~~G~ai~fv~~~e~ 306 (486)
.+|.+++|++..|.
T Consensus 530 ~~G~s~~~is~eD~ 543 (790)
T PRK09200 530 DPGSSQFFISLEDD 543 (790)
T ss_pred CCeeEEEEEcchHH
Confidence 99999999998765
No 61
>PRK14701 reverse gyrase; Provisional
Probab=99.95 E-value=1.7e-26 Score=269.85 Aligned_cols=248 Identities=18% Similarity=0.275 Sum_probs=190.7
Q ss_pred CCeeEEEEeCCCCHHHHHHH---Hc-CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC----------
Q 011428 11 VQLKVVQLTSSMPASDLRAA---LA-GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS---------- 76 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~---l~-~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~---------- 76 (486)
+++++..++|+.+...+... +. +.+||||+||++|.+++... . ..++++|||||||+|+.
T Consensus 151 ~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~l-----~-~~~i~~iVVDEAD~ml~~~knid~~L~ 224 (1638)
T PRK14701 151 LDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFPEM-----K-HLKFDFIFVDDVDAFLKASKNIDRSLQ 224 (1638)
T ss_pred CceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHHH-----h-hCCCCEEEEECceeccccccccchhhh
Confidence 36888999999998776432 33 46999999999998877642 1 26799999999999987
Q ss_pred -CCcHHHHHH----HHH----------------------HCCCCcc-EEEEeeecChhHHHHHHHhccCCcEEEcCCcCC
Q 011428 77 -YGYEDDLKA----LSA----------------------VIPRGCQ-CLLMSATSSSDVDKLKKLILHNPYILTLPEVGD 128 (486)
Q Consensus 77 -~g~~~~l~~----i~~----------------------~lp~~~q-~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~ 128 (486)
.||.+++.. |+. .+|+..| ++++|||+++.-.. . .+++++..+.+..
T Consensus 225 llGF~~e~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ll~~SAT~~~r~~~-~-~l~~~~l~f~v~~--- 299 (1638)
T PRK14701 225 LLGFYEEIIEKAWKIIYLKKQGNIEDAMEKREILNKEIEKIGNKIGCLIVASATGKAKGDR-V-KLYRELLGFEVGS--- 299 (1638)
T ss_pred cCCChHHHHHHHHHhhhcccccccchhhhhhhhhhhhhhhcCCCccEEEEEecCCCchhHH-H-HHhhcCeEEEecC---
Confidence 478777764 322 3455666 57799999974222 2 2346777776654
Q ss_pred cccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEEEecCHHH---HHHHHHHHHHcCCceeecCCCCCHHHHHH
Q 011428 129 VKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKALIFTNTIDM---AFRLKLFLEKFGIKSAILNAELPQNSRLH 205 (486)
Q Consensus 129 ~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~~~---~~~l~~~L~~~gi~~~~lhs~l~~~~R~~ 205 (486)
......++.|+|+.+...++ ..+..+++.. ...+||||++... |+.++.+|...|+++..+||+ |..
T Consensus 300 --~~~~lr~i~~~yi~~~~~~k-~~L~~ll~~~--g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~ 369 (1638)
T PRK14701 300 --GRSALRNIVDVYLNPEKIIK-EHVRELLKKL--GKGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----NKK 369 (1638)
T ss_pred --CCCCCCCcEEEEEECCHHHH-HHHHHHHHhC--CCCeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----HHH
Confidence 44456789999998876656 4566676543 4679999999875 589999999999999999995 899
Q ss_pred HHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCccccccc-ccccCccCC-ccEEEEeCCCC---Chhh
Q 011428 206 ILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFG-VVRGIDFKN-VHTVINFEMPQ---NAAG 280 (486)
Q Consensus 206 i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g-vsrGID~~~-V~~VI~~d~P~---s~~~ 280 (486)
+++.|.+|.++|||||+.- || ++||||+|+ |.+|||||+|. +.+.
T Consensus 370 ~l~~F~~G~~~VLVaT~s~------------------------------~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~ 419 (1638)
T PRK14701 370 GFDLFEEGEIDYLIGVATY------------------------------YGTLVRGLDLPERIRFAVFYGVPKFRFRVDL 419 (1638)
T ss_pred HHHHHHcCCCCEEEEecCC------------------------------CCeeEecCccCCccCEEEEeCCCCCCcchhh
Confidence 9999999999999999621 12 579999999 99999999999 8888
Q ss_pred HHHhh-------------hhcccCCCCceEEEEeCcchhhHH
Q 011428 281 YVHRI-------------GRTGRAYNTGASVSLVSPDEMKIF 309 (486)
Q Consensus 281 yihRi-------------GRtgR~g~~G~ai~fv~~~e~~~~ 309 (486)
|.|.. ||+||.|..+.++..+.+.+...+
T Consensus 420 ~~~~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~ 461 (1638)
T PRK14701 420 EDPTIYRILGLLSEILKIEEELKEGIPIEGVLDVFPEDVEFL 461 (1638)
T ss_pred cccchhhhhcchHHHHHhhhhcccCCcchhHHHhHHHHHHHH
Confidence 87766 999999988777766555554433
No 62
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.94 E-value=2.6e-27 Score=234.19 Aligned_cols=268 Identities=23% Similarity=0.304 Sum_probs=200.3
Q ss_pred hHHHHhhcCCC------eeEEEEeCCCCHHHHHHHHc----C--CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEec
Q 011428 2 ALIELCKGQVQ------LKVVQLTSSMPASDLRAALA----G--PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLD 69 (486)
Q Consensus 2 ~l~~~~~~~~~------i~v~~l~g~~~~~~q~~~l~----~--~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViD 69 (486)
.|+++..+|++ +.+..|.+.++..+..+++. . ...|+.-||+....-.....+......+-|.|+|+|
T Consensus 69 PLiALIkDQiDHL~~LKVp~~SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVD 148 (641)
T KOG0352|consen 69 PLIALIKDQIDHLKRLKVPCESLNSKLSTVERSRIMGDLAKEKPTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVD 148 (641)
T ss_pred HHHHHHHHHHHHHHhcCCchhHhcchhhHHHHHHHHHHHHhcCCceeEEEEchhhhhhhhHHHHHHHHhhhceeeeEEec
Confidence 36666666544 67777888888877766553 2 456899999975432222211122455679999999
Q ss_pred ccccccCCC--cHHHHHHHH---HHCCCCccEEEEeeecChhHHH--HHHHhccCCcEEEcCCcCCcccccccCcceEEE
Q 011428 70 EADLLLSYG--YEDDLKALS---AVIPRGCQCLLMSATSSSDVDK--LKKLILHNPYILTLPEVGDVKDEVIPKNVQQFW 142 (486)
Q Consensus 70 Ead~ll~~g--~~~~l~~i~---~~lp~~~q~il~SATl~~~v~~--l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~ 142 (486)
|||++..|| |++|+..+- +.+| +..++.++||.+..|.+ ...+-|++|+-+.-.+ .-..++-...
T Consensus 149 EAHCVSQWGHDFRPDYL~LG~LRS~~~-~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFkTP-------~FR~NLFYD~ 220 (641)
T KOG0352|consen 149 EAHCVSQWGHDFRPDYLTLGSLRSVCP-GVPWVALTATANAKVQEDIAFQLKLRNPVAIFKTP-------TFRDNLFYDN 220 (641)
T ss_pred hhhhHhhhccccCcchhhhhhHHhhCC-CCceEEeecccChhHHHHHHHHHhhcCcHHhccCc-------chhhhhhHHH
Confidence 999999999 777776653 3444 78999999999999854 5677789998764322 0111111000
Q ss_pred E-EcchhhhHHHHHHHHHhhcc------------CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHH
Q 011428 143 I-SCSERDKLLYILTLLKLELV------------QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEE 209 (486)
Q Consensus 143 i-~~~~~~k~~~l~~llk~~~~------------~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~ 209 (486)
. .-.-.+-+..|.++-...+. .|-.||||.|++.|++++..|...||++..+|++|-..+|..+.+.
T Consensus 221 ~~K~~I~D~~~~LaDF~~~~LG~~~~~~~~~K~~~GCGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~ 300 (641)
T KOG0352|consen 221 HMKSFITDCLTVLADFSSSNLGKHEKASQNKKTFTGCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEK 300 (641)
T ss_pred HHHHHhhhHhHhHHHHHHHhcCChhhhhcCCCCcCcceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHH
Confidence 0 00012223333333322221 3568999999999999999999999999999999999999999999
Q ss_pred HhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcc
Q 011428 210 FNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTG 289 (486)
Q Consensus 210 F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtg 289 (486)
|..|+..||+||. .||| |+|-|+|++||+||+|.++..|.|..||+|
T Consensus 301 WM~~~~PvI~AT~-------------------------------SFGM--GVDKp~VRFViHW~~~qn~AgYYQESGRAG 347 (641)
T KOG0352|consen 301 WMNNEIPVIAATV-------------------------------SFGM--GVDKPDVRFVIHWSPSQNLAGYYQESGRAG 347 (641)
T ss_pred HhcCCCCEEEEEe-------------------------------cccc--ccCCcceeEEEecCchhhhHHHHHhccccc
Confidence 9999999999994 4888 999999999999999999999999999999
Q ss_pred cCCCCceEEEEeCcchhhHHH
Q 011428 290 RAYNTGASVSLVSPDEMKIFE 310 (486)
Q Consensus 290 R~g~~G~ai~fv~~~e~~~~~ 310 (486)
|.|....|-++++.+|...+.
T Consensus 348 RDGk~SyCRLYYsR~D~~~i~ 368 (641)
T KOG0352|consen 348 RDGKRSYCRLYYSRQDKNALN 368 (641)
T ss_pred cCCCccceeeeecccchHHHH
Confidence 999999999999998875544
No 63
>PRK01172 ski2-like helicase; Provisional
Probab=99.94 E-value=5.3e-26 Score=251.70 Aligned_cols=251 Identities=18% Similarity=0.191 Sum_probs=174.4
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHH--
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSA-- 88 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~-- 88 (486)
+++++..++|+.+.... . ...+||+|+||+++..++.... ..+.++++|||||||++.+.++...++.++.
T Consensus 91 ~g~~v~~~~G~~~~~~~--~-~~~~dIiv~Tpek~~~l~~~~~----~~l~~v~lvViDEaH~l~d~~rg~~le~ll~~~ 163 (674)
T PRK01172 91 LGMRVKISIGDYDDPPD--F-IKRYDVVILTSEKADSLIHHDP----YIINDVGLIVADEIHIIGDEDRGPTLETVLSSA 163 (674)
T ss_pred cCCeEEEEeCCCCCChh--h-hccCCEEEECHHHHHHHHhCCh----hHHhhcCEEEEecchhccCCCccHHHHHHHHHH
Confidence 47888888887764322 2 2478999999999988887643 5678999999999999998777766666654
Q ss_pred -HCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceE-------EEEEcchhhhHHHHHHHHHh
Q 011428 89 -VIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQ-------FWISCSERDKLLYILTLLKL 160 (486)
Q Consensus 89 -~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q-------~~i~~~~~~k~~~l~~llk~ 160 (486)
.++...|+++||||+++ ...+..++-. +. +... ..+..+.. .+......... .+..++..
T Consensus 164 ~~~~~~~riI~lSATl~n-~~~la~wl~~-~~-~~~~--------~r~vpl~~~i~~~~~~~~~~~~~~~~-~~~~~i~~ 231 (674)
T PRK01172 164 RYVNPDARILALSATVSN-ANELAQWLNA-SL-IKSN--------FRPVPLKLGILYRKRLILDGYERSQV-DINSLIKE 231 (674)
T ss_pred HhcCcCCcEEEEeCccCC-HHHHHHHhCC-Cc-cCCC--------CCCCCeEEEEEecCeeeecccccccc-cHHHHHHH
Confidence 45568999999999976 3555554322 11 1100 00111111 11111111111 12333332
Q ss_pred -hccCCeEEEEecCHHHHHHHHHHHHHcC-------------------------CceeecCCCCCHHHHHHHHHHHhcCC
Q 011428 161 -ELVQKKALIFTNTIDMAFRLKLFLEKFG-------------------------IKSAILNAELPQNSRLHILEEFNAGL 214 (486)
Q Consensus 161 -~~~~~k~IIFvns~~~~~~l~~~L~~~g-------------------------i~~~~lhs~l~~~~R~~i~~~F~~g~ 214 (486)
....+++||||+++..|..++..|.+.. ..+.++||+|+.++|..+++.|++|.
T Consensus 232 ~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~g~ 311 (674)
T PRK01172 232 TVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRY 311 (674)
T ss_pred HHhCCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHcCC
Confidence 2346799999999999999999886531 24678999999999999999999999
Q ss_pred CcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCC---------CCChhhHHHhh
Q 011428 215 FDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEM---------PQNAAGYVHRI 285 (486)
Q Consensus 215 ~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~---------P~s~~~yihRi 285 (486)
++|||||+. +++|||+|+.. ||+.|. |.+..+|.||+
T Consensus 312 i~VLvaT~~---------------------------------la~Gvnipa~~-VII~~~~~~~~~~~~~~s~~~~~Qm~ 357 (674)
T PRK01172 312 IKVIVATPT---------------------------------LAAGVNLPARL-VIVRDITRYGNGGIRYLSNMEIKQMI 357 (674)
T ss_pred CeEEEecch---------------------------------hhccCCCcceE-EEEcCceEeCCCCceeCCHHHHHHHh
Confidence 999999998 46899999864 554443 56888999999
Q ss_pred hhcccCCC--CceEEEEeCcchhhHHHHHHHHh
Q 011428 286 GRTGRAYN--TGASVSLVSPDEMKIFEEIKSFV 316 (486)
Q Consensus 286 GRtgR~g~--~G~ai~fv~~~e~~~~~~~~~~l 316 (486)
|||||.|. .|.+++|+...+. .+..++++
T Consensus 358 GRAGR~g~d~~g~~~i~~~~~~~--~~~~~~~l 388 (674)
T PRK01172 358 GRAGRPGYDQYGIGYIYAASPAS--YDAAKKYL 388 (674)
T ss_pred hcCCCCCCCCcceEEEEecCccc--HHHHHHHH
Confidence 99999984 6778877654431 23344544
No 64
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.94 E-value=4.9e-25 Score=236.61 Aligned_cols=170 Identities=18% Similarity=0.103 Sum_probs=140.5
Q ss_pred cEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhc-cCCeEEEEecC
Q 011428 95 QCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLEL-VQKKALIFTNT 173 (486)
Q Consensus 95 q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~-~~~k~IIFvns 173 (486)
.+.+||||++...+++...+.-+++.+.... .......+.++.++..+|+..|..+++... ...++||||+|
T Consensus 410 kl~GmTGTa~~~~~El~~~y~l~vv~IPt~k-------p~~r~~~~~~v~~t~~~K~~aL~~~i~~~~~~~~pvLIft~t 482 (656)
T PRK12898 410 RLAGMTGTAREVAGELWSVYGLPVVRIPTNR-------PSQRRHLPDEVFLTAAAKWAAVAARVRELHAQGRPVLVGTRS 482 (656)
T ss_pred HHhcccCcChHHHHHHHHHHCCCeEEeCCCC-------CccceecCCEEEeCHHHHHHHHHHHHHHHHhcCCCEEEEeCc
Confidence 3578899998888888888888776664432 122235566778888899999998887532 25689999999
Q ss_pred HHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccc
Q 011428 174 IDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDS 253 (486)
Q Consensus 174 ~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 (486)
+..++.++..|...|+++.+|||.+++ |...+..|..+...|+||||++
T Consensus 483 ~~~se~L~~~L~~~gi~~~~Lhg~~~~--rE~~ii~~ag~~g~VlVATdmA----------------------------- 531 (656)
T PRK12898 483 VAASERLSALLREAGLPHQVLNAKQDA--EEAAIVARAGQRGRITVATNMA----------------------------- 531 (656)
T ss_pred HHHHHHHHHHHHHCCCCEEEeeCCcHH--HHHHHHHHcCCCCcEEEEccch-----------------------------
Confidence 999999999999999999999998665 4455556666666899999995
Q ss_pred cccccccCccC---Ccc-----EEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 254 EFGVVRGIDFK---NVH-----TVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 254 ~~gvsrGID~~---~V~-----~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
+||+||+ +|. +|||||+|.|...|+||+|||||.|.+|.+++|++..|.
T Consensus 532 ----gRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~s~~~is~eD~ 588 (656)
T PRK12898 532 ----GRGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDPGSYEAILSLEDD 588 (656)
T ss_pred ----hcccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCCeEEEEEechhHH
Confidence 6999999 776 999999999999999999999999999999999998764
No 65
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.94 E-value=2.4e-25 Score=242.70 Aligned_cols=247 Identities=24% Similarity=0.364 Sum_probs=192.9
Q ss_pred CCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC--Cc--HHHHHH
Q 011428 10 QVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY--GY--EDDLKA 85 (486)
Q Consensus 10 ~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~--g~--~~~l~~ 85 (486)
.+|+.+..-+|+++.......+.+.|||||+||+.|.-+|....+ ...+.+++++||||.|.+.+. |. .-.++.
T Consensus 99 ~~G~~v~vRhGDT~~~er~r~~~~PPdILiTTPEsL~lll~~~~~--r~~l~~vr~VIVDEiHel~~sKRG~~Lsl~LeR 176 (814)
T COG1201 99 ELGIEVAVRHGDTPQSEKQKMLKNPPHILITTPESLAILLNSPKF--RELLRDVRYVIVDEIHALAESKRGVQLALSLER 176 (814)
T ss_pred HcCCccceecCCCChHHhhhccCCCCcEEEeChhHHHHHhcCHHH--HHHhcCCcEEEeehhhhhhccccchhhhhhHHH
Confidence 568899999999999999999999999999999999888876542 356899999999999999753 43 245666
Q ss_pred HHHHCCCCccEEEEeeecChhHHHHHHHhccC--CcEEEcCCcCCcccccccCcceEEEEEcch---------hhhHHHH
Q 011428 86 LSAVIPRGCQCLLMSATSSSDVDKLKKLILHN--PYILTLPEVGDVKDEVIPKNVQQFWISCSE---------RDKLLYI 154 (486)
Q Consensus 86 i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~--p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~---------~~k~~~l 154 (486)
+....+ ..|.|++|||..+. +.+++..... +..+.... ........++.... ..-...+
T Consensus 177 L~~l~~-~~qRIGLSATV~~~-~~varfL~g~~~~~~Iv~~~--------~~k~~~i~v~~p~~~~~~~~~~~~~~~~~i 246 (814)
T COG1201 177 LRELAG-DFQRIGLSATVGPP-EEVAKFLVGFGDPCEIVDVS--------AAKKLEIKVISPVEDLIYDEELWAALYERI 246 (814)
T ss_pred HHhhCc-ccEEEeehhccCCH-HHHHHHhcCCCCceEEEEcc--------cCCcceEEEEecCCccccccchhHHHHHHH
Confidence 666677 89999999999854 4444444433 44332211 11122222222221 1233444
Q ss_pred HHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcC-CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCC
Q 011428 155 LTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFG-IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSD 233 (486)
Q Consensus 155 ~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~g-i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~ 233 (486)
+.+++. ...+|||+||+..+++++..|.+.+ ..+.++||.++.+.|..+.+.|++|..+.+|||...|
T Consensus 247 ~~~v~~---~~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLE-------- 315 (814)
T COG1201 247 AELVKK---HRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLE-------- 315 (814)
T ss_pred HHHHhh---cCcEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCCceEEEEccchh--------
Confidence 455543 4589999999999999999999887 8999999999999999999999999999999999876
Q ss_pred CCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhccc-CCCCceEEEEeCcc
Q 011428 234 EGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGR-AYNTGASVSLVSPD 304 (486)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR-~g~~G~ai~fv~~~ 304 (486)
+ |||+.+|+.||+|..|.++...+||+||+|+ .|....++.+....
T Consensus 316 -----------------------L--GIDiG~vdlVIq~~SP~sV~r~lQRiGRsgHr~~~~Skg~ii~~~r 362 (814)
T COG1201 316 -----------------------L--GIDIGDIDLVIQLGSPKSVNRFLQRIGRAGHRLGEVSKGIIIAEDR 362 (814)
T ss_pred -----------------------h--ccccCCceEEEEeCCcHHHHHHhHhccccccccCCcccEEEEecCH
Confidence 3 9999999999999999999999999999995 56667787777764
No 66
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.94 E-value=2.8e-25 Score=254.93 Aligned_cols=205 Identities=20% Similarity=0.336 Sum_probs=156.0
Q ss_pred EEEeCCCCHHHHHH---HHc-CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC-----------CCcH
Q 011428 16 VQLTSSMPASDLRA---ALA-GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS-----------YGYE 80 (486)
Q Consensus 16 ~~l~g~~~~~~q~~---~l~-~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~-----------~g~~ 80 (486)
..++|+.+...+.. .+. +.|+|||+||++|.+++..- .. +++++||||||.|++ .||.
T Consensus 156 ~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~l------~~-~~~~iVvDEaD~~L~~~k~vd~il~llGF~ 228 (1171)
T TIGR01054 156 GAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDEL------GP-KFDFIFVDDVDALLKASKNVDKLLKLLGFS 228 (1171)
T ss_pred eeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHHh------cC-CCCEEEEeChHhhhhccccHHHHHHHcCCC
Confidence 35679988876543 333 46999999999999887641 12 899999999999998 6787
Q ss_pred HH-HHHHH----------------------HHCCCCcc--EEEEeee-cChhHHHHHHHhccCCcEEEcCCcCCcccccc
Q 011428 81 DD-LKALS----------------------AVIPRGCQ--CLLMSAT-SSSDVDKLKKLILHNPYILTLPEVGDVKDEVI 134 (486)
Q Consensus 81 ~~-l~~i~----------------------~~lp~~~q--~il~SAT-l~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~ 134 (486)
++ +..++ +.+|+..| ++++||| +|..+. ..+++++..+.+.. ....
T Consensus 229 ~e~i~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~li~~SAT~~p~~~~---~~l~r~ll~~~v~~-----~~~~ 300 (1171)
T TIGR01054 229 EELIEKAWKLIRLRLKLYRALHAKKRLELLEAIPGKKRGCLIVSSATGRPRGKR---AKLFRELLGFEVGG-----GSDT 300 (1171)
T ss_pred HHHHHHHHHHhhhccccchHHHHHHHHHHHHhhhhccCcEEEEEeCCCCccccH---HHHcccccceEecC-----cccc
Confidence 64 55543 34566666 5678999 565543 23456666565544 3345
Q ss_pred cCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEEEecCH---HHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHh
Q 011428 135 PKNVQQFWISCSERDKLLYILTLLKLELVQKKALIFTNTI---DMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFN 211 (486)
Q Consensus 135 ~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~---~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~ 211 (486)
..++.|+|+.+.. +...+..+++.. ..++||||++. +.|+.|+.+|...|+++..+||+|++ .+++.|+
T Consensus 301 ~r~I~~~~~~~~~--~~~~L~~ll~~l--~~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~~----~~l~~Fr 372 (1171)
T TIGR01054 301 LRNVVDVYVEDED--LKETLLEIVKKL--GTGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKPK----EDYEKFA 372 (1171)
T ss_pred ccceEEEEEeccc--HHHHHHHHHHHc--CCCEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCCH----HHHHHHH
Confidence 5689999887654 234455666532 46799999999 99999999999999999999999974 6899999
Q ss_pred cCCCcEEEEc----CCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCC-ccEEEEeCCCC
Q 011428 212 AGLFDYLIAT----DDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN-VHTVINFEMPQ 276 (486)
Q Consensus 212 ~g~~~iLIaT----d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~-V~~VI~~d~P~ 276 (486)
+|+++||||| |+ ++||||+|+ |++|||||+|.
T Consensus 373 ~G~~~vLVata~~tdv---------------------------------~aRGIDip~~V~~vI~~~~P~ 409 (1171)
T TIGR01054 373 EGEIDVLIGVASYYGT---------------------------------LVRGLDLPERVRYAVFLGVPK 409 (1171)
T ss_pred cCCCCEEEEeccccCc---------------------------------ccccCCCCccccEEEEECCCC
Confidence 9999999996 66 579999999 89999999883
No 67
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.94 E-value=7.8e-25 Score=222.23 Aligned_cols=263 Identities=26% Similarity=0.386 Sum_probs=191.0
Q ss_pred HHHhhcCCCe---eEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC-CCc
Q 011428 4 IELCKGQVQL---KVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS-YGY 79 (486)
Q Consensus 4 ~~~~~~~~~i---~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~-~g~ 79 (486)
..+|.+-+++ .++.|+|.++.+....... ...|+|+||..+.+-|..|. ++++++.++||||||+... +.|
T Consensus 75 ~~~~~~v~~ip~~~i~~ltGev~p~~R~~~w~-~~kVfvaTPQvveNDl~~Gr----id~~dv~~lifDEAHRAvGnyAY 149 (542)
T COG1111 75 AEFCRKVTGIPEDEIAALTGEVRPEEREELWA-KKKVFVATPQVVENDLKAGR----IDLDDVSLLIFDEAHRAVGNYAY 149 (542)
T ss_pred HHHHHHHhCCChhheeeecCCCChHHHHHHHh-hCCEEEeccHHHHhHHhcCc----cChHHceEEEechhhhccCcchH
Confidence 4566665565 5789999998876555443 67899999999998888876 8899999999999999754 556
Q ss_pred HHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHh---ccCCcEEEcCCcCCccc-------------------------
Q 011428 80 EDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLI---LHNPYILTLPEVGDVKD------------------------- 131 (486)
Q Consensus 80 ~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~---l~~p~~i~l~~~~~~~~------------------------- 131 (486)
-......+..- +++.++++|||...+.+.+...+ .-..+.+..++..++..
T Consensus 150 v~Va~~y~~~~-k~~~ilgLTASPGs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~l 228 (542)
T COG1111 150 VFVAKEYLRSA-KNPLILGLTASPGSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDLL 228 (542)
T ss_pred HHHHHHHHHhc-cCceEEEEecCCCCCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCcHHHHHHHHHH
Confidence 66666665544 47889999999877765444322 11222222222111000
Q ss_pred ------------------cccc-----------------Cc-----------------------------c---eEEEE-
Q 011428 132 ------------------EVIP-----------------KN-----------------------------V---QQFWI- 143 (486)
Q Consensus 132 ------------------~~~~-----------------~~-----------------------------l---~q~~i- 143 (486)
...+ .+ + .||..
T Consensus 229 ~~~l~~~Lk~L~~~g~~~~~~~~~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~ 308 (542)
T COG1111 229 RDALKPRLKPLKELGVIESSSPVSKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEK 308 (542)
T ss_pred HHHHHHHHHHHHHcCceeccCcccHhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHH
Confidence 0000 00 0 00000
Q ss_pred ---------------------------------Ec-chhhhHHHHHHHHHhhcc---CCeEEEEecCHHHHHHHHHHHHH
Q 011428 144 ---------------------------------SC-SERDKLLYILTLLKLELV---QKKALIFTNTIDMAFRLKLFLEK 186 (486)
Q Consensus 144 ---------------------------------~~-~~~~k~~~l~~llk~~~~---~~k~IIFvns~~~~~~l~~~L~~ 186 (486)
.+ -+..|+..+..+++..+. ..++|||++.+++++.+..+|..
T Consensus 309 l~e~~~~~~sk~a~~l~~d~~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~ 388 (542)
T COG1111 309 LEEEATKGGSKAAKSLLADPYFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKK 388 (542)
T ss_pred HHHHhcccchHHHHHHhcChhhHHHHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHh
Confidence 00 022344455555554442 24899999999999999999999
Q ss_pred cCCcee-e--------cCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccc
Q 011428 187 FGIKSA-I--------LNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGV 257 (486)
Q Consensus 187 ~gi~~~-~--------lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gv 257 (486)
+|+.+. . ...+|+|.++..++++|++|+|++||||+++|
T Consensus 389 ~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~nVLVaTSVgE-------------------------------- 436 (542)
T COG1111 389 IGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKGEYNVLVATSVGE-------------------------------- 436 (542)
T ss_pred cCCcceeEEeeccccccccccCHHHHHHHHHHHhcCCceEEEEccccc--------------------------------
Confidence 998874 2 23679999999999999999999999999987
Q ss_pred cccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 258 VRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 258 srGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
+|+|+|+|+.||.|++-.|...++||.|||||. +.|.++++++....
T Consensus 437 -EGLDIp~vDlVifYEpvpSeIR~IQR~GRTGR~-r~Grv~vLvt~gtr 483 (542)
T COG1111 437 -EGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRK-RKGRVVVLVTEGTR 483 (542)
T ss_pred -ccCCCCcccEEEEecCCcHHHHHHHhhCccccC-CCCeEEEEEecCch
Confidence 599999999999999999999999999999998 88999999998743
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=99.94 E-value=3.3e-24 Score=232.76 Aligned_cols=129 Identities=25% Similarity=0.272 Sum_probs=115.1
Q ss_pred EEEcchhhhHHHHHHHHHh-hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEE
Q 011428 142 WISCSERDKLLYILTLLKL-ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIA 220 (486)
Q Consensus 142 ~i~~~~~~k~~~l~~llk~-~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIa 220 (486)
.+.++..+|+..+...++. .....++||||+|++.++.+...|.+.|+++.+|||.+.+.+|..+...|+.| .|+||
T Consensus 401 ~i~~~~~~K~~ai~~~i~~~~~~~~pvLIft~s~~~se~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~g--~VlIA 478 (762)
T TIGR03714 401 KIYATLPEKLMATLEDVKEYHETGQPVLLITGSVEMSEIYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQKG--AVTVA 478 (762)
T ss_pred eEEECHHHHHHHHHHHHHHHhhCCCCEEEEECcHHHHHHHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCCC--eEEEE
Confidence 4566778899988887754 34467899999999999999999999999999999999999998887777777 79999
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccC---------CccEEEEeCCCCChhhHHHhhhhcccC
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFK---------NVHTVINFEMPQNAAGYVHRIGRTGRA 291 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~---------~V~~VI~~d~P~s~~~yihRiGRtgR~ 291 (486)
||++ +||+||+ ++.+|++|++|..... +||+|||||.
T Consensus 479 TdmA---------------------------------gRGtDI~l~~~v~~~GGL~vIit~~~ps~rid-~qr~GRtGRq 524 (762)
T TIGR03714 479 TSMA---------------------------------GRGTDIKLGKGVAELGGLAVIGTERMENSRVD-LQLRGRSGRQ 524 (762)
T ss_pred cccc---------------------------------ccccCCCCCccccccCCeEEEEecCCCCcHHH-HHhhhcccCC
Confidence 9995 6999999 9999999999988766 9999999999
Q ss_pred CCCceEEEEeCcchh
Q 011428 292 YNTGASVSLVSPDEM 306 (486)
Q Consensus 292 g~~G~ai~fv~~~e~ 306 (486)
|.+|.+++|++..|.
T Consensus 525 G~~G~s~~~is~eD~ 539 (762)
T TIGR03714 525 GDPGSSQFFVSLEDD 539 (762)
T ss_pred CCceeEEEEEccchh
Confidence 999999999998775
No 69
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.93 E-value=2.5e-24 Score=232.41 Aligned_cols=129 Identities=22% Similarity=0.192 Sum_probs=115.7
Q ss_pred EEcchhhhHHHHHHHH-HhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEc
Q 011428 143 ISCSERDKLLYILTLL-KLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIAT 221 (486)
Q Consensus 143 i~~~~~~k~~~l~~ll-k~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaT 221 (486)
+..+..+|+..+...+ ..+..+.++||||+|+..++.+...|.+.|+++.+||+. +.+|...+..|..+...|+|||
T Consensus 383 i~~t~~~k~~ai~~~i~~~~~~grpvLV~t~si~~se~ls~~L~~~gi~~~~Lna~--q~~rEa~ii~~ag~~g~VtIAT 460 (745)
T TIGR00963 383 VYKTEEEKWKAVVDEIKERHAKGQPVLVGTTSVEKSELLSNLLKERGIPHNVLNAK--NHEREAEIIAQAGRKGAVTIAT 460 (745)
T ss_pred EEcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCC--hHHHHHHHHHhcCCCceEEEEe
Confidence 4455677887776654 334456799999999999999999999999999999999 8899999999999999999999
Q ss_pred CCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCC-------ccEEEEeCCCCChhhHHHhhhhcccCCCC
Q 011428 222 DDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN-------VHTVINFEMPQNAAGYVHRIGRTGRAYNT 294 (486)
Q Consensus 222 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~-------V~~VI~~d~P~s~~~yihRiGRtgR~g~~ 294 (486)
|++ +||+||+. .-+||++++|.|...|.||+|||||.|.+
T Consensus 461 nmA---------------------------------gRGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~ 507 (745)
T TIGR00963 461 NMA---------------------------------GRGTDIKLEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDP 507 (745)
T ss_pred ccc---------------------------------cCCcCCCccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCC
Confidence 995 69999998 55999999999999999999999999999
Q ss_pred ceEEEEeCcchh
Q 011428 295 GASVSLVSPDEM 306 (486)
Q Consensus 295 G~ai~fv~~~e~ 306 (486)
|.+.+|++..|.
T Consensus 508 G~s~~~ls~eD~ 519 (745)
T TIGR00963 508 GSSRFFLSLEDN 519 (745)
T ss_pred cceEEEEeccHH
Confidence 999999998876
No 70
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.93 E-value=6.8e-25 Score=249.50 Aligned_cols=246 Identities=18% Similarity=0.198 Sum_probs=178.6
Q ss_pred HHhhcCCCeeEEEEeCC-CCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccc-cccCCCcHH-
Q 011428 5 ELCKGQVQLKVVQLTSS-MPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEAD-LLLSYGYED- 81 (486)
Q Consensus 5 ~~~~~~~~i~v~~l~g~-~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad-~ll~~g~~~- 81 (486)
...+..++..+....|. +....+ ......|+|+|||+|+..+... ..++++++||||||| ..++.+|.-
T Consensus 129 ~RvA~elg~~lG~~VGY~vR~~~~---~s~~T~I~~~TdGiLLr~l~~d-----~~L~~~~~IIIDEaHERsL~~D~LL~ 200 (1283)
T TIGR01967 129 QRIAEELGTPLGEKVGYKVRFHDQ---VSSNTLVKLMTDGILLAETQQD-----RFLSRYDTIIIDEAHERSLNIDFLLG 200 (1283)
T ss_pred HHHHHHhCCCcceEEeeEEcCCcc---cCCCceeeeccccHHHHHhhhC-----cccccCcEEEEcCcchhhccchhHHH
Confidence 33344345555555552 222222 2457889999999999998764 458999999999999 488877664
Q ss_pred HHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcch------hhhHHHHH
Q 011428 82 DLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSE------RDKLLYIL 155 (486)
Q Consensus 82 ~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~------~~k~~~l~ 155 (486)
.+..++...| ..|+|+||||++. +.+...|...|+ +.+.. .. -.+..+|..+.. .++...+.
T Consensus 201 lLk~il~~rp-dLKlIlmSATld~--~~fa~~F~~apv-I~V~G-----r~---~PVev~Y~~~~~~~~~~~~~~~~~i~ 268 (1283)
T TIGR01967 201 YLKQLLPRRP-DLKIIITSATIDP--ERFSRHFNNAPI-IEVSG-----RT---YPVEVRYRPLVEEQEDDDLDQLEAIL 268 (1283)
T ss_pred HHHHHHhhCC-CCeEEEEeCCcCH--HHHHHHhcCCCE-EEECC-----Cc---ccceeEEecccccccchhhhHHHHHH
Confidence 3677766555 7899999999974 567777665554 54433 11 124445554421 12333333
Q ss_pred HHHHh--hccCCeEEEEecCHHHHHHHHHHHHHcCC---ceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccc
Q 011428 156 TLLKL--ELVQKKALIFTNTIDMAFRLKLFLEKFGI---KSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKD 230 (486)
Q Consensus 156 ~llk~--~~~~~k~IIFvns~~~~~~l~~~L~~~gi---~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~ 230 (486)
..+.. ....|.+|||+++...+..++..|+..+. .+..|||+|++++|..++..+ +..+||||||+++
T Consensus 269 ~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~--~~rkIVLATNIAE----- 341 (1283)
T TIGR01967 269 DAVDELFAEGPGDILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH--SGRRIVLATNVAE----- 341 (1283)
T ss_pred HHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC--CCceEEEeccHHH-----
Confidence 33321 12368999999999999999999998754 478899999999999986654 2368999999975
Q ss_pred cCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCC------------------CChhhHHHhhhhcccCC
Q 011428 231 QSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMP------------------QNAAGYVHRIGRTGRAY 292 (486)
Q Consensus 231 ~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P------------------~s~~~yihRiGRtgR~g 292 (486)
+|||+|+|.+||+++++ .|..+|+||+|||||.|
T Consensus 342 ----------------------------tSLTIpgV~yVIDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~ 393 (1283)
T TIGR01967 342 ----------------------------TSLTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA 393 (1283)
T ss_pred ----------------------------hccccCCeeEEEeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC
Confidence 79999999999999853 35689999999999998
Q ss_pred CCceEEEEeCcchh
Q 011428 293 NTGASVSLVSPDEM 306 (486)
Q Consensus 293 ~~G~ai~fv~~~e~ 306 (486)
+|.|+.+++..+.
T Consensus 394 -~G~cyRLyte~~~ 406 (1283)
T TIGR01967 394 -PGICIRLYSEEDF 406 (1283)
T ss_pred -CceEEEecCHHHH
Confidence 8999999997765
No 71
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.93 E-value=1.4e-24 Score=232.23 Aligned_cols=224 Identities=15% Similarity=0.137 Sum_probs=156.6
Q ss_pred CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHHHH
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKL 113 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~ 113 (486)
.++|+|+||+++..... ..++++++||+||||++.+. .+..++..+++..|+++||||+++........
T Consensus 201 ~~~I~VaT~qsl~~~~~-------~~~~~~~~iIvDEaH~~~~~----~~~~il~~~~~~~~~lGLTATp~~~~~~~~~~ 269 (501)
T PHA02558 201 DAPIVVSTWQSAVKQPK-------EWFDQFGMVIVDECHLFTGK----SLTSIITKLDNCKFKFGLTGSLRDGKANILQY 269 (501)
T ss_pred CCCEEEeeHHHHhhchh-------hhccccCEEEEEchhcccch----hHHHHHHhhhccceEEEEeccCCCccccHHHH
Confidence 57999999999875432 34678999999999999864 45677777877789999999997643221111
Q ss_pred -hccCCcEEEcCCcCCcccc-ccc---------------Ccc-----eE-EEEEcchhhhHHHHHHHHHh-hccCCeEEE
Q 011428 114 -ILHNPYILTLPEVGDVKDE-VIP---------------KNV-----QQ-FWISCSERDKLLYILTLLKL-ELVQKKALI 169 (486)
Q Consensus 114 -~l~~p~~i~l~~~~~~~~~-~~~---------------~~l-----~q-~~i~~~~~~k~~~l~~llk~-~~~~~k~II 169 (486)
.+-.|+...+....-.... ... ..+ .+ +...++...+..++..++.. .....++||
T Consensus 270 ~~~fG~i~~~v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Rn~~I~~~~~~~~~~~~~~lV 349 (501)
T PHA02558 270 VGLFGDIFKPVTTSQLMEEGQVTDLKINSIFLRYPDEDRVKLKGEDYQEEIKYITSHTKRNKWIANLALKLAKKGENTFV 349 (501)
T ss_pred HHhhCCceEEecHHHHHhCCCcCCceEEEEeccCCHHHhhhhcccchHHHHHHHhccHHHHHHHHHHHHHHHhcCCCEEE
Confidence 1112322221110000000 000 000 00 00011222333333333322 223568999
Q ss_pred EecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEc-CCCCccccccCCCCCCcccccccCCCC
Q 011428 170 FTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIAT-DDTQTKEKDQSDEGGHVDSRKSKKHPK 248 (486)
Q Consensus 170 Fvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaT-d~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (486)
||+++++|..|+..|...|+++.++||+|+.++|..+++.|+.|...+|||| +.
T Consensus 350 ~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~~~------------------------- 404 (501)
T PHA02558 350 MFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASYGV------------------------- 404 (501)
T ss_pred EEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEcce-------------------------
Confidence 9999999999999999999999999999999999999999999999999999 67
Q ss_pred CcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEe
Q 011428 249 AKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLV 301 (486)
Q Consensus 249 ~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv 301 (486)
+++|+|+|++++||++++|.|...|+||+||++|.+..+....++
T Consensus 405 --------l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR~~R~~~~K~~~~i~ 449 (501)
T PHA02558 405 --------FSTGISIKNLHHVIFAHPSKSKIIVLQSIGRVLRKHGSKSIATVW 449 (501)
T ss_pred --------eccccccccccEEEEecCCcchhhhhhhhhccccCCCCCceEEEE
Confidence 468999999999999999999999999999999988765444443
No 72
>PRK13766 Hef nuclease; Provisional
Probab=99.92 E-value=1.4e-23 Score=236.10 Aligned_cols=123 Identities=30% Similarity=0.450 Sum_probs=108.5
Q ss_pred hhHHHHHHHHHhh---ccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCC--------CCHHHHHHHHHHHhcCCCcE
Q 011428 149 DKLLYILTLLKLE---LVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAE--------LPQNSRLHILEEFNAGLFDY 217 (486)
Q Consensus 149 ~k~~~l~~llk~~---~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~--------l~~~~R~~i~~~F~~g~~~i 217 (486)
.|+..|..+++.. ...+++||||+++++|..|..+|...|+.+..+||. |++.+|..+++.|+.|.+++
T Consensus 347 pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g~~~v 426 (773)
T PRK13766 347 PKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAGEFNV 426 (773)
T ss_pred hHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCCceEEEEccccccccCCCCHHHHHHHHHHHHcCCCCE
Confidence 4566666666543 246799999999999999999999999999999886 99999999999999999999
Q ss_pred EEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceE
Q 011428 218 LIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGAS 297 (486)
Q Consensus 218 LIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~a 297 (486)
||||+++ ++|+|+|++++||+||+|++...|+||+||+||.|. |.+
T Consensus 427 LvaT~~~---------------------------------~eGldi~~~~~VI~yd~~~s~~r~iQR~GR~gR~~~-~~v 472 (773)
T PRK13766 427 LVSTSVA---------------------------------EEGLDIPSVDLVIFYEPVPSEIRSIQRKGRTGRQEE-GRV 472 (773)
T ss_pred EEECChh---------------------------------hcCCCcccCCEEEEeCCCCCHHHHHHHhcccCcCCC-CEE
Confidence 9999984 579999999999999999999999999999999875 888
Q ss_pred EEEeCcch
Q 011428 298 VSLVSPDE 305 (486)
Q Consensus 298 i~fv~~~e 305 (486)
+.++....
T Consensus 473 ~~l~~~~t 480 (773)
T PRK13766 473 VVLIAKGT 480 (773)
T ss_pred EEEEeCCC
Confidence 88887654
No 73
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=99.92 E-value=1.2e-23 Score=215.60 Aligned_cols=214 Identities=19% Similarity=0.196 Sum_probs=144.5
Q ss_pred cCCCcEEEECcchHHHHHHcCCCCC----CcCCCCcceEEecccccccCCCcH-----HHHHHHHHHCCCCccEEEEeee
Q 011428 32 AGPPDIVIATPGCMPKCLSTGVLQS----KSFSDSLKILVLDEADLLLSYGYE-----DDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 32 ~~~~dIvV~TP~rl~~~l~~~~~~~----~~~l~~l~~lViDEad~ll~~g~~-----~~l~~i~~~lp~~~q~il~SAT 102 (486)
...|+||++||+.+..++....... ..++.+++++||||+|.+..++.. ..+..++...+...++++||||
T Consensus 111 ~~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~H~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~lSAT 190 (357)
T TIGR03158 111 TSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEFHLYDAKQLVGMLFLLAYMQLIRFFECRRKFVFLSAT 190 (357)
T ss_pred cCCCCEEEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEecccccCcccchhhhhhhHHHHHHHhhhcCCcEEEEecC
Confidence 3579999999999876655321111 123578999999999998754421 2333444444446899999999
Q ss_pred cChhHHHHHHHh--ccCCcEEEcCCc-----C-----Cccc----ccccCcceEEEEEcchhhhHHHHHHHHHhh-----
Q 011428 103 SSSDVDKLKKLI--LHNPYILTLPEV-----G-----DVKD----EVIPKNVQQFWISCSERDKLLYILTLLKLE----- 161 (486)
Q Consensus 103 l~~~v~~l~~~~--l~~p~~i~l~~~-----~-----~~~~----~~~~~~l~q~~i~~~~~~k~~~l~~llk~~----- 161 (486)
+++.+....... +..|... +... + .... ......+.+.+.. ....+...+..+++.-
T Consensus 191 ~~~~~~~~l~~~~~~~~~~~~-v~g~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~~~~~~l~~l~~~i~~~~~ 268 (357)
T TIGR03158 191 PDPALILRLQNAKQAGVKIAP-IDGEKYQFPDNPELEADNKTQSFRPVLPPVELELIP-APDFKEEELSELAEEVIERFR 268 (357)
T ss_pred CCHHHHHHHHhccccCceeee-ecCcccccCCChhhhccccccccceeccceEEEEEe-CCchhHHHHHHHHHHHHHHHh
Confidence 998876655443 4444332 1111 0 0000 0011256665555 3333433333322211
Q ss_pred -ccCCeEEEEecCHHHHHHHHHHHHHcC--CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCc
Q 011428 162 -LVQKKALIFTNTIDMAFRLKLFLEKFG--IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHV 238 (486)
Q Consensus 162 -~~~~k~IIFvns~~~~~~l~~~L~~~g--i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~ 238 (486)
...+++||||||+..|.+++..|+..+ +.+..+||.+++..|..+ +..+||||||++
T Consensus 269 ~~~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~------~~~~iLVaTdv~-------------- 328 (357)
T TIGR03158 269 QLPGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERA------MQFDILLGTSTV-------------- 328 (357)
T ss_pred ccCCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHh------ccCCEEEEecHH--------------
Confidence 235799999999999999999999865 578889999999998754 478999999994
Q ss_pred ccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcc
Q 011428 239 DSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTG 289 (486)
Q Consensus 239 ~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtg 289 (486)
+||||++++ +|| ++ |.+.++|+||+||||
T Consensus 329 -------------------~rGiDi~~~-~vi-~~-p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 329 -------------------DVGVDFKRD-WLI-FS-ARDAAAFWQRLGRLG 357 (357)
T ss_pred -------------------hcccCCCCc-eEE-EC-CCCHHHHhhhcccCC
Confidence 699999987 666 56 899999999999997
No 74
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.90 E-value=5.2e-22 Score=222.33 Aligned_cols=137 Identities=20% Similarity=0.253 Sum_probs=118.3
Q ss_pred hhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHH-HHcCCceeecCCCCCHHHHHHHHHHHhcC--CCcEEEEcCCCC
Q 011428 149 DKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFL-EKFGIKSAILNAELPQNSRLHILEEFNAG--LFDYLIATDDTQ 225 (486)
Q Consensus 149 ~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L-~~~gi~~~~lhs~l~~~~R~~i~~~F~~g--~~~iLIaTd~~~ 225 (486)
.|...|..+++.. ...|+||||+++..+..|...| ...|+++..+||+|++.+|..+++.|+.+ .+.|||||+++
T Consensus 479 ~Ki~~L~~~L~~~-~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VLIsTdvg- 556 (956)
T PRK04914 479 PRVEWLIDFLKSH-RSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLCSEIG- 556 (956)
T ss_pred HHHHHHHHHHHhc-CCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEEEechhh-
Confidence 3566677777654 3679999999999999999999 57799999999999999999999999984 59999999984
Q ss_pred ccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcch
Q 011428 226 TKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDE 305 (486)
Q Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e 305 (486)
++|+|++.+++|||||+|+++..|+||+||++|.|+.|.+.+++...+
T Consensus 557 --------------------------------seGlNlq~a~~VInfDlP~nP~~~eQRIGR~~RiGQ~~~V~i~~~~~~ 604 (956)
T PRK04914 557 --------------------------------SEGRNFQFASHLVLFDLPFNPDLLEQRIGRLDRIGQKHDIQIHVPYLE 604 (956)
T ss_pred --------------------------------ccCCCcccccEEEEecCCCCHHHHHHHhcccccCCCCceEEEEEccCC
Confidence 689999999999999999999999999999999999998888877666
Q ss_pred hhHHHHHHHHhccc
Q 011428 306 MKIFEEIKSFVGDD 319 (486)
Q Consensus 306 ~~~~~~~~~~l~~~ 319 (486)
...-+.+...+...
T Consensus 605 ~t~~e~i~~~~~~~ 618 (956)
T PRK04914 605 GTAQERLFRWYHEG 618 (956)
T ss_pred CCHHHHHHHHHhhh
Confidence 55555566655543
No 75
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.90 E-value=7.4e-23 Score=209.19 Aligned_cols=246 Identities=22% Similarity=0.304 Sum_probs=188.0
Q ss_pred CCeeEEEEeCCCCHHHHH----HHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC--C--cHHH
Q 011428 11 VQLKVVQLTSSMPASDLR----AALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY--G--YEDD 82 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~----~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~--g--~~~~ 82 (486)
+++.+..-.|-....... ..-....||||+|.+-+-.+|+.| ..+.++..+||||+|.+-+. | ....
T Consensus 288 LglkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRtg-----~~lgdiGtVVIDEiHtL~deERG~RLdGL 362 (830)
T COG1202 288 LGLKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRTG-----KDLGDIGTVVIDEIHTLEDEERGPRLDGL 362 (830)
T ss_pred ccceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHHHcC-----CcccccceEEeeeeeeccchhcccchhhH
Confidence 566665555543332221 111246899999999998888876 57899999999999998763 3 2344
Q ss_pred HHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc-hhhhHHHHHHHHHhh
Q 011428 83 LKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS-ERDKLLYILTLLKLE 161 (486)
Q Consensus 83 l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~-~~~k~~~l~~llk~~ 161 (486)
+..+....| ..|+|.+|||..+. +++++.+-.+++... ..+-.+..+.+.|. +.+|+.++..+.+..
T Consensus 363 I~RLr~l~~-~AQ~i~LSATVgNp-~elA~~l~a~lV~y~----------~RPVplErHlvf~~~e~eK~~ii~~L~k~E 430 (830)
T COG1202 363 IGRLRYLFP-GAQFIYLSATVGNP-EELAKKLGAKLVLYD----------ERPVPLERHLVFARNESEKWDIIARLVKRE 430 (830)
T ss_pred HHHHHHhCC-CCeEEEEEeecCCh-HHHHHHhCCeeEeec----------CCCCChhHeeeeecCchHHHHHHHHHHHHH
Confidence 555544455 89999999998764 556666655555542 12335666666665 889999999888765
Q ss_pred cc-------CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCC
Q 011428 162 LV-------QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDE 234 (486)
Q Consensus 162 ~~-------~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~ 234 (486)
.. +|+||||++|+.+|..|+.+|...|+++..||++||..+|..+..+|.++.+.++|+|..
T Consensus 431 ~~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAA----------- 499 (830)
T COG1202 431 FSTESSKGYRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAA----------- 499 (830)
T ss_pred HhhhhccCcCCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcCCcceEeehhh-----------
Confidence 42 589999999999999999999999999999999999999999999999999999999976
Q ss_pred CCCcccccccCCCCCcccccccccccCccCCccEEEE---eCC-CCChhhHHHhhhhcccCC--CCceEEEEeCcchh
Q 011428 235 GGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN---FEM-PQNAAGYVHRIGRTGRAY--NTGASVSLVSPDEM 306 (486)
Q Consensus 235 ~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~---~d~-P~s~~~yihRiGRtgR~g--~~G~ai~fv~~~e~ 306 (486)
++-|+|||.-.+|+- .+. -.|+..|.|+.||+||.+ ..|.+++++.|...
T Consensus 500 ----------------------L~AGVDFPASQVIFEsLaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg~~ 555 (830)
T COG1202 500 ----------------------LAAGVDFPASQVIFESLAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPGKK 555 (830)
T ss_pred ----------------------hhcCCCCchHHHHHHHHHcccccCCHHHHHHHhcccCCCCcccCceEEEEecCChh
Confidence 456999996554431 222 358999999999999976 57999999988743
No 76
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.87 E-value=1.5e-21 Score=215.27 Aligned_cols=248 Identities=17% Similarity=0.198 Sum_probs=176.8
Q ss_pred CCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHH
Q 011428 10 QVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAV 89 (486)
Q Consensus 10 ~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~ 89 (486)
.+|++|...+|+.+....+ ..+++|||+||+++-.++++.. .....+++|||||+|.+.+..-...++.|...
T Consensus 101 ~~GirV~~~TgD~~~~~~~---l~~~~ViVtT~EK~Dsl~R~~~----~~~~~V~lvViDEiH~l~d~~RG~~lE~iv~r 173 (766)
T COG1204 101 ELGIRVGISTGDYDLDDER---LARYDVIVTTPEKLDSLTRKRP----SWIEEVDLVVIDEIHLLGDRTRGPVLESIVAR 173 (766)
T ss_pred hcCCEEEEecCCcccchhh---hccCCEEEEchHHhhHhhhcCc----chhhcccEEEEeeeeecCCcccCceehhHHHH
Confidence 3589999999998865432 2489999999999988887754 46789999999999999887433344444333
Q ss_pred CC---CCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhh-------HHHHHHHHH
Q 011428 90 IP---RGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDK-------LLYILTLLK 159 (486)
Q Consensus 90 lp---~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k-------~~~l~~llk 159 (486)
.. ..+|++.+|||+|+- ..++.+.-.+++.-..... .........+.++......| ...+...+.
T Consensus 174 ~~~~~~~~rivgLSATlpN~-~evA~wL~a~~~~~~~rp~----~l~~~v~~~~~~~~~~~~~k~~~~~~~~~~~~~v~~ 248 (766)
T COG1204 174 MRRLNELIRIVGLSATLPNA-EEVADWLNAKLVESDWRPV----PLRRGVPYVGAFLGADGKKKTWPLLIDNLALELVLE 248 (766)
T ss_pred HHhhCcceEEEEEeeecCCH-HHHHHHhCCcccccCCCCc----ccccCCccceEEEEecCccccccccchHHHHHHHHH
Confidence 32 248999999999974 5666665555442111110 11112223333333332222 223333333
Q ss_pred hhccCCeEEEEecCHHHHHHHHHHHHHc-------------------------------------CCceeecCCCCCHHH
Q 011428 160 LELVQKKALIFTNTIDMAFRLKLFLEKF-------------------------------------GIKSAILNAELPQNS 202 (486)
Q Consensus 160 ~~~~~~k~IIFvns~~~~~~l~~~L~~~-------------------------------------gi~~~~lhs~l~~~~ 202 (486)
.....+++||||+++..+...+..|... -..+.++|++|+..+
T Consensus 249 ~~~~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~ 328 (766)
T COG1204 249 SLAEGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPRED 328 (766)
T ss_pred HHhcCCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCHHH
Confidence 3344689999999999999999988741 124568999999999
Q ss_pred HHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEE----EeC-----
Q 011428 203 RLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVI----NFE----- 273 (486)
Q Consensus 203 R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI----~~d----- 273 (486)
|..+.+.|+.|.++||+||+. ++.|+|.|.-..|| -||
T Consensus 329 R~~vE~~Fr~g~ikVlv~TpT---------------------------------LA~GVNLPA~~VIIk~~~~y~~~~g~ 375 (766)
T COG1204 329 RQLVEDAFRKGKIKVLVSTPT---------------------------------LAAGVNLPARTVIIKDTRRYDPKGGI 375 (766)
T ss_pred HHHHHHHHhcCCceEEEechH---------------------------------HhhhcCCcceEEEEeeeEEEcCCCCe
Confidence 999999999999999999998 67899999766666 377
Q ss_pred CCCChhhHHHhhhhcccCCC--CceEEEEeC
Q 011428 274 MPQNAAGYVHRIGRTGRAYN--TGASVSLVS 302 (486)
Q Consensus 274 ~P~s~~~yihRiGRtgR~g~--~G~ai~fv~ 302 (486)
.+.+.-+|+|+.|||||.|- .|.++.+..
T Consensus 376 ~~i~~~dv~QM~GRAGRPg~d~~G~~~i~~~ 406 (766)
T COG1204 376 VDIPVLDVLQMAGRAGRPGYDDYGEAIILAT 406 (766)
T ss_pred EECchhhHhhccCcCCCCCcCCCCcEEEEec
Confidence 56789999999999999874 566776663
No 77
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.86 E-value=1.3e-20 Score=201.43 Aligned_cols=265 Identities=23% Similarity=0.353 Sum_probs=174.7
Q ss_pred eEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC-CCcHHHHHHHHHHCCC
Q 011428 14 KVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS-YGYEDDLKALSAVIPR 92 (486)
Q Consensus 14 ~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~-~g~~~~l~~i~~~lp~ 92 (486)
.+....||.....-...+-..++|+|+||..|...|.++... .++.+.++||||||.-.. +.|...+..++..-..
T Consensus 134 ~~T~~l~~~~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~---~ls~fs~iv~DE~Hra~kn~~Y~~Vmr~~l~~k~~ 210 (746)
T KOG0354|consen 134 SVTGQLGDTVPRSNRGEIVASKRVFFRTPQILENDLKSGLHD---ELSDFSLIVFDECHRTSKNHPYNNIMREYLDLKNQ 210 (746)
T ss_pred cceeeccCccCCCchhhhhcccceEEeChHhhhhhccccccc---ccceEEEEEEcccccccccccHHHHHHHHHHhhhc
Confidence 344444553332233345568999999999999999887632 278999999999999865 4577777777776666
Q ss_pred CccEEEEeeecChhHHHHHHHhcc---C----------------------CcEEEcCC----------------------
Q 011428 93 GCQCLLMSATSSSDVDKLKKLILH---N----------------------PYILTLPE---------------------- 125 (486)
Q Consensus 93 ~~q~il~SATl~~~v~~l~~~~l~---~----------------------p~~i~l~~---------------------- 125 (486)
..|++++|||+..+.+........ + |+-+.+..
T Consensus 211 ~~qILgLTASpG~~~~~v~~~I~~L~asldvr~~ssi~~~y~~lr~~~~i~v~~~~~~~~~~~~f~~~i~p~l~~l~~~~ 290 (746)
T KOG0354|consen 211 GNQILGLTASPGSKLEQVQNVIDNLCASLDVRTESSIKSNYEELREHVQIPVDLSLCERDIEDPFGMIIEPLLQQLQEEG 290 (746)
T ss_pred cccEEEEecCCCccHHHHHHHHHhhheecccchhhhhhhhHHHHhccCcccCcHHHhhhhhhhhHHHHHHHHHHHHHhcC
Confidence 679999999987665433222110 0 00000000
Q ss_pred ---cCCcc---c-------ccccCc---------------------ceEEEEE-------c-------------------
Q 011428 126 ---VGDVK---D-------EVIPKN---------------------VQQFWIS-------C------------------- 145 (486)
Q Consensus 126 ---~~~~~---~-------~~~~~~---------------------l~q~~i~-------~------------------- 145 (486)
..... . .....+ +.++.+. +
T Consensus 291 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~gir~~~~l~~~~~f~~e~~~~k~~~~~~e~ 370 (746)
T KOG0354|consen 291 LIEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDGIRFVDALDYLEDFYEEVALKKYLKLELEA 370 (746)
T ss_pred ccccccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhcchhhHHHHhhhhhhccccchhHHHHHHhcc
Confidence 00000 0 000000 0000000 0
Q ss_pred ---------------------chhhhHHHHHHHHHhh---ccCCeEEEEecCHHHHHHHHHHHHH---cCCceeec----
Q 011428 146 ---------------------SERDKLLYILTLLKLE---LVQKKALIFTNTIDMAFRLKLFLEK---FGIKSAIL---- 194 (486)
Q Consensus 146 ---------------------~~~~k~~~l~~llk~~---~~~~k~IIFvns~~~~~~l~~~L~~---~gi~~~~l---- 194 (486)
.+..|+..+..++... ....++||||.++..|+.|..+|.+ .|+++..+
T Consensus 371 ~~~~~~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~~fiGq~ 450 (746)
T KOG0354|consen 371 RLIRNFTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHELGIKAEIFIGQG 450 (746)
T ss_pred hhhHHHHHHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhcccccceeeecc
Confidence 0122333333333222 1235899999999999999999984 35555444
Q ss_pred ----CCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEE
Q 011428 195 ----NAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVI 270 (486)
Q Consensus 195 ----hs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI 270 (486)
..+|++.....+++.|++|.+++||||+++| +|+|++.|+.||
T Consensus 451 ~s~~~~gmtqk~Q~evl~~Fr~G~~NvLVATSV~E---------------------------------EGLDI~ec~lVI 497 (746)
T KOG0354|consen 451 KSTQSTGMTQKEQKEVLDKFRDGEINVLVATSVAE---------------------------------EGLDIGECNLVI 497 (746)
T ss_pred ccccccccCHHHHHHHHHHHhCCCccEEEEecchh---------------------------------ccCCcccccEEE
Confidence 3479999999999999999999999999987 599999999999
Q ss_pred EeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchhhHHHHHHHHh
Q 011428 271 NFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEMKIFEEIKSFV 316 (486)
Q Consensus 271 ~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~~~~~~~~~~l 316 (486)
-||.-.++...+||.|| ||+. .|.++.+++..+...++......
T Consensus 498 cYd~~snpIrmIQrrGR-gRa~-ns~~vll~t~~~~~~~E~~~~~~ 541 (746)
T KOG0354|consen 498 CYDYSSNPIRMVQRRGR-GRAR-NSKCVLLTTGSEVIEFERNNLAK 541 (746)
T ss_pred EecCCccHHHHHHHhcc-cccc-CCeEEEEEcchhHHHHHHHHHhH
Confidence 99999999999999999 9984 58888888866554444443333
No 78
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.86 E-value=1.6e-20 Score=209.74 Aligned_cols=259 Identities=23% Similarity=0.262 Sum_probs=192.2
Q ss_pred HHHHhhcCC-CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHH
Q 011428 3 LIELCKGQV-QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYED 81 (486)
Q Consensus 3 l~~~~~~~~-~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~ 81 (486)
|..+..+.. ++++..++|++.....+.+..+.||||++||.+|..++..........++++++||+||+|..-. .|..
T Consensus 135 l~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYrG-v~GS 213 (851)
T COG1205 135 LRELISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRG-VQGS 213 (851)
T ss_pred HHHHHHhCCCcceeeeecCCCChHHHHHHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceeccc-cchh
Confidence 344444433 58999999999999888889999999999999998866665544556778899999999998532 1333
Q ss_pred HH----HHH---HHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc--------
Q 011428 82 DL----KAL---SAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS-------- 146 (486)
Q Consensus 82 ~l----~~i---~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~-------- 146 (486)
++ +.+ +...+...|+|++|||+...-+....++..+-.. .+.+ ...+.....++..-+
T Consensus 214 ~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~-~v~~------~g~~~~~~~~~~~~p~~~~~~~~ 286 (851)
T COG1205 214 EVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRDFEV-PVDE------DGSPRGLRYFVRREPPIRELAES 286 (851)
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcCCccee-eccC------CCCCCCceEEEEeCCcchhhhhh
Confidence 33 333 3344568999999999988776666665544333 2332 233344444444433
Q ss_pred -hhhhHHHHHHHHHhhc-cCCeEEEEecCHHHHHHHH----HHHHHcC----CceeecCCCCCHHHHHHHHHHHhcCCCc
Q 011428 147 -ERDKLLYILTLLKLEL-VQKKALIFTNTIDMAFRLK----LFLEKFG----IKSAILNAELPQNSRLHILEEFNAGLFD 216 (486)
Q Consensus 147 -~~~k~~~l~~llk~~~-~~~k~IIFvns~~~~~~l~----~~L~~~g----i~~~~lhs~l~~~~R~~i~~~F~~g~~~ 216 (486)
.......+..+..... ..-++|+|+.+...++.+. ..+...+ ..+..++++|+..+|..+...|+.|...
T Consensus 287 ~r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~ 366 (851)
T COG1205 287 IRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELL 366 (851)
T ss_pred cccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhcCCcc
Confidence 1233333333333222 2458999999999999996 4444445 6788999999999999999999999999
Q ss_pred EEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCC-ChhhHHHhhhhcccCCCCc
Q 011428 217 YLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQ-NAAGYVHRIGRTGRAYNTG 295 (486)
Q Consensus 217 iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~-s~~~yihRiGRtgR~g~~G 295 (486)
++|+|...+ + |||+.+++.||++..|. +..+|+||+||+||.++.+
T Consensus 367 ~~~st~Ale-------------------------------l--gidiG~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~ 413 (851)
T COG1205 367 GVIATNALE-------------------------------L--GIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQES 413 (851)
T ss_pred EEecchhhh-------------------------------h--ceeehhhhhHhhcCCCCchHHHHHHhhhhccCCCCCc
Confidence 999999876 3 99999999999999999 8999999999999999766
Q ss_pred eEEEEeC
Q 011428 296 ASVSLVS 302 (486)
Q Consensus 296 ~ai~fv~ 302 (486)
..+.+..
T Consensus 414 l~~~v~~ 420 (851)
T COG1205 414 LVLVVLR 420 (851)
T ss_pred eEEEEeC
Confidence 6666655
No 79
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.86 E-value=7e-20 Score=201.77 Aligned_cols=246 Identities=21% Similarity=0.177 Sum_probs=164.7
Q ss_pred cCCCeeEEEEeCCCCHHHHHH----HHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC-----c
Q 011428 9 GQVQLKVVQLTSSMPASDLRA----ALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG-----Y 79 (486)
Q Consensus 9 ~~~~i~v~~l~g~~~~~~q~~----~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g-----~ 79 (486)
...++++..++|+.+..++.. ...+.++||||||+.+. ..+.++.+|||||+|...-.+ |
T Consensus 212 ~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~-----------~p~~~l~liVvDEeh~~s~~~~~~p~y 280 (679)
T PRK05580 212 ARFGAPVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF-----------LPFKNLGLIIVDEEHDSSYKQQEGPRY 280 (679)
T ss_pred HHhCCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc-----------ccccCCCEEEEECCCccccccCcCCCC
Confidence 334678999999988765432 33467999999998652 346889999999999865322 1
Q ss_pred -HHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhh-------hH
Q 011428 80 -EDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERD-------KL 151 (486)
Q Consensus 80 -~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~-------k~ 151 (486)
..++..+ .....+.|++++|||.+.+....... .....+.+... .....-..-..+...... -.
T Consensus 281 ~~r~va~~-ra~~~~~~~il~SATps~~s~~~~~~--g~~~~~~l~~r-----~~~~~~p~v~~id~~~~~~~~~~~~ls 352 (679)
T PRK05580 281 HARDLAVV-RAKLENIPVVLGSATPSLESLANAQQ--GRYRLLRLTKR-----AGGARLPEVEIIDMRELLRGENGSFLS 352 (679)
T ss_pred cHHHHHHH-HhhccCCCEEEEcCCCCHHHHHHHhc--cceeEEEeccc-----cccCCCCeEEEEechhhhhhcccCCCC
Confidence 1233333 33345899999999987655433321 12223333321 000000111122221100 11
Q ss_pred HHHHHHHHhhccCC-eEEEEecCH--------------------------------------------------------
Q 011428 152 LYILTLLKLELVQK-KALIFTNTI-------------------------------------------------------- 174 (486)
Q Consensus 152 ~~l~~llk~~~~~~-k~IIFvns~-------------------------------------------------------- 174 (486)
..++..++..+..+ ++|||+|.+
T Consensus 353 ~~l~~~i~~~l~~g~qvll~~nrrGy~~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~l 432 (679)
T PRK05580 353 PPLLEAIKQRLERGEQVLLFLNRRGYAPFLLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGSTDL 432 (679)
T ss_pred HHHHHHHHHHHHcCCeEEEEEcCCCCCCceEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCCee
Confidence 33555555555444 899998852
Q ss_pred ----HHHHHHHHHHHHc--CCceeecCCCCCH--HHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCC
Q 011428 175 ----DMAFRLKLFLEKF--GIKSAILNAELPQ--NSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKH 246 (486)
Q Consensus 175 ----~~~~~l~~~L~~~--gi~~~~lhs~l~~--~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~ 246 (486)
..++++...|.+. +.++..+|+++.. .++..++++|.+|+++|||+|++
T Consensus 433 ~~~g~G~e~~~e~l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~----------------------- 489 (679)
T PRK05580 433 VPVGPGTERLEEELAELFPEARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQM----------------------- 489 (679)
T ss_pred EEeeccHHHHHHHHHHhCCCCcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChh-----------------------
Confidence 2466888888876 7889999999974 67999999999999999999999
Q ss_pred CCCcccccccccccCccCCccEEE--EeCCCCCh----------hhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 247 PKAKLDSEFGVVRGIDFKNVHTVI--NFEMPQNA----------AGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 247 ~~~~~~~~~gvsrGID~~~V~~VI--~~d~P~s~----------~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
+++|+|||+|++|+ +.|.+.+. ..|+|++||+||++..|.++......+.
T Consensus 490 ----------iakG~d~p~v~lV~il~aD~~l~~pdfra~Er~~~~l~q~~GRagR~~~~g~viiqT~~p~~ 551 (679)
T PRK05580 490 ----------LAKGHDFPNVTLVGVLDADLGLFSPDFRASERTFQLLTQVAGRAGRAEKPGEVLIQTYHPEH 551 (679)
T ss_pred ----------hccCCCCCCcCEEEEEcCchhccCCccchHHHHHHHHHHHHhhccCCCCCCEEEEEeCCCCC
Confidence 57999999999985 55655443 5799999999999999999977654443
No 80
>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=99.86 E-value=6.6e-20 Score=195.37 Aligned_cols=243 Identities=21% Similarity=0.227 Sum_probs=161.0
Q ss_pred CCeeEEEEeCCCCHHHHH----HHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC-----c-H
Q 011428 11 VQLKVVQLTSSMPASDLR----AALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG-----Y-E 80 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~----~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g-----~-~ 80 (486)
.+.++..++|+.+..+.. ....+.++|||||++.+. ..+.++++|||||+|...-++ | .
T Consensus 49 f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsalf-----------~p~~~l~lIIVDEeh~~sykq~~~p~y~a 117 (505)
T TIGR00595 49 FGSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRSALF-----------LPFKNLGLIIVDEEHDSSYKQEEGPRYHA 117 (505)
T ss_pred hCCcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChHHHc-----------CcccCCCEEEEECCCccccccccCCCCcH
Confidence 456788899988775432 223457899999987552 346789999999999876433 1 2
Q ss_pred HHHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhh----HHHHHH
Q 011428 81 DDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDK----LLYILT 156 (486)
Q Consensus 81 ~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k----~~~l~~ 156 (486)
.++..+.... .+.+++++|||.+.+..... .-.....+.+.+. ..........++....+.+ ...++.
T Consensus 118 r~~a~~ra~~-~~~~vil~SATPsles~~~~--~~g~~~~~~l~~r-----~~~~~~p~v~vid~~~~~~~~~ls~~l~~ 189 (505)
T TIGR00595 118 RDVAVYRAKK-FNCPVVLGSATPSLESYHNA--KQKAYRLLVLTRR-----VSGRKPPEVKLIDMRKEPRQSFLSPELIT 189 (505)
T ss_pred HHHHHHHHHh-cCCCEEEEeCCCCHHHHHHH--hcCCeEEeechhh-----hcCCCCCeEEEEecccccccCCccHHHHH
Confidence 3444444444 48999999999665432222 1112223333221 0001111122222222111 123444
Q ss_pred HHHhhcc-CCeEEEEecCHHH-----------------------------------------------------------
Q 011428 157 LLKLELV-QKKALIFTNTIDM----------------------------------------------------------- 176 (486)
Q Consensus 157 llk~~~~-~~k~IIFvns~~~----------------------------------------------------------- 176 (486)
.++..+. ++++|||+|++--
T Consensus 190 ~i~~~l~~g~qvLvflnrrGya~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~~l~~~g~ 269 (505)
T TIGR00595 190 AIEQTLAAGEQSILFLNRRGYSKNLLCRSCGYILCCPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSEDLVYKGY 269 (505)
T ss_pred HHHHHHHcCCcEEEEEeCCcCCCeeEhhhCcCccCCCCCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCCeeEeecc
Confidence 4444443 4589999876532
Q ss_pred -HHHHHHHHHHc--CCceeecCCCCCHHHH--HHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcc
Q 011428 177 -AFRLKLFLEKF--GIKSAILNAELPQNSR--LHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKL 251 (486)
Q Consensus 177 -~~~l~~~L~~~--gi~~~~lhs~l~~~~R--~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (486)
++++...|.+. +.++..+|++++...+ ..+++.|.+|+++|||+|++
T Consensus 270 Gte~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~---------------------------- 321 (505)
T TIGR00595 270 GTEQVEEELAKLFPGARIARIDSDTTSRKGAHEALLNQFANGKADILIGTQM---------------------------- 321 (505)
T ss_pred cHHHHHHHHHhhCCCCcEEEEecccccCccHHHHHHHHHhcCCCCEEEeCcc----------------------------
Confidence 57888888876 7789999999987766 89999999999999999999
Q ss_pred cccccccccCccCCccEEE--EeCCCCC----------hhhHHHhhhhcccCCCCceEEEEe-Ccch
Q 011428 252 DSEFGVVRGIDFKNVHTVI--NFEMPQN----------AAGYVHRIGRTGRAYNTGASVSLV-SPDE 305 (486)
Q Consensus 252 ~~~~gvsrGID~~~V~~VI--~~d~P~s----------~~~yihRiGRtgR~g~~G~ai~fv-~~~e 305 (486)
+++|+|||+|++|+ |+|...+ ...|+|++||+||++..|.++... .|+.
T Consensus 322 -----i~kG~d~~~v~lV~vl~aD~~l~~pd~ra~E~~~~ll~q~~GRagR~~~~g~viiqt~~p~~ 383 (505)
T TIGR00595 322 -----IAKGHHFPNVTLVGVLDADSGLHSPDFRAAERGFQLLTQVAGRAGRAEDPGQVIIQTYNPNH 383 (505)
T ss_pred -----cccCCCCCcccEEEEEcCcccccCcccchHHHHHHHHHHHHhccCCCCCCCEEEEEeCCCCC
Confidence 47999999999885 6665322 467899999999999999988544 3443
No 81
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=99.85 E-value=4.2e-21 Score=187.82 Aligned_cols=258 Identities=21% Similarity=0.278 Sum_probs=192.1
Q ss_pred CCCeeEEEEeCCCCHHHHHH---HHc---CCCcEEEECcchHHHHHH-cCCCCCCcCCCCcceEEecccccccCCC--cH
Q 011428 10 QVQLKVVQLTSSMPASDLRA---ALA---GPPDIVIATPGCMPKCLS-TGVLQSKSFSDSLKILVLDEADLLLSYG--YE 80 (486)
Q Consensus 10 ~~~i~v~~l~g~~~~~~q~~---~l~---~~~dIvV~TP~rl~~~l~-~~~~~~~~~l~~l~~lViDEad~ll~~g--~~ 80 (486)
++||....|..+++..+-.. .+. ....++..||+++...-. -+.+........+.++.|||+|+...|| |+
T Consensus 156 qlgi~as~lnansske~~k~v~~~i~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~~iaidevhccsqwghdfr 235 (695)
T KOG0353|consen 156 QLGIDASMLNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKLIAIDEVHCCSQWGHDFR 235 (695)
T ss_pred HhCcchhhccCcccHHHHHHHHHHHcCCCceeEEEEecHHHHHHHHHHHHHHHHHhhcceeEEEeecceeehhhhCcccC
Confidence 35666666666655543221 111 357799999998754210 0011122445678899999999999998 66
Q ss_pred HHHHHH--HHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEc--chhhhHHHHHH
Q 011428 81 DDLKAL--SAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISC--SERDKLLYILT 156 (486)
Q Consensus 81 ~~l~~i--~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~--~~~~k~~~l~~ 156 (486)
.++..+ +...-++..++.++||.+..+..-.+..+.-...+... .....+++...+..- ++++-..-+..
T Consensus 236 ~dy~~l~ilkrqf~~~~iigltatatn~vl~d~k~il~ie~~~tf~------a~fnr~nl~yev~qkp~n~dd~~edi~k 309 (695)
T KOG0353|consen 236 PDYKALGILKRQFKGAPIIGLTATATNHVLDDAKDILCIEAAFTFR------AGFNRPNLKYEVRQKPGNEDDCIEDIAK 309 (695)
T ss_pred cchHHHHHHHHhCCCCceeeeehhhhcchhhHHHHHHhHHhhheee------cccCCCCceeEeeeCCCChHHHHHHHHH
Confidence 776554 44444589999999999887744333332211111111 223344555444433 35566677777
Q ss_pred HHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCC
Q 011428 157 LLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGG 236 (486)
Q Consensus 157 llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~ 236 (486)
+++........||||-+...|+.++..|...||.+..+|+.|.+.+|.-+-+.|-.|+++|+|||
T Consensus 310 ~i~~~f~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a~eiqvivat--------------- 374 (695)
T KOG0353|consen 310 LIKGDFAGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVAT--------------- 374 (695)
T ss_pred HhccccCCCcceEEEeccccHHHHHHHHHhcCccccccccccCccccccccccccccceEEEEEE---------------
Confidence 77777766778999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHH---------------------------------
Q 011428 237 HVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVH--------------------------------- 283 (486)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yih--------------------------------- 283 (486)
.+||| |||-|+|++||+..+|.|.+.|.|
T Consensus 375 ----------------vafgm--gidkpdvrfvihhsl~ksienyyqasarillrmtkqknksdtggstqinilevctnf 436 (695)
T KOG0353|consen 375 ----------------VAFGM--GIDKPDVRFVIHHSLPKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNF 436 (695)
T ss_pred ----------------eeecc--cCCCCCeeEEEecccchhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccc
Confidence 56889 999999999999999999999999
Q ss_pred ----------hhhhcccCCCCceEEEEeCcchh
Q 011428 284 ----------RIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 284 ----------RiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
..||+||.+.+..||+++.-.+.
T Consensus 437 kiffavfsekesgragrd~~~a~cilyy~~~di 469 (695)
T KOG0353|consen 437 KIFFAVFSEKESGRAGRDDMKADCILYYGFADI 469 (695)
T ss_pred eeeeeeecchhccccccCCCcccEEEEechHHH
Confidence 77999999999999999987765
No 82
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.85 E-value=2.8e-20 Score=202.24 Aligned_cols=229 Identities=18% Similarity=0.231 Sum_probs=150.6
Q ss_pred CCcEEEECcchHHHHHHcCC----CCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhHHH
Q 011428 34 PPDIVIATPGCMPKCLSTGV----LQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDVDK 109 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~----~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~ 109 (486)
..+|+|+|+..+.....+.. ....+.-..+.+||+||||++.. ..+..++..++ ....+++|||+..+-..
T Consensus 343 ~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA----~~fr~il~~l~-a~~RLGLTATP~ReD~~ 417 (732)
T TIGR00603 343 EAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPA----AMFRRVLTIVQ-AHCKLGLTATLVREDDK 417 (732)
T ss_pred CCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccH----HHHHHHHHhcC-cCcEEEEeecCcccCCc
Confidence 36799999876643221110 00012224688999999999964 34455666664 34579999998643221
Q ss_pred HHH-HhccCCcEEEcCCcCCcccccccCcceEEEEEcc-----------------------hhhhHHHHHHHHHhhc-cC
Q 011428 110 LKK-LILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS-----------------------ERDKLLYILTLLKLEL-VQ 164 (486)
Q Consensus 110 l~~-~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~-----------------------~~~k~~~l~~llk~~~-~~ 164 (486)
... .++-.|.+....-..-...... ....-+-+.|+ ...|+..+..+++.+. ..
T Consensus 418 ~~~L~~LiGP~vye~~~~eLi~~G~L-A~~~~~ev~v~~t~~~~~~yl~~~~~~k~~l~~~np~K~~~~~~Li~~he~~g 496 (732)
T TIGR00603 418 ITDLNFLIGPKLYEANWMELQKKGFI-ANVQCAEVWCPMTPEFYREYLRENSRKRMLLYVMNPNKFRACQFLIRFHEQRG 496 (732)
T ss_pred hhhhhhhcCCeeeecCHHHHHhCCcc-ccceEEEEEecCCHHHHHHHHHhcchhhhHHhhhChHHHHHHHHHHHHHhhcC
Confidence 111 1223454443321000000000 01111111111 2234555555565432 45
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC-CCcEEEEcCCCCccccccCCCCCCcccccc
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG-LFDYLIATDDTQTKEKDQSDEGGHVDSRKS 243 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g-~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~ 243 (486)
.++||||++++.+..++..| + +..+||++++.+|..++++|+.| .+++||+|+++
T Consensus 497 ~kiLVF~~~~~~l~~~a~~L---~--~~~I~G~ts~~ER~~il~~Fr~~~~i~vLv~SkVg------------------- 552 (732)
T TIGR00603 497 DKIIVFSDNVFALKEYAIKL---G--KPFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVG------------------- 552 (732)
T ss_pred CeEEEEeCCHHHHHHHHHHc---C--CceEECCCCHHHHHHHHHHHHhCCCccEEEEeccc-------------------
Confidence 69999999999988888776 3 56789999999999999999875 88999999985
Q ss_pred cCCCCCcccccccccccCccCCccEEEEeCCCC-ChhhHHHhhhhcccCCCCceE-------EEEeCcchh
Q 011428 244 KKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQ-NAAGYVHRIGRTGRAYNTGAS-------VSLVSPDEM 306 (486)
Q Consensus 244 ~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~-s~~~yihRiGRtgR~g~~G~a-------i~fv~~~e~ 306 (486)
.+|||+|++++||+++.|. |...|+||+||++|.+..|.+ ++||++...
T Consensus 553 --------------deGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~ 609 (732)
T TIGR00603 553 --------------DTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQ 609 (732)
T ss_pred --------------ccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCccccccceEEEEecCCch
Confidence 4899999999999999984 999999999999999877765 888988765
No 83
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.83 E-value=3.8e-18 Score=186.94 Aligned_cols=130 Identities=25% Similarity=0.198 Sum_probs=113.2
Q ss_pred EEEcchhhhHHHHHHHHHh-hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEE
Q 011428 142 WISCSERDKLLYILTLLKL-ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIA 220 (486)
Q Consensus 142 ~i~~~~~~k~~~l~~llk~-~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIa 220 (486)
.+..+..+|+..+...+.. +....++||||+|++.++.|+..|.+.|+++.+||+. +.+|...+..|..+...|+||
T Consensus 407 ~i~~t~~~K~~aI~~~I~~~~~~grpVLIft~Si~~se~Ls~~L~~~gi~~~vLnak--q~eREa~Iia~Ag~~g~VtIA 484 (830)
T PRK12904 407 LIYKTEKEKFDAVVEDIKERHKKGQPVLVGTVSIEKSELLSKLLKKAGIPHNVLNAK--NHEREAEIIAQAGRPGAVTIA 484 (830)
T ss_pred eEEECHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCceEeccCc--hHHHHHHHHHhcCCCceEEEe
Confidence 3455677889888887754 3345699999999999999999999999999999995 889999999999999999999
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCc----------------------------------
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNV---------------------------------- 266 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V---------------------------------- 266 (486)
||++ +||+||+--
T Consensus 485 TNmA---------------------------------GRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 531 (830)
T PRK12904 485 TNMA---------------------------------GRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVL 531 (830)
T ss_pred cccc---------------------------------cCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHH
Confidence 9996 599998642
Q ss_pred ----cEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 267 ----HTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 267 ----~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
=+||--..|.|..-=-|-.||+||.|.+|.+-.|++-+|.
T Consensus 532 ~~GGLhVigTerhesrRid~QlrGRagRQGdpGss~f~lSleD~ 575 (830)
T PRK12904 532 EAGGLHVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYLSLEDD 575 (830)
T ss_pred HcCCCEEEecccCchHHHHHHhhcccccCCCCCceeEEEEcCcH
Confidence 2688888899988889999999999999999999998765
No 84
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.81 E-value=1.1e-17 Score=183.68 Aligned_cols=130 Identities=25% Similarity=0.236 Sum_probs=110.9
Q ss_pred EEEcchhhhHHHHHHHHH-hhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEE
Q 011428 142 WISCSERDKLLYILTLLK-LELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIA 220 (486)
Q Consensus 142 ~i~~~~~~k~~~l~~llk-~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIa 220 (486)
.+..+..+|+..+...+. .+..+.++||||+|++.++.|+..|.+.|+++.+||+.+.+.+|..+.+.|+.| .|+||
T Consensus 421 ~v~~t~~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G--~VtIA 498 (896)
T PRK13104 421 LVYLTQADKFQAIIEDVRECGVRKQPVLVGTVSIEASEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRPG--AVTIA 498 (896)
T ss_pred eEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCCC--cEEEe
Confidence 355567788887776654 344567999999999999999999999999999999999999999999999999 49999
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCc----------------------------------
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNV---------------------------------- 266 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V---------------------------------- 266 (486)
||++ +||+||.--
T Consensus 499 TNmA---------------------------------GRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~ 545 (896)
T PRK13104 499 TNMA---------------------------------GRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRHDEVI 545 (896)
T ss_pred ccCc---------------------------------cCCcceecCCchhhhhhccccchhhHHHHHHHHHhhhhhhHHH
Confidence 9996 589888621
Q ss_pred ----cEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 267 ----HTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 267 ----~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
=+||--..+.|..-=-|-.||+||.|.+|.+-.|++-.|.
T Consensus 546 ~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGss~f~lSleD~ 589 (896)
T PRK13104 546 AAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGSSRFYLSLEDN 589 (896)
T ss_pred HcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEEEcCcH
Confidence 2577777788887778889999999999999999998775
No 85
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.81 E-value=2.4e-18 Score=188.88 Aligned_cols=122 Identities=22% Similarity=0.367 Sum_probs=108.6
Q ss_pred hhHHHHHHHHHhhc-cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCcc
Q 011428 149 DKLLYILTLLKLEL-VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTK 227 (486)
Q Consensus 149 ~k~~~l~~llk~~~-~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~ 227 (486)
.++..++..++... ...++||||+|...+.+|+..|...|+++..+||++++.+|..++..|+.|.+.|+|||+.
T Consensus 430 ~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t~~---- 505 (652)
T PRK05298 430 GQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINL---- 505 (652)
T ss_pred ccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCCceEEEEeCH----
Confidence 34555665555433 3568999999999999999999999999999999999999999999999999999999998
Q ss_pred ccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCC-----CCChhhHHHhhhhcccCCCCceEEEEeC
Q 011428 228 EKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEM-----PQNAAGYVHRIGRTGRAYNTGASVSLVS 302 (486)
Q Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~-----P~s~~~yihRiGRtgR~g~~G~ai~fv~ 302 (486)
+++|+|+|++++||++|. |.+..+|+||+|||||. ..|.+++|++
T Consensus 506 -----------------------------L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~-~~G~~i~~~~ 555 (652)
T PRK05298 506 -----------------------------LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-VNGKVILYAD 555 (652)
T ss_pred -----------------------------HhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC-CCCEEEEEec
Confidence 579999999999999885 78999999999999996 7899999999
Q ss_pred cc
Q 011428 303 PD 304 (486)
Q Consensus 303 ~~ 304 (486)
..
T Consensus 556 ~~ 557 (652)
T PRK05298 556 KI 557 (652)
T ss_pred CC
Confidence 54
No 86
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.81 E-value=1e-18 Score=190.86 Aligned_cols=134 Identities=22% Similarity=0.355 Sum_probs=117.4
Q ss_pred hhhHHHHHHHHHhhc-cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCc
Q 011428 148 RDKLLYILTLLKLEL-VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQT 226 (486)
Q Consensus 148 ~~k~~~l~~llk~~~-~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~ 226 (486)
..++..++..++... ...++||||+|+..+.+|+.+|...|+++..+||++++.+|..++..|+.|.++|+|||+.
T Consensus 425 ~~qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t~~--- 501 (655)
T TIGR00631 425 DGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINL--- 501 (655)
T ss_pred cchHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcCCceEEEEcCh---
Confidence 345556666555433 3568999999999999999999999999999999999999999999999999999999998
Q ss_pred cccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeC-----CCCChhhHHHhhhhcccCCCCceEEEEe
Q 011428 227 KEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFE-----MPQNAAGYVHRIGRTGRAYNTGASVSLV 301 (486)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d-----~P~s~~~yihRiGRtgR~g~~G~ai~fv 301 (486)
++||+|+|+|++||++| +|.+..+|+||+|||||. ..|.+++|+
T Consensus 502 ------------------------------L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~-~~G~vi~~~ 550 (655)
T TIGR00631 502 ------------------------------LREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-VNGKVIMYA 550 (655)
T ss_pred ------------------------------hcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCC-CCCEEEEEE
Confidence 46999999999999998 799999999999999998 689999999
Q ss_pred CcchhhHHHHHHHH
Q 011428 302 SPDEMKIFEEIKSF 315 (486)
Q Consensus 302 ~~~e~~~~~~~~~~ 315 (486)
...+......+.+.
T Consensus 551 ~~~~~~~~~ai~~~ 564 (655)
T TIGR00631 551 DKITDSMQKAIEET 564 (655)
T ss_pred cCCCHHHHHHHHHH
Confidence 98877666665554
No 87
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=99.80 E-value=1.4e-18 Score=186.38 Aligned_cols=259 Identities=15% Similarity=0.228 Sum_probs=174.1
Q ss_pred HHHHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHH
Q 011428 3 LIELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDD 82 (486)
Q Consensus 3 l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~ 82 (486)
+-.|+...-++. .++|++.. .....++|+|.+.|..+|.+|. ..+.++.+||+||+|.+-+..-.-.
T Consensus 357 fRDFk~tF~Dvg--LlTGDvqi-------nPeAsCLIMTTEILRsMLYrga----dliRDvE~VIFDEVHYiND~eRGvV 423 (1248)
T KOG0947|consen 357 FRDFKETFGDVG--LLTGDVQI-------NPEASCLIMTTEILRSMLYRGA----DLIRDVEFVIFDEVHYINDVERGVV 423 (1248)
T ss_pred HHHHHHhccccc--eeecceee-------CCCcceEeehHHHHHHHHhccc----chhhccceEEEeeeeeccccccccc
Confidence 334555433333 77887644 3456799999999999999986 6778899999999999988766677
Q ss_pred HHHHHHHCCCCccEEEEeeecChhHHHHHHHhcc--CCcEEEcCCcCCcccccccCcceEEE------------------
Q 011428 83 LKALSAVIPRGCQCLLMSATSSSDVDKLKKLILH--NPYILTLPEVGDVKDEVIPKNVQQFW------------------ 142 (486)
Q Consensus 83 l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~--~p~~i~l~~~~~~~~~~~~~~l~q~~------------------ 142 (486)
.++++-++|+++++|++|||.|+..+ ++.+..+ +..+..+.. ...+-.+.||.
T Consensus 424 WEEViIMlP~HV~~IlLSATVPN~~E-FA~WIGRtK~K~IyViST------~kRPVPLEh~l~t~~~l~kiidq~g~fl~ 496 (1248)
T KOG0947|consen 424 WEEVIIMLPRHVNFILLSATVPNTLE-FADWIGRTKQKTIYVIST------SKRPVPLEHYLYTKKSLFKIIDQNGIFLL 496 (1248)
T ss_pred ceeeeeeccccceEEEEeccCCChHH-HHHHhhhccCceEEEEec------CCCccceEEEEEeccceehhhcccchhhh
Confidence 78889999999999999999998764 4444321 111100000 00000000000
Q ss_pred ---------------------------------------EE-------cchhh----hHHHHHHHHHhhccCCeEEEEec
Q 011428 143 ---------------------------------------IS-------CSERD----KLLYILTLLKLELVQKKALIFTN 172 (486)
Q Consensus 143 ---------------------------------------i~-------~~~~~----k~~~l~~llk~~~~~~k~IIFvn 172 (486)
-. ..... .+..+...|... .--++||||-
T Consensus 497 ~~~~~a~~~~~~~ak~~~~~~~~~~~~rgs~~~ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~k~-~lLP~VvFvF 575 (1248)
T KOG0947|consen 497 KGIKDAKDSLKKEAKFVDVEKSDARGGRGSQKRGGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLRKK-NLLPVVVFVF 575 (1248)
T ss_pred hcchhhhhhhcccccccccccccccccccccccCCcCCCCCCCcccccccccccccchHHHHHHHHhhc-ccCceEEEEE
Confidence 00 00001 133333333221 1348999999
Q ss_pred CHHHHHHHHHHHHHcC---------------------------------------CceeecCCCCCHHHHHHHHHHHhcC
Q 011428 173 TIDMAFRLKLFLEKFG---------------------------------------IKSAILNAELPQNSRLHILEEFNAG 213 (486)
Q Consensus 173 s~~~~~~l~~~L~~~g---------------------------------------i~~~~lhs~l~~~~R~~i~~~F~~g 213 (486)
++.+|.+.+.+|..+. -.++++||++-+--+.-+..-|..|
T Consensus 576 SkkrCde~a~~L~~~nL~~~~EKseV~lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~VE~LFqrG 655 (1248)
T KOG0947|consen 576 SKKRCDEYADYLTNLNLTDSKEKSEVHLFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEVVELLFQRG 655 (1248)
T ss_pred ccccHHHHHHHHhccCcccchhHHHHHHHHHHHHHhcChhhccchHHHHHHHHHhhcchhhcccchHHHHHHHHHHHhcC
Confidence 9999999999997651 2457899999999999999999999
Q ss_pred CCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEE----eCC----CCChhhHHHhh
Q 011428 214 LFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN----FEM----PQNAAGYVHRI 285 (486)
Q Consensus 214 ~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~----~d~----P~s~~~yihRi 285 (486)
.++||+||.. |+| |||.|.-.+|+. +|- -..+..|+|++
T Consensus 656 lVKVLFATET-------------------------------FAM--GVNMPARtvVF~Sl~KhDG~efR~L~PGEytQMA 702 (1248)
T KOG0947|consen 656 LVKVLFATET-------------------------------FAM--GVNMPARTVVFSSLRKHDGNEFRELLPGEYTQMA 702 (1248)
T ss_pred ceEEEeehhh-------------------------------hhh--hcCCCceeEEeeehhhccCcceeecCChhHHhhh
Confidence 9999999955 445 999998777764 221 23688999999
Q ss_pred hhcccCCC--CceEEEEeCcchhhHHHHHHHHh
Q 011428 286 GRTGRAYN--TGASVSLVSPDEMKIFEEIKSFV 316 (486)
Q Consensus 286 GRtgR~g~--~G~ai~fv~~~e~~~~~~~~~~l 316 (486)
|||||.|- .|++|++.... .+....+.+++
T Consensus 703 GRAGRRGlD~tGTVii~~~~~-vp~~a~l~~li 734 (1248)
T KOG0947|consen 703 GRAGRRGLDETGTVIIMCKDS-VPSAATLKRLI 734 (1248)
T ss_pred ccccccccCcCceEEEEecCC-CCCHHHHhhHh
Confidence 99999985 67766665443 33344444443
No 88
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.80 E-value=1.6e-18 Score=187.88 Aligned_cols=253 Identities=16% Similarity=0.281 Sum_probs=179.2
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHH-
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAV- 89 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~- 89 (486)
+||+|..|+|++...... ...++|||+||++ +|.+.+.......+++.+++|||||+|++-+.. .+.++.|+..
T Consensus 191 ~gi~v~ELTGD~ql~~te---i~~tqiiVTTPEK-wDvvTRk~~~d~~l~~~V~LviIDEVHlLhd~R-GpvlEtiVaRt 265 (1230)
T KOG0952|consen 191 LGISVRELTGDTQLTKTE---IADTQIIVTTPEK-WDVVTRKSVGDSALFSLVRLVIIDEVHLLHDDR-GPVLETIVART 265 (1230)
T ss_pred ccceEEEecCcchhhHHH---HHhcCEEEecccc-eeeeeeeeccchhhhhheeeEEeeeehhhcCcc-cchHHHHHHHH
Confidence 489999999998776544 2378999999999 466665554445677899999999999998753 3444444432
Q ss_pred ------CCCCccEEEEeeecChhHHHHHHHhccCCc--EEEcCCcCCcccccccCcceEEEEEcchh---hhHHH----H
Q 011428 90 ------IPRGCQCLLMSATSSSDVDKLKKLILHNPY--ILTLPEVGDVKDEVIPKNVQQFWISCSER---DKLLY----I 154 (486)
Q Consensus 90 ------lp~~~q~il~SATl~~~v~~l~~~~l~~p~--~i~l~~~~~~~~~~~~~~l~q~~i~~~~~---~k~~~----l 154 (486)
......++++|||+|+- +.++...--||. ++..+ ....+-.+.|.++-+... ..... +
T Consensus 266 lr~vessqs~IRivgLSATlPN~-eDvA~fL~vn~~~glfsFd------~~yRPvpL~~~~iG~k~~~~~~~~~~~d~~~ 338 (1230)
T KOG0952|consen 266 LRLVESSQSMIRIVGLSATLPNY-EDVARFLRVNPYAGLFSFD------QRYRPVPLTQGFIGIKGKKNRQQKKNIDEVC 338 (1230)
T ss_pred HHHHHhhhhheEEEEeeccCCCH-HHHHHHhcCCCccceeeec------ccccccceeeeEEeeecccchhhhhhHHHHH
Confidence 23467899999999974 444444433422 22222 234455677777765543 11111 1
Q ss_pred H-HHHHhhccCCeEEEEecCHHHHHHHHHHHHHcC-----------------------CceeecCCCCCHHHHHHHHHHH
Q 011428 155 L-TLLKLELVQKKALIFTNTIDMAFRLKLFLEKFG-----------------------IKSAILNAELPQNSRLHILEEF 210 (486)
Q Consensus 155 ~-~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~g-----------------------i~~~~lhs~l~~~~R~~i~~~F 210 (486)
+ ..++....+.+++|||.++..+.+.+..|.+.+ ....++|++|+-.+|..+...|
T Consensus 339 ~~kv~e~~~~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F 418 (1230)
T KOG0952|consen 339 YDKVVEFLQEGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEF 418 (1230)
T ss_pred HHHHHHHHHcCCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHHHHH
Confidence 1 222223336789999999999999998886541 2346789999999999999999
Q ss_pred hcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEE----eCCCC------Chhh
Q 011428 211 NAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN----FEMPQ------NAAG 280 (486)
Q Consensus 211 ~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~----~d~P~------s~~~ 280 (486)
..|-+.||+||.. ++.|+++|.-..+|- ||.-. +.-+
T Consensus 419 ~~G~i~vL~cTaT---------------------------------LAwGVNLPA~aViIKGT~~ydsskg~f~dlgilD 465 (1230)
T KOG0952|consen 419 KEGHIKVLCCTAT---------------------------------LAWGVNLPAYAVIIKGTQVYDSSKGSFVDLGILD 465 (1230)
T ss_pred hcCCceEEEecce---------------------------------eeeccCCcceEEEecCCcccccccCceeeehHHH
Confidence 9999999999988 578999997655552 44322 4667
Q ss_pred HHHhhhhcccC--CCCceEEEEeCcchhhH
Q 011428 281 YVHRIGRTGRA--YNTGASVSLVSPDEMKI 308 (486)
Q Consensus 281 yihRiGRtgR~--g~~G~ai~fv~~~e~~~ 308 (486)
.+|..|||||- +..|.++.+-+.+....
T Consensus 466 VlQifGRAGRPqFd~~G~giIiTt~dkl~~ 495 (1230)
T KOG0952|consen 466 VLQIFGRAGRPQFDSSGEGIIITTRDKLDH 495 (1230)
T ss_pred HHHHHhccCCCCCCCCceEEEEecccHHHH
Confidence 89999999994 57899998887765543
No 89
>PRK09694 helicase Cas3; Provisional
Probab=99.80 E-value=1.4e-18 Score=193.65 Aligned_cols=218 Identities=20% Similarity=0.245 Sum_probs=140.0
Q ss_pred CcEEEECcchHHHHHHcCCCCCCcCCCC----cceEEecccccccCCCcHHHHHHHHHHCC-CCccEEEEeeecChhHH-
Q 011428 35 PDIVIATPGCMPKCLSTGVLQSKSFSDS----LKILVLDEADLLLSYGYEDDLKALSAVIP-RGCQCLLMSATSSSDVD- 108 (486)
Q Consensus 35 ~dIvV~TP~rl~~~l~~~~~~~~~~l~~----l~~lViDEad~ll~~g~~~~l~~i~~~lp-~~~q~il~SATl~~~v~- 108 (486)
.+|+|||+..++..+-... ...+.. -++|||||+|..-.+ +...+..+++.+. .+..+|+||||+|....
T Consensus 411 api~V~TiDQlL~a~l~~k---h~~lR~~~La~svvIiDEVHAyD~y-m~~lL~~~L~~l~~~g~~vIllSATLP~~~r~ 486 (878)
T PRK09694 411 GQIGVCTIDQVLISVLPVK---HRFIRGFGLGRSVLIVDEVHAYDAY-MYGLLEAVLKAQAQAGGSVILLSATLPATLKQ 486 (878)
T ss_pred CCEEEcCHHHHHHHHHccc---hHHHHHHhhccCeEEEechhhCCHH-HHHHHHHHHHHHHhcCCcEEEEeCCCCHHHHH
Confidence 6899999988775443221 112222 248999999987332 3345566665543 36789999999998874
Q ss_pred HHHHHhccC-Cc-------EEEcCCcCCcccc---ccc--CcceEEEEEc-----ch-hhhHHHHHHHHHhhccCCeEEE
Q 011428 109 KLKKLILHN-PY-------ILTLPEVGDVKDE---VIP--KNVQQFWISC-----SE-RDKLLYILTLLKLELVQKKALI 169 (486)
Q Consensus 109 ~l~~~~l~~-p~-------~i~l~~~~~~~~~---~~~--~~l~q~~i~~-----~~-~~k~~~l~~llk~~~~~~k~II 169 (486)
.+...+-.. +. .+........... ... ..... .+.+ .+ .....++..+++.....+++||
T Consensus 487 ~L~~a~~~~~~~~~~~~YPlvt~~~~~~~~~~~~~~~~~~~~~~~-~v~v~~~~~~~~~~~~~~l~~i~~~~~~g~~vLV 565 (878)
T PRK09694 487 KLLDTYGGHDPVELSSAYPLITWRGVNGAQRFDLSAHPEQLPARF-TIQLEPICLADMLPDLTLLQRMIAAANAGAQVCL 565 (878)
T ss_pred HHHHHhccccccccccccccccccccccceeeeccccccccCcce-EEEEEeeccccccCHHHHHHHHHHHHhcCCEEEE
Confidence 344433211 10 0000000000000 000 00111 1111 11 1122333344433334678999
Q ss_pred EecCHHHHHHHHHHHHHcC---CceeecCCCCCHHHH----HHHHHHH-hcCC---CcEEEEcCCCCccccccCCCCCCc
Q 011428 170 FTNTIDMAFRLKLFLEKFG---IKSAILNAELPQNSR----LHILEEF-NAGL---FDYLIATDDTQTKEKDQSDEGGHV 238 (486)
Q Consensus 170 Fvns~~~~~~l~~~L~~~g---i~~~~lhs~l~~~~R----~~i~~~F-~~g~---~~iLIaTd~~~~~~~~~~~~~~~~ 238 (486)
||||++.|..++..|...+ ..+..+||.++..+| ..+++.| ++|. ..|||||++.|
T Consensus 566 f~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE------------- 632 (878)
T PRK09694 566 ICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVE------------- 632 (878)
T ss_pred EECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchh-------------
Confidence 9999999999999998765 679999999999999 4577888 5565 47999999965
Q ss_pred ccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCC
Q 011428 239 DSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYN 293 (486)
Q Consensus 239 ~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~ 293 (486)
+|||+ +++++|....| .++|+||+||++|.++
T Consensus 633 --------------------~GLDI-d~DvlItdlaP--idsLiQRaGR~~R~~~ 664 (878)
T PRK09694 633 --------------------QSLDL-DFDWLITQLCP--VDLLFQRLGRLHRHHR 664 (878)
T ss_pred --------------------heeec-CCCeEEECCCC--HHHHHHHHhccCCCCC
Confidence 79999 68999998888 7899999999999876
No 90
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.80 E-value=8.8e-18 Score=177.60 Aligned_cols=246 Identities=20% Similarity=0.245 Sum_probs=173.2
Q ss_pred hHHHHhhcCCCeeEEEEeCCCCHHHHHHHH----cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC
Q 011428 2 ALIELCKGQVQLKVVQLTSSMPASDLRAAL----AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY 77 (486)
Q Consensus 2 ~l~~~~~~~~~i~v~~l~g~~~~~~q~~~l----~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~ 77 (486)
++..+++. ++|+|..++|.+........+ .+..||||||- .+++.. ..+.+|.++||||=|+.
T Consensus 330 ~~~~~l~~-~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTH----ALiQd~-----V~F~~LgLVIiDEQHRF--- 396 (677)
T COG1200 330 SLRKWLEP-LGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTH----ALIQDK-----VEFHNLGLVIIDEQHRF--- 396 (677)
T ss_pred HHHHHhhh-cCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcc----hhhhcc-----eeecceeEEEEeccccc---
Confidence 34555553 689999999998876554433 35699999993 444432 77899999999999983
Q ss_pred CcHHHHHHHHHHCCC-CccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHH
Q 011428 78 GYEDDLKALSAVIPR-GCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILT 156 (486)
Q Consensus 78 g~~~~l~~i~~~lp~-~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~ 156 (486)
| -.-+..+..-.. .+.++.||||.=+..-.+. ...+-.+=.+++ .......|..+++.. ++...++.
T Consensus 397 G--V~QR~~L~~KG~~~Ph~LvMTATPIPRTLAlt--~fgDldvS~IdE-----lP~GRkpI~T~~i~~---~~~~~v~e 464 (677)
T COG1200 397 G--VHQRLALREKGEQNPHVLVMTATPIPRTLALT--AFGDLDVSIIDE-----LPPGRKPITTVVIPH---ERRPEVYE 464 (677)
T ss_pred c--HHHHHHHHHhCCCCCcEEEEeCCCchHHHHHH--Hhccccchhhcc-----CCCCCCceEEEEecc---ccHHHHHH
Confidence 3 333333344344 6789999999766543333 333322222222 122334566666654 33444444
Q ss_pred HHHhhcc-CCeEEEEecCHHH--------HHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCC
Q 011428 157 LLKLELV-QKKALIFTNTIDM--------AFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQ 225 (486)
Q Consensus 157 llk~~~~-~~k~IIFvns~~~--------~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~ 225 (486)
.+..... +.++.+.|+-++. +..++..|..+ +.++..+||.|+..++..++++|+.|+++|||||.+.|
T Consensus 465 ~i~~ei~~GrQaY~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIE 544 (677)
T COG1200 465 RIREEIAKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIE 544 (677)
T ss_pred HHHHHHHcCCEEEEEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeEEE
Confidence 4444443 4578888886654 44555666644 45689999999999999999999999999999999987
Q ss_pred ccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCC-ChhhHHHhhhhcccCCCCceEEEEeCcc
Q 011428 226 TKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQ-NAAGYVHRIGRTGRAYNTGASVSLVSPD 304 (486)
Q Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~-s~~~yihRiGRtgR~g~~G~ai~fv~~~ 304 (486)
| |||+||.++.|..|.-. -.++.-|--||.||++..+.|+.++.+.
T Consensus 545 -------------------------------V--GVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~qSyC~Ll~~~~ 591 (677)
T COG1200 545 -------------------------------V--GVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQSYCVLLYKPP 591 (677)
T ss_pred -------------------------------e--cccCCCCeEEEEechhhhhHHHHHHhccccCCCCcceEEEEEeCCC
Confidence 4 99999999999888644 3566677779999999999999999987
Q ss_pred h
Q 011428 305 E 305 (486)
Q Consensus 305 e 305 (486)
.
T Consensus 592 ~ 592 (677)
T COG1200 592 L 592 (677)
T ss_pred C
Confidence 6
No 91
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.78 E-value=1.1e-17 Score=182.53 Aligned_cols=170 Identities=22% Similarity=0.247 Sum_probs=137.2
Q ss_pred cEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHh-hccCCeEEEEecC
Q 011428 95 QCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKL-ELVQKKALIFTNT 173 (486)
Q Consensus 95 q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~-~~~~~k~IIFvns 173 (486)
.+.+||.|...+-.++...|-- .++.++. ..+....-....+..+..+|+..+...+.. +....++||||+|
T Consensus 377 kl~GmTGTa~~e~~Ef~~iY~l--~vv~IPt-----nkp~~r~d~~d~i~~t~~~K~~al~~~i~~~~~~g~pvLI~t~s 449 (796)
T PRK12906 377 KLSGMTGTAKTEEEEFREIYNM--EVITIPT-----NRPVIRKDSPDLLYPTLDSKFNAVVKEIKERHAKGQPVLVGTVA 449 (796)
T ss_pred hhhccCCCCHHHHHHHHHHhCC--CEEEcCC-----CCCeeeeeCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCc
Confidence 5788999998777777665533 3444433 111111111234555677888888887754 3346799999999
Q ss_pred HHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccc
Q 011428 174 IDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDS 253 (486)
Q Consensus 174 ~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 (486)
+..++.|+..|.+.|+++.+||+.+...++..+...+..|. |+|||+++
T Consensus 450 i~~se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnmA----------------------------- 498 (796)
T PRK12906 450 IESSERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNMA----------------------------- 498 (796)
T ss_pred HHHHHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCCce--EEEEeccc-----------------------------
Confidence 99999999999999999999999999888888888888886 99999996
Q ss_pred cccccccCccC---Ccc-----EEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 254 EFGVVRGIDFK---NVH-----TVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 254 ~~gvsrGID~~---~V~-----~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
.||+||+ +|. +||+++.|.|...|.|++|||||.|.+|.+.+|++.+|.
T Consensus 499 ----GRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s~~~~sleD~ 555 (796)
T PRK12906 499 ----GRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYLSLEDD 555 (796)
T ss_pred ----cCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHhhhhccCCCCcceEEEEeccch
Confidence 5999994 899 999999999999999999999999999999999998865
No 92
>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=99.76 E-value=1.2e-17 Score=145.52 Aligned_cols=129 Identities=39% Similarity=0.585 Sum_probs=113.9
Q ss_pred ceEEEEEcchhhhHHHHHHHHHhhc-cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCc
Q 011428 138 VQQFWISCSERDKLLYILTLLKLEL-VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFD 216 (486)
Q Consensus 138 l~q~~i~~~~~~k~~~l~~llk~~~-~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~ 216 (486)
+.+++...+ ..|...+..++.... ..+++||||++.+.++.++..|.+.+..+..+||+++..+|..+++.|+.|...
T Consensus 2 i~~~~~~~~-~~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ 80 (131)
T cd00079 2 IKQYVLPVE-DEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIV 80 (131)
T ss_pred cEEEEEECC-HHHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCCCc
Confidence 345555544 378888888877543 467999999999999999999999999999999999999999999999999999
Q ss_pred EEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCce
Q 011428 217 YLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGA 296 (486)
Q Consensus 217 iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ 296 (486)
+||+|... .+|+|+|++++||.+++|.+...|+|++||++|.|+.|.
T Consensus 81 ili~t~~~---------------------------------~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~ 127 (131)
T cd00079 81 VLVATDVI---------------------------------ARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGT 127 (131)
T ss_pred EEEEcChh---------------------------------hcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCce
Confidence 99999873 579999999999999999999999999999999999888
Q ss_pred EEEE
Q 011428 297 SVSL 300 (486)
Q Consensus 297 ai~f 300 (486)
+++|
T Consensus 128 ~~~~ 131 (131)
T cd00079 128 AILL 131 (131)
T ss_pred EEeC
Confidence 7653
No 93
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.76 E-value=6.7e-17 Score=179.52 Aligned_cols=238 Identities=21% Similarity=0.268 Sum_probs=185.6
Q ss_pred CCeeEEEEeCCCCHHHHHHHHc----CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHH
Q 011428 11 VQLKVVQLTSSMPASDLRAALA----GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKAL 86 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~----~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i 86 (486)
..|+|..++--.+.++|...+. +..|||||| ..+|..+ +.+.+|.+|||||-|+. .-.+.+.++.+
T Consensus 670 fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGT----HrLL~kd-----v~FkdLGLlIIDEEqRF-GVk~KEkLK~L 739 (1139)
T COG1197 670 FPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGT----HRLLSKD-----VKFKDLGLLIIDEEQRF-GVKHKEKLKEL 739 (1139)
T ss_pred CCeeEEEecccCCHHHHHHHHHHHhcCCccEEEec----hHhhCCC-----cEEecCCeEEEechhhc-CccHHHHHHHH
Confidence 5689999998888888887664 689999999 4555543 78899999999999983 22245555555
Q ss_pred HHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCe
Q 011428 87 SAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKK 166 (486)
Q Consensus 87 ~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k 166 (486)
. .++-++-||||.=+..-.+.-..+++--+|..++ ...-.++-|+..- +-..+--+++..-...|+
T Consensus 740 r----~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP-------~~R~pV~T~V~~~---d~~~ireAI~REl~RgGQ 805 (1139)
T COG1197 740 R----ANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPP-------EDRLPVKTFVSEY---DDLLIREAILRELLRGGQ 805 (1139)
T ss_pred h----ccCcEEEeeCCCCcchHHHHHhcchhhhhccCCC-------CCCcceEEEEecC---ChHHHHHHHHHHHhcCCE
Confidence 4 5778999999988888788888888877776544 1122344444333 333333344444455789
Q ss_pred EEEEecCHHHHHHHHHHHHHcC--CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccccc
Q 011428 167 ALIFTNTIDMAFRLKLFLEKFG--IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSK 244 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~g--i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~ 244 (486)
+-..+|.++..+.++..|++.= .++++.||.|+..+-..++..|..|.|+|||||...|
T Consensus 806 vfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIE------------------- 866 (1139)
T COG1197 806 VFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIE------------------- 866 (1139)
T ss_pred EEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeee-------------------
Confidence 9889999999999999999884 4678999999999999999999999999999999976
Q ss_pred CCCCCcccccccccccCccCCccEEEEeCCC-CChhhHHHhhhhcccCCCCceEEEEeCcch
Q 011428 245 KHPKAKLDSEFGVVRGIDFKNVHTVINFEMP-QNAAGYVHRIGRTGRAYNTGASVSLVSPDE 305 (486)
Q Consensus 245 ~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P-~s~~~yihRiGRtgR~g~~G~ai~fv~~~e 305 (486)
-|||+|+++.+|.-+.- .-.++..|--||.||.++.|.|+.++-+..
T Consensus 867 --------------tGIDIPnANTiIIe~AD~fGLsQLyQLRGRVGRS~~~AYAYfl~p~~k 914 (1139)
T COG1197 867 --------------TGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSNKQAYAYFLYPPQK 914 (1139)
T ss_pred --------------cCcCCCCCceEEEeccccccHHHHHHhccccCCccceEEEEEeecCcc
Confidence 49999999999875543 247888899999999999999999988654
No 94
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.74 E-value=1.2e-16 Score=175.82 Aligned_cols=170 Identities=21% Similarity=0.196 Sum_probs=137.0
Q ss_pred cEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhh-ccCCeEEEEecC
Q 011428 95 QCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLE-LVQKKALIFTNT 173 (486)
Q Consensus 95 q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~-~~~~k~IIFvns 173 (486)
.+.+||.|...+-.++...|- -.++.++. ..+....-....+..+..+|+..+...+... ....++||||+|
T Consensus 535 kLaGMTGTA~te~~Ef~~iY~--L~Vv~IPT-----nrP~~R~D~~d~vy~t~~eK~~Ali~~I~~~~~~grpVLIft~S 607 (1025)
T PRK12900 535 KLAGMTGTAETEASEFFEIYK--LDVVVIPT-----NKPIVRKDMDDLVYKTRREKYNAIVLKVEELQKKGQPVLVGTAS 607 (1025)
T ss_pred hhcccCCCChhHHHHHHHHhC--CcEEECCC-----CCCcceecCCCeEecCHHHHHHHHHHHHHHHhhCCCCEEEEeCc
Confidence 467899998887777766553 33444433 1111111122345567788999998887543 346799999999
Q ss_pred HHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccc
Q 011428 174 IDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDS 253 (486)
Q Consensus 174 ~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 (486)
++.++.|...|...|+++.+||+ .+.+|...+..|..+...|+||||++
T Consensus 608 ve~sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g~VtIATNMA----------------------------- 656 (1025)
T PRK12900 608 VEVSETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKGAVTIATNMA----------------------------- 656 (1025)
T ss_pred HHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCCeEEEeccCc-----------------------------
Confidence 99999999999999999999997 68899999999999999999999996
Q ss_pred cccccccCccC---CccE-----EEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 254 EFGVVRGIDFK---NVHT-----VINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 254 ~~gvsrGID~~---~V~~-----VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
+||+||+ +|.. ||+++.|.|...|.||+|||||.|.+|.+++|++..|.
T Consensus 657 ----GRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpGsS~ffvSleD~ 713 (1025)
T PRK12900 657 ----GRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPGESVFYVSLEDE 713 (1025)
T ss_pred ----CCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCcceEEEechhHH
Confidence 5999999 5643 49999999999999999999999999999999998875
No 95
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.73 E-value=1.2e-16 Score=168.24 Aligned_cols=216 Identities=21% Similarity=0.310 Sum_probs=145.2
Q ss_pred cEEEECcchHHHH--HHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhH-HHHHH
Q 011428 36 DIVIATPGCMPKC--LSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDV-DKLKK 112 (486)
Q Consensus 36 dIvV~TP~rl~~~--l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v-~~l~~ 112 (486)
.|+|+|-..+... +.. .......+||+||||++....|......+....| .+++|||++..- ..+..
T Consensus 124 ~i~vat~qtl~~~~~l~~------~~~~~~~liI~DE~Hh~~a~~~~~~~~~~~~~~~----~LGLTATp~R~D~~~~~~ 193 (442)
T COG1061 124 KVTVATVQTLARRQLLDE------FLGNEFGLIIFDEVHHLPAPSYRRILELLSAAYP----RLGLTATPEREDGGRIGD 193 (442)
T ss_pred cEEEEEhHHHhhhhhhhh------hcccccCEEEEEccccCCcHHHHHHHHhhhcccc----eeeeccCceeecCCchhH
Confidence 6999997766553 221 3334799999999999987665544444433333 899999976322 11111
Q ss_pred Hhc-cCCcEEEcCCcCCcccccccCcceEEEEEc--------------------------------------chhhhHHH
Q 011428 113 LIL-HNPYILTLPEVGDVKDEVIPKNVQQFWISC--------------------------------------SERDKLLY 153 (486)
Q Consensus 113 ~~l-~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~--------------------------------------~~~~k~~~ 153 (486)
.+. -.|.+.......-.... .......+.+.+ ....+...
T Consensus 194 l~~~~g~~vy~~~~~~li~~g-~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 272 (442)
T COG1061 194 LFDLIGPIVYEVSLKELIDEG-YLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGTLRAENEARRIAIASERKIAA 272 (442)
T ss_pred HHHhcCCeEeecCHHHHHhCC-CccceEEEEEEeccchHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHhhccHHHHHH
Confidence 111 11334333210000000 000111111111 11222333
Q ss_pred HHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCC
Q 011428 154 ILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSD 233 (486)
Q Consensus 154 l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~ 233 (486)
+..++.......+++|||.++..++.++..|..-|+ +..+.++.|..+|..+++.|+.|.+++||++.+.
T Consensus 273 ~~~~~~~~~~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~~~~lv~~~vl--------- 342 (442)
T COG1061 273 VRGLLLKHARGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGGIKVLVTVKVL--------- 342 (442)
T ss_pred HHHHHHHhcCCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcCCCCEEEEeeec---------
Confidence 333443332345999999999999999999998888 8899999999999999999999999999999994
Q ss_pred CCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhccc-CCCCce
Q 011428 234 EGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGR-AYNTGA 296 (486)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR-~g~~G~ 296 (486)
.+|+|+|+++++|...++.|...|+||+||.-| ...++.
T Consensus 343 ------------------------~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~~~~k~~ 382 (442)
T COG1061 343 ------------------------DEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAEGKED 382 (442)
T ss_pred ------------------------cceecCCCCcEEEEeCCCCcHHHHHHHhhhhccCCCCCCc
Confidence 579999999999999999999999999999999 333443
No 96
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.72 E-value=8.7e-16 Score=149.53 Aligned_cols=238 Identities=20% Similarity=0.217 Sum_probs=159.3
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCC
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIP 91 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp 91 (486)
++.+..++|+++... ..++||+|...|+..- +.++++||||+|-..-..-.....++-....
T Consensus 170 ~~~I~~Lyg~S~~~f-------r~plvVaTtHQLlrFk-----------~aFD~liIDEVDAFP~~~d~~L~~Av~~ark 231 (441)
T COG4098 170 NCDIDLLYGDSDSYF-------RAPLVVATTHQLLRFK-----------QAFDLLIIDEVDAFPFSDDQSLQYAVKKARK 231 (441)
T ss_pred cCCeeeEecCCchhc-------cccEEEEehHHHHHHH-----------hhccEEEEeccccccccCCHHHHHHHHHhhc
Confidence 467888888876653 2568999976655433 4588999999998532221222334444555
Q ss_pred CCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHH-------HHHHHHHhhc-c
Q 011428 92 RGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLL-------YILTLLKLEL-V 163 (486)
Q Consensus 92 ~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~-------~l~~llk~~~-~ 163 (486)
...-+|++|||.+..++.-.. ..+-..++++....... -..-.++.+....|.. .|+.+|+.+. .
T Consensus 232 ~~g~~IylTATp~k~l~r~~~--~g~~~~~klp~RfH~~p-----LpvPkf~w~~~~~k~l~r~kl~~kl~~~lekq~~~ 304 (441)
T COG4098 232 KEGATIYLTATPTKKLERKIL--KGNLRILKLPARFHGKP-----LPVPKFVWIGNWNKKLQRNKLPLKLKRWLEKQRKT 304 (441)
T ss_pred ccCceEEEecCChHHHHHHhh--hCCeeEeecchhhcCCC-----CCCCceEEeccHHHHhhhccCCHHHHHHHHHHHhc
Confidence 678899999999877633222 22334455544221111 1112233443333322 5666665543 3
Q ss_pred CCeEEEEecCHHHHHHHHHHH-HHcCCc-eeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccc
Q 011428 164 QKKALIFTNTIDMAFRLKLFL-EKFGIK-SAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSR 241 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L-~~~gi~-~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~ 241 (486)
..+++||++++...+.++..| +++... +...||+ ...|.+.+++|++|.+++||+|.+.|
T Consensus 305 ~~P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~--d~~R~EkV~~fR~G~~~lLiTTTILE---------------- 366 (441)
T COG4098 305 GRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSE--DQHRKEKVEAFRDGKITLLITTTILE---------------- 366 (441)
T ss_pred CCcEEEEecchHHHHHHHHHHHhhCCccceeeeecc--CccHHHHHHHHHcCceEEEEEeehhh----------------
Confidence 568999999999999999999 555543 4678887 45689999999999999999999965
Q ss_pred cccCCCCCcccccccccccCccCCccEEEE-eCCC-CChhhHHHhhhhcccCCC--CceEEEEeCcchhhHH
Q 011428 242 KSKKHPKAKLDSEFGVVRGIDFKNVHTVIN-FEMP-QNAAGYVHRIGRTGRAYN--TGASVSLVSPDEMKIF 309 (486)
Q Consensus 242 ~~~~~~~~~~~~~~gvsrGID~~~V~~VI~-~d~P-~s~~~yihRiGRtgR~g~--~G~ai~fv~~~e~~~~ 309 (486)
||+-||+|+++|. -.-+ -|-++.+|.+||+||.-. .|..+.|-......+.
T Consensus 367 -----------------RGVTfp~vdV~Vlgaeh~vfTesaLVQIaGRvGRs~~~PtGdv~FFH~G~skaM~ 421 (441)
T COG4098 367 -----------------RGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRSLERPTGDVLFFHYGKSKAMK 421 (441)
T ss_pred -----------------cccccccceEEEecCCcccccHHHHHHHhhhccCCCcCCCCcEEEEeccchHHHH
Confidence 9999999998654 2222 468899999999999653 6777777655544333
No 97
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=99.72 E-value=1.9e-17 Score=174.01 Aligned_cols=226 Identities=17% Similarity=0.273 Sum_probs=164.9
Q ss_pred CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHHHH
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKL 113 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~ 113 (486)
.+..+|.|.+-|..+|.+|. .....+.++|+||+|.|-+..-.-.++.-+-.+|.+...+++|||+|+..+ ++.+
T Consensus 211 ~ASCLVMTTEILRsMLYRGS----EvmrEVaWVIFDEIHYMRDkERGVVWEETIIllP~~vr~VFLSATiPNA~q-FAeW 285 (1041)
T KOG0948|consen 211 DASCLVMTTEILRSMLYRGS----EVMREVAWVIFDEIHYMRDKERGVVWEETIILLPDNVRFVFLSATIPNARQ-FAEW 285 (1041)
T ss_pred CCceeeeHHHHHHHHHhccc----hHhheeeeEEeeeehhccccccceeeeeeEEeccccceEEEEeccCCCHHH-HHHH
Confidence 56689999999999999986 677889999999999998765444444555678999999999999998764 3444
Q ss_pred h---ccCCcEEEcCCcCCcccccccCcceEEEEE---------cch-----hhhHHHHHHHHH-----------------
Q 011428 114 I---LHNPYILTLPEVGDVKDEVIPKNVQQFWIS---------CSE-----RDKLLYILTLLK----------------- 159 (486)
Q Consensus 114 ~---l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~---------~~~-----~~k~~~l~~llk----------------- 159 (486)
. -..|..+...+ ..+..++||... +++ ++.|......|.
T Consensus 286 I~~ihkQPcHVVYTd-------yRPTPLQHyifP~ggdGlylvVDek~~FrednF~~am~~l~~~~~~~~~~~~~~k~~k 358 (1041)
T KOG0948|consen 286 ICHIHKQPCHVVYTD-------YRPTPLQHYIFPAGGDGLYLVVDEKGKFREDNFQKAMSVLRKAGESDGKKKANKKGRK 358 (1041)
T ss_pred HHHHhcCCceEEeec-------CCCCcceeeeecCCCCeeEEEEecccccchHHHHHHHHHhhccCCCcccccccccccc
Confidence 3 34565554432 344567776433 222 233333333331
Q ss_pred ------------------hhc--cCCeEEEEecCHHHHHHHHHHHHHcC-------------------------------
Q 011428 160 ------------------LEL--VQKKALIFTNTIDMAFRLKLFLEKFG------------------------------- 188 (486)
Q Consensus 160 ------------------~~~--~~~k~IIFvns~~~~~~l~~~L~~~g------------------------------- 188 (486)
.-. ...++|||+-++..|+.++..+....
T Consensus 359 G~~~~~~~~~s~i~kiVkmi~~~~~~PVIvFSFSkkeCE~~Alqm~kldfN~deEk~~V~~iF~nAi~~LseeDr~LPqi 438 (1041)
T KOG0948|consen 359 GGTGGKGPGDSDIYKIVKMIMERNYLPVIVFSFSKKECEAYALQMSKLDFNTDEEKELVETIFNNAIDQLSEEDRELPQI 438 (1041)
T ss_pred CCcCCCCCCcccHHHHHHHHHhhcCCceEEEEecHhHHHHHHHhhccCcCCChhHHHHHHHHHHHHHHhcChhhccchHH
Confidence 111 12389999999999999999886541
Q ss_pred --------CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCccccccccccc
Q 011428 189 --------IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRG 260 (486)
Q Consensus 189 --------i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrG 260 (486)
-.+.++||+|-+--..-|.--|..|.+++|+||.. |++ |
T Consensus 439 e~iLPLL~RGIGIHHsGLLPIlKE~IEILFqEGLvKvLFATET-------------------------------Fsi--G 485 (1041)
T KOG0948|consen 439 ENILPLLRRGIGIHHSGLLPILKEVIEILFQEGLVKVLFATET-------------------------------FSI--G 485 (1041)
T ss_pred HHHHHHHHhccccccccchHHHHHHHHHHHhccHHHHHHhhhh-------------------------------hhh--c
Confidence 13467899999989999999999999999999955 445 9
Q ss_pred CccCCccEEEE----eCCC----CChhhHHHhhhhcccCCC--CceEEEEeCcc
Q 011428 261 IDFKNVHTVIN----FEMP----QNAAGYVHRIGRTGRAYN--TGASVSLVSPD 304 (486)
Q Consensus 261 ID~~~V~~VI~----~d~P----~s~~~yihRiGRtgR~g~--~G~ai~fv~~~ 304 (486)
+|.|.-++|+- ||-- .|.-.|||+.|||||.|. .|.+|+++...
T Consensus 486 LNMPAkTVvFT~~rKfDG~~fRwissGEYIQMSGRAGRRG~DdrGivIlmiDek 539 (1041)
T KOG0948|consen 486 LNMPAKTVVFTAVRKFDGKKFRWISSGEYIQMSGRAGRRGIDDRGIVILMIDEK 539 (1041)
T ss_pred cCCcceeEEEeeccccCCcceeeecccceEEecccccccCCCCCceEEEEecCc
Confidence 99998777764 5543 367899999999999985 57777776643
No 98
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.71 E-value=1.5e-15 Score=166.57 Aligned_cols=129 Identities=21% Similarity=0.171 Sum_probs=110.7
Q ss_pred EEcchhhhHHHHHHHHHh-hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEc
Q 011428 143 ISCSERDKLLYILTLLKL-ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIAT 221 (486)
Q Consensus 143 i~~~~~~k~~~l~~llk~-~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaT 221 (486)
+..+..+|+..+..-++. +..+.++||||+|++.++.|+..|...|+++.+||+.+++.++..+.+.|+.|. |+|||
T Consensus 427 iy~t~~~K~~Aii~ei~~~~~~GrpVLV~t~sv~~se~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G~--VtIAT 504 (908)
T PRK13107 427 VYLTADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTGA--VTIAT 504 (908)
T ss_pred EEeCHHHHHHHHHHHHHHHHHcCCCEEEEeCcHHHHHHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCCc--EEEec
Confidence 445567788777665543 444668999999999999999999999999999999999999999999999998 99999
Q ss_pred CCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCC------------------------------------
Q 011428 222 DDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN------------------------------------ 265 (486)
Q Consensus 222 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~------------------------------------ 265 (486)
+++ +||+||.-
T Consensus 505 nmA---------------------------------GRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~ 551 (908)
T PRK13107 505 NMA---------------------------------GRGTDIVLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAA 551 (908)
T ss_pred CCc---------------------------------CCCcceecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHc
Confidence 996 58999862
Q ss_pred -ccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 266 -VHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 266 -V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
==+||--..+.|..-=-|-.||+||.|.+|.+-.|++-.|.
T Consensus 552 GGL~VIgTerheSrRID~QLrGRaGRQGDPGss~f~lSlED~ 593 (908)
T PRK13107 552 GGLHILGTERHESRRIDNQLRGRAGRQGDAGSSRFYLSMEDS 593 (908)
T ss_pred CCCEEEecccCchHHHHhhhhcccccCCCCCceeEEEEeCcH
Confidence 12688888888888888999999999999999999998775
No 99
>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=99.71 E-value=3e-17 Score=130.77 Aligned_cols=78 Identities=44% Similarity=0.685 Sum_probs=74.4
Q ss_pred HHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccC
Q 011428 182 LFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGI 261 (486)
Q Consensus 182 ~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGI 261 (486)
.+|+..|++++.+||+++..+|..+++.|+.|...+||||+. +++||
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~---------------------------------~~~Gi 47 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDI---------------------------------LGEGI 47 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCG---------------------------------GTTSS
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeecc---------------------------------ccccc
Confidence 368999999999999999999999999999999999999987 45799
Q ss_pred ccCCccEEEEeCCCCChhhHHHhhhhcccCC
Q 011428 262 DFKNVHTVINFEMPQNAAGYVHRIGRTGRAY 292 (486)
Q Consensus 262 D~~~V~~VI~~d~P~s~~~yihRiGRtgR~g 292 (486)
|+|++++||++++|.|...|+|++||++|.|
T Consensus 48 d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 48 DLPDASHVIFYDPPWSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp TSTTESEEEESSSESSHHHHHHHHTTSSTTT
T ss_pred cccccccccccccCCCHHHHHHHhhcCCCCC
Confidence 9999999999999999999999999999986
No 100
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.70 E-value=2.9e-16 Score=172.46 Aligned_cols=251 Identities=17% Similarity=0.284 Sum_probs=176.4
Q ss_pred CCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHH--
Q 011428 10 QVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALS-- 87 (486)
Q Consensus 10 ~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~-- 87 (486)
.+||+|..++|++....+.- ....|+|+||+.. +.+.+... .....+-++++||||.|++.+.. .+.++.|.
T Consensus 390 ~~GI~V~ElTgD~~l~~~qi---eeTqVIV~TPEK~-DiITRk~g-draY~qlvrLlIIDEIHLLhDdR-GpvLESIVaR 463 (1674)
T KOG0951|consen 390 PLGITVLELTGDSQLGKEQI---EETQVIVTTPEKW-DIITRKSG-DRAYEQLVRLLIIDEIHLLHDDR-GPVLESIVAR 463 (1674)
T ss_pred ccCcEEEEecccccchhhhh---hcceeEEeccchh-hhhhcccC-chhHHHHHHHHhhhhhhhccccc-chHHHHHHHH
Confidence 36899999999876543322 3778999999984 55654421 12334568999999999997642 23343332
Q ss_pred --HHC---CCCccEEEEeeecChhHHHHHHHhccCC-cEEEcCCcCCcccccccCcceEEEEEcchhhhHH-------HH
Q 011428 88 --AVI---PRGCQCLLMSATSSSDVDKLKKLILHNP-YILTLPEVGDVKDEVIPKNVQQFWISCSERDKLL-------YI 154 (486)
Q Consensus 88 --~~l---p~~~q~il~SATl~~~v~~l~~~~l~~p-~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~-------~l 154 (486)
... ..++..+++|||||+-.+ .......+| -.+..+ ....+-.+.|.|+-+.+...+. ++
T Consensus 464 t~r~ses~~e~~RlVGLSATLPNy~D-V~~Fl~v~~~glf~fd------~syRpvPL~qq~Igi~ek~~~~~~qamNe~~ 536 (1674)
T KOG0951|consen 464 TFRRSESTEEGSRLVGLSATLPNYED-VASFLRVDPEGLFYFD------SSYRPVPLKQQYIGITEKKPLKRFQAMNEAC 536 (1674)
T ss_pred HHHHhhhcccCceeeeecccCCchhh-hHHHhccCcccccccC------cccCcCCccceEeccccCCchHHHHHHHHHH
Confidence 222 247899999999997432 222222333 222222 3445667899999887654332 34
Q ss_pred HHHHHhhccCCeEEEEecCHHHHHHHHHHHHH----------c---------------------------CCceeecCCC
Q 011428 155 LTLLKLELVQKKALIFTNTIDMAFRLKLFLEK----------F---------------------------GIKSAILNAE 197 (486)
Q Consensus 155 ~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~----------~---------------------------gi~~~~lhs~ 197 (486)
|.-+-.+..++++||||.++..+-+.+.+++. | -+..+++|++
T Consensus 537 yeKVm~~agk~qVLVFVHsRkET~ktA~aIRd~~le~dtls~fmre~s~s~eilrtea~~~kn~dLkdLLpygfaIHhAG 616 (1674)
T KOG0951|consen 537 YEKVLEHAGKNQVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAKNPDLKDLLPYGFAIHHAG 616 (1674)
T ss_pred HHHHHHhCCCCcEEEEEEechHHHHHHHHHHHHHhhhhHHHHHHhcccchhhhhhhhhhcccChhHHHHhhccceeeccC
Confidence 44444445568999999999888877777662 1 2467899999
Q ss_pred CCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEE----eC
Q 011428 198 LPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN----FE 273 (486)
Q Consensus 198 l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~----~d 273 (486)
|...+|..+.+.|..|.++++|+|.. +++|++.|.-+++|- ||
T Consensus 617 l~R~dR~~~EdLf~~g~iqvlvstat---------------------------------lawgvnlpahtViikgtqvy~ 663 (1674)
T KOG0951|consen 617 LNRKDRELVEDLFADGHIQVLVSTAT---------------------------------LAWGVNLPAHTVIIKGTQVYD 663 (1674)
T ss_pred CCcchHHHHHHHHhcCceeEEEeehh---------------------------------hhhhcCCCcceEEecCccccC
Confidence 99999999999999999999999987 579999998776663 66
Q ss_pred C------CCChhhHHHhhhhcccCC--CCceEEEEeCcchh
Q 011428 274 M------PQNAAGYVHRIGRTGRAY--NTGASVSLVSPDEM 306 (486)
Q Consensus 274 ~------P~s~~~yihRiGRtgR~g--~~G~ai~fv~~~e~ 306 (486)
+ +.++-+.+||.||+||.+ ..|..+++-...+.
T Consensus 664 pekg~w~elsp~dv~qmlgragrp~~D~~gegiiit~~se~ 704 (1674)
T KOG0951|consen 664 PEKGRWTELSPLDVMQMLGRAGRPQYDTCGEGIIITDHSEL 704 (1674)
T ss_pred cccCccccCCHHHHHHHHhhcCCCccCcCCceeeccCchHh
Confidence 5 568999999999999965 45667766655554
No 101
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=99.65 E-value=6.2e-16 Score=167.23 Aligned_cols=257 Identities=20% Similarity=0.221 Sum_probs=165.6
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHH-
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAV- 89 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~- 89 (486)
+|+.|-..+|..+.... ...-++-|+|-++...++.+-. ..-.++.+.+||+||-|.+.+.|-..+++.++..
T Consensus 296 ~G~~ve~y~g~~~p~~~----~k~~sv~i~tiEkanslin~li--e~g~~~~~g~vvVdElhmi~d~~rg~~lE~~l~k~ 369 (1008)
T KOG0950|consen 296 LGFPVEEYAGRFPPEKR----RKRESVAIATIEKANSLINSLI--EQGRLDFLGMVVVDELHMIGDKGRGAILELLLAKI 369 (1008)
T ss_pred cCCcchhhcccCCCCCc----ccceeeeeeehHhhHhHHHHHH--hcCCccccCcEEEeeeeeeeccccchHHHHHHHHH
Confidence 46777666666554332 2356799999998766554321 2244678999999999999998877676666553
Q ss_pred ----CCCCccEEEEeeecChhHHHHHHHhccCCcEEE-cCCcCCcccccccCc-c---------eEE---EEE-cchhhh
Q 011428 90 ----IPRGCQCLLMSATSSSDVDKLKKLILHNPYILT-LPEVGDVKDEVIPKN-V---------QQF---WIS-CSERDK 150 (486)
Q Consensus 90 ----lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~-l~~~~~~~~~~~~~~-l---------~q~---~i~-~~~~~k 150 (486)
.....|+|+||||+++- .. ...++...++.. ..++. ..+...... + ... +.. ....+-
T Consensus 370 ~y~~~~~~~~iIGMSATi~N~-~l-L~~~L~A~~y~t~fRPv~-L~E~ik~G~~i~~~~r~~~lr~ia~l~~~~~g~~dp 446 (1008)
T KOG0950|consen 370 LYENLETSVQIIGMSATIPNN-SL-LQDWLDAFVYTTRFRPVP-LKEYIKPGSLIYESSRNKVLREIANLYSSNLGDEDP 446 (1008)
T ss_pred HHhccccceeEeeeecccCCh-HH-HHHHhhhhheecccCccc-chhccCCCcccccchhhHHHHHhhhhhhhhcccCCC
Confidence 23357899999999863 22 222332222211 00000 000000000 0 000 000 000000
Q ss_pred HHHHHHHHHhhccC-CeEEEEecCHHHHHHHHHHHHHc--------------------------------------CCce
Q 011428 151 LLYILTLLKLELVQ-KKALIFTNTIDMAFRLKLFLEKF--------------------------------------GIKS 191 (486)
Q Consensus 151 ~~~l~~llk~~~~~-~k~IIFvns~~~~~~l~~~L~~~--------------------------------------gi~~ 191 (486)
+.+..+....... ..+||||+++..|+.++..+... -..+
T Consensus 447 -D~~v~L~tet~~e~~~~lvfc~sk~~ce~~a~~~~~~vpk~~~~e~~~~~~~~~s~s~~lr~~~~~ld~Vl~~ti~~Gv 525 (1008)
T KOG0950|consen 447 -DHLVGLCTETAPEGSSVLVFCPSKKNCENVASLIAKKVPKHIKSEKRLGLWELLSISNLLRRIPGILDPVLAKTIPYGV 525 (1008)
T ss_pred -cceeeehhhhhhcCCeEEEEcCcccchHHHHHHHHHHhhHhhhhhhhhhHHHHHHHHhHhhcCCcccchHHheeccccc
Confidence 1111222111223 35999999999999988665422 1356
Q ss_pred eecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEE
Q 011428 192 AILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN 271 (486)
Q Consensus 192 ~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~ 271 (486)
+++|++++..+|..+...|+.|...|++||+. ++.|++.|...++|-
T Consensus 526 AyHhaGLT~eER~~iE~afr~g~i~vl~aTST---------------------------------laaGVNLPArRVIir 572 (1008)
T KOG0950|consen 526 AYHHAGLTSEEREIIEAAFREGNIFVLVATST---------------------------------LAAGVNLPARRVIIR 572 (1008)
T ss_pred eecccccccchHHHHHHHHHhcCeEEEEecch---------------------------------hhccCcCCcceeEEe
Confidence 78899999999999999999999999999998 467999999988886
Q ss_pred eCC----CCChhhHHHhhhhcccCCC--CceEEEEeCcchhhHHH
Q 011428 272 FEM----PQNAAGYVHRIGRTGRAYN--TGASVSLVSPDEMKIFE 310 (486)
Q Consensus 272 ~d~----P~s~~~yihRiGRtgR~g~--~G~ai~fv~~~e~~~~~ 310 (486)
+-. +.+.-.|.|++|||||+|- .|.+|+++.+.+...+.
T Consensus 573 aP~~g~~~l~~~~YkQM~GRAGR~gidT~GdsiLI~k~~e~~~~~ 617 (1008)
T KOG0950|consen 573 APYVGREFLTRLEYKQMVGRAGRTGIDTLGDSILIIKSSEKKRVR 617 (1008)
T ss_pred CCccccchhhhhhHHhhhhhhhhcccccCcceEEEeeccchhHHH
Confidence 433 4578899999999999974 78899999998874443
No 102
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.65 E-value=7.4e-15 Score=165.76 Aligned_cols=123 Identities=18% Similarity=0.199 Sum_probs=101.5
Q ss_pred hhHHHHHHHHHhh-ccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC---CcEEEEcCCC
Q 011428 149 DKLLYILTLLKLE-LVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL---FDYLIATDDT 224 (486)
Q Consensus 149 ~k~~~l~~llk~~-~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~---~~iLIaTd~~ 224 (486)
.|+.+|..+|... ....++|||+........|..+|...|+..+.++|+++..+|..+++.|+... +-+|++|...
T Consensus 471 gKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAG 550 (1033)
T PLN03142 471 GKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAG 550 (1033)
T ss_pred hHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEecccc
Confidence 3455555555332 23469999999999999999999999999999999999999999999998643 4567888774
Q ss_pred CccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceE--EEEeC
Q 011428 225 QTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGAS--VSLVS 302 (486)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~a--i~fv~ 302 (486)
..|||+..+++||+||+|+++..+.|++||+.|.|+...+ +-|++
T Consensus 551 ---------------------------------GlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyRLIt 597 (1033)
T PLN03142 551 ---------------------------------GLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCT 597 (1033)
T ss_pred ---------------------------------ccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEEEEe
Confidence 3599999999999999999999999999999999987554 44566
Q ss_pred cc
Q 011428 303 PD 304 (486)
Q Consensus 303 ~~ 304 (486)
..
T Consensus 598 ~g 599 (1033)
T PLN03142 598 EY 599 (1033)
T ss_pred CC
Confidence 55
No 103
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=99.62 E-value=1.1e-14 Score=160.72 Aligned_cols=224 Identities=19% Similarity=0.237 Sum_probs=166.2
Q ss_pred CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccccccc-CCCc-HHHHHHHHHHCCCCccEEEEeeecChhHHHH
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLL-SYGY-EDDLKALSAVIPRGCQCLLMSATSSSDVDKL 110 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll-~~g~-~~~l~~i~~~lp~~~q~il~SATl~~~v~~l 110 (486)
..-.|-+.|.|.|+..+... ..++.+++|||||||.=. +..+ ...+..++...+....+|+||||+..+ .+
T Consensus 138 ~~Trik~mTdGiLlrei~~D-----~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiIimSATld~~--rf 210 (845)
T COG1643 138 PRTRIKVMTDGILLREIQND-----PLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLIIMSATLDAE--RF 210 (845)
T ss_pred CCceeEEeccHHHHHHHhhC-----cccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceEEEEecccCHH--HH
Confidence 35678999999999999865 568999999999999832 1111 244566677777789999999999864 34
Q ss_pred HHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc-hhh-hHHHHHHHHHh--hccCCeEEEEecCHHHHHHHHHHHHH
Q 011428 111 KKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS-ERD-KLLYILTLLKL--ELVQKKALIFTNTIDMAFRLKLFLEK 186 (486)
Q Consensus 111 ~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~-~~~-k~~~l~~llk~--~~~~~k~IIFvns~~~~~~l~~~L~~ 186 (486)
.. ++.+..++.++. ..-.++.+|.... .++ -...+...+.. ....|-+|||.+-.....+++..|+.
T Consensus 211 s~-~f~~apvi~i~G--------R~fPVei~Y~~~~~~d~~l~~ai~~~v~~~~~~~~GdILvFLpG~~EI~~~~~~L~~ 281 (845)
T COG1643 211 SA-YFGNAPVIEIEG--------RTYPVEIRYLPEAEADYILLDAIVAAVDIHLREGSGSILVFLPGQREIERTAEWLEK 281 (845)
T ss_pred HH-HcCCCCEEEecC--------CccceEEEecCCCCcchhHHHHHHHHHHHhccCCCCCEEEECCcHHHHHHHHHHHHh
Confidence 44 455555665543 1113555553333 222 22233333332 23378999999999999999999987
Q ss_pred --c--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCc
Q 011428 187 --F--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGID 262 (486)
Q Consensus 187 --~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID 262 (486)
+ .+.++.|||.||.++...+++---.|.-+|++||+++| .+|-
T Consensus 282 ~~l~~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAE---------------------------------TSLT 328 (845)
T COG1643 282 AELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAE---------------------------------TSLT 328 (845)
T ss_pred ccccCCcEEeeccccCCHHHHHhhcCCCCCCcceEEEEccccc---------------------------------ccee
Confidence 4 47899999999999999987777777666999999987 4899
Q ss_pred cCCccEEEEeCC------------------CCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 263 FKNVHTVINFEM------------------PQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 263 ~~~V~~VI~~d~------------------P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
+++|.+||.-+. |.|-.+..||.||+||-+ +|.|+=+++..+.
T Consensus 329 I~gIr~VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR~~-pGicyRLyse~~~ 389 (845)
T COG1643 329 IPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGRTG-PGICYRLYSEEDF 389 (845)
T ss_pred eCCeEEEecCCcccccccccccCceeeeEEEechhhhhhhccccccCC-CceEEEecCHHHH
Confidence 999999997433 567888999999999985 6999999997554
No 104
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.61 E-value=7.3e-14 Score=155.45 Aligned_cols=237 Identities=19% Similarity=0.209 Sum_probs=168.0
Q ss_pred EEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCcc
Q 011428 16 VQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQ 95 (486)
Q Consensus 16 ~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q 95 (486)
..++|+.+. .....|+|.|.+-|..++..+. ..+..+.+||+||+|.|-+..-.-..+.++-++|.+.|
T Consensus 194 GL~TGDv~I-------N~~A~clvMTTEILRnMlyrg~----~~~~~i~~ViFDEvHyi~D~eRG~VWEE~Ii~lP~~v~ 262 (1041)
T COG4581 194 GLMTGDVSI-------NPDAPCLVMTTEILRNMLYRGS----ESLRDIEWVVFDEVHYIGDRERGVVWEEVIILLPDHVR 262 (1041)
T ss_pred cceecceee-------CCCCceEEeeHHHHHHHhccCc----ccccccceEEEEeeeeccccccchhHHHHHHhcCCCCc
Confidence 445555443 3478899999999999999875 77899999999999999987766778888999999999
Q ss_pred EEEEeeecChhHHHHHHHh---ccCCcEEEcCCcCCcccccccCcceEEEEEc-------chhhh---------------
Q 011428 96 CLLMSATSSSDVDKLKKLI---LHNPYILTLPEVGDVKDEVIPKNVQQFWISC-------SERDK--------------- 150 (486)
Q Consensus 96 ~il~SATl~~~v~~l~~~~---l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~-------~~~~k--------------- 150 (486)
++++|||+|+..+ +..++ -..|..+... +..+..+.||+..- ++..+
T Consensus 263 ~v~LSATv~N~~E-F~~Wi~~~~~~~~~vv~t-------~~RpvPL~~~~~~~~~l~~lvde~~~~~~~~~~~a~~~l~~ 334 (1041)
T COG4581 263 FVFLSATVPNAEE-FAEWIQRVHSQPIHVVST-------EHRPVPLEHFVYVGKGLFDLVDEKKKFNAENFPSANRSLSC 334 (1041)
T ss_pred EEEEeCCCCCHHH-HHHHHHhccCCCeEEEee-------cCCCCCeEEEEecCCceeeeecccccchhhcchhhhhhhhc
Confidence 9999999998653 33332 2334443332 22333455544322 11111
Q ss_pred ---------------------------------HHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHc----------
Q 011428 151 ---------------------------------LLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKF---------- 187 (486)
Q Consensus 151 ---------------------------------~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~---------- 187 (486)
...+-.+.. ...-++|+|+-++..|+.++..+...
T Consensus 335 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~iv~~l~~--~~~lP~I~F~FSr~~Ce~~a~~~~~ldl~~~~~~e~ 412 (1041)
T COG4581 335 FSEKVRETDDGDVGRYARRTKALRGSAKGPAGRPEIVNKLDK--DNLLPAIVFSFSRRGCEEAAQILSTLDLVLTEEKER 412 (1041)
T ss_pred cchhccccCccccccccccccccCCcccccccchHHHhhhhh--hcCCceEEEEEchhhHHHHHHHhcccccccCCcHHH
Confidence 001111111 11247999999999999988877521
Q ss_pred ------------------CC-------------ceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCC
Q 011428 188 ------------------GI-------------KSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGG 236 (486)
Q Consensus 188 ------------------gi-------------~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~ 236 (486)
++ ...++|++|-+..+..+...|..|...|++||.+
T Consensus 413 ~i~~ii~~~i~~L~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT------------- 479 (1041)
T COG4581 413 AIREIIDHAIGDLAEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLVKVVFATET------------- 479 (1041)
T ss_pred HHHHHHHHHHhhcChhhhcCcccHHHHHHHHhhhhhhhccccchHHHHHHHHHHhccceeEEeehhh-------------
Confidence 22 1347899999999999999999999999999977
Q ss_pred CcccccccCCCCCcccccccccccCccCCccEEEE----eCC----CCChhhHHHhhhhcccCCC--CceEEEEeCcchh
Q 011428 237 HVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN----FEM----PQNAAGYVHRIGRTGRAYN--TGASVSLVSPDEM 306 (486)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~----~d~----P~s~~~yihRiGRtgR~g~--~G~ai~fv~~~e~ 306 (486)
++-|||.|.=++|+- ||- +.++..|+|..||+||.|- .|.+|++-.+.+.
T Consensus 480 --------------------~s~GiNmPartvv~~~l~K~dG~~~r~L~~gEy~QmsGRAGRRGlD~~G~vI~~~~~~~~ 539 (1041)
T COG4581 480 --------------------FAIGINMPARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLDVLGTVIVIEPPFES 539 (1041)
T ss_pred --------------------hhhhcCCcccceeeeeeEEecCCceeecChhHHHHhhhhhccccccccceEEEecCCCCC
Confidence 345999997666652 443 5679999999999999985 6777777555443
No 105
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.59 E-value=5.2e-14 Score=161.50 Aligned_cols=95 Identities=17% Similarity=0.268 Sum_probs=82.0
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHc------CC---ceeecCCCCCHHHHHHHHHHHhcCCC-cEEEEcCCCCccccccCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKF------GI---KSAILNAELPQNSRLHILEEFNAGLF-DYLIATDDTQTKEKDQSD 233 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~------gi---~~~~lhs~l~~~~R~~i~~~F~~g~~-~iLIaTd~~~~~~~~~~~ 233 (486)
.+|+||||.++++|..+...|.+. ++ .+..++|+.+ .+..++++|+++.+ .|+|++|+
T Consensus 698 ~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p~IlVsvdm---------- 765 (1123)
T PRK11448 698 EGKTLIFAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKNERLPNIVVTVDL---------- 765 (1123)
T ss_pred CCcEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhCCCCCeEEEEecc----------
Confidence 479999999999999999887653 22 3566888886 46789999999987 58999998
Q ss_pred CCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCC
Q 011428 234 EGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYN 293 (486)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~ 293 (486)
+++|+|+|.|.+||.+++|.|...|+|++||+.|...
T Consensus 766 -----------------------L~TG~DvP~v~~vVf~rpvkS~~lf~QmIGRgtR~~~ 802 (1123)
T PRK11448 766 -----------------------LTTGIDVPSICNLVFLRRVRSRILYEQMLGRATRLCP 802 (1123)
T ss_pred -----------------------cccCCCcccccEEEEecCCCCHHHHHHHHhhhccCCc
Confidence 5789999999999999999999999999999999643
No 106
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.58 E-value=1.5e-14 Score=161.03 Aligned_cols=206 Identities=20% Similarity=0.153 Sum_probs=138.7
Q ss_pred cceEEecccccccCCCcHHHHHHHHHHCC-CCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEE
Q 011428 63 LKILVLDEADLLLSYGYEDDLKALSAVIP-RGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQF 141 (486)
Q Consensus 63 l~~lViDEad~ll~~g~~~~l~~i~~~lp-~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~ 141 (486)
.+.+|+||+|.+.+...-..+..++..+. -+..+++||||+|+.........+.+...+..... .........+.+.
T Consensus 339 ~S~vIlDE~h~~~~~~~~~~l~~~i~~l~~~g~~ill~SATlP~~~~~~l~~~~~~~~~~~~~~~--~~~~~~e~~~~~~ 416 (733)
T COG1203 339 TSLVILDEVHLYADETMLAALLALLEALAEAGVPVLLMSATLPPFLKEKLKKALGKGREVVENAK--FCPKEDEPGLKRK 416 (733)
T ss_pred hhchhhccHHhhcccchHHHHHHHHHHHHhCCCCEEEEecCCCHHHHHHHHHHHhcccceecccc--ccccccccccccc
Confidence 36899999999988743344444444433 37899999999999997776666655444433210 0000011112111
Q ss_pred EEEcchhh-hHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHh----cCCCc
Q 011428 142 WISCSERD-KLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFN----AGLFD 216 (486)
Q Consensus 142 ~i~~~~~~-k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~----~g~~~ 216 (486)
...+.... ...............++++|.|||++.|.+++..|+..+.+++.+||.+....|...++++. .+...
T Consensus 417 ~~~~~~~~~~~~~~~~~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~ 496 (733)
T COG1203 417 ERVDVEDGPQEELIELISEEVKEGKKVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGF 496 (733)
T ss_pred cchhhhhhhhHhhhhcchhhhccCCcEEEEEecHHHHHHHHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhccCCe
Confidence 11111111 01111122222233679999999999999999999998888999999999999999888654 46788
Q ss_pred EEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCC--CC
Q 011428 217 YLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAY--NT 294 (486)
Q Consensus 217 iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g--~~ 294 (486)
|+|||++.| + |+|+. .+++|- =+..+.+.+||+||++|.| ..
T Consensus 497 IvVaTQVIE-------------------------------a--gvDid-fd~mIT--e~aPidSLIQR~GRv~R~g~~~~ 540 (733)
T COG1203 497 IVVATQVIE-------------------------------A--GVDID-FDVLIT--ELAPIDSLIQRAGRVNRHGKKEN 540 (733)
T ss_pred EEEEeeEEE-------------------------------E--Eeccc-cCeeee--cCCCHHHHHHHHHHHhhcccccC
Confidence 999999977 3 89984 555554 3456899999999999999 57
Q ss_pred ceEEEEeCcchh
Q 011428 295 GASVSLVSPDEM 306 (486)
Q Consensus 295 G~ai~fv~~~e~ 306 (486)
|.++.+......
T Consensus 541 ~~~~v~~~~~~~ 552 (733)
T COG1203 541 GKIYVYNDEERG 552 (733)
T ss_pred CceeEeecccCC
Confidence 777777665544
No 107
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.58 E-value=1.5e-13 Score=140.84 Aligned_cols=132 Identities=21% Similarity=0.345 Sum_probs=109.0
Q ss_pred hHHHHHHHHHh-hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccc
Q 011428 150 KLLYILTLLKL-ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKE 228 (486)
Q Consensus 150 k~~~l~~llk~-~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~ 228 (486)
...-|+.-++. .....++||-+=|+..|+.|..+|.+.|+++..+||+...-+|.+|+...+.|.++|||.-+.
T Consensus 431 QvdDL~~EI~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGINL----- 505 (663)
T COG0556 431 QVDDLLSEIRKRVAKNERVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINL----- 505 (663)
T ss_pred cHHHHHHHHHHHHhcCCeEEEEeehHHHHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCCccEEEeehh-----
Confidence 33444444333 333579999999999999999999999999999999999999999999999999999999988
Q ss_pred cccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeC-----CCCChhhHHHhhhhcccCCCCceEEEEeCc
Q 011428 229 KDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFE-----MPQNAAGYVHRIGRTGRAYNTGASVSLVSP 303 (486)
Q Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d-----~P~s~~~yihRiGRtgR~g~~G~ai~fv~~ 303 (486)
+-+|+|+|.|+.|..+| +..|..+.||-||||+|- -.|.+|.+...
T Consensus 506 ----------------------------LREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN-~~GkvIlYAD~ 556 (663)
T COG0556 506 ----------------------------LREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-VNGKVILYADK 556 (663)
T ss_pred ----------------------------hhccCCCcceeEEEEeecCccccccccchHHHHHHHHhhc-cCCeEEEEchh
Confidence 35799999999999887 467999999999999995 46999988765
Q ss_pred chhhHHHHHHHH
Q 011428 304 DEMKIFEEIKSF 315 (486)
Q Consensus 304 ~e~~~~~~~~~~ 315 (486)
-...+-+.+.+-
T Consensus 557 iT~sM~~Ai~ET 568 (663)
T COG0556 557 ITDSMQKAIDET 568 (663)
T ss_pred hhHHHHHHHHHH
Confidence 554444444433
No 108
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.58 E-value=1.2e-12 Score=144.23 Aligned_cols=128 Identities=24% Similarity=0.239 Sum_probs=100.6
Q ss_pred EEcchhhhHHHHHHHH-HhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC-CcEEEE
Q 011428 143 ISCSERDKLLYILTLL-KLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL-FDYLIA 220 (486)
Q Consensus 143 i~~~~~~k~~~l~~ll-k~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~-~~iLIa 220 (486)
+..+..+|+..+..-+ ..+..+.++||-|.|++..+.|+..|.+.|++..+||+.-...+- .|+. ..|. -.|.||
T Consensus 546 iy~t~~~k~~ai~~ei~~~~~~grPvLigt~si~~se~ls~~L~~~gi~h~vLNak~~~~Ea-~iia--~AG~~g~VTIA 622 (970)
T PRK12899 546 FYMTEREKYHAIVAEIASIHRKGNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKNHAQEA-EIIA--GAGKLGAVTVA 622 (970)
T ss_pred EecCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCcceecccchhhhHH-HHHH--hcCCCCcEEEe
Confidence 4555667777766544 444556689999999999999999999999999999997332222 3332 3454 469999
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCC---c-----cEEEEeCCCCChhhHHHhhhhcccCC
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN---V-----HTVINFEMPQNAAGYVHRIGRTGRAY 292 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~---V-----~~VI~~d~P~s~~~yihRiGRtgR~g 292 (486)
|+++ .||.||.- | =+||.-..|.|..---|-.||+||.|
T Consensus 623 TNmA---------------------------------GRGTDIkl~~~v~~~GGLhVIgTer~es~Rid~Ql~GRagRQG 669 (970)
T PRK12899 623 TNMA---------------------------------GRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLG 669 (970)
T ss_pred eccc---------------------------------cCCcccccCchHHhcCCcEEEeeccCchHHHHHHHhcccccCC
Confidence 9996 48988852 2 27888899999999999999999999
Q ss_pred CCceEEEEeCcchh
Q 011428 293 NTGASVSLVSPDEM 306 (486)
Q Consensus 293 ~~G~ai~fv~~~e~ 306 (486)
.+|.+..|++-.|.
T Consensus 670 dpGss~f~lSlEDd 683 (970)
T PRK12899 670 DPGAAKFFLSFEDR 683 (970)
T ss_pred CCCceeEEEEcchH
Confidence 99999999998775
No 109
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=99.57 E-value=5.8e-14 Score=147.60 Aligned_cols=222 Identities=19% Similarity=0.218 Sum_probs=160.0
Q ss_pred CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccc--cCCCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHH
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLL--LSYGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLK 111 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~l--l~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~ 111 (486)
...|.+.|-|.|+..+... ..++..+++||||||.= ...=....++.++..-+ ...+|+||||+..+ ..
T Consensus 140 ~TrikymTDG~LLRE~l~D-----p~LskYsvIIlDEAHERsl~TDiLlGlLKki~~~R~-~LklIimSATlda~---kf 210 (674)
T KOG0922|consen 140 DTRIKYMTDGMLLREILKD-----PLLSKYSVIILDEAHERSLHTDILLGLLKKILKKRP-DLKLIIMSATLDAE---KF 210 (674)
T ss_pred ceeEEEecchHHHHHHhcC-----CccccccEEEEechhhhhhHHHHHHHHHHHHHhcCC-CceEEEEeeeecHH---HH
Confidence 4569999999999887754 56899999999999972 11111233444444444 57899999999854 34
Q ss_pred HHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHH-HH--HHhhccCCeEEEEecCHHHHHHHHHHHHHc-
Q 011428 112 KLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYIL-TL--LKLELVQKKALIFTNTIDMAFRLKLFLEKF- 187 (486)
Q Consensus 112 ~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~-~l--lk~~~~~~k~IIFvns~~~~~~l~~~L~~~- 187 (486)
..|+.+..++.++. . .-.+..+|..-+..+-....+ .+ +......|-+|||....+..+.++..|.+.
T Consensus 211 S~yF~~a~i~~i~G-----R---~fPVei~y~~~p~~dYv~a~~~tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~~ 282 (674)
T KOG0922|consen 211 SEYFNNAPILTIPG-----R---TFPVEILYLKEPTADYVDAALITVIQIHLTEPPGDILVFLTGQEEIEAACELLRERA 282 (674)
T ss_pred HHHhcCCceEeecC-----C---CCceeEEeccCCchhhHHHHHHHHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHHh
Confidence 44555655565544 1 113555666544444333222 22 223355789999999999998888888765
Q ss_pred ---CC----ceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCccccccccccc
Q 011428 188 ---GI----KSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRG 260 (486)
Q Consensus 188 ---gi----~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrG 260 (486)
+- -+..+||.||.++...+.+.--.|.-+|++||+++| ..
T Consensus 283 ~~~~~~~~~~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAE---------------------------------TS 329 (674)
T KOG0922|consen 283 KSLPEDCPELILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAE---------------------------------TS 329 (674)
T ss_pred hhccccCcceeeeecccCCHHHhhccccCCCCCcceEEEEcceee---------------------------------ee
Confidence 11 136799999999999998888889999999999986 36
Q ss_pred CccCCccEEEEeCC------------------CCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 261 IDFKNVHTVINFEM------------------PQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 261 ID~~~V~~VI~~d~------------------P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
|-+++|..||+-++ |-|-.+-.||.||+||.| +|.|+-+++..+.
T Consensus 330 lTI~GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~-pGkcyRLYte~~~ 392 (674)
T KOG0922|consen 330 LTIDGIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTG-PGKCYRLYTESAY 392 (674)
T ss_pred EEecceEEEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCC-CceEEEeeeHHHH
Confidence 78888999886332 668889999999999986 6999999987754
No 110
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.53 E-value=3.1e-14 Score=113.25 Aligned_cols=81 Identities=44% Similarity=0.698 Sum_probs=75.9
Q ss_pred HHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCccccccccc
Q 011428 179 RLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVV 258 (486)
Q Consensus 179 ~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvs 258 (486)
.++..|...++.+..+||+++..+|..+++.|+.|...+||+|+. ++
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~---------------------------------~~ 48 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDV---------------------------------AE 48 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECCh---------------------------------hh
Confidence 467778888999999999999999999999999999999999987 45
Q ss_pred ccCccCCccEEEEeCCCCChhhHHHhhhhcccCC
Q 011428 259 RGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAY 292 (486)
Q Consensus 259 rGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g 292 (486)
+|+|++++++||.+++|.+...|.|++||++|.|
T Consensus 49 ~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~~R~g 82 (82)
T smart00490 49 RGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82 (82)
T ss_pred CCcChhcCCEEEEeCCCCCHHHHHHhhcccccCC
Confidence 7999999999999999999999999999999976
No 111
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.52 E-value=2e-13 Score=142.48 Aligned_cols=220 Identities=20% Similarity=0.237 Sum_probs=164.2
Q ss_pred CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccccccc-C-CCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHH
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLL-S-YGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLK 111 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll-~-~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~ 111 (486)
..-|=+.|-|.|+.-+... ..|.+.+++||||||.=- . .=....+..|...-| ...++++|||+..+ .+
T Consensus 355 kTvlKYMTDGmLlREfL~e-----pdLasYSViiiDEAHERTL~TDILfgLvKDIar~Rp-dLKllIsSAT~DAe--kF- 425 (902)
T KOG0923|consen 355 KTVLKYMTDGMLLREFLSE-----PDLASYSVIIVDEAHERTLHTDILFGLVKDIARFRP-DLKLLISSATMDAE--KF- 425 (902)
T ss_pred ceeeeeecchhHHHHHhcc-----ccccceeEEEeehhhhhhhhhhHHHHHHHHHHhhCC-cceEEeeccccCHH--HH-
Confidence 3445689999988766643 678999999999999731 1 112345566665555 78999999998754 34
Q ss_pred HHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHH-Hh--hccCCeEEEEecCHHHHHHHHHHHHHc-
Q 011428 112 KLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLL-KL--ELVQKKALIFTNTIDMAFRLKLFLEKF- 187 (486)
Q Consensus 112 ~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~ll-k~--~~~~~k~IIFvns~~~~~~l~~~L~~~- 187 (486)
..|+.+..++.++. ..-.+.-+|..+++.+-+...+.-+ +- ..+.|-+|||..-.+..+.....|.+.
T Consensus 426 S~fFDdapIF~iPG--------RRyPVdi~Yt~~PEAdYldAai~tVlqIH~tqp~GDILVFltGQeEIEt~~e~l~~~~ 497 (902)
T KOG0923|consen 426 SAFFDDAPIFRIPG--------RRYPVDIFYTKAPEADYLDAAIVTVLQIHLTQPLGDILVFLTGQEEIETVKENLKERC 497 (902)
T ss_pred HHhccCCcEEeccC--------cccceeeecccCCchhHHHHHHhhheeeEeccCCccEEEEeccHHHHHHHHHHHHHHH
Confidence 44555555665544 2225777888888888777666443 22 223578999999988877777777543
Q ss_pred ---C-----CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccc
Q 011428 188 ---G-----IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVR 259 (486)
Q Consensus 188 ---g-----i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsr 259 (486)
| +-+|.+|+.||......|++---.|--+|++||+++| .
T Consensus 498 ~~LGski~eliv~PiYaNLPselQakIFePtP~gaRKVVLATNIAE---------------------------------T 544 (902)
T KOG0923|consen 498 RRLGSKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAE---------------------------------T 544 (902)
T ss_pred HHhccccceEEEeeccccCChHHHHhhcCCCCCCceeEEEeecchh---------------------------------h
Confidence 3 4478999999999999998888889899999999987 3
Q ss_pred cCccCCccEEEEeCC------------------CCChhhHHHhhhhcccCCCCceEEEEeCcc
Q 011428 260 GIDFKNVHTVINFEM------------------PQNAAGYVHRIGRTGRAYNTGASVSLVSPD 304 (486)
Q Consensus 260 GID~~~V~~VI~~d~------------------P~s~~~yihRiGRtgR~g~~G~ai~fv~~~ 304 (486)
.|-|++|.+||.-++ |.|-.+-.||+||+||.| +|.|+-+++..
T Consensus 545 SlTIdgI~yViDpGf~K~nsynprtGmesL~v~piSKAsA~QRaGRAGRtg-PGKCfRLYt~~ 606 (902)
T KOG0923|consen 545 SLTIDGIKYVIDPGFVKQNSYNPRTGMESLLVTPISKASANQRAGRAGRTG-PGKCFRLYTAW 606 (902)
T ss_pred ceeecCeEEEecCccccccCcCCCcCceeEEEeeechhhhhhhccccCCCC-CCceEEeechh
Confidence 788889999996433 667788899999999987 79999999854
No 112
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=99.47 E-value=2.3e-13 Score=150.08 Aligned_cols=230 Identities=17% Similarity=0.194 Sum_probs=158.9
Q ss_pred CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC--CCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHH
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS--YGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLK 111 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~--~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~ 111 (486)
..-++++|.|.|+..|..+ ..+..+.++|+||+|.=.- +.+.-.++.++..- ++.++||||||+.. +.+.
T Consensus 264 ~t~L~fcTtGvLLr~L~~~-----~~l~~vthiivDEVHER~i~~DflLi~lk~lL~~~-p~LkvILMSAT~da--e~fs 335 (924)
T KOG0920|consen 264 ETRLLFCTTGVLLRRLQSD-----PTLSGVTHIIVDEVHERSINTDFLLILLKDLLPRN-PDLKVILMSATLDA--ELFS 335 (924)
T ss_pred ceeEEEecHHHHHHHhccC-----cccccCceeeeeeEEEccCCcccHHHHHHHHhhhC-CCceEEEeeeecch--HHHH
Confidence 4678999999999999864 6789999999999998543 23344455555555 48999999999983 3344
Q ss_pred HHhccCCcEEEcCCcCCccc-----------ccccCcceEE-----------EEEc-chhhhHHHHHHHHHh---hccCC
Q 011428 112 KLILHNPYILTLPEVGDVKD-----------EVIPKNVQQF-----------WISC-SERDKLLYILTLLKL---ELVQK 165 (486)
Q Consensus 112 ~~~l~~p~~i~l~~~~~~~~-----------~~~~~~l~q~-----------~i~~-~~~~k~~~l~~llk~---~~~~~ 165 (486)
.|+.+..++.++...-... ........++ .+.+ ..+-...++..++.. ....|
T Consensus 336 -~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~~Li~~li~~I~~~~~~G 414 (924)
T KOG0920|consen 336 -DYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEIDYDLIEDLIEYIDEREFEG 414 (924)
T ss_pred -HHhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhccccccHHHHHHHHHhcccCCCCc
Confidence 4444555555433110000 0000000111 0111 112334444444432 33468
Q ss_pred eEEEEecCHHHHHHHHHHHHHc-------CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCc
Q 011428 166 KALIFTNTIDMAFRLKLFLEKF-------GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHV 238 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~~-------gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~ 238 (486)
.+|||.+..+....++..|+.. .+-+..+||.|+..+...+...--.|.-+||+||+.+|
T Consensus 415 aILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~VF~~pp~g~RKIIlaTNIAE------------- 481 (924)
T KOG0920|consen 415 AILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAVFKRPPKGTRKIILATNIAE------------- 481 (924)
T ss_pred eEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHhcCCCCCCcchhhhhhhhHh-------------
Confidence 9999999999999999999752 24467799999999999999888899999999999986
Q ss_pred ccccccCCCCCcccccccccccCccCCccEEEE--------eCCCC----------ChhhHHHhhhhcccCCCCceEEEE
Q 011428 239 DSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN--------FEMPQ----------NAAGYVHRIGRTGRAYNTGASVSL 300 (486)
Q Consensus 239 ~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~--------~d~P~----------s~~~yihRiGRtgR~g~~G~ai~f 300 (486)
-.|-|++|-+||+ ||+-. |-..-.||.||+||. .+|.|+.+
T Consensus 482 --------------------TSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGRv-~~G~cy~L 540 (924)
T KOG0920|consen 482 --------------------TSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGRV-RPGICYHL 540 (924)
T ss_pred --------------------hcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccCc-cCCeeEEe
Confidence 3899999999997 55432 345568999999997 57999999
Q ss_pred eCcchh
Q 011428 301 VSPDEM 306 (486)
Q Consensus 301 v~~~e~ 306 (486)
++....
T Consensus 541 ~~~~~~ 546 (924)
T KOG0920|consen 541 YTRSRY 546 (924)
T ss_pred echhhh
Confidence 987643
No 113
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.43 E-value=5.1e-12 Score=129.94 Aligned_cols=249 Identities=14% Similarity=0.113 Sum_probs=178.0
Q ss_pred EEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC-CC--cHHHHHHHHHHCC-
Q 011428 16 VQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS-YG--YEDDLKALSAVIP- 91 (486)
Q Consensus 16 ~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~-~g--~~~~l~~i~~~lp- 91 (486)
+..+.+.+..+..+..+.+..++++.|..+...+-.+.+-...++-.+.+++.||+|+.+. +| -...|+.+++.+.
T Consensus 366 V~~~D~~sE~~~~A~~R~~~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~~Y~~~~~~~~~~~~R~L~~L~~~ 445 (1034)
T KOG4150|consen 366 VEMSDKLSETTKSALKRIGLNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLFPTKALAQDQLRALSDLIKG 445 (1034)
T ss_pred eecccCCCchhHHHHHhcCcceeecCHHHHHHHHhhhccccccHHHHHHHhcccceeeeecchhhHHHHHHHHHHHHHHH
Confidence 3344455555666777789999999999877655544433345556678999999999754 22 2355666665543
Q ss_pred ----CCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcc------hhh---hHHHHHHHH
Q 011428 92 ----RGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCS------ERD---KLLYILTLL 158 (486)
Q Consensus 92 ----~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~------~~~---k~~~l~~ll 158 (486)
.+.|++-.|||+.+.++....++--+.+.+... .-.+..-.+++++-+ +.+ +..-...++
T Consensus 446 F~~~~~~~~~~~~~~~K~~~~~~~~~~~~~E~~Li~~-------DGSPs~~K~~V~WNP~~~P~~~~~~~~~i~E~s~~~ 518 (1034)
T KOG4150|consen 446 FEASINMGVYDGDTPYKDRTRLRSELANLSELELVTI-------DGSPSSEKLFVLWNPSAPPTSKSEKSSKVVEVSHLF 518 (1034)
T ss_pred HHhhcCcceEeCCCCcCCHHHHHHHhcCCcceEEEEe-------cCCCCccceEEEeCCCCCCcchhhhhhHHHHHHHHH
Confidence 478999999999999988888876665554332 223445566666543 112 222111222
Q ss_pred H-hhccCCeEEEEecCHHHHHHHHHHHHHc----CC----ceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCcccc
Q 011428 159 K-LELVQKKALIFTNTIDMAFRLKLFLEKF----GI----KSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEK 229 (486)
Q Consensus 159 k-~~~~~~k~IIFvns~~~~~~l~~~L~~~----gi----~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~ 229 (486)
. +-+..-+||-||.++.-|+-+-...+.. +. .+.-+.|+....+|..|..+.-.|...-+|||+..|
T Consensus 519 ~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALE---- 594 (1034)
T KOG4150|consen 519 AEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALE---- 594 (1034)
T ss_pred HHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCCeeeEEEecchhh----
Confidence 1 1122458999999999998775544332 21 234578999999999999999999999999999876
Q ss_pred ccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcc
Q 011428 230 DQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPD 304 (486)
Q Consensus 230 ~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~ 304 (486)
+ |||+...+.|++.++|.|...+.|..||+||.+++..++.++...
T Consensus 595 ---------------------------L--GIDIG~LDAVl~~GFP~S~aNl~QQ~GRAGRRNk~SLavyva~~~ 640 (1034)
T KOG4150|consen 595 ---------------------------L--GIDIGHLDAVLHLGFPGSIANLWQQAGRAGRRNKPSLAVYVAFLG 640 (1034)
T ss_pred ---------------------------h--ccccccceeEEEccCchhHHHHHHHhccccccCCCceEEEEEecc
Confidence 3 999999999999999999999999999999999998887766543
No 114
>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=99.41 E-value=1.7e-12 Score=122.36 Aligned_cols=107 Identities=36% Similarity=0.521 Sum_probs=97.3
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI 90 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l 90 (486)
.++.+..++|+.+.......+..+++|+|+||+++.+++.++. ..+.+++++|+||||.+.+.++...+..+...+
T Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~----~~~~~l~~lIvDE~h~~~~~~~~~~~~~~~~~l 171 (203)
T cd00268 96 TNLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGK----LDLSKVKYLVLDEADRMLDMGFEDQIREILKLL 171 (203)
T ss_pred CCceEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCC----CChhhCCEEEEeChHHhhccChHHHHHHHHHhC
Confidence 4788999999998877777777799999999999999998765 677899999999999999999999999999999
Q ss_pred CCCccEEEEeeecChhHHHHHHHhccCCcEE
Q 011428 91 PRGCQCLLMSATSSSDVDKLKKLILHNPYIL 121 (486)
Q Consensus 91 p~~~q~il~SATl~~~v~~l~~~~l~~p~~i 121 (486)
+..+|++++|||+++++..+...++.+|+.+
T Consensus 172 ~~~~~~~~~SAT~~~~~~~~~~~~~~~~~~~ 202 (203)
T cd00268 172 PKDRQTLLFSATMPKEVRDLARKFLRNPVRI 202 (203)
T ss_pred CcccEEEEEeccCCHHHHHHHHHHCCCCEEe
Confidence 9999999999999999999999999998876
No 115
>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=99.39 E-value=5e-11 Score=123.37 Aligned_cols=247 Identities=18% Similarity=0.205 Sum_probs=180.9
Q ss_pred CCcEEEECcchHHHHHHcC--CCCCCcCCCCcceEEecccccccC--CCcHHHHHHHHHHCCC-----------------
Q 011428 34 PPDIVIATPGCMPKCLSTG--VLQSKSFSDSLKILVLDEADLLLS--YGYEDDLKALSAVIPR----------------- 92 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~--~~~~~~~l~~l~~lViDEad~ll~--~g~~~~l~~i~~~lp~----------------- 92 (486)
..|||||+|=-|...+... .-....+|+++.++|||.||.|+- |.+-..+-..+...|+
T Consensus 131 ~SDIIiASPLGLr~~i~~~~~~~~d~DFLSSIEv~iiD~ad~l~MQNW~Hv~~v~~~lN~~P~~~~~~DfsRVR~w~Ldg 210 (442)
T PF06862_consen 131 SSDIIIASPLGLRMIIGEEGEKKRDYDFLSSIEVLIIDQADVLLMQNWEHVLHVFEHLNLQPKKSHDTDFSRVRPWYLDG 210 (442)
T ss_pred cCCEEEEChHHHHHHhccccccccccchhheeeeEeechhhHHHHhhHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHcC
Confidence 7899999999888777741 112346789999999999999874 3333344444444453
Q ss_pred ----CccEEEEeeecChhHHHHHHHhccCCc-EEEcCCcCC--cccccccCcceEEEEEcc-------hhhhHHHHHH-H
Q 011428 93 ----GCQCLLMSATSSSDVDKLKKLILHNPY-ILTLPEVGD--VKDEVIPKNVQQFWISCS-------ERDKLLYILT-L 157 (486)
Q Consensus 93 ----~~q~il~SATl~~~v~~l~~~~l~~p~-~i~l~~~~~--~~~~~~~~~l~q~~i~~~-------~~~k~~~l~~-l 157 (486)
-+|+|++|+..++++..|....+.|.. .+.+..... ........++.|.+...+ .+.++.+... +
T Consensus 211 ~a~~~RQtii~S~~~~pe~~slf~~~~~N~~G~v~~~~~~~~~g~i~~v~~~v~Q~F~r~~~~s~~~~~d~Rf~yF~~~i 290 (442)
T PF06862_consen 211 QAKYYRQTIIFSSFQTPEINSLFNRHCQNYAGKVRLKPPYEASGVISQVVVQVRQVFQRFDCSSPADDPDARFKYFTKKI 290 (442)
T ss_pred cchheeEeEEecCCCCHHHHHHHHhhCcCccceEEEeeccccceeeeccccCCceEEEEecCCCcchhhhHHHHHHHHHH
Confidence 269999999999999999998777643 222222111 111234457788777643 2345554443 2
Q ss_pred HHh---hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCC
Q 011428 158 LKL---ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDE 234 (486)
Q Consensus 158 lk~---~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~ 234 (486)
|-. ....+.+|||++|--.-.+|..+|...++..+.+|--.+..+-...-..|..|...||+.|.-..
T Consensus 291 LP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~~~iLL~TER~H--------- 361 (442)
T PF06862_consen 291 LPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHGRKPILLYTERFH--------- 361 (442)
T ss_pred HHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCCceEEEEEhHHh---------
Confidence 211 22357899999999999999999999999999999999999999999999999999999996543
Q ss_pred CCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCC------CCceEEEEeCcchhhH
Q 011428 235 GGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAY------NTGASVSLVSPDEMKI 308 (486)
Q Consensus 235 ~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g------~~G~ai~fv~~~e~~~ 308 (486)
..|-..+.+|..||.|.+|..+.-|-.-+.-.+... ..+.+.++++..|.-.
T Consensus 362 ----------------------FfrRy~irGi~~viFY~~P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk~D~~~ 419 (442)
T PF06862_consen 362 ----------------------FFRRYRIRGIRHVIFYGPPENPQFYSELLNMLDESSGGEVDAADATVTVLYSKYDALR 419 (442)
T ss_pred ----------------------hhhhceecCCcEEEEECCCCChhHHHHHHhhhcccccccccccCceEEEEecHhHHHH
Confidence 457788899999999999999998887775544433 2678999999888754
Q ss_pred HHH
Q 011428 309 FEE 311 (486)
Q Consensus 309 ~~~ 311 (486)
++.
T Consensus 420 LEr 422 (442)
T PF06862_consen 420 LER 422 (442)
T ss_pred HHH
Confidence 443
No 116
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=99.38 E-value=7.8e-11 Score=128.79 Aligned_cols=128 Identities=24% Similarity=0.222 Sum_probs=102.6
Q ss_pred EEcchhhhHHHHHHHHHh-hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC-CcEEEE
Q 011428 143 ISCSERDKLLYILTLLKL-ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL-FDYLIA 220 (486)
Q Consensus 143 i~~~~~~k~~~l~~llk~-~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~-~~iLIa 220 (486)
+..+...|+..+..-++. +..+.++||.|.|++.++.|+..|.+.|++..+||+.-...+ ..|+. +.|. -.|.||
T Consensus 404 iy~t~~~K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~e~E-A~IIa--~AG~~GaVTIA 480 (925)
T PRK12903 404 IFGTKHAKWKAVVKEVKRVHKKGQPILIGTAQVEDSETLHELLLEANIPHTVLNAKQNARE-AEIIA--KAGQKGAITIA 480 (925)
T ss_pred EEEcHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCceeecccchhhH-HHHHH--hCCCCCeEEEe
Confidence 455677888877765553 445669999999999999999999999999999999633222 23332 5564 469999
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCcc--------EEEEeCCCCChhhHHHhhhhcccCC
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVH--------TVINFEMPQNAAGYVHRIGRTGRAY 292 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~--------~VI~~d~P~s~~~yihRiGRtgR~g 292 (486)
|+++ .||.||.--. +||....|.|..-=-|-.||+||.|
T Consensus 481 TNMA---------------------------------GRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRaGRQG 527 (925)
T PRK12903 481 TNMA---------------------------------GRGTDIKLSKEVLELGGLYVLGTDKAESRRIDNQLRGRSGRQG 527 (925)
T ss_pred cccc---------------------------------cCCcCccCchhHHHcCCcEEEecccCchHHHHHHHhcccccCC
Confidence 9996 4999997433 8999999999888889999999999
Q ss_pred CCceEEEEeCcchh
Q 011428 293 NTGASVSLVSPDEM 306 (486)
Q Consensus 293 ~~G~ai~fv~~~e~ 306 (486)
.+|.+-.|++-.|.
T Consensus 528 DpGss~f~lSLeD~ 541 (925)
T PRK12903 528 DVGESRFFISLDDQ 541 (925)
T ss_pred CCCcceEEEecchH
Confidence 99999999998765
No 117
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.36 E-value=3.6e-11 Score=131.54 Aligned_cols=209 Identities=22% Similarity=0.386 Sum_probs=134.3
Q ss_pred CCeeEEEEeCCCCHHHHHHH----HcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC--------
Q 011428 11 VQLKVVQLTSSMPASDLRAA----LAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG-------- 78 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~----l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g-------- 78 (486)
+++.++ ..|..+..+.... -.+..||+|+|.+-|...... +.--+++++++|.+|-++-.+
T Consensus 155 ~~~~~~-yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~------L~~~kFdfifVDDVDA~LkaskNvDriL~ 227 (1187)
T COG1110 155 LDVLVV-YHSALPTKEKEEALERIESGDFDILITTSQFLSKRFEE------LSKLKFDFIFVDDVDAILKASKNVDRLLR 227 (1187)
T ss_pred cceeee-eccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHHH------hcccCCCEEEEccHHHHHhccccHHHHHH
Confidence 345555 6677666554433 346899999997766555543 222468999999999987433
Q ss_pred ---cHHH-H------HHHHHHC------------------------CCCccEEEEeeecChhHH--HHHHHhccCCcEEE
Q 011428 79 ---YEDD-L------KALSAVI------------------------PRGCQCLLMSATSSSDVD--KLKKLILHNPYILT 122 (486)
Q Consensus 79 ---~~~~-l------~~i~~~l------------------------p~~~q~il~SATl~~~v~--~l~~~~l~~p~~i~ 122 (486)
|.++ + ..+...+ .+..+++.+|||..+.-. .+.+..+. +.
T Consensus 228 LlGf~eE~i~~a~~~~~lr~~~~~~~~~~~~~e~~~~~e~~~~~~r~k~g~LvvsSATg~~rg~R~~LfReLlg----Fe 303 (1187)
T COG1110 228 LLGFSEEVIESAYELIKLRRKLYGEKRAERVREELREVEREREKKRRKLGILVVSSATGKPRGSRLKLFRELLG----FE 303 (1187)
T ss_pred HcCCCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhccCCceEEEeeccCCCCCchHHHHHHHhC----Cc
Confidence 3221 1 1111111 134689999999866532 22222222 11
Q ss_pred cCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEEEecC---HHHHHHHHHHHHHcCCceeecCCCCC
Q 011428 123 LPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKALIFTNT---IDMAFRLKLFLEKFGIKSAILNAELP 199 (486)
Q Consensus 123 l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns---~~~~~~l~~~L~~~gi~~~~lhs~l~ 199 (486)
+.. ......|+...|+..+..++ +..+++.- +.-.||||+. ++.++.++.+|+..|+++..+|++
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 VGS-----GGEGLRNIVDIYVESESLEK---VVELVKKL--GDGGLIFVPIDYGREKAEELAEYLRSHGINAELIHAE-- 371 (1187)
T ss_pred cCc-----cchhhhheeeeeccCccHHH---HHHHHHHh--CCCeEEEEEcHHhHHHHHHHHHHHHhcCceEEEeecc--
Confidence 111 22334566666666533333 34444432 3468999999 999999999999999999999994
Q ss_pred HHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCccccccc-ccccCccC-CccEEEEeCCC
Q 011428 200 QNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFG-VVRGIDFK-NVHTVINFEMP 275 (486)
Q Consensus 200 ~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g-vsrGID~~-~V~~VI~~d~P 275 (486)
....++.|..|++++||.... -|| +.||||+| -+.++|.+++|
T Consensus 372 ---~~~~le~F~~GeidvLVGvAs------------------------------yYG~lVRGlDLP~rirYaIF~GvP 416 (1187)
T COG1110 372 ---KEEALEDFEEGEVDVLVGVAS------------------------------YYGVLVRGLDLPHRIRYAVFYGVP 416 (1187)
T ss_pred ---chhhhhhhccCceeEEEEecc------------------------------cccceeecCCchhheeEEEEecCC
Confidence 367899999999999998854 233 45888887 45577777776
No 118
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.33 E-value=8.7e-11 Score=128.37 Aligned_cols=251 Identities=22% Similarity=0.243 Sum_probs=156.6
Q ss_pred HHHhhcCCCeeEEEEeCCCCHHH----HHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC---
Q 011428 4 IELCKGQVQLKVVQLTSSMPASD----LRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS--- 76 (486)
Q Consensus 4 ~~~~~~~~~i~v~~l~g~~~~~~----q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~--- 76 (486)
++......+.++..+.++.+..+ +.....+...|||||=..+ . ..+.+|.++||||-|.-.-
T Consensus 262 ~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAl----F-------~Pf~~LGLIIvDEEHD~sYKq~ 330 (730)
T COG1198 262 LARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSAL----F-------LPFKNLGLIIVDEEHDSSYKQE 330 (730)
T ss_pred HHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCceEEEEechhh----c-------CchhhccEEEEeccccccccCC
Confidence 33344445667888888877653 3345568899999993222 1 4578999999999998542
Q ss_pred CC---cHHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchh-hhH-
Q 011428 77 YG---YEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSER-DKL- 151 (486)
Q Consensus 77 ~g---~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~-~k~- 151 (486)
.+ +..++..+....- ++++||-|||.+- +.+....-.....+.+..... .... ....++....+ ...
T Consensus 331 ~~prYhARdvA~~Ra~~~-~~pvvLgSATPSL--ES~~~~~~g~y~~~~L~~R~~---~a~~--p~v~iiDmr~e~~~~~ 402 (730)
T COG1198 331 DGPRYHARDVAVLRAKKE-NAPVVLGSATPSL--ESYANAESGKYKLLRLTNRAG---RARL--PRVEIIDMRKEPLETG 402 (730)
T ss_pred cCCCcCHHHHHHHHHHHh-CCCEEEecCCCCH--HHHHhhhcCceEEEEcccccc---ccCC--CcceEEeccccccccC
Confidence 11 3456666666554 8999999999664 444333111123333333111 1111 11222222211 111
Q ss_pred ----HHHHHHHHhhcc-CCeEEEEecCH----------------------------------------------------
Q 011428 152 ----LYILTLLKLELV-QKKALIFTNTI---------------------------------------------------- 174 (486)
Q Consensus 152 ----~~l~~llk~~~~-~~k~IIFvns~---------------------------------------------------- 174 (486)
..|+..++..+. +.++|+|+|.+
T Consensus 403 ~~lS~~Ll~~i~~~l~~geQ~llflnRRGys~~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cg 482 (730)
T COG1198 403 RSLSPALLEAIRKTLERGEQVLLFLNRRGYAPLLLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECG 482 (730)
T ss_pred ccCCHHHHHHHHHHHhcCCeEEEEEccCCccceeecccCCCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCC
Confidence 344444444443 45788887753
Q ss_pred --------HHHHHHHHHHHHc--CCceeecCCCCCHHH--HHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccc
Q 011428 175 --------DMAFRLKLFLEKF--GIKSAILNAELPQNS--RLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRK 242 (486)
Q Consensus 175 --------~~~~~l~~~L~~~--gi~~~~lhs~l~~~~--R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~ 242 (486)
--++++...|..+ +.++..+.++..... -...+.+|..|+++|||.|.+
T Consensus 483 s~~L~~~G~GterieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQm------------------- 543 (730)
T COG1198 483 SEHLRAVGPGTERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQM------------------- 543 (730)
T ss_pred CCeeEEecccHHHHHHHHHHHCCCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchh-------------------
Confidence 3345566666554 456667777765533 467899999999999999999
Q ss_pred ccCCCCCcccccccccccCccCCccEEEEeCC------CC------ChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 243 SKKHPKAKLDSEFGVVRGIDFKNVHTVINFEM------PQ------NAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 243 ~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~------P~------s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
++.|.|||+|+.|...|. |. +...|+|=.||+||++.+|.+++-...-+.
T Consensus 544 --------------iaKG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~QvaGRAgR~~~~G~VvIQT~~P~h 605 (730)
T COG1198 544 --------------IAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDH 605 (730)
T ss_pred --------------hhcCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHHHhhhccCCCCCeEEEEeCCCCc
Confidence 578999999998765443 21 244568888999999999998876655543
No 119
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.29 E-value=1.9e-09 Score=116.52 Aligned_cols=129 Identities=22% Similarity=0.213 Sum_probs=101.6
Q ss_pred EEEcchhhhHHHHHHHH-HhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC-CcEEE
Q 011428 142 WISCSERDKLLYILTLL-KLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL-FDYLI 219 (486)
Q Consensus 142 ~i~~~~~~k~~~l~~ll-k~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~-~~iLI 219 (486)
.+.....+|+..+..-+ ..+..+.++||.|.|++.++.|...|.+.|++..+||+.-...+ ..|+. ..|. -.|.|
T Consensus 404 ~iy~t~~~k~~Aii~ei~~~~~~GrPVLVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~~~E-A~IIa--~AG~~gaVTI 480 (764)
T PRK12326 404 RVYATAAEKNDAIVEHIAEVHETGQPVLVGTHDVAESEELAERLRAAGVPAVVLNAKNDAEE-ARIIA--EAGKYGAVTV 480 (764)
T ss_pred ceEeCHHHHHHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHhCCCcceeeccCchHhH-HHHHH--hcCCCCcEEE
Confidence 34445667877776555 44455679999999999999999999999999999998744333 33333 3453 35999
Q ss_pred EcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCC---------------ccEEEEeCCCCChhhHHHh
Q 011428 220 ATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN---------------VHTVINFEMPQNAAGYVHR 284 (486)
Q Consensus 220 aTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~---------------V~~VI~~d~P~s~~~yihR 284 (486)
||+++. ||.||.- ==+||-...|.|..-=-|-
T Consensus 481 ATNMAG---------------------------------RGTDIkLg~~~~~~~~~V~~~GGLhVIgTerheSrRID~QL 527 (764)
T PRK12326 481 STQMAG---------------------------------RGTDIRLGGSDEADRDRVAELGGLHVIGTGRHRSERLDNQL 527 (764)
T ss_pred EecCCC---------------------------------CccCeecCCCcccchHHHHHcCCcEEEeccCCchHHHHHHH
Confidence 999964 8988862 2378989999999999999
Q ss_pred hhhcccCCCCceEEEEeCcchh
Q 011428 285 IGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 285 iGRtgR~g~~G~ai~fv~~~e~ 306 (486)
.||+||.|.+|.+-.|++-+|.
T Consensus 528 rGRaGRQGDpGss~f~lSleDd 549 (764)
T PRK12326 528 RGRAGRQGDPGSSVFFVSLEDD 549 (764)
T ss_pred hcccccCCCCCceeEEEEcchh
Confidence 9999999999999999997765
No 120
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.29 E-value=6.8e-10 Score=122.60 Aligned_cols=129 Identities=26% Similarity=0.273 Sum_probs=100.9
Q ss_pred EEEcchhhhHHHHHHHHHh-hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC-CcEEE
Q 011428 142 WISCSERDKLLYILTLLKL-ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL-FDYLI 219 (486)
Q Consensus 142 ~i~~~~~~k~~~l~~llk~-~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~-~~iLI 219 (486)
.+..+..+|+..+..-++. +..+.++||-+.|++.++.|...|...|++.-+||+.....+ ..|+. +.|. -.|.|
T Consensus 426 ~vy~t~~eK~~Ai~~ei~~~~~~GrPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~~~E-A~IIa--~AG~~GaVTI 502 (913)
T PRK13103 426 LVYLTAEEKYAAIITDIKECMALGRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAKYHEKE-AEIIA--QAGRPGALTI 502 (913)
T ss_pred eEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCCHHHHHHHHHHHHHcCCcHHHhccccchhH-HHHHH--cCCCCCcEEE
Confidence 3455667888877765554 444679999999999999999999999999999999754332 23333 4553 46999
Q ss_pred EcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccC-----------------------------------
Q 011428 220 ATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFK----------------------------------- 264 (486)
Q Consensus 220 aTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~----------------------------------- 264 (486)
||+++. ||.||.
T Consensus 503 ATNMAG---------------------------------RGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~~~~~~~e~V~ 549 (913)
T PRK13103 503 ATNMAG---------------------------------RGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVI 549 (913)
T ss_pred eccCCC---------------------------------CCCCEecCCchHHHHHhhhhhhHHHHHHHHHHHHhHHHHHH
Confidence 999974 888884
Q ss_pred --CccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 265 --NVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 265 --~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
+==+||--..|.|..-=-|-.||+||-|.+|.+-.|++-.|.
T Consensus 550 e~GGLhVIgTerheSrRID~QLrGRaGRQGDPGsS~f~lSlED~ 593 (913)
T PRK13103 550 EAGGLHVIASERHESRRIDNQLRGRAGRQGDPGSSRFYLSLEDS 593 (913)
T ss_pred HcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEEEcCcH
Confidence 112688888898988888999999999999999999998664
No 121
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.28 E-value=4.7e-11 Score=125.24 Aligned_cols=218 Identities=21% Similarity=0.238 Sum_probs=147.8
Q ss_pred cEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC--cHHHHHHHHHHCCCCccEEEEeeecChhHHHHHHH
Q 011428 36 DIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG--YEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKL 113 (486)
Q Consensus 36 dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g--~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~ 113 (486)
-|=+.|-|.|+.-.-.. ..|+..+++|+||||.=.-.. ....++.++..- .+..+|.+||||.. +.+...
T Consensus 447 ~IkymTDGiLLrEsL~d-----~~L~kYSviImDEAHERslNtDilfGllk~~larR-rdlKliVtSATm~a--~kf~nf 518 (1042)
T KOG0924|consen 447 KIKYMTDGILLRESLKD-----RDLDKYSVIIMDEAHERSLNTDILFGLLKKVLARR-RDLKLIVTSATMDA--QKFSNF 518 (1042)
T ss_pred eEEEeccchHHHHHhhh-----hhhhheeEEEechhhhcccchHHHHHHHHHHHHhh-ccceEEEeeccccH--HHHHHH
Confidence 35678888876633322 457889999999999842111 112233333322 37899999999874 456665
Q ss_pred hccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHH-HHHH--hhccCCeEEEEecCHHH----HHHHHHHHHH
Q 011428 114 ILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYIL-TLLK--LELVQKKALIFTNTIDM----AFRLKLFLEK 186 (486)
Q Consensus 114 ~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~-~llk--~~~~~~k~IIFvns~~~----~~~l~~~L~~ 186 (486)
|. +...+.++. . .-.+.-.|...+-++-..... ..+. +....|-+|||..-.+. |..+...|.+
T Consensus 519 Fg-n~p~f~IpG-----R---TyPV~~~~~k~p~eDYVeaavkq~v~Ihl~~~~GdilIfmtGqediE~t~~~i~~~l~q 589 (1042)
T KOG0924|consen 519 FG-NCPQFTIPG-----R---TYPVEIMYTKTPVEDYVEAAVKQAVQIHLSGPPGDILIFMTGQEDIECTCDIIKEKLEQ 589 (1042)
T ss_pred hC-CCceeeecC-----C---ccceEEEeccCchHHHHHHHHhhheEeeccCCCCCEEEecCCCcchhHHHHHHHHHHHh
Confidence 55 444444433 1 113444555555444433322 2222 23345789999976544 5555555555
Q ss_pred c------CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCccccccccccc
Q 011428 187 F------GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRG 260 (486)
Q Consensus 187 ~------gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrG 260 (486)
. ++.+..+.+.||..-...|++.--.|.-++||||+++| ..
T Consensus 590 l~~~~~~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAE---------------------------------TS 636 (1042)
T KOG0924|consen 590 LDSAPTTDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAE---------------------------------TS 636 (1042)
T ss_pred hhcCCCCceEEEeehhhCchhhhhhhcccCCCCceeEEEeccchh---------------------------------hc
Confidence 4 56788999999999999999888899999999999987 37
Q ss_pred CccCCccEEEEeCC------------------CCChhhHHHhhhhcccCCCCceEEEEeCcc
Q 011428 261 IDFKNVHTVINFEM------------------PQNAAGYVHRIGRTGRAYNTGASVSLVSPD 304 (486)
Q Consensus 261 ID~~~V~~VI~~d~------------------P~s~~~yihRiGRtgR~g~~G~ai~fv~~~ 304 (486)
+-++++.+||..++ |.|-..--||.||+||.| +|+|+-+++..
T Consensus 637 LTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~AnA~QRaGRAGRt~-pG~cYRlYTe~ 697 (1042)
T KOG0924|consen 637 LTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQANADQRAGRAGRTG-PGTCYRLYTED 697 (1042)
T ss_pred eeecceEEEEecCceeeeecccccccceeEEEechhccchhhccccCCCC-Ccceeeehhhh
Confidence 88899999997443 667778899999999986 79999999874
No 122
>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=99.27 E-value=1.6e-11 Score=111.84 Aligned_cols=96 Identities=31% Similarity=0.434 Sum_probs=80.7
Q ss_pred CCeeEEEEeCCCCHH-HHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHH
Q 011428 11 VQLKVVQLTSSMPAS-DLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAV 89 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~-~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~ 89 (486)
.++++..++|+.+.. .+...+..+++|+|+||+++.+++..+. ..+.++++|||||+|.+.+++|...+..++..
T Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~~~----~~~~~~~~iViDE~h~l~~~~~~~~~~~i~~~ 146 (169)
T PF00270_consen 71 TNVRVVLLHGGQSISEDQREVLSNQADILVTTPEQLLDLISNGK----INISRLSLIVIDEAHHLSDETFRAMLKSILRR 146 (169)
T ss_dssp TTSSEEEESTTSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHTTS----STGTTESEEEEETHHHHHHTTHHHHHHHHHHH
T ss_pred cccccccccccccccccccccccccccccccCcchhhccccccc----cccccceeeccCcccccccccHHHHHHHHHHH
Confidence 468999999999865 5556677789999999999999999754 35566999999999999999989999999888
Q ss_pred CC--CCccEEEEeeecChhHHHH
Q 011428 90 IP--RGCQCLLMSATSSSDVDKL 110 (486)
Q Consensus 90 lp--~~~q~il~SATl~~~v~~l 110 (486)
+. .+.|+++||||++..++.+
T Consensus 147 ~~~~~~~~~i~~SAT~~~~~~~~ 169 (169)
T PF00270_consen 147 LKRFKNIQIILLSATLPSNVEKL 169 (169)
T ss_dssp SHTTTTSEEEEEESSSTHHHHHH
T ss_pred hcCCCCCcEEEEeeCCChhHhhC
Confidence 73 3689999999999776653
No 123
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=99.25 E-value=3.7e-10 Score=120.25 Aligned_cols=124 Identities=25% Similarity=0.338 Sum_probs=102.6
Q ss_pred hhHHHHHHHHH-hhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC---CcEEEEcCCC
Q 011428 149 DKLLYILTLLK-LELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL---FDYLIATDDT 224 (486)
Q Consensus 149 ~k~~~l~~llk-~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~---~~iLIaTd~~ 224 (486)
-|+.+|-.+|. +...+.++|||..-.....-|..++.-.++..|-+.|.++.++|...++.||... +-.|++|-..
T Consensus 471 GKm~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAG 550 (971)
T KOG0385|consen 471 GKMLVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAG 550 (971)
T ss_pred cceehHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEecccc
Confidence 45666666653 2334569999999998888899999999999999999999999999999998864 4577888553
Q ss_pred CccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEE--EeC
Q 011428 225 QTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVS--LVS 302 (486)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~--fv~ 302 (486)
|+ |||+...+.||.||--+++..=+|-.-||.|.|+.-.+.+ |++
T Consensus 551 -------------------------------GL--GINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLit 597 (971)
T KOG0385|consen 551 -------------------------------GL--GINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLIT 597 (971)
T ss_pred -------------------------------cc--ccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEEec
Confidence 46 9999999999999999999999999999999998666555 466
Q ss_pred cch
Q 011428 303 PDE 305 (486)
Q Consensus 303 ~~e 305 (486)
.+.
T Consensus 598 ent 600 (971)
T KOG0385|consen 598 ENT 600 (971)
T ss_pred cch
Confidence 553
No 124
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=99.20 E-value=1.3e-10 Score=119.82 Aligned_cols=256 Identities=20% Similarity=0.215 Sum_probs=157.5
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCc-HHHHHHHHHHC
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGY-EDDLKALSAVI 90 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~-~~~l~~i~~~l 90 (486)
||.|-.++|......+-. ...+..+=+|-+++ ..-...++.||||...|-+..- -...++++...
T Consensus 239 gipCdL~TGeE~~~~~~~--~~~a~hvScTVEM~------------sv~~~yeVAViDEIQmm~Dp~RGwAWTrALLGl~ 304 (700)
T KOG0953|consen 239 GIPCDLLTGEERRFVLDN--GNPAQHVSCTVEMV------------SVNTPYEVAVIDEIQMMRDPSRGWAWTRALLGLA 304 (700)
T ss_pred CCCccccccceeeecCCC--CCcccceEEEEEEe------------ecCCceEEEEehhHHhhcCcccchHHHHHHHhhh
Confidence 677777777533222211 12466777775432 1224578999999999876421 24556666655
Q ss_pred CCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcce-EEEEEcchhhhHHHHHHHHHhhccCCeEEE
Q 011428 91 PRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQ-QFWISCSERDKLLYILTLLKLELVQKKALI 169 (486)
Q Consensus 91 p~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~-q~~i~~~~~~k~~~l~~llk~~~~~~k~II 169 (486)
....+..+=- .+-.|.+..+.. +.+.+. .+|-...+-.-...+..-++ ++.+|-|||
T Consensus 305 AdEiHLCGep-----svldlV~~i~k~----------------TGd~vev~~YeRl~pL~v~~~~~~sl~-nlk~GDCvV 362 (700)
T KOG0953|consen 305 ADEIHLCGEP-----SVLDLVRKILKM----------------TGDDVEVREYERLSPLVVEETALGSLS-NLKPGDCVV 362 (700)
T ss_pred hhhhhccCCc-----hHHHHHHHHHhh----------------cCCeeEEEeecccCcceehhhhhhhhc-cCCCCCeEE
Confidence 5444433321 222333333210 111111 11211111111111222222 344677765
Q ss_pred EecCHHHHHHHHHHHHHcCCc-eeecCCCCCHHHHHHHHHHHhc--CCCcEEEEcCCCCccccccCCCCCCcccccccCC
Q 011428 170 FTNTIDMAFRLKLFLEKFGIK-SAILNAELPQNSRLHILEEFNA--GLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKH 246 (486)
Q Consensus 170 Fvns~~~~~~l~~~L~~~gi~-~~~lhs~l~~~~R~~i~~~F~~--g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~ 246 (486)
|-++...+.++..+++.|.. ++++.|.||++.|.+--..||. ++++||||||..
T Consensus 363 -~FSkk~I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAsDAI---------------------- 419 (700)
T KOG0953|consen 363 -AFSKKDIFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDVLVASDAI---------------------- 419 (700)
T ss_pred -EeehhhHHHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccceEEeeccc----------------------
Confidence 45778899999999999887 9999999999999999999999 899999999874
Q ss_pred CCCcccccccccccCccCCccEEEEeCC---------CCChhhHHHhhhhcccCCC---CceEEEEeCcchhhHHHHHHH
Q 011428 247 PKAKLDSEFGVVRGIDFKNVHTVINFEM---------PQNAAGYVHRIGRTGRAYN---TGASVSLVSPDEMKIFEEIKS 314 (486)
Q Consensus 247 ~~~~~~~~~gvsrGID~~~V~~VI~~d~---------P~s~~~yihRiGRtgR~g~---~G~ai~fv~~~e~~~~~~~~~ 314 (486)
|| |+|+ +++-||.+++ |.++.+..|-+|||||.|. .|.+.+|... -+..+.+
T Consensus 420 ---------GM--GLNL-~IrRiiF~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~~~G~vTtl~~e----DL~~L~~ 483 (700)
T KOG0953|consen 420 ---------GM--GLNL-NIRRIIFYSLIKYSGRETEDITVSQIKQIAGRAGRFGSKYPQGEVTTLHSE----DLKLLKR 483 (700)
T ss_pred ---------cc--cccc-ceeEEEEeecccCCcccceeccHHHHHHHhhcccccccCCcCceEEEeeHh----hHHHHHH
Confidence 36 9998 7888998876 4578889999999999874 5666666543 3455566
Q ss_pred Hhccccccc-cCCCCCcccccHHHHHHHHhhHH
Q 011428 315 FVGDDENED-SNIIAPFPLLAQNAVESLRYRAE 346 (486)
Q Consensus 315 ~l~~~~~~~-~~~~~~~~~~~~~~ve~~~~r~~ 346 (486)
.+....+.. ..++-|.. +++|-|.|..-
T Consensus 484 ~l~~p~epi~~agl~pt~----eqie~fa~~~P 512 (700)
T KOG0953|consen 484 ILKRPVEPIKNAGLWPTD----EQIELFAYHLP 512 (700)
T ss_pred HHhCCchHHHhccCCccH----HHHHHHHHhCC
Confidence 665443332 33354544 67777776543
No 125
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.14 E-value=3.1e-10 Score=121.03 Aligned_cols=223 Identities=18% Similarity=0.217 Sum_probs=144.7
Q ss_pred CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHH-------HHCCC------CccEEEE
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALS-------AVIPR------GCQCLLM 99 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~-------~~lp~------~~q~il~ 99 (486)
....|.++|-|.|+.-+.+. +.|...+.+||||||.=.= +-+.+--++ ....+ ....|+|
T Consensus 348 e~T~IkFMTDGVLLrEi~~D-----flL~kYSvIIlDEAHERSv--nTDILiGmLSRiV~LR~k~~ke~~~~kpLKLIIM 420 (1172)
T KOG0926|consen 348 EDTSIKFMTDGVLLREIEND-----FLLTKYSVIILDEAHERSV--NTDILIGMLSRIVPLRQKYYKEQCQIKPLKLIIM 420 (1172)
T ss_pred CCceeEEecchHHHHHHHHh-----HhhhhceeEEechhhhccc--hHHHHHHHHHHHHHHHHHHhhhhcccCceeEEEE
Confidence 35679999999999988864 7789999999999998321 112222222 22222 4578999
Q ss_pred eeecCh-hHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHH---HHHHhhccCCeEEEEecCHH
Q 011428 100 SATSSS-DVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYIL---TLLKLELVQKKALIFTNTID 175 (486)
Q Consensus 100 SATl~~-~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~---~llk~~~~~~k~IIFvns~~ 175 (486)
||||-- +..+-+.+|---|.+|+++. .+. .+.-++-.-...+-..-.| ..+...++.|-+|||+.-..
T Consensus 421 SATLRVsDFtenk~LFpi~pPlikVdA-----RQf---PVsIHF~krT~~DYi~eAfrKtc~IH~kLP~G~ILVFvTGQq 492 (1172)
T KOG0926|consen 421 SATLRVSDFTENKRLFPIPPPLIKVDA-----RQF---PVSIHFNKRTPDDYIAEAFRKTCKIHKKLPPGGILVFVTGQQ 492 (1172)
T ss_pred eeeEEecccccCceecCCCCceeeeec-----ccC---ceEEEeccCCCchHHHHHHHHHHHHhhcCCCCcEEEEEeChH
Confidence 999852 22223455555566776644 111 1111111111222111111 11234577899999999988
Q ss_pred HHHHHHHHHHHc--------------------------------------------------------------------
Q 011428 176 MAFRLKLFLEKF-------------------------------------------------------------------- 187 (486)
Q Consensus 176 ~~~~l~~~L~~~-------------------------------------------------------------------- 187 (486)
.+..|...|+..
T Consensus 493 EV~qL~~kLRK~~p~~f~~~k~~k~~k~~~e~k~~~s~~~~~~k~~dfe~Ed~~~~~ed~d~~~~~~~~~~~raa~~~~~ 572 (1172)
T KOG0926|consen 493 EVDQLCEKLRKRFPESFGGVKMKKNVKAFKELKENPSDIGDSNKTDDFEEEDMYESDEDIDQELVDSGFASLRAAFNALA 572 (1172)
T ss_pred HHHHHHHHHHhhCccccccchhhhhhhhccccccchhhhccCcccccchhcccccchhhhhhhhhcccchhhhhhhhccc
Confidence 888888877643
Q ss_pred -------------------------------CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCC
Q 011428 188 -------------------------------GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGG 236 (486)
Q Consensus 188 -------------------------------gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~ 236 (486)
-..|..|+|-|+......+++.--.|.--++|||+++|
T Consensus 573 De~~~~nge~e~d~~e~~~E~~~~~~~~~~~pLyvLPLYSLLs~~~Q~RVF~~~p~g~RLcVVaTNVAE----------- 641 (1172)
T KOG0926|consen 573 DENGSVNGEPEKDESEEGQEAEQGKGKFSPGPLYVLPLYSLLSTEKQMRVFDEVPKGERLCVVATNVAE----------- 641 (1172)
T ss_pred cccccccCCcccchhhhchhhhhccCCCCCCceEEeehhhhcCHHHhhhhccCCCCCceEEEEeccchh-----------
Confidence 01234556667777777777777778888999999986
Q ss_pred CcccccccCCCCCcccccccccccCccCCccEEEE--------eCCCCCh----------hhHHHhhhhcccCCCCceEE
Q 011428 237 HVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN--------FEMPQNA----------AGYVHRIGRTGRAYNTGASV 298 (486)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~--------~d~P~s~----------~~yihRiGRtgR~g~~G~ai 298 (486)
..+-||+|.+||. ||--..+ .+--||+||+||.| +|.|+
T Consensus 642 ----------------------TSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtg-pGHcY 698 (1172)
T KOG0926|consen 642 ----------------------TSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTG-PGHCY 698 (1172)
T ss_pred ----------------------cccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCC-CCcee
Confidence 4889999999996 4444333 34479999999987 68998
Q ss_pred EEeCcc
Q 011428 299 SLVSPD 304 (486)
Q Consensus 299 ~fv~~~ 304 (486)
-+++..
T Consensus 699 RLYSSA 704 (1172)
T KOG0926|consen 699 RLYSSA 704 (1172)
T ss_pred ehhhhH
Confidence 887653
No 126
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=99.07 E-value=4.2e-08 Score=108.18 Aligned_cols=82 Identities=26% Similarity=0.227 Sum_probs=60.6
Q ss_pred EEEcchhhhHHHHHHH-HHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCC-CHHHHHHHHHHHhcCC-CcEE
Q 011428 142 WISCSERDKLLYILTL-LKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAEL-PQNSRLHILEEFNAGL-FDYL 218 (486)
Q Consensus 142 ~i~~~~~~k~~~l~~l-lk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l-~~~~R~~i~~~F~~g~-~~iL 218 (486)
.+..+..+|+..+..- ...+..+.++||-|.|++.++.|+..|.+.|++.-+||+.- ....=..|+.+ .|. -.|.
T Consensus 401 ~v~~t~~~K~~AI~~ei~~~~~~grPVLIgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIA~--AG~~G~VT 478 (870)
T CHL00122 401 LIYKDELSKWRAIADECLQMHQTGRPILIGTTTIEKSELLSQLLKEYRLPHQLLNAKPENVRRESEIVAQ--AGRKGSIT 478 (870)
T ss_pred eEEeCHHHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHHHHHHHHHHcCCccceeeCCCccchhHHHHHHh--cCCCCcEE
Confidence 4455666777766554 44455567999999999999999999999999999999963 22333345544 554 4599
Q ss_pred EEcCCCC
Q 011428 219 IATDDTQ 225 (486)
Q Consensus 219 IaTd~~~ 225 (486)
|||+++.
T Consensus 479 IATNMAG 485 (870)
T CHL00122 479 IATNMAG 485 (870)
T ss_pred EeccccC
Confidence 9999974
No 127
>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=99.06 E-value=8.4e-09 Score=114.21 Aligned_cols=106 Identities=19% Similarity=0.160 Sum_probs=79.1
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHc-----CCceeecCCCCCHH---------------------HHHHHHHHHhc-CCCc
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKF-----GIKSAILNAELPQN---------------------SRLHILEEFNA-GLFD 216 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~-----gi~~~~lhs~l~~~---------------------~R~~i~~~F~~-g~~~ 216 (486)
.++++|||.++..|.+++..|.+. +..+.++++..+.. ....++++|+. +.++
T Consensus 514 ~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~~~ 593 (667)
T TIGR00348 514 KFKAMVVAISRYACVEEKNALDEELNEKFEASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEENPK 593 (667)
T ss_pred cCceeEEEecHHHHHHHHHHHHhhcccccCCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCCce
Confidence 489999999999999999998665 34455666554332 22478899976 6789
Q ss_pred EEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccC-C--C
Q 011428 217 YLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRA-Y--N 293 (486)
Q Consensus 217 iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~-g--~ 293 (486)
|||++|. +..|+|.|.+++++..-+..+ ..++|.+||+-|. + +
T Consensus 594 ilIVvdm---------------------------------llTGFDaP~l~tLyldKplk~-h~LlQai~R~nR~~~~~K 639 (667)
T TIGR00348 594 LLIVVDM---------------------------------LLTGFDAPILNTLYLDKPLKY-HGLLQAIARTNRIDGKDK 639 (667)
T ss_pred EEEEEcc---------------------------------cccccCCCccceEEEeccccc-cHHHHHHHHhccccCCCC
Confidence 9999999 467999999998887665554 4689999999993 3 2
Q ss_pred -CceEEEEeCc
Q 011428 294 -TGASVSLVSP 303 (486)
Q Consensus 294 -~G~ai~fv~~ 303 (486)
.|..+-|+..
T Consensus 640 ~~g~IvDy~g~ 650 (667)
T TIGR00348 640 TFGLIVDYRGL 650 (667)
T ss_pred CCEEEEECcCh
Confidence 3555555543
No 128
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=99.05 E-value=1.7e-07 Score=103.37 Aligned_cols=81 Identities=21% Similarity=0.189 Sum_probs=60.6
Q ss_pred EEcchhhhHHHHHHHHH-hhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCC-CCHHHHHHHHHHHhcCC-CcEEE
Q 011428 143 ISCSERDKLLYILTLLK-LELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAE-LPQNSRLHILEEFNAGL-FDYLI 219 (486)
Q Consensus 143 i~~~~~~k~~~l~~llk-~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~-l~~~~R~~i~~~F~~g~-~~iLI 219 (486)
+..+..+|+..+..-+. .+..+.|+||-|.|++.++.|+..|.+.|++.-+||+. .....-..|+.+ .|. -.|.|
T Consensus 417 vy~t~~~K~~Ai~~ei~~~~~~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIa~--AG~~GaVTI 494 (939)
T PRK12902 417 VYKTEIAKWRAVANETAEMHKQGRPVLVGTTSVEKSELLSALLQEQGIPHNLLNAKPENVEREAEIVAQ--AGRKGAVTI 494 (939)
T ss_pred EEcCHHHHHHHHHHHHHHHHhCCCCEEEeeCCHHHHHHHHHHHHHcCCchheeeCCCcchHhHHHHHHh--cCCCCcEEE
Confidence 44556678877775444 44456799999999999999999999999999999996 333333445544 554 35999
Q ss_pred EcCCCC
Q 011428 220 ATDDTQ 225 (486)
Q Consensus 220 aTd~~~ 225 (486)
||+++.
T Consensus 495 ATNMAG 500 (939)
T PRK12902 495 ATNMAG 500 (939)
T ss_pred eccCCC
Confidence 999875
No 129
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.04 E-value=3.3e-09 Score=108.35 Aligned_cols=231 Identities=19% Similarity=0.231 Sum_probs=144.7
Q ss_pred CCCcEEEECcchHHHHHHcCCC----CCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhHH
Q 011428 33 GPPDIVIATPGCMPKCLSTGVL----QSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDVD 108 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~----~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~ 108 (486)
.++.|+|+|...+...-.+..- -.-+.-..+.++|+||+|.+...-|+..+..+..++. ++++|||-.+-+
T Consensus 389 ~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvvPA~MFRRVlsiv~aHcK-----LGLTATLvREDd 463 (776)
T KOG1123|consen 389 SGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVVPAKMFRRVLSIVQAHCK-----LGLTATLVREDD 463 (776)
T ss_pred CCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhccchHHHHHHHHHHHHHHhh-----ccceeEEeeccc
Confidence 4688999998765322111000 0001224588999999999988878888887777765 789999865544
Q ss_pred HHHHH-hccCCcEEE-----cCCcCCcc-----------------cccccCcceEEEEEcchhhhHHHHHHHHHhhcc-C
Q 011428 109 KLKKL-ILHNPYILT-----LPEVGDVK-----------------DEVIPKNVQQFWISCSERDKLLYILTLLKLELV-Q 164 (486)
Q Consensus 109 ~l~~~-~l~~p~~i~-----l~~~~~~~-----------------~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~-~ 164 (486)
.+..+ ||-.|.... +...+... +......-....+.+-...||..+.-+++.+.. .
T Consensus 464 KI~DLNFLIGPKlYEAnWmdL~~kGhIA~VqCaEVWCpMt~eFy~eYL~~~t~kr~lLyvMNP~KFraCqfLI~~HE~Rg 543 (776)
T KOG1123|consen 464 KITDLNFLIGPKLYEANWMDLQKKGHIAKVQCAEVWCPMTPEFYREYLRENTRKRMLLYVMNPNKFRACQFLIKFHERRG 543 (776)
T ss_pred cccccceeecchhhhccHHHHHhCCceeEEeeeeeecCCCHHHHHHHHhhhhhhhheeeecCcchhHHHHHHHHHHHhcC
Confidence 44332 333333221 11100000 000000011112223344677777777766544 4
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC-CCcEEEEcCCCCccccccCCCCCCcccccc
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG-LFDYLIATDDTQTKEKDQSDEGGHVDSRKS 243 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g-~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~ 243 (486)
.|+|||..++-.....+..|. --.+.|..|+++|..|++.|+-+ .++.|+-+.+++
T Consensus 544 DKiIVFsDnvfALk~YAikl~-----KpfIYG~Tsq~ERm~ILqnFq~n~~vNTIFlSKVgD------------------ 600 (776)
T KOG1123|consen 544 DKIIVFSDNVFALKEYAIKLG-----KPFIYGPTSQNERMKILQNFQTNPKVNTIFLSKVGD------------------ 600 (776)
T ss_pred CeEEEEeccHHHHHHHHHHcC-----CceEECCCchhHHHHHHHhcccCCccceEEEeeccC------------------
Confidence 599999988776655555542 24678999999999999999765 567777777654
Q ss_pred cCCCCCcccccccccccCccCCccEEEEeCCC-CChhhHHHhhhhcccCCC------CceEEEEeCcchh
Q 011428 244 KKHPKAKLDSEFGVVRGIDFKNVHTVINFEMP-QNAAGYVHRIGRTGRAYN------TGASVSLVSPDEM 306 (486)
Q Consensus 244 ~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P-~s~~~yihRiGRtgR~g~------~G~ai~fv~~~e~ 306 (486)
..||+|..+|+|+..-- .|-..=-||.||.-|+-+ +..-+++|+.+..
T Consensus 601 ---------------tSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTq 655 (776)
T KOG1123|consen 601 ---------------TSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQ 655 (776)
T ss_pred ---------------ccccCCcccEEEEEcccccchHHHHHHHHHHHHHhhcCccccceeeeeeeecchH
Confidence 48999999999987653 366777899999988743 2345666666544
No 130
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.03 E-value=2e-09 Score=116.40 Aligned_cols=217 Identities=16% Similarity=0.186 Sum_probs=131.9
Q ss_pred CCcEEEECcchHHHHHHcC-CCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHHH
Q 011428 34 PPDIVIATPGCMPKCLSTG-VLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKK 112 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~-~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~ 112 (486)
.++|.|+|...+...+... .....+....++++||||||+ |.......|+.++..-.|. | +||+.+.++.-.-
T Consensus 256 s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHR----gi~~~~~~I~dYFdA~~~g-L-TATP~~~~d~~T~ 329 (875)
T COG4096 256 SSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHR----GIYSEWSSILDYFDAATQG-L-TATPKETIDRSTY 329 (875)
T ss_pred ceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhh----hHHhhhHHHHHHHHHHHHh-h-ccCcccccccccc
Confidence 4699999999988877755 323345567799999999998 4445555788887643333 3 8988775543222
Q ss_pred Hhc-cCCc------------------EEEcCCcC---Ccc-------cccccCcc--eEEEEEcchh-------hhHHHH
Q 011428 113 LIL-HNPY------------------ILTLPEVG---DVK-------DEVIPKNV--QQFWISCSER-------DKLLYI 154 (486)
Q Consensus 113 ~~l-~~p~------------------~i~l~~~~---~~~-------~~~~~~~l--~q~~i~~~~~-------~k~~~l 154 (486)
.++ ..|+ ++.+.-.. ... .......+ ........+. .....+
T Consensus 330 ~~F~g~Pt~~YsleeAV~DGfLvpy~vi~i~~~~~~~G~~~~~~serek~~g~~i~~dd~~~~~~d~dr~~v~~~~~~~V 409 (875)
T COG4096 330 GFFNGEPTYAYSLEEAVEDGFLVPYKVIRIDTDFDLDGWKPDAGSEREKLQGEAIDEDDQNFEARDFDRTLVIPFRTETV 409 (875)
T ss_pred cccCCCcceeecHHHHhhccccCCCCceEEeeeccccCcCcCccchhhhhhccccCcccccccccccchhccccchHHHH
Confidence 222 2232 22221100 000 00000011 0000000010 111223
Q ss_pred HHHHHhhcc-------CCeEEEEecCHHHHHHHHHHHHHc-----CCceeecCCCCCHHHHHHHHHHHhcC-CC-cEEEE
Q 011428 155 LTLLKLELV-------QKKALIFTNTIDMAFRLKLFLEKF-----GIKSAILNAELPQNSRLHILEEFNAG-LF-DYLIA 220 (486)
Q Consensus 155 ~~llk~~~~-------~~k~IIFvns~~~~~~l~~~L~~~-----gi~~~~lhs~l~~~~R~~i~~~F~~g-~~-~iLIa 220 (486)
...+...+. .+||||||.+.++|+++...|... |--++.+.++-.+.. ..++.|... .+ .|.|+
T Consensus 410 ~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d~~~~q--~~Id~f~~ke~~P~Iait 487 (875)
T COG4096 410 ARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGDAEQAQ--ALIDNFIDKEKYPRIAIT 487 (875)
T ss_pred HHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCccccCceEEEEeccchhhH--HHHHHHHhcCCCCceEEe
Confidence 333332222 369999999999999999999754 234666777654443 345666543 33 46677
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccC
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRA 291 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~ 291 (486)
.|. +..|||+|.|-++|.+-.-.|..-|.|++||+=|.
T Consensus 488 vdl---------------------------------L~TGiDvpev~nlVF~r~VrSktkF~QMvGRGTRl 525 (875)
T COG4096 488 VDL---------------------------------LTTGVDVPEVVNLVFDRKVRSKTKFKQMVGRGTRL 525 (875)
T ss_pred hhh---------------------------------hhcCCCchheeeeeehhhhhhHHHHHHHhcCcccc
Confidence 777 56799999999999999999999999999999884
No 131
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=99.02 E-value=5.1e-09 Score=114.07 Aligned_cols=82 Identities=23% Similarity=0.285 Sum_probs=70.0
Q ss_pred eeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEE
Q 011428 191 SAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVI 270 (486)
Q Consensus 191 ~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI 270 (486)
+.++|++|....|..+.--|+.|...||+||... |-|||.|.-++|+
T Consensus 965 iG~HHaglNr~yR~~VEvLFR~g~L~VlfaT~TL---------------------------------sLGiNMPCrTVvF 1011 (1330)
T KOG0949|consen 965 IGVHHAGLNRKYRSLVEVLFRQGHLQVLFATETL---------------------------------SLGINMPCRTVVF 1011 (1330)
T ss_pred ccccccccchHHHHHHHHHhhcCceEEEEEeeeh---------------------------------hcccCCCceeEEE
Confidence 4578999999999999999999999999999874 5699999887777
Q ss_pred EeC-CCCChhhHHHhhhhcccCCC--CceEEEEeCcch
Q 011428 271 NFE-MPQNAAGYVHRIGRTGRAYN--TGASVSLVSPDE 305 (486)
Q Consensus 271 ~~d-~P~s~~~yihRiGRtgR~g~--~G~ai~fv~~~e 305 (486)
--| +-.++-.|-|++|||||.|- .|.++.+-.|..
T Consensus 1012 ~gDsLQL~plny~QmaGRAGRRGFD~lGnV~FmgiP~~ 1049 (1330)
T KOG0949|consen 1012 AGDSLQLDPLNYKQMAGRAGRRGFDTLGNVVFMGIPRQ 1049 (1330)
T ss_pred eccccccCchhHHhhhccccccccccccceEEEeCcHH
Confidence 666 35678999999999999884 678877777764
No 132
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.96 E-value=2.4e-08 Score=101.86 Aligned_cols=214 Identities=21% Similarity=0.288 Sum_probs=138.7
Q ss_pred ECcchHHHHHHcCCC----CCCcCCCCcceEEecccccc--cCCCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHHHH
Q 011428 40 ATPGCMPKCLSTGVL----QSKSFSDSLKILVLDEADLL--LSYGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKL 113 (486)
Q Consensus 40 ~TP~rl~~~l~~~~~----~~~~~l~~l~~lViDEad~l--l~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~ 113 (486)
+||..++..+..|.+ -+...++...++|+||||.= ...-....++.++..-| ...++.||||+... -.+.
T Consensus 133 ~~~~T~Lky~tDgmLlrEams~p~l~~y~viiLDeahERtlATDiLmGllk~v~~~rp-dLk~vvmSatl~a~---Kfq~ 208 (699)
T KOG0925|consen 133 TSPNTLLKYCTDGMLLREAMSDPLLGRYGVIILDEAHERTLATDILMGLLKEVVRNRP-DLKLVVMSATLDAE---KFQR 208 (699)
T ss_pred CChhHHHHHhcchHHHHHHhhCcccccccEEEechhhhhhHHHHHHHHHHHHHHhhCC-CceEEEeecccchH---HHHH
Confidence 466666665554432 12356889999999999972 22223455666666666 89999999998643 2455
Q ss_pred hccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHH-HHHh--hccCCeEEEEecCHHHHHHHHHHH----HH
Q 011428 114 ILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILT-LLKL--ELVQKKALIFTNTIDMAFRLKLFL----EK 186 (486)
Q Consensus 114 ~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~-llk~--~~~~~k~IIFvns~~~~~~l~~~L----~~ 186 (486)
|+.|+.++.++. .-.+.-+|....+.+.++.... ++.. ...+|-+|||....+..+..+..+ ..
T Consensus 209 yf~n~Pll~vpg---------~~PvEi~Yt~e~erDylEaairtV~qih~~ee~GDilvFLtgeeeIe~aC~~i~re~~~ 279 (699)
T KOG0925|consen 209 YFGNAPLLAVPG---------THPVEIFYTPEPERDYLEAAIRTVLQIHMCEEPGDILVFLTGEEEIEDACRKISREVDN 279 (699)
T ss_pred HhCCCCeeecCC---------CCceEEEecCCCChhHHHHHHHHHHHHHhccCCCCEEEEecCHHHHHHHHHHHHHHHHh
Confidence 677777887653 1134446666666676655443 3322 233789999999876655554444 34
Q ss_pred cC-----CceeecCCCCCHHHHHHHHHHH---hcCC--CcEEEEcCCCCccccccCCCCCCcccccccCCCCCccccccc
Q 011428 187 FG-----IKSAILNAELPQNSRLHILEEF---NAGL--FDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFG 256 (486)
Q Consensus 187 ~g-----i~~~~lhs~l~~~~R~~i~~~F---~~g~--~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 256 (486)
++ +++..|| +++.+.|++-- ..|. -+|+|+|..++
T Consensus 280 L~~~~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~RkvVvstniae------------------------------- 324 (699)
T KOG0925|consen 280 LGPQVGPLKVVPLY----PAQQQRIFEPAPEKRNGAYGRKVVVSTNIAE------------------------------- 324 (699)
T ss_pred hccccCCceEEecC----chhhccccCCCCcccCCCccceEEEEecchh-------------------------------
Confidence 43 4567777 22333332221 1232 35999999876
Q ss_pred ccccCccCCccEEEEeCC------------------CCChhhHHHhhhhcccCCCCceEEEEeCcc
Q 011428 257 VVRGIDFKNVHTVINFEM------------------PQNAAGYVHRIGRTGRAYNTGASVSLVSPD 304 (486)
Q Consensus 257 vsrGID~~~V~~VI~~d~------------------P~s~~~yihRiGRtgR~g~~G~ai~fv~~~ 304 (486)
-.+-+++|.+||.-++ |.|..+-.||.||+||. ++|.|+.+++..
T Consensus 325 --tsltidgiv~VIDpGf~kqkVYNPRIRvesllv~PISkasA~qR~gragrt-~pGkcfrLYte~ 387 (699)
T KOG0925|consen 325 --TSLTIDGIVFVIDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRT-RPGKCFRLYTEE 387 (699)
T ss_pred --eeeeeccEEEEecCchhhhcccCcceeeeeeeeccchHhHHHHHhhhccCC-CCCceEEeecHH
Confidence 2556677888886443 77888899999999997 689999999865
No 133
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=98.93 E-value=1.9e-08 Score=112.33 Aligned_cols=91 Identities=25% Similarity=0.247 Sum_probs=70.2
Q ss_pred EEEEecCHHHHHHHHHHHHHc------CCceeecCCCCCHHHHHHHHHHH-----------------------h---cCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKF------GIKSAILNAELPQNSRLHILEEF-----------------------N---AGL 214 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~------gi~~~~lhs~l~~~~R~~i~~~F-----------------------~---~g~ 214 (486)
.+|-+++++.|..++..|-.. .+..|+|||..+...|.++.+.. + .+.
T Consensus 759 GliR~anI~p~V~~A~~L~~~~~~~~~~i~~~~yHSr~~l~~Rs~~E~~Ld~~L~R~~~~~~~~~~~i~~~l~~~~~~~~ 838 (1110)
T TIGR02562 759 GLIRVANIDPLIRLAQFLYALLAEEKYQIHLCCYHAQDPLLLRSYIERRLDQLLTRHKPEQLFQDDEIIDLMQNSPALNH 838 (1110)
T ss_pred EEEEEcCchHHHHHHHHHHhhccccCCceeEEEecccChHHHHHHHHHHHHHHhcccChhhhhchHHHHHHHhcccccCC
Confidence 378899999999999988654 35689999999999998887664 1 146
Q ss_pred CcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCC
Q 011428 215 FDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYN 293 (486)
Q Consensus 215 ~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~ 293 (486)
.-|+|||.+.| + |+|+. .+++ |--|.++.+.+||+||+-|.|.
T Consensus 839 ~~i~v~Tqv~E-------------------------------~--g~D~d-fd~~--~~~~~~~~sliQ~aGR~~R~~~ 881 (1110)
T TIGR02562 839 LFIVLATPVEE-------------------------------V--GRDHD-YDWA--IADPSSMRSIIQLAGRVNRHRL 881 (1110)
T ss_pred CeEEEEeeeEE-------------------------------E--Eeccc-CCee--eeccCcHHHHHHHhhccccccc
Confidence 67999999976 3 66652 3333 3447789999999999999875
No 134
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=98.89 E-value=8.3e-09 Score=114.92 Aligned_cols=109 Identities=25% Similarity=0.345 Sum_probs=97.2
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC---CCcEEEEcCCCCccccccCCCCCCccc
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG---LFDYLIATDDTQTKEKDQSDEGGHVDS 240 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g---~~~iLIaTd~~~~~~~~~~~~~~~~~~ 240 (486)
+.++|||..-+....-|+.+|...+++.--|.|.++.+.|+..++.||+- .+-+|.||-..
T Consensus 699 GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAG---------------- 762 (1373)
T KOG0384|consen 699 GHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAG---------------- 762 (1373)
T ss_pred CceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccC----------------
Confidence 45999999999999999999999999999999999999999999999875 45689999654
Q ss_pred ccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCce--EEEEeCcch
Q 011428 241 RKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGA--SVSLVSPDE 305 (486)
Q Consensus 241 ~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~--ai~fv~~~e 305 (486)
|+ |||+-..+.||.||--+++-.=+|-.-||.|.|+.-. ++-||+...
T Consensus 763 ---------------GL--GINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLVTk~T 812 (1373)
T KOG0384|consen 763 ---------------GL--GINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLVTKNT 812 (1373)
T ss_pred ---------------cc--cccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEEEecCCc
Confidence 46 9999999999999999999999999999999998665 456787663
No 135
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=98.86 E-value=1.7e-07 Score=100.78 Aligned_cols=125 Identities=21% Similarity=0.250 Sum_probs=103.8
Q ss_pred hhhHHHHHHHHHhhcc-CCeEEEEecCHHHHHHHHHHHH-HcCCceeecCCCCCHHHHHHHHHHHhcCCCc--EEEEcCC
Q 011428 148 RDKLLYILTLLKLELV-QKKALIFTNTIDMAFRLKLFLE-KFGIKSAILNAELPQNSRLHILEEFNAGLFD--YLIATDD 223 (486)
Q Consensus 148 ~~k~~~l~~llk~~~~-~~k~IIFvns~~~~~~l~~~L~-~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~--iLIaTd~ 223 (486)
.-|...+..+|+.... +.++|+|..++....-|..||. ..|+.++-+.|..|.+.|..++++||.+..- .|++|-+
T Consensus 529 sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrv 608 (923)
T KOG0387|consen 529 SGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRV 608 (923)
T ss_pred cchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEecc
Confidence 3467778777776554 3489999999999999999998 6899999999999999999999999988643 5677766
Q ss_pred CCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEE--EEe
Q 011428 224 TQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASV--SLV 301 (486)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai--~fv 301 (486)
.. + |+++...+-||.||+-+++++=.|-.-|+=|.|+.--++ -|+
T Consensus 609 GG-------------------------------L--GlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYRL~ 655 (923)
T KOG0387|consen 609 GG-------------------------------L--GLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYRLM 655 (923)
T ss_pred cc-------------------------------c--ccccccCceEEEECCCCCCccchHHHHHHHhhcCccceEEEEEe
Confidence 43 5 999999999999999999999999999999999754433 345
Q ss_pred Ccch
Q 011428 302 SPDE 305 (486)
Q Consensus 302 ~~~e 305 (486)
+...
T Consensus 656 t~gT 659 (923)
T KOG0387|consen 656 TAGT 659 (923)
T ss_pred cCCc
Confidence 5543
No 136
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.81 E-value=4e-07 Score=101.57 Aligned_cols=169 Identities=22% Similarity=0.271 Sum_probs=123.4
Q ss_pred cEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHH-HhhccCCeEEEEecC
Q 011428 95 QCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLL-KLELVQKKALIFTNT 173 (486)
Q Consensus 95 q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~ll-k~~~~~~k~IIFvns 173 (486)
.+.+||.|...+-.++...|--+ ++.++. ..+....-....+.....+|+..+..-+ ..+..+.|+||-+.|
T Consensus 565 kLsGMTGTA~tea~Ef~~IY~L~--Vv~IPT-----nrP~~R~D~~D~vy~t~~eK~~Aii~ei~~~~~~GrPVLVGT~S 637 (1112)
T PRK12901 565 KLAGMTGTAETEAGEFWDIYKLD--VVVIPT-----NRPIARKDKEDLVYKTKREKYNAVIEEITELSEAGRPVLVGTTS 637 (1112)
T ss_pred hhcccCCCCHHHHHHHHHHhCCC--EEECCC-----CCCcceecCCCeEecCHHHHHHHHHHHHHHHHHCCCCEEEEeCc
Confidence 45689999888777777766433 444433 1111111122344556778887776554 445556799999999
Q ss_pred HHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC-CcEEEEcCCCCccccccCCCCCCcccccccCCCCCccc
Q 011428 174 IDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL-FDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLD 252 (486)
Q Consensus 174 ~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~-~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (486)
++.++.|...|...||+.-+||+.....+-. |+. ..|. -.|-|||+++.
T Consensus 638 Ve~SE~lS~~L~~~gI~H~VLNAK~h~~EAe-IVA--~AG~~GaVTIATNMAG--------------------------- 687 (1112)
T PRK12901 638 VEISELLSRMLKMRKIPHNVLNAKLHQKEAE-IVA--EAGQPGTVTIATNMAG--------------------------- 687 (1112)
T ss_pred HHHHHHHHHHHHHcCCcHHHhhccchhhHHH-HHH--hcCCCCcEEEeccCcC---------------------------
Confidence 9999999999999999999999975544433 322 2343 35999999964
Q ss_pred ccccccccCccC--------CccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 253 SEFGVVRGIDFK--------NVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 253 ~~~gvsrGID~~--------~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
||-||. +==+||--..|.|..---|-.||+||.|.+|.+-.|++-.|.
T Consensus 688 ------RGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPGsS~f~lSLEDd 743 (1112)
T PRK12901 688 ------RGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGSSQFYVSLEDN 743 (1112)
T ss_pred ------CCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCCcceEEEEcccH
Confidence 899987 334788888999999999999999999999999999998765
No 137
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=98.66 E-value=2.9e-07 Score=98.94 Aligned_cols=124 Identities=24% Similarity=0.307 Sum_probs=96.5
Q ss_pred hHHHHHHHHHhhc-cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC--CcEEEEcCCCCc
Q 011428 150 KLLYILTLLKLEL-VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL--FDYLIATDDTQT 226 (486)
Q Consensus 150 k~~~l~~llk~~~-~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~--~~iLIaTd~~~~ 226 (486)
|+..|..+|..-. .+.++|||..-.....-|...|.-.++..+-|.|..+.+.|+.++++|+... +-+|.+|-.
T Consensus 762 K~r~L~~LLp~~k~~G~RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKA--- 838 (941)
T KOG0389|consen 762 KCRKLKELLPKIKKKGDRVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKA--- 838 (941)
T ss_pred hHhHHHHHHHHHhhcCCEEEEeeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeecc---
Confidence 4444444443322 2359999999999999999999999999999999999999999999998865 446777744
Q ss_pred cccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCC--CceEEEEeCcc
Q 011428 227 KEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYN--TGASVSLVSPD 304 (486)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~--~G~ai~fv~~~ 304 (486)
-|+ ||++...++||.||+-.++-.=.|---|+.|.|+ +=+++-+|+..
T Consensus 839 ----------------------------GG~--GINLt~An~VIihD~dFNP~dD~QAEDRcHRvGQtkpVtV~rLItk~ 888 (941)
T KOG0389|consen 839 ----------------------------GGF--GINLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPVTVYRLITKS 888 (941)
T ss_pred ----------------------------Ccc--eecccccceEEEeecCCCCcccchhHHHHHhhCCcceeEEEEEEecC
Confidence 346 9999999999999998777666777777777775 44566777776
Q ss_pred hh
Q 011428 305 EM 306 (486)
Q Consensus 305 e~ 306 (486)
..
T Consensus 889 TI 890 (941)
T KOG0389|consen 889 TI 890 (941)
T ss_pred cH
Confidence 43
No 138
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.65 E-value=3.5e-07 Score=84.17 Aligned_cols=105 Identities=29% Similarity=0.481 Sum_probs=83.5
Q ss_pred EEEeCCCCHHHHHHHHcCCC-cEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCc
Q 011428 16 VQLTSSMPASDLRAALAGPP-DIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGC 94 (486)
Q Consensus 16 ~~l~g~~~~~~q~~~l~~~~-dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~ 94 (486)
....++.........+.... +|+++||+.+.+.+.... .....++++||||||.+....+...+..++..+++..
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~----~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~ 161 (201)
T smart00487 86 VGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDL----LELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNV 161 (201)
T ss_pred EEEeCCcchHHHHHHHhcCCCCEEEeChHHHHHHHHcCC----cCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhCCccc
Confidence 33344444344444455555 999999999999988754 4567899999999999987678899999999998899
Q ss_pred cEEEEeeecChhHHHHHHHhccCCcEEEcC
Q 011428 95 QCLLMSATSSSDVDKLKKLILHNPYILTLP 124 (486)
Q Consensus 95 q~il~SATl~~~v~~l~~~~l~~p~~i~l~ 124 (486)
+++++|||++.++......++.++..+...
T Consensus 162 ~~v~~saT~~~~~~~~~~~~~~~~~~~~~~ 191 (201)
T smart00487 162 QLLLLSATPPEEIENLLELFLNDPVFIDVG 191 (201)
T ss_pred eEEEEecCCchhHHHHHHHhcCCCEEEeCC
Confidence 999999999999999999888877777654
No 139
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.60 E-value=2.4e-07 Score=95.64 Aligned_cols=247 Identities=19% Similarity=0.215 Sum_probs=165.7
Q ss_pred CCCcEEEECcchHHHHHHcCC--CCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHC---CCC--------------
Q 011428 33 GPPDIVIATPGCMPKCLSTGV--LQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVI---PRG-------------- 93 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~--~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~l---p~~-------------- 93 (486)
...|||||+|=-|.-.+.+.. -....+++++.++|||-||.++-..| +.+..|+.+| |..
T Consensus 384 y~SDIlVaSPLGLRmil~n~gdkkrd~dfLSSIEl~iIDQa~~~l~QNw-Ehl~~ifdHLn~~P~k~h~~DfSRVR~wyL 462 (698)
T KOG2340|consen 384 YKSDILVASPLGLRMILGNTGDKKRDFDFLSSIELLIIDQADIMLMQNW-EHLLHIFDHLNLQPSKQHDVDFSRVRMWYL 462 (698)
T ss_pred cccCeEEecchhhhhhhcCCCcccccchhhhhhhhhhhhhHHHHHHhhH-HHHHHHHHHhhcCcccccCCChhheehhee
Confidence 478999999988766665211 11245689999999999999986554 3444555544 421
Q ss_pred -------ccEEEEeeecChhHHHHHHHhccCCcE-EEcCCcCCc-ccccccCcceEEEE--Ec-----chhhhHHHHHHH
Q 011428 94 -------CQCLLMSATSSSDVDKLKKLILHNPYI-LTLPEVGDV-KDEVIPKNVQQFWI--SC-----SERDKLLYILTL 157 (486)
Q Consensus 94 -------~q~il~SATl~~~v~~l~~~~l~~p~~-i~l~~~~~~-~~~~~~~~l~q~~i--~~-----~~~~k~~~l~~l 157 (486)
.|+++||+--.+.+..+...+|.|-.- +........ .-....-.+.|.+. .| ..+.+|.+...-
T Consensus 463 ~~qsr~~rQtl~Fs~y~~~~~nS~fn~~c~N~~Gkv~~~~~~~~gsi~~v~~~l~Qvf~ri~~~si~~~~D~RFkyFv~~ 542 (698)
T KOG2340|consen 463 DGQSRYFRQTLLFSRYSHPLFNSLFNQYCQNMAGKVKARNLQSGGSISNVGIPLCQVFQRIEVKSIIETPDARFKYFVDK 542 (698)
T ss_pred ccHHHHHHHHHHHHhhccHHHHHHHHHhhhhhcceeeeccccCCCchhhccchhhhhhhheeccCcccCchHHHHHHHHh
Confidence 589999999888888888877766432 111110000 00111112333222 12 244566665544
Q ss_pred HHhhcc---CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCC
Q 011428 158 LKLELV---QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDE 234 (486)
Q Consensus 158 lk~~~~---~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~ 234 (486)
+--.+. ..-+||++++--.-.++..++...++....+|--.+...-...-+-|-.|...+|+-|.-+.
T Consensus 543 ImPq~~k~t~s~~LiyIPSYfDFVRvRNy~K~e~i~F~~i~EYssk~~vsRAR~lF~qgr~~vlLyTER~h--------- 613 (698)
T KOG2340|consen 543 IMPQLIKRTESGILIYIPSYFDFVRVRNYMKKEEISFVMINEYSSKSKVSRARELFFQGRKSVLLYTERAH--------- 613 (698)
T ss_pred hchhhcccccCceEEEecchhhHHHHHHHhhhhhcchHHHhhhhhHhhhhHHHHHHHhcCceEEEEehhhh---------
Confidence 433332 23579999999999999999999888877777665565556667889999999999997654
Q ss_pred CCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhH---HHhhhhcccCCC----CceEEEEeCcchhh
Q 011428 235 GGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGY---VHRIGRTGRAYN----TGASVSLVSPDEMK 307 (486)
Q Consensus 235 ~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~y---ihRiGRtgR~g~----~G~ai~fv~~~e~~ 307 (486)
..|--+|.+|..||.|.+|..+.=| +.+.+|+.--|+ .-+|.++++..|.-
T Consensus 614 ----------------------ffrR~~ikGVk~vVfYqpP~~P~FYsEiinm~~k~~~~gn~d~d~~t~~ilytKyD~i 671 (698)
T KOG2340|consen 614 ----------------------FFRRYHIKGVKNVVFYQPPNNPHFYSEIINMSDKTTSQGNTDLDIFTVRILYTKYDRI 671 (698)
T ss_pred ----------------------hhhhheecceeeEEEecCCCCcHHHHHHHhhhhhhhccCCccccceEEEEEeechhhH
Confidence 4688999999999999999997665 566677754442 34677788887764
Q ss_pred HHHH
Q 011428 308 IFEE 311 (486)
Q Consensus 308 ~~~~ 311 (486)
.++.
T Consensus 672 ~Le~ 675 (698)
T KOG2340|consen 672 RLEN 675 (698)
T ss_pred HHHH
Confidence 4443
No 140
>PRK14873 primosome assembly protein PriA; Provisional
Probab=98.59 E-value=4.3e-06 Score=92.13 Aligned_cols=86 Identities=19% Similarity=0.246 Sum_probs=58.1
Q ss_pred eeEEEEeCCCCHHHH----HHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC---C---cHHH
Q 011428 13 LKVVQLTSSMPASDL----RAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY---G---YEDD 82 (486)
Q Consensus 13 i~v~~l~g~~~~~~q----~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~---g---~~~~ 82 (486)
-.++.+.++.+..+. .....+...|||||-+.+. ..+.++.++||||-|.-.-. + +..+
T Consensus 215 ~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAvF-----------aP~~~LgLIIvdEEhd~sykq~~~p~yhaRd 283 (665)
T PRK14873 215 GDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAVF-----------APVEDLGLVAIWDDGDDLLAEPRAPYPHARE 283 (665)
T ss_pred CcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeEE-----------eccCCCCEEEEEcCCchhhcCCCCCCccHHH
Confidence 568889998877643 2334567999999943221 45789999999999864311 1 2245
Q ss_pred HHHHHHHCCCCccEEEEeeecChhHHHH
Q 011428 83 LKALSAVIPRGCQCLLMSATSSSDVDKL 110 (486)
Q Consensus 83 l~~i~~~lp~~~q~il~SATl~~~v~~l 110 (486)
+..+.... .+..+|+.|||.+-+....
T Consensus 284 vA~~Ra~~-~~~~lvLgSaTPSles~~~ 310 (665)
T PRK14873 284 VALLRAHQ-HGCALLIGGHARTAEAQAL 310 (665)
T ss_pred HHHHHHHH-cCCcEEEECCCCCHHHHHH
Confidence 55555544 3889999999987665443
No 141
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=98.58 E-value=2.5e-06 Score=93.53 Aligned_cols=123 Identities=17% Similarity=0.200 Sum_probs=89.7
Q ss_pred hhhHHHHHHHHHhhccCCeEEEEe----cCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCC--cEEEEc
Q 011428 148 RDKLLYILTLLKLELVQKKALIFT----NTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLF--DYLIAT 221 (486)
Q Consensus 148 ~~k~~~l~~llk~~~~~~k~IIFv----ns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~--~iLIaT 221 (486)
..|+..|..++. ..+.++++|| |-+....-+.....-.|..++.|+|.|+..+|+.+++.||.... .|+.++
T Consensus 577 s~kl~~L~~ll~--~~~ek~~~~~v~Isny~~tldl~e~~~~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlS 654 (776)
T KOG0390|consen 577 SGKLLVLVFLLE--VIREKLLVKSVLISNYTQTLDLFEQLCRWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLS 654 (776)
T ss_pred hhHHHHHHHHHH--HHhhhcceEEEEeccHHHHHHHHHHHHhhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEe
Confidence 345555655552 2234444443 44444444455555669999999999999999999999998654 466666
Q ss_pred CCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceE--EE
Q 011428 222 DDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGAS--VS 299 (486)
Q Consensus 222 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~a--i~ 299 (486)
.-|. ..||++-+.+.||.||+.+++..=.|-++|+=|.|+.-.| +-
T Consensus 655 sKAg--------------------------------g~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdGQKk~v~iYr 702 (776)
T KOG0390|consen 655 SKAG--------------------------------GEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDGQKKPVYIYR 702 (776)
T ss_pred cccc--------------------------------cCceeecccceEEEeCCCCCchhHHHHHHHhccCCCcceEEEEE
Confidence 5442 3599999999999999999999999999999999986554 44
Q ss_pred EeCcc
Q 011428 300 LVSPD 304 (486)
Q Consensus 300 fv~~~ 304 (486)
|++..
T Consensus 703 LlatG 707 (776)
T KOG0390|consen 703 LLATG 707 (776)
T ss_pred eecCC
Confidence 56544
No 142
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=98.47 E-value=4e-06 Score=93.92 Aligned_cols=101 Identities=24% Similarity=0.292 Sum_probs=85.1
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcCCc---eeecCCCCCHHHHHHHHHHHhcC-CCcEEEEcCCCCccccccCCCCCCccc
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFGIK---SAILNAELPQNSRLHILEEFNAG-LFDYLIATDDTQTKEKDQSDEGGHVDS 240 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~gi~---~~~lhs~l~~~~R~~i~~~F~~g-~~~iLIaTd~~~~~~~~~~~~~~~~~~ 240 (486)
.++||||.-++...-+..-|-+.-.+ ...|.|..|+..|..++++||++ .+++|+-|.-.+
T Consensus 1341 HRiLIFcQlK~mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVG--------------- 1405 (1549)
T KOG0392|consen 1341 HRILIFCQLKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVG--------------- 1405 (1549)
T ss_pred ceeEEeeeHHHHHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHhcCCCceeEEEEeeecc---------------
Confidence 48999999999999888877655443 34689999999999999999999 899887664322
Q ss_pred ccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceE
Q 011428 241 RKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGAS 297 (486)
Q Consensus 241 ~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~a 297 (486)
|+ |+|+.+.+.||.++--+++-.=+|-+-||.|-|++-++
T Consensus 1406 ---------------GL--GLNLTGADTVVFvEHDWNPMrDLQAMDRAHRIGQKrvV 1445 (1549)
T KOG0392|consen 1406 ---------------GL--GLNLTGADTVVFVEHDWNPMRDLQAMDRAHRIGQKRVV 1445 (1549)
T ss_pred ---------------cc--ccccCCCceEEEEecCCCchhhHHHHHHHHhhcCceee
Confidence 35 99999999999999999999889999999999986553
No 143
>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=98.47 E-value=2.6e-06 Score=97.22 Aligned_cols=105 Identities=22% Similarity=0.305 Sum_probs=76.1
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHH----cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCc
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEK----FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHV 238 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~----~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~ 238 (486)
.+|++|||++|......++..|.. .++.+ +..+.. .+|..+++.|+.|...||+||+.
T Consensus 673 ~~g~~LVlftS~~~l~~v~~~L~~~~~~~~~~~--l~q~~~-~~r~~ll~~F~~~~~~iLlgt~s--------------- 734 (850)
T TIGR01407 673 TSPKILVLFTSYEMLHMVYDMLNELPEFEGYEV--LAQGIN-GSRAKIKKRFNNGEKAILLGTSS--------------- 734 (850)
T ss_pred cCCCEEEEeCCHHHHHHHHHHHhhhccccCceE--EecCCC-ccHHHHHHHHHhCCCeEEEEcce---------------
Confidence 468999999999999999999875 23333 333333 57899999999999999999977
Q ss_pred ccccccCCCCCcccccccccccCccCCcc--EEEEeCCCC----C--------------------------hhhHHHhhh
Q 011428 239 DSRKSKKHPKAKLDSEFGVVRGIDFKNVH--TVINFEMPQ----N--------------------------AAGYVHRIG 286 (486)
Q Consensus 239 ~~~~~~~~~~~~~~~~~gvsrGID~~~V~--~VI~~d~P~----s--------------------------~~~yihRiG 286 (486)
+++|||+++.. +||...+|- + ...+.|-+|
T Consensus 735 ------------------f~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~G 796 (850)
T TIGR01407 735 ------------------FWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALG 796 (850)
T ss_pred ------------------eecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhc
Confidence 68999999887 456655552 2 123467778
Q ss_pred hcccCCCCceEEEEeCc
Q 011428 287 RTGRAYNTGASVSLVSP 303 (486)
Q Consensus 287 RtgR~g~~G~ai~fv~~ 303 (486)
|.-|..+.--+++++.+
T Consensus 797 RlIRs~~D~G~v~ilD~ 813 (850)
T TIGR01407 797 RLIRRENDRGSIVILDR 813 (850)
T ss_pred cccccCCceEEEEEEcc
Confidence 88887654334444443
No 144
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.40 E-value=9.5e-06 Score=91.21 Aligned_cols=241 Identities=18% Similarity=0.275 Sum_probs=153.2
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC-C--cH--HHHHH
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY-G--YE--DDLKA 85 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~-g--~~--~~l~~ 85 (486)
+|..++.++|..+... .|...-+|+|+||+++ ++++ ..+++++.|.||.|++.+. | |+ -.++.
T Consensus 1214 ~G~~~~~l~ge~s~~l---kl~~~~~vii~tpe~~-d~lq--------~iQ~v~l~i~d~lh~igg~~g~v~evi~S~r~ 1281 (1674)
T KOG0951|consen 1214 LGLRIVKLTGETSLDL---KLLQKGQVIISTPEQW-DLLQ--------SIQQVDLFIVDELHLIGGVYGAVYEVICSMRY 1281 (1674)
T ss_pred cCceEEecCCccccch---HHhhhcceEEechhHH-HHHh--------hhhhcceEeeehhhhhcccCCceEEEEeeHHH
Confidence 5889999999876653 3455789999999985 4443 2467899999999999743 2 11 22778
Q ss_pred HHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhh-hH----HHHHHHH-H
Q 011428 86 LSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERD-KL----LYILTLL-K 159 (486)
Q Consensus 86 i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~-k~----~~l~~ll-k 159 (486)
|...+-++..++.+|..+...-+ + .++....++.+... ....+-.+.-..+.....+ .. ...|..+ .
T Consensus 1282 ia~q~~k~ir~v~ls~~lana~d-~--ig~s~~~v~Nf~p~----~R~~Pl~i~i~~~~~~~~~~~~~am~~~~~~ai~~ 1354 (1674)
T KOG0951|consen 1282 IASQLEKKIRVVALSSSLANARD-L--IGASSSGVFNFSPS----VRPVPLEIHIQSVDISHFESRMLAMTKPTYTAIVR 1354 (1674)
T ss_pred HHHHHHhheeEEEeehhhccchh-h--ccccccceeecCcc----cCCCceeEEEEEeccchhHHHHHHhhhhHHHHHHH
Confidence 88888889999999988776432 2 44444555555441 1111112222222222111 11 1122222 2
Q ss_pred hhccCCeEEEEecCHHHHHHHHHHHHHc----------------------CCceeecCCCCCHHHHHHHHHHHhcCCCcE
Q 011428 160 LELVQKKALIFTNTIDMAFRLKLFLEKF----------------------GIKSAILNAELPQNSRLHILEEFNAGLFDY 217 (486)
Q Consensus 160 ~~~~~~k~IIFvns~~~~~~l~~~L~~~----------------------gi~~~~lhs~l~~~~R~~i~~~F~~g~~~i 217 (486)
....+++++||++++..|..++.-|-.+ ..+..+-|-+|+.+...-+-.-|..|.+.+
T Consensus 1355 ~a~~~k~~~vf~p~rk~~~~~a~~~~~~s~~~~~~~l~~~~e~~~~~l~e~l~~gvg~e~~s~~d~~iv~~l~e~g~i~v 1434 (1674)
T KOG0951|consen 1355 HAGNRKPAIVFLPTRKHARLVAVDLVTFSHADEPDYLLSELEECDETLRESLKHGVGHEGLSSNDQEIVQQLFEAGAIQV 1434 (1674)
T ss_pred HhcCCCCeEEEeccchhhhhhhhccchhhccCcHHHHHHHHhcchHhhhhcccccccccccCcchHHHHHHHHhcCcEEE
Confidence 3344778999999999887776554322 122233388999999888889999999999
Q ss_pred EEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEE-----eCC------CCChhhHHHhhh
Q 011428 218 LIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN-----FEM------PQNAAGYVHRIG 286 (486)
Q Consensus 218 LIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~-----~d~------P~s~~~yihRiG 286 (486)
+|.+... -|+-... +.||- ||. +.+.....|++|
T Consensus 1435 ~v~s~~~----------------------------------~~~~~~~-~lVvvmgt~~ydg~e~~~~~y~i~~ll~m~G 1479 (1674)
T KOG0951|consen 1435 CVMSRDC----------------------------------YGTKLKA-HLVVVMGTQYYDGKEHSYEDYPIAELLQMVG 1479 (1674)
T ss_pred EEEEccc----------------------------------ccccccc-eEEEEecceeecccccccccCchhHHHHHhh
Confidence 9988442 1332221 12221 443 556889999999
Q ss_pred hcccCCCCceEEEEeCcchhhH
Q 011428 287 RTGRAYNTGASVSLVSPDEMKI 308 (486)
Q Consensus 287 RtgR~g~~G~ai~fv~~~e~~~ 308 (486)
+|.| .|.++.+.......+
T Consensus 1480 ~a~~---~~k~vi~~~~~~k~y 1498 (1674)
T KOG0951|consen 1480 LASG---AGKCVIMCHTPKKEY 1498 (1674)
T ss_pred hhcC---CccEEEEecCchHHH
Confidence 9998 477888888766543
No 145
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=98.34 E-value=2.7e-05 Score=80.26 Aligned_cols=101 Identities=16% Similarity=0.219 Sum_probs=84.8
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC-CcEEEEcCCCCccccccCCCCCCccccc
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL-FDYLIATDDTQTKEKDQSDEGGHVDSRK 242 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~-~~iLIaTd~~~~~~~~~~~~~~~~~~~~ 242 (486)
+.|.+|||........+..++...++...-+.|..|..+|....+.|...+ ..|-|-+=
T Consensus 492 ~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsI-------------------- 551 (689)
T KOG1000|consen 492 PRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSI-------------------- 551 (689)
T ss_pred CceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEE--------------------
Confidence 469999999999999999999999999999999999999999999998764 33222221
Q ss_pred ccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCce
Q 011428 243 SKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGA 296 (486)
Q Consensus 243 ~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ 296 (486)
.+-|+ |++|...++||...+|+++.-.+|-=-|+.|.|+...
T Consensus 552 ----------tA~gv--GLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkss 593 (689)
T KOG1000|consen 552 ----------TAAGV--GLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSS 593 (689)
T ss_pred ----------eeccc--ceeeeccceEEEEEecCCCceEEechhhhhhccccce
Confidence 22335 9999999999999999999988888888888887554
No 146
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=98.29 E-value=4.2e-06 Score=72.26 Aligned_cols=88 Identities=32% Similarity=0.365 Sum_probs=66.2
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCC
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIP 91 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp 91 (486)
.+.+..+.+......+.......++|+++|++.+...+.... ......+++||||+|.+....+...........+
T Consensus 57 ~~~~~~~~~~~~~~~~~~~~~~~~~i~i~t~~~~~~~~~~~~----~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~ 132 (144)
T cd00046 57 GIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLK----LSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLP 132 (144)
T ss_pred CcEEEEEecCcchhHHHHHhcCCCCEEEECcHHHHHHHHcCC----cchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCC
Confidence 467777777776666666667899999999999988777543 3456789999999999987654443333344456
Q ss_pred CCccEEEEeeec
Q 011428 92 RGCQCLLMSATS 103 (486)
Q Consensus 92 ~~~q~il~SATl 103 (486)
...+++++|||+
T Consensus 133 ~~~~~i~~saTp 144 (144)
T cd00046 133 KDRQVLLLSATP 144 (144)
T ss_pred ccceEEEEeccC
Confidence 789999999995
No 147
>COG4889 Predicted helicase [General function prediction only]
Probab=98.17 E-value=1.6e-06 Score=94.12 Aligned_cols=101 Identities=21% Similarity=0.312 Sum_probs=72.6
Q ss_pred eEEEEecCHHHHHHHHHHHHHc-------------CCc--eeecCCCCCHHHHHHHHHH---HhcCCCcEEEEcCCCCcc
Q 011428 166 KALIFTNTIDMAFRLKLFLEKF-------------GIK--SAILNAELPQNSRLHILEE---FNAGLFDYLIATDDTQTK 227 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~~-------------gi~--~~~lhs~l~~~~R~~i~~~---F~~g~~~iLIaTd~~~~~ 227 (486)
++|-||.++.+...++..++.- ++. +....|.|...+|...++. |...+++||-..
T Consensus 462 RAIaF~k~I~tSK~i~~sFe~Vve~Y~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNa------ 535 (1518)
T COG4889 462 RAIAFAKDIKTSKQIAESFETVVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNECKILSNA------ 535 (1518)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEeecccccccHHHHHHHHhccCCCCcchheeeccc------
Confidence 6789999998888887766431 333 4445688888888554432 233445555332
Q ss_pred ccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCC---CCceEEE
Q 011428 228 EKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAY---NTGASVS 299 (486)
Q Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g---~~G~ai~ 299 (486)
-.+++|||+|..+.||.||+-.+..+.+|-+||.-|-. +-|..|+
T Consensus 536 ---------------------------RcLSEGVDVPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK~yGYIIL 583 (1518)
T COG4889 536 ---------------------------RCLSEGVDVPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGKKYGYIIL 583 (1518)
T ss_pred ---------------------------hhhhcCCCccccceEEEecCchhHHHHHHHHHHHHHhCcCCccceEEE
Confidence 23788999999999999999999999999999999942 3455544
No 148
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.14 E-value=6.5e-05 Score=84.36 Aligned_cols=66 Identities=15% Similarity=0.040 Sum_probs=45.2
Q ss_pred CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeec
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATS 103 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl 103 (486)
...|+++||..|..-|-.+. +.++.+..|||||||.+....-+..+-.+...-.+..=+.+|||..
T Consensus 7 ~ggi~~~T~rIl~~DlL~~r----i~~~~itgiiv~~Ahr~~~~~~eaFI~rlyr~~n~~gfIkafSdsP 72 (814)
T TIGR00596 7 EGGIFSITSRILVVDLLTGI----IPPELITGILVLRADRIIESSQEAFILRLYRQKNKTGFIKAFSDNP 72 (814)
T ss_pred cCCEEEEechhhHhHHhcCC----CCHHHccEEEEeecccccccccHHHHHHHHHHhCCCcceEEecCCC
Confidence 44699999998766555554 8899999999999999976544444444444444444455666654
No 149
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.96 E-value=0.00017 Score=83.09 Aligned_cols=80 Identities=16% Similarity=0.215 Sum_probs=61.7
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCCc--eeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccc
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGIK--SAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDS 240 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi~--~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~ 240 (486)
.+|++|||++|.+....++..|...... ..++--++...+|..++++|+.+.-.||++|..
T Consensus 751 ~~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~~iLlG~~s----------------- 813 (928)
T PRK08074 751 TKGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDKAILLGTSS----------------- 813 (928)
T ss_pred CCCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCCeEEEecCc-----------------
Confidence 4689999999999999999999754321 223333444457899999999988889999965
Q ss_pred ccccCCCCCcccccccccccCccCCc--cEEEEeCCC
Q 011428 241 RKSKKHPKAKLDSEFGVVRGIDFKNV--HTVINFEMP 275 (486)
Q Consensus 241 ~~~~~~~~~~~~~~~gvsrGID~~~V--~~VI~~d~P 275 (486)
+++|||||+- .+||...+|
T Consensus 814 ----------------FwEGVD~pg~~l~~viI~kLP 834 (928)
T PRK08074 814 ----------------FWEGIDIPGDELSCLVIVRLP 834 (928)
T ss_pred ----------------ccCccccCCCceEEEEEecCC
Confidence 6789999975 778876655
No 150
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=97.94 E-value=5.1e-05 Score=84.77 Aligned_cols=124 Identities=29% Similarity=0.436 Sum_probs=95.2
Q ss_pred EEcchhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC--CcEEEE
Q 011428 143 ISCSERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL--FDYLIA 220 (486)
Q Consensus 143 i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~--~~iLIa 220 (486)
+.|..-.++.+|+.-|+. .+.++|||+.-.....-|..||.-.|+-..-|.|....++|+..++.||... +-.|.+
T Consensus 1257 yDcGKLQtLAiLLqQLk~--eghRvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILS 1334 (1958)
T KOG0391|consen 1257 YDCGKLQTLAILLQQLKS--EGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILS 1334 (1958)
T ss_pred cccchHHHHHHHHHHHHh--cCceEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEe
Confidence 345444555555555543 3679999999999999999999999999999999999999999999999874 445666
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCCh------hhHHHhhhhcccCCCC
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNA------AGYVHRIGRTGRAYNT 294 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~------~~yihRiGRtgR~g~~ 294 (486)
|-.. |+ |||+-+.+.||.||--+++ .+..||||+| +.
T Consensus 1335 TrSg-------------------------------gv--GiNLtgADTVvFYDsDwNPtMDaQAQDrChRIGqt----RD 1377 (1958)
T KOG0391|consen 1335 TRSG-------------------------------GV--GINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQT----RD 1377 (1958)
T ss_pred ccCC-------------------------------cc--ccccccCceEEEecCCCCchhhhHHHHHHHhhcCc----cc
Confidence 6543 24 9999999999999987764 4678888887 23
Q ss_pred ceEEEEeCcch
Q 011428 295 GASVSLVSPDE 305 (486)
Q Consensus 295 G~ai~fv~~~e 305 (486)
=..+-||+...
T Consensus 1378 VHIYRLISe~T 1388 (1958)
T KOG0391|consen 1378 VHIYRLISERT 1388 (1958)
T ss_pred eEEEEeeccch
Confidence 34455666553
No 151
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.92 E-value=0.00014 Score=82.49 Aligned_cols=77 Identities=16% Similarity=0.312 Sum_probs=58.2
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccccc
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRK 242 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~ 242 (486)
.+|+++|+++|.+....++..|....+.. ...|.-. .|..++++|+.+.-.||++|+.
T Consensus 646 ~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~~vLlG~~s------------------- 703 (820)
T PRK07246 646 LQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQQILLGLGS------------------- 703 (820)
T ss_pred cCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCCeEEEecch-------------------
Confidence 47899999999999999999997665544 3334222 3567899999988899999965
Q ss_pred ccCCCCCcccccccccccCccC--CccEEEEeCCC
Q 011428 243 SKKHPKAKLDSEFGVVRGIDFK--NVHTVINFEMP 275 (486)
Q Consensus 243 ~~~~~~~~~~~~~gvsrGID~~--~V~~VI~~d~P 275 (486)
+++|||+| +..+||...+|
T Consensus 704 --------------FwEGVD~p~~~~~~viI~kLP 724 (820)
T PRK07246 704 --------------FWEGVDFVQADRMIEVITRLP 724 (820)
T ss_pred --------------hhCCCCCCCCCeEEEEEecCC
Confidence 67899997 34556665554
No 152
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=97.83 E-value=0.00075 Score=75.06 Aligned_cols=122 Identities=23% Similarity=0.270 Sum_probs=99.3
Q ss_pred hhhHHHHHHHH-HhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCc---EEEEcCC
Q 011428 148 RDKLLYILTLL-KLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFD---YLIATDD 223 (486)
Q Consensus 148 ~~k~~~l~~ll-k~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~---iLIaTd~ 223 (486)
.-|+.+|-.+| ++...+++++.||.-..-..-+..+|.-.++...-+.|.....+|-..+..||....+ +|..|-.
T Consensus 709 sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~Fllstra 788 (1157)
T KOG0386|consen 709 SGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRA 788 (1157)
T ss_pred ccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecc
Confidence 34666665555 4455578999999988888888899988899999999999999999999999987544 4556644
Q ss_pred CCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeC
Q 011428 224 TQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVS 302 (486)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~ 302 (486)
. |+ |+|.+-.+.||.||.-+++....|+--|+.|.|..-.+-++..
T Consensus 789 g-------------------------------gl--glNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv~rl 834 (1157)
T KOG0386|consen 789 G-------------------------------GL--GLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLRL 834 (1157)
T ss_pred c-------------------------------cc--ccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheeeeee
Confidence 3 34 9999999999999999999999999999999997665555433
No 153
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=97.80 E-value=0.00057 Score=76.40 Aligned_cols=76 Identities=17% Similarity=0.325 Sum_probs=57.5
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHH-cCCceeecCCCCCHHHHHHHHHHHhc----CCCcEEEEcCCCCccccccCCCCCC
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEK-FGIKSAILNAELPQNSRLHILEEFNA----GLFDYLIATDDTQTKEKDQSDEGGH 237 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~-~gi~~~~lhs~l~~~~R~~i~~~F~~----g~~~iLIaTd~~~~~~~~~~~~~~~ 237 (486)
..+.+|||++|......++..|.. .+.. ...++. ..|..++++|.+ |.-.||++|..
T Consensus 533 ~~gg~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~---~~~~~ll~~f~~~~~~~~~~VL~g~~s-------------- 594 (697)
T PRK11747 533 KHKGSLVLFASRRQMQKVADLLPRDLRLM-LLVQGD---QPRQRLLEKHKKRVDEGEGSVLFGLQS-------------- 594 (697)
T ss_pred cCCCEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCC---chHHHHHHHHHHHhccCCCeEEEEecc--------------
Confidence 466799999999999999998864 3433 334554 357788877764 66779999965
Q ss_pred cccccccCCCCCcccccccccccCccCC--ccEEEEeCCC
Q 011428 238 VDSRKSKKHPKAKLDSEFGVVRGIDFKN--VHTVINFEMP 275 (486)
Q Consensus 238 ~~~~~~~~~~~~~~~~~~gvsrGID~~~--V~~VI~~d~P 275 (486)
+++|||+|+ +++||...+|
T Consensus 595 -------------------f~EGVD~pGd~l~~vII~kLP 615 (697)
T PRK11747 595 -------------------FAEGLDLPGDYLTQVIITKIP 615 (697)
T ss_pred -------------------ccccccCCCCceEEEEEEcCC
Confidence 678999986 6789887766
No 154
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=97.74 E-value=0.0003 Score=78.34 Aligned_cols=103 Identities=18% Similarity=0.216 Sum_probs=75.2
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCCHHHHHHHHHHHhcCCC-cEEEEcCCCCccccccCCCCCCcccc
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELPQNSRLHILEEFNAGLF-DYLIATDDTQTKEKDQSDEGGHVDSR 241 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~~~~R~~i~~~F~~g~~-~iLIaTd~~~~~~~~~~~~~~~~~~~ 241 (486)
++++|||++|.+....+...|...... ....+++.+ +..+++.|..+.- -++|+|..
T Consensus 479 ~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~---~~~~l~~f~~~~~~~~lv~~gs------------------ 537 (654)
T COG1199 479 PGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDE---REELLEKFKASGEGLILVGGGS------------------ 537 (654)
T ss_pred CCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCCc---HHHHHHHHHHhcCCeEEEeecc------------------
Confidence 679999999999999999999877663 344455544 4488899988765 89999977
Q ss_pred cccCCCCCcccccccccccCccCCc--cEEEEeCCCC------------------------------ChhhHHHhhhhcc
Q 011428 242 KSKKHPKAKLDSEFGVVRGIDFKNV--HTVINFEMPQ------------------------------NAAGYVHRIGRTG 289 (486)
Q Consensus 242 ~~~~~~~~~~~~~~gvsrGID~~~V--~~VI~~d~P~------------------------------s~~~yihRiGRtg 289 (486)
+++||||++= .+||...+|- .+....|-+||.=
T Consensus 538 ---------------f~EGVD~~g~~l~~vvI~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlI 602 (654)
T COG1199 538 ---------------FWEGVDFPGDALRLVVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLI 602 (654)
T ss_pred ---------------ccCcccCCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhcccc
Confidence 6899999866 6788776653 2344578889999
Q ss_pred cCCCCceEEEEeC
Q 011428 290 RAYNTGASVSLVS 302 (486)
Q Consensus 290 R~g~~G~ai~fv~ 302 (486)
|.-+.--++.++.
T Consensus 603 R~~~D~G~ivllD 615 (654)
T COG1199 603 RSEDDRGVIVLLD 615 (654)
T ss_pred ccCCCceEEEEec
Confidence 9654333333433
No 155
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=97.70 E-value=0.00011 Score=67.30 Aligned_cols=79 Identities=27% Similarity=0.296 Sum_probs=57.5
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcC----CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCc
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFG----IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHV 238 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~g----i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~ 238 (486)
.++.+|||++|....+.+...+...+ +.+.. . ...++..++++|..+.-.||+|+.-..
T Consensus 8 ~~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~--q--~~~~~~~~l~~~~~~~~~il~~v~~g~------------- 70 (167)
T PF13307_consen 8 VPGGVLVFFPSYRRLEKVYERLKERLEEKGIPVFV--Q--GSKSRDELLEEFKRGEGAILLAVAGGS------------- 70 (167)
T ss_dssp CSSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEE--S--TCCHHHHHHHHHCCSSSEEEEEETTSC-------------
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHhhcccccceeee--c--CcchHHHHHHHHHhccCeEEEEEeccc-------------
Confidence 46999999999999999999887653 33322 2 356788999999999999999997322
Q ss_pred ccccccCCCCCcccccccccccCccCC--ccEEEEeCCCC
Q 011428 239 DSRKSKKHPKAKLDSEFGVVRGIDFKN--VHTVINFEMPQ 276 (486)
Q Consensus 239 ~~~~~~~~~~~~~~~~~gvsrGID~~~--V~~VI~~d~P~ 276 (486)
+++||||++ +++||...+|.
T Consensus 71 ------------------~~EGiD~~~~~~r~vii~glPf 92 (167)
T PF13307_consen 71 ------------------FSEGIDFPGDLLRAVIIVGLPF 92 (167)
T ss_dssp ------------------CGSSS--ECESEEEEEEES---
T ss_pred ------------------EEEeecCCCchhheeeecCCCC
Confidence 578999996 66899988874
No 156
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=97.70 E-value=0.00027 Score=80.91 Aligned_cols=124 Identities=26% Similarity=0.318 Sum_probs=99.7
Q ss_pred hhHHHHHHHH-HhhccC-C--eEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC-CCcEEEEcCC
Q 011428 149 DKLLYILTLL-KLELVQ-K--KALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG-LFDYLIATDD 223 (486)
Q Consensus 149 ~k~~~l~~ll-k~~~~~-~--k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g-~~~iLIaTd~ 223 (486)
.|...+..++ ...... - ++|||+.......-+..+|...++..+.++|.++.+.|..+++.|+++ ...+++.+--
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 5666666666 222223 3 899999999999999999999999999999999999999999999997 4555555432
Q ss_pred CCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceE--EEEe
Q 011428 224 TQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGAS--VSLV 301 (486)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~a--i~fv 301 (486)
+.|+ |++....+.||.||+.+++....|...|+.|.|+...+ +-|+
T Consensus 772 ------------------------------agg~--glnLt~a~~vi~~d~~wnp~~~~Qa~dRa~RigQ~~~v~v~r~i 819 (866)
T COG0553 772 ------------------------------AGGL--GLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQKRPVKVYRLI 819 (866)
T ss_pred ------------------------------cccc--ceeecccceEEEeccccChHHHHHHHHHHHHhcCcceeEEEEee
Confidence 2334 99999999999999999999999999999999876554 4444
Q ss_pred Ccc
Q 011428 302 SPD 304 (486)
Q Consensus 302 ~~~ 304 (486)
+..
T Consensus 820 ~~~ 822 (866)
T COG0553 820 TRG 822 (866)
T ss_pred cCC
Confidence 443
No 157
>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=97.67 E-value=0.0012 Score=74.24 Aligned_cols=81 Identities=19% Similarity=0.278 Sum_probs=58.9
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCC--------ceeecCCCCCHHHHHHHHHHHhc----CCCcEEEEcCCCCccccc
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGI--------KSAILNAELPQNSRLHILEEFNA----GLFDYLIATDDTQTKEKD 230 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi--------~~~~lhs~l~~~~R~~i~~~F~~----g~~~iLIaTd~~~~~~~~ 230 (486)
.++.+|||++|-.....+...+...|+ .+.+=..+ ..++..++++|.. |.-.||+|+--.-
T Consensus 521 ~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~--~~~~~~~l~~f~~~~~~~~gavL~av~gGk----- 593 (705)
T TIGR00604 521 IPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKD--AQETSDALERYKQAVSEGRGAVLLSVAGGK----- 593 (705)
T ss_pred CCCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCC--cchHHHHHHHHHHHHhcCCceEEEEecCCc-----
Confidence 478999999999999998888876543 22211111 1578899999964 4556999984321
Q ss_pred cCCCCCCcccccccCCCCCcccccccccccCccCC--ccEEEEeCCCC
Q 011428 231 QSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN--VHTVINFEMPQ 276 (486)
Q Consensus 231 ~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~--V~~VI~~d~P~ 276 (486)
+++||||++ .++||..++|.
T Consensus 594 --------------------------~sEGIDf~~~~~r~ViivGlPf 615 (705)
T TIGR00604 594 --------------------------VSEGIDFCDDLGRAVIMVGIPY 615 (705)
T ss_pred --------------------------ccCccccCCCCCcEEEEEccCC
Confidence 678999987 68899999886
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=97.66 E-value=0.0011 Score=73.28 Aligned_cols=219 Identities=17% Similarity=0.227 Sum_probs=128.1
Q ss_pred CcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCc------H-HHHHHHHHHCCCCccEEEEeeecChhH
Q 011428 35 PDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGY------E-DDLKALSAVIPRGCQCLLMSATSSSDV 107 (486)
Q Consensus 35 ~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~------~-~~l~~i~~~lp~~~q~il~SATl~~~v 107 (486)
.+-++.+.+.|..... ..+++.++|||||+..++..=| . +.+..+...+.....+|+|-||+++..
T Consensus 122 ~~rLivqIdSL~R~~~-------~~l~~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~ak~VI~~DA~ln~~t 194 (824)
T PF02399_consen 122 YDRLIVQIDSLHRLDG-------SLLDRYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRNAKTVIVMDADLNDQT 194 (824)
T ss_pred cCeEEEEehhhhhccc-------ccccccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHhCCeEEEecCCCCHHH
Confidence 3566666555543321 3467799999999988765322 1 222333444556678999999999988
Q ss_pred HHHHHHhccCC-cEEEcCCcCC------------------------ccccc---------ccCcceEEEEEcchhhhHHH
Q 011428 108 DKLKKLILHNP-YILTLPEVGD------------------------VKDEV---------IPKNVQQFWISCSERDKLLY 153 (486)
Q Consensus 108 ~~l~~~~l~~p-~~i~l~~~~~------------------------~~~~~---------~~~~l~q~~i~~~~~~k~~~ 153 (486)
-++...+..+. +.+.+.+-.. ..++. .+.......+...+..
T Consensus 195 vdFl~~~Rp~~~i~vI~n~y~~~~fs~R~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t---- 270 (824)
T PF02399_consen 195 VDFLASCRPDENIHVIVNTYASPGFSNRRCTFLRSLGTDTLAAALNPEDENADTSPTPKHSPDPTATAAISNDETT---- 270 (824)
T ss_pred HHHHHHhCCCCcEEEEEeeeecCCcccceEEEecccCcHHHHHHhCCcccccccCCCcCCCCccccccccccchhh----
Confidence 77776654332 2222211000 00000 0011111111222222
Q ss_pred HHHHHHhhcc-CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccC
Q 011428 154 ILTLLKLELV-QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQS 232 (486)
Q Consensus 154 l~~llk~~~~-~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~ 232 (486)
.+..|...+. +.++-||+.|...+.-++.+...++.++.+++|.-+..+ + +. =+.|+|+|=|.+
T Consensus 271 F~~~L~~~L~~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~d---v-~~--W~~~~VviYT~~--------- 335 (824)
T PF02399_consen 271 FFSELLARLNAGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLED---V-ES--WKKYDVVIYTPV--------- 335 (824)
T ss_pred HHHHHHHHHhCCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCccc---c-cc--ccceeEEEEece---------
Confidence 2223333333 445668999999999999999999999999999877662 2 22 356999999988
Q ss_pred CCCCCcccccccCCCCCcccccccccccCccCCccE--EEEe--CCC--CChhhHHHhhhhcccCCCCceEEEEeCcc
Q 011428 233 DEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHT--VINF--EMP--QNAAGYVHRIGRTGRAYNTGASVSLVSPD 304 (486)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~--VI~~--d~P--~s~~~yihRiGRtgR~g~~G~ai~fv~~~ 304 (486)
++-|++|....+ |.-| ... .+..+..|.+||.-.-.. ...++++...
T Consensus 336 ------------------------itvG~Sf~~~HF~~~f~yvk~~~~gpd~~s~~Q~lgRvR~l~~-~ei~v~~d~~ 388 (824)
T PF02399_consen 336 ------------------------ITVGLSFEEKHFDSMFAYVKPMSYGPDMVSVYQMLGRVRSLLD-NEIYVYIDAS 388 (824)
T ss_pred ------------------------EEEEeccchhhceEEEEEecCCCCCCcHHHHHHHHHHHHhhcc-CeEEEEEecc
Confidence 455999865532 3333 222 356678999999954433 4444444443
No 159
>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=97.31 E-value=0.011 Score=64.81 Aligned_cols=86 Identities=20% Similarity=0.203 Sum_probs=63.5
Q ss_pred HHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhc----CCCcEEEEcCCCCccc
Q 011428 153 YILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNA----GLFDYLIATDDTQTKE 228 (486)
Q Consensus 153 ~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~----g~~~iLIaTd~~~~~~ 228 (486)
.+..++.. .+|.++|.+.|......++..|...---...+.|+.+ .|..++++|+. |.-.||++|+.
T Consensus 461 ~~~~~~~~--~~G~~lvLfTS~~~~~~~~~~l~~~l~~~~l~qg~~~--~~~~l~~~f~~~~~~~~~~vL~gt~s----- 531 (636)
T TIGR03117 461 STAAILRK--AQGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKN--RLASAEQQFLALYANGIQPVLIAAGG----- 531 (636)
T ss_pred HHHHHHHH--cCCCEEEEechHHHHHHHHHHHHhhcCCCEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEEeCCc-----
Confidence 34444432 3789999999999999999998653223345566554 35678899987 47899999987
Q ss_pred cccCCCCCCcccccccCCCCCcccccccccccCcc----------CCccEEEEeCCC
Q 011428 229 KDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDF----------KNVHTVINFEMP 275 (486)
Q Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~----------~~V~~VI~~d~P 275 (486)
+.+|||+ ..+++||..-+|
T Consensus 532 ----------------------------fweGvDv~~~~~~p~~G~~Ls~ViI~kLP 560 (636)
T TIGR03117 532 ----------------------------AWTGIDLTHKPVSPDKDNLLTDLIITCAP 560 (636)
T ss_pred ----------------------------cccccccCCccCCCCCCCcccEEEEEeCC
Confidence 5789999 358889987776
No 160
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=97.25 E-value=0.0023 Score=71.15 Aligned_cols=128 Identities=27% Similarity=0.223 Sum_probs=89.6
Q ss_pred EEcchhhhHHHHHHHHHh-hccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCC-cEEEE
Q 011428 143 ISCSERDKLLYILTLLKL-ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLF-DYLIA 220 (486)
Q Consensus 143 i~~~~~~k~~~l~~llk~-~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~-~iLIa 220 (486)
+..+...|+..+..-++. +..+.|+||-+.+++.++.+...|.+.||+..+||+.-...+=..+-+ .|.. -+-||
T Consensus 407 vy~t~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h~~EA~Iia~---AG~~gaVTiA 483 (822)
T COG0653 407 VYKTEEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNHAREAEIIAQ---AGQPGAVTIA 483 (822)
T ss_pred cccchHHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHhcCCCceeeccccHHHHHHHHhh---cCCCCccccc
Confidence 344567787777665544 445679999999999999999999999999999999877544333333 3433 47799
Q ss_pred cCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccE-----------EEEeCCCCChhhHHHhhhhcc
Q 011428 221 TDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHT-----------VINFEMPQNAAGYVHRIGRTG 289 (486)
Q Consensus 221 Td~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~-----------VI~~d~P~s~~~yihRiGRtg 289 (486)
|+++ .||-|+.--.. ||--.--.|-.-=-|--||+|
T Consensus 484 TNMA---------------------------------GRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsG 530 (822)
T COG0653 484 TNMA---------------------------------GRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAG 530 (822)
T ss_pred cccc---------------------------------cCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccc
Confidence 9996 47888753332 222221122211226669999
Q ss_pred cCCCCceEEEEeCcchh
Q 011428 290 RAYNTGASVSLVSPDEM 306 (486)
Q Consensus 290 R~g~~G~ai~fv~~~e~ 306 (486)
|.|.+|.+..|++-.+.
T Consensus 531 RQGDpG~S~F~lSleD~ 547 (822)
T COG0653 531 RQGDPGSSRFYLSLEDD 547 (822)
T ss_pred cCCCcchhhhhhhhHHH
Confidence 99999999999887764
No 161
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=97.21 E-value=0.0011 Score=72.85 Aligned_cols=64 Identities=14% Similarity=0.181 Sum_probs=53.9
Q ss_pred ccCCeEEEEecCHHHHHHHHHHHHHc-------CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCC
Q 011428 162 LVQKKALIFTNTIDMAFRLKLFLEKF-------GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQ 225 (486)
Q Consensus 162 ~~~~k~IIFvns~~~~~~l~~~L~~~-------gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~ 225 (486)
...+-++||.+--.....|..+|... ......+|+.++..+...+.+....|..++|+.|..++
T Consensus 641 ~i~gailvflpgwa~i~~L~~~ll~~~~fg~~~~y~ilp~Hsq~~~~eqrkvf~~~p~gv~kii~stniae 711 (1282)
T KOG0921|consen 641 NIDGAVLVFLPGWAEIMTLCNRLLEHQEFGQANKYEILPLHSQLTSQEQRKVFEPVPEGVTKIILSTNIAE 711 (1282)
T ss_pred CCccceeeecCchHHhhhhhhhhhhhhhhccchhcccccchhhcccHhhhhccCcccccccccccccceee
Confidence 34678999999999988888888543 34678899999999999999999999999999998865
No 162
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=96.88 E-value=0.0049 Score=68.38 Aligned_cols=118 Identities=25% Similarity=0.284 Sum_probs=96.4
Q ss_pred hhHHHHHHHHHhh-ccCCeEEEEecCHHHHHHHHHHHHHc----------------------CCceeecCCCCCHHHHHH
Q 011428 149 DKLLYILTLLKLE-LVQKKALIFTNTIDMAFRLKLFLEKF----------------------GIKSAILNAELPQNSRLH 205 (486)
Q Consensus 149 ~k~~~l~~llk~~-~~~~k~IIFvns~~~~~~l~~~L~~~----------------------gi~~~~lhs~l~~~~R~~ 205 (486)
.|+.+|+.+|+.. .++.|.|||..+.....-+..||+.. |....-|.|.....+|..
T Consensus 1126 gKmiLLleIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k 1205 (1567)
T KOG1015|consen 1126 GKMILLLEILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKK 1205 (1567)
T ss_pred cceehHHHHHHHHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHH
Confidence 4667788888764 35779999999999999999999743 445567788999999999
Q ss_pred HHHHHhcCC----CcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhH
Q 011428 206 ILEEFNAGL----FDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGY 281 (486)
Q Consensus 206 i~~~F~~g~----~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~y 281 (486)
..++||.-. --.||+|-... + |||+-..+-||.||..+++.-=
T Consensus 1206 ~~~~FNdp~NlRaRl~LISTRAGs-------------------------------L--GiNLvAANRVIIfDasWNPSyD 1252 (1567)
T KOG1015|consen 1206 WAEEFNDPTNLRARLFLISTRAGS-------------------------------L--GINLVAANRVIIFDASWNPSYD 1252 (1567)
T ss_pred HHHHhcCcccceeEEEEEeeccCc-------------------------------c--ccceeecceEEEEecccCCccc
Confidence 999998853 23788996643 3 9999999999999999999999
Q ss_pred HHhhhhcccCCCCceEEE
Q 011428 282 VHRIGRTGRAYNTGASVS 299 (486)
Q Consensus 282 ihRiGRtgR~g~~G~ai~ 299 (486)
+|-|=|+-|.|+.--++.
T Consensus 1253 tQSIFRvyRfGQtKPvyi 1270 (1567)
T KOG1015|consen 1253 TQSIFRVYRFGQTKPVYI 1270 (1567)
T ss_pred hHHHHHHHhhcCcCceee
Confidence 999999999997544433
No 163
>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=96.62 E-value=0.001 Score=60.63 Aligned_cols=68 Identities=16% Similarity=0.190 Sum_probs=44.4
Q ss_pred cCCCcEEEECcchHHHHHHcCCCC-------CCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecC
Q 011428 32 AGPPDIVIATPGCMPKCLSTGVLQ-------SKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSS 104 (486)
Q Consensus 32 ~~~~dIvV~TP~rl~~~l~~~~~~-------~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~ 104 (486)
....+|+++|...+.......... .........+||+||||++.+.. ....++. .....+++||||++
T Consensus 109 ~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH~~~~~~---~~~~i~~--~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 109 NNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAHHYPSDS---SYREIIE--FKAAFILGLTATPF 183 (184)
T ss_dssp BSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGGCTHHHH---HHHHHHH--SSCCEEEEEESS-S
T ss_pred cccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhhhcCCHH---HHHHHHc--CCCCeEEEEEeCcc
Confidence 467899999999998876543210 01233567899999999976433 1444444 44677999999975
No 164
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=96.46 E-value=0.012 Score=63.48 Aligned_cols=122 Identities=21% Similarity=0.303 Sum_probs=97.4
Q ss_pred hhHHHHHHHH-HhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCC-cEEEEcCCCCc
Q 011428 149 DKLLYILTLL-KLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLF-DYLIATDDTQT 226 (486)
Q Consensus 149 ~k~~~l~~ll-k~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~-~iLIaTd~~~~ 226 (486)
-|+..|-.+| ++...+.++|+|+.-.....-+..+|...++...-|.|......|..++.+|....+ -+|++|-..
T Consensus 1028 gKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAG-- 1105 (1185)
T KOG0388|consen 1028 GKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAG-- 1105 (1185)
T ss_pred cceeeHHHHHHHhhcCCceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccCCceEEEEEecccC--
Confidence 3444444444 233446699999999999999999999999999999999999999999999998654 456677543
Q ss_pred cccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCce--EEEEeCc
Q 011428 227 KEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGA--SVSLVSP 303 (486)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~--ai~fv~~ 303 (486)
|+ ||++...+.||.||--+++..=.|-+.|+.|-|+.-. ++-+++.
T Consensus 1106 -----------------------------GL--GINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrdvtvyrl~~r 1153 (1185)
T KOG0388|consen 1106 -----------------------------GL--GINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRDVTVYRLITR 1153 (1185)
T ss_pred -----------------------------cc--cccccccceEEEecCCCCcchhhHHHHHHHhccCccceeeeeeccc
Confidence 45 9999999999999999999999999999999987543 4444443
No 165
>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit
Probab=96.29 E-value=0.0029 Score=61.46 Aligned_cols=57 Identities=30% Similarity=0.324 Sum_probs=45.7
Q ss_pred eeEEEEeCCC-CHHHHHHHHc-CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccccc
Q 011428 13 LKVVQLTSSM-PASDLRAALA-GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADL 73 (486)
Q Consensus 13 i~v~~l~g~~-~~~~q~~~l~-~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ 73 (486)
..|+-|++.. ...+|...|. ...+|.||||+||..++..+. +.++++.+||||--|+
T Consensus 154 ~~v~KLFaKH~Kl~eqv~~L~~~~~~i~vGTP~Rl~kLle~~~----L~l~~l~~ivlD~s~~ 212 (252)
T PF14617_consen 154 CKVAKLFAKHIKLEEQVKLLKKTRVHIAVGTPGRLSKLLENGA----LSLSNLKRIVLDWSYL 212 (252)
T ss_pred chHHHHHHhhccHHHHHHHHHhCCceEEEeChHHHHHHHHcCC----CCcccCeEEEEcCCcc
Confidence 4455555543 6778888887 589999999999999999876 7789999999997554
No 166
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=95.95 E-value=0.034 Score=62.27 Aligned_cols=72 Identities=26% Similarity=0.243 Sum_probs=57.8
Q ss_pred HHHHHHHhhccCCeEEEEecCHHHHHHHHHHHH----HcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 153 YILTLLKLELVQKKALIFTNTIDMAFRLKLFLE----KFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 153 ~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~----~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
++..++..-..+.+++|.++|..-|...+..+. .+|++++.++|+++..+|..+++.+..|..+|+|+|...
T Consensus 299 a~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~l 374 (681)
T PRK10917 299 AALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHAL 374 (681)
T ss_pred HHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHH
Confidence 333444333345689999999988887766654 457999999999999999999999999999999999753
No 167
>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=95.93 E-value=0.01 Score=52.62 Aligned_cols=67 Identities=13% Similarity=0.161 Sum_probs=37.6
Q ss_pred CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC--cHHHHHHHHHHCCCCccEEEEeeecChhH
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG--YEDDLKALSAVIPRGCQCLLMSATSSSDV 107 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g--~~~~l~~i~~~lp~~~q~il~SATl~~~v 107 (486)
+--|-|+|.+.+...+.++ ....+.+++|+||||..-... +...+..... . ..+.+|+||||.|...
T Consensus 72 ~~~i~vMc~at~~~~~~~p-----~~~~~yd~II~DEcH~~Dp~sIA~rg~l~~~~~-~-g~~~~i~mTATPPG~~ 140 (148)
T PF07652_consen 72 SSIIDVMCHATYGHFLLNP-----CRLKNYDVIIMDECHFTDPTSIAARGYLRELAE-S-GEAKVIFMTATPPGSE 140 (148)
T ss_dssp SSSEEEEEHHHHHHHHHTS-----SCTTS-SEEEECTTT--SHHHHHHHHHHHHHHH-T-TS-EEEEEESS-TT--
T ss_pred CCcccccccHHHHHHhcCc-----ccccCccEEEEeccccCCHHHHhhheeHHHhhh-c-cCeeEEEEeCCCCCCC
Confidence 3345566666666656543 446789999999999853322 3333333322 2 2467999999998764
No 168
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=95.58 E-value=0.045 Score=60.77 Aligned_cols=71 Identities=21% Similarity=0.253 Sum_probs=57.9
Q ss_pred HHHHHHhhccCCeEEEEecCHHHHHHHHHHHHH----cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 154 ILTLLKLELVQKKALIFTNTIDMAFRLKLFLEK----FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 154 l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~----~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
+..++.......+++|.++|..-|...+..+.+ +|++++.++|+++..+|..+++....|..+|+|+|...
T Consensus 274 ~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~l 348 (630)
T TIGR00643 274 ALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHAL 348 (630)
T ss_pred HHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHH
Confidence 334444333456899999999998887766654 47999999999999999999999999999999999763
No 169
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=95.48 E-value=0.094 Score=46.56 Aligned_cols=46 Identities=24% Similarity=0.279 Sum_probs=33.9
Q ss_pred CCHHHHHHHHHHHhcCCC-cEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCCc--cEEEEeCC
Q 011428 198 LPQNSRLHILEEFNAGLF-DYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNV--HTVINFEM 274 (486)
Q Consensus 198 l~~~~R~~i~~~F~~g~~-~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V--~~VI~~d~ 274 (486)
....+...++++|....- .||++|.. +++||||++- ++||...+
T Consensus 31 ~~~~~~~~~l~~f~~~~~~~iL~~~~~---------------------------------~~EGiD~~g~~~r~vii~gl 77 (141)
T smart00492 31 EDGKETGKLLEKYVEACENAILLATAR---------------------------------FSEGVDFPGDYLRAVIIDGL 77 (141)
T ss_pred CChhHHHHHHHHHHHcCCCEEEEEccc---------------------------------eecceecCCCCeeEEEEEec
Confidence 334456788889987543 69998865 5789999974 57888887
Q ss_pred CC
Q 011428 275 PQ 276 (486)
Q Consensus 275 P~ 276 (486)
|.
T Consensus 78 Pf 79 (141)
T smart00492 78 PF 79 (141)
T ss_pred CC
Confidence 73
No 170
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.44 E-value=0.11 Score=56.57 Aligned_cols=103 Identities=17% Similarity=0.193 Sum_probs=81.8
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhc--CCCcEEEEcCCCCccccccCCCCCCcccc
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNA--GLFDYLIATDDTQTKEKDQSDEGGHVDSR 241 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~--g~~~iLIaTd~~~~~~~~~~~~~~~~~~~ 241 (486)
..+++|...=.....-+...|.++|.....+||..+..+|+.++++||. |..+|++-+=.
T Consensus 746 keK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLt------------------ 807 (901)
T KOG4439|consen 746 KEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLT------------------ 807 (901)
T ss_pred cceeeehhHHHHHHHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEc------------------
Confidence 4455555544444556677788999999999999999999999999976 44566655532
Q ss_pred cccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEE
Q 011428 242 KSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASV 298 (486)
Q Consensus 242 ~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai 298 (486)
+-|+ |+|+-+.+++|..|+-+++.-=-|-+-|.-|.|+.-.++
T Consensus 808 ------------AGGV--GLNL~GaNHlilvDlHWNPaLEqQAcDRIYR~GQkK~V~ 850 (901)
T KOG4439|consen 808 ------------AGGV--GLNLIGANHLILVDLHWNPALEQQACDRIYRMGQKKDVF 850 (901)
T ss_pred ------------cCcc--eeeecccceEEEEecccCHHHHHHHHHHHHHhcccCceE
Confidence 2346 999999999999999999999999999999999865544
No 171
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=95.29 E-value=0.087 Score=46.84 Aligned_cols=44 Identities=30% Similarity=0.436 Sum_probs=32.3
Q ss_pred HHHHHHHHHhcCCC---cEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccCC--ccEEEEeCCCC
Q 011428 202 SRLHILEEFNAGLF---DYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN--VHTVINFEMPQ 276 (486)
Q Consensus 202 ~R~~i~~~F~~g~~---~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~--V~~VI~~d~P~ 276 (486)
+...++++|+...- .||+|+...- +++||||++ +++||...+|.
T Consensus 32 ~~~~~l~~f~~~~~~~g~iL~~v~~G~-------------------------------~~EGiD~~g~~~r~vii~glPf 80 (142)
T smart00491 32 ETEELLEKYSAACEARGALLLAVARGK-------------------------------VSEGIDFPDDLGRAVIIVGIPF 80 (142)
T ss_pred hHHHHHHHHHHhcCCCCEEEEEEeCCe-------------------------------eecceecCCCccEEEEEEecCC
Confidence 44678888887543 5888886422 578999997 46888888773
No 172
>PRK05580 primosome assembly protein PriA; Validated
Probab=95.28 E-value=0.12 Score=57.87 Aligned_cols=78 Identities=21% Similarity=0.259 Sum_probs=62.3
Q ss_pred hhhhHHHHHHHHHhhcc-CCeEEEEecCHHHHHHHHHHHHH-cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 147 ERDKLLYILTLLKLELV-QKKALIFTNTIDMAFRLKLFLEK-FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 147 ~~~k~~~l~~llk~~~~-~~k~IIFvns~~~~~~l~~~L~~-~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
..-|......++...+. ++++||.|++++-+..+...|.+ +|..+.++||+++..+|..+......|..+|+|+|..+
T Consensus 172 GSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsa 251 (679)
T PRK05580 172 GSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSA 251 (679)
T ss_pred CChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHH
Confidence 34455544444332222 46899999999999999988875 78999999999999999999999999999999999753
No 173
>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=95.27 E-value=0.037 Score=54.74 Aligned_cols=96 Identities=19% Similarity=0.119 Sum_probs=50.5
Q ss_pred HHHHhhcCCCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHH
Q 011428 3 LIELCKGQVQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDD 82 (486)
Q Consensus 3 l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~ 82 (486)
+..+|.. ..+++..+.|...............+|+|+|.+.+.... .......+..-+.++||+||+|.+-+.+ ...
T Consensus 77 ~~~~~~~-~~~~v~~~~~~~~~~~~~~~~~~~~~vvi~ty~~~~~~~-~~~~~~~l~~~~~~~vIvDEaH~~k~~~-s~~ 153 (299)
T PF00176_consen 77 IEKWFDP-DSLRVIIYDGDSERRRLSKNQLPKYDVVITTYETLRKAR-KKKDKEDLKQIKWDRVIVDEAHRLKNKD-SKR 153 (299)
T ss_dssp HHHHSGT--TS-EEEESSSCHHHHTTSSSCCCSSEEEEEHHHHH--T-STHTTHHHHTSEEEEEEETTGGGGTTTT-SHH
T ss_pred hcccccc-ccccccccccccccccccccccccceeeecccccccccc-ccccccccccccceeEEEeccccccccc-ccc
Confidence 4455521 146777777665122222222357899999988877100 0000000111348899999999995433 222
Q ss_pred HHHHHHHCCCCccEEEEeeec
Q 011428 83 LKALSAVIPRGCQCLLMSATS 103 (486)
Q Consensus 83 l~~i~~~lp~~~q~il~SATl 103 (486)
...+ ..+. ....+++|||.
T Consensus 154 ~~~l-~~l~-~~~~~lLSgTP 172 (299)
T PF00176_consen 154 YKAL-RKLR-ARYRWLLSGTP 172 (299)
T ss_dssp HHHH-HCCC-ECEEEEE-SS-
T ss_pred cccc-cccc-cceEEeecccc
Confidence 3333 3354 66778999995
No 174
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=95.22 E-value=0.9 Score=52.88 Aligned_cols=78 Identities=17% Similarity=0.217 Sum_probs=49.4
Q ss_pred CCCCHHHHHHHHcCCC-cEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEE
Q 011428 20 SSMPASDLRAALAGPP-DIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLL 98 (486)
Q Consensus 20 g~~~~~~q~~~l~~~~-dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il 98 (486)
...+.+.....|.+.. .|||+|-.++-..+.... ....-.+==+||+||||+- .+ ...-..+...++ +...++
T Consensus 335 ~~~s~~~Lk~~l~~~~~~ii~TTIQKf~~~~~~~~--~~~~~~~~ivvI~DEaHRS-Q~--G~~~~~~~~~~~-~a~~~g 408 (962)
T COG0610 335 KAESTSELKELLEDGKGKIIVTTIQKFNKAVKEDE--LELLKRKNVVVIIDEAHRS-QY--GELAKLLKKALK-KAIFIG 408 (962)
T ss_pred cccCHHHHHHHHhcCCCcEEEEEecccchhhhccc--ccccCCCcEEEEEechhhc-cc--cHHHHHHHHHhc-cceEEE
Confidence 3445566667777554 899999999887776541 0111122237889999983 23 333344455555 588999
Q ss_pred Eeeec
Q 011428 99 MSATS 103 (486)
Q Consensus 99 ~SATl 103 (486)
||.|.
T Consensus 409 FTGTP 413 (962)
T COG0610 409 FTGTP 413 (962)
T ss_pred eeCCc
Confidence 99996
No 175
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=95.09 E-value=0.0068 Score=68.12 Aligned_cols=156 Identities=21% Similarity=0.175 Sum_probs=86.8
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHH------
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKA------ 85 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~------ 85 (486)
|++++.++|++..+... ...++|+|+||++.-.+.++- .....+.++..+|+||.|++.+. +.+.++.
T Consensus 1001 g~k~ie~tgd~~pd~~~---v~~~~~~ittpek~dgi~Rsw--~~r~~v~~v~~iv~de~hllg~~-rgPVle~ivsr~n 1074 (1230)
T KOG0952|consen 1001 GIKVIELTGDVTPDVKA---VREADIVITTPEKWDGISRSW--QTRKYVQSVSLIVLDEIHLLGED-RGPVLEVIVSRMN 1074 (1230)
T ss_pred CceeEeccCccCCChhh---eecCceEEcccccccCccccc--cchhhhccccceeecccccccCC-CcceEEEEeeccc
Confidence 68889999887665322 247899999999987776632 24577889999999999998654 2222222
Q ss_pred -HHHHCCCCccEEEEeeecChhHHHHHHHhccCCcEEEcCCcCC-ccccc--ccCcceEEEEEcchhhhHHHHHHHHHhh
Q 011428 86 -LSAVIPRGCQCLLMSATSSSDVDKLKKLILHNPYILTLPEVGD-VKDEV--IPKNVQQFWISCSERDKLLYILTLLKLE 161 (486)
Q Consensus 86 -i~~~lp~~~q~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~-~~~~~--~~~~l~q~~i~~~~~~k~~~l~~llk~~ 161 (486)
+-.+.++..+.+++|--+. ....++.+.--.+. ........ +..+. ..-...+|+..... +..-.++.++.+
T Consensus 1075 ~~s~~t~~~vr~~glsta~~-na~dla~wl~~~~~-~nf~~svrpvp~~~~i~gfp~~~~cprm~s--mnkpa~qaik~~ 1150 (1230)
T KOG0952|consen 1075 YISSQTEEPVRYLGLSTALA-NANDLADWLNIKDM-YNFRPSVRPVPLEVHIDGFPGQHYCPRMMS--MNKPAFQAIKTH 1150 (1230)
T ss_pred cCccccCcchhhhhHhhhhh-ccHHHHHHhCCCCc-CCCCcccccCCceEeecCCCchhcchhhhh--cccHHHHHHhcC
Confidence 2333445566666654332 22344444332222 11100000 00000 00011233332222 233345677888
Q ss_pred ccCCeEEEEecCHHHH
Q 011428 162 LVQKKALIFTNTIDMA 177 (486)
Q Consensus 162 ~~~~k~IIFvns~~~~ 177 (486)
.+..++|||+.+....
T Consensus 1151 sp~~p~lifv~srrqt 1166 (1230)
T KOG0952|consen 1151 SPIKPVLIFVSSRRQT 1166 (1230)
T ss_pred CCCCceEEEeeccccc
Confidence 8889999999876543
No 176
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.94 E-value=0.12 Score=54.02 Aligned_cols=109 Identities=16% Similarity=0.137 Sum_probs=87.0
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC-CCcEEEEcCCCCccccccCCCCCCcccccc
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG-LFDYLIATDDTQTKEKDQSDEGGHVDSRKS 243 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g-~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~ 243 (486)
-|.|||..-.....-+.-.|...|+.|.-|-|+|++..|...++.|... .+.|+..+=
T Consensus 639 ~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vfLvSL--------------------- 697 (791)
T KOG1002|consen 639 AKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLVSL--------------------- 697 (791)
T ss_pred hhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEEEEEe---------------------
Confidence 4889999988888888888999999999999999999999999999775 466665553
Q ss_pred cCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCC--CceEEEEeCcch
Q 011428 244 KKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYN--TGASVSLVSPDE 305 (486)
Q Consensus 244 ~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~--~G~ai~fv~~~e 305 (486)
++-|+ .+++-..+.|+..|+-+++.--.|--.|..|.|+ +=.++.|+..+.
T Consensus 698 ---------kAGGV--ALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEns 750 (791)
T KOG1002|consen 698 ---------KAGGV--ALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVRFCIENS 750 (791)
T ss_pred ---------ccCce--EeeechhceeEeecccccHHHHhhhhhhHHhhcCccceeEEEeehhcc
Confidence 23345 6788899999999999988777666666666664 566777776654
No 177
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.80 E-value=0.14 Score=55.28 Aligned_cols=61 Identities=20% Similarity=0.355 Sum_probs=54.9
Q ss_pred CCeEEEEecCHHHHHHHHHHHH-HcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLE-KFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~-~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
.+++||.++++.-+..++..|+ .+|..+.++||+++..+|..+......|..+|+|+|..+
T Consensus 25 g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsa 86 (505)
T TIGR00595 25 GKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRSA 86 (505)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChHH
Confidence 5689999999999999988886 468899999999999999999999999999999999753
No 178
>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=94.72 E-value=0.12 Score=59.56 Aligned_cols=68 Identities=22% Similarity=0.249 Sum_probs=56.5
Q ss_pred HHHHhhccCCeEEEEecCHHHHHHHHHHHHH----cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 156 TLLKLELVQKKALIFTNTIDMAFRLKLFLEK----FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 156 ~llk~~~~~~k~IIFvns~~~~~~l~~~L~~----~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.++..-....+++|.|+|..-|...+..+.. +++++..++|..+..++..+++.+..|..+|+|+|..
T Consensus 492 a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ 563 (926)
T TIGR00580 492 AAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHK 563 (926)
T ss_pred HHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHH
Confidence 3343333357899999999999988877654 4788899999999999999999999999999999974
No 179
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=94.50 E-value=0.15 Score=57.70 Aligned_cols=74 Identities=23% Similarity=0.358 Sum_probs=58.0
Q ss_pred hhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcC-----Cceee-cCCCCCHHHHHHHHHHHhcCCCcEEEEcC
Q 011428 149 DKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFG-----IKSAI-LNAELPQNSRLHILEEFNAGLFDYLIATD 222 (486)
Q Consensus 149 ~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~g-----i~~~~-lhs~l~~~~R~~i~~~F~~g~~~iLIaTd 222 (486)
.-|-+++.++-. ..+++++|.++|..-+...+..|+.+. ..+.+ +||.||..++..++++|.+|.++|||+|.
T Consensus 111 TTfg~~~sl~~a-~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs 189 (1187)
T COG1110 111 TTFGLLMSLYLA-KKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTS 189 (1187)
T ss_pred hHHHHHHHHHHH-hcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeH
Confidence 445566666543 335899999999887777777776653 44433 99999999999999999999999999997
Q ss_pred C
Q 011428 223 D 223 (486)
Q Consensus 223 ~ 223 (486)
.
T Consensus 190 ~ 190 (1187)
T COG1110 190 Q 190 (1187)
T ss_pred H
Confidence 4
No 180
>PF13871 Helicase_C_4: Helicase_C-like
Probab=94.22 E-value=0.16 Score=50.15 Aligned_cols=81 Identities=21% Similarity=0.324 Sum_probs=56.6
Q ss_pred HHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCccC--------CccEEEEeCCCC
Q 011428 205 HILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFK--------NVHTVINFEMPQ 276 (486)
Q Consensus 205 ~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~--------~V~~VI~~d~P~ 276 (486)
...+.|++|..+|+|.|+.+. .||-++ .-.+-|...+|+
T Consensus 52 ~e~~~F~~g~k~v~iis~Ags---------------------------------tGiSlHAd~~~~nqr~Rv~i~le~pw 98 (278)
T PF13871_consen 52 AEKQAFMDGEKDVAIISDAGS---------------------------------TGISLHADRRVKNQRRRVHITLELPW 98 (278)
T ss_pred HHHHHHhCCCceEEEEecccc---------------------------------cccchhccccCCCCCceEEEEeeCCC
Confidence 556799999999999998753 355544 234567889999
Q ss_pred ChhhHHHhhhhcccCCCC-ceEEEEeC---cchhhHHHHHHHHhcc
Q 011428 277 NAAGYVHRIGRTGRAYNT-GASVSLVS---PDEMKIFEEIKSFVGD 318 (486)
Q Consensus 277 s~~~yihRiGRtgR~g~~-G~ai~fv~---~~e~~~~~~~~~~l~~ 318 (486)
|+...+|..||+.|.|+. .--+.+++ +.|..+...+.+-+..
T Consensus 99 sad~aiQ~~GR~hRsnQ~~~P~y~~l~t~~~gE~Rfas~va~rL~s 144 (278)
T PF13871_consen 99 SADKAIQQFGRTHRSNQVSAPEYRFLVTDLPGERRFASTVARRLES 144 (278)
T ss_pred CHHHHHHHhccccccccccCCEEEEeecCCHHHHHHHHHHHHHHhh
Confidence 999999999999999973 33333333 3355555555554433
No 181
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.16 E-value=0.35 Score=53.80 Aligned_cols=78 Identities=19% Similarity=0.122 Sum_probs=65.5
Q ss_pred hhhhHHHHHHHHHhhcc-CCeEEEEecCHHHHHHHHHHHH-HcC-CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 147 ERDKLLYILTLLKLELV-QKKALIFTNTIDMAFRLKLFLE-KFG-IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 147 ~~~k~~~l~~llk~~~~-~~k~IIFvns~~~~~~l~~~L~-~~g-i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
...|......++...+. ++.+||.++.+..+..+...|+ .|| ..+.+|||+++..+|.........|..+|+|.|-.
T Consensus 170 GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRS 249 (665)
T PRK14873 170 GEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRS 249 (665)
T ss_pred CCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcce
Confidence 34677766667665554 4579999999999999988886 456 77999999999999999999999999999999976
Q ss_pred C
Q 011428 224 T 224 (486)
Q Consensus 224 ~ 224 (486)
+
T Consensus 250 A 250 (665)
T PRK14873 250 A 250 (665)
T ss_pred e
Confidence 5
No 182
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=94.13 E-value=1.4 Score=48.20 Aligned_cols=80 Identities=19% Similarity=0.252 Sum_probs=55.2
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCCce-------eecCCCCCHHHHHHHHHHH----hcCCCcEEEEcCCCCcccccc
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGIKS-------AILNAELPQNSRLHILEEF----NAGLFDYLIATDDTQTKEKDQ 231 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi~~-------~~lhs~l~~~~R~~i~~~F----~~g~~~iLIaTd~~~~~~~~~ 231 (486)
.++-+++|+++-+--..+...+++.|+-. ..+-+.-+ -..+++.| ..|.--+|.|.-..-
T Consensus 628 VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~---~~dvl~~Ya~a~~~g~GaiLlaVVGGK------ 698 (821)
T KOG1133|consen 628 VPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT---VEDVLEGYAEAAERGRGAILLAVVGGK------ 698 (821)
T ss_pred CCCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc---HHHHHHHHHHHhhcCCCeEEEEEeccc------
Confidence 46889999999999999999999887632 22222222 23455555 345556777764322
Q ss_pred CCCCCCcccccccCCCCCcccccccccccCccCC--ccEEEEeCCCC
Q 011428 232 SDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN--VHTVINFEMPQ 276 (486)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~--V~~VI~~d~P~ 276 (486)
+|+||||.| .++||..++|.
T Consensus 699 -------------------------lSEGINF~D~LgRaVvvVGlPy 720 (821)
T KOG1133|consen 699 -------------------------LSEGINFSDDLGRAVVVVGLPY 720 (821)
T ss_pred -------------------------cccccccccccccEEEEeecCC
Confidence 789999975 56899988874
No 183
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=93.93 E-value=0.16 Score=56.58 Aligned_cols=80 Identities=21% Similarity=0.289 Sum_probs=69.1
Q ss_pred cchhhhHHHHHHHHHhhccCC-eEEEEecCHHHHHHHHHHHH-HcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcC
Q 011428 145 CSERDKLLYILTLLKLELVQK-KALIFTNTIDMAFRLKLFLE-KFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATD 222 (486)
Q Consensus 145 ~~~~~k~~~l~~llk~~~~~~-k~IIFvns~~~~~~l~~~L~-~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd 222 (486)
++...|.+..+.++...+..| .+||.|+.+.....+...|+ .||.++.++||+|+..+|.....+...|+.+|+|.|-
T Consensus 225 vTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtR 304 (730)
T COG1198 225 VTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEARVVIGTR 304 (730)
T ss_pred CCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCceEEEEec
Confidence 456678888888877777666 68999999998888877775 7899999999999999999999999999999999997
Q ss_pred CC
Q 011428 223 DT 224 (486)
Q Consensus 223 ~~ 224 (486)
.+
T Consensus 305 SA 306 (730)
T COG1198 305 SA 306 (730)
T ss_pred hh
Confidence 65
No 184
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=92.87 E-value=0.6 Score=51.11 Aligned_cols=90 Identities=26% Similarity=0.389 Sum_probs=72.6
Q ss_pred hHHHHHHHHHhhccCCeEEEEecCHHH----HHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCC
Q 011428 150 KLLYILTLLKLELVQKKALIFTNTIDM----AFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQ 225 (486)
Q Consensus 150 k~~~l~~llk~~~~~~k~IIFvns~~~----~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~ 225 (486)
-...+.+++.....+.++..-++|.=- ...+..+|..+|+++..|.|.+....|..++++..+|.++++|.|...
T Consensus 297 TvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHAL- 375 (677)
T COG1200 297 TVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHAL- 375 (677)
T ss_pred HHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchh-
Confidence 344555666555557799999999644 455666677789999999999999999999999999999999999875
Q ss_pred ccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEE
Q 011428 226 TKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN 271 (486)
Q Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~ 271 (486)
+-..++|.+...||.
T Consensus 376 -------------------------------iQd~V~F~~LgLVIi 390 (677)
T COG1200 376 -------------------------------IQDKVEFHNLGLVII 390 (677)
T ss_pred -------------------------------hhcceeecceeEEEE
Confidence 335788888888875
No 185
>PRK10689 transcription-repair coupling factor; Provisional
Probab=92.37 E-value=0.52 Score=55.71 Aligned_cols=61 Identities=20% Similarity=0.222 Sum_probs=53.4
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHH----cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEK----FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~----~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
...+++|.|+|..-|...+..+.+ +++++.++++..+..++..+++.+..|..+|+|+|..
T Consensus 648 ~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~ 712 (1147)
T PRK10689 648 NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHK 712 (1147)
T ss_pred cCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHH
Confidence 367899999999999988877764 3577888999999999999999999999999999974
No 186
>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=92.30 E-value=0.22 Score=49.06 Aligned_cols=63 Identities=29% Similarity=0.374 Sum_probs=42.6
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHH-HHHHcCCCCCC--cCCCCcceEEeccccccc
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMP-KCLSTGVLQSK--SFSDSLKILVLDEADLLL 75 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~-~~l~~~~~~~~--~~l~~l~~lViDEad~ll 75 (486)
+|+++..++++.+....+... .+||+.+|.+.+. +.|+....... .....+.++||||||.++
T Consensus 145 LGlsv~~~~~~~~~~~r~~~Y--~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs~L 210 (266)
T PF07517_consen 145 LGLSVGIITSDMSSEERREAY--AADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDSIL 210 (266)
T ss_dssp TT--EEEEETTTEHHHHHHHH--HSSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHHHT
T ss_pred hhhccccCccccCHHHHHHHH--hCcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccceEE
Confidence 589999999988865544433 5679999999864 46665432221 224788999999999976
No 187
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=90.92 E-value=0.21 Score=49.71 Aligned_cols=73 Identities=18% Similarity=0.159 Sum_probs=45.4
Q ss_pred CCcEEEECcchHHHHHHcCCCCCCcCC---------CCcceEEecccccccCCCc--------HHHHHHHHHHCCCCccE
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQSKSFS---------DSLKILVLDEADLLLSYGY--------EDDLKALSAVIPRGCQC 96 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~~~~l---------~~l~~lViDEad~ll~~g~--------~~~l~~i~~~lp~~~q~ 96 (486)
.-.||++|...|...-..+.- ....+ +.=.+||+||||.+-...- ...+..|...|| +..+
T Consensus 136 ~~GvlF~TYs~L~~~~~~~~~-~~sRl~ql~~W~g~dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP-~ARv 213 (303)
T PF13872_consen 136 KEGVLFSTYSTLISESQSGGK-YRSRLDQLVDWCGEDFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLP-NARV 213 (303)
T ss_pred CCCccchhHHHHHhHHhccCC-ccchHHHHHHHHhcCCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCC-CCcE
Confidence 345899998877665432210 00111 1124899999999865432 135566677787 5669
Q ss_pred EEEeeecChhHH
Q 011428 97 LLMSATSSSDVD 108 (486)
Q Consensus 97 il~SATl~~~v~ 108 (486)
+.+|||--.+..
T Consensus 214 vY~SATgasep~ 225 (303)
T PF13872_consen 214 VYASATGASEPR 225 (303)
T ss_pred EEecccccCCCc
Confidence 999999665543
No 188
>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=90.64 E-value=1 Score=48.11 Aligned_cols=60 Identities=20% Similarity=0.324 Sum_probs=56.3
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.+.+||.+++++-+......|...|+.++.++++.+.+++..++.....|.++++++|+.
T Consensus 51 ~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe 110 (470)
T TIGR00614 51 DGITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPE 110 (470)
T ss_pred CCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHH
Confidence 678999999999999888899999999999999999999999999999999999999975
No 189
>PRK14701 reverse gyrase; Provisional
Probab=90.47 E-value=1 Score=55.06 Aligned_cols=61 Identities=23% Similarity=0.314 Sum_probs=54.0
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHc------CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKF------GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~------gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
..++||.++|++-+..+...|..+ ++.++.+||+++..++..+++.+..|.++|||+|+..
T Consensus 122 g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgr 188 (1638)
T PRK14701 122 GKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQF 188 (1638)
T ss_pred CCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCch
Confidence 458999999999999888888764 4677889999999999999999999999999999863
No 190
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=90.46 E-value=1.8 Score=47.98 Aligned_cols=141 Identities=19% Similarity=0.254 Sum_probs=96.2
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcCCce------------------eecCCCCCHHHHHHHHHHHhcCC--C-cEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFGIKS------------------AILNAELPQNSRLHILEEFNAGL--F-DYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~gi~~------------------~~lhs~l~~~~R~~i~~~F~~g~--~-~iLIaTd~ 223 (486)
.++|||..+......+..+|....++| .-+.|-.+...|...+.+||..- . -++++|-.
T Consensus 720 ~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstra 799 (1387)
T KOG1016|consen 720 EKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTRA 799 (1387)
T ss_pred ceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCCceeeeeehhcc
Confidence 489999999999888999987653322 34677889999999999999853 2 35666644
Q ss_pred CCccccccCCCCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEE--Ee
Q 011428 224 TQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVS--LV 301 (486)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~--fv 301 (486)
. . -||++-..+-+|.||..+++.-=.|-+-|.-|.|+.--|++ +|
T Consensus 800 g-------------------------------~--lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlV 846 (1387)
T KOG1016|consen 800 G-------------------------------S--LGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLV 846 (1387)
T ss_pred c-------------------------------c--ccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeeh
Confidence 2 2 39999888899999999998888888889999887655544 44
Q ss_pred CcchhhHHHHHHHHhcccccccc---CC---CCCcccccHHHHHHHHh
Q 011428 302 SPDEMKIFEEIKSFVGDDENEDS---NI---IAPFPLLAQNAVESLRY 343 (486)
Q Consensus 302 ~~~e~~~~~~~~~~l~~~~~~~~---~~---~~~~~~~~~~~ve~~~~ 343 (486)
...-.+ .+++.+-+..+. .. ..|...+.++++|.+-.
T Consensus 847 mD~~lE-----kkIydRQIsKqGmsdRvVDd~np~an~s~Ke~enLl~ 889 (1387)
T KOG1016|consen 847 MDNSLE-----KKIYDRQISKQGMSDRVVDDANPDANISQKELENLLM 889 (1387)
T ss_pred hhhhhH-----HHHHHHHHhhccchhhhhcccCccccccHHHHHHHhh
Confidence 443221 123332222221 11 34444477788887653
No 191
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=90.18 E-value=0.2 Score=59.82 Aligned_cols=94 Identities=22% Similarity=0.334 Sum_probs=74.3
Q ss_pred eEEEEecCHHHHHHHHHHHHHcC-CceeecCCCCC-----------HHHHHHHHHHHhcCCCcEEEEcCCCCccccccCC
Q 011428 166 KALIFTNTIDMAFRLKLFLEKFG-IKSAILNAELP-----------QNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSD 233 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~~g-i~~~~lhs~l~-----------~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~ 233 (486)
-.||||+....++.+...+...+ .....+-|.+. ...+..++..|....+++|++|.+.+
T Consensus 294 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~k~~~~~~~~~~~~vl~~~~~~~ln~L~~~~~~~-------- 365 (1606)
T KOG0701|consen 294 SGIIFVDQRYTAYVLLELLREIFSNDPLFVTGASGANLWKSFKNELELRQAEVLRRFHFHELNLLIATSVLE-------- 365 (1606)
T ss_pred hheeecccchHHHHHHHHHHHhhccCcceeeccccCccchhhHHHHHhhhHHHHHHHhhhhhhHHHHHHHHH--------
Confidence 35899999999999988886542 22222333321 23366788999999999999998853
Q ss_pred CCCCcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCC
Q 011428 234 EGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAY 292 (486)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g 292 (486)
.|+|++.++.|+.+|.|....+|+|+.||+-+.+
T Consensus 366 -------------------------e~~d~~~~~~~~~~~~~~~~~~~vq~~~r~~~~~ 399 (1606)
T KOG0701|consen 366 -------------------------EGVDVPKCNLVVLFDAPTYYRSYVQKKGRARAAD 399 (1606)
T ss_pred -------------------------hhcchhhhhhheeccCcchHHHHHHhhcccccch
Confidence 6999999999999999999999999999996654
No 192
>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=88.62 E-value=1.9 Score=47.56 Aligned_cols=61 Identities=16% Similarity=0.217 Sum_probs=56.3
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
.+.+||.++++.-+..-...|...|+.+..+||+++..++..++.....|.++++++|+..
T Consensus 53 ~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~ 113 (591)
T TIGR01389 53 KGLTVVISPLISLMKDQVDQLRAAGVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPER 113 (591)
T ss_pred CCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhH
Confidence 6789999999999888888899999999999999999999999999999999999999763
No 193
>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=88.15 E-value=0.45 Score=52.52 Aligned_cols=41 Identities=22% Similarity=0.233 Sum_probs=32.3
Q ss_pred cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 32 AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 32 ~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
...+||||++..-|...+..+. ..+...++|||||||.+.+
T Consensus 180 a~~AdivItNHalL~~~~~~~~----~iLP~~~~lIiDEAH~L~d 220 (636)
T TIGR03117 180 ARRCRILFCTHAMLGLAFRDKW----GLLPQPDILIVDEAHLFEQ 220 (636)
T ss_pred cccCCEEEECHHHHHHHhhhhc----CCCCCCCEEEEeCCcchHH
Confidence 3689999999998887765532 2456689999999999864
No 194
>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=87.87 E-value=1.9 Score=51.22 Aligned_cols=60 Identities=22% Similarity=0.385 Sum_probs=51.2
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHc----CCce---eecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKF----GIKS---AILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~----gi~~---~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..++||.++|++-+..++..+..+ |+.+ ..+||+++..++...++.+.+|..+|+|+|+.
T Consensus 121 g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~ 187 (1171)
T TIGR01054 121 GKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTM 187 (1171)
T ss_pred CCeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHH
Confidence 578999999999999888877765 4443 35899999999999999999999999999984
No 195
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=87.10 E-value=1 Score=51.89 Aligned_cols=99 Identities=19% Similarity=0.190 Sum_probs=63.2
Q ss_pred hHHHHhhcCCCeeEEEEeCCCCHHHHHH--HH-cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC
Q 011428 2 ALIELCKGQVQLKVVQLTSSMPASDLRA--AL-AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG 78 (486)
Q Consensus 2 ~l~~~~~~~~~i~v~~l~g~~~~~~q~~--~l-~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g 78 (486)
+|..||. ++++..++|.......++ |- .+..||.|++...+.+-+.. +...+++||||||||.|-.|-
T Consensus 683 ElKRwcP---glKILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~qd~~A------FkrkrWqyLvLDEaqnIKnfk 753 (1958)
T KOG0391|consen 683 ELKRWCP---GLKILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQDLTA------FKRKRWQYLVLDEAQNIKNFK 753 (1958)
T ss_pred HHhhhCC---cceEeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHhHHHH------HHhhccceeehhhhhhhcchh
Confidence 4667887 699999999754332221 11 24588999987766655543 556789999999999997654
Q ss_pred cHHHHHHHHHHCCCCccEEEEeee-cChhHHHHHH
Q 011428 79 YEDDLKALSAVIPRGCQCLLMSAT-SSSDVDKLKK 112 (486)
Q Consensus 79 ~~~~l~~i~~~lp~~~q~il~SAT-l~~~v~~l~~ 112 (486)
..-++.++..- ..+.+|++.| |-+.+.+|..
T Consensus 754 -sqrWQAllnfn--sqrRLLLtgTPLqNslmELWS 785 (1958)
T KOG0391|consen 754 -SQRWQALLNFN--SQRRLLLTGTPLQNSLMELWS 785 (1958)
T ss_pred -HHHHHHHhccc--hhheeeecCCchhhHHHHHHH
Confidence 23345554442 3456777777 3444444443
No 196
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=86.41 E-value=5.1 Score=42.59 Aligned_cols=55 Identities=16% Similarity=0.165 Sum_probs=43.8
Q ss_pred Ce-EEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KK-ALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k-~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
++ .+|.|+|++-|..+...-..| |+++..+||+.|..+...-++ -...|+|||+.
T Consensus 296 gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk----~g~EivVaTPg 355 (731)
T KOG0339|consen 296 GPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELK----EGAEIVVATPG 355 (731)
T ss_pred CCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhh----cCCeEEEechH
Confidence 44 577889999998887777666 789999999999887766554 34689999985
No 197
>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=85.85 E-value=4.4 Score=37.51 Aligned_cols=56 Identities=18% Similarity=0.266 Sum_probs=44.2
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
++++||.|++...+......++.+ ++.+..++|+.+.......+. +..+|+|+|..
T Consensus 69 ~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~iiv~T~~ 128 (203)
T cd00268 69 GPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLK----RGPHIVVATPG 128 (203)
T ss_pred CceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhc----CCCCEEEEChH
Confidence 568999999999988887777665 778889999998766554332 67899999964
No 198
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=84.72 E-value=3.4 Score=43.97 Aligned_cols=55 Identities=20% Similarity=0.271 Sum_probs=43.9
Q ss_pred CeEEEEecCHHHHHHHHHHHHHc-----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKF-----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~-----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.++||.|+|++-|..++..++.+ ++.+..++|+.+.......+. +..+|+|+|+.
T Consensus 73 ~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~----~~~~IvV~Tp~ 132 (460)
T PRK11776 73 VQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLE----HGAHIIVGTPG 132 (460)
T ss_pred ceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHhc----CCCCEEEEChH
Confidence 47999999999999888877654 578888999999876654333 56799999975
No 199
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=84.57 E-value=4.8 Score=46.98 Aligned_cols=72 Identities=17% Similarity=0.179 Sum_probs=58.9
Q ss_pred HHHHHHHhhccCCeEEEEecCHHHHHHHHHHH----HHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 153 YILTLLKLELVQKKALIFTNTIDMAFRLKLFL----EKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 153 ~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L----~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
++-+.++.-..++++.|.|+|.=-|+.-+..| ..+.+++..|..--+..+...+++....|.++|+|.|--.
T Consensus 632 AmRAAFkAV~~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrL 707 (1139)
T COG1197 632 AMRAAFKAVMDGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRL 707 (1139)
T ss_pred HHHHHHHHhcCCCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechHh
Confidence 44555666555778999999987766555554 4568899999999999999999999999999999999764
No 200
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=84.37 E-value=1.1 Score=44.64 Aligned_cols=43 Identities=16% Similarity=0.042 Sum_probs=30.1
Q ss_pred HcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 31 LAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 31 l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
.....||||++..-|++......+ ...+ .-.+|||||||.+.+
T Consensus 208 ~~~~Adivi~ny~yll~~~~r~~~--~~~l-~~~~lIiDEAHnL~d 250 (289)
T smart00489 208 AIEFANVVVLPYQYLLDPKIRQAL--SIEL-KDSIVIFDEAHNLDN 250 (289)
T ss_pred HhhcCCEEEECHHHHhcHHHHHHh--cccc-cccEEEEeCccChHH
Confidence 346899999998888765533221 1233 368999999999853
No 201
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=84.37 E-value=1.1 Score=44.64 Aligned_cols=43 Identities=16% Similarity=0.042 Sum_probs=30.1
Q ss_pred HcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 31 LAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 31 l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
.....||||++..-|++......+ ...+ .-.+|||||||.+.+
T Consensus 208 ~~~~Adivi~ny~yll~~~~r~~~--~~~l-~~~~lIiDEAHnL~d 250 (289)
T smart00488 208 AIEFANVVVLPYQYLLDPKIRQAL--SIEL-KDSIVIFDEAHNLDN 250 (289)
T ss_pred HhhcCCEEEECHHHHhcHHHHHHh--cccc-cccEEEEeCccChHH
Confidence 346899999998888765533221 1233 368999999999853
No 202
>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=83.05 E-value=0.56 Score=42.91 Aligned_cols=46 Identities=26% Similarity=0.117 Sum_probs=28.3
Q ss_pred HHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 29 AALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 29 ~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
..+....||||++..-|++-.....+. .+. ..-.+|||||||-|.+
T Consensus 114 r~~~~~adivi~~y~yl~~~~~~~~~~-~~~-~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 114 RELAKNADIVICNYNYLFDPSIRKSLF-GID-LKDNIVIFDEAHNLED 159 (174)
T ss_dssp HHCGGG-SEEEEETHHHHSHHHHHHHC-T---CCCEEEEETTGGGCGG
T ss_pred HHhcccCCEEEeCHHHHhhHHHHhhhc-ccc-ccCcEEEEecccchHH
Confidence 344568999999987766543332211 122 2346899999999875
No 203
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=82.96 E-value=5 Score=47.10 Aligned_cols=61 Identities=20% Similarity=0.276 Sum_probs=54.0
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhc--CCCcEEEEcCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNA--GLFDYLIATDDT 224 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~--g~~~iLIaTd~~ 224 (486)
.+.+||.+++++-+..-...|...|+++..++++++..++..++..+.. |.++||++|+..
T Consensus 500 ~GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPER 562 (1195)
T PLN03137 500 PGITLVISPLVSLIQDQIMNLLQANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEK 562 (1195)
T ss_pred CCcEEEEeCHHHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHH
Confidence 5789999999999876666677889999999999999999999999877 899999999863
No 204
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=82.86 E-value=1.4 Score=49.67 Aligned_cols=63 Identities=25% Similarity=0.295 Sum_probs=45.8
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHH-HHHHcCCCC--CCcCCCCcceEEeccccccc
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMP-KCLSTGVLQ--SKSFSDSLKILVLDEADLLL 75 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~-~~l~~~~~~--~~~~l~~l~~lViDEad~ll 75 (486)
+|++|..++|+.+....+... .+||+.+|..-+- +.|+.+... .......+.+.||||||.||
T Consensus 148 LGl~vg~i~~~~~~~~r~~~y--~~dI~Y~t~~e~gfDyLRD~m~~~~~~~v~r~~~~aIvDEvDSiL 213 (796)
T PRK12906 148 LGLTVGLNLNSMSPDEKRAAY--NCDITYSTNSELGFDYLRDNMVVYKEQMVQRPLNYAIVDEVDSIL 213 (796)
T ss_pred cCCeEEEeCCCCCHHHHHHHh--cCCCeecCCccccccchhhccccchhhhhccCcceeeeccchhee
Confidence 689999999998887666555 6799999998763 455543211 11234568899999999976
No 205
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=82.62 E-value=5.5 Score=44.15 Aligned_cols=60 Identities=17% Similarity=0.223 Sum_probs=55.7
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.+.+||.+++++-+......|...|+.+..+++.++...+..++.....|.++++++|+.
T Consensus 65 ~g~tlVisPl~sL~~dqv~~l~~~gi~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe 124 (607)
T PRK11057 65 DGLTLVVSPLISLMKDQVDQLLANGVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPE 124 (607)
T ss_pred CCCEEEEecHHHHHHHHHHHHHHcCCcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEEChH
Confidence 578999999999999999999999999999999999999999999999999999999965
No 206
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=82.06 E-value=4.4 Score=44.28 Aligned_cols=61 Identities=23% Similarity=0.366 Sum_probs=56.3
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
.|-|||..+=+.-...=...|.+.|+.++.+||.|+..+|..++.++..|.+++|.-+++.
T Consensus 57 ~G~TLVVSPLiSLM~DQV~~l~~~Gi~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPEr 117 (590)
T COG0514 57 EGLTLVVSPLISLMKDQVDQLEAAGIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPER 117 (590)
T ss_pred CCCEEEECchHHHHHHHHHHHHHcCceeehhhcccCHHHHHHHHHHHhcCceeEEEECchh
Confidence 7889999999888887788889999999999999999999999999999999999888764
No 207
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=81.20 E-value=5.9 Score=44.09 Aligned_cols=56 Identities=16% Similarity=0.245 Sum_probs=43.3
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHc-----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKF-----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~-----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..++||.|+|++-|..++..+..+ ++.++.++|+.+...+...+ + ...+|+|+|+.
T Consensus 74 ~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l---~-~~~~IVVgTPg 134 (629)
T PRK11634 74 APQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRAL---R-QGPQIVVGTPG 134 (629)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHh---c-CCCCEEEECHH
Confidence 458999999999999888777654 78889999998776554433 2 45789999964
No 208
>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=80.94 E-value=4.1 Score=41.77 Aligned_cols=74 Identities=23% Similarity=0.278 Sum_probs=42.1
Q ss_pred CeeEEEEeCCCCHHH-HHHHHcCCC-----cEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC-------
Q 011428 12 QLKVVQLTSSMPASD-LRAALAGPP-----DIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG------- 78 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~-q~~~l~~~~-----dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g------- 78 (486)
+.++..++++.+... ....+.... ...+..|..+...+.. ........++|||||||++.+.+
T Consensus 31 ~~~~~~l~~n~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~----~~~~~~~~DviivDEAqrl~~~~~~~~~~~ 106 (352)
T PF09848_consen 31 GKKVLYLCGNHPLRNKLREQLAKKYNPKLKKSDFRKPTSFINNYSE----SDKEKNKYDVIIVDEAQRLRTKGDQYNNFS 106 (352)
T ss_pred CCceEEEEecchHHHHHHHHHhhhcccchhhhhhhhhHHHHhhccc----ccccCCcCCEEEEehhHhhhhccccccccc
Confidence 455666666655433 233343322 3344555444443331 11345779999999999998832
Q ss_pred cHHHHHHHHHH
Q 011428 79 YEDDLKALSAV 89 (486)
Q Consensus 79 ~~~~l~~i~~~ 89 (486)
..+.+..++..
T Consensus 107 ~~~~L~~i~~~ 117 (352)
T PF09848_consen 107 EPNQLDEIIKR 117 (352)
T ss_pred cHHHHHHHHhc
Confidence 24667777666
No 209
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=80.35 E-value=2.2 Score=47.43 Aligned_cols=45 Identities=24% Similarity=0.423 Sum_probs=33.5
Q ss_pred cccCccCCccEEEE--------eCCCCChhhHHHhhhhcccCCC-CceEEEEeC
Q 011428 258 VRGIDFKNVHTVIN--------FEMPQNAAGYVHRIGRTGRAYN-TGASVSLVS 302 (486)
Q Consensus 258 srGID~~~V~~VI~--------~d~P~s~~~yihRiGRtgR~g~-~G~ai~fv~ 302 (486)
+-||-++.-.-|+| +.+|+|...-||..|||.|.++ ++--++|+.
T Consensus 868 SSGiSLQsDrRv~NqRRRvHiTLELPWSADrAIQQFGRTHRSNQVsaPEYvFlI 921 (1300)
T KOG1513|consen 868 SSGISLQSDRRVQNQRRRVHITLELPWSADRAIQQFGRTHRSNQVSAPEYVFLI 921 (1300)
T ss_pred ccCceeecchhhhhhhheEEEEEECCcchhHHHHHhcccccccccCCCeEEEEe
Confidence 45777776655554 8899999999999999999886 344444443
No 210
>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=80.33 E-value=1.6 Score=50.35 Aligned_cols=44 Identities=23% Similarity=0.241 Sum_probs=32.3
Q ss_pred HHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 29 AALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 29 ~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
.......||||+...-|++.+.... ..+..-.+|||||||.+.+
T Consensus 411 r~~a~~AdivItNHa~L~~~~~~~~----~ilp~~~~lIiDEAH~L~d 454 (850)
T TIGR01407 411 QKNAEQAQILITNHAYLITRLVDNP----ELFPSFRDLIIDEAHHLPD 454 (850)
T ss_pred HHHHhcCCEEEecHHHHHHHhhccc----ccCCCCCEEEEECcchHHH
Confidence 3445789999999887777765432 2344557999999999864
No 211
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=79.32 E-value=8.6 Score=40.51 Aligned_cols=56 Identities=16% Similarity=0.202 Sum_probs=43.4
Q ss_pred CCeEEEEecCHHHHHHHHHHHHH----cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEK----FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~----~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..++||.++|++-+..++..+.. .++.+..++|+.+...+..++ .+..+|+|||+.
T Consensus 73 ~~~~lil~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l----~~~~~IlV~Tp~ 132 (434)
T PRK11192 73 PPRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVF----SENQDIVVATPG 132 (434)
T ss_pred CceEEEECCcHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHHHHHHh----cCCCCEEEEChH
Confidence 35899999999988877665543 478899999999887765443 356799999974
No 212
>cd01524 RHOD_Pyr_redox Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar rhodanese-like domains found C-terminal of the pyridine nucleotide-disulphide oxidoreductase (Pyr-redox) domain and the Pyr-redox dimerization domain.
Probab=78.82 E-value=8.6 Score=30.64 Aligned_cols=37 Identities=14% Similarity=0.174 Sum_probs=32.0
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCH
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~ 200 (486)
..++++||++-..+...+..|...|+.+..|.|++..
T Consensus 51 ~~~vvl~c~~g~~a~~~a~~L~~~G~~v~~l~GG~~~ 87 (90)
T cd01524 51 DKEIIVYCAVGLRGYIAARILTQNGFKVKNLDGGYKT 87 (90)
T ss_pred CCcEEEEcCCChhHHHHHHHHHHCCCCEEEecCCHHH
Confidence 4689999998778889999999999999999999753
No 213
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=78.60 E-value=2.2 Score=39.21 Aligned_cols=55 Identities=22% Similarity=0.402 Sum_probs=46.5
Q ss_pred CCCcceEEecccccccCCCc--HHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHh
Q 011428 60 SDSLKILVLDEADLLLSYGY--EDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLI 114 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~--~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~ 114 (486)
-...++||+||+=..+++|+ .+++..++...|....+|+..-..|+++.+++.++
T Consensus 95 ~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~AD~V 151 (173)
T TIGR00708 95 DPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLELADLV 151 (173)
T ss_pred cCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCcee
Confidence 35689999999999999985 47888899999999999999999999887766544
No 214
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=78.02 E-value=5.1 Score=43.45 Aligned_cols=53 Identities=26% Similarity=0.469 Sum_probs=44.3
Q ss_pred EEEEecCHHHHHHHHHHHHHc-----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKF-----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~-----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
+||+++|++-|..++..+..+ ++.++.+.|+++...+. ..++.| .+|+|||+.
T Consensus 102 aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~---~~l~~~-~~ivVaTPG 159 (513)
T COG0513 102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQI---EALKRG-VDIVVATPG 159 (513)
T ss_pred eEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHH---HHHhcC-CCEEEECcc
Confidence 999999999999998888755 46789999999887766 445557 999999986
No 215
>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=77.35 E-value=3.3 Score=37.51 Aligned_cols=55 Identities=20% Similarity=0.405 Sum_probs=46.5
Q ss_pred CCCcceEEecccccccCCCc--HHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHh
Q 011428 60 SDSLKILVLDEADLLLSYGY--EDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLI 114 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~--~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~ 114 (486)
....++||+||+=..+.+|+ .+++..+++..|...-+|+.+-.+|+++.+++.++
T Consensus 93 ~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~~l~e~AD~V 149 (159)
T cd00561 93 SGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPKELIEAADLV 149 (159)
T ss_pred cCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCcee
Confidence 45789999999999988885 47888899999999999999999999887766543
No 216
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=77.33 E-value=4.8 Score=43.19 Aligned_cols=54 Identities=26% Similarity=0.331 Sum_probs=47.5
Q ss_pred eEEEEecCHHHHHHHHHHHHH----cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 166 KALIFTNTIDMAFRLKLFLEK----FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~----~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
-.|||++|++-|..+...|.. -+|.+..+.|+|.....+.++.+ .-+|+|||+.
T Consensus 265 ~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~----~p~IVVATPG 322 (731)
T KOG0347|consen 265 IALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQ----RPDIVVATPG 322 (731)
T ss_pred eeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhc----CCCEEEecch
Confidence 489999999999999888864 38999999999999999888877 5689999985
No 217
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=76.72 E-value=4 Score=37.93 Aligned_cols=54 Identities=20% Similarity=0.427 Sum_probs=47.0
Q ss_pred CCcceEEecccccccCCCcH--HHHHHHHHHCCCCccEEEEeeecChhHHHHHHHh
Q 011428 61 DSLKILVLDEADLLLSYGYE--DDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLI 114 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~--~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~ 114 (486)
..+++||+||.-..+.+||. +++..++..-|....+|+..-.+|+++-+++.++
T Consensus 121 ~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTGr~ap~~lie~ADlV 176 (198)
T COG2109 121 GKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITGRGAPPELIELADLV 176 (198)
T ss_pred CCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEECCCCCHHHHHHHHHH
Confidence 46999999999999999965 7888889999988889988888999998887765
No 218
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=76.64 E-value=11 Score=35.10 Aligned_cols=55 Identities=20% Similarity=0.372 Sum_probs=46.6
Q ss_pred CCCcceEEecccccccCCCc--HHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHh
Q 011428 60 SDSLKILVLDEADLLLSYGY--EDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLI 114 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~--~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~ 114 (486)
-...++||+||+=..+++|+ .+++..++...|...-+|+.--..|+++.+++.++
T Consensus 113 ~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p~~Lie~ADlV 169 (191)
T PRK05986 113 DESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAPRELIEAADLV 169 (191)
T ss_pred CCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCchh
Confidence 35689999999999999996 47888889999999899998888999887776654
No 219
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=76.64 E-value=9.1 Score=40.74 Aligned_cols=54 Identities=26% Similarity=0.348 Sum_probs=42.4
Q ss_pred eEEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 166 KALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
++||.|+|++-|..+...+..+ ++.+..++|+.+.+..... ..+.++|+|||..
T Consensus 77 ~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~----l~~~~~IiV~TP~ 134 (456)
T PRK10590 77 RALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMK----LRGGVDVLVATPG 134 (456)
T ss_pred eEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHHHHHH----HcCCCcEEEEChH
Confidence 6999999999998888777654 6788889999887664332 2467899999974
No 220
>PRK09401 reverse gyrase; Reviewed
Probab=75.51 E-value=10 Score=45.29 Aligned_cols=59 Identities=29% Similarity=0.358 Sum_probs=48.9
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcC----Cce--eecCCCCCHHHHHHHHHHHhcCCCcEEEEcC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFG----IKS--AILNAELPQNSRLHILEEFNAGLFDYLIATD 222 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~g----i~~--~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd 222 (486)
..++||.|+|++-+..++..+..++ +.+ +..|+.++..++....+.+..|..+|+|+|.
T Consensus 123 g~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp 187 (1176)
T PRK09401 123 GKKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTS 187 (1176)
T ss_pred CCeEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECH
Confidence 6789999999999999888887764 333 4456777888888888999999999999996
No 221
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=75.38 E-value=3.1 Score=48.51 Aligned_cols=42 Identities=21% Similarity=0.234 Sum_probs=32.2
Q ss_pred HcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 31 LAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 31 l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
-....||||+.-.-|+..+..+. ..+...+++||||||++.+
T Consensus 428 ~a~~AdivItNHalLl~dl~~~~----~ilp~~~~lViDEAH~l~d 469 (928)
T PRK08074 428 RAKFADLVITNHALLLTDLTSEE----PLLPSYEHIIIDEAHHFEE 469 (928)
T ss_pred HHhcCCEEEECHHHHHHHHhhhc----ccCCCCCeEEEECCchHHH
Confidence 34689999999988877764332 3456689999999999864
No 222
>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=74.82 E-value=26 Score=30.90 Aligned_cols=56 Identities=21% Similarity=0.264 Sum_probs=43.6
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcC----CceeecCCCCCHH-HHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFG----IKSAILNAELPQN-SRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~g----i~~~~lhs~l~~~-~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.+++||.|++.+-+..+...+..+. +.+..++++.+.. .....+ .+..+|+|+|..
T Consensus 44 ~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ilv~T~~ 104 (169)
T PF00270_consen 44 DARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHGGQSISEDQREVL----SNQADILVTTPE 104 (169)
T ss_dssp SSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEESTTSCHHHHHHHHH----HTTSSEEEEEHH
T ss_pred CceEEEEeecccccccccccccccccccccccccccccccccccccccc----cccccccccCcc
Confidence 4599999999999999988887764 4688889998854 333232 678999999975
No 223
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=73.98 E-value=17 Score=39.14 Aligned_cols=95 Identities=18% Similarity=0.277 Sum_probs=67.6
Q ss_pred CeEEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCccc
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDS 240 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~ 240 (486)
..+||.++|++-|..+...+..+ ++++++++|+.|......- .+.| ++|+|||+.--.+.
T Consensus 166 P~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~~~---l~~g-vdiviaTPGRl~d~------------ 229 (519)
T KOG0331|consen 166 PIVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRD---LERG-VDVVIATPGRLIDL------------ 229 (519)
T ss_pred CeEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCccHHHHH---HhcC-CcEEEeCChHHHHH------------
Confidence 46999999999999999888776 4568889999987665433 3344 69999998531100
Q ss_pred ccccCCCCCcccccccccccCccCCccEEEE--------eCCCCChhhHHHhhhhccc
Q 011428 241 RKSKKHPKAKLDSEFGVVRGIDFKNVHTVIN--------FEMPQNAAGYVHRIGRTGR 290 (486)
Q Consensus 241 ~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~--------~d~P~s~~~yihRiGRtgR 290 (486)
.+. .-+|+..|+++|. .++-..+...+++++|+-|
T Consensus 230 ------------le~---g~~~l~~v~ylVLDEADrMldmGFe~qI~~Il~~i~~~~r 272 (519)
T KOG0331|consen 230 ------------LEE---GSLNLSRVTYLVLDEADRMLDMGFEPQIRKILSQIPRPDR 272 (519)
T ss_pred ------------HHc---CCccccceeEEEeccHHhhhccccHHHHHHHHHhcCCCcc
Confidence 111 2478888888874 3445567788888888877
No 224
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=73.79 E-value=3.9 Score=46.09 Aligned_cols=42 Identities=24% Similarity=0.218 Sum_probs=30.0
Q ss_pred cCCCcEEEECcchHHHHHHcCCCCCCcCCC--CcceEEecccccccC
Q 011428 32 AGPPDIVIATPGCMPKCLSTGVLQSKSFSD--SLKILVLDEADLLLS 76 (486)
Q Consensus 32 ~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~--~l~~lViDEad~ll~ 76 (486)
....||||+.-.-|+..+..+. . ..+. ...+|||||||++.+
T Consensus 217 a~~AdivVtNH~LLladl~~~~--~-~iLp~~~~~~lViDEAH~L~d 260 (697)
T PRK11747 217 IDEADVVVANHDLVLADLELGG--G-VVLPDPENLLYVLDEGHHLPD 260 (697)
T ss_pred HhhCCEEEECcHHHHhhhhccC--C-cccCCCCCCEEEEECccchHH
Confidence 4688999999887777664321 1 2233 467899999999874
No 225
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=72.82 E-value=21 Score=35.71 Aligned_cols=40 Identities=18% Similarity=0.359 Sum_probs=28.9
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
...++|||||+|.+........+..++...+.++++|+.|
T Consensus 99 ~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~ 138 (316)
T PHA02544 99 GGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITA 138 (316)
T ss_pred CCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEc
Confidence 4578999999999844334566777777777777766644
No 226
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=72.67 E-value=3.7 Score=37.87 Aligned_cols=54 Identities=15% Similarity=0.279 Sum_probs=45.7
Q ss_pred CCCcceEEecccccccCCCcH--HHHHHHHHHCCCCccEEEEeeecChhHHHHHHH
Q 011428 60 SDSLKILVLDEADLLLSYGYE--DDLKALSAVIPRGCQCLLMSATSSSDVDKLKKL 113 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~--~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~ 113 (486)
-...++||+||+=..+++|+- +++..+++..|...-+|+.--..|+++.+++.+
T Consensus 113 ~~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR~~p~~Lie~AD~ 168 (178)
T PRK07414 113 EGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPEMPESLLAIADQ 168 (178)
T ss_pred CCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCCe
Confidence 356899999999999999964 788889999999999999988899888666543
No 227
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=71.86 E-value=4.2 Score=46.71 Aligned_cols=40 Identities=23% Similarity=0.224 Sum_probs=31.2
Q ss_pred cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 32 AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 32 ~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
....||||+.-.-|+..+..+. .+...++|||||||.+.+
T Consensus 411 a~~AdivItNHall~~~~~~~~-----~~p~~~~lIiDEAH~l~~ 450 (820)
T PRK07246 411 AKTARLLITNHAYFLTRVQDDK-----DFARNKVLVFDEAQKLML 450 (820)
T ss_pred HHhCCEEEEchHHHHHHHhhcc-----CCCCCCEEEEECcchhHH
Confidence 4689999999887777665432 246789999999999863
No 228
>KOG3089 consensus Predicted DEAD-box-containing helicase [General function prediction only]
Probab=70.41 E-value=4.3 Score=38.41 Aligned_cols=33 Identities=27% Similarity=0.373 Sum_probs=28.7
Q ss_pred CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEec
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLD 69 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViD 69 (486)
...++-||||+|+..+...+. +.++.+.++|+|
T Consensus 195 ~~v~~gIgTp~Ri~~lv~~~~----f~~~~lk~iIlD 227 (271)
T KOG3089|consen 195 RVVHLGIGTPGRIKELVKQGG----FNLSPLKFIILD 227 (271)
T ss_pred cceeEeecCcHHHHHHHHhcC----CCCCcceeEEee
Confidence 457788999999999999876 778899999987
No 229
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=70.39 E-value=18 Score=27.27 Aligned_cols=59 Identities=20% Similarity=0.336 Sum_probs=40.4
Q ss_pred hHHHHhhcCCCeeEEEEeCCCCHHHHHHHHc----CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccc
Q 011428 2 ALIELCKGQVQLKVVQLTSSMPASDLRAALA----GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEA 71 (486)
Q Consensus 2 ~l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~----~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEa 71 (486)
.+..++.. .++.+..++|+++...+...+. ....|+|+|. .+..| .++..++.+|+-+.
T Consensus 2 ~l~~~l~~-~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~-----~~~~G-----i~~~~~~~vi~~~~ 64 (82)
T smart00490 2 ELAELLKE-LGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATD-----VAERG-----LDLPGVDLVIIYDL 64 (82)
T ss_pred HHHHHHHH-CCCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECC-----hhhCC-----cChhcCCEEEEeCC
Confidence 34455544 2789999999998877665553 4678888883 44444 55677888887665
No 230
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=69.87 E-value=3.5 Score=45.37 Aligned_cols=65 Identities=22% Similarity=0.116 Sum_probs=38.4
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHH----HHHcCCCCCCcCCCCcceEEecccccccCC
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPK----CLSTGVLQSKSFSDSLKILVLDEADLLLSY 77 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~----~l~~~~~~~~~~l~~l~~lViDEad~ll~~ 77 (486)
-++|..+.|......-...| ..+||||+|..-+.. -+..+...+.+.-=.+..||+||||.+-..
T Consensus 410 ~LsV~~~HG~n~r~i~~~~L-~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~ 478 (901)
T KOG4439|consen 410 ALSVYLYHGPNKREISAKEL-RKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVILDEAHNIRNS 478 (901)
T ss_pred ceEEEEecCCccccCCHHHH-hhcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhhhhhhhhccc
Confidence 47888888865322222333 489999999765543 122222111222233567999999998653
No 231
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=69.74 E-value=2.4 Score=39.75 Aligned_cols=40 Identities=15% Similarity=0.363 Sum_probs=22.6
Q ss_pred HHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccccccc
Q 011428 30 ALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLL 75 (486)
Q Consensus 30 ~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll 75 (486)
.+...++||++|+......... .....+++||||||=.+.
T Consensus 166 ~~l~~~~vi~~T~~~~~~~~~~------~~~~~~d~vIvDEAsq~~ 205 (236)
T PF13086_consen 166 FILKEADVIFTTLSSAASPFLS------NFKEKFDVVIVDEASQIT 205 (236)
T ss_dssp HHHHT-SEEEEETCGGG-CCGT------T-----SEEEETTGGGS-
T ss_pred hhcccccccccccccchhhHhh------hhcccCCEEEEeCCCCcc
Confidence 3445899999999876221111 111278999999997764
No 232
>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=69.65 E-value=13 Score=36.00 Aligned_cols=85 Identities=12% Similarity=0.184 Sum_probs=56.8
Q ss_pred CCceeecCCCCCHHHHHHHHHHHhcCC----CcEEEEcCCCCccccccCCCCCCcccccccCCCCCcccccccccccCcc
Q 011428 188 GIKSAILNAELPQNSRLHILEEFNAGL----FDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDF 263 (486)
Q Consensus 188 gi~~~~lhs~l~~~~R~~i~~~F~~g~----~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~ 263 (486)
++.++++||+-+... -.|..+. ..|+|.=+. ++||+-+
T Consensus 110 ~~~v~~vNS~~~~~~-----ldy~~~~~~~~~~I~VGGn~---------------------------------LsRGlTl 151 (239)
T PF10593_consen 110 GIEVVVVNSGSSDDS-----LDYDDGENLGLNVIAVGGNK---------------------------------LSRGLTL 151 (239)
T ss_pred CceEEEEeCCCcccc-----ccccccccCCceEEEECCcc---------------------------------ccCceeE
Confidence 678888887665543 3444443 556666655 6899999
Q ss_pred CCccEEEEeCCCCChhhHHHhhhhcc-cCCCCceEEEEeCcchhhHHH
Q 011428 264 KNVHTVINFEMPQNAAGYVHRIGRTG-RAYNTGASVSLVSPDEMKIFE 310 (486)
Q Consensus 264 ~~V~~VI~~d~P~s~~~yihRiGRtg-R~g~~G~ai~fv~~~e~~~~~ 310 (486)
++..+....--|...+++.||.=--| |.|-.+.+=++.++.-...+.
T Consensus 152 eGL~vsYf~R~s~~~DTL~QmgRwFGYR~gY~dl~Ri~~~~~l~~~f~ 199 (239)
T PF10593_consen 152 EGLTVSYFLRNSKQYDTLMQMGRWFGYRPGYEDLCRIYMPEELYDWFR 199 (239)
T ss_pred CCcEEEEecCCCchHHHHHHHhhcccCCcccccceEEecCHHHHHHHH
Confidence 99998888888888889988842233 555455666666554433333
No 233
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=69.17 E-value=18 Score=39.77 Aligned_cols=55 Identities=25% Similarity=0.368 Sum_probs=43.5
Q ss_pred CeEEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.++||.|+|++-|..++..+..+ ++.+..++|+.+.......+ .+..+|||+|+.
T Consensus 85 ~raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~~q~~~l----~~~~dIiV~TP~ 143 (572)
T PRK04537 85 PRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELL----QQGVDVIIATPG 143 (572)
T ss_pred ceEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHH----hCCCCEEEECHH
Confidence 57999999999998888777654 67888999999877655443 346799999964
No 234
>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=68.74 E-value=31 Score=28.56 Aligned_cols=57 Identities=18% Similarity=0.179 Sum_probs=43.9
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcC---CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFG---IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~g---i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..+++||+|++...+......+.... +.+.+++++....... ........++++|..
T Consensus 29 ~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~i~i~t~~ 88 (144)
T cd00046 29 KGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQE----KLLSGKTDIVVGTPG 88 (144)
T ss_pred cCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHH----HHhcCCCCEEEECcH
Confidence 35799999999999999888887655 7788888877655544 334567889999976
No 235
>PRK05642 DNA replication initiation factor; Validated
Probab=67.95 E-value=7.4 Score=37.47 Aligned_cols=69 Identities=16% Similarity=0.136 Sum_probs=43.3
Q ss_pred CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC-CcHHHHHHHHHHCCCCccEEEEeeecCh
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY-GYEDDLKALSAVIPRGCQCLLMSATSSS 105 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~-g~~~~l~~i~~~lp~~~q~il~SATl~~ 105 (486)
.+..+++.|.+.+......- ...+.+.++||||++|.+... .+.+.+..++..+......+++++|.++
T Consensus 72 ~~~~v~y~~~~~~~~~~~~~----~~~~~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p 141 (234)
T PRK05642 72 RGEPAVYLPLAELLDRGPEL----LDNLEQYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSP 141 (234)
T ss_pred CCCcEEEeeHHHHHhhhHHH----HHhhhhCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCH
Confidence 35677877776665432110 123456789999999987543 4567788888776654344666666544
No 236
>PRK06646 DNA polymerase III subunit chi; Provisional
Probab=66.34 E-value=35 Score=30.68 Aligned_cols=71 Identities=20% Similarity=0.080 Sum_probs=51.0
Q ss_pred EcchhhhHHHHHHHHHhhccC-CeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcC
Q 011428 144 SCSERDKLLYILTLLKLELVQ-KKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATD 222 (486)
Q Consensus 144 ~~~~~~k~~~l~~llk~~~~~-~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd 222 (486)
......+..++..|+...... .+++|.|.+.+.+..|-..|=.+.-.+.+=|+-..... .....|+|+++
T Consensus 8 hL~~~~~~~~acrL~~Ka~~~G~rv~I~~~d~~~~~~LD~~LWtf~~~SFlPH~~~~~~~---------~a~~PV~L~~~ 78 (154)
T PRK06646 8 QTSDELLLKSILLLIEKCYYSDLKSVILTADADQQEMLNKNLWTYSRKQFIPHGSKLDPQ---------PEKQPIYITDE 78 (154)
T ss_pred EeCCChHHHHHHHHHHHHHHcCCEEEEEcCCHHHHHHHHHHhcCCCCCCCCCCCCCCCCC---------CCCCCEEEecC
Confidence 336777888888888765544 57999999999999999999888777776676422110 12456888764
Q ss_pred C
Q 011428 223 D 223 (486)
Q Consensus 223 ~ 223 (486)
.
T Consensus 79 ~ 79 (154)
T PRK06646 79 L 79 (154)
T ss_pred C
Confidence 3
No 237
>PRK06893 DNA replication initiation factor; Validated
Probab=66.07 E-value=6.9 Score=37.48 Aligned_cols=47 Identities=23% Similarity=0.305 Sum_probs=31.5
Q ss_pred CCCcceEEecccccccCC-CcHHHHHHHHHHCCC-CccEEEEeeecChh
Q 011428 60 SDSLKILVLDEADLLLSY-GYEDDLKALSAVIPR-GCQCLLMSATSSSD 106 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~-g~~~~l~~i~~~lp~-~~q~il~SATl~~~ 106 (486)
+.+.++|||||+|.+... .+...+..++..+.. +.+++++|++.++.
T Consensus 89 ~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~ 137 (229)
T PRK06893 89 LEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPH 137 (229)
T ss_pred cccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChH
Confidence 456789999999998643 244556666655543 45677888876543
No 238
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=65.76 E-value=9.1 Score=42.38 Aligned_cols=100 Identities=18% Similarity=0.160 Sum_probs=61.3
Q ss_pred hHHHHhhcCCCeeEEEEeCCCCHHHHHHH---------HcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccc
Q 011428 2 ALIELCKGQVQLKVVQLTSSMPASDLRAA---------LAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEAD 72 (486)
Q Consensus 2 ~l~~~~~~~~~i~v~~l~g~~~~~~q~~~---------l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad 72 (486)
+++.||.+ ++|+-+.|+.+.....+. -..+.||||+|...++.--. . +.--.+.|+|+|||.
T Consensus 635 EisrFlP~---~k~lpywGs~~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVtDek--y----~qkvKWQYMILDEAQ 705 (1185)
T KOG0388|consen 635 EISRFLPS---FKVLPYWGSPSERKILRKFWNRKNMYRRNAPFHVVITSYQLVVTDEK--Y----LQKVKWQYMILDEAQ 705 (1185)
T ss_pred HHHHhCcc---ceeecCcCChhhhHHHHHhcchhhhhccCCCceEEEEeeeeeechHH--H----HHhhhhhheehhHHH
Confidence 46778874 999999998876544332 12478999999876542111 0 111347899999999
Q ss_pred cccCCCcHHHHHHHHHHCCCCccEEEEeeecC-hhHHHHHHH
Q 011428 73 LLLSYGYEDDLKALSAVIPRGCQCLLMSATSS-SDVDKLKKL 113 (486)
Q Consensus 73 ~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~-~~v~~l~~~ 113 (486)
.+-+.. ..-.+.+++.- -+-.+|++.|.- ..+++|..+
T Consensus 706 AIKSSs-S~RWKtLLsF~--cRNRLLLTGTPIQNsMqELWAL 744 (1185)
T KOG0388|consen 706 AIKSSS-SSRWKTLLSFK--CRNRLLLTGTPIQNSMQELWAL 744 (1185)
T ss_pred Hhhhhh-hhHHHHHhhhh--ccceeeecCCccchHHHHHHHH
Confidence 987643 23345555443 234578888854 344554443
No 239
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=65.09 E-value=8.7 Score=32.57 Aligned_cols=34 Identities=32% Similarity=0.534 Sum_probs=21.2
Q ss_pred ceEEecccccccCCCcHHHHHHHHHHCCC-CccEEEEe
Q 011428 64 KILVLDEADLLLSYGYEDDLKALSAVIPR-GCQCLLMS 100 (486)
Q Consensus 64 ~~lViDEad~ll~~g~~~~l~~i~~~lp~-~~q~il~S 100 (486)
.+|||||||.+.+ .+.+..|...... ..++++++
T Consensus 89 ~~lviDe~~~l~~---~~~l~~l~~l~~~~~~~vvl~G 123 (131)
T PF13401_consen 89 VLLVIDEADHLFS---DEFLEFLRSLLNESNIKVVLVG 123 (131)
T ss_dssp EEEEEETTHHHHT---HHHHHHHHHHTCSCBEEEEEEE
T ss_pred eEEEEeChHhcCC---HHHHHHHHHHHhCCCCeEEEEE
Confidence 6899999999642 5555555554443 44444443
No 240
>PRK02362 ski2-like helicase; Provisional
Probab=64.57 E-value=14 Score=41.84 Aligned_cols=63 Identities=24% Similarity=0.238 Sum_probs=47.3
Q ss_pred HHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHc---CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 154 ILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKF---GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 154 l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~---gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
...++..-...+++|+.+++++-|......+..+ |+++..++|+...... ..+..+|+|||..
T Consensus 57 ~lail~~l~~~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~~~tGd~~~~~~-------~l~~~~IiV~Tpe 122 (737)
T PRK02362 57 ELAMLKAIARGGKALYIVPLRALASEKFEEFERFEELGVRVGISTGDYDSRDE-------WLGDNDIIVATSE 122 (737)
T ss_pred HHHHHHHHhcCCcEEEEeChHHHHHHHHHHHHHhhcCCCEEEEEeCCcCcccc-------ccCCCCEEEECHH
Confidence 3344443334789999999999999998888776 8899999999865432 1245799999964
No 241
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=64.49 E-value=5 Score=37.88 Aligned_cols=41 Identities=22% Similarity=0.298 Sum_probs=32.3
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
....++|+||+|--++......+..++..+.+..|+|+.|-
T Consensus 157 ~~~p~~ilDEvd~~LD~~~~~~l~~~l~~~~~~~Q~ii~Th 197 (220)
T PF02463_consen 157 KPSPFLILDEVDAALDEQNRKRLADLLKELSKQSQFIITTH 197 (220)
T ss_dssp S--SEEEEESTTTTS-HHHHHHHHHHHHHHTTTSEEEEE-S
T ss_pred ccccccccccccccccccccccccccccccccccccccccc
Confidence 44679999999999998888888888888888999998864
No 242
>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=64.44 E-value=4.1 Score=45.98 Aligned_cols=42 Identities=17% Similarity=0.080 Sum_probs=28.3
Q ss_pred cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 32 AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 32 ~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
...+||||+...-|++--.+..+ ...+++ .+|||||||-|.+
T Consensus 193 ~~~advIi~pYnyl~dp~~r~~~--~~~l~~-~ivI~DEAHNL~d 234 (705)
T TIGR00604 193 LPFANIVLLPYQYLLDPKIRSAV--SIELKD-SIVIFDEAHNLDN 234 (705)
T ss_pred hhcCCEEEechHHhcCHHHHHHh--hccccc-CEEEEECccchHH
Confidence 45899999997766553332221 133444 7899999999865
No 243
>smart00450 RHOD Rhodanese Homology Domain. An alpha beta fold found duplicated in the Rhodanese protein. The the Cysteine containing enzymatically active version of the domain is also found in the CDC25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and stress proteins such as Senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions with a loss of the cysteine are also seen in Dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases. These are likely to play a role in protein interactions.
Probab=63.32 E-value=10 Score=29.90 Aligned_cols=37 Identities=14% Similarity=0.336 Sum_probs=32.7
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCCH
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~~ 200 (486)
..++||||++-.++..++..|...|+. +.+|.|++..
T Consensus 56 ~~~iv~~c~~g~~a~~~~~~l~~~G~~~v~~l~GG~~~ 93 (100)
T smart00450 56 DKPVVVYCRSGNRSAKAAWLLRELGFKNVYLLDGGYKE 93 (100)
T ss_pred CCeEEEEeCCCcHHHHHHHHHHHcCCCceEEecCCHHH
Confidence 468999999999999999999999998 8899999754
No 244
>PRK14974 cell division protein FtsY; Provisional
Probab=62.99 E-value=18 Score=36.92 Aligned_cols=55 Identities=15% Similarity=0.198 Sum_probs=40.8
Q ss_pred CCcceEEecccccccC-CCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHhc
Q 011428 61 DSLKILVLDEADLLLS-YGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLIL 115 (486)
Q Consensus 61 ~~l~~lViDEad~ll~-~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l 115 (486)
...++|+||.|.++.. ..+...+..+...+.+..-++.++||...+.......|.
T Consensus 221 ~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a~~f~ 276 (336)
T PRK14974 221 RGIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFN 276 (336)
T ss_pred CCCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHHHHHH
Confidence 3567999999998863 345677788877777777788899998777655555553
No 245
>PRK07413 hypothetical protein; Validated
Probab=62.49 E-value=35 Score=35.46 Aligned_cols=55 Identities=20% Similarity=0.329 Sum_probs=46.9
Q ss_pred CCCcceEEecccccccCCCcH--HHHHHHHHHCCCCccEEEEeeecChhHHHHHHHh
Q 011428 60 SDSLKILVLDEADLLLSYGYE--DDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLI 114 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~--~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~ 114 (486)
-...++||+||+-..+++|+. +++..++..-|...-+|+.--.+|+++.+++.++
T Consensus 123 sg~ydlvILDEi~~Al~~gll~~eevl~~L~~rP~~~evVLTGR~ap~~Lie~ADlV 179 (382)
T PRK07413 123 SGLYSVVVLDELNPVLDLGLLPVDEVVNTLKSRPEGLEIIITGRAAPQSLLDIADLH 179 (382)
T ss_pred CCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEeCCCCCHHHHHhCCee
Confidence 356899999999999999964 7888889999999999999999999887777654
No 246
>PRK05728 DNA polymerase III subunit chi; Validated
Probab=62.26 E-value=58 Score=28.75 Aligned_cols=66 Identities=15% Similarity=-0.002 Sum_probs=48.0
Q ss_pred chhhhHHHHHHHHHhhcc-CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEE
Q 011428 146 SERDKLLYILTLLKLELV-QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIA 220 (486)
Q Consensus 146 ~~~~k~~~l~~llk~~~~-~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIa 220 (486)
....+..++..++..... +.+++|.|.+.+.+..|-..|-.+.-.+.+=|+-.... ......|+|+
T Consensus 10 ~~~~~~~~~c~L~~ka~~~g~rv~I~~~d~~~a~~lD~~LW~~~~~sFlPH~~~~~~---------~~~~~PV~l~ 76 (142)
T PRK05728 10 TLSALEALLCELAEKALRAGWRVLVQCEDEEQAEALDEALWTFRDESFLPHGLAGEG---------PAAGQPVLLT 76 (142)
T ss_pred CchhHHHHHHHHHHHHHHCCCEEEEEcCCHHHHHHHHHHhcCCCCCcCCCCCcCCCC---------CCCCCCEEEE
Confidence 556677778888765544 56899999999999999999998877777767643221 0124578887
No 247
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=61.55 E-value=23 Score=37.94 Aligned_cols=55 Identities=20% Similarity=0.309 Sum_probs=43.3
Q ss_pred CeEEEEecCHHHHHHHHHHHH---Hc-CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLE---KF-GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~---~~-gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.++||.|+|++-+..++.... +| .|.+|..-|+|+......++. ..-+|+|||+.
T Consensus 253 TRVLVL~PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~LR----s~PDIVIATPG 311 (691)
T KOG0338|consen 253 TRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLR----SRPDIVIATPG 311 (691)
T ss_pred eeEEEEeccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHHHHHHh----hCCCEEEecch
Confidence 379999999988766665544 44 688999999999988877654 35689999985
No 248
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=60.18 E-value=1.5e+02 Score=34.02 Aligned_cols=81 Identities=19% Similarity=0.304 Sum_probs=45.3
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcC-------CceeecCCCCCHHHHHHHHHHHhcCCC------cEEEEcCCCCccccc
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFG-------IKSAILNAELPQNSRLHILEEFNAGLF------DYLIATDDTQTKEKD 230 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~g-------i~~~~lhs~l~~~~R~~i~~~F~~g~~------~iLIaTd~~~~~~~~ 230 (486)
+.-+|||+++-....++..+.+..+ .+-.++-.. +..+=..++.+|-++.. -++.|---.
T Consensus 561 p~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~vk~l~vEPr-~k~~f~e~m~~y~~~i~~pes~ga~~~aVcRG------ 633 (945)
T KOG1132|consen 561 PYGLLIFFPSYPVMDKLITFWQNRGLWERMEKVKKLVVEPR-SKSEFTEVMSRYYNAIADPESSGAVFFAVCRG------ 633 (945)
T ss_pred ccceEEeccchHHHHHHHHHHHcchHHHHhhcccCceeccC-CccchHHHHHHHHHHhhCccccceEEEEEecc------
Confidence 3449999998877777766654422 111112111 33334455666644322 233333221
Q ss_pred cCCCCCCcccccccCCCCCcccccccccccCccCC--ccEEEEeCCCC
Q 011428 231 QSDEGGHVDSRKSKKHPKAKLDSEFGVVRGIDFKN--VHTVINFEMPQ 276 (486)
Q Consensus 231 ~~~~~~~~~~~~~~~~~~~~~~~~~gvsrGID~~~--V~~VI~~d~P~ 276 (486)
-+|+|+||.+ -+.||..++|.
T Consensus 634 -------------------------KVSEGlDFsD~~~RaVI~tGlPy 656 (945)
T KOG1132|consen 634 -------------------------KVSEGLDFSDDNGRAVIITGLPY 656 (945)
T ss_pred -------------------------cccCCCCccccCCceeEEecCCC
Confidence 1689999975 45789888873
No 249
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=59.86 E-value=23 Score=37.23 Aligned_cols=55 Identities=25% Similarity=0.311 Sum_probs=41.7
Q ss_pred CeEEEEecCHHHHHHHHHHHHH----cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEK----FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~----~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.++||.|+|++-|..+...+.. .++.+..++|+.+.......+ .+..+|+|+|+.
T Consensus 84 ~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l----~~~~~IlV~TP~ 142 (423)
T PRK04837 84 PRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVL----ESGVDILIGTTG 142 (423)
T ss_pred ceEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHh----cCCCCEEEECHH
Confidence 5799999999999888766543 478889999988766544332 245799999974
No 250
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=59.79 E-value=80 Score=35.30 Aligned_cols=71 Identities=15% Similarity=0.078 Sum_probs=51.0
Q ss_pred hhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHH----HcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcC
Q 011428 147 ERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLE----KFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATD 222 (486)
Q Consensus 147 ~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~----~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd 222 (486)
+..-+..++.++...+.+..++|.++|..-|.+.+..+. .+|+.+.++.|+++...|.... ..+|+++|.
T Consensus 127 eGKTla~~lp~~~~al~G~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~i~gg~~~~~r~~~y------~~dIvygT~ 200 (656)
T PRK12898 127 EGKTLTATLPAGTAALAGLPVHVITVNDYLAERDAELMRPLYEALGLTVGCVVEDQSPDERRAAY------GADITYCTN 200 (656)
T ss_pred CCcHHHHHHHHHHHhhcCCeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEEEeCCCCHHHHHHHc------CCCEEEECC
Confidence 333444444444444556789999999988877776665 4589999999999887666432 469999997
Q ss_pred C
Q 011428 223 D 223 (486)
Q Consensus 223 ~ 223 (486)
.
T Consensus 201 ~ 201 (656)
T PRK12898 201 K 201 (656)
T ss_pred C
Confidence 5
No 251
>PRK08727 hypothetical protein; Validated
Probab=59.10 E-value=12 Score=35.98 Aligned_cols=71 Identities=10% Similarity=0.018 Sum_probs=38.9
Q ss_pred CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC-cHHHHHHHHHHCC-CCccEEEEeeecChhH
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG-YEDDLKALSAVIP-RGCQCLLMSATSSSDV 107 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g-~~~~l~~i~~~lp-~~~q~il~SATl~~~v 107 (486)
.+..+++.+...+...+..- ...+.+.++|||||+|.+.... ....+-.++..+. .+.++|+.|-..|.+.
T Consensus 68 ~~~~~~y~~~~~~~~~~~~~----~~~l~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l 140 (233)
T PRK08727 68 AGRSSAYLPLQAAAGRLRDA----LEALEGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGL 140 (233)
T ss_pred cCCcEEEEeHHHhhhhHHHH----HHHHhcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhh
Confidence 45666666655444333211 1234677899999999987543 3334444554443 2345555555555444
No 252
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=58.93 E-value=2.2 Score=47.54 Aligned_cols=100 Identities=20% Similarity=0.110 Sum_probs=82.1
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCC-CcEEEEcCCCCccccccCCCCCCcccccc
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGL-FDYLIATDDTQTKEKDQSDEGGHVDSRKS 243 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~-~~iLIaTd~~~~~~~~~~~~~~~~~~~~~ 243 (486)
+++|||+.-+.-..-+...|...++....+-|.|....|...+..|..+. ..+++.+-
T Consensus 540 ~kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~~~~~~~vll~Sl--------------------- 598 (674)
T KOG1001|consen 540 PKIVIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPCDPLVTALLMSL--------------------- 598 (674)
T ss_pred CceeeehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhcccccCccHHHHHHHH---------------------
Confidence 39999999999999999999888999999999999999999999998442 33333331
Q ss_pred cCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCce
Q 011428 244 KKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGA 296 (486)
Q Consensus 244 ~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ 296 (486)
++-|+ |+++....+|+..|+-+++..--|-+-|+.|-|+.-.
T Consensus 599 ---------kag~~--glnlt~a~~v~~~d~~wnp~~eeQaidR~hrigq~k~ 640 (674)
T KOG1001|consen 599 ---------KAGKV--GLNLTAASHVLLMDPWWNPAVEEQAIDRAHRIGQTKP 640 (674)
T ss_pred ---------HHhhh--hhchhhhhHHHhhchhcChHHHHHHHHHHHHhcccce
Confidence 22334 9999999999999999999999999999998886443
No 253
>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=58.93 E-value=8.8 Score=38.42 Aligned_cols=35 Identities=20% Similarity=0.294 Sum_probs=24.2
Q ss_pred CCcceEEecccccccCCCcH--HHHHHHHHHCCCCcc
Q 011428 61 DSLKILVLDEADLLLSYGYE--DDLKALSAVIPRGCQ 95 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~--~~l~~i~~~lp~~~q 95 (486)
-.+++|||||.|.++.-.+. ..+...+++|.+..+
T Consensus 144 ~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ 180 (302)
T PF05621_consen 144 LGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQ 180 (302)
T ss_pred cCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccC
Confidence 45789999999999875533 455555666665444
No 254
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=58.65 E-value=8.6 Score=44.43 Aligned_cols=63 Identities=19% Similarity=0.188 Sum_probs=42.6
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchH-HHHHHcCCCCC--CcCCCCcceEEeccccccc
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCM-PKCLSTGVLQS--KSFSDSLKILVLDEADLLL 75 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl-~~~l~~~~~~~--~~~l~~l~~lViDEad~ll 75 (486)
+|++|..+..+.+....+.. =.+||+.+|..-+ .+.|+.+.... ......+.+.||||+|-+|
T Consensus 206 lGLtVg~i~~~~~~~~Rr~a--Y~~DItYgTn~EfGFDYLRDnma~~~~~~vqR~~~faIVDEvDSvL 271 (1025)
T PRK12900 206 HGLSVGVILNTMRPEERREQ--YLCDITYGTNNEFGFDYLRDNMAGTPEEMVQRDFYFAIVDEVDSVL 271 (1025)
T ss_pred hCCeeeeeCCCCCHHHHHHh--CCCcceecCCCccccccchhccccchhhhhccCCceEEEechhhhh
Confidence 57888888777666554433 3789999998865 34555443211 1234668899999999876
No 255
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=58.50 E-value=44 Score=35.70 Aligned_cols=56 Identities=20% Similarity=0.330 Sum_probs=44.3
Q ss_pred CeEEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.++||.++|++-+..+...+..+ ++.+..++|+.+.... .+.+..+..+|||+|+.
T Consensus 163 ~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~---~~~~~~~~~~Iiv~TP~ 222 (475)
T PRK01297 163 PRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQ---LKQLEARFCDILVATPG 222 (475)
T ss_pred ceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHHH---HHHHhCCCCCEEEECHH
Confidence 57999999999998888777654 6788889998765543 34556778899999975
No 256
>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=58.45 E-value=7.9 Score=35.55 Aligned_cols=55 Identities=20% Similarity=0.421 Sum_probs=40.0
Q ss_pred CCCcceEEecccccccCCCc--HHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHh
Q 011428 60 SDSLKILVLDEADLLLSYGY--EDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLI 114 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~--~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~ 114 (486)
-...++||+||+=..+++|+ .+++..++..-|...-+|+.--.+|+++..++.++
T Consensus 94 ~~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evVlTGR~~~~~l~e~ADlV 150 (172)
T PF02572_consen 94 SGEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVVLTGRNAPEELIEAADLV 150 (172)
T ss_dssp -TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEEEE-SS--HHHHHH-SEE
T ss_pred CCCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEEEECCCCCHHHHHhCCee
Confidence 46789999999999999885 47888899989999999999888998887776544
No 257
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=58.38 E-value=36 Score=38.32 Aligned_cols=70 Identities=20% Similarity=0.244 Sum_probs=50.6
Q ss_pred HHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcC--CCcEEEEcCCC
Q 011428 152 LYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAG--LFDYLIATDDT 224 (486)
Q Consensus 152 ~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g--~~~iLIaTd~~ 224 (486)
...+++|+....+|+-||.|++-.--.++.++ ..+ .+.+..|||. +.+|.++-..+.++ .|+||++|=..
T Consensus 436 IaFlayLkq~g~~gpHLVVvPsSTleNWlrEf-~kwCPsl~Ve~YyGS--q~ER~~lR~~i~~~~~~ydVllTTY~l 509 (941)
T KOG0389|consen 436 IAFLAYLKQIGNPGPHLVVVPSSTLENWLREF-AKWCPSLKVEPYYGS--QDERRELRERIKKNKDDYDVLLTTYNL 509 (941)
T ss_pred HHHHHHHHHcCCCCCcEEEecchhHHHHHHHH-HHhCCceEEEeccCc--HHHHHHHHHHHhccCCCccEEEEEeec
Confidence 34455666666689999999987654444443 233 4567788996 58999999999877 89999999654
No 258
>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=58.22 E-value=14 Score=28.21 Aligned_cols=51 Identities=20% Similarity=0.257 Sum_probs=38.1
Q ss_pred CCeeEEEEeCCCCHHHHHHHHc----CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccc
Q 011428 11 VQLKVVQLTSSMPASDLRAALA----GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEA 71 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~----~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEa 71 (486)
.++++..++|+++...+...+. ...+|||+|- .+..| +++..++++|+=+.
T Consensus 6 ~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~-----~~~~G-----id~~~~~~vi~~~~ 60 (78)
T PF00271_consen 6 KGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATD-----ILGEG-----IDLPDASHVIFYDP 60 (78)
T ss_dssp TTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESC-----GGTTS-----STSTTESEEEESSS
T ss_pred CCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeec-----ccccc-----cccccccccccccc
Confidence 3789999999998877665553 5789999992 23333 77788888887666
No 259
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=57.77 E-value=45 Score=38.48 Aligned_cols=68 Identities=13% Similarity=0.200 Sum_probs=50.1
Q ss_pred HHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHH----cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 151 LLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEK----FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 151 ~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~----~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
+.+++.++...+.+..++|.++|..-|.+.+..+.. +|+.+.++.|+++...|.... ..+|+++|+.-
T Consensus 110 L~a~Lpa~~~al~G~~V~VvTpn~yLA~qd~e~m~~l~~~lGLtv~~i~gg~~~~~r~~~y------~~dIvygT~gr 181 (896)
T PRK13104 110 LVATLPAYLNAISGRGVHIVTVNDYLAKRDSQWMKPIYEFLGLTVGVIYPDMSHKEKQEAY------KADIVYGTNNE 181 (896)
T ss_pred HHHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEeCCCCHHHHHHHh------CCCEEEECChh
Confidence 333333333334456799999999888888877764 488999999999999886654 47999999863
No 260
>cd01529 4RHOD_Repeats Member of the Rhodanese Homology Domain superfamily. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. Only the second and most of the fourth repeats contain the putative catalytic Cys residue. This CD aligns the 1st , 2nd, 3rd, and 4th repeats.
Probab=57.58 E-value=18 Score=29.04 Aligned_cols=36 Identities=14% Similarity=0.028 Sum_probs=30.9
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCC-ceeecCCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGI-KSAILNAELP 199 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi-~~~~lhs~l~ 199 (486)
..++||+|++-.++...+..|...|+ ++..|.|++.
T Consensus 56 ~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~l~GG~~ 92 (96)
T cd01529 56 ATRYVLTCDGSLLARFAAQELLALGGKPVALLDGGTS 92 (96)
T ss_pred CCCEEEEeCChHHHHHHHHHHHHcCCCCEEEeCCCHH
Confidence 56799999998888889999999998 5888899874
No 261
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=57.22 E-value=8.3 Score=43.03 Aligned_cols=43 Identities=16% Similarity=0.171 Sum_probs=31.1
Q ss_pred CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY 77 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~ 77 (486)
..+||+|+++.-++......... ..+..-.++|+||||++.++
T Consensus 193 ~~ad~vv~nh~~~~~~~~~~~~~--~~~p~~~v~v~DEAH~l~d~ 235 (654)
T COG1199 193 ENADLVVTNHALLLADVALEESR--ILLPENDVVVFDEAHNLPDI 235 (654)
T ss_pred hhCCEEEEccHHHHhHHHhhhhh--ccCCcccEEEEeccccchHH
Confidence 58999999999887755443210 11456789999999999764
No 262
>PRK13766 Hef nuclease; Provisional
Probab=56.88 E-value=38 Score=38.61 Aligned_cols=56 Identities=25% Similarity=0.347 Sum_probs=44.2
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHc-CC---ceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKF-GI---KSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~-gi---~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..+++||.|++..-+......+..+ ++ .+..++|+.+..+|..+.. ..+|+|+|..
T Consensus 57 ~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~r~~~~~-----~~~iiv~T~~ 116 (773)
T PRK13766 57 KGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEKRAELWE-----KAKVIVATPQ 116 (773)
T ss_pred CCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEEeCCCCHHHHHHHHh-----CCCEEEECHH
Confidence 4689999999999888877777664 44 7788999999988876543 3589999974
No 263
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=56.84 E-value=40 Score=34.95 Aligned_cols=66 Identities=23% Similarity=0.205 Sum_probs=48.1
Q ss_pred HHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 154 ILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 154 l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
+..+|. +.....++|.++|++-|+.++..++.+ |++++++-|++.... ...+.++ .-.|||||+..
T Consensus 120 l~~LL~-~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~--q~~~L~k--kPhilVaTPGr 189 (476)
T KOG0330|consen 120 LQRLLQ-EPKLFFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMML--QANQLSK--KPHILVATPGR 189 (476)
T ss_pred HHHHHc-CCCCceEEEecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHH--HHHHhhc--CCCEEEeCcHH
Confidence 334443 333467999999999999999999877 678999999987643 3334444 45789999853
No 264
>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=56.50 E-value=42 Score=37.96 Aligned_cols=67 Identities=16% Similarity=0.149 Sum_probs=49.1
Q ss_pred HHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHH----HcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 151 LLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLE----KFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 151 ~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~----~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
+..++.++-..+....+.|.++|..-|.+.+..+. .+|+.+.++.|+++..+|..... .+|+++|..
T Consensus 84 Lva~lpa~l~aL~G~~V~VvTpt~~LA~qdae~~~~l~~~LGLsv~~i~g~~~~~~r~~~y~------~dIvyGT~~ 154 (745)
T TIGR00963 84 LTATLPAYLNALTGKGVHVVTVNDYLAQRDAEWMGQVYRFLGLSVGLILSGMSPEERREAYA------CDITYGTNN 154 (745)
T ss_pred HHHHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHHHHHhccCCCeEEEEeCCCCHHHHHHhcC------CCEEEECCC
Confidence 33333433233446679999999988877777665 45899999999999888776553 699999987
No 265
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=56.34 E-value=1.1e+02 Score=31.45 Aligned_cols=136 Identities=15% Similarity=0.149 Sum_probs=87.5
Q ss_pred EEEEeeecChhHHHHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhcc-CCeEEEEecCH
Q 011428 96 CLLMSATSSSDVDKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELV-QKKALIFTNTI 174 (486)
Q Consensus 96 ~il~SATl~~~v~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~-~~k~IIFvns~ 174 (486)
++-.+.||++.-+......+.. ....-...+..+...-|.+.++..+...+. ++.+.|-.+.+
T Consensus 91 ~L~W~G~Ls~~Q~~as~~l~q~----------------i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRv 154 (441)
T COG4098 91 VLQWKGTLSPGQKKASNQLVQY----------------IKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRV 154 (441)
T ss_pred eeeeccccChhHHHHHHHHHHH----------------HHhcCcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcc
Confidence 7778888888765554443311 111222333445566677777777665544 56788889999
Q ss_pred HHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCCCccccccCCCCCCcccccccCCCCCccc
Q 011428 175 DMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDTQTKEKDQSDEGGHVDSRKSKKHPKAKLD 252 (486)
Q Consensus 175 ~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (486)
|.|.+|+..|.+. ++.++.|||+-++.- + ..++|||.-.
T Consensus 155 DVclEl~~Rlk~aF~~~~I~~Lyg~S~~~f--------r---~plvVaTtHQ---------------------------- 195 (441)
T COG4098 155 DVCLELYPRLKQAFSNCDIDLLYGDSDSYF--------R---APLVVATTHQ---------------------------- 195 (441)
T ss_pred cchHHHHHHHHHhhccCCeeeEecCCchhc--------c---ccEEEEehHH----------------------------
Confidence 9999999999764 488999999977643 2 4788998542
Q ss_pred ccccccccCccC-CccEEEE--eC-CCCChhhHHHhhhhcccCCC
Q 011428 253 SEFGVVRGIDFK-NVHTVIN--FE-MPQNAAGYVHRIGRTGRAYN 293 (486)
Q Consensus 253 ~~~gvsrGID~~-~V~~VI~--~d-~P~s~~~yihRiGRtgR~g~ 293 (486)
=+-|. ..+.+|. .| +|.+.+..+|-+-+-+|--.
T Consensus 196 -------LlrFk~aFD~liIDEVDAFP~~~d~~L~~Av~~ark~~ 233 (441)
T COG4098 196 -------LLRFKQAFDLLIIDEVDAFPFSDDQSLQYAVKKARKKE 233 (441)
T ss_pred -------HHHHHhhccEEEEeccccccccCCHHHHHHHHHhhccc
Confidence 11121 1122221 22 68899999998888888543
No 266
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=55.99 E-value=38 Score=36.57 Aligned_cols=95 Identities=17% Similarity=0.249 Sum_probs=68.3
Q ss_pred ChHHHHhhcCCCeeEEEEeCCCCHHHHHHHH----cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 1 MALIELCKGQVQLKVVQLTSSMPASDLRAAL----AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 1 ~~l~~~~~~~~~i~v~~l~g~~~~~~q~~~l----~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
|.|+.|+.. .||+|.-+.++.+.-+...++ .+..||+||- .+|+.| +++..+++|.|=.||.
T Consensus 460 EdLT~Yl~e-~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGI-----NLLREG-----LDiPEVsLVAIlDADK--- 525 (663)
T COG0556 460 EDLTEYLKE-LGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGI-----NLLREG-----LDLPEVSLVAILDADK--- 525 (663)
T ss_pred HHHHHHHHh-cCceEEeeeccchHHHHHHHHHHHhcCCccEEEee-----hhhhcc-----CCCcceeEEEEeecCc---
Confidence 457888875 699999999998876554444 3689999996 788876 7888999999999987
Q ss_pred CCcHHH----HHHHHHHCC-CCccEEEEeeecChhHHH
Q 011428 77 YGYEDD----LKALSAVIP-RGCQCLLMSATSSSDVDK 109 (486)
Q Consensus 77 ~g~~~~----l~~i~~~lp-~~~q~il~SATl~~~v~~ 109 (486)
.||... ++.|-+... .+-.+|+..-.+++.++.
T Consensus 526 eGFLRse~SLIQtIGRAARN~~GkvIlYAD~iT~sM~~ 563 (663)
T COG0556 526 EGFLRSERSLIQTIGRAARNVNGKVILYADKITDSMQK 563 (663)
T ss_pred cccccccchHHHHHHHHhhccCCeEEEEchhhhHHHHH
Confidence 465543 333333222 256788887777776643
No 267
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=55.21 E-value=27 Score=37.11 Aligned_cols=78 Identities=13% Similarity=0.286 Sum_probs=46.3
Q ss_pred CCCcEEEECcchHHHHHH----cCCCCC-CcCCCCcceEEecccccccCCC-cHHHHHHHHHHC-CCCccEEEEeeecCh
Q 011428 33 GPPDIVIATPGCMPKCLS----TGVLQS-KSFSDSLKILVLDEADLLLSYG-YEDDLKALSAVI-PRGCQCLLMSATSSS 105 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~----~~~~~~-~~~l~~l~~lViDEad~ll~~g-~~~~l~~i~~~l-p~~~q~il~SATl~~ 105 (486)
.+..+++.|.+.+...+. .+.... .....+.++|+|||+|.+.... ..+.+..++..+ ..+.|+++.|.+.|.
T Consensus 168 ~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~ 247 (445)
T PRK12422 168 SGGKILYVRSELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQ 247 (445)
T ss_pred cCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHH
Confidence 468888888776544332 211000 0124678999999999986533 345555665543 245677776666666
Q ss_pred hHHHH
Q 011428 106 DVDKL 110 (486)
Q Consensus 106 ~v~~l 110 (486)
++..+
T Consensus 248 ~l~~l 252 (445)
T PRK12422 248 DLKAM 252 (445)
T ss_pred HHhhh
Confidence 65443
No 268
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=55.01 E-value=19 Score=38.15 Aligned_cols=44 Identities=23% Similarity=0.385 Sum_probs=31.7
Q ss_pred CCCCcce-EEecccccccCCC---cHHHHHHHHHHCC-CCccEEEEeee
Q 011428 59 FSDSLKI-LVLDEADLLLSYG---YEDDLKALSAVIP-RGCQCLLMSAT 102 (486)
Q Consensus 59 ~l~~l~~-lViDEad~ll~~g---~~~~l~~i~~~lp-~~~q~il~SAT 102 (486)
++++-++ +.|||||++++.. +.+.++.+.+.+. +++=++++|-+
T Consensus 251 D~dkPklVfFfDEAHLLF~da~kall~~ieqvvrLIRSKGVGv~fvTQ~ 299 (502)
T PF05872_consen 251 DLDKPKLVFFFDEAHLLFNDAPKALLDKIEQVVRLIRSKGVGVYFVTQN 299 (502)
T ss_pred CCCCceEEEEEechhhhhcCCCHHHHHHHHHHHHHhhccCceEEEEeCC
Confidence 4556666 5599999999865 6677777777765 46677777765
No 269
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=54.63 E-value=11 Score=37.85 Aligned_cols=44 Identities=25% Similarity=0.348 Sum_probs=32.2
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecC
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSS 104 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~ 104 (486)
....+.+|+||||.|.+.. ...+...++..+....++|...-++
T Consensus 127 ~~~fKiiIlDEcdsmtsda-q~aLrr~mE~~s~~trFiLIcnyls 170 (346)
T KOG0989|consen 127 CPPFKIIILDECDSMTSDA-QAALRRTMEDFSRTTRFILICNYLS 170 (346)
T ss_pred CCcceEEEEechhhhhHHH-HHHHHHHHhccccceEEEEEcCChh
Confidence 4556899999999998755 4556666677777778887765543
No 270
>PRK06526 transposase; Provisional
Probab=53.33 E-value=25 Score=34.38 Aligned_cols=75 Identities=11% Similarity=0.013 Sum_probs=44.3
Q ss_pred cCCCcEEEECcchHHHHHHcCCCCC-----CcCCCCcceEEecccccccCCC-cHHHHHHHHHHCCCCccEEEEeeecCh
Q 011428 32 AGPPDIVIATPGCMPKCLSTGVLQS-----KSFSDSLKILVLDEADLLLSYG-YEDDLKALSAVIPRGCQCLLMSATSSS 105 (486)
Q Consensus 32 ~~~~dIvV~TP~rl~~~l~~~~~~~-----~~~l~~l~~lViDEad~ll~~g-~~~~l~~i~~~lp~~~q~il~SATl~~ 105 (486)
..+..+++.|...+++.+....... ...+...++|||||+|.+.... -...+..++........+|+.|...+.
T Consensus 124 ~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~s~IitSn~~~~ 203 (254)
T PRK06526 124 QAGHRVLFATAAQWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVGYIPFEPEAANLFFQLVSSRYERASLIVTSNKPFG 203 (254)
T ss_pred HCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHHhccCCEEEEcccccCCCCHHHHHHHHHHHHHHHhcCCEEEEcCCCHH
Confidence 4577888888887776664221000 1224667899999999875322 234455665543334457777766544
Q ss_pred h
Q 011428 106 D 106 (486)
Q Consensus 106 ~ 106 (486)
+
T Consensus 204 ~ 204 (254)
T PRK06526 204 R 204 (254)
T ss_pred H
Confidence 3
No 271
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=52.57 E-value=58 Score=37.63 Aligned_cols=66 Identities=17% Similarity=0.141 Sum_probs=48.4
Q ss_pred HHHHHHHHhhccCCeEEEEecCH----HHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 152 LYILTLLKLELVQKKALIFTNTI----DMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 152 ~~l~~llk~~~~~~k~IIFvns~----~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
...+.++-..+.+..+-|.+.|. .++..+..+++.+|+.+.++.++++..+|..++. ++|+++|..
T Consensus 111 vA~l~a~l~al~G~~VhvvT~ndyLA~RD~e~m~~l~~~lGl~v~~i~~~~~~~err~~Y~------~dI~YGT~~ 180 (913)
T PRK13103 111 VGTLAVYLNALSGKGVHVVTVNDYLARRDANWMRPLYEFLGLSVGIVTPFQPPEEKRAAYA------ADITYGTNN 180 (913)
T ss_pred HHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHHHhcccCCEEEEECCCCCHHHHHHHhc------CCEEEEccc
Confidence 33334433345466677777775 4456666666778999999999999999998876 899999976
No 272
>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=52.31 E-value=51 Score=37.52 Aligned_cols=55 Identities=18% Similarity=0.300 Sum_probs=44.6
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHc---CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKF---GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~---gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..++||.++|++-+......|..+ ++.+..++|+.+..+|..+ + ...+|+|+|+.
T Consensus 81 ~~~aL~l~PtraLa~q~~~~l~~l~~~~i~v~~~~Gdt~~~~r~~i----~-~~~~IivtTPd 138 (742)
T TIGR03817 81 RATALYLAPTKALAADQLRAVRELTLRGVRPATYDGDTPTEERRWA----R-EHARYVLTNPD 138 (742)
T ss_pred CcEEEEEcChHHHHHHHHHHHHHhccCCeEEEEEeCCCCHHHHHHH----h-cCCCEEEEChH
Confidence 468999999999999998888876 5788999999998877433 2 23689999974
No 273
>PRK04195 replication factor C large subunit; Provisional
Probab=52.20 E-value=50 Score=35.46 Aligned_cols=39 Identities=21% Similarity=0.282 Sum_probs=22.4
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCC-CccEEEEe
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPR-GCQCLLMS 100 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~-~~q~il~S 100 (486)
.-.+|||||||.+...+-...+..++..+.. ...+|+++
T Consensus 98 ~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~~~~iIli~ 137 (482)
T PRK04195 98 RRKLILLDEVDGIHGNEDRGGARAILELIKKAKQPIILTA 137 (482)
T ss_pred CCeEEEEecCcccccccchhHHHHHHHHHHcCCCCEEEec
Confidence 5779999999998753322333444443332 34455443
No 274
>PRK07413 hypothetical protein; Validated
Probab=52.14 E-value=16 Score=37.83 Aligned_cols=54 Identities=13% Similarity=0.165 Sum_probs=44.9
Q ss_pred CCcceEEecccccccCCCcH--HHHHHHHHHCCCCccEEEEeee-cChhHHHHHHHh
Q 011428 61 DSLKILVLDEADLLLSYGYE--DDLKALSAVIPRGCQCLLMSAT-SSSDVDKLKKLI 114 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~--~~l~~i~~~lp~~~q~il~SAT-l~~~v~~l~~~~ 114 (486)
...++||+||+-..+++|+. +++..++...|...-+|+.--. .|+++.+++.++
T Consensus 304 g~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVLTGR~~ap~~lie~ADlV 360 (382)
T PRK07413 304 GLYKTIILDELNPTVDLELLPVEPIVQTLLRKPRDTEVIITGRCKNQPAYFDLASVH 360 (382)
T ss_pred CCCCEEEEechHHHHHCCCccHHHHHHHHHhCCCCCEEEEeCCCCCCHHHHHhCchh
Confidence 56899999999999999965 6888899999988888887777 888887776654
No 275
>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily. This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.
Probab=52.03 E-value=19 Score=29.17 Aligned_cols=38 Identities=8% Similarity=0.060 Sum_probs=32.4
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCH
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQ 200 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~ 200 (486)
...+++|+|.+-.++...+..|.+.|+.+..|.|++..
T Consensus 60 ~~~~ivv~C~~G~rs~~aa~~L~~~G~~~~~l~GG~~~ 97 (100)
T cd01523 60 DDQEVTVICAKEGSSQFVAELLAERGYDVDYLAGGMKA 97 (100)
T ss_pred CCCeEEEEcCCCCcHHHHHHHHHHcCceeEEeCCcHHh
Confidence 35689999998888999999999999998888888743
No 276
>PTZ00110 helicase; Provisional
Probab=51.12 E-value=37 Score=37.10 Aligned_cols=55 Identities=20% Similarity=0.353 Sum_probs=41.7
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcC----CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFG----IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~g----i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..+||.|+|++-|..+...+..++ +++++++++.+....... +.. ..+|||||+.
T Consensus 204 p~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q~~~---l~~-~~~IlVaTPg 262 (545)
T PTZ00110 204 PIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYA---LRR-GVEILIACPG 262 (545)
T ss_pred cEEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHHHHHH---HHc-CCCEEEECHH
Confidence 468999999999999888887764 677888888876554332 333 3799999974
No 277
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=50.98 E-value=16 Score=42.01 Aligned_cols=40 Identities=20% Similarity=0.364 Sum_probs=27.5
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
....+++||||||.|...+ .+.|..+++..|..+-+||.+
T Consensus 118 ~~~~KV~IIDEad~lt~~a-~NaLLK~LEEpP~~~~fIl~t 157 (824)
T PRK07764 118 ESRYKIFIIDEAHMVTPQG-FNALLKIVEEPPEHLKFIFAT 157 (824)
T ss_pred cCCceEEEEechhhcCHHH-HHHHHHHHhCCCCCeEEEEEe
Confidence 3567899999999997644 345555666666666666554
No 278
>cd01520 RHOD_YbbB Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB.
Probab=49.75 E-value=19 Score=30.85 Aligned_cols=37 Identities=24% Similarity=0.310 Sum_probs=31.1
Q ss_pred CCeEEEEec-CHHHHHHHHHHHHHcCCceeecCCCCCH
Q 011428 164 QKKALIFTN-TIDMAFRLKLFLEKFGIKSAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvn-s~~~~~~l~~~L~~~gi~~~~lhs~l~~ 200 (486)
..++||||+ +-.++..++..|+..|+.+..|.|++..
T Consensus 86 ~~~vvvyC~~~G~rs~~a~~~L~~~G~~v~~L~GG~~a 123 (128)
T cd01520 86 DPKLLIYCARGGMRSQSLAWLLESLGIDVPLLEGGYKA 123 (128)
T ss_pred CCeEEEEeCCCCccHHHHHHHHHHcCCceeEeCCcHHH
Confidence 468999997 5677888889999999999999999854
No 279
>cd01534 4RHOD_Repeat_3 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative catalytic Cys residue.
Probab=48.13 E-value=23 Score=28.38 Aligned_cols=36 Identities=14% Similarity=0.130 Sum_probs=30.5
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELP 199 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~ 199 (486)
..++++||.+=.++...+..|...|+.+..+.|++.
T Consensus 56 ~~~iv~~c~~G~rs~~aa~~L~~~G~~v~~l~GG~~ 91 (95)
T cd01534 56 GARIVLADDDGVRADMTASWLAQMGWEVYVLEGGLA 91 (95)
T ss_pred CCeEEEECCCCChHHHHHHHHHHcCCEEEEecCcHH
Confidence 457999999887888889999999999777888874
No 280
>PF13173 AAA_14: AAA domain
Probab=48.03 E-value=22 Score=30.46 Aligned_cols=37 Identities=27% Similarity=0.331 Sum_probs=27.0
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
.-.+|+|||+|.+-+ +...++.+.... ++.++++.+-
T Consensus 61 ~~~~i~iDEiq~~~~--~~~~lk~l~d~~-~~~~ii~tgS 97 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPD--WEDALKFLVDNG-PNIKIILTGS 97 (128)
T ss_pred CCcEEEEehhhhhcc--HHHHHHHHHHhc-cCceEEEEcc
Confidence 457899999999954 577788887765 3567666543
No 281
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=47.86 E-value=39 Score=36.67 Aligned_cols=56 Identities=16% Similarity=0.246 Sum_probs=41.2
Q ss_pred HHHHhhcCCCeeEEEEeCCCCHHHHHHHH----cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEe
Q 011428 3 LIELCKGQVQLKVVQLTSSMPASDLRAAL----AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVL 68 (486)
Q Consensus 3 l~~~~~~~~~i~v~~l~g~~~~~~q~~~l----~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lVi 68 (486)
|...+....++++..+.|+.+..++...+ .+..+||||| +.+..| +++.++++||.
T Consensus 383 l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ILVaT-----dvl~rG-----iDip~v~~VI~ 442 (518)
T PLN00206 383 LANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVAT-----GVLGRG-----VDLLRVRQVII 442 (518)
T ss_pred HHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCCCCCEEEEe-----cHhhcc-----CCcccCCEEEE
Confidence 33444433478999999999887766555 3678999999 456666 77888988885
No 282
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=47.71 E-value=22 Score=40.37 Aligned_cols=44 Identities=20% Similarity=0.249 Sum_probs=39.6
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecCh
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSS 105 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~ 105 (486)
..-+||||.-|++.+......+..++++.|.+.+.++.|-+-|+
T Consensus 129 ~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~ 172 (894)
T COG2909 129 GPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQ 172 (894)
T ss_pred CceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCC
Confidence 34599999999999988889999999999999999999988665
No 283
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=47.66 E-value=78 Score=36.78 Aligned_cols=67 Identities=21% Similarity=0.215 Sum_probs=48.7
Q ss_pred HHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 151 LLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 151 ~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
+.+++.++...+....++|.++|..-|.+.+..+..+ |+.+.++.|+++...+...+ ..+|+++|+.
T Consensus 122 LAf~LP~l~~aL~g~~v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y------~~DIVygTPg 192 (970)
T PRK12899 122 LTAVMPLYLNALTGKPVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIY------QCDVVYGTAS 192 (970)
T ss_pred HHHHHHHHHHHhhcCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHc------CCCEEEECCC
Confidence 3344444433333445888899999998888887654 78899999999998876443 3799999986
No 284
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=46.67 E-value=35 Score=34.97 Aligned_cols=56 Identities=30% Similarity=0.444 Sum_probs=44.1
Q ss_pred hHHHHhhcCCCeeEEEEeCCCCHHHHHHHHc----CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEE
Q 011428 2 ALIELCKGQVQLKVVQLTSSMPASDLRAALA----GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILV 67 (486)
Q Consensus 2 ~l~~~~~~~~~i~v~~l~g~~~~~~q~~~l~----~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lV 67 (486)
+++.++-++++++++.+.+.++..+....|. +...|+|+| +...+| +++..+++||
T Consensus 268 Q~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaT-----DVAsRG-----LDIP~V~LVv 327 (442)
T KOG0340|consen 268 QLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILIAT-----DVASRG-----LDIPTVELVV 327 (442)
T ss_pred HHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcCccEEEEe-----chhhcC-----CCCCceeEEE
Confidence 4666777888999999999998887776664 679999999 555555 6777787776
No 285
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=46.45 E-value=74 Score=36.39 Aligned_cols=68 Identities=18% Similarity=0.124 Sum_probs=48.0
Q ss_pred hHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHH----HHcCCceeecCCCCC-HHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 150 KLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFL----EKFGIKSAILNAELP-QNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 150 k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L----~~~gi~~~~lhs~l~-~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
-+..++.++...+.+..++|.++|..-|.+-+..+ +.+|+.+.++.|+++ ..+|..+. ..+|+++|..
T Consensus 105 TL~a~lp~~l~al~G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl~v~~i~g~~~~~~~r~~~y------~~dIvygT~~ 177 (790)
T PRK09200 105 TLTATMPLYLNALEGKGVHLITVNDYLAKRDAEEMGQVYEFLGLTVGLNFSDIDDASEKKAIY------EADIIYTTNS 177 (790)
T ss_pred hHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCcHHHHHHhc------CCCEEEECCc
Confidence 33344444444455778999999987776655554 556999999999999 77776432 3789999964
No 286
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.35 E-value=16 Score=40.66 Aligned_cols=40 Identities=15% Similarity=0.336 Sum_probs=24.9
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
....+++||||+|.|....+.. +...++.-|.++.+||.|
T Consensus 122 ~gr~KViIIDEah~Ls~~AaNA-LLKTLEEPP~~v~FILaT 161 (700)
T PRK12323 122 AGRFKVYMIDEVHMLTNHAFNA-MLKTLEEPPEHVKFILAT 161 (700)
T ss_pred cCCceEEEEEChHhcCHHHHHH-HHHhhccCCCCceEEEEe
Confidence 3567899999999987554433 333344445566555554
No 287
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=46.31 E-value=15 Score=41.60 Aligned_cols=39 Identities=15% Similarity=0.321 Sum_probs=24.7
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
...+++||||+|.|....+.. +..+++.-|.+..+||.|
T Consensus 118 gr~KVIIIDEah~LT~~A~NA-LLKtLEEPP~~v~FILaT 156 (830)
T PRK07003 118 ARFKVYMIDEVHMLTNHAFNA-MLKTLEEPPPHVKFILAT 156 (830)
T ss_pred CCceEEEEeChhhCCHHHHHH-HHHHHHhcCCCeEEEEEE
Confidence 457899999999987654433 333455555555555544
No 288
>PRK08181 transposase; Validated
Probab=46.16 E-value=49 Score=32.68 Aligned_cols=76 Identities=11% Similarity=0.062 Sum_probs=44.6
Q ss_pred HcCCCcEEEECcchHHHHHHcCCCCC-----CcCCCCcceEEecccccccCCCc-HHHHHHHHHHCCCCccEEEEeeecC
Q 011428 31 LAGPPDIVIATPGCMPKCLSTGVLQS-----KSFSDSLKILVLDEADLLLSYGY-EDDLKALSAVIPRGCQCLLMSATSS 104 (486)
Q Consensus 31 l~~~~dIvV~TP~rl~~~l~~~~~~~-----~~~l~~l~~lViDEad~ll~~g~-~~~l~~i~~~lp~~~q~il~SATl~ 104 (486)
+..+..+++.|...|.+.+....... ...+.+.++|||||.+.+....+ ...+..|+........+|+.|-..+
T Consensus 131 ~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~~ 210 (269)
T PRK08181 131 IENGWRVLFTRTTDLVQKLQVARRELQLESAIAKLDKFDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQPF 210 (269)
T ss_pred HHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHhcCCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCCH
Confidence 34577788877777776654321000 11246789999999998754332 3456666665544455665555444
Q ss_pred hh
Q 011428 105 SD 106 (486)
Q Consensus 105 ~~ 106 (486)
.+
T Consensus 211 ~~ 212 (269)
T PRK08181 211 GE 212 (269)
T ss_pred HH
Confidence 33
No 289
>cd01521 RHOD_PspE2 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins.
Probab=45.99 E-value=28 Score=28.87 Aligned_cols=37 Identities=16% Similarity=0.178 Sum_probs=30.6
Q ss_pred CCeEEEEecCH--HHHHHHHHHHHHcCCceeecCCCCCH
Q 011428 164 QKKALIFTNTI--DMAFRLKLFLEKFGIKSAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns~--~~~~~l~~~L~~~gi~~~~lhs~l~~ 200 (486)
..++||||++- ..+..++..|.+.|+.+..|.|++..
T Consensus 64 ~~~vvvyc~~g~~~~s~~~a~~l~~~G~~v~~l~GG~~~ 102 (110)
T cd01521 64 EKLFVVYCDGPGCNGATKAALKLAELGFPVKEMIGGLDW 102 (110)
T ss_pred CCeEEEEECCCCCchHHHHHHHHHHcCCeEEEecCCHHH
Confidence 56899999875 47888889999999998889998743
No 290
>PF04364 DNA_pol3_chi: DNA polymerase III chi subunit, HolC; InterPro: IPR007459 The DNA polymerase III holoenzyme (2.7.7.7 from EC) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed to delta.delta and to chi psi. Chi forms a 1:1 heterodimer with psi. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta allowing a functional clamp-loading complex to form at physiological subunit concentrations. Psi is responsible for the interaction with DnaX (gamma/tau), but psi is insoluble unless it is in a complex with chi [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3SXU_A 1EM8_C.
Probab=45.74 E-value=69 Score=28.05 Aligned_cols=64 Identities=17% Similarity=0.094 Sum_probs=37.3
Q ss_pred HHHHHHHHHhhcc-CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 151 LLYILTLLKLELV-QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 151 ~~~l~~llk~~~~-~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..++..++..... +.+++|+|.+.+.+..|-..|-.+.-.+.+=|+-.... -.....|+|+++.
T Consensus 15 ~~~~c~L~~k~~~~g~rv~V~~~d~~~a~~lD~~LW~~~~~sFlPH~~~~~~---------~~~~~PV~i~~~~ 79 (137)
T PF04364_consen 15 ERFACRLAEKAYRQGQRVLVLCPDEEQAEALDELLWTFSPDSFLPHGLAGEP---------PAARQPVLITWDQ 79 (137)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-SSHHHHHHHHHHTTTSSTT----EEETT-S---------STT--SEEEE-TT
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHCCCCCCCCCCcccCCC---------CCCCCeEEEecCc
Confidence 4666666654443 56899999999999999999988876666555542211 0112479999965
No 291
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=45.29 E-value=17 Score=42.24 Aligned_cols=63 Identities=21% Similarity=0.163 Sum_probs=40.2
Q ss_pred CCeeEEEEeC-CCCHHHHHHHHcCCCcEEEECcchH-HHHHHcCCCCC--CcCCCCcceEEeccccccc
Q 011428 11 VQLKVVQLTS-SMPASDLRAALAGPPDIVIATPGCM-PKCLSTGVLQS--KSFSDSLKILVLDEADLLL 75 (486)
Q Consensus 11 ~~i~v~~l~g-~~~~~~q~~~l~~~~dIvV~TP~rl-~~~l~~~~~~~--~~~l~~l~~lViDEad~ll 75 (486)
+|++|..+.. +.+....+.. =.+||+.+|..-+ .+.|+.+.... ......+.+.||||+|-+|
T Consensus 237 LGLsvg~i~~~~~~~~~rr~a--Y~~DItYgTn~EfGFDYLRDnm~~~~~~~vqR~~~fAIVDEvDSIL 303 (1112)
T PRK12901 237 HGLSVDCIDKHQPNSEARRKA--YNADITYGTNNEFGFDYLRDNMAHSPEDLVQRKHNYAIVDEVDSVL 303 (1112)
T ss_pred hCCceeecCCCCCCHHHHHHh--CCCcceecCCCccccccchhccccchHhhhCcCCceeEeechhhhh
Confidence 5788877765 4444433332 3789999998865 34555443211 1234568899999999876
No 292
>COG1204 Superfamily II helicase [General function prediction only]
Probab=44.95 E-value=47 Score=37.89 Aligned_cols=65 Identities=15% Similarity=0.228 Sum_probs=49.0
Q ss_pred HHHHHHHHhhcc-CCeEEEEecCHHHHHHHHHHHH---HcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 152 LYILTLLKLELV-QKKALIFTNTIDMAFRLKLFLE---KFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 152 ~~l~~llk~~~~-~~k~IIFvns~~~~~~l~~~L~---~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..+..++..-.. .+|+|-.|+++.-|++.+..+. .+|+++..++|+++.... .-..++|+|+|.+
T Consensus 63 IA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~~TgD~~~~~~-------~l~~~~ViVtT~E 131 (766)
T COG1204 63 IALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVGISTGDYDLDDE-------RLARYDVIVTTPE 131 (766)
T ss_pred HHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEEecCCcccchh-------hhccCCEEEEchH
Confidence 334444443332 4699999999999999888887 899999999999985431 1357899999976
No 293
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=44.53 E-value=1e+02 Score=29.76 Aligned_cols=58 Identities=22% Similarity=0.231 Sum_probs=45.8
Q ss_pred cCCeEEEEecC-----------HHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC----CCcEEEEc
Q 011428 163 VQKKALIFTNT-----------IDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG----LFDYLIAT 221 (486)
Q Consensus 163 ~~~k~IIFvns-----------~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g----~~~iLIaT 221 (486)
+.|-+||+.|. ...+..|+..|+++|+.+. ++.+++..+-...+.+|... .++++++.
T Consensus 7 p~g~alII~n~~f~~~~~r~g~~~D~~~l~~~f~~lgF~V~-~~~dlt~~em~~~l~~~~~~~~~~~~d~~v~~ 79 (241)
T smart00115 7 PRGLALIINNENFHSLPRRNGTDVDAENLTELFQSLGYEVH-VKNNLTAEEMLEELKEFAERPEHSDSDSFVCV 79 (241)
T ss_pred CCcEEEEEECccCCCCcCCCCcHHHHHHHHHHHHHCCCEEE-EecCCCHHHHHHHHHHHHhccccCCCCEEEEE
Confidence 46789999886 4589999999999999886 57779999999999999663 35554444
No 294
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=44.47 E-value=35 Score=33.30 Aligned_cols=54 Identities=19% Similarity=0.322 Sum_probs=44.2
Q ss_pred eEEEEecCHHHHHHHHHHHHHc-----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 166 KALIFTNTIDMAFRLKLFLEKF-----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~~-----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.++|.|+|++-|+.+....++| +.++.++.|+++...-.+.+.. --.|+|+|+.
T Consensus 112 svlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~----~PhivVgTPG 170 (387)
T KOG0329|consen 112 SVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKN----CPHIVVGTPG 170 (387)
T ss_pred EEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhC----CCeEEEcCcH
Confidence 5799999999999999888887 5789999999998766555443 5579999975
No 295
>PRK00254 ski2-like helicase; Provisional
Probab=44.40 E-value=61 Score=36.71 Aligned_cols=53 Identities=21% Similarity=0.323 Sum_probs=41.8
Q ss_pred CCeEEEEecCHHHHHHHHHHHH---HcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLE---KFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~---~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.+++|+.+++++-+......+. .+|+++..++|+.+...+ + .+..+|+|+|..
T Consensus 68 ~~~~l~l~P~~aLa~q~~~~~~~~~~~g~~v~~~~Gd~~~~~~------~-~~~~~IiV~Tpe 123 (720)
T PRK00254 68 GGKAVYLVPLKALAEEKYREFKDWEKLGLRVAMTTGDYDSTDE------W-LGKYDIIIATAE 123 (720)
T ss_pred CCeEEEEeChHHHHHHHHHHHHHHhhcCCEEEEEeCCCCCchh------h-hccCCEEEEcHH
Confidence 6799999999999988887665 458899999999876432 1 256899999964
No 296
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=44.08 E-value=64 Score=30.16 Aligned_cols=41 Identities=20% Similarity=0.267 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEE
Q 011428 175 DMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIA 220 (486)
Q Consensus 175 ~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIa 220 (486)
|.|..+-..|.+..- -+-+-.++|..-|. .|+...+++=|.
T Consensus 3 D~~L~FLHiLnqR~~-G~rIPr~vPasLra----sf~k~~i~Ydl~ 43 (195)
T PF12761_consen 3 DQCLYFLHILNQRND-GYRIPREVPASLRA----SFEKEQIDYDLN 43 (195)
T ss_pred cchhhHHHHHhcccc-CCcCCccCCHHHHH----HHhcCCcCcccc
Confidence 445555566666544 34567888887664 677776555443
No 297
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=43.98 E-value=48 Score=34.64 Aligned_cols=71 Identities=21% Similarity=0.344 Sum_probs=37.9
Q ss_pred CCCcEEEECcch-------HHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecCh
Q 011428 33 GPPDIVIATPGC-------MPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSS 105 (486)
Q Consensus 33 ~~~dIvV~TP~r-------l~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~ 105 (486)
..||+.+.+|+. +.+++..-. ........+++||||||.|.... .+.+..+++.-|.+ -++++.||-+.
T Consensus 83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~--~~p~~~~~kViiIDead~m~~~a-anaLLk~LEep~~~-~~fIL~a~~~~ 158 (394)
T PRK07940 83 THPDVRVVAPEGLSIGVDEVRELVTIAA--RRPSTGRWRIVVIEDADRLTERA-ANALLKAVEEPPPR-TVWLLCAPSPE 158 (394)
T ss_pred CCCCEEEeccccccCCHHHHHHHHHHHH--hCcccCCcEEEEEechhhcCHHH-HHHHHHHhhcCCCC-CeEEEEECChH
Confidence 368888777752 222222111 01234567899999999996543 23344444443434 44555555444
Q ss_pred hH
Q 011428 106 DV 107 (486)
Q Consensus 106 ~v 107 (486)
.+
T Consensus 159 ~l 160 (394)
T PRK07940 159 DV 160 (394)
T ss_pred HC
Confidence 43
No 298
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=43.60 E-value=79 Score=38.81 Aligned_cols=56 Identities=16% Similarity=0.239 Sum_probs=44.8
Q ss_pred CCeEEEEecCHHHHHHHHHHHHH----------------cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEK----------------FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~----------------~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..++|+.+++++-+..+...|+. .++.+.++||+.+..+|...+ ....+|||+|+.
T Consensus 37 ~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V~vrtGDt~~~eR~rll----~~ppdILVTTPE 108 (1490)
T PRK09751 37 TSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRVGIRTGDTPAQERSKLT----RNPPDILITTPE 108 (1490)
T ss_pred CCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEEEEEECCCCHHHHHHHh----cCCCCEEEecHH
Confidence 35799999999888887776642 367889999999999987643 356799999986
No 299
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=43.52 E-value=29 Score=28.16 Aligned_cols=37 Identities=19% Similarity=0.185 Sum_probs=30.6
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCC
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELP 199 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~ 199 (486)
...++||+|.+=.++...+..|...|+. +..|.|++.
T Consensus 60 ~~~~ivvyC~~G~rs~~a~~~L~~~G~~~v~~l~GG~~ 97 (101)
T cd01518 60 KGKKVLMYCTGGIRCEKASAYLKERGFKNVYQLKGGIL 97 (101)
T ss_pred CCCEEEEECCCchhHHHHHHHHHHhCCcceeeechhHH
Confidence 3568999999888888888999999995 778888864
No 300
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=43.49 E-value=18 Score=33.60 Aligned_cols=41 Identities=17% Similarity=0.299 Sum_probs=21.2
Q ss_pred CcceEEecccccccCCC-c-----HHHHHHHHHHC-CCCccEEEEeeec
Q 011428 62 SLKILVLDEADLLLSYG-Y-----EDDLKALSAVI-PRGCQCLLMSATS 103 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g-~-----~~~l~~i~~~l-p~~~q~il~SATl 103 (486)
.=.++||||||..+... + .+.+ ..+... ..+.-++++|=.+
T Consensus 79 ~~~liviDEa~~~~~~r~~~~~~~~~~~-~~l~~hRh~g~diiliTQ~~ 126 (193)
T PF05707_consen 79 KGSLIVIDEAQNFFPSRSWKGKKVPEII-EFLAQHRHYGWDIILITQSP 126 (193)
T ss_dssp TT-EEEETTGGGTSB---T-T----HHH-HGGGGCCCTT-EEEEEES-G
T ss_pred CCcEEEEECChhhcCCCccccccchHHH-HHHHHhCcCCcEEEEEeCCH
Confidence 44689999999988643 2 1233 223222 2356666666544
No 301
>cd01449 TST_Repeat_2 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue.
Probab=43.19 E-value=28 Score=28.98 Aligned_cols=36 Identities=22% Similarity=0.294 Sum_probs=30.6
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELP 199 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~ 199 (486)
..++||||++-.++.+++..|...|+. +..|.|++.
T Consensus 78 ~~~iv~yc~~g~~s~~~~~~l~~~G~~~v~~l~GG~~ 114 (118)
T cd01449 78 DKPVIVYCGSGVTACVLLLALELLGYKNVRLYDGSWS 114 (118)
T ss_pred CCCEEEECCcHHHHHHHHHHHHHcCCCCeeeeCChHH
Confidence 458999999988899999999999985 778888763
No 302
>PRK08084 DNA replication initiation factor; Provisional
Probab=43.03 E-value=19 Score=34.57 Aligned_cols=44 Identities=16% Similarity=0.274 Sum_probs=27.1
Q ss_pred CCcceEEecccccccCC-CcHHHHHHHHHHCCC-C-ccEEEEeeecCh
Q 011428 61 DSLKILVLDEADLLLSY-GYEDDLKALSAVIPR-G-CQCLLMSATSSS 105 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~-g~~~~l~~i~~~lp~-~-~q~il~SATl~~ 105 (486)
.+.++|+|||+|.+... .+++.+..++..+.. + .+++ +|++.|+
T Consensus 96 ~~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li-~ts~~~p 142 (235)
T PRK08084 96 EQLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLL-ITGDRPP 142 (235)
T ss_pred hhCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEE-EeCCCCh
Confidence 44679999999998643 355666666655432 2 3444 4555443
No 303
>cd01447 Polysulfide_ST Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a terminal electron acceptor. The active site contains the same conserved cysteine that is the catalytic residue in other Rhodanese Homology Domain proteins.
Probab=42.90 E-value=23 Score=28.59 Aligned_cols=36 Identities=11% Similarity=0.073 Sum_probs=30.2
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELP 199 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~ 199 (486)
..+++|||.+-.++...+..|...|+. +..|.|++.
T Consensus 61 ~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~l~Gg~~ 97 (103)
T cd01447 61 DKPFVFYCASGWRSALAGKTLQDMGLKPVYNIEGGFK 97 (103)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHHcChHHhEeecCcHH
Confidence 568999998877788888999999987 788888864
No 304
>PF11019 DUF2608: Protein of unknown function (DUF2608); InterPro: IPR022565 This family is conserved in Bacteria. The function is not known.
Probab=42.76 E-value=2.2e+02 Score=27.79 Aligned_cols=60 Identities=15% Similarity=0.025 Sum_probs=45.9
Q ss_pred cceEEEEEcchhhhHHHHHHHHHhhccCCeEEEEe-cCHHHHHHHHHHHHHcCCceeecCC
Q 011428 137 NVQQFWISCSERDKLLYILTLLKLELVQKKALIFT-NTIDMAFRLKLFLEKFGIKSAILNA 196 (486)
Q Consensus 137 ~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIFv-ns~~~~~~l~~~L~~~gi~~~~lhs 196 (486)
-...-++.+...+|-..|..+|..-....+.|||+ ++.+....+...+...||....+|-
T Consensus 150 ~~~~GIlft~~~~KG~~L~~fL~~~~~~pk~IIfIDD~~~nl~sv~~a~k~~~I~f~G~~Y 210 (252)
T PF11019_consen 150 SFYDGILFTGGQDKGEVLKYFLDKINQSPKKIIFIDDNKENLKSVEKACKKSGIDFIGFHY 210 (252)
T ss_pred eeecCeEEeCCCccHHHHHHHHHHcCCCCCeEEEEeCCHHHHHHHHHHHhhCCCcEEEEEE
Confidence 35556778888999999988887655556667776 4567788899999999998776654
No 305
>cd01525 RHOD_Kc Member of the Rhodanese Homology Domain superfamily. Included in this CD are the rhodanese-like domains found C-terminal of the serine/threonine protein kinases catalytic (S_TKc) domain and the Tre-2, BUB2p, Cdc16p (TBC) domain. The putative active site Cys residue is not present in this CD.
Probab=42.75 E-value=31 Score=28.01 Aligned_cols=36 Identities=25% Similarity=0.340 Sum_probs=30.4
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELP 199 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~ 199 (486)
..+++|+|.+-.++...+..|...|+. +..|.|++.
T Consensus 65 ~~~vv~~c~~g~~s~~~a~~L~~~G~~~v~~l~GG~~ 101 (105)
T cd01525 65 GKIIVIVSHSHKHAALFAAFLVKCGVPRVCILDGGIN 101 (105)
T ss_pred CCeEEEEeCCCccHHHHHHHHHHcCCCCEEEEeCcHH
Confidence 567999998877888889999999995 778999874
No 306
>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=42.60 E-value=35 Score=30.71 Aligned_cols=70 Identities=20% Similarity=0.280 Sum_probs=40.6
Q ss_pred CCCcEEEECcchH---------HHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeec
Q 011428 33 GPPDIVIATPGCM---------PKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATS 103 (486)
Q Consensus 33 ~~~dIvV~TP~rl---------~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl 103 (486)
..||+++..|..- .++...-. ........+++||||||.|.... ...+...++.-|.+..+||+|...
T Consensus 66 ~~~d~~~~~~~~~~~~i~i~~ir~i~~~~~--~~~~~~~~KviiI~~ad~l~~~a-~NaLLK~LEepp~~~~fiL~t~~~ 142 (162)
T PF13177_consen 66 NHPDFIIIKPDKKKKSIKIDQIREIIEFLS--LSPSEGKYKVIIIDEADKLTEEA-QNALLKTLEEPPENTYFILITNNP 142 (162)
T ss_dssp -CTTEEEEETTTSSSSBSHHHHHHHHHHCT--SS-TTSSSEEEEEETGGGS-HHH-HHHHHHHHHSTTTTEEEEEEES-G
T ss_pred cCcceEEEecccccchhhHHHHHHHHHHHH--HHHhcCCceEEEeehHhhhhHHH-HHHHHHHhcCCCCCEEEEEEECCh
Confidence 4799998877732 22222211 12233578899999999986543 445555566666667666666554
Q ss_pred Ch
Q 011428 104 SS 105 (486)
Q Consensus 104 ~~ 105 (486)
..
T Consensus 143 ~~ 144 (162)
T PF13177_consen 143 SK 144 (162)
T ss_dssp GG
T ss_pred HH
Confidence 33
No 307
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=42.49 E-value=1.4e+02 Score=26.25 Aligned_cols=55 Identities=22% Similarity=0.299 Sum_probs=40.3
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcC-----CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFG-----IKSAILNAELPQNSRLHILEEFNAGLFDYLIATD 222 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~g-----i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd 222 (486)
..++||.+++...+..+...+.... .....+++..+ ...+..+..+.++++++|.
T Consensus 54 ~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~v~~~t~ 113 (201)
T smart00487 54 GKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSK----REQLRKLESGKTDILVTTP 113 (201)
T ss_pred CCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcch----HHHHHHHhcCCCCEEEeCh
Confidence 3689999999999888888877655 44556666543 3445567777779999994
No 308
>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=42.46 E-value=42 Score=30.68 Aligned_cols=39 Identities=10% Similarity=0.198 Sum_probs=22.5
Q ss_pred CCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEE
Q 011428 59 FSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLL 98 (486)
Q Consensus 59 ~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il 98 (486)
....-+++||||+|.+.... .+.+...++..|+..-+|+
T Consensus 93 ~~~~~kviiide~~~l~~~~-~~~Ll~~le~~~~~~~~il 131 (188)
T TIGR00678 93 QESGRRVVIIEDAERMNEAA-ANALLKTLEEPPPNTLFIL 131 (188)
T ss_pred ccCCeEEEEEechhhhCHHH-HHHHHHHhcCCCCCeEEEE
Confidence 34667899999999986432 2333344444343333333
No 309
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=42.39 E-value=54 Score=34.55 Aligned_cols=80 Identities=20% Similarity=0.168 Sum_probs=46.9
Q ss_pred CCcceEEecccccccCCC--------cHHHHHHHHHH----CCCCccEEEEeee-cChhHHHHHHHhccCCcEEEcCCcC
Q 011428 61 DSLKILVLDEADLLLSYG--------YEDDLKALSAV----IPRGCQCLLMSAT-SSSDVDKLKKLILHNPYILTLPEVG 127 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g--------~~~~l~~i~~~----lp~~~q~il~SAT-l~~~v~~l~~~~l~~p~~i~l~~~~ 127 (486)
.+..+++|||+|.+++.- -.-.++.++.. ...+-++++++|| +|.++++-....+..-.++.+
T Consensus 244 ~qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN~P~e~Dea~~Rrf~kr~yipl---- 319 (428)
T KOG0740|consen 244 LQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNRPWELDEAARRRFVKRLYIPL---- 319 (428)
T ss_pred cCCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCeEEEEecCCCchHHHHHHHHHhhceeeecC----
Confidence 446788899999998632 11222333332 2235588889998 566666555444333333322
Q ss_pred CcccccccCcceEEEEEcchhhhHHHHHHHHHhh
Q 011428 128 DVKDEVIPKNVQQFWISCSERDKLLYILTLLKLE 161 (486)
Q Consensus 128 ~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~ 161 (486)
++.+....++..+|+.+
T Consensus 320 -----------------Pd~etr~~~~~~ll~~~ 336 (428)
T KOG0740|consen 320 -----------------PDYETRSLLWKQLLKEQ 336 (428)
T ss_pred -----------------CCHHHHHHHHHHHHHhC
Confidence 33566777777777754
No 310
>cd01533 4RHOD_Repeat_2 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic Cys residue.
Probab=42.37 E-value=31 Score=28.47 Aligned_cols=37 Identities=11% Similarity=-0.030 Sum_probs=31.2
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc--eeecCCCCCH
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK--SAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~--~~~lhs~l~~ 200 (486)
..+++|||.+-.++...+..|...|+. +..+.|+++.
T Consensus 66 ~~~ivv~C~~G~rs~~a~~~L~~~G~~~~v~~l~gG~~~ 104 (109)
T cd01533 66 RTPIVVNCAGRTRSIIGAQSLINAGLPNPVAALRNGTQG 104 (109)
T ss_pred CCeEEEECCCCchHHHHHHHHHHCCCCcceeEecCCHHH
Confidence 358999999988888889999999994 7889999854
No 311
>PRK04296 thymidine kinase; Provisional
Probab=42.32 E-value=28 Score=32.26 Aligned_cols=38 Identities=16% Similarity=0.261 Sum_probs=22.9
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeee
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
.+.++||||||+.+- .+++..++..+...-..+++++-
T Consensus 77 ~~~dvviIDEaq~l~----~~~v~~l~~~l~~~g~~vi~tgl 114 (190)
T PRK04296 77 EKIDCVLIDEAQFLD----KEQVVQLAEVLDDLGIPVICYGL 114 (190)
T ss_pred CCCCEEEEEccccCC----HHHHHHHHHHHHHcCCeEEEEec
Confidence 367899999997642 34466666664333334444443
No 312
>PRK06620 hypothetical protein; Validated
Probab=42.05 E-value=88 Score=29.58 Aligned_cols=42 Identities=17% Similarity=0.264 Sum_probs=24.6
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCC-CCccEEEEeeecChh
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIP-RGCQCLLMSATSSSD 106 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp-~~~q~il~SATl~~~ 106 (486)
.+.++|+|||+|.+- ...+-.++..+. .+.|+++.|.|.|+.
T Consensus 84 ~~~d~lliDdi~~~~----~~~lf~l~N~~~e~g~~ilits~~~p~~ 126 (214)
T PRK06620 84 EKYNAFIIEDIENWQ----EPALLHIFNIINEKQKYLLLTSSDKSRN 126 (214)
T ss_pred hcCCEEEEeccccch----HHHHHHHHHHHHhcCCEEEEEcCCCccc
Confidence 345789999999531 234445554443 345665555555654
No 313
>PLN03025 replication factor C subunit; Provisional
Probab=41.97 E-value=26 Score=35.31 Aligned_cols=40 Identities=23% Similarity=0.328 Sum_probs=25.7
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeee
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
...+++||||||.|.... ...+..+++..+....++ ++++
T Consensus 98 ~~~kviiiDE~d~lt~~a-q~aL~~~lE~~~~~t~~i-l~~n 137 (319)
T PLN03025 98 GRHKIVILDEADSMTSGA-QQALRRTMEIYSNTTRFA-LACN 137 (319)
T ss_pred CCeEEEEEechhhcCHHH-HHHHHHHHhcccCCceEE-EEeC
Confidence 357899999999986543 455555566555555444 4444
No 314
>cd01532 4RHOD_Repeat_1 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative catalytic Cys residue.
Probab=41.75 E-value=44 Score=26.63 Aligned_cols=36 Identities=22% Similarity=0.333 Sum_probs=28.6
Q ss_pred CCeEEEEecC--HHHHHHHHHHHHHcCC-ceeecCCCCC
Q 011428 164 QKKALIFTNT--IDMAFRLKLFLEKFGI-KSAILNAELP 199 (486)
Q Consensus 164 ~~k~IIFvns--~~~~~~l~~~L~~~gi-~~~~lhs~l~ 199 (486)
..+++|||.+ ...+...+..|...|+ ++..+.|++.
T Consensus 50 ~~~ivl~c~~G~~~~s~~aa~~L~~~G~~~v~~l~GG~~ 88 (92)
T cd01532 50 DTPIVVYGEGGGEDLAPRAARRLSELGYTDVALLEGGLQ 88 (92)
T ss_pred CCeEEEEeCCCCchHHHHHHHHHHHcCccCEEEccCCHH
Confidence 5689999998 4557788888999997 4778888874
No 315
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=41.49 E-value=44 Score=31.11 Aligned_cols=39 Identities=21% Similarity=0.372 Sum_probs=26.7
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCC-CccEEEEeee
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPR-GCQCLLMSAT 102 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~-~~q~il~SAT 102 (486)
+...++||||||-.+. ...+..++..++. +.+++++--+
T Consensus 91 ~~~~~vliVDEasmv~----~~~~~~ll~~~~~~~~klilvGD~ 130 (196)
T PF13604_consen 91 LPKKDVLIVDEASMVD----SRQLARLLRLAKKSGAKLILVGDP 130 (196)
T ss_dssp -TSTSEEEESSGGG-B----HHHHHHHHHHS-T-T-EEEEEE-T
T ss_pred CCcccEEEEecccccC----HHHHHHHHHHHHhcCCEEEEECCc
Confidence 4566899999998764 5678888888876 6777777544
No 316
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=41.42 E-value=1.9e+02 Score=27.73 Aligned_cols=58 Identities=24% Similarity=0.260 Sum_probs=44.8
Q ss_pred cCCeEEEEecC------------HHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhc---CCCcEEEEc
Q 011428 163 VQKKALIFTNT------------IDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNA---GLFDYLIAT 221 (486)
Q Consensus 163 ~~~k~IIFvns------------~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~---g~~~iLIaT 221 (486)
.++.+||+.|. ...+..|+..|+++|+.+. ++.+++..+-...+.+|.+ ..++++++.
T Consensus 8 ~~g~aLII~n~~f~~~~~~r~g~~~D~~~l~~~f~~lgF~V~-~~~nlt~~~~~~~l~~f~~~~~~~~d~~v~~ 80 (243)
T cd00032 8 RRGLALIINNENFDKGLKDRDGTDVDAENLTKLFESLGYEVE-VKNNLTAEEILEELKEFASPDHSDSDSFVCV 80 (243)
T ss_pred CCCEEEEEechhcCCCCCCCCChHHHHHHHHHHHHHCCCEEE-EeCCCCHHHHHHHHHHHHhccCCCCCeeEEE
Confidence 46788888874 4679999999999999875 6788899998999999975 344544333
No 317
>cd01444 GlpE_ST GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a catalytically active cysteine.
Probab=41.34 E-value=55 Score=25.91 Aligned_cols=37 Identities=11% Similarity=0.161 Sum_probs=31.3
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCC
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELP 199 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~ 199 (486)
...++||+|++-.++...+..|...|+. +..+.|++.
T Consensus 55 ~~~~ivv~c~~g~~s~~a~~~l~~~G~~~v~~l~gG~~ 92 (96)
T cd01444 55 RDRPVVVYCYHGNSSAQLAQALREAGFTDVRSLAGGFE 92 (96)
T ss_pred CCCCEEEEeCCCChHHHHHHHHHHcCCceEEEcCCCHH
Confidence 3568999999999999999999999985 778888763
No 318
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=41.31 E-value=19 Score=40.03 Aligned_cols=43 Identities=16% Similarity=0.478 Sum_probs=30.5
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCC-CCccEEEEeeecChh
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIP-RGCQCLLMSATSSSD 106 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp-~~~q~il~SATl~~~ 106 (486)
=.+.++||||||+.+-+. .+..|+-.+. .+.++|++|-|-+.+
T Consensus 350 GqtfDLLIVDEAqFIk~~----al~~ilp~l~~~n~k~I~ISS~Ns~~ 393 (738)
T PHA03368 350 GQDFNLLFVDEANFIRPD----AVQTIMGFLNQTNCKIIFVSSTNTGK 393 (738)
T ss_pred CCcccEEEEechhhCCHH----HHHHHHHHHhccCccEEEEecCCCCc
Confidence 357899999999998753 3444443332 488999999886554
No 319
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=41.06 E-value=85 Score=23.73 Aligned_cols=56 Identities=21% Similarity=0.249 Sum_probs=36.5
Q ss_pred EEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
.|+.|.....+..+..... .+..+..+.|..........+.++... -.|+||+|..
T Consensus 2 ~l~ivEg~~da~~~~~~~~-~~~~~~~~~G~~~~~~~~~~l~~~~~~-~~Iii~~D~D 57 (76)
T smart00493 2 VLIIVEGPADAIALEKAGG-FGGNVVALGGHLLKKEIIKLLKRLAKK-KEVILATDPD 57 (76)
T ss_pred EEEEEcCHHHHHHHHHhcC-CCEEEEEEeeeecHHHHHHHHHHHhcC-CEEEEEcCCC
Confidence 5788888888877766542 223555666655444556666666554 5799999873
No 320
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=40.85 E-value=60 Score=34.76 Aligned_cols=96 Identities=20% Similarity=0.215 Sum_probs=52.6
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCC---------CCCCcCCCCcc--eEEecccccccCCCcH
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGV---------LQSKSFSDSLK--ILVLDEADLLLSYGYE 80 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~---------~~~~~~l~~l~--~lViDEad~ll~~g~~ 80 (486)
.+++....|......-.. | .++|+|.+|...+-...+... ......+.+++ -+|+||||-+-+..-
T Consensus 257 slkv~~YhG~~R~~nike-l-~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH~IK~R~s- 333 (791)
T KOG1002|consen 257 SLKVYIYHGAKRDKNIKE-L-MNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAHNIKDRQS- 333 (791)
T ss_pred ceEEEEEecccccCCHHH-h-hcCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhhhcccccccc-
Confidence 577777777654433222 2 289999999988766665421 11123344444 589999999976431
Q ss_pred HHHHHHHHHCCCCccEEEEeeec-ChhHHHHHH
Q 011428 81 DDLKALSAVIPRGCQCLLMSATS-SSDVDKLKK 112 (486)
Q Consensus 81 ~~l~~i~~~lp~~~q~il~SATl-~~~v~~l~~ 112 (486)
..-+++. .|. .....++|.|. -.++.+|-.
T Consensus 334 nTArAV~-~L~-tt~rw~LSGTPLQNrigElyS 364 (791)
T KOG1002|consen 334 NTARAVF-ALE-TTYRWCLSGTPLQNRIGELYS 364 (791)
T ss_pred cHHHHHH-hhH-hhhhhhccCCcchhhHHHHHH
Confidence 1112221 121 12234567774 455554443
No 321
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=40.71 E-value=90 Score=33.54 Aligned_cols=57 Identities=23% Similarity=0.333 Sum_probs=44.6
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHc-CC---ceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKF-GI---KSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~-gi---~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
.++++|+..+|+--+..-+.++.+. |+ .++.|.|+.++++|... |+++ +|+|||+..
T Consensus 57 ~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~~---w~~~--kVfvaTPQv 117 (542)
T COG1111 57 FGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREEL---WAKK--KVFVATPQV 117 (542)
T ss_pred cCCeEEEecCCchHHHHHHHHHHHHhCCChhheeeecCCCChHHHHHH---HhhC--CEEEeccHH
Confidence 3568999999998887777777654 66 46799999999999865 4444 799999864
No 322
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=40.15 E-value=58 Score=36.07 Aligned_cols=41 Identities=17% Similarity=0.323 Sum_probs=25.5
Q ss_pred CCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 59 FSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 59 ~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
.....+++||||||.|....+ +.+...++.-|..+.+|+.+
T Consensus 129 ~~a~~KVvIIDEad~Ls~~a~-naLLKtLEePp~~~~fIl~t 169 (598)
T PRK09111 129 VSARYKVYIIDEVHMLSTAAF-NALLKTLEEPPPHVKFIFAT 169 (598)
T ss_pred hcCCcEEEEEEChHhCCHHHH-HHHHHHHHhCCCCeEEEEEe
Confidence 456788999999999864332 23333344455566666544
No 323
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=40.14 E-value=1.7e+02 Score=28.59 Aligned_cols=113 Identities=14% Similarity=0.170 Sum_probs=62.8
Q ss_pred cccccccCCC--cHHHHHHHHHHCCCCccEEEEeeecChhH-----HHHHHHhccCCcEEEcCCcCCcccccccCcceEE
Q 011428 69 DEADLLLSYG--YEDDLKALSAVIPRGCQCLLMSATSSSDV-----DKLKKLILHNPYILTLPEVGDVKDEVIPKNVQQF 141 (486)
Q Consensus 69 DEad~ll~~g--~~~~l~~i~~~lp~~~q~il~SATl~~~v-----~~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~ 141 (486)
=+.+.+++.| -......|...+.+.-+++.+ -.-++. +.+....+.|.+.+.+.+.. +......+...
T Consensus 93 ~pg~rVlEAGtGSG~lt~~La~~vg~~G~v~ty--E~r~d~~k~A~~Nl~~~~l~d~v~~~~~Dv~---~~~~~~~vDav 167 (256)
T COG2519 93 SPGSRVLEAGTGSGALTAYLARAVGPEGHVTTY--EIREDFAKTARENLSEFGLGDRVTLKLGDVR---EGIDEEDVDAV 167 (256)
T ss_pred CCCCEEEEcccCchHHHHHHHHhhCCCceEEEE--EecHHHHHHHHHHHHHhccccceEEEecccc---ccccccccCEE
Confidence 3555566544 333334444445544554433 333332 34445456666666653321 22222345555
Q ss_pred EEEcch-hhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCC
Q 011428 142 WISCSE-RDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGI 189 (486)
Q Consensus 142 ~i~~~~-~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi 189 (486)
++..++ .+-+..+..+|+ +.+.+++|+++++.+.++.+.|+..|+
T Consensus 168 ~LDmp~PW~~le~~~~~Lk---pgg~~~~y~P~veQv~kt~~~l~~~g~ 213 (256)
T COG2519 168 FLDLPDPWNVLEHVSDALK---PGGVVVVYSPTVEQVEKTVEALRERGF 213 (256)
T ss_pred EEcCCChHHHHHHHHHHhC---CCcEEEEEcCCHHHHHHHHHHHHhcCc
Confidence 555443 333444455554 468999999999999999999998753
No 324
>cd01519 RHOD_HSP67B2 Member of the Rhodanese Homology Domain superfamily. This CD includes the heat shock protein 67B2 of Drosophila melanogaster and other similar proteins, many of which are uncharacterized.
Probab=40.05 E-value=37 Score=27.58 Aligned_cols=36 Identities=6% Similarity=0.016 Sum_probs=30.5
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELP 199 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~ 199 (486)
..++|+||++-.++...+..|...|+. +..+.|++.
T Consensus 66 ~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~~~Gg~~ 102 (106)
T cd01519 66 DKELIFYCKAGVRSKAAAELARSLGYENVGNYPGSWL 102 (106)
T ss_pred CCeEEEECCCcHHHHHHHHHHHHcCCccceecCCcHH
Confidence 458999999988899999999999985 777888764
No 325
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=39.93 E-value=1.6e+02 Score=22.10 Aligned_cols=57 Identities=12% Similarity=0.260 Sum_probs=40.0
Q ss_pred eEEEEe-cCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcC
Q 011428 166 KALIFT-NTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATD 222 (486)
Q Consensus 166 k~IIFv-ns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd 222 (486)
++.||. ++...|.++..+|++.|+....++=......+..+.+.-..+.+..++--+
T Consensus 2 ~v~ly~~~~C~~C~ka~~~L~~~gi~~~~~di~~~~~~~~el~~~~g~~~vP~v~i~~ 59 (73)
T cd03027 2 RVTIYSRLGCEDCTAVRLFLREKGLPYVEINIDIFPERKAELEERTGSSVVPQIFFNE 59 (73)
T ss_pred EEEEEecCCChhHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHHhCCCCcCEEEECC
Confidence 455665 457889999999999999988887666666566655554445566665543
No 326
>cd01526 RHOD_ThiF Member of the Rhodanese Homology Domain superfamily. This CD includes several putative molybdopterin synthase sulfurylases including the molybdenum cofactor biosynthetic protein (CnxF) of Aspergillus nidulans and the molybdenum cofactor synthesis protein 3 (MOCS3) of Homo sapiens. These rhodanese-like domains are found C-terminal of the ThiF and MoeZ_MoeB domains.
Probab=39.88 E-value=31 Score=29.24 Aligned_cols=37 Identities=8% Similarity=-0.006 Sum_probs=32.0
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCC--ceeecCCCCCH
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGI--KSAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi--~~~~lhs~l~~ 200 (486)
..+++|||++-.++...+..|...|+ ++..+.|++..
T Consensus 72 ~~~ivv~C~~G~rs~~aa~~L~~~G~~~~v~~l~GG~~~ 110 (122)
T cd01526 72 DSPIYVVCRRGNDSQTAVRKLKELGLERFVRDIIGGLKA 110 (122)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHcCCccceeeecchHHH
Confidence 56799999998889999999999999 58899999843
No 327
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=39.87 E-value=1.5e+02 Score=22.11 Aligned_cols=53 Identities=15% Similarity=0.210 Sum_probs=37.9
Q ss_pred EEEEe-cCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC-CCcEEE
Q 011428 167 ALIFT-NTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG-LFDYLI 219 (486)
Q Consensus 167 ~IIFv-ns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g-~~~iLI 219 (486)
+.||. ++...|.++..+|.+.++....++-....+.+..+.+..... .+..++
T Consensus 2 i~ly~~~~Cp~C~~ak~~L~~~~i~~~~i~i~~~~~~~~~~~~~~~~~~~vP~v~ 56 (75)
T cd03418 2 VEIYTKPNCPYCVRAKALLDKKGVDYEEIDVDGDPALREEMINRSGGRRTVPQIF 56 (75)
T ss_pred EEEEeCCCChHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCCCCccCEEE
Confidence 45665 567889999999999999988887777666666665555433 455554
No 328
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=39.73 E-value=21 Score=38.74 Aligned_cols=39 Identities=18% Similarity=0.330 Sum_probs=25.6
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
...+++||||||.|....+. .+...++.-|..+.+|+.+
T Consensus 118 ~~~kV~iIDE~~~ls~~a~n-aLLk~LEepp~~~~fIlat 156 (509)
T PRK14958 118 GRFKVYLIDEVHMLSGHSFN-ALLKTLEEPPSHVKFILAT 156 (509)
T ss_pred CCcEEEEEEChHhcCHHHHH-HHHHHHhccCCCeEEEEEE
Confidence 46789999999998754443 3444555556666665544
No 329
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=39.62 E-value=1.1e+02 Score=35.12 Aligned_cols=57 Identities=18% Similarity=0.202 Sum_probs=43.6
Q ss_pred hccCCeEEEEecCHHHHHHHHHHH----HHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 161 ELVQKKALIFTNTIDMAFRLKLFL----EKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 161 ~~~~~k~IIFvns~~~~~~l~~~L----~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.+.+..+-|.++|..-|.+-+..+ +.+|+.+.++.|+++..+|..... .+|+++|..
T Consensus 119 aL~G~~V~IvTpn~yLA~rd~e~~~~l~~~LGlsv~~i~~~~~~~er~~~y~------~dI~ygT~~ 179 (830)
T PRK12904 119 ALTGKGVHVVTVNDYLAKRDAEWMGPLYEFLGLSVGVILSGMSPEERREAYA------ADITYGTNN 179 (830)
T ss_pred HHcCCCEEEEecCHHHHHHHHHHHHHHHhhcCCeEEEEcCCCCHHHHHHhcC------CCeEEECCc
Confidence 344556778888876665555544 566999999999999999888753 789999975
No 330
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=39.48 E-value=37 Score=38.06 Aligned_cols=85 Identities=14% Similarity=0.151 Sum_probs=45.7
Q ss_pred CeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCC
Q 011428 12 QLKVVQLTSSMPASDLRAALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIP 91 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp 91 (486)
.+.+..+.|..... . ....+|||++||+.+.. .. ...-..-.+|+||||.+-...-. .......+.
T Consensus 216 ~l~v~v~~gr~kd~---~-el~~~dVVltTy~il~~----~~----l~~i~w~Riildea~~ikn~~tq--~~~a~~~L~ 281 (674)
T KOG1001|consen 216 KLSIYVYHGRTKDK---S-ELNSYDVVLTTYDILKN----SP----LVKIKWLRIVLDEAHTIKNKDTQ--IFKAVCQLD 281 (674)
T ss_pred ceEEEEeccccccc---c-hhcCCceEEeeHHHhhc----cc----ccceeEEEEEeccccccCCcchH--hhhhheeec
Confidence 45666666612211 1 22488999999876642 21 22233557999999998765422 223333344
Q ss_pred CCccEEEEeeec-ChhHHHHH
Q 011428 92 RGCQCLLMSATS-SSDVDKLK 111 (486)
Q Consensus 92 ~~~q~il~SATl-~~~v~~l~ 111 (486)
..++.. +|+|. -..++.+-
T Consensus 282 a~~RWc-LtgtPiqn~~~~ly 301 (674)
T KOG1001|consen 282 AKYRWC-LTGTPIQNNLDELY 301 (674)
T ss_pred cceeee-ecCChhhhhHHHHH
Confidence 455554 45553 33344443
No 331
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=38.65 E-value=35 Score=27.88 Aligned_cols=58 Identities=17% Similarity=0.095 Sum_probs=39.6
Q ss_pred EEEEecCHHHHHHHHHHHHHcCCceeecCCCCC-----H-------HHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 167 ALIFTNTIDMAFRLKLFLEKFGIKSAILNAELP-----Q-------NSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 167 ~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~-----~-------~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
.||.|.....+..++..|......+....|.+- . ..+...+.+.-.+.-.|++|||..
T Consensus 1 ~liIvE~ps~a~~i~~~l~~~~~~v~~~~Ghl~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~iiiatD~D 70 (100)
T PF01751_consen 1 ELIIVEKPSDAKAIAKALGGEEYIVIATSGHLLELAKPEDYDPKDKKKQIKNLKKLLKKADEIIIATDPD 70 (100)
T ss_dssp EEEEESSHHHHHHHHHHSSTTTEEEEEESSSSEESTTSSHHHCHTTHHHHHHHHHHHHSCSEEEEEC-SS
T ss_pred CEEEEeCHHHHHHHHHHcCCCCEEEEEeCCcccccccccccccccccccchhhHHHhhhccEeeecCCCC
Confidence 478888889999998888755556666666542 1 223566666656677899999973
No 332
>PRK09087 hypothetical protein; Validated
Probab=38.17 E-value=91 Score=29.78 Aligned_cols=41 Identities=20% Similarity=0.110 Sum_probs=26.2
Q ss_pred ceEEecccccccCCCcHHHHHHHHHHCCC-CccEEEEeeecChh
Q 011428 64 KILVLDEADLLLSYGYEDDLKALSAVIPR-GCQCLLMSATSSSD 106 (486)
Q Consensus 64 ~~lViDEad~ll~~g~~~~l~~i~~~lp~-~~q~il~SATl~~~ 106 (486)
.+|+||++|.+. +-++.+..++..+.. +.++++.|.|.|..
T Consensus 89 ~~l~iDDi~~~~--~~~~~lf~l~n~~~~~g~~ilits~~~p~~ 130 (226)
T PRK09087 89 GPVLIEDIDAGG--FDETGLFHLINSVRQAGTSLLMTSRLWPSS 130 (226)
T ss_pred CeEEEECCCCCC--CCHHHHHHHHHHHHhCCCeEEEECCCChHH
Confidence 589999999873 235667777766654 45555555554443
No 333
>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=37.99 E-value=28 Score=32.64 Aligned_cols=42 Identities=17% Similarity=0.352 Sum_probs=25.1
Q ss_pred CCcceEEecccccccCC-CcHHHHHHHHHHCC-CCccEEEEeeec
Q 011428 61 DSLKILVLDEADLLLSY-GYEDDLKALSAVIP-RGCQCLLMSATS 103 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~-g~~~~l~~i~~~lp-~~~q~il~SATl 103 (486)
...++|||||+|.+... .+...+..++..+. ... .+++|++.
T Consensus 89 ~~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~-~iIits~~ 132 (226)
T TIGR03420 89 EQADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGG-RLLIAGRA 132 (226)
T ss_pred ccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCC-eEEEECCC
Confidence 45579999999998654 23555665555432 233 44555553
No 334
>PRK04841 transcriptional regulator MalT; Provisional
Probab=37.87 E-value=32 Score=39.78 Aligned_cols=43 Identities=14% Similarity=0.207 Sum_probs=36.0
Q ss_pred cceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecCh
Q 011428 63 LKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSS 105 (486)
Q Consensus 63 l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~ 105 (486)
--+||||++|.+-+....+.+..++..+|.+..+++.|-+.|+
T Consensus 122 ~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~ 164 (903)
T PRK04841 122 PLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPP 164 (903)
T ss_pred CEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCC
Confidence 3589999999997666677899999999999999998888554
No 335
>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=37.67 E-value=39 Score=28.27 Aligned_cols=16 Identities=31% Similarity=0.412 Sum_probs=13.6
Q ss_pred cceEEecccccccCCC
Q 011428 63 LKILVLDEADLLLSYG 78 (486)
Q Consensus 63 l~~lViDEad~ll~~g 78 (486)
-.+|+|||+|.+....
T Consensus 59 ~~vl~iDe~d~l~~~~ 74 (132)
T PF00004_consen 59 PCVLFIDEIDKLFPKS 74 (132)
T ss_dssp SEEEEEETGGGTSHHC
T ss_pred ceeeeeccchhccccc
Confidence 5899999999998654
No 336
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=37.34 E-value=68 Score=32.38 Aligned_cols=41 Identities=12% Similarity=0.192 Sum_probs=25.6
Q ss_pred CCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 59 FSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 59 ~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
.....+++|||+||.|-..+ .+.+..+++.-| ...+||+|.
T Consensus 121 ~~~~~kVvII~~ae~m~~~a-aNaLLK~LEEPp-~~~fILi~~ 161 (314)
T PRK07399 121 LEAPRKVVVIEDAETMNEAA-ANALLKTLEEPG-NGTLILIAP 161 (314)
T ss_pred ccCCceEEEEEchhhcCHHH-HHHHHHHHhCCC-CCeEEEEEC
Confidence 34678999999999986443 334444455545 564554443
No 337
>cd01528 RHOD_2 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains.
Probab=37.33 E-value=47 Score=26.83 Aligned_cols=37 Identities=11% Similarity=0.209 Sum_probs=31.3
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCCH
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~~ 200 (486)
..+++|+|++-.++...+..|...|+. +..|.|++..
T Consensus 58 ~~~vv~~c~~g~rs~~~~~~l~~~G~~~v~~l~GG~~~ 95 (101)
T cd01528 58 DKDIVVLCHHGGRSMQVAQWLLRQGFENVYNLQGGIDA 95 (101)
T ss_pred CCeEEEEeCCCchHHHHHHHHHHcCCccEEEecCCHHH
Confidence 568999999988889999999999985 7889998654
No 338
>cd01527 RHOD_YgaP Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases.
Probab=37.15 E-value=43 Score=26.89 Aligned_cols=36 Identities=8% Similarity=0.008 Sum_probs=30.1
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCC-ceeecCCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGI-KSAILNAELP 199 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi-~~~~lhs~l~ 199 (486)
..+++++|++-.++...+..|.+.|+ .+..+.|++.
T Consensus 54 ~~~iv~~c~~g~~s~~~~~~L~~~g~~~v~~l~gG~~ 90 (99)
T cd01527 54 ANAIIFHCRSGMRTQQNAERLAAISAGEAYVLEGGLD 90 (99)
T ss_pred CCcEEEEeCCCchHHHHHHHHHHcCCccEEEeeCCHH
Confidence 46899999998888899999998888 5777888864
No 339
>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=36.58 E-value=41 Score=38.15 Aligned_cols=37 Identities=24% Similarity=0.335 Sum_probs=29.9
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeee
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
..++||||||+.+- ...+..++..+|.+.+++++--+
T Consensus 416 ~~~llIvDEaSMvd----~~~~~~Ll~~~~~~~rlilvGD~ 452 (720)
T TIGR01448 416 DCDLLIVDESSMMD----TWLALSLLAALPDHARLLLVGDT 452 (720)
T ss_pred cCCEEEEeccccCC----HHHHHHHHHhCCCCCEEEEECcc
Confidence 46899999999874 45678888889989999988544
No 340
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=36.29 E-value=55 Score=37.32 Aligned_cols=37 Identities=22% Similarity=0.336 Sum_probs=33.4
Q ss_pred ccccccCccCCccEEEEeCCCCChhhHHHhhhhcccC
Q 011428 255 FGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRA 291 (486)
Q Consensus 255 ~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~ 291 (486)
+.+-+|.|=|||=.++-.....|..+=.|.|||.-|-
T Consensus 491 waLrEGWDNPNVFtIckL~~S~SeiSK~QeVGRGLRL 527 (985)
T COG3587 491 WALREGWDNPNVFTICKLRSSGSEISKLQEVGRGLRL 527 (985)
T ss_pred hHHhhcCCCCCeeEEEEecCCCcchHHHHHhccceee
Confidence 4566899999999999999999999999999999993
No 341
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=36.26 E-value=68 Score=37.45 Aligned_cols=60 Identities=22% Similarity=0.327 Sum_probs=50.6
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC--CCcEEEEcCCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG--LFDYLIATDDT 224 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g--~~~iLIaTd~~ 224 (486)
+-+||..+=+.-.......|...+|+++.|+|+++..+|..+++.+..| .+++|--|++.
T Consensus 305 gitvVISPL~SLm~DQv~~L~~~~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~ 366 (941)
T KOG0351|consen 305 GVTVVISPLISLMQDQVTHLSKKGIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTPEK 366 (941)
T ss_pred CceEEeccHHHHHHHHHHhhhhcCcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCHHH
Confidence 3456666667777777777788899999999999999999999999999 89999888764
No 342
>cd01445 TST_Repeats Thiosulfate sulfurtransferases (TST) contain 2 copies of the Rhodanese Homology Domain. Only the second repeat contains the catalytically active Cys residue. The role of the 1st repeat is uncertain, but believed to be involved in protein interaction. This CD aligns the 1st and 2nd repeats.
Probab=36.25 E-value=65 Score=28.17 Aligned_cols=37 Identities=19% Similarity=0.108 Sum_probs=28.9
Q ss_pred CCeEEEEecC---HHHHHHHHHHHHHcCCc-eeecCCCCCH
Q 011428 164 QKKALIFTNT---IDMAFRLKLFLEKFGIK-SAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns---~~~~~~l~~~L~~~gi~-~~~lhs~l~~ 200 (486)
..++||||++ --.+-++.-.|+.+|+. +.+|+|+++.
T Consensus 95 ~~~vVvY~~~~~~g~~A~r~~~~l~~~G~~~v~ildGG~~~ 135 (138)
T cd01445 95 DKHLIATDGDDLGGFTACHIALAARLCGHPDVAILDGGFFE 135 (138)
T ss_pred CCeEEEECCCCCcchHHHHHHHHHHHcCCCCeEEeCCCHHH
Confidence 4589999986 45667788888999976 7789998753
No 343
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=36.19 E-value=2.6e+02 Score=29.53 Aligned_cols=98 Identities=11% Similarity=0.121 Sum_probs=54.6
Q ss_pred CeeEEEEeCCCC---HHHHHHHHc--CCCcEE-EECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC-cHHHHH
Q 011428 12 QLKVVQLTSSMP---ASDLRAALA--GPPDIV-IATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG-YEDDLK 84 (486)
Q Consensus 12 ~i~v~~l~g~~~---~~~q~~~l~--~~~dIv-V~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g-~~~~l~ 84 (486)
+.+|..++.+.. ...|+.... .+++++ +.+|..+.+.+..- ....+.++|+||-+=+..... ....+.
T Consensus 269 GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~l-----k~~~~~DvVLIDTaGRs~kd~~lm~EL~ 343 (436)
T PRK11889 269 KKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYF-----KEEARVDYILIDTAGKNYRASETVEEMI 343 (436)
T ss_pred CCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHH-----HhccCCCEEEEeCccccCcCHHHHHHHH
Confidence 566777766543 334443331 244444 56888887766531 111258999999987654321 234444
Q ss_pred HHHHHCCCCccEEEEeeecC-hhHHHHHHHh
Q 011428 85 ALSAVIPRGCQCLLMSATSS-SDVDKLKKLI 114 (486)
Q Consensus 85 ~i~~~lp~~~q~il~SATl~-~~v~~l~~~~ 114 (486)
.++....+..-++.+|||.. .++..+...|
T Consensus 344 ~~lk~~~PdevlLVLsATtk~~d~~~i~~~F 374 (436)
T PRK11889 344 ETMGQVEPDYICLTLSASMKSKDMIEIITNF 374 (436)
T ss_pred HHHhhcCCCeEEEEECCccChHHHHHHHHHh
Confidence 44443333434566898765 4556666555
No 344
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=35.28 E-value=95 Score=31.92 Aligned_cols=40 Identities=18% Similarity=0.326 Sum_probs=23.8
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
....+++||||||.+....+. .+...+..-|....+|+.+
T Consensus 117 ~~~~kviIIDEa~~l~~~a~n-aLLk~lEe~~~~~~fIl~t 156 (363)
T PRK14961 117 KSRFKVYLIDEVHMLSRHSFN-ALLKTLEEPPQHIKFILAT 156 (363)
T ss_pred cCCceEEEEEChhhcCHHHHH-HHHHHHhcCCCCeEEEEEc
Confidence 345789999999998643332 2333344444555555543
No 345
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=34.77 E-value=95 Score=29.23 Aligned_cols=64 Identities=14% Similarity=0.147 Sum_probs=35.5
Q ss_pred CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCcc-EEEEeeecCh
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQ-CLLMSATSSS 105 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q-~il~SATl~~ 105 (486)
.+..+++.+...+...+ ......++|||||+|.+-.+. ...+..++........ +++++++.++
T Consensus 69 ~~~~~~~i~~~~~~~~~--------~~~~~~~~liiDdi~~l~~~~-~~~L~~~~~~~~~~~~~~vl~~~~~~~ 133 (227)
T PRK08903 69 GGRNARYLDAASPLLAF--------DFDPEAELYAVDDVERLDDAQ-QIALFNLFNRVRAHGQGALLVAGPAAP 133 (227)
T ss_pred CCCcEEEEehHHhHHHH--------hhcccCCEEEEeChhhcCchH-HHHHHHHHHHHHHcCCcEEEEeCCCCH
Confidence 34556666554443322 123456789999999875433 4445555544433333 4677776543
No 346
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=34.77 E-value=2.5e+02 Score=22.79 Aligned_cols=57 Identities=18% Similarity=0.131 Sum_probs=37.6
Q ss_pred cCCeEEEEec------CHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEE
Q 011428 163 VQKKALIFTN------TIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLI 219 (486)
Q Consensus 163 ~~~k~IIFvn------s~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLI 219 (486)
...+++||.- ..--|.++..+|.+.|+....++=.-....+..+.+......+..++
T Consensus 10 ~~~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~~~tg~~tvP~vf 72 (97)
T TIGR00365 10 KENPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGIKEYSNWPTIPQLY 72 (97)
T ss_pred ccCCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHhCCCCCCEEE
Confidence 3678999974 57788999999999999876665433455555554443333444333
No 347
>PRK08116 hypothetical protein; Validated
Probab=34.75 E-value=68 Score=31.56 Aligned_cols=74 Identities=7% Similarity=0.090 Sum_probs=42.0
Q ss_pred CCCcEEEECcchHHHHHHcCCCC---C-----CcCCCCcceEEecccccc--cCCCcHHHHHHHHHHC-CCCccEEEEee
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQ---S-----KSFSDSLKILVLDEADLL--LSYGYEDDLKALSAVI-PRGCQCLLMSA 101 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~---~-----~~~l~~l~~lViDEad~l--l~~g~~~~l~~i~~~l-p~~~q~il~SA 101 (486)
.+..+++.|...+++.+...... . ...+.+.++|||||.+.. .+|. ...+..|+... ....++|+.|-
T Consensus 141 ~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e~~t~~~-~~~l~~iin~r~~~~~~~IiTsN 219 (268)
T PRK08116 141 KGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLVNADLLILDDLGAERDTEWA-REKVYNIIDSRYRKGLPTIVTTN 219 (268)
T ss_pred cCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhcCCCEEEEecccCCCCCHHH-HHHHHHHHHHHHHCCCCEEEECC
Confidence 46667777766666655422100 0 112567899999999643 2333 34555666543 23466777776
Q ss_pred ecChhH
Q 011428 102 TSSSDV 107 (486)
Q Consensus 102 Tl~~~v 107 (486)
..+.++
T Consensus 220 ~~~~eL 225 (268)
T PRK08116 220 LSLEEL 225 (268)
T ss_pred CCHHHH
Confidence 555554
No 348
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=34.75 E-value=51 Score=26.32 Aligned_cols=42 Identities=26% Similarity=0.337 Sum_probs=29.5
Q ss_pred HHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 181 KLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 181 ~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
+.+|++.|+.+..++..... .+..+++.++.|.++++|.|..
T Consensus 23 a~~L~~~Gi~~~~~~~ki~~-~~~~i~~~i~~g~id~VIn~~~ 64 (90)
T smart00851 23 AKFLREAGLPVKTLHPKVHG-GILAILDLIKNGEIDLVINTLY 64 (90)
T ss_pred HHHHHHCCCcceeccCCCCC-CCHHHHHHhcCCCeEEEEECCC
Confidence 45677889987533333221 2246899999999999999965
No 349
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=34.70 E-value=2.1e+02 Score=29.84 Aligned_cols=95 Identities=15% Similarity=0.101 Sum_probs=52.9
Q ss_pred CeeEEEEeCCCC---HHHHHHHHcC--CCcEE-EECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC-cHHHHH
Q 011428 12 QLKVVQLTSSMP---ASDLRAALAG--PPDIV-IATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG-YEDDLK 84 (486)
Q Consensus 12 ~i~v~~l~g~~~---~~~q~~~l~~--~~dIv-V~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g-~~~~l~ 84 (486)
+.+|..++.+.- ...|...+.+ +.++. +.+|..+...+.. +.+.++|+||+|....... ....+.
T Consensus 206 g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~--------~~~~DlVLIDTaGr~~~~~~~l~el~ 277 (388)
T PRK12723 206 SLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQ--------SKDFDLVLVDTIGKSPKDFMKLAEMK 277 (388)
T ss_pred CCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHH--------hCCCCEEEEcCCCCCccCHHHHHHHH
Confidence 457777776652 2334443333 33333 3455555544432 3568999999999876422 224555
Q ss_pred HHHHHCCCC-ccEEEEeeecCh-hHHHHHHHh
Q 011428 85 ALSAVIPRG-CQCLLMSATSSS-DVDKLKKLI 114 (486)
Q Consensus 85 ~i~~~lp~~-~q~il~SATl~~-~v~~l~~~~ 114 (486)
.++...... --.+.+|||... ++......+
T Consensus 278 ~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~ 309 (388)
T PRK12723 278 ELLNACGRDAEFHLAVSSTTKTSDVKEIFHQF 309 (388)
T ss_pred HHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHh
Confidence 555544333 356778999864 344444444
No 350
>PRK06835 DNA replication protein DnaC; Validated
Probab=34.68 E-value=94 Score=31.65 Aligned_cols=78 Identities=10% Similarity=0.076 Sum_probs=47.0
Q ss_pred HHcCCCcEEEECcchHHHHHHcCCCCC-------CcCCCCcceEEecccccccCCCc-HHHHHHHHHHCCC-CccEEEEe
Q 011428 30 ALAGPPDIVIATPGCMPKCLSTGVLQS-------KSFSDSLKILVLDEADLLLSYGY-EDDLKALSAVIPR-GCQCLLMS 100 (486)
Q Consensus 30 ~l~~~~dIvV~TP~rl~~~l~~~~~~~-------~~~l~~l~~lViDEad~ll~~g~-~~~l~~i~~~lp~-~~q~il~S 100 (486)
++..+..|++.|...+.+.+....+.. ...+.++++||||+........| ...+..|+...-. ..++|+.|
T Consensus 207 l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~~~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTS 286 (329)
T PRK06835 207 LLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLLINCDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIIST 286 (329)
T ss_pred HHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhccCCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEC
Confidence 344678899888888877664321111 13346789999999988754433 3556666665432 45565555
Q ss_pred eecChhH
Q 011428 101 ATSSSDV 107 (486)
Q Consensus 101 ATl~~~v 107 (486)
---+.++
T Consensus 287 Nl~~~el 293 (329)
T PRK06835 287 NLSLEEL 293 (329)
T ss_pred CCCHHHH
Confidence 5444444
No 351
>PRK10536 hypothetical protein; Provisional
Probab=34.51 E-value=51 Score=32.38 Aligned_cols=33 Identities=15% Similarity=0.304 Sum_probs=27.6
Q ss_pred ceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 64 KILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 64 ~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
.+||||||+.+. ...+..++..++.+.+++++.
T Consensus 178 ~~vIvDEaqn~~----~~~~k~~ltR~g~~sk~v~~G 210 (262)
T PRK10536 178 AVVILDEAQNVT----AAQMKMFLTRLGENVTVIVNG 210 (262)
T ss_pred CEEEEechhcCC----HHHHHHHHhhcCCCCEEEEeC
Confidence 799999999874 478899999999888887764
No 352
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=34.44 E-value=1.3e+02 Score=34.96 Aligned_cols=56 Identities=21% Similarity=0.281 Sum_probs=47.0
Q ss_pred CCeEEEEecCH----HHHHHHHHHHHHcC--CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTI----DMAFRLKLFLEKFG--IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~----~~~~~l~~~L~~~g--i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..+.|++-+++ |...++..++..++ +.+..++|+.+.++|. .+..+.-+||+++..
T Consensus 115 ~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~----~~~~~pp~IllTNpd 176 (851)
T COG1205 115 SARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERR----AIIRNPPDILLTNPD 176 (851)
T ss_pred CccEEEEechhhhHhhHHHHHHHHHHhCCCcceeeeecCCCChHHHH----HHHhCCCCEEEeCHH
Confidence 44779999986 67788999998888 8899999999999997 456778899998864
No 353
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=34.38 E-value=86 Score=29.46 Aligned_cols=73 Identities=12% Similarity=0.126 Sum_probs=43.8
Q ss_pred CeeEEEEeCCCCHHHHHHHHc-----CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHH
Q 011428 12 QLKVVQLTSSMPASDLRAALA-----GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKAL 86 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~-----~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i 86 (486)
+.++..+....+.......+. ..+-++|-.+..+.+.+.... ....+++|.||||+.+.. ..-..+..|
T Consensus 32 g~~v~vfkp~iD~R~~~~~V~Sr~G~~~~A~~i~~~~~i~~~i~~~~-----~~~~~~~v~IDEaQF~~~-~~v~~l~~l 105 (201)
T COG1435 32 GMKVLVFKPAIDTRYGVGKVSSRIGLSSEAVVIPSDTDIFDEIAALH-----EKPPVDCVLIDEAQFFDE-ELVYVLNEL 105 (201)
T ss_pred CCeEEEEecccccccccceeeeccCCcccceecCChHHHHHHHHhcc-----cCCCcCEEEEehhHhCCH-HHHHHHHHH
Confidence 566666666665543333332 346677777777888777542 122288999999987532 334455555
Q ss_pred HHHC
Q 011428 87 SAVI 90 (486)
Q Consensus 87 ~~~l 90 (486)
...+
T Consensus 106 ad~l 109 (201)
T COG1435 106 ADRL 109 (201)
T ss_pred Hhhc
Confidence 5543
No 354
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=34.38 E-value=38 Score=36.07 Aligned_cols=74 Identities=9% Similarity=0.017 Sum_probs=43.6
Q ss_pred CCcEEEECcchHHHHHHcC------CCCC-CcCCCCcceEEecccccccCC-CcHHHHHHHHHHCC-CCccEEEEeeecC
Q 011428 34 PPDIVIATPGCMPKCLSTG------VLQS-KSFSDSLKILVLDEADLLLSY-GYEDDLKALSAVIP-RGCQCLLMSATSS 104 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~------~~~~-~~~l~~l~~lViDEad~ll~~-g~~~~l~~i~~~lp-~~~q~il~SATl~ 104 (486)
+..|++.|++.+...+... .+.. ...+.+.++|||||+|.+... ...+.+..++..+. .+.|+|+.|-..|
T Consensus 171 ~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P 250 (450)
T PRK14087 171 DLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSP 250 (450)
T ss_pred CCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCH
Confidence 5677888887766544321 0000 012467889999999988642 23456666666553 3456666665555
Q ss_pred hhH
Q 011428 105 SDV 107 (486)
Q Consensus 105 ~~v 107 (486)
..+
T Consensus 251 ~~l 253 (450)
T PRK14087 251 ELL 253 (450)
T ss_pred HHH
Confidence 444
No 355
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=34.32 E-value=72 Score=32.99 Aligned_cols=41 Identities=20% Similarity=0.284 Sum_probs=25.0
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
.....++||||||.|-... ...+..+++.-|....+|++|.
T Consensus 139 ~~~~kVviIDead~m~~~a-anaLLK~LEepp~~~~~IL~t~ 179 (365)
T PRK07471 139 EGGWRVVIVDTADEMNANA-ANALLKVLEEPPARSLFLLVSH 179 (365)
T ss_pred cCCCEEEEEechHhcCHHH-HHHHHHHHhcCCCCeEEEEEEC
Confidence 4567899999999885433 3344445555554554555443
No 356
>PHA00350 putative assembly protein
Probab=34.23 E-value=46 Score=34.85 Aligned_cols=40 Identities=23% Similarity=0.407 Sum_probs=28.2
Q ss_pred ceEEecccccccCC--Cc---------------------HHHHHHHHHHCCCCccEEEEeeec
Q 011428 64 KILVLDEADLLLSY--GY---------------------EDDLKALSAVIPRGCQCLLMSATS 103 (486)
Q Consensus 64 ~~lViDEad~ll~~--g~---------------------~~~l~~i~~~lp~~~q~il~SATl 103 (486)
.++||||||.++.. +| .+.+..+..+-..+.=++|+|=.+
T Consensus 83 aLIViDEaq~~~p~r~~~~~~~~~~~p~~~~~~~~~~~p~~~i~~l~~HRH~G~DIiliTQ~~ 145 (399)
T PHA00350 83 ALYVIDEAQMIFPKRLGFKMANIFKRPFTDFEPHLPEGPENFLEAFMRHRHYNWDIILLTPNI 145 (399)
T ss_pred CEEEEECchhhcCCCccccccccccccccccccccccCCHHHHHHHHHhcccCceEEEEeCCH
Confidence 59999999999753 22 245566666666678888887654
No 357
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=33.85 E-value=2.9e+02 Score=30.71 Aligned_cols=23 Identities=9% Similarity=-0.058 Sum_probs=19.8
Q ss_pred CCeEEEEecCHHHHHHHHHHHHH
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEK 186 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~ 186 (486)
.+.+.|.|.+-..|..+...|++
T Consensus 655 ~etiaVi~kt~~d~~~~~d~lre 677 (747)
T COG3973 655 SETIAVICKTDHDCKAVMDSLRE 677 (747)
T ss_pred CCceEEECCcHHHHHHHHHHHhh
Confidence 56788999999999999988864
No 358
>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]
Probab=33.70 E-value=47 Score=33.41 Aligned_cols=54 Identities=20% Similarity=0.330 Sum_probs=37.3
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCC-------CccEEEEeeecChhHHHHHHHhcc
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPR-------GCQCLLMSATSSSDVDKLKKLILH 116 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~-------~~q~il~SATl~~~v~~l~~~~l~ 116 (486)
.=.++|+||+|.|-+ |..+.+.-.+.+.|. ..-.|++|.+-..+|..+....++
T Consensus 178 ~rslFIFDE~DKmp~-gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~gg~eI~~~aL~~~~ 238 (344)
T KOG2170|consen 178 QRSLFIFDEVDKLPP-GLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAGGSEIARIALENAR 238 (344)
T ss_pred CCceEEechhhhcCH-hHHHHHhhhhccccccccccccceEEEEEcCCcchHHHHHHHHHHH
Confidence 346899999999863 555666666666552 446788998888887765555443
No 359
>PF12846 AAA_10: AAA-like domain
Probab=33.68 E-value=58 Score=31.62 Aligned_cols=41 Identities=32% Similarity=0.182 Sum_probs=25.2
Q ss_pred CCcceEEecccccccCCC-cHHHHHHHHHHCCCCccEEEEeee
Q 011428 61 DSLKILVLDEADLLLSYG-YEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g-~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
..-.++|+||||.++... ....+..+++... ...+.++-||
T Consensus 219 ~~~~~i~iDEa~~~~~~~~~~~~~~~~~~~~R-k~g~~~~l~t 260 (304)
T PF12846_consen 219 GRPKIIVIDEAHNFLSNPSGAEFLDELLREGR-KYGVGLILAT 260 (304)
T ss_pred CceEEEEeCCccccccccchhhhhhHHHHHHH-hcCCEEEEee
Confidence 445688999999999863 4455555555544 2333344444
No 360
>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=33.39 E-value=47 Score=31.37 Aligned_cols=35 Identities=23% Similarity=0.433 Sum_probs=24.7
Q ss_pred ceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeee
Q 011428 64 KILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 64 ~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
.+||||||.-+. ..+++.++..+..+++++++--.
T Consensus 121 ~~iIvDEaQN~t----~~~~k~ilTR~g~~skii~~GD~ 155 (205)
T PF02562_consen 121 AFIIVDEAQNLT----PEELKMILTRIGEGSKIIITGDP 155 (205)
T ss_dssp EEEEE-SGGG------HHHHHHHHTTB-TT-EEEEEE--
T ss_pred eEEEEecccCCC----HHHHHHHHcccCCCcEEEEecCc
Confidence 799999998864 67899999999999998887643
No 361
>PTZ00424 helicase 45; Provisional
Probab=33.32 E-value=1.6e+02 Score=30.34 Aligned_cols=56 Identities=16% Similarity=0.284 Sum_probs=39.5
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcC----CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFG----IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~g----i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..++||++++++-+..+...+..++ +.+..+.|+.+.... ++.+..+ .+|+|+|..
T Consensus 96 ~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~---~~~~~~~-~~Ivv~Tp~ 155 (401)
T PTZ00424 96 ACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDD---INKLKAG-VHMVVGTPG 155 (401)
T ss_pred CceEEEECCCHHHHHHHHHHHHHHhhhcCceEEEEECCcCHHHH---HHHHcCC-CCEEEECcH
Confidence 5689999999999988888776653 455666677665432 3344444 689999975
No 362
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=33.18 E-value=53 Score=33.78 Aligned_cols=40 Identities=18% Similarity=0.261 Sum_probs=26.1
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
....+++||||||.|-... .+.+..+++.-|...-+|++|
T Consensus 139 ~g~~rVviIDeAd~l~~~a-anaLLk~LEEpp~~~~fiLit 178 (351)
T PRK09112 139 DGNWRIVIIDPADDMNRNA-ANAILKTLEEPPARALFILIS 178 (351)
T ss_pred cCCceEEEEEchhhcCHHH-HHHHHHHHhcCCCCceEEEEE
Confidence 3567899999999986544 344555555555555555554
No 363
>cd01535 4RHOD_Repeat_4 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative catalytic Cys residue.
Probab=33.18 E-value=1e+02 Score=27.18 Aligned_cols=37 Identities=8% Similarity=0.013 Sum_probs=31.7
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCC-ceeecCCCCCH
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGI-KSAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi-~~~~lhs~l~~ 200 (486)
..++||+|.+-..+...+..|...|+ ++.+|.|++..
T Consensus 49 ~~~vVv~c~~g~~a~~aa~~L~~~G~~~v~~L~GG~~a 86 (145)
T cd01535 49 AERYVLTCGSSLLARFAAADLAALTVKPVFVLEGGTAA 86 (145)
T ss_pred CCCEEEEeCCChHHHHHHHHHHHcCCcCeEEecCcHHH
Confidence 56899999998888888889999988 68999999743
No 364
>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=33.08 E-value=85 Score=36.16 Aligned_cols=54 Identities=13% Similarity=0.103 Sum_probs=35.1
Q ss_pred CeEEEEe-cCHHHHHHHHHHHHHc---------------------------CCceeecCCCCCHHHHHHHHHHHhcCCCc
Q 011428 165 KKALIFT-NTIDMAFRLKLFLEKF---------------------------GIKSAILNAELPQNSRLHILEEFNAGLFD 216 (486)
Q Consensus 165 ~k~IIFv-ns~~~~~~l~~~L~~~---------------------------gi~~~~lhs~l~~~~R~~i~~~F~~g~~~ 216 (486)
.+.|||| ++++-+..++..++.. ++.+..+.|+.+.+.... ... ....
T Consensus 62 ~~rLv~~vPtReLa~Qi~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~---~l~-~~p~ 137 (844)
T TIGR02621 62 PRRLVYVVNRRTVVDQVTEEAEKIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWM---LDP-HRPA 137 (844)
T ss_pred cceEEEeCchHHHHHHHHHHHHHHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHHH---hcC-CCCc
Confidence 4567766 8887766666555433 266788899988654322 222 3468
Q ss_pred EEEEcC
Q 011428 217 YLIATD 222 (486)
Q Consensus 217 iLIaTd 222 (486)
|||+|-
T Consensus 138 IIVgT~ 143 (844)
T TIGR02621 138 VIVGTV 143 (844)
T ss_pred EEEECH
Confidence 999993
No 365
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=32.97 E-value=93 Score=31.55 Aligned_cols=41 Identities=20% Similarity=0.149 Sum_probs=26.8
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
....+++|||+||.|...+ .+.+-++++.=|.++.+||.|.
T Consensus 111 ~g~~kV~iI~~ae~m~~~A-aNaLLKtLEEPp~~~~fiL~~~ 151 (319)
T PRK08769 111 YGIAQVVIVDPADAINRAA-CNALLKTLEEPSPGRYLWLISA 151 (319)
T ss_pred cCCcEEEEeccHhhhCHHH-HHHHHHHhhCCCCCCeEEEEEC
Confidence 3567899999999996444 3334445555555666666654
No 366
>PRK13767 ATP-dependent helicase; Provisional
Probab=32.78 E-value=84 Score=36.58 Aligned_cols=55 Identities=18% Similarity=0.187 Sum_probs=41.3
Q ss_pred CeEEEEecCHHHHHHHHHHHHH---------------c-CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEK---------------F-GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~---------------~-gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.++|+++++++-+..+...|.+ . ++.+.+.||+.+..+|...+. ...+|+|+|+.
T Consensus 85 ~~~LyIsPtraLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l~----~~p~IlVtTPE 155 (876)
T PRK13767 85 VYCLYVSPLRALNNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKMLK----KPPHILITTPE 155 (876)
T ss_pred eEEEEEcCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHHh----CCCCEEEecHH
Confidence 3689999999888776654331 1 567889999999988866543 45789999975
No 367
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=32.73 E-value=2.6e+02 Score=28.70 Aligned_cols=49 Identities=12% Similarity=0.201 Sum_probs=38.6
Q ss_pred cCCeEEEEec-CHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhc
Q 011428 163 VQKKALIFTN-TIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNA 212 (486)
Q Consensus 163 ~~~k~IIFvn-s~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~ 212 (486)
...+++|||. +--++..++.+|...|+.+..+.|++..- |..+++.+..
T Consensus 87 ~~~~ivvyC~rgG~RS~~aa~~L~~~G~~v~~L~GG~~aw-r~~~~~~~~~ 136 (345)
T PRK11784 87 ANPRGLLYCWRGGLRSGSVQQWLKEAGIDVPRLEGGYKAY-RRFVIDTLEE 136 (345)
T ss_pred CCCeEEEEECCCChHHHHHHHHHHHcCCCcEEEcCCHHHH-HHhhHHHHhh
Confidence 3568999995 55778889999999999999999998764 5556566653
No 368
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=32.25 E-value=82 Score=23.48 Aligned_cols=34 Identities=26% Similarity=0.191 Sum_probs=21.8
Q ss_pred eEEEEecCHHHHHHHHHHHHHcCCceeecCCCCC
Q 011428 166 KALIFTNTIDMAFRLKLFLEKFGIKSAILNAELP 199 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~ 199 (486)
+.|+.+++.-.+..++..|++.||.+.+.+..++
T Consensus 1 ~~l~~~~~~~ea~~i~~~L~~~gI~~~v~~~~~~ 34 (67)
T PF09413_consen 1 KKLYTAGDPIEAELIKGLLEENGIPAFVKNEHMS 34 (67)
T ss_dssp EEEEEE--HHHHHHHHHHHHHTT--EE--S----
T ss_pred CEEEEcCCHHHHHHHHHHHHhCCCcEEEECCccc
Confidence 4688899999999999999999999988766543
No 369
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=32.14 E-value=68 Score=32.54 Aligned_cols=64 Identities=14% Similarity=0.258 Sum_probs=35.7
Q ss_pred CCcEEEECcc-------hHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 34 PPDIVIATPG-------CMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 34 ~~dIvV~TP~-------rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
.||+.+..|+ .+.+.+..-. .......-+++||||||.|-... .+.+...++.-|....+|+.|
T Consensus 77 hpD~~~i~~~~~~i~id~ir~l~~~~~--~~~~~~~~kvviI~~a~~~~~~a-~NaLLK~LEEPp~~~~~Il~t 147 (329)
T PRK08058 77 HPDVHLVAPDGQSIKKDQIRYLKEEFS--KSGVESNKKVYIIEHADKMTASA-ANSLLKFLEEPSGGTTAILLT 147 (329)
T ss_pred CCCEEEeccccccCCHHHHHHHHHHHh--hCCcccCceEEEeehHhhhCHHH-HHHHHHHhcCCCCCceEEEEe
Confidence 5788888774 2333332111 11244667899999999986433 334444444445455555533
No 370
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=31.93 E-value=74 Score=34.16 Aligned_cols=59 Identities=15% Similarity=0.246 Sum_probs=42.1
Q ss_pred CeEEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHH-HHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSR-LHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R-~~i~~~F~~g~~~iLIaTd~ 223 (486)
=++||.+++.+-+..++..|... |..+|.+.|.-+.+.- .+....-....++|||||+.
T Consensus 216 LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPG 279 (620)
T KOG0350|consen 216 LRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPG 279 (620)
T ss_pred eEEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCch
Confidence 48999999999999999998765 6677888776554332 22222333345799999985
No 371
>PLN02160 thiosulfate sulfurtransferase
Probab=31.89 E-value=1.7e+02 Score=25.35 Aligned_cols=36 Identities=11% Similarity=-0.031 Sum_probs=31.2
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELP 199 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~ 199 (486)
..++|++|.+=.++...+..|...|+. +..|.|++.
T Consensus 81 ~~~IivyC~sG~RS~~Aa~~L~~~G~~~v~~l~GG~~ 117 (136)
T PLN02160 81 ADDILVGCQSGARSLKATTELVAAGYKKVRNKGGGYL 117 (136)
T ss_pred CCcEEEECCCcHHHHHHHHHHHHcCCCCeeecCCcHH
Confidence 568999999999999999999999985 777888864
No 372
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=31.82 E-value=1.1e+02 Score=35.62 Aligned_cols=54 Identities=20% Similarity=0.349 Sum_probs=42.5
Q ss_pred eEEEEecCHHHHHHHHHHHHH----cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 166 KALIFTNTIDMAFRLKLFLEK----FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 166 k~IIFvns~~~~~~l~~~L~~----~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
-+||.|+|++-+..+...+.. .|++++...|+-...+. +.+.+.| ..|+|||..
T Consensus 440 i~li~aPtrela~QI~r~~~kf~k~l~ir~v~vygg~~~~~q---iaelkRg-~eIvV~tpG 497 (997)
T KOG0334|consen 440 IALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGISQQ---IAELKRG-AEIVVCTPG 497 (997)
T ss_pred eEEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecCCccHHHH---HHHHhcC-CceEEeccc
Confidence 468999999999888776654 48888888888776554 5667788 899999974
No 373
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=31.75 E-value=1e+02 Score=36.63 Aligned_cols=74 Identities=11% Similarity=0.165 Sum_probs=50.9
Q ss_pred HHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC-----CCcEEEEcCCC
Q 011428 151 LLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG-----LFDYLIATDDT 224 (486)
Q Consensus 151 ~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g-----~~~iLIaTd~~ 224 (486)
...|..++......|+.||.|+--.-......|-.-..+++.+|||.+...+-..-.+-+-.+ .+++|++|=..
T Consensus 407 i~fl~~l~~~~~~~gpflvvvplst~~~W~~ef~~w~~mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~ 485 (1373)
T KOG0384|consen 407 ITFLSYLFHSLQIHGPFLVVVPLSTITAWEREFETWTDMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEI 485 (1373)
T ss_pred HHHHHHHHHhhhccCCeEEEeehhhhHHHHHHHHHHhhhceeeeecchhHHHHHHHHHheecCCccccccceeehhhHH
Confidence 345555555555689999998755444444444444489999999998877666666666665 58899999653
No 374
>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=31.69 E-value=57 Score=36.05 Aligned_cols=37 Identities=24% Similarity=0.400 Sum_probs=29.7
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeee
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
.+++||||||-.+- ...+..++..+|.+.++|++--.
T Consensus 259 ~~dvlIiDEaSMvd----~~l~~~ll~al~~~~rlIlvGD~ 295 (586)
T TIGR01447 259 PLDVLVVDEASMVD----LPLMAKLLKALPPNTKLILLGDK 295 (586)
T ss_pred cccEEEEcccccCC----HHHHHHHHHhcCCCCEEEEECCh
Confidence 57899999996553 56788899999999999888543
No 375
>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=31.66 E-value=74 Score=30.91 Aligned_cols=45 Identities=24% Similarity=0.374 Sum_probs=24.9
Q ss_pred ceEEecccccccCCC---c-HHHHHHHHHHCCCC-ccEEEEeeecChhHH
Q 011428 64 KILVLDEADLLLSYG---Y-EDDLKALSAVIPRG-CQCLLMSATSSSDVD 108 (486)
Q Consensus 64 ~~lViDEad~ll~~g---~-~~~l~~i~~~lp~~-~q~il~SATl~~~v~ 108 (486)
.+|+|||||.+...+ + .+.+..++..+... ..++++-|+.+.++.
T Consensus 107 ~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~ 156 (261)
T TIGR02881 107 GVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMD 156 (261)
T ss_pred CEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhH
Confidence 589999999987422 2 24556666655432 223333334444443
No 376
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=31.62 E-value=48 Score=26.85 Aligned_cols=43 Identities=23% Similarity=0.400 Sum_probs=27.8
Q ss_pred HHHHHHcCCceeec----CCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 181 KLFLEKFGIKSAIL----NAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 181 ~~~L~~~gi~~~~l----hs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
+.+|++.|+.+..+ +.+-...-+..+++.++.|.++++|.|..
T Consensus 23 a~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~ 69 (95)
T PF02142_consen 23 AKFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPY 69 (95)
T ss_dssp HHHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--
T ss_pred HHHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCC
Confidence 46678899994333 33323344557999999999999999976
No 377
>cd00158 RHOD Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.
Probab=31.41 E-value=80 Score=24.15 Aligned_cols=37 Identities=16% Similarity=0.159 Sum_probs=30.4
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCC-ceeecCCCCC
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGI-KSAILNAELP 199 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi-~~~~lhs~l~ 199 (486)
...++||+|++-..+..++..|.+.|. ++.+|.|++.
T Consensus 49 ~~~~vv~~c~~~~~a~~~~~~l~~~G~~~v~~l~gG~~ 86 (89)
T cd00158 49 KDKPIVVYCRSGNRSARAAKLLRKAGGTNVYNLEGGML 86 (89)
T ss_pred CCCeEEEEeCCCchHHHHHHHHHHhCcccEEEecCChh
Confidence 356899999998899999999999975 5778888764
No 378
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=31.40 E-value=71 Score=34.48 Aligned_cols=47 Identities=26% Similarity=0.343 Sum_probs=35.0
Q ss_pred CCeeEEEEeCCCCHHHHHHHHc----CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEE
Q 011428 11 VQLKVVQLTSSMPASDLRAALA----GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILV 67 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~----~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lV 67 (486)
.+++++.|.||-+.......|. +..+|+||| +...+| ++..++++||
T Consensus 540 ~g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlVaT-----DvAgRG-----IDIpnVSlVi 590 (673)
T KOG0333|consen 540 AGYKVTTLHGGKSQEQRENALADFREGTGDILVAT-----DVAGRG-----IDIPNVSLVI 590 (673)
T ss_pred ccceEEEeeCCccHHHHHHHHHHHHhcCCCEEEEe-----cccccC-----CCCCccceee
Confidence 4799999999988876555553 479999999 344444 7778887776
No 379
>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=31.29 E-value=37 Score=35.46 Aligned_cols=74 Identities=14% Similarity=0.232 Sum_probs=38.4
Q ss_pred CCcEEEECcchHHHHHH----cCCCCC-CcCCCCcceEEecccccccCCC-cHHHHHHHHHHC-CCCccEEEEeeecChh
Q 011428 34 PPDIVIATPGCMPKCLS----TGVLQS-KSFSDSLKILVLDEADLLLSYG-YEDDLKALSAVI-PRGCQCLLMSATSSSD 106 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~----~~~~~~-~~~l~~l~~lViDEad~ll~~g-~~~~l~~i~~~l-p~~~q~il~SATl~~~ 106 (486)
+..++..|...+...+. .+.... ...+.+.++|||||+|.+.... ..+.+..++..+ ..+.++++.|...|.+
T Consensus 166 ~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~ 245 (405)
T TIGR00362 166 NAKVVYVSSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKE 245 (405)
T ss_pred CCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHH
Confidence 45677777665443221 111000 0123457899999999986542 234455555444 2355665544434444
Q ss_pred H
Q 011428 107 V 107 (486)
Q Consensus 107 v 107 (486)
+
T Consensus 246 l 246 (405)
T TIGR00362 246 L 246 (405)
T ss_pred H
Confidence 3
No 380
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=31.25 E-value=43 Score=38.16 Aligned_cols=63 Identities=25% Similarity=0.342 Sum_probs=43.6
Q ss_pred CCeeEEEEeCCCCHHHHHHHHcCCCcEEEECcchH-HHHHHcCCCCC--CcCCCCcceEEeccccccc
Q 011428 11 VQLKVVQLTSSMPASDLRAALAGPPDIVIATPGCM-PKCLSTGVLQS--KSFSDSLKILVLDEADLLL 75 (486)
Q Consensus 11 ~~i~v~~l~g~~~~~~q~~~l~~~~dIvV~TP~rl-~~~l~~~~~~~--~~~l~~l~~lViDEad~ll 75 (486)
+|++|.....+++..+++... .+||..+|-..+ .+.|+.+.... ......+.+-|+||+|-|+
T Consensus 148 LGlsvG~~~~~m~~~ek~~aY--~~DItY~TnnElGFDYLRDNm~~~~ee~vqr~~~faIvDEvDSIL 213 (822)
T COG0653 148 LGLSVGVILAGMSPEEKRAAY--ACDITYGTNNELGFDYLRDNMVTSQEEKVQRGLNFAIVDEVDSIL 213 (822)
T ss_pred cCCceeeccCCCChHHHHHHH--hcCceeccccccCcchhhhhhhccHHHhhhccCCeEEEcchhhee
Confidence 578898888888887777655 689999998865 23333322111 1233468899999999865
No 381
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=31.24 E-value=77 Score=32.25 Aligned_cols=66 Identities=14% Similarity=0.135 Sum_probs=36.0
Q ss_pred CCCcEEEECcc---------hHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeee
Q 011428 33 GPPDIVIATPG---------CMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 33 ~~~dIvV~TP~---------rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
..||+.+-.|+ .+.++...-. ........+++||||||.|-... .+.+-..++.-|.+.-+| +.++
T Consensus 70 ~HPD~~~i~~~~~~~~i~id~iR~l~~~~~--~~~~~~~~kv~iI~~a~~m~~~a-aNaLLK~LEEPp~~~~fi-L~t~ 144 (328)
T PRK05707 70 SHPDNFVLEPEEADKTIKVDQVRELVSFVV--QTAQLGGRKVVLIEPAEAMNRNA-ANALLKSLEEPSGDTVLL-LISH 144 (328)
T ss_pred CCCCEEEEeccCCCCCCCHHHHHHHHHHHh--hccccCCCeEEEECChhhCCHHH-HHHHHHHHhCCCCCeEEE-EEEC
Confidence 46898887774 2222222111 11334668899999999987544 233333444444444444 4444
No 382
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=31.17 E-value=49 Score=37.46 Aligned_cols=39 Identities=23% Similarity=0.346 Sum_probs=29.3
Q ss_pred ceEEecccccccC---C-C-----cHHHHHHHHHHCCCCccEEEEeeec
Q 011428 64 KILVLDEADLLLS---Y-G-----YEDDLKALSAVIPRGCQCLLMSATS 103 (486)
Q Consensus 64 ~~lViDEad~ll~---~-g-----~~~~l~~i~~~lp~~~q~il~SATl 103 (486)
.++|+||||..-. . | ....+..+...|| +..++..|||=
T Consensus 407 GvIvfDECHkAKNL~p~~~~k~TKtG~tVLdLQk~LP-~ARVVYASATG 454 (1300)
T KOG1513|consen 407 GVIVFDECHKAKNLVPTAGAKSTKTGKTVLDLQKKLP-NARVVYASATG 454 (1300)
T ss_pred eeEEehhhhhhcccccccCCCcCcccHhHHHHHHhCC-CceEEEeeccC
Confidence 5799999998533 1 1 3456777778888 78899999993
No 383
>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]
Probab=31.09 E-value=33 Score=34.23 Aligned_cols=38 Identities=18% Similarity=0.368 Sum_probs=24.4
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
.+.++++++|||+.|.-.+ .+.++.+....+ +.+.++.
T Consensus 163 ~~~~~~iivDEA~~L~~~a-le~lr~i~d~~G---i~~vLvG 200 (297)
T COG2842 163 RDTVRLIIVDEADRLPYRA-LEELRRIHDKTG---IGVVLVG 200 (297)
T ss_pred ccCcceeeeehhhccChHH-HHHHHHHHHhhC---ceEEEec
Confidence 5778999999999986544 244555555544 3444444
No 384
>PF15586 Imm47: Immunity protein 47
Probab=30.80 E-value=43 Score=28.62 Aligned_cols=36 Identities=17% Similarity=0.156 Sum_probs=25.9
Q ss_pred CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccccc
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADL 73 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ 73 (486)
+..+|.|+||..|..+..... .+-.=.+||++|.+.
T Consensus 43 d~F~v~VcTP~wL~~~~~~~~-----~~~gr~~LIv~~yd~ 78 (116)
T PF15586_consen 43 DYFQVFVCTPKWLSKNCWKPG-----ILWGRHMLIVEEYDY 78 (116)
T ss_pred ceEEEEEEcHHHHHHhhcCCc-----ceeccceEEEecCCH
Confidence 468899999999988776542 122335788888763
No 385
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=30.74 E-value=40 Score=38.39 Aligned_cols=45 Identities=18% Similarity=0.149 Sum_probs=31.6
Q ss_pred HHHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC
Q 011428 29 AALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS 76 (486)
Q Consensus 29 ~~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~ 76 (486)
+.|.+.+|||++-..-|++-.-++. ..+++.+ .+||+||||-|-+
T Consensus 217 R~l~edAdIIF~PYnYLiDp~iR~~--~~v~Lkn-sIVIfDEAHNiEd 261 (945)
T KOG1132|consen 217 RELKEDADIIFCPYNYLIDPKIRRS--HKVDLKN-SIVIFDEAHNIED 261 (945)
T ss_pred hhhcccCcEEEechhhhcCHhhhcc--ccccccc-cEEEEeccccHHH
Confidence 4567799999999887777555443 1233332 4899999999864
No 386
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.57 E-value=58 Score=35.10 Aligned_cols=63 Identities=16% Similarity=0.258 Sum_probs=33.3
Q ss_pred CCcEEEECcc------hHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEE
Q 011428 34 PPDIVIATPG------CMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLM 99 (486)
Q Consensus 34 ~~dIvV~TP~------rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~ 99 (486)
.||++...++ .+.+.+..-. ........+++||||+|.|....+ +.+...++.-|+...+|+.
T Consensus 84 ~~Dv~eidaas~~~vddIR~Iie~~~--~~P~~~~~KVvIIDEah~Ls~~A~-NaLLK~LEePp~~v~fIla 152 (491)
T PRK14964 84 HPDVIEIDAASNTSVDDIKVILENSC--YLPISSKFKVYIIDEVHMLSNSAF-NALLKTLEEPAPHVKFILA 152 (491)
T ss_pred CCCEEEEecccCCCHHHHHHHHHHHH--hccccCCceEEEEeChHhCCHHHH-HHHHHHHhCCCCCeEEEEE
Confidence 5777765553 2333333211 113346789999999998865333 2333334444444444443
No 387
>cd01448 TST_Repeat_1 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it is believed to be involved in protein interaction.
Probab=30.32 E-value=67 Score=26.90 Aligned_cols=37 Identities=19% Similarity=0.258 Sum_probs=30.5
Q ss_pred CCeEEEEecC-HHHHHHHHHHHHHcCCc-eeecCCCCCH
Q 011428 164 QKKALIFTNT-IDMAFRLKLFLEKFGIK-SAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns-~~~~~~l~~~L~~~gi~-~~~lhs~l~~ 200 (486)
..++|+||++ -..+...+..|...|+. +..|.|++..
T Consensus 79 ~~~vv~~c~~g~~~a~~~~~~l~~~G~~~v~~l~GG~~~ 117 (122)
T cd01448 79 DDTVVVYDDGGGFFAARAWWTLRYFGHENVRVLDGGLQA 117 (122)
T ss_pred CCEEEEECCCCCccHHHHHHHHHHcCCCCEEEecCCHHH
Confidence 5678999988 58888888999999976 8888888743
No 388
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=30.17 E-value=35 Score=38.09 Aligned_cols=38 Identities=21% Similarity=0.336 Sum_probs=23.2
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEE
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLM 99 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~ 99 (486)
...+++||||||.|....+.. +..+++.-|..+.+|+.
T Consensus 118 g~~KV~IIDEah~Ls~~a~NA-LLKtLEEPp~~v~FIL~ 155 (647)
T PRK07994 118 GRFKVYLIDEVHMLSRHSFNA-LLKTLEEPPEHVKFLLA 155 (647)
T ss_pred CCCEEEEEechHhCCHHHHHH-HHHHHHcCCCCeEEEEe
Confidence 467899999999987554333 33344444444444443
No 389
>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=30.13 E-value=53 Score=27.40 Aligned_cols=30 Identities=20% Similarity=0.218 Sum_probs=18.1
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHC
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVI 90 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~l 90 (486)
.....+||+||+|.+... ....+..++..+
T Consensus 82 ~~~~~~lilDe~~~~~~~-~~~~~~~~i~~~ 111 (151)
T cd00009 82 KAKPGVLFIDEIDSLSRG-AQNALLRVLETL 111 (151)
T ss_pred cCCCeEEEEeChhhhhHH-HHHHHHHHHHhc
Confidence 355789999999987322 233444444443
No 390
>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=30.12 E-value=31 Score=32.78 Aligned_cols=75 Identities=19% Similarity=0.245 Sum_probs=46.1
Q ss_pred CCCcEEEECcchHHHHH----HcCCCCC-CcCCCCcceEEecccccccCC-CcHHHHHHHHHHCC-CCccEEEEeeecCh
Q 011428 33 GPPDIVIATPGCMPKCL----STGVLQS-KSFSDSLKILVLDEADLLLSY-GYEDDLKALSAVIP-RGCQCLLMSATSSS 105 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l----~~~~~~~-~~~l~~l~~lViDEad~ll~~-g~~~~l~~i~~~lp-~~~q~il~SATl~~ 105 (486)
.+..|+..|...+...+ ..+.... ...+...++|+||..|.+... .+++.+-.++..+. .+.|+|+.|...|.
T Consensus 63 ~~~~v~y~~~~~f~~~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~ 142 (219)
T PF00308_consen 63 PGKRVVYLSAEEFIREFADALRDGEIEEFKDRLRSADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPS 142 (219)
T ss_dssp TTS-EEEEEHHHHHHHHHHHHHTTSHHHHHHHHCTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TT
T ss_pred ccccceeecHHHHHHHHHHHHHcccchhhhhhhhcCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCc
Confidence 45678888877765433 2221100 023568999999999998653 24556666666543 46688877777777
Q ss_pred hH
Q 011428 106 DV 107 (486)
Q Consensus 106 ~v 107 (486)
++
T Consensus 143 ~l 144 (219)
T PF00308_consen 143 EL 144 (219)
T ss_dssp TT
T ss_pred cc
Confidence 65
No 391
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=30.07 E-value=46 Score=36.30 Aligned_cols=41 Identities=20% Similarity=0.229 Sum_probs=26.8
Q ss_pred CCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 59 FSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 59 ~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
.....+++||||||.|.... .+.+...+..-|..+.+|+++
T Consensus 114 ~~~~~KVvIIDEad~Lt~~A-~NALLK~LEEpp~~t~FIL~t 154 (535)
T PRK08451 114 SMARFKIFIIDEVHMLTKEA-FNALLKTLEEPPSYVKFILAT 154 (535)
T ss_pred ccCCeEEEEEECcccCCHHH-HHHHHHHHhhcCCceEEEEEE
Confidence 34678899999999986543 234444445556666666654
No 392
>PF13304 AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T_B 3QKT_A 1II8_B 3QKR_B 3QKU_A.
Probab=29.88 E-value=44 Score=30.94 Aligned_cols=37 Identities=22% Similarity=0.381 Sum_probs=29.0
Q ss_pred ceEEecccccccCCCcHHHHHHHHHHCCC-CccEEEEe
Q 011428 64 KILVLDEADLLLSYGYEDDLKALSAVIPR-GCQCLLMS 100 (486)
Q Consensus 64 ~~lViDEad~ll~~g~~~~l~~i~~~lp~-~~q~il~S 100 (486)
.+++|||.+.-+...+...+-.++..+.. +.|+|+.|
T Consensus 259 ~illiDEpE~~LHp~~q~~l~~~l~~~~~~~~QviitT 296 (303)
T PF13304_consen 259 SILLIDEPENHLHPSWQRKLIELLKELSKKNIQVIITT 296 (303)
T ss_dssp SEEEEESSSTTSSHHHHHHHHHHHHHTGGGSSEEEEEE
T ss_pred eEEEecCCcCCCCHHHHHHHHHHHHhhCccCCEEEEeC
Confidence 78999999998877766666677766655 78998765
No 393
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=29.84 E-value=2.8e+02 Score=31.19 Aligned_cols=80 Identities=9% Similarity=0.070 Sum_probs=55.0
Q ss_pred EEEcchhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHc-CCc-eeec-------------------------
Q 011428 142 WISCSERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKF-GIK-SAIL------------------------- 194 (486)
Q Consensus 142 ~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~-gi~-~~~l------------------------- 194 (486)
..-+....|...+..++... +.++||.+++...|..|+..|..+ +-+ +..+
T Consensus 34 l~Gvtgs~kt~~~a~~~~~~--~~p~Lvi~~n~~~A~ql~~el~~f~p~~~V~~f~sy~d~y~pe~y~P~~d~~~~k~~~ 111 (655)
T TIGR00631 34 LLGVTGSGKTFTMANVIAQV--NRPTLVIAHNKTLAAQLYNEFKEFFPENAVEYFVSYYDYYQPEAYVPSKDTYIEKDAS 111 (655)
T ss_pred EECCCCcHHHHHHHHHHHHh--CCCEEEEECCHHHHHHHHHHHHHhCCCCeEEEEeeecccCCccccCCCccccccccCC
Confidence 34445666777777776542 578999999999999999999887 223 3322
Q ss_pred CCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 195 NAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 195 hs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.+.--...|..++..+..+.-.|+|||-.
T Consensus 112 ~~~~i~~~R~~al~~L~~~~~~ivVasv~ 140 (655)
T TIGR00631 112 INDEIERLRHSATRSLLERRDVIVVASVS 140 (655)
T ss_pred CChHHHHHHHHHHHHHHhCCCeEEEEcHH
Confidence 11112456888888888877667777743
No 394
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=29.77 E-value=44 Score=36.85 Aligned_cols=43 Identities=19% Similarity=0.399 Sum_probs=26.2
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecC
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSS 104 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~ 104 (486)
....+++||||||.|...++ +.+...+..-|...-+|+.+ |-+
T Consensus 116 ~~~~KVvIIDEah~Lt~~A~-NALLK~LEEpp~~~~fIL~t-te~ 158 (584)
T PRK14952 116 QSRYRIFIVDEAHMVTTAGF-NALLKIVEEPPEHLIFIFAT-TEP 158 (584)
T ss_pred cCCceEEEEECCCcCCHHHH-HHHHHHHhcCCCCeEEEEEe-CCh
Confidence 45678999999999975443 33344444445455455444 433
No 395
>PF00581 Rhodanese: Rhodanese-like domain This Prosite entry represents a subset of this family.; InterPro: IPR001763 Rhodanese, a sulphurtransferase involved in cyanide detoxification (see IPR001307 from INTERPRO) shares evolutionary relationship with a large family of proteins [], including Cdc25 phosphatase catalytic domain. non-catalytic domains of eukaryotic dual-specificity MAPK-phosphatases. non-catalytic domains of yeast PTP-type MAPK-phosphatases. non-catalytic domains of yeast Ubp4, Ubp5, Ubp7. non-catalytic domains of mammalian Ubp-Y. Drosophila heat shock protein HSP-67BB. several bacterial cold-shock and phage shock proteins. plant senescence associated proteins. catalytic and non-catalytic domains of rhodanese (see IPR001307 from INTERPRO). Rhodanese has an internal duplication. This domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases [].; PDB: 2J6P_D 2FSX_A 1UAR_A 1OKG_A 1GMX_A 1GN0_A 3NTD_B 3NTA_B 3NT6_A 1C25_A ....
Probab=29.75 E-value=94 Score=25.04 Aligned_cols=37 Identities=16% Similarity=0.179 Sum_probs=25.4
Q ss_pred CCeEEEEecCHHHHHHHHHH-----HHHcCC-ceeecCCCCCH
Q 011428 164 QKKALIFTNTIDMAFRLKLF-----LEKFGI-KSAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~-----L~~~gi-~~~~lhs~l~~ 200 (486)
...+|+||++-..+...... |...|+ ++.+|.|++..
T Consensus 67 ~~~iv~yc~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~GG~~~ 109 (113)
T PF00581_consen 67 DKDIVFYCSSGWRSGSAAAARVAWILKKLGFKNVYILDGGFEA 109 (113)
T ss_dssp TSEEEEEESSSCHHHHHHHHHHHHHHHHTTTSSEEEETTHHHH
T ss_pred cccceeeeecccccchhHHHHHHHHHHHcCCCCEEEecChHHH
Confidence 34688889555554444444 888898 89999998643
No 396
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=29.58 E-value=4.4e+02 Score=24.14 Aligned_cols=70 Identities=16% Similarity=0.033 Sum_probs=49.3
Q ss_pred HHHHHHHHhhccCCeEEEEe-cCHHHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEc
Q 011428 152 LYILTLLKLELVQKKALIFT-NTIDMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEFNAGLFDYLIAT 221 (486)
Q Consensus 152 ~~l~~llk~~~~~~k~IIFv-ns~~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaT 221 (486)
+++..++......+..+.|+ .+.+.+..++..|++. ++.+...||.+..++...++++.+....++|+..
T Consensus 35 dl~~~l~~~~~~~~~~vfllG~~~~v~~~~~~~l~~~yP~l~i~g~~g~f~~~~~~~i~~~I~~s~~dil~Vg 107 (177)
T TIGR00696 35 DLMEELCQRAGKEKLPIFLYGGKPDVLQQLKVKLIKEYPKLKIVGAFGPLEPEERKAALAKIARSGAGIVFVG 107 (177)
T ss_pred HHHHHHHHHHHHcCCeEEEECCCHHHHHHHHHHHHHHCCCCEEEEECCCCChHHHHHHHHHHHHcCCCEEEEE
Confidence 44445554433345445555 5566778888888765 6666666999988888899999999888987765
No 397
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=29.53 E-value=2.4e+02 Score=22.35 Aligned_cols=57 Identities=14% Similarity=0.204 Sum_probs=37.5
Q ss_pred CCeEEEEec------CHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEE
Q 011428 164 QKKALIFTN------TIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIA 220 (486)
Q Consensus 164 ~~k~IIFvn------s~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIa 220 (486)
..+++||+. ....|.++..+|...|+....++=......+..+.+.-....+..++-
T Consensus 7 ~~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~~~g~~tvP~vfi 69 (90)
T cd03028 7 ENPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDILEDEEVRQGLKEYSNWPTFPQLYV 69 (90)
T ss_pred cCCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHHHhCCCCCCEEEE
Confidence 578999976 567899999999999998777764444444444444322223444443
No 398
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=29.33 E-value=36 Score=36.11 Aligned_cols=75 Identities=15% Similarity=0.236 Sum_probs=40.0
Q ss_pred CCcEEEECcchHHHHH----HcCCCCC-CcCCCCcceEEecccccccCCC-cHHHHHHHHHHCC-CCccEEEEeeecChh
Q 011428 34 PPDIVIATPGCMPKCL----STGVLQS-KSFSDSLKILVLDEADLLLSYG-YEDDLKALSAVIP-RGCQCLLMSATSSSD 106 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l----~~~~~~~-~~~l~~l~~lViDEad~ll~~g-~~~~l~~i~~~lp-~~~q~il~SATl~~~ 106 (486)
+..++..|...+...+ ..+.... ...+.+.++|||||+|.+.... ..+.+..++..+- .+.++++.|.+.|.+
T Consensus 178 ~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~ 257 (450)
T PRK00149 178 NAKVVYVTSEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKE 257 (450)
T ss_pred CCeEEEEEHHHHHHHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHH
Confidence 4567777766554322 2111000 0123468899999999986432 2345555554443 345666555555555
Q ss_pred HH
Q 011428 107 VD 108 (486)
Q Consensus 107 v~ 108 (486)
+.
T Consensus 258 l~ 259 (450)
T PRK00149 258 LP 259 (450)
T ss_pred HH
Confidence 44
No 399
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=29.21 E-value=4.5e+02 Score=25.93 Aligned_cols=98 Identities=11% Similarity=0.104 Sum_probs=53.1
Q ss_pred CeeEEEEeCCCC---HHHHHHHHc--CCCcEEE-ECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCC-CcHHHHH
Q 011428 12 QLKVVQLTSSMP---ASDLRAALA--GPPDIVI-ATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSY-GYEDDLK 84 (486)
Q Consensus 12 ~i~v~~l~g~~~---~~~q~~~l~--~~~dIvV-~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~-g~~~~l~ 84 (486)
+.++..++.+.. ...|+.... .++++.. .+|..+.+.+..- ......++++||-+=..... .....+.
T Consensus 103 ~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l-----~~~~~~D~ViIDt~Gr~~~~~~~l~el~ 177 (270)
T PRK06731 103 KKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYF-----KEEARVDYILIDTAGKNYRASETVEEMI 177 (270)
T ss_pred CCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHH-----HhcCCCCEEEEECCCCCcCCHHHHHHHH
Confidence 345555554332 333443332 2455554 5676666655421 11245899999999665322 2234444
Q ss_pred HHHHHCCCCccEEEEeeecC-hhHHHHHHHh
Q 011428 85 ALSAVIPRGCQCLLMSATSS-SDVDKLKKLI 114 (486)
Q Consensus 85 ~i~~~lp~~~q~il~SATl~-~~v~~l~~~~ 114 (486)
.++....+..-++.+|||.. .++......|
T Consensus 178 ~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f 208 (270)
T PRK06731 178 ETMGQVEPDYICLTLSASMKSKDMIEIITNF 208 (270)
T ss_pred HHHhhhCCCeEEEEEcCccCHHHHHHHHHHh
Confidence 55544444444667899875 4666666665
No 400
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=29.06 E-value=36 Score=37.77 Aligned_cols=44 Identities=16% Similarity=0.312 Sum_probs=25.0
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecCh
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSS 105 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~ 105 (486)
....+++||||+|.|....|.. +...++.-|....+|| .+|-+.
T Consensus 122 ~g~~KV~IIDEvh~Ls~~a~Na-LLKtLEEPP~~~~fIL-~Ttd~~ 165 (618)
T PRK14951 122 QGRFKVFMIDEVHMLTNTAFNA-MLKTLEEPPEYLKFVL-ATTDPQ 165 (618)
T ss_pred cCCceEEEEEChhhCCHHHHHH-HHHhcccCCCCeEEEE-EECCch
Confidence 3567899999999987544332 2333333344444444 335433
No 401
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=28.93 E-value=83 Score=31.44 Aligned_cols=66 Identities=9% Similarity=0.188 Sum_probs=35.7
Q ss_pred CCCcEEEECcch-------HHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 33 GPPDIVIATPGC-------MPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 33 ~~~dIvV~TP~r-------l~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
..||+.+-.|.. +.++...-. ........+++|||+||.|.... .+.+-..++.=|.+.-+||+|.
T Consensus 70 ~HPD~~~i~p~~~~I~idqIR~l~~~~~--~~p~~~~~kV~II~~ad~m~~~A-aNaLLKtLEEPp~~t~~iL~t~ 142 (290)
T PRK07276 70 EFSDVTVIEPQGQVIKTDTIRELVKNFS--QSGYEGKQQVFIIKDADKMHVNA-ANSLLKVIEEPQSEIYIFLLTN 142 (290)
T ss_pred CCCCeeeecCCCCcCCHHHHHHHHHHHh--hCcccCCcEEEEeehhhhcCHHH-HHHHHHHhcCCCCCeEEEEEEC
Confidence 469999888852 222222111 11334567899999999996433 2233333333333444444443
No 402
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=28.69 E-value=1e+02 Score=28.91 Aligned_cols=70 Identities=23% Similarity=0.248 Sum_probs=51.1
Q ss_pred HHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCce---eecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 152 LYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKS---AILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 152 ~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~---~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..|...+......+++++++.... -..|...|++.|+.+ .+|.. .+........+.|..+.+++++-|+.
T Consensus 105 ~~L~~~l~~~~~~~~vl~~~g~~~-~~~l~~~L~~~g~~v~~~~vY~~-~~~~~~~~~~~~l~~~~~~~v~ftS~ 177 (231)
T PF02602_consen 105 EGLAELLKEQLRGKRVLILRGEGG-RPDLPEKLREAGIEVTEVIVYET-PPEELSPELKEALDRGEIDAVVFTSP 177 (231)
T ss_dssp HHHHGGHHHCCTTEEEEEEESSSS-CHHHHHHHHHTTEEEEEEECEEE-EEHHHHHHHHHHHHHTTTSEEEESSH
T ss_pred HHHHHHHHhhCCCCeEEEEcCCCc-cHHHHHHHHHCCCeEEEEEEeec-ccccchHHHHHHHHcCCCCEEEECCH
Confidence 344555555555566777666544 445888899998654 55666 77888999999999999999998865
No 403
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=28.28 E-value=1e+02 Score=36.72 Aligned_cols=99 Identities=19% Similarity=0.180 Sum_probs=67.6
Q ss_pred HHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEE-EEcCCCCccccccCCCCC
Q 011428 158 LKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYL-IATDDTQTKEKDQSDEGG 236 (486)
Q Consensus 158 lk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iL-IaTd~~~~~~~~~~~~~~ 236 (486)
++......++|+|+.-.+.-..+.+.+.-.+|.... -++ -++-...+..|.+ ++++ +-+..
T Consensus 1215 iK~k~~qekvIvfsqws~~ldV~e~~~~~N~I~~~~-~~~--t~d~~dc~~~fk~--I~clll~~~~------------- 1276 (1394)
T KOG0298|consen 1215 IKFKNEQEKVIVFSQWSVVLDVKELRYLMNLIKKQL-DGE--TEDFDDCIICFKS--IDCLLLFVSK------------- 1276 (1394)
T ss_pred HhccCcCceEEEEEehHHHHHHHHHHHHhhhhHhhh-ccC--Ccchhhhhhhccc--ceEEEEEecc-------------
Confidence 444445679999998777777777766666665432 222 1222334455555 4432 22222
Q ss_pred CcccccccCCCCCcccccccccccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCC
Q 011428 237 HVDSRKSKKHPKAKLDSEFGVVRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNT 294 (486)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~gvsrGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~ 294 (486)
-+-|+++-+..+|+..++-.++..-.|-+||.-|.|+.
T Consensus 1277 --------------------~~~GLNL~eA~Hvfl~ePiLN~~~E~QAigRvhRiGQ~ 1314 (1394)
T KOG0298|consen 1277 --------------------GSKGLNLIEATHVFLVEPILNPGDEAQAIGRVHRIGQK 1314 (1394)
T ss_pred --------------------CcccccHHhhhhhheeccccCchHHHhhhhhhhhcccc
Confidence 14599999999999999999999999999999999974
No 404
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=28.27 E-value=89 Score=37.60 Aligned_cols=70 Identities=23% Similarity=0.259 Sum_probs=50.2
Q ss_pred HcCCCcEEEECcchHHHHHH---cCC--C------CCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEE
Q 011428 31 LAGPPDIVIATPGCMPKCLS---TGV--L------QSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLM 99 (486)
Q Consensus 31 l~~~~dIvV~TP~rl~~~l~---~~~--~------~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~ 99 (486)
|..+..|.|..|+.-+..+. .|. + .........-+.|+||+|--+|.....-+..++..+..+.|+|+.
T Consensus 1046 l~~Giei~a~ppgK~~~~l~~LSGGEKsLtAlAllFAi~~~~PaPf~vLDEVDAaLD~~Nv~r~~~~i~e~s~~sQFIvI 1125 (1163)
T COG1196 1046 LTAGIEISARPPGKKLQSLSLLSGGEKSLTALALLFAIQKYRPAPFYVLDEVDAALDDANVERVARLIKEMSKETQFIVI 1125 (1163)
T ss_pred hhcCcEEEEECCCCCccchhhcCCcHHHHHHHHHHHHHHhhCCCCeeeeccchhhccHHHHHHHHHHHHHhCcCCeEEEE
Confidence 55688999999997554322 111 0 001223445689999999999988788888888888899999998
Q ss_pred e
Q 011428 100 S 100 (486)
Q Consensus 100 S 100 (486)
|
T Consensus 1126 T 1126 (1163)
T COG1196 1126 T 1126 (1163)
T ss_pred E
Confidence 7
No 405
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=28.07 E-value=4e+02 Score=27.66 Aligned_cols=74 Identities=18% Similarity=0.227 Sum_probs=39.8
Q ss_pred CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC-cHHHHHHHHHHCCCCccEEEEeeecChhH-HHH
Q 011428 33 GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG-YEDDLKALSAVIPRGCQCLLMSATSSSDV-DKL 110 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g-~~~~l~~i~~~lp~~~q~il~SATl~~~v-~~l 110 (486)
+-|-..+.+++.+...+.. +.+.++|+||++-...-.. ..+.+..+.........++++|||...+. ...
T Consensus 194 gv~~~~~~~~~~l~~~l~~--------l~~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~ev 265 (374)
T PRK14722 194 GVPVHAVKDGGDLQLALAE--------LRNKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEV 265 (374)
T ss_pred CCceEecCCcccHHHHHHH--------hcCCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHH
Confidence 3444456666666554442 3456899999996542211 22333333222222344777899985543 445
Q ss_pred HHHh
Q 011428 111 KKLI 114 (486)
Q Consensus 111 ~~~~ 114 (486)
...|
T Consensus 266 i~~f 269 (374)
T PRK14722 266 VQAY 269 (374)
T ss_pred HHHH
Confidence 5544
No 406
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=28.04 E-value=37 Score=36.42 Aligned_cols=19 Identities=21% Similarity=0.544 Sum_probs=14.5
Q ss_pred CCcceEEecccccccCCCc
Q 011428 61 DSLKILVLDEADLLLSYGY 79 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~ 79 (486)
...+++||||||.|....+
T Consensus 120 g~~KV~IIDEah~Ls~~A~ 138 (484)
T PRK14956 120 GKYKVYIIDEVHMLTDQSF 138 (484)
T ss_pred CCCEEEEEechhhcCHHHH
Confidence 3567999999998865443
No 407
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=27.98 E-value=67 Score=37.50 Aligned_cols=37 Identities=19% Similarity=0.275 Sum_probs=0.0
Q ss_pred eEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecCh
Q 011428 65 ILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSS 105 (486)
Q Consensus 65 ~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~ 105 (486)
+|||||+|.+-.. ......|...-|.. ++.+|||.+.
T Consensus 204 ivIiDEPh~~~~~--~k~~~~i~~lnpl~--~lrysAT~~~ 240 (986)
T PRK15483 204 VVIIDEPHRFPRD--NKFYQAIEALKPQM--IIRFGATFPD 240 (986)
T ss_pred EEEEECCCCCCcc--hHHHHHHHhcCccc--EEEEeeecCC
No 408
>PRK07952 DNA replication protein DnaC; Validated
Probab=27.74 E-value=99 Score=30.04 Aligned_cols=76 Identities=12% Similarity=0.123 Sum_probs=45.5
Q ss_pred cCCCcEEEECcchHHHHHHcCCCCC-------CcCCCCcceEEecccccccCCCcH-HHHHHHHHHCC-CCccEEEEeee
Q 011428 32 AGPPDIVIATPGCMPKCLSTGVLQS-------KSFSDSLKILVLDEADLLLSYGYE-DDLKALSAVIP-RGCQCLLMSAT 102 (486)
Q Consensus 32 ~~~~dIvV~TP~rl~~~l~~~~~~~-------~~~l~~l~~lViDEad~ll~~g~~-~~l~~i~~~lp-~~~q~il~SAT 102 (486)
..+..+++.|-..+...+....... ...+.++++|||||++......|. ..+..|+..-. ....+|+.|--
T Consensus 125 ~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl 204 (244)
T PRK07952 125 LRGKSVLIITVADIMSAMKDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS 204 (244)
T ss_pred hcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHHhccCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence 3577888888777776554321000 112567899999999987654444 34556666433 35667776654
Q ss_pred cChhH
Q 011428 103 SSSDV 107 (486)
Q Consensus 103 l~~~v 107 (486)
-+.++
T Consensus 205 ~~~~l 209 (244)
T PRK07952 205 NMEEM 209 (244)
T ss_pred CHHHH
Confidence 44443
No 409
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=27.72 E-value=2.4e+02 Score=30.91 Aligned_cols=157 Identities=15% Similarity=0.097 Sum_probs=81.7
Q ss_pred CeeEEEEeCCCCHHH---HHHHHc---CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC----cHH
Q 011428 12 QLKVVQLTSSMPASD---LRAALA---GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG----YED 81 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~---q~~~l~---~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g----~~~ 81 (486)
+.++++++|+.+... |..+.. +.+||+|||-+ +.-| +++ +++-+|+=-.-...... -..
T Consensus 381 ~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAsDA-----IGMG-----LNL-~IrRiiF~sl~Kysg~e~~~it~s 449 (700)
T KOG0953|consen 381 NHKCAVIYGSLPPETRLAQAALFNDPSNECDVLVASDA-----IGMG-----LNL-NIRRIIFYSLIKYSGRETEDITVS 449 (700)
T ss_pred CcceEEEecCCCCchhHHHHHHhCCCCCccceEEeecc-----cccc-----ccc-ceeEEEEeecccCCcccceeccHH
Confidence 456999999987643 444443 46999999943 3222 222 36666663322111100 134
Q ss_pred HHHHHHHHCCC--CccEEEEeeecChhHHHHHHHhccCCcE-EEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHH
Q 011428 82 DLKALSAVIPR--GCQCLLMSATSSSDVDKLKKLILHNPYI-LTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLL 158 (486)
Q Consensus 82 ~l~~i~~~lp~--~~q~il~SATl~~~v~~l~~~~l~~p~~-i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~ll 158 (486)
++..|.....+ ..+-.+...|+..+.-.+....+..|+. +.-.. -....+++.+|....+...-..++-.+.
T Consensus 450 qikQIAGRAGRf~s~~~~G~vTtl~~eDL~~L~~~l~~p~epi~~ag-----l~pt~eqie~fa~~~Pd~t~snLld~f~ 524 (700)
T KOG0953|consen 450 QIKQIAGRAGRFGSKYPQGEVTTLHSEDLKLLKRILKRPVEPIKNAG-----LWPTDEQIELFAYHLPDATPSNLLDIFV 524 (700)
T ss_pred HHHHHhhcccccccCCcCceEEEeeHhhHHHHHHHHhCCchHHHhcc-----CCccHHHHHHHHHhCCCccHHHHHHHHH
Confidence 56666554332 3344566667766555555555554432 21111 1223334444444444333223333333
Q ss_pred HhhccCCeEEEEecCHHHHHHHHHHHHH
Q 011428 159 KLELVQKKALIFTNTIDMAFRLKLFLEK 186 (486)
Q Consensus 159 k~~~~~~k~IIFvns~~~~~~l~~~L~~ 186 (486)
+... --...|+.+.+....++.+++.
T Consensus 525 ~~~~--~~~~fflc~~~~~k~va~lieh 550 (700)
T KOG0953|consen 525 KLCE--VDGLFFLCNLDDFKFVAELIEH 550 (700)
T ss_pred HHHc--cCCceEEecchhHHHHHHHHHh
Confidence 3322 2338999999999999998864
No 410
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=27.67 E-value=60 Score=32.15 Aligned_cols=39 Identities=28% Similarity=0.393 Sum_probs=25.3
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
...++|+|||+|.+.... ...+..++...+....+|+.+
T Consensus 101 ~~~~vviiDe~~~l~~~~-~~~L~~~le~~~~~~~lIl~~ 139 (319)
T PRK00440 101 APFKIIFLDEADNLTSDA-QQALRRTMEMYSQNTRFILSC 139 (319)
T ss_pred CCceEEEEeCcccCCHHH-HHHHHHHHhcCCCCCeEEEEe
Confidence 346799999999885432 345555566656666666544
No 411
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=27.42 E-value=62 Score=36.21 Aligned_cols=40 Identities=20% Similarity=0.369 Sum_probs=25.2
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeee
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
...+++||||||.|...++ ..+..++..-|....+|+ .+|
T Consensus 117 gk~KV~IIDEVh~LS~~A~-NALLKtLEEPP~~v~FIL-aTt 156 (702)
T PRK14960 117 GRFKVYLIDEVHMLSTHSF-NALLKTLEEPPEHVKFLF-ATT 156 (702)
T ss_pred CCcEEEEEechHhcCHHHH-HHHHHHHhcCCCCcEEEE-EEC
Confidence 4578999999998865443 344445555555555554 444
No 412
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=27.30 E-value=49 Score=36.04 Aligned_cols=40 Identities=15% Similarity=0.338 Sum_probs=25.1
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
....+++||||||.|....+ +.+...+..-|....+|+.+
T Consensus 117 ~~~~kVvIIDEad~ls~~a~-naLLK~LEepp~~~~fIL~t 156 (527)
T PRK14969 117 RGRFKVYIIDEVHMLSKSAF-NAMLKTLEEPPEHVKFILAT 156 (527)
T ss_pred cCCceEEEEcCcccCCHHHH-HHHHHHHhCCCCCEEEEEEe
Confidence 45678999999998865433 23333444445566666654
No 413
>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=27.23 E-value=2.2e+02 Score=32.49 Aligned_cols=57 Identities=21% Similarity=0.168 Sum_probs=39.8
Q ss_pred hccCCeEEEEecCHHHHHHHHHHH----HHcCCceeecCCC-----CCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 161 ELVQKKALIFTNTIDMAFRLKLFL----EKFGIKSAILNAE-----LPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 161 ~~~~~k~IIFvns~~~~~~l~~~L----~~~gi~~~~lhs~-----l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.+.+..++|.+++..-|.+.+..+ +.+|+.+.+..++ +..+.|..+ ...+|+++|+.
T Consensus 108 aL~g~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~~~~s~~~~~~~~~rr~~------y~~dIvygTp~ 173 (762)
T TIGR03714 108 ALTGKGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLGVVDDPDEEYDANEKRKI------YNSDIVYTTNS 173 (762)
T ss_pred hhcCCceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEEECCCCccccCHHHHHHh------CCCCEEEECch
Confidence 344567999999998887777766 5668888765543 555555433 23789999976
No 414
>COG4152 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=27.22 E-value=3.9e+02 Score=26.34 Aligned_cols=78 Identities=18% Similarity=0.213 Sum_probs=0.0
Q ss_pred HHHHHhccCCcEEEcCCcCCcccccccCcceEEEEEcchhhhHHHHHHHHHhhccCCeEEEEecCH-HHHHHHHHHH---
Q 011428 109 KLKKLILHNPYILTLPEVGDVKDEVIPKNVQQFWISCSERDKLLYILTLLKLELVQKKALIFTNTI-DMAFRLKLFL--- 184 (486)
Q Consensus 109 ~l~~~~l~~p~~i~l~~~~~~~~~~~~~~l~q~~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~-~~~~~l~~~L--- 184 (486)
.+....+|.|..+.+++ +....+.+. ..+|-..+......|.+|||.+.+ +.+++|+..+
T Consensus 140 QfisaviHePeLlILDE-----PFSGLDPVN-----------~elLk~~I~~lk~~GatIifSsH~Me~vEeLCD~llmL 203 (300)
T COG4152 140 QFISAVIHEPELLILDE-----PFSGLDPVN-----------VELLKDAIFELKEEGATIIFSSHRMEHVEELCDRLLML 203 (300)
T ss_pred HHHHHHhcCCCEEEecC-----CccCCChhh-----------HHHHHHHHHHHHhcCCEEEEecchHHHHHHHhhhhhee
Q ss_pred ---------------HHcCCceeecCCCCCHHH
Q 011428 185 ---------------EKFGIKSAILNAELPQNS 202 (486)
Q Consensus 185 ---------------~~~gi~~~~lhs~l~~~~ 202 (486)
+++|-+..+++|+++..+
T Consensus 204 ~kG~~V~~G~v~~ir~~~Gkk~~~ies~~s~ee 236 (300)
T COG4152 204 KKGQTVLYGTVEDIRRSFGKKRLVIESDLSLEE 236 (300)
T ss_pred cCCceEEeccHHHHHHhcCCceEEEeccCchHH
No 415
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=27.21 E-value=2.5e+02 Score=25.03 Aligned_cols=46 Identities=15% Similarity=0.293 Sum_probs=37.1
Q ss_pred eEEEEecC-------HHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHh
Q 011428 166 KALIFTNT-------IDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFN 211 (486)
Q Consensus 166 k~IIFvns-------~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~ 211 (486)
+++||+.+ -..|.++..+|+.+++.....+=.|....+.++.+...
T Consensus 1 ~VvlYttsl~giR~t~~~C~~ak~iL~~~~V~~~e~DVs~~~~~~~EL~~~~g 53 (147)
T cd03031 1 RVVLYTTSLRGVRKTFEDCNNVRAILESFRVKFDERDVSMDSGFREELRELLG 53 (147)
T ss_pred CEEEEEcCCcCCCCcChhHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhC
Confidence 35677765 89999999999999999988888888777877665543
No 416
>PF11496 HDA2-3: Class II histone deacetylase complex subunits 2 and 3; InterPro: IPR021006 This entry contains the class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi. The member from Schizosaccharomyces pombe (Fission yeast) is referred to as Ccq1 in Q10432 from SWISSPROT. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C terminus []. ; PDB: 3HGQ_C 3HGT_B.
Probab=27.17 E-value=4.9e+02 Score=26.02 Aligned_cols=56 Identities=13% Similarity=0.039 Sum_probs=39.2
Q ss_pred hhhhHHHHHHHHHhhc------cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHH
Q 011428 147 ERDKLLYILTLLKLEL------VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNS 202 (486)
Q Consensus 147 ~~~k~~~l~~llk~~~------~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~ 202 (486)
...||..|..++..-. ..-+++|.+++.....-+..+|...++..--+.|+....+
T Consensus 94 tS~KF~~L~~Li~~li~~~~~~~~~~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~~l~~~ 155 (297)
T PF11496_consen 94 TSGKFQFLNDLIDSLIDRDRREYPLHILIVSRSGKELDLLEGLLLGKKLNYKRYSGESLYDE 155 (297)
T ss_dssp T-HHHHHHHHHHHHH-----TTSSEEEEEEE-STHHHHHHHHHHTTSSSEEEESSS--S--S
T ss_pred cCchHHHHHHHHHHHHhhhcccCCceEEEEecCccHHHHHHHHHccCCeeEEecCCCCCcCc
Confidence 4578999888886542 2358999999999999999999888888877877665443
No 417
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=27.02 E-value=1.8e+02 Score=30.77 Aligned_cols=82 Identities=15% Similarity=0.184 Sum_probs=60.2
Q ss_pred EEEEcchhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcC--CCcEE
Q 011428 141 FWISCSERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAG--LFDYL 218 (486)
Q Consensus 141 ~~i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g--~~~iL 218 (486)
.|+..+...--.+.|++-.+ +..+-+|||.+-+.-...-...|..+.+++.-|||.|+..+|..++-++..- .+.+|
T Consensus 39 VyVsMPTGaGKSLCyQLPaL-~~~gITIV~SPLiALIkDQiDHL~~LKVp~~SLNSKlSt~ER~ri~~DL~~ekp~~K~L 117 (641)
T KOG0352|consen 39 VYVSMPTGAGKSLCYQLPAL-VHGGITIVISPLIALIKDQIDHLKRLKVPCESLNSKLSTVERSRIMGDLAKEKPTIKML 117 (641)
T ss_pred EEEeccCCCchhhhhhchHH-HhCCeEEEehHHHHHHHHHHHHHHhcCCchhHhcchhhHHHHHHHHHHHHhcCCceeEE
Confidence 34444433333444444332 2266899999999888887888889999999999999999999999999765 45677
Q ss_pred EEcCC
Q 011428 219 IATDD 223 (486)
Q Consensus 219 IaTd~ 223 (486)
--|++
T Consensus 118 YITPE 122 (641)
T KOG0352|consen 118 YITPE 122 (641)
T ss_pred EEchh
Confidence 66665
No 418
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=26.99 E-value=40 Score=27.51 Aligned_cols=29 Identities=24% Similarity=0.465 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhchHHHHHhhccCccch
Q 011428 358 RESRAQDLRNEILNSEKLKAHFEVNPKDL 386 (486)
Q Consensus 358 ~ear~~e~~~e~l~s~~lk~~f~~n~~dl 386 (486)
-+.+..++++++|+.+..++|+++|..+|
T Consensus 17 ~~~~~~~l~~~vl~dp~V~~Fl~~h~~eL 45 (94)
T PF07319_consen 17 FEERYEQLKQEVLSDPEVQAFLQEHQPEL 45 (94)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHSTTT-
T ss_pred HHHHHHHHHHHHHcCHHHHHHHHHhHHhc
Confidence 45677889999999999999999984443
No 419
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=26.73 E-value=1.1e+02 Score=31.21 Aligned_cols=40 Identities=25% Similarity=0.240 Sum_probs=23.3
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
....+++|||+||.|-.... +.+-..++.=|++.-+||.|
T Consensus 130 ~~~~kV~iI~~ae~m~~~Aa-NaLLKtLEEPp~~t~fiL~t 169 (342)
T PRK06964 130 RGGARVVVLYPAEALNVAAA-NALLKTLEEPPPGTVFLLVS 169 (342)
T ss_pred cCCceEEEEechhhcCHHHH-HHHHHHhcCCCcCcEEEEEE
Confidence 45678999999999965442 33333344434444444443
No 420
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=26.51 E-value=70 Score=35.55 Aligned_cols=37 Identities=22% Similarity=0.391 Sum_probs=29.9
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeee
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
.+++||||||-.+- ...+..++..+|++.++|++.-.
T Consensus 265 ~~dvlIvDEaSMvd----~~lm~~ll~al~~~~rlIlvGD~ 301 (615)
T PRK10875 265 HLDVLVVDEASMVD----LPMMARLIDALPPHARVIFLGDR 301 (615)
T ss_pred CCCeEEEChHhccc----HHHHHHHHHhcccCCEEEEecch
Confidence 35899999996652 57788899999999999988644
No 421
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=26.48 E-value=60 Score=32.50 Aligned_cols=39 Identities=21% Similarity=0.412 Sum_probs=25.5
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
...++|||||+|.+... ....+..++...+....+|+.+
T Consensus 124 ~~~~vlilDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~ 162 (337)
T PRK12402 124 ADYKTILLDNAEALRED-AQQALRRIMEQYSRTCRFIIAT 162 (337)
T ss_pred CCCcEEEEeCcccCCHH-HHHHHHHHHHhccCCCeEEEEe
Confidence 44579999999987532 3445666666666666655543
No 422
>PRK04132 replication factor C small subunit; Provisional
Probab=26.39 E-value=57 Score=37.62 Aligned_cols=37 Identities=30% Similarity=0.434 Sum_probs=24.5
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEE
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLM 99 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~ 99 (486)
..+++||||||.|...+ +..+..++..-|.++.+|+.
T Consensus 630 ~~KVvIIDEaD~Lt~~A-QnALLk~lEep~~~~~FILi 666 (846)
T PRK04132 630 SFKIIFLDEADALTQDA-QQALRRTMEMFSSNVRFILS 666 (846)
T ss_pred CCEEEEEECcccCCHHH-HHHHHHHhhCCCCCeEEEEE
Confidence 46899999999996432 45555555555555555554
No 423
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=26.19 E-value=1.2e+02 Score=32.53 Aligned_cols=55 Identities=25% Similarity=0.273 Sum_probs=41.8
Q ss_pred CeEEEEecCHHHHHHHHHHHHHc----CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKF----GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~----gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
+.+||..||++-+..++..-+.+ ++.+++..++.+... ...+-...++|+|||..
T Consensus 153 P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~~----q~~~~~~gcdIlvaTpG 211 (482)
T KOG0335|consen 153 PRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLGA----QLRFIKRGCDILVATPG 211 (482)
T ss_pred CceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcchhh----hhhhhccCccEEEecCc
Confidence 57999999999999998887766 566777777744322 23456678999999975
No 424
>cd01522 RHOD_1 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins.
Probab=26.09 E-value=1.5e+02 Score=24.74 Aligned_cols=37 Identities=5% Similarity=0.016 Sum_probs=30.5
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCC
Q 011428 163 VQKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELP 199 (486)
Q Consensus 163 ~~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~ 199 (486)
...++||+|++-.++...+..|...|+. +..+.+++.
T Consensus 63 ~~~~ivv~C~~G~rs~~aa~~L~~~G~~~v~~l~gG~~ 100 (117)
T cd01522 63 KDRPVLLLCRSGNRSIAAAEAAAQAGFTNVYNVLEGFE 100 (117)
T ss_pred CCCeEEEEcCCCccHHHHHHHHHHCCCCeEEECcCcee
Confidence 3568999999988899999999999986 556777764
No 425
>TIGR00162 conserved hypothetical protein TIGR00162. This ortholog set includes MJ1210 from Methanococcus jannaschii and AF0525 from Archaeoglobus fulgidus, but not MJ0106 or AF1251.
Probab=26.09 E-value=4.1e+02 Score=24.58 Aligned_cols=34 Identities=21% Similarity=0.106 Sum_probs=23.8
Q ss_pred EeCCCCChhhHHHhhhhcccCCCCceEEEEeCcchh
Q 011428 271 NFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPDEM 306 (486)
Q Consensus 271 ~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~e~ 306 (486)
.++.|..+...+ .+++++.|-++.|++.-++...
T Consensus 91 ~~g~i~G~~glL--l~~a~~~gi~ai~L~~e~p~y~ 124 (188)
T TIGR00162 91 PGGGIIGASGLL--LGVSELEGIPGACLMGETPGYM 124 (188)
T ss_pred CCCccccHHHHH--HHHHHHCCCCeEEEEEeCCCCC
Confidence 355666666655 3567788889999998887643
No 426
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=26.00 E-value=3.1e+02 Score=31.27 Aligned_cols=60 Identities=13% Similarity=0.311 Sum_probs=44.4
Q ss_pred hccCCeEEEEecCHHHHHHHHHHHHHc--CCceeecCCCCCHHHHHHHHHHH-hcCCCcEEEEcCC
Q 011428 161 ELVQKKALIFTNTIDMAFRLKLFLEKF--GIKSAILNAELPQNSRLHILEEF-NAGLFDYLIATDD 223 (486)
Q Consensus 161 ~~~~~k~IIFvns~~~~~~l~~~L~~~--gi~~~~lhs~l~~~~R~~i~~~F-~~g~~~iLIaTd~ 223 (486)
...+|+.||.|+--.-...+..+ .+| ++++++|||+ .++|...++.+ ..|.++|+|+|=.
T Consensus 214 ~~~~GPfLVi~P~StL~NW~~Ef-~rf~P~l~~~~~~Gd--k~eR~~~~r~~~~~~~fdV~iTsYE 276 (971)
T KOG0385|consen 214 KGIPGPFLVIAPKSTLDNWMNEF-KRFTPSLNVVVYHGD--KEERAALRRDIMLPGRFDVCITSYE 276 (971)
T ss_pred cCCCCCeEEEeeHhhHHHHHHHH-HHhCCCcceEEEeCC--HHHHHHHHHHhhccCCCceEeehHH
Confidence 44589999999966555444444 333 7889999998 58888888776 4568999999854
No 427
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=25.91 E-value=80 Score=35.54 Aligned_cols=40 Identities=15% Similarity=0.335 Sum_probs=24.9
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
....+++||||+|.|....+ ..+..++..-|..+.+|+.+
T Consensus 117 ~gk~KVIIIDEad~Ls~~A~-NALLKtLEEPp~~v~fILaT 156 (709)
T PRK08691 117 AGKYKVYIIDEVHMLSKSAF-NAMLKTLEEPPEHVKFILAT 156 (709)
T ss_pred hCCcEEEEEECccccCHHHH-HHHHHHHHhCCCCcEEEEEe
Confidence 35678999999998754332 33444445555566665554
No 428
>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=25.74 E-value=60 Score=27.98 Aligned_cols=46 Identities=17% Similarity=0.290 Sum_probs=27.8
Q ss_pred CCCcceEEecccccccCCC----------cHHHHHHHHHHCCCCccEEEEeeecCh
Q 011428 60 SDSLKILVLDEADLLLSYG----------YEDDLKALSAVIPRGCQCLLMSATSSS 105 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g----------~~~~l~~i~~~lp~~~q~il~SATl~~ 105 (486)
.....++||||++.+++.. ....+..+........-+++++...+.
T Consensus 83 ~~~~~~lviDe~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~vv~~~~~~~ 138 (165)
T cd01120 83 RGGDDLIILDELTRLVRALREIREGYPGELDEELRELLERARKGGVTVIFTLQVPS 138 (165)
T ss_pred CCCCEEEEEEcHHHHHHHHHHHHhcCChHHHHHHHHHHHHHhcCCceEEEEEecCC
Confidence 3567899999999875432 135556666565544444555554443
No 429
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=25.57 E-value=53 Score=31.88 Aligned_cols=46 Identities=24% Similarity=0.342 Sum_probs=32.0
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhH
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDV 107 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v 107 (486)
..-+.+|+||||-|.+ |-+..++..++...+.+.+.|...+...-+
T Consensus 112 grhKIiILDEADSMT~-gAQQAlRRtMEiyS~ttRFalaCN~s~KIi 157 (333)
T KOG0991|consen 112 GRHKIIILDEADSMTA-GAQQALRRTMEIYSNTTRFALACNQSEKII 157 (333)
T ss_pred CceeEEEeeccchhhh-HHHHHHHHHHHHHcccchhhhhhcchhhhh
Confidence 4557899999999865 556777777777776777666655544333
No 430
>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=25.57 E-value=1.1e+02 Score=35.25 Aligned_cols=46 Identities=13% Similarity=0.253 Sum_probs=36.0
Q ss_pred CeeEEEEeCCCCHHHHHHHHcC----CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEE
Q 011428 12 QLKVVQLTSSMPASDLRAALAG----PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILV 67 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~----~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lV 67 (486)
++.+..++|+.+..+|...+.. ...||||| +....+ +.+.++++||
T Consensus 236 ~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVAT-----nIAErg-----ItIp~V~~VI 285 (819)
T TIGR01970 236 DVLICPLYGELSLAAQDRAIKPDPQGRRKVVLAT-----NIAETS-----LTIEGIRVVI 285 (819)
T ss_pred CcEEEEecCCCCHHHHHHHHhhcccCCeEEEEec-----chHhhc-----ccccCceEEE
Confidence 6899999999999999887753 46799999 455554 6677777655
No 431
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=25.56 E-value=55 Score=36.24 Aligned_cols=75 Identities=9% Similarity=0.121 Sum_probs=45.2
Q ss_pred CCcEEEECcchHHHHHHcCCCCC-----CcCCCCcceEEecccccccCCC-cHHHHHHHHHHCCC-CccEEEEeeecChh
Q 011428 34 PPDIVIATPGCMPKCLSTGVLQS-----KSFSDSLKILVLDEADLLLSYG-YEDDLKALSAVIPR-GCQCLLMSATSSSD 106 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~~~~~~-----~~~l~~l~~lViDEad~ll~~g-~~~~l~~i~~~lp~-~~q~il~SATl~~~ 106 (486)
+..|++.|.+.+...+....... ...+.++++||||++|.+.... ..+.+..++..+.. +.|+|+.|-..|.+
T Consensus 344 g~~V~Yitaeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~e 423 (617)
T PRK14086 344 GTRVRYVSSEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQ 423 (617)
T ss_pred CCeEEEeeHHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHh
Confidence 56788888776654332111000 0124568999999999986543 35566666666543 56777766655555
Q ss_pred HH
Q 011428 107 VD 108 (486)
Q Consensus 107 v~ 108 (486)
+.
T Consensus 424 L~ 425 (617)
T PRK14086 424 LV 425 (617)
T ss_pred hh
Confidence 53
No 432
>PRK01172 ski2-like helicase; Provisional
Probab=25.34 E-value=1.8e+02 Score=32.53 Aligned_cols=61 Identities=16% Similarity=0.225 Sum_probs=42.5
Q ss_pred HHHHhhccCCeEEEEecCHHHHHHHHHHHHH---cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 156 TLLKLELVQKKALIFTNTIDMAFRLKLFLEK---FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 156 ~llk~~~~~~k~IIFvns~~~~~~l~~~L~~---~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.++..-...+++|+.++++.-|...+..+.+ .|+.+..+.|+...... +. ...+|+|||..
T Consensus 57 ail~~l~~~~k~v~i~P~raLa~q~~~~~~~l~~~g~~v~~~~G~~~~~~~------~~-~~~dIiv~Tpe 120 (674)
T PRK01172 57 AIYETFLAGLKSIYIVPLRSLAMEKYEELSRLRSLGMRVKISIGDYDDPPD------FI-KRYDVVILTSE 120 (674)
T ss_pred HHHHHHHhCCcEEEEechHHHHHHHHHHHHHHhhcCCeEEEEeCCCCCChh------hh-ccCCEEEECHH
Confidence 3333323367899999999998888777654 47888888888764332 11 35699999974
No 433
>PRK00162 glpE thiosulfate sulfurtransferase; Validated
Probab=25.29 E-value=1.5e+02 Score=24.16 Aligned_cols=37 Identities=5% Similarity=0.099 Sum_probs=30.8
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCc-eeecCCCCCH
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIK-SAILNAELPQ 200 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~-~~~lhs~l~~ 200 (486)
..+++|+|.+-.++...+..|...|+. +..+.|++..
T Consensus 58 ~~~ivv~c~~g~~s~~a~~~L~~~G~~~v~~l~GG~~~ 95 (108)
T PRK00162 58 DTPVMVMCYHGNSSQGAAQYLLQQGFDVVYSIDGGFEA 95 (108)
T ss_pred CCCEEEEeCCCCCHHHHHHHHHHCCchheEEecCCHHH
Confidence 567888999888888899999999986 7788888743
No 434
>PRK10869 recombination and repair protein; Provisional
Probab=25.02 E-value=71 Score=35.00 Aligned_cols=40 Identities=18% Similarity=0.163 Sum_probs=31.7
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
...++|+||.|.-++......+..++..+....|+|+.|-
T Consensus 452 ~~~~li~DEpd~gld~~~~~~v~~~l~~l~~~~qvi~iTH 491 (553)
T PRK10869 452 ETPALIFDEVDVGISGPTAAVVGKLLRQLGESTQVMCVTH 491 (553)
T ss_pred CCCEEEEECCCCCCCHHHHHHHHHHHHHHhcCCEEEEEec
Confidence 5789999999999887777778888887766777766554
No 435
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=24.94 E-value=80 Score=32.71 Aligned_cols=33 Identities=24% Similarity=0.420 Sum_probs=28.2
Q ss_pred ceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 64 KILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 64 ~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
.++|||||.-+- ..+++.|+....++..++++.
T Consensus 353 ~FiIIDEaQNLT----pheikTiltR~G~GsKIVl~g 385 (436)
T COG1875 353 SFIIIDEAQNLT----PHELKTILTRAGEGSKIVLTG 385 (436)
T ss_pred ceEEEehhhccC----HHHHHHHHHhccCCCEEEEcC
Confidence 489999998874 578999999999998888765
No 436
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=24.92 E-value=1.3e+02 Score=34.82 Aligned_cols=46 Identities=15% Similarity=0.281 Sum_probs=36.3
Q ss_pred CeeEEEEeCCCCHHHHHHHHcC----CCcEEEECcchHHHHHHcCCCCCCcCCCCcceEE
Q 011428 12 QLKVVQLTSSMPASDLRAALAG----PPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILV 67 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~~----~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lV 67 (486)
++.+..++|+.+..+|...+.. ...||||| +....+ +.+..+.+||
T Consensus 239 ~~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvAT-----nIAErs-----LtIp~V~~VI 288 (812)
T PRK11664 239 DVLLCPLYGALSLAEQQKAILPAPAGRRKVVLAT-----NIAETS-----LTIEGIRLVV 288 (812)
T ss_pred CceEEEeeCCCCHHHHHHHhccccCCCeEEEEec-----chHHhc-----ccccCceEEE
Confidence 6889999999999988887753 46899999 455554 6778888665
No 437
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=24.61 E-value=3.8e+02 Score=30.01 Aligned_cols=79 Identities=11% Similarity=0.106 Sum_probs=53.2
Q ss_pred EEcchhhhHHHHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHc-CCc-eeec--------------------C-----
Q 011428 143 ISCSERDKLLYILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKF-GIK-SAIL--------------------N----- 195 (486)
Q Consensus 143 i~~~~~~k~~~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~-gi~-~~~l--------------------h----- 195 (486)
.-+....|..++..+++.. ..++||.+++...+..++..|..+ +-. +..+ +
T Consensus 38 ~Gl~gs~ka~lia~l~~~~--~r~vLIVt~~~~~A~~l~~dL~~~~~~~~v~~f~s~~~~~~~~~~~P~~d~~~~~~~~~ 115 (652)
T PRK05298 38 LGVTGSGKTFTMANVIARL--QRPTLVLAHNKTLAAQLYSEFKEFFPENAVEYFVSYYDYYQPEAYVPSSDTYIEKDSSI 115 (652)
T ss_pred EcCCCcHHHHHHHHHHHHh--CCCEEEEECCHHHHHHHHHHHHHhcCCCeEEEeCChhhccCccccCCCCcccccccCCC
Confidence 3345566777777776542 568999999999999999999777 322 3333 0
Q ss_pred CCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 196 AELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 196 s~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
+.--...|..++..+..+.-.|+|||-.
T Consensus 116 ~~~~~~~R~~~l~~L~~~~~~ivv~s~~ 143 (652)
T PRK05298 116 NEEIERLRHSATKSLLERRDVIVVASVS 143 (652)
T ss_pred ChHHHHHHHHHHHHHHhCCCEEEEEcHH
Confidence 0011456889999998876556666643
No 438
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=24.49 E-value=94 Score=32.98 Aligned_cols=77 Identities=14% Similarity=0.262 Sum_probs=41.9
Q ss_pred CCcEEEECcchHHHHHHc----CCCCC--CcCCCCcceEEecccccccCCC-cHHHHHHHHHHCC-CCccEEEEeeecCh
Q 011428 34 PPDIVIATPGCMPKCLST----GVLQS--KSFSDSLKILVLDEADLLLSYG-YEDDLKALSAVIP-RGCQCLLMSATSSS 105 (486)
Q Consensus 34 ~~dIvV~TP~rl~~~l~~----~~~~~--~~~l~~l~~lViDEad~ll~~g-~~~~l~~i~~~lp-~~~q~il~SATl~~ 105 (486)
+..|++.|.+.+...+.. +.... .....+.++|+|||+|.+.+.. ....+..++..+. .+.|+++.|...|.
T Consensus 160 ~~~v~yi~~~~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~ 239 (440)
T PRK14088 160 DLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQ 239 (440)
T ss_pred CCeEEEEEHHHHHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHH
Confidence 356888887776544321 11000 0001258899999999886542 3444555554443 34566665555555
Q ss_pred hHHHH
Q 011428 106 DVDKL 110 (486)
Q Consensus 106 ~v~~l 110 (486)
++..+
T Consensus 240 ~l~~l 244 (440)
T PRK14088 240 KLSEF 244 (440)
T ss_pred HHHHH
Confidence 55444
No 439
>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=24.49 E-value=1.1e+02 Score=30.96 Aligned_cols=18 Identities=28% Similarity=0.471 Sum_probs=14.0
Q ss_pred CCCCcceEEecccccccC
Q 011428 59 FSDSLKILVLDEADLLLS 76 (486)
Q Consensus 59 ~l~~l~~lViDEad~ll~ 76 (486)
....-++|||||||.+..
T Consensus 114 ~~~~~~vviidea~~l~~ 131 (355)
T TIGR02397 114 SSGKYKVYIIDEVHMLSK 131 (355)
T ss_pred ccCCceEEEEeChhhcCH
Confidence 345668999999998854
No 440
>PHA02558 uvsW UvsW helicase; Provisional
Probab=24.36 E-value=97 Score=33.43 Aligned_cols=49 Identities=20% Similarity=0.213 Sum_probs=35.2
Q ss_pred CeeEEEEeCCCCHHHHHHHHc----CCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEec
Q 011428 12 QLKVVQLTSSMPASDLRAALA----GPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLD 69 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l~----~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViD 69 (486)
++++..++|+++..+....+. +...|||+|- +++..| +++.++++||+.
T Consensus 368 g~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~----~~l~eG-----~Dip~ld~vIl~ 420 (501)
T PHA02558 368 YDKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASY----GVFSTG-----ISIKNLHHVIFA 420 (501)
T ss_pred CCCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEc----ceeccc-----cccccccEEEEe
Confidence 789999999998775544332 3456899983 344444 788889999974
No 441
>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]
Probab=24.31 E-value=1.1e+02 Score=29.27 Aligned_cols=56 Identities=18% Similarity=0.229 Sum_probs=44.1
Q ss_pred CCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHh
Q 011428 59 FSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLI 114 (486)
Q Consensus 59 ~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~ 114 (486)
...+.+.+|+||.=.=++--+...+..++..+...-.+++||...=++++.++..+
T Consensus 148 lvh~P~i~vlDEP~sGLDi~~~r~~~dfi~q~k~egr~viFSSH~m~EvealCDrv 203 (245)
T COG4555 148 LVHDPSILVLDEPTSGLDIRTRRKFHDFIKQLKNEGRAVIFSSHIMQEVEALCDRV 203 (245)
T ss_pred HhcCCCeEEEcCCCCCccHHHHHHHHHHHHHhhcCCcEEEEecccHHHHHHhhheE
Confidence 34667899999997766666778888888888887888899887777777776643
No 442
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=24.17 E-value=54 Score=37.98 Aligned_cols=43 Identities=21% Similarity=0.342 Sum_probs=25.0
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecCh
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSS 105 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~ 105 (486)
...+++||||||.|....+ +.+..++..-|..+.+|+. +|-+.
T Consensus 118 gk~KViIIDEAh~LT~eAq-NALLKtLEEPP~~vrFILa-TTe~~ 160 (944)
T PRK14949 118 GRFKVYLIDEVHMLSRSSF-NALLKTLEEPPEHVKFLLA-TTDPQ 160 (944)
T ss_pred CCcEEEEEechHhcCHHHH-HHHHHHHhccCCCeEEEEE-CCCch
Confidence 4578999999999864332 3333344444545555554 44333
No 443
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=23.95 E-value=1.5e+02 Score=32.32 Aligned_cols=65 Identities=23% Similarity=0.279 Sum_probs=41.2
Q ss_pred CeeEEEEeC-----CCCHHHHHHHHcCCCcEEEECcchHH--------HHHHcCCCCCCcCCCCcceEEecccccccCCC
Q 011428 12 QLKVVQLTS-----SMPASDLRAALAGPPDIVIATPGCMP--------KCLSTGVLQSKSFSDSLKILVLDEADLLLSYG 78 (486)
Q Consensus 12 ~i~v~~l~g-----~~~~~~q~~~l~~~~dIvV~TP~rl~--------~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g 78 (486)
.+..+.+.| .+....+...-++-|-|=|.+|+.+. .|+..-- ....-+.+.++|+|+...+++|.
T Consensus 537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F--~DAYkS~lsiivvDdiErLiD~v 614 (744)
T KOG0741|consen 537 PLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIF--EDAYKSPLSIIVVDDIERLLDYV 614 (744)
T ss_pred cceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHH--HHhhcCcceEEEEcchhhhhccc
Confidence 355555654 23334455555566888899998653 2332211 12345779999999999999985
No 444
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=23.95 E-value=1.3e+02 Score=30.71 Aligned_cols=65 Identities=15% Similarity=0.101 Sum_probs=35.1
Q ss_pred CCCcEEEECcc--------hHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 33 GPPDIVIATPG--------CMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 33 ~~~dIvV~TP~--------rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
..||+.+-.|. .+.++...- .........+++|||+||.|.... ...+-.+++.=|.+.-+||.|
T Consensus 72 ~HPD~~~i~p~~~~~I~id~iR~l~~~~--~~~~~~g~~KV~iI~~a~~m~~~A-aNaLLKtLEEPp~~~~fiL~t 144 (325)
T PRK06871 72 NHPDFHILEPIDNKDIGVDQVREINEKV--SQHAQQGGNKVVYIQGAERLTEAA-ANALLKTLEEPRPNTYFLLQA 144 (325)
T ss_pred CCCCEEEEccccCCCCCHHHHHHHHHHH--hhccccCCceEEEEechhhhCHHH-HHHHHHHhcCCCCCeEEEEEE
Confidence 57999877773 112221110 111334668999999999997543 333344444434444444443
No 445
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=23.90 E-value=1.4e+02 Score=33.99 Aligned_cols=41 Identities=22% Similarity=0.208 Sum_probs=26.1
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhH
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDV 107 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v 107 (486)
.-.+|||||+|.+... ....++..+. ..++++++||-++..
T Consensus 109 ~~~IL~IDEIh~Ln~~----qQdaLL~~lE-~g~IiLI~aTTenp~ 149 (725)
T PRK13341 109 KRTILFIDEVHRFNKA----QQDALLPWVE-NGTITLIGATTENPY 149 (725)
T ss_pred CceEEEEeChhhCCHH----HHHHHHHHhc-CceEEEEEecCCChH
Confidence 4568999999997532 2234444444 467888888865433
No 446
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.69 E-value=66 Score=35.22 Aligned_cols=40 Identities=18% Similarity=0.228 Sum_probs=26.0
Q ss_pred CCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 60 SDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 60 l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
....+++||||||.|.... .+.+...++.-|....+|+.+
T Consensus 117 ~g~~kViIIDEa~~ls~~a-~naLLK~LEepp~~v~fIL~T 156 (546)
T PRK14957 117 QGRYKVYLIDEVHMLSKQS-FNALLKTLEEPPEYVKFILAT 156 (546)
T ss_pred cCCcEEEEEechhhccHHH-HHHHHHHHhcCCCCceEEEEE
Confidence 4567899999999986543 344445555555556565544
No 447
>PRK12377 putative replication protein; Provisional
Probab=23.56 E-value=1.1e+02 Score=29.85 Aligned_cols=71 Identities=14% Similarity=0.020 Sum_probs=40.3
Q ss_pred HcCCCcEEEECcchHHHHHHcCCCC------CCcCCCCcceEEecccccccCCCc-HHHHHHHHHHCCC-CccEEEEee
Q 011428 31 LAGPPDIVIATPGCMPKCLSTGVLQ------SKSFSDSLKILVLDEADLLLSYGY-EDDLKALSAVIPR-GCQCLLMSA 101 (486)
Q Consensus 31 l~~~~dIvV~TP~rl~~~l~~~~~~------~~~~l~~l~~lViDEad~ll~~g~-~~~l~~i~~~lp~-~~q~il~SA 101 (486)
+..+..+++.|-..++..+...... -...+.++++|||||.+......+ .+.+..|+...-. ..++|+.|-
T Consensus 126 ~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSN 204 (248)
T PRK12377 126 LAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQELCKVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTN 204 (248)
T ss_pred HHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcC
Confidence 3456666666655666655432100 012357889999999966533222 3455666655433 466776654
No 448
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=23.52 E-value=6.3e+02 Score=26.65 Aligned_cols=95 Identities=22% Similarity=0.206 Sum_probs=51.7
Q ss_pred CeeEEEEeCCCCH---HHHHH---HHcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccC-CCcHHHHH
Q 011428 12 QLKVVQLTSSMPA---SDLRA---ALAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLS-YGYEDDLK 84 (486)
Q Consensus 12 ~i~v~~l~g~~~~---~~q~~---~l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~-~g~~~~l~ 84 (486)
+.+|..++.+... ..|.. ...+-|-.++.+|..+...+.. +...++|+||.+-.... ......+.
T Consensus 251 g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~--------~~~~DlVlIDt~G~~~~d~~~~~~L~ 322 (424)
T PRK05703 251 KKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQ--------LRDCDVILIDTAGRSQRDKRLIEELK 322 (424)
T ss_pred CCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHH--------hCCCCEEEEeCCCCCCCCHHHHHHHH
Confidence 4667777665421 12221 1222344455666666665543 23579999999965322 12334566
Q ss_pred HHHHH-CCCCccEEEEeeecCh-hHHHHHHHh
Q 011428 85 ALSAV-IPRGCQCLLMSATSSS-DVDKLKKLI 114 (486)
Q Consensus 85 ~i~~~-lp~~~q~il~SATl~~-~v~~l~~~~ 114 (486)
.++.. ..+..-.+++|||... ++..+...|
T Consensus 323 ~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f 354 (424)
T PRK05703 323 ALIEFSGEPIDVYLVLSATTKYEDLKDIYKHF 354 (424)
T ss_pred HHHhccCCCCeEEEEEECCCCHHHHHHHHHHh
Confidence 66652 2223447778998764 555555554
No 449
>PRK13342 recombination factor protein RarA; Reviewed
Probab=23.45 E-value=1.3e+02 Score=31.45 Aligned_cols=38 Identities=24% Similarity=0.241 Sum_probs=24.3
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecC
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSS 104 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~ 104 (486)
.-.+|+|||+|.+.. .....++..+. ..+++++.||-.
T Consensus 92 ~~~vL~IDEi~~l~~----~~q~~LL~~le-~~~iilI~att~ 129 (413)
T PRK13342 92 RRTILFIDEIHRFNK----AQQDALLPHVE-DGTITLIGATTE 129 (413)
T ss_pred CceEEEEechhhhCH----HHHHHHHHHhh-cCcEEEEEeCCC
Confidence 457899999998753 33344555554 355677777643
No 450
>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=23.25 E-value=2.3e+02 Score=23.21 Aligned_cols=50 Identities=16% Similarity=0.237 Sum_probs=33.7
Q ss_pred CeeEEEEeCCCCHHHHHHHH----cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccc
Q 011428 12 QLKVVQLTSSMPASDLRAAL----AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEA 71 (486)
Q Consensus 12 ~i~v~~l~g~~~~~~q~~~l----~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEa 71 (486)
++.+..+.|+.+.......+ .+...|+|+|. .+..| .++..++++|+...
T Consensus 52 ~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~-----~~~~G-----~d~~~~~~vi~~~~ 105 (131)
T cd00079 52 GIKVAALHGDGSQEEREEVLKDFREGEIVVLVATD-----VIARG-----IDLPNVSVVINYDL 105 (131)
T ss_pred CCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcC-----hhhcC-----cChhhCCEEEEeCC
Confidence 67888899988765544333 24567999984 23344 56667888887766
No 451
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=22.96 E-value=1.3e+02 Score=31.39 Aligned_cols=55 Identities=20% Similarity=0.401 Sum_probs=41.9
Q ss_pred CeEEEEecCHHHHHHHHHHHHHc-------C---CceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKF-------G---IKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~-------g---i~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
.-.||.|+|++-+...+..++++ | ++++.--|++|..+...++. .| +.|+|||+.
T Consensus 247 P~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v~---~G-vHivVATPG 311 (610)
T KOG0341|consen 247 PYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDVVR---RG-VHIVVATPG 311 (610)
T ss_pred CeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHHHh---cC-eeEEEcCcc
Confidence 35799999999888877776654 4 45677789999988776653 44 689999975
No 452
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=22.95 E-value=2.1e+02 Score=30.69 Aligned_cols=55 Identities=18% Similarity=0.104 Sum_probs=37.7
Q ss_pred CeEEEEecCHHHHHHHHHHHHH----c-CCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEK----F-GIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~----~-gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
-.+||.|+|++-|...+..+.. . ++.+.++-|+-. |..-.+...+ .++|||||+.
T Consensus 155 ~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~---~~~e~~kl~k-~~niliATPG 214 (543)
T KOG0342|consen 155 TGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNN---FSVEADKLVK-GCNILIATPG 214 (543)
T ss_pred eeEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCcc---chHHHHHhhc-cccEEEeCCc
Confidence 3689999999988777665543 3 666666666643 3333345556 7899999986
No 453
>PHA00012 I assembly protein
Probab=22.93 E-value=1.2e+02 Score=30.96 Aligned_cols=42 Identities=14% Similarity=0.206 Sum_probs=25.9
Q ss_pred CCcceEEecccccccC---CC---cHHHHHHHHHHCCCCccEEEEeee
Q 011428 61 DSLKILVLDEADLLLS---YG---YEDDLKALSAVIPRGCQCLLMSAT 102 (486)
Q Consensus 61 ~~l~~lViDEad~ll~---~g---~~~~l~~i~~~lp~~~q~il~SAT 102 (486)
..-.++||||||..+. ++ -.+.+..+..+-..+.-++++|-.
T Consensus 80 p~gsLlVlDEaq~~fp~R~~~sk~p~~vie~l~~hRh~G~DvilITQ~ 127 (361)
T PHA00012 80 SKNGLLVLDECGTWFNSRSWNDKERQPVIDWFLHARKLGWDIIFIIQD 127 (361)
T ss_pred CCCcEEEEECcccccCCCCcCcCCcHHHHHHHHHhccCCceEEEEcCC
Confidence 4567999999999885 33 122333344444456667776654
No 454
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=22.91 E-value=5.8e+02 Score=26.49 Aligned_cols=81 Identities=10% Similarity=0.082 Sum_probs=47.2
Q ss_pred HcCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCC----cHHHHHHHHHHCCCCccEEEEeee----
Q 011428 31 LAGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYG----YEDDLKALSAVIPRGCQCLLMSAT---- 102 (486)
Q Consensus 31 l~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g----~~~~l~~i~~~lp~~~q~il~SAT---- 102 (486)
+.+..++|.|+.|+.... ++...........+.+..++|-|.++..| ..+-+..+.+..+ ...|++-+|
T Consensus 24 I~d~~~lvhGp~gC~~~~-~~~~~~~~~~~~~~~~t~l~E~dvv~g~gg~~~L~~aI~ei~~~~~--P~~I~V~sTCv~e 100 (396)
T cd01979 24 IEDSFFLVVGTKTCAHFL-QNALGVMIFAEPRFAMAELEEGDLSALLNDYAELDRVVTQIKRDRN--PSVIFLIGSCTTE 100 (396)
T ss_pred cCcceeEeecchhHHHHH-HhhhccEeecCCcceeeecCchhhhhccCchHHHHHHHHHHHHhcC--CCEEEEECCCHHH
Confidence 356789999999997543 32110001112445566999999876543 3345555555554 345555444
Q ss_pred -cChhHHHHHHHh
Q 011428 103 -SSSDVDKLKKLI 114 (486)
Q Consensus 103 -l~~~v~~l~~~~ 114 (486)
+-+|++.+.+.+
T Consensus 101 ~IGDDi~~v~~~~ 113 (396)
T cd01979 101 VIKMDLEGAAPRL 113 (396)
T ss_pred HHhcCHHHHHHHH
Confidence 556666666654
No 455
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=22.89 E-value=42 Score=36.28 Aligned_cols=29 Identities=24% Similarity=0.413 Sum_probs=20.6
Q ss_pred cCCCCcceEEecccccccCCCcHHHHHHH
Q 011428 58 SFSDSLKILVLDEADLLLSYGYEDDLKAL 86 (486)
Q Consensus 58 ~~l~~l~~lViDEad~ll~~g~~~~l~~i 86 (486)
....+.+..||||+|.+...+|...++.+
T Consensus 115 P~~~ryKVyiIDEvHMLS~~afNALLKTL 143 (515)
T COG2812 115 PSEGRYKVYIIDEVHMLSKQAFNALLKTL 143 (515)
T ss_pred CccccceEEEEecHHhhhHHHHHHHhccc
Confidence 34577889999999998766655444443
No 456
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=22.88 E-value=1.2e+02 Score=25.72 Aligned_cols=42 Identities=19% Similarity=0.277 Sum_probs=30.2
Q ss_pred HHHHHH-cCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 181 KLFLEK-FGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 181 ~~~L~~-~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
+.+|++ .|+.+-.+..+ +..-+.++++.+..|+++++|.|..
T Consensus 37 a~~L~~~~Gi~v~~vk~~-~~~g~~~i~~~i~~g~i~~VInt~~ 79 (115)
T cd01422 37 GLLIQEATGLTVNRMKSG-PLGGDQQIGALIAEGEIDAVIFFRD 79 (115)
T ss_pred HHHHHHhhCCcEEEEecC-CCCchhHHHHHHHcCceeEEEEcCC
Confidence 344666 78887655211 2234578999999999999999965
No 457
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=22.87 E-value=68 Score=35.36 Aligned_cols=41 Identities=17% Similarity=0.243 Sum_probs=24.6
Q ss_pred CCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 59 FSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 59 ~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
.....+++||||+|.|.... .+.+...++.-|...-+|+.+
T Consensus 116 ~~~~~KVvIIdev~~Lt~~a-~naLLk~LEepp~~~~fIl~t 156 (576)
T PRK14965 116 SRSRYKIFIIDEVHMLSTNA-FNALLKTLEEPPPHVKFIFAT 156 (576)
T ss_pred ccCCceEEEEEChhhCCHHH-HHHHHHHHHcCCCCeEEEEEe
Confidence 34667899999999876433 234444444445455455443
No 458
>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=22.78 E-value=72 Score=34.16 Aligned_cols=39 Identities=15% Similarity=0.118 Sum_probs=22.1
Q ss_pred CCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEe
Q 011428 61 DSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMS 100 (486)
Q Consensus 61 ~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~S 100 (486)
-+..++|+||+|..-+....+.+..-....+ +.+++.+|
T Consensus 122 ~~~~~~i~DE~h~~~~~~~~~~l~~g~~~r~-~pl~~~IS 160 (477)
T PF03354_consen 122 LNPSLAIFDELHAHKDDELYDALESGMGARP-NPLIIIIS 160 (477)
T ss_pred CCCceEEEeCCCCCCCHHHHHHHHhhhccCC-CceEEEEe
Confidence 3568999999999876432223322222322 55555553
No 459
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=22.78 E-value=83 Score=35.92 Aligned_cols=44 Identities=18% Similarity=0.268 Sum_probs=27.7
Q ss_pred ceEEecccccccCCCc----HHHHHHHHHHCCCCccEEEEeeecChhH
Q 011428 64 KILVLDEADLLLSYGY----EDDLKALSAVIPRGCQCLLMSATSSSDV 107 (486)
Q Consensus 64 ~~lViDEad~ll~~g~----~~~l~~i~~~lp~~~q~il~SATl~~~v 107 (486)
.+|+|||+|.++..|- ..++..++..+-...++.++.||-+++.
T Consensus 280 ~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g~i~vIgATt~~E~ 327 (758)
T PRK11034 280 SILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEF 327 (758)
T ss_pred CEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCCCeEEEecCChHHH
Confidence 5999999999976542 3455545543333455666667766554
No 460
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=22.69 E-value=81 Score=32.50 Aligned_cols=27 Identities=26% Similarity=0.308 Sum_probs=17.3
Q ss_pred cceEEecccccccCCCcHHHHHHHHHH
Q 011428 63 LKILVLDEADLLLSYGYEDDLKALSAV 89 (486)
Q Consensus 63 l~~lViDEad~ll~~g~~~~l~~i~~~ 89 (486)
.-+|||||+|.+......+.+..++..
T Consensus 139 ~~viviDE~d~l~~~~~~~~l~~l~~~ 165 (394)
T PRK00411 139 VLIVALDDINYLFEKEGNDVLYSLLRA 165 (394)
T ss_pred EEEEEECCHhHhhccCCchHHHHHHHh
Confidence 357999999999832223455555543
No 461
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=22.42 E-value=5.8e+02 Score=23.00 Aligned_cols=70 Identities=13% Similarity=0.138 Sum_probs=48.0
Q ss_pred HHHHHHHhhccCCeEE-EEecCHHHHHHHHHHHHHc--CCcee-ecCCCCCHHHHHHHHHHHhcCCCcEEEEcC
Q 011428 153 YILTLLKLELVQKKAL-IFTNTIDMAFRLKLFLEKF--GIKSA-ILNAELPQNSRLHILEEFNAGLFDYLIATD 222 (486)
Q Consensus 153 ~l~~llk~~~~~~k~I-IFvns~~~~~~l~~~L~~~--gi~~~-~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd 222 (486)
++..++......+..| ++-.+.+.+..++..|.+. ++.++ ..|+.++..+-..+++..+...-++|+..-
T Consensus 36 l~~~l~~~~~~~~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~pdiv~vgl 109 (172)
T PF03808_consen 36 LFPDLLRRAEQRGKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGPDIVFVGL 109 (172)
T ss_pred HHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCCCEEEEEC
Confidence 3344444333344444 4445667778888888876 66665 456668888999999999999889887763
No 462
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=22.22 E-value=3.2e+02 Score=29.05 Aligned_cols=52 Identities=13% Similarity=0.197 Sum_probs=34.0
Q ss_pred cceEEecccccccC-CCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHh
Q 011428 63 LKILVLDEADLLLS-YGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLI 114 (486)
Q Consensus 63 l~~lViDEad~ll~-~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~ 114 (486)
.++||||.|-++.. ...-+++..+.....+..-++.++||...+.......|
T Consensus 176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq~av~~a~~F 228 (437)
T PRK00771 176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQAKNQAKAF 228 (437)
T ss_pred CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccHHHHHHHHHH
Confidence 38999999965432 22445666776666666777888888876554444443
No 463
>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=22.17 E-value=1.1e+02 Score=25.04 Aligned_cols=20 Identities=35% Similarity=0.350 Sum_probs=15.7
Q ss_pred cceEEecccccccCCCcHHH
Q 011428 63 LKILVLDEADLLLSYGYEDD 82 (486)
Q Consensus 63 l~~lViDEad~ll~~g~~~~ 82 (486)
..+++|||++.+........
T Consensus 79 ~~viiiDei~~~~~~~~~~~ 98 (148)
T smart00382 79 PDVLILDEITSLLDAEQEAL 98 (148)
T ss_pred CCEEEEECCcccCCHHHHHH
Confidence 58999999999987654433
No 464
>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=22.03 E-value=87 Score=28.94 Aligned_cols=40 Identities=20% Similarity=0.341 Sum_probs=23.5
Q ss_pred ceEEeccccccc-C----CCcHHHHHHHHHHCCC-CccEEEEeeec
Q 011428 64 KILVLDEADLLL-S----YGYEDDLKALSAVIPR-GCQCLLMSATS 103 (486)
Q Consensus 64 ~~lViDEad~ll-~----~g~~~~l~~i~~~lp~-~~q~il~SATl 103 (486)
-+|||||+|.+. . ..+...+..++..+.. ...++.++++-
T Consensus 120 ~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~~S~ 165 (234)
T PF01637_consen 120 VIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVSIVITGSS 165 (234)
T ss_dssp EEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEEEEEEESS
T ss_pred EEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCceEEEECCc
Confidence 589999999999 2 1245566666666433 23344455543
No 465
>CHL00181 cbbX CbbX; Provisional
Probab=21.83 E-value=1.5e+02 Score=29.44 Aligned_cols=46 Identities=24% Similarity=0.339 Sum_probs=26.5
Q ss_pred ceEEecccccccCC----Cc-HHHHHHHHHHCCC-CccEEEEeeecChhHHH
Q 011428 64 KILVLDEADLLLSY----GY-EDDLKALSAVIPR-GCQCLLMSATSSSDVDK 109 (486)
Q Consensus 64 ~~lViDEad~ll~~----g~-~~~l~~i~~~lp~-~~q~il~SATl~~~v~~ 109 (486)
.+|+|||+|.+... .+ .+.+..++..+.. ...++++-||.++.++.
T Consensus 124 gVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~ 175 (287)
T CHL00181 124 GVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDK 175 (287)
T ss_pred CEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHH
Confidence 68999999998532 13 3444555555532 23355555666655543
No 466
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=21.77 E-value=1.2e+02 Score=34.67 Aligned_cols=96 Identities=23% Similarity=0.199 Sum_probs=52.5
Q ss_pred ee-EEEEeCCCC-----HHHHHHHHcCC----CcEEEECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHH
Q 011428 13 LK-VVQLTSSMP-----ASDLRAALAGP----PDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDD 82 (486)
Q Consensus 13 i~-v~~l~g~~~-----~~~q~~~l~~~----~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~ 82 (486)
++ +....|... .......+... .+|+++|.+-+...+. .. ....-....++|+||||.+-+.. ...
T Consensus 416 ~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~~-~~--~~l~~~~~~~~v~DEa~~ikn~~-s~~ 491 (866)
T COG0553 416 LRLVLVYHGEKSELDKKREALRDLLKLHLVIIFDVVITTYELLRRFLV-DH--GGLKKIEWDRVVLDEAHRIKNDQ-SSE 491 (866)
T ss_pred ccceeeeeCCcccccHHHHHHHHHhhhcccceeeEEechHHHHHHhhh-hH--HHHhhceeeeeehhhHHHHhhhh-hHH
Confidence 45 666666554 22222333322 8999999877666321 11 11344568899999999975533 122
Q ss_pred HHHHHHHCCCCccEEEEeeec-ChhHHHHHHHh
Q 011428 83 LKALSAVIPRGCQCLLMSATS-SSDVDKLKKLI 114 (486)
Q Consensus 83 l~~i~~~lp~~~q~il~SATl-~~~v~~l~~~~ 114 (486)
-..+. .+..... +++|.|. .+.+.+|..++
T Consensus 492 ~~~l~-~~~~~~~-~~LtgTPlen~l~eL~sl~ 522 (866)
T COG0553 492 GKALQ-FLKALNR-LDLTGTPLENRLGELWSLL 522 (866)
T ss_pred HHHHH-HHhhcce-eeCCCChHhhhHHHHHHHH
Confidence 22222 3332333 7778886 45555555443
No 467
>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=21.71 E-value=1.8e+02 Score=27.02 Aligned_cols=100 Identities=18% Similarity=0.134 Sum_probs=57.6
Q ss_pred hHHHHhhcCCCeeEEEEeCCCC---HHHHHHHHcC--CCcEEEEC----cchHH-HHHHcCCCCCCcCCCCcceEEeccc
Q 011428 2 ALIELCKGQVQLKVVQLTSSMP---ASDLRAALAG--PPDIVIAT----PGCMP-KCLSTGVLQSKSFSDSLKILVLDEA 71 (486)
Q Consensus 2 ~l~~~~~~~~~i~v~~l~g~~~---~~~q~~~l~~--~~dIvV~T----P~rl~-~~l~~~~~~~~~~l~~l~~lViDEa 71 (486)
+|.+++... +.+|..++.+.- ..+|...+.+ +.++..+. |..++ +.+.. ...++.++++||-+
T Consensus 20 KLAa~~~~~-~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~------~~~~~~D~vlIDT~ 92 (196)
T PF00448_consen 20 KLAARLKLK-GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEK------FRKKGYDLVLIDTA 92 (196)
T ss_dssp HHHHHHHHT-T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHH------HHHTTSSEEEEEE-
T ss_pred HHHHHHhhc-cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHH------HhhcCCCEEEEecC
Confidence 355555554 778888876543 3456555544 34444433 33333 33432 22346889999999
Q ss_pred ccccC-CCcHHHHHHHHHHCCCCccEEEEeeecChhHH
Q 011428 72 DLLLS-YGYEDDLKALSAVIPRGCQCLLMSATSSSDVD 108 (486)
Q Consensus 72 d~ll~-~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~ 108 (486)
-+... ....+++..++..+.+..-.+.+|||+..+..
T Consensus 93 Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~ 130 (196)
T PF00448_consen 93 GRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDL 130 (196)
T ss_dssp SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHH
T ss_pred CcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHH
Confidence 76532 22346777777777666677888999876653
No 468
>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=21.71 E-value=34 Score=32.95 Aligned_cols=45 Identities=27% Similarity=0.319 Sum_probs=26.4
Q ss_pred CCCcEEEECcchHHHHHHc-------CCCCC-------CcCCCCcceEEecccccccCC
Q 011428 33 GPPDIVIATPGCMPKCLST-------GVLQS-------KSFSDSLKILVLDEADLLLSY 77 (486)
Q Consensus 33 ~~~dIvV~TP~rl~~~l~~-------~~~~~-------~~~l~~l~~lViDEad~ll~~ 77 (486)
..-.|+++||+.++.+.-. +.... ...++.-..=|+||+|.+++.
T Consensus 129 ~~~gill~~PEhilSf~L~~le~l~~~~~~~~~~l~~~q~~l~~~~rdilDEsDe~L~~ 187 (229)
T PF12340_consen 129 RSGGILLATPEHILSFKLKGLERLQDGKPEEARELLKIQKWLDEHSRDILDESDEILSV 187 (229)
T ss_pred HcCCEEEeChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhcCCeEeECchhccCc
Confidence 3556999999987654321 11000 011233445689999998864
No 469
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=21.60 E-value=1.1e+02 Score=33.46 Aligned_cols=40 Identities=18% Similarity=0.135 Sum_probs=31.1
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
....|||||+|.=.+-.-...+-..+..+....|+++.|=
T Consensus 453 ~~ptlIFDEVD~GIsG~~A~aVg~~L~~Ls~~~QVl~VTH 492 (557)
T COG0497 453 DTPTLIFDEVDTGISGRVAQAVGKKLRRLSEHHQVLCVTH 492 (557)
T ss_pred CCCeEEEecccCCCChHHHHHHHHHHHHHhcCceEEEEec
Confidence 3568999999985553345677777888899999999874
No 470
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=21.41 E-value=3e+02 Score=27.86 Aligned_cols=67 Identities=12% Similarity=0.158 Sum_probs=44.1
Q ss_pred HHHHHHHhhccCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHh----c--CCCcEEEEc
Q 011428 153 YILTLLKLELVQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFN----A--GLFDYLIAT 221 (486)
Q Consensus 153 ~l~~llk~~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~----~--g~~~iLIaT 221 (486)
.+..++.++ +..+||.-+...-.......|+.+|+.+.-.-|.--.+.=..+...|+ . +...++|++
T Consensus 67 ~~~eI~~ln--pd~VLIIGGp~AVs~~yE~~Lks~GitV~RigG~nR~ETa~~v~~~~~~~yp~af~n~kvvvv~ 139 (337)
T COG2247 67 VLDEIIELN--PDLVLIIGGPIAVSPNYENALKSLGITVKRIGGANRYETAEKVAKFFREDYPNAFKNVKVVVVY 139 (337)
T ss_pred HHHHHHhhC--CceEEEECCCCcCChhHHHHHHhCCcEEEEecCcchHHHHHHHHHHHHhhchhhhcCeEEEEEe
Confidence 345555543 678888888888888888888888888877777655555455555553 1 224566665
No 471
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=21.26 E-value=1.9e+02 Score=31.58 Aligned_cols=59 Identities=14% Similarity=0.113 Sum_probs=43.0
Q ss_pred HHHHhhcCCCeeEEEEeCCCCHHHHHHHH----cCCCcEEEECcchHHHHHHcCCCCCCcCCCCcceEEeccc
Q 011428 3 LIELCKGQVQLKVVQLTSSMPASDLRAAL----AGPPDIVIATPGCMPKCLSTGVLQSKSFSDSLKILVLDEA 71 (486)
Q Consensus 3 l~~~~~~~~~i~v~~l~g~~~~~~q~~~l----~~~~dIvV~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEa 71 (486)
|...++.+-+|+|..+.|..+.......+ .+...|+|+| ++|.+| +++.++.+||.+..
T Consensus 403 L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicT-----dll~RG-----iDf~gvn~VInyD~ 465 (593)
T KOG0344|consen 403 LFEELEIYDNINVDVIHGERSQKQRDETMERFRIGKIWVLICT-----DLLARG-----IDFKGVNLVINYDF 465 (593)
T ss_pred HHHHhhhccCcceeeEecccchhHHHHHHHHHhccCeeEEEeh-----hhhhcc-----ccccCcceEEecCC
Confidence 33344344479999999987765443333 3679999999 788877 78999999999654
No 472
>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]
Probab=21.16 E-value=59 Score=37.45 Aligned_cols=52 Identities=15% Similarity=0.217 Sum_probs=43.9
Q ss_pred cceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChhHHHHHHHhcc
Q 011428 63 LKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSDVDKLKKLILH 116 (486)
Q Consensus 63 l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~v~~l~~~~l~ 116 (486)
--+-++||+|.-|+..|+..+..++..+....|+| +.|+-+++-..+..|+.
T Consensus 1120 APFYlfDEIDAaLDaQyR~aVa~lIkelS~~aQFI--~TTFRpEll~vAdKfyg 1171 (1200)
T KOG0964|consen 1120 APFYLFDEIDAALDAQYRTAVADLIKELSDSAQFI--TTTFRPELLSVADKFYG 1171 (1200)
T ss_pred cchhhHhHHhhhccHHHHHHHHHHHHHHhhccceE--eecccHHHHHHHHhhhc
Confidence 34788999999999999999999999999888875 56788888777777653
No 473
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=20.89 E-value=2.3e+02 Score=26.93 Aligned_cols=72 Identities=13% Similarity=0.018 Sum_probs=44.7
Q ss_pred HHHHHHHHHhhc-cCCeEEEEecCHHHHHHHHHHHHHcCCce---eecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 151 LLYILTLLKLEL-VQKKALIFTNTIDMAFRLKLFLEKFGIKS---AILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 151 ~~~l~~llk~~~-~~~k~IIFvns~~~~~~l~~~L~~~gi~~---~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
-.-|..++.... ..+++|+++... ....|...|++.|+.+ .+|....+......+.+.+..+.+++++-|+.
T Consensus 104 ~e~L~~~~~~~~~~~~~vL~~rg~~-~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f~S~ 179 (240)
T PRK09189 104 GVRLAETVAAALAPTARLLYLAGRP-RAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVLLYSR 179 (240)
T ss_pred HHHHHHHHHHhcCCCCcEEEeccCc-ccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEEEeCH
Confidence 334444444443 345566666554 4478999999998874 33434333333446678888999998877754
No 474
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=20.78 E-value=2e+02 Score=30.92 Aligned_cols=32 Identities=34% Similarity=0.488 Sum_probs=25.0
Q ss_pred cccCccCCccEEEEeCCCCChhhHHHhhhhcccCCCCceEEEEeCcc
Q 011428 258 VRGIDFKNVHTVINFEMPQNAAGYVHRIGRTGRAYNTGASVSLVSPD 304 (486)
Q Consensus 258 srGID~~~V~~VI~~d~P~s~~~yihRiGRtgR~g~~G~ai~fv~~~ 304 (486)
+||+|+. ..+|+|+.=+-.|. .|.|+++++.+
T Consensus 431 TrGLDvg-------------A~~~I~~~l~e~r~--~G~AVLLiS~d 462 (501)
T COG3845 431 TRGLDVG-------------AIEFIHERLLELRD--AGKAVLLISED 462 (501)
T ss_pred CccccHH-------------HHHHHHHHHHHHHh--cCCEEEEEehh
Confidence 5899985 67889987777775 58899998865
No 475
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=20.77 E-value=2.8e+02 Score=21.94 Aligned_cols=56 Identities=11% Similarity=0.086 Sum_probs=35.5
Q ss_pred EECcchHHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeecChh
Q 011428 39 IATPGCMPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATSSSD 106 (486)
Q Consensus 39 V~TP~rl~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl~~~ 106 (486)
++++..++..+... ..+++++| ..+.+....+.++.|.... +..+++++|++....
T Consensus 29 ~~~~~~~~~~~~~~---------~~d~iiid--~~~~~~~~~~~~~~i~~~~-~~~~ii~~t~~~~~~ 84 (112)
T PF00072_consen 29 ASSGEEALELLKKH---------PPDLIIID--LELPDGDGLELLEQIRQIN-PSIPIIVVTDEDDSD 84 (112)
T ss_dssp ESSHHHHHHHHHHS---------TESEEEEE--SSSSSSBHHHHHHHHHHHT-TTSEEEEEESSTSHH
T ss_pred ECCHHHHHHHhccc---------CceEEEEE--eeecccccccccccccccc-ccccEEEecCCCCHH
Confidence 44555677777653 37889998 2233333345666665555 689999999776543
No 476
>COG2927 HolC DNA polymerase III, chi subunit [DNA replication, recombination, and repair]
Probab=20.67 E-value=6.1e+02 Score=22.58 Aligned_cols=62 Identities=19% Similarity=-0.007 Sum_probs=43.8
Q ss_pred HHHHHHHhhc-cCCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 153 YILTLLKLEL-VQKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 153 ~l~~llk~~~-~~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
++..++.... .+.+++|-|.+...++.|-..|-++.-.+.+=|+--... ....-.|+|++..
T Consensus 17 ~~c~L~~k~~~~G~rvlI~~~d~~q~e~LD~~LWt~~~~sFiPH~~~~e~---------~~~~qPIli~~~~ 79 (144)
T COG2927 17 AACRLAEKAWRSGWRVLIQCEDEAQAEALDEHLWTFSAESFIPHNLAGEP---------PPAGQPILIAWPG 79 (144)
T ss_pred HHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHhhhccchhcccCCccCCCC---------CCCCCCEEEEcCC
Confidence 5666665433 356999999999999999999988877777666643211 1123459999965
No 477
>TIGR02981 phageshock_pspE phage shock operon rhodanese PspE. Members of this very narrowly defined protein family are proteins active as rhodanese (EC 2.8.1.1) and found in the extended variants of the phage shock protein (psp operon) in Escherichia coli and a few closely related species. Note that the designation phage shock protein PspE has been applied, incorrectly, in many instances where the genome lacks the phage shock regulon entirely.
Probab=20.66 E-value=1.6e+02 Score=24.24 Aligned_cols=35 Identities=14% Similarity=0.064 Sum_probs=27.9
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAEL 198 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l 198 (486)
..+++++|++-.++...+..|.+.|+..+..-|++
T Consensus 58 ~~~vvlyC~~G~rS~~aa~~L~~~G~~~v~~~GG~ 92 (101)
T TIGR02981 58 NDTVKLYCNAGRQSGMAKDILLDMGYTHAENAGGI 92 (101)
T ss_pred CCeEEEEeCCCHHHHHHHHHHHHcCCCeEEecCCH
Confidence 45788999998899999999999998754444664
No 478
>PRK10287 thiosulfate:cyanide sulfurtransferase; Provisional
Probab=20.63 E-value=1.6e+02 Score=24.42 Aligned_cols=35 Identities=17% Similarity=0.153 Sum_probs=28.4
Q ss_pred CCeEEEEecCHHHHHHHHHHHHHcCCceeecCCCC
Q 011428 164 QKKALIFTNTIDMAFRLKLFLEKFGIKSAILNAEL 198 (486)
Q Consensus 164 ~~k~IIFvns~~~~~~l~~~L~~~gi~~~~lhs~l 198 (486)
..++|+||++-.++...+..|.+.|+....+-|++
T Consensus 60 ~~~IVlyC~~G~rS~~aa~~L~~~G~~~v~~~GG~ 94 (104)
T PRK10287 60 NDTVKLYCNAGRQSGQAKEILSEMGYTHAENAGGL 94 (104)
T ss_pred CCeEEEEeCCChHHHHHHHHHHHcCCCeEEecCCH
Confidence 35699999998888999999999998765555664
No 479
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.62 E-value=6.2e+02 Score=25.34 Aligned_cols=49 Identities=10% Similarity=0.005 Sum_probs=37.2
Q ss_pred HHHHHHHHHhhc--cCCeEEEEec-CHHHHHHHHHHHHHcCCceeecCCCCC
Q 011428 151 LLYILTLLKLEL--VQKKALIFTN-TIDMAFRLKLFLEKFGIKSAILNAELP 199 (486)
Q Consensus 151 ~~~l~~llk~~~--~~~k~IIFvn-s~~~~~~l~~~L~~~gi~~~~lhs~l~ 199 (486)
...++.+|+.+. ..|+.+++++ +.....-++..|.+.|..+.++|+..+
T Consensus 142 p~ai~~ll~~~~i~~~Gk~V~viGrs~~mG~PmA~~L~~~g~tVtv~~~rT~ 193 (296)
T PRK14188 142 PLGCMMLLRRVHGDLSGLNAVVIGRSNLVGKPMAQLLLAANATVTIAHSRTR 193 (296)
T ss_pred HHHHHHHHHHhCCCCCCCEEEEEcCCcchHHHHHHHHHhCCCEEEEECCCCC
Confidence 344555555542 3678888887 999999999999999999999986543
No 480
>PTZ00240 60S ribosomal protein P0; Provisional
Probab=20.56 E-value=6.2e+02 Score=25.74 Aligned_cols=30 Identities=27% Similarity=0.364 Sum_probs=19.6
Q ss_pred hccCCeEEEEecCHHHHHHHHHHHHHcCCcee
Q 011428 161 ELVQKKALIFTNTIDMAFRLKLFLEKFGIKSA 192 (486)
Q Consensus 161 ~~~~~k~IIFvns~~~~~~l~~~L~~~gi~~~ 192 (486)
.+...-.+||+|. .-..+..+|.++.....
T Consensus 88 ~l~GnvgliFTn~--~p~ev~~~l~~~k~~a~ 117 (323)
T PTZ00240 88 LLSGNTGLIFTNN--EVQEITSVLDSHRVKAP 117 (323)
T ss_pred cccCCEEEEEeCC--CHHHHHHHHHHcCCccc
Confidence 3445567899887 45667777777655543
No 481
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=20.34 E-value=1.3e+02 Score=34.61 Aligned_cols=48 Identities=25% Similarity=0.349 Sum_probs=40.4
Q ss_pred CHHHHHHHHHHHHHcCCceeecCCCCCHHHHHHHHHHHhcCCCcEEEEcCCC
Q 011428 173 TIDMAFRLKLFLEKFGIKSAILNAELPQNSRLHILEEFNAGLFDYLIATDDT 224 (486)
Q Consensus 173 s~~~~~~l~~~L~~~gi~~~~lhs~l~~~~R~~i~~~F~~g~~~iLIaTd~~ 224 (486)
+.|--.+|...++.+|+.+.+-||++|+.+|... ...-.+|||+|+..
T Consensus 86 n~Di~~rL~~~~~~~G~~v~vRhGDT~~~er~r~----~~~PPdILiTTPEs 133 (814)
T COG1201 86 NNDIRRRLEEPLRELGIEVAVRHGDTPQSEKQKM----LKNPPHILITTPES 133 (814)
T ss_pred HHHHHHHHHHHHHHcCCccceecCCCChHHhhhc----cCCCCcEEEeChhH
Confidence 4566778888889999999999999999998743 56678999999873
No 482
>PF09010 AsiA: Anti-Sigma Factor A; InterPro: IPR015100 Anti-sigma factor A is a transcriptional inhibitor that inhibits sigma 70-directed transcription by weakening its interaction with the core of the host's RNA polymerase. It is an all-helical protein, composed of six helical segments and intervening loops and turns, as well as a helix-turn-helix DNA binding motif, although neither free anti-sigma factor nor anti-sigma factor bound to sigma-70 has been shown to interact directly with DNA. In solution, the protein forms a symmetric dimer of small (10.59 kDa) protomers, which are composed of helix and coil regions and are devoid of beta-strand/sheet secondary structural elements []. ; PDB: 1TKV_A 1JR5_B 1TLH_A 1TL6_A.
Probab=20.30 E-value=35 Score=27.59 Aligned_cols=38 Identities=26% Similarity=0.469 Sum_probs=26.6
Q ss_pred HHHHHHHHcCCcee-----------ecCCCCCHHHHHHHHHHHhcCCCc
Q 011428 179 RLKLFLEKFGIKSA-----------ILNAELPQNSRLHILEEFNAGLFD 216 (486)
Q Consensus 179 ~l~~~L~~~gi~~~-----------~lhs~l~~~~R~~i~~~F~~g~~~ 216 (486)
.+-.||.+.|++.. .+-.+|++.+|.+++++|+.|-++
T Consensus 32 ~FIaFLNElG~r~~~G~~~t~~sfr~m~~~lt~~ek~elieeFn~G~e~ 80 (91)
T PF09010_consen 32 LFIAFLNELGFRTPTGKEFTQMSFRQMFKRLTQEEKEELIEEFNEGHEP 80 (91)
T ss_dssp HHHHHHHHHT-ES-SSSE--HHHHHHHHHTS-HHHHHHHHHHSHHHHHH
T ss_pred HHHHHHHHhcccccCCcchhHHHHHHHHHHcCHHHHHHHHHHHhhhhHH
Confidence 45567777777651 244679999999999999988543
No 483
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=20.17 E-value=99 Score=33.92 Aligned_cols=40 Identities=20% Similarity=0.230 Sum_probs=30.8
Q ss_pred CcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEee
Q 011428 62 SLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSA 101 (486)
Q Consensus 62 ~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SA 101 (486)
...++|+||.+.-++......+..++..+..+.|+|+.|-
T Consensus 462 ~~~~lilDEp~~gld~~~~~~~~~~l~~l~~~~~vi~iTH 501 (563)
T TIGR00634 462 AVTTLIFDEVDVGVSGETAQAIAKKLAQLSERHQVLCVTH 501 (563)
T ss_pred CCCEEEEECCCCCCCHHHHHHHHHHHHHHhcCCEEEEEEC
Confidence 4689999999998887777777777777766777766554
No 484
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=20.12 E-value=1.6e+02 Score=30.06 Aligned_cols=68 Identities=16% Similarity=0.163 Sum_probs=36.6
Q ss_pred CCCcEEEECcch---------HHHHHHcCCCCCCcCCCCcceEEecccccccCCCcHHHHHHHHHHCCCCccEEEEeeec
Q 011428 33 GPPDIVIATPGC---------MPKCLSTGVLQSKSFSDSLKILVLDEADLLLSYGYEDDLKALSAVIPRGCQCLLMSATS 103 (486)
Q Consensus 33 ~~~dIvV~TP~r---------l~~~l~~~~~~~~~~l~~l~~lViDEad~ll~~g~~~~l~~i~~~lp~~~q~il~SATl 103 (486)
..||+.+-+|+. +.++...- .........+++|||+||.|-... .+.+-++++. |+..-++++.++-
T Consensus 72 ~HPD~~~i~p~~~~~~I~idqiR~l~~~~--~~~~~~g~~kV~iI~~ae~m~~~A-aNaLLKtLEE-Pp~~t~fiL~t~~ 147 (334)
T PRK07993 72 THPDYYTLTPEKGKSSLGVDAVREVTEKL--YEHARLGGAKVVWLPDAALLTDAA-ANALLKTLEE-PPENTWFFLACRE 147 (334)
T ss_pred CCCCEEEEecccccccCCHHHHHHHHHHH--hhccccCCceEEEEcchHhhCHHH-HHHHHHHhcC-CCCCeEEEEEECC
Confidence 579999888862 22222110 112344678999999999986433 2333333333 3334444444443
Q ss_pred C
Q 011428 104 S 104 (486)
Q Consensus 104 ~ 104 (486)
+
T Consensus 148 ~ 148 (334)
T PRK07993 148 P 148 (334)
T ss_pred h
Confidence 3
No 485
>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit
Probab=20.09 E-value=3.2e+02 Score=26.69 Aligned_cols=56 Identities=18% Similarity=0.175 Sum_probs=39.2
Q ss_pred CeEEEEecCHHHHHHHHHHHHHcC---CceeecCC-CCCHHHHHHHHHHHhcCCCcEEEEcCC
Q 011428 165 KKALIFTNTIDMAFRLKLFLEKFG---IKSAILNA-ELPQNSRLHILEEFNAGLFDYLIATDD 223 (486)
Q Consensus 165 ~k~IIFvns~~~~~~l~~~L~~~g---i~~~~lhs-~l~~~~R~~i~~~F~~g~~~iLIaTd~ 223 (486)
..+||+|.+--+|-.|...|..+. ..++-|-+ .+..++.... .+.+.+.|.|+|+.
T Consensus 127 P~~lvvs~SalRa~dl~R~l~~~~~k~~~v~KLFaKH~Kl~eqv~~---L~~~~~~i~vGTP~ 186 (252)
T PF14617_consen 127 PHVLVVSSSALRAADLIRALRSFKGKDCKVAKLFAKHIKLEEQVKL---LKKTRVHIAVGTPG 186 (252)
T ss_pred CEEEEEcchHHHHHHHHHHHHhhccCCchHHHHHHhhccHHHHHHH---HHhCCceEEEeChH
Confidence 468999999999999999999884 33333333 2344444333 35678999999985
Done!